Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 60 of 295
Found at i:17623948 original size:28 final size:28
Alignment explanation
Indices: 17623833--17624036 Score: 139
Period size: 29 Copynumber: 7.1 Consensus size: 28
17623823 AGGCTTACTC
*
17623833 TTCTAGAGTTTTGCCACAAAGGTTTGCCT
1 TTCTAGAGTTTTGCCACAAAGG-TTACCT
* * *
17623862 TTCTAGAATTTTTCCACAAAGGCTATCCT
1 TTCTAGAGTTTTGCCACAAAGGTTA-CCT
** * *
17623891 TTCATAG-G-TTCACCAAAAAGGCATACCT
1 TTC-TAGAGTTTTGCCACAAAGG-TTACCT
**
17623919 TTCTAGAGTTTTGCCACAAAGGTTGTCT
1 TTCTAGAGTTTTGCCACAAAGGTTACCT
*
17623947 TT-TAGCAGGTTTT-CCACATAGGCTTACCT
1 TTCTAG-A-GTTTTGCCACAAAGG-TTACCT
* * * *
17623976 TTCCAGAGTTTTGTCACAAAGGCTATCT
1 TTCTAGAGTTTTGCCACAAAGGTTACCT
* *
17624004 TT-TAGCAGGTTTGCCAGAAAGGTTTACCT
1 TTCTAG-AGTTTTGCCACAAAGG-TTACCT
17624033 TTCT
1 TTCT
17624037 TGGTGATTTA
Statistics
Matches: 133, Mismatches: 29, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
27 8 0.06
28 56 0.42
29 63 0.47
30 6 0.05
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (28 bp):
TTCTAGAGTTTTGCCACAAAGGTTACCT
Found at i:17624015 original size:57 final size:57
Alignment explanation
Indices: 17623842--17624035 Score: 201
Period size: 57 Copynumber: 3.4 Consensus size: 57
17623832 CTTCTAGAGT
* * * * * * *
17623842 TTTGCCACAAAGGTTTGCCTTTCTAGAATTTTTCCACAAAGGCTATCCTTTCA-TAGG
1 TTTGCCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTAT-CTTTTAGCAGG
** * * * * *
17623899 TTCACCAAAAAGGCATACCTTTCTAGAGTTTTGCCACAAAGGTTGTCTTTTAGCAGG
1 TTTGCCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCTTTTAGCAGG
* * *
17623956 TTTTCCACATAGGCTTACCTTTCCAGAGTTTTGTCACAAAGGCTATCTTTTAGCAGG
1 TTTGCCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCTTTTAGCAGG
* *
17624013 TTTGCCAGAAAGGTTTACCTTTC
1 TTTGCCACAAAGGCTTACCTTTC
17624036 TTGGTGATTT
Statistics
Matches: 111, Mismatches: 25, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
56 5 0.05
57 106 0.95
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (57 bp):
TTTGCCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCTTTTAGCAGG
Found at i:17632354 original size:29 final size:29
Alignment explanation
Indices: 17632319--17632392 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
17632309 GTTGTGAGAT
* *
17632319 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
17632348 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
17632377 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17632393 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:17640467 original size:29 final size:29
Alignment explanation
Indices: 17640432--17640505 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
17640422 GTTGTGAGAT
* *
17640432 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
17640461 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
17640490 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
17640506 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:17654530 original size:36 final size:33
Alignment explanation
Indices: 17654483--17654551 Score: 84
Period size: 36 Copynumber: 2.0 Consensus size: 33
17654473 CCGTTAGCTC
*
17654483 CAGTTAGGGCCTCAGCCTCTTTTTCAGTAACAGTAT
1 CAGTTAGGGCCTCAGCC-C-ATTTCAGT-ACAGTAT
* *
17654519 CAGTTTGGGCCTGAGCCCATTTCAGTACAGTAT
1 CAGTTAGGGCCTCAGCCCATTTCAGTACAGTAT
17654552 ACAAACAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 7 0.23
34 7 0.23
35 1 0.03
36 15 0.50
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (33 bp):
