Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012792.1 Kokia drynarioides strain JFW-HI SEQ_127805, 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: 125425
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 36 characters in sequence are not A, C, G, or T
Found at i:363 original size:19 final size:18
Alignment explanation
Indices: 339--383 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
329 TTAAACATAA
*
339 AAAAATTAAAATTAAGAAC
1 AAAAATTAAAATGAA-AAC
* *
358 AAAAATTGAAATGAAAAT
1 AAAAATTAAAATGAAAAC
376 AAAAATTA
1 AAAAATTA
384 CAAAGTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAAATTAAAATGAAAAC
Found at i:2580 original size:36 final size:37
Alignment explanation
Indices: 2533--2605 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
2523 TATCAAACCT
*
2533 CATGCGAACATC-TTTTTATTATGGCATTCATACAAG
1 CATGCGAACATCTTTTTTATCATGGCATTCATACAAG
*
2569 CATGCGAACATCTTTTTTATCATGGCATTTATACAAG
1 CATGCGAACATCTTTTTTATCATGGCATTCATACAAG
2606 TTTTATGACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 12 0.35
37 22 0.65
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (37 bp):
CATGCGAACATCTTTTTTATCATGGCATTCATACAAG
Found at i:9788 original size:21 final size:21
Alignment explanation
Indices: 9758--9804 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9748 GAGACTATTT
* * *
9758 ACCTCTACCTTGAGGTCGTTC
1 ACCTCCACCTCGAGGTCGATC
9779 ACCTCCACCTCGAGGTCGATC
1 ACCTCCACCTCGAGGTCGATC
9800 ACCTC
1 ACCTC
9805 GTGTTCCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.40, G:0.17, T:0.26
Consensus pattern (21 bp):
ACCTCCACCTCGAGGTCGATC
Found at i:16185 original size:12 final size:13
Alignment explanation
Indices: 16137--16191 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 13
16127 TAAATATTAA
*
16137 TTTTAAAATAATT
1 TTTTAATATAATT
*
16150 TTTTAACTTTAATT
1 TTTTAA-TATAATT
16164 TTATTAATATAATT
1 TT-TTAATATAATT
*
16178 TTTT-ATATTATT
1 TTTTAATATAATT
16190 TT
1 TT
16192 CAATAGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 9 0.25
13 8 0.22
14 15 0.42
15 4 0.11
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTAATATAATT
Found at i:17483 original size:519 final size:521
Alignment explanation
Indices: 16481--17521 Score: 1854
Period size: 519 Copynumber: 2.0 Consensus size: 521
16471 ATAACCCACA
* *
16481 ATTAAATTTATCACTTAACGGTGAATAAATTTAATTGTTTTTTATTTTTCTATTTTATTTAAGAT
1 ATTAAATGTATCACTTAAAGGTGAATAAATTTAATTGTTTTTTATTTTTCTATTTTATTTAAGAT
* * *
16546 TATATTATCATTTATCAAATTATATAATTATAATCTACATTCAATTTCAAGTGATAGACCTAATC
66 TATATTATCATTTATCAAATTATATAATTATAATCTACATTCAATTTCAAATGATAGACCAAACC
* * *
16611 TATTTTATAACTTAAATTCAACACTTAATTTTTGGTACTTATTTTTTCAAACTTTTTTAATACTT
131 TATTTTATAACTTAAATTCAACACTTAATTTTCGATACTTATTTTTTCAAAATTTTTTAATACTT
* * *
16676 AATTTTTCAATTTATCAAACATACCATATTTTTTTTTTGGTGAAATAAATAGATTGTCTAAATTA
196 AATTTTTCAATTTATCAAACATACCATA-TTTTTTTTAGGTGAAATAAATAGATGGTCCAAATTA
* *
16741 ATCTAACATAAACGAAAATTTGTTAATCTATCAATCTCAAGAACATGTAATAACTCTTCAAGAAT
260 ATCTAACATAAACAAAAAATTGTTAATCTATCAATCTCAAGAACATGTAATAACTCTTCAAGAAT
*
16806 ATCTTCAAACACCTCCATATCTATACATCTTTCTGTAGCAATCTTTGCAATGTGATCTGTAACTT
325 ATCTTCAAACACCTCCATATCTATACATCTTTCTGTAGCAATCTTTGCAACGTGATCTGTAACTT
*
16871 GGTTTCTTTCCCTCGGAATATGCTTTATCTTCCACTGTTGTAACACTTGTAAGCTCATATGTATC
390 GGTTTCTTTCCCTCGGAATATGCTTTATCTTCCACTGCTGTAACACTTGTAAGCTCATATGTATC
*
16936 CTTCTTAACAAAGTTGAGGATGAATATACCAAGTGTACATATTGAACAACTTTAACGACCTCTAG
455 CTTCTTAACAAAGTTGAGGATGAATATACCAAATGTACATATTGAACAACTTTAACGACCTCTAG
17001 AT
520 AT
17003 ATTAAATGTATCACTTAAAAGGTGAATAAATTTAATTGTTTTTTATTTTTCTATTTTATTTAAGA
1 ATTAAATGTATCACTT-AAAGGTGAATAAATTTAATTGTTTTTTATTTTTCTATTTTATTTAAGA
* * *
17068 TTATATTATTATTTATCAAATTATATAATTATAATCTACATTTAATTTCAAATGATAGATCAAAC
65 TTATATTATCATTTATCAAATTATATAATTATAATCTACATTCAATTTCAAATGATAGACCAAAC
*
17133 CTATTTTATAACTTAAATTCACCACTTAATTTTCGATACTTATTTTTT-AAAATTTTTTAATACT
130 CTATTTTATAACTTAAATTCAACACTTAATTTTCGATACTTATTTTTTCAAAATTTTTTAATACT
17197 TAA-TTTTCAATTTATCAAACATACCATA-TTTTTTTAGGTGAAATAAATAGATGGTCCAAATTA
195 TAATTTTTCAATTTATCAAACATACCATATTTTTTTTAGGTGAAATAAATAGATGGTCCAAATTA
*
17260 ATCTAACATAAACAAAAAATTGTTAATCTATCAATCTCAAGAACATGTAATAACTCTTCAGGAAT
260 ATCTAACATAAACAAAAAATTGTTAATCTATCAATCTCAAGAACATGTAATAACTCTTCAAGAAT
17325 ATCTTCAAACACCTCCATATCTATACATCTTTCTGTAGCAATCTTTGCAACGTGATCTGTAACTT
325 ATCTTCAAACACCTCCATATCTATACATCTTTCTGTAGCAATCTTTGCAACGTGATCTGTAACTT
17390 GGTTTCTTTCCCTCGGAATATGCTTTATCTTCCACTGCTGTAACACTTGTAAGCTCATATGTATC
390 GGTTTCTTTCCCTCGGAATATGCTTTATCTTCCACTGCTGTAACACTTGTAAGCTCATATGTATC
17455 CTTCTTAACAAAGTTGAGGATGAATATACCAAATGTACATATTGAACAACTTTAACGACCTCTAG
455 CTTCTTAACAAAGTTGAGGATGAATATACCAAATGTACATATTGAACAACTTTAACGACCTCTAG
17520 AT
520 AT
17522 TATCAACGTG
Statistics
Matches: 497, Mismatches: 21, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
519 288 0.58
521 25 0.05
522 33 0.07
523 151 0.30
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.41
Consensus pattern (521 bp):
ATTAAATGTATCACTTAAAGGTGAATAAATTTAATTGTTTTTTATTTTTCTATTTTATTTAAGAT
TATATTATCATTTATCAAATTATATAATTATAATCTACATTCAATTTCAAATGATAGACCAAACC
TATTTTATAACTTAAATTCAACACTTAATTTTCGATACTTATTTTTTCAAAATTTTTTAATACTT
AATTTTTCAATTTATCAAACATACCATATTTTTTTTAGGTGAAATAAATAGATGGTCCAAATTAA
TCTAACATAAACAAAAAATTGTTAATCTATCAATCTCAAGAACATGTAATAACTCTTCAAGAATA
TCTTCAAACACCTCCATATCTATACATCTTTCTGTAGCAATCTTTGCAACGTGATCTGTAACTTG
GTTTCTTTCCCTCGGAATATGCTTTATCTTCCACTGCTGTAACACTTGTAAGCTCATATGTATCC
TTCTTAACAAAGTTGAGGATGAATATACCAAATGTACATATTGAACAACTTTAACGACCTCTAGA
T
Found at i:23939 original size:23 final size:23
Alignment explanation
Indices: 23913--23958 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23903 AAGACAGACT
23913 GCATTACTTATTAATAATTGTTC
1 GCATTACTTATTAATAATTGTTC
23936 GCATTACTTATTAATAATTGTTC
1 GCATTACTTATTAATAATTGTTC
23959 TTACATCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (23 bp):
GCATTACTTATTAATAATTGTTC
Found at i:27841 original size:23 final size:22
Alignment explanation
Indices: 27815--27943 Score: 73
Period size: 23 Copynumber: 5.6 Consensus size: 22
27805 GACTAAAGTG
27815 TAGGCATTTGTCTTCCACAATTT
1 TAGGCATTTGT-TTCCACAATTT
* * * *
27838 TAGGGATTTATTT-GACTAAATTA
1 TAGGCATTTGTTTCCAC--AATTT
*
27861 TAGACATTTGTCTTCCACAATTT
1 TAGGCATTTGT-TTCCACAATTT
* * * *
27884 CAGGGATTTGTTTGGCTA-AATTG
1 TAGGCATTTGTTT--CCACAATTT
*
27907 TAGGCATTTGTTTTTCACAATTT
1 TAGGCATTTG-TTTCCACAATTT
* *
27930 CAGGGATTTGTTTC
1 TAGGCATTTGTTTC
27944 TCTTTTATTC
Statistics
Matches: 76, Mismatches: 22, Indels: 17
0.66 0.19 0.15
Matches are distributed among these distances:
21 2 0.03
22 8 0.11
23 57 0.75
24 7 0.09
25 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (22 bp):
TAGGCATTTGTTTCCACAATTT
Found at i:27939 original size:46 final size:46
Alignment explanation
Indices: 27776--27942 Score: 228
Period size: 46 Copynumber: 3.6 Consensus size: 46
27766 CTAAGTCAAG
* * *
27776 TTGTATTCCACAATTTCAAGGATTT-TCTTGACTAAAGTGTAGGCAT
1 TTGTCTTCCACAATTTCAGGGATTTGT-TTGACTAAATTGTAGGCAT
* * * *
27822 TTGTCTTCCACAATTTTAGGGATTTATTTGACTAAATTATAGACAT
1 TTGTCTTCCACAATTTCAGGGATTTGTTTGACTAAATTGTAGGCAT
*
27868 TTGTCTTCCACAATTTCAGGGATTTGTTTGGCTAAATTGTAGGCAT
1 TTGTCTTCCACAATTTCAGGGATTTGTTTGACTAAATTGTAGGCAT
* *
27914 TTGTTTTTCACAATTTCAGGGATTTGTTT
1 TTGTCTTCCACAATTTCAGGGATTTGTTT
27943 CTCTTTTATT
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
46 106 0.99
47 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (46 bp):
TTGTCTTCCACAATTTCAGGGATTTGTTTGACTAAATTGTAGGCAT
Found at i:33635 original size:64 final size:64
Alignment explanation
Indices: 33539--33658 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
33529 ATCTTTCTTA
* * *
33539 TCTCATTTGAATTGAAATTTACCTTTATTACTATGATGTA-TCTATTACTTCATTATCTTGATTT
1 TCTCATTTAAATTGAAATTTACCATTAGTACTATGATGTATTC-ATTACTTCATTATCTTGATTT
* * *
33603 TCTCATTTAAATTGAAATTTACCATTAGTACTATTATTTATTCATTATTTCATTAT
1 TCTCATTTAAATTGAAATTTACCATTAGTACTATGATGTATTCATTACTTCATTAT
33659 TAAATTTACC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
64 47 0.96
65 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.06, T:0.52
Consensus pattern (64 bp):
TCTCATTTAAATTGAAATTTACCATTAGTACTATGATGTATTCATTACTTCATTATCTTGATTT
Found at i:33899 original size:20 final size:20
Alignment explanation
Indices: 33877--33915 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33867 TTTTAAACAT
*
33877 AAATAAATAAAATATAATTTA
1 AAATAAACAAAA-ATAATTTA
33898 AAATAAACAAAAATAATT
1 AAATAAACAAAAATAATT
33916 ATTTTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAAACAAAAATAATTTA
Found at i:36429 original size:24 final size:24
Alignment explanation
Indices: 36394--36459 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
36384 TTGAGAAATA
36394 ATTT-TTT-AATTAAACTTTT-TTT
1 ATTTGTTTCAATTAAA-TTTTATTT
36416 ATTTGTTTCAATTAAATTTTATTT
1 ATTTGTTTCAATTAAATTTTATTT
* *
36440 ATTTGTTTCAGTCAAATTTT
1 ATTTGTTTCAATTAAATTTT
36460 TATTAGTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.10
23 7 0.18
24 28 0.72
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (24 bp):
ATTTGTTTCAATTAAATTTTATTT
Found at i:38415 original size:24 final size:24
Alignment explanation
Indices: 38364--38415 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
38354 TCTTCAAATT
*
38364 AAACTCTATTTATTTGGTTCAATT
1 AAACTCTATTTATTTGGTTCAATC
*
38388 AAACTCTGTTTATTT-GTTCTAATC
1 AAACTCTATTTATTTGGTTC-AATC
38412 AAAC
1 AAAC
