Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000493.1 Hibiscus syriacus cultivar Beakdansim tig00000940_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: 111968
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:18745 original size:3 final size:3
Alignment explanation
Indices: 18737--18765 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18727 TTATCTTCCC
18737 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
18766 GTATCACCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:18884 original size:18 final size:18
Alignment explanation
Indices: 18834--18884 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
18824 CACTTGCTCC
*
18834 ACCTCAAAATCAATGTCT
1 ACCTCAAAATCAGTGTCT
18852 ACCTCAAAATCAGTGTCT
1 ACCTCAAAATCAGTGTCT
*
18870 ACCTCAAAATTAGTG
1 ACCTCAAAATCAGTG
18885 ACTGCCTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (18 bp):
ACCTCAAAATCAGTGTCT
Found at i:18892 original size:18 final size:18
Alignment explanation
Indices: 18834--18893 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
18824 CACTTGCTCC
* *
18834 ACCTCAAAATCAATGTCT
1 ACCTCAAAATCAGTGACT
*
18852 ACCTCAAAATCAGTGTCT
1 ACCTCAAAATCAGTGACT
*
18870 ACCTCAAAATTAGTGACT
1 ACCTCAAAATCAGTGACT
*
18888 GCCTCA
1 ACCTCA
18894 TAGAAGGTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.27
Consensus pattern (18 bp):
ACCTCAAAATCAGTGACT
Found at i:28152 original size:16 final size:16
Alignment explanation
Indices: 28131--28162 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
28121 GAGAAAATTG
28131 ACACGGATGGCAAAGA
1 ACACGGATGGCAAAGA
28147 ACACGGATGGCAAAGA
1 ACACGGATGGCAAAGA
28163 TAAGACTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.31, T:0.06
Consensus pattern (16 bp):
ACACGGATGGCAAAGA
Found at i:29794 original size:40 final size:41
Alignment explanation
Indices: 29720--29800 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 41
29710 TATAAAAAAG
*
29720 ACATTGAGATATAAAAAAACAAGTGTATTATTTTGTACGAA
1 ACATTGAGATATAAAAAAACAAGTGTATCATTTTGTACGAA
* * *
29761 ACATTGAGATAT-GAAAAAGAAGTGTATCGTTTTGTACGAA
1 ACATTGAGATATAAAAAAACAAGTGTATCATTTTGTACGAA
29801 CAATTCTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 24 0.67
41 12 0.33
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (41 bp):
ACATTGAGATATAAAAAAACAAGTGTATCATTTTGTACGAA
Found at i:31809 original size:42 final size:42
Alignment explanation
Indices: 31734--31813 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
31724 CAAATGACTT
* *
31734 ATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGATTTA
1 ATCATCATGCTCGAAAGAATGACAGATGACCCGAAGGATTTA
* *
31776 ATCATCATGCTCGAAAGAATTACTGAT-AGCCCGAAGGA
1 ATCATCATGCTCGAAAGAATGACAGATGA-CCCGAAGGA
31814 CATACCAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
ATCATCATGCTCGAAAGAATGACAGATGACCCGAAGGATTTA
Found at i:32034 original size:257 final size:256
Alignment explanation
Indices: 31642--32709 Score: 1538
Period size: 257 Copynumber: 4.1 Consensus size: 256
31632 TTTCATTCTT
* * * *
31642 TAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTCGAAAATCATGTGAAAACATCCAACTCGA
1 TAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTC-AAATTCATGTGAAAACATCCTACCCGA
* * *
31707 AGGTCTTATAGATGGACCAAATGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGA
65 AGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGA
* * *
31772 TTTAATCATCATGCTCGAAAGAATTACTGATAGCCCGAAGGACATACCAATTTTGGAAATAGTTT
130 TTTAATCATCATGCTCGAAAGACTTACTGAT-GCCCGAAGGACTTACCAATTTGGGAAATAGTTT
* *
31837 ACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATAC
194 ACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATAC
* *
31900 TAAATGAGAAACTTTGGAAATTGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAG
1 TAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAA
* * * * * * * *
31965 GGTTTTACGGTTGGCTCGAAGGACTTATCATCTTGCTCGAAAGACTTACAAATGACCCGAATGAT
66 GGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGAT
**
32030 TTAATCATCATGCTTTAAAGACTTACTGATTGCCCGAAGGACTTACCAATTTGGGAAATAGTTTA
131 TTAATCATCATGCTCGAAAGACTTACTGA-TGCCCGAAGGACTTACCAATTTGGGAAATAGTTTA
* *
32095 CTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTTTAAAAAATAT
195 CTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCT-AAAAATAC
* * * *
32158 TAATTGAGAAACTTTGGAAATCGCTTTCTCGTTTTTCAAATTCATATG-AAACATCCTACCCGAG
1 TAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAA
* * * *
32222 GGTCTTGA-GAATGGCCCAAAGGACTTATCATCTTGCTTGAAAGACTTACAGATGACTCGAAGGA
66 GGTCTT-ATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGA
*
32286 TTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTTACCAATTTGGGAAATAGTTT
130 TTTAATCATCATGCTCGAAAGACTTACTGAT-GCCCGAAGGACTTACCAATTTGGGAAATAGTTT
32351 ACT-GGATAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATAC
194 ACTAGG-TAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATAC
* *
32414 TAAATGAGAAACTTTGGAAA-CCCATTTCTCATTTTTCAAATTCATAG-GAAAATATCCTACCCG
1 TAAATGAGAAACTTTGGAAATCGC-TTTCTCATTTTTCAAATTCAT-GTGAAAACATCCTACCCG
* * *
32477 AAGGTCTTATGGATTGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATAACCCGAAGG
64 AAGGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGG
* **
32542 ATTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAATGACTTACCAATTTTAGAAATAGTT
129 ATTTAATCATCATGCTCGAAAGACTTACTGATG-CCCGAAGGACTTACCAATTTGGGAAATAGTT
* * *
32607 TACTATGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAA-TTCTATTTTCTAAAAACAT
193 TACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTC-ATTTTCTAAAAATAC
**
32671 TAAATGAGAAACTTT-GAAGATTTCTTTTCTCATTTTTCA
1 TAAATGAGAAACTTTGGAA-ATCGC-TTTCTCATTTTTCA
32710 CAAACATCAT
Statistics
Matches: 729, Mismatches: 67, Indels: 28
0.88 0.08 0.03
Matches are distributed among these distances:
255 2 0.00
256 58 0.08
257 566 0.78
258 103 0.14
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (256 bp):
TAAATGAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCCGAA
GGTCTTATGGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGACTGACAGATGACCCGAAGGAT
TTAATCATCATGCTCGAAAGACTTACTGATGCCCGAAGGACTTACCAATTTGGGAAATAGTTTAC
TAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAATAC
Found at i:32327 original size:42 final size:41
Alignment explanation
Indices: 32232--32331 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 41
32222 GGTCTTGAGA
* *
32232 ATGGCCCAAAGGACTTATCATCTTGCTTGAAAGACTTACAG
1 ATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTTACAG
* * * * *
32273 ATGACTCGAAGGATTTAATCATCATGCTCGAAAGACTTACTG
1 ATGGCCCAAAGGACTT-ATCATCATGCTCGAAAGACTTACAG
32315 ATGGCCCAAAGGACTTA
1 ATGGCCCAAAGGACTTA
32332 CCAATTTGGG
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
41 13 0.28
42 34 0.72
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (41 bp):
ATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTTACAG
Found at i:32558 original size:42 final size:41
Alignment explanation
Indices: 32493--32588 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 41
32483 TTATGGATTG
*
32493 CCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATAA
1 CCCGAAGGACTTATCATCATGCTCGAAAGACTGACAGATAA
* * * *
32534 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGA
1 CCCGAAGGACTT-ATCATCATGCTCGAAAGACTGACAGATAA
*
32576 CCCGAATGACTTA
1 CCCGAAGGACTTA
32589 CCAATTTTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 12 0.26
42 35 0.74
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (41 bp):
CCCGAAGGACTTATCATCATGCTCGAAAGACTGACAGATAA
Found at i:37499 original size:59 final size:59
Alignment explanation
Indices: 37422--37875 Score: 677
Period size: 59 Copynumber: 7.8 Consensus size: 59
37412 ACACTAAGTA
37422 TGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* *
37480 TGCAAGAATGTTAAGAAATTCATAC-AAGTGTATGAATTTCCGTATTGCGCACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
*
37538 TGCAAAAATGTTAAGAAATTCATATTAAGTGTATGAATATT-CGTATTGGGCACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAAT-TTCCGTATTGGGCACTTTGTG
* * * * ** *
37597 TGTAAAAATGTTAAAAAATTCATACTAAGTGTCTAAATTTTTGTATTGGTCACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* *
37656 TGTAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGAACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* *
37715 TACAAAAATGTTAAGAAATTCATACTAAGTGTATGTATTTCCGTATTGGGCACTTTGTG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* * *
37774 TGC--AAATGTTAAAAAATTCATATTAAGTGTATGAATTTCCGTATTGGGCACTTTATG
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
* * *
37831 TGCAAAAA-GATAAGAAACTCGTACTAAGTGTATGAATTTCCGTAT
1 TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
37876 GGAAATATAT
Statistics
Matches: 357, Mismatches: 33, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
57 53 0.15
58 96 0.27
59 206 0.58
60 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (59 bp):
TGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTG
Found at i:38337 original size:136 final size:136
Alignment explanation
Indices: 38088--38342 Score: 422
Period size: 136 Copynumber: 1.9 Consensus size: 136
38078 AAAGATTAAT
* * *
38088 AGGCCTAACTGTGCATTTGACATAAAATTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
* *
38153 TTGAGGTCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGATAAGTG
66 TTGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTG
38218 CCTTTG
131 CCTTTG
**
38224 AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
*
38289 TTGAGGCCTAACTGTGCAATTTG-TAGAAAGGTGTCAATTATGCTAGTTAGATGA
66 TTGAGGCCTAACTGTGC-ATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGA
38343 GCGGTTAAAT
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
136 105 0.95
137 5 0.05
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (136 bp):
AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCT
TTGAGGCCTAACTGTGCATTTGATAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTG
CCTTTG
Found at i:38349 original size:68 final size:68
Alignment explanation
Indices: 38088--38361 Score: 379
Period size: 68 Copynumber: 4.0 Consensus size: 68
38078 AAAGATTAAT
* * * **
38088 AGGCCTAACTGTGCATTTGACATAAAATTGTCATTTATGCTAGTTAGATGAAAGACTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
38153 TTG
66 TTG
* * * *
38156 AGGTCTAACTGTGCATTTGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGATAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
38221 TTG
66 TTG
38224 AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
38289 TTG
66 TTG
* * * * ** *
38292 AGGCCTAACTGTGCAATTTG-TAGAAAGGTGTCAATTATGCTAGTTAGATGAGCGGTTAAATGCC
1 AGGCCTAACTGTGC-ATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCC
*
38356 GTTG
65 TTTG
38360 AG
1 AG
38362 TAAAAGAATA
Statistics
Matches: 185, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
68 180 0.97
69 5 0.03
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAAGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
TTG
Found at i:38429 original size:81 final size:81
Alignment explanation
Indices: 38293--38449 Score: 217
Period size: 81 Copynumber: 1.9 Consensus size: 81
38283 GTGCCTTTGA
* * * * **
38293 GGCCTAACTGTGCAATTTGTAGAAAGGTGTCAATTATGCTAGTTAGATGAGCGGTTAAATGCCGT
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCTAGTTAGAAGAACGGTTAAACACCGT
38358 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* * *
38374 GGCCTAATTGTGCAATTGGCAGAAATGTGTCAATTATG-TCAGTTAGAAGAACGGTTAAACACTG
1 GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCT-AGTTAGAAGAACGGTTAAACACCG
38438 TTGAGTAAAAGA
65 TTGAGTAAAAGA
38450 TGAAAGGTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
80 1 0.02
81 65 0.98
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTGGCAGAAAGGTGTCAATTATGCTAGTTAGAAGAACGGTTAAACACCGT
TGAGTAAAAGAATAAT
Found at i:38506 original size:29 final size:29
Alignment explanation
Indices: 38422--38507 Score: 136
Period size: 29 Copynumber: 3.0 Consensus size: 29
