Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000422.1 Hibiscus syriacus cultivar Beakdansim tig00000773_pilon, 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: 2457469
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 12
Found at i:1638 original size:178 final size:184
Alignment explanation
Indices: 902--1728 Score: 1370
Period size: 178 Copynumber: 4.6 Consensus size: 184
892 TTTCAACATA
902 TATAATGTAATAGATAATTTTGTAATAT-ACCGGTAT-AATATACC-GTCTTAT--GCGAATAGG
1 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
962 TCTAC-ACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
66 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
*
1026 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAAT
131 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACAGCGGAACCCATAAT
1080 TATAATG---TA-ATAATTTTGTAATATAACCGGTAT--A-ATACCGGTCTTATGCGCGAATAGG
1 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
1138 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
66 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
*
1203 TGTGTCGATACGATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCATAAT
131 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACAGCGGAACCCATAAT
1256 TATAATGTAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
1 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
1320 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AAAA
66 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
*
1384 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTT-C-CGAGC-G-TCCCATAAT
131 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACAC-AGCGGAACCCATAAT
1435 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
1 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
1500 TCTACAACCTATATCGACACTTTTTAATA-T-TGT-GGTACTTTATGTCCATATTGGAAGAAAAA
66 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
*
1562 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTT-C-CGAGC-G-TCCCATAAT
131 TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACAC-AGCGGAACCCATAAT
* *
1613 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACC-GTTTTATGAGCG-ATAGG
1 TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
*
1676 TCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
1729 CCATTTAAAA
Statistics
Matches: 625, Mismatches: 5, Indels: 37
0.94 0.01 0.06
Matches are distributed among these distances:
173 5 0.01
174 23 0.04
175 10 0.02
176 91 0.15
177 110 0.18
178 114 0.18
179 64 0.10
180 82 0.13
181 24 0.04
182 102 0.16
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (184 bp):
TATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGG
TCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAA
TGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACAGCGGAACCCATAAT
Found at i:4728 original size:22 final size:23
Alignment explanation
Indices: 4673--4736 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
4663 ATAGGTAAAC
* *
4673 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
4696 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
4719 ATA-AATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
4737 TATCATGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
22 15 0.41
23 22 0.59
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:4957 original size:18 final size:18
Alignment explanation
Indices: 4936--4972 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4926 GTAATTGGAG
4936 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
4954 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
4972 T
1 T
4973 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:4980 original size:24 final size:24
Alignment explanation
Indices: 4928--4974 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4918 TTTCATATGT
* *
4928 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
4952 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
4975 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:6380 original size:12 final size:13
Alignment explanation
Indices: 6353--6381 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6343 TGAATTATGT
6353 ATTTAAAAAATAG
1 ATTTAAAAAATAG
6366 ATTTAAAAAAT-G
1 ATTTAAAAAATAG
6378 ATTT
1 ATTT
6382 TGATTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
ATTTAAAAAATAG
Found at i:9977 original size:40 final size:40
Alignment explanation
Indices: 9933--10012 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
9923 GCATGCCAGT
9933 GGTGTTGGCATGTGAAGGGGATGAATGAAGTAGCCACCGC
1 GGTGTTGGCATGTGAAGGGGATGAATGAAGTAGCCACCGC
*
9973 GGTGTTGGCATGTGAAGGGGGTGAATGAAGTAGCCACCGC
1 GGTGTTGGCATGTGAAGGGGATGAATGAAGTAGCCACCGC
10013 CGACGTAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.41, T:0.20
Consensus pattern (40 bp):
GGTGTTGGCATGTGAAGGGGATGAATGAAGTAGCCACCGC
Found at i:10805 original size:32 final size:32
Alignment explanation
Indices: 10761--10830 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
10751 AACCTTGCTT
*
10761 AAGGGTATCATTAAAATCGACTCCCAGGATCC
1 AAGGGTAGCATTAAAATCGACTCCCAGGATCC
*
10793 AAGGGTAGCATTAAAATCGACTCCCGGGATCC
1 AAGGGTAGCATTAAAATCGACTCCCAGGATCC
10825 AAGGGT
1 AAGGGT
10831 TGTCCTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (32 bp):
AAGGGTAGCATTAAAATCGACTCCCAGGATCC
Found at i:16196 original size:15 final size:15
Alignment explanation
Indices: 16178--16207 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16168 CATTTTTTCC
*
16178 TTTATAATTTAAATT
1 TTTATAAATTAAATT
16193 TTTATAAATTAAATT
1 TTTATAAATTAAATT
16208 AATAGTGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTATAAATTAAATT
Found at i:16486 original size:34 final size:32
Alignment explanation
Indices: 16440--16534 Score: 133
Period size: 34 Copynumber: 3.0 Consensus size: 32
16430 TCATCTTCCA
16440 TTTTTTTTAATATTTTTCCATAATTTTACCCTT
1 TTTTTTTTAATATTTTTCCATAATTTTACCC-T
* *
16473 TTTTTTTTAAATATTTTGCCATAATTTT-GCC-
1 TTTTTTTT-AATATTTTTCCATAATTTTACCCT
16504 TTTTTTTTAATA-TTTTCCATAATTTTACCCT
1 TTTTTTTTAATATTTTTCCATAATTTTACCCT
16535 ATAAAATTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
29 13 0.24
30 6 0.11
31 8 0.15
33 10 0.18
34 18 0.33
ACGTcount: A:0.22, C:0.15, G:0.02, T:0.61
Consensus pattern (32 bp):
TTTTTTTTAATATTTTTCCATAATTTTACCCT
Found at i:18225 original size:3 final size:3
Alignment explanation
Indices: 18217--18241 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18207 GATTCTATAC
18217 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
18242 TTCAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22105 original size:3 final size:3
Alignment explanation
Indices: 22097--22134 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
22087 CAAAGAACCA
22097 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
22135 ATATGTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25939 original size:3 final size:3
Alignment explanation
Indices: 25931--25967 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
25921 ATTAATAAAC
25931 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
25968 CGATAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:26185 original size:43 final size:42
Alignment explanation
Indices: 26124--26581 Score: 265
Period size: 43 Copynumber: 10.5 Consensus size: 42
26114 TGTTGGGGAC
* * * *
26124 GACACTGCTCATACGTGATGAAGAGTTTGGGTCGTCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAGTCT-GGTCATCTAAAGGT
26167 GACACGGCTCCTACGTGATGAAGAGTTCTTGG-CTATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TC-TGGTC-ATCTAAAGGT
* * * * *
26211 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGG-T
** **
26257 GACACGGCTCCTACGTGATGTGGAGATCTGG---TCT-GGGGAT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGG-T
* *
26297 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * *
26340 GATAACATGGTTCCTACGTGATGAGGACAG-CTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGA--AGAGTCTGGTCATCTAAAGG-T
****
26386 GACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGGGAA--T
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* *
26426 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
* * * * *
26469 GATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCT-ATGGTT
1 G---ACACGGCTCCTACGTGATGAAGA-GTCTGGTCATCTAAAGG-T
* *
26515 GACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGT
1 GACACGGCTCCTACGTGATGAAGAG-TCTGGTCATCTAAAGGT
*
26558 GATAACACGGTTCCTACGTGATGA
1 G---ACACGGCTCCTACGTGATGA
26582 GGACGGCTGG
Statistics
Matches: 320, Mismatches: 59, Indels: 69
0.71 0.13 0.15
Matches are distributed among these distances:
40 64 0.20
41 5 0.02
42 2 0.01
43 110 0.34
44 18 0.06
45 10 0.03
46 84 0.26
47 23 0.07
48 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (42 bp):
GACACGGCTCCTACGTGATGAAGAGTCTGGTCATCTAAAGGT
Found at i:26312 original size:40 final size:41
Alignment explanation
Indices: 26166--26581 Score: 185
Period size: 46 Copynumber: 9.5 Consensus size: 41
26156 CGTCTAAAGG
* *
26166 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCTATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATC-TGG--ATCT---GGGGA
* * * * ** *
26213 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATCTGGGGA
**
26256 TGACACGGCTCCTACGTGATGTGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGGA
* * *
26296 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATCT---GGGGA
* * * * * * ** *
26342 TAACATGGTTCCTACGTGATGAGGACAGCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATCTGGGGA
26385 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGG-A
* * *
26425 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATCT---GGGGA
* * * * ** *
26471 TAACACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAAGA-GATCTGG--ATCTGGGGA
* * *
26514 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAAGAGATCTGG--ATCT---GGGGA
* *
26560 TAACACGGTTCCTACGTGATGA
1 TGACACGGCTCCTACGTGATGA
26582 GGACGGCTGG
Statistics
Matches: 276, Mismatches: 72, Indels: 43
0.71 0.18 0.11
Matches are distributed among these distances:
39 2 0.01
40 65 0.24
42 2 0.01
43 89 0.32
46 90 0.33
47 27 0.10
48 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAAGAGATCTGGATCTGGGGA
Found at i:26359 original size:129 final size:129
Alignment explanation
Indices: 26166--26545 Score: 663
Period size: 129 Copynumber: 2.9 Consensus size: 129
26156 CGTCTAAAGG
* *
26166 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCTATCTAAAGGTGATAACACGGTTCCTACGTG
1 TGACACGGCTCATACGTGATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
**
26231 ATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGTGGAGATCTGGTCTGGGG-
65 ATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTC-GGGGA
26295 A
129 A
*
26296 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
*
26361 TGAGGACAGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAA
66 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAA
26425 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* *
26490 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCATACGTGATGAAGAGTTCTGG
66 TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGG
26546 CCATCTAAAG
Statistics
Matches: 239, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
128 4 0.02
129 207 0.87
130 28 0.12
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.27
Consensus pattern (129 bp):
TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
TGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGGAA
Found at i:26537 original size:89 final size:89
Alignment explanation
Indices: 26166--26597 Score: 408
Period size: 89 Copynumber: 4.9 Consensus size: 89
26156 CGTCTAAAGG
*
26166 TGACACGGCTCCTACGTGATGAAGAGTTCTTGGCTATCTAAAGGTGATAACACGGTTCCTACGTG
1 TGACACGGCTCCTACGTGATGAAGAGTTC-TGGCCATCTAAAGGTGATAACACGGTTCCTACGTG
26231 ATGAGGACGGCTGGTTATCTATGGT
65 ATGAGGACGGCTGGTTATCTATGGT
** * * * * *
26256 TGACACGGCTCCTACGTGATGTGGAGATCTGG---TCT---GGGGATGACACGGCTCATACGTGA
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* * ** *
26315 TGAAGA-GTTCTGGCCATCTAAAGGT