CAGTTAGGGCCTCAGCCCATTTCAGTACAGTAT
Found at i:17664662 original size:21 final size:21
Alignment explanation
Indices: 17664638--17664678 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17664628 ATTACTCGAA
*
17664638 AGAAGCC-GATTGATCCATCTC
1 AGAAGCCAGATTCAT-CATCTC
17664659 AGAAGCCAGATTCATCATCT
1 AGAAGCCAGATTCATCATCT
17664679 AGACTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (21 bp):
AGAAGCCAGATTCATCATCTC
Found at i:17668449 original size:44 final size:44
Alignment explanation
Indices: 17668385--17668496 Score: 152
Period size: 44 Copynumber: 2.5 Consensus size: 44
17668375 GAATTACATC
* * * *
17668385 AAGATTACCCATCCGGGCTAAATCCTTTCTATAACGAGGTTAAT
1 AAGATTACTCATCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
* **
17668429 AAGATTACTCATCTGAGCTAAAAACTTTCTATAACGAGCTCAAT
1 AAGATTACTCATCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
*
17668473 AAGATTACTCGTCCGAGCTAAATC
1 AAGATTACTCATCCGAGCTAAATC
17668497 TCGTCAGCAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (44 bp):
AAGATTACTCATCCGAGCTAAATCCTTTCTATAACGAGCTCAAT
Found at i:17670138 original size:39 final size:38
Alignment explanation
Indices: 17670091--17670167 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 38
17670081 TGTATGTTGG
**
17670091 GCCACTGGT-AGGATATGTTAGTTGTTAACCAAGTTGGCA
1 GCCACTGGTAAGG-TATGTTAGTTACTAACC-AGTTGGCA
17670130 GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
1 GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
17670168 TGAGTGCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 8 0.23
39 24 0.69
40 3 0.09
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (38 bp):
GCCACTGGTAAGGTATGTTAGTTACTAACCAGTTGGCA
Found at i:17679789 original size:15 final size:16
Alignment explanation
Indices: 17679761--17679790 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17679751 CAACCATGCT
17679761 TTAACACAATATCAAA
1 TTAACACAATATCAAA
17679777 TTAACAC-ATATCAA
1 TTAACACAATATCAA
17679791 CAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACACAATATCAAA
Found at i:17681644 original size:20 final size:20
Alignment explanation
Indices: 17681607--17681645 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
17681597 CTCTATGTAC
17681607 TCTCTCAATTTTTACATACA
1 TCTCTCAATTTTTACATACA
*
17681627 TCTCTTAATCTTTT-CATAC
1 TCTCTCAAT-TTTTACATAC
17681646 CAATTCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (20 bp):
TCTCTCAATTTTTACATACA
Found at i:17714210 original size:68 final size:70
Alignment explanation
Indices: 17714138--17714295 Score: 180
Period size: 68 Copynumber: 2.3 Consensus size: 70
17714128 CATCATGTGT
* ** * * *
17714138 ACAAGAGAGCTACGAGATA-CTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-C
1 ACAAGAGAGCTACGAGATAGATAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CAC
17714199 CATGTAG
64 CATGTAG
* * *
17714206 ACAAGAGAGCTACGGGATAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTACGAGATAGATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
17714271 ATGTAG
65 ATGTAG
17714277 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
17714296 AATTGGTTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
68 38 0.51
69 4 0.05
70 1 0.01
71 32 0.43
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (70 bp):
ACAAGAGAGCTACGAGATAGATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCA
TGTAG
Found at i:17730037 original size:189 final size:189
Alignment explanation
Indices: 17729678--17730044 Score: 522
Period size: 189 Copynumber: 1.9 Consensus size: 189