38416 ATTATTAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (24 bp):
AAACTCTATTTATTTGGTTCAATC
Found at i:39984 original size:18 final size:19
Alignment explanation
Indices: 39945--40033 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
39935 ATGGCATATA
*
39945 AATAAATAACAATATCAATG
1 AATAAATAA-AATATAAATG
39965 AATAAATAAAAT-TAAATG
1 AATAAATAAAATATAAATG
* *
39983 AAGAAA-AAAATAAAAATAG
1 AATAAATAAAATATAAAT-G
* * *
40002 CATAAA-AAATTATAAATA
1 AATAAATAAAATATAAATG
40020 AATAAAATAAAATA
1 AAT-AAATAAAATA
40034 AATGCAAGCA
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
17 5 0.09
18 16 0.29
19 20 0.36
20 14 0.25
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.22
Consensus pattern (19 bp):
AATAAATAAAATATAAATG
Found at i:40471 original size:26 final size:24
Alignment explanation
Indices: 40437--40495 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
40427 GCTTTGAATT
*
40437 TTCTTTGAATGTACGTCACAAAAAAA
1 TTCTCTGAATGT-CGT-ACAAAAAAA
* *
40463 TTCTCTGAATGTTGTATAAAAAAA
1 TTCTCTGAATGTCGTACAAAAAAA
40487 -TCTCTGAAT
1 TTCTCTGAAT
40496 CTTATTCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.30
24 8 0.27
25 2 0.07
26 11 0.37
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (24 bp):
TTCTCTGAATGTCGTACAAAAAAA
Found at i:40507 original size:24 final size:25
Alignment explanation
Indices: 40455--40517 Score: 69
Period size: 23 Copynumber: 2.6 Consensus size: 25
40445 ATGTACGTCA
* *
40455 CAAAAAAATTCTCTGAATGTTGTAT
1 CAAAAAAATTCTCTGAATCTTATAT
40480 -AAAAAAA-TCTCTGAATCTTAT-T
1 CAAAAAAATTCTCTGAATCTTATAT
40502 CCAAAAAAAATTCTCT
1 -C-AAAAAAATTCTCT
40518 CTGAACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 1 0.03
23 12 0.38
24 7 0.22
25 7 0.22
26 5 0.16
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (25 bp):
CAAAAAAATTCTCTGAATCTTATAT
Found at i:41399 original size:49 final size:49
Alignment explanation
Indices: 41305--41570 Score: 187
Period size: 49 Copynumber: 5.4 Consensus size: 49
41295 TGCCTCTTTG
* * * * *
41305 ATTTTAGGGTGTTAGGTTCGCCATTGCGA-TTCAACCTATCCCTCTTCA
1 ATTTTAGGGTGTAAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCA
* * *
41353 ATTTTCA-TGTGTAAGGTCCGTCGTTACGACTTCAACCTTTCTCTCTTCA
1 ATTTT-AGGGTGTAAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCA
* * * * ** *
41402 ATTTTAGAGTGTTAGATCCGCCGTTAC-AGCTTCAATTTATCTCTCTTCA
1 ATTTTAGGGTGTAAGGTCCGTCGTTACGA-CTTCAACCTATCCCTCTTCA
* ** * * *
41451 ATTTTAGGGTGTTAGGTTTGTTGTTGCGACTTCAACCTATCCCTCTTCG
1 ATTTTAGGGTGTAAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCA
* * * ** * * * * *
41500 ATTTTAAGGTGTAAGATTCACCGTTACGGCTTCAATCTTTTCCTCTTCG
1 ATTTTAGGGTGTAAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCA
* * *
41549 ATTTTAAGGTGTTAGGCCCGTC
1 ATTTTAGGGTGTAAGGTCCGTC
41571 ATTGCGGCTA
Statistics
Matches: 169, Mismatches: 44, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
48 23 0.14
49 145 0.86
50 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (49 bp):
ATTTTAGGGTGTAAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCA
Found at i:41576 original size:98 final size:97
Alignment explanation
Indices: 41345--41576 Score: 259
Period size: 98 Copynumber: 2.4 Consensus size: 97
41335 TCAACCTATC
* * * * * *
41345 CCTCTTCAATTTTCATGTGTAAGGTCCGTCGTTACGACTTCAACCTTTCTCTCTTCAATTTTAGA
1 CCTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTAGA
* *
41410 GTGTTAGATCCGCCGTTACAGCTTCAATTTAT
66 GTGTAAGATCCACCGTTACAGCTTCAATTTAT
* ** * *
41442 CTCTCTTCAATTTTAGGGTGTTAGGTTTGTTGTTGCGACTTCAACCTATCCCTCTTCGATTTTA-
1 C-CTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTAG
* * *
41506 AGGTGTAAGATTCACCGTTACGGCTTCAATCTTTT
65 A-GTGTAAGATCCACCGTTACAGCTTCAAT-TTAT
* * *
41541 CCTCTTCGATTTTAAGGTGTTAGGCCCGTCATTGCG
1 CCTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTGCG
41577 GCTAACATCC
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
97 2 0.02
98 103 0.94
99 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.41
Consensus pattern (97 bp):
CCTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTGCGACTTCAACCTATCCCTCTTCAATTTTAGA
GTGTAAGATCCACCGTTACAGCTTCAATTTAT
Found at i:42809 original size:28 final size:28
Alignment explanation
Indices: 42767--42821 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
42757 GATATTTGAT
*
42767 TTACTCCCTGATGACCCAAAGGTCATGC
1 TTACTCCCTGATGACCCAAAGGCCATGC
42795 TTACTCCCT-ATTGACCCAAAGGCCATG
1 TTACTCCCTGA-TGACCCAAAGGCCATG
42822 ATGCTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.25
Consensus pattern (28 bp):
TTACTCCCTGATGACCCAAAGGCCATGC
Found at i:42849 original size:36 final size:36
Alignment explanation
Indices: 42795--42893 Score: 171
Period size: 36 Copynumber: 2.8 Consensus size: 36
42785 AAGGTCATGC
* *
42795 TTACTCCCTATTGACCCAAAGGCCATGATGCTCATT
1 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
*
42831 TTACTCCCTGTTGGCCCAAAGGTCATGATGCTCATT
1 TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
42867 TTACTCCCTGTTGACCCAAAGGTCATG
1 TTACTCCCTGTTGACCCAAAGGTCATG
42894 CCTGTTACCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.31
Consensus pattern (36 bp):
TTACTCCCTGTTGACCCAAAGGTCATGATGCTCATT
Found at i:45002 original size:49 final size:49
Alignment explanation
Indices: 44938--45233 Score: 286
Period size: 49 Copynumber: 6.0 Consensus size: 49
44928 GACTGTTACA
* * *
44938 TTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGGTCCGCCGTTACGGC
1 TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGGTCCACCGTTGCGGC
* * * * * * *
44987 TTTAACCTTTCCCTCTTCAGTTTTAAGGTATTAGATCCCCCATTGCGGC
1 TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGGTCCACCGTTGCGGC
* * * * * * ** *
45036 TTAAATCTATCCCTCTTCAATTTTAAGGTGTTAGGCCCATCGTTATGAC
1 TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGGTCCACCGTTGCGGC
* * *
45085 TTCAATCTATCCCTCTTTAGTTTTAAGGTGTAAGATCCACCGTTGCGGC
1 TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGGTCCACCGTTGCGGC
* * * * ** * * ** *
45134 TTCAATCTTTGCCTATTTGGTTTTAGGGTGTTAGGTCCGTCGTTGCGAC
1 TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGGTCCACCGTTGCGGC
*
45183 TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAAGTCCACCGTTGCGGC
1 TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGGTCCACCGTTGCGGC
45232 TT
1 TT
45234 TAACTTGTCC
Statistics
Matches: 193, Mismatches: 54, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
49 193 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (49 bp):
TTCAACCTATCCCTCTTCAGTTTTAAGGTGTAAGGTCCACCGTTGCGGC
Found at i:45113 original size:98 final size:98
Alignment explanation
Indices: 44944--45233 Score: 339
Period size: 98 Copynumber: 3.0 Consensus size: 98
44934 TACATTCAAC
* * * * *
44944 CTATCCCTCTTCAATTTTAAGGTGTAAGGTCCGCCGTTACGGCTTTAACCTTTCCCTCTTCAGTT
1 CTATCCCTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCAGTT
* *
45009 TTAAGGTATTAGATCCCCCATTGCGGCTTAAAT
66 TTAAGGTATAAGATCCACCATTGCGGCTTAAAT
* * * * *
45042 CTATCCCTCTTCAATTTTAAGGTGTTAGGCCCATCGTTATGACTTCAATCTATCCCTCTTTAGTT
1 CTATCCCTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCAGTT
* * *
45107 TTAAGGTGTAAGATCCACCGTTGCGGCTTCAAT
66 TTAAGGTATAAGATCCACCATTGCGGCTTAAAT
* * * *** * *
45140 CTTTGCCTATTTGGTTTTAGGGTGTTAGGTCCGTCGTTGCGACTTCAACCTATCCCTCTTCAGTT
1 CTATCCCTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCAGTT
* *
45205 TTAAGGTGTAA-AGTCCACCGTTGCGGCTT
66 TTAAGGTATAAGA-TCCACCATTGCGGCTT
45234 TAACTTGTCC
Statistics
Matches: 163, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
97 1 0.01
98 162 0.99
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (98 bp):
CTATCCCTCTTCAATTTTAAGGTGTTAGGTCCGTCGTTACGACTTCAACCTATCCCTCTTCAGTT
TTAAGGTATAAGATCCACCATTGCGGCTTAAAT
Found at i:45207 original size:147 final size:147
Alignment explanation
Indices: 44938--45213 Score: 354
Period size: 147 Copynumber: 1.9 Consensus size: 147
44928 GACTGTTACA
* * * *
44938 TTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGGTCCGCCGTTACGGCTTTAACCTTTCCCTCT
1 TTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCACCGTTACGGCTTCAACCTTTCCCTAT
* *
45003 TCAGTTTTAAGGTATTAGATCCCCCATTGCGGCTTAAATCTATCCCTCTTCAATTTTAAGGTGTT
66 TCAGTTTTAAGGTATTAGATCCCCCATTGCGACTTAAACCTATCCCTCTTCAATTTTAAGGTGTT
45068 AGGCCCATCGTTATGAC
131 AGGCCCATCGTTATGAC
* * * * * *
45085 TTCAATCTATCCCTCTTTAGTTTTAAGGTGTAAGATCCACCGTTGCGGCTTCAATCTTTGCCTAT
1 TTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCACCGTTACGGCTTCAACCTTTCCCTAT
** * * * ** * * *
45150 TTGGTTTTAGGGTGTTAGGTCCGTCGTTGCGACTTCAACCTATCCCTCTTCAGTTTTAAGGTGT
66 TCAGTTTTAAGGTATTAGATCCCCCATTGCGACTTAAACCTATCCCTCTTCAATTTTAAGGTGT
45214 AAAGTCCACC
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
147 107 1.00
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (147 bp):
TTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCACCGTTACGGCTTCAACCTTTCCCTAT
TCAGTTTTAAGGTATTAGATCCCCCATTGCGACTTAAACCTATCCCTCTTCAATTTTAAGGTGTT
AGGCCCATCGTTATGAC
Found at i:46265 original size:23 final size:22
Alignment explanation
Indices: 46239--46298 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
46229 ACCCCTTCTG
46239 TTTTTTCTTCTTTTTTTTTCACT
1 TTTTTTCTT-TTTTTTTTTCACT
* * *
46262 TTTTTCCTTTTTCCTTTTTCTCT
1 TTTTTTCTTTTT-TTTTTTCACT
*
46285 CTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
46299 CTTCTTCTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTTCTTTTTTTTTTTCACT
Found at i:46274 original size:16 final size:17
Alignment explanation
