Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1147
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: 119499
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:3892 original size:728 final size:728
Alignment explanation
Indices: 2495--3953 Score: 2623
Period size: 728 Copynumber: 2.0 Consensus size: 728
2485 CTCGTTTTAG
*
2495 GCAGTCTTGCATCTAACGCGGACCATTACATAGGAAGCATTTCACCGGTTCCCCATCTTTCTCTT
1 GCAGTCTTGCATCTAACGCGGACCATTACATAGGAAGCATTTCACCGGTTCCCCATCTTTATCTT
2560 TCTCCCACAACTTGTAGGACTTTGGCTTCACAATTAGTGATTTTTCATCACCAATTTTGGCCTTT
66 TCTCCCACAACTTGTAGGACTTTGGCTTCACAATTAGTGATTTTTCATCACCAATTTTGGCCTTT
* * *
2625 TGATCTTTGACTCCCTTATAATTACCCTTGATCTTCGGCTTGGAAGACTCGGACTTATCTAACTT
131 TGATCTTTGACTCCCCTATAATTACCCTTGATCTTCAGCTTGGAAGACTCGGACTTATCTAACTC
2690 TTTTGTGCCAAACTCTATTAAGGACTTCGTCGTCATCATGGCTTTGGTCAAGTCCTGAACACCTC
196 TTTTGTGCCAAACTCTATTAAGGACTTCGTCGTCATCATGGCTTTGGTCAAGTCCTGAACACCTC
2755 TTCATTGCAACTCTTGTTTGGCCTGAGGTTATAATCCATCTTGTCGCAACGTGCGCTCAGCTTTT
261 TTCATTGCAACTCTTGTTTGGCCTGAGGTTATAATCCATCTTGTCGCAACGTGCGCTCAGCTTTT
* * *
2820 AAGGAAACTTCGAACGATCCGAAGAGCCAAAGCTCGCTTGACTTAAAATAAAAGGGGATAGTCAA
326 AAGGAAACTTCGAACGATCCAAAGAGCCAAAGCTCACTCGACTTAAAATAAAAGGGGATAGTCAA
*
2885 TATGCGAGGGTGAAAGATCATCGGACGAATCGCTCGTCCTATAAGTCTCGGGTGGTCATTACGAA
391 TATGCGAGGGTGAAAGACCATCGGACGAATCGCTCGTCCTATAAGTCTCGGGTGGTCATTACGAA
*
2950 ATAACCATGAACTTGGAGTCGCCACCGATCATTTCGGGCTAGGCATGATCGGATGCCTATTGAAA
456 ATAACCATGAACTTGGAGTCACCACCGATCATTTCGGGCTAGGCATGATCGGATGCCTATTGAAA
*
3015 CCTATGTTTTGAGTCACAAAACTCGAAACATTGATCTCGCGGTCTACGTAATTCAGAGATTCGTG
521 CCTATGTTTCGAGTCACAAAACTCGAAACATTGATCTCGCGGTCTACGTAATTCAGAGATTCGTG
* * *
3080 TTTGGGTTCGGGAGTTGGTTACGCGTGGGGAAGGATTAGCACCCCCACGACGCCCGAAATCGGTA
586 TTTGGGTTCGGGAGTTGGTTACGCATGGGGAAAGAATAGCACCCCCACGACGCCCGAAATCGGTA
*
3145 CCTTCTAACTATATCTTACTTAGATCTTGATTTTCTCGATTCCGTTTTTATCATTACTTAGATGT
651 CCTTCTAACTATATCTTACTTAGATCTTGATTTTCTCGATTCCATTTTTATCATTACTTAGATGT
3210 AATTCCCTCTAAT
716 AATTCCCTCTAAT
*
3223 GCAGTCTTGCATCTAATGCGGACCATTACATAGGAAGCATTTCACCGGTTCCCCATCTTTATCTT
1 GCAGTCTTGCATCTAACGCGGACCATTACATAGGAAGCATTTCACCGGTTCCCCATCTTTATCTT
*
3288 TCTCCCACAACTTGTAGGACTTTGGCTTCACAATTAGTGATTTTTCATCACCAATTTTGGCTTTT
66 TCTCCCACAACTTGTAGGACTTTGGCTTCACAATTAGTGATTTTTCATCACCAATTTTGGCCTTT
*
3353 TGATCTTTGACTCCCCTATAATTGCCCTTGATCTTCAGCTTGGAAGACTCGGACTTATCTAACTC
131 TGATCTTTGACTCCCCTATAATTACCCTTGATCTTCAGCTTGGAAGACTCGGACTTATCTAACTC
* * *
3418 TTTTGTGCCAAACTCTATTAAGGACTTTGTTGTCATCATGGCTTTGGTCAAGTCCTGAGCACCTC
196 TTTTGTGCCAAACTCTATTAAGGACTTCGTCGTCATCATGGCTTTGGTCAAGTCCTGAACACCTC
* *
3483 TTCATTGCAACTCTTGTTTGGCCTGAGGTTTTAATCCATCTTGTCGCAACGTGCGCTTAGCTTTT
261 TTCATTGCAACTCTTGTTTGGCCTGAGGTTATAATCCATCTTGTCGCAACGTGCGCTCAGCTTTT
*
3548 AAGGAAACTTCGAACGATCCAAAGAGCCAAAGCTCACTCGATTTAAAATAAAAGGGGATAGTCAA
326 AAGGAAACTTCGAACGATCCAAAGAGCCAAAGCTCACTCGACTTAAAATAAAAGGGGATAGTCAA
*
3613 TATGCGAGGGTGAAAGACCATCGGACGAATCGCTCTTCCTATAAGTCTCGGGTGGTCATTACGAA
391 TATGCGAGGGTGAAAGACCATCGGACGAATCGCTCGTCCTATAAGTCTCGGGTGGTCATTACGAA
* * * *
3678 ATGACTATGAACTTGGAGTCACCACCGATCATTTCGGGCTAGGCGTGATTGGATGCCTATTGAAA
456 ATAACCATGAACTTGGAGTCACCACCGATCATTTCGGGCTAGGCATGATCGGATGCCTATTGAAA
*
3743 CCTATGTTTCGAGTCACGAAACTCGAAACATTGATCTCGCGGTCTACGTAATTCAGAGATTCGTG
521 CCTATGTTTCGAGTCACAAAACTCGAAACATTGATCTCGCGGTCTACGTAATTCAGAGATTCGTG
*
3808 TTTGGGTTAC-GGAGTTGGTTACGCATGGGGAAAGAATAGCACCCCCACGATGCCCGAAATCGGT
586 TTTGGGTT-CGGGAGTTGGTTACGCATGGGGAAAGAATAGCACCCCCACGACGCCCGAAATCGGT
*
3872 ACCTTCTAACTATGTCTTACTTAGATCTTGATTTTCTCGATTCCATTTTTATCATTACTTAGATG
650 ACCTTCTAACTATATCTTACTTAGATCTTGATTTTCTCGATTCCATTTTTATCATTACTTAGATG
3937 TAATTCCCTCTAAT
715 TAATTCCCTCTAAT
3951 GCA
1 GCA
3954 TGAAGTTTTG
Statistics
Matches: 699, Mismatches: 31, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
728 698 1.00
729 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (728 bp):
GCAGTCTTGCATCTAACGCGGACCATTACATAGGAAGCATTTCACCGGTTCCCCATCTTTATCTT
TCTCCCACAACTTGTAGGACTTTGGCTTCACAATTAGTGATTTTTCATCACCAATTTTGGCCTTT
TGATCTTTGACTCCCCTATAATTACCCTTGATCTTCAGCTTGGAAGACTCGGACTTATCTAACTC
TTTTGTGCCAAACTCTATTAAGGACTTCGTCGTCATCATGGCTTTGGTCAAGTCCTGAACACCTC
TTCATTGCAACTCTTGTTTGGCCTGAGGTTATAATCCATCTTGTCGCAACGTGCGCTCAGCTTTT
AAGGAAACTTCGAACGATCCAAAGAGCCAAAGCTCACTCGACTTAAAATAAAAGGGGATAGTCAA
TATGCGAGGGTGAAAGACCATCGGACGAATCGCTCGTCCTATAAGTCTCGGGTGGTCATTACGAA
ATAACCATGAACTTGGAGTCACCACCGATCATTTCGGGCTAGGCATGATCGGATGCCTATTGAAA
CCTATGTTTCGAGTCACAAAACTCGAAACATTGATCTCGCGGTCTACGTAATTCAGAGATTCGTG
TTTGGGTTCGGGAGTTGGTTACGCATGGGGAAAGAATAGCACCCCCACGACGCCCGAAATCGGTA
CCTTCTAACTATATCTTACTTAGATCTTGATTTTCTCGATTCCATTTTTATCATTACTTAGATGT
AATTCCCTCTAAT
Found at i:4713 original size:79 final size:79
Alignment explanation
Indices: 4576--4742 Score: 237
Period size: 79 Copynumber: 2.1 Consensus size: 79
4566 GAGTTAGAGC
* * ** *
4576 ATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTATTCCCTCGAAAAT
1 ATCCCCGATTATGGAAAATTAATATTTTAGAAATAAAATCAAGGTTGGAGTATCCCCTCGAAAAT
4641 AACGGGGTTGGAGT
66 AACGGGGTTGGAGT
* *
4655 ATCCCCGATTAT-GAGAAATTAATATTTTAGAAATAAAGTCAAGGTTGGGGTATCCCCTCGAAAA
1 ATCCCCGATTATGGA-AAATTAATATTTTAGAAATAAAATCAAGGTTGGAGTATCCCCTCGAAAA
**
4719 TAGTGGGGTTGGAGT
65 TAACGGGGTTGGAGT
4734 ATCCCCGAT
1 ATCCCCGAT
4743 GAAAAAAAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 2 0.03
79 76 0.97
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (79 bp):
ATCCCCGATTATGGAAAATTAATATTTTAGAAATAAAATCAAGGTTGGAGTATCCCCTCGAAAAT
AACGGGGTTGGAGT
Found at i:4834 original size:51 final size:50
Alignment explanation
Indices: 4743--4874 Score: 138
Period size: 51 Copynumber: 2.6 Consensus size: 50
4733 TATCCCCGAT
* * * * * *
4743 GAAAAAAAACTGAGGTTGGAGTGTCCCCGATTATGGAAAATGGGTGTTTTA
1 GAAATAAAACCGA-GTTGGAGTATCCCCGATTAAGAAAAATGGATGTTTTA
* * *
4794 GAAATAAAATCGGAGTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTG
1 GAAATAAAA-CCGAGTTGGAGTATCCCCGATTAAGAAAAATGGATGTTTTA
* *
4845 GAAATGAAACCGAGACTGGAGTATCCCCGA
1 GAAATAAAACCGAG-TTGGAGTATCCCCGA
4875 GATGAAAAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 4 0.06
51 61 0.90
52 3 0.04
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.25
Consensus pattern (50 bp):
GAAATAAAACCGAGTTGGAGTATCCCCGATTAAGAAAAATGGATGTTTTA
Found at i:7137 original size:13 final size:13
Alignment explanation
Indices: 7119--7143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7109 CGAATGCACA
7119 GTATCGATACATT
1 GTATCGATACATT
7132 GTATCGATACAT
1 GTATCGATACAT
7144 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:7156 original size:20 final size:21
Alignment explanation
Indices: 7131--7183 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
7121 ATCGATACAT
*
7131 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
7151 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
7172 TGTATCGATACA
1 TGTATCGATACA
7184 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:7249 original size:19 final size:19
Alignment explanation
Indices: 7225--7287 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
7215 CTTAACTATT
7225 TGTATCGATACACACAAGA
1 TGTATCGATACACACAAGA
7244 TGTATCGAT----AC-A-A
1 TGTATCGATACACACAAGA
7257 TGTATCGATACACACAAGA
1 TGTATCGATACACACAAGA
7276 TGTATCGATACA
1 TGTATCGATACA
7288 ATGTATTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (19 bp):
TGTATCGATACACACAAGA
Found at i:7261 original size:13 final size:13
Alignment explanation
Indices: 7243--7300 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
7233 TACACACAAG
