Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011836.1 Kokia drynarioides strain JFW-HI SEQ_126832, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 501934
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Warning! 9 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:4091 original size:12 final size:12
Alignment explanation
Indices: 4074--4105 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4064 CAACGTTTTA
4074 TTGAAAATGTGT
1 TTGAAAATGTGT
4086 TTGAAAATGTGT
1 TTGAAAATGTGT
4098 TTGAAAAT
1 TTGAAAAT
4106 TTTTGTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.41
Consensus pattern (12 bp):
TTGAAAATGTGT
Found at i:10959 original size:15 final size:16
Alignment explanation
Indices: 10939--10968 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10929 CTTCCCTATT
10939 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
10954 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
10969 TTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:10962 original size:22 final size:22
Alignment explanation
Indices: 10934--10994 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
10924 TTTGACTTCC
10934 CTATTTTCTATTT-CTTTTAATT
1 CTATTTTCT-TTTACTTTTAATT
*
10956 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTACTTTTAATT
* *
10978 CT-GTTTCTTTTATTTTT
1 CTATTTTCTTTTACTTTT
10995 CCTTAGATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (22 bp):
CTATTTTCTTTTACTTTTAATT
Found at i:10984 original size:21 final size:22
Alignment explanation
Indices: 10948--10994 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
10938 TTTCTATTTC
*
10948 TTTTAATTCTATTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
10970 TTTTAATTCT-GTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
10991 TTTT
1 TTTT
10995 CCTTAGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTAATTCTAGTTTCTTTTAT
Found at i:11891 original size:78 final size:78
Alignment explanation
Indices: 11762--11917 Score: 249
Period size: 78 Copynumber: 2.0 Consensus size: 78
11752 CTGATCTTTC
* * * *
11762 TCGTTTGTTTCTTAATAGGTTTTTTCCAACCTCTCGTGCCGTTGAATTAAGAAGAGAAATTGTGG
1 TCGTTTATTTCTTAACAGGTTTTTTCCAACCTCTCATGCCGCTGAATTAAGAAGAGAAATTGTGG
*
11827 GGATTAGGTAAAA
66 GGATTAGGCAAAA
* *
11840 TCGTTTATTTCTTAACAGGTTTTTTCCAGCCTCTCATGCCGCTGGATTAAGAAGAGAAATTGTGG
1 TCGTTTATTTCTTAACAGGTTTTTTCCAACCTCTCATGCCGCTGAATTAAGAAGAGAAATTGTGG
11905 GGATTAGGCAAAA
66 GGATTAGGCAAAA
11918 AGATGTAGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (78 bp):
TCGTTTATTTCTTAACAGGTTTTTTCCAACCTCTCATGCCGCTGAATTAAGAAGAGAAATTGTGG
GGATTAGGCAAAA
Found at i:13728 original size:13 final size:13
Alignment explanation
Indices: 13707--13763 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
13697 AACCCAATTA
13707 TTTTT-TTTTATT
1 TTTTTATTTTATT
13719 TTTTTATTTTATT
1 TTTTTATTTTATT
* *
13732 TTTCTATCTTATT
1 TTTTTATTTTATT
13745 TTATTTA-TTTATT
1 TT-TTTATTTTATT
13758 TATTTT
1 T-TTTT
13764 TTTCCAGGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
12 5 0.13
13 29 0.76
14 4 0.11
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTATT
Found at i:13753 original size:4 final size:4
Alignment explanation
Indices: 13704--13762 Score: 52
Period size: 4 Copynumber: 14.5 Consensus size: 4
13694 GGCAACCCAA
*
13704 TTAT TT-T TT-T TTAT TTTT TTATT TTAT TT-T TCTAT CTTATT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTA-T TTAT TTAT T-TAT -TTA-T TTAT
13749 TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TT
13763 TTTTCCAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
3 8 0.17
4 27 0.57
5 10 0.21
6 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (4 bp):
TTAT
Found at i:16359 original size:19 final size:19
Alignment explanation
Indices: 16337--16381 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
16327 TTTAATTAGG
16337 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
16356 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
16375 ATTTAAT
1 ATTTAAT
16382 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:17186 original size:15 final size:16
Alignment explanation
Indices: 17166--17195 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17156 CTTCCCTATT
17166 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
17181 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
17196 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:17211 original size:21 final size:22
Alignment explanation
Indices: 17161--17221 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
17151 TTCGCCTTCC
*
17161 CTATTTTCTATTT-CTTTTAATT
1 CTATTTTCT-TTTATTTTTAATT
17183 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTATTTTTAATT
*
17205 TTA-TTTCTTTTATTTTT
1 CTATTTTCTTTTATTTTT
17222 CCTTAGATCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (22 bp):
CTATTTTCTTTTATTTTTAATT
Found at i:18102 original size:18 final size:18
Alignment explanation
Indices: 18075--18125 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
18065 TGTAGTCTAC
*
18075 TGTGGCTGCATAC-GAGCA
1 TGTGACTGCAT-CTGAGCA
*
18093 TGTGATTGCATCTGAGCA
1 TGTGACTGCATCTGAGCA
18111 TGTGACTGCATCTGA
1 TGTGACTGCATCTGA
18126 TCATAATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (18 bp):
TGTGACTGCATCTGAGCA
Found at i:22839 original size:28 final size:28
Alignment explanation
Indices: 22808--22925 Score: 112
Period size: 28 Copynumber: 4.2 Consensus size: 28
22798 GTAACGTTCC
* *
22808 TTCGAGATAGAATTCAGAATTATGCTCT
1 TTCGAGATAGAATACAGAATAATGCTCT
*
22836 TTCGA-ACTAGAATACAGAATAATACTCT
1 TTCGAGA-TAGAATACAGAATAATGCTCT
* ** *
22864 TTTGAGCCAGAATACAAAATAATGCTCT
1 TTCGAGATAGAATACAGAATAATGCTCT
* ** * *
22892 TTCAAGCCAAAATACAAAATAATGCTCT
1 TTCGAGATAGAATACAGAATAATGCTCT
22920 TTCGAG
1 TTCGAG
22926 CCTTTAACAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.01
28 75 0.99
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (28 bp):
TTCGAGATAGAATACAGAATAATGCTCT
Found at i:22927 original size:28 final size:28
Alignment explanation
Indices: 22829--22927 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
22819 ATTCAGAATT
* * *
22829 ATGCTCTTTCGAACTAGAATACAGAATA
1 ATGCTCTTTCGAGCCAGAATACAAAATA
* *
22857 ATACTCTTTTGAGCCAGAATACAAAATA
1 ATGCTCTTTCGAGCCAGAATACAAAATA
* *
22885 ATGCTCTTTCAAGCCAAAATACAAAATA
1 ATGCTCTTTCGAGCCAGAATACAAAATA
22913 ATGCTCTTTCGAGCC
1 ATGCTCTTTCGAGCC
22928 TTTAACATTA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.28
Consensus pattern (28 bp):
ATGCTCTTTCGAGCCAGAATACAAAATA
Found at i:23441 original size:200 final size:200
Alignment explanation
Indices: 23080--23460 Score: 532
Period size: 200 Copynumber: 1.9 Consensus size: 200
23070 CTTAGCCTAT
* * ** * *
23080 TTACTCTTAAATTTCTCTTGTTTTGGTACTGTTGTCGCTGCATAAGTAATTTCATATTGTGTCCA
1 TTACCCTTAAATTTCTCATGTTTTGGTACTGACGTCGCTGCATAAGTAATTTCAGATTGCGTCCA
* * * * * *
23145 GGATTGTCGTCGCATCTGACAGCTGTTTGGATAGGAACAGAAATGTGTGAGCTATCTAGTCTGGT
66 GGATTGTCGTCGCATCTGACAGCTATCTAGATAAGAACAGAAATGTGTGAACTATCCAGTCTGGT
** * *
23210 ATAACCAACTTGTACAATTAGGGACAGCTTGATTCTGATA-AAAGGACACCTATATAAGGACAAC
131 ATAACCAACTTGTACAACCAGAGACAGCTTGATTCT-ATAGAAAAGACACCTATATAAGGACAAC
23274 TTGTAC
195 TTGTAC
* * *
23280 TTACCCTTAATTTTGTCATGTTTTGGTACTGACGTCGTTGCATAAGTAATTTCAGATTGCGTCCA
1 TTACCCTTAAATTTCTCATGTTTTGGTACTGACGTCGCTGCATAAGTAATTTCAGATTGCGTCCA
*
23345 GGATTGTCGAT-GCATCTGACAGCTATCTAGATAAGAACAGAAATGTGTGAACTGTCCAGTCTGG
66 GGATTGTCG-TCGCATCTGACAGCTATCTAGATAAGAACAGAAATGTGTGAACTATCCAGTCTGG
* *
23409 TATAACTAACTTGTACGACCAGAGACAGCTTGATTCTATAGAAAAGACACCT
130 TATAACCAACTTGTACAACCAGAGACAGCTTGATTCTATAGAAAAGACACCT
23461 GTACAATTTG
Statistics
Matches: 157, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
199 3 0.02
200 153 0.97
201 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (200 bp):
TTACCCTTAAATTTCTCATGTTTTGGTACTGACGTCGCTGCATAAGTAATTTCAGATTGCGTCCA
GGATTGTCGTCGCATCTGACAGCTATCTAGATAAGAACAGAAATGTGTGAACTATCCAGTCTGGT
ATAACCAACTTGTACAACCAGAGACAGCTTGATTCTATAGAAAAGACACCTATATAAGGACAACT
TGTAC
Found at i:32402 original size:16 final size:17
Alignment explanation
Indices: 32376--32414 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
32366 TTAAATGATG
32376 TTTTTATTATTTTA-ACA
1 TTTTTATTATTTTAGA-A
32393 TTTTTA-TATTTTAGAA
1 TTTTTATTATTTTAGAA
32409 TTTTTA
1 TTTTTA
32415 AGATTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTTATTATTTTAGAA
Found at i:37331 original size:3 final size:3
Alignment explanation
Indices: 37325--37359 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
37315 TTTTATTATT
*
37325 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
37360 CAAGCGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:39714 original size:178 final size:177
Alignment explanation
Indices: 39405--39757 Score: 503
Period size: 178 Copynumber: 2.0 Consensus size: 177
39395 TACATTGCAA
* * * *
39405 ACATGATCAAATCAAATAACAAATAAGGGAAAGAATAAACTCTATCGAAGCGACAGTCGCGTGAA
1 ACATGATAAAATCAAATAACAAAGAAGGGAAAGAAAAAACTCTATCGAAGCGACAGTCGCGCGAA
* * * * * *
39470 CTCCGATTTAATATGTCTCCTCGATCCTTGTATTTCTCTTTTGTTGATGGCTCCTCAAGGTGACC
66 CTCCAATTGAAGATGTCTCCTCGATCCTTGTATTTCTCCTTTGCTGATGACTCCTCAAGGTGACC
*
39535 GGCCAAGAGATGATCTTCTCAAGGTTTTGCTGGCTAAGGAAGAAGAG
131 GGCCAAGAGATGATCTTCTCAAGGTTTTGATGGCTAAGGAAGAAGAG
* * * * *
39582 ACATGATAAAATTAAATAACAAAGAAGGTAAAGAAAAAACTCTATCGAAGTGGCTA-TCGTGCGA
1 ACATGATAAAATCAAATAACAAAGAAGGGAAAGAAAAAACTCTATCGAAGCGAC-AGTCGCGCGA
* *
39646 ACTCTAATTGAAGATGTCTTCCTCGATCCTTGTATTGT-TCCTTTGCTGATGACTTCTCAAGGTG
65 ACTCCAATTGAAGATGTC-TCCTCGATCCTTGTATT-TCTCCTTTGCTGATGACTCCTCAAGGTG
39710 ACCGGCCAAGAGATGATCTTCTCAAGGTTTTGATGGCTAAGGAAGAAG
128 ACCGGCCAAGAGATGATCTTCTCAAGGTTTTGATGGCTAAGGAAGAAG
39758 GGAAATATGG
Statistics
Matches: 155, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
177 67 0.43
178 87 0.56
179 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (177 bp):
ACATGATAAAATCAAATAACAAAGAAGGGAAAGAAAAAACTCTATCGAAGCGACAGTCGCGCGAA
CTCCAATTGAAGATGTCTCCTCGATCCTTGTATTTCTCCTTTGCTGATGACTCCTCAAGGTGACC
GGCCAAGAGATGATCTTCTCAAGGTTTTGATGGCTAAGGAAGAAGAG
Found at i:52101 original size:18 final size:19
Alignment explanation
Indices: 52078--52113 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52068 AACATTTTTT
52078 TATTTTT-TATTTTTCTCA
1 TATTTTTCTATTTTTCTCA
*
52096 TATTTTTCTTTTTTTCTC
1 TATTTTTCTATTTTTCTC
52114 GACTTCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (19 bp):
TATTTTTCTATTTTTCTCA
Found at i:58426 original size:27 final size:26
Alignment explanation
Indices: 58396--58473 Score: 104
Period size: 26 Copynumber: 2.9 Consensus size: 26
58386 TTGTTAAAAC
*
58396 TCTTCAAATAAAAAACTCAAGAGAAAT
1 TCTTCAAA-AGAAAACTCAAGAGAAAT
*
58423 TCTTCAAAAGAAAACTTAAGAGAAAAT
1 TCTTCAAAAGAAAACTCAAGAG-AAAT
58450 T-TTCAAAAGAAAACTCAAAGAGAA
1 TCTTCAAAAGAAAACTC-AAGAGAA
58474 TTTTATTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
26 28 0.61
27 18 0.39
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (26 bp):
TCTTCAAAAGAAAACTCAAGAGAAAT
Found at i:73539 original size:20 final size:20
Alignment explanation
Indices: 73495--73682 Score: 166
Period size: 20 Copynumber: 9.5 Consensus size: 20
73485 GAAACGAAGA
* *
73495 GGTGCCCCTATTTGCACATC
1 GGTGCCCCTGTTTGCACTTC
*
73515 TGTGCCCCTGTTTGCACTTC
1 GGTGCCCCTGTTTGCACTTC
* * *
73535 GGTGCTCCTG-TTACATTTC
1 GGTGCCCCTGTTTGCACTTC
* * * *
73554 GATGCTCTTGTTTGAACTTC
1 GGTGCCCCTGTTTGCACTTC
** *
73574 ATTGCTCCTGTTTGCACTTC
1 GGTGCCCCTGTTTGCACTTC
*
73594 GGTG--CCTTTATTGCACTTC
1 GGTGCCCCTGT-TTGCACTTC
* *
73613 GATGCCCCTATTTGCACTTC
1 GGTGCCCCTGTTTGCACTTC
*
73633 AGTGCCCCTGTTTGCACTTC
1 GGTGCCCCTGTTTGCACTTC
* *
73653 GATGCCCCTGTTTGCACTCC
1 GGTGCCCCTGTTTGCACTTC
*
73673 GATGCCCCTG
1 GGTGCCCCTG
73683 CTATGTATCT
Statistics
Matches: 137, Mismatches: 27, Indels: 8
0.80 0.16 0.05
Matches are distributed among these distances:
18 4 0.03
19 27 0.20
20 102 0.74
21 4 0.03
ACGTcount: A:0.11, C:0.32, G:0.20, T:0.37
Consensus pattern (20 bp):
GGTGCCCCTGTTTGCACTTC
Found at i:73612 original size:39 final size:38
Alignment explanation
Indices: 73497--73670 Score: 136
Period size: 39 Copynumber: 4.4 Consensus size: 38
73487 AACGAAGAGG
* * * * *
73497 TGCCCCTATTTGCACATCTGTGCCCCTGTTTGCACTTCGG
1 TGCCCCTGTTTGCACTTCGGTG--CCTTTTTGCACTTCGA
* * * * *
73537 TGCTCCTG-TTACATTTCGATGCTCTTGTTTGAACTTC-A
1 TGCCCCTGTTTGCACTTCGGTGC-CTT-TTTGCACTTCGA
*
73575 TTGCTCCTGTTTGCACTTCGGTGCCTTTATTGCACTTCGA
1 -TGCCCCTGTTTGCACTTCGGTGCCTTT-TTGCACTTCGA
* * *
73615 TGCCCCTATTTGCACTTCAGTGCCCCTGTTTGCACTTCGA
1 TGCCCCTGTTTGCACTTCGGTG--CCTTTTTGCACTTCGA
73655 TGCCCCTGTTTGCACT
1 TGCCCCTGTTTGCACT
73671 CCGATGCCCC
Statistics
Matches: 107, Mismatches: 19, Indels: 16
0.75 0.13 0.11
Matches are distributed among these distances:
37 1 0.01
38 3 0.03
39 55 0.51
40 44 0.41
41 4 0.04
ACGTcount: A:0.11, C:0.31, G:0.18, T:0.39
Consensus pattern (38 bp):
TGCCCCTGTTTGCACTTCGGTGCCTTTTTGCACTTCGA
Found at i:73614 original size:59 final size:60
Alignment explanation
Indices: 73497--73681 Score: 187
Period size: 59 Copynumber: 3.1 Consensus size: 60
73487 AACGAAGAGG
* * * * *
73497 TGCCCCTATTTGCACATCTGTGCCCCTGTTTGCACTTCGGTG-CTCCTGTTACATTTCGA
1 TGCCCCTATTTGAACTTCAGTGCCCCTGTTTGCACTTCGGTGCCTCCTATTACACTTCGA
* * * * * * *
73556 TGCTCTTGTTTGAACTTCATTGCTCCTGTTTGCACTTCGGTGCCT-TTATTGCACTTCGA
1 TGCCCCTATTTGAACTTCAGTGCCCCTGTTTGCACTTCGGTGCCTCCTATTACACTTCGA
* * * * *
73615 TGCCCCTATTTGCACTTCAGTGCCCCTGTTTGCACTTCGATGCC-CCTGTTTGCACTCCGA
1 TGCCCCTATTTGAACTTCAGTGCCCCTGTTTGCACTTCGGTGCCTCCT-ATTACACTTCGA
73675 TGCCCCT
1 TGCCCCT
73682 GCTATGTATC
Statistics
Matches: 101, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
59 82 0.81
60 19 0.19
ACGTcount: A:0.11, C:0.32, G:0.18, T:0.38
Consensus pattern (60 bp):
TGCCCCTATTTGAACTTCAGTGCCCCTGTTTGCACTTCGGTGCCTCCTATTACACTTCGA
Found at i:77793 original size:16 final size:16
Alignment explanation
Indices: 77769--77807 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
77759 ATCGAATCTA
* *
77769 TTATCTTATTTTTCAT
1 TTATTTTATTTTGCAT
*
77785 TTATTTTATTTTGCTT
1 TTATTTTATTTTGCAT
77801 TTATTTT
1 TTATTTT
77808 TATTATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTTATTTTGCAT
Found at i:78819 original size:28 final size:29
Alignment explanation
Indices: 78768--78822 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
78758 AATAATCTGC
*
78768 CACATATTTTCCATAAAATGGCCACATAT
1 CACATATTTGCCATAAAATGGCCACATAT
*
78797 CACATATTTGCCA-AAAATTGCCACAT
1 CACATATTTGCCATAAAATGGCCACAT
78823 CTTCCTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.29
Consensus pattern (29 bp):
CACATATTTGCCATAAAATGGCCACATAT
Found at i:99281 original size:21 final size:24
Alignment explanation
Indices: 99256--99305 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
99246 AGCCAAGAAG
*
99256 AGAAAAAT-AGT-GAAA-AAAAAA
1 AGAAAAATGAGTAAAAACAAAAAA
99277 AG-AAAATGAGTAAAAACAAAAAA
1 AGAAAAATGAGTAAAAACAAAAAA
99300 AGAAAA
1 AGAAAA
99306 GAGTAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 3 0.12
23 8 0.33
24 3 0.12
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (24 bp):
AGAAAAATGAGTAAAAACAAAAAA
Found at i:107539 original size:30 final size:31
Alignment explanation
Indices: 107483--107559 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
107473 TGAAAACATA
* **
107483 AATGATTACAGGGTATGGAAATGTAAATGTG
1 AATGATTATAGGGTATGGAAATGTAAATACG
* *
107514 ATTGATTATAGGGTATGG-TATGTAAATACG
1 AATGATTATAGGGTATGGAAATGTAAATACG
*
107544 AATAATTATAGGGTAT
1 AATGATTATAGGGTAT
107560 AAACATGTGA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 23 0.59
31 16 0.41
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.34
Consensus pattern (31 bp):
AATGATTATAGGGTATGGAAATGTAAATACG
Found at i:115004 original size:74 final size:74
Alignment explanation
Indices: 114883--115030 Score: 287
Period size: 74 Copynumber: 2.0 Consensus size: 74
114873 TCTTTTCGAT
*
114883 GCATCTGCTAATGGTCCTTTGTTAGACTGTACATACAATGAAGCCATTAGAATTTTAGAGAGAAT
1 GCATCTACTAATGGTCCTTTGTTAGACTGTACATACAATGAAGCCATTAGAATTTTAGAGAGAAT
114948 CGCTCAGAA
66 CGCTCAGAA
114957 GCATCTACTAATGGTCCTTTGTTAGACTGTACATACAATGAAGCCATTAGAATTTTAGAGAGAAT
1 GCATCTACTAATGGTCCTTTGTTAGACTGTACATACAATGAAGCCATTAGAATTTTAGAGAGAAT
115022 CGCTCAGAA
66 CGCTCAGAA
115031 TGATTATCAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (74 bp):
GCATCTACTAATGGTCCTTTGTTAGACTGTACATACAATGAAGCCATTAGAATTTTAGAGAGAAT
CGCTCAGAA
Found at i:119798 original size:61 final size:61
Alignment explanation
Indices: 119711--119930 Score: 286
Period size: 61 Copynumber: 3.6 Consensus size: 61
119701 CGTAAATGCA
*
119711 AAAAGGTCTGAT-ACTTTGTGTCATCGTGAGTATTAAATAAAATGAATCCTATTACAGATT
1 AAAAGGTCTGATGACTTTGTGTCATCGTGAGTATTAAATAAAATGAATCCTATTACGGATT
*
119771 AAAAGGTCTGATGACTTTGTGTTATCGTGAGTATTAAATGAAAA-GAATCCTATTACGGATT
1 AAAAGGTCTGATGACTTTGTGTCATCGTGAGTATTAAAT-AAAATGAATCCTATTACGGATT
* * * *
119832 AAAAGGT-TCGATGACTTCGTGTCATCGTGAGTATTAAATGAAATGAATCTTATTATGGATT
1 AAAAGGTCT-GATGACTTTGTGTCATCGTGAGTATTAAATAAAATGAATCCTATTACGGATT
* * * * * *
119893 -ATATGTCCGATGACTCTATGTCATCATGAGTATTAAAT
1 AAAAGGTCTGATGACTTTGTGTCATCGTGAGTATTAAAT
119931 GCGAATTGAA
Statistics
Matches: 141, Mismatches: 14, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
60 46 0.33
61 91 0.65
62 4 0.03
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (61 bp):
AAAAGGTCTGATGACTTTGTGTCATCGTGAGTATTAAATAAAATGAATCCTATTACGGATT
Found at i:145304 original size:21 final size:21
Alignment explanation
Indices: 145270--145314 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
145260 GAAGGATCAA
*
145270 GAAGAAGAAGAAGAAGGAAAG
1 GAAGAAGAAGAAGAAGAAAAG
*
145291 GAAGAAG-AGAAAGAATAAAAG
1 GAAGAAGAAG-AAGAAGAAAAG
145312 GAA
1 GAA
145315 CCTGCCGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (21 bp):
GAAGAAGAAGAAGAAGAAAAG
Found at i:151818 original size:21 final size:21
Alignment explanation
Indices: 151792--151834 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
151782 CTATATAAGT
151792 TTGTAACCGCAAAGTGTTGGC
1 TTGTAACCGCAAAGTGTTGGC
*
151813 TTGTAACCGTAAAGTGTTGGC
1 TTGTAACCGCAAAGTGTTGGC
151834 T
1 T
151835 ATAGGTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGTAACCGCAAAGTGTTGGC
Found at i:153140 original size:8 final size:8
Alignment explanation
Indices: 153127--153174 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
153117 CCACGAAATA
153127 TTTTTTTC
1 TTTTTTTC
153135 TTTTTTTC
1 TTTTTTTC
*
153143 TTTTTCTC
1 TTTTTTTC
*
153151 GTATTTTTC
1 -TTTTTTTC
*
153160 TTTTTCTC
1 TTTTTTTC
*
153168 CTTTTTT
1 TTTTTTT
153175 GATCACTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
8 26 0.81
9 6 0.19
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:153174 original size:17 final size:17
Alignment explanation
Indices: 153134--153174 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
153124 ATATTTTTTT
153134 CTTTTTTTCTTTTTCTC
1 CTTTTTTTCTTTTTCTC
* *
153151 GTATTTTTCTTTTTCTC
1 CTTTTTTTCTTTTTCTC
153168 CTTTTTT
1 CTTTTTT
153175 GATCACTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (17 bp):
CTTTTTTTCTTTTTCTC
Found at i:166429 original size:48 final size:48
Alignment explanation
Indices: 166358--166455 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
166348 ACTCTTATTA
166358 TTCCCTTATATCTATGTTTTCACTTCTAATGATTATTGATTATATCCT
1 TTCCCTTATATCTATGTTTTCACTTCTAATGATTATTGATTATATCCT
166406 TTCCCTTATATCTATGTTTTCACTTCTAATGATTATTGATTATATCCT
1 TTCCCTTATATCTATGTTTTCACTTCTAATGATTATTGATTATATCCT
166454 TT
1 TT
166456 AAATTTTTTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.53
Consensus pattern (48 bp):
TTCCCTTATATCTATGTTTTCACTTCTAATGATTATTGATTATATCCT
Found at i:174267 original size:112 final size:112
Alignment explanation
Indices: 174061--174296 Score: 359
Period size: 112 Copynumber: 2.1 Consensus size: 112
174051 TCTTCGACAG
* *
174061 CTCGTGCGAGCAGCATCGTGAGTCGAAAAATGAGAAAAGATATATGGATCCTAAATGGATTACAG
1 CTCGTGCGAGCAGCATCGTGAGTCGAAAAATGAGAAAAAAAATATGGATCCTAAATGGATTACAG
* * *
174126 GTCCTACGATGGCTGAGATTTTATACATAATTGCATATTCTCAACAA
66 GCCCTACAATGGCTGAGATTTTATACATAAGTGCATATTCTCAACAA
174173 CTCGTGCGAGCAGCATCGTGAGTC-AAGAAATGAGAAAAAAAAATATGGATCCTAAATGGATTAC
1 CTCGTGCGAGCAGCATCGTGAGTCGAA-AAATGAG-AAAAAAAATATGGATCCTAAATGGATTAC
* * *
174237 AGGCCCTACAATGGCTGAGA-TTTATGCATAAGTGCATATTCTCGACAG
64 AGGCCCTACAATGGCTGAGATTTTATACATAAGTGCATATTCTCAACAA
*
174285 CTCGTGTGAGCA
1 CTCGTGCGAGCA
174297 ATATCATTAG
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
111 2 0.02
112 66 0.58
113 45 0.40
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (112 bp):
CTCGTGCGAGCAGCATCGTGAGTCGAAAAATGAGAAAAAAAATATGGATCCTAAATGGATTACAG
GCCCTACAATGGCTGAGATTTTATACATAAGTGCATATTCTCAACAA
Found at i:174572 original size:195 final size:193
Alignment explanation
Indices: 174215--174586 Score: 475
Period size: 195 Copynumber: 1.9 Consensus size: 193
174205 AGAAAAAAAA
* *
174215 ATATGGATCCTAAATGGATTACAGGCCCTACAATGGCTGAGATTTATGCATAAGTGCATATTCTC
1 ATATGGATCCTAAATGGATTACAGGCCCTACAATGGCTGAGATTAATGCATAAGTGCATACTCTC
* * * * * * *
174280 GACAGCTCGTGTGAGCAATATCATTAGGGAACAATTATATGCACAGATGTCGTATCGATGGTTGA
66 GACAGCTCGTGTGAGCAACATCATTAGAGAACAATTATATGCACAGAGGCCGTACCAATGGCTGA
* * * *
174345 GGTATCGCATATGTTATGAGTCCTTGACAGCTCGTGTGAGCAGCATCGTGACTCGAGAAAGAG
131 GGTACCACATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCGAGAAAGAG
* * *
174408 ATATGGATCCTAAATGGATTACAGGCCCTACGATGGCT-AGGA-TAATGC-TTATTGCATACTCT
1 ATATGGATCCTAAATGGATTACAGGCCCTACAATGGCTGA-GATTAATGCATAAGTGCATACTCT
* * *
174470 CGACAGCTCGTGTGAG-AAGCATCGTTAGAGAATAATT-TATAGTACAGACAGGCACCGTACCAA
65 CGACAGCTCGTGTGAGCAA-CATCATTAGAGAACAATTATAT-GCACAG--AGG--CCGTACCAA
174533 TGGCTGAGGTACCACATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATC
124 TGGCTGAGGTACCACATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATC
174587 AAGTACTGGT
Statistics
Matches: 153, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
190 5 0.03
191 46 0.30
192 6 0.04
193 41 0.27
195 55 0.36
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (193 bp):
ATATGGATCCTAAATGGATTACAGGCCCTACAATGGCTGAGATTAATGCATAAGTGCATACTCTC
GACAGCTCGTGTGAGCAACATCATTAGAGAACAATTATATGCACAGAGGCCGTACCAATGGCTGA
GGTACCACATATGTTACGAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGACTCGAGAAAGAG
Found at i:174639 original size:42 final size:42
Alignment explanation
Indices: 174577--174660 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
174567 CAGCTCGTGT
*
174577 GAGCAGCATCAAGTACTGGTAACAAAAAAGTTATAGACAGGA
1 GAGCAGAATCAAGTACTGGTAACAAAAAAGTTATAGACAGGA
* *
174619 GAGCAGAATCGAGTATTGGTAACAAAAAAGTTATAGACAGGA
1 GAGCAGAATCAAGTACTGGTAACAAAAAAGTTATAGACAGGA
174661 AAGTTGGAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (42 bp):
GAGCAGAATCAAGTACTGGTAACAAAAAAGTTATAGACAGGA
Found at i:177949 original size:23 final size:23
Alignment explanation
Indices: 177884--177949 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
177874 TTTCATTAAC
* *
177884 ATTGTTCGTCAACGTGTTCAATT
1 ATTGTTCGTGAACATGTTCAATT
* * * *
177907 ATATGTTCATGAATAGGTTCATTT
1 AT-TGTTCGTGAACATGTTCAATT
177931 ATTGTTCGTGAACATGTTC
1 ATTGTTCGTGAACATGTTC
177950 TTGAACATTA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
23 16 0.48
24 17 0.52
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (23 bp):
ATTGTTCGTGAACATGTTCAATT
Found at i:190391 original size:3 final size:3
Alignment explanation
Indices: 190385--190433 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
190375 TTTATAATTC
*
190385 TCA TCA TCA TCA TCA TCA TCA TCA TTA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
190433 T
1 T
190434 TATTCAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:190782 original size:3 final size:3
Alignment explanation
Indices: 190776--190807 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
190766 TTTGTTGTTG
190776 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
190808 TTGGTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:193781 original size:10 final size:10
Alignment explanation
Indices: 193760--193928 Score: 63
Period size: 10 Copynumber: 15.2 Consensus size: 10
193750 TTTAACACAA
193760 CACATATTAAT
1 CACAT-TTAAT
193771 CACATTTAAT
1 CACATTTAAT
*
193781 CACATATAAT
1 CACATTTAAT
*
193791 CACA-TTAGT
1 CACATTTAAT
* *
193800 CACATGAATATTT
1 CACAT--TTA-AT
193813 CAACATTTATCACAT
1 C-ACA-TT-T-A-AT
193828 CACATATTAAT
1 CACAT-TTAAT
*
193839 CACATTTAGT
1 CACATTTAAT
*
193849 CACATTTAAC
1 CACATTTAAT
*
193859 CACA-TTAGT
1 CACATTTAAT
* *
193868 CACATGAATATTT
1 CACAT--TTA-AT
193881 CAACATTTGTCATAT
1 C-ACA-TT-T-A-AT
193896 CACATGTTAAT
1 CACAT-TTAAT
*
193907 CACATTTAGT
1 CACATTTAAT
193917 CACATTTAAT
1 CACATTTAAT
193927 CA
1 CA
193929 AATGAATATT
Statistics
Matches: 121, Mismatches: 19, Indels: 37
0.68 0.11 0.21
Matches are distributed among these distances:
9 14 0.12
10 49 0.40
11 19 0.16
12 6 0.05
13 8 0.07
14 16 0.13
15 9 0.07
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (10 bp):
CACATTTAAT
Found at i:193803 original size:68 final size:68
Alignment explanation
Indices: 193714--193928 Score: 290
Period size: 68 Copynumber: 3.2 Consensus size: 68
193704 CATTCTTTTA
* * * ** * *
193714 CACA-TTAATCGCATTAATCACATGAGTACAT-AAGCATTTAACACAACACATATTAATCACATT
1 CACATTTAATCACATTAGTCACATGAATATTTCAA-CATTTATCACATCACATATTAATCACATT
*
193777 TAAT
65 TAGT
*
193781 CACATATAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTT
1 CACATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTT
193846 AGT
66 AGT
* * * *
193849 CACATTTAACCACATTAGTCACATGAATATTTCAACATTTGTCATATCACATGTTAATCACATTT
1 CACATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTT
193914 AGT
66 AGT
193917 CACATTTAATCA
1 CACATTTAATCA
193929 AATGAATATT
Statistics
Matches: 131, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
67 4 0.03
68 125 0.95
69 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.34
Consensus pattern (68 bp):
CACATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTT
AGT
Found at i:193818 original size:23 final size:23
Alignment explanation
Indices: 193792--193892 Score: 70
Period size: 23 Copynumber: 4.4 Consensus size: 23
193782 ACATATAATC
193792 ACATTAGTCACATGAATATTTCA
1 ACATTAGTCACATGAATATTTCA
*
193815 ACATTTA-TCACATCACATATTAATC-
1 ACA-TTAGTCACATGA-ATATT--TCA
** *
193840 ACATTTAGTCACAT---T-TAACC
1 ACA-TTAGTCACATGAATATTTCA
193860 ACATTAGTCACATGAATATTTCA
1 ACATTAGTCACATGAATATTTCA
*
193883 ACATTTGTCA
1 ACATTAGTCA
193893 TATCACATGT
Statistics
Matches: 61, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
19 11 0.18
20 3 0.05
21 1 0.02
22 2 0.03
23 21 0.34
24 8 0.13
25 7 0.11
26 8 0.13
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (23 bp):
ACATTAGTCACATGAATATTTCA
Found at i:193972 original size:23 final size:23
Alignment explanation
Indices: 193924--194056 Score: 151
Period size: 23 Copynumber: 5.8 Consensus size: 23
193914 AGTCACATTT
* * *
193924 AATCAAATGAATATTTCAA-CACA
1 AATCACATTAATATTT-AAGCATA
* *
193947 AATCACATAAATATTTATGCATA
1 AATCACATTAATATTTAAGCATA
* *
193970 AATCATATTAACATTTAAGCATA
1 AATCACATTAATATTTAAGCATA
193993 AATCACATTAATATTTAAGCATA