Indices: 46253--46296 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
46243 TTCTTCTTTT
46253 TTTTTCACTTTTT-TC-C
1 TTTTTC-CTTTTTCTCTC
46269 TTTTTCCTTTTTCTCTC
1 TTTTTCCTTTTTCTCTC
46286 TTTTT-CTTTTT
1 TTTTTCCTTTTT
46297 TTCTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.23
16 14 0.54
17 6 0.23
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCCTTTTTCTCTC
Found at i:46297 original size:17 final size:17
Alignment explanation
Indices: 46234--46314 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
46224 TCTCGACCCC
46234 TTCTGTTTTTTCTTCTTT
1 TTCT-TTTTTTCTTCTTT
*
46252 TT-TTTTCACTTTTTTCCTTT
1 TTCTTTT---TTTCTT-CTTT
*
46272 TTC-CTTTTTCTCTCTTT
1 TTCTTTTTTTCT-TCTTT
*
46289 TTCTTTTTTTCTTCTTC
1 TTCTTTTTTTCTTCTTT
46306 TT-TTTTTTT
1 TTCTTTTTTT
46315 GCTAGTTTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
16 10 0.20
17 18 0.35
18 10 0.20
19 5 0.10
20 8 0.16
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.78
Consensus pattern (17 bp):
TTCTTTTTTTCTTCTTT
Found at i:46311 original size:16 final size:18
Alignment explanation
Indices: 46276--46314 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
46266 TCCTTTTTCC
*
46276 TTTTTCTCTCTTTTTCTT
1 TTTTTCTCTCTTCTTCTT
46294 TTTTTCT-TCTTCTT-TT
1 TTTTTCTCTCTTCTTCTT
46310 TTTTT
1 TTTTT
46315 GCTAGTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 6 0.30
18 7 0.35
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTCTCTTCTTCTT
Found at i:46313 original size:24 final size:24
Alignment explanation
Indices: 46261--46314 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
46251 TTTTTTTCAC
*
46261 TTTTTTCCTTTTTCCTTTTTCTCT
1 TTTTTTCCTTTTTCCTTCTTCTCT
* * * *
46285 CTTTTTCTTTTTTTCTTCTTCTTT
1 TTTTTTCCTTTTTCCTTCTTCTCT
46309 TTTTTT
1 TTTTTT
46315 GCTAGTTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTCCTTTTTCCTTCTTCTCT
Found at i:50502 original size:16 final size:16
Alignment explanation
Indices: 50477--50507 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50467 TTGCATACTT
50477 AGGATAATTTACATTA
1 AGGATAATTTACATTA
*
50493 AGGATCATTTACATT
1 AGGATAATTTACATT
50508 TAGTTTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (16 bp):
AGGATAATTTACATTA
Found at i:52852 original size:30 final size:29
Alignment explanation
Indices: 52447--52850 Score: 305
Period size: 30 Copynumber: 13.6 Consensus size: 29
52437 AGTAGGTCCT
** *
52447 TAAACTTTTAAAAAATCACATTTTGACCC
1 TAAACTTTTCTAAAATCACATTTTAACCC
* * **
52476 TCTAACTTTTCCAAAATTGCATTTTAACCC
1 T-AAACTTTTCTAAAATCACATTTTAACCC
* *
52506 TGAAAC-TTTCTTAAGATTACATTTTTAACCCC
1 T-AAACTTTTC-TAAAATCACA-TTTTAA-CCC
* * *
52538 TAAATTTTTCCAAAATTACATTTTAACCC
1 TAAACTTTTCTAAAATCACATTTTAACCC
* * *
52567 TTAAACATTATC-AAAATCACATTTTGACCT
1 -TAAAC-TTTTCTAAAATCACATTTTAACCC
* * * *
52597 TAAAACTTTTCCAAAATCAAAATTTCACCCC
1 T-AAACTTTTCTAAAATC-ACATTTTAACCC
*
52628 TAAACTTTTCCAAAATCACATTTTAACCGC
1 TAAACTTTTCTAAAATCACATTTTAACC-C
*
52658 TAAA-TTTTCTCAAAATCACATTTTAACCT
1 TAAACTTTTCT-AAAATCACATTTTAACCC
* *
52687 TAAAAATTTTCTAAAATTACATTTTAACCCC
1 T-AAACTTTTCTAAAATCACATTTTAA-CCC
* *
52718 TAAACTTCTT-AAAAATCATATTTTAACCC
1 TAAACTT-TTCTAAAATCACATTTTAACCC
* * * *
52747 TCAAACCTTCCCAAAATCACATTTTGACCC
1 T-AAACTTTTCTAAAATCACATTTTAACCC
* *
52777 TGAACTTCTCTAAAATCACA-TTTAACCC
1 TAAACTTTTCTAAAATCACATTTTAACCC
* * * *
52805 CAAACTTTCCTAAAATTACATTTTTACCTC
1 TAAACTTTTCTAAAATCACATTTTAACC-C
*
52835 TAAACTTTTATAAAAT
1 TAAACTTTTCTAAAAT
52851 TATGTTTTAA
Statistics
Matches: 299, Mismatches: 56, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
28 22 0.07
29 52 0.17
30 177 0.59
31 40 0.13
32 8 0.03
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.37
Consensus pattern (29 bp):
TAAACTTTTCTAAAATCACATTTTAACCC
Found at i:62745 original size:12 final size:12
Alignment explanation
Indices: 62730--62754 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62720 TAATTATAAC
62730 AATAATAATACT
1 AATAATAATACT
62742 AATAATAATACT
1 AATAATAATACT
62754 A
1 A
62755 GTAGCACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAATAATACT
Found at i:64958 original size:50 final size:50
Alignment explanation
Indices: 64714--64961 Score: 169
Period size: 50 Copynumber: 5.0 Consensus size: 50
64704 AGGATTTAAC
* * * * * **
64714 ATTGTAGCTTTATCTTGCTCCATTGCATCTTTAAGGAGATAAGATTTCCT
1 ATTGTAACTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGAT
* ** * * * * * * * *
64764 AATGTAGTTTTAATC-TGATCCACTGTAACTTCAGGGATATAGGAATTAAT
1 ATTGTA-ACTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGAT
* * * * *
64814 GTTGTAACTTCATCTTGCTCCACTACATCTTCATGGAGATAAGACTTGTT
1 ATTGTAACTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGAT
* * * * * * * *
64864 ATCGTAA--TCTTCTTCCAATCCTCTACAGCTTTAGGGATATAAGATTTGAT
1 ATTGTAACTTCATCTTGC--TCCACTGCATCTTCAGGGAGATAAGATTTGAT
64914 ATTGTAACTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTG
1 ATTGTAACTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTG
64962 CTACTGTGGT
Statistics
Matches: 143, Mismatches: 49, Indels: 12
0.70 0.24 0.06
Matches are distributed among these distances:
48 7 0.05
49 5 0.03
50 119 0.83
51 5 0.03
52 7 0.05
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (50 bp):
ATTGTAACTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGAT
Found at i:65013 original size:100 final size:99
Alignment explanation
Indices: 64618--65010 Score: 354
Period size: 100 Copynumber: 3.9 Consensus size: 99
64608 TTTAGTGTCA
* * * * * * * *
64618 TAACTTCATCTTGCCCCATTGCAACTTCAAGGAGATAAGGTTTGCTGTTATAGTTTTATTCCAAC
1 TAACTTCATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCT-ATGTAGTTTTAATCCAAT
* * * * * * *
64683 CCACTGCAACTTTATGAAGACAGGATTTAACATTG
65 CCACTACAACTTTAGGGATATAAGATTTAATATTG
* * * * * **
64718 TAGCTTTATCTTGCTCCATTGCATCTTTAAGGAGATAAGATTTCCTAATGTAGTTTTAATCTGAT
1 TAACTTCATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCT-ATGTAGTTTTAATCCAAT
** * * * *
64783 CCACTGTAACTTCAGGGATATAGGAATTAATGTTG
65 CCACTACAACTTTAGGGATATAAGATTTAATATTG
* * * * * * **
64818 TAACTTCATCTTGCTCCACTACATCTTCATGGAGATAAGACTTGTTATCGTAATCTTCTTCCAAT
1 TAACTTCATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCTAT-GTAGTTTTAATCCAAT
* * *
64883 CCTCTACAGCTTTAGGGATATAAGATTTGATATTG
65 CCACTACAACTTTAGGGATATAAGATTTAATATTG
* * *
64918 TAACTTCATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTTGCTACTGTGGTTTTAATCCGAT
1 TAACTTCATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCTA-TGTAGTTTTAATCCAAT
* *
64983 CCACTACAAATTTAAGGATATAAGATTT
65 CCACTACAACTTTAGGGATATAAGATTT
65011 GATGTTTCAC
Statistics
Matches: 230, Mismatches: 61, Indels: 4
0.78 0.21 0.01
Matches are distributed among these distances:
99 2 0.01
100 227 0.99
101 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (99 bp):
TAACTTCATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCTATGTAGTTTTAATCCAATC
CACTACAACTTTAGGGATATAAGATTTAATATTG
Found at i:69974 original size:40 final size:41
Alignment explanation
Indices: 69902--70005 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 41
69892 CTATGTTGCA
*
69902 ACAAACCCCTCTATGTCGCAACGTAGAATGTCTACATCACG
1 ACAAACCCCTCTATGTCGCAACATAGAATGTCTACATCACG
* * * *
69943 ACAAACCCC-CTATGTTGCAACATAGAGTGTCTACGTCATG
1 ACAAACCCCTCTATGTCGCAACATAGAATGTCTACATCACG
* *
69983 ACAAACCCCT-AATGTCGAAACAT
1 ACAAACCCCTCTATGTCGCAACAT
70006 GACATGTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 45 0.83
41 9 0.17
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (41 bp):
ACAAACCCCTCTATGTCGCAACATAGAATGTCTACATCACG
Found at i:82967 original size:81 final size:80
Alignment explanation
Indices: 82800--83022 Score: 218
Period size: 81 Copynumber: 2.8 Consensus size: 80
82790 TAAGAACCTT
* * * *
82800 TCGATGGCTAAGATCCTG-CATAAGTTATGGATTCTTGATAGCTTGTGTGAGCAGCATCGTAAGT
1 TCGATGGCTAAGAT-CTGACATATGTTGTGGATTCTTGACAGCTTGTGTGAGCAACATCGTAAGT
82864 GCACAAATATAGACCC
65 GCACAAATATAGACCC
* * * *
82880 TCCGATGGCTAAGATCTGACATATGTTGTGGATTCTTGACAGCTTTTGT-ATGTAACATCTTGAG
1 T-CGATGGCTAAGATCTGACATATGTTGTGGATTCTTGACAGCTTGTGTGA-GCAACATCGTAAG
* * *
82944 TGGATAAA-ATGGACCGC
64 TGCACAAATATAGACC-C
* * * * * **
82961 ATCGATGTCTGACATCTGACATATGTCGCGGATTCTCAACAGCTTGTGTGAGCAACATCGTA
1 -TCGATGGCTAAGATCTGACATATGTTGTGGATTCTTGACAGCTTGTGTGAGCAACATCGTA
83023 TACTGGTTAT
Statistics
Matches: 115, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
80 11 0.10
81 102 0.89
82 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (80 bp):
TCGATGGCTAAGATCTGACATATGTTGTGGATTCTTGACAGCTTGTGTGAGCAACATCGTAAGTG
CACAAATATAGACCC
Found at i:86287 original size:382 final size:382
Alignment explanation
Indices: 85475--86616 Score: 1670
Period size: 382 Copynumber: 3.0 Consensus size: 382
85465 ACAAAGATAG
* *
85475 TGCAAACAGGTCCGAAGTTTTGGCACCTGCACGGATGTATGCTATCTGAGCCCGAGAAGAGGCTG
1 TGCAAACAGGTCCGAAGTTTAGGCACCTGCACGGACGTATGCTATCTGAGCCCGAGAAGAGGCTG
* * * * *
85540 CTGCACTAGATGTTGTAATTGGATTATTCTATCTTTTTAATGATATTGTATATGCCCTAATTGAC
66 CTGCATTAGATGTTGTAACTGGATTATTCTATCTTTTTAATGATATTGTCTATGCTCTGATTGAC
* *
85605 CCTAGGTCGACTCATTCTTATATTTATACTGCTTTGGCAATTGATAAAAAAATTTTCTGTTGAGT
131 CCTAGGTCGACTCATTCTTATATTTGTACTGCTTTGGCAACTGATAAAAAAA-TTTCTGTTGAGT
* * **
85670 CAACTGGATTTGATGTTCAAGTTACAAACTTGTTGGGTCATATTGTCATAGTTAACCTGGTGTGT
195 CAACTGAATTTGATGTTCAAGTCACAAACCCGTTGGGTCATATTGTCATAGTTAACCTGGTGTGT
* * *
85735 CATAAGTGTCCACTGAAAGTTCAAGGCTGTGAATTTCCTGTTAATCTGATGTTATTACCTTTTTA