7243 ATGTATCGATACA
1 ATGTATCGATACA
7256 ATGTATCGATACACACAA
1 ATGTATCGAT----AC-A
7274 GATGTATCGATACA
1 -ATGTATCGATACA
*
7288 ATGTATTGATACA
1 ATGTATCGATACA
7301 TGACCAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 22 0.58
14 1 0.03
15 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7266 original size:32 final size:32
Alignment explanation
Indices: 7225--7300 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
7215 CTTAACTATT
7225 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
7257 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
*
7289 TGTATTGATACA
1 TGTATCGATACA
7301 TGACCAAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAGATGTATCGATACAA
Found at i:8921 original size:3 final size:3
Alignment explanation
Indices: 8907--8940 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
8897 CATCAAGGAC
*
8907 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
8941 GTGACTCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:15364 original size:48 final size:48
Alignment explanation
Indices: 15297--15393 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
15287 TAAATAATTT
15297 TATGATTAAGGGGGAGAAAGAAACATATGATTAAAGAAAATTGTTTTA
1 TATGATTAAGGGGGAGAAAGAAACATATGATTAAAGAAAATTGTTTTA
* *
15345 TATGATTAAGGGGGTGAAAGAAACATGTGATTAAAGAAAATTGTTTTA
1 TATGATTAAGGGGGAGAAAGAAACATATGATTAAAGAAAATTGTTTTA
15393 T
1 T
15394 TAAGGGGGAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.43, C:0.02, G:0.24, T:0.31
Consensus pattern (48 bp):
TATGATTAAGGGGGAGAAAGAAACATATGATTAAAGAAAATTGTTTTA
Found at i:15422 original size:21 final size:22
Alignment explanation
Indices: 15382--15426 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
15372 TGATTAAAGA
15382 AAATTGTTTTATTAAGGGGGAG
1 AAATTGTTTTATTAAGGGGGAG
15404 AAATT-TTTTGATTAAGGGGGAG
1 AAATTGTTTT-ATTAAGGGGGAG
15426 A
1 A
15427 GAAAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (22 bp):
AAATTGTTTTATTAAGGGGGAG
Found at i:15998 original size:13 final size:13
Alignment explanation
Indices: 15980--16004 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15970 AGAATGCACA
15980 GTATCGATACATT
1 GTATCGATACATT
15993 GTATCGATACAT
1 GTATCGATACAT
16005 GACCAAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:16017 original size:20 final size:21
Alignment explanation
Indices: 15992--16044 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
15982 ATCGATACAT
*
15992 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
16012 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
16033 TGTATCGATACA
1 TGTATCGATACA
16045 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:16122 original size:13 final size:13
Alignment explanation
Indices: 16104--16129 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16094 TACACACAAG
16104 ATGTATCGATACA
1 ATGTATCGATACA
16117 ATGTATCGATACA
1 ATGTATCGATACA
16130 TGACCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:17295 original size:20 final size:19
Alignment explanation
Indices: 17270--17363 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 19
17260 GAATGTATCG
*
17270 ATGTATCGATACATTGTAAA
1 ATGTATCGATACAATG-AAA
*
17290 ATGTATCGATACAATGAGCA
1 ATGTATCGATACAATGA-AA
*
17310 ATGTATCAATACAATGCAAA
1 ATGTATCGATACAATG-AAA
*
17330 ATGTATCGATACAATGAGTA
1 ATGTATCGATACAATGA-AA
*
17350 GTGTATCGATACAA
1 ATGTATCGATACAA
17364 ATTGTGAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
19 2 0.03
20 61 0.95
21 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (19 bp):
ATGTATCGATACAATGAAA
Found at i:17315 original size:40 final size:40
Alignment explanation
Indices: 17270--17363 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
17260 GAATGTATCG
* *
17270 ATGTATCGATACATTGTAAAATGTATCGATACAATGAGCA
1 ATGTATCGATACAATGCAAAATGTATCGATACAATGAGCA
* *
17310 ATGTATCAATACAATGCAAAATGTATCGATACAATGAGTA
1 ATGTATCGATACAATGCAAAATGTATCGATACAATGAGCA
*
17350 GTGTATCGATACAA
1 ATGTATCGATACAA
17364 ATTGTGAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (40 bp):
ATGTATCGATACAATGCAAAATGTATCGATACAATGAGCA
Found at i:19546 original size:20 final size:20
Alignment explanation
Indices: 19504--19548 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
19494 TTCCGTAAGC
* *
19504 CAAAATTATTTTTTTGTTGA
1 CAAAATTATTTTTTTGATCA
19524 CAAAATT-TTTTTATTGATCA
1 CAAAATTATTTTT-TTGATCA
19544 CAAAA
1 CAAAA
19549 CAAGCAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (20 bp):
CAAAATTATTTTTTTGATCA
Found at i:19639 original size:2 final size:2
Alignment explanation
Indices: 19632--19661 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19622 TATATTATTA
*
19632 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19662 CAATCTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22703 original size:2 final size:2
Alignment explanation
Indices: 22696--22723 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22686 TTCTCACAGA
22696 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22724 GTGAGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23233 original size:11 final size:11
Alignment explanation
Indices: 23217--23241 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23207 CACTTCTTCC
23217 CTTTTCTTAGT
1 CTTTTCTTAGT
23228 CTTTTCTTAGT
1 CTTTTCTTAGT
23239 CTT
1 CTT
23242 CACCTACCCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (11 bp):
CTTTTCTTAGT
Found at i:23529 original size:20 final size:21
Alignment explanation
Indices: 23504--23549 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
23494 TCTTTATGAC
*
23504 ATTTAATT-ACTTTATTT-TTA
1 ATTTAATTCAC-TCATTTGTTA
23524 ATTTAATTCACTCATTTGTTA
1 ATTTAATTCACTCATTTGTTA
23545 ATTTA
1 ATTTA
23550 TTTCTCCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTTAATTCACTCATTTGTTA
Found at i:23806 original size:2 final size:2
Alignment explanation
Indices: 23799--23824 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23789 AATACCCTTA
23799 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
23825 TTATTAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27265 original size:20 final size:20
Alignment explanation
Indices: 27240--27277 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27230 GTAAAAAGAC
27240 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
27260 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
27278 TGTGTCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:27307 original size:20 final size:20
Alignment explanation
Indices: 27282--27332 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
27272 TACATTTGTG
* *
27282 TCGATACATTTATACATGTA
1 TCGATACATTTAAAAATGTA
* *
27302 TCGATACATTAAAAAATGTC
1 TCGATACATTTAAAAATGTA
27322 TCGATACATTT
1 TCGATACATTT
27333 GGGTACTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (20 bp):
TCGATACATTTAAAAATGTA
Found at i:28317 original size:28 final size:28
Alignment explanation
Indices: 28267--28708 Score: 544
Period size: 28 Copynumber: 15.4 Consensus size: 28
28257 CTGATTCATA
*
28267 TGGGCTTTGAAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGGA-TGCCACTGACTTG
28296 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
28324 TAGGCTTTGAAAGGATGCCACTGACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTG
*
28352 TGGGCTTTGAAAAGAATGCCACTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
* *
28381 TGGGCTTTGAAAGGGTGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* *
28409 TGGGCTTTGAAAGGGTGCCACTCACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