1 AATCACATTAATATTTAAGCATA
* * *
194016 AATCATATTAACATTTAAGCTTA
1 AATCACATTAATATTTAAGCATA
*
194039 AGTCACATTAATATTTAA
1 AATCACATTAATATTTAA
194057 CACATTTAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
22 1 0.01
23 92 0.99
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.35
Consensus pattern (23 bp):
AATCACATTAATATTTAAGCATA
Found at i:193996 original size:46 final size:46
Alignment explanation
Indices: 193946--194056 Score: 186
Period size: 46 Copynumber: 2.4 Consensus size: 46
193936 ATTTCAACAC
* *
193946 AAATCACATAAATATTTATGCATAAATCATATTAACATTTAAGCAT
1 AAATCACATTAATATTTAAGCATAAATCATATTAACATTTAAGCAT
*
193992 AAATCACATTAATATTTAAGCATAAATCATATTAACATTTAAGCTT
1 AAATCACATTAATATTTAAGCATAAATCATATTAACATTTAAGCAT
*
194038 AAGTCACATTAATATTTAA
1 AAATCACATTAATATTTAA
194057 CACATTTAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.36
Consensus pattern (46 bp):
AAATCACATTAATATTTAAGCATAAATCATATTAACATTTAAGCAT
Found at i:195119 original size:216 final size:215
Alignment explanation
Indices: 194551--195892 Score: 1557
Period size: 216 Copynumber: 6.3 Consensus size: 215
194541 TTAGCTCACA
* * *
194551 TTGACAAGTTCAAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTGAATAAGTTTTTA
1 TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* *
194616 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTA-TT--------TGATGTGATTTCCTGT
66 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGA
* * * * * * *
194672 GCATTAAATGTTTGAAAAATAT-CTTGAAAGAATGGATCATCTTGAATACTTTATGGAAGCAAAG
131 GCATGAAATGTTTAAAAAAT-TGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAA-CGAAG
*
194736 TTATAAAAGAACTCGTAAAA-T
194 TTATAAAAGAACTCATAAAAGT
* * * *
194757 TTCCACAAGTTCGAAAGTTTGTCCATGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTCT
1 TT-GACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT-T
* * * *
194822 TAATTGAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGAGATTTCCT
64 TAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCC
* *** *
194887 GAGCATGGAATGTTTGGGAAATTGCTCGAAGGAATGGATCTTGTTGAATACTTTAAGGAATCGAA
129 GAGCATGAAATGTTTAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAA-CGAA
* * *
194952 GTTAAAAAATAACTCGTAAAAGT
193 GTTATAAAAGAACTCATAAAAGT
* * * *
194975 TTGATAAGTTCAAAAGTTCGTCCAAG-ACCAAAGAGAGAAACAATTATAACGTAAATAAGTTTTT
1 TTGACAAGTTCGAAAGTTCGTCCAAGAACC-AAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
** * * * * *
195039 AATTCAAAGACTGAAATTTGTTTACAAAATGACAAACTACTTAGATCAAATGATGCGATTTCCCA
65 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCG
** *
195104 AGCATGAAATGTTTGGAAAATTGCTTGAAGGAATGGAT-TGTCTTGAATACTTTAAGGAACTGAA
130 AGCATGAAATGTTTAAAAAATTGCTCGAAGGAATGGATCT-TCTTGAATACTTTAAGGAAC-GAA
195168 GTTATAAAAGAACTCATAAAAGT
193 GTTATAAAAGAACTCATAAAAGT
* * * * *
195191 TTG-CAAGTTTGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCTCGTAAATAAGATTTTA
1 TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* * * *
195255 ATTCAAAGACCAAAACTTTTTTACAAATTAACAAACTGTTTAGACCAAATGATGTGATTTCCCGA
66 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGA
* * *
195320 GCATGAAATGTTTAAAAAATTGCTC-AATGGAATAGATCGTCTTGAATACTTTAAGCAACAGAAG
131 GCATGAAATGTTTAAAAAATTGCTCGAA-GGAATGGATCTTCTTGAATACTTTAAGGAAC-GAAG
195384 TTATAAAAGAACTCATAAAAGT
194 TTATAAAAGAACTCATAAAAGT
* * * * * *
195406 TTGACAAGTTTG-AATTTCGTCCAAGAACCAAGAGAGAAACAATTCTAAAGTAAAAAAATTTTTA
1 TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* * * * *
195470 ATTTAAGGACTAAAACTTATCTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGA
66 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGA
* * * * * * *
195535 GCGTGTAATGTTCAAAAAATTTCTCGTAGGAATGGATCTTCTTGAATACTTTAAGGAGCCCAAGT
131 GCATGAAATGTTTAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGA-ACGAAGT
*
195600 TA-AAAAGTAACTCGTAAAAGT
195 TATAAAAG-AACTCATAAAAGT
* * * **
195621 TTGACAAGTTTGAAAGTTTGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAACATTTTA
1 TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
* * * * *
195686 ATTCAAAGACCAAAACTTCTTTACAAAATGACGAACTAATTAGACCAAATGATGAGATTTCTCGA
66 ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGA
* * * * ** * *
195751 GCATGGAATGTTCAGAAAATTGCTTGAAGGAATGGATCAACTTGAACACTTTAAGGAAGTGAAGT
131 GCATGAAATGTTTAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAA-CGAAGT
195816 TATAAAAGAACTCATAAAAGT
195 TATAAAAGAACTCATAAAAGT
* * ** * * *
195837 TTGACTAGTTCGGAACATCGTCCAAGAACTAAGAGAGAAACAATTCTAATGTAAAT
1 TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
195893 GACAAACTAT
Statistics
Matches: 969, Mismatches: 141, Indels: 42
0.84 0.12 0.04
Matches are distributed among these distances:
206 2 0.00
207 53 0.05
208 39 0.04
209 2 0.00
214 7 0.01
215 359 0.37
216 368 0.38
217 136 0.14
218 3 0.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (215 bp):
TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
ATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGA
GCATGAAATGTTTAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACGAAGTT
ATAAAAGAACTCATAAAAGT
Found at i:196014 original size:178 final size:177
Alignment explanation
Indices: 195750--196070 Score: 471
Period size: 178 Copynumber: 1.8 Consensus size: 177
195740 AGATTTCTCG
* * *
195750 AGCATGGAATGTTCAGAAAATTGCTTGAAGGAATGGATCAACTTGAACACTTTAAGGAAGTGAAG
1 AGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGAACAACTTGAACACTTTAAAGAAGTGAAG
* * *
195815 TTATAAAAGAACTCATAAAAGTTTGACTAGTTCGGAACATCGTCCAAGAACTAAGAGAGAAACAA
66 TTATAAAAGAACTCATAAAAGTTTGACAAGTGCGGAACATCATCCAAGAACTAAGAGAGAAACAA
195880 TTCTAATGTAAATGACAAACTATTTAGCCAGACGATGCAATTTTCCA
131 TTCTAATGTAAATGACAAACTATTTAGCCAGACGATGCAATTTTCCA
* ** ** *
195927 AGCATGGAATGTTTAGAAAATTGCTCGAAAGGAATGGAACGTCTTGAATGCTTTAAAGAAGTGAG
1 AGCATGGAATGTTCAGAAAATTGCTCG-AAGGAATGGAACAACTTGAACACTTTAAAGAAGTGAA
* *** *
195992 GTTATAAAAGAACTCGTAAAAGTTTGACAAGTGCGGAGGTTCATCCATGAACTAAGAGAGAAACA
65 GTTATAAAAGAACTCATAAAAGTTTGACAAGTGCGGAACATCATCCAAGAACTAAGAGAGAAACA
*
196057 ATTCTCATGTAAAT
130 ATTCTAATGTAAAT
196071 AAGTTTTTAA
Statistics
Matches: 125, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
177 25 0.20
178 100 0.80
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (177 bp):
AGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGAACAACTTGAACACTTTAAAGAAGTGAAG
TTATAAAAGAACTCATAAAAGTTTGACAAGTGCGGAACATCATCCAAGAACTAAGAGAGAAACAA
TTCTAATGTAAATGACAAACTATTTAGCCAGACGATGCAATTTTCCA
Found at i:196540 original size:216 final size:216
Alignment explanation
Indices: 195889--197766 Score: 2057
Period size: 216 Copynumber: 8.7 Consensus size: 216
195879 ATTCTAATGT
* * * *
195889 AAATGACAAACTATTTAG-CCAGACGATGCAATTT-TCCAAGCATGGAATGTTTAGAAAATTGCT
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCT-CGAGCATGGAATGTTTAGAAAATTGCT
* * * *** *
195952 CGAAAGGAATGGAACGTCTTGAATGCTTTAAAGAAGTGAGGTTATAAAAGAACTCGTAAAAGTTT
65 CG-AAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTT
* * * * * *
196017 GACAAGTGCGGAGGTTCATCCATGAACTAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAAT
129 GACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* *
196082 TCAAAGTCTAAAACTTGTTTACA
194 TCAAAGACCAAAACTTGTTTACA
* * * * * *
196105 AAATTACAAACTATTTAGACAAAATGATGCGATTTCCCAAGCATTGAATG-TTCGAAAAATTGCT
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAG-AAAATTGCT
* * * * * * *
196169 CGAAAGGAATGGATCGTCTTGAATGCTTTAAAGAAGCGAAGTTATTAAAGAACTCGTAATAGTTC
65 CG-AAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTT
* * * ** * *
196234 AACAAGTGCGGAAGTTTGTCCATGAACCAAGAGAGAAACAATTGTCACGTAAATAAGTTTTTAAT
129 GACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * *
196299 TCAAAGTCTAAAACTTGTATACA
194 TCAAAGACCAAAACTTGTTTACA
* *
196322 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGGAAATAGCTC
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTC
* * * * * * *
196387 GAAGGAATTGATTGTATTGAATACTTTAAGGATCCAAAGTTACAAAAGAACTCGCAAAAGTTTGG
66 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * *
196452 CTAGTTCAGAAGTCCATCCAAGAACAAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTC
131 CAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
*
196517 AAAGACCAAAACTAGTTTACA
196 AAAGACCAAAACTTGTTTACA
* *
196538 AAATGACAAACTATTTAGACCAAATGATACGATTT-TCGAAGCATGGAATG-TTCGAAAAATTGC
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCG-AGCATGGAATGTTTAG-AAAATTGC
** * *
196601 TCGAAGGAATGGATAATCTTGAATACTTTAAGGAACCGAAGTTATAACAGAACTCGTAAAAGTTT
64 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTT
* * *
196666 -ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGATACAATTCACACGTAAATAAGTTTTTAAT
129 GACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* *
196730 TCAAAGACTAAAACTTTTTTACA
194 TCAAAGACCAAAACTTGTTTACA
* * *
196753 AAATAACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGAAATG-TTCGAAAAATTGCT
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAG-AAAATTGCT
* * * * *
196817 TGAAAGGAATGGATCTTCTTGAATTCTTTAAGGAACCAAAGTTATATAAGAACTCGTACAAGTTT
65 CG-AAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTT
* * * *
196882 GACAAGTGT-GGAAGTTCATCTAAGAACCAAGAGAGAAACAATTCTCATGGAAATAAGTTTTTAA
129 GACAAGT-TCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
*
196946 GTCAAAGACCAAAACTTGTTTACA
193 TTCAAAGACCAAAACTTGTTTACA
* * * * **
196970 AAATGACAAACTATTTAGACCGAAGGATACGATTTCACGAGCATGG--T-TCGA-AAAATTGCAT
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGC-T
* * * * * * * *
197031 -TAAGGAATGGCTCTTCTTGAATACGTTAAGGGACCAAAAAGCTATAAGAGAACTCGTAAAAGAT
65 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACC--AAAGTTATAAAAGAACTCGTAAAAGTT
* * * * *
197095 T-AGCAAGTTTTA-AAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGGTTAATAAGATTTT
128 TGA-CAAG-TTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
197158 AATTCAAAGACCAAAACTTGTTTACA
191 AATTCAAAGACCAAAACTTGTTTACA
* * * * * * *
197184 AATTGACAAACTATTTCGACCAAATGGTACGAATTCCCGAGCATGGAATG-TTCGAAATATTGCT
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAA-ATTGCT
* * * ** * * *
197248 CGAAGGAATAGATTGTCTTGAATAGTTTAAGGATGCAAAGTTATTAATGAACTCGTAAAAGTTTA
65 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTG
* * ** ** * * * * *
197313 ACAAGTGCGGAAGTTTGTCTTAGAACTAAGAGATAAACAATTCTCATGTAAATAACTCTTTAATT
130 ACAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* *
197378 AAAAGACCAAAACTT-TGTTATA
195 CAAAGACCAAAACTTGT-TTACA
* * * *
197400 AAATGACAAACTATTTAAAGCAAATGATGCGATTTCTCGAGCTTGGAATGTTCAGAAAATTGCTC
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTC
* * *** * *
197465 AAAGGAATGGATCGTCTTGAATACTTTAAGTAATTGAATTTATAAAAGAACTTGTAAAAGTTTGA
66 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * *
197530 CAAGTTCAGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTAATTC
131 CAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* *
197595 AAAGACTAAGACTTGTTTACA
196 AAAGACCAAAACTTGTTTACA
* * * ** * * *
197616 AAATGACAAATTATTTAGGCTAAATGATATGATTTCCCGAGCATAGAAT-TTTCGAAAAATTGCT
1 AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAG-AAAATTGCT
* * * * *
197680 TGAAAGAATGGATCGTCTTGAATACTTTAACGAACCAAAGTTATATAAGAACTCGTACAAGTTTG
65 CGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTG
197745 ACAAGTGT-AGAAGTTCATCCAA
130 ACAAGT-TCAGAAGTTCATCCAA
197767 AAATGATAAG
Statistics
Matches: 1393, Mismatches: 239, Indels: 60
0.82 0.14 0.04
Matches are distributed among these distances:
212 30 0.02
213 9 0.01
214 138 0.10
215 147 0.11
216 682 0.49
217 353 0.25
218 34 0.02
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (216 bp):
AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTTAGAAAATTGCTC
GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGA
CAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
AAAGACCAAAACTTGTTTACA
Found at i:197355 original size:862 final size:862
Alignment explanation
Indices: 195889--197766 Score: 2409
Period size: 862 Copynumber: 2.2 Consensus size: 862
195879 ATTCTAATGT
* * * * * *
195889 AAATGACAAACTATTTAGCCAGACGATGCAATTT-TCCAAGCATGGAATGTT-TAGAAAATTGCT
1 AAATGACAAACTATTTAGCCAAATGATGCGATTTCT-CGAGCATGAAATGTTCGA-AAAATTGCT
* * * *** * * *
195952 CGAAAGGAATGGAACGTCTTGAATGCTTTAAAGAAGTGAGGTTATAAAAGAACTCGTAAAAGTTT
64 TGAAAGGAATGGATCGTCTTGAATACTTTAAAGAACCAAAGTTATATAAGAACTCGTACAAGTTT
* * * * * *
196017 GACAAGTGCGGAGGTTCATCCATGAACTAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAAT
129 GACAAGTGTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCATGGAAATAAGTTTTTAAG
* * * * * *
196082 TCAAAGTCTAAAACTTGTTTACAAAATTACAAACTATTTAGACAAAATGATGCGATTTCCCAAGC
194 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAAGGATACGATTTCACAAGC
* * * * *
196147 ATTGAATGTTCGAAAAATTGCTCGAAAGGAATGGATCGTCTTGAATGCTTTAAAGAAGCGAAGTT
259 ATTG-A-GTTCGAAAAATTGCTC-AAAGGAATGGATCGTCTTGAATACGTTAAAGAACCAAAGCT
* * **
196212 ATTAAAGAACTCGTAATAGTTCAACAAGTGCGGAAGTTTGTCCATGAACCAAGAGAGAAACAATT
321 ATTAAAGAACTCGTAAAAGTTCAACAAGTGCGAAAGTTCATCCATGAACCAAGAGAGAAACAATT
* * * *
196277 GTCACGTAAATAAGTTTTTAATTCAAAGTCTAAAACTTGTATACAAAATGACAAACTATTTAGAC
386 CTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTATACAAAATGACAAACTATTTAGAC
* * * * *
196342 CAAATGATGCGATTTCTCGAGCATGGAATGTTTAGGAAATAGCTCGAAGGAATTGATTGTATTGA
451 CAAATGATACGAATTCCCGAGCATGGAATGTTTACGAAATAGCTCGAAGGAATAGATTGTATTGA
** * *
196407 ATACTTTAAGGATCCAAAGTTACAAAAGAACTCGCAAAAGTTTGGCTAGTTCAGAAGTCCATCCA
516 ATACTTTAAGGATCCAAAGTTACAAAAGAACTCGCAAAAGTTTAACAAGTGCAGAAGTCCATCCA
* * *
196472 AGAACAAAGAGAGAAACAATTCTCAAGTAAATAAGTTTTTAATTCAAAGACCAAAACTAGT-TTA
581 AGAACAAAGAGAGAAACAATTCTCAAGTAAATAACTCTTTAATTAAAAGACCAAAACT-GTGTTA
*
196536 CAAAATGACAAACTATTTAGACCAAATGATACGATTT-TCGAAGCATGGAATGTTC-GAAAAATT
645 CAAAATGACAAACTATTTAAACCAAATGATACGATTTCTCG-AGCATGGAATGTTCAG-AAAATT
* *
196599 GCTCGAAGGAATGGATAATCTTGAATACTTTAAGGAACCGAAGTTATAACAGAACTCGTAAAAGT
708 GCTCAAAGGAATGGATAATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
* * *
196664 TT-ACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGATACAATTCACACGTAAATAAGTTTTTA
773 TTGACAAGTTCAGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCACACGTAAAAAAGTTTTTA
*
196728 ATTCAAAGACTAAAACTTTTTTACA
838 ATTCAAAGACTAAAACTTGTTTACA
*
196753 AAATAACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGAAATGTTCGAAAAATTGCTT
1 AAATGACAAACTATTTAG-CCAAATGATGCGATTTCTCGAGCATGAAATGTTCGAAAAATTGCTT
* * *
196818 GAAAGGAATGGATCTTCTTGAATTCTTTAAGGAACCAAAGTTATATAAGAACTCGTACAAGTTTG
65 GAAAGGAATGGATCGTCTTGAATACTTTAAAGAACCAAAGTTATATAAGAACTCGTACAAGTTTG
*
196883 ACAAGTGTGGAAGTTCATCTAAGAACCAAGAGAGAAACAATTCTCATGGAAATAAGTTTTTAAGT
130 ACAAGTGTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCATGGAAATAAGTTTTTAAGT
** *
196948 CAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCGAAGGATACGATTTCACGAGCA
195 CAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAAGGATACGATTTCACAAGCA
* * * * *
197013 -TG-GTTCGAAAAATTGCAT-TAAGGAATGGCTCTTCTTGAATACGTTAAGGGACCAAAAAGCTA
260 TTGAGTTCGAAAAATTGC-TCAAAGGAATGGATCGTCTTGAATACGTTAAAGAACC--AAAGCTA
* ***
197075 -TAAGAGAACTCGTAAAAGATT-AGCAAGTTTTAAAGTTCATCCATGAACCAAGAGAGAAACAAT
322 TTAA-AGAACTCGTAAAAG-TTCAACAAGTGCGAAAGTTCATCCATGAACCAAGAGAGAAACAAT
* * * * *
197138 TCTCAGGTTAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAATTGACAAACTATTTCGA
385 TCTCACGTAAATAAGATTTTAATTCAAAGACCAAAACTTGTATACAAAATGACAAACTATTTAGA
* *
197203 CCAAATGGTACGAATTCCCGAGCATGGAATG-TT-CGAAATATTGCTCGAAGGAATAGATTGTCT
450 CCAAATGATACGAATTCCCGAGCATGGAATGTTTACGAAATA--GCTCGAAGGAATAGATTGTAT
* * ** * * * ***
197266 TGAATAGTTTAAGGATGCAAAGTTATTAATGAACTCGTAAAAGTTTAACAAGTGCGGAAGTTTGT
513 TGAATACTTTAAGGATCCAAAGTTACAAAAGAACTCGCAAAAGTTTAACAAGTGCAGAAGTCCAT
** * * * *
197331 CTTAGAACTAAGAGATAAACAATTCTCATGTAAATAACTCTTTAATTAAAAGACCAAAACTTTGT
578 CCAAGAACAAAGAGAGAAACAATTCTCAAGTAAATAACTCTTTAATTAAAAGACCAAAACTGTGT
* * * *
197396 TATAAAATGACAAACTATTTAAAGCAAATGATGCGATTTCTCGAGCTTGGAATGTTCAGAAAATT
643 TACAAAATGACAAACTATTTAAACCAAATGATACGATTTCTCGAGCATGGAATGTTCAGAAAATT
** * ** * *
197461 GCTCAAAGGAATGGATCGTCTTGAATACTTTAAGTAATTGAATTTATAAAAGAACTTGTAAAAGT
708 GCTCAAAGGAATGGATAATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
*
197526 TTGACAAGTTCAGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTTA
773 TTGACAAGTTCAGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCACACGTAAAAAAGTTTTTA
*
197591 ATTCAAAGACTAAGACTTGTTTACA
838 ATTCAAAGACTAAAACTTGTTTACA
* * ** * *
197616 AAATGACAAATTATTTAGGCTAAATGATATGATTTCCCGAGCAT-AGAATTTTCGAAAAATTGCT
1 AAATGACAAACTATTTA-GCCAAATGATGCGATTTCTCGAGCATGA-AATGTTCGAAAAATTGCT
*
197680 TGAAA-GAATGGATCGTCTTGAATACTTTAACGAACCAAAGTTATATAAGAACTCGTACAAGTTT
64 TGAAAGGAATGGATCGTCTTGAATACTTTAAAGAACCAAAGTTATATAAGAACTCGTACAAGTTT
*
197744 GACAAGTGTAGAAGTTCATCCAA
129 GACAAGTGTGGAAGTTCATCCAA
197767 AAATGATAAG
Statistics
Matches: 875, Mismatches: 123, Indels: 34
0.85 0.12 0.03
Matches are distributed among these distances:
860 33 0.04
861 20 0.02
862 451 0.52
863 145 0.17
864 20 0.02
865 204 0.23
866 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (862 bp):
AAATGACAAACTATTTAGCCAAATGATGCGATTTCTCGAGCATGAAATGTTCGAAAAATTGCTTG
AAAGGAATGGATCGTCTTGAATACTTTAAAGAACCAAAGTTATATAAGAACTCGTACAAGTTTGA
CAAGTGTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCATGGAAATAAGTTTTTAAGTC
AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACAAAAGGATACGATTTCACAAGCAT
TGAGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTTGAATACGTTAAAGAACCAAAGCTATTAA
AGAACTCGTAAAAGTTCAACAAGTGCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAC
GTAAATAAGATTTTAATTCAAAGACCAAAACTTGTATACAAAATGACAAACTATTTAGACCAAAT
GATACGAATTCCCGAGCATGGAATGTTTACGAAATAGCTCGAAGGAATAGATTGTATTGAATACT
TTAAGGATCCAAAGTTACAAAAGAACTCGCAAAAGTTTAACAAGTGCAGAAGTCCATCCAAGAAC
AAAGAGAGAAACAATTCTCAAGTAAATAACTCTTTAATTAAAAGACCAAAACTGTGTTACAAAAT
GACAAACTATTTAAACCAAATGATACGATTTCTCGAGCATGGAATGTTCAGAAAATTGCTCAAAG
GAATGGATAATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG
TTCAGAAGTTCGTCAAAGAACCAAGAGAGAAACAATTCACACGTAAAAAAGTTTTTAATTCAAAG
ACTAAAACTTGTTTACA
Found at i:198306 original size:2 final size:2
Alignment explanation
Indices: 198301--198337 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
198291 TATATATATA
198301 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
198338 AGTGCATGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:198728 original size:74 final size:73
Alignment explanation
Indices: 198608--198752 Score: 272
Period size: 74 Copynumber: 2.0 Consensus size: 73
198598 GGGATACAAA
198608 GTTTCATTCAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGTTGTTCA
1 GTTTCATTCAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGTTGTTCA
198673 CATTCAAT
66 CATTCAAT
198681 GTTTCATTCAAGAGTTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGTTGTTC
1 GTTTCATTCAAGAG-TTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGTTGTTC
*
198746 ACTTTCA
65 ACATTCA
198753 TTTTGTAAAG
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
73 14 0.20
74 56 0.80
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (73 bp):
GTTTCATTCAAGAGTTTTAAATGAATCAACACATTCATTTATGAATGATGAATGATGGTTGTTCA
CATTCAAT
Found at i:199206 original size:5 final size:5
Alignment explanation
Indices: 199196--199255 Score: 68
Period size: 5 Copynumber: 12.0 Consensus size: 5
199186 TTCTGTTTGG
* * * *
199196 AAGAA AAGAA AAG-A AAGAG AAGAA ACGAA ATGAA AAGAAA AAAAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAG-AA AAGAA AAGAA
199246 AAGAA AAGAA
1 AAGAA AAGAA
199256 GCAAAAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
4 4 0.09
5 38 0.83
6 4 0.09
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:202401 original size:216 final size:216
Alignment explanation
Indices: 201416--204877 Score: 3284
Period size: 216 Copynumber: 15.9 Consensus size: 216
201406 CTGAATGAGG
* * * * *
201416 GAAGGAATAGATCGTCTTGAATGCTTTTAGGAAGCGAAGTTATAAAAGAACTCGTTAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * *
201481 CAAGTTTGAAAGTTCGTCCATGAACAAAGAGAGAAAAAATTCTCACGTAAATAAGTTTTTAATTC
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * ** * *
201546 AAAGACTAAAACTTGTTTACAAATTGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCAT
131 AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGCAT
* * *
201611 GTAATG-TTCGAAAAATTGTTC
196 GGAATGTTTAG-AAAATTGCTC
* * *
201632 GTAA-GAATGGATCTTCTTGAATACTTTAAGGAATCGAAGTTA-AAAAGTTACT-GTAAAAGTTT
1 G-AAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAG-AACTCGTAAAAGTTT
* * * *
201694 GATAAGTTTGGAAGTTCATCCAAGAA-CAA-AGAGAAACAATTCTCACTTTAAA-AAGTTTTTAA
64 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC-GTAAATAAGTTTTTAA
* *
201756 TTCAAAGACCAAAACTTGTGTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCGAG
128 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAG
*
201821 CATGGAATGTTTAGAAAGTTGCTC
193 CATGGAATGTTTAGAAAATTGCTC
* * * * * *
201845 AAAGAAATGGAT--ACTTGAACACTTTTAGGAAGCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* *
201908 CAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTC
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * * * * *
201973 AAAGA-CAAAA-TAATGTTTACAAATTGACAAACTGTTTAAAGCAAATAATTCGATTTCACAAGC
131 AAAGACCAAAACT--TGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGC
* *
202036 TTGGAATGTTCAGAAAATTGCTC
194 ATGGAATGTTTAGAAAATTGCTC
* * * * * * * * * * *
202059 GAAGGAATAGATCATCCTAAAAACTTTAAGCAAGCAAATTTAT-ACAGAACTCGTAAAAGTTTAA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * *
202123 CAAGTGCAGAATTTCGTCCAAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTAATT-
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * *
202187 AGAAGACCAAAACTT-TGTTACAAAATGACGAACTATTTAGACCAAATGACACAATTTCTCAAGC
131 A-AAGACCAAAACTTGT-TTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGC
*
202251 TTGGAATGTTTAGAAAATTGCTC
194 ATGGAATGTTTAGAAAATTGCTC
* * ** * *
202274 GAACGAATGGATCGCCTTGAATACTTTAAGGAATTGAAGTTATAAAAGAACTTGTAAAAGTTAGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * *
202339 CAAGTTCGGAAGTTTGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGCTTTTAATTC
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * *
202404 AAAGACCAAAACTTGTTTACAAAATGACAAACAATTTAGACCAAATAATACGATTTATCGAGCAT
131 AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGCAT
* **
202469 GGAATGTTTAGAAAGTTGCAA
196 GGAATGTTTAGAAAATTGCTC
* *
202490 GAAGGAATGGATCGTCTTGAATACATTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * ** * * * *
202555 CGAGTTCGAAAGTTTATCCATGAACCAAGAGAGAAACAATTCTCACGTTAGTAAGATTTTAATTC
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * * * * * * * *
202620 AAAGCCCAAAACCTGTTTACAAATTGACAAACTGTTTTGATCAAAAGGTACGATTTCCCGAGCAT
131 AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGCAT
*
202685 GGAATGTTTAAAAAATTGCTC
196 GGAATGTTTAGAAAATTGCTC
* * * * * *
202706 -AATGGAATAGATCGTCTTGAATACTTTATA-CAACAGAAGTTATAAAAAAACTCTTAATAGTTT
1 GAA-GGAATGGATCGTCTTGAATACTTTA-AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTT
* * * *
202769 GACAAGTTTGGTAGTTAC-TCCAAGAACCAAGATAGAAACAATTTTCACGTAAATAAGTTTTTAA
64 GACAAGTTCGGAAGTT-CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
** * ** * *
202833 TTCAAAGATTAAAAGTTGTTTACATTATGACAAACTATTTAGACCAAAAGATTCGATTTCTCAAG
128 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAG
* * *
202898 CATGGAATGTTCAAAAAATTGCTT
193 CATGGAATGTTTAGAAAATTGCTC
** * * * * *
202922 GAAGGAATACATCATCTTGAATACTTTAAGGAA-TGAAAGTTATAAATGAACTCGTAAAGGTTTA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCG-AAGTTATAAAAGAACTCGTAAAAGTTTG
* * * * * **
202986 ACAAGTGT-GGAAGTTCGTCCTAGAACTAAGAGATAAACAGTTCTCATGTAAAT--GACTTT--T
65 ACAAGT-TCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* *
203046 T--AAGACCAAAACTT-TGTTACAAAATGACAAACTATTTAGCCCAAATGATGCGATTTCTCGAA
129 TCAAAGACCAAAACTTGT-TTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTC-AA
* * * *
203108 -CTTGGAATGTTCAAAAAATTTCTC
192 GCATGGAATGTTTAGAAAATTGCTC
* * *
203132 GAAGGAATGGATTGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * *
203197 CGAGTAT-GAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCACACGTAAATAAGTTTTTAATT
66 CAAGT-TCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* * * * *
203261 GAAAGACTAAAACTT-TTTACAAAATGACTAACTATTTAGACCAAATGATACGATTTCCCGAGCA
130 CAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGCA
* *
203325 TGAAATG-TTCGAAAAATTGCTC
195 TGGAATGTTTAG-AAAATTGCTC
* * * * **
203347 GAAAGGAATGGATCGTCCTAAATACTTTAATGAACCAAAGTTATAAAAGAACTCGTGCAAGTTTG
1 G-AAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTG
* * *
203412 ACAAGTGT-GGAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCTCATGAAAATAAGTTTTTAAT
65 ACAAGT-TCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* *
203476 TCAAAGACCAAAACTTGTTTACAAAATGACAAACAATTTAGACCAAATGATGA-GATTTCTTAAG
129 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGAT-ACGATTTCTCAAG
* *
203540 CATGGAATG-TTCGAAAAATTGCTG
193 CATGGAATGTTTAG-AAAATTGCTC
* * * * *
203564 GAAGGAGTGGATCGACTTGAATACATTAAGGAACCAAAAGGCTATAAAAGAACTCGTAAAAGTTT
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-GAA-GTTATAAAAGAACTCGTAAAAGTTT
* * * * * * *
203629 GACAAGTTCGAAAGTTCATACATGAACCAAGAGAGAAACAATTCTCAGGTTAATAAGATTTTAAT
64 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * ** * **
203694 T-TAAGTACGAAAACTTGTTTACAAGTTGACAAACTGTTTAGACCAAATGATGTGA-TT-TCAAG
129 TCAAAG-ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAG
* *
203756 CATGGAATG-TTCGAAAAATTGTTC
193 CATGGAATGTTTAG-AAAATTGCTC
* * ** * * *
203780 GAAAGAATGGATCGTCTTGAAAACTTTAAGGAAGAGAAGTTATAAAAGCACTTGTAAAAGTATGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * * * * * *
203845 CAAGTGCGAAAGTTCGTCCTAGAACCAATAGATAAAGAATTCTCATGTAAATAACTTTTTAATTA
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * *
203910 AAAGACCAAAACTT-TGTTACAAAATGACGAACTATTTAGACCAAATGATGCGATTTCTCGAGCT
131 AAAGACCAAAACTTGT-TTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGCA
* * *
203974 TGGAATGTTCAAAAAATAGCTC
195 TGGAATGTTTAGAAAATTGCTC
203996 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * * *
204061 CAAGATC-AAATTTCGTCCAAG-ACCTAAGAGAGAAACAATTCTCATGGAAATAAAACTTGTTAT
66 CAAGTTCGGAAGTTCGTCCAAGAACC-AAGAGAGAAACAATTCTCACGTAAAT--AAGTT-TT-T
* *
204124 AAAACTTGTAAAAGAACTCGTAAAAGTT-TTTAATTCAAAGAATAAAACTTGTTTACAAAATGAC
126 --AA--T-TCAAAG-AC-C--AAAACTTGTTT-A--C-------AAAA--TG---AC--AA--AC
* * * * * **
204188 AAACTATTTAGACCAAATGATGCAATTTCCCGCGCATGGAATGTTT-GAAAAATTGCTC
163 -TA-T-TTA-GACCAAATGATACGATTTCTCAAGCATGGAATGTTTAG-AAAATTGCTC
* * * ** *
204246 GAAAGAATGGATCATCTTGAAAACTTTAAGGAAGTGAAGTTATAAAAGAACTTGTAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * * * *
204311 CAAGTGT-AGAAGCTCATCCACA-AACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAAT
66 CAAGT-TCGGAAGTTCGTCCA-AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * * * * * *
204374 TCAAAGGCCAAAACTTGTTTATAAAATGAAAAACTATTTAGA-CAGAAGGATGCAATTTCTCGTA
129 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCA-AATGATACGATTTCTC-AA
* *
204438 -CAT-G---GTTCAGAAAATTGCAC
192 GCATGGAATGTTTAGAAAATTGCTC
* * * * * *