260 CATAAGTGTCCACTGAAAGTTCAAGGTTGTGAATTTCCTGTTGATCTGATGTTACTACCTTTTTA
* * *
85800 TGAGTTCTATGTGATTCTGGGTATGGACTGGTTATCTGAGCATGATGC-GATGGTTAAC
325 TGAGTTCGATGTGATTCTGGGTATGGACTGATTATCTGAGCATGATGCAG-CGGTTAAC
* * *
85858 TGCAAACAGGTCCGAAGTTTAGGCACCTGCATGGACTTATACTATCTGAGCCCGAGAAGAGGCTG
1 TGCAAACAGGTCCGAAGTTTAGGCACCTGCACGGACGTATGCTATCTGAGCCCGAGAAGAGGCTG
85923 CTGCATTAGATGTTGTAACTGGA-TAGTTCTATCTTTTTAATGATATTGTCTATGCTCTGATTGA
66 CTGCATTAGATGTTGTAACTGGATTA-TTCTATCTTTTTAATGATATTGTCTATGCTCTGATTGA
* * * * *
85987 CCCTAGGTCTACTCATTCTTATATTTGTATTGCTTTGGAAACTGATAAAAAAATTT-TATCGAGT
130 CCCTAGGTCGACTCATTCTTATATTTGTACTGCTTTGGCAACTGATAAAAAAATTTCTGTTGAGT
* **
86051 CAACTGAATTTGATGTTCAAGTCACAAACCCGTTGGGTCATAAGTGTCATAGTTAACCCAGTGTG
195 CAACTGAATTTGATGTTCAAGTCACAAACCCGTTGGGTCAT-ATTGTCATAGTTAACCTGGTGTG
* *
86116 TCATAAGTGTCCATTGAAAGTTCAAGGTTGTGAATTTCCTGTTGATCTAATGTTACTACCTTTTT
259 TCATAAGTGTCCACTGAAAGTTCAAGGTTGTGAATTTCCTGTTGATCTGATGTTACTACCTTTTT
*
86181 ATGAGTTCGATGTGATTCTGGATATGGACTGATTATCTGAGCATGATGCAGCGGTTAAC
324 ATGAGTTCGATGTGATTCTGGGTATGGACTGATTATCTGAGCATGATGCAGCGGTTAAC
* * * ** * * *
86240 TGCGAATAGGTCTGAAGTTCGGGCAACTGCACGGACGTGTGCTATCTGAGCCCGAGAAGAGGATG
1 TGCAAACAGGTCCGAAGTTTAGGCACCTGCACGGACGTATGCTATCTGAGCCCGAGAAGAGGCTG
*
86305 CTGCATCAGATGTTGTAACTGGATTATTCTATCTTTTTAATGATATTGTCTATGCTCTGATTGAC
66 CTGCATTAGATGTTGTAACTGGATTATTCTATCTTTTTAATGATATTGTCTATGCTCTGATTGAC
* * * * * *
86370 CTTGGGTCGATTCATTCTTATATTTGTACTGCTTTGGCAACTGATAAAGAATTTTCTGTTGAGCC
131 CCTAGGTCGACTCATTCTTATATTTGTACTGCTTTGGCAACTGATAAAAAAATTTCTGTTGAGTC
* * * *
86435 AAGTGAATTTGATGTTAAAGTCACAAACCCGTTGGGTCATATTGTTATAGTTAACCTGGTGTGTT
196 AACTGAATTTGATGTTCAAGTCACAAACCCGTTGGGTCATATTGTCATAGTTAACCTGGTGTGTC
* ** *
86500 ATAAGTGTCCACTGAAAGTT-GAGGTTGTGAATTTGTTGTTGATTTGATGTTACTACC--TTT-T
261 ATAAGTGTCCACTGAAAGTTCAAGGTTGTGAATTTCCTGTTGATCTGATGTTACTACCTTTTTAT
*
86561 GAGTTCGATGTGATTCTGGGTATGAACT-AGTTATCTGAGCATGATGCAGCGGTTAA
326 GAGTTCGATGTGATTCTGGGTATGGACTGA-TTATCTGAGCATGATGCAGCGGTTAA
86617 ATATAAACAG
Statistics
Matches: 682, Mismatches: 71, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
377 1 0.00
378 53 0.08
379 3 0.00
381 75 0.11
382 339 0.50
383 211 0.31
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (382 bp):
TGCAAACAGGTCCGAAGTTTAGGCACCTGCACGGACGTATGCTATCTGAGCCCGAGAAGAGGCTG
CTGCATTAGATGTTGTAACTGGATTATTCTATCTTTTTAATGATATTGTCTATGCTCTGATTGAC
CCTAGGTCGACTCATTCTTATATTTGTACTGCTTTGGCAACTGATAAAAAAATTTCTGTTGAGTC
AACTGAATTTGATGTTCAAGTCACAAACCCGTTGGGTCATATTGTCATAGTTAACCTGGTGTGTC
ATAAGTGTCCACTGAAAGTTCAAGGTTGTGAATTTCCTGTTGATCTGATGTTACTACCTTTTTAT
GAGTTCGATGTGATTCTGGGTATGGACTGATTATCTGAGCATGATGCAGCGGTTAAC
Found at i:97666 original size:22 final size:19
Alignment explanation
Indices: 97625--97663 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
97615 CGCTGCTGCT
97625 TGCTGTTGTGCACTACTAC
1 TGCTGTTGTGCACTACTAC
97644 TGCTGTTGTGCACTACTAC
1 TGCTGTTGTGCACTACTAC
97663 T
1 T
97664 ACTACCTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (19 bp):
TGCTGTTGTGCACTACTAC
Found at i:97908 original size:8 final size:8
Alignment explanation
Indices: 97895--97920 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
97885 TTTAATTTTT
97895 TTAATTTA
1 TTAATTTA
97903 TTAATTTA
1 TTAATTTA
97911 TTAATTTA
1 TTAATTTA
97919 TT
1 TT
97921 TTAAATTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTAATTTA
Found at i:102822 original size:24 final size:24
Alignment explanation
Indices: 102790--102845 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
102780 TGTATGGGTA
102790 TCTTCTTGTTTTTCATTTTAATTT
1 TCTTCTTGTTTTTCATTTTAATTT
*
102814 TCTTCTTGTTTTTCATTTTCATTT
1 TCTTCTTGTTTTTCATTTTAATTT
*
102838 TCCTCTTG
1 TCTTCTTG
102846 AGAACTCTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.09, C:0.18, G:0.05, T:0.68
Consensus pattern (24 bp):
TCTTCTTGTTTTTCATTTTAATTT
Found at i:106511 original size:216 final size:216
Alignment explanation
Indices: 106024--109046 Score: 3230
Period size: 216 Copynumber: 14.0 Consensus size: 216
106014 TCGTATCACA
* * * * * *
106024 ATCCATTCCTTCGAGTAATTTTCCGAACATTCTATGCT-TGAGAAATTGCATCATTTGGTGTAAA
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGA-AAATCGCATCATTTGGTCTAAA
** * * *
106088 TAGTTTGTCATTTTGTGGACAAGTTTTGGTCTTTGATTTAAAAACTTATTTACATGAGAATTATT
65 TAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * * * * * *
106153 T-TGTCTTTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTGAAGAGTTTTTTTATAACTT
130 TCTCTC-CTT-GTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
*
106217 CGGTTCCTTAAAGTATTCAAGATG
193 CGGTTCCTTAAAGTATTCAAGACG
* ** * *
106241 ACCCATTCCTTCGAGCAA-TTTTCTGAACATTCCATGCT-TAAGAAATCACATCATTTGGTCAAA
1 ATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGA-AAATCGCATCATTTGGTCTAA
* * * *
106304 ATAGTTTTTCATTTTGTAAACAAGTTTTTGTCTGT-ATATTAAAAACTTATTGACGTGAGAATTG
64 ATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGA-ATTAAAAACTTATTTACGTGAGAATTG
* * * * *
106368 TTTCTCTCCATGTTCTTGGACGAATTTTTGAACTCGTCAAACTTTTACGAGTTCTATTATAACTT
128 TTTCTCTCCTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* *
106433 TGGTTCCTTAAAGGATTCAAGACG
193 CGGTTCCTTAAAGTATTCAAGACG
* * * * * *
106457 ATCCATTTCTTCAAGCAATTTTTCGAACATTTCTTGCACGGAAAATCGCATCATTTGGTCTAAAA
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
* * * * * *** *
106522 AGTTTGTCATTCTGTACACAAGTTTTTGTCTGTCAATTAAAAACTTATTTATAAGAAAATAT-TT
66 AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT-TGTT
* * *
106586 TCTCT-CTTGGTTCTTTGACAAACTTTCGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTC
130 TCTCTCCTT-GTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
*
106650 GGTTCCTTAAAGTATTAAAGACG
194 GGTTCCTTAAAGTATTCAAGACG
* * * *
106673 ATTCATTCTTTCAAGCTATTTTTCGAACATTCCATGCTC-GAGAAATCGCATCATTTGGTCTAAA
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGA-AAATCGCATCATTTGGTCTAAA
* *
106737 TAGTTTGTCATTTTTTTAAACAAGTTTTGGTCTTTGATTTAAAAACTTATTTACGTGAGAATTGT
65 TAGTTTGTCA-TTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
* * * * ** * *
106802 TTCTCT-CTTGATCCTTGGACTAACATACGAACTTCACAAACTTTGAAGAGTTCTTTTATAACTT
129 TTCTCTCCTTG-TTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* ** *
106866 CAGTTCCTTAAAAAATTCAAGGCG
193 CGGTTCCTTAAAGTATTCAAGACG
* ** *
106890 ATCCATTCCTTCAAGCAA-TTTTCTGAACATTCCATGCTTTTG-AAATCTCATCATTTGGTCTAA
1 ATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGC-TCGGAAAATCGCATCATTTGGTCTAA
* * * * *
106953 AAAG-ATGGCTATTTTGTAAACAAGTTTTTGT-TTGTGAATTAAAAACCTATTTACGTGAGAATT
64 ATAGTTTGTC-ATTTTGTAAACAAGTTTTGGTCTT-TGAATTAAAAACTTATTTACGTGAGAATT
* * ** * *
107016 GTTTCTCT-CTTGGTTCTTGGATGAAC-TTCTAAGCAAGTCAAACGTTTATGAGTTCTTTTATAA
127 GTTTCTCTCCTT-GTTCTTGGACGAACTTTCGAA-CTTGTCAAACTTTTACGAGTTCTTTTATAA
* *
107079 CTTCAGTTTCTTAAAGTATTCAAGACG
190 CTTCGGTTCCTTAAAGTATTCAAGACG
* * * * * * *
107106 ACCCATTCCTTCGAGCAAATTTTCGAACATTACATGCTTGGGAAATCGCATCAATTGGTCAAAAT
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
* *
107171 AGTTTGTCTTTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTT
66 AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * *
107236 CTC-ACTTGCTCCTTGGACGAAATTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTG
131 CTCTCCTTG-TTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
107300 GTTCCTTAAAGTATTCAAGACG
195 GTTCCTTAAAGTATTCAAGACG
* * * * * * * *
107322 TTCCATTCCTTTGAGCAAATTTTT-GAGCATTCCATGCTCGGGAAGTCGTATTATTTGGTATAAA
1 ATCCATTCCTTCGAGC-AATTTTTCGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAA
* **
107386 TA-TATTGTCATTTTGTAAACAAGTTTTGGT-TTGTAAATTAAAAACTTATTTACGTGAGAACCG
65 TAGT-TTGTCATTTTGTAAACAAGTTTTGGTCTT-TGAATTAAAAACTTATTTACGTGAGAATTG
* * * *
107449 TTTCTGTCCATGTTCTTGGACGAACTTTCGAACTCGTCAAACTTTTACGAGTTCTATTAT-ACAT
128 TTTCTCTCCTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC-T
**
107513 TCGGTTCCTTAAAACATTCAAGACG
192 TCGGTTCCTTAAAGTATTCAAGACG
* * * * * *
107538 ATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTAGAAAAATCACATCAATTT-GTCTGAA
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCGCATC-ATTTGGTCTAAA
* *
107602 TAGTTTGTCATTTTGTAAACAAGTTTTGCTCTTTGTATTAAAAACTTATTTACGTGAGAATTGTT
65 TAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * *
107667 TCTC-ACTTGGTTCTTGGACTAAATTTCGAACTGGTCAAACTTTTACGAGTTCTTTTATAACTTC
130 TCTCTCCTT-GTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
*
107731 AGTTCCTTAAAGTATTCAAGACG
194 GGTTCCTTAAAGTATTCAAGACG
* * ** * * * *
107754 TTCCATTCTTTCGAG-AA-TTTTCTGTGCATTCCATGCTCGGGAAGTCGCACCATTTAGTCTAAA
1 ATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAA
* * * * * *
107817 TAGTTTGTTAATTTGTAAACAAGTTTTGGTCTATAAATTAAAAACTTATATATGTGAGAATT-TT
65 TAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * * * * * * *
107881 TTTTTCCATGTTCTTCGACGAACTTCCGAACTCGTCAAAATTTTATGAGTTCTATTATAACTTCG
130 TCTCTCCTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* *
107946 ATTCCTTAAAGCATTCAAGACG
195 GTTCCTTAAAGTATTCAAGACG
* * *
107968 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAAAAATAGCATCAATTGGTCTAAAT
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
* * * * * *
108033 AGTTTGTTAATTTGTAAACAAGTTTTGGTCTATAAATTAAAAACTTATATATGTGAGAAATT-TT
66 AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG-AATTGTT
* * * * * * * * *
108097 T-TTTCCATGTTCTTTGACGAACTTCCGAACTCGTCAAAATTTTATGAGTTCTATTATAACTTCT
130 TCTCTCCTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* * * *