28437 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* **
28465 TGGGCTTTGAAAAGAGTTGCCACTGACTCA
1 TGGGCTTTG-AAAG-GATGCCACTGACTTG
*
28495 TGGGCTTTGAAAGGATACCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * *
28523 TGGGCTTTGAAAAGAGTTGCTACCGACTCGTG
1 TGGGCTTTG-AAAG-GATGCCACTGACT--TG
* * * *
28555 TGGGCTTTGAAAAGAGTGCCACTAAATTA
1 TGGGCTTTGAAAGGA-TGCCACTGACTTG
*
28584 TGGGTTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
* * * *
28612 TGGGCTTTGAAAAGAGTTACCACCGACTCG
1 TGGGCTTTG-AAAG-GATGCCACTGACTTG
28642 TGGGCTTTGAAAAGG-TGCCACTGACTTG
1 TGGGCTTTG-AAAGGATGCCACTGACTTG
*
28670 TGGGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTG
28698 TGGGCTTTGAA
1 TGGGCTTTGAA
28709 GAGATGAGCA
Statistics
Matches: 359, Mismatches: 43, Indels: 23
0.84 0.10 0.05
Matches are distributed among these distances:
27 5 0.01
28 206 0.57
29 71 0.20
30 56 0.16
31 10 0.03
32 11 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTG
Found at i:28372 original size:85 final size:85
Alignment explanation
Indices: 28267--28708 Score: 573
Period size: 86 Copynumber: 5.1 Consensus size: 85
28257 CTGATTCATA
* *
28267 TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTT
1 TGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
*
28332 GAAAGGATGCCACTGACTTA
66 GAAAGGATGCCACTGACTTG
* *
28352 TGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTT
1 TGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
* *
28417 GAAAGGGTGCCACTCACTTG
66 GAAAGGATGCCACTGACTTG
* * **
28437 TGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCATGGGCT
1 TGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCT
*
28501 TTGAAAGGATACCACTGACTTG
64 TTGAAAGGATGCCACTGACTTG
* * * * * * *
28523 TGGGCTTTGAAAAGAGTTGCTACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTAAATTATGGG
1 TGGGCTTTGAAAAGA-ATGCCACTGACT--TGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGG
*
28588 TTTTGAAAGGATGCCACTGACTTG
62 CTTTGAAAGGATGCCACTGACTTG
* * * *
28612 TGGGCTTTGAAAAGAGTTACCACCGACTCGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCT
1 TGGGCTTTGAAAAGA-ATGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCT
*
28676 TTGAAAGGGTGCCACTGACTTG
64 TTGAAAGGATGCCACTGACTTG
28698 TGGGCTTTGAA
1 TGGGCTTTGAA
28709 GAGATGAGCA
Statistics
Matches: 314, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
84 27 0.09
85 91 0.29
86 92 0.29
87 14 0.04
88 14 0.04
89 65 0.21
90 11 0.04
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (85 bp):
TGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT
GAAAGGATGCCACTGACTTG
Found at i:28516 original size:58 final size:57
Alignment explanation
Indices: 28220--28708 Score: 563
Period size: 58 Copynumber: 8.4 Consensus size: 57
28210 TAAAAAAAAG
* * * * * *
28220 TGCCACTAACTTGTGTGAGCTTTGAAAAGAGTTGCTACTGATTCATATGGGCTTTGAAAAGA
1 TGCCACTGACTTGTG-G-GCTTTGAAAAG-GATGCCACTGA--CTTGTGGGCTTTGAAAGGA
*
28282 GTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTAGGCTTTGAAAGGA
1 -TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
28339 TGCCACTGACTTATGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
28396 TGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTCACTTGTGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
* **
28452 TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCATGGGCTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
28510 TACCACTGACTTGTGGGCTTTGAAAAGAGTTGCTACCGACTCGTGTGGGCTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAG-GATGCCACTGACT--TGTGGGCTTTGAAAGGA
* * * * *
28570 GTGCCACTAAATTATGGGTTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 -TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GA
* * * *
28629 TACCACCGACTCGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
28685 TGCCACTGACTTGTGGGCTTTGAA
1 TGCCACTGACTTGTGGGCTTTGAA
28709 GAGATGAGCA
Statistics
Matches: 368, Mismatches: 49, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
56 94 0.26
57 85 0.23
58 104 0.28
59 25 0.07
60 22 0.06
61 23 0.06
62 1 0.00
63 14 0.04
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (57 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:28606 original size:147 final size:147
Alignment explanation
Indices: 28220--28708 Score: 658
Period size: 147 Copynumber: 3.4 Consensus size: 147
28210 TAAAAAAAAG
* * *
28220 TGCCACTAACTTGTGTGAGCTTTGAAAAGAGTTGCTACTGATTCATATGGGCTTTGAAAAGAGTG
1 TGCCACTGACTTGTG-G-GCTTTGAAAAGAGTTGCTACTGACTC-TGTGGGCTTTGAAAAGAGTG
* * *
28285 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTTG-AAAG-GATGCCACTGA
63 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGA
* *
28348 CTTATGGGCTTTGAAAAGAA
128 CTCATGGGCTTTGAAAAGGA
* * * *
28368 TGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTAACT-TGTGGGCTTTG-AAAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCTACTGACTCTGTGGGCTTTGAAAAGAGTGCCA
*
28429 CTCACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTC
66 CTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTC
28494 ATGGGCTTTG-AAAGGA
131 ATGGGCTTTGAAAAGGA
* *
28510 TACCACTGACTTGTGGGCTTTGAAAAGAGTTGCTACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCTACTGACTC-TGTGGGCTTTGAAAAGAGTGCC
* * * * *
28575 ACTAAATTATGGGTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACT
65 ACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACT
*
28640 CGTGGGCTTTGAAAAGG-
130 CATGGGCTTTGAAAAGGA
* *
28657 TGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACT-TGTGGGCTTTGAA
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCTACTGACTCTGTGGGCTTTGAA
28709 GAGATGAGCA
Statistics
Matches: 304, Mismatches: 29, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
141 53 0.17
142 40 0.13
143 39 0.13
144 18 0.06
145 14 0.05
146 21 0.07
147 100 0.33
148 19 0.06
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (147 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCTACTGACTCTGTGGGCTTTGAAAAGAGTGCCA
CTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTC
ATGGGCTTTGAAAAGGA
Found at i:29939 original size:16 final size:17
Alignment explanation
Indices: 29920--29960 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
29910 CTTTTGGACC
29920 TTTTTTTATTTG-TTTG
1 TTTTTTTATTTGTTTTG
*
29936 TTTTTTTGTTTGTTTTTG
1 TTTTTTTATTTG-TTTTG
29954 TTTTTTT
1 TTTTTTT
29961 TTAACTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
18 11 0.50
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.85
Consensus pattern (17 bp):
TTTTTTTATTTGTTTTG
Found at i:29943 original size:12 final size:12
Alignment explanation
Indices: 29923--29985 Score: 55
Period size: 11 Copynumber: 5.6 Consensus size: 12
29913 TTGGACCTTT
29923 TTTTATTTGTTTG
1 TTTT-TTTGTTTG
29936 TTTTTTTGTTTG
1 TTTTTTTGTTTG
29948 --TTTTTGTTT-
1 TTTTTTTGTTTG
***
29957 TTTTTTAACTTG
1 TTTTTTTGTTTG
29969 -TTTTTT-TTTG
1 TTTTTTTGTTTG
29979 TTTTTTT
1 TTTTTTT
29986 TGGTATGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
10 12 0.29
11 17 0.41
12 8 0.20
13 4 0.10
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.83
Consensus pattern (12 bp):
TTTTTTTGTTTG
Found at i:29953 original size:10 final size:10
Alignment explanation
Indices: 29928--29987 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
29918 CCTTTTTTTA
29928 TTTGTTTGTTTT
1 TTTGTTTG--TT
29940 TTTGTTTGTT
1 TTTGTTTGTT
*
29950 TTTGTTTTTT
1 TTTGTTTGTT
**
29960 TTTAACTTGTT
1 TTT-GTTTGTT
*
29971 TTTTTTTGTT
1 TTTGTTTGTT
29981 TTT-TTTG
1 TTTGTTTG
29988 GTATGAAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
9 4 0.10
10 22 0.54
11 7 0.17
12 8 0.20