66 TGAGGACG-GCTGGTTATCT-ATGGT
* * * * *** ** * * *
26340 GATAACATGGTTCCTACGTGATGAGGACAGCTGGTTATCT-ATGGT--TGACACGGCTCCTACGT
1 --TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGT
* * ** *
26402 GATGAAGA-GATCTGG---TC-GGGGAA
64 GATGAGGACG-GCTGGTTATCTATGG-T
*
26425 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
26490 TGAGGACGGCTGGTTATCTATGGT
66 TGAGGACGGCTGGTTATCTATGGT
*
26514 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
26579 TGAGGACGGCTGGTTATCT
66 TGAGGACGGCTGGTTATCT
26598 CTAGGGATAA
Statistics
Matches: 282, Mismatches: 42, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
82 1 0.00
83 61 0.22
84 10 0.04
86 57 0.20
87 1 0.00
89 122 0.43
90 28 0.10
91 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (89 bp):
TGACACGGCTCCTACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
TGAGGACGGCTGGTTATCTATGGT
Found at i:26854 original size:60 final size:62
Alignment explanation
Indices: 26780--26900 Score: 160
Period size: 60 Copynumber: 2.0 Consensus size: 62
26770 CCAAAGCAAC
*
26780 TGTCTCGAAAGAGACAAAA-TTCGTTTCAAAG-GAAACA-ACCCAAAGATTTTTTCACAAAAT
1 TGTCTCGAAAGAGACAAAACTTCGTTTCAAAGTAAAACAGACCCAAAGATTTTTTC-CAAAAT
* * *
26840 TGTCTC-AAGAGAGACAAAACTTTGTTTCAAAGTAAAATAGACTCAAAGATTTTTTCCAAAA
1 TGTCTCGAA-AGAGACAAAACTTCGTTTCAAAGTAAAACAGACCCAAAGATTTTTTCCAAAA
26901 GAAATTGTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
59 2 0.04
60 16 0.30
61 11 0.21
62 9 0.17
63 15 0.28
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (62 bp):
TGTCTCGAAAGAGACAAAACTTCGTTTCAAAGTAAAACAGACCCAAAGATTTTTTCCAAAAT
Found at i:26950 original size:64 final size:59
Alignment explanation
Indices: 26780--26950 Score: 173
Period size: 65 Copynumber: 2.7 Consensus size: 59
26770 CCAAAGCAAC
* * *
26780 TGTCTCGAAAGAGACAAAATTCGTTTCAAAGGAAACA-ACCCAAAGATTTTTTCACAAAAT
1 TGTCTC-AAAGAGACAAAATTTGTTTCAAA-GAAACAGACTCAAAGATTTTTTCAAAAAAT
*
26840 TGTCTCAAGAGAGACAAAACTTTGTTTCAAAGTAAAATAGACTCAAAGATTTTTTCCAAAAGAAA
1 TGTCTCAA-AGAGACAAAA-TTTGTTTCAAAG--AAACAGACTCAAAGATTTTTT-C-AAA-AAA
26905 T
59 T
** *
26906 TGTCTTTAAGAGATAAAATTTTGTTTCAGAAGAAACAGACTCAAA
1 TGTCTCAAAGAGACAAAA-TTTGTTTCA-AAGAAACAGACTCAAA
26951 TGATGGATCT
Statistics
Matches: 93, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
59 2 0.02
60 17 0.18
61 10 0.11
62 4 0.04
63 14 0.15
64 13 0.14
65 20 0.22
66 13 0.14
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (59 bp):
TGTCTCAAAGAGACAAAATTTGTTTCAAAGAAACAGACTCAAAGATTTTTTCAAAAAAT
Found at i:27280 original size:29 final size:30
Alignment explanation
Indices: 27223--27565 Score: 173
Period size: 28 Copynumber: 11.6 Consensus size: 30
27213 AGAGACAAAA
27223 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * *
27253 TTTTGTTTCAAAAGAAACTATCTTAAGAGAAAAAAA
1 TTTTGTTTCAAAAGAAACAAACTCAA-AG-----AT
*
27289 TTTTGTTTCCAAAGAAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
27318 --TT-TTTCAAAAGAAAC-GACTCAAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * *
27344 ATTT-ATTCAAAAGGAACAAACTCCAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* *
27372 TTTT-ATTCAAAAGGAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* *** *
27400 TTTT-TTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAAAAGAAACAAACTC-A-A-AG----AT
* * * * *
27436 CTTTGTTTTAAAATAAATAGACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
27465 -TTT-TTTCAAAAGAAAC-AACTCAAATAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* * * *
27492 ATTT-ATTCAAAAGGAACAAACTCCAAGAT
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
* *
27521 TTTT-ATTCAAAAGGAACAAACTCAAAGA-
1 TTTTGTTTCAAAAGAAACAAACTCAAAGAT
*
27549 TTTT-TTTCAAGAGAAAC
1 TTTTGTTTCAAAAGAAAC
27566 TGTCTCAAGA
Statistics
Matches: 248, Mismatches: 43, Indels: 46
0.74 0.13 0.14
Matches are distributed among these distances:
25 9 0.04
26 20 0.08
27 12 0.05
28 87 0.35
29 44 0.18
30 26 0.10
31 4 0.02
34 2 0.01
35 4 0.02
36 27 0.11
37 13 0.05
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.29
Consensus pattern (30 bp):
TTTTGTTTCAAAAGAAACAAACTCAAAGAT
Found at i:27363 original size:54 final size:56
Alignment explanation
Indices: 27299--27565 Score: 204
Period size: 57 Copynumber: 4.6 Consensus size: 56
27289 TTTTGTTTCC
*
27299 AAAGAAACAAACTCAAAGA-TTT-TTCAAAAGAAAC-GACTCAAAGATATTTATTCA
1 AAAGAAACAAACTCAAAGATTTTATTCAAAAGAAACAAACTCAAAGAT-TTTATTCA
* * * *
27353 AAAGGAACAAACTCCAAGATTTTATTCAAAAGGAACAAACTCAAAGATTTTTTTCA
1 AAAGAAACAAACTCAAAGATTTTATTCAAAAGAAACAAACTCAAAGATTTTATTCA
* *** * * * *
27409 AGAGAAACTGTCTCAAGAGAGACAAAACTTTGT-TTTAAAATAAATAGACTCAAAGATTTT-TTC
1 AAAGAAACAAACTC-A-A-AG-----A-TTT-TATTCAAAAGAAACAAACTCAAAGATTTTATTC
27472 A
56 A
* * *
27473 AAAGAAAC-AACTCAAATATATTTATTCAAAAGGAACAAACTCCAAGATTTTTATTCA
1 AAAGAAACAAACTCAAAGAT-TTTATTCAAAAGAAACAAACTCAAAGA-TTTTATTCA
* * *
27530 AAAGGAACAAACTCAAAGATTTTTTTCAAGAGAAAC
1 AAAGAAACAAACTCAAAGATTTTATTCAAAAGAAAC
27566 TGTCTCAAGA
Statistics
Matches: 164, Mismatches: 31, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
54 19 0.12
55 23 0.14
56 31 0.19
57 34 0.21
58 11 0.07
59 2 0.01
60 1 0.01
61 1 0.01
62 1 0.01
63 3 0.02
64 12 0.07
65 25 0.15
66 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.27
Consensus pattern (56 bp):
AAAGAAACAAACTCAAAGATTTTATTCAAAAGAAACAAACTCAAAGATTTTATTCA
Found at i:27376 original size:28 final size:28
Alignment explanation
Indices: 27299--27565 Score: 202
Period size: 28 Copynumber: 9.3 Consensus size: 28
27289 TTTTGTTTCC
27299 AAAGAAACAAACTCAAAGA-TTT-TTCA
1 AAAGAAACAAACTCAAAGATTTTATTCA
*
27325 AAAGAAAC-GACTCAAAGATATTTATTCA
1 AAAGAAACAAACTCAAAGAT-TTTATTCA
* *
27353 AAAGGAACAAACTCCAAGATTTTATTCA
1 AAAGAAACAAACTCAAAGATTTTATTCA
* *
27381 AAAGGAACAAACTCAAAGATTTTTTTCA
1 AAAGAAACAAACTCAAAGATTTTATTCA
* *** ** *
27409 AGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTTA
1 AAAGAAACAAACTC-A-A-AG-----A-TTTTATTCA
* * *
27446 AAATAAATAGACTCAAAGATTTT-TTCA
1 AAAGAAACAAACTCAAAGATTTTATTCA
*
27473 AAAGAAAC-AACTCAAATATATTTATTCA
1 AAAGAAACAAACTCAAAGAT-TTTATTCA
* *
27501 AAAGGAACAAACTCCAAGATTTTTATTCA
1 AAAGAAACAAACTCAAAGA-TTTTATTCA
* *
27530 AAAGGAACAAACTCAAAGATTTTTTTCA
1 AAAGAAACAAACTCAAAGATTTTATTCA
*
27558 AGAGAAAC
1 AAAGAAAC
27566 TGTCTCAAGA
Statistics
Matches: 193, Mismatches: 31, Indels: 32
0.75 0.12 0.12
Matches are distributed among these distances:
25 9 0.05
26 17 0.09
27 15 0.08
28 82 0.42
29 45 0.23
30 2 0.01
31 2 0.01
34 2 0.01
35 1 0.01
36 2 0.01
37 16 0.08
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.27
Consensus pattern (28 bp):
AAAGAAACAAACTCAAAGATTTTATTCA
Found at i:27381 original size:148 final size:148
Alignment explanation
Indices: 27229--27584 Score: 545
Period size: 148 Copynumber: 2.4 Consensus size: 148
27219 AAAATTTTGT
* * * *
27229 TTCAAAAGAAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAAAAAAATTTTG
1 TTCAAAAGGAACAAACTCAAAGA-TTTT-TTTCAAGAGAAACTGTCTCAAGAGAAAAAAATTTTG
* *
27294 TTTCCAAAGAAACAAACTCAAAGA-TTTTTCAAAAGAAACGACTCAAAGATATTTATTCAAAAGG
64 TTTCAAAAGAAACAAACTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGG
27358 AACAAACTCCAAGA-TTTTA
129 AACAAACTCCAAGATTTTTA
* *
27377 TTCAAAAGGAACAAACTCAAAGATTTTTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGT
1 TTCAAAAGGAACAAACTCAAAGATTTTTTTCAAGAGAAACTGTCTCAAGAGA-AAAAAATTTTGT
* * * * *
27442 TTTAAAATAAATAGACTCAAAGATTTTTTCAAAAGAAACAACTCAAATATATTTATTCAAAAGGA
65 TTCAAAAGAAACAAACTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGA
27507 ACAAACTCCAAGATTTTTA
130 ACAAACTCCAAGATTTTTA
*
27526 TTCAAAAGGAACAAACTCAAAGATTTTTTTCAAGAGAAACTGTCTCAAGAGACAAAAAT
1 TTCAAAAGGAACAAACTCAAAGATTTTTTTCAAGAGAAACTGTCTCAAGAGAAAAAAAT
27585 CGTTTTAAAA
Statistics
Matches: 189, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
146 22 0.12
147 32 0.17
148 78 0.41
149 57 0.30
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.27
Consensus pattern (148 bp):
TTCAAAAGGAACAAACTCAAAGATTTTTTTCAAGAGAAACTGTCTCAAGAGAAAAAAATTTTGTT
TCAAAAGAAACAAACTCAAAGATTTTTTCAAAAGAAACAACTCAAAGATATTTATTCAAAAGGAA
CAAACTCCAAGATTTTTA
Found at i:27886 original size:36 final size:36
Alignment explanation
Indices: 27802--27905 Score: 115
Period size: 36 Copynumber: 3.0 Consensus size: 36
27792 GAGAAAATGA
* * *
27802 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAC
* ** *
27836 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAC
*
27872 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
27906 ACGATCTCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.18
36 28 0.49
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAC
Found at i:27933 original size:36 final size:36
Alignment explanation
Indices: 27803--27921 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
27793 AGAAAATGAT
* * * *
27803 GTCTCAAGCGAGACGAAATTTG-CTTTA-AG-ATAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* **
27836 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 -GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
27873 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
27908 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
27922 TCAACTTTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
34 19 0.28
35 11 0.16
36 37 0.54
37 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:28052 original size:105 final size:104
Alignment explanation
Indices: 27916--28110 Score: 293
Period size: 105 Copynumber: 1.9 Consensus size: 104
27906 ACGATCTCAA
* * *
27916 GTGAGATCAACTTTGTTTAATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAATGTCTCA
1 GTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATATCTCA
27981 AACGAGACGCAATTTGTTTTGAAAGAAACAACAATCTAAG
66 AACGAGACGCAATTTGTTTT-AAAGAAACAACAATCTAAG
* * * *
28021 GTGAGATTAATTTTGTTTTAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAATATCTC
1 GTGAGATCAACTTTG-TTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATATCTC
*
28085 AAGCGAGACGCAATTTGTTTTAAAGA
65 AAACGAGACGCAATTTGTTTTAAAGA
28111 GAAAGTTGTC
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
104 5 0.06
105 71 0.88
106 5 0.06
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (104 bp):
GTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAATATCTCA
AACGAGACGCAATTTGTTTTAAAGAAACAACAATCTAAG
Found at i:28520 original size:4 final size:4
Alignment explanation
Indices: 28511--28585 Score: 136
Period size: 4 Copynumber: 19.2 Consensus size: 4
28501 TTTATGTATC
28511 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
28557 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
28586 CTTTTCTCGA
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.03
4 67 0.97
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:34372 original size:22 final size:22
Alignment explanation
Indices: 34329--34372 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
34319 AAATTTACAT
*
34329 TCACATAAAATAAAATAAATTG
1 TCACATAAAATAAAACAAATTG
* * *
34351 TCACTTAAAATAACACACATTG
1 TCACATAAAATAAAACAAATTG
34373 CATCGTTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (22 bp):
TCACATAAAATAAAACAAATTG
Found at i:36336 original size:3 final size:3
Alignment explanation
Indices: 36328--36364 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
36318 TAATTAAAAC
36328 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
36365 CGATAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:38066 original size:13 final size:13
Alignment explanation
Indices: 38048--38072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38038 AATATATAGC
38048 TTTTGAAAACATT
1 TTTTGAAAACATT
38061 TTTTGAAAACAT
1 TTTTGAAAACAT
38073 ATATTATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTGAAAACATT
Found at i:38075 original size:39 final size:38
Alignment explanation
Indices: 38024--38170 Score: 169
Period size: 39 Copynumber: 3.9 Consensus size: 38
38014 TTTTTAAATA
*
38024 TTTTG-AAA-ATATATAATATATAGCTTTTGAAAACATT
1 TTTTGAAAACATATATAATATATAG-TTTTAAAAACATT
*
38061 TTTTGAAAACATATAT--TATATAGTTTTAAAAATATT
1 TTTTGAAAACATATATAATATATAGTTTTAAAAACATT
* *
38097 TTTTAAAATATATATATAATATATAGTTTTTAAAAACA-T