38412 TCAGTTAGAA
*
38422 GAACGGTTAAACACTGTTGAGTAAAAGAT
1 GAACGGTTAAACACTGTTGAGTAAAATAT
*
38451 GAAAGGTTAAACACTGTTGAGTAAAATAT
1 GAACGGTTAAACACTGTTGAGTAAAATAT
* *
38480 GAACGATTAACCACTGTTGAGTAAAATA
1 GAACGGTTAAACACTGTTGAGTAAAATA
38508 ATAATAGACT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (29 bp):
GAACGGTTAAACACTGTTGAGTAAAATAT
Found at i:43218 original size:41 final size:41
Alignment explanation
Indices: 43158--43240 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
43148 AATTCAGACT
*
43158 TAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAA
1 TAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGAAAAAA
*
43199 TAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAA
1 TAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGAAAAAA
43240 T
1 T
43241 GTTAAGAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.39
Consensus pattern (41 bp):
TAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGAAAAAA
Found at i:43292 original size:59 final size:59
Alignment explanation
Indices: 43200--43508 Score: 467
Period size: 59 Copynumber: 5.2 Consensus size: 59
43190 GTGCAAAAAT
43200 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAATGTTAAGAAATTCATACTA
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAATGTTAAGAAATTCATACTA
*
43259 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTA
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAATGTTAAGAAATTCATACTA
* *
43318 AGTGTATGCATTTTCGTATTGGGCACTTTGTGTGAAAAAAAATGTTTAGAAATTCATACTA
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTG--AAAAAATGTTAAGAAATTCATACTA
* * * * *
43379 AGTGTTTGAATTTCCGTATTAGGCACTTTGTGTGTAAAAATGTTAAGAAATTCATATTA
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAATGTTAAGAAATTCATACTA
* * * * * *
43438 AGTGTATGAATTTCCGTATTGGGCACTTTATGTGCAAAAA-GATAAGAAACTCGTACTA
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAATGTTAAGAAATTCATACTA
43496 AGTGTATGAATTT
1 AGTGTATGAATTT
43509 CTGTACGGGA
Statistics
Matches: 229, Mismatches: 19, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
58 27 0.12
59 149 0.65
61 53 0.23
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (59 bp):
AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAATGTTAAGAAATTCATACTA
Found at i:43411 original size:120 final size:119
Alignment explanation
Indices: 43200--43509 Score: 473
Period size: 120 Copynumber: 2.6 Consensus size: 119
43190 GTGCAAAAAT
43200 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTG-AAAAAATGTTAAGAAATTCATACTAAGTGT
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAAATGTTAAGAAATTCATACTAAGTGT
* *
43264 ATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTA
66 ATGAATTTCCGTATTAGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTA
* *
43318 AGTGTATGCATTTTCGTATTGGGCACTTTGTGTGAAAAAAAATGTTTAGAAATTCATACTAAGTG
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTG-AAAAAAATGTTAAGAAATTCATACTAAGTG
* * *
43383 TTTGAATTTCCGTATTAGGCACTTTGTGTGTAAAAATGTTAAGAAATTCATATTA
65 TATGAATTTCCGTATTAGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTA
* * * * * *
43438 AGTGTATGAATTTCCGTATTGGGCACTTTATGTG-CAAAAA-GATAAGAAACTCGTACTAAGTGT
1 AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAAATGTTAAGAAATTCATACTAAGTGT
43501 ATGAATTTC
66 ATGAATTTC
43510 TGTACGGGAA
Statistics
Matches: 174, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
117 27 0.16
118 38 0.22
120 109 0.63
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (119 bp):
AGTGTATGAATTTTCGTATTGGGCACTTTGTGTGAAAAAAATGTTAAGAAATTCATACTAAGTGT
ATGAATTTCCGTATTAGGCACTTTGTGTGCAAAAATGTTAAGAAATTCATACTA
Found at i:43844 original size:68 final size:68
Alignment explanation
Indices: 43733--43881 Score: 246
Period size: 68 Copynumber: 2.2 Consensus size: 68
43723 TTAATAGGCC
* *
43733 TAACTGTGCATTTGACAGAAAGATGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGGG
1 TAACTGTGCATTTGACAGAAAGATGTCATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTGAG
43798 GAA
66 GAA
43801 TAACTGTGCATTTGACAGAAATG-TGTCATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTGA
1 TAACTGTGCATTTGACAGAAA-GATGTCATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTGA
**
43865 GGCC
65 GGAA
43869 TAACTGTGCATTT
1 TAACTGTGCATTT
43882 ATGCCAGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
68 75 0.99
69 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (68 bp):
TAACTGTGCATTTGACAGAAAGATGTCATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTGAG
GAA
Found at i:43886 original size:50 final size:50
Alignment explanation
Indices: 43822--43928 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 50
43812 TTGACAGAAA
*
43822 TGTGTCATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAC
1 TGTG-CATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTCAGGCCTAAC
* * *
43873 TGTGCATTTATGCCAGTTGGATGAAAGGCTAAGTGCCTTTCAGGCTTAAC
1 TGTGCATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTCAGGCCTAAC
43923 TGTGCA
1 TGTGCA
43929 ATTGACAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGCATTTATGCCAGATAGATGAAAGGCTAAGTGCCTTTCAGGCCTAAC
Found at i:44084 original size:29 final size:29
Alignment explanation
Indices: 44051--44130 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 29
44041 TGAAGAATGA
*
44051 TTAAACACTATTGAGTAAAAGATGAAAGG
1 TTAAACACTGTTGAGTAAAAGATGAAAGG
* * *
44080 TTAAACACTGTTTAGTAAAATATGAACGG
1 TTAAACACTGTTGAGTAAAAGATGAAAGG
*
44109 TTAACCACTGTTGAGTAAAAGA
1 TTAAACACTGTTGAGTAAAAGA
44131 ATAATGGACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.28
Consensus pattern (29 bp):
TTAAACACTGTTGAGTAAAAGATGAAAGG
Found at i:53797 original size:20 final size:22
Alignment explanation
Indices: 53758--53797 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
53748 ACAGAATTCA
53758 AATTTGTGTTGCATAGGCAACG
1 AATTTGTGTTGCATAGGCAACG
*
53780 AATTTTTGTT-CA-AGGCAA
1 AATTTGTGTTGCATAGGCAA
53798 ACTCTTGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (22 bp):