17729668 GTGAAACCAT
* * * * * * * *
17729678 AAATCCTATACCTCTGAAGTTGTAGTAGGTCGAATTAAGTCATCATGGTGAATCTTATCTCCCTA
1 AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTA
* *
17729743 AAGTTGCAGTGGAGTAGATTAAAGCCACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGAATG
66 AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTGCAGTGGAGCAGAATG
* *
17729808 AAGATAGCAAATCTCATTTCCCTAAAGTTACGGCAGAACAGATTAAAGTTATAAGTCAC
131 AAGAAAGCAAATCTCATTTCCCTAAAGTTACAGCAGAACAGATTAAAGTTATAAGTCAC
*
17729867 AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTG
1 AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTA
* *
17729932 AAGTTGCAGTGGAGCAGATTAAATCCACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA-AACT
66 AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTGCAGTGGAGCAGAA-T
* * * * *
17729996 GAAGAAAGTAAATCTTATCTT-CCTGAAGTTGCAGTAGAACAGATTAAAG
130 GAAGAAAGCAAATCTCAT-TTCCCTAAAGTTACAGCAGAACAGATTAAAG
17730045 CTACAAACCA
Statistics
Matches: 156, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
188 2 0.01
189 152 0.97
190 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (189 bp):
AAATCCTATACCTCTAAACTTGCAGTAGGTCAAATTAAGCCAGCATGGCGAATCTCATCTCCCTA
AAGTTGCAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCACTAAAGTTGCAGTGGAGCAGAATG
AAGAAAGCAAATCTCATTTCCCTAAAGTTACAGCAGAACAGATTAAAGTTATAAGTCAC
Found at i:17738974 original size:19 final size:19
Alignment explanation
Indices: 17738950--17738989 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17738940 GGGTTTAAGG
*
17738950 TTTAAGAGATTTTGAGAGA
1 TTTAAGAGAGTTTGAGAGA
*
17738969 TTTAAGAGAGTTTGAGGGA
1 TTTAAGAGAGTTTGAGAGA
17738988 TT
1 TT
17738990 AGAGGTCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (19 bp):
TTTAAGAGAGTTTGAGAGA
Found at i:17745421 original size:20 final size:20
Alignment explanation
Indices: 17745389--17745426 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17745379 GTGGAATTTG
*
17745389 TATGAAAAGATAAGATTAAT
1 TATGAAAAGATAAAATTAAT
17745409 TATGAAGAA-ATAAAATTA
1 TATGAA-AAGATAAAATTA
17745427 GTCTCAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (20 bp):
TATGAAAAGATAAAATTAAT
Found at i:17745998 original size:38 final size:39
Alignment explanation
Indices: 17745896--17745999 Score: 97
Period size: 37 Copynumber: 2.7 Consensus size: 39
17745886 CTTCGAGTCG
* ** *
17745896 ATGAAACACTGAGTGTCAATTTATTACTTCGTATTTATTCG
1 ATGAGACACTG-GTGTCAATTT-TTACTTCGTATTTAACCA
* * *
17745937 ATGAGGCACTGGGTGCCAA--TTTACTTCG-GTTTAACCA
1 ATGAGACACT-GGTGTCAATTTTTACTTCGTATTTAACCA
17745974 ATGAGACACTGGTGTCAATTTTTACT
1 ATGAGACACTGGTGTCAATTTTTACT
17746000 ACTTCGAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
36 7 0.14
37 14 0.27
38 14 0.27
39 1 0.02
41 14 0.27
42 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (39 bp):
ATGAGACACTGGTGTCAATTTTTACTTCGTATTTAACCA
Found at i:17746775 original size:21 final size:20
Alignment explanation
Indices: 17746733--17746775 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
17746723 ATTTAAAATG
* * *
17746733 ATGATTTGAATGATGTTTTA
1 ATGATATGAATGATGATATA
17746753 ATGATATGAAATGATGATATA
1 ATGATATG-AATGATGATATA
17746774 AT
1 AT
17746776 TGTGGTACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.42
Consensus pattern (20 bp):
ATGATATGAATGATGATATA
Found at i:17749049 original size:17 final size:17
Alignment explanation
Indices: 17749027--17749061 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17749017 GGTGAAAACA
17749027 TGTCTACAATTAAATCT