ACGTcount: A:0.03, C:0.02, G:0.13, T:0.82
Consensus pattern (10 bp):
TTTGTTTGTT
Found at i:29986 original size:12 final size:12
Alignment explanation
Indices: 29920--29986 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
29910 CTTTTGGACC
*
29920 TTTTTTTATTTG
1 TTTTTTTTTTTG
*
29932 TTTGTTTTTTTG
1 TTTTTTTTTTTG
*
29944 --TTTGTTTTTG
1 TTTTTTTTTTTG
***
29954 TTTTTTTTTAAC
1 TTTTTTTTTTTG
29966 TTGTTTTTTTTTG
1 TT-TTTTTTTTTG
29979 TTTTTTTT
1 TTTTTTTT
29987 GGTATGAAAG
Statistics
Matches: 41, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
10 8 0.20
12 24 0.59
13 9 0.22
ACGTcount: A:0.04, C:0.01, G:0.10, T:0.84
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:36726 original size:191 final size:191
Alignment explanation
Indices: 36402--36766 Score: 658
Period size: 191 Copynumber: 1.9 Consensus size: 191
36392 GTTGAAAGCC
36402 GTGAATGAGGAGTTTCTCATCCTTCTCATACCCGGCAATCTTCCTCAAATACAGCCGAATATGTA
1 GTGAATGAGGAGTTTCTCATCCTTCTCATACCCGGCAATCTTCCTCAAATACAGCCGAATATGTA
*
36467 AAGAGGGGTCAGTAGTGCCATTGAACTTTTCAAATTTCGAAACCTTGAACTTCGGAGGGATGACA
66 AAGAGGGGTCAGTAGTGCCATTGAACTTTTCAAATTCCGAAACCTTGAACTTCGGAGGGATGACA
*
36532 AGGTTGGACACCAAAGATAGTGATTCTGCATCAATAGCTCCGAATATGTACACCAAAGATA
131 AGGTTGGACACCAAAGATAGCGATTCTGCATCAATAGCTCCGAATATGTACACCAAAGATA
* * * *
36593 GTGAATGAGGAGTTTCTCATCCTTCTCATACCTGGCAATCTTCCTCATATATATCCGAATATGTA
1 GTGAATGAGGAGTTTCTCATCCTTCTCATACCCGGCAATCTTCCTCAAATACAGCCGAATATGTA
* *
36658 CAGAGGGGTCAGTAGTGCCATTGAACTTTTCAAATTCCGAAACCTTGAACTTTGGAGGGATGACA
66 AAGAGGGGTCAGTAGTGCCATTGAACTTTTCAAATTCCGAAACCTTGAACTTCGGAGGGATGACA
36723 AGGTTGGACACCAAAGATAGCGATTCTGCATCAATAGCTCCGAA
131 AGGTTGGACACCAAAGATAGCGATTCTGCATCAATAGCTCCGAA
36767 CTTGTCATTC
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
191 166 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (191 bp):
GTGAATGAGGAGTTTCTCATCCTTCTCATACCCGGCAATCTTCCTCAAATACAGCCGAATATGTA
AAGAGGGGTCAGTAGTGCCATTGAACTTTTCAAATTCCGAAACCTTGAACTTCGGAGGGATGACA
AGGTTGGACACCAAAGATAGCGATTCTGCATCAATAGCTCCGAATATGTACACCAAAGATA
Found at i:38708 original size:80 final size:79
Alignment explanation
Indices: 38606--38808 Score: 212
Period size: 79 Copynumber: 2.6 Consensus size: 79
38596 AATAACAGGG
* * * * *
38606 TTGGAGTGTTCCCTT-GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTA
1 TTGGAGT-ATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTA
*
38669 GAAAAAAAAAATCGGGA
64 G-AAAAAAAAACCGGGA
* * * *
38686 TTGGAGTATCCCTTCGAAAATAACGAGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
* * * *
38751 GAATAAAGCCGGGG
66 AAAAAAAACCGGGA
* * *
38765 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGAT
38809 GAAATAACGA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
79 55 0.54
80 47 0.46
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGA
AAAAAAAACCGGGA
Found at i:38800 original size:28 final size:28
Alignment explanation
Indices: 38760--38831 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
38750 GGAATAAAGC
** *
38760 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
38788 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
38816 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
38832 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:38884 original size:52 final size:52
Alignment explanation
Indices: 38820--38987 Score: 155
Period size: 52 Copynumber: 3.2 Consensus size: 52
38810 AAATAACGAG
* * *
38820 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAA-TAGGA
1 GTTGGAGTATCCTCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCAGGA
** * *
38872 GTTGGAGTATCCTCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCTCGATT-GTGAAAAATTGGAGTTTTGAAAATAAAACCAGGA
* * * ** *
38925 -TTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCGATAAGACC-GGA
1 GTTGGAGTATCCTCGATTGT-GAAAAATTGGAGTTTTGA-AAATAAAACCAGGA
38976 GTTGGAGTATCC
1 GTTGGAGTATCC
38988 CCTCGGAAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
51 4 0.04
52 78 0.82
53 13 0.14
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (52 bp):
GTTGGAGTATCCTCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCAGGA
Found at i:39016 original size:28 final size:27
Alignment explanation
Indices: 38976--39046 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
38966 TAAGACCGGA
**
38976 GTTGGAGTATCCCCTCGGAAATAACGGG
1 GTTGGAGTATCCCCGAGG-AATAACGGG
* *
39004 GTTGGAGTATCCCCGATGATTAACGGG
1 GTTGGAGTATCCCCGAGGAATAACGGG
39031 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
39047 TTGTGAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (27 bp):
GTTGGAGTATCCCCGAGGAATAACGGG
Found at i:39112 original size:212 final size:212
Alignment explanation
Indices: 38759--39158 Score: 617
Period size: 212 Copynumber: 1.9 Consensus size: 212
38749 GGGAATAAAG
* *
38759 CCGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTG
1 CCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTG
* * *
38824 GAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATAGGAGTTGGAGTATCCTCGAT
66 GAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATAGGAGTTAGAGTATCCCCGAT
* *
38889 TAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGGA-TTGGAGTATCCCCGATTGTGGAAAAATT
131 TAAAGGAAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGAAAAATT
38953 AGTGTTTTAGCGATAAGA
195 AGTGTTTTAGCGATAAGA
* *
38971 CCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTG
1 CCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTG
* *
39035 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCG
66 GAGTATCCCCGATTGTGAA-AAATTGGT-ATTTTTGGAAATAAAATAGGAGTTAGAGTATCCCCG
* * * *
39100 ATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGGA
129 ATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
39159 GAATTGATAA
Statistics
Matches: 170, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 32 0.19
212 101 0.59
213 37 0.22
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (212 bp):
CCGGAGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTG
GAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATAGGAGTTAGAGTATCCCCGAT
TAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTA
GTGTTTTAGCGATAAGA
Found at i:39131 original size:51 final size:53
Alignment explanation
Indices: 39035--39153 Score: 145
Period size: 51 Copynumber: 2.3 Consensus size: 53
39025 AACGGGGTTG
* * *
39035 GAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
39089 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* *
39140 GAATATCCTCGATT
1 GAGTATCCCCGATT
39154 GTGGAGAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 33 0.57
52 2 0.03
53 8 0.14
54 15 0.26
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:41533 original size:13 final size:13
Alignment explanation
Indices: 41515--41540 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41505 ACAAAGATCC
41515 ATGTATCGATACA
1 ATGTATCGATACA
41528 ATGTATCGATACA
1 ATGTATCGATACA
41541 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:41536 original size:33 final size:33
Alignment explanation
Indices: 41494--41560 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
41484 AAAATTTCCA
***
41494 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
41527 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
41560 A
1 A
41561 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:41604 original size:19 final size:18
Alignment explanation
Indices: 41580--41647 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
41570 CAGTAGCTAA
41580 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