AATTTGTGTTGCATAGGCAACG
Found at i:67215 original size:25 final size:26
Alignment explanation
Indices: 67184--67244 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
67174 AATCTTCTGA
*
67184 TATATTTTATTTTA-GTCCTTTACTT
1 TATATTTTATTTTATGTCATTTACTT
* *
67209 TATATTTTAATTTATTTCATTTACTT
1 TATATTTTATTTTATGTCATTTACTT
67235 T-TA-TTTATTT
1 TATATTTTATTT
67245 AATTTCAGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 6 0.19
25 15 0.48
26 10 0.32
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (26 bp):
TATATTTTATTTTATGTCATTTACTT
Found at i:67259 original size:14 final size:14
Alignment explanation
Indices: 67242--67291 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
67232 CTTTTATTTA
67242 TTTAATTTCAGTTC
1 TTTAATTTCAGTTC
67256 TTTAATTTCAGTTC
1 TTTAATTTCAGTTC
67270 TTTAATTTCA-TTAC
1 TTTAATTTCAGTT-C
67284 TTTAATTT
1 TTTAATTT
67292 TCTATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
13 2 0.06
14 33 0.94
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (14 bp):
TTTAATTTCAGTTC
Found at i:67259 original size:28 final size:28
Alignment explanation
Indices: 67214--67292 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
67204 TACTTTATAT
* *
67214 TTTAATTT-ATTTCATTTACTTTTATTTA
1 TTTAATTTCAGTTC-TTTAATTTTATTTA
* * *
67242 TTTAATTTCAGTTCTTTAATTTCAGTTC
1 TTTAATTTCAGTTCTTTAATTTTATTTA
67270 TTTAATTTCA-TTACTTTAATTTT
1 TTTAATTTCAGTT-CTTTAATTTT
67293 CTATTTTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
27 2 0.05
28 37 0.86
29 4 0.09
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTAATTTCAGTTCTTTAATTTTATTTA
Found at i:69534 original size:14 final size:14
Alignment explanation
Indices: 69507--69543 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
69497 GTTGCATTTA
69507 CATTTTCA--TTTG
1 CATTTTCATTTTTG
69519 CATTTTCATTTTTG
1 CATTTTCATTTTTG
*
69533 CATTTGCATTT
1 CATTTTCATTT
69544 GCATATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
14 14 0.64
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.59
Consensus pattern (14 bp):
CATTTTCATTTTTG
Found at i:69538 original size:6 final size:6
Alignment explanation
Indices: 69498--69547 Score: 55
Period size: 6 Copynumber: 8.0 Consensus size: 6
69488 AATACCTTCG
* * *
69498 TTGCAT TTACAT TTTCAT TTGCAT TTTCATTT TTGCAT TTGCAT TTGCAT
1 TTGCAT TTGCAT TTGCAT TTGCAT TTGCA--T TTGCAT TTGCAT TTGCAT
69548 ATTTGCATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
6 32 0.86
8 5 0.14
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.56
Consensus pattern (6 bp):
TTGCAT
Found at i:69538 original size:20 final size:20
Alignment explanation
Indices: 69498--69555 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
69488 AATACCTTCG
69498 TTGCATTTACA-TTTT-CAT
1 TTGCATTTACATTTTTGCAT
*
69516 TTGCATTTTCATTTTTGCAT
1 TTGCATTTACATTTTTGCAT
* *
69536 TTGCATTTGCATATTTGCAT
1 TTGCATTTACATTTTTGCAT
69556 AGTTACATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 10 0.29
19 4 0.11
20 21 0.60
ACGTcount: A:0.19, C:0.16, G:0.10, T:0.55
Consensus pattern (20 bp):
TTGCATTTACATTTTTGCAT
Found at i:71560 original size:13 final size:13
Alignment explanation
Indices: 71538--71576 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
71528 TGCTCAAAGT
*
71538 AAGAAGAAGAAAA
1 AAGAAAAAGAAAA
71551 AAGAAAAAGAAAAA
1 AAGAAAAAG-AAAA
71565 AAGAAAAA-AAAA
1 AAGAAAAAGAAAA
71577 TTGAATATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 8 0.33
14 12 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:74322 original size:42 final size:42
Alignment explanation
Indices: 74275--74429 Score: 222
Period size: 42 Copynumber: 3.7 Consensus size: 42
74265 GGGTCATCAG
*
74275 TAAATCTTTAGGGTCATCAGTAAGTCTTTTGAGTATGATGCT
1 TAAATCTTTAGGGTCATCAGTAAGTCTTTTGAGCATGATGCT
* *
74317 TAAATCCTTAGAGTCATCAGTAAGTCTTTTGAGCATGATGCT
1 TAAATCTTTAGGGTCATCAGTAAGTCTTTTGAGCATGATGCT
* * * *
74359 TAAATCATTCGGGTCATCAGTAAATCTTTCGAGCATGATGCT
1 TAAATCTTTAGGGTCATCAGTAAGTCTTTTGAGCATGATGCT
*
74401 TAAATCCTTTA-GGTCATCTGTAAGTCTTT
1 TAAAT-CTTTAGGGTCATCAGTAAGTCTTT
74430 CAAGCAAGAT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 97 0.97
43 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (42 bp):
TAAATCTTTAGGGTCATCAGTAAGTCTTTTGAGCATGATGCT
Found at i:74389 original size:20 final size:20
Alignment explanation
Indices: 74255--74387 Score: 81
Period size: 20 Copynumber: 6.5 Consensus size: 20
74245 GCATGATGCT
* *
74255 TAAATCCTTAGGGTCATCAG
1 TAAATCTTTAGAGTCATCAG
*
74275 TAAATCTTTAGGGTCATCAG
1 TAAATCTTTAGAGTCATCAG
* * *
74295 TAAGTCTTTTGAGT-ATGATG
1 TAAATCTTTAGAGTCATCA-G
*
74315 CTTAAATCCTTAGAGTCATCAG
1 --TAAATCTTTAGAGTCATCAG
* * *
74337 TAAGTCTTTTGAG-CATGATG
1 TAAATCTTTAGAGTCATCA-G
* * *
74357 CTTAAATCATTCGGGTCATCAG
1 --TAAATCTTTAGAGTCATCAG
74379 TAAATCTTT
1 TAAATCTTT
74388 CGAGCATGAT
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
19 7 0.08
20 50 0.58
22 22 0.26
23 7 0.08
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (20 bp):
TAAATCTTTAGAGTCATCAG
Found at i:74404 original size:22 final size:22
Alignment explanation
Indices: 74299--74406 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
74289 CATCAGTAAG
* *
74299 TCTTTTGAGTATGATGCTTAAA
1 TCTTTCGAGCATGATGCTTAAA
* * * *
74321 TCCTTAGAGTCATCA-G--TAAG
1 TCTTTCGAG-CATGATGCTTAAA
*
74341 TCTTTTGAGCATGATGCTTAAA
1 TCTTTCGAGCATGATGCTTAAA
* * *
74363 TCATTCGGGTCATCA-G--TAAA
1 TCTTTCGAG-CATGATGCTTAAA
74383 TCTTTCGAGCATGATGCTTAAA
1 TCTTTCGAGCATGATGCTTAAA
74405 TC
1 TC
74407 CTTTAGGTCA
Statistics
Matches: 62, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
19 8 0.13
20 23 0.37
22 24 0.39
23 7 0.11
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (22 bp):
TCTTTCGAGCATGATGCTTAAA
Found at i:74643 original size:37 final size:34
Alignment explanation
Indices: 74560--74644 Score: 89
Period size: 37 Copynumber: 2.4 Consensus size: 34
74550 CCCGAAATAG
* *