204458 GAAGGAATGGATCTTCTTGAATACGTTAAGGGACCAAAAAGCTATAAAAGAATTCGTAAAAGTTT
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACC--GAAGTTATAAAAGAACTCGTAAAAGTTT
* * * * * * * *
204523 GACAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAACTCTTAAGTTAATAAGATTTTAAT
64 GACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * * * * ** *
204588 TTAAATACCAAAACTTGTTTACAAATTGACAAACTGTTTAGACCAAATAATGTGATTTC-CTGAG
129 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTC-AAG
* *
204652 CATGGAATGTTCAGAAAATTGCTT
193 CATGGAATGTTTAGAAAATTGCTC
* * * * * *
204676 GATGGAATAGATTGTCTTGAATACTTTAAGTAACAGAAGTTATAAAAGATCTCGTAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * * * * *
204741 CAAGTTCAG-ATTTCCTCCATGAACCGAGAGAGAAACAATTTTCATGTAAATAAGTTTTTAATTC
66 CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * ** *
204805 AAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCGATTTGACGAGCAT
131 AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGCAT
204870 GGAATGTT
196 GGAATGTT
204878 CGAAAAGAAC
Statistics
Matches: 2683, Mismatches: 453, Indels: 221
0.80 0.13 0.07
Matches are distributed among these distances:
209 1 0.00
210 166 0.06
211 29 0.01
212 88 0.03
213 125 0.05
214 366 0.14
215 425 0.16
216 1012 0.38
217 89 0.03
218 164 0.06
219 2 0.00
220 2 0.00
221 2 0.00
222 2 0.00
223 1 0.00
224 7 0.00
225 2 0.00
226 1 0.00
227 4 0.00
228 8 0.00
229 4 0.00
230 1 0.00
237 4 0.00
238 7 0.00
239 5 0.00
240 1 0.00
241 1 0.00
242 7 0.00
243 1 0.00
244 1 0.00
245 2 0.00
246 2 0.00
247 1 0.00
248 3 0.00
249 5 0.00
250 103 0.04
251 35 0.01
252 4 0.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
CAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
AAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCTCAAGCAT
GGAATGTTTAGAAAATTGCTC
Found at i:203092 original size:858 final size:856
Alignment explanation
Indices: 201416--204883 Score: 3660
Period size: 858 Copynumber: 4.0 Consensus size: 856
201406 CTGAATGAGG
* * * * *
201416 GAAGGAATAGATCGTCTTGAATGCTTTTAGGAAGCGAAGTTATAAAAGAACTCGTTAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * *
201481 CAAGTTTGAAAGTTCGTCCATGAACAAAGAGAGAAAAAATTCTCACGTAAATAAGTTTTTAATTC
66 CAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* **
201546 AAAGACTAAAACTTGTTTACAAATTGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCAT
131 AAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCAT
* * * * * *
201611 GTAATGTTCGAAAAATTGTTCGTAA-GAATGGATCTTCTTGAATACTTTAAGGAATCGAAGTTA-
196 GAAATGTTCGAAAAATTGCTCGAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTAT
* *
201674 AAAAGTTACT-GTAAAAGTTTGATAAGTTTGGAAGTTCATCCAAGAA-CAA-AGAGAAACAATTC
261 AAAAG-AACTCGTAAAAGTTTGACAAG-TTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTC
* * *
201736 TCACTTTAAAAAGTTTTTAATTCAAAGACCAAAACTTGTGTACAAAATGACAAACTATTTAGACC
324 TCACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* * *
201801 AAATGATACGATTTCTCGAGCATGGAATGTTTAGAAAGTTGCTCAAAGAAATGGAT--ACTTGAA
389 AAATGATACGATTTCTCGAGCATGGAATGTTTAAAAAATTGCTC-AAGGAATGGATCGACTTGAA
* * *
201864 CACTTT-TAGGAAGC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCGTCC
453 TACTTTATAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCATCC
*
201927 AAGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAAAGACAAAATAATGTTTA
518 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACAAAAT--TGTTTA
* * * * * *
201992 CAAATTGACAAACTGTTTAAAGCAAATA-ATTCGATTTCACAAGCTTGGAATGTTCAGAAAATTG
581 CATA-TGACAAACTGTTTAGACCAAA-AGATTCGATTTCTCAAGCATGGAATGTTCAAAAAATTG
* * * * * *
202056 CTCGAAGGAATAGATCATCCTAAAAACTTTAAGCAAGCAAATTTATACAGAACTCGTAAAAGTTT
644 CTTGAAGGAATAGATCATCTTGAAAACTTTAAGGAAG-AAAGTTATAAAGAACTCGTAAAAGTTT
* * * **
202121 AACAAGTGCAGAATTTCGTCCAAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTAAT
708 AACAAGTGCGGAAGTTCGTCCTAGAACCAAGAGATAAACAATTCTCATGTAAAT--GACTTT-AT
** *
202186 TAGAAGACCAAAACTTTGTTACAAAATGACGAACTATTTAGACCAAATGACACAATTTCTCAAGC
770 TA-AAGACCAAAACTTTGTTACAAAATGACGAACTATTTAGACCAAATGATGCGATTTCTCAAGC
* *
202251 TTGGAATGTTTAGAAAATTGCTC
834 TTGGAATGTTCAAAAAATTGCTC
* * ** * *
202274 GAACGAATGGATCGCCTTGAATACTTTAAGGAATTGAAGTTATAAAAGAACTTGTAAAAGTTAGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* * * *
202339 CAAGTTCGGAAGTTTGTCAAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGCTTTTAATTC
66 CAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
* * * **
202404 AAAGACCAAAACTTGTTTACAAAATGACAAACAATTTAGACCAAATAATACGATTTATCGAGCAT
131 AAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCAT
* * * ** *
202469 GGAATGTT-TAGAAAGTTGCAAG-AAGGAATGGATCGTCTTGAATACATTAAGGAACCAAAGTTA
196 GAAATGTTCGA-AAAATTGCTCGAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTA
* * * *
202532 TAAAAGAACTCGTAAAAGTTTGACGAGTTCGAAAGTTTATCCATGAACCAAGAGAGAAACAATTC
260 TAAAAGAACTCGTAAAAGTTTGACAAGTT-GGAAGTTCATCCAAGAACCAAGAGAGAAACAATTC
* * * * * * * *
202597 TCACGTTAGTAAGATTTTAATTCAAAGCCCAAAACCTGTTTACAAATTGACAAACTGTTTTGATC
324 TCACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* * * * *
202662 AAAAGGTACGATTTCCCGAGCATGGAATGTTTAAAAAATTGCTCAATGGAATAGATCGTCTTGAA
389 AAATGATACGATTTCTCGAGCATGGAATGTTTAAAAAATTGCTCAA-GGAATGGATCGACTTGAA
* * * * *
202727 TACTTTATA-CAA-CAGAAGTTATAAAAAAACTCTTAATAGTTTGACAAGTTTGGTAGTT-ACTC
453 TACTTTATAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCA-TC
* * *
202789 CAAGAACCAAGATAGAAACAATTTTCACGTAAATAAGTTTTTAATTCAAAGATTAAAAGTTGTTT
517 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA-CAAAA-TTGTTT
*
202854 ACATTATGACAAACTATTTAGACCAAAAGATTCGATTTCTCAAGCATGGAATGTTCAAAAAATTG
580 ACA-TATGACAAACTGTTTAGACCAAAAGATTCGATTTCTCAAGCATGGAATGTTCAAAAAATTG
* * *
202919 CTTGAAGGAATACATCATCTTGAATACTTTAAGGAATGAAAGTTATAAATGAACTCGTAAAGGTT
644 CTTGAAGGAATAGATCATCTTGAAAACTTTAAGGAA-GAAAGTTATAAA-GAACTCGTAAAAGTT
* * *
202984 TAACAAGTGTGGAAGTTCGTCCTAGAACTAAGAGATAAACAGTTCTCATGTAAATGACTTT-TT-
707 TAACAAGTGCGGAAGTTCGTCCTAGAACCAAGAGATAAACAATTCTCATGTAAATGACTTTATTA
* *
203047 AAGACCAAAACTTTGTTACAAAATGACAAACTATTTAGCCCAAATGATGCGATTTCTCGAA-CTT
772 AAGACCAAAACTTTGTTACAAAATGACGAACTATTTAGACCAAATGATGCGATTTCTC-AAGCTT
*
203111 GGAATGTTCAAAAAATTTCTC
836 GGAATGTTCAAAAAATTGCTC
* * *
203132 GAAGGAATGGATTGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCATAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* *
203197 CGAGTAT-GAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCACACGTAAATAAGTTTTTAATT
66 CAAGT-TCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATT
* *
203261 GAAAGACTAAAACTT-TTTACAAAATGACTAACTATTTAGACCAAATGATACGATTTCCCGAGCA
130 CAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCA
* * *
203325 TGAAATGTTCGAAAAATTGCTCGAAAGGAATGGATCGTCCTAAATACTTTAATGAACCAAAGTTA
195 TGAAATGTTCGAAAAATTGCTCGAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTA
** * *
203390 TAAAAGAACTCGTGCAAGTTTGACAAGTGTGGAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTC
260 TAAAAGAACTCGTAAAAGTTTGACAAGT-TGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTC
* ** *
203455 TCATGAAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACAATTTAGACC
324 TCACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
** ** * *
203520 AAATGATGA-GATTTCTTAAGCATGGAATGTTCGAAAAATTGCTGGAAGGAGTGGATCGACTTGA
389 AAATGAT-ACGATTTCTCGAGCATGGAATGTTTAAAAAATTGCT-CAAGGAATGGATCGACTTGA
* * * * *
203584 ATACATTA-AGGAACCAAAAGGCTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCAT
452 ATACTTTATAGGAACCAGAA-GTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCAT
* * * * * *
203648 ACATGAACCAAGAGAGAAACAATTCTCAGGTTAATAAGATTTTAATT-TAAGTACGAAAACTTGT
516 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG-AC-AAAA-TTGT
* *
203712 TTACA-AGTTGACAAACTGTTTAGACCAAATGATGT-GA-TT-TCAAGCATGGAATGTTCGAAAA
578 TTACATA--TGACAAACTGTTTAGACCAAAAGAT-TCGATTTCTCAAGCATGGAATGTTCAAAAA
* * * * *
203773 ATTG-TTCGAAAGAATGGATCGTCTTGAAAACTTTAAGGAAGAGAAGTTATAAAAGCACTTGTAA
640 ATTGCTT-GAAGGAATAGATCATCTTGAAAACTTTAAGGAAGA-AAGTTAT-AAAGAACTCGTAA
* * * * * *
203837 AAGTATGACAAGTGCGAAAGTTCGTCCTAGAACCAATAGATAAAGAATTCTCATGTAAATAACTT
702 AAGTTTAACAAGTGCGGAAGTTCGTCCTAGAACCAAGAGATAAACAATTCTCATGTAAATGAC--
203902 TTTAATTAAAAGACCAAAACTTTGTTACAAAATGACGAACTATTTAGACCAAATGATGCGATTTC
765 TTT-ATT-AAAGACCAAAACTTTGTTACAAAATGACGAACTATTTAGACCAAATGATGCGATTTC
* *
203967 TCGAGCTTGGAATGTTCAAAAAATAGCTC
828 TCAAGCTTGGAATGTTCAAAAAATTGCTC
203996 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
1 GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
* *
204061 CAAGATC-AAATTTCGTCCAAG-ACCTAAGAGAGAAACAATTCTCATGGAAATAAAACTTGTTAT
66 CAAGTTCGAAAGTTCGTCCAAGAACC-AAGAGAGAAACAA-T-TC-------T----C-------
*
204124 AAAACTTGTAAAAGAACTCGTAAAAGTTTTTAATTCAAAGAATAAAACTTGTTTACAAAATGACA
110 ---AC--GT---A-AA----T--AAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACA
* * * * *
204189 AACTATTTAGACCAAATGATGCAATTTCCCGCGCATGGAATGTTTGAAAAATTGCTCGAAA-GAA
160 AACTATTTAGACCAAATGATACGATTTCCCGAGCATGAAATGTTCGAAAAATTGCTCGAAAGGAA
* * *** *
204253 TGGATCATCTTGAAAACTTTAAGGAAGTGAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTGT
225 TGGATCGTCTTGAATACTTTAAGGAACCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT-T
* * * ** * * *
204318 AGAAGCTCATCCACA-AACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGC
289 GGAAGTTCATCCA-AGAACCAAGAGAGAAACAATTCTCACGTTAATAAGTTTTTAATTCAAAGAC
* * * * *
204382 CAAAACTTGTTTATAAAATGAAAAACTATTTAGA-CAGAAGGATGCAATTTCTCGTA-CAT-G--
353 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCA-AATGATACGATTTCTCG-AGCATGGAA
* * * ** * * * *
204442 -GTTCAGAAAATTGCACGAAGGAATGGATCTTCTTGAATACGTTA-AGGGACCAAAAAGCTATAA
416 TGTTTAAAAAATTGCTC-AAGGAATGGATCGACTTGAATACTTTATAGGAACC-AGAAGTTATAA
* * * * * *
204505 AAGAATTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAACTCTTA
479 AAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCA
* * * * * *
204570 AGTTAATAAGATTTTAATTTAAATACCAAAACTTGTTTACAAATTGACAAACTGTTTAGACCAAA
544 CGTAAATAAGTTTTTAATTCAAAGA-CAAAA-TTGTTTACATA-TGACAAACTGTTTAGACCAAA
* * * **
204635 TA-ATGT-GATTTC-CTGAGCATGGAATGTTCAGAAAATTGCTTGATGGAATAGATTGTCTTGAA
606 -AGAT-TCGATTTCTC-AAGCATGGAATGTTCAAAAAATTGCTTGAAGGAATAGATCATCTTGAA
* * * * * * * * *
204697 TACTTTAAGTAACAGAAGTTATAAAAGATCTCGTAAAAGTTTGACAAGTTCAG-ATTTCCTCC-A
668 AACTTTAAGGAAGA-AAGTTAT-AAAGAACTCGTAAAAGTTTAACAAGTGCGGAAGTTCGTCCTA
* * * ** *
204760 TGAACCGAGAGAGAAACAATTTTCATGTAAATAAGTTTTTAATTCAAAGACTAAAAC-TTGTTTA
731 -GAACCAAGAGATAAACAATTCTCATGTAAAT--GACTTT-ATT-AAAGACCAAAACTTTG-TTA
* * ** * * *
204824 CAAAATGACAAACTATTTAGACCAAATAATGCGATTTGACGAGCATGGAATGTTCGAAAA
790 CAAAATGACGAACTATTTAGACCAAATGATGCGATTTCTCAAGCTTGGAATGTTCAAAAA
204884 GAACCAAGAG
Statistics
Matches: 2204, Mismatches: 305, Indels: 165
0.82 0.11 0.06
Matches are distributed among these distances:
857 68 0.03
858 746 0.34
859 52 0.02
860 124 0.06
861 115 0.05
862 11 0.00
863 230 0.10
864 215 0.10
865 3 0.00
876 1 0.00
886 2 0.00
888 2 0.00
891 1 0.00
892 2 0.00
894 174 0.08
895 119 0.05
896 82 0.04
897 5 0.00
898 181 0.08
899 71 0.03
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (856 bp):
GAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGA
CAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTC
AAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCCGAGCAT
GAAATGTTCGAAAAATTGCTCGAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTAT
AAAAGAACTCGTAAAAGTTTGACAAGTTGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTC
ACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAA
ATGATACGATTTCTCGAGCATGGAATGTTTAAAAAATTGCTCAAGGAATGGATCGACTTGAATAC
TTTATAGGAACCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTCATCCAAG
AACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACAAAATTGTTTACATAT
GACAAACTGTTTAGACCAAAAGATTCGATTTCTCAAGCATGGAATGTTCAAAAAATTGCTTGAAG
GAATAGATCATCTTGAAAACTTTAAGGAAGAAAGTTATAAAGAACTCGTAAAAGTTTAACAAGTG
CGGAAGTTCGTCCTAGAACCAAGAGATAAACAATTCTCATGTAAATGACTTTATTAAAGACCAAA
ACTTTGTTACAAAATGACGAACTATTTAGACCAAATGATGCGATTTCTCAAGCTTGGAATGTTCA
AAAAATTGCTC
Found at i:204872 original size:215 final size:214
Alignment explanation
Indices: 204147--204883 Score: 803
Period size: 214 Copynumber: 3.4 Consensus size: 214
204137 GAACTCGTAA
** *
204147 AAGTTTTTAATTCAAAGAATAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCA
1 AAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCA
* * * * *
204212 ATTTCCCGCGCATGGAATGTT-TGAAAAATTGCTCGAAAGAATGGATCATCTTGAAAACTTTAAG
66 ATTTCCCGAGCATGGAATGTTCAG-AAAATTGCTCGAAGGAATGGAT-TTCTTGAATACTTTAAG
** * * * **
204276 GAAGTGAAGTTATAAAAGAACTTGTAAAAGTTTGACAAGTGT-AGAAGCTCATCCACAAACCAAG
129 GAACAGAAGTTATAAAAGATCTCGTAAAAGTTTGACAAGT-TCAG-AGTTCATCCATGAACCAAG
* *
204340 AGAGAAACAATTCTCATGGAAAT
192 AGAGAAACAATTTTCATGTAAAT
* * * * * **
204363 AAGGTTTAAATTCAAAGGCCAAAACTTGTTTATAAAATGAAAAACTATTTAGA-CAGAAGGATGC
1 AAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCA-AATAATGC
* * *
204427 AATTTCTCGTA-CAT-G---GTTCAGAAAATTGCACGAAGGAATGGATCTTCTTGAATACGTTAA
65 AATTTCCCG-AGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGAT-TTCTTGAATACTTTAA
* * * *
204487 GGGACCAAAAAGCTATAAAAGAAT-TCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCATGAACC
128 -GGAAC-AGAAGTTATAAAAG-ATCTCGTAAAAGTTTGACAAGTTC-AGAGTTCATCCATGAACC
* * *
204551 AAGAGAGAAACAACTCTT-AAGTTAAT
189 AAGAGAGAAACAA-TTTTCATGTAAAT
* * * * * **
204577 AAGATTTTAATTTAAATACCAAAACTTGTTTACAAATTGACAAACTGTTTAGACCAAATAATGTG
1 AAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCA
* * * * *
204642 ATTTCCTGAGCATGGAATGTTCAGAAAATTGCTTGATGGAATAGATTGTCTTGAATACTTTAAGT
66 ATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATT-TCTTGAATACTTTAAGG
* * *
204707 AACAGAAGTTATAAAAGATCTCGTAAAAGTTTGACAAGTTCAGATTTCCTCCATGAACCGAGAGA
130 AACAGAAGTTATAAAAGATCTCGTAAAAGTTTGACAAGTTCAGAGTTCATCCATGAACCAAGAGA
204772 GAAACAATTTTCATGTAAAT
195 GAAACAATTTTCATGTAAAT
* *
204792 AAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCG
1 AAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCA
**
204857 ATTTGACGAGCATGGAATGTTC-GAAAA
66 ATTTCCCGAGCATGGAATGTTCAGAAAA
204884 GAACCAAGAG
Statistics
Matches: 430, Mismatches: 73, Indels: 38
0.79 0.13 0.07
Matches are distributed among these distances:
212 37 0.09
213 6 0.01
214 126 0.29
215 122 0.28
216 97 0.23
217 4 0.01
218 38 0.09
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (214 bp):
AAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAATGCA
ATTTCCCGAGCATGGAATGTTCAGAAAATTGCTCGAAGGAATGGATTTCTTGAATACTTTAAGGA
ACAGAAGTTATAAAAGATCTCGTAAAAGTTTGACAAGTTCAGAGTTCATCCATGAACCAAGAGAG
AAACAATTTTCATGTAAAT
Found at i:204980 original size:123 final size:123
Alignment explanation
Indices: 204761--204983 Score: 333
Period size: 123 Copynumber: 1.8 Consensus size: 123
204751 TTTCCTCCAT
* * * * * *
204761 GAACCGAGAGAGAAACAATTTTCATGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACA
1 GAACCAAGAGAAAAACAATTCTCATGTAAATAAGGTTTAAATTCAAAGACCAAAACTTGTTTACA
*
204826 AAATGACAAACTATTTAGACCAAATAATGCGATTTGACGAGCATGGAATGTTCGAAAA
66 AAATGACAAACTATTTAGACCAAAGAATGCGATTTGACGAGCATGGAATGTTCGAAAA
*
204884 GAACCAAGAGAAAAACAATTCTCATAG-AAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTAC
1 GAACCAAGAGAAAAACAATTCTCAT-GTAAATAAGGTTTAAATTCAAAGACCAAAACTTGTTTAC
*
204948 AAAATGACAAACTATTTAGA-CAGAAGGATGCGATTT
65 AAAATGACAAACTATTTAGACCA-AAGAATGCGATTT
204984 CCCGTGCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
122 2 0.02
123 86 0.97
124 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (123 bp):
GAACCAAGAGAAAAACAATTCTCATGTAAATAAGGTTTAAATTCAAAGACCAAAACTTGTTTACA
AAATGACAAACTATTTAGACCAAAGAATGCGATTTGACGAGCATGGAATGTTCGAAAA
Found at i:205376 original size:552 final size:552
Alignment explanation
Indices: 204333--205435 Score: 1774
Period size: 552 Copynumber: 2.0 Consensus size: 552
204323 CTCATCCACA
* * *
204333 AACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTATAA
1 AACCAAGAGAAAAACAATTCTCATAGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACAA
*
204398 AATGAAAAACTATTTAGACAGAAGGATGCAATTTCTCGTACATGGTTCAGAAAATTGCACGAAGG
66 AATGAAAAACTATTTAGACAGAAGGATGCAATTTCCCGTACATGGTTCAGAAAATTGCACGAAGG
* *
204463 AATGGATCTTCTTGAATACGTTAAGGGACCAAAAAGCTATAAAAGAATTCGTAAAAGTTTGACAA
131 AATGGATCTTCTTGAATACCTTAAGGGACCAAAAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
* *
204528 GTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAACTCTTAAGTTAATAAGATTTTAATTTAAA
196 GTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAACTCTCAAGTGAATAAGATTTTAATTTAAA
* * *
204593 TACCAAAACTTGTTTACAAATTGACAAACTGTTTAGACCAAATAATGTGATTTCCTGAGCATGGA
261 TACCAAAACTTGTTTACAAATTGACAAACTATTTAGACCAAATAATGTGATTTCCCGAGCAGGGA
* * *
204658 ATGTTCAGAAAATTGCTTGATGGAATAGATTGTCTTGAATACTTTAAGTAACAGAAGTTATAAAA
326 ATGTTCAGAAAATTGCTCGATGGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTATAAAA
* * * * * *
204723 GATCTCGTAAAAGTTTGACAAGTTCAGATTTCCTCCATGAACCGAGAGAGAAACAATTTTCATGT
391 GAACTCGTAAAAGTTTGACAAGTTCAAATTTACTCCAAGAACCAAGAGAGAAACAATTTTCACGT
204788 AAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAA
456 AAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAA
* * *
204853 TGCGATTTGACGAGCATGGAATGTTCGAAAAG
521 TGCAATTTCACAAGCATGGAATGTTCGAAAAG
204885 AACCAAGAGAAAAACAATTCTCATAGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACAA
1 AACCAAGAGAAAAACAATTCTCATAGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACAA
* * * * ** *
204950 AATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTGCATGTTTTGGAAAATTGCATGAAGG
66 AATGAAAAACTATTTAGACAGAAGGATGCAATTTCCCGTACATGGTTCAGAAAATTGCACGAAGG
* * *
205015 AATGGATCTTCTTTAATACCTTGAGGGACCAAAAAGCTATAAAAGAACTCGTAACAGTTTGACAA
131 AATGGATCTTCTTGAATACCTTAAGGGACCAAAAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
* * *
205080 GTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGGTGAATAAGATTTTGATTTAAA
196 GTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAACTCTCAAGTGAATAAGATTTTAATTTAAA
* *
205145 TACCAAAACTTGTTTCCAAATTGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCAGGGA
261 TACCAAAACTTGTTTACAAATTGACAAACTATTTAGACCAAATAATGTGATTTCCCGAGCAGGGA
*
205210 ATGTTCGGAAAATTGCTCGATGGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTATAAAA
326 ATGTTCAGAAAATTGCTCGATGGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTATAAAA
* * * * *
205275 GAACTCGTAAAAGTTTGATAGGTTCAAATTTAGTCTAAGAACCAAGAGAGAAATAATTTTCACGT
391 GAACTCGTAAAAGTTTGACAAGTTCAAATTTACTCCAAGAACCAAGAGAGAAACAATTTTCACGT
**
205340 AAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAGTTGACAAACTATTTAGACCAAATAA
456 AAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAA
* *
205405 TGCAATTTCCCAAGCATGTAATGTTCGAAAA
521 TGCAATTTCACAAGCATGGAATGTTCGAAAA
205436 TTTGCTCGAA
Statistics
Matches: 503, Mismatches: 48, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
552 503 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (552 bp):
AACCAAGAGAAAAACAATTCTCATAGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACAA
AATGAAAAACTATTTAGACAGAAGGATGCAATTTCCCGTACATGGTTCAGAAAATTGCACGAAGG
AATGGATCTTCTTGAATACCTTAAGGGACCAAAAAGCTATAAAAGAACTCGTAAAAGTTTGACAA
GTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAACTCTCAAGTGAATAAGATTTTAATTTAAA
TACCAAAACTTGTTTACAAATTGACAAACTATTTAGACCAAATAATGTGATTTCCCGAGCAGGGA
ATGTTCAGAAAATTGCTCGATGGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTATAAAA
GAACTCGTAAAAGTTTGACAAGTTCAAATTTACTCCAAGAACCAAGAGAGAAACAATTTTCACGT
AAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATAA
TGCAATTTCACAAGCATGGAATGTTCGAAAAG
Found at i:205898 original size:427 final size:422
Alignment explanation
Indices: 204882--206377 Score: 1323
Period size: 427 Copynumber: 3.5 Consensus size: 422
204872 AATGTTCGAA
* * * * * *
204882 AAGAACCAAGAGAAAAACAATTCTCATAG-AAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTT
1 AAGAACCAAGAGAGAAACAATTGTCA-CGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTT
* * * *
204946 ACAAAATGACAAACTATTTAGA-CAGAAGGATGCGATTTCCCGTGCATG--T-TTTGGAAAATTG
65 ACAAATTGACAAACTATTTAGACCA-AATGATGCGATTTCCCGAGCATGAATGTTCGGAAAATTG
* * * * * * * *
205007 CATGAAGGAATGGATCTTCTTTAATACCTTGAGGGACCAAAAAGCTATAAAAGAACTCGTAACAG
129 CTTGAA-GAATGGATCGTCTTGAATA-CTTTAAGGA--AAGAAGTTATAAAAGAACTCGTAAAAG
* * * *
205072 TTTGACAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGGTGAATAAGATTTT
190 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTT
* * * * * *
205137 GATTTAAATACCAAAACTTGTTTCCAAATTGACAAACTATTTAGACCAAATGATGTGATTTCCCG
255 AATTAAAATACCAAAACTT-TTTACAAAATGACAAACTATTTAGA-CAAAGGATGCGATTTCCCG
** * * * * * *
205202 AGCAGGGAATGTTCGGAAAATTGCTCGATGGAATAAATCGTCTTGAATACTTTAAGTAACAGAAG
318 AGC---G-ATGTTCAAAAAATTGCACGAAGGAATAAATCGTCTTGAATACTGTAAGGAACAAAAA
* * * * *
205267 TTATAAAAGAACTCGTAAAAGTTTGATAGGTTCAAATTTAGTCT
379 CTATAAAAGAACTCGTAAAAGTTTGAGAAGTTCAAATTCAGTCC
* * *
205311 AAGAACCAAGAGAGAAATAATTTTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTGTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * *
205376 CAAGTTGACAAACTATTTAGACCAAATAATGCAATTTCCCAAGCATGTAATGTTC-GAAAATTTG
66 CAAATTGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATG-AATGTTCGGAAAA-TTG
* * * *
205440 CTCGAAAGAATGGATTGTCTTGAAAACTTTAAGGAAGAGAAGTTGTAAAAGAACTCGTAAAAGTT
129 CTTG-AAGAATGGATCGTCTTGAATACTTTAAGGAA-AGAAGTTATAAAAGAACTCGTAAAAGTT
* * * * *
205505 TAACAAGTGCGAAAGTTCGTCCACGAACCAAGAGAGAAACAATTCTCACGAAAATAAGGTTTTAA
192 TGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAA
** * *
205570 TTAAAAGGCCAAAACTTTTTTACGAAATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTG
257 TTAAAATACCAAAAC-TTTTTACAAAATGACAAACTATTTAGACA-AAGGATGCGATTTCCCGAG
** * *
205635 C-ATGTTCAAAAAATTGCACGAAGGAATGGATCTTCTTGAATAC-GTAATGGGAGCAAAAAACTA
320 CGATGTTCAAAAAATTGCACGAAGGAATAAATCGTCTTGAATACTGTAA--GGAAC-AAAAACTA
* *
205698 TGAAAGAACTCGTGAAAGTTTGAGAAGTTCGAAAGTTCA-TCC
382 TAAAAGAACTCGTAAAAGTTTGAGAAGTTC-AAA-TTCAGTCC
* *
205740 ATGAACC-A-AGAGAAACAATTGTCAGGCT-AATAA-TATTTTAATTCAAAGACCAAAACTTGTT
1 AAGAACCAAGAGAGAAACAATTGTCACG-TAAATAAGT-TTTTAATTCAAAGACCAAAACTTGTT
* * * *
205801 TACAATTTGACAAAATCTTTAGACCAAATGATGCGATTTCCCGAGCATGAAATGTTCGGAAAATA
64 TACAAATTGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATG-AATGTTCGGAAAATT
* * * * *
205866 GCTTGATAGAATAGATCGTCTTGAATACTTTAAGTAACAGAAGTTAAAAAAGTACTCATAAAAGT
128 GCTTGA-AGAATGGATCGTCTTGAATACTTTAAGGAA-AGAAGTTATAAAAGAACTCGTAAAAGT
* * ** * *
205931 TTGACAAGTTTG-AATTTCGTCCAAGATTCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTA
191 TTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTA
* * * *
205995 ATTCAAATACTAAAAC---TTACAAAATGACAAACTATTTAGACCAAGTGATGCGATTTCCTGAG
256 ATTAAAATACCAAAACTTTTTACAAAATGACAAACTATTTAGACAAAG-GATGCGATTTCCCGAG
* * * * ** * *
206057 CATGGAATGTTCGAAAATTTGCTCGAAAGAATGGATCGTCTTGGAA-ACTTTAAGGAA-AAGAAG
320 C---G-ATGTTCAAAAAATTGCACGAAGGAATAAATCGTCTT-GAATACTGTAAGGAACAA-AAA
* * * * *
206120 TTGTAAAAGAACTCGTAAAATTTTGACAAGTGCAAAAGTTC-GTCC
379 CTATAAAAGAACTCGTAAAAGTTTGAGAAGTTC-AAA-TTCAGTCC
* * * * * * *
206165 ACGAACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTGTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * *
206230 CAAAATGACAAACTATTTACA-CAGAAGGATGTGATTTCCCGTGCATG---GTTCAGAAAATTAC
66 CAAATTGACAAACTATTTAGACCA-AATGATGCGATTTCCCGAGCATGAATGTTCGGAAAATTGC
*** * * * *
206291 ACAAAGGAATGGATCATATTGAATACGTTAAGGAACTA-AAGTTATAAAAGAACTTGTAAAAGTT
130 TTGAA-GAATGGATCGTCTTGAATACTTTAAGGAA--AGAAGTTATAAAAGAACTCGTAAAAGTT
* * *
206355 TGACGAGTTCAAAAGTTCATCCA
192 TGACAAGTTCGAAAGTTCGTCCA
206378 TGATGATGCG
Statistics
Matches: 871, Mismatches: 158, Indels: 81
0.78 0.14 0.07
Matches are distributed among these distances:
421 3 0.00
422 40 0.05
423 66 0.08
424 12 0.01
425 47 0.05
426 100 0.11
427 277 0.32
428 45 0.05
429 103 0.12
430 8 0.01
431 131 0.15
432 15 0.02
433 22 0.03
434 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (422 bp):
AAGAACCAAGAGAGAAACAATTGTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
CAAATTGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGAATGTTCGGAAAATTGCT
TGAAGAATGGATCGTCTTGAATACTTTAAGGAAAGAAGTTATAAAAGAACTCGTAAAAGTTTGAC
AAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGATTTTAATTAA
AATACCAAAACTTTTTACAAAATGACAAACTATTTAGACAAAGGATGCGATTTCCCGAGCGATGT
TCAAAAAATTGCACGAAGGAATAAATCGTCTTGAATACTGTAAGGAACAAAAACTATAAAAGAAC
TCGTAAAAGTTTGAGAAGTTCAAATTCAGTCC
Found at i:206239 original size:638 final size:639
Alignment explanation
Indices: 204884--206380 Score: 2153
Period size: 638 Copynumber: 2.3 Consensus size: 639
204874 TGTTCGAAAA
* *
204884 GAACCAAGAGAAAAACAATTCTCATAGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACA
1 GAACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACA
** *
204949 AAATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTGCATGTTTTGGAAAATTGCATGAAG
66 AAATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTGCATG-TTCAGAAAATTGCACGAAG
* * * * *
205014 GAATGGATCTTCTTTAATACCTTGAGGGACCAAAAAGCTATAAAAGAACTCGTAACAGTTTGACA
130 GAATGGATCTTCTTGAATA-CGTAAGGGAACAAAAAGCTATAAAAGAACTCGTAA-AGTTTGAGA
* *
205079 AGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGGTGAATAAGATTTTGATTTAA
193 AGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGGTGAATAAGATTTTAATTCAA
* * * * *
205144 ATACCAAAACTTGTTTCCAAATTGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCAGGG
258 AGACCAAAACTTGTTTACAAATTGACAAAATATTTAGACCAAATGATGCGATTTCCCGAGCAGGA
* * *
205209 AATGTTCGGAAAATTGCTCGATGGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTATAAA
323 AATGTTCGGAAAATAGCTCGATAGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTAAAAA
* * * * * * *
205274 AGAACTCGTAAAAGTTTGATAGGTTCAAATTTAGTCTAAGAACCAAGAGAGAAATAATTTTCACG
388 AGAACTCATAAAAGTTTGACAAGTTCAAATTTAGTCCAAGAACCAAGAGAGAAACAACTCTCACG
**
205339 TAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAGTTGACAAACTATTTAGACCAAATA
453 TAAATAAGTTTTTAATTCAAAGACTAAAAC---TTTACAAAATGACAAACTATTTAGACCAAATA
* *
205404 ATGCAATTTCCCAAGCATGTAATGTTCGAAAATTTGCTCGAAAGAATGGATTGTCTTGAAAACTT
515 ATGCAATTTCCCAAGCATGGAATGTTCGAAAATTTGCTCGAAAGAATGGATCGTCTTGAAAACTT
* *
205469 TAAGGAAGAGAAGTTGTAAAAGAACTCGTAAAAGTTTAACAAGTGCGAAAGTTCGTCCAC
580 TAAGGAAAAGAAGTTGTAAAAGAACTCGTAAAAGTTTAACAAGTGCAAAAGTTCGTCCAC
* * * * * *
205529 GAACCAAGAGAGAAACAATTCTCACGAAAATAAGGTTTTAATTAAAAGGCCAAAACTTTTTTACG
1 GAACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACA
*
205594 AAATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTGCATGTTCAAAAAATTGCACGAAGG
66 AAATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTGCATGTTCAGAAAATTGCACGAAGG
* * *
205659 AATGGATCTTCTTGAATACGTAATGGGAGCAAAAAACTATGAAAGAACTCGTGAAAGTTTGAGAA
131 AATGGATCTTCTTGAATACGTAA-GGGAACAAAAAGCTATAAAAGAACTCGT-AAAGTTTGAGAA
* *
205724 GTTCGAAAGTTCATCCATGAACC-A-AGAGAAACAATTGTCAGGCT-AATAATATTTTAATTCAA
194 GTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGG-TGAATAAGATTTTAATTCAA
* * *
205786 AGACCAAAACTTGTTTACAATTTGACAAAATCTTTAGACCAAATGATGCGATTTCCCGAGCATGA
258 AGACCAAAACTTGTTTACAAATTGACAAAATATTTAGACCAAATGATGCGATTTCCCGAGCAGGA
* *
205851 AATGTTCGGAAAATAGCTTGATAGAATAGATCGTCTTGAATACTTTAAGTAACAGAAGTTAAAAA