1 TTTTGAAA-ACATATATAATATATAG-TTTTAAAAACATT
* *
38136 TTTTGAAAAACATATATAGTATATAGTTTTGAAAA
1 TTTTG-AAAACATATATAATATATAGTTTTAAAAA
38171 TTAGTTTTTA
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
36 18 0.19
37 19 0.20
38 11 0.12
39 33 0.35
40 13 0.14
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (38 bp):
TTTTGAAAACATATATAATATATAGTTTTAAAAACATT
Found at i:38137 original size:76 final size:74
Alignment explanation
Indices: 38032--38260 Score: 270
Period size: 76 Copynumber: 3.0 Consensus size: 74
38022 TATTTTGAAA
* *
38032 ATATATAATATATAGCTTTTGAAAACATTTTTTGAAAACATATATTATATAGTTTTAAAAATATT
1 ATATATAATATATAG-TTTTGAAAACA-TTTTTGAAAACATATATTATATAGTTTTAAAATTAGT
38097 TTTTAAAATAT
64 TTTTAAAATAT
*
38108 ATATATAATATATAGTTTTTAAAAACATTTTTGAAAAACATATATAGTATATAGTTTTGAAAATT
1 ATATATAATATATAG-TTTTGAAAACATTTTTG-AAAACATATAT--TATATAGTTTT-AAAATT
38173 AGTTTTTAAAAT-T
61 AGTTTTTAAAATAT
* ** * *
38186 ATATGT--TATATAGTTTTGAAATTAGTTTTT-AAAA-ATCTATTTATATAATTTTAAAATTAGT
1 ATATATAATATATAGTTTTGAAAACA-TTTTTGAAAACATATA-TTATATAGTTTTAAAATTAGT
38247 TTTTAAAATAT
64 TTTTAAAATAT
38258 ATA
1 ATA
38261 GATTCTAGTT
Statistics
Matches: 136, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
71 18 0.13
72 14 0.10
73 4 0.03
74 5 0.04
75 14 0.10
76 48 0.35
78 17 0.12
79 16 0.12
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.47
Consensus pattern (74 bp):
ATATATAATATATAGTTTTGAAAACATTTTTGAAAACATATATTATATAGTTTTAAAATTAGTTT
TTAAAATAT
Found at i:38197 original size:37 final size:37
Alignment explanation
Indices: 38024--38351 Score: 266
Period size: 37 Copynumber: 8.9 Consensus size: 37
38014 TTTTTAAATA
* * * *
38024 TTTTGAAAATATATAATATATAGCTTTTGAAAA-CATT
1 TTTTAAAAATATATATTATATAG-TTTTGAAAATTAGT
* * * *
38061 TTTTGAAAACATATATTATATAGTTTT-AAAAATATT
1 TTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
* **
38097 TTTTAAAATATATATATAATATATAGTTTTTAAAAACA-T
1 TTTTAAAA-ATATATAT--TATATAGTTTTGAAAATTAGT
*
38136 TTTTGAAAAACATATATAGTATATAGTTTTGAAAATTAGT
1 TTTT--AAAA-ATATATATTATATAGTTTTGAAAATTAGT
* *
38176 TTTTAAAATTATATGTTATATAGTTTTG-AAATTAGT
1 TTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
* *
38212 TTTTAAAAATCTAT-TTATATAATTTT-AAAATTAGT
1 TTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
* *
38247 TTTT-AAAATATATA-GATTCTAGTTTTGAAAATTA-T
1 TTTTAAAAATATATATTA-TATAGTTTTGAAAATTAGT
* *
38282 TCTGTTAAAAATATATACTATAT-GATTTTGAAAATTATT
1 T-T-TTAAAAATATATATTATATAG-TTTTGAAAATTAGT
* *
38321 TTTTAAAACATATAT-TGA-ATAGTTTTAAAAA
1 TTTTAAAA-ATATATATTATATAGTTTTGAAAA
38352 AATGTTTTTC
Statistics
Matches: 245, Mismatches: 26, Indels: 41
0.79 0.08 0.13
Matches are distributed among these distances:
34 9 0.04
35 36 0.15
36 52 0.21
37 56 0.23
38 35 0.14
39 35 0.14
40 11 0.04
41 11 0.04
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (37 bp):
TTTTAAAAATATATATTATATAGTTTTGAAAATTAGT
Found at i:38243 original size:35 final size:36
Alignment explanation
Indices: 38024--38351 Score: 235
Period size: 36 Copynumber: 8.9 Consensus size: 36
38014 TTTTTAAATA
* * * *
38024 TTTTGAAAATATATAATATATAGCTTTTGAAAA-CATT
1 TTTTAAAAATATAT-TTATATAG-TTTTGAAAATTAGT
* *
38061 TTTTGAAAACATATA-TTATATAGTTTT-AAAAATATT
1 TTTT-AAAA-ATATATTTATATAGTTTTGAAAATTAGT
* **
38097 TTTTAAAATATATATATAATATATAGTTTTTAAAAACA-T
1 TTTTAAAA-ATATAT-T--TATATAGTTTTGAAAATTAGT
*
38136 TTTTGAAAAACATATATAGTATATAGTTTTGAAAATTAGT
1 TTTT--AAAA-ATATAT-TTATATAGTTTTGAAAATTAGT
*
38176 TTTTAAAATTATATGTTATATAGTTTTG-AAATTAGT
1 TTTTAAAAATATAT-TTATATAGTTTTGAAAATTAGT
* *
38212 TTTTAAAAATCTATTTATATAATTTT-AAAATTAGT
1 TTTTAAAAATATATTTATATAGTTTTGAAAATTAGT
** *
38247 TTTT-AAAATATATAGATTCTAGTTTTGAAAATTA-T
1 TTTTAAAAATATATTTA-TATAGTTTTGAAAATTAGT
* *
38282 TCTGTTAAAAATATATACTATAT-GATTTTGAAAATTATT
1 T-T-TTAAAAATATAT-TTATATAG-TTTTGAAAATTAGT
* *
38321 TTTTAAAACATATATTGA-ATAGTTTTAAAAA
1 TTTTAAAA-ATATATTTATATAGTTTTGAAAA
38352 AATGTTTTTC
Statistics
Matches: 242, Mismatches: 27, Indels: 45
0.77 0.09 0.14
Matches are distributed among these distances:
34 9 0.04
35 45 0.19
36 49 0.20
37 40 0.17
38 37 0.15
39 40 0.17
40 11 0.05
41 11 0.05
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (36 bp):
TTTTAAAAATATATTTATATAGTTTTGAAAATTAGT
Found at i:38382 original size:4 final size:4
Alignment explanation
Indices: 38362--38438 Score: 77
Period size: 4 Copynumber: 18.8 Consensus size: 4
38352 AATGTTTTTC
* *
38362 ATTT ACTT ATCT ATTT ATTT ATTTT ATTT ATTT -TATT ATTT ATTT ATCTT
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT AT-TT ATTT ATTT AT-TT
*
38412 ATTT A-TT ATTT ATTGT TTTT ATTT ATT
1 ATTT ATTT ATTT ATT-T ATTT ATTT ATT
38439 ATTAATTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
3 4 0.07
4 45 0.74
5 12 0.20
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:38401 original size:25 final size:25
Alignment explanation
Indices: 38368--38435 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
38358 TTTCATTTAC
38368 TTATCTATTTATTTATTTTATTTATT
1 TTAT-TATTTATTTATTTTATTTATT
*
38394 TTATTATTTATTTATCTTATTTATT
1 TTATTATTTATTTATTTTATTTATT
* *
38419 AT-TTATTGTTTTTATTT
1 TTATTATT-TATTTATTT
38436 ATTATTAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 5 0.14
25 28 0.76
26 4 0.11
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (25 bp):
TTATTATTTATTTATTTTATTTATT
Found at i:38416 original size:20 final size:20
Alignment explanation
Indices: 38362--38446 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
38352 AATGTTTTTC
*
38362 ATTTA-CTTATCTATTTATTT
1 ATTTATCTTATTTA-TTATTT
38382 ATTTTAT-TTATTTTATTATTT
1 A-TTTATCTTA-TTTATTATTT
38403 ATTTATCTTATTTATTATTT
1 ATTTATCTTATTTATTATTT
* *
38423 ATTGT-TTTTATTTATTATTA
1 ATT-TATCTTATTTATTATTT
38443 ATTT
1 ATTT
38447 CTTTTTCCTT
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
19 1 0.02
20 35 0.61
21 18 0.32
22 3 0.05
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.71
Consensus pattern (20 bp):
ATTTATCTTATTTATTATTT
Found at i:38451 original size:20 final size:19
Alignment explanation
Indices: 38376--38451 Score: 89
Period size: 20 Copynumber: 3.7 Consensus size: 19
38366 ACTTATCTAT
38376 TTATTTATTTTATTTATTTTA
1 TTATTTATTTT-TTTA-TTTA
*
38397 TTATTTATTTATCTTATTTA
1 TTATTTATTT-TTTTATTTA
38417 TTATTTATTGTTTTTATTTA
1 TTATTTATT-TTTTTATTTA
*
38437 TTATTAATTTCTTTT
1 TTATTTATTT-TTTT
38452 TCCTTTTCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
19 1 0.02
20 33 0.67
21 14 0.29
22 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (19 bp):
TTATTTATTTTTTTATTTA
Found at i:39953 original size:5 final size:5
Alignment explanation
Indices: 39943--39990 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
39933 ATTTGTCTTC
* *
39943 ATTTT ATTTT ATTTT ATTTT -TCTTT ATCTT ATCTT A-TTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT ATTTT ATTTT ATTTT ATTT
39991 GTTTGTTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 4 0.11
5 33 0.87
6 1 0.03
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:39960 original size:25 final size:24
Alignment explanation
Indices: 39932--39985 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
39922 ATTTTTATCC
* *
39932 TATTTGTCTTCATTTTATTTTATTT
1 TATTTGTCTTCATCTTATCTTA-TT
* *
39957 TATTTTTCTTTATCTTATCTTATT
1 TATTTGTCTTCATCTTATCTTATT
39981 TATTT
1 TATTT
39986 TATTTGTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 7 0.28
25 18 0.72
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (24 bp):
TATTTGTCTTCATCTTATCTTATT
Found at i:40774 original size:30 final size:30
Alignment explanation
Indices: 40692--40791 Score: 116
Period size: 30 Copynumber: 3.3 Consensus size: 30
40682 ATTTATGTGT
*
40692 TTAAAGTATTTTTT-GGTCAAAATAGATAA
1 TTAAAGTATTTTTTAGGTCAAAATAGGTAA
*
40721 TTAAAGTTATCTTTTTA-GTCAAAATAGGTACC
1 TTAAAG-TAT-TTTTTAGGTCAAAATAGGTA-A
*
40753 TTAAA-TATTTTTTAGGTCAAAATAGGTAG
1 TTAAAGTATTTTTTAGGTCAAAATAGGTAA
*
40782 TTAAAATATT
1 TTAAAGTATT
40792 CAATTCTTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
29 17 0.27
30 23 0.37
31 17 0.27
32 5 0.08
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (30 bp):
TTAAAGTATTTTTTAGGTCAAAATAGGTAA
Found at i:40918 original size:28 final size:29
Alignment explanation
Indices: 40887--40941 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
40877 ATAGTTTATG
* *
40887 TACCTGTTTTGACATAAAAT-ACTTTAGA
1 TACCTATTTTGACAAAAAATAACTTTAGA
40915 TACCTATTTTGACAAAAAATAACTTTA
1 TACCTATTTTGACAAAAAATAACTTTA
40942 ATTATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (29 bp):
TACCTATTTTGACAAAAAATAACTTTAGA
Found at i:42878 original size:16 final size:18
Alignment explanation
Indices: 42838--42878 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
42828 TTAGATTTTT
42838 AAAAATATATATATATTA
1 AAAAATATATATATATTA
* *
42856 AATAATAT-TTTAT-TTA
1 AAAAATATATATATATTA
42872 AAAAATA
1 AAAAATA
42879 AACGTGACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 9 0.45
17 4 0.20
18 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAATATATATATATTA
Found at i:53122 original size:20 final size:20
Alignment explanation
Indices: 53097--53137 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
53087 GGTGTCATTG
53097 CTCTAATAGTTAAGACAACC
1 CTCTAATAGTTAAGACAACC
53117 CTCTAATAGTTAAGACAACC
1 CTCTAATAGTTAAGACAACC
53137 C
1 C
53138 ACTTAAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (20 bp):
CTCTAATAGTTAAGACAACC
Found at i:55500 original size:55 final size:54
Alignment explanation
Indices: 55417--55603 Score: 225
Period size: 55 Copynumber: 3.4 Consensus size: 54
55407 CCTCCTTTTG
* * *
55417 GAGTAT-AGAACTCGAAC-ATCTTCAACAATCATGTCTATTTTCTATTCCTTCAGA
1 GAGTATGAG-ACTCGAACAATCTTCAACAATCGTGTCT-TTCTCTATTTCTTCAGA
* * * * * *
55471 GAGTATAAGACTTGAACAATCTTCAACAATTGTGTCTGCTCCCTATTTCTTCAAA
1 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCT-TTCTCTATTTCTTCAGA
* *
55526 GAGTATGAGACTCGAACAATCTTCAATAATCGTGTCTTCTCTCTATTTCTTTAGA
1 GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTT-TCTCTATTTCTTCAGA
55581 GAGTATGAGACTCGAACAATCTT
1 GAGTATGAGACTCGAACAATCTT
55604 TTGGAAATGG
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
54 13 0.12
55 100 0.88
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (54 bp):
GAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTTTCTCTATTTCTTCAGA
Found at i:55622 original size:110 final size:110
Alignment explanation
Indices: 55417--55659 Score: 287
Period size: 110 Copynumber: 2.2 Consensus size: 110
55407 CCTCCTTTTG
*
55417 GAGTATAGAACTCGAAC-ATCTTCAACAATCATGTCTATTTTCTATTCCTTCAGAGAGTATAAGA
1 GAGTATAGAACTCGAACAATCTTCAACAATCATGTCTATTCTCTATTCCTTCAGAGAGTATAAGA
* * *
55481 CTTGAACAATCTTCAACAATTGTGTCTGCTCCCTATTTCTTCAAA
66 CTCGAACAATCTTCAACAAATGGGTCTGCTCCCTATTTCTTCAAA
* * * * *
55526 GAGTAT-GAGACTCGAACAATCTTCAATAATCGTGTCT-TCTCTCTATTTCTTTAGAGAGTATGA
1 GAGTATAGA-ACTCGAACAATCTTCAACAATCATGTCTAT-TCTCTATTCCTTCAGAGAGTATAA
**** * **
55589 GACTCGAACAATCTTTTGGAAATGGGT-TCGCTCCCTCTTTCTTCAGG
64 GACTCGAACAATCTTCAACAAATGGGTCT-GCTCCCTATTTCTTCAAA
55636 GAGTATAGAACTCGAACAATCTTC
1 GAGTATAGAACTCGAACAATCTTC
55660 TGAAAATGGG
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
108 2 0.02
109 16 0.14
110 93 0.82
111 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (110 bp):
GAGTATAGAACTCGAACAATCTTCAACAATCATGTCTATTCTCTATTCCTTCAGAGAGTATAAGA
CTCGAACAATCTTCAACAAATGGGTCTGCTCCCTATTTCTTCAAA
Found at i:55899 original size:54 final size:52
Alignment explanation
Indices: 55571--56799 Score: 1157
Period size: 51 Copynumber: 23.6 Consensus size: 52
55561 CTTCTCTCTA
* * * *
55571 TTTCTTTAGAGAGTAT-GAGACTCGAACAATCTTTTGGAAATGGGTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAGA-ACTCGAAC-ATC-TTT-CAAACGGGTTCGCTCCCTC
* * *
55626 TTTCT-TCAGGGAGTATAGAACTCGAACAATCTTCTGAAAATGGGTTCGCTACCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAAC-ATCTT-T-CAAACGGGTTCGCTCCCTC
* * *
55681 TTT-TTTCAGGGAGTATAGAACTCGAAAATCTTT-AAACGGGTTCGCTACCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* *
55732 TTT-TTTCAGGGAGTATAGAACTCGAAAATCTTT-AAACGGGTTCGCTCCCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* * * *