74560 AAATTTTATTTCACTCGAGATAGTTTCTTAAAAC
1 AAATTTTATCTCACTCGAGATAGTTTCTCAAAAC
* * * *
74594 AAACTTTGTCTCACTTGAGATAATTTTCCCTCAAAAC
1 AAATTTTATCTCACTCGAGAT-AGTTT--CTCAAAAC
74631 AAATTTTATCTCAC
1 AAATTTTATCTCAC
74645 CTAAGATAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
34 17 0.43
35 4 0.10
37 19 0.47
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTTTATCTCACTCGAGATAGTTTCTCAAAAC
Found at i:74665 original size:37 final size:37
Alignment explanation
Indices: 74589--74665 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
74579 ATAGTTTCTT
* * * * *
74589 AAAACAAACTTTGTCTCACTTGAGATAATTTTCCCTC
1 AAAACAAACTTTATCTCACCTAAGATAAGTTCCCCTC
*
74626 AAAACAAATTTTATCTCACCTAAGAT-AGTTCCCCTTC
1 AAAACAAACTTTATCTCACCTAAGATAAGTTCCCC-TC
74663 AAA
1 AAA
74666 CCAATTTCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
36 6 0.18
37 27 0.82
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (37 bp):
AAAACAAACTTTATCTCACCTAAGATAAGTTCCCCTC
Found at i:75024 original size:123 final size:123
Alignment explanation
Indices: 74804--75731 Score: 1296
Period size: 123 Copynumber: 7.6 Consensus size: 123
74794 TTCAATGGGA
* * *
74804 GAGTTCATAATGAAAAGAACTCATCTGAAAAGGAAGAAGAAA-TTCATAATGAGAAGAACTTGGT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA-AAAGTTCATAATGAGAAGAACTTGTT
* *
74868 CAACCTTTTGCTCAACTCTATCGCAGAAAGAGATAGATCAACATCAACATTTCCAGAAG
65 CAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAACATTTCCAGAAG
* * *
74927 GAGTTCATAATGAGAAGAACTCATCCGAAGAGGAAGAAAAAGTTCTTAATGAGAAGAACTTGGTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* * * *
74992 AACCTTTTGCTCGAGTCTATCGCAGAATGAGATAGATCAGCATCAACATTTCCAAAAG
66 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAACATTTCCAGAAG
* * * * **
75050 GAGTTTATAATGAGAAGAACCCATATGAAAAGGAAGACGAAGTTCATAAT--G-AGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
*
75112 AACCTTTTGCTCGACTCTATCACAGAAGGAGATAGAT-AAGCATCAACATTTCCAGAAG
66 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAA-CATCAACATTTCCAGAAG
* * *
75170 AAGTTCATAATGAGAAGAACTCATCTAAAGAGGAAGAAAAAGTTCATAATGCGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* * * *
75235 AACCTTTTGCTCAACTCTATCGCAGAAGGAGATAGATCAACATCAATATTTCCAAAAT
66 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAACATTTCCAGAAG
* * *
75293 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* * * * * * * *
75358 AACCTTTTACTCGACTCTATCACAGAAAGAGATAGATCAGCATAAATATTTCTAGAAA
66 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAACATTTCCAGAAG
*
75416 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* * * * * *
75481 AACCTTTTTCTCGACTCTATC-CTAGAAGGAGATAAATTAA-ATTCAAAATTTTCAAAAG
66 AACCTTTTGCTCGACTCTATCGC-AGAAGGAGATAGATCAACA-TCAACATTTCCAGAAG
* *
75539 GACTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
* *
75604 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAAATCAACATCAATATTTCCAGAAG
66 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAACATTTCCAGAAG
* * * *
75662 AAGTTCATAATGAGAATAACTCATCTGAAGTGGAAG-AAGAGTTCATAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
75726 AACCTT
66 AACCTT
75732 AGCTCGATTC
Statistics
Matches: 719, Mismatches: 76, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
119 1 0.00
120 103 0.14
121 1 0.00
122 38 0.05
123 572 0.80
124 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (123 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAACATTTCCAGAAG
Found at i:75474 original size:246 final size:246
Alignment explanation
Indices: 74804--76424 Score: 1398
Period size: 246 Copynumber: 6.4 Consensus size: 246
74794 TTCAATGGGA
* * *
74804 GAGTTCATAATGAAAAGAACTCATCTGAAAAGGAAGAAGAAATTCATAATGAGAAGAACTTGGTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * *
74869 AACCTTTTGCTCAACTCTATCGCAGAAAGAGATAGATCAACATCAACATTTCCAGAAGGAGTTCA
66 AACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAGAAGAAGTTCA
* * *
74934 TAATGAGAAGAACTCATCCGAAGAGGAAGAAAAAGTTCTTAATGAGAAGAACTTGGTCAACCTTT
131 TAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
* * * *
74999 TGCTCGAGTCTATCGCAGAATGAGATAGATCAGCATCAACATTTCCAAAAG
196 TGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAAAATTTCCAAAAG
* * * *
75050 GAGTTTATAATGAGAAGAACCCATATGAAAAGGAAGACGAAGTTCATAAT--G-AGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
75112 AACCTTTTGCTCGACTCTATCACAGAAGGAGATAGAT-AAGCATCAACATTTCCAGAAGAAGTTC
66 AACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCAA-CATCAACATTTCCAGAAGAAGTTC
* *
75176 ATAATGAGAAGAACTCATCTAAAGAGGAAGAAAAAGTTCATAATGCGAAGAACTTGTTCAACCTT
130 ATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTT
* * *
75241 TTGCTCAACTCTATCGCAGAAGGAGATAGATCAACATCAATATTTCCAAAAT
195 TTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAAAATTTCCAAAAG
* * *
75293 GAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * *
75358 AACCTTTTACTCGACTCTATCACAGAAAGAGATAGATCAGCATAAATATTTCTAGAA-AGAGTTC
66 AACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAGAAGA-AGTTC
*
75422 ATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTT
130 ATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTT
* * * *
75487 TTTCTCGACTCTATC-CTAGAAGGAGATAAATTAA-ATTCAAAATTTTCAAAAG
195 TTGCTCGACTCTATCGC-AGAAGGAGATAGATCAACA-TCAAAATTTCCAAAAG
* *
75539 GACTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
75604 AACCTTTTGCTCGACTCTATCGCAGAAGGAGATAAATCAACATCAATATTTCCAGAAGAAGTTCA
66 AACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAGAAGAAGTTCA
* * *
75669 TAATGAGAATAACTCATCTGAAGTGGAAG-AAGAGTTCATAATGAGAAGAACTTGTTCAACC-TT
131 TAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
* * * * * *
75732 AGCTCGATTC-ATCCCATATGGAGTTAAGTCAATGACACCTCATTTGAGGCATCAAAATTTCCAG
196 TGCTCGACTCTATCGCAGAAGGAG---A-T--A-G--A--TCA----A--CATCAAAATTTCCAA
75796 AAG
244 AAG
* * * * * * *
75799 AAGTTCATAATTAGAAGAACTTATTTGAAGAGGAAGAAAAAGTTCAAAATGAGAAGAACTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * * *
75864 AACCTTGT-CTTGATTC-ATCGCATATAGAGTTGAATCAGTGACACCTAACTCGAGGAATCAACA
66 AACCTTTTGCTCGACTCTATCACAGA-A-AG-AG-AT-A--G--ATC-AA--C-----ATCAACA
* * *
75927 TTTCCAGAAGAAGTTCTTAATGAGAAGAACTCATCTGAAGAGGATGAAAAAGTTCATAATGATAA
114 TTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAA
* * * * ** * * *
75992 GAACTTGTTCAA-CTTTAGC-CTAATTTATCATATATGGAG-TTGAATCACTAACACCTCACTCG
179 GAACTTGTTCAACCTTTTGCTCGACTCTATCGCAGAAGGAGATAG-AT--C--A-A---CA-TC-
76054 AGGGATCAATATTTCCAATGAA-
233 ----A--AA-ATTTCCAA--AAG
* *** * * * *
76076 GAGTTCAAAATGAGAAGAACTTGCCCGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTCC
1 GAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * *
76141 AACCTTTTGCTTGA-TCTATCGCAG-AAGAAGATAGATCAACATCAATATTT--ATAAGGAGAGT
66 AACCTTTTGCTCGACTCTATCACAGAAAG-AGATAGATCAACATCAACATTTCCAGAA-GA-AGT
* * ** * * *
76202 TCATAGTGAGAAGAACTCACCCAAATAGG--GAATATAAGTTTATAATGAGAAAAACTTGTTCAA
128 TCATAATGAGAAGAACTCATCTGAAGAGGAAGAA-A-AAGTTCATAATGAGAAGAACTTGTTCAA
* * * ** * * *
76265 CCTTTTGCTAGATTCCATCATAGAATGAGATGGATCAACAT-----TTT-CAATGAAA
191 CCTTTTGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAAAATTTCCAA--AAG
* * * * *
76317 GAGTTCATAATAAGAAGAACTCGTCCGGAAAA-GAATAATAAGTTCATAATGAGAAGAACTTGTT
1 GAGTTCATAATGAGAAGAACTCAT-CTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
* **
76381 CATCCTTTTGCTTTA-TCTATCACAGAGGAAGAG--AGATCAACATC
65 CAACCTTTTGCTCGACTCTATCACAGA--AAGAGATAGATCAACATC
76425 GATATTGTCA
Statistics
Matches: 1150, Mismatches: 147, Indels: 161
0.79 0.10 0.11
Matches are distributed among these distances:
240 7 0.01
241 85 0.07
242 7 0.01
243 229 0.20
244 14 0.01
245 34 0.03
246 357 0.31
247 3 0.00
249 1 0.00
252 1 0.00
254 3 0.00
255 2 0.00
258 9 0.01
259 14 0.01
260 83 0.07
261 63 0.05
262 8 0.01
263 15 0.01
264 2 0.00
265 1 0.00
266 2 0.00
267 6 0.01
268 7 0.01
269 3 0.00
270 1 0.00
271 2 0.00
273 2 0.00
274 2 0.00
275 57 0.05
276 52 0.05
277 65 0.06
278 13 0.01
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (246 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACCTTTTGCTCGACTCTATCACAGAAAGAGATAGATCAACATCAACATTTCCAGAAGAAGTTCA
TAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
TGCTCGACTCTATCGCAGAAGGAGATAGATCAACATCAAAATTTCCAAAAG
Found at i:75894 original size:138 final size:138
Alignment explanation
Indices: 75644--76163 Score: 627
Period size: 138 Copynumber: 3.8 Consensus size: 138
75634 GATAAATCAA
* * *
75644 CATCAATATTTCCAGAAGAAGTTCATAATGAGAATAACTCATCTGAAGTGGAAG-AAGAGTTCAT
1 CATCAATATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCAT
* *
75708 AATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCCCATATGGAGTT-AAGTCAATGACACCT
66 AATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCGCATATGGAGTTGAA-TCAATGACACCT
* *
75772 CATTTGAGG
130 CACTCGAGG
* * * * *
75781 CATCAAAATTTCCAGAAGAAGTTCATAATTAGAAGAACTTATTTGAAGAGGAAGAAAAAGTTCAA
1 CATCAATATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCAT
* *
75846 AATGAGAAGAACTTGTTCAACCTT-GTCTTGATTCATCGCATATAGAGTTGAATCAGTGACACCT
66 AATGAGAAGAACTTGTTCAACCTTAG-CTTGATTCATCGCATATGGAGTTGAATCAATGACACCT
*
75910 AACTCGAGG
130 CACTCGAGG
* * * *
75919 AATCAACATTTCCAGAAGAAGTTCTTAATGAGAAGAACTCATCTGAAGAGGATGAAAAAGTTCAT
1 CATCAATATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCAT
* * * * * ** * *
75984 AATGATAAGAACTTGTTCAACTTTAGCCTAATTTATCATATATGGAGTTGAATCACTAACACCTC
66 AATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCGCATATGGAGTTGAATCAATGACACCTC
76049 ACTCGAGG
131 ACTCGAGG
* * *** *
76057 GATCAATATTTCCAATGAAG-AGTTCAAAATGAGAAGAACTTGCCCGAAGAGGAAGAAAAAGTTC
1 CATCAATATTTCC-A-GAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTC
* *
76121 ATAATGAGAAGAACTTGTCCAACCTTTTGCTTGA-TCTATCGCA
64 ATAATGAGAAGAACTTGTTCAACC-TTAGCTTGATTC-ATCGCA
76164 GAAGAAGATA
Statistics
Matches: 323, Mismatches: 52, Indels: 13
0.83 0.13 0.03
Matches are distributed among these distances:
137 49 0.15
138 197 0.61
139 63 0.20
140 14 0.04
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (138 bp):
CATCAATATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTAGCTTGATTCATCGCATATGGAGTTGAATCAATGACACCTC
ACTCGAGG
Found at i:76366 original size:119 final size:116
Alignment explanation
Indices: 76056--76423 Score: 325
Period size: 119 Copynumber: 3.1 Consensus size: 116
76046 CTCACTCGAG
* * * * * * *
76056 GGATCAATATTTCCAATG-AAGAGTTCAAAATGAGAAGAACTTGCCCGAAGAGGAAGAAAAAGTT
1 GGATCAACATTTTCAATGAAAGAGTTCATAATGAGAAGAACTCG-CCGAA-AAGAATAATAAGTT
* * * *
76120 CATAATGAGAAGAACTTGTCCAACCTTTTGCTTGATCTATCGCAGAAGAAGAT
64 CATAATGAGAAGAACTTGTTCAACCTTTTGCTAGATCCATCACAGAAGAAGAT
* * * * *
76173 AGATCAACATCAATATT-TAT-AAGGAGAGTTCATAGTGAGAAGAACTCACCCAAATAGGGAAT-
1 GGATCAACAT---T-TTCAATGAA--AGAGTTCATAATGAGAAGAACTCGCCGAAA-A--GAATA
* * *
76235 ATAAGTTTATAATGAGAAAAACTTGTTCAACCTTTTGCTAGATTCCATCATAGAATG-AGAT
57 ATAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTAGA-TCCATCACAGAA-GAAGAT
*
76296 GGATCAACATTTTCAATGAAAGAGTTCATAATAAGAAGAACTCGTCCGGAAAAGAATAATAAGTT
1 GGATCAACATTTTCAATGAAAGAGTTCATAATGAGAAGAACTCG-CC-GAAAAGAATAATAAGTT
* ** * *
76361 CATAATGAGAAGAACTTGTTCATCCTTTTGCTTTATCTATCACAGAGGAAGA-
64 CATAATGAGAAGAACTTGTTCAACCTTTTGCTAGATCCATCACAGAAGAAGAT
76413 GAGATCAACAT
1 G-GATCAACAT
76424 CGATATTGTC
Statistics
Matches: 199, Mismatches: 33, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
117 10 0.05
118 25 0.13
119 60 0.30
120 11 0.06
121 10 0.05
122 57 0.29
123 25 0.13
124 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (116 bp):
GGATCAACATTTTCAATGAAAGAGTTCATAATGAGAAGAACTCGCCGAAAAGAATAATAAGTTCA
TAATGAGAAGAACTTGTTCAACCTTTTGCTAGATCCATCACAGAAGAAGAT
Found at i:77970 original size:25 final size:26
Alignment explanation
Indices: 77941--78002 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 26
77931 AATCTTCTGA
*
77941 TATATTTTATTTTA-GTCCTTTACTT
1 TATATTTTATTTTATGTCATTTACTT
*
77966 TATATTTTAATTTATGTCATTTACTT
1 TATATTTTATTTTATGTCATTTACTT