1 TGTCTACAATTAAATCT
17749044 TGTCTACAATTAAATCT
1 TGTCTACAATTAAATCT
17749061 T
1 T
17749062 CTTTCCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (17 bp):
TGTCTACAATTAAATCT
Found at i:17752771 original size:27 final size:28
Alignment explanation
Indices: 17752725--17752793 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 28
17752715 ATTAATTAAT
* *
17752725 TTTTTAA-AAA-TTAAAAAACT-ATATA
1 TTTTTAATAAATTTTAATAACTCATATA
*
17752750 CTTTTTAAT-AATTTTAATAACTCTTATA
1 -TTTTTAATAAATTTTAATAACTCATATA
17752778 TTTTTAATAAATTTTA
1 TTTTTAATAAATTTTA
17752794 TAATATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 9 0.25
27 16 0.44
28 11 0.31
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTTAATAAATTTTAATAACTCATATA
Found at i:17752794 original size:18 final size:18
Alignment explanation
Indices: 17752761--17752795 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17752751 TTTTTAATAA
*
17752761 TTTTAATAACTCTTATAT
1 TTTTAATAAATCTTATAT
*
17752779 TTTTAATAAATTTTATA
1 TTTTAATAAATCTTATA
17752796 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTAATAAATCTTATAT
Found at i:17761473 original size:21 final size:21
Alignment explanation
Indices: 17761447--17761488 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
17761437 ATGAACTTAG
17761447 AACTTATAGATTATTTCGTAT
1 AACTTATAGATTATTTCGTAT
17761468 AACTTATAGATTATTTCGTAT
1 AACTTATAGATTATTTCGTAT
17761489 TTTCAGTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (21 bp):
AACTTATAGATTATTTCGTAT
Found at i:17766591 original size:42 final size:42
Alignment explanation
Indices: 17766532--17766631 Score: 130
Period size: 42 Copynumber: 2.4 Consensus size: 42
17766522 ACGGGCAGAG
* * *
17766532 ACACGGGCGTGTGTCTCATTCGTGTGTTCTATATAG-CCTAGA
1 ACACGGGCGTGTGTCTCAGTCGTGTGTGCTACA-AGACCTAGA
*
17766574 ACACGGGCGTGTGTCTCAGTCGTGTGTGCTACACGACCTAGA
1 ACACGGGCGTGTGTCTCAGTCGTGTGTGCTACAAGACCTAGA
* *
17766616 ACATGGGTGTGTGTCT
1 ACACGGGCGTGTGTCT
17766632 TGGCCTTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.30
Consensus pattern (42 bp):
ACACGGGCGTGTGTCTCAGTCGTGTGTGCTACAAGACCTAGA
Found at i:17768660 original size:16 final size:16
Alignment explanation
Indices: 17768639--17768672 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
17768629 GACATGAATT
*
17768639 TGCAATGTTGGCTCTG
1 TGCAATGTTGGCACTG
17768655 TGCAATGTTGGCACTG
1 TGCAATGTTGGCACTG
17768671 TG
1 TG
17768673 TTTTTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.18, G:0.32, T:0.35
Consensus pattern (16 bp):
TGCAATGTTGGCACTG
Found at i:17772338 original size:14 final size:14
Alignment explanation
Indices: 17772316--17772345 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17772306 AAATTATTAT
*
17772316 TTAATTAATTGAAA
1 TTAAATAATTGAAA
17772330 TTAAATAATTGAAA
1 TTAAATAATTGAAA
17772344 TT
1 TT
17772346 TGAGCTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAAATAATTGAAA
Found at i:17784385 original size:27 final size:26
Alignment explanation
Indices: 17784354--17784712 Score: 249
Period size: 27 Copynumber: 13.3 Consensus size: 26
17784344 GTAGGGTAAA
*
17784354 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* *
17784381 ACAGTCATTTTACCCTATAGGGATATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
** * *
17784408 TTGGTCATTTTACCTTACGGGGATATT
1 TCAGTCATTTTACCCTAAGGGG-TATT
** * **
17784435 TTGGTCATTTTAACCTGTGGGGGTATT
1 TCAGTCATTTTACCCT-AAGGGGTATT
* * *
17784462 TCGGTCATTTTATCCTATGGGGCTATT
1 TCAGTCATTTTACCCTAAGGGG-TATT
* *
17784489 TCGGTCATTTTACCCTATGGGG-ATTGT