41599 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
41614 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
41631 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
41648 TCGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:41620 original size:13 final size:13
Alignment explanation
Indices: 41602--41626 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41592 ACAATACTTA
41602 TGTATCGATACAT
1 TGTATCGATACAT
41615 TGTATCGATACA
1 TGTATCGATACA
41627 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:41624 original size:32 final size:32
Alignment explanation
Indices: 41583--41645 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
41573 TAGCTAATTA
*
41583 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
41615 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
41646 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:49850 original size:13 final size:13
Alignment explanation
Indices: 49832--49856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49822 CATAAAGTGT
49832 TGTATCGATACAA
1 TGTATCGATACAA
49845 TGTATCGATACA
1 TGTATCGATACA
49857 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49854 original size:33 final size:33
Alignment explanation
Indices: 49812--49878 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
49802 TTCAACGATT
49812 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
49845 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
49878 T
1 T
49879 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:49916 original size:13 final size:13
Alignment explanation
Indices: 49898--49925 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49888 TGTCAAAAAA
49898 TGTATCGATACAT
1 TGTATCGATACAT
49911 TGTATCGATACAT
1 TGTATCGATACAT
49924 TG
1 TG
49926 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:49989 original size:52 final size:52
Alignment explanation
Indices: 49931--50055 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
49921 CATTGATCTT
* *
49931 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
49983 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
50035 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
50056 TTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:50848 original size:9 final size:9
Alignment explanation
Indices: 50834--50860 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
50824 AGGATTATTG
50834 TGATGATTT
1 TGATGATTT
50843 TGATGATTT
1 TGATGATTT
50852 TGATGATTT
1 TGATGATTT
50861 GAAGTCACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
TGATGATTT
Found at i:53867 original size:50 final size:50
Alignment explanation
Indices: 53787--53996 Score: 294
Period size: 50 Copynumber: 4.2 Consensus size: 50
53777 AGTTGCTTAG
* ** **
53787 AGTCAACAATTATGGCCACCTCTCTTTATTGTCAAAGGTTGGTAAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAAT
* * * * *
53837 AGTCAACAATTACGATCACCTTTCTCTATTGTCGAAGGTTGGTGATGAAT
1 AGTCAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAAT
* *
53887 AGTCAATAATTACGATCACCTCTATCGATTGTCAAAGGTTGGTAAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAAT
* *
53937 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAAT
53987 AGTCAACAAT
1 AGTCAACAAT
53997 GGCAACACAT
Statistics
Matches: 141, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 141 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTGGTAAAGAAT
Found at i:58074 original size:19 final size:19
Alignment explanation
Indices: 58050--58093 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
58040 TTTCACGTGC
*
58050 ACAGTAACTGTATATGTGA
1 ACAGTAACCGTATATGTGA
*
58069 ACAGTATCCGTATATGTGA
1 ACAGTAACCGTATATGTGA
58088 ACAGTA
1 ACAGTA
58094 CCTCGACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
ACAGTAACCGTATATGTGA
Found at i:58394 original size:50 final size:50
Alignment explanation
Indices: 58335--58495 Score: 250
Period size: 50 Copynumber: 3.2 Consensus size: 50
58325 AGTTGCTTAG
* * *
58335 AGTCAACAATTACGGCCATCTCTCTCTATTGTCAAAGATTGGTGAAAAAT
1 AGTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAAT
* *
58385 AGTCAACAATTATGACCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAAT
* * *
58435 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGCTTAGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAAT
58485 AGTCAACAATT
1 AGTCAACAATT
58496 CAGGGTTTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 102 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGATTGGTGAAGAAT
Found at i:67032 original size:81 final size:81
Alignment explanation
Indices: 66895--67286 Score: 423
Period size: 81 Copynumber: 4.9 Consensus size: 81
66885 ATCTCTAAAA
* * * *
66895 GGATACTCCAACCCTATTTTTA-TTCCAAAAATATCGAATTTTTC-ATCTTCGGGGATACTCCAA
1 GGATACTCTAACCCCATTTTTACTTCCAAAAACATCGAA-TTTTCAATCTTCAGGGATACTCCAA
* *
66958 TCCCACCATTTTTTAAG
65 CCCCACCATTTTTGAAG
* *
66975 GGATACTCTAATCCCATTTTTACCTCCAAAAACATCGAATTTTCAATCTTC-GAGGATACTCCAA
1 GGATACTCTAACCCCATTTTTACTTCCAAAAACATCGAATTTTCAATCTTCAG-GGATACTCCAA
* * *
67039 CCCCACAATTTCTGAGG
65 CCCCACCATTTTTGAAG
* * * * *
67056 GGATACTCTAGCCCCATTTTAACTTCCAAAAACATCGAATTTTCCATCTTCACGAATACTCCAAC
1 GGATACTCTAACCCCATTTTTACTTCCAAAAACATCGAATTTTCAATCTTCAGGGATACTCCAAC
*** *
67121 TATACCATTTTTGAAT
66 CCCACCATTTTTGAAG
* * * * * *
67137 GGATACTCTAACCCCATGTTTATTTCCAATAACATCAAATTTTTAATCTTCAGGGATACTCCAAA
1 GGATACTCTAACCCCATTTTTACTTCCAAAAACATCGAATTTTCAATCTTCAGGGATACTCCAAC
*
67202 CCTACCATTTTTG-AG
66 CCCACCATTTTTGAAG
* * * * * * *
67217 GGAATCCTCTAACCCCGTATTTATTTCCAAAAACATCGAGTTTTCCATTTTCAGGGATACTCCAA
1 GG-ATACTCTAACCCCATTTTTACTTCCAAAAACATCGAATTTTCAATCTTCAGGGATACTCCAA
67282 CCCCA
65 CCCCA
67287 TTTTTACTTT
Statistics
Matches: 258, Mismatches: 49, Indels: 9
0.82 0.16 0.03
Matches are distributed among these distances:
80 28 0.11
81 230 0.89
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (81 bp):
GGATACTCTAACCCCATTTTTACTTCCAAAAACATCGAATTTTCAATCTTCAGGGATACTCCAAC
CCCACCATTTTTGAAG
Found at i:72310 original size:20 final size:19
Alignment explanation
Indices: 72285--72355 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
72275 ACCCTGAAAA
72285 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
72305 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
72324 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
72345 GTATCGATACA
1 GTATCGATACA
72356 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:72408 original size:53 final size:53
Alignment explanation
Indices: 72325--72461 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
72315 AAATTGCATA
*
72325 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
*
72379 GTATCGATACACACAATATGTATCGATACAAGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
* *
72432 GTATTGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
72462 TTGGAAGTAG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 65 0.82
54 14 0.18
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAAGACATTGGCAGTAGCCAAATTT
Found at i:72531 original size:21 final size:22
Alignment explanation
Indices: 72493--72549 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
72483 TTTCACTGTT
72493 CATCACTATTCATATATCGATA
1 CATCACTATTCATATATCGATA
*
72515 CATCACT-TTCATGTATCGATA
1 CATCACTATTCATATATCGATA
*
72536 CATCACTGTTCATA
1 CATCACTATTCATA
72550 GGTCACTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (22 bp):
CATCACTATTCATATATCGATA
Found at i:72647 original size:13 final size:13
Alignment explanation