55783 TTTAT-TCAAGGAGTATAGAACTCGAAAATC-TTCAAACGGGTTCGCTCCTTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* * *
55834 TTTCT-TCAGGGAGTATAGAACTCGAAAATCTTTAACAAACAGGTTCGGTCCCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACATCTTT--CAAACGGGTTCGCTCCCTC
* *
55888 TTTCTCTAGGGAGTATAGAACTCGAACATTTTCTTCAAACTGGTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGAACA-TCT-TTCAAACGGGTTCGCTCCCTC
* *
55942 TTTCCCTAGGGAGTATGGAACTC-AGACA----T----CGGGTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGA-ACATCTTTCAAACGGGTTCGCTCCCTC
* * * * *
55986 TTTCT-TCAGGAAGTATAGAACTCGAATAAC-TTCACACGGGTTCTCTCCCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* *
56037 TTTCTCTAGGGAGTAT-GAACTCGAATAAC-TTCAAACGGGTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* *
56087 TTTCTCTAAGGAGTAT-GAAACTCGAACATC-TTCAAACGAGTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAG-AACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* * * *
56138 TTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCAAACGAGTTCACTTCCTC
1 TTTCTCTAGGGAGTATAGAACTCGAACATC-T-TTCAAACGGGTTCGCTCCCTC
* * * * *
56192 TTTCT-TCAGGAAGTATAGAACTCGTACATCTTCTTCAAACGAGTTTGTTCCCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACATC-T-TTCAAACGGGTTCGCTCCCTC
* * *
56246 TTTCTATAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGTTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGAACATC-T-TTCAAACGGGTTCGCTCCCTC
* * * * *
56300 TTTCT-TCAGGAAGTATAGAACTTC-AATAAC-TTCACATGGGTTCGCTCCCTC
1 TTTCTCT-AGGGAGTATAGAAC-TCGAACATCTTTCAAACGGGTTCGCTCCCTC
* * *
56351 TTTCTCTAGGGAGTATGGAACTCGGACAT-TTTCAAACGGGTTCGCTCCCTT
1 TTTCTCTAGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
*
56402 TTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGAACATC-T-TTCAAACGGGTTCGCTCCCTC
* * *
56456 TTTCT-TCAGGAAGTATAGAACTCGGACATATTCTTCAAACGGGTTCGCTCCCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACAT-CT-TTCAAACGGGTTCGCTCCCTC
* * * * *
56510 TTTCT-TCAGGAAGTATAGAACTCCAATAAC-TTCACACGGGTTCGCTCCCTC
1 TTTCTCT-AGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* *
56561 TTTCTCTATGGAGTATGGAACTC-AGACATC-TTCAAACGGGTTCGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGA-ACATCTTTCAAACGGGTTCGCTCCCTC
*
56612 TTTCTCTAGGGAGTATAGAACTC-AGACATCTTCTTCAAACGGGTTTGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGA-ACATC-T-TTCAAACGGGTTCGCTCCCTC
* * * * * * * *
56666 TTTCTTTAGGAAGTATAGAACTCCAATAAC-TTCACATGGGTTTGCTCCCTC
1 TTTCTCTAGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
* * * *
56717 TTTCTCTAGGGAGTATGGAACTCGGACATC-TTCAAACGGGTTCACTCACTC
1 TTTCTCTAGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
56768 TTTCTCTAGGGAGTAT-GAAACTCGAACATCTT
1 TTTCTCTAGGGAGTATAG-AACTCGAACATCTT
56800 CTTCCGCTTC
Statistics
Matches: 1023, Mismatches: 103, Indels: 99
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.00
44 34 0.03
45 1 0.00
47 1 0.00
48 1 0.00
50 54 0.05
51 480 0.47
52 8 0.01
53 6 0.01
54 358 0.35
55 75 0.07
56 4 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (52 bp):
TTTCTCTAGGGAGTATAGAACTCGAACATCTTTCAAACGGGTTCGCTCCCTC
Found at i:56747 original size:156 final size:156
Alignment explanation
Indices: 55612--56803 Score: 1220
Period size: 156 Copynumber: 7.6 Consensus size: 156
55602 TTTTGGAAAT
* *
55612 GGGTTCGCTCCCTCTTTCT-TCAGGGAGTATAGAACTCGAACAATCTTCTGAAAATGGGTTCGCT
1 GGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAAC-ATCTTC---AAACGGGTTCGCT
* * * *
55676 ACCTCTTTTTTCAGGGAGTATAGAACTCGAAAATC-T-TT-AAACGGGTTCGCTACCTCTTT-TT
61 CCCTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTT
* *
55737 TCAGGGAGTATAGAACTCGAA-AATCTTTAAAC
126 T-AGGGAGTATAGAACTCCAATAA-CTTCAAAC
* * * * *
55769 GGGTTCGCTCCCTCTTTAT-TCAAGGAGTATAGAACTCGAAAATCTTCAAACGGGTTCGCTCCTT
1 GGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCT
* * * * *
55833 CTTTCTTCAGGGAGTATAGAACTCGAAAATCTT-TAACAAACAGGTTCGGTCCCTCTTTCTCTAG
65 CTTTCTTCAGGGAGTATAGAACTCGAACATCTTCT-TCAAACGGGTTCGCTCCCTCTTTCTTTAG
* **
55897 GGAGTATAGAACTCGAACATTTTCTTCAAAC
129 GGAGTATAGAACTC---CAATAACTTCAAAC
* *
55928 TGGTTCGCTCCCTCTTTCCCTAGGGAGTATGGAACTC-AGACA---T----CGGGTTCGCTCCCT
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACATCTTCAAACGGGTTCGCTCCCT
* ** * * *
55985 CTTTCTTCAGGAAGTATAGAACTCG-A-AT-AACTTCACACGGGTTCTCTCCCTCTTTCTCTAGG
65 CTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGG
*
56047 GAGTAT-GAACTCGAATAACTTCAAAC
130 GAGTATAGAACTCCAATAACTTCAAAC
* * *
56073 GGGTTCGCTCCCTCTTTCTCTAAGGAGTATGAAACTCGAACATCTTCAAACGAGTTCGCTCCCTC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTC
* * * * *
56138 TTTC-TCTAGGGAGTATGGAACTCGAACATCTTCTTCAAACGAGTTCACTTCCTCTTTCTTCAGG
66 TTTCTTC-AGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGG
* * **
56202 AAGTATAGAACTCGTACATCTTCTTCAAAC
130 GAGTATAGAACTC-CA-AT-AACTTCAAAC
* * * * * * *
56232 GAGTTTGTTCCCTCTTTCTATAGGGAGTATAGAACTCGGACATCTTCTTCAAACGGTTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-GA-A-CATCTTCAAACGGGTTCGCTCC
* ** * * *
56297 CTCTTTCTTCAGGAAGTATAGAACTTC--A-AT-AACTTCACATGGGTTCGCTCCCTCTTTCTCT
63 CTCTTTCTTCAGGGAGTATAGAAC-TCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTT
* ** * **
56358 AGGGAGTATGGAACTCGGACATTTTCAAAC
127 AGGGAGTATAGAACTCCAATAACTTCAAAC
*
56388 GGGTTCGCTCCCTTTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCAAACGGGTTCGCTCC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACA---TCTTCAAACGGGTTCGCTCC
* * * *
56453 CTCTTTCTTCAGGAAGTATAGAACTCGGACATATTCTTCAAACGGGTTCGCTCCCTCTTTCTTCA
63 CTCTTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTA
* *
56518 GGAAGTATAGAACTCCAATAACTTCACAC
128 GGGAGTATAGAACTCCAATAACTTCAAAC
*
56547 GGGTTCGCTCCCTCTTTCTCTATGGAGTATGGAACTC-AGACATCTTCAAACGGGTTCGCTCCCT
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGA-ACATCTTCAAACGGGTTCGCTCCCT
*
56611 CTTTC-TCTAGGGAGTATAGAACTC-AGACATCTTCTTCAAACGGGTTTGCTCCCTCTTTCTTTA
65 CTTTCTTC-AGGGAGTATAGAACTCGA-ACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTA
* * *
56674 GGAAGTATAGAACTCCAATAACTTCACAT
128 GGGAGTATAGAACTCCAATAACTTCAAAC
* * * *
56703 GGGTTTGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTCAAACGGGTTCACTCACTC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTC
56768 TTTC-TCTAGGGAGTAT-GAAACTCGAACATCTTCTTC
66 TTTCTTC-AGGGAGTATAG-AACTCGAACATCTTCTTC
56804 CGCTTCACTA
Statistics
Matches: 872, Mismatches: 118, Indels: 91
0.81 0.11 0.08
Matches are distributed among these distances:
145 46 0.05
146 1 0.00
148 7 0.01
149 31 0.04
150 3 0.00
151 3 0.00
152 70 0.08
153 46 0.05
154 5 0.01
155 38 0.04
156 324 0.37
157 44 0.05
158 6 0.01
159 199 0.23
160 5 0.01
161 2 0.00
162 38 0.04
163 4 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (156 bp):
GGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTC
TTTCTTCAGGGAGTATAGAACTCGAACATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGG
AGTATAGAACTCCAATAACTTCAAAC
Found at i:58110 original size:15 final size:15
Alignment explanation
Indices: 58090--58123 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
58080 TGAACCCTTA
58090 TTTTCTTTCTTCTTT
1 TTTTCTTTCTTCTTT
* *
58105 TTTTCTTTTTTGTTT
1 TTTTCTTTCTTCTTT
58120 TTTT
1 TTTT
58124 TGTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTCTTTCTTCTTT
Found at i:58112 original size:8 final size:8
Alignment explanation
Indices: 58090--58148 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
58080 TGAACCCTTA
58090 TTTTC-TT
1 TTTTCTTT
*
58097 TCTTCTTT
1 TTTTCTTT
58105 TTTTCTTT
1 TTTTCTTT
58113 TTTGT-TTT
1 TTT-TCTTT
*
58121 TTTTGTTT
1 TTTTCTTT
*
58129 TTTT-TGT
1 TTTTCTTT
58136 TTTTCATTT
1 TTTTC-TTT
58145 TTTT
1 TTTT
58149 ATCTTCAGGC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
7 11 0.26
8 25 0.58
9 7 0.16
ACGTcount: A:0.02, C:0.08, G:0.05, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:58122 original size:9 final size:9
Alignment explanation
Indices: 58110--58139 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
58100 TCTTTTTTTC
58110 TTTTTTGTT
1 TTTTTTGTT
58119 TTTTTTGTT
1 TTTTTTGTT
58128 TTTTTTGTT
1 TTTTTTGTT
58137 TTT
1 TTT
58140 CATTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:58123 original size:16 final size:15
Alignment explanation
Indices: 58090--58148 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 15
58080 TGAACCCTTA
* *
58090 TTTTCTTTCTTCTTT
1 TTTTCTTTTTTTTTT
58105 TTTTCTTTTTTGTTTT
1 TTTTCTTTTTT-TTTT
* *
58121 TTTTGTTTTTTTTGT
1 TTTTCTTTTTTTTTT
58136 TTTTCATTTTTTT
1 TTTTC-TTTTTTT
58149 ATCTTCAGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 17 0.46
16 20 0.54
ACGTcount: A:0.02, C:0.08, G:0.05, T:0.85
Consensus pattern (15 bp):
TTTTCTTTTTTTTTT
Found at i:63320 original size:46 final size:45
Alignment explanation
Indices: 63226--63320 Score: 109
Period size: 46 Copynumber: 2.0 Consensus size: 45
63216 TGTTATTTAC
* * * *
63226 AAATAATCCTAACCGCATGATATCTAATTCGCATGCTTGTTCGAAA
1 AAATAAACCTAACCACATGATATCTAATTCGCATACTTATTC-AAA
* *
63272 AAATAAACCTAACCACATGATTTCTAGTTCGCATACATTTATTCAAA
1 AAATAAACCTAACCACATGATATCTAATTCGCATAC--TTATTCAAA
63319 AA
1 AA
63321 GCGAAAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
46 31 0.76
47 5 0.12
48 5 0.12
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (45 bp):
AAATAAACCTAACCACATGATATCTAATTCGCATACTTATTCAAA
Found at i:75393 original size:37 final size:37
Alignment explanation
Indices: 75281--75373 Score: 186
Period size: 37 Copynumber: 2.5 Consensus size: 37
75271 CTAGAACTTC
75281 ATGATTAAAGCAAGGTATGTACGTACTAGGGTAATTT
1 ATGATTAAAGCAAGGTATGTACGTACTAGGGTAATTT
75318 ATGATTAAAGCAAGGTATGTACGTACTAGGGTAATTT
1 ATGATTAAAGCAAGGTATGTACGTACTAGGGTAATTT
75355 ATGATTAAAGCAAGGTATG
1 ATGATTAAAGCAAGGTATG
75374 CGTGTACTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.31
Consensus pattern (37 bp):
ATGATTAAAGCAAGGTATGTACGTACTAGGGTAATTT
Found at i:81802 original size:18 final size:18
Alignment explanation
Indices: 81779--81837 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
81769 TCACAACCTA
81779 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTTGACCCG
* *
81797 ACCCGACCCATTGATCCG
1 ACCCGACCCGTTGACCCG
* *
81815 ACCCGATCCGATGACCCG
1 ACCCGACCCGTTGACCCG
81833 ACCCG
1 ACCCG
81838 TTGACCGTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:84374 original size:12 final size:12
Alignment explanation
Indices: 84354--84423 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
84344 ATGATATGAC
*
84354 CTGAATTCTGTT
1 CTGATTTCTGTT
*
84366 CTGATTTCTGAT
1 CTGATTTCTGTT
84378 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
84390 ATGATATCTGTT
1 CTGATTTCTGTT
*
84402 CTGAATTCTGTT
1 CTGATTTCTGTT
*
84414 TTGATTTCTG
1 CTGATTTCTG
84424 ATATCTTCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:84387 original size:24 final size:24
Alignment explanation
Indices: 84333--84425 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
84323 ATTTCCGAAT
* *
84333 TGAATTCTGTTATGA--TATGACC
1 TGAATTCTGTTATGATTTCTGATC
*
84355 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTATGATTTCTGATC
* * *
84379 TGGATTCTGTTATGATATCTGTTC
1 TGAATTCTGTTATGATTTCTGATC
*
84403 TGAATTCTGTTTTGATTTCTGAT
1 TGAATTCTGTTATGATTTCTGAT
84426 ATCTTCGTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.24
24 44 0.76
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTATGATTTCTGATC
Found at i:84419 original size:48 final size:46
Alignment explanation
Indices: 84336--84425 Score: 135
Period size: 48 Copynumber: 1.9 Consensus size: 46
84326 TCCGAATTGA
84336 ATTCTGTTATGATATGACCTGAATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTATGATATGACCTGAATTCTGTTCTGATTTCTGATCTGG
** *
84382 ATTCTGTTATGATATCTGTTCTGAATTCTGTTTTGATTTCTGAT
1 ATTCTGTTATGATA--TGACCTGAATTCTGTTCTGATTTCTGAT
84426 ATCTTCGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
46 14 0.36
48 25 0.64
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.50
Consensus pattern (46 bp):
ATTCTGTTATGATATGACCTGAATTCTGTTCTGATTTCTGATCTGG
Found at i:86475 original size:30 final size:31
Alignment explanation