108161 ATTCCTTAAAGCATTCTAGACT
195 GTTCCTTAAAGTATTCAAGACG
* * * *
108183 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATACTCGAAAAATAGCATCAATTGGTCTAAAT
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
* *
108248 AGTTTGTTATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACG-GTAGAATTATT
66 AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTG-AGAATTGTT
* * * ** *
108312 TCCCT-CTTGGTTCTTGTACGAACTTTTGAACTTAACAAACTGTTACGAGTTCTTTTATAACTTC
130 TCTCTCCTT-GTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
*
108376 GGTTCCTTAAAGTATTCAAGACA
194 GGTTCCTTAAAGTATTCAAGACG
* ** *
108399 ATCCATTCCATCGAGCAATTTTTCGAACATTCCACACTC-GATAAATCGCATCATTTGGACTAAA
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGA-AAATCGCATCATTTGGTCTAAA
*
108463 TAGTTTGTCATTTTGCAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
65 TAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * * * *
108528 TATCTCTTTGATCTTGGACGAACTTTCGAACTTGTCAAACTATTAAGAGTTCTTTTATAACTTCA
130 TCTCTCCTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG
* *
108593 GTTCCTTAAAGTATTAAACACG
195 GTTCCTTAAAGTATTCAAGACG
* * * * * *
108615 ATTCATTCCTTCGAGCAATTTTTCTAACATTCCACGCTC-AAGAAATTGTATCATTTGGTCTAAA
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGA-AAATCGCATCATTTGGTCTAAA
* * * *** * *
108679 TAGTTTGTCATTTTTTAAATAAGATTCAATCTTTGAAATT-AAAACTCATTTATGTGAGAATTGT
65 TAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTG-AATTAAAAACTTATTTACGTGAGAATTGT
* * * * *
108743 TTCTCTCTTTTTTTTTGGACGAACTTTCGACCTTGTCAAACTTTTACGAGTTCTTTTATAACATC
129 TTCTCTCCTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC
* *
108808 GGTTCCTCAAAGTATACAAGACG
194 GGTTCCTTAAAGTATTCAAGACG
* * ** * ** * * *
108831 AACCATTCCATCGAGCAA-TTTT--ATTA-TCCATGCTCGGGAAATTACATCATCTGGTTTTAAT
1 ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
* *
108892 AGTTT-TCATTTTGTAAACAAGTTTTGGTCTTTGAACTAGAAACTTATTTACGTGAGAATTGTTT
66 AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
* * * * * * *
108956 CTCT-TTTAGTGT-TT-TAAGAACTTCCAAACTTGAT-AAACTGTTACGAGTTCTTTTTTAACTT
131 CTCTCCTT-GT-TCTTGGACGAACTTTCGAACTTG-TCAAACTTTTACGAGTTCTTTTATAACTT
*
109017 CGATTCCTTAAAGTATTCAAGACG
193 CGGTTCCTTAAAGTATTCAAGACG
109041 ATCCAT
1 ATCCAT
109047 GATGCGAGCA
Statistics
Matches: 2377, Mismatches: 373, Indels: 119
0.83 0.13 0.04
Matches are distributed among these distances:
210 69 0.03
211 53 0.02
212 32 0.01
213 2 0.00
214 97 0.04
215 406 0.17
216 1394 0.59
217 319 0.13
218 4 0.00
219 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (216 bp):
ATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCGCATCATTTGGTCTAAAT
AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTT
CTCTCCTTGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
TTCCTTAAAGTATTCAAGACG
Found at i:107284 original size:649 final size:646
Alignment explanation
Indices: 106027--109046 Score: 3247
Period size: 649 Copynumber: 4.7 Consensus size: 646
106017 TATCACAATC
* * * * * *
106027 CATTCCTTCGAGTAATTTTCCGAACATTCTATGCTTGAGAAATTGCATCATTTGGTGTAAATAGT
1 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
** * * * *
106092 TTGTCATTTTGTGGACAAGTTTTGGTCTTTGATTTAAAAACTTATTTACATGAGAATTATTTTGT
66 TTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT-GTTTCT
* * * * * *
106157 CTTTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTTTGAAGAGTTTTTTTATAACTTCGGTT
130 CTCTT-GTTCTTGGACGAACTTCCGAACTTCTCAAACTTTTAAGAGTTCTTTTATAACTTCGGTT
* * * **
106222 CCTTAAAGTATTCAAGATGACCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTTAAGAAAT
194 CCTTAAAGCATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAAT
* * *
106287 CACATCATTTGGTCAAAATAGTTT-TTCATTTTGTAAACAAGTTTTTGTCTGT-ATATTAAAAAC
259 CACATCATTTGGTCTAAATAGTTTGCT-ATTTTGTAAACAAGTTTTTGTCTTTGA-ATTAAAAAC
* * * * **
106350 TTATTGACGTGAGAATTGTTTCTCTCCAT-GTTCTTGGACGAATTTTTGAACTCGTCAAACTTTT
322 TTATTTACGTGAGAATTGTTTCTCT-CTTGGTTCTTGGACGAACTTCTGAACAAGTCAAACTTTT
* ** * * * *
106414 ACGAGTTCTATTATAACTTTGGTTCCTTAAAGGATTCAAGACGATCCATTTCTTCAAGCAATTTT
386 ACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTT
* * * * * *
106479 TCGAACATTTCTTGCACGGAAAATCGCATCATTTGGTCTAAAA-AGTTTGTCATTCTGTACACAA
451 TCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC-AAAATAGTTTGTCATTTTGTAAACAA
* * * *** * *
106543 GTTTTTGTCTGTCAATTAAAAACTTATTTATAAGAAAATAT-TTTCTCTCTTGGTTCTTTGAC-A
515 GTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT-TGTTTCTCTCTT-GTTCTTGGACGA
106606 AACTTTCGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGA
578 AA-TTTCGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGA
106671 CGATT
642 CGATT
* * *
106676 CATTCTTTCAAGCTATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
1 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
* *
106741 TTGTCATTTTTTTAAACAAGTTTTGGTCTTTGATTTAAAAACTTATTTACGTGAGAATTGTTTCT
66 TTGTCA-TTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * * *
106806 CTCTTGATCCTTGGACTAACATACGAACTTCACAAACTTTGAAGAGTTCTTTTATAACTTCAGTT
130 CTCTTG-TTCTTGGACGAACTTCCGAACTTCTCAAACTTTTAAGAGTTCTTTTATAACTTCGGTT
** * * ***
106871 CCTTAAAAAATTCAAGGCGATCCATTCCTTCAAGCAATTTTCTGAACATTCCATGCTTTTGAAAT
194 CCTTAAAGCATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAAT
* * * * *
106936 CTCATCATTTGGTCTAAAAAGATGGCTATTTTGTAAACAAGTTTTTGT-TTGTGAATTAAAAACC
259 CACATCATTTGGTCTAAATAGTTTGCTATTTTGTAAACAAGTTTTTGTCTT-TGAATTAAAAACT
* *
107000 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCT-AAGCAAGTCAAACGTTTA
323 TATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAA-CAAGTCAAACTTTTA
* * *
107064 TGAGTTCTTTTATAACTTCAGTTTCTTAAAGTATTCAAGACGACCCATTCCTTCGAGCAAATTTT
387 CGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTT
* * * *
107129 CGAACATTACATGCTTGGGAAATCGCATCAATTGGTCAAAATAGTTTGTCTTTTTGTAAACAAGT
452 CGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTGTAAACAAGT
* * *
107194 TTTGGTCTTTGAATTAAAAACGTATTTACGTGAGAATTGTTTCTCACTTGCTCCTTGGACGAAAT
517 TTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTG-TTCTTGGACGAAAT
* * *
107259 TTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGGTTCCTTAAAGTATTCAAGACG-T
581 TTCGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGACGAT
107323 T
646 T
* * * * * * *
107324 CCATTCCTTTGAGCAAATTTTT-GAGCATTCCATGCTCGGGAAGTCGTATTATTTGGTATAAATA
1 -CATTCCTTCGAGC-AATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATA
* **
107388 -TATTGTCATTTTGTAAACAAGTTTTGGT-TTGTAAATTAAAAACTTATTTACGTGAGAACCGTT
64 GT-TTGTCATTTTGTAAACAAGTTTTGGTCTT-TGAATTAAAAACTTATTTACGTGAGAATTGTT
* * * * *
107451 TCTGTCCATGTTCTTGGACGAACTTTCGAAC-TCGTCAAACTTTTACGAGTTCTATTAT-ACATT
127 TCTCT-CTTGTTCTTGGACGAACTTCCGAACTTC-TCAAACTTTTAAGAGTTCTTTTATAAC-TT
* ** *
107514 CGGTTCCTTAAAACATTCAAGACGATCCATTCCTTCGAGCAATTTTCCAAACATTCCATGCTAGA
189 CGGTTCCTTAAAGCATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGA
* * *
107579 AAAATCACATCAATTT-GTCTGAATAGTTTG-TCATTTTGTAAACAAG-TTTTGCTCTTTGTATT
254 GAAATCACATC-ATTTGGTCTAAATAGTTTGCT-ATTTTGTAAACAAGTTTTTG-TCTTTGAATT
* * * **
107641 AAAAACTTATTTACGTGAGAATTGTTTCTCACTTGGTTCTTGGACTAAATT-TCGAACTGGTCAA
316 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCT-GAACAAGTCAA
* *
107705 ACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGTTCCATTCTTTCGAG-
380 ACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
** * * * * * *
107769 -AATTTTCTGTGCATTCCATGCTCGGGAAGTCGCACCATTTAGTCTAAATAGTTTGTTAATTTGT
445 AAATTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTGT
* * * * * * * *
107833 AAACAAGTTTTGGTCTATAAATTAAAAACTTATATATGTGAGAATT-TTTTTTTCCATGTTCTTC
509 AAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-CTTGTTCTTG
* * * * * * * *
107897 GACGAACTTCCGAACTCGTCAAAATTTTATGAGTTCTATTATAACTTCGATTCCTTAAAGCATTC
573 GACGAAATTTCGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTA
*
107962 AAGACGATC
638 AAGACGATT
* * *
107971 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAAAAATAGCATCAATTGGTCTAAATAGT
1 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
* * * * * * * *
108036 TTGTTAATTTGTAAACAAGTTTTGGTCTATAAATTAAAAACTTATATATGTGAGAAATTTTTTTT
66 TTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG-AATTGTTTCT
* * * * * **
108101 C-CATGTTCTTTGACGAACTTCCGAAC-TCGTCAAAATTTTATGAGTTCTATTATAACTTCTATT
130 CTCTTGTTCTTGGACGAACTTCCGAACTTC-TCAAACTTTTAAGAGTTCTTTTATAACTTCGGTT
* * * *
108164 CCTTAAAGCATTCTAGACTATCCATTCCTTCGAGCAATTTT-TCGAACATTCCATACTCGAAAAA
194 CCTTAAAGCATTCAAGACGATCCATTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGAGAAA
* * *
108228 T-AGCATCAATTGGTCTAAATAGTTTGTTATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAAC
258 TCA-CATCATTTGGTCTAAATAGTTTGCTATTTTGTAAACAAGTTTTTGTCTTTGAATTAAAAAC
* * * * *
108292 TTATTTACG-GTAGAATTATTTCCCTCTTGGTTCTTGTACGAACTTTTGAACTTAA--CAAACTG
322 TTATTTACGTG-AGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAAC--AAGTCAAACTT
* * * *
108354 TTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCATCGAGCAATT
384 TTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAAT
** ** * * *
108419 TTTCGAACATTCCACACTCGATAAATCGCATCATTTGGACTAAATAGTTTGTCATTTTGCAAACA
449 TTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTGTAAACA
* *
108484 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTATCTCTTTGATCTTGGACGA
514 AGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TTGTTCTTGGACGA
* * * * * *
108549 ACTTTCGAACTTGTCAAACTATTAAGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTAAACAC
578 AATTTCGAACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGAC
108614 GATT
643 GATT
* * * * *
108618 CATTCCTTCGAGCAATTTTTCTAACATTCCACGCTCAAGAAATTGTATCATTTGGTCTAAATAGT
1 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
* * * *** * *
108683 TTGTCATTTTTTAAATAAGATTCAATCTTTGAAATT-AAAACTCATTTATGTGAGAATTGTTTCT
66 TTGTCATTTTGTAAACAAGTTTTGGTCTTTG-AATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * * *
108747 CTCTTTTTTTTTGGACGAACTTTCGACCTTGTCAAACTTTTACGAGTTCTTTTATAACATCGGTT
130 CTC-TTGTTCTTGGACGAACTTCCGAACTTCTCAAACTTTTAAGAGTTCTTTTATAACTTCGGTT
* * * * * ** *
108812 CCTCAAAGTATACAAGACGAACCATTCCATCGAGCAA-TTT-T-ATTA-TCCATGCTCGGGAAAT
194 CCTTAAAGCATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAAT
* * * * * * * *
108873 TACATCATCTGGTTTTAATAGTTTTC-ATTTTGTAAACAAGTTTTGGTCTTTGAACTAGAAACTT
259 CACATCATTTGGTCTAAATAGTTTGCTATTTTGTAAACAAGTTTTTGTCTTTGAATTAAAAACTT
* * ** ** *
108937 ATTTACGTGAGAATTGTTTCTCTTTTAGTGTT-TT--AAGAACTTCCAAACTTGAT-AAACTGTT
324 ATTTACGTGAGAATTGTTTCTCTCTT-G-GTTCTTGGACGAACTTCTGAACAAG-TCAAACTTTT
*
108998 ACGAGTTCTTTTTTAACTTC-GATTCCTTAAAGTATTCAAGACGATCCAT
386 ACGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAAGACGATCCAT
109047 GATGCGAGCA
Statistics
Matches: 1994, Mismatches: 320, Indels: 121
0.82 0.13 0.05
Matches are distributed among these distances:
641 1 0.00
642 63 0.03
643 57 0.03
644 40 0.02
645 271 0.14
646 272 0.14
647 289 0.14
648 390 0.20
649 552 0.28
650 59 0.03
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (646 bp):
CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
TTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTC
TCTTGTTCTTGGACGAACTTCCGAACTTCTCAAACTTTTAAGAGTTCTTTTATAACTTCGGTTCC
TTAAAGCATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCA
CATCATTTGGTCTAAATAGTTTGCTATTTTGTAAACAAGTTTTTGTCTTTGAATTAAAAACTTAT
TTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTGAACAAGTCAAACTTTTACGAG
TTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAAATTTTCGAA
CATTCCATGCTCGGGAAATCGCATCATTTGGTCAAAATAGTTTGTCATTTTGTAAACAAGTTTTG
GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGTTCTTGGACGAAATTTCGA
ACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGACGATT
Found at i:111815 original size:15 final size:15
Alignment explanation
Indices: 111797--111846 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
111787 TGGAAGATGC
*
111797 GAGCATTGATGTTGT
1 GAGCACTGATGTTGT
*
111812 GAGCACTCATGTTGT
1 GAGCACTGATGTTGT
*
111827 GAACACTGATGTTGT
1 GAGCACTGATGTTGT
*
111842 TAGCA
1 GAGCA
111847 TGGATAAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (15 bp):
GAGCACTGATGTTGT
Found at i:113782 original size:216 final size:216
Alignment explanation
Indices: 113409--117253 Score: 4076
Period size: 216 Copynumber: 17.9 Consensus size: 216
113399 TCAAACAATT
* * *
113409 CATGCTC-AGGAAATTGCATCAATTT-GTCTAAATAGTTTGTAATTTTGTAAACAAG-TTTGCTC
1 CATGCTCGA-GAAATCGCATC-ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTC
* * * * * *
113471 TTTGTATTAAAAACTTAATTACGTGAGAATTGTTTCTCACTTGGTTCTTGGACTAAATTTCGAAC
64 TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAC
* * *
113536 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGTCGTTCCATTCC
129 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* **
113601 TTCAAGCAATTTTCTGTGCATTC
194 TTCGAGCAATTTTCTGAACATTC
* * *
113624 CATGCTCGAGAAGTCGCATCATTTGGTCTAAATAGTTTGTTATTTTGTAAACAAGTTTTGGTCTA
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
** * * * * *
113689 CAAATTAAAAACTTATTTACGTGAGAATTGTTTTTTTCCAT-GTTCTTGGATGAACTTCCAAACT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-CTTGGTTCTTGGACGAACTTCCGAACT
* * * * * * *
113753 CT-TCAAAATTTTACGGGTTCTATTATAACTTCGGTTCCTTAAAGCATTCGAGACAATCAATTCC
130 -TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
*
113817 TTTGAGCAATTTT-TCGAACATTC
194 TTCGAGCAATTTTCT-GAACATTC
* * * *
113840 CATGCTCGAAAAATCACATCAATTGGTCTAAATAGTTTGTCATATTGTAAACAAGTTTTGGTCTT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
* * * * *
113905 TGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTATTGGTTCTTGTACGAACTTCTGAACTC
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTT
* * ** * * **
113970 GACAAACTATTACGAGTTC-TTTATAACTTCAATTCCTTAAAGCATTCGAGACGATCCATTCCAA
131 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* *
114034 CAAGCAATTTT-TCGATCATTC
196 CGAGCAATTTTCT-GAACATTC
* ** * *
114055 TACACAT-G-GTAAATCGCATCATTTAGACTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTC
1 CATGC-TCGAG-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTC
* * *** *
114118 TTTGAATTAAAAAGTTATTTATGTGAGAATTGTTTCTCTCTTTAATCTTGGACGAACTTTCGAAC
64 TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAC
* * *
114183 TTGTCAAACTATTAAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATT-AA-A-GA-CGATTCC
129 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* *
114244 TTCGAGTAATTTTTTGAACATTC
194 TTCGAGCAATTTTCTGAACATTC
* * * * * * *
114267 CATGCTC-AGGAAATTGTATCATTTGGTCTAAATAGTTTGTTATTTTTTAAATAAGATTCGGTCT
1 CATGCTCGA-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCT
* * * * *
114331 TTAAAATT-AAAACTCATTTATGTGAGAATTGTTTCTCT-TT-GTTTTTGGATGAACTTCCGAAC
65 TT-GAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAC
* * *
114393 TTGTCAAACTTTTACGAGTTCTTTTATAACATCGGTTCCTCAAAGTATTCAAGACGAACCATTCC
129 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
* * *
114458 ATCGAGCAATTTT-TCAAACAATC
194 TTCGAGCAATTTTCT-GAACATTC
* * *
114481 CATGCTCGGGAAAGT-GCATCATTTGGTTTTAATAGTTT-TCATTTTGTAAACAAGTTTTGGTCT
1 CATGCTCGAGAAA-TCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCT
** * * * * *
114544 TTGAATTTGAAACTTATTTACGTCAGAAATGTTTCTCTCTTAGTTCTTGTACGAACTTCCAAACT
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT
* * * *
114609 TGACAAACTATTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATTCATTCCT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
*
114674 TCGAGCAAATTTCTGAACATTC
195 TCGAGCAATTTTCTGAACATTC
* * * *
114696 TAGGCTCGAGAAGTTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
* * * **
114761 TGAATTAAAAACTTATTTACATGAGAATTTTTTCTCTCTTGGTTCTTGGATGAACATT-TAAACT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC-TTCCGAACT
* * ** * * * *
114825 TGTCATACGTTTACGAGTTCTACTAAAACTTCAGTTCCTTAAAGTATTCAAGGCGATCCGTTCCT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
* * *
114890 TCAAGCAATTTTTTTAACATTC
195 TCGAGCAATTTTCTGAACATTC
* * * * * *
114912 CATGCTCGAGAAATCG---CATTTGGCCTAAATAGATTCTCGTTTTGTAAGCAAGTTATT-TTCT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTT-TTGGTCT
* * * * *
114973 TTGAATTAAAAACTAATTTACGTGATAATT-TTTCCCTCTTGGTTCTTGGACAAACTTCCAAACT
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT
* * * * * * *
115037 TGTCAAACTATTACAAGTTCTTTTAAAACTTCCGTTCCATAAAGCATTCAAGACGATCCTTTCCT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
*
115102 TTGAGCAATTTTCTGAACATTC
195 TCGAGCAATTTTCTGAACATTC
* * * *
115124 CATGCTCGGGAAATCGTATCATTTGGTCTAAATAGTTTGTTATTTTGTAAGA-AAGTTATGGTCT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA-ACAAGTTTTGGTCT
* * * * *
115188 TTGAATTAAAAATTTATTTACGTGATAATTGTTTCTCTCTT--CTCTT-GAGTGAACTTTC-AGA
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA-CGAACTTCCGA-A
* * * *
115249 CTTGTCAAACTATTACAAATTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATCCATTC
128 CTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTC
*
115314 CTTCGAGCAAATTTC-GAACATTC
193 CTTCGAGCAATTTTCTGAACATTC
* * * *
115337 CATGTTCGGGAAATCGTATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTG
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
* * * * * *
115402 TAAATTAAAAACTTATTT-TGTGATAATTGTTGT-TTTCCAT-GTTCTTGGACGAACTTCCAAAC
66 TGAATTAAAAACTTATTTACGTGAGAATTGTT-TCTCT-CTTGGTTCTTGGACGAACTTCCGAAC
* * * * *
115464 TCGTCAAACTTTTACGAGTTCTATTATAACTTTGGTTCCTTAAAGTCTTCAAGATGATCCATTCC
129 TTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCC
*
115529 TTCGAGCAATTTT-TCAAACATTC
194 TTCGAGCAATTTTCT-GAACATTC
* * * * * *
115552 TATGCTCGAAAAATCGCATCATTCGGTTTAAATAAG-TTGTCATTTCGTAAACAATTTTTGGTC-
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAAT-AGTTTGTCATTTTGTAAACAAGTTTTGGTCT
*
115615 TT--A-T------TTA--T--GTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTCGAACT
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT
* * * *
115667 TGTCAAACTTTTGCGAGTTCTTTTATACCTTCAGTTCCTTAAAGTATTTAAGACGATCCATTCCT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
* *
115732 TCGAGCAATATTAC-AAACATTC
195 TCGAGCAAT-TTTCTGAACATTC
* * * * * * * * *
115754 CATGCTCAAAAAATCACATCAATTGGTCTAACTAGATTGTCATTTTGTAAACAAATTTTAGTTTT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
* **
115819 TTAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCTAAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTT
* * * * * * * *
115884 GTCAAAATTTTATGAGTTCTTTTATAACTTCGATTTCTTTAAGTATTAAAGACGATTCATTCATT
131 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
*
115949 CAAGCAATTTT-TCGAACATTC
196 CGAGCAATTTTCT-GAACATTC
* * *
115970 CATGCTCGAAAAATCGCATCAATTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCAT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
* * * * *
116035 TGAATTAAAAACTTATTTATGTGAGAATTATGTCTCTCTTGGTTCTTGGACAAACTTTCGAACTT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTT
** * * * *
116100 GTCAAACTTTTACGAGTTCTTTTATAACTTAAGTTCTTTTAAGCATTAAAGACGATCCATTCCTT