Indices: 72629--72654 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72619 ACATATTTGT
72629 GTGTATCGATACA
1 GTGTATCGATACA
72642 GTGTATCGATACA
1 GTGTATCGATACA
72655 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:81189 original size:11 final size:11
Alignment explanation
Indices: 81175--81223 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
81165 AAGAGAGGAA
81175 AAAACAAAAAC
1 AAAACAAAAAC
81186 AAAACAGAAAAC
1 AAAACA-AAAAC
* *
81198 AAAAAAAAAAG
1 AAAACAAAAAC
* *
81209 AACACAAAAAG
1 AAAACAAAAAC
81220 AAAA
1 AAAA
81224 AAGAAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 22 0.69
12 10 0.31
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAACAAAAAC
Found at i:81196 original size:18 final size:16
Alignment explanation
Indices: 81175--81244 Score: 79
Period size: 18 Copynumber: 4.1 Consensus size: 16
81165 AAGAGAGGAA
81175 AAAACAAAAACAAAACAG
1 AAAACAAAAA-AAAA-AG
81193 AAAACAAAAAAAAAAG
1 AAAACAAAAAAAAAAG
*
81209 AACACAAAAAGAAAAAAG
1 AAAAC-AAAA-AAAAAAG
81227 AAAA-AAGAAAAAAAAG
1 AAAACAA-AAAAAAAAG
81243 AA
1 AA
81245 CGAACTTAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
16 17 0.36
17 10 0.21
18 20 0.43
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAAAAAG
Found at i:81217 original size:34 final size:34
Alignment explanation
Indices: 81178--81245 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
81168 AGAGGAAAAA
*
81178 ACAAAAACAAAACAGAAAACAA-AAAAAAAAGAAC
1 ACAAAAACAAAAAAGAAAA-AAGAAAAAAAAGAAC
*
81212 ACAAAAAGAAAAAAGAAAAAAGAAAAAAAAGAAC
1 ACAAAAACAAAAAAGAAAAAAGAAAAAAAAGAAC
81246 GAACTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.81, C:0.10, G:0.09, T:0.00
Consensus pattern (34 bp):
ACAAAAACAAAAAAGAAAAAAGAAAAAAAAGAAC
Found at i:81238 original size:7 final size:7
Alignment explanation
Indices: 81214--81239 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
81204 AAAAGAACAC
81214 AAAAAGA
1 AAAAAGA
81221 AAAAAGA
1 AAAAAGA
81228 AAAAAGA
1 AAAAAGA
81235 AAAAA
1 AAAAA
81240 AAGAACGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:82345 original size:70 final size:70
Alignment explanation
Indices: 82240--82370 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 70
82230 TCCCTTTTTC
* * *
82240 TTTTTCAAAGCCCACATAAGCTGGTGACACTTTTTA-TCTTTTCAGTCCTCAAAGAGTAGGAGGA
1 TTTTTCAAAGCCCACATAAGCTAGTGACACCTTTTACT-TTTTCAGTCCTCAAAGAGCAGGAGGA
82304 TGCCTT
65 TGCCTT
* * * *
82310 TTTTTTAAAGCCTACATAAGCTAGTGGCACCTTTTACTTTTTTAGTCCTCAAAGAGCAGGA
1 TTTTTCAAAGCCCACATAAGCTAGTGACACCTTTTACTTTTTCAGTCCTCAAAGAGCAGGA
82371 CGTTTTTTCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
70 52 0.98
71 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (70 bp):
TTTTTCAAAGCCCACATAAGCTAGTGACACCTTTTACTTTTTCAGTCCTCAAAGAGCAGGAGGAT
GCCTT
Found at i:82572 original size:42 final size:43
Alignment explanation
Indices: 82508--82597 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 43
82498 GAGTAGGACG
* * * *
82508 TTTTTCTTTTTTTTTTCAAAGCCTACACAAGTTGGTGGCATCC
1 TTTTTCTTTTTCTTCTCAAAGCCCACACAAGTTGGTGGCATAC
*
82551 TTTTTCTTTTTCTTCT-AAAGCCCACAGAAGTTGGTGGCATAC
1 TTTTTCTTTTTCTTCTCAAAGCCCACACAAGTTGGTGGCATAC
82593 TTTTT
1 TTTTT
82598 ATCCTTTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.67
43 14 0.33
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (43 bp):
TTTTTCTTTTTCTTCTCAAAGCCCACACAAGTTGGTGGCATAC
Found at i:82583 original size:119 final size:119
Alignment explanation
Indices: 82438--82757 Score: 366
Period size: 120 Copynumber: 2.7 Consensus size: 119
82428 AAGCATATAC
82438 CTTTTCTTCTAAAGCCCACACAAGTTGGTGGCATACCTTTTTATCCTTTTAGTCTTCAAAGAGTA
1 CTTTTCTTCTAAAGCCCACACAAGTTGGTGGCATA-CTTTTTATCCTTTTAGTCTTCAAAGAGTA
* * * * *
82503 GGACGTTTTTCTTT-TTTTTTTCAAAGCCTACACAAGTTGGTGGCATCC--TTTTT
65 GGACATTTTTCTTTCTCTTTTTCAAAGCCCACACAAATTGATGGCA-CCATTTTTT
* *
82556 CTTTTTCTTCTAAAGCCCACAGAAGTTGGTGGCATACTTTTTATCCTTTTAGTCCTT-AAAGAGC
1 C-TTTTCTTCTAAAGCCCACACAAGTTGGTGGCATACTTTTTATCCTTTTAGT-CTTCAAAGAGT
*
82620 AGGATATTTTTCCTTTCTCTTTTTCAAAGCCCACACAAATTGATGGCACCATTTTTT
64 AGGACATTTTT-CTTTCTCTTTTTCAAAGCCCACACAAATTGATGGCACCATTTTTT
* * * * * *
82677 CTTTTCTTTTTCAAGGCCAACATAAGTTGGTAGC--ACTTTTTATCCCTTTTA-TCCTCAAAGAG
1 CTTTTC-TTCT-AAAGCCCACACAAGTTGGTGGCATACTTTTTAT-CCTTTTAGTCTTCAAAGAG
* * *
82739 TAGGGCTTTTTTCTCTCTC
63 TAGGACATTTTTCTTTCTC
82758 GAAGCTCACA
Statistics
Matches: 173, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
118 33 0.19
119 50 0.29
120 56 0.32
121 16 0.09
122 18 0.10
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (119 bp):
CTTTTCTTCTAAAGCCCACACAAGTTGGTGGCATACTTTTTATCCTTTTAGTCTTCAAAGAGTAG
GACATTTTTCTTTCTCTTTTTCAAAGCCCACACAAATTGATGGCACCATTTTTT
Found at i:83779 original size:81 final size:80
Alignment explanation
Indices: 83683--83986 Score: 288
Period size: 81 Copynumber: 3.8 Consensus size: 80
83673 TCTAATCTTG
* * * * **
83683 CCATCTTTGAGGGGATACTTTAATCCCT-TTTTTATTTCCAAAAACATTGAATTTTTCATTCTTA
1 CCATTTTTGAAGGGATACTCTAA-CCCTATTTTTACTTCCAAAAACATCAAATTTTTCA-TCTTA
*
83747 GAGATACTCTAACCCCA
64 GAGATAATCTAACCCCA
* * *
83764 CCATTTTTTAAGGGATACTCTAACCCTGA-TTTTACTTCCAAAAACATCAAATTTTTGATCTTCG
1 CCATTTTTGAAGGGATACTCTAACCCT-ATTTTTACTTCCAAAAACATCAAATTTTTCATCTTAG
* *
83828 AGGATATTTTAACCCCA
65 A-GATAATCTAACCCCA
* * * * * * * * *
83845 TCATTTTCGAAAGGACATTTTGACCCTATTTTTACTTCCAAAAACATCAAAATTTTCATCTTCGG
1 CCATTTTTGAAGGGATACTCTAACCCTATTTTTACTTCCAAAAACATCAAATTTTTCATCTT-AG
*
83910 GGATAATCTAACCCCA
65 AGATAATCTAACCCCA
* * * * * * *
83926 CCATTTCTGACGGGATACTCCAACCCCATCTTTATTTCCAAAAACATCAAATTTTCCATCT
1 CCATTTTTGAAGGGATACTCTAACCCTATTTTTACTTCCAAAAACATCAAATTTTTCATCT
83987 CCGGGGATAC
Statistics
Matches: 178, Mismatches: 40, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
80 11 0.06
81 166 0.93
82 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (80 bp):
CCATTTTTGAAGGGATACTCTAACCCTATTTTTACTTCCAAAAACATCAAATTTTTCATCTTAGA
GATAATCTAACCCCA
Found at i:83999 original size:53 final size:52
Alignment explanation
Indices: 83937--84110 Score: 188
Period size: 53 Copynumber: 3.3 Consensus size: 52
83927 CATTTCTGAC
*
83937 GGGATACTCCAACCCCATCTTTATTTCCAAAAACATCAAATTTTCCATCTCCG
1 GGGATACTCCAACCCCAT-TTTATTTCCAAAAACATCAAATTTTCCATCTACG
* ** * *
83990 GGGATACTCCAACCTCATTTT-TTTCCAAAAACATTGAGTTTTCCATCTTCG
1 GGGATACTCCAACCCCATTTTATTTCCAAAAACATCAAATTTTCCATCTACG
* * * * * * * *
84041 AGGATACTCCAACCCTATTTTTACTTCTAAGAATATCAAATTTCCCACCTACG
1 GGGATACTCCAACCCCA-TTTTATTTCCAAAAACATCAAATTTTCCATCTACG
*
84094 GGGATATTCCAACCCCA
1 GGGATACTCCAACCCCA
84111 CCATTTATGA
Statistics
Matches: 98, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
51 40 0.41
52 7 0.07
53 51 0.52
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (52 bp):
GGGATACTCCAACCCCATTTTATTTCCAAAAACATCAAATTTTCCATCTACG
Found at i:90809 original size:20 final size:20
Alignment explanation
Indices: 90781--90819 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90771 TATGTTTTTT
* *
90781 CTTTTTTTTCCTTCTTCTTC
1 CTTTCTTTTCCATCTTCTTC
*
90801 CTTTCTTTTTCATCTTCTT
1 CTTTCTTTTCCATCTTCTT
90820 TTTTTCTTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTCTTTTCCATCTTCTTC
Found at i:91708 original size:15 final size:16
Alignment explanation
Indices: 91660--91708 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
91650 TTCAAGCCTA
*
91660 TTCGAGATCGAGCTTT
1 TTCGAGTTCGAGCTTT
*
91676 TTCGAGTTCG-GACCTT
1 TTCGAGTTCGAG-CTTT
91692 TT-GAGTTCGAGCTTT
1 TTCGAGTTCGAGCTTT
91707 TT
1 TT
91709 TGGGTTCGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 13 0.46
16 15 0.54