Indices: 86418--86486 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
86408 AAGGAAAAAG
86418 TGACCGGTTTGACCGGTTTTGGGAACTGTTT
1 TGACCGGTTTGACCGGTTTTGGGAACTGTTT
* *
86449 TGACTGGTTTGATCGGTTTT-GGAACTGTTT
1 TGACCGGTTTGACCGGTTTTGGGAACTGTTT
86479 TGACCGGT
1 TGACCGGT
86487 CACAACCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.13, C:0.14, G:0.32, T:0.41
Consensus pattern (31 bp):
TGACCGGTTTGACCGGTTTTGGGAACTGTTT
Found at i:86518 original size:18 final size:18
Alignment explanation
Indices: 86495--86529 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
86485 GTCACAACCT
86495 GACCCGATCCGTTGACCC
1 GACCCGATCCGTTGACCC
*
86513 GACCCGATTCGTTGACC
1 GACCCGATCCGTTGACC
86530 ATTGACCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (18 bp):
GACCCGATCCGTTGACCC
Found at i:89036 original size:24 final size:23
Alignment explanation
Indices: 89007--89062 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
88997 AAATATTTTA
*
89007 TCTGATTTTCGACTTGAATTCTT-T
1 TCTGATTTT-GACCTGAATT-TTGT
*
89031 TCTGATATATGACCTGAATTTTGT
1 TCTGAT-TTTGACCTGAATTTTGT
89055 TCTGATTT
1 TCTGATTT
89063 CTGATCTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.20, C:0.14, G:0.14, T:0.52
Consensus pattern (23 bp):
TCTGATTTTGACCTGAATTTTGT
Found at i:89079 original size:24 final size:24
Alignment explanation
Indices: 89021--89100 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
89011 ATTTTCGACT
* * *
89021 TGAATTCTTTTCTGATATATGACC
1 TGAATTCTGTTCTGATATCTGATC
* *
89045 TGAATTTTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATATCTGATC
* * *
89069 TGGATTCTGTTATGATATCTGTTC
1 TGAATTCTGTTCTGATATCTGATC
89093 TGAATTCT
1 TGAATTCT
89101 ATTTTGATTT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (24 bp):
TGAATTCTGTTCTGATATCTGATC
Found at i:96787 original size:2 final size:2
Alignment explanation
Indices: 96780--96811 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
96770 ATGATTCTCT
96780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96812 ACATAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:97592 original size:18 final size:20
Alignment explanation
Indices: 97561--97598 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
97551 TTAGTTAGCG
97561 AAAATAATATTTTCA-GTAA
1 AAAATAATATTTTCATGTAA
97580 AAAATAATA-TTTCATGTAA
1 AAAATAATATTTTCATGTAA
97599 CACTTTACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
AAAATAATATTTTCATGTAA
Found at i:98872 original size:22 final size:22
Alignment explanation
Indices: 98849--98890 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
98839 AATGAATTCA
98849 AAACATCTTAAAAA-TACGACC
1 AAACATCTTAAAAATTACGACC
*
98870 AAATATCTTAAAAATTACGAC
1 AAACATCTTAAAAATTACGAC
98891 ATGAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.52, C:0.19, G:0.05, T:0.24
Consensus pattern (22 bp):
AAACATCTTAAAAATTACGACC
Found at i:99211 original size:2 final size:2
Alignment explanation
Indices: 99198--99236 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
99188 TTCATACCAA
99198 AT AT ACT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99237 TCAAATGAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:101079 original size:20 final size:20
Alignment explanation
Indices: 101054--101100 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
101044 GGCCGTTTAT
101054 AGCCGTTAGGAGTTATTTGG
1 AGCCGTTAGGAGTTATTTGG
101074 AGCCGTTAGGAGTTATTTGG
1 AGCCGTTAGGAGTTATTTGG
101094 AGCCGTT
1 AGCCGTT
101101 TGGGGATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.19, C:0.13, G:0.34, T:0.34
Consensus pattern (20 bp):
AGCCGTTAGGAGTTATTTGG
Found at i:101251 original size:20 final size:21
Alignment explanation
Indices: 101221--101260 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
101211 AGCAGTTGGG
101221 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
101242 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
101261 CTATACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:101443 original size:20 final size:20
Alignment explanation
Indices: 101420--101470 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
101410 TGTTCATGAG
*
101420 GTATCGATATTGTTCTTACA
1 GTATCGATACTGTTCTTACA
101440 GTATCGATACTGTTCTTACA
1 GTATCGATACTGTTCTTACA
*
101460 GTATCCATACT
1 GTATCGATACT
101471 TCTTGTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACTGTTCTTACA
Found at i:105034 original size:3 final size:3
Alignment explanation
Indices: 105019--105085 Score: 118
Period size: 3 Copynumber: 22.7 Consensus size: 3
105009 TAAATAGTAT
*
105019 TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
105066 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
105086 TCCCGGATAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
2 2 0.03
3 59 0.97
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:105348 original size:36 final size:37
Alignment explanation
Indices: 105253--105402 Score: 230
Period size: 37 Copynumber: 4.1 Consensus size: 37
105243 ATCAGACTCG
* * **
105253 AGATTGATTTGCTTCACCACTCTTCCATGAAGGCTTA
1 AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
*
105290 AGATGGATTTACTTCACTACTCTTCGGTGAAGGCTTA
1 AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
* *
105327 AAATGGA-TTGCTTCACTACTCTTTGGTGAAGGCTTA
1 AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
105363 AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
1 AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
105400 AGA
1 AGA
105403 CGGCCCGAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
36 33 0.32
37 69 0.68
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (37 bp):
AGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTA
Found at i:105380 original size:73 final size:73
Alignment explanation
Indices: 105261--105400 Score: 235
Period size: 73 Copynumber: 1.9 Consensus size: 73
105251 CGAGATTGAT
105261 TTGCTTCACCACTCTTCCATGAAGGCTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTT
1 TTGCTTCACCACTCTTCCATGAAGGCTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTT
105326 AAAATGGA
66 AAAATGGA
* *** *
105334 TTGCTTCACTACTCTTTGGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTT
1 TTGCTTCACCACTCTTCCATGAAGGCTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTT
105399 AA
66 AA
105401 GACGGCCCGA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (73 bp):
TTGCTTCACCACTCTTCCATGAAGGCTTAAGATGGATTTACTTCACTACTCTTCGGTGAAGGCTT
AAAATGGA
Found at i:105465 original size:42 final size:42
Alignment explanation
Indices: 105418--105529 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
105408 CGAAGGAATT
*
105418 ATCATCTTGCTCAAAACG-CTTA-TAGATGACCCAAATGATTTA
1 ATCATCATGCTCAAAA-GACTTACT-GATGACCCAAATGATTTA
* * * *
105460 ATCATCATGCTCGAAAGACTTACTGATGTCCCGAATGATTTC
1 ATCATCATGCTCAAAAGACTTACTGATGACCCAAATGATTTA
105502 ATCATCATGCTCGAAAA-ACTTACTGATG
1 ATCATCATGCTC-AAAAGACTTACTGATG
105530 GATTTGCTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 56 0.92
43 4 0.07
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
ATCATCATGCTCAAAAGACTTACTGATGACCCAAATGATTTA
Found at i:106007 original size:41 final size:41
Alignment explanation
Indices: 105962--106062 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
105952 AGGTCTTATG
* *
105962 GATGGCCCAAAGGACTTATCAT-ATTGCTCAAAAGGCTTACA
1 GATGGCCCAAAGGACTTAGCATCA-TGCTCAAAAGACTTACA
* * * **
106003 GATGGCCCGAAGGATTTAAGCATCATGTTCAAAAGACTTATT
1 GATGGCCCAAAGGACTT-AGCATCATGCTCAAAAGACTTACA
*
106045 GATCGCCCAAAGGACTTA
1 GATGGCCCAAAGGACTTA
106063 CTAAGTGTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
41 16 0.33
42 31 0.65
43 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
GATGGCCCAAAGGACTTAGCATCATGCTCAAAAGACTTACA
Found at i:106397 original size:215 final size:215
Alignment explanation
Indices: 105557--106491 Score: 1016
Period size: 215 Copynumber: 4.3 Consensus size: 215
105547 TTTCGTGAAG
* * * *
105557 TTACAAATTACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGACCGAAGGACTTA
1 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
* * * * * * *
105622 CTAAGTGCGAAAATTTAGAAA-TCACCTTTTTAGTTTTCAAATATTT-GATTTTCTTAAAATATC
66 CTAAGTGTGAAATTTTGGAAATTCA--TTCTTAGTTTTCAAAAATTTCG-TCTTCTTAAAACATC
** * * * **
105685 GCTTTCTCATTTTTCAACTT-ATTGTGAAAACATCCTACCTGAAGGTCTTATGAATGGCTAGAAG
128 ATTTTCTCA-TTTTCAAATTCCTTGTGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAG
* * *
105749 GACTTATCACCTTGCTCGAAAGGT
192 GACTTATCATCTTGCTCAAAAGGC
* * *
105773 TTACAGATGACCCGAAGGGTTTAAACATCATGCTCGAAAGACTTACTAATGGCCCGAAGGACTTA
1 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
* * * * * * *
105838 CCAATTTTGGAAATAATTTACTAGGTAAGAAATCTTTCTTACTTTTC--AAATCTTCAG-ATT-T
66 CTAAGTGT-G--A-AATTT--T-GG--A-AATTCATTCTTAGTTTTCAAAAAT-TTC-GTCTTCT
* * * * * **
105899 TAATGAGAAATC--TTTCTCTTTTTTCGATAA--ACTTGTGAAAACATCATGCCCAAAGGTCTTA
119 TAA--A-ACATCATTTTCTC-ATTTTC-A-AATTCCTTGTGAAAACATCCTACCTGAAGGTCTTA
* *
105960 TGGATGGCCCAAAGGACTTATCATATTGCTCAAAAGGC
178 TGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGGC
* * * * * *
105998 TTACAGATGGCCCGAAGGATTTAAGCATCATGTTCAAAAGACTTATTGATCGCCCAAAGGACTTA
1 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
* * * *
106063 CTAAGTGTGAAATTTTGGAAATTTATTCATAGTTTTCAAAATTTTCATCTTCTTAAAACATCATT
66 CTAAGTGTGAAATTTTGGAAATTCATTCTTAGTTTTCAAAAATTTCGTCTTCTTAAAACATCATT
*
106128 TTCTCATTTTCAAATTCCTT-TGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAATGACT
131 TTCTCATTTTCAAATTCCTTGTGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGGACT
*
106192 TATCATCTTGCTCAAAAGTC
196 TATCATCTTGCTCAAAAGGC
* * * *
106212 TTACAGATGACCCTAAAGATTTAATCATCATGCTCGAATGACTTACTGATGGCCCGAAGGACTTA
1 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
106277 CTAAGTGTGAAATTTTGGAAATTGCATTCTTAGTTTTCAAAAATTTCGTC-TCTTTAAAACATCA
66 CTAAGTGTGAAATTTTGGAAATT-CATTCTTAGTTTTCAAAAATTTCGTCTTC-TTAAAACATCA
106341 TTTTCTCATTTTCAAATTCCTT-TGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGGA
129 TTTTCTCATTTTCAAATTCCTTGTGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGGA
*
106405 CTTTTCATCTTGCTCAAAAGGC
194 CTTATCATCTTGCTCAAAAGGC
* * *
106427 TTACAGATGACCCTAAGGATTTAAGCATCATACTCGAAAGACTAACTGATGGCCCGAAGGACTTA
1 TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
106492 TAAATTTTGG
Statistics
Matches: 602, Mismatches: 86, Indels: 63
0.80 0.11 0.08
Matches are distributed among these distances:
213 2 0.00
214 141 0.23
215 198 0.33
216 75 0.12
217 8 0.01
218 2 0.00
219 2 0.00
220 4 0.01
221 5 0.01
222 2 0.00
223 8 0.01
224 16 0.03
225 129 0.21
226 8 0.01
227 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (215 bp):
TTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA
CTAAGTGTGAAATTTTGGAAATTCATTCTTAGTTTTCAAAAATTTCGTCTTCTTAAAACATCATT
TTCTCATTTTCAAATTCCTTGTGAAAACATCCTACCTGAAGGTCTTATGGATGGCCCGAAGGACT
TATCATCTTGCTCAAAAGGC
Found at i:107884 original size:125 final size:125
Alignment explanation
Indices: 107660--108046 Score: 569
Period size: 125 Copynumber: 3.1 Consensus size: 125
107650 ACATTCACTA
* * * *
107660 GTGCCACAACATTATCTTATATTGGTACGAGCCTTCAAAATGCCCCAACACCTCAAATTGTAAGG
1 GTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
* * * * *
107725 CTCATTCTCAATGCCTTCTTGTTCTGAATCTTGTCATATCAACATGATATGGGTTCAATC
66 CTCATTCTTAATGCCTCCTTGGTCTGAATTTTGTCATCTCAACATGATATGGGTTCAATC
*
107785 GTGCCCCAATATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
1 GTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
* * * *
107850 CTCATTCTTTATGCCTCCTTGGTCTGAATTTTGTCATCTCAACATGATGTGGGCTCAGTC
66 CTCATTCTTAATGCCTCCTTGGTCTGAATTTTGTCATCTCAACATGATATGGGTTCAATC
* * *
107910 GTGCCCCAACATTGTCTTATACTGGTACGGGCCTTTAAAATGCCCCATCACCCCAAATTGTAAGG
1 GTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
* * *
107975 CTCATTCTTCATGCCTCCTTGGTCTGAATATTT-TCATCTCAACATGATATGGGTTCAGTT
66 CTCATTCTTAATGCCTCCTTGGTCTGAAT-TTTGTCATCTCAACATGATATGGGTTCAATC
*
108035 GTGCTCCAACAT
1 GTGCCCCAACAT
108047 ATCCTAACTT
Statistics
Matches: 238, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 235 0.99