*
77992 TTTA-TTTATTT
1 TATATTTTATTT
78003 AATTTCAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (26 bp):
TATATTTTATTTTATGTCATTTACTT
Found at i:77988 original size:26 final size:25
Alignment explanation
Indices: 77941--77998 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
77931 AATCTTCTGA
* *
77941 TATATTTTATTTTAGTCCTTTACTT
1 TATATTTTAATTTAGTCATTTACTT
77966 TATATTTTAATTTATGTCATTTACTT
1 TATATTTTAATTTA-GTCATTTACTT
*
77992 TTTATTT
1 TATATTT
77999 ATTTAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.22, C:0.09, G:0.03, T:0.66
Consensus pattern (25 bp):
TATATTTTAATTTAGTCATTTACTT
Found at i:78019 original size:14 final size:14
Alignment explanation
Indices: 78000--78035 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
77990 TTTTTATTTA
78000 TTTAATTTCAGTT-C
1 TTTAATTTCA-TTAC
78014 TTTAATTTCATTAC
1 TTTAATTTCATTAC
78028 TTTAATTT
1 TTTAATTT
78036 TCTATTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTAATTTCATTAC
Found at i:82853 original size:24 final size:24
Alignment explanation
Indices: 82821--82878 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
82811 TACAGAGGCC
82821 TGTGCTTTTGCAGCATACGAAACT
1 TGTGCTTTTGCAGCATACGAAACT
* *
82845 TGTGCTTTTGCAGCATATGAAGCT
1 TGTGCTTTTGCAGCATACGAAACT
82869 TGTGCTTTTG
1 TGTGCTTTTG
82879 GTTATCGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (24 bp):
TGTGCTTTTGCAGCATACGAAACT
Found at i:83710 original size:29 final size:29
Alignment explanation
Indices: 83654--83708 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
83644 ATAGTTAAAA
* *
83654 AATAAATGAAAATAAATAAAAATTAAATG
1 AATAAAAGAAAATAAAGAAAAATTAAATG
*
83683 AATAAAAG-AAATAAAGGAAAATTAAA
1 AATAAAAGAAAATAAAGAAAAATTAAA
83709 ATTAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (29 bp):
AATAAAAGAAAATAAAGAAAAATTAAATG
Found at i:84886 original size:5 final size:5
Alignment explanation
Indices: 84878--84945 Score: 52
Period size: 5 Copynumber: 12.8 Consensus size: 5
84868 AAATATAGTG
84878 TATAA TATAA TAATAA TATAA TACTAA TTTATAA TACT-A TATAA CTAT-A
1 TATAA TATAA T-ATAA TATAA TA-TAA --TATAA TA-TAA TATAA -TATAA
84927 TAATAA TAT-A TATAA TATA
1 T-ATAA TATAA TATAA TATA
84946 TAACATAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 20
0.73 0.00 0.27
Matches are distributed among these distances:
4 6 0.11
5 28 0.53
6 14 0.26
7 3 0.06
8 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:84892 original size:8 final size:8
Alignment explanation
Indices: 84879--84959 Score: 53
Period size: 8 Copynumber: 9.8 Consensus size: 8
84869 AATATAGTGT
84879 ATAATATA
1 ATAATATA
84887 ATAATA-A
1 ATAATATA
84894 TATAATACTA
1 -ATAATA-TA
*
84904 AT-TTATA
1 ATAATATA
84911 ATACTATATA
1 ATA--ATATA
84921 ACT-ATATA
1 A-TAATATA
84929 ATAATATA
1 ATAATATA
84937 TATAATAT-
1 -ATAATATA
*
84945 ATAACATAA
1 ATAATAT-A
84954 ATAATA
1 ATAATA
84960 ATAAGCTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 21
0.70 0.05 0.25
Matches are distributed among these distances:
7 12 0.21
8 25 0.43
9 14 0.24
10 6 0.10
11 1 0.02
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:84921 original size:34 final size:34
Alignment explanation
Indices: 84882--84985 Score: 95
Period size: 37 Copynumber: 2.9 Consensus size: 34
84872 ATAGTGTATA
* *
84882 ATATAATAATAAT-ATA-ATACTAATTTATAATACT
1 ATATAATAATAATAATATATA-TAATATATAACA-T
84916 ATATAACTATATAATAATATATATAATATATAACAT
1 ATATAA-TA-ATAATAATATATATAATATATAACAT
*
84952 AAATAATAATAAGCTTAATATATATATATATATA
1 ATATAATAATAA---TAATATATATA-ATATATA
84986 TATACTTTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
34 10 0.17
35 4 0.07
36 11 0.19
37 24 0.41
38 10 0.17
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (34 bp):
ATATAATAATAATAATATATATAATATATAACAT
Found at i:84928 original size:18 final size:19
Alignment explanation
Indices: 84878--84985 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 19
84868 AAATATAGTG
84878 TATAATATAATAATAATATAA
1 TATAATAT-ATAATAATAT-A
* *
84899 TACTAATTTATAATACTATA
1 TA-TAATATATAATAATATA
*
84919 TA-ACTATATAATAATATA
1 TATAATATATAATAATATA
*
84937 TATAATATATAA-CATA-A
1 TATAATATATAATAATATA
84954 -ATAATA-ATAAGCTTAATATA
1 TATAATATATAA---TAATATA
84974 TATATATATATA
1 TATA-ATATATA
84986 TATACTTTAA
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
15 4 0.06
16 6 0.09
17 1 0.01
18 18 0.26
19 11 0.16
20 4 0.06
21 14 0.20
22 8 0.12
23 3 0.04
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (19 bp):
TATAATATATAATAATATA
Found at i:84975 original size:28 final size:27
Alignment explanation
Indices: 84882--84962 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 27
84872 ATAGTGTATA
* *
84882 ATATAATA-ATAA-TATAATACTAATTT
1 ATATAATATATAACTA-AATAATAATAT
* *
84908 ATAATACTATATAACTATATAATAATAT
1 AT-ATAATATATAACTAAATAATAATAT
84936 ATATAATATATAACATAAATAATAATA
1 ATATAATATATAAC-TAAATAATAATA
84963 AGCTTAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
26 2 0.04
27 16 0.36
28 25 0.56
29 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATAATATATAACTAAATAATAATAT
Found at i:85011 original size:71 final size:69
Alignment explanation
Indices: 84932--85075 Score: 152
Period size: 71 Copynumber: 2.1 Consensus size: 69
84922 CTATATAATA
*
84932 ATAT-ATATAATATA-TAACATAAAT-A-ATAATAAGCTTAATATATATATATATATATATACTT
1 ATATAATATAATATATTAACA-AAATCATATAATAAG-TT-ATATATATAT-TACATATAT-CTT
84993 TAAAAAACT
61 TAAAAAACT
* ** * * *
85002 ATATAATATATTATATTTTCAAAATCATATAATATGTTATATATATATTACATATGTTTTTAAAA
1 ATATAATATAATATATTAACAAAATCATATAATAAGTTATATATATATTACATATATCTTTAAAA
85067 AACT
66 AACT
85071 ATATA
1 ATATA
85076 TATGTTTTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
69 16 0.25
70 11 0.17
71 23 0.37
72 6 0.10
73 7 0.11
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (69 bp):
ATATAATATAATATATTAACAAAATCATATAATAAGTTATATATATATTACATATATCTTTAAAA
AACT
Found at i:85025 original size:26 final size:25