1 TCAGTCATTTTACCCTAAGGGGTA-T-T
* *
17784516 TC-GATCATTTTACCCTCTAGGGATATT
1 TCAG-TCATTTTACCCT-AAGGGGTATT
*
17784543 TC-GATCATTTTACCCTATGGGGGTATT
1 TCAG-TCATTTTACCCTA-AGGGGTATT
*
17784570 TCAGTCATTTTACCATATAGGGGTATT
1 TCAGTCATTTTACCCTA-AGGGGTATT
* * *
17784597 TTAGTCATTTTACCCTATGAGGATATT
1 TCAGTCATTTTACCCTAAG-GGGTATT
* *
17784624 TCAGTCATTTTACCTTATGGAGGTATT
1 TCAGTCATTTTACCCTAAGG-GGTATT
* *
17784651 T-TGATCATTTTACCCTATGGGGGTATT
1 TCAG-TCATTTTACCCTA-AGGGGTATT
* * *
17784678 TCGGTCATTTTACCTTATGAGGGTATT
1 TCAGTCATTTTACCCTAAG-GGGTATT
*
17784705 TCGGTCAT
1 TCAGTCAT
17784713 CATCTCGGCC
Statistics
Matches: 276, Mismatches: 40, Indels: 32
0.79 0.11 0.09
Matches are distributed among these distances:
25 1 0.00
26 13 0.05
27 249 0.90
28 12 0.04
29 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
TCAGTCATTTTACCCTAAGGGGTATT
Found at i:17784419 original size:54 final size:54
Alignment explanation
Indices: 17784357--17784712 Score: 343
Period size: 54 Copynumber: 6.6 Consensus size: 54
17784347 GGGTAAATCA
* * *
17784357 GTCATTTTACCTTACAGGGGTATTACAGTCATTTTACCCTATAGGGATATTTTG
1 GTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATGGGGATATTTCG
** * * *
17784411 GTCATTTTACCTTAC-GGGGATATTTTGGTCATTTTAACCTGTGGGGGTATTTCG
1 GTCATTTTACCTTACAGGGG-TATTTCAGTCATTTTACCCTATGGGGATATTTCG
* *
17784465 GTCATTTTATCC-TA-TGGGGCTATTTCGGTCATTTTACCCTATGGGGAT-TGTTCG
1 GTCATTTTA-CCTTACAGGGG-TATTTCAGTCATTTTACCCTATGGGGATAT-TTCG
* * * * *
17784519 ATCATTTTACCCT-CTAGGGATATTTC-GATCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCTTAC-AGGGGTATTTCAG-TCATTTTACCCTATGGGGATATTTCG
* * * * *
17784573 GTCATTTTACCATATAGGGGTATTTTAGTCATTTTACCCTATGAGGATATTTCA
1 GTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATGGGGATATTTCG
* * *
17784627 GTCATTTTACCTTA-TGGAGGTATTT-TGATCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTACAGG-GGTATTTCAG-TCATTTTACCCTATGGGGATATTTCG
* *
17784681 GTCATTTTACCTTA-TGAGGGTATTTCGGTCAT
1 GTCATTTTACCTTACAG-GGGTATTTCAGTCAT
17784713 CATCTCGGCC
Statistics
Matches: 255, Mismatches: 32, Indels: 30
0.80 0.10 0.09
Matches are distributed among these distances:
53 11 0.04
54 235 0.92
55 9 0.04
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATGGGGATATTTCG
Found at i:17784495 original size:81 final size:80
Alignment explanation
Indices: 17784373--17784712 Score: 344
Period size: 81 Copynumber: 4.2 Consensus size: 80
17784363 TTACCTTACA
* * * * * * *
17784373 GGGGTATTACAGTCATTTTACCCTATAGGGATATTTTGGTCATTTTACCTTACGGGGATATTTTG
1 GGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTATGGGGATATTTCG
*
17784438 GTCATTTTAACCTGTG
65 GTCATTTTAACCTATG
*
17784454 GGGGTATTTCGGTCATTTTATCCTATGGGGCTATTTCGGTCATTTTACCCTATGGGGAT-TGTTC
1 GGGGTATTTCGGTCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCCTATGGGGATAT-TTC
* * * *
17784518 GATCATTTTACCCTCTA
64 GGTCATTTTAACCTATG
* * * * *
17784535 GGGATATTTCGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCATATAGGGG-TATTTT
1 GGGGTATTTCGGTCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCCTAT-GGGGATATTTC
* *
17784599 AGTCATTTTACCCTATG
64 GGTCATTTTAACCTATG
* * * * * * *
17784616 AGGATATTTCAGTCATTTTACCTTATGGAGGTATTTTGATCATTTTACCCTATGGGGGTATTTCG
1 GGGGTATTTCGGTCATTTTACCCTATGG-GGTATTTCGGTCATTTTACCCTATGGGGATATTTCG
17784681 GTCATTTT-ACCTTATG
65 GTCATTTTAACC-TATG
*
17784697 AGGGTATTTCGGTCAT
1 GGGGTATTTCGGTCAT
17784713 CATCTCGGCC
Statistics
Matches: 216, Mismatches: 35, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