131 GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
116165 CGAGCAATTTTAC-GAACATTC
196 CGAGCAATTTT-CTGAACATTC
* * *
116186 CATGCTCG-GAAAATTGCATCAATTGGTCTAAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCT
1 CATGCTCGAG-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCT
* * * * * * * *
116250 TTAAATTAAAAACCTATTTACGTGTGAATTGTTTCTCTCTTGGTTTTTGTATGAACTTCTGAACC
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT
* * * * *
116315 TGACAAACTGTTACGAGTTCTTTTATAACTTCGGTTCCTTAATGTATTCAAGATGATCCATTCCA
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
** *
116380 TCGAG-ACATTTTCAAAACATCC
195 TCGAGCA-ATTTTCTGAACATTC
** * * *
116402 CACACTCGATAAATCGCATCATTTGGACTAAATAGTTTTGTCATTTTGTATACAAGTTTTGGTCT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAG-TTTGTCATTTTGTAAACAAGTTTTGGTCT
* * * **
116467 TTGAATTAAAAACTTATTTACATGAGAATTGTTTCACTCTTTGACCTTGGACGAACTTCCGAACT
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT
* * * *
116532 TGTCAAACTATTAAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAAGACGATCCATTCTT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
*
116597 TCGAGTAATTTT-TCGAACATTC
195 TCGAGCAATTTTCT-GAACATTC
* * * ** *
116619 CATGCTCGAGAAATTGTATCATTTGGTCTAAATAGTTTGTCATTTTATAAATTAGATTTGGTCTT
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
* * * * * * **
116684 TGAAATT-AAAACTCATTTATGTGAGAATTGTTTCCCTCTTTGTTTTTGGA-AAACTTTTGAACT
66 TG-AATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT
* * * *
116747 TGTCAAAATTTTACGAGTTCTTTTATAACATCGGTTCCTCAATGTATTCAAGACGAAT-CATTCC
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACG-ATCCATTCC
* ** *
116811 ATCGAGCAATTTTCCAAACAATC
194 TTCGAGCAATTTTCTGAACATTC
* *
116834 CATGCTC-AGGAAATTGCATCATTTGGTTTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCT
1 CATGCTCGA-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCT
** * * * * *
116898 TTGAATTAAAAACTTATTTATATGAGAATTGTTTCTCTATTAGTTCTTGTATGAACTTCCAAACT
65 TTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACT
* * * * * * *
116963 TGACAAACTGTTATGAGTTCTTTTATAACTTCGATTCCTGAAAGTATTCAGGATGATCCATTCCT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
* * *
117028 TAGAGCAA-ATTCTCGAACATTT
195 TCGAGCAATTTTCT-GAACATTC
* * * * * * * * *
117050 CACGCTCGGGAATTTGCATCATTTGGTTTAAATAGTTTGTGATTTTGTAAACAAGTTTTAGTATG
1 CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
* * * * * *
117115 TAAATTAAAAACTTATTTACGTGCGAACTGTTTCTCTCCAT-GTTCTTGGATGAACTTTCGAACT
66 TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-CTTGGTTCTTGGACGAACTTCCGAACT
** * * * * * * *
117179 CATCAAACTTTTCCAAGTTCTATTATACCTTCGATTCCTTAAAG-CTTCAAGGCGATCCATTCCT
130 TGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
*
117243 TTGAGCAATTT
195 TCGAGCAATTT
117254 GATGCGAGCA
Statistics
Matches: 3031, Mismatches: 509, Indels: 179
0.82 0.14 0.05
Matches are distributed among these distances:
201 5 0.00
202 156 0.05
203 5 0.00
205 4 0.00
206 1 0.00
210 62 0.02
211 8 0.00
212 237 0.08
213 210 0.07
214 237 0.08
215 682 0.23
216 1232 0.41
217 191 0.06
218 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (216 bp):
CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTT
TGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTT
GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTT
CGAGCAATTTTCTGAACATTC
Found at i:114212 original size:431 final size:430
Alignment explanation
Indices: 113396--117253 Score: 4050
Period size: 431 Copynumber: 9.0 Consensus size: 430
113386 GACATCAAAA
* * *
113396 TTTTCAAACAATT-CATGCTC-AGGAAATTGCATCAATTT-GTCTAAATAGTTTGTAATTTTGTA
1 TTTTCGAAC-ATTCCATGCTCGA-GAAATCGCATC-ATTTGGTCTAAATAGTTTGTCATTTTGTA
* * * *
113458 AACAAG-TTTGCTCTTTGTATTAAAAACTTAATTACGTGAGAATTGTTTCTCACTTGGTTCTTGG
63 AACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGG
* *
113522 ACTAAATTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCA
128 ACGAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCA
* * * ** *
113587 AGTCGTTCCATTCCTTCAAGCAA-TTTTCTGTGCATTCCATGCTCGAGAAGTCGCATCATTTGGT
192 AGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCG-GAAATCGCATCATTTGGT
* **
113651 CTAAATAGTTTGTTATTTTGTAAACAAGTTTTGGTCTACAAATTAAAAACTTATTTACGTGAGAA
255 CTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAA
* * ** * * * * *
113716 TTGTTTTTTTCCATGTTCTTGGATGAACTTCCAAACTCT-TCAAAATTTTACGGGTTCTATTATA
320 TTGTTTCTCTCTTTGTTCTTGGACGAACTTTCAAACT-TGTCAAACTTTTACGAGTTCTTTTATA
* * * *
113780 ACTTCGGTTCCTTAAAGCATTCGAGACAATCAATTCCTTTGAGCAAT
384 ACTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
* * * *
113827 TTTTCGAACATTCCATGCTCGAAAAATCACATCAATTGGTCTAAATAGTTTGTCATATTGTAAAC
1 TTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
* * *
113892 AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTATTGGTTCTTGTACG
66 AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG
* * * * * *
113957 AACTTCTGAACTCGACAAACTATTACGAGTTC-TTTATAACTTCAATTCCTTAAAGCATTCGAGA
131 AACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGA
** * * * ** * *
114021 CGATCCATTCCAACAAGCAATTTTTCGATCATTCTACACAT-GGTAAATCGCATCATTTAGACTA
195 CGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC-TCGG-AAATCGCATCATTTGGTCTA
* * *
114085 AATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAAGTTATTTATGTGAGAATTG
258 AATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTG
** * * *
114150 TTTCTCTCTTTAATCTTGGACGAACTTTCGAACTTGTCAAACTATTAAGAGTTCTTTTATAACTT
323 TTTCTCTCTTTGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* * *
114215 CGGTTCCTTAAAGTATT-AA-A-GA-CGATTCCTTCGAGTAAT
388 CGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
* * * * *
114254 TTTTTGAACATTCCATGCTC-AGGAAATTGTATCATTTGGTCTAAATAGTTTGTTATTTTTTAAA
1 TTTTCGAACATTCCATGCTCGA-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* * * * * * *
114318 TAAGATTCGGTCTTTAAAATT-AAAACTCATTTATGTGAGAATTGTTTCTCT-TT-GTTTTTGGA
65 CAAGTTTTGGTCTTT-GAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * * *
114380 TGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACATCGGTTCCTCAAAGTATTCAA
129 CGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAA
* * * * *
114445 GACGAACCATTCCATCGAGCAATTTTTCAAACAATCCATGCTCGGGAAAGT-GCATCATTTGGTT
193 GACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC-GGAAA-TCGCATCATTTGGTC
* * ** * *
114509 TTAATAGTTT-TCATTTTGTAAACAAGTTTTGGTCTTTGAATTTGAAACTTATTTACGTCAGAAA
256 TAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAAT
* * * * *
114573 TGTTTCTCTCTTAGTTCTTGTACGAACTTCCAAACTTGACAAACTATTACGAGTTCTTTTATAAC
321 TGTTTCTCTCTTTGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
** *
114638 TTCGGTTCCTTAAAGTATTCAAGATGATTCATTCCTTCGAGCAA-
386 TTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
* * * * *
114682 ATTTCTGAACATTCTAGGCTCGAGAAGTTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
1 TTTTC-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
* * *
114747 CAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTTTTTCTCTCTTGGTTCTTGGAT
65 CAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
* * * ** *
114812 GAACATTTAAACTTGTCATACGTTTACGAGTTCTACTAAAACTTCAGTTCCTTAAAGTATTCAAG
130 GAAC-TTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAG
* * * ** *
114877 GCGATCCGTTCCTTCAAGCAATTTTTTTAACATTCCATGCTCGAGAAATCG---CATTTGGCCTA
194 ACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCATTTGGTCTA
* * * * * * * *
114939 AATAGATTCTCGTTTTGTAAGCAAGTTATT-TTCTTTGAATTAAAAACTAATTTACGTGATAATT
258 AATAGTTTGTCATTTTGTAAACAAGTT-TTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATT
* * * * * * *
115003 -TTTCCCTCTTGGTTCTTGGACAAACTTCCAAACTTGTCAAACTATTACAAGTTCTTTTAAAACT
322 GTTTCTCTCTTTGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * * * * *
115067 TCCGTTCCATAAAGCATTCAAGACGATCCTTTCCTTTGAGCAA-
387 TCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
* * *
115110 TTTTCTGAACATTCCATGCTCGGGAAATCGTATCATTTGGTCTAAATAGTTTGTTATTTTGTAAG
1 TTTTC-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA-
* * * *
115175 A-AAGTTATGGTCTTTGAATTAAAAATTTATTTACGTGATAATTGTTTCTCTCTT--CTCTT-GA
64 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * * * *
115236 GTGAACTTTCAGACTTGTCAAACTATTACAAATTCTTTTATAACTTCGGTTCCTTAAAGTATTCA
129 -CGAACTTTGA-ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCA
* * * *
115301 AGATGATCCATTCCTTCGAGCAA-ATTTCGAACATTCCATGTTCGGGAAATCGTATCATTTGGTC
192 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC-GGAAATCGCATCATTTGGTC
* * *
115365 TAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTGTAAATTAAAAACTTATTT-TGTGATAAT
256 TAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAAT
* ** * * *
115429 TGTTGT-TTTCCATGTTCTTGGACGAACTTCCAAACTCGTCAAACTTTTACGAGTTCTATTATAA
321 TGTT-TCTCTCTTTGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAA
* * **
115493 CTTTGGTTCCTTAAAGTCTTCAAGATGATCCATTCCTTCGAGCAAT
385 CTTCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
* * * * * *
115539 TTTTCAAACATTCTATGCTCGAAAAATCGCATCATTCGGTTTAAATAAG-TTGTCATTTCGTAAA
1 TTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAAT-AGTTTGTCATTTTGTAAA
*
115603 CAATTTTTGGTC-TT--A-T------TTA--T--GTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
65 CAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
* * *
115654 GAACTTTCGAACTTGTCAAACTTTTGCGAGTTCTTTTATACCTTCAGTTCCTTAAAGTATTTAAG
130 GAACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAG
* * * ** * *
115719 ACGATCCATTCCTTCGAGCAATATTACAAACATTCCATGCTCAAAAAATCACATCAATTGGTCTA
194 ACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC-GGAAATCGCATCATTTGGTCTA
* * * * * *
115784 ACTAGATTGTCATTTTGTAAACAAATTTTAGTTTTTTAATTAAAAACTTATTTACGTGAGAATTG
258 AATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTG
* * *
115849 TTTCTCTCTTGGTTCTTGGACGAAC-TTCTAAACTTGTCAAAATTTTATGAGTTCTTTTATAACT
323 TTTCTCTCTTTGTTCTTGGACGAACTTTC-AAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * * * * * * *
115913 TCGATTTCTTTAAGTATTAAAGACGATTCATTCATTCAAGCAAT
387 TCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
* *
115957 TTTTCGAACATTCCATGCTCGAAAAATCGCATCAATTGGTCTAAATAGTTTGTCATTTTGTAAAC
1 TTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
* * * * *
116022 AAGTTTTGGTCATTGAATTAAAAACTTATTTATGTGAGAATTATGTCTCTCTTGGTTCTTGGACA
66 AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG
* * * * *
116087 AACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTAAGTTCTTTTAAGCATTAAAGA
131 AACTTT-GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGA
* * *
116152 CGATCCATTCCTTCGAGCAATTTTACGAACATTCCATGCTCGGAAAATTGCATCAATTGGTCTAA
195 CGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGG-AAATCGCATCATTTGGTCTAA
* * *
116217 ATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACCTATTTACGTGTGAATTGT
259 ATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGT
* * * * * * * *
116282 TTCTCTCTTGGTTTTTGTATGAAC-TTCTGAACCTGACAAACTGTTACGAGTTCTTTTATAACTT
324 TTCTCTCTTTGTTCTTGGACGAACTTTC-AAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
* ** *
116346 CGGTTCCTTAATGTATTCAAGATGATCCATTCCATCGAG-ACA-
388 CGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCA-AT
* * ** * * *
116388 TTTTCAAAACATCCCACACTCGATAAATCGCATCATTTGGACTAAATAGTTTTGTCATTTTGTAT
1 TTTTC-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAG-TTTGTCATTTTGTAA
* * * **
116453 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCACTCTTTGACCTTGGA
64 ACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGA
* * * * *
116518 CGAACTTCCGAACTTGTCAAACTATTAAGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTAAA
129 CGAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAA
* * * *
116583 GACGATCCATTCTTTCGAGTAATTTTTCGAACATTCCATGCTCGAGAAATTGTATCATTTGGTCT
193 GACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCGCATCATTTGGTCT
* ** * * *
116648 AAATAGTTTGTCATTTTATAAATTAGATTTGGTCTTTGAAATT-AAAACTCATTTATGTGAGAAT
257 AAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTT-AAATTAAAAACTTATTTACGTGAGAAT
* * * ** *
116712 TGTTTCCCTCTTTGTTTTTGGA-AAACTTTTGAACTTGTCAAAATTTTACGAGTTCTTTTATAAC
321 TGTTTCTCTCTTTGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
* * * *
116776 ATCGGTTCCTCAATGTATTCAAGACGAAT-CATTCCATCGAGCAAT
386 TTCGGTTCCTTAAAGTATTCAAGAC-AATCCATTCCTTCGAGCAAT
* * * * *
116821 TTTCCAAACAATCCATGCTC-AGGAAATTGCATCATTTGGTTTAAATAGTTTGTCATTTTGTAAA
1 TTTTCGAACATTCCATGCTCGA-GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA
** * * * *
116885 CAAGTTTTGGTCTTTGAATTAAAAACTTATTTATATGAGAATTGTTTCTCTATTAGTTCTTGTAT
65 CAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGAC
** * * * * *
116950 GAACTTCCAAACTTGACAAACTGTTATGAGTTCTTTTATAACTTC-GATTCCTGAAAGTATTCAG
130 GAACTT-TGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAG-TTCCTTAAAGTATTCAA
* * * * * * * * *
117014 GATGATCCATTCCTTAGAGCAAATTCTCGAACATTTCACGCTCGGGAATTTGCATCATTTGGTTT
193 GACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTC-GGAAATCGCATCATTTGGTCT
* * * * * *
117079 AAATAGTTTGTGATTTTGTAAACAAGTTTTAGTATGTAAATTAAAAACTTATTTACGTGCGAACT
257 AAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATT
** * * ** * * * *
117144 GTTTCTCTCCATGTTCTTGGATGAACTTTCGAACTCATCAAACTTTTCCAAGTTCTATTATACCT
322 GTTTCTCTCTTTGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
* * * * *
117209 TCGATTCCTTAAAG-CTTCAAGGCGATCCATTCCTTTGAGCAAT
387 TCGGTTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
117252 TT
1 TT
117254 GATGCGAGCA
Statistics
Matches: 2869, Mismatches: 476, Indels: 164
0.82 0.14 0.05
Matches are distributed among these distances:
414 19 0.01
416 80 0.03
417 88 0.03
418 162 0.06
419 2 0.00
421 1 0.00
422 1 0.00
424 1 0.00
425 191 0.07
426 156 0.05
427 124 0.04
428 422 0.15
429 155 0.05
430 25 0.01
431 619 0.22
432 556 0.19
433 261 0.09
434 6 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (430 bp):
TTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAC
AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG
AACTTTGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGAC
GATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAATCGCATCATTTGGTCTAAAT
AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGAATTGTTT
CTCTCTTTGTTCTTGGACGAACTTTCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
TTCCTTAAAGTATTCAAGACAATCCATTCCTTCGAGCAAT
Found at i:117844 original size:16 final size:16
Alignment explanation
Indices: 117793--117863 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 16
117783 GAGAGAAGAA
*
117793 AAAAAG-AAATGAGAG
1 AAAAAGAAAATGAAAG
* *
117808 AAAAAGAAATTTTGAATG
1 AAAAAGAAA--ATGAAAG
117826 AAAAAGAAAATGAAAG
1 AAAAAGAAAATGAAAG
** *
117842 -AAAAGAAGCTGAAAC
1 AAAAAGAAAATGAAAG
117857 AAAAAGA
1 AAAAAGA
117864 GAGAGTGAGG
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 18 0.41
16 13 0.30
18 13 0.30
ACGTcount: A:0.66, C:0.03, G:0.20, T:0.11
Consensus pattern (16 bp):
AAAAAGAAAATGAAAG
Found at i:120357 original size:30 final size:30
Alignment explanation
Indices: 120321--120396 Score: 152
Period size: 30 Copynumber: 2.5 Consensus size: 30
120311 GGAAGACACT
120321 TCATGCATTCCATGCATTTCATATAACCTA
1 TCATGCATTCCATGCATTTCATATAACCTA
120351 TCATGCATTCCATGCATTTCATATAACCTA
1 TCATGCATTCCATGCATTTCATATAACCTA
120381 TCATGCATTCCATGCA
1 TCATGCATTCCATGCA
120397 ATGTGCTGCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.36
Consensus pattern (30 bp):
TCATGCATTCCATGCATTTCATATAACCTA
Found at i:125062 original size:216 final size:216
Alignment explanation
Indices: 124379--125425 Score: 1151
Period size: 216 Copynumber: 4.8 Consensus size: 216
124369 AAATGCATGA
* * * * **
124379 AACTTTCGAACTTGTTGAACTTTTACGAGTTCTTTTATTAACTTTGATTCCTTAACTTATTCAAG
1 AACTTTTGAACTTGTCGAACTTTTACGAGTTCTTTTA-TAACTTCGGTTCCTTAAAGTATTCAAG
* * *
124444 ACAATCCAATCCTTTGAGAAAATTTT-CGAACATTCCATGCTCGGGAAATCGCATC-ATTCGGTC
65 ACGATCCAATCCTTTGAG-CAATTTTCCGAACATTCCATGCTAGGGAAATCGCATCAATT-GGTC
* * *
124507 TAAATAGTTTTTCATTTTGTGAAACAAG-TTTGGTCTTTGAATTTAAAACTTATTTATGTAAGAA
128 TAAATAGTTTTTCATTTTGT-AAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
*
124571 TTGTTTCTCTCTTGGATCTT-G--G
192 TTGTTTCTCTCTTGGTTCTTGGACG
* * * * *
124593 -AC----GAACTTGTCGAATTTTTACGAGTTCTTCTATAACTTCGGTTACTTAATGTATTAAAGA
1 AACTTTTGAACTTGTCGAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGA
* * * * *
124653 CGATCAAATCCTTTGAGCAATTTTCCGAACATTCCATGCGAGAGAAATCGCATCATTTGGCCT-A
66 CGATCCAATCCTTTGAGCAATTTTCCGAACATTCCATGCTAGGGAAATCGCATCAATTGGTCTAA
* *
124717 GTAGTTTTTCAATTTT-TAAACAAGTTTTGATCTTTGAATT-AAAACTTATTTACATAAGTTTAC
131 ATAGTTTTTC-ATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTAC----G-----
* *
124780 ATGAGAATTGTGTCTCTCTTGGTTCTTGAACG
186 -TGAGAATTGTTTCTCTCTTGGTTCTTGGACG
* *
124812 AACTTCTGAACTTGTCGAACTTTTATGAGTTCTTTTATAACTAT-GGTTCCTTAAAGTATTCAAG
1 AACTTTTGAACTTGTCGAACTTTTACGAGTTCTTTTATAACT-TCGGTTCCTTAAAGTATTCAAG
* * * *
124876 ACGATCCAATCCTTTGAGCAATTTTCCGAACATTCCATGCTTGGGAAGTTGCATCAATTGGTCCA
65 ACGATCCAATCCTTTGAGCAATTTTCCGAACATTCCATGCTAGGGAAATCGCATCAATTGGTCTA
* * * *
124941 AAAAGTTTGTCATTTTGAAAACAAGTTTTGGTCTTTTAATTAAAAACTTATTTACGTGAGAATTG
130 AATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTG
* *
125006 TTTCTCTCTTGGTTGTTGGGCG
195 TTTCTCTCTTGGTTCTTGGACG
* * * *
125028 AACTTTTGAACTTGTCAAACTTTTATGAGTTCTTTTTTAACTTCTGTTCCTTAAAGTATTCAAGA
1 AACTTTTGAACTTGTCGAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGA
* * * * * * *
125093 -TAGTCCATTCCTTTTAGTAGTTTTTCGAACATTCCATGCTCGGGAAATCGCATC-ATTCGGTCT
66 CGA-TCCAATCCTTTGAGCAATTTTCCGAACATTCCATGCTAGGGAAATCGCATCAATT-GGTCT
* * *
125156 AAATAGCTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATA
129 AAATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATT
* *
125221 GATTCTCTCTTGGTTCTTAGACG
194 GTTTCTCTCTTGGTTCTTGGACG
** * * * * * *
125244 AACTTTTGAAAATGACTAACTTTT-CGAGTTCTTTTACAACTTCGGTTCCTTTACGTA-TCTAAC
1 AACTTTTGAACTTGTCGAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC-AAG
** * * * * *
125307 ACGATCCAATCCTTTGAGCAATTTTTTGCACATTACATGCGAGGGAAATTGCATCATTTGGTCTA
65 ACGATCCAATCCTTTGAGCAATTTTCCGAACATTCCATGCTAGGGAAATCGCATCAATTGGTCTA
*
125372 AATAGTTTTTCATTTTGTAAACAAGTTTTGATCTTTGAATTAAAAACTTATTTA
130 AATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
Statistics
Matches: 702, Mismatches: 99, Indels: 63
0.81 0.11 0.07
Matches are distributed among these distances:
206 19 0.03
207 31 0.04
208 72 0.10
209 29 0.04
210 1 0.00
213 2 0.00
214 2 0.00
215 134 0.19
216 256 0.36
219 1 0.00
220 2 0.00
222 1 0.00
224 109 0.16
225 30 0.04
226 13 0.02
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.40
Consensus pattern (216 bp):
AACTTTTGAACTTGTCGAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGA
CGATCCAATCCTTTGAGCAATTTTCCGAACATTCCATGCTAGGGAAATCGCATCAATTGGTCTAA
ATAGTTTTTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGT
TTCTCTCTTGGTTCTTGGACG
Done.