126 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (125 bp):
GTGCCCCAACATTATCTTATACTGGTACGGGCCTTCAAAATGCCCCATCACCTCAAATTGTAAGG
CTCATTCTTAATGCCTCCTTGGTCTGAATTTTGTCATCTCAACATGATATGGGTTCAATC
Found at i:109190 original size:2 final size:2
Alignment explanation
Indices: 109174--109231 Score: 100
Period size: 2 Copynumber: 29.5 Consensus size: 2
109164 AGTTTTATTG
*
109174 TA TA CA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109215 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
109232 TGTTGGATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:117227 original size:3 final size:3
Alignment explanation
Indices: 117203--117270 Score: 109
Period size: 3 Copynumber: 22.3 Consensus size: 3
117193 GGAGCTACAA
* *
117203 AAT AAA AAT AAAT AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
117249 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
117271 TCCGGAAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 57 0.95
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:124973 original size:30 final size:28
Alignment explanation
Indices: 124939--125048 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 28
124929 TCTAATTAAA
124939 GGACTAAGATGGTAAAAATCTAAAGTCTAG
1 GGACTAAG-T-GTAAAAATCTAAAGTCTAG
*
124969 GGACTAAAGTGTAAAAGATCTAAAGTCTAA
1 GGACT-AAGTGTAAAA-ATCTAAAGTCTAG
* * *
124999 GGCCTTAGTGTAAAAATTTAAAGTCTAG
1 GGACTAAGTGTAAAAATCTAAAGTCTAG
125027 GGACCTAAGTGTAAAAATCTAA
1 GGA-CTAAGTGTAAAAATCTAA
125049 TCCTAAAGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
28 13 0.19
29 31 0.45
30 22 0.32
31 3 0.04
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (28 bp):
GGACTAAGTGTAAAAATCTAAAGTCTAG
Found at i:127129 original size:61 final size:59
Alignment explanation
Indices: 127033--127175 Score: 144
Period size: 61 Copynumber: 2.4 Consensus size: 59
127023 AGGTGGCACA
* * ** * * **
127033 AAGGCGCATCTCTGGGGATGCGCTTTACTTGGGTTTTAGGTGACTGGGATGTGACGCAGAT
1 AAGGCGCATCCCTGGGGACGCGCTTTACAAGGGTTTT-GCTGACTCGGATGCCACG-AGAT
* * *
127094 AAGGCGCATCCCTGGGGACGCGCTTT-CAAGAGGTTTTGCTGAGTCGGATGCCACGGGGT
1 AAGGCGCATCCCTGGGGACGCGCTTTACAAG-GGTTTTGCTGACTCGGATGCCACGAGAT
*
127153 AAGGCGCATCCCCGGGGACGCGC
1 AAGGCGCATCCCTGGGGACGCGC
127176 CATCCATTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 24 0.35
60 15 0.22
61 30 0.43
ACGTcount: A:0.17, C:0.23, G:0.37, T:0.22
Consensus pattern (59 bp):
AAGGCGCATCCCTGGGGACGCGCTTTACAAGGGTTTTGCTGACTCGGATGCCACGAGAT
Found at i:127417 original size:27 final size:27
Alignment explanation
Indices: 127387--127438 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
127377 AATAGTTGTT
* *
127387 ATATT-TTTTATTATTATAATTATATAA
1 ATATTATTTT-TTATTAAAATAATATAA
127414 ATATTATTTTTTATTAAAATAATAT
1 ATATTATTTTTTATTAAAATAATAT
127439 TTATATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTATTTTTTATTAAAATAATATAA
Found at i:127436 original size:30 final size:30
Alignment explanation
Indices: 127388--127483 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
127378 ATAGTTGTTA
**
127388 TATTTTTTATTATTATAATTATATAAATAT
1 TATTTTTTATTAAAATAATTATATAAATAT
* *
127418 TATTTTTTATTAAAATAA-TATTTATATAAT
1 TATTTTTTATTAAAATAATTATATAAAT-AT
* * *
127448 TATTATTTATTTAAATTAATTA-ATTAATTAT
1 TATTTTTTA-TTAAAATAATTATA-TAAATAT
127479 TATTT
1 TATTT
127484 GTGCTAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
29 7 0.13
30 26 0.50
31 14 0.27
32 5 0.10
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TATTTTTTATTAAAATAATTATATAAATAT
Found at i:127444 original size:27 final size:26
Alignment explanation
Indices: 127369--127444 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 26
127359 TAAGTTAGTA
*
127369 TTTT-TTAAAATAGT-TGTTATATTTT
1 TTTTATTAAAATAATAT-TTATATTTT
* * **
127394 TTATTATTATAATTATATAAATATTATT
1 TT-TTATTAAAATAATATTTATATT-TT
127422 TTTTATTAAAATAATATTTATAT
1 TTTTATTAAAATAATATTTATAT
127445 AATTATTATT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 29 0.76
28 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTTATTAAAATAATATTTATATTTT
Found at i:127481 original size:31 final size:30
Alignment explanation
Indices: 127415--127482 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
127405 ATTATATAAA
* *
127415 TATTATTTTTTATTAAAATAATATTTATAT
1 TATTATTATTTATTAAAATAATAATTATAT
* *
127445 AATTATTATTTATTTAAATTAATTAATTA-AT
1 TATTATTATTTA-TTAAAATAA-TAATTATAT
127476 TATTATT
1 TATTATT
127483 TGTGCTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 10 0.32
31 16 0.52
32 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
TATTATTATTTATTAAAATAATAATTATAT
Found at i:127658 original size:17 final size:16
Alignment explanation
Indices: 127596--127661 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 16
127586 TTTAAAAAAA
*
127596 ATTATGTTAATATTTATT
1 ATTATTTTAA-ATTTA-T
* *
127614 ATTATTTTTAATTTAA
1 ATTATTTTAAATTTAT
**
127630 ATTTATCATAAATTTAT
1 A-TTATTTTAAATTTAT
127647 ATTAATTTTAAATTT
1 ATT-ATTTTAAATTT
127662 TTGGAATGCT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
16 3 0.08
17 26 0.70
18 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTATTTTAAATTTAT
Found at i:130535 original size:120 final size:121
Alignment explanation
Indices: 130318--130564 Score: 340
Period size: 120 Copynumber: 2.1 Consensus size: 121
130308 GGAAATTATA
* **
130318 ACAT-ATTCTCTGACAAAATAATGGAAGGCAGCCCACCTAAAACGCGCTTTCACCACTTTGTTGT
1 ACATAATTCTCTGACAAAATAATAGAAGGCAGCCCACCTAAAACGCGCTTTCACCACTTTGTTAC
* *
130382 GTCCCCTCAAACATGATAGGTACTGACATGAATATTGCCCC-CGGGGACATGACTC
66 GTCCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCTAGGGGACATGACTC
* * *
130437 ACATAATTCTCTGACAAAATAATAGAAGGC-GCGCCCCCTGAAACGCGTTTTCACCACTTTGTTA
1 ACATAATTCTCTGACAAAATAATAGAAGGCAGC-CCACCTAAAACGCGCTTTCACCACTTTGTTA
** * *
130501 CG-CACTTTCAAACATGATAGGTACTGACATGAATAGTGCCCCTAGGGGACATGAGTG
65 CGTC-CCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCTAGGGGACATGACTC
130558 ACATAAT
1 ACATAAT
130565 AGGGCAATAA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
119 7 0.06
120 87 0.78
121 18 0.16
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (121 bp):
ACATAATTCTCTGACAAAATAATAGAAGGCAGCCCACCTAAAACGCGCTTTCACCACTTTGTTAC
GTCCCCTCAAACATGATAGGTACTGACATGAATAGTGCCCCTAGGGGACATGACTC
Found at i:135273 original size:27 final size:27
Alignment explanation
Indices: 135218--135272 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
135208 ATATTTATTA
*
135218 TTATTATTATTATTACTACTACTACTT
1 TTATTATTATAATTACTACTACTACTT
*
135245 TTATTATTA-AATTACATATTAC-ACTT
1 TTATTATTATAATTAC-TACTACTACTT
135271 TT
1 TT
135273 TGTAGGCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATTATTATAATTACTACTACTACTT
Found at i:136879 original size:30 final size:30
Alignment explanation
Indices: 136827--136916 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 30
136817 TATCCCTTGT
* *
136827 AGTTTCTGTTTTTTGCTATTTTAATCCTTTA
1 AGTTTCTG-TTTTTGCTGTTTTAGTCCTTTA
*
136858 AGTTTCTGTTTTTGTTGTTTTAGT-CTTGTA
1 AGTTTCTGTTTTTGCTGTTTTAGTCCTT-TA
* *
136888 AATTTTTGTTTTTGCTG-TTTAGTCCTTTA
1 AGTTTCTGTTTTTGCTGTTTTAGTCCTTTA
136917 TTTTACTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 11 0.22
30 32 0.63
31 8 0.16
ACGTcount: A:0.13, C:0.10, G:0.14, T:0.62
Consensus pattern (30 bp):
AGTTTCTGTTTTTGCTGTTTTAGTCCTTTA
Found at i:142212 original size:289 final size:293
Alignment explanation
Indices: 141670--142252 Score: 1122
Period size: 289 Copynumber: 2.0 Consensus size: 293
141660 ATAATATCAT
141670 TTTTTTATTTTTTTTGTTTAAACCTCTTTATAACATTCGACGCAATATGTTGTATACAATATGCA
1 TTTTTTATTTTTTTTGTTTAAACCTCTTTATAACATTCGACGCAATATGTTGTATACAATATGCA
141735 AGATATGCGTGGGGAGGCACCCATCTATTTTCGGGTCTAGAAATTATGCTTAACAACCCAGACGA
66 AGATATGCGTGGGGAGGCACCCATCTATTTTCGGGTCTAGAAATTATGCTTAACAACCCAGACGA
141800 TCGAATTGAGATCATATAAACCCCATCTTGAGTGACAACATAAGAACACAAGTTGGAGAAAAATA
131 TCGAATTGAGATCATATAAACCCCATCTTGAGTGACAACATAAGAACACAAGTTGGAGAAAAATA
141865 AATTCCAAGTTTCCTCCGATTCATTTTTAATAATGACGACGGCAATGGGAAAATATTTCTGTCTC
196 AATTCCAAGTTTCCTCCGATTCATTTTTAATAATGACGACGGCAATGGGAAAATATTTCTGTCTC
141930 CATCTTGTGCAACAACTATCATCAAGAC-TGTC
261 CATCTTGTGCAACAACTATCATCAAGACGTGTC
141962 TTTTTTA-TTTTTTT-TTTAAA-CTCTTTATAACATTCGACGCAATATGTTGTATACCAATATGC
1 TTTTTTATTTTTTTTGTTTAAACCTCTTTATAACATTCGACGCAATATGTTGTATA-CAATATGC
142024 AAGATATGCGTGGGGAGGCACCCATCTATTTTCGGGTCTAGAAATTATGCTTAACAACCCAGACG
65 AAGATATGCGTGGGGAGGCACCCATCTATTTTCGGGTCTAGAAATTATGCTTAACAACCCAGACG
142089 ATCGAATTGAGATCATATAAACCCCATCTTGAGTGACAACATAA-AACACAAGTTGGAGAAAAAT
130 ATCGAATTGAGATCATATAAACCCCATCTTGAGTGACAACATAAGAACACAAGTTGGAGAAAAAT
142153 AAATTCCAAGTTTCCTCCGATTCATTTTTAATAATGACGACGGCAATGGGAAAATATTTCTGTCT
195 AAATTCCAAGTTTCCTCCGATTCATTTTTAATAATGACGACGGCAATGGGAAAATATTTCTGTCT
142218 CCATCTTGTGCAACAACTATCATCAAGACGTGTC
260 CCATCTTGTGCAACAACTATCATCAAGACGTGTC
142252 T
1 T
142253 GTAGAACACA
Statistics
Matches: 289, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
289 147 0.51
290 128 0.44
291 7 0.02
292 7 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (293 bp):
TTTTTTATTTTTTTTGTTTAAACCTCTTTATAACATTCGACGCAATATGTTGTATACAATATGCA
AGATATGCGTGGGGAGGCACCCATCTATTTTCGGGTCTAGAAATTATGCTTAACAACCCAGACGA
TCGAATTGAGATCATATAAACCCCATCTTGAGTGACAACATAAGAACACAAGTTGGAGAAAAATA
AATTCCAAGTTTCCTCCGATTCATTTTTAATAATGACGACGGCAATGGGAAAATATTTCTGTCTC
CATCTTGTGCAACAACTATCATCAAGACGTGTC
Found at i:150221 original size:20 final size:21
Alignment explanation
Indices: 150196--150243 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
150186 CTTAGAAAGC
*
150196 TTTGAGAGAGTTGAGAGA-GA
1 TTTGAGAGAATTGAGAGATGA
* *
150216 TTTGAGTGAATTGTGAGATGA
1 TTTGAGAGAATTGAGAGATGA
150237 TTTGAGA
1 TTTGAGA
150244 AGCCAAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.33
Consensus pattern (21 bp):
TTTGAGAGAATTGAGAGATGA
Found at i:159740 original size:36 final size:36
Alignment explanation
Indices: 159625--159765 Score: 126
Period size: 36 Copynumber: 4.0 Consensus size: 36
159615 GCCTTAGATC
* * *
159625 CATAAGGAATTACCAG-CTGAT-TGATGCTAAACCTA
1 CATAAGGAATTACCAGATTGATCAGA-GCTGAACCTA
** * ** * * *
159660 TTTAAGGAATTACC-CACCGATCGGTGCTGAACCTG
1 CATAAGGAATTACCAGATTGATCAGAGCTGAACCTA
159695 CATAAGGAATTACCAGATTGATCAGAGCTGAACCTA
1 CATAAGGAATTACCAGATTGATCAGAGCTGAACCTA
* * *
159731 TATATGGAATTACCAGCTTGATCAGAGCTGAACCT
1 CATAAGGAATTACCAGATTGATCAGAGCTGAACCT
159766 GCAGAGACTT
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
35 36 0.43
36 48 0.57
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (36 bp):
CATAAGGAATTACCAGATTGATCAGAGCTGAACCTA
Found at i:162684 original size:25 final size:25
Alignment explanation
Indices: 162625--162684 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
162615 CTAAAGATAT
* *
162625 TTATAAATGATATTATATTATTATA
1 TTATAAATAATATTATATTATTAAA
** *
162650 TTATCGATAATATTTTAATT-TTAAA
1 TTATAAATAATATTAT-ATTATTAAA
162675 TTATAAATAA
1 TTATAAATAA
162685 AAATAGACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
25 24 0.89
26 3 0.11
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (25 bp):
TTATAAATAATATTATATTATTAAA
Found at i:162979 original size:59 final size:60
Alignment explanation
Indices: 162887--163031 Score: 166
Period size: 61 Copynumber: 2.4 Consensus size: 60
162877 CATATGTCTC
* * * * * *
162887 TAAATTATTACTCTAATTTTAAATTAGTCCTTAAAC-TTTAAATATTCTAATTTCATCCT
1 TAAATTATGACTCTAATTCTAAATTAATACTTAAACTTTTAAACATTCAAATTTCATCCT
* *
162946 TAAATTATGACTCTGATTCTAAATTAATACTTAAACTTTTTGAACATTCAAATTTCATCCT
1 TAAATTATGACTCTAATTCTAAATTAATACTTAAAC-TTTTAAACATTCAAATTTCATCCT
* * **
163007 CAAACTATGACTCCCATTCTAAATT
1 TAAATTATGACTCTAATTCTAAATT
163032 GGTCCCTAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
59 31 0.43
61 41 0.57
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (60 bp):
TAAATTATGACTCTAATTCTAAATTAATACTTAAACTTTTAAACATTCAAATTTCATCCT
Found at i:165775 original size:36 final size:36
Alignment explanation
Indices: 165735--165805 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
165725 AAAGACTAAG
*
165735 AATTTTATATTCTTGAAAGATCGCAACTAAAGAAAT