323 AATGTTCGGAAAATAGCTCGATAGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTAAAAA
* ** * **
205916 AGTACTCATAAAAGTTTGACAAGTTTGAATTTCGTCCAAGATTCAAGAGAGAAACAACTCTCACG
388 AGAACTCATAAAAGTTTGACAAGTTCAAATTTAGTCCAAGAACCAAGAGAGAAACAACTCTCACG
* * *
205981 TAAATAAGTTTTTAATTCAAATACTAAAAC-TTACAAAATGACAAACTATTTAGACCAAGTGATG
453 TAAATAAGTTTTTAATTCAAAGACTAAAACTTTACAAAATGACAAACTATTTAGACCAAATAATG
* ** *
206045 CGATTTCCTGAGCATGGAATGTTCGAAAATTTGCTCGAAAGAATGGATCGTCTTGGAAACTTTAA
518 CAATTTCCCAAGCATGGAATGTTCGAAAATTTGCTCGAAAGAATGGATCGTCTTGAAAACTTTAA
* *
206110 GGAAAAGAAGTTGTAAAAGAACTCGTAAAATTTTGACAAGTGCAAAAGTTCGTCCAC
583 GGAAAAGAAGTTGTAAAAGAACTCGTAAAAGTTTAACAAGTGCAAAAGTTCGTCCAC
206167 GAACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACA
1 GAACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACA
* * * *
206232 AAATGACAAACTATTTACACAGAAGGATGTGATTTCCCGTGCATGGTTCAGAAAATTACACAAAG
66 AAATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTGCAT-GTTCAGAAAATTGCACGAAG
* * * * *
206297 GAATGGATCATATTGAATACGTTAA-GGAAC-TAAAGTTATAAAAGAACTTGTAAAAGTTTGACG
130 GAATGGATCTTCTTGAATACG-TAAGGGAACAAAAAGCTATAAAAGAACTCGT-AAAGTTTGA-G
*
206360 -AGTTCAAAAGTTCATCCATGA
192 AAGTTCGAAAGTTCATCCATGA
206381 TGATGCGACC
Statistics
Matches: 761, Mismatches: 85, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
637 45 0.06
638 248 0.33
639 36 0.05
640 3 0.00
642 230 0.30
643 5 0.01
644 90 0.12
645 104 0.14
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (639 bp):
GAACCAAGAGAGAAACAATTCTCATGGAAATAAGGTTTAAATTCAAAGGCCAAAACTTGTTTACA
AAATGACAAACTATTTAGACAGAAGGATGCGATTTCCCGTGCATGTTCAGAAAATTGCACGAAGG
AATGGATCTTCTTGAATACGTAAGGGAACAAAAAGCTATAAAAGAACTCGTAAAGTTTGAGAAGT
TCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGGTGAATAAGATTTTAATTCAAAGA
CCAAAACTTGTTTACAAATTGACAAAATATTTAGACCAAATGATGCGATTTCCCGAGCAGGAAAT
GTTCGGAAAATAGCTCGATAGAATAAATCGTCTTGAATACTTTAAGTAACAGAAGTTAAAAAAGA
ACTCATAAAAGTTTGACAAGTTCAAATTTAGTCCAAGAACCAAGAGAGAAACAACTCTCACGTAA
ATAAGTTTTTAATTCAAAGACTAAAACTTTACAAAATGACAAACTATTTAGACCAAATAATGCAA
TTTCCCAAGCATGGAATGTTCGAAAATTTGCTCGAAAGAATGGATCGTCTTGAAAACTTTAAGGA
AAAGAAGTTGTAAAAGAACTCGTAAAAGTTTAACAAGTGCAAAAGTTCGTCCAC
Found at i:208110 original size:216 final size:215
Alignment explanation
Indices: 207728--212400 Score: 4664
Period size: 216 Copynumber: 21.8 Consensus size: 215
207718 ATGAGCAAAA
* * * * *
207728 AGAGAAATAATTCTCACGTTAGTAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAATTGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * * * *
207793 AACAATTTTGACCAAATGGTACGATTTTCC-GAGCATGGAATGTTCAGAAAATCGATC-AATGGA
66 AACTATTTAGACCAAATGATGCGA-TTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAA-GGA
* * * * *
207856 ATAGATCGGCTTGAATACTTTATA-CAACAAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
129 ATGGATTGTCTTGAATACTTTA-AGGAAC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* *
207920 TTGGAAGTTAC-TCCAAGAACTAAG
192 TCGGAAGTT-CGTCCAAGAACCAAG
* * * * * * * * **
207944 ATAGAAACAATTCTCACGTTACTAAGGTTTTAATTCAAAGACTAACAGTTTTTTACGTAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
*
208009 AACTATTTAGACCAAATGATGTGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
* * * *
208074 GGATTGTCTTGAATGCTTTAAGGAAGCGAAGTTATAAAAGAACTCGTAAAAGTATGAGAAGTTCT
131 GGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCG
*
208139 GAAGTTTGTCCAAGAACC-A-
195 GAAGTTCGTCCAAGAACCAAG
* * *
208158 AGAGAAACAATTCTCACTTAAAAAAGTTTTTAATTCAAAGACTAAAAACTTGTTTACAAAATGAC
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC-CAAAACTTGTTTACAAAATGAC
** * *
208223 AAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCAAAAAATTTCTCGAAAGAA
65 AAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
* * *
208288 TGGGTCT-TCTTGAATACTTTAAGGAACTGAAGTTA-AAAATAACTTGTAAAAGTTTGACAAGTT
130 TGGAT-TGTCTTGAATACTTTAAGGAAC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * *
208351 CGAAAGTTTGTCCAAGAACAAAG
193 CGGAAGTTCGTCCAAGAACCAAG
* *
208374 AAAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTATTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * *
208439 AACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTCAAAAAATTTCTCGAAGGAAT
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
* * * * *
208504 GGATCT-TCTTGAATGCTTTTAGGAAGTGAAGTTATAAAAGAACTCGTTAAAGTTTGATAAGTTC
131 GGAT-TGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
* **
208568 GAAAGTTCGTCCACA-AATTAAG
194 GGAAGTTCGTCCA-AGAACCAAG
* * * * *
208590 AGAGAAACATTTCTCACGAAAATAAGTTTTTAATTCAAAGGCTAAAACATGTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * * *
208655 AACTATTTAGACCAAAGGATGCAATTTCCCGAGCAT---A-GTTCAGAAAATTGCACAAAGGAAT
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
* * * * *
208716 GGATAGTCTTGAATACGTTAAGGAACTAATGTTATAAAAGAACTCGTAAAAGATTT-AAAAGTTT
131 GGATTGTCTTGAATACTTTAAGGAACGAA-GTTATAAAAGAACTCGTAAAAG-TTTGACAAGTTC
* *
208780 TGAAGTTCATCCAAGAACC-A-
194 GGAAGTTCGTCCAAGAACCAAG
* * * *
208800 AGAGAAACAATTCTAACTTAAGTAAGTTTTTAATTCAAAGACTAAAACTTGTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* ** * *
208865 AACTATTTGGACCAAAAAATGTGATTT-CTCGAGCATGGAATGTTCAAAAAATTGCTCGAAAGAA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
* * * * * *
208929 TGAATCT-TCTTGTATACTTTAAGAAACCGAAGTTAAAAAATAACTTGTAAAAGTTTGACAAGTT
130 TGGAT-TGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* *
208993 CGAAAGTTCGTCCAAGAACAAAG
193 CGGAAGTTCGTCCAAGAACCAAG
* **
209016 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTATATTATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * *
209081 AACTGTTTAGACC---T-A----A-----T---CATGGACTGCTCGAAAAATAGCTC-AATGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAA-GGAA
* * * *
209129 TAGATCT-TCTTGAATACTTTAAGCAACAGAAGTTATAAAAAAACTCGTAAAAGTTTGAGAAGTT
130 TGGAT-TGTCTTGAATACTTTAAGGAAC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* *
209193 CGAAAGTTCATCCAAGAACCAAG
193 CGGAAGTTCGTCCAAGAACCAAG
* *
209216 AGAGAAACAATTCTCACCTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * ***
209281 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATTGAGCATTCAAAAAATTGCTC-AGAGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGA-AGGAA
* ** * *
209345 TGAATCATCTTGAATACTTTAAGGAATCGAAGTTATAAAAGAACTCGTAAATGTTAGACAAGTTC
130 TGGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
* * *
209410 GAAAGTTCATCCATGAACCAAG
194 GGAAGTTCGTCCAAGAACCAAG
* * *
209432 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTAT-TTTACAAAATAAT
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACT-TGTTTACAAAATGAC
* * * * **
209496 AAACTATTTAGACCAAATGATGCGATTTCCCGGGCACGAAATGTTTGAAAAATTGCTCGAAGGGA
65 AAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAA-GGA
** * * * *
209561 ATGGATCATCTTGAATACTTTAAGGAACCAAAGTTATATAAGAACTCGTACAAGTTTGACTAGTT
129 ATGGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
*
209626 TGGAAGTTAC-TCCAAGAACC-A-
193 CGGAAGTT-CGTCCAAGAACCAAG
* * * **
209647 AGAG-AACAATTCTCATGTAAATAAATTTTTAATTCAAAGACCAAAACTTATTTACATTATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * *
209711 AACTATTTAGACCAAATTATTCTATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
** * * * * * * *
209776 ATATTGTCTTGCATTCTTTAAGGAAGTGAAGTTATAAATGAACTTGTAAAAGTTTAACAAGTGCA
131 GGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC-
209841 GG-AGTTCGTCCAAGAACCAAG
194 GGAAGTTCGTCCAAGAACCAAG
* * * * * * *
209862 AGATAAACAATTCTCATGTAAATAAGTTTTTATTTAAAAGACCAAAACTTTTTTAAAAAATGACG
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * ***
209927 AACTATTTAGACCAAATGATGCGGTTT-CTCGAGCTTGAAATGTTTGGAAAATTGCTCGAAGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
** *** * *
209991 TTAATCACCTTGAATACTTTAAGGAATTGAAGTTATAAAAGAACTTGTAAAAAGTTTGACAAGTT
130 TGGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGT-AAAAGTTTGACAAGTT
* *
210056 CGGAAGTTCATCAAAGAACCAAG
193 CGGAAGTTCGTCCAAGAACCAAG
* * *
210079 AGAG--ACAATTCTCAAGTAAATAAGTTTCTAATTCAAAGACCAAGACTTGTTTACAAAATGA-A
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * ** * *
210141 AA--A-CTAGACTAAATGATGCAATTT-CTCGAGCATGGAGTGTTTGAAAAATTACTCGAAAGAA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
** * * **
210202 TGGATCATCTTGAATACTTTAAGGAAGCTAAGTTATAAAAGAACTTG-AAAGAGTTTGACAAGGG
130 TGGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTT
** *
210266 CGGAAGTTTATCCATGAACCAAG
193 CGGAAGTTCGTCCAAGAACCAAG
* * * * * *
210289 AGAGAAACAATTCTCAAGGAAATAAGTTTTTTATTCAAAGGCCGAAACGTGTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * *** * * * *
210354 AACTATTTAGACCAAAGGATACGATTTCCCGAGCAT-G---GTTCTGGAAGTTGCACAAAGAAAT
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
** * * * *
210415 GGATTGTCTAAAATA-TGTTAAGAAACCAAAGTAATAAAAGAACACGTAAAAGTTTGACAAGTTC
131 GGATTGTCTTGAATACT-TTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
* * * ** *
210479 GAAAGTTCATCCATGAAATAAT
194 GGAAGTTCGTCCAAGAACCAAG
* * * * * * *
210501 AGAGAAATAATTCTCACTTTAATAAGATTTTAATTCGAAGACCAAAACTTGTTTATAAATTGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * * *
210566 AACTGTTTTGACCAAATGATACGATTT-CTAGAGCATGGAATGCTCGAAAAATTGCTCGATGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
* * * * * *
210630 TAGATCGTCTTGAATACTTTATGCAATAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTT
130 TGGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
*
210695 GGAAGTTAC-TCCAAGAACCAAT
194 GGAAGTT-CGTCCAAGAACCAAG
* * * * * * * * *
210717 ATAGAAACAGTTCTTACGTAACTAAGTTTTTAATTCAAAGACTAGAAGTTTTTTACATAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* *
210782 AACTATTTAGACCAAATGATGCGATTT-CTCGAGTATGG-ATGTTCGAAAAATTGCTCGAAGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
* ** * * *
210845 TGTATCATCTTGAATACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAAGTTTGATAAGTTG
130 TGGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
** * * *
210910 GGAACATCATCTAGGAACCAAG
194 GGAAGTTCGTCCAAGAACCAAG
* * ** *
210932 AGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAATGATTAAAACTTGTTTACAAAATTACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* ** * * * * *
210997 AACTATTTAGACCAAATGATGCAATTTCCCAAGCATGGAATGTTCGAAAAATTACTCAAATGAGT
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
* * * * * *
211062 GGATCT-TTTTGTATAGTTTAAGGAACCGAAGTTAAAAAATAACTCGTAAAAGTTTGACAAGTTT
131 GGAT-TGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
* * * *
211126 GAAAGTTCATCCAAGAACAAAT
194 GGAAGTTCGTCCAAGAACCAAG
* * * *
211148 AGAGAAACAATTCTCACCTAAATAAGTTTTTAATTTATAGACCAAAATTTGTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * *
211213 AACTATTTAGACCAAATGATGCGATTT-CTCGAGCTTGGGATGTTCAGAAAATTGCTCGAAGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
* * * * * * * *
211277 TGGATCGTCTTGAATGCTTCAAAGAAGTGAAGTCA-AAAATAACTCG-AAAGAGTTTGACAAGTG
130 TGGATTGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTT
* **
211340 CGAAAGTTCGTCCATTAACC-A-
193 CGGAAGTTCGTCCAAGAACCAAG
* * * * * * *
211361 AGACAAAGAATTCTCACGTAAATAAGTTTTTAATTCAAAGTCTAAAGCTTGTTTAAAAAATGAAA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * *
211426 AACTATTTAGACCGAATGATGCAATTT-CTCGAGCATGGAATGTT-AGAAAAATTTCTCGAAGGA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCA-AAAAATTGCTCGAAGGA
* * * * * * *
211489 ATTGATTTTATTGAATACTTTAAGGATCTAAAGTTATAAAAGAACTCGTCAAAGTTTGACGAGTT
129 ATGGATTGTCTTGAATACTTTAAGGAAC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
*
211554 CGGAAGTTCGTCCAAGAACAAAG
193 CGGAAGTTCGTCCAAGAACCAAG
* * * * *
211577 AGA-AAGACAATTCTTAAGTAAGTAAGTTTTAAATTCAAAGACCAAAACTAGTTTACAAAATGAC
1 AGAGAA-ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGAC
* * ** * * *
211641 AAATTATTTAGTCCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTGCTGGGAGGAA
65 AAACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
* *
211706 TGGATTGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACACGTAAAAGTTTGACGAGTTC
130 TGGATTGTCTTGAATACTTTAAGGAAC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
**
211771 TAAAGTTCGT-CAATGAACCAAG
194 GGAAGTTCGTCCAA-GAACCAAG
* ** * * *
211793 AGATAAACAATTCTCGGGTTAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAATTGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * *
211858 AAATGTTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTC-AGTGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGA-AGGAA
** * * * * * *
211922 TATATCGTCTTGAATACTTTATGCAACAGAAGTTATAATAGAATTCATAAAAGTTTGACAAGTT-
130 TGGATTGTCTTGAATACTTTAAGGAAC-GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
* *
211986 TGAATTTCGTCCAAGAACCAAG
194 GGAAGTTCGTCCAAGAACCAAG
* * * * *
212008 AGAAAAACAATTTTCACGTAAATAAATTTTTAATTCAAAGACTAAAACTTATTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * *
212073 AACTATTTAGACCAAATGATGCGATTT-CTCGAGCATGTAATGTTCGAAAAATTGCTCGTAGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGAA
* * * * * * *
212137 TGGATCT-TTTTGAAAACTTTAAGGAACCAAAGTTA-AGAAGTAACTTGTAATAGTTTGAAAAGT
130 TGGAT-TGTCTTGAATACTTTAAGGAA-CGAAGTTATAAAAG-AACTCGTAAAAGTTTGACAAGT
* * * *
212200 GCGGAAGTTCGTCCTAG-AGCAAA
192 TCGGAAGTTCGTCCAAGAACCAAG
* ** * * * *
212223 AGATAAACAATTCTCGTGTAAGTAACTTTTTAATTAAAAGACCAAAA-TTGTGTTACAAAATGAT
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT-TTACAAAATGAC
* * *
212287 GAACTATTTAGACCAAATGATGCGATTT-CTCGAGCTTGGAATGTTCAGAAAATTGCTCGAAGGA
65 AAACTATTTAGACCAAATGATGCGATTTCCT-GAGCATGGAATGTTCAAAAAATTGCTCGAAGGA
* *
212351 ATGGATCGTCTTGAATATTTTAAGGAACTGAAGTTATAAAAGAACTCGTA
129 ATGGATTGTCTTGAATACTTTAAGGAAC-GAAGTTATAAAAGAACTCGTA
212401 GTAGTTGGCC
Statistics
Matches: 3698, Mismatches: 651, Indels: 217
0.81 0.14 0.05
Matches are distributed among these distances:
199 3 0.00
200 170 0.05
203 1 0.00
204 2 0.00
208 2 0.00
209 4 0.00
210 121 0.03
211 95 0.03
212 292 0.08
213 215 0.06
214 314 0.08
215 829 0.22
216 1525 0.41
217 124 0.03
218 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (215 bp):
AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
AACTATTTAGACCAAATGATGCGATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAAT
GGATTGTCTTGAATACTTTAAGGAACGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGG
AAGTTCGTCCAAGAACCAAG
Found at i:208537 original size:430 final size:431
Alignment explanation
Indices: 207728--212400 Score: 4848
Period size: 430 Copynumber: 10.9 Consensus size: 431
207718 ATGAGCAAAA
* * * * *
207728 AGAGAAATAATTCTCACGTTAGTAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAATTGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * * * *
207793 AACAATTTTGACCAAATGGTACGATTTTCCGAGCATGGAATGTTC-AGAAAATCGATC-AATGGA
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCTCGAA-GGA
* ** * *
207856 ATAGATCGGCTTGAATACTTTATA-CAACAAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
129 ATGGATCTTCTTGAATACTTTA-AGGAACTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * * *
207920 TTGGAAGTT-ACTCCAAGAACTAAGATAGAAACAATTCTCACGTTACTAAGGTTTTAATTCAAAG
193 TCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * * ** * *
207984 ACTAACAGTTTTTTACGTAATGACAAACTATTTAGACCAAATGATGTGATTTCCTGAGCATGGAA
257 ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
*
208049 TGTTCAAAAAATTGCTCGAAGGAATGGAT-TGTCTTGAATGCTTTAAGGAAGC-GAAGTTATAAA
322 TGTTCAAAAAATTGCTCGAAGGAATGGATCT-TCTTGAATACTTTAAGGAA-CTGAAGTTATAAA
* * *
208112 AGAACTCGTAAAAGTATGAGAAGTTCTGAAGTTTGTCCAAGAACCA-
385 AGAACTCGTAAAAGTTTGACAAGTTCTGAAGTTCGTCCAAGAACCAG
* * *
208158 AGAGAAACAATTCTCACTTAAAAAAGTTTTTAATTCAAAGACTAAAAACTTGTTTACAAAATGAC
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC-CAAAACTTGTTTACAAAATGAC
* * * *
208223 AAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCAAAAAATTTCTCGAAAGAA
65 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAA
* * * *
208288 TGGGTCTTCTTGAATACTTTAAGGAACTGAAGTTA-AAAATAACTTGTAAAAGTTTGACAAGTTC
130 TGGATCTTCTTGAATACTTTAAGGAACTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
** * *
208352 GAAAGTTTGTCCAAGAACAAAGAAAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
195 GAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* *
208417 AAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGT
260 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * *
208482 TCAAAAAATTTCTCGAAGGAATGGATCTTCTTGAATGCTTTTAGGAAGTGAAGTTATAAAAGAAC
325 TCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAAC
* * **
208547 TCGTTAAAGTTTGATAAGTTC-GAAAGTTCGTCCACA-AATTAAG
390 TCGTAAAAGTTTGACAAGTTCTG-AAGTTCGTCCA-AGAA-CCAG
* * * * *
208590 AGAGAAACATTTCTCACGAAAATAAGTTTTTAATTCAAAGGCTAAAACATGTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * *
208655 AACTATTTAGACCAAAGGATGCAATTTCCCGAGCAT---A-GTTC-AGAAAATTGCACAAAGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAA
** * * *
208715 TGGATAGTCTTGAATACGTTAAGGAACTAATGTTATAAAAGAACTCGTAAAAGATTT-AAAAGTT
130 TGGATCTTCTTGAATACTTTAAGGAACTAAAGTTATAAAAGAACTCGTAAAAG-TTTGACAAG-T
* * * *
208779 TTG-AAGTTCATCCAAGAACC-A-AGAGAAACAATTCTAACTTAAGTAAGTTTTTAATTCAAAGA
193 TCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * ** * *
208841 CTAAAACTTGTTTACAAAATGACAAACTATTTGGACCAAAAAATGTGATTTCTCGAGCATGGAAT
258 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * * * * * *
208906 GTTCAAAAAATTGCTCGAAAGAATGAATCTTCTTGTATACTTTAAGAAACCGAAGTTAAAAAATA
323 GTTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGA
* *
208971 ACTTGTAAAAGTTTGACAAGTTC-GAAAGTTCGTCCAAGAACAAAG
388 ACTCGTAAAAGTTTGACAAGTTCTG-AAGTTCGTCCAAGAAC-CAG
* **
209016 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTATATTATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * *
209081 AACTGTTTAGACC---T-A----A--T------CATGGACTGCTCGAAAAATAGCTC-AATGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAA-GGAA
* * * *
209129 TAGATCTTCTTGAATACTTTAAGCAAC-AGAAGTTATAAAAAAACTCGTAAAAGTTTGAGAAGTT
130 TGGATCTTCTTGAATACTTTAAGGAACTA-AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
*
209193 CGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACCTAAATAAGTTTTTAATTCAAAGAC
194 CGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * ***
209258 CAAAACTTTTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATTGAGCA
259 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* *
209323 TTCAAAAAATTGCTC-AGAGGAATGAATCATCTTGAATACTTTAAGGAA-TCGAAGTTATAAAAG
324 TTCAAAAAATTGCTCGA-AGGAATGGATCTTCTTGAATACTTTAAGGAACT-GAAGTTATAAAAG
* * * *
209386 AACTCGTAAATGTTAGACAAGTTC-GAAAGTTCATCCATGAACCAAG
387 AACTCGTAAAAGTTTGACAAGTTCTG-AAGTTCGTCCAAGAACC-AG
* * *
209432 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTAT-TTTACAAAATAAT
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACT-TGTTTACAAAATGAC
* * * *
209496 AAACTATTTAGACCAAATGATGCGATTTCCCGGGCACGAAATGTTTGAAAAATTGCTCGAAGGGA
65 AAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAA-GGA
* * * * *
209561 ATGGATCATCTTGAATACTTTAAGGAACCAAAGTTATATAAGAACTCGTACAAGTTTGACTAGTT
129 ATGGATCTTCTTGAATACTTTAAGGAACTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * *
209626 TGGAAGTT-ACTCCAAGAACC-A-AGAG-AACAATTCTCATGTAAATAAATTTTTAATTCAAAGA
194 CGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* ** * * * *
209687 CCAAAACTTATTTACATTATGACAAACTATTTAGACCAAATTATTCTATTTCCTGAGCATGGAAT
258 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
** * * * *
209752 GTTCAAAAAATTGCTCGAAGGAATATAT-TGTCTTGCATTCTTTAAGGAAGTGAAGTTATAAATG
323 GTTCAAAAAATTGCTCGAAGGAATGGATCT-TCTTGAATACTTTAAGGAACTGAAGTTATAAAAG
* * * * *
209816 AACTTGTAAAAGTTTAACAAGTGCAGGAGTTCGTCCAAGAACCAAG
387 AACTCGTAAAAGTTTGACAAGTTCTGAAGTTCGTCCAAGAACC-AG
* * * * * * *
209862 AGATAAACAATTCTCATGTAAATAAGTTTTTATTTAAAAGACCAAAACTTTTTTAAAAAATGACG
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * * *
209927 AACTATTTAGACCAAATGATGCGGTTTCTCGAGCTTGAAATGTTTGGAAAATTGCTCGAAGGAAT
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
** ** * * *
209992 TAATCACCTTGAATACTTTAAGGAATTGAAGTTATAAAAGAACTTGTAAAAAGTTTGACAAGTTC
131 GGATCTTCTTGAATACTTTAAGGAACTAAAGTTATAAAAGAACTCGT-AAAAGTTTGACAAGTTC
* * * *
210057 GGAAGTTCATCAAAGAACCAAGAGAG--ACAATTCTCAAGTAAATAAGTTTCTAATTCAAAGACC
195 GAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * * * * *
210120 AAGACTTGTTTACAAAATGA-AAA--A-CTAGACTAAATGATGCAATTTCTCGAGCATGGAGTGT
260 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
** * * *
210181 TTGAAAAATTACTCGAAAGAATGGATCATCTTGAATACTTTAAGGAAGCT-AAGTTATAAAAGAA
325 TCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAA-CTGAAGTTATAAAAGAA
* ** * ** *
210245 CTTG-AAAGAGTTTGACAAGGGCGGAAGTTTATCCATGAACCAAG
389 CTCGTAAA-AGTTTGACAAGTTCTGAAGTTCGTCCAAGAACC-AG
* * * * * *
210289 AGAGAAACAATTCTCAAGGAAATAAGTTTTTTATTCAAAGGCCGAAACGTGTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * * * * * *
210354 AACTATTTAGACCAAAGGATACGATTTCCCGAGCAT-G---GTTCTG-GAAGTTGCACAAAGAAA
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTC-GAAAAATTGCTCGAAGGAA
** * * * *
210414 TGGAT-TGTCTAAAATA-TGTTAAGAAACCAAAGTAATAAAAGAACACGTAAAAGTTTGACAAGT
130 TGGATCT-TCTTGAATACT-TTAAGGAACTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* ** * * * * * *
210477 TCGAAAGTTCATCCATGAAATAATAGAGAAATAATTCTCACTTTAATAAGATTTTAATTCGAAGA
193 TCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * * **
210542 CCAAAACTTGTTTATAAATTGACAAACTGTTTTGACCAAATGATACGATTTCTAGAGCATGGAAT
258 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * * * * * *
210607 GCTCGAAAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTATGCAA-TAGAAGTTATAAAAG
323 GTTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACT-GAAGTTATAAAAG
*
210671 AACTCGTAAAAGTTTGACAAGTT-TGGAAGTTAC-TCCAAGAACCAAT
387 AACTCGTAAAAGTTTGACAAGTTCT-GAAGTT-CGTCCAAGAACC-AG
* * * * * * * * *
210717 ATAGAAACAGTTCTTACGTAACTAAGTTTTTAATTCAAAGACTAGAAGTTTTTTACATAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* *
210782 AACTATTTAGACCAAATGATGCGATTTCTCGAGTATGG-ATGTTCGAAAAATTGCTCGAAGGAAT
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
* * * *
210846 GTATCATCTTGAATACTTTAAGGAAGC-AAAGTTATAAAAGAACTCGTAAAAGTTTGATAAGTTG
131 GGATCTTCTTGAATACTTTAAGGAA-CTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC
* ** * * * * **
210910 GGAACATCATCTAGGAACCAAGAGAGAAACAATTCTCACATAAATAAGTTTTTAATTCAATGATT
195 GAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
* * *
210975 AAAACTTGTTTACAAAATTACAAACTATTTAGACCAAATGATGCAATTTCCCAAGCATGGAATGT
260 AAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGT
* * * * * * * * * * *
211040 TCGAAAAATTACTCAAATGAGTGGATCTTTTTGTATAGTTTAAGGAACCGAAGTTAAAAAATAAC
325 TCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAAC
* * *
211105 TCGTAAAAGTTTGACAAGTT-TGAAAGTTCATCCAAGAACAAAT
390 TCGTAAAAGTTTGACAAGTTCTG-AAGTTCGTCCAAGAAC-CAG
* * * *
211148 AGAGAAACAATTCTCACCTAAATAAGTTTTTAATTTATAGACCAAAATTTGTTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * *
211213 AACTATTTAGACCAAATGATGCGATTTCTCGAGCTTGGGATGTTC-AGAAAATTGCTCGAAGGAA
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAA
* * * * * * * * *
211277 TGGATCGTCTTGAATGCTTCAAAGAAGTGAAGTCA-AAAATAACTCG-AAAGAGTTTGACAAGTG
130 TGGATCTTCTTGAATACTTTAAGGAACTAAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTT
* ** * * *
211340 CGAAAGTTCGTCCATTAACC-A-AGACAAAGAATTCTCACGTAAATAAGTTTTTAATTCAAAGTC
194 CGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * * * *
211403 TAAAGCTTGTTTAAAAAATGAAAAACTATTTAGACCGAATGATGCAATTTCTCGAGCATGGAATG
259 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * * * * *
211468 TT-AGAAAAATTTCTCGAAGGAATTGATTTTATTGAATACTTTAAGGATCTAAAGTTATAAAAGA
324 TTCA-AAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGA
* * * *
211532 ACTCGTCAAAGTTTGACGAGTTCGGAAGTTCGTCCAAGAA-CAA
388 ACTCGTAAAAGTTTGACAAGTTCTGAAGTTCGTCCAAGAACCAG
* * * * *
211575 AGAGAAAGACAATTCTTAAGTAAGTAAGTTTTAAATTCAAAGACCAAAACTAGTTTACAAAATGA
1 AGAG-AA-ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGA
* * * * *
211640 CAAATTATTTAGTCCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTGCTGGGAGGA
64 CAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGA
* * *
211705 ATGGAT-TGTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACACGTAAAAGTTTGACGAGT
129 ATGGATCT-TCTTGAATACTTTAAGGAACTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * ** * *
211769 TCTAAAGTTCGT-CAATGAACCAAGAGATAAACAATTCTCGGGTTAATAAGATTTTAATTCAAAG
193 TCGAAAGTTCATCCAA-GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * *
211833 ACCAAAACTTGTTTACAAATTGACAAAATGTTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
257 ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
* * ** * * * * *
211898 TGTTCGAAAAATTGCTC-AGTGGAATATATCGTCTTGAATACTTTATGCAACAGAAGTTATAATA
322 TGTTCAAAAAATTGCTCGA-AGGAATGGATCTTCTTGAATACTTTAAGGAACTGAAGTTATAAAA
* * *
211962 GAATTCATAAAAGTTTGACAAGTT-TGAATTTCGTCCAAGAACCAAG
386 GAACTCGTAAAAGTTTGACAAGTTCTGAAGTTCGTCCAAGAACC-AG
* * * * *
212008 AGAAAAACAATTTTCACGTAAATAAATTTTTAATTCAAAGACTAAAACTTATTTACAAAATGACA
1 AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
* * *
212073 AACTATTTAGACCAAATGATGCGATTTCTCGAGCATGTAATGTTCGAAAAATTGCTCGTAGGAAT
66 AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
* * * * * * * *
212138 GGATCTTTTTGAAAACTTTAAGGAACCAAAGTTA-AGAAGTAACTTGTAATAGTTTGAAAAGTGC
131 GGATCTTCTTGAATACTTTAAGGAACTAAAGTTATAAAAG-AACTCGTAAAAGTTTGACAAGTTC
* * * * * * ** * * *
212202 GGAAGTTCGTCCTAG-AGCAAAAGATAAACAATTCTCGTGTAAGTAACTTTTTAATTAAAAGACC
195 GAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACC
** * *
212266 AAAA-TTGTGTTACAAAATGATGAACTATTTAGACCAAATGATGCGATTTCTCGAGCTTGGAATG
260 AAAACTTGT-TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * *
212330 TTCAGAAAATTGCTCGAAGGAATGGATCGTCTTGAATATTTTAAGGAACTGAAGTTATAAAAGAA
324 TTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAA
212395 CTCGTA
389 CTCGTA
212401 GTAGTTGGCC
Statistics
Matches: 3520, Mismatches: 611, Indels: 224
0.81 0.14 0.05
Matches are distributed among these distances:
410 3 0.00
413 9 0.00
414 80 0.02
415 3 0.00
416 255 0.07
417 1 0.00
418 1 0.00
419 1 0.00
420 1 0.00
422 39 0.01
423 47 0.01
424 49 0.01
425 4 0.00
426 263 0.07
427 248 0.07
428 233 0.07
429 370 0.11
430 781 0.22
431 775 0.22
432 276 0.08
433 80 0.02
434 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (431 bp):
AGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACA
AACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAAT
GGATCTTCTTGAATACTTTAAGGAACTAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCG
AAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCA
AAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTT
CAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACTGAAGTTATAAAAGAACT
CGTAAAAGTTTGACAAGTTCTGAAGTTCGTCCAAGAACCAG
Found at i:211095 original size:431 final size:431
Alignment explanation
Indices: 209098--212400 Score: 3461
Period size: 431 Copynumber: 7.7 Consensus size: 431
209088 TAGACCTAAT
* * * * *
209098 CATGGACTGCTCGAAAAATAGCTC-AATGGAATAGATCTTCTTGAATACTTTAAGCAA-CAGAAG
1 CATGGA-TGTTCGAAAAATTGCTCGAA-GGAATGGATCATCTTGAATACTTTAAGGAACCA-AAG
* * *
209161 TTATAAAAAAACTCGTAAAAGTTTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAA
63 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAA
* *
209226 TTCTCACCTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTTTACAAAATGACAAACTATTTAG
128 TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG
* *** * * * *
209291 ACCAAATGATGCGATTTCCCGAGCATTGAGCATTCAAAAAATTGCTCAGAGGAATGAATCATCTT
193 ACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTT
* * * * *
209356 GAATACTTTAAGGAATCGAAGTTATAAAAGAACTCGTAAATGTTAGACAAGTTCGAAAGTTCATC
258 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTC
* * *
209421 CATGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTATTTT
323 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTTT
* * * *
209486 ACAAAATAATAAACTATTTAGACCAAATGATGCGATTTCCCGGG
388 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
* * *
209530 CACGAAATGTTTGAAAAATTGCTCGAAGGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGT
1 CATG-GATGTTCGAAAAATTGCTCGAA-GGAATGGATCATCTTGAATACTTTAAGGAACCAAAGT
* * * *
209595 TATATAAGAACTCGTACAAGTTTGACTAGTTTGGAAGTT-ACTCCAAGAACC-A-AGAG-AACAA
64 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCA-TCCAAGAACCAAGAGAGAAACAA
* * * **
209656 TTCTCATGTAAATAAATTTTTAATTCAAAGACCAAAACTTATTTACATTATGACAAACTATTTAG
128 TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG
* * * * * * ** *
209721 ACCAAATTATTCTATTTCCTGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATATATTGTCTT
193 ACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTT
* * ** * * * *
209786 GCATTCTTTAAGGAAGTGAAGTTATAAATGAACTTGTAAAAGTTTAACAAGTGCAGG-AGTTCGT
258 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTC-GGAAGTTCGT
* * * *
209850 CCAAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTATTTAAAAGACCAAAACTTTTT
322 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTT
* * *
209915 TAAAAAATGACGAACTATTTAGACCAAATGATGCGGTTTCTCGAG
387 TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
* * * * ** * ***
209960 CTTGAAATGTTTGGAAAATTGCTCGAAGGAATTAATCACCTTGAATACTTTAAGGAATTGAAGTT
1 CATG-GATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTT
* *
210025 ATAAAAGAACTTGTAAAAAGTTTGACAAGTTCGGAAGTTCATCAAAGAACCAAGAGAG--ACAAT
65 ATAAAAGAACTCGT-AAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAAT
* * * *
210088 TCTCAAGTAAATAAGTTTCTAATTCAAAGACCAAGACTTGTTTACAAAATGA-AAA--A-CTAGA
129 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
* * * * * * *
210149 CTAAATGATGCAATTTCTCGAGCATGGAGTGTTTGAAAAATTACTCGAAA-GAATGGATCATCTT
194 CCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTC-AAAGGAATGGATCGTCTT
* * * ** **
210213 GAATACTTTAAGGAAGCTAAGTTATAAAAGAACTTG-AAAGAGTTTGACAAGGGCGGAAGTTTAT
258 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAA-AGTTTGACAAGTTCGGAAGTTCGT
* * * * * * * *
210277 CCATGAACCAAGAGAGAAACAATTCTCAAGGAAATAAGTTTTTTATTCAAAGGCCGAAACGTGTT
322 CCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTT
* * *
210342 TACAAAATGACAAACTATTTAGACCAAAGGATACGATTTCCCGAG
387 TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
* * * * * ** ** *
210387 CAT-G--GTTCTG-GAAGTTGCACAAAGAAATGGATTGTCTAAAATA-TGTTAAGAAACCAAAGT
1 CATGGATGTTC-GAAAAATTGCTCGAAGGAATGGATCATCTTGAATACT-TTAAGGAACCAAAGT
* * * * ** * *
210447 AATAAAAGAACACGTAAAAGTTTGACAAGTTCGAAAGTTCATCCATGAAATAATAGAGAAATAAT
64 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAAT
* * * * * * * *
210512 TCTCACTTTAATAAGATTTTAATTCGAAGACCAAAACTTGTTTATAAATTGACAAACTGTTTTGA
129 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
* ** * * * *
210577 CCAAATGATACGATTTCTAGAGCATGGAATGCTCGAAAAATTGCTCGATGGAATAGATCGTCTTG
194 CCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTTG
* * ** *
210642 AATACTTTATGCAATAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTTAC-TC
259 AATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTT-CGTC
* * * * * * * *
210706 CAAGAACCAATATAGAAACAGTTCTTACGTAACTAAGTTTTTAATTCAAAGACTAGAAGTTTTTT
323 CAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTTT
*
210771 ACATAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
388 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
* * *
210815 TATGGATGTTCGAAAAATTGCTCGAAGGAATGTATCATCTTGAATACTTTAAGGAAGCAAAGTTA
1 CATGGATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTTA
* * ** * *
210880 TAAAAGAACTCGTAAAAGTTTGATAAGTTGGGAACATCATCTAGGAACCAAGAGAGAAACAATTC
66 TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTC
* * ** *
210945 TCACATAAATAAGTTTTTAATTCAATGATTAAAACTTGTTTACAAAATTACAAACTATTTAGACC
131 TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
* * * * * * * *
211010 AAATGATGCAATTTCCCAAGCATGGAATGTTCGAAAAATTACTCAAATGAGTGGATCTTTTTGTA
196 AAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTTGAA
* * * * * *
211075 TAGTTTAAGGAACCGAAGTTAAAAAATAACTCGTAAAAGTTTGACAAGTTTGAAAGTTCATCCAA
261 TACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAA
* * * * *
211140 GAACAAATAGAGAAACAATTCTCACCTAAATAAGTTTTTAATTTATAGACCAAAA-TTTGTTTAC
326 GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTT-TTTAC
211204 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
390 AAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
* * * * * ***
211246 CTTGGGATGTTC-AGAAAATTGCTCGAAGGAATGGATCGTCTTGAATGCTTCAAAGAAGTGAAGT
1 CAT-GGATGTTCGA-AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGT
* * * * * ** * *
211310 CA-AAAATAACTCG-AAAGAGTTTGACAAGTGCGAAAGTTCGTCCATTAACC-A-AGACAAAGAA
64 TATAAAAGAACTCGTAAA-AGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAA
* * * * *
211371 TTCTCACGTAAATAAGTTTTTAATTCAAAGTCTAAAGCTTGTTTAAAAAATGAAAAACTATTTAG
128 TTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG
* * * * * * * ** *
211436 ACCGAATGATGCAATTTCTCGAGCATGGAATGTTAGAAAAATTTCTCGAAGGAATTGATTTTATT
193 ACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTT
* ** * *
211501 GAATACTTTAAGGATCTAAAGTTATAAAAGAACTCGTCAAAGTTTGACGAGTTCGGAAGTTCGTC
258 GAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTC
* * * * * **
211566 CAAGAACAAAGAGA-AAGACAATTCTTAAGTAAGTAAGTTTTAAATTCAAAGACCAAAACTAGTT
323 CAAGAACCAAGAGAGAA-ACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTT
* * * *
211630 TACAAAATGACAAATTATTTAGTCCAAATGATGCGATTTCCCAAG
387 TACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
* * ** **
211675 CATGGAATGTTCGAAAAATTGCTGGGAGGAATGGATTGTCTTGAATACTTTAAGGAACTGAAGTT
1 CATGG-ATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTT
* * ** * *
211740 ATAAAAGAACACGTAAAAGTTTGACGAGTTCTAAAGTTCGT-CAATGAACCAAGAGATAAACAAT
65 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAA-GAACCAAGAGAGAAACAAT
** * * * * *
211804 TCTCGGGTTAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAATTGACAAAATGTTTAGA
129 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGA
** **
211869 CCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAGTGGAATATATCGTCTTG
194 CCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTTG
* * * * * * * *
211934 AATACTTTATGCAACAGAAGTTATAATAGAATTCATAAAAGTTTGACAAGTT-TGAATTTCGTCC
259 AATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCC
* * * * *
211998 AAGAACCAAGAGAAAAACAATTTTCACGTAAATAAATTTTTAATTCAAAGACTAAAACTTATTTA
324 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTTTA
212063 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
389 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
* * * * *
212106 CATGTAATGTTCGAAAAATTGCTCGTAGGAATGGATCTTTTTGAAAACTTTAAGGAACCAAAGTT
1 CATG-GATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTT
* * * * * * * * * *
212171 A-AGAAGTAACTTGTAATAGTTTGAAAAGTGCGGAAGTTCGTCCTAG-AGCAAAAGATAAACAAT
65 ATAAAAG-AACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAAT
** * * * **
212234 TCTCGTGTAAGTAACTTTTTAATTAAAAGACCAAAA-TTGTGTTACAAAATGATGAACTATTTAG
129 TCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT-TTACAAAATGACAAACTATTTAG
* * *
212298 ACCAAATGATGCGATTTCTCGAGCTTGGAATGTTC-AGAAAATTGCTCGAAGGAATGGATCGTCT
193 ACCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA-AAAATTGCTCAAAGGAATGGATCGTCT
* *
212362 TGAATATTTTAAGGAACTGAAGTTATAAAAGAACTCGTA
257 TGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTA
212401 GTAGTTGGCC
Statistics
Matches: 2359, Mismatches: 464, Indels: 98
0.81 0.16 0.03
Matches are distributed among these distances:
422 38 0.02
423 47 0.02
424 48 0.02
425 3 0.00
426 5 0.00
427 194 0.08
428 201 0.09
429 369 0.16
430 517 0.22
431 623 0.26
432 236 0.10
433 76 0.03
434 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (431 bp):
CATGGATGTTCGAAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCAAAGTTA
TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTC
TCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC
AAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCAAAGGAATGGATCGTCTTGAA
TACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGTCCAA
GAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTTTTTACA
AAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAG
Found at i:215921 original size:21 final size:19
Alignment explanation
Indices: 215861--215918 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 19
215851 AACAACTCTC
215861 TTTTTTTTCTCTCATTTCT
1 TTTTTTTTCTCTCATTTCT
*
215880 TTTTTTATTCTCTCAAATTCT
1 TTTTTT-TTCTCTC-ATTTCT
*
215901 TTTATTTTTCGCTCATTT
1 TTT-TTTTTCTCTCATTT
215919 TCTCTCATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 6 0.18
20 10 0.30
21 14 0.42
22 3 0.09
ACGTcount: A:0.12, C:0.19, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTTCTCTCATTTCT
Found at i:218709 original size:215 final size:215
Alignment explanation
Indices: 218306--218913 Score: 660
Period size: 215 Copynumber: 2.9 Consensus size: 215
218296 TTGCATCAAT
* *
218306 ACTTTAAGGAACCGAAGTTA-AAAAGTAA-TTGTAAAAGTTTGACAAGTTTGGAAGTTCGTCCAA
1 ACTTTAAGGAACCGAAGTTATAAAAG-AACTCGTAAAAGTTTGACAAG-TTGGAAGTTTGTCCAA
** * * * *
218369 GAATAAAGAGAGAAACAATTCTCACTTTAA-AAAGTTTTAATTCAAAGACCAAATA-TTGTTTAC
64 GAACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTTAATTCAAAGA-CAAAAACTTGTTTAC
* * * **
218432 AAAATGACAAACTATTTAGATCAAATGATGTGATTTCCCAAGCATGGAATGTTCAGAAAATTGCT
128 AAAATGACAAACTATTTAGATCAAATGATGCGATTTCTCGAGCATGGAATGTTTGGAAAATTGCT
** *
218497 CAAACGAATGGATGAACTTGAAC
193 CAAACGAACAGATCAACTTGAAC
** *
218520 ACTTTAAGGAAGAGAAGTTATAAAAGAACTCGAAAAAGTTTGACAAGTTCGGAAGTTTGTCCAAG
1 ACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT-GGAAGTTTGTCCAAG
* * *
218585 AACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTTATTTCAAGGACAAAAACCTGTTTACAA
65 AACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTTAATTCAAAGACAAAAACTTGTTTACAA
* * * * *
218650 ATTGACATACTGTTTA-AGCCAAAT-ATGCGATTTCTCGAGCATGGAATGTTTGGAAAATTGCTT
130 AATGACAAACTATTTAGA-TCAAATGATGCGATTTCTCGAGCATGGAATGTTTGGAAAATTGCTC
* * * *
218713 GAAGGAACAGATCATCTTGAAT
194 AAACGAACAGATCAACTTGAAC
* * *
218735 ACTTTAAGGAATCGTAGTTATAAAAGAACTCGTAAAAGTTTG-C-A-----AA---T-T-CGA-A
1 ACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTGGAAGTTTGTCCAAGA
* * * * * *
218787 ACCAAGAGAGAAACAATTCACATGTAAATAAGTTTTTAATTCAATGACTAAAACTTTTTTACAAA
66 ACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTTAATTCAAAGACAAAAACTTGTTTACAAA
* *
218852 ATGACAAACTATTTAGATCAAATGATGCAATTTCTCGAGCATGGAATGTTTGCAAAATTGCT
131 ATGACAAACTATTTAGATCAAATGATGCGATTTCTCGAGCATGGAATGTTTGGAAAATTGCT
218914 TGAAAGGTAT
Statistics
Matches: 336, Mismatches: 50, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
201 75 0.22
202 39 0.12
203 1 0.00
204 1 0.00
207 2 0.01
213 1 0.00
214 23 0.07
215 152 0.45
216 42 0.12
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (215 bp):
ACTTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTGGAAGTTTGTCCAAGA
ACCAAGAGAGAAACAATTCTCACGTAAATAAATTTTTAATTCAAAGACAAAAACTTGTTTACAAA
ATGACAAACTATTTAGATCAAATGATGCGATTTCTCGAGCATGGAATGTTTGGAAAATTGCTCAA
ACGAACAGATCAACTTGAAC
Found at i:219405 original size:216 final size:216
Alignment explanation
Indices: 218961--220771 Score: 1920
Period size: 216 Copynumber: 8.4 Consensus size: 216
218951 AAAGTTATGT
* * * * *
218961 AAGAACCAAGGGAGAAACAATTGTCACGGAAATAAGTTTTTAATTTAAAGACCAAAACTTCTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * *
219026 CAAAATGACAAACTATTTAGA-AAAGAGGTTGCGATTTCACAAGCAT-G---GTTCGAAAAATTG
66 CAAAATGACAAACTATTTAGACCAA-ATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTG
* * * * * * * * *
219086 CACGAAGGAATGGATAGTGTAGAATACGTTAAGGGACCAAAAAGCTATAAAAGAACTTGTAAAAG
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAA-GGAAC-AGAAGTTATAAAAGAACTCGTAAAAG
*
219151 TTTGACAAGTT-GGAAAGTTCATCC
193 TTTGACAAGTTCGG-AAGTTCGTCC
* * * * * * * * *
219175 ATGGACCAAGAGAGAAACAATTATAAGGTTAATAAGATTTTAATTGAAAGTCCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * *
219240 CAAATTGAGAATCTGTTTAGACCAAATGATACAATTTCCCAAGCATGGAATGTTCAAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTGC
* * * * *
219305 TTGATGGAATAGATCGTCTTGAATACTTTAAGCAACAGAAGTTATAAAAGAGCTCGTAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
***
219370 GACAAGTTTAAAAGTTCGTCCC
196 GACAAGTTCGGAAGTTCGT-CC
* *
219392 AA-AACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACGTATTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * *
219456 CAAAATGAGAAACTATTTAGACCAAATGATGCGATTTCCCAAGAATGGATTGTTTGGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTGC
* * * * * *
219521 TCGAAGGAGTGGATCTTCTTGAATACTTGAAGGAAGC-GAAGTTAGAAAAGATCTCCTAATAA-T
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAACTCGTAA-AAGT
* *
219584 TTGACATGTTCAGAAGTTCGTCC
194 TTGACAAGTTCGGAAGTTCGTCC
* * * * * * * *
219607 ATGCACCAAGAGAGAAATAATTCTCAAGTAAATAAGTTTTTAATTTAAAGTCTAAAACTTATTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * ** * * *
219672 -AAGAATGACAGACTATTTAGACCAAATGATGCGATTTCCCTAGTGTGCAGTGTTCAAAAAATTG
66 CAA-AATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTG
* * * *
219736 CTCGAAGGAATCGATCGTCTTGAATAGTTTAAGGATCCA-AAGTTATAAAA-AACTAGTAAAAGT
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGA-ACAGAAGTTATAAAAGAACTCGTAAAAGT
* *
219799 TTGACAAGTTCGGAAGTTCATCT
194 TTGACAAGTTCGGAAGTTCGTCC
**
219822 AAGAATAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * *
219887 CAAAATGACAAACTATTTAGACCAAATGATACGATTTCCCTAGCATGGAATGTTTGAGAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTGC
* * * * * * * * *
219952 TCGATGGAATGGATCTTGTTGAATACTTTAAGGAACCGAAATTAAAAAATAACTCATTATAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTC-GTAAAAGTT
*
220017 TCACAAGTTCGGAAGTTCGTCC
195 TGACAAGTTCGGAAGTTCGTCC
*
220039 AAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA-CAAAAGCTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA-CTTGTTT
* * * * *
220103 ACAAAATAACAAACTATTTAGACCAAATGATGCAATTTACCGAGCATGGAATGTTCGAAAAATTA
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTG
* * * ** * * *
220168 CTCAAAGGATTGGACCAACTTGAATTCTTTAAGGAAGC-GAAGTTATTAAAGATCTTC-TAAAAG
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAAC-TCGTAAAAG
* *
220231 TTTAACAAGTTCGAAAGTTCGTCC
193 TTTGACAAGTTCGGAAGTTCGTCC
* * * * *
220255 ATGAACCAAGAGAGAAACAATTCTCGCGTAAATAAGTTTTTGATTAAAAGACTTAAAA-TTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC-CAAAACTTGTTT
* * * *
220319 ACAAAATGACAAACTATGTAGATCAAATGATGCGATTTTCCAAGCATGGAATTTTCGAAAAATTG
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTG
* * * * *
220384 CTCGAAGGAATGTATCGTCTTAAATACATCAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGTT
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTT
* *
220449 TGACAAGTTTGGAAGTTCGTCT
195 TGACAAGTTCGGAAGTTCGTCC
* * * * *
220471 AAGAACCAAGAGAGAAACAATTCACACGTAAATAAATTTTTCATTCAAAGACTAAAACTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
220536 CAAAATGAGAAACAATTTTGACCAAATGATACGATTTCACGAACGC--GAAATGTTC-AGAAAAT
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CCAA-GCATGGAATGTTCGA-AAAAT
** * * * * * * *
220598 AACTCAAAAGGAATGAATCGTCTTG-A-ACATTAAGGATCCA-AATTTATATAAGAACTCGTACA
128 TGCTC-GAAGGAATGGATCGTCTTGAATACTTTAAGGA-ACAGAAGTTATAAAAGAACTCGTAAA
* *
220660 AGTTTAACAAGTGCGGAAGTTCGTCC
191 AGTTTGACAAGTTCGGAAGTTCGTCC
* * * *
220686 AAGAACCAAGAGAGAAACAATTCTCAAGGAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTG
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
220751 CAAAATGACAAACTATTTAGA
66 CAAAATGACAAACTATTTAGA
220772 AAGTTGAACG
Statistics
Matches: 1329, Mismatches: 237, Indels: 61
0.82 0.15 0.04
Matches are distributed among these distances:
214 89 0.07
215 315 0.24
216 673 0.51
217 207 0.16
218 45 0.03
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (216 bp):
AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCAAGCATGGAATGTTCGAAAAATTGC
TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
GACAAGTTCGGAAGTTCGTCC
Found at i:221204 original size:216 final size:217
Alignment explanation
Indices: 220788--226882 Score: 6795
Period size: 216 Copynumber: 28.2 Consensus size: 217
220778 AACGATGGGT
* * * * * * *
220788 TGGATAATCTTGAATACGTTAAGGAACCAAAAAGCTATAAAAGAACTCGTAAAACTTTAACAAGT
1 TGGATCATCTTGAATACTTTAAGGAAGC-AGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * * *
220853 TCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAGGTTAACAAGATTTTAAATCAAAGA
65 TCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * *
220918 CCAAAACTTGTTTACAAATTGACAAACTGTTTAGACCAAATGATGCAATTTCCTGAGCATAGAAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* * *
220983 CTTCAAAAAATTGCTCGATGGAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * *
221006 TAGATCGTCTTGAATACTTTAAGCAA-CAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* *
221070 TGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * *
221135 CAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAGTC
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
*
221200 TTCAAAAAATTGCTC-AATGGAA
196 TTCGAAAAATTGCTCGAA-GGAA
* * * * *
221222 TGGATCTTGTTGAATACTTTAAGGAA-CCGAAGTTAAAAAATAACTCGTAAAAGTTTGACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * *
221286 CGGAAGTTAGTCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTAAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* ** * *
221351 CAAAACTTTGTTTTACAAAATGACAAACTATTTAGGCCAAATGATGCGATTTCTTGAGCTTGGAT
131 CAAAAC-TTG-TTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
221416 TGTTC-AACAAATTGCTCGAAGGAA
194 TGTTCGAA-AAATTGCTCGAAGGAA
* ** * * *
221440 TGGATCATCTTGAACACTTTAAGGAA-TTGAAGTTATAAAAGAACTTGTAAAATTTTAACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * * * * *
221504 CGGAAGTTCGTCAAAAAATCAA-ACAAGAAA-AATTCTCACGTAAATAACTTTTCAATTTAAAGA
66 CGAAAGTTCGTCCAAGAACCAAGA-GAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
** ** * * * * *
221567 CCATGACTTACTTACGAAATGACAAACTATTTAGACTAAATGATGCAATTT-CCGAGTATGGGAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* **
221631 GTTCGAAAAATTACTCGAAAAAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * *
221654 TGGATCATCTTGAATACTTTAAGGAAGC-GAAGTTATAAAAGAACTTGTAAAAGTATGATAAGTA
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT-
* * * * * *
221718 TAG-AAGTTTC-TCCACGAACCAATAGAGAGACAATTCTCACGAAAATAAGTTTTTAATTTAAAG
65 TCGAAAG-TTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * ** *
221781 ACCAAAACTTGTTTACTAAATGGCAAACTATTTAGACCAAAGGATGTAATTTCTCGAGCAT---A
129 ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
* * *
221843 -GTTCCG-AATATTGCACGGAGGAA
194 TGTT-CGAAAAATTGCTCGAAGGAA
* * * *
221866 TGAATCAT-TGTGAATACGTTAAGGAACCA-AAGTTATAAAAGAACTCGTAAAAGTTTGACTAGT
1 TGGATCATCT-TGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * *
221929 TCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCACGTTAATAAGATTTAAATTGAAAGA
65 TCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
221994 CCAAAACTTGTTTACAAATTGACAAACTGTTTCGACCAAATGATGCAATTTCCCGAGCATGGAAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
222059 GTTC-AAAAATTGCTCGATGGAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * *
222081 TAGATCGTCTTGAATACTTTAAGCAA-CAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
** * *
222145 TAAAAGGTT-GTCCAAGAACCAAGAGAGAAACAATTCTGACGTAAATAAGTTTTTAATTCAACGA
66 CGAAA-GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
222209 CCAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATGCTATTTCCCAAGAATGGAAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
222274 CTTCGAAAAATTGCTCGAAGGAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * * * * * * *
222297 TGGATCAACTGGAACACCTTAAGGAAGC-GAAGTTATAAAAGAACTAGTAAAATTTTGAGATGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * *
222361 CGAAAGTTCGTCCAAGAACCAAGAGGGAAAAAATTCTCACATAAATAAGTTTTTAATTCAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * *
222426 TAAAACTTCTTTACAAATTGACAAACTATTTAAACCAAATGATGCGATTTCCCGAGCATGGAATG
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
222491 TTCGAAAAATTGCTCGAAGGAA
196 TTCGAAAAATTGCTCGAAGGAA
* * * * *
222513 TAGATCGTCTTGAATAATTTAAGGAAGC-GAAGTTATAAATGAACTCGTAAAAGTTTAACAAGTG
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT-
* * * * * *
222577 T-GGACG-TCGTCCAAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTAATTAAAAAA
65 TCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * *
222640 CCAAAACTT-TGTTACAAAATGAAAAACTATTTAGGCCAAATGATGCGATTTCTCGAGCTTGGAT
130 CCAAAACTTGT-TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
*
222704 TGTTCAAAAAATTGCTCGAAGGAA
194 TGTTCGAAAAATTGCTCGAAGGAA
* * * ** * *
222728 TGGATCGTCTTAAACACTTTAAGGAA-TTGAAGTTATAAAAGAACTTGTAAAATTTTGACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * * * * *
222792 GGAAAGTTCGTCAAAAAACCAAGAGAGAAACCATTCCCACATAAATAACTTTTTAATTTAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * *
222857 CAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAGTC
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
*
222922 TTCAAAAAATTGCTC-AATGGAA
196 TTCGAAAAATTGCTCGAA-GGAA
* * * * * * * *
222944 TGGATCTTGTTGAATACTTTAAGGAA-CCGAAGTTAAAAAATAACTCGTAAAAGTATGAGAAGTG
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * ** *
223008 C-AGAAGTTCGTCCACA-AACCAATAGAGAGACAATTCTCACAAAAATAAGTTTTTAATTTAAAG
66 CGA-AAGTTCGTCCA-AGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * * *
223071 ACCAAAACTTGTTTACAAAATGATAAACTATTTAGACCAAAGGATGTGATTTCTCGAGCAT--AG
129 ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
* *
223134 T-TTCG-AAAATTACACGAAGGAA
194 TGTTCGAAAAATTGCTCGAAGGAA
* * * *
223156 TGGATCAT-TGTGAATA-TGTTAAGGAACCA-AAGTTATAAAAGGACTCGTAAAAGTTAGACTAG
1 TGGATCATCT-TGAATACT-TTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAG
* * * * *
223218 TTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCACGTTAATAAGATTTAAATTCAAAG
64 TTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
* * * * *
223283 ACCAAAACTTGTTTACAAATTGACAAACTGTTTCGACCAAATGATGCAATATCCCGAGCATGGAA
129 ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
*
223348 TGTTC-AAAAATTGCTCGATGGAA
194 TGTTCGAAAAATTGCTCGAAGGAA
* * * * *
223371 TAGATCGTCTTGAATACTTTAAGCAA-CAGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAATTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
** * * * *
223435 TAAAAGGTCGTCCAAAAACCAAGAGAGAAACAATTCTGACGTAAATAAGTTTTTAATTCAACGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * *
223500 CAAAACTTATTTACAAAATGACAAACTATTTAGATCAAATGATGCTATTTCCCGAGCATGGAATC
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
*
223565 TTCGAAAAATTGCTCAAAGGAA
196 TTCGAAAAATTGCTCGAAGGAA
* * * * * *
223587 TGGATCAACTTGAACACCTTAAGGAAGC-GAAGTTATAAAAGAACTAGTAAAATTTTGAGAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* *
223651 CGGAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGA-
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * * * *
223715 CTAACCTTCTTTACAAATTAACAAACTATTTAAACCAAATGATGCGATTTCTCGAGCATGGAATG
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
*
223780 TTCGAAAAATTGCTCAAAGGAA
196 TTCGAAAAATTGCTCGAAGGAA
* * * * *
223802 TAGATCATCTTGGATACTTTAAGGAAGC-GAAGTTATAAATGAACTCGTAAAAGTTTAACAAGTA
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * *
223866 CGGACA-TTCGTCCAAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTAATTAAAAAA
66 C-GAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * *
223930 CCAAAACTT-TGTTACAAAATGACAAACTATTTAGGCCAAATGATGCGATTTCTCGAGCTTGGAT
130 CCAAAACTTGT-TTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAA
*
223994 TGTTCAAAAAATTGCTCGAAGGAA
194 TGTTCGAAAAATTGCTCGAAGGAA
* ** * *
224018 TGGATCGTCTTGAATACTTTAAGGAA-TTGAAGTTATAAAAGAACTTGTAAAATTTTGACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * * * * *
224082 GGAAAGTTCATCAAAAAACCAAGAGAGAAACCATTCTCACATAAATAACTTTTTAATTTAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
** * * * * **
224147 CATGACTTGTTTATAAAATGAAAAATTATTTAGACTAAATGATGC-AGTTTTTCGAGCATGGAAT
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGA-TTTCCCGAGCATGGAAT
* * **
224211 GTTCGAAAAGTTGTTCGAAAAAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * * * * *
224234 TGGATCGTTTTCAATATTTTAAGGAAGC-GAAGTTATAAAAGAACTTGTAAAAGTTTGAC-AGCT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * * * *
224297 -GCAGAAGTTCATCCACGAACCAAGAGAGAGACAATTCTCACGGAATTAAGTTTTTTATTTAAAG
66 CG-A-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG
*
224361 ACCAAAAATTGTTTACAAAATGACAAACTATTTAGACCAAAACTATTTAGACCAAAGGATGCGAT
129 ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACC--AA--A--T---------GATGCGAT
* * * *
224426 TTCTCAAGCAT--AGT-TTCG-AAAATTGCACGAAGGAA
179 TTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAA
* * * * * *
224461 TGGATCATTTTGAATACGTTAAGGAACCA-AAGTTATAAAAGGACTCGTAAAAGTTAGACTAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * *
224525 CGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCACGTTAATAAGATTTAAATTCAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * *
224590 CAAAACTTGTTTACAAATTGACACACTGTTTCGACCAAAT-AGTGCGATTTCCCGAGCATGGCAT
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGA-TGCGATTTCCCGAGCATGGAAT
* * * *
224654 GCTCAAAAAATTGCTTGATGGAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * *
224677 TGGATCATGTTGAATACTTTATA-CAA-CAGAAGTTATAAAAATGAACTCCTAAAAGTTTGACAA
1 TGGATCATCTTGAATACTTTA-AGGAAGCAGAAGTTAT-AAAA-GAACTCGTAAAAGTTTGACAA
* * * * * * * * *
224740 GTTTGGAAGTTAC-TCCAAAAACAAAGATAGAAACAATTATCATGTAACTAAGTTTTAAATTCAA
63 GTTCGAAAGTT-CGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* * * * ** * *
224804 AAACTACAAGTTGTTTACAAAATGGTAAACTATTTAGGCCAAATGATGCGATTTCTCGAGCATGG
127 AGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGG
* * *
224869 AAAGTTCAAAAAATTTC-CTGAAGGAA
192 AATGTTCGAAAAATTGCTC-GAAGGAA
* * * *
224895 TGGATCGTCTTGAATACTTTAAGGAAGC-GAAGTTATAAAATAACTCGTAAAAGTTTGACAGGCT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
*
224959 -GTAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTGATTCAAAGA
66 CG-AAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * *
225023 CCAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATGCTATTTCTCGAGCATGGAAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
*
225088 ATTCGAAAAATTGCTCGAAGGAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * * * * * * * * *
225111 TGGATCAACTTGAACACTTTACGGAGGC-CAAGTTATAAATGAACTAGTAAAATTTTAAGAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* *