80 12 0.06
81 195 0.90
82 9 0.04
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (80 bp):
GGGGTATTTCGGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCCTATGGGGATATTTCGG
TCATTTTAACCTATG
Found at i:17792685 original size:39 final size:39
Alignment explanation
Indices: 17792587--17792769 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 39
17792577 GAATGATGTC
* * * *
17792587 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATT
*
17792627 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATT
*
17792666 CTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATT
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AATT
* * **
17792706 CGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
*
17792746 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
17792770 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 80 0.66
41 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:17792791 original size:79 final size:79
Alignment explanation
Indices: 17792638--17792802 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
17792628 GGACTAAGAT
* * **
17792638 CCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
17792703 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* * *
17792717 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
17792780 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
17792796 CCGAAGG
1 CCGAAGG
17792803 TACGTGATTC
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.68
80 21 0.29
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:17797508 original size:46 final size:45
Alignment explanation
Indices: 17797420--17797632 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 45
17797410 TTACCGATCC
* **
17797420 CATGTCCTAGACATGGTCTTACACTGG--CACATCCCGTAGCCGATG
1 CATGTCCTAGACAT-GTCTTACACTGGCTCTCATCAAG-AGCCGATG
17797465 CATGTCCTAGACATGTCTTACACTGGCT-TACATCAAGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTGGCTCT-CATCAAGA-GCCGATG
* * * *
17797511 CATGT-CTCAGACATGTCTTACACTAGCTCTCGTCTCAATA-CAGATG
1 CATGTCCT-AGACATGTCTTACACTGGCTCTC--ATCAAGAGCCGATG
* *
17797557 CCATATACCTAGACATGGTCTTACACTGGCTCTCAT-AATGTGGCCGATG
1 -CATGT-CCTAGACAT-GTCTTACACTGGCTCTCATCAA-G-AGCCGATG
17797606 CATGTCCTAGACATGTCTTACACTGGC
1 CATGTCCTAGACATGTCTTACACTGGC
17797633 ACACAAATAA
Statistics
Matches: 139, Mismatches: 14, Indels: 29
0.76 0.08 0.16
Matches are distributed among these distances:
44 12 0.09
45 17 0.12
46 57 0.41
47 15 0.11
48 15 0.11
49 23 0.17
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCTAGACATGTCTTACACTGGCTCTCATCAAGAGCCGATG
Found at i:17814686 original size:50 final size:48
Alignment explanation
Indices: 17814626--17814840 Score: 182
Period size: 47 Copynumber: 4.6 Consensus size: 48
17814616 TGAGGTTGAC
*
17814626 GCCATGTCCCAGACATGGCCTTACACTAGCTCTCGCATATCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCGC-TATCC-TGCCGAT
* * * *
17814676 GCCATTTCCCAGATATGGTCTTACACTGGCACAT--CTA--CTAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGCTATCCT-GCCGAT
** * *
17814722 -TAATGTCCCAGACAT-GTCTTACACTAGCTCTCG-TCTCAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCTATC-CTGCCGAT
* *
17814768 GCCATGTCCCAGACATGGTCTTACACTAGCTCTC-ATAAT-ATGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCT-ATCCT-GCCGAT
*
17814816 G-CATGTCCCAGATAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
17814841 GGCACACAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 28
0.75 0.09 0.15
Matches are distributed among these distances:
43 1 0.01
44 14 0.10
45 12 0.09
46 23 0.17
47 29 0.21
48 27 0.20
49 2 0.01
50 27 0.20
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCGCTATCCTGCCGAT
Found at i:17814827 original size:94 final size:95
Alignment explanation
Indices: 17814527--17814840 Score: 272
Period size: 94 Copynumber: 3.3 Consensus size: 95
17814517 GTGTAATGTT
* * * *
17814527 GATGCCATCTCCCAGACATGGTCTTACACTGGCTCATC--CATCAA-GTCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCGTC-TCAATGCCGATGCCATGTCCCAG
* * * **
17814589 ACATCGTCTTACACTGACTATCAAAAT-TGAGGTT
64 ACATGGTCTTACACTG-CTCTCATAATAT--GGCC
* * * ** *
17814623 GACGCCATGTCCCAGACATGGCCTTACACTAGCTCTCGCATATCCGTGCCGATGCCATTTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG--TCTCAATGCCGATGCCATGTCCCAG
* * *
17814688 ATATGGTCTTACACTGGCACATC-TACTA--GCC
64 ACATGGTCTTACACT-GCTC-TCATAATATGGCC
**
17814719 GAT-TAATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
17814782 ATGGTCTTACACTAGCTCTCATAATATGGCC
66 ATGGTCTTACACT-GCTCTCATAATATGGCC
*
17814813 GATG-CATGTCCCAGATAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
17814841 GGCACACAAA
Statistics
Matches: 174, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
91 2 0.01
92 42 0.24
94 45 0.26
95 15 0.09
96 34 0.20
98 2 0.01
99 31 0.18
100 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (95 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGCTCTCATAATATGGCC
Found at i:17818113 original size:30 final size:30
Alignment explanation
Indices: 17818079--17818141 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
17818069 AATCAAAGGT
*
17818079 AGATACTGTTCCCACGTACCTTCAAACTCG
1 AGATACTGTTCCCACGCACCTTCAAACTCG
* *
17818109 AGATATTGTTCCCACGCACCTTCAAACTTG
1 AGATACTGTTCCCACGCACCTTCAAACTCG
17818139 AGA
1 AGA
17818142 ATGCAACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (30 bp):
AGATACTGTTCCCACGCACCTTCAAACTCG
Found at i:17823470 original size:42 final size:43
Alignment explanation
Indices: 17823422--17823529 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 43
17823412 TCGATGCCTC
17823422 TGTCCCAGACAAGGTCTTACACG-AAA-TCAAATACG-ATACC-G
1 TGTCCCAGACAAGGTCTTACACGTAAACTCAAAT-CGAAT-CCTG
*
17823463 ATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGAATCCTG
1 -TGTCCCAGACAAGGTCTTACACGTAAA-CTCAAATCGAATCCTG
*
17823508 TGTCCCAGACACGGTCTTACAC
1 TGTCCCAGACAAGGTCTTACAC
17823530 AATATTTCAG
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
42 22 0.37
43 3 0.05
44 25 0.42
45 9 0.15
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
TGTCCCAGACAAGGTCTTACACGTAAACTCAAATCGAATCCTG
Found at i:17823518 original size:44 final size:43
Alignment explanation
Indices: 17823380--17823529 Score: 148
Period size: 42 Copynumber: 3.5 Consensus size: 43
17823370 CAATGCTAAC
* * * * * *
17823380 GTCCCGGATATGGTCTCACATGT-AATTCAATATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCAA-ATCGATACCTGT
*
17823423 GTCCCAGACAAGGTCTTACACG-AAA-TCAAATACGATACC-GAT
1 GTCCCAGACATGGTCTTACACGTAAATTCAAAT-CGATACCTG-T
17823465 GTCCCAGACATGGTCTTACACGTAAATCTCAAATCGA-ATCCTGT
1 GTCCCAGACATGGTCTTACACGTAAAT-TCAAATCGATA-CCTGT
*
17823509 GTCCCAGACACGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
17823530 AATATTTCAG
Statistics
Matches: 90, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.02
42 32 0.36
43 23 0.26
44 26 0.29
45 7 0.08
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATACCTGT
Found at i:17837589 original size:14 final size:14
Alignment explanation