1 AATTTTATATTCTTGAAAGATCGCAACCAAAGAAAT
* *
165771 AATTTTATCTTTTTGAAAGATCGCAACCAAAGAAA
1 AATTTTATATTCTTGAAAGATCGCAACCAAAGAAA
165806 GATTCATGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (36 bp):
AATTTTATATTCTTGAAAGATCGCAACCAAAGAAAT
Found at i:168953 original size:12 final size:12
Alignment explanation
Indices: 168938--168986 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
168928 GGTTATTGGT
*
168938 AAGGATGAAGAG
1 AAGGAAGAAGAG
*
168950 AAGGAAG-A-TG
1 AAGGAAGAAGAG
168960 -AGGAAGAAGAG
1 AAGGAAGAAGAG
168971 AAGGAAGAAGAG
1 AAGGAAGAAGAG
168983 AAGG
1 AAGG
168987 TATATCGGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
9 6 0.19
10 2 0.06
11 2 0.06
12 21 0.68
ACGTcount: A:0.53, C:0.00, G:0.43, T:0.04
Consensus pattern (12 bp):
AAGGAAGAAGAG
Found at i:168968 original size:21 final size:21
Alignment explanation
Indices: 168939--168978 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
168929 GTTATTGGTA
*
168939 AGGATGAAGAGAAGGAAGATG
1 AGGAAGAAGAGAAGGAAGATG
168960 AGGAAGAAGAGAAGGAAGA
1 AGGAAGAAGAGAAGGAAGA
168979 AGAGAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.42, T:0.05
Consensus pattern (21 bp):
AGGAAGAAGAGAAGGAAGATG
Found at i:171347 original size:20 final size:20
Alignment explanation
Indices: 171322--171367 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
171312 AAGAGTTGAT
171322 GTTGAATTTTGATGTTAGAA
1 GTTGAATTTTGATGTTAGAA
171342 GTTGAATTTTGATGTTAGAA
1 GTTGAATTTTGATGTTAGAA
*
171362 GCTGAA
1 GTTGAA
171368 GTTGAGGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.41
Consensus pattern (20 bp):
GTTGAATTTTGATGTTAGAA
Found at i:171849 original size:146 final size:146
Alignment explanation
Indices: 171575--171985 Score: 538
Period size: 146 Copynumber: 2.8 Consensus size: 146
171565 CGTTTTCTGT
* * * ** *
171575 AAGTATGGATACTTGTTGTGCCAATATCGATACTTTTATTCCAGTATGCTTGTCAAACAATTTGC
1 AAGTATCGATACTTCTTATGCCGGTATGGATACTTTTATTCCAGTATGCTTGTCAAACAATTTGC
* * * ** *
171640 ACGCCAAATGTATCGATACATATTATTAATGTATTGATATTTATAATTTCGAAAAAATGTATGCA
66 AAGCCAAATGTATCGATACACATTATTAAAGTATCAATATTTATAATTTCGAAAAAATATATGCA
171705 AAGTATGAAAATGTCC
131 AAGTATGAAAATGTCC
* * *
171721 AAGTATCGATACTTTTTATGTCGGTATGGATACTTTTATTCCAGTATGCTTGTCAAACAATTTGT
1 AAGTATCGATACTTCTTATGCCGGTATGGATACTTTTATTCCAGTATGCTTGTCAAACAATTTGC
* * *
171786 ATGCCAAATGTACCGATACACATTATTAAAGTATCAATATTTTTAATTTC-AAAACAATATATGC
66 AAGCCAAATGTATCGATACACATTATTAAAGTATCAATATTTATAATTTCGAAAA-AATATATGC
171850 AAAGTATGAAAATGTCC
130 AAAGTATGAAAATGTCC
* * * *
171867 AAGTATCGATACTTCTTATGCCGGTATGGATACTTTTATTCCAGTATGATTCTCAAATAGTTTGC
1 AAGTATCGATACTTCTTATGCCGGTATGGATACTTTTATTCCAGTATGCTTGTCAAACAATTTGC
** * * **
171932 AAGTAAAATGTATCGATACACA-TATATAAAGTATCGATACTTGGAATTTCGAAA
66 AAGCCAAATGTATCGATACACATTAT-TAAAGTATCAATATTTATAATTTCGAAA
171986 CCTATTACTT
Statistics
Matches: 231, Mismatches: 31, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
145 7 0.03
146 221 0.96
147 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (146 bp):
AAGTATCGATACTTCTTATGCCGGTATGGATACTTTTATTCCAGTATGCTTGTCAAACAATTTGC
AAGCCAAATGTATCGATACACATTATTAAAGTATCAATATTTATAATTTCGAAAAAATATATGCA
AAGTATGAAAATGTCC
Found at i:171913 original size:20 final size:21
Alignment explanation
Indices: 171868--171914 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
171858 AAAATGTCCA
*
171868 AGTATCGATACTTCTTATGCC
1 AGTATGGATACTTCTTATGCC
* *
171889 GGTATGGATACTT-TTATTCC
1 AGTATGGATACTTCTTATGCC
171909 AGTATG
1 AGTATG
171915 ATTCTCAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (21 bp):
AGTATGGATACTTCTTATGCC
Found at i:172205 original size:198 final size:197
Alignment explanation
Indices: 171865--172624 Score: 1003
Period size: 198 Copynumber: 3.8 Consensus size: 197
171855 ATGAAAATGT
*** * * *
171865 CCAAGTATCGATACTTCTTATGCCGGTATGGATACTTTTATTCCAGTATGATTCTCAAATAGTTT
1 CCAAGTATCGATACTT-TTATATAGGTAT-GATACTTTTATTCCAGTATGCTTCTCAAACAATTT
* *
171930 GCAAGTAAAATGTATCGATACACATATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACT
64 GCACGCAAAATGTATCGATA-ACATATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACT
** *
171995 TTAAAGTAATAGGTAAATTAACAATGTAAACAATAAAAGTCTATCAATATAATGATAATAAGCAC
128 TTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGATATAATGATAATAAGCAC
172060 AAATA
193 AAATA
* *
172065 CCAAGTATTGATACTCTTTATATAGGTATGTATACTTTTATTCCAGTATGCTTCTCAAATAATTT
1 CCAAGTATCGATACT-TTTATATAGGTATG-ATACTTTTATTCCAGTATGCTTCTCAAACAATTT
* *
172130 GCACGCAAAATATATCGAT-ACATGTATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTT
64 GCACGCAAAATGTATCGATAACATATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTT
*
172194 TAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAGGTCTAGT-GATATAATGATAAT-AG-AC
129 TAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTA-TCGATATAATGATAATAAGCAC
172256 GTAAATA
193 --AAATA
* * * *
172263 ACAAGTATCGATACTTTTATATATGTATCGATACTTTTATTCTAGTATGCTTCTCAAACATTTTG
1 CCAAGTATCGATACTTTTATATAGGTAT-GATACTTTTATTCCAGTATGCTTCTCAAACAATTTG
* * *
172328 CACGCAAAATGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCAAAACCTATTATTT
65 CACGCAAAATGTATCGATA-ACATATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTT
* * * * * **
172393 TAAAGTAATATGTAAATTAACAATGTAAACGGTAAAACTCTATCGGTATAATGCTAATAGGCGTA
129 TAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGATATAATGATAATAAGCACA
172458 AATA
194 AATA
* * *
172462 CCAAGTA-CCATATTTTTATATAGGTATGAATACTTTTATTCCGGTATGCTTCTCAAACAATTTG
1 CCAAGTATCGATACTTTTATATAGGTATG-ATACTTTTATTCCAGTATGCTTCTCAAACAATTTG
* * * ** *
172526 CGCGCAAAATGTATCGAT-ACACATATAAAGTA-CTGAAACTTATAATTTCGGAACCTATTACTT
65 CACGCAAAATGTATCGATAACATATATAAAGTATC-GATACTTGGAATTTCGAAACCTATTACTT
*
172589 TAAAGTAATAGGTAAATTAACAATGTACACGGTAAA
129 TAAAGTAATAGGTAAATTAACAATGTAAACGGTAAA
172625 CGTTTCTACC
Statistics
Matches: 497, Mismatches: 50, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
195 1 0.00
196 72 0.14
197 64 0.13
198 182 0.37
199 105 0.21
200 72 0.14
201 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (197 bp):
CCAAGTATCGATACTTTTATATAGGTATGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
ACGCAAAATGTATCGATAACATATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTA
AAGTAATAGGTAAATTAACAATGTAAACGGTAAAAGTCTATCGATATAATGATAATAAGCACAAA
TA
Found at i:172658 original size:397 final size:398
Alignment explanation
Indices: 171866--172658 Score: 1119
Period size: 397 Copynumber: 2.0 Consensus size: 398
171856 TGAAAATGTC
* * * *
171866 CAAGTATCGATACTTCTTATGCCGGTATGGATACTTTTATTCCAGTATGATTCTCAAATAGTTTG
1 CAAGTATCGATACTTCTTATACAGGTATCGATACTTTTATTCCAGTATGATTCTCAAACAGTTTG
* * *
171931 CAAGTAAAATGTATCGATACACATATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTT
66 CAAGCAAAATGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCAAAACCTATTACTT
*
171996 TAAAGTAATAGGTAAATTAACAATGTAAACAATAAAAGTCTATCAATATAATGATAATAAGCACA
131 TAAAGTAATAGGTAAATTAACAATGTAAACAATAAAACTCTATCAATATAATGATAATAAGCACA
** * *
172061 AATACCAAGTATTGATACTCTTTATATAGGTATGTATACTTTTATTCCAGTATGCTTCTCAAATA
196 AATACCAAGTATCCATACTCTTTATATAGGTATGAATACTTTTATTCCAGTATGCTTCTCAAACA
** * *
172126 ATTTGCACGCAAAATATATCGATACATGTATAAAGTATCGATACTTGGAATTTCGAAACCTATTA
261 ATTTGCACGCAAAATATATCGATACACATATAAAGTATCGAAACTTAGAATTTCGAAACCTATTA
** *
172191 CTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAGGTCTAGTGATATAATGATAATAGAC
326 CTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAGGTCTACAGATATAATGAAAATAGAC
172256 GTAAATAA
391 GTAAATAA
* * * * *
172264 CAAGTATCGATACTT-TTATATATGTATCGATACTTTTATTCTAGTATGCTTCTCAAACATTTTG
1 CAAGTATCGATACTTCTTATACAGGTATCGATACTTTTATTCCAGTATGATTCTCAAACAGTTTG
* *
172328 CACGCAAAATGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCAAAACCTATTATTT
66 CAAGCAAAATGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCAAAACCTATTACTT
* ** ** * * **
172393 TAAAGTAATATGTAAATTAACAATGTAAACGGTAAAACTCTATCGGTATAATGCTAATAGGCGTA
131 TAAAGTAATAGGTAAATTAACAATGTAAACAATAAAACTCTATCAATATAATGATAATAAGCACA
* *
172458 AATACCAAGTA-CCATA-TTTTTATATAGGTATGAATACTTTTATTCCGGTATGCTTCTCAAACA
196 AATACCAAGTATCCATACTCTTTATATAGGTATGAATACTTTTATTCCAGTATGCTTCTCAAACA
* * * *
172521 ATTTGCGCGCAAAATGTATCGATACACATATAAAGTA-CTGAAACTTATAATTTCGGAACCTATT
261 ATTTGCACGCAAAATATATCGATACACATATAAAGTATC-GAAACTTAGAATTTCGAAACCTATT
* *
172585 ACTTTAAAGTAATAGGTAAATTAACAATGTACACGGTAAACGTTTCTACCAG-TATAATGAAAAT
325 ACTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAA-G-GTCTA-CAGATATAATGAAAAT
*
172649 AGGCGTAAAT
387 AGACGTAAAT
172659 GTCCAAATAT
Statistics
Matches: 347, Mismatches: 44, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
394 1 0.00
395 136 0.39
396 4 0.01
397 190 0.55
398 16 0.05
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.34
Consensus pattern (398 bp):
CAAGTATCGATACTTCTTATACAGGTATCGATACTTTTATTCCAGTATGATTCTCAAACAGTTTG
CAAGCAAAATGTATCGATACACATATATAAAGTATCGATACTTGAAATTTCAAAACCTATTACTT
TAAAGTAATAGGTAAATTAACAATGTAAACAATAAAACTCTATCAATATAATGATAATAAGCACA
AATACCAAGTATCCATACTCTTTATATAGGTATGAATACTTTTATTCCAGTATGCTTCTCAAACA
ATTTGCACGCAAAATATATCGATACACATATAAAGTATCGAAACTTAGAATTTCGAAACCTATTA
CTTTAAAGTAATAGGTAAATTAACAATGTAAACGGTAAAGGTCTACAGATATAATGAAAATAGAC
GTAAATAA
Found at i:172786 original size:131 final size:129
Alignment explanation
Indices: 172536--173014 Score: 703
Period size: 131 Copynumber: 3.7 Consensus size: 129
172526 CGCGCAAAAT
* * * *
172536 GTATCGATACACATATAAAGTACTGAAACTTATAATTTCGGAACCTATTACTTTAAAGTAATAGG
1 GTATCGATACTCATATAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGG
*
172601 TAAATTAACAATGTACACGGTAAACGTTTCTACCAGTATAATGAAAATAGGCGTAAATGTCCAA
66 TAAATTAACAATGTACACGGTAAACGTTTCTACTAGTATAATGAAAATAGGCGTAAATGTCCAA
* *
172665 ATATCGATACTCATATACAAAGTATTGATACTTATAATTCCGAAACCTATTACTTTAAAGTAATA
1 GTATCGATACTCATAT--AAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
*
172730 GGTAAATTAACAATGTACACGGTAAACGTTTCTACTAGTATAATGAAAACAGGCGTAAATGTCCA
64 GGTAAATTAACAATGTACACGGTAAACGTTTCTACTAGTATAATGAAAATAGGCGTAAATGTCCA
172795 A
129 A
* * *
172796 GTATCGACACTCATATATAAAGTATTGATACTCATAATTTCAAAACCTATTACTTTAAAGTAATA
1 GTATCGATACTC--ATATAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
* * * * *
172861 GGTAAATTAA-TATGTACACAGTAAACGTTTCTA-TCAGTATAATGAAAATATGCATAAATGTAC
64 GGTAAATTAACAATGTACACGGTAAACGTTTCTACT-AGTATAATGAAAATAGGCGTAAATGTCC
172924 AA
128 AA
*
172926 GTATCGATACTGTCATAT-AAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
1 GTATCGATAC--TCATATAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
* *
172990 GATAAATTAACAATGTGCACGGTAA
64 GGTAAATTAACAATGTACACGGTAA
173015 TTTATAGATA
Statistics
Matches: 315, Mismatches: 27, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
129 67 0.21
130 71 0.23
131 171 0.54
132 2 0.01
133 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.32
Consensus pattern (129 bp):
GTATCGATACTCATATAAAGTATTGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGG
TAAATTAACAATGTACACGGTAAACGTTTCTACTAGTATAATGAAAATAGGCGTAAATGTCCAA
Found at i:182523 original size:13 final size:13
Alignment explanation
Indices: 182505--182543 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
182495 AATGGGCAAA
* *
182505 TTTGAAAACTATT
1 TTTGAAAACAATG
182518 TTTGAAAACAATG
1 TTTGAAAACAATG
182531 TTTGAAAATCAAT
1 TTTGAAAA-CAAT
182544 ACGTAGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 19 0.83
14 4 0.17
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:189330 original size:22 final size:22
Alignment explanation
Indices: 189305--189353 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
189295 ATGTGTCGAT
189305 ATTACGCTCAATTGAAAGATAA
1 ATTACGCTCAATTGAAAGATAA
*
189327 ATTACTCTCAATTGAAAGATAA
1 ATTACGCTCAATTGAAAGATAA
189349 ATTAC
1 ATTAC
189354 AATACTACGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
ATTACGCTCAATTGAAAGATAA
Found at i:190242 original size:18 final size:17
Alignment explanation
Indices: 190219--190253 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
190209 TTTATTTTAC
190219 TATTATAATTTTTAATAA
1 TATTATAA-TTTTAATAA
*