225175 CGGAAGTTCGTCCAAGAACCAAGAGAGAAAAAAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
66 CGAAAGTTCGTCCAAGAACCAAGAGAG-AAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * * * *
225240 CTAAAACTTTTTTACAAATTGACAAACTATTTAAACCAAATGATGTGATTTCCCGAGCATGGAAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* *
225305 GTTCGAAAACTTACTCGAAGGAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * *
225328 TAGATCATCTTGAATACTTTAAGGAAGC-GAAGTTATAAATGAACTCGTAAAAGTTTAACAAGTG
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT-
* * * * *
225392 T-GGACGTTCGTCCAAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTAATTAAAAGA
65 TCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* * *
225456 CCAAAACTT-TATTACAAAATGACAAACTATTTAGGA-CAAATGATGCGATTTCTCGTGCTTGGA
130 CCAAAACTTGT-TTACAAAATGACAAACTATTTA-GACCAAATGATGCGATTTCCCGAGCATGGA
* *
225519 TTGTTCAAAAAATTGCTCGAAGGAA
193 ATGTTCGAAAAATTGCTCGAAGGAA
* ** * *
225544 TGGATCGTCTTGAATACTTTAAGGAA-TTGAAGTTATAAAAGAACTTGTAAAACTTTGACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * *
225608 C-AGAAGTTCGTCAAAAAACCAAGATAGAAACAATTCTCACGTAAATAACTTTTTAATTTAAAGA
66 CGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
** * * **
225672 CCATGACTTGTTCACAAAATGACAAACTATTTAGACTAAATGATGCGATTTTTCGAGCATGGAAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* **
225737 GTTTGAAAAATTGCTCGAAAAAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * * *
225760 TGGATCATCTTTAATACTTTAAAGAAGC-GAAGTTATAAAAAAACTCGTAAAAGTTTGACTAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * * * *
225824 CGAAAGTTCATCCATGAACCAAGAGAGAAAGAATTCTCACGTTAATAAGATTTAAATTCAAAGAG
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * * * *
225889 CAAAACTTGTTTACAAATTGAGAAATTGTTTCGACCAAATGATGCAATTTCCCGAGCATGAAATG
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
** *
225954 TTTAAAAAATTGCTCGATGGAA
196 TTCGAAAAATTGCTCGAAGGAA
* * * *
225976 TTGATCGTCTTGAATACTTTAAGCAA-CATAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
** * *
226040 TAAAAGTTCGTCCAAGAACCAAGAAAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* *
226105 CAAAACTTATTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATC
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
*
226170 TTTGAAAAATTGCTCGAAGGAA
196 TTCGAAAAATTGCTCGAAGGAA
* * * * * *
226192 TGGATCAACTTAAACACTTTAAGGAAGCA-AAGTTATAAAAGAACTCGTACAAGTTTAACAAGTG
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
* * * * *
226256 CGGAAGTTCATCCAAGAACCTAGAGAGAAACAATTCTCAAGGAAATAAGTTTTTAATTCAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * *
226321 CAAAACTTGTTTGCAAAATGACAAACTATTTAGACCATAGGATGCAATTTCTCGAGCAT-G-A--
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * *
226382 TTCGAAAAGTT-ATGCGAAGGAT
196 TTCGAAAAATTGCT-CGAAGGAA
* * * * **
226404 TGGATCATCTTGAATACATTAAGGAACCAAAAAGCTATAAAAGAACTCGTAAAAGTTTGATTAGT
1 TGGATCATCTTGAATACTTTAAGGAAGC-AGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGT
* * * * * * * *
226469 TCAAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCAAGTTAATAAGATTTTAATTTAAATA
65 TCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
* **
226534 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCAATTTCCAAAGCATGGAAT
130 CCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAAT
* *
226599 GTTCGGAAAATAGCTCGAAGGAA
195 GTTCGAAAAATTGCTCGAAGGAA
* * * *
226622 TGGATCGTCTTGAATACTTTAAGGAATC-GAAGTTATGAAAGAACTCGTAAAAGTTTGACAAATT
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
*
226686 CAAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
66 CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* * * * * *
226751 TAAAACTTTTTTACAGAATGACAAACTATTTAGATCAGATGATGTGATTTCCCGAGCATGGAATG
131 CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
* * * *
226816 TTTGCAAAATTGCTTGAAAGGTA
196 TTCGAAAAATTGCTCG-AAGGAA
** * *
226839 TGGATCGCCTTGAATACTTTAAGGAACCA-AAGTTATATAAGAAC
1 TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAAC
226883 CAAGGGAGAA
Statistics
Matches: 4951, Mismatches: 803, Indels: 247
0.83 0.13 0.04
Matches are distributed among these distances:
211 10 0.00
212 384 0.08
213 11 0.00
214 247 0.05
215 871 0.18
216 2572 0.52
217 298 0.06
218 373 0.08
219 6 0.00
220 1 0.00
221 1 0.00
222 1 0.00
223 1 0.00
225 2 0.00
227 146 0.03
228 8 0.00
229 3 0.00
231 15 0.00
232 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (217 bp):
TGGATCATCTTGAATACTTTAAGGAAGCAGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTT
CGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
CAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATG
TTCGAAAAATTGCTCGAAGGAA
Found at i:224405 original size:15 final size:15
Alignment explanation
Indices: 224385--224416 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
224375 ACAAAATGAC
224385 AAACTATTTAGACCA
1 AAACTATTTAGACCA
224400 AAACTATTTAGACCA
1 AAACTATTTAGACCA
224415 AA
1 AA
224417 GGATGCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (15 bp):
AAACTATTTAGACCA
Found at i:227322 original size:216 final size:216
Alignment explanation
Indices: 226877--231739 Score: 4593
Period size: 216 Copynumber: 22.8 Consensus size: 216
226867 AAAGTTATAT
* * * * * *
226877 AAGAACCAAGGGAGAAACAAGTGTCATGGAAATAAGTTTTTAATTCAAAGACCAAAACTTCTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * *
226942 CAAAATGACAAACTATTTAGA-AAAAGGATGCGATTTCACGAGCAT-G---GTTAAAAAAATTTC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * * * * *
227002 ACGAAGGAATGGATCGTGTAGAAGACATTAAGGAACGAAAAAGCTATAAAAGAACTCATAAAAGC
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC--AGAAGTTATAAAAGAACTCGTAAAAGT
* *
227067 TTGACAAGTTGGAAAGTTCATCC
194 TTGACAAGTTCGAAAGTTCGTCC
* * * * *
227090 ATGAACCAAGAGAGAAACAATTATCAGGTTAATAAGATTTTAATTCAAAGACCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * *
227155 CAAATTGATAAACTGTTTAGACCAAATGATGCAATTTCCCAAGCATGGAATATTCAAAAAATTTC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * *
227220 TTGATGGAATAGATCGTCTTGAATACTTTAAGCAACAGAAGTTATAAAAGAGCTCGTAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
* **
227285 GACAAATTTAAAAGTTCGTCC
196 GACAAGTTCGAAAGTTCGTCC
* *
227306 AAGAACCAAGAGAGAAACAACTCTCACGTAAATAAGTTTTTAATTCAGAA-ACCAAAACTTATTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCA-AAGACCAAAACTTGTTT
* * * * * *
227370 ACAAAATGACAAACTATTTACACCAAATTATGCGATTTCTCGAGCATGGTATCTTCGAAAAATTG
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTG
* * ** * * * *
227435 CACGACGGAATGGATCAACTTGAATAGTTTAAGGAAGCA-AAGTTATAAAAGAACTAGTACAATT
130 CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAACTCGTAAAAGT
*
227499 TTGACAAGTTCGGAAG-TCTGTCC
194 TTGACAAGTTCGAAAGTTC-GTCC
* * * * * *
227522 AAGAACTAAGAGAGAAAAAATTCACACGTAAATAAGTTTTTAATTGAAAGACTAAAACTTCTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
227587 CAAATTAACAAACTGTTTAAACCAAATGATGCGATTTCCCGAGAATGGAATGTTCAGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * *
227652 TCGATGGAATAGATCATCTTGAGTACTTTAAGGAA-ACGAAGTTATAAATGAACTCGTAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACA-GAAGTTATAAAAGAACTCGTAAAAGTT
* * * *
227716 TAACAAGTGCGAACGTTCCTCC
195 TGACAAGTTCGAAAGTTCGTCC
* * * *
227738 AAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTAATTAAAAAACCAAAACTT-TGTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGT-TT
* * * * *
227802 ACAAAATGACAAACTATTTAGGCCAAATGAAT-TGATTTCTCGAGCTTGGATTGTTCAAAAAATT
65 ACAAAATGACAAACTATTTAGACCAAATG-ATGCGATTTCCCGAGCATGGAATGTTCAAAAAATT
* * ** * *
227866 TCTCGAAGGAATAGATCGTCTTGAATACTTTAAGGAATTGAAGTTATAAAAGAACTTGTAAAATT
129 GCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGT
* * *
227931 TTGACAAGTTCGGAAGTTAGTCA
194 TTGACAAGTTCGAAAGTTCGTCC
* * * * ** *
227954 AAAAACCAAGAGAGAAACAATTCTCATGTAAATAACTTTTTAATTTAAAGACCATGACTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* ** ** **
228019 CAAAATGACAAACTATTTAGACTAAATGATGTAATTTTTCGAG-ATGGAATGTTTGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
**
228083 TCGAAAAAATGGATCGTCTTGAATACTTTAAGGAAGC-GAAGTTATAAAAGAACTCGTAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAACTCGTAAAAGTT
* *
228147 TGACAACTGC-AGAAGTTCGTCC
195 TGACAAGTTCGA-AAGTTCGTCC
* * * * * *
228169 ACGAACCAAGAGAGAGACAATTCTCACGGAGATAAG-TTTTAATTTAAAGATCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * **
228233 CAAAATGACAAACTATTTAGACCAAAGGATGCAATTTCTCGAGCAT--AA--TTCTTAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * *
228294 AT-GAAGGAATGGATCGT-TGTGAATACGTTATGGAACCGAAGTTATAAAAGAACTCATAAAAGA
131 -TCGAAGGAATGGATCGTCT-TGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGT
* *
228357 TTGACAAGTTCAAAAGTTCATCC
194 TTGACAAGTTCGAAAGTTCGTCC
* * ** *
228380 ATGAACCAAGAGAGAAACAATTCTCACGTTAATAAAATTTTAATTCAAAGATCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
** * ** * * *
228445 CAATTTGACAAACTGTTCCGACCAAATGATACGA-TTCCCGAGCATGGCATGTTCGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * ** * *
228509 TTGATGGAATAGATCATGTTGAATACTTTAAACAACAAAAGTTACAAAAGAACTCGTAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
* *
228574 GACAAGTTTGGAAGTTAC-TCC
196 GACAAGTTCGAAAGTT-CGTCC
* * * * * * * *
228595 AAAAACAAAGATAGAAACAATTATCACGTAACTAAGTTTTTAATTCAAA-AACTAAAGTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * *
228659 CATAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAAAGTTAAAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* *
228724 CCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAGC-GAAGTTATAAAAGAACTTGTAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAACTCGTAAAAGTT
* *
228788 TGACAGGTTCTAAAGTTCGTCC
195 TGACAAGTTCGAAAGTTCGTCC
* *
228810 AAGAACCAAGAGAGAAACAATTCTCACGTAAATATGTTTTTAATTCAAAGACTAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * ***
228875 CAAAATGACAAACTATTTAGACCAAATAATGTGGTTTCTCGAGCATGGAATGTTTGGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * ** * * *
228940 TCAAAGGAATGGTTCTTGTTGAATACTTTAAGGAATTGAAGTTAAAAAATAACTCATAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
* *
229005 GACAGGTTCGGAAGTTCGTCC
196 GACAAGTTCGAAAGTTCGTCC
* * *
229026 AAGAACAAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTG
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
229091 CAAAATGACAAACTATTTAAACTATAGGATGTGATTTCCCGAGCAT----TGTTCAAAAAGTTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * ** * * * **
229152 ACGATGGGTTGGATCATCTTGAATACGTTAAGGAACCAAACAACTATAAAAGAACTCGTAAAAGT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGA-AGTTATAAAAGAACTCGTAAAAGT
* * *
229217 TTAACTAGTTCGAAAGTTCATCC
194 TTGACAAGTTCGAAAGTTCGTCC
* * * *
229240 ATGAACCAAGAGAGAAACAATTCTTAGGTTAAA-AAGATTTTAATTCAAAGACCAAAACTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACG-TAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTT
** * * * * ** *
229304 ACAATTTGACAAAC-AGTTTAGACCAAATGATGCGATTCCCCAAGCGTGGATTACTCGAAAAATT
65 ACAAAATGACAAACTA-TTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATT
* * * *
229368 GCTC-AATGAAATAGATCGTCTTGAATACTTTAAGCAACAAAAGTTATAAAAGAACTCGTAAAAG
129 GCTCGAA-GGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAG
* *
229432 TTAGAGAAGTTCGAAAGTTCGTCC
193 TTTGACAAGTTCGAAAGTTCGTCC
* * * * *
229456 AAGAACTAAGAGAGAAAAAATTCTCATGTAAATAAGTTTTTAATTCAAAAACTAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * ** **
229521 CAACATGACAAACTATTTATACCAAATTATACAATTTTCTAAGCATGGAATGTTCGGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
** * * * * * *
229586 TCGTGGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAATAACTCTTAAAAGTTC
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
*
229651 GACAAGTTCGAAAATTCGTCC
196 GACAAGTTCGAAAGTTCGTCC
* * * *
229672 AAGAACTAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAATTAAAAGTCCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
229737 CAAAATGACAAACTATTTAGACCAGAGGATACGATTTCTCGATCAT-G---GTTCGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * * * *
229798 ACAAAGGAATGGGTCTTCTTAAATACGTTAAGGAACCA-AAGTTACAAAAGAACTCATAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAACTCGTAAAAGTT
* * *
229862 TGACTATTTCGAAAGTTCATCC
195 TGACAAGTTCGAAAGTTCGTCC
* * * *
229884 ATGAACCAAGAGAGAAACAATTCTCACGTGAATAAGGTTTTAATTCAAAGACCAAAACTTATTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * ** ** *
229949 CAAATTGACAAACTGTTTCGAGCAAATGGTATGATTTCCAAAGCATGGAATGTTTAAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * * * ** * * *
230014 TTGATGGAATAGATTGTCTTGAAAACTTTATGCATTTATAAGTTATAAAAGAACACATAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGA-ACAGAAGTTATAAAAGAACTCGTAAAAGTT
* *
230079 TGACAAGTTTGAAATTTAC-TCC
195 TGACAAGTTCGAAAGTT-CGTCC
** * * * * *
230101 AAGAACCAAGTTAGAAACAATTCTCACGTAACTAAGTTTTTAATTCAAATACTAAAAGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * ** * *
230166 CATAATAACAAACTAATTAGACCAAATGATGCGATTT--CTTG--TGCAATGTTCGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * ** ** *
230227 TCGAAGGAATGAATCGTCTT-AATTACTTTAAGGAAGAAAAAATATAAAAGAACTCGTAACGGTG
131 TCGAAGGAATGGATCGTCTTGAA-TACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTT
* *
230291 TGGCAAGTTCGAAAGTTCGACC
195 TGACAAGTTCGAAAGTTCGTCC
* *
230313 AAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTTAAAG------AC------A
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * * *
230366 CAAAATGACAAACTGTTTAGACCAAATGATGTGATTTCCTGAGCATGGATTGTTTAGAACATTGA
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * ** * *
230431 TCAAAAGAATGGATCGTCTTGAATAAATTAAGGAACTGAAGTTATAAGAGAACTCGTAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
* *
230496 GAGAAGTTCGAAAGTTCATCC
196 GACAAGTTCGAAAGTTCGTCC
* * *
230517 AAGAACCAAGAGAGAAA-AATTCTCATGTAAATAAGTTTTTAATTCAAAAACTAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * * *
230581 CAAAATGACAAAATATTTATACCAAATTATACAATTTCCTGAGCATGGAATATTCGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * *
230646 TCG-TGAGAATGGATCTTCTTGAATTA-TTTAAGGAACCGAAGTTAAAAAATAACTTGTAAAAGT
131 TCGAAG-GAATGGATCGTCTTGAA-TACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGT
*
230709 TTGACAAGTTTGAAAGTTCGTCC
194 TTGACAAGTTCGAAAGTTCGTCC
* * * * *
230732 AATAA-CAA-AGAGAAATAATTCTCACGGAAATAAGTTTTTAATTAAAAGAGCAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
230795 CAAAATGACAAACTATTTACACCATAGGATACGATTTCTCGAGCAT-G---GTTCGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * * *
230856 ACAAAGGAATGGGTCTTCCTGAATACGTTAAGAAACCA-AAGTTATAAAAGAACTCGTAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CAGAAGTTATAAAAGAACTCGTAAAAGTT
* * * *
230920 TGACTATTTCGAAAGCTCATCC
195 TGACAAGTTCGAAAGTTCGTCC
* * * * *
230942 ATGAACCAAGAGAGAAACAATTCTCACGTTAATATGATTTTAATTCAAAGACCAAAACTTGTCTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * ** * * *
231007 CAAATTGGCAAACTGTTTCGAGCAAATGGTATGATTTTCAGAGCATGGAATGTTTAAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * * * * *
231072 TTGATGGAATAGATTGTCTTGAAAACTTTATGCAACATAAGTTATAAAAGAACTCATAAAAGTTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
* *
231137 GACAAGTTTGAAATTTAC-TCC
196 GACAAGTTCGAAAGTT-CGTCC
* ** ** * * * * * *
231158 AAGAACCAGGTTAGAAACAATTCTCGTGTAACTAAGTTTTTAATTCGAATACTAAAAGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * * *
231223 CATAATGACAAACTAATTAGACCAAATGACGCAATTTCTC--G--TGCAATGTTCAGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * * * * *
231284 TCAAAGGAATGAATCGTCTT-AATTACTTTAATGAAGAAAAATTATAAAAGAACTCGTAAGAGTG
131 TCGAAGGAATGGATCGTCTTGAA-TACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTT
* *
231348 TGGCAAGTTCGAAAGTTCGACC
195 TGACAAGTTCGAAAGTTCGTCC
*
231370 AAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG------AC------A
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * *
231423 CAAAATGACAAACTGTTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTTAGAAGATTGA
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
* * * * *
231488 TCGAAAGAATGGATCGTCTTGAATACATTAAGGAACCGTAGTTAT-AAAGAAACTCATAAAAGTT
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAG-AACTCGTAAAAGTT
* *
231552 AGAGAAGTTCGAAAGTTCGTCC
195 TGACAAGTTCGAAAGTTCGTCC
* * * * *
231574 AAGAACCAAGAGAGAAAAAATTCTCACGTAAATAAGGTTTTAATTTAAAAACTAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
* * * * * ** * *
231639 CAAAATGACAGACTATTTATACCAAATTATACAATTTCCTAAGCATGGAATGTTCGAAAAATTGG
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
** **
231704 TCGTGGGAATGGATATTCTTGAATACTTTAAGGAAC
131 TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAAC
231740 CTGATATGAG
Statistics
Matches: 3744, Mismatches: 796, Indels: 217
0.79 0.17 0.05
Matches are distributed among these distances:
200 67 0.02
202 2 0.00
203 33 0.01
204 216 0.06
205 4 0.00
206 2 0.00
209 4 0.00
210 83 0.02
211 128 0.03
212 545 0.15
213 130 0.03
214 332 0.09
215 516 0.14
216 1469 0.39
217 138 0.04
218 75 0.02
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (216 bp):
AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTA
CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGC
TCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACAGAAGTTATAAAAGAACTCGTAAAAGTTT
GACAAGTTCGAAAGTTCGTCC
Found at i:229306 original size:646 final size:642
Alignment explanation
Indices: 226877--231664 Score: 4469
Period size: 646 Copynumber: 7.5 Consensus size: 642
226867 AAAGTTATAT
* * * * * * *
226877 AAGAACCAAGGGAGAAACAAGTGTCATGGAAATAAGTTTTTAATTCAAAGACCAAAACTTCTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
* * * *** *
226942 CAAAATGACAAACTATTTAGA-AAAAGGATGCGATTTCACGAGCAT-G---GTTAAAAAAATTTC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTGC
* * * * * * * *
227002 ACGAAGGAATGGATCGTGTAGAAGACATTAAGGAA-CGAAAAAGCTATAAAAGAACTCATAAAAG
131 TCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACCG---AAGTTAAAAAAGAACTCATAAAAG
* * * * * * * *
227066 CTTGACAAGTTGGAAAGTTCATCCATGAACCAAGAGAGAAACAATTATCAGGTTAATAAGATTTT
193 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * *** *
227131 AATTCAAAGACCAAAACTTGTTTACAAATTGATAAACTGTTTAGACCAAATGATGCAATTTCCCA
258 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAGGATATGATTTCCCG
* * * * *
227196 AGCATGGAATATTCAAAAAATTTCTTGATGGAATAGATCGTCTTGAATACTTTAAGCAACAGAAG
323 AGCAT----TGTTC-AAAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAACAAAAG
* * ** *
227261 TTATAAAAGAGCTCGTAAAAGTTTGACAAATTTAAAAGTTCGTCCAAGAACCAAGAGAGAAACAA
383 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAA
* *
227326 CTCTCACGTAAATAAGTTTTTAATTCAGAA-ACCAAAACTTATTTACAAAATGACAAACTATTTA
448 TTCTCACGTAAA-AAGTTTTTAATTCA-AAGACCAAAACTTGTTTACAAAATGACAAACTATTTA
* * * * * * **
227390 CACCAAATTATGCGATTTCTCGAGCATGGTATCTTCGAAAAATTGCACGACGGAATGGATCAACT
511 GACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCT
* * * * *
227455 TGAATAGTTTAAGGAAGCAAAGTTATAAAAGAACTAGTACAATTTTGACAAGTTCGGAAG-TCTG
576 TGAATACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTC-G
227519 TCC
640 TCC
* * * * *
227522 AAGAACTAAGAGAGAAAAAATTCACACGTAAATAAGTTTTTAATTGAAAGACTAAAACTTCTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
* * * * * * *
227587 CAAATTAACAAACTGTTTAAACCAAATGATGCGATTTCCCGAGAATGGAATGTTCAGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTGC
* * * * * * * *
227652 TCGATGGAATAGATCATCTTGAGTACTTTAAGGAAACGAAGTTATAAATGAACTCGTAAAAGTTT
131 TCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAAGAACTCATAAAAGTTT
* * * * * *
227717 AACAAGTGCGAACGTTCCTCCAAGAACCAAGAGATAAACAATTCTCATGTAAATAAGTTTTTAAT
196 GACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * * * *
227782 TAAAAAACCAAAACTT-TGTTACAAAATGACAAACTATTTAGGCCAAATGA-ATTGATTTCTCGA
261 TCAAAGACCAAAACTTGT-TTACAAAATGACAAACTATTTAGACCAAAGGATA-TGATTTCCCGA
* * ***
227845 GCTTGGATTGTTCAAAAAATTTCTCGAAGGAATAGATCGTCTTGAATACTTTAAGGAATTGAAGT
324 GC----ATTGTTC-AAAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAACAAAAGT
* * * * *
227910 TATAAAAGAACTTGTAAAATTTTGACAAGTTCGGAAGTT-AGTCAAAAAACCAAGAGAGAAACAA
384 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAA
* * * ** *
227974 TTCTCATGTAAATAACTTTTTAATTTAAAGACCATGACTTTTTTACAAAATGACAAACTATTTAG
448 TTCTCACGTAAA-AAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG
* ** * * **
228039 ACTAAATGATGTAATTTTTCGAG-ATGGAATGTTTGAAAAATTGCTCGAAAAAATGGATCGTCTT
512 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTT
* * *
228103 GAATACTTTAAGGAAGCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAACTGC-AGAAGTTCGT
577 GAATACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGA-AAGTTCGT
228167 CC
641 CC
* * * * *
228169 ACGAACCAAGAGAGAGACAATTCTCACGGAGATAAG-TTTTAATTTAAAGA-TCAAAACTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACT-AAAACTTGTTT
* * **
228232 ACAAAATGACAAACTATTTAGACCAAAGGATGCAATTTCTCGAGCAT--AA--TTCTTAAAATTG
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTG
* * * *
228293 CAT-GAAGGAATGGATCGTT-GTGAATACGTTATGGAACCGAAGTTATAAAAGAACTCATAAAAG
130 C-TCGAAGGAATGGATC-TTCTTGAATACTTTAAGGAACCGAAGTTAAAAAAGAACTCATAAAAG
* * * * * **
228356 ATTGACAAGTTCAAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCACGTTAATAAAATTTT
193 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* ** * ** * *
228421 AATTCAAAGATCAAAACTTGTTTACAATTTGACAAACTGTTCCGACCAAATGATACGA-TTCCCG
258 AATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAGGATATGATTTCCCG
* * * **
228485 AGCATGGCATGTTCGAAAAATTGCTTGATGGAATAGATCATGTTGAATACTTTAAACAACAAAAG
323 AGCAT----TGTTC-AAAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAACAAAAG
* * * * * *
228550 TTACAAAAGAACTCGTAAAAGTTTGACAAGTTTGGAAGTT-ACTCCAAAAACAAAGATAGAAACA
383 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACA
* * * * * *
228614 ATTATCACGTAACTAAGTTTTTAATTCAAA-AACTAAAGTTGTTTACATAATGACAAACTATTTA
447 ATTCTCACGTAA-AAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTA
* ** *
228678 GACCAAATGATGCGATTTCTCGAGCATGGAAAGTTAAAAAAATTGCCCGAAGGAATGGATCGTCT
511 GACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCT
* * * *
228743 TGAATACTTTAAGGAAGCGAAGTTATAAAAGAACTTGTAAAAGTTTGACAGGTTCTAAAGTTCGT
576 TGAATACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
228808 CC
641 CC
*
228810 AAGAACCAAGAGAGAAACAATTCTCACGTAAATATGTTTTTAATTCAAAGACTAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
* * * *
228875 CAAAATGACAAACTATTTAGACCAAATAATGTGGTTTCTCGAGCATGGAATGTTTGGAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTGC
* * * ** *
228940 TCAAAGGAATGGTTCTTGTTGAATACTTTAAGGAATTGAAGTTAAAAAATAACTCATAAAAGTTT
131 TCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAAGAACTCATAAAAGTTT
* * * *
229005 GACAGGTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAAT
196 GACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
* * * * *
229070 TCAAAGACCAAAACTTGTTTGCAAAATGACAAACTATTTAAACTATAGGATGTGATTTCCCGAGC
261 TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAGGATATGATTTCCCGAGC
* ** * * * **
229135 ATTGTTCAAAAAGTTGCACGATGGGTTGGATCATCTTGAATACGTTAAGGAACCAAACAACTATA
326 ATTGTTCAAAAA-TTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAA-CAAA-AGTTATA
* * * *
229200 AAAGAACTCGTAAAAGTTTAACTAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTT
388 AAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTC
* * **
229265 AGGTTAAAAAGATTTTAATTCAAAGACCAAAACTTGTTTACAATTTGACAAAC-AGTTTAGACCA
453 ACG-TAAAAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTA-TTTAGACCA
* * * * * ** * *
229329 AATGATGCGATTCCCCAAGCGTGGATTACTCGAAAAATTGCTC-AATGAAATAGATCGTCTTGAA
516 AATGATGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAA-GGAATGGATCGTCTTGAA
* * *
229393 TACTTTAAGCAA-CAAAAGTTATAAAAGAACTCGTAAAAGTTAGAGAAGTTCGAAAGTTCGTCC
580 TACTTTAAGGAAGC-AAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCC
* * * *
229456 AAGAACTAAGAGAGAAAAAATTCTCATGTAAATAAGTTTTTAATTCAAAAACTAAAACTTGTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
* * * * * *
229521 CAACATGACAAACTATTTATACCAAATTATACAATTT-TCTAAGCATGGAATGTTCGGAAAATTG
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC-GAGCATGGAATGTTCGGAAAATTG
** * *
229585 CTCGTGGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAATAACTCTTAAAAGTT
130 CTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAAGAACTCATAAAAGTT
* * * *
229650 CGACAAGTTCGAAAATTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGGAAATAAGTTTTTAA
195 TGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
* * * * * *
229715 TTAAAAGTCCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAGAGGATACGATTTCTCGAT
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAGGATATGATTTCCCGAG
* * * * * * * * * * *
229780 CATGGTTCGAAAAATTGCACAAAGGAATGGGTCTTCTTAAATACGTTAAGGAACCAAAGTTACAA
325 CATTGTTC-AAAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAACAAAAGTTATAA
* * * *
229845 AAGAACTCATAAAAGTTTGACTATTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCA
389 AAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCA
* * * * * * *
229910 CGTGAATAAGGTTTTAATTCAAAGACCAAAACTTATTTACAAATTGACAAACTGTTTCGAGCAAA
454 CGT-AAAAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAA
* ** * ** * * * * *
229975 TGGTATGATTTC-CAAAGCATGGAATGTTTAAAAAATTGCTTGATGGAATAGATTGTCTTGAAAA
518 TGATGCGATTTCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATA
* * *** * * * *
230039 CTTTATGCATTTATAAGTTATAAAAGAACACATAAAAGTTTGACAAGTTTGAAATTTAC-TCC
582 CTTTAAGGAAGCA-AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTT-CGTCC
** * * * *
230101 AAGAACCAAGTTAGAAACAATTCTCACGTAACTAAGTTTTTAATTCAAATACTAAAAGTTTTTTA
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
* * * * * *
230166 CATAATAACAAACTAATTAGACCAAATGATGCGATTTCT--TG--TGCAATGTTCGAAAAATTGC
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTGC
* * *** ** * * ** *
230227 TCGAAGGAATGAATCGTCTT-AATTACTTTAAGGAAGAAAAAATATAAAAGAACTCGTAACGGTG
131 TCGAAGGAATGGATCTTCTTGAA-TACTTTAAGGAACCGAAGTTAAAAAAGAACTCATAAAAGTT
* * *
230291 TGGCAAGTTCGAAAGTTCGACCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
195 TGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
* * * * *
230356 TTTAAAG------AC------ACAAAATGACAAACTGTTTAGACCAAATGATGTGATTTCCTGAG
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAGGATATGATTTCCCGAG
* * * * ** * ** **
230409 CATGGATTGTTTAGAACATTGATCAAAAGAATGGATCGTCTTGAATAAATTAAGGAACTGAAGTT
325 C----ATTGTTCA-AAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAACAAAAGTT
* *
230474 ATAAGAGAACTCGTAAAAGTTTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAA-AATT
385 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATT
* * * * *
230538 CTCATGTAAATAAGTTTTTAATTCAAAAACTAAAACTTGTTTACAAAATGACAAAATATTTATAC
450 CTCACGTAAA-AAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGAC
* * * * * *
230603 CAAATTATACAATTTC-CTGAGCATGGAATATTCGAAAAATTGCTCG-TGAGAATGGATCTTCTT
514 CAAATGATGCGATTTCTC-GAGCATGGAATGTTCGAAAAATTGCTCGAAG-GAATGGATCGTCTT
* * * * * *
230666 GAATTA-TTTAAGGAACCGAAGTTAAAAAATAACTTGTAAAAGTTTGACAAGTTTGAAAGTTCGT
577 GAA-TACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGT
230730 CC
641 CC
* * * *
230732 AATAA-CAA-AGAGAAATAATTCTCACGGAAATAAGTTTTTAATTAAAAGAGC-AAAACTTGTTT
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGA-CTAAAACTTGTTT