Alignment explanation
Indices: 84971--85043 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 25
84961 TAAGCTTAAT
84971 ATATATATATATATATATACTTTAAAAA
1 ATATATA-ATATAT-TATA-TTTAAAAA
**
84999 ACTATATAATATATTATATTTTCAAA
1 A-TATATAATATATTATATTTAAAAA
*
85025 ATCATATAATATGTTATAT
1 AT-ATATAATATATTATAT
85044 ATATATTACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.03
26 22 0.55
27 4 0.10
28 7 0.17
29 6 0.15
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (25 bp):
ATATATAATATATTATATTTAAAAA
Found at i:85076 original size:20 final size:20
Alignment explanation
Indices: 85053--85164 Score: 82
Period size: 22 Copynumber: 5.1 Consensus size: 20
85043 TATATATTAC
85053 ATATGTTTTTAAAAAACTATAT
1 ATATG-TTTT-AAAAACTATAT
*
85075 ATATGTTTTCAAAACTATATAAT
1 ATATGTTTTAAAAAC--TAT-AT
85098 AATATGTTTTAAAAACTATACT
1 -ATATGTTTTAAAAACTATA-T
* *
85120 ATATATTTTCAAAAACCATAT
1 ATATGTTTT-AAAAACTATAT
*
85141 ATTAT-TTTTGATCAAACTATAT
1 A-TATGTTTT-A-AAAACTATAT
85163 AT
1 AT
85165 TATCATGTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 17
0.76 0.07 0.17
Matches are distributed among these distances:
20 5 0.07
21 21 0.28
22 33 0.44
23 2 0.03
24 14 0.19
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (20 bp):
ATATGTTTTAAAAACTATAT
Found at i:85094 original size:45 final size:44
Alignment explanation
Indices: 85043--85142 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
85033 ATATGTTATA
*
85043 TATATATTACATATGTTTTTAAAAAACTATA-TATATGTTTTCAAAAC
1 TATATA-TA-ATATG-TTTT-AAAAACTATACTATATATTTTCAAAAC
85090 TATATAATAATATGTTTTAAAAACTATACTATATATTTTCAAAAAC
1 TATAT-ATAATATGTTTTAAAAACTATACTATATATTTTC-AAAAC
*
85136 CATATAT
1 TATATAT
85143 TATTTTTGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
44 10 0.21
45 16 0.33
46 14 0.29
47 7 0.15
48 1 0.02
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (44 bp):
TATATATAATATGTTTTAAAAACTATACTATATATTTTCAAAAC
Found at i:86106 original size:4 final size:4
Alignment explanation
Indices: 86097--86123 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
86087 TAACATTGCA
86097 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
86124 GAGTGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:87761 original size:21 final size:20
Alignment explanation
Indices: 87719--87771 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
87709 ATATTTCGTT
*
87719 TTATTTTAATTTTGTCACTG
1 TTATTTTAATTTAGTCACTG
87739 TTACTTTCTAATTTAGT-ACTG
1 TTA-TTT-TAATTTAGTCACTG
87760 TTATTTTAATTT
1 TTATTTTAATTT
87772 TTGCATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 6 0.20
20 6 0.20
21 10 0.33
22 8 0.27
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.60
Consensus pattern (20 bp):
TTATTTTAATTTAGTCACTG
Found at i:87797 original size:50 final size:48
Alignment explanation
Indices: 87727--87856 Score: 134
Period size: 51 Copynumber: 2.6 Consensus size: 48
87717 TTTTATTTTA
* * ** *
87727 ATTTTGTCACTGTTACTTTCTAATTTAGTACTGTTATTTTAATTTTTGC
1 ATTTTGTCACTCTTA-TTTCTGATTTAGTACACTTATTTTAATTTTCGC
* * *
87776 ATTTTAGTCACTTTTAGTTTCTGATTTTGCTACACTTATTTTAATTTTCGT
1 ATTTT-GTCACTCTTA-TTTCTGATTTAG-TACACTTATTTTAATTTTCGC
87827 ATTTTGGTCACTGCTTATTTCTGATTTAGT
1 ATTTT-GTCACT-CTTATTTCTGATTTAGT
87857 TACTAACTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
49 5 0.07
50 20 0.30
51 39 0.58
52 3 0.04
ACGTcount: A:0.19, C:0.13, G:0.12, T:0.56
Consensus pattern (48 bp):
ATTTTGTCACTCTTATTTCTGATTTAGTACACTTATTTTAATTTTCGC
Found at i:88034 original size:15 final size:15
Alignment explanation
Indices: 88014--88057 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
88004 GTCCTTGTAC
88014 TTATTTTATTTTATG
1 TTATTTTATTTTATG
88029 TTA-TTTATTTTACTG
1 TTATTTTATTTTA-TG
88044 TT-TTTATATTTTAT
1 TTATTT-TATTTTAT
88058 TATTTACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.35
15 10 0.38
16 7 0.27
ACGTcount: A:0.20, C:0.02, G:0.05, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTTATG
Found at i:88037 original size:14 final size:14
Alignment explanation
Indices: 88018--88057 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
88008 TTGTACTTAT
88018 TTTATTTTATGTTA
1 TTTATTTTATGTTA
*
88032 TTTATTTTACTGTTT
1 TTTATTTTA-TGTTA
88047 TTATATTTTAT
1 TT-TATTTTAT
88058 TATTTACTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 7 0.30
16 7 0.30
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (14 bp):
TTTATTTTATGTTA
Found at i:88081 original size:28 final size:30
Alignment explanation
Indices: 88019--88084 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
88009 TGTACTTATT
* *
88019 TTATTTTATGTTATTTATTTTACTGTTTTTA
1 TTATTTTA-GTTATTTATCTTACTGTTTTAA
*
88050 -TATTTTA-TTATTTA-CTTATTGTTTTAA
1 TTATTTTAGTTATTTATCTTACTGTTTTAA
88077 TTATTTTA
1 TTATTTTA
88085 ATTAAGTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 10 0.32
28 14 0.45
30 7 0.23
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (30 bp):
TTATTTTAGTTATTTATCTTACTGTTTTAA
Found at i:111173 original size:111 final size:110
Alignment explanation
Indices: 110979--111202 Score: 376
Period size: 111 Copynumber: 2.0 Consensus size: 110
110969 CGAAGTGCTG
* *
110979 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCCCCTTTTATGCCGAAAATGCACCGTTA
1 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCATTA
* * *
111044 TGAATTAAGCAAAATCGATCGATAACTTTCATACACGAAGTATGTC
66 TGAATTAAACAAAATCGATCGAT-ACTATCATACACAAAGTATGTC
111090 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCATTA
1 AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCATTA
* *
111155 TGCATTAAACAAAATCGATCGATACTATCATGCACAAAGTATGTC
66 TGAATTAAACAAAATCGATCGATACTATCATACACAAAGTATGTC
111200 AAA
1 AAA
111203 GCCCTATAAC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 22 0.21
111 84 0.79
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (110 bp):
AAATGGTAATTCACCTCATTATGAATACCATGGGTGGCACCTTTTATGCCGAAAATGCACCATTA
TGAATTAAACAAAATCGATCGATACTATCATACACAAAGTATGTC
Done.