190237 TATTATTATTTTAATAA
1 TATTATAATTTTAATAA
190254 ATAATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATAATTTTAATAA
Found at i:192293 original size:15 final size:15
Alignment explanation
Indices: 192275--192318 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
192265 GTGGGCGGAT
*
192275 GGATGTGGGGCGGGC
1 GGATGCGGGGCGGGC
* *
192290 GGATGCGGAGTGGGC
1 GGATGCGGGGCGGGC
192305 GGATGCGGGGCGGG
1 GGATGCGGGGCGGG
192319 TAAGGTCCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.09, C:0.14, G:0.66, T:0.11
Consensus pattern (15 bp):
GGATGCGGGGCGGGC
Found at i:197728 original size:32 final size:32
Alignment explanation
Indices: 197659--197730 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
197649 CTAAGGTGAT
* * *
197659 CCTTGGGTAGGCTCTGAGGCCCCGAGAAATTT
1 CCTTGGGTAGGCTCTCAGGCCCCAAGAAATTC
* **
197691 TCTTGGGTAGGCTCTCAGGCCCCAAGGCATTC
1 CCTTGGGTAGGCTCTCAGGCCCCAAGAAATTC
197723 CCTTGGGT
1 CCTTGGGT
197731 TAATCAAGTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.15, C:0.28, G:0.31, T:0.26
Consensus pattern (32 bp):
CCTTGGGTAGGCTCTCAGGCCCCAAGAAATTC
Found at i:197974 original size:30 final size:32
Alignment explanation
Indices: 197939--198011 Score: 98
Period size: 29 Copynumber: 2.4 Consensus size: 32
197929 AAGGTGATCT
*
197939 TTGGGTAGGCTCCGAGGCCCCGAG-ATC-TTC
1 TTGGGTAGGCTCCGAGGCCCCGAGTAACTTTC
*
197969 TTGGGTAGGC-CCGTGGCCCCGAGTAACTTTC
1 TTGGGTAGGCTCCGAGGCCCCGAGTAACTTTC
*
198000 TTGGGAAGGCTC
1 TTGGGTAGGCTC
198012 TCAGACCCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 12 0.32
30 12 0.32
31 12 0.32
32 1 0.03
ACGTcount: A:0.14, C:0.27, G:0.34, T:0.25
Consensus pattern (32 bp):
TTGGGTAGGCTCCGAGGCCCCGAGTAACTTTC
Found at i:206021 original size:24 final size:23
Alignment explanation
Indices: 205976--206026 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
205966 TACTCAACAC
205976 ATAAATTTAATGTATAATAATAA
1 ATAAATTTAATGTATAATAATAA
205999 ATAATATTATAATGTA-AATAATAA
1 ATAA-ATT-TAATGTATAATAATAA
206023 ATAA
1 ATAA
206027 CATATTTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 4 0.15
24 15 0.58
25 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
ATAAATTTAATGTATAATAATAA
Found at i:206490 original size:43 final size:43
Alignment explanation
Indices: 206398--206724 Score: 157
Period size: 43 Copynumber: 7.7 Consensus size: 43
206388 AGGTTTTGTT
* * *
206398 ATTTAGCGGCGTTTGTCA-AAAAACACCGCAATAGGTGTTGATG
1 ATTTAGCGGCGTTT-TCATACAAACGCCGCAATAGATGTTGATG
* *
206441 -TTTAGCGGCGTTTTCCATACAAACGCTGCAGTAGATGTTGA-G
1 ATTTAGCGGCGTTTT-CATACAAACGCCGCAATAGATGTTGATG
* * * * *
206483 ATTTAGCGGCGTTTTACTTACAAACGACGCAAAAGGTTTTGAT-
1 ATTTAGCGGCGTTTT-CATACAAACGCCGCAATAGATGTTGATG
*
206526 ATTTTGCGGCGTTTTTCCAT--AAACGCCGCAA-A-ATG-TGATG
1 ATTTAGCGGCG-TTTT-CATACAAACGCCGCAATAGATGTTGATG
* ** * * * * *
206566 ATGTTTACCGGCGTTTTTCCCACAAACGTCGCAGTAGGTTTTTA-G
1 A--TTTAGCGGCG-TTTTCATACAAACGCCGCAATAGATGTTGATG
** *
206611 ATTTAGCGGCGTTTGT-AT-CGAAAACGATGCAATA-AGTGTT-AAG
1 ATTTAGCGGCGTTT-TCATAC--AAACGCCGCAATAGA-TGTTGATG
* * * * *
206654 AATTAGCGGTGTTTTTATTGA-AAATGCCGCAATAGGTGTTGAT-
1 ATTTAGCGGCGTTTTCA-T-ACAAACGCCGCAATAGATGTTGATG
206697 ATTTAGCGGCG-TTTCTATACAAACGCCG
1 ATTTAGCGGCGTTTTC-ATACAAACGCCG
206725 TTAAAATTCG
Statistics
Matches: 211, Mismatches: 47, Indels: 53
0.68 0.15 0.17
Matches are distributed among these distances:
39 4 0.02
40 2 0.01
41 5 0.02
42 55 0.26
43 131 0.62
44 9 0.04
45 3 0.01
46 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (43 bp):
ATTTAGCGGCGTTTTCATACAAACGCCGCAATAGATGTTGATG
Found at i:206529 original size:128 final size:129
Alignment explanation
Indices: 206388--206722 Score: 328
Period size: 128 Copynumber: 2.6 Consensus size: 129
206378 ATGTCATAAT
* *
206388 AGGTTTTGTTATTTAGCGGCGTTTGTCAAAAAACACCGCAATAGGTGTTGATGTTTAGCGGCGTT
1 AGGTTTTGATATTTAGCGGCGTTT-TCAAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTT
*
206453 TTCCATACAAACGCT-GCAGTAGATGTTGAGATTTAGCGGCGTTT-TA-CTTACAAACGACGCAA
65 TTCCATACAAACGCTCGCAGTAGATGTTGAGATTTAGCGGCGTTTGTATC-GA-AAACGACGCAA
206515 -A
128 TA
* * * * * * *
206516 AGGTTTTGATATTTTGCGGCGTTTTTCCATAAACGCCGCAAAATGTGATGATGTTTACCGGCGTT
1 AGGTTTTGATATTTAGCGGCG-TTTTCAAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCG-T
* * * * *
206581 TTTCC-CACAAACG-TCGCAGTAGGTTTTTAGATTTAGCGGCGTTTGTATCGAAAACGATGCAAT
64 TTTCCATACAAACGCTCGCAGTAGATGTTGAGATTTAGCGGCGTTTGTATCGAAAACGACGCAAT
206644 A
129 A
** * * * * *
206645 AGTGTTAAGA-A-TTAGCGGTGTTTTTATTGAAAATGCCGCAATAGGTGTTGATATTTAGCGGCG
1 AG-GTTTTGATATTTAGCGGCGTTTTCA--AAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCG
*
206708 -TTTCTATACAAACGC
63 TTTTCCATACAAACGC
206723 CGTTAAAATT
Statistics
Matches: 165, Mismatches: 31, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
127 9 0.05
128 107 0.65
129 43 0.26
130 6 0.04
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (129 bp):
AGGTTTTGATATTTAGCGGCGTTTTCAAAAAACGCCGCAATAGGTGTTGATGTTTAGCGGCGTTT
TCCATACAAACGCTCGCAGTAGATGTTGAGATTTAGCGGCGTTTGTATCGAAAACGACGCAATA
Found at i:207155 original size:21 final size:21
Alignment explanation
Indices: 207122--207221 Score: 67
Period size: 21 Copynumber: 4.8 Consensus size: 21
207112 GATATGTTGA
*
207122 TTCTCTCTGTGCTGT-CGCTGC
1 TTCTCTCTCTGCT-TCCGCTGC
*
207143 TTCTTTCTCTGCTTCCGCTGC
1 TTCTCTCTCTGCTTCCGCTGC
* ** *
207164 TACTCTGGCTGCTTCCACTGC
1 TTCTCTCTCTGCTTCCGCTGC
* ** * *
207185 TACTCTGGCTTCTTCCGATGC
1 TTCTCTCTCTGCTTCCGCTGC
* *
207206 TGCTCTATCTGCTTCC
1 TTCTCTCTCTGCTTCC
207222 CTTGCTTTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 1 0.02
21 63 0.98
ACGTcount: A:0.05, C:0.36, G:0.18, T:0.41
Consensus pattern (21 bp):
TTCTCTCTCTGCTTCCGCTGC
Found at i:216775 original size:41 final size:40
Alignment explanation
Indices: 216741--216917 Score: 182
Period size: 41 Copynumber: 4.4 Consensus size: 40
216731 CGTTTATACA
* *
216741 AAAAAATGCCA-TATTGATT-ACACTATTGTGGCGTTTGTT
1 AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTT-TC
* *
216780 AAAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTTC
1 AAAAAATGCCACTATTGATTAACACTATTGCGGCG-TTTTC
* *
216821 TAAAAATGCCACTATTGATTAACACTTTTGCGGCGTTTGTC
1 AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTT-TC
* * * *
216862 TAAAACA--CCACTATTTATTATCACTATTGCGGCGTTTTA
1 -AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTTTC
216901 AGAATAAATGCCACTAT
1 A-AA-AAATGCCACTAT
216918 ATGTGTAATA
Statistics
Matches: 114, Mismatches: 15, Indels: 15
0.79 0.10 0.10
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 40 0.35
41 46 0.40
42 14 0.12
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (40 bp):
AAAAAATGCCACTATTGATTAACACTATTGCGGCGTTTTC
Found at i:216876 original size:81 final size:80
Alignment explanation
Indices: 216742--216917 Score: 221
Period size: 81 Copynumber: 2.2 Consensus size: 80
216732 GTTTATACAA
* *
216742 AAAAATGCCA-TATTGATTACACTATTGTGGCGTTTGTTAAAAAACGCCACTATTGATTAAAACT
1 AAAAATGCCACTATTGATTACACTATTGCGGCGTTTGTT-AAAAACACCACTATTGATTAAAACT
***
216806 ATTGCGGCGTTTTTCT
65 ATTGCGGCGTTTTAAG
* * **
216822 AAAAATGCCACTATTGATTAACACTTTTGCGGCGTTTGTCT-AAAACACCACTATTTATTATCAC
1 AAAAATGCCACTATTGATT-ACACTATTGCGGCGTTTGT-TAAAAACACCACTATTGATTAAAAC
216886 TATTGCGGCGTTTTAAG
64 TATTGCGGCGTTTTAAG
216903 AATAAATGCCACTAT
1 AA-AAATGCCACTAT
216918 ATGTGTAATA
Statistics
Matches: 83, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
80 10 0.12
81 43 0.52
82 29 0.35
83 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (80 bp):
AAAAATGCCACTATTGATTACACTATTGCGGCGTTTGTTAAAAACACCACTATTGATTAAAACTA
TTGCGGCGTTTTAAG
Found at i:217001 original size:42 final size:42
Alignment explanation
Indices: 216928--217026 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
216918 ATGTGTAATA
* *
216928 TATTACGGTGTTTGTGGTATAAATACCGCTAATTTACCGA-TC
1 TATTACGGCGTTTGTGGTATAAACACCGCTAATTTACC-ACTC
* ***
216970 TATTACGGCATTTGTGGTATAAACGTTGCTAATTTACCACTC
1 TATTACGGCGTTTGTGGTATAAACACCGCTAATTTACCACTC
*
217012 TATTGCGGCGTTTGT
1 TATTACGGCGTTTGT
217027 TAAAAAATGC
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (42 bp):
TATTACGGCGTTTGTGGTATAAACACCGCTAATTTACCACTC
Found at i:217891 original size:43 final size:43
Alignment explanation
Indices: 217829--217955 Score: 141
Period size: 43 Copynumber: 3.0 Consensus size: 43
217819 ACTAAGGCCG
* *
217829 CAACAAGTCGGGTTCTTTAGCGGCGTTTTTGTTACAAACGCCA
1 CAACAAGTCAGGTTATTTAGCGGCGTTTTTGTTACAAACGCCA
* * * * *
217872 CAACAAGTCAGGTTGTTTAGCGGCATATTT-TTACAAATGTCGA
1 CAACAAGTCAGGTTATTTAGCGGCGTTTTTGTTACAAACG-CCA
* **
217915 AAAC-AGTCAGGTTATTTAGAAGCGTTTTTGTTACAAACGCC
1 CAACAAGTCAGGTTATTTAGCGGCGTTTTTGTTACAAACGCC
217956 GTTAATAATG
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
42 29 0.43
43 39 0.57
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (43 bp):
CAACAAGTCAGGTTATTTAGCGGCGTTTTTGTTACAAACGCCA
Found at i:221909 original size:42 final size:41
Alignment explanation
Indices: 221860--221978 Score: 157
Period size: 42 Copynumber: 2.9 Consensus size: 41
221850 ATTTATAATA
* * *
221860 AAAACACCACTAATGTACTAATATATTGCGGCGTTTGTAAGG
1 AAAACACCACTAATGTACTAGTCTATTGCGGCGTTTGTAA-C
* *
221902 AAAACACCACTAATTTACTAGTCTATTGCGGCGCTTGTAAC
1 AAAACACCACTAATGTACTAGTCTATTGCGGCGTTTGTAAC
* * *
221943 AAAGCGCCACTAATGTACTAGTCTATGGCGGCGTTT
1 AAAACACCACTAATGTACTAGTCTATTGCGGCGTTT
221979 CTTTAAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 31 0.46
42 36 0.54
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (41 bp):
AAAACACCACTAATGTACTAGTCTATTGCGGCGTTTGTAAC
Found at i:222591 original size:24 final size:24
Alignment explanation
Indices: 222558--222611 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
222548 AATAAATAAT
*
222558 ATATTGTTTATTATT-TACGTTATA
1 ATATTATTTATTATTATACGTTA-A
222582 ATATTATTTATTATTATACGTTAA
1 ATATTATTTATTATTATACGTTAA
222606 AT-TTAT
1 ATATTAT
222612 GTGTTGAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
25 7 0.25
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (24 bp):
ATATTATTTATTATTATACGTTAA
Found at i:225558 original size:92 final size:88
Alignment explanation
Indices: 225403--225593 Score: 301
Period size: 92 Copynumber: 2.1 Consensus size: 88
225393 TCATGAACCG
* *
225403 GAGTTCCTCTTCGTTACTTATTGTTATTTGTTGTTACAAAGATGTTAGGCTTGTGGTAGTTTTGC
1 GAGTTCCTCTTCATTACTTATTGTTATTTGTTGTTACAAAGATGTTAGCCTTGTGGTAGTTTTGC
*
225468 TCGAGACTAAACACATTTTTCCA
66 TAGAGACTAAACACATTTTTCCA
225491 GAGTTCCTCTTCATTACTTTTGATTGTTATTTGTTGTTACAAATGATGTTAGCCTTGTGGTAGTT
1 GAGTTCCTCTTCATTAC--TT-ATTGTTATTTGTTGTTACAAA-GATGTTAGCCTTGTGGTAGTT
*
225556 TTGCTAGAGACTTAACACATTTTTCCA
62 TTGCTAGAGACTAAACACATTTTTCCA
*
225583 GAATTCCTCTT
1 GAGTTCCTCTT
225594 TACTCTTTCT
Statistics
Matches: 94, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
88 16 0.17
90 2 0.02
91 21 0.22
92 55 0.59
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (88 bp):
GAGTTCCTCTTCATTACTTATTGTTATTTGTTGTTACAAAGATGTTAGCCTTGTGGTAGTTTTGC
TAGAGACTAAACACATTTTTCCA
Found at i:226114 original size:34 final size:35
Alignment explanation
Indices: 226075--226152 Score: 122
Period size: 34 Copynumber: 2.3 Consensus size: 35
226065 TCAGCGTAAA
*
226075 AAACGCCGCAACTGTTAGTGACGTTTTTTAATAAT
1 AAACGCCGCAACTGTTAGTGACGTTTTCTAATAAT
* *
226110 -AACGCCGCAACTGTTAGTGGCGTTTTCTACTAAT
1 AAACGCCGCAACTGTTAGTGACGTTTTCTAATAAT
226144 AAACGCCGC
1 AAACGCCGC
226153 TAAAGTCAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
34 31 0.79
35 8 0.21
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (35 bp):
AAACGCCGCAACTGTTAGTGACGTTTTCTAATAAT
Found at i:231030 original size:21 final size:20
Alignment explanation
Indices: 230977--231030 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
230967 GTACCCATGT
230977 AAGTATCGATACCCAGTGGA
1 AAGTATCGATACCCAGTGGA
**
230997 AGAGTATTAATACCCAAGGTGG-
1 A-AGTATCGATACCC-A-GTGGA
231019 AAGTATCGATAC
1 AAGTATCGATAC
231031 TAGTGTAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 1 0.04
21 20 0.74
22 2 0.07
23 4 0.15
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (20 bp):
AAGTATCGATACCCAGTGGA
Done.