* * * * *
230794 ACAAAATGACAAACTATTTACACCATAGGATACGATTTCTCGAGCAT-G---GTTCGAAAAATTG
65 ACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTG
* * * * * * * * *
230855 CACAAAGGAATGGGTCTTCCTGAATACGTTAAGAAACCAAAGTTATAAAAGAACTCGTAAAAGTT
130 CTCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAAGAACTCATAAAAGTT
* * * * * * * *
230920 TGACTATTTCGAAAGCTCATCCATGAACCAAGAGAGAAACAATTCTCACGTTAATATGATTTTAA
195 TGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
* * * * * * * *
230985 TTCAAAGACCAAAACTTGTCTACAAATTGGCAAACTGTTTCGAGCAAATGG-TATGATTTTCAGA
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAA-GGATATGATTTCCCGA
* * * * * * *
231049 GCATGGAATGTTTAAAAAATTGCTTGATGGAATAGATTGTCTTGAAAACTTTATGCAACATAAGT
324 GCAT----TG-TTCAAAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAACAAAAGT
* * * * **
231114 TATAAAAGAACTCATAAAAGTTTGACAAGTTTGAAA-TTTACTCCAAGAACCAGGTTAGAAACAA
384 TATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAA
** * * * * * * * *
231178 TTCTCGTGTAACTAAGTTTTTAATTCGAATACTAAAAGTTTTTTACATAATGACAAACTAATTAG
448 TTCTCACGTAA-AAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAG
* * * * *
231243 ACCAAATGACGCAATTTCTC--G--TGCAATGTTC-AGAAAATTGCTCAAAGGAATGAATCGTCT
512 ACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGA-AAAATTGCTCGAAGGAATGGATCGTCT
* * * * * *
231303 T-AATTACTTTAATGAAGAAAAATTATAAAAGAACTCGTAAGAGTGTGGCAAGTTCGAAAGTTCG
576 TGAA-TACTTTAAGGAAGCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCG
*
231367 ACC
640 TCC
*
231370 AAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAG------AC------A
1 AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
* * * ** * *
231423 CAAAATGACAAACTGTTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTTAGAAGATTGA
66 CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTGC
* * * * *
231488 TCGAAAGAATGGATCGTCTTGAATACATTAAGGAACCGTAGTT-ATAAAGAAACTCATAAAAGTT
131 TCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAAG-AACTCATAAAAGTT
* * * *
231552 AGAGAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCTCACGTAAATAAGGTTTTAA
195 TGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
* * * * *
231617 TTTAAAAACTAAAACTTGTTTACAAAATGACAGACTATTTATACCAAA
260 TTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAA
231665 TTATACAATT
Statistics
Matches: 3386, Mismatches: 653, Indels: 221
0.79 0.15 0.05
Matches are distributed among these distances:
628 40 0.01
629 234 0.07
630 7 0.00
631 53 0.02
632 257 0.08
633 100 0.03
634 2 0.00
635 4 0.00
637 10 0.00
638 81 0.02
639 3 0.00
640 90 0.03
641 510 0.15
642 303 0.09
643 44 0.01
644 182 0.05
645 285 0.08
646 699 0.21
647 135 0.04
648 306 0.09
650 37 0.01
651 2 0.00
652 2 0.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (642 bp):
AAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGACTAAAACTTGTTTA
CAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATGTTCGGAAAATTGC
TCGAAGGAATGGATCTTCTTGAATACTTTAAGGAACCGAAGTTAAAAAAGAACTCATAAAAGTTT
GACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAT
TCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAAGGATATGATTTCCCGAGC
ATTGTTCAAAAATTGCTCGATGGAATAGATCGTCTTGAATACTTTAAGGAACAAAAGTTATAAAA
GAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACG
TAAAAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGA
TGCGATTTCTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTT
AAGGAAGCAAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCGTCC
Found at i:230521 original size:204 final size:205
Alignment explanation
Indices: 229735--231627 Score: 986
Period size: 212 Copynumber: 9.0 Consensus size: 205
229725 AAAACTTGTT
* * * **
229735 TACAAAATGACAAACTATTTAGACCAGAGGATACGATTT-CTCGATCATGG--T-TCGA-AAAAT
1 TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCT-GAGCATGGAATGTTTAGAAAAT
* * * * ** * * *
229795 TGCA-CAAAGGAATGGGTCTTCTTAAATACGTTAAGGAACCAAAGTTACAAAAGAACTCATAAAA
65 TG-ATCAAAAGAATGGATCGTCTTGAATAATTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAA
** * * * *
229859 GTTTGACTATTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCACGTGAATAAGGTTT
129 GTTTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
*
229924 TAATTCAAAGACCAAAAC
194 TAATTTAAAG------AC
* * * * * * ** *
229942 TTATTTACAAATTGACAAACTGTTTCGAGCAAATGGTATGATTTCCAAAGCATGGAATGTTTAAA
1 -----TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAGA
* ** ** * * * * **** * *
230007 AAATTGCTTGATGGAATAGATTGTCTTGAA-AACTTTATGCATTTATAAGTTATAAAAGAACACA
61 AAATTGATCAAAAGAATGGATCGTCTTGAATAA-TTTAAGGA-ACCGAAGTTATAAAAGAACTCG
* * * ** *
230071 TAAAAGTTTGACAAGTTTGAAA-TTTACTCCAAGAACCAAGTTAGAAACAATTCTCACGTAACTA
124 TAAAAGTTTGAGAAGTTCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATA
**
230135 AGTTTTTAATTCAAATACTAAAAGTTTTT
188 AGTTTTTAA-T----T--T-AAAG---AC
* * * * * * *
230164 TACATAATAACAAACTAATTAGACCAAATGATGCGATTT-CT-TG--TGCAATG-TTCGAAAAAT
1 TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAG-AAAAT
* * * * * *** ** **
230224 TGCTCGAAGGAATGAATCGTCTT-AATTACTTTAAGGAAGAAAAAATATAAAAGAACTCGTAACG
65 TGATCAAAAGAATGGATCGTCTTGAA-TAATTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAA
* *
230288 GTGTG-GCAAGTTCGAAAGTTCGA-CCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTT
129 GTTTGAG-AAGTTCGAAAGTTC-ATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
230351 TTTAATTTAAAGAC
192 TTTAATTTAAAGAC
* ** * *
230365 -ACAAAATGACAAACTGTTTAGACCAAATGATGTGATTTCCTGAGCATGGATTGTTTAGAACATT
1 TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAGAAAATT
* * *
230429 GATCAAAAGAATGGATCGTCTTGAATAAATTAAGGAACTGAAGTTATAAGAGAACTCGTAAAAGT
66 GATCAAAAGAATGGATCGTCTTGAATAATTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
*
230494 TTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAA-AATTCTCATGTAAATAAGTTTTTA
131 TTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
230558 ATTCAAAAACTAAA-AC
196 ATT-------TAAAGAC
* * * * * *
230574 TTGTTTACAAAATGACAAAATATTTATACCAAATTATACAATTTCCTGAGCATGGAAT-ATTCGA
1 -----TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAG-
* *** * * * * *
230638 AAAATTGCTCGTGAGAATGGATCTTCTTGAATTATTTAAGGAACCGAAGTTAAAAAATAACTTGT
60 AAAATTGATCAAAAGAATGGATCGTCTTGAATAATTTAAGGAACCGAAGTTATAAAAGAACTCGT
* * * * * *
230703 AAAAGTTTGACAAGTTTGAAAGTTCGTCCAATAA-CAA-AGAGAAATAATTCTCACGGAAATAAG
125 AAAAGTTTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
*
230766 TTTTTAATTAAAAGAGCAAAAC
190 TTTTTAATT-TAA-AG----AC
* * * **
230788 TTGTTTACAAAATGACAAACTATTTACACCATAGGATACGATTT-CTCGAGCATGG--T-TCGA-
1 -----TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCT-GAGCATGGAATGTTTAG
* * * * ** * *
230848 AAAATTGCA-CAAAGGAATGGGTCTTCCTGAATACGTTAAGAAACCAAAGTTATAAAAGAACTCG
60 AAAATTG-ATCAAAAGAATGGATCGTCTTGAATAATTTAAGGAACCGAAGTTATAAAAGAACTCG
** * * * * *
230912 TAAAAGTTTGACTATTTCGAAAGCTCATCCATGAACCAAGAGAGAAACAATTCTCACGTTAATAT
124 TAAAAGTTTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* *
230977 GATTTTAATTCAAAGACCAAAACTTGTC
189 GTTTTTAATTTAAAG------A-----C
* * * * * * * * * *
231005 TACAAATTGGCAAACTGTTTCGAGCAAATGGTATGATTTTCAGAGCATGGAATGTTTAAAAAATT
1 TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAGAAAATT
* ** ** * * * * ** *
231070 GCTTGATGGAATAGATTGTCTTGAA-AACTTTATGCAACATAAGTTATAAAAGAACTCATAAAAG
66 GATCAAAAGAATGGATCGTCTTGAATAA-TTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAG
* * * * ** ** *
231134 TTTGACAAGTTTGAAA-TTTACTCCAAGAACCAGGTTAGAAACAATTCTCGTGTAACTAAGTTTT
130 TTTGAGAAGTTCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
**
231198 TAATTCGAATACTAAAAGTTTTT
194 TAA-T----T--T-AAAG---AC
* * ** * * * *
231221 TACATAATGACAAACTAATTAGACCAAATGACGCAATTT-CT---CGTGCAATGTTCAGAAAATT
1 TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAGAAAATT
* * * * * *** * *
231282 GCTCAAAGGAATGAATCGTCTT-AATTACTTTAATGAAGAAAAATTATAAAAGAACTCGTAAGAG
66 GATCAAAAGAATGGATCGTCTTGAA-TAATTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAG
* *
231346 TGTG-GCAAGTTCGAAAGTTCGA-CCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTT
130 TTTGAG-AAGTTCGAAAGTTC-ATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
*
231409 TTAATTCAAAGAC
193 TTAATTTAAAGAC
* ** * *
231422 -ACAAAATGACAAACTGTTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTTAGAAGATT
1 TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAGAAAATT
* * *
231486 GATCGAAAGAATGGATCGTCTTGAATACA-TTAAGGAACCGTAGTTAT-AAAGAAACTCATAAAA
66 GATCAAAAGAATGGATCGTCTTGAATA-ATTTAAGGAACCGAAGTTATAAAAG-AACTCGTAAAA
* * * *
231549 GTTAGAGAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCTCACGTAAATAAGGTTT
129 GTTTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
*
231614 TAATTTAAAAAC
194 TAATTTAAAGAC
231626 TA
1 TA
231628 AAACTTGTTT
Statistics
Matches: 1273, Mismatches: 314, Indels: 195
0.71 0.18 0.11
Matches are distributed among these distances:
200 65 0.05
201 3 0.00
202 1 0.00
203 31 0.02
204 223 0.18
205 11 0.01
207 2 0.00
208 2 0.00
209 3 0.00
210 82 0.06
211 9 0.01
212 296 0.23
213 51 0.04
214 84 0.07
215 136 0.11
216 157 0.12
217 106 0.08
218 1 0.00
221 1 0.00
222 1 0.00
224 4 0.00
225 4 0.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (205 bp):
TACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCTGAGCATGGAATGTTTAGAAAATT
GATCAAAAGAATGGATCGTCTTGAATAATTTAAGGAACCGAAGTTATAAAAGAACTCGTAAAAGT
TTGAGAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTA
ATTTAAAGAC
Found at i:232334 original size:80 final size:79
Alignment explanation
Indices: 232201--232358 Score: 262
Period size: 80 Copynumber: 2.0 Consensus size: 79
232191 CACTAATTGC
* * *
232201 TTTTTAACTCTTGTAGGGAAGCTAAAGAGTCATGTCTCTTCATTAGGATCTGATGTAGTTAAAAA
1 TTTTTAACTCTTGTAGGAAAGCCAAAGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTAAAAA
232266 GGCATGGCAATTTCG
66 GGCATGGC-ATTTCG
* *
232281 TTTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTGAAAA
1 TTTTTAACTCTTGTAGGAAAGCCAAAGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTAAAAA
232346 GGCATGGCATTTC
66 GGCATGGCATTTC
232359 TCCTTAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
79 5 0.07
80 68 0.93
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (79 bp):
TTTTTAACTCTTGTAGGAAAGCCAAAGAGTCATGTCTCTTCATTAGGATCTGATGTAGCTAAAAA
GGCATGGCATTTCG
Found at i:232867 original size:48 final size:48
Alignment explanation
Indices: 232795--232917 Score: 147
Period size: 48 Copynumber: 2.5 Consensus size: 48
232785 TTAATGCAAG
* * ** *
232795 GCATTTAACAAACAAAATAGTTAATAATGCTTATTACTAAATAAAGAT
1 GCATTTAACAAACAAAACACTTAATAATGCAGATTACTAAACAAAGAT
* *
232843 GCATTTAACAAACAAAACACTTAATGATGCAGATTATTAAACAAAGAT
1 GCATTTAACAAACAAAACACTTAATAATGCAGATTACTAAACAAAGAT
* *
232891 GCATTTGACAAAAAAAAAACACTTAAT
1 GCATTT-A-ACAAACAAAACACTTAAT
232918 GAAGCATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 47 0.73
49 1 0.02
50 16 0.25
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (48 bp):
GCATTTAACAAACAAAACACTTAATAATGCAGATTACTAAACAAAGAT
Found at i:232932 original size:48 final size:47
Alignment explanation
Indices: 232832--232934 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 47
232822 TGCTTATTAC
* * * * * *
232832 TAAATAAAGATGCATTTAACAAACAAAACACTTAATGATGCAGATTAT
1 TAAACAAAGATGCATTTAAAAAAAAAAACACTTAATGAAGCA-ATAAA
232880 TAAACAAAGATGCATTTGACAAAAAAAAAACACTTAATGAAGC-ATAAA
1 TAAACAAAGATGCATTT-A-AAAAAAAAAACACTTAATGAAGCAATAAA
232928 TAAACAA
1 TAAACAA
232935 CTTTATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
48 26 0.55
49 1 0.02
50 20 0.43
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.22
Consensus pattern (47 bp):
TAAACAAAGATGCATTTAAAAAAAAAAACACTTAATGAAGCAATAAA
Found at i:238934 original size:80 final size:79
Alignment explanation
Indices: 238795--238959 Score: 251
Period size: 80 Copynumber: 2.1 Consensus size: 79
238785 TACAAACACT
* * * * *
238795 AATTTCTTTTTAACTCTTGTAGGGAAGCTAATGAGTCATGTCTCTTCATTTGGATCTGATGTAGT
1 AATTTCTTTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCACTAGGATCTGATGTAGC
238860 TAAAAAGGCATGGC
66 TAAAAAGGCATGGC
*
238874 AATTTCATTTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCACTAGGGTCTGATGTAG
1 AATTTC-TTTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCACTAGGATCTGATGTAG
*
238939 CTGAAAAGGCATGGC
65 CTAAAAAGGCATGGC
238954 -ATTTCT
1 AATTTCT
238960 CCTTAATGAA
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 11 0.14
80 66 0.85
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (79 bp):
AATTTCTTTTTAACTCTTGTAGGAAAGCCAATGAGTCATGTCTCTTCACTAGGATCTGATGTAGC
TAAAAAGGCATGGC
Found at i:239470 original size:47 final size:47
Alignment explanation
Indices: 239397--239520 Score: 176
Period size: 47 Copynumber: 2.6 Consensus size: 47
239387 TGCAAGGCAC
* * *
239397 TTAACAAACAAAAGAGTTAATAATGCATATTACTAAACAAAGATGCA
1 TTAACAAACAAAACACTTAATGATGCATATTACTAAACAAAGATGCA
* *
239444 TTAACAAACAAAACACTTAATGATGCAGATTATTAAACAAAGATGCA
1 TTAACAAACAAAACACTTAATGATGCATATTACTAAACAAAGATGCA
* *
239491 TTGAACAAAAAAAACACTTAATGAAGCATA
1 TT-AACAAACAAAACACTTAATGATGCATA
239521 AATAAACAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
47 44 0.65
48 24 0.35
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.23
Consensus pattern (47 bp):
TTAACAAACAAAACACTTAATGATGCATATTACTAAACAAAGATGCA
Found at i:240280 original size:216 final size:214
Alignment explanation
Indices: 239831--241442 Score: 1264
Period size: 216 Copynumber: 7.6 Consensus size: 214
239821 CGAAGTTAAA
* * * * * * *
239831 AAAATAACTCGTAAAATTTTGACAACTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCT
1 AAAAGAACTCATAAAAGTTTGACAATTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
** * *
239896 CACGAAAATAAGTTTTTAATT-AAAAAGCCAAAACTTGTTTACAAAATGAAAAACTATTTAGACC
66 CACGTTAATAAGTTTTTAATTCAAAGA-CCAAAACTTGTTTAC-AAATGACAAACTATTTAGACC
* * * * * * * *
239960 AGAGGATATGATTTCTC-GAGCAT-G---GTTCGAAAAATTGCACAAATGAATGGGTCTTCTTGA
129 AAATGATACGATTTC-CAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGA
*
240020 ATACGTTAAGGAACCAAAGTTAT
193 ATACTTTAAGGAA-CAAAGTTAT
* *
240043 AAAAGAACTCATAAAAGTTTGACTATTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCT
1 AAAAGAACTCATAAAAGTTTGACAATTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
* * * * *
240108 CATGTTAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAATTGACAAACTGTTTTGAGCA
66 CACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAA-TGACAAACTATTTAGACCA
* * * * * *
240173 AATGGTACGATTTCCAGTGCATGGAATGTTTAAAAAATTGCTTGATGGAATAGAT-TGTCTTGAA
130 AATGATACGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCT-TCTTGAA
* * *
240237 AACTTTATGCAACATAAGTTAT
194 TACTTTAAGGAACA-AAGTTAT
* **
240259 AAAAGAACTCATAAAAGTTTGACAAGTTT-GAAA-TATGC-TCCAAGAGCCAAGTTAGAAACAAT
1 AAAAGAACTCATAAAAGTTTGACAA-TTTCGAAAGT-T-CATCCAAGAACCAAGAGAGAAACAAT
* * * ** * *
240321 TCTCACG-TAACTAAGTTTTTAATTCAGATACTAAATGTTTTTTACATAATGACAAACTAATTAG
63 TCTCACGTTAA-TAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA-AATGACAAACTATTTAG
* * ** * * *
240385 ACCAAATGATGCGATTTCTC---G--TGCAATGTTCGGAAAATTGCTCGAAAGAATGTATATTCT
126 ACCAAATGATACGATTTC-CAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCTTCT
* *
240445 T-AATTACTTTAAGGAAGAAAAATTAT
190 TGAA-TACTTTAAGGAA-CAAAGTTAT
* * * * *
240471 AAAAGAACTCGTAAAAGTGTGGCAAGTTCGAAAGTTCGA-CTAAGAACCAAGAGAG-AACAATTC
1 AAAAGAACTCATAAAAGTTTGACAATTTCGAAAGTTC-ATCCAAGAACCAAGAGAGAAACAATTC
* * * * *
240534 TCACATAAATAA-TTTCTTATTTCAAAGA-C---AC------A-AAATGATAAACTGTTTAGACC
65 TCACGTTAATAAGTTT-TTAATTCAAAGACCAAAACTTGTTTACAAATGACAAACTATTTAGACC
** * * * * * * *
240587 AAATGATGTGATTTCCCGAGCATGGAATGTTTAGAAGATTGATCGAAAGAATGGATCGTCTTGAA
129 AAATGATACGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAA
* **
240652 TACGTTATTGAACCAAAGTTAT
194 TACTTTAAGGAA-CAAAGTTAT
* * * * * * *
240674 AAAAGAGCTCTTAAAAGTTAGAGAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCT
1 AAAAGAACTCATAAAAGTTTGACAATTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
* * * * * *
240739 CACGTAAATAAGTTTTAAATTGAAAAACTAAAACTTGTTTACAAAATGACAAACTATTTATACCA
66 CACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC-AAATGACAAACTATTTAGACCA
* * * * * * **
240804 AATTATACAATTTCCTGAGCAAGGAATGTTCGAAAATTTGCTCGTGGGAATGGATCTTCTTGAAT
130 AATGATACGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAAT
*
240869 ACTTTAAGGAACCGAAGTTA-
195 ACTTTAAGGAA-CAAAGTTAT
* * * *
240889 AAAATAACTCGTAAAAG-TTG---A--T----AG----TCCAAGAACAAATAGAGAAACAATTCT
1 AAAAGAACTCATAAAAGTTTGACAATTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
** * **
240940 CACGAAAATAAGTTTTTAATTAAAAGGTCAAAACTTGTTTACAAAATGACAAACTATTTAGACCA
66 CACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTAC-AAATGACAAACTATTTAGACCA
* * ** * * * *
241005 GAGGATACGATTTCTTGAGCAT-G---GTTCGAAAAATTGCACAAAGGAATGGGTCTTCTTGAAT
130 AATGATACGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAAT
*
241066 ACGTTAAGGAACCAAAGTTAT
195 ACTTTAAGGAA-CAAAGTTAT
* * *
241087 AAAAGAACTCGTAAAAGTTTGACTATTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCT
1 AAAAGAACTCATAAAAGTTTGACAATTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
* * * * * *
241152 CACGTTAATAAGATTTTAATTCAAAGACCAAAACTTATTTACAAATTTACAAACTGTTTCGAGCA
66 CACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAA-TGACAAACTATTTAGACCA
* * * * * *
241217 AATGGTACAATTTCCAGAGCATGGAATGTTTAAAAAATTGCTTGATGGAATAGAT-TGTCTTG-A
130 AATGATACGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCT-TCTTGAA
* *
241280 TAACTTTATGCAACATAAGTTAT
194 T-ACTTTAAGGAACA-AAGTTAT
* * **
241303 AAAAGAACTAATAAAAGTTTGACAAGTTT-GAAA-TTTACTCCAAGAACCAAGTTAGAAACAATT
1 AAAAGAACTCATAAAAGTTTGACAA-TTTCGAAAGTTCA-TCCAAGAACCAAGAGAGAAACAATT
* * * * * * *
241366 CTCACG-TATCTAAGTTTTTAATTCAAATACTAAAAGTTTTTTACATAATGAAAAACTAATTAGA
64 CTCACGTTA-ATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACA-AATGACAAACTATTTAGA
241430 CCAAATGATACGA
127 CCAAATGATACGA
241443 GTCGCAAGGC
Statistics
Matches: 1105, Mismatches: 223, Indels: 140
0.75 0.15 0.10
Matches are distributed among these distances:
197 50 0.05
198 17 0.02
199 34 0.03
200 2 0.00
201 99 0.09
202 1 0.00
203 94 0.09
204 29 0.03
205 5 0.00
208 4 0.00
209 1 0.00
210 3 0.00
211 37 0.03
212 293 0.27
213 9 0.01
214 4 0.00
215 31 0.03
216 380 0.34
217 12 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (214 bp):
AAAAGAACTCATAAAAGTTTGACAATTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
CACGTTAATAAGTTTTTAATTCAAAGACCAAAACTTGTTTACAAATGACAAACTATTTAGACCAA
ATGATACGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGGAATGGATCTTCTTGAATA
CTTTAAGGAACAAAGTTAT
Found at i:240789 original size:415 final size:420
Alignment explanation
Indices: 239831--241392 Score: 1079
Period size: 428 Copynumber: 3.7 Consensus size: 420
239821 CGAAGTTAAA
* * * * * * *
239831 AAAATAACTCGTAAAATTTTGACAACTTCGGAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCT
1 AAAAGAACTCATAAAAGTTAGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
* * *
239896 CACGAAAATAAGTTTTTAATTAAAAAGCCAAAACTTGTTTACAAAATGAAAAACTATTTAGACCA
66 CACGTAAATAAGTTTTTAATTAAAAA-CTAAAACTTGTTTACAAAATGACAAACTATTTAGACCA
* * * * *
239961 GAGGATATGATTTCTCGAGCATGGTTCGAAAAATTGCACAAATGAATGGGTCTTCTTGAATACGT
130 AATGATACGATTTCTCGAGCATGGTTCGAAAAATTGCACAAATGAATGGATATTCTTGAATACGT
* * * * * *
240026 TAAGGAACCAAAGTTATAAAAGAACTCATAAAAGTTTGACTATTTCGAAAGTTCATCCATGAACC
195 TAAGGAACAAAAATTATAAAAGAACTCATAAAAGTGTGACAAGTTCGAAAGTTCATCCAAGAACC
** *
240091 AAGAGAGAAACAATTCTCATGTTAATAAGATTTTAATTCAAAGACCAAAACTTGTTTACAAATTG
260 AAGAGAGAAACAATTCTCACATAAATAAGATTTTAATTCAAAGACC--AAC-----TACAAATTG
* * * * * * **
240156 ACAAACTGTTTTGAGCAAATGGTACGATTTCCAGTGCATGGAATGTTTAAAAAATTGCTTGATGG
318 ACAAACTGTTTAGACCAAATGATACGATTTCCAGAGCATGGAATGTTTAAAAAATTGATCGAAAG
* *
240221 AATAGATTGTCTTGAAAACTTTATGCAACATAAGTTAT
383 AATAGATCGTCTTGAAAACGTTATGCAACATAAGTTAT
* * * **
240259 AAAAGAACTCATAAAAGTTTGACAAGTTTGAAA-TAT-GCTCCAAGAGCCAAGTTAGAAACAATT
1 AAAAGAACTCATAAAAGTTAGACAAGTTCGAAAGT-TCG-TCCAAGAACCAAGAGAGAAACAATT
* * * ** * * *
240322 CTCACGTAACTAAGTTTTTAATTCAGATACTAAATGTTTTTTACATAATGACAAACTAATTAGAC
64 CTCACGTAAATAAGTTTTTAATT-AAAAACTAAAACTTGTTTACAAAATGACAAACTATTTAGAC
* * * * *
240387 CAAATGATGCGATTTCTCGTGCAAT-GTTCGGAAAATTGCTCGAAA-GAATGTATATTCTT-AAT
128 CAAATGATACGATTTCTCGAGC-ATGGTTCGAAAAATTGCAC-AAATGAATGGATATTCTTGAA-
* * * * *
240449 TACTTTAAGGAAGAAAAATTATAAAAGAACTCGTAAAAGTGTGGCAAGTTCGAAAGTTCGA-CTA
190 TACGTTAAGGAACAAAAATTATAAAAGAACTCATAAAAGTGTGACAAGTTCGAAAGTTC-ATCCA
* *
240513 AGAACCAAGAGAG-AACAATTCTCACATAAATAA-TTTCTTATTTCAAAGA-C-AC-A-AAA-TG
254 AGAACCAAGAGAGAAACAATTCTCACATAAATAAGATT-TTAATTCAAAGACCAACTACAAATTG
* ** * * *
240571 ATAAACTGTTTAGACCAAATGATGTGATTTCCCGAGCATGGAATGTTTAGAAGATTGATCGAAAG
318 ACAAACTGTTTAGACCAAATGATACGATTTCCAGAGCATGGAATGTTTAAAAAATTGATCGAAAG
* *
240636 AATGGATCGTCTTGAATACGTTATTG-AACCA-AAGTTAT
383 AATAGATCGTCTTGAAAACGTTA-TGCAA-CATAAGTTAT
* * * *
240674 AAAAGAGCTCTTAAAAGTTAGAGAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAAAAATTCT
1 AAAAGAACTCATAAAAGTTAGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
* *
240739 CACGTAAATAAGTTTTAAATTGAAAAACTAAAACTTGTTTACAAAATGACAAACTATTTATACCA
66 CACGTAAATAAGTTTTTAATT-AAAAACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCA
* * * * * **** *
240804 AATTATACAATTTC-CTGAGCAAGGAATGTTCGAAAATTTGCTCGTGGGAATGGATCTTCTTGAA
130 AATGATACGATTTCTC-GAGC-ATG---GTTCGAAAAATTGCACAAATGAATGGATATTCTTGAA
* ** * * *
240868 TACTTTAAGGAACCGAAGTTA-AAAATAACTCGTAAAAGT-TG---A--T----AG----TCCAA
190 TACGTTAAGGAACAAAAATTATAAAAGAACTCATAAAAGTGTGACAAGTTCGAAAGTTCATCCAA
* * * * * *
240918 GAACAAATAGAGAAACAATTCTCACGA-AAATAAGTTTTTAATTAAAAGGTCAAAACTTGTTTAC
255 GAACCAAGAGAGAAACAATTCTCAC-ATAAATAAGATTTTAATTCAAA-GAC-CAAC-----TAC
* * * * ** **
240982 AAAATGACAAACTATTTAGACCAGAGGATACGATTTCTTGAGCAT-G---GTTCGAAAAATTGCA
312 AAATTGACAAACTGTTTAGACCAAATGATACGATTTCCAGAGCATGGAATGTTTAAAAAATTG-A
* * * * * *
241043 -C-AAAGGAATGGGTCTTCTTGAATACGTTAAGGAACCA-AAGTTAT
376 TCGAAA-GAATAGATCGTCTTGAAAACGTTATGCAA-CATAAGTTAT
* * * * * *
241087 AAAAGAACTCGTAAAAGTTTGACTATTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCT
1 AAAAGAACTCATAAAAGTTAGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
* * * * * * * * * *
241152 CACGTTAATAAGATTTTAATTCAAAGACCAAAACTTATTTACAAATTTACAAACTGTTTCGAGCA
66 CACGTAAATAAGTTTTTAATT-AAAAACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCA
* * ** *** *
241217 AATGGTACAATTTC-CAGAGCATGGAATGTTTAAAAAATTGC-TTGATGGAATAGAT-TGTCTTG
130 AATGATACGATTTCTC-GAGCAT-G---GTTCGAAAAATTGCACAAAT-GAATGGATAT-TCTTG
* * * * * * * * *
241279 -ATAACTTTATGCAACATAAGTTATAAAAGAACTAATAAAAGTTTGACAAGTTTGAAA-TTTACT
188 AAT-ACGTTAAGGAACAAAAATTATAAAAGAACTCATAAAAGTGTGACAAGTTCGAAAGTTCA-T
** * ** *
241342 CCAAGAACCAAGTTAGAAACAATTCTCACGTATCTAAGTTTTTAATTCAAA
251 CCAAGAACCAAGAGAGAAACAATTCTCACATAAATAAGATTTTAATTCAAA
241393 TACTAAAAGT
Statistics
Matches: 901, Mismatches: 174, Indels: 118
0.76 0.15 0.10
Matches are distributed among these distances:
404 13 0.01
405 26 0.03
406 5 0.01
408 2 0.00
409 2 0.00
412 9 0.01
413 212 0.24
414 18 0.02
415 206 0.23
416 13 0.01
417 36 0.04
418 18 0.02
419 43 0.05
420 3 0.00
423 2 0.00
424 1 0.00
426 3 0.00
427 32 0.04
428 248 0.28
429 9 0.01
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (420 bp):
AAAAGAACTCATAAAAGTTAGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
CACGTAAATAAGTTTTTAATTAAAAACTAAAACTTGTTTACAAAATGACAAACTATTTAGACCAA
ATGATACGATTTCTCGAGCATGGTTCGAAAAATTGCACAAATGAATGGATATTCTTGAATACGTT
AAGGAACAAAAATTATAAAAGAACTCATAAAAGTGTGACAAGTTCGAAAGTTCATCCAAGAACCA
AGAGAGAAACAATTCTCACATAAATAAGATTTTAATTCAAAGACCAACTACAAATTGACAAACTG
TTTAGACCAAATGATACGATTTCCAGAGCATGGAATGTTTAAAAAATTGATCGAAAGAATAGATC
GTCTTGAAAACGTTATGCAACATAAGTTAT
Found at i:245903 original size:17 final size:17
Alignment explanation
Indices: 245859--245909 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
245849 ATTCTGTAAT
245859 ATATATAAATTAATATT-
1 ATATATAAATTAA-ATTC
* * *
245876 TTGTATGAATTAAATTC
1 ATATATAAATTAAATTC
*
245893 ATATATAAATTATATTC
1 ATATATAAATTAAATTC
245910 TTTCCAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
16 3 0.12
17 23 0.88
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (17 bp):
ATATATAAATTAAATTC
Found at i:246094 original size:138 final size:139
Alignment explanation
Indices: 245625--246183 Score: 781
Period size: 138 Copynumber: 4.1 Consensus size: 139
245615 TAGAAGAATG
* * * * * *
245625 AATTATATTATTTTCAAAAGAAAATTAATTTTCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATCAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
* * * *
245690 TATAAATGTTTATATTAATAAATTC-GATAAAATATATACAATTAATATTTTGTATAAAGCAAAT
66 TATAATTGTTTATATTAATAAAATCTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
*
245754 CCATATATT
131 TCATATATT
*
245763 AATTATATTCTTTCCAAAAGAATA-CTAATTTTCATGTCTTTTATATTTTGAGTGAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATC-AATTTTCATGTCTTTTATATTTTGATTGAAATTAATTA
* * *
245827 ATATAATTGTTTATATTAATAAATTCTG-TAATATATATA-AATTAATATTTTGTATGAATTAAA
65 ATATAATTGTTTATATTAATAAAATCTGATAAAATATATACAATTAATATTTTGTATGAATCAAA
*
245890 TTCATATATA
130 TTCATATATT
* * * *
245900 AATTATATTCTTTCCAAAAGAATATTAATTCTCATTTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATCAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
* * * *
245965 TATAATTATTTATATTAATAAAATCAG-TAAAATATATATAATTGATATTTTGTATGAATCAAAT
66 TATAATTGTTTATATTAATAAAATCTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
246029 TCATATATT
131 TCATATATT
* ** * *
246038 AGTTATATTCCTTT-CAAAAGAATATCAATTTTCATGTCGATTGTATTTTAATTGAAATTAATTA
1 AATTATATT-CTTTCCAAAAGAATATCAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTA
*
246102 ATATAATTGTTTATATTAAT-AAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAA
65 ATATAATTGTTTATATTAATAAAATCTGATAAAATATATACAATTAATATTTTGTATGAATCAAA
246166 TTCATATATT
130 TTCATATATT
246176 AATTATAT
1 AATTATAT
246184 CTATGCTCTG
Statistics
Matches: 375, Mismatches: 40, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
137 128 0.34
138 242 0.65
139 5 0.01
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (139 bp):
AATTATATTCTTTCCAAAAGAATATCAATTTTCATGTCTTTTATATTTTGATTGAAATTAATTAA
TATAATTGTTTATATTAATAAAATCTGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
TCATATATT
Found at i:246116 original size:275 final size:276
Alignment explanation
Indices: 245625--246183 Score: 824
Period size: 275 Copynumber: 2.0 Consensus size: 276
245615 TAGAAGAATG
* *
245625 AATTATATTATTTTCAAAAGAAAATTAATTTTCATGTATTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTATTTCCAAAAGAAAATTAATTCTCATGTATTTTATATTTTGATCGAAATTAATTAA
* *
245690 TATAAATGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATAAAGCAAATC
66 TATAAATATTTATATTAATAAAATCGATAAAATATATACAATTAATATTTTGTATAAAGCAAATC
** *
245755 CATATATTAATTATATTCTTTCCAAAAGAATACTAATTTTCATGTCTTTTATATTTTGAGTGAAA
131 CATATATTAATTATATTCTTTCCAAAAGAATACTAATTTTCATGTCGATTATATTTTAAGTGAAA
*
245820 TTAATTAATATAATTGTTTATATTAATAAATTCTG-TAATATATATA-AATTAATATTTTGTATG
196 TTAATTAATATAATTGTTTATATTAATAAATT-TGATAAAATATATACAATTAATATTTTGTATG