ACGTcount: A:0.14, C:0.18, G:0.24, T:0.43
Consensus pattern (16 bp):
TTCGAGTTCGAGCTTT
Found at i:91709 original size:16 final size:16
Alignment explanation
Indices: 91667--91716 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
91657 CTATTCGAGA
*
91667 TCGAGCTTTTTCGAGT
1 TCGAGCTTTTTTGAGT
*
91683 TCG-GAC-CTTTTGAGT
1 TCGAG-CTTTTTTGAGT
*
91698 TCGAGCTTTTTTGGGT
1 TCGAGCTTTTTTGAGT
91714 TCG
1 TCG
91717 GGTTTGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.10, C:0.18, G:0.28, T:0.44
Consensus pattern (16 bp):
TCGAGCTTTTTTGAGT
Found at i:94564 original size:79 final size:79
Alignment explanation
Indices: 94465--94651 Score: 213
Period size: 79 Copynumber: 2.4 Consensus size: 79
94455 ATTTTTGGTG
* *
94465 AAAATTGGGGTTAGAGTATCCCCTCA-AAGATAATAGGGTTAGAGTA-TCTTC-AGGATGAAAAT
1 AAAAATGGGGTTGGAGTATCCCCTCAGAA-ATAATAGGGTTAGAGTATTC-TCGA-GATGAAAAT
94527 TTTAATATTTTAAAAGT
63 TTTAATATTTTAAAAGT
** * *
94544 AAAAATGGGGTTGGAGTATCCCCTCAGAAATGGTGGGGTTGGAGTATTCTCGAGATGAAAATTTT
1 AAAAATGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTAGAGTATTCTCGAGATGAAAATTTT
**
94609 AATATTTTGGAAGT
66 AATATTTTAAAAGT
* *
94623 AAAACCT-AGGTTGGAGTATCCCCTC-GAAA
1 AAAA-ATGGGGTTGGAGTATCCCCTCAGAAA
94652 ATGGTGAGGT
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.04
79 84 0.89
80 6 0.06
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (79 bp):
AAAAATGGGGTTGGAGTATCCCCTCAGAAATAATAGGGTTAGAGTATTCTCGAGATGAAAATTTT
AATATTTTAAAAGT
Found at i:94654 original size:79 final size:79
Alignment explanation
Indices: 94518--94669 Score: 227
Period size: 79 Copynumber: 1.9 Consensus size: 79
94508 GTATCTTCAG
* *
94518 GATGAAAATTTTAATATTTTAAAAGTAAAAATGGGGTTGGAGTATCCCCTCAGAAATGGTGGGGT
1 GATGAAAATTTTAATATTTTAAAAGTAAAAATGAGGTTGGAGTATCCCCTCAGAAATGGTGAGGT
94583 TGGAGTATTCTCGA
66 TGGAGTATTCTCGA
** *
94597 GATGAAAATTTTAATATTTTGGAAGTAAAACCT-AGGTTGGAGTATCCCCTC-GAAAATGGTGAG
1 GATGAAAATTTTAATATTTTAAAAGTAAAA-ATGAGGTTGGAGTATCCCCTCAG-AAATGGTGAG
94660 GTTGGAGTAT
64 GTTGGAGTAT
94670 CCCCTCAGAA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.02
79 64 0.97
80 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (79 bp):
GATGAAAATTTTAATATTTTAAAAGTAAAAATGAGGTTGGAGTATCCCCTCAGAAATGGTGAGGT
TGGAGTATTCTCGA
Found at i:94662 original size:28 final size:27
Alignment explanation
Indices: 94630--94702 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 27
94620 AGTAAAACCT
94630 AGGTTGGAGTATCCCCTC-GAAAATGGTG
1 AGGTTGGAGTATCCCCTCAG-AAAT-GTG
*
94658 AGGTTGGAGTATCCCCTCAGAAATGTT
1 AGGTTGGAGTATCCCCTCAGAAATGTG
94685 AGGGTTGGAGTATCCCCT
1 A-GGTTGGAGTATCCCCT
94703 TAAGATGAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.07
28 38 0.90
29 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.27
Consensus pattern (27 bp):
AGGTTGGAGTATCCCCTCAGAAATGTG
Found at i:94772 original size:109 final size:107
Alignment explanation
Indices: 94548--94783 Score: 276
Period size: 109 Copynumber: 2.2 Consensus size: 107
94538 AAAAGTAAAA
* * *
94548 ATGGGGTTGGAGTATCCCCTCAGAAATGGTGGGGTTGGAGTATTCTCGAGATGAAAATTTTAATA
1 ATGGGGTTGGAGTATCCCCTCAGAAATGGTAGGGTTGGAGTATCCTCAAGATGAAAATTTTAATA
* * *
94613 TTTTGGAAGTAAAACCTAGGTTGGAGTATCCCCTCGAAAATG
66 TTTTAGAAGTAAAAACGAGGTTGGAGTATCCCCTCGAAAATG
* * * * *
94655 GTGAGGTTGGAGTATCCCCTCAGAAATGTTAGGGTTGGAGTATCCCCTTAAGATGAGGAA-TTTA
1 ATGGGGTTGGAGTATCCCCTCAGAAATGGTAGGGTTGGAGTAT--CCTCAAGATGA-AAATTTTA
* * * * * *
94719 ATGTTTTAGAAGTAAAAACGGGGTTTGAGTATCTCCTCGGAATTG
63 ATATTTTAGAAGTAAAAACGAGGTTGGAGTATCCCCTCGAAAATG
*
94764 ATGGGGTTGGAATATCCCCT
1 ATGGGGTTGGAGTATCCCCT
94784 AAGATGAAAA
Statistics
Matches: 106, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
107 39 0.37
109 65 0.61
110 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (107 bp):
ATGGGGTTGGAGTATCCCCTCAGAAATGGTAGGGTTGGAGTATCCTCAAGATGAAAATTTTAATA
TTTTAGAAGTAAAAACGAGGTTGGAGTATCCCCTCGAAAATG
Found at i:94809 original size:80 final size:81
Alignment explanation
Indices: 94659--94810 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
94649 AAAATGGTGA
* * *
94659 GGTTGGAGTATCCCCTCAGAAATGTTAGGGTTGGAGTATCCCCTTAAGATGAGGAATTTAATGTT
1 GGTTGGAGTATCCCCTCAGAAATGATAGGGTTGGAATATCCCCTTAAGATGAGAAATTTAATGTT
94724 TTAGAAGTAAAAACGG
66 TTAGAAGTAAAAACGG
* * * * *
94740 GGTTTGAGTATCTCCTCGGAATTGATGGGGTTGGAATATCCCC-TAAGATGA-AAATTTTAATGT
1 GGTTGGAGTATCCCCTCAGAAATGATAGGGTTGGAATATCCCCTTAAGATGAGAAA-TTTAATGT
94803 TTTAGAAG
65 TTTAGAAG
94811 GAGAAATTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.03
80 24 0.39
81 36 0.58
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (81 bp):
GGTTGGAGTATCCCCTCAGAAATGATAGGGTTGGAATATCCCCTTAAGATGAGAAATTTAATGTT
TTAGAAGTAAAAACGG
Found at i:97186 original size:52 final size:50
Alignment explanation
Indices: 97126--97261 Score: 137
Period size: 51 Copynumber: 2.6 Consensus size: 50
97116 AGCCTGCATG
* *
97126 TATCGATACATCGAAGAATATATCAATACATTTGGGTCAAAAACCCAGAATA
1 TATCGATACAT-AAAAAATATATCAATACATTTGGGTC-AAAACCCAGAATA
* ** * *
97178 TATCGATACAATAAAAAATGTATTGATACATTTGGGTCAAAACCCATAATG
1 TATCGATAC-ATAAAAAATATATCAATACATTTGGGTCAAAACCCAGAATA
* * * *
97229 TATCAATACAATTAAAAATGTATCGATACATTT
1 TATCGATAC-ATAAAAAATATATCAATACATTT
97262 TTTTTCAAGA
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
51 41 0.56
52 30 0.41
53 2 0.03
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (50 bp):
TATCGATACATAAAAAATATATCAATACATTTGGGTCAAAACCCAGAATA
Found at i:97246 original size:51 final size:52
Alignment explanation
Indices: 97146--97261 Score: 171
Period size: 51 Copynumber: 2.2 Consensus size: 52
97136 TCGAAGAATA
* *
97146 TATCAATACATTTGGGTCAAAAACCCAGAATATATCGATACAATAAAAAATG
1 TATCGATACATTTGGGTCAAAAACCCAGAATATATCAATACAATAAAAAATG
* * * *
97198 TATTGATACATTTGGGTC-AAAACCCATAATGTATCAATACAATTAAAAATG
1 TATCGATACATTTGGGTCAAAAACCCAGAATATATCAATACAATAAAAAATG
97249 TATCGATACATTT
1 TATCGATACATTT
97262 TTTTTCAAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
51 41 0.72
52 16 0.28
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (52 bp):
TATCGATACATTTGGGTCAAAAACCCAGAATATATCAATACAATAAAAAATG
Found at i:97340 original size:20 final size:20
Alignment explanation
Indices: 97297--97370 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
97287 TGCATGGTCT
***
97297 TGTATCGATACATTTCAAGCA
1 TGTATCGATACA-TTCACTTA
97318 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
*
97338 TGTATCGATGCATT-ACCTTA
1 TGTATCGATACATTCA-CTTA
*
97358 TTGTATCAATACA
1 -TGTATCGATACA
97371 AATTATTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 22 0.49
21 22 0.49
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:103580 original size:23 final size:22
Alignment explanation
Indices: 103562--103612 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 22
103552 CATAATTTTA
103562 TAAT-TTTAATTTTTTTAATTAT
1 TAATATTT-ATTTTTTTAATTAT
103584 TAATATTTA--TTTTT-ATTAT
1 TAATATTTATTTTTTTAATTAT
103603 TAATATTTAT
1 TAATATTTAT
103613 CATAATAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 14 0.52
20 5 0.19
22 5 0.19
23 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TAATATTTATTTTTTTAATTAT
Found at i:103601 original size:19 final size:20
Alignment explanation
Indices: 103573--103612 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
103563 AATTTTAATT
103573 TTTTTAATTATTAATATTTA
1 TTTTTAATTATTAATATTTA
103593 TTTTT-ATTATTAATATTTA
1 TTTTTAATTATTAATATTTA
103612 T
1 T
103613 CATAATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTAATTATTAATATTTA
Found at i:106631 original size:103 final size:102
Alignment explanation
Indices: 106452--106645 Score: 252
Period size: 103 Copynumber: 1.9 Consensus size: 102
106442 ATTTTGGTTG
* *
106452 AAAAATGGGGTTGGAGTATCCCCTCAGAGGAATGGAGTTGGAGTGTCCTCGATGATGACAATCCA
1 AAAAATGGGGTTGGAGTATCCCCTCAGAAGAATGGAGTTGGAGTGTCCACGATGATGAC-ATCCA
106517 AATGAAAATAAGATTTAAATCTTGACTAGTTTTTTTAA
65 AATGAAAATAAGATTTAAATCTTGACTAGTTTTTTTAA
* * *
106555 AAAAATGGGGTTGGAGTATCCCTTTC-GAAGAATAGG-GTTGGATTGTCCCCAACGATTATGAC-
1 AAAAATGGGGTTGGAGTATCCC-CTCAGAAGAAT-GGAGTTGGAGTGT--CC-ACGATGATGACA
*
106617 T-CAAATGAAAATAAGATTTAAATTTTGAC
61 TCCAAATGAAAATAAGATTTAAATCTTGAC
106646 AATTTTAAAA
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
103 64 0.80
104 5 0.06
105 2 0.03
106 9 0.11
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.30
Consensus pattern (102 bp):
AAAAATGGGGTTGGAGTATCCCCTCAGAAGAATGGAGTTGGAGTGTCCACGATGATGACATCCAA
ATGAAAATAAGATTTAAATCTTGACTAGTTTTTTTAA
Found at i:109100 original size:20 final size:20
Alignment explanation
Indices: 109071--109125 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
109061 TAAAAAATTG
* *
109071 AGAATATATCAATACAATGA
1 AGAATGTATCGATACAATGA
109091 AGAATGTATCGATACAATGA
1 AGAATGTATCGATACAATGA
*
109111 AAAATGTATCGATAC
1 AGAATGTATCGATAC
109126 GTTTTCATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (20 bp):
AGAATGTATCGATACAATGA
Found at i:112623 original size:20 final size:20
Alignment explanation
Indices: 112576--112650 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
112566 AAAAAGACAT
*
112576 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
112595 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
112616 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
112636 AATGTATCGATACAT
1 AATGTATCGATACAT
112651 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:112644 original size:40 final size:39
Alignment explanation
Indices: 112573--112650 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
112563 GGTAAAAAGA
* *
112573 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
112612 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
112651 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:114119 original size:29 final size:29
Alignment explanation
Indices: 113176--114120 Score: 1278
Period size: 28 Copynumber: 32.9 Consensus size: 29
113166 TGAAAAGGGT
* *
113176 TGCCATTGACTTGCATGGGCTTTAAAAGG-G
1 TGCCACTGACTTG--TGGGCTTTGAAAGGAG
*
113206 TGCCACTGACTTGCGTGGGCTTTGAAA-GAA
1 TGCCACTGACTT--GTGGGCTTTGAAAGGAG
* *
113236 TGCCACTAACTCGTGGGCTTTGAAAGGA-
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
113264 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113292 TGCCACTGACTTGTGGGCTTTGAAAAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
113320 TACCACTGACTTGCGTGAGCTTTAAAAGGAG
1 TGCCACTGACTT--GTGGGCTTTGAAAGGAG
*
113351 TGCCACTGACTTGTGTGGGCTTTAAAAGG-G
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGAG
113381 TGCCACTGACTTGTGGGCTTTGAAA-GAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * * *
113409 TGCCACTGAATTGTGGGCTTCGCAATG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113437 TGCCACTGACTTGTGGGCTTCGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* * *
113465 TGCCACTGACTTGTGGGATCTGAAAAG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113493 TGCCACTAACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
113521 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
113550 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
113579 TGCCACTGACTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113608 TGCCACTGACTTGTGGGCTCTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
113636 TGCCACTAACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
113665 TGCCACTGATTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113694 TGCCACTGACTTGTGGGCTTTCAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113723 TGCCACTAACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
113751 TGCCACTGAGTTGTGGGCTTTAAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
113779 TGCCACTGACTTGTGGGCTTTAAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113808 TGCCACTGATTTGTGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113837 TGCCACTGACTTGTGGGCTTTAAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113866 TGCCACTAACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
113894 TGCCACTAACTTGTGGGCTTTAAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
113923 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
113951 TGCCACTGACTTGTGGGCTTTGAAAAGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
113980 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
114008 TGCCACTGACTTGTGGGCTTTGAAAGG-G
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* **
114036 TGCCACTAACTTGTGGGCTTTGAAAAAAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
* *
114065 TGCCACTGATTTATGGGCTTTGAAAGGAG
1 TGCCACTGACTTGTGGGCTTTGAAAGGAG
*
114094 TGCCACTGACTTATGGGCTTTGAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAGG
114121 GATGAACATT
Statistics
Matches: 826, Mismatches: 70, Indels: 39
0.88 0.07 0.04
Matches are distributed among these distances:
27 3 0.00
28 392 0.47
29 349 0.42
30 55 0.07
31 24 0.03
32 2 0.00
33 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGAG
Found at i:115351 original size:1 final size:1
Alignment explanation
Indices: 115347--115409 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
115337 TTTTTTGCTA
* * * * * * *
115347 TTTTTTTCTTTTTTTTTGTTTTTTTGTTTTGTTGTTTTTTTTTGTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
115410 GGTGTTAAAG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.02, G:0.10, T:0.89
Consensus pattern (1 bp):
T
Found at i:115359 original size:9 final size:9
Alignment explanation
Indices: 115332--115407 Score: 57
Period size: 9 Copynumber: 8.2 Consensus size: 9
115322 ATCTAGACCC
115332 TTCTATTTTT
1 TTCT-TTTTT
*
115342 TGCTATTTTT
1 TTCT-TTTTT
115352 TTCTTTTTT
1 TTCTTTTTT
115361 TT-TGTTTTT
1 TTCT-TTTTT
*
115370 TTGTTTTGTT
1 TTCTTTT-TT
*
115380 GT-TTTTTT
1 TTCTTTTTT
*
115388 TTGTTTTTT
1 TTCTTTTTT
*
115397 TTGTTTTTT
1 TTCTTTTTT
115406 TT
1 TT
115408 TTGGTGTTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 9
0.82 0.06 0.13
Matches are distributed among these distances:
8 4 0.07
9 38 0.66
10 16 0.28
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:115403 original size:18 final size:20
Alignment explanation
Indices: 115337--115410 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 20
115327 GACCCTTCTA
*
115337 TTTTTTGCTATTTTTTTCTT
1 TTTTTTGCTATTTTTTTGTT
*
115357 TTTTTT--TGTTTTTTTG-T
1 TTTTTTGCTATTTTTTTGTT
* *
115374 TTTGTTG-TTTTTTTTTGTT
1 TTTTTTGCTATTTTTTTGTT
* *
115393 TTTTTTGTTTTTTTTTTG
1 TTTTTTGCTATTTTTTTG
115411 GTGTTAAAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
17 6 0.13
18 17 0.37
19 7 0.15
20 16 0.35
ACGTcount: A:0.01, C:0.03, G:0.11, T:0.85
Consensus pattern (20 bp):
TTTTTTGCTATTTTTTTGTT
Found at i:115407 original size:13 final size:13
Alignment explanation
Indices: 115355--115409 Score: 76
Period size: 13 Copynumber: 4.2 Consensus size: 13
115345 TATTTTTTTC
115355 TTTTTTTTTGTTT
1 TTTTTTTTTGTTT
* *
115368 TTTTGTTTTGTTG
1 TTTTTTTTTGTTT
115381 TTTTTTTTTGTTT
1 TTTTTTTTTGTTT
115394 TTTTTGTTTT-TTT
1 TTTTT-TTTTGTTT
115407 TTT
1 TTT
115410 GGTGTTAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
13 33 0.89
14 4 0.11
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Done.