*
245883 AATTAAATTCATATATA
260 AATCAAATTCATATATA
* * * *
245900 AATTATATTCTTTCCAAAAGAATATTAATTCTCATTTCTTTTATATTTTGA-CTGAAATTAATTA
1 AATTATATTATTTCCAAAAGAAAATTAATTCTCATGTATTTTATATTTTGATC-GAAATTAATTA
* * * * *
245964 ATATAATTATTTATATTAATAAAATC-AGTAAAATATATATAATTGATATTTTGTATGAATCAAA
65 ATATAAATATTTATATTAATAAAATCGA-TAAAATATATACAATTAATATTTTGTATAAAGCAAA
* * * *
246028 TTCATATATTAGTTATATTCCTTT-CAAAAGAATA-TCAATTTTCATGTCGATTGTATTTTAATT
129 TCCATATATTAATTATATT-CTTTCCAAAAGAATACT-AATTTTCATGTCGATTATATTTTAAGT
246091 GAAATTAATTAATATAATTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGT
192 GAAATTAATTAATATAATTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGT
*
246156 ATGAATCAAATTCATATATT
257 ATGAATCAAATTCATATATA
246176 AATTATAT
1 AATTATAT
246184 CTATGCTCTG
Statistics
Matches: 255, Mismatches: 23, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
274 5 0.02
275 206 0.81
276 44 0.17
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (276 bp):
AATTATATTATTTCCAAAAGAAAATTAATTCTCATGTATTTTATATTTTGATCGAAATTAATTAA
TATAAATATTTATATTAATAAAATCGATAAAATATATACAATTAATATTTTGTATAAAGCAAATC
CATATATTAATTATATTCTTTCCAAAAGAATACTAATTTTCATGTCGATTATATTTTAAGTGAAA
TTAATTAATATAATTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGA
ATCAAATTCATATATA
Found at i:255025 original size:20 final size:20
Alignment explanation
Indices: 254900--255037 Score: 129
Period size: 20 Copynumber: 7.0 Consensus size: 20
254890 ATGCAAATAA
*
254900 AGGCA-CAAATGTTCAATCAG
1 AGGCACCAAA-GTACAATCAG
*
254920 AGGCA-CAAAGTGCTAAT-AG
1 AGGCACCAAAGTAC-AATCAG
* * *
254939 AGGCACCGAAGTACAGTTAG
1 AGGCACCAAAGTACAATCAG
*
254959 AGGCACCAAAGTACAGTCAG
1 AGGCACCAAAGTACAATCAG
*
254979 AGGCACAAAAGTACAATCAG
1 AGGCACCAAAGTACAATCAG
* *
254999 AGGCACCAAAGTGCAAACAG
1 AGGCACCAAAGTACAATCAG
* * *
255019 AGTCACCGAAGTGCAATCA
1 AGGCACCAAAGTACAATCA
255038 TGTACAAGCG
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 12 0.12
20 89 0.88
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.13
Consensus pattern (20 bp):
AGGCACCAAAGTACAATCAG
Found at i:268954 original size:15 final size:15
Alignment explanation
Indices: 268936--269068 Score: 122
Period size: 15 Copynumber: 8.9 Consensus size: 15
268926 TTTACATAAA
*
268936 TGAGTTCACCATAGG
1 TGAGTTCGCCATAGG
* *
268951 TGAGTTCGGCATAAG
1 TGAGTTCGCCATAGG
* *
268966 TGAGTTTGCCATAAG
1 TGAGTTCGCCATAGG
* *
268981 TGAGTTCTCCATAAG
1 TGAGTTCGCCATAGG
* *
268996 AGAGTTTGCCATAGG
1 TGAGTTCGCCATAGG
*
269011 TGAGTTCTCCATAGG
1 TGAGTTCGCCATAGG
* *
269026 AGAGTTCGCCAAAGG
1 TGAGTTCGCCATAGG
* * *
269041 TGAGTTCACTATCGG
1 TGAGTTCGCCATAGG
*
269056 AGAGTTCGCCATA
1 TGAGTTCGCCATA
269069 CGATAACGCC
Statistics
Matches: 92, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 92 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (15 bp):
TGAGTTCGCCATAGG
Found at i:268970 original size:30 final size:30
Alignment explanation
Indices: 268937--269068 Score: 147
Period size: 30 Copynumber: 4.4 Consensus size: 30
268927 TTACATAAAT
* ** *
268937 GAGTTCACCATAGGTGAGTTCGGCATAAGT
1 GAGTTCGCCATAGGTGAGTTCTCCATAAGA
* *
268967 GAGTTTGCCATAAGTGAGTTCTCCATAAGA
1 GAGTTCGCCATAGGTGAGTTCTCCATAAGA
* *
268997 GAGTTTGCCATAGGTGAGTTCTCCATAGGA
1 GAGTTCGCCATAGGTGAGTTCTCCATAAGA
* * * **
269027 GAGTTCGCCAAAGGTGAGTTCACTATCGGA
1 GAGTTCGCCATAGGTGAGTTCTCCATAAGA
269057 GAGTTCGCCATA
1 GAGTTCGCCATA
269069 CGATAACGCC
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 88 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (30 bp):
GAGTTCGCCATAGGTGAGTTCTCCATAAGA
Found at i:273241 original size:30 final size:29
Alignment explanation
Indices: 273183--273243 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
273173 ACAGATATAC
*
273183 AATATATATGCGTGAGTCTGTAGGTGTTA
1 AATATATATGAGTGAGTCTGTAGGTGTTA
* * *
273212 AATATATATGAGTAGGGTTTGTTGGTGTTA
1 AATATATATGAGT-GAGTCTGTAGGTGTTA
273242 AA
1 AA
273244 CATGTATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.39
Consensus pattern (29 bp):
AATATATATGAGTGAGTCTGTAGGTGTTA
Found at i:287399 original size:18 final size:17
Alignment explanation
Indices: 287372--287410 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
287362 AAAAAATTTC
287372 TTTT-TCATTTTCTTCCT
1 TTTTCTCATTTT-TTCCT
*
287389 TTTTCTCATTTTTTTCT
1 TTTTCTCATTTTTTCCT
287406 TTTTC
1 TTTTC
287411 AAGTGACTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCTCATTTTTTCCT
Found at i:297236 original size:21 final size:22
Alignment explanation
Indices: 297185--297234 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
297175 TTGTTTAAAT
*
297185 AAAAAAAAAACACAAAAAAGAG
1 AAAAAAATAACACAAAAAAGAG
297207 AAAAAAATAACA-AAAAAAGAAG
1 AAAAAAATAACACAAAAAAG-AG
297229 AAAAAA
1 AAAAAA
297235 TAGATAGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.84, C:0.06, G:0.08, T:0.02
Consensus pattern (22 bp):
AAAAAAATAACACAAAAAAGAG
Found at i:297690 original size:42 final size:42
Alignment explanation
Indices: 297631--298346 Score: 895
Period size: 42 Copynumber: 17.1 Consensus size: 42
297621 AAGGGAAGCA
* *
297631 TTCATTGCATTTAGAGGCCTAAGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
*
297673 TTCATTGCATTTAGAGGCCCATGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* *
297715 TTCATTGCATTTAAAGGCCCATGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* * **
297757 TTCATTGCATTCAAAGGCATAGGTGTGGAGG-TCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTC-ATTTACTT
** *
297799 TTCATTGCATTTAGAGGCATAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
*
297841 TTCATTGC-TCTTAGAGGCCCAGGTGTGGAGGTTCATTTATTT
1 TTCATTGCAT-TTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* * *
297883 TTCATTGCATTTAGAGGCCCATGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
** *
297925 TTCATTGCATTTAGAGGCATAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* **
297967 TTCATTGCATTCAGAGGCCCAAATGTGGAGG-TCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTC-ATTTACTT
* *
298009 TTGATTGCATTTAGAGGCCCATGTGTGGAGG-TCTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTC-ATTTACTT
*
298051 TTCATCGCATTTAGAGGCCCAGGTGTGGA-GTTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTT-CATTTACTT
* * *
298093 TTCATTACATTTAGAGGCCCAAGTATGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* * * *
298135 TTCATTGCATTTAGAAGCCTAGGTGTTGAGGTTTATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* *
298177 TTCATCGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* ** * * * * *
298219 TTCCTCACATTAAGAGGCCCAAGTGTGAAGGTCCATTTATTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* *
298261 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
* * ** * *
298303 TTCATTTCATTTAGAGGCTCAAATGT-GAGGTTTATTTACAT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
298344 TTC
1 TTC
298347 TTCTACATTC
Statistics
Matches: 592, Mismatches: 74, Indels: 17
0.87 0.11 0.02
Matches are distributed among these distances:
41 20 0.03
42 566 0.96
43 6 0.01
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTTCATTTACTT
Found at i:315490 original size:46 final size:46
Alignment explanation
Indices: 315440--315532 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
315430 ATGATATTTG
*
315440 TATATGTTTTGTGATGTACTTGCAAGTTATTCCATATGAGATTTTA
1 TATATGTTATGTGATGTACTTGCAAGTTATTCCATATGAGATTTTA
*
315486 TATATGTTATGTGATGTACTTGCGAGTTATTCCATATGAGATTTTA
1 TATATGTTATGTGATGTACTTGCAAGTTATTCCATATGAGATTTTA
315532 T
1 T
315533 CAAGGTAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (46 bp):
TATATGTTATGTGATGTACTTGCAAGTTATTCCATATGAGATTTTA
Found at i:320795 original size:25 final size:26
Alignment explanation
Indices: 320736--320796 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 26
320726 AAAATGAGCG
320736 AAAATTAAAAGAAATGGAGAGAAGAA
1 AAAATTAAAAGAAATGGAGAGAAGAA
320762 AAAA--AAAAGAAAT-GAGAGAA-AA
1 AAAATTAAAAGAAATGGAGAGAAGAA
*
320784 AGAAATTGAAAGA
1 A-AAATTAAAAGA
320797 GAAAAAGAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.10
23 10 0.32
24 9 0.29
25 5 0.16
26 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (26 bp):
AAAATTAAAAGAAATGGAGAGAAGAA
Found at i:320797 original size:18 final size:16
Alignment explanation
Indices: 320765--320818 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 16
320755 AGAAGAAAAA
320765 AAAAAGAAA-TGAGAG
1 AAAAAGAAATTGAGAG
320780 AAAAAGAAATTGAAAGAG
1 AAAAAGAAATTG--AGAG
*
320798 AAAAAGAACTTGAGAG
1 AAAAAGAAATTGAGAG
320814 AAAAA
1 AAAAA
320819 AAAAAGAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 9 0.26
16 11 0.31
18 15 0.43
ACGTcount: A:0.67, C:0.02, G:0.22, T:0.09
Consensus pattern (16 bp):
AAAAAGAAATTGAGAG
Found at i:320798 original size:20 final size:20
Alignment explanation
Indices: 320742--320802 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
320732 AGCGAAAATT
* *
320742 AAAAGAAATGGAGAGA-AGA
1 AAAAGAAATAGAAAGAGAGA
*
320761 AAAA-AAAAAGAAATGAGAGA
1 AAAAGAAATAGAAA-GAGAGA
*
320781 AAAAGAAATTGAAAGAGA-A
1 AAAAGAAATAGAAAGAGAGA
320800 AAA
1 AAA
320803 GAACTTGAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 6 0.18
19 10 0.29
20 11 0.32
21 7 0.21
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.07
Consensus pattern (20 bp):
AAAAGAAATAGAAAGAGAGA
Found at i:320819 original size:18 final size:17
Alignment explanation
Indices: 320763--320820 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
320753 AGAGAAGAAA
*
320763 AAAAAAAGAAATGAGAG
1 AAAAAAAGAATTGAGAG
* *
320780 AAAAAGA-AATTGAAAG
1 AAAAAAAGAATTGAGAG
*
320796 AGAAAAAGAACTTGAGAG
1 AAAAAAAGAA-TTGAGAG
320814 AAAAAAA
1 AAAAAAA
320821 AAAGAGATGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 12 0.38
17 8 0.25
18 12 0.38
ACGTcount: A:0.69, C:0.02, G:0.21, T:0.09
Consensus pattern (17 bp):
AAAAAAAGAATTGAGAG
Found at i:323411 original size:18 final size:18
Alignment explanation
Indices: 323388--323431 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
323378 TAATACAGTC
323388 CATGCATTTCATACAACT
1 CATGCATTTCATACAACT
* * * *
323406 CGTGCACTTCTTGCAACT
1 CATGCATTTCATACAACT
323424 CATGCATT
1 CATGCATT
323432 CCATGCAATG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (18 bp):
CATGCATTTCATACAACT
Found at i:323438 original size:18 final size:17
Alignment explanation
Indices: 323388--323439 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
323378 TAATACAGTC
*
323388 CATGCATTTCATACAACT
1 CATGCA-TTCATGCAACT
* *
323406 CGTGCACTTCTTGCAACT
1 CATGCA-TTCATGCAACT
323424 CATGCATTCCATGCAA
1 CATGCATT-CATGCAA
323440 TGTGCTGCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (17 bp):
CATGCATTCATGCAACT
Found at i:326043 original size:16 final size:16
Alignment explanation
Indices: 326022--326053 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
326012 AATTTAAATA
*
326022 AAATAAGTAAATAGAT
1 AAATAAATAAATAGAT
326038 AAATAAATAAATAGAT
1 AAATAAATAAATAGAT
326054 TTCTGTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (16 bp):
AAATAAATAAATAGAT
Found at i:326126 original size:12 final size:13
Alignment explanation
Indices: 326104--326132 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
326094 TTGTTTAACC
326104 AAATTATTAAATT
1 AAATTATTAAATT
326117 AAATTA-TAAATT
1 AAATTATTAAATT
326129 AAAT
1 AAAT
326133 ATCAAAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTATTAAATT
Found at i:334720 original size:5 final size:5
Alignment explanation
Indices: 334710--334740 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
334700 TATTCCTGCA
334710 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
334741 TCTACTTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TCTTT
Found at i:336894 original size:13 final size:13
Alignment explanation
Indices: 336876--336905 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
336866 AACAGTTACC
*
336876 CTTTTTTTTTTTT
1 CTTTTTTCTTTTT
336889 CTTTTTTCTTTTT
1 CTTTTTTCTTTTT
336902 CTTT
1 CTTT
336906 CTATTACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
CTTTTTTCTTTTT
Found at i:340123 original size:20 final size:20
Alignment explanation
Indices: 340081--340123 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
340071 TTTATATGGT
**
340081 TTAGTGAGACAAAACTTGGA
1 TTAGTGAGACAAAACTTCAA
* *
340101 TTAGTGAGAGAAATCTTCAA
1 TTAGTGAGACAAAACTTCAA
340121 TTA
1 TTA
340124 AGGTAAGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (20 bp):
TTAGTGAGACAAAACTTCAA
Found at i:344828 original size:46 final size:46
Alignment explanation
Indices: 344776--344884 Score: 209
Period size: 46 Copynumber: 2.4 Consensus size: 46
344766 AGAATAAATA
344776 GAAATGGAGAAATGGAAAAAGTTCATAAATGATTATGATTTTTTTC
1 GAAATGGAGAAATGGAAAAAGTTCATAAATGATTATGATTTTTTTC
*
344822 GAAATGGAGAAATGGAAAACGTTCATAAATGATTATGATTTTTTTC
1 GAAATGGAGAAATGGAAAAAGTTCATAAATGATTATGATTTTTTTC
344868 GAAATGGAGAAATGGAA
1 GAAATGGAGAAATGGAA
344885 TCATTTGGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (46 bp):
GAAATGGAGAAATGGAAAAAGTTCATAAATGATTATGATTTTTTTC
Found at i:345637 original size:30 final size:30
Alignment explanation
Indices: 345603--345672 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
345593 GCTTAGAAGA
* * * *
345603 TGCGAGCACTGGTGTTGTGAGCACTCATGT
1 TGCGAGCACTGGAGCTGCGAACACTCATGT
*
345633 TGCGAACTA-TGGAGCTGCGAACACTCATGT
1 TGCGAGC-ACTGGAGCTGCGAACACTCATGT
345663 TGCGAGCACT
1 TGCGAGCACT
345673 CACAATGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 1 0.03
30 30 0.94
31 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (30 bp):
TGCGAGCACTGGAGCTGCGAACACTCATGT
Found at i:345871 original size:18 final size:18
Alignment explanation
Indices: 345848--345891 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
345838 TCATGCGTTC
345848 CATGCATTTCATACAACT
1 CATGCATTTCATACAACT
* * * *
345866 CGTGCACTTCTTGCAACT
1 CATGCATTTCATACAACT
345884 CATGCATT
1 CATGCATT
345892 CCATGCAATG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (18 bp):
CATGCATTTCATACAACT
Found at i:345898 original size:18 final size:17
Alignment explanation
Indices: 345848--345899 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
345838 TCATGCGTTC
*
345848 CATGCATTTCATACAACT
1 CATGCA-TTCATGCAACT
* *
345866 CGTGCACTTCTTGCAACT
1 CATGCA-TTCATGCAACT
345884 CATGCATTCCATGCAA
1 CATGCATT-CATGCAA
345900 TGTGCTACAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (17 bp):
CATGCATTCATGCAACT
Found at i:346057 original size:55 final size:55
Alignment explanation
Indices: 345988--346099 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
345978 TAAGTTTTAA
345988 TTATATTTTGTGTTATTTTGATAAGTCTTTAAATATTTCCTAAGTTAGTTGTTTG
1 TTATATTTTGTGTTATTTTGATAAGTCTTTAAATATTTCCTAAGTTAGTTGTTTG
346043 TTATATTTTGTGTTATTTTGATAAGTCTTTAAATATTTCCTAAGTTAGTTGTTTG
1 TTATATTTTGTGTTATTTTGATAAGTCTTTAAATATTTCCTAAGTTAGTTGTTTG
346098 TT
1 TT
346100 GCACCTACCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.23, C:0.05, G:0.14, T:0.57
Consensus pattern (55 bp):
TTATATTTTGTGTTATTTTGATAAGTCTTTAAATATTTCCTAAGTTAGTTGTTTG
Found at i:348013 original size:18 final size:18
Alignment explanation
Indices: 347992--348064 Score: 59
Period size: 18 Copynumber: 4.3 Consensus size: 18
347982 AAGAAATAGA
347992 GAGAAGAAAAAAAGAAAT
1 GAGAAGAAAAAAAGAAAT
348010 GAG-AG--AAAAAGAAATT
1 GAGAAGAAAAAAAGAAA-T
* *
348026 GA-AAGAGAAAAAGAACT
1 GAGAAGAAAAAAAGAAAT
*
348043 -AGAGAGAAAAAAA-AAAA
1 GAGA-AGAAAAAAAGAAAT
348060 GAGAA
1 GAGAA
348065 AATTTGTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
15 9 0.20
16 6 0.14
17 7 0.16
18 22 0.50
ACGTcount: A:0.70, C:0.01, G:0.23, T:0.05
Consensus pattern (18 bp):
GAGAAGAAAAAAAGAAAT
Found at i:348021 original size:36 final size:36
Alignment explanation
Indices: 347980--348065 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 36
347970 AGCTAAACAT
347980 AAAAGAAATAGAGAGAAGAAAAAAAGAAAT-GAGAGA
1 AAAAGAAATAGAGA-AAGAAAAAAAGAAATAGAGAGA
* * *
348016 AAAAGAAAT--TGAAAGAGAAAAAGAACTAGAGAGA
1 AAAAGAAATAGAGAAAGAAAAAAAGAAATAGAGAGA
* *
348050 AAAAAAAAAAGAGAAA
1 AAAAGAAATAGAGAAA
348066 ATTTGTTGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
33 13 0.32
34 15 0.37
36 13 0.32
ACGTcount: A:0.71, C:0.01, G:0.22, T:0.06
Consensus pattern (36 bp):
AAAAGAAATAGAGAAAGAAAAAAAGAAATAGAGAGA
Found at i:348050 original size:16 final size:16
Alignment explanation
Indices: 348000--348066 Score: 68
Period size: 18 Copynumber: 4.2 Consensus size: 16
347990 GAGAGAAGAA
348000 AAAAAGAAAT-GAGAG
1 AAAAAGAAATAGAGAG
*
348015 AAAAAGAAATTGAAAGAG
1 AAAAAGAAA-T-AGAGAG
*
348033 AAAAAGAACTAGAGAG
1 AAAAAGAAATAGAGAG
*
348049 AAAAA-AAA-AAAGAG
1 AAAAAGAAATAGAGAG
348063 AAAA
1 AAAA
348067 TTTGTTGATA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.20
15 11 0.25
16 11 0.25
17 1 0.02
18 12 0.27
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.06
Consensus pattern (16 bp):
AAAAAGAAATAGAGAG
Found at i:348153 original size:16 final size:16
Alignment explanation
Indices: 348129--348172 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
348119 CAAGAAATTT
*
348129 TGAATGAAAAAGAAAA
1 TGAAAGAAAAAGAAAA
*
348145 TGAAAG-AAAAGAAAT
1 TGAAAGAAAAAGAAAA
*
348160 TGAAACAAAAAGA
1 TGAAAGAAAAAGA
348173 GAGAGTGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.54
16 11 0.46
ACGTcount: A:0.68, C:0.02, G:0.18, T:0.11
Consensus pattern (16 bp):
TGAAAGAAAAAGAAAA
Found at i:350431 original size:15 final size:15
Alignment explanation
Indices: 350410--350451 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
350400 GCTTGGAAGA
**
350410 TGCGAGCACTGGTGT
1 TGCGAGCACTCATGT
*
350425 TGTGAGCACTCATGT
1 TGCGAGCACTCATGT
350440 TGCGAGCACTCA
1 TGCGAGCACTCA
350452 CAATGAGAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (15 bp):
TGCGAGCACTCATGT
Found at i:350479 original size:15 final size:15
Alignment explanation
Indices: 350422--350486 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
350412 CGAGCACTGG
350422 TGTTGTGAGCACTCA
1 TGTTGTGAGCACTCA
*
350437 TGTTGCGAGCACTCA
1 TGTTGTGAGCACTCA
*** * * *
350452 CAATGAGAACACTGA
1 TGTTGTGAGCACTCA
*
350467 TGTTGTGAGCACTCG
1 TGTTGTGAGCACTCA
350482 TGTTG
1 TGTTG
350487 CAACATGAAT
Statistics
Matches: 36, Mismatches: 14, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (15 bp):
TGTTGTGAGCACTCA
Found at i:350674 original size:18 final size:18
Alignment explanation
Indices: 350624--350675 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
350614 TCATGCATTC
*
350624 CATGCATTCCATACAACT
1 CATGCATTCCATGCAACT
** * *
350642 TGTGCATTTCTTGCAACT
1 CATGCATTCCATGCAACT
350660 CATGCATTCCATGCAA
1 CATGCATTCCATGCAA
350676 TGTGCTGCAC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (18 bp):
CATGCATTCCATGCAACT
Found at i:373708 original size:18 final size:18
Alignment explanation
Indices: 373662--373701 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
373652 AATAAACAAA
*
373662 TTTTTTTTTTCTTTTCTC
1 TTTTCTTTTTCTTTTCTC
373680 TTTTCTTTTTC-TTTCT-
1 TTTTCTTTTTCTTTTCTC
373696 TTTTCT
1 TTTTCT
373702 CATTTTCCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 5 0.24
18 10 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTCTC
Found at i:381000 original size:15 final size:14
Alignment explanation
Indices: 380976--381007 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
380966 CTATTGATGG
380976 TTGTTATAACTCCC
1 TTGTTATAACTCCC
380990 TTGTCTATAACTCCC
1 TTGT-TATAACTCCC
381005 TTG
1 TTG
381008 ATTTGTGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (14 bp):
TTGTTATAACTCCC
Found at i:385486 original size:25 final size:25
Alignment explanation
Indices: 385454--385505 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
385444 TTAATGAAAT
385454 ATTTTATAATAAATTATTTAATATA
1 ATTTTATAATAAATTATTTAATATA
* ** *
385479 ATTTTATATTTTATTATTTAATTTA
1 ATTTTATAATAAATTATTTAATATA
385504 AT
1 AT
385506 CATGTTTGGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTATAATAAATTATTTAATATA
Found at i:387549 original size:18 final size:18
Alignment explanation
Indices: 387503--387548 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
387493 GGAGAAGAAA
387503 AAAGAGAAAAAGAAATTG
1 AAAGAGAAAAAGAAATTG
*
387521 AAAGAGAAAAAGAACTTG
1 AAAGAGAAAAAGAAATTG
387539 AAAGA-AAAAA
1 AAAGAGAAAAA
387549 AAAGAGAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 5 0.19
18 22 0.81
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAGAGAAAAAGAAATTG
Found at i:387677 original size:21 final size:21
Alignment explanation
Indices: 387653--387698 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
387643 AAAAGAGGTT
*
387653 GAAACAGAAAGAGAGAGTGAG
1 GAAAAAGAAAGAGAGAGTGAG
** *
387674 GAAAAAGAAAGTTAGAGTGAT
1 GAAAAAGAAAGAGAGAGTGAG
387695 GAAA
1 GAAA
387699 GTCTGAGTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.33, T:0.11
Consensus pattern (21 bp):
GAAAAAGAAAGAGAGAGTGAG
Found at i:387700 original size:15 final size:14
Alignment explanation
Indices: 387679--387728 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
387669 GTGAGGAAAA
387679 AGAAAGTTAGAGTG
1 AGAAAGTTAGAGTG
387693 ATGAAAGTCT-GAGTG
1 A-GAAAGT-TAGAGTG
387708 A-AAAGATTGAGAGTG
1 AGAAAG-TT-AGAGTG
387723 AGAAAG
1 AGAAAG
387729 AACTCGAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 5 0.17
14 2 0.07
15 18 0.60
16 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.34, T:0.20
Consensus pattern (14 bp):
AGAAAGTTAGAGTG
Found at i:389107 original size:15 final size:15
Alignment explanation
Indices: 389087--389119 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
389077 TGAAATTAGG
389087 TTAGTTTTTAAGAGC
1 TTAGTTTTTAAGAGC
389102 TTAGTTTTTAAGAGC
1 TTAGTTTTTAAGAGC
389117 TTA
1 TTA
389120 TTTATCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (15 bp):
TTAGTTTTTAAGAGC
Found at i:390494 original size:27 final size:26
Alignment explanation
Indices: 390462--390582 Score: 134
Period size: 27 Copynumber: 4.5 Consensus size: 26
390452 ATCATGCTAA
390462 GCCACAAAGGCATACCATTTAGAGTAC
1 GCCACAAAGGCAT-CCATTTAGAGTAC
*
390489 ACCACAAAGGCAGTCCATTTAGAGTAC
1 GCCACAAAGGCA-TCCATTTAGAGTAC
* * * * *
390516 GCCACTAAGACATTCTTTTCAGATTAC
1 GCCACAAAGGCATCCATTT-AGAGTAC
* *
390543 GCCACAAAGGCATTCCTTTTAGATTAC
1 GCCACAAAGGCA-TCCATTTAGAGTAC
390570 GCCACAAAGGCAT
1 GCCACAAAGGCAT
390583 AACAGAGTAT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.07
27 68 0.84
28 7 0.09
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (26 bp):
GCCACAAAGGCATCCATTTAGAGTAC
Found at i:394593 original size:656 final size:656
Alignment explanation
Indices: 393340--394652 Score: 2180
Period size: 656 Copynumber: 2.0 Consensus size: 656
393330 ACTTAGTAAT
393340 TGATGGGTGTCAAATCCACCAAATATAAATATTCCTACGACAAATAATACAAAACAGTAGTATAA
1 TGATGGGTGTCAAATCCACCAAATATAAATATTCCTACGACAAATAATACAAAACAGTAGTATAA
* * *
393405 GGCAGTAGGGTCGATTCCATAGGGACTGGTTACTGTAATTCACACTGGTGTCTTCCTCTTAAACA
66 GGCAGTAGGGTCGATTCCACAGGGACTGGTTACTGTAATCCACACTCGTGTCTTCCTCTTAAACA
*
393470 TCGTGTCGAAGGGCATGCCCACGACTTGTGACTATCTCCTAAAAAATAAAAATAAAAGAGTGAGG
131 TCGTGTCGAAGGGCATGCCCACGACTCGTGACTATCTCCTAAAAAATAAAAATAAAAGAGTGAGG
*
393535 GTTTAGAGATGAAATGTCAAACTAAAATAAAACAAAAATAAAATAAGTAAGTGAAATAAATATTG
196 GTTTAGAGATGAAACGTCAAACTAAAATAAAACAAAAATAAAATAAGTAAGTGAAATAAATATTG
393600 CTACTAAATAATTAATCGAGATAAAGAAATGAGAAAAACTATATTTAATAAGCTTAGCCTCAACC
261 CTACTAAATAATTAATCGAGATAAAGAAATGAGAAAAACTATATTTAATAAGCTTAGCCTCAACC
* *
393665 TCGGTTTCCTCCGATCTTGAATCGATCCTTGAAAATTAATCTTCCCTTTTTAATCGATAAGCTGA
326 TCGGTTTCCTCCAAACTTGAATCGATCCTTGAAAATTAATCTTCCCTTTTTAATCGATAAGCTGA
*
393730 TTACAGCGCTCGAGAACATCCCAACCGCCAACTTTTCCTCTAGTAGCCAGTTCCGGATACGACCT
391 TTACAGCGCTCGAGAACATCCCAACCGCCAACTTTTCCTCTAGTAGCCAGTTCCGGATACAACCT
* * *
393795 ACAAATCGACCTTTGTCGAATGCCTAACCACGTCGCGCGTGCTCGCGATTTAAGATTTCAACAGC
456 ACAAATCGACCCTTGCCGAATGCCTAACCACGTCGCACGTGCTCGCGATTTAAGATTTCAACAGC
* * * * *
393860 TTTGCATTCTGAAAAGCCCAACTCGAATTAACAACCTCAATCATGTGGGTCATTTAAATCCGGTC
521 TTTGCATTCTGAAAAGCCCAACTCGAATTAAAAACCTCAACCACGTAGGTCATTTAAATCCGATC
* * * *
393925 TCTACCACCCTTGACGGAATCCAACTAACTTTTCCTACTTGGACATGCCAATTTTTTCGTGGGAA
586 TCTACCACCCTTGACGGAATCCAACTAACTTTTCCCACTTGGACACGCCAATTTGTTCGCGGGAA
393990 CTCGAA
651 CTCGAA
*
393996 TGATGGGTGTCGAATCCACCAAATATAAATATTCCTACGACAAATAATACAAAACAGTAGTATAA
1 TGATGGGTGTCAAATCCACCAAATATAAATATTCCTACGACAAATAATACAAAACAGTAGTATAA
* * *
394061 GGCAGTAGGGTCGATTCCACAGGGACTGGTTGCTGTAATCCACTCTCGTGTCTTCCTCTTAAACG
66 GGCAGTAGGGTCGATTCCACAGGGACTGGTTACTGTAATCCACACTCGTGTCTTCCTCTTAAACA
* * * *
394126 TCGTGTCGAAGGGCGTGCTCACGACTCGTGACTGTCTCCTAAAAAATAAAAATAAAAGAGTGGGG
131 TCGTGTCGAAGGGCATGCCCACGACTCGTGACTATCTCCTAAAAAATAAAAATAAAAGAGTGAGG
394191 GTTTAGAGATGAAACGTCAAACTAAAATAAAACAAAAATAAAATAAGTAAGTGAAATAAATATTG
196 GTTTAGAGATGAAACGTCAAACTAAAATAAAACAAAAATAAAATAAGTAAGTGAAATAAATATTG
* * **
394256 CTGCTAAATAATTAATCGAGATAAAGAAATGAGAAAAACTATATTTAGTAAGCTTAGCCTCAGTC
261 CTACTAAATAATTAATCGAGATAAAGAAATGAGAAAAACTATATTTAATAAGCTTAGCCTCAACC
* * * * * *
394321 TTGGTTTTCTCTAAACTTGAATCGATCCTTGAAAATTAATCTTTCCTTTTTAATTGATAAGCTGG
326 TCGGTTTCCTCCAAACTTGAATCGATCCTTGAAAATTAATCTTCCCTTTTTAATCGATAAGCTGA
* *
394386 TTATAGCGCTCGAGAACGTCCCAACCGCCAACTTTTCCTCTAGTAGCC-GCTTCCGGATACAACC
391 TTACAGCGCTCGAGAACATCCCAACCGCCAACTTTTCCTCTAGTAGCCAG-TTCCGGATACAACC
* * *
394450 TGCAAA-CTGACCCTTGCCGAATGTCTAACCACGTCGTACGTGCTCGCGATTTAAGATTTCAACA
455 TACAAATC-GACCCTTGCCGAATGCCTAACCACGTCGCACGTGCTCGCGATTTAAGATTTCAACA
* *
394514 GCTTTGCATTCTGAAAAGCTCATCTCGAATTAAAAACCTCAACCACGTAGGTCATTTAAATCCGA
519 GCTTTGCATTCTGAAAAGCCCAACTCGAATTAAAAACCTCAACCACGTAGGTCATTTAAATCCGA
*
394579 TCTCTACCACCCTTGACGGAATCCAACTAGCTTTTCCCACTTGGACACGCCAATTTGTTCGCGGG
584 TCTCTACCACCCTTGACGGAATCCAACTAACTTTTCCCACTTGGACACGCCAATTTGTTCGCGGG
394644 AACTCGAA
649 AACTCGAA
394652 T
1 T
394653 ACAGCACGGT
Statistics
Matches: 609, Mismatches: 46, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
655 2 0.00
656 607 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (656 bp):
TGATGGGTGTCAAATCCACCAAATATAAATATTCCTACGACAAATAATACAAAACAGTAGTATAA
GGCAGTAGGGTCGATTCCACAGGGACTGGTTACTGTAATCCACACTCGTGTCTTCCTCTTAAACA
TCGTGTCGAAGGGCATGCCCACGACTCGTGACTATCTCCTAAAAAATAAAAATAAAAGAGTGAGG
GTTTAGAGATGAAACGTCAAACTAAAATAAAACAAAAATAAAATAAGTAAGTGAAATAAATATTG
CTACTAAATAATTAATCGAGATAAAGAAATGAGAAAAACTATATTTAATAAGCTTAGCCTCAACC
TCGGTTTCCTCCAAACTTGAATCGATCCTTGAAAATTAATCTTCCCTTTTTAATCGATAAGCTGA
TTACAGCGCTCGAGAACATCCCAACCGCCAACTTTTCCTCTAGTAGCCAGTTCCGGATACAACCT
ACAAATCGACCCTTGCCGAATGCCTAACCACGTCGCACGTGCTCGCGATTTAAGATTTCAACAGC
TTTGCATTCTGAAAAGCCCAACTCGAATTAAAAACCTCAACCACGTAGGTCATTTAAATCCGATC
TCTACCACCCTTGACGGAATCCAACTAACTTTTCCCACTTGGACACGCCAATTTGTTCGCGGGAA
CTCGAA
Found at i:405647 original size:25 final size:26
Alignment explanation
Indices: 405618--405674 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
405608 CTTATTTACT
* *
405618 AAATAAAGAAAATAT-AATCAAAATA
1 AAATAAACAAAATATCAAACAAAATA
*
405643 AAAT-AACAAAATATCAAAGAAAATA
1 AAATAAACAAAATATCAAACAAAATA
*
405668 AATTAAA
1 AAATAAA
405675 TCTAATTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.35
25 15 0.58
26 2 0.08
ACGTcount: A:0.72, C:0.05, G:0.04, T:0.19
Consensus pattern (26 bp):
AAATAAACAAAATATCAAACAAAATA
Done.