Indices: 17837566--17837595 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17837556 TTGAAAATAT
17837566 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
17837580 GTTGATTTGGATTG
1 GTTGAATTGGATTG
17837594 GT
1 GT
17837596 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:17839154 original size:46 final size:46
Alignment explanation
Indices: 17839087--17839260 Score: 269
Period size: 46 Copynumber: 3.8 Consensus size: 46
17839077 TGTAACCCAC
* *
17839087 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCAT
*
17839133 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCAT
* *
17839179 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC-GGACATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
* *
17839225 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAG
17839261 ATTCCCAAAT
Statistics
Matches: 120, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.02
46 117 0.98
47 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCAGGCGTTCGCAT
Found at i:17840070 original size:27 final size:27
Alignment explanation
Indices: 17840032--17840086 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
17840022 TTTCAAAAAT
17840032 ACATAGAACATTAAAAATGGAGCTCGG
1 ACATAGAACATTAAAAATGGAGCTCGG
17840059 ACATAGAACATTAAAAATGGAGCTCGG
1 ACATAGAACATTAAAAATGGAGCTCGG
17840086 A
1 A
17840087 ATCACTTACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.15, G:0.22, T:0.18
Consensus pattern (27 bp):
ACATAGAACATTAAAAATGGAGCTCGG
Found at i:17843632 original size:38 final size:38
Alignment explanation
Indices: 17843568--17843685 Score: 146
Period size: 38 Copynumber: 3.1 Consensus size: 38
17843558 TGTTATTCAA
*** * *
17843568 GCTTAGTGCCAGTGGTGTTCAGGCTTACTGCCTAGCAG
1 GCTTAGTGCCAGTGACATTCAAGCTTAGTGCCTAGCAG
*
17843606 GCTTAGTGCCGGTGACATTCAAGCTTAGTGCCTAGCAG
1 GCTTAGTGCCAGTGACATTCAAGCTTAGTGCCTAGCAG
* ** *
17843644 GCTTAGTGCTAGTGTTATTCAAGCTTAGTGCTTAGCAG
1 GCTTAGTGCCAGTGACATTCAAGCTTAGTGCCTAGCAG
17843682 GCTT
1 GCTT
17843686 TAAGCCATTG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (38 bp):
GCTTAGTGCCAGTGACATTCAAGCTTAGTGCCTAGCAG
Found at i:17846832 original size:3 final size:3
Alignment explanation
Indices: 17846821--17846872 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
17846811 GATATTATTT
* * *
17846821 TAA TTA TAA TAA -CA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
17846868 CAA TA
1 TAA TA
17846873 CTTTCATATA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 1 0.03
3 39 0.98
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:17847467 original size:13 final size:13
Alignment explanation
Indices: 17847449--17847488 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
17847439 GGAGTAATCG
17847449 CACACGGGCGTGT
1 CACACGGGCGTGT
17847462 CACACGGGCGTGT
1 CACACGGGCGTGT
17847475 CACACGGGCGTGT
1 CACACGGGCGTGT
17847488 C
1 C
17847489 CCTATCGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:17849445 original size:22 final size:22
Alignment explanation
Indices: 17849420--17849477 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
17849410 TAATGAAGGT
*
17849420 GATATCATGATACCCGGAAGAG
1 GATATCATGATACCCAGAAGAG
* **
17849442 GATATCGTGATACTTAGAAGAG
1 GATATCATGATACCCAGAAGAG
*
17849464 GATATCACGATACC
1 GATATCATGATACC
17849478 ATTGAAGTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.22
Consensus pattern (22 bp):
GATATCATGATACCCAGAAGAG
Found at i:17849892 original size:85 final size:86
Alignment explanation
Indices: 17849743--17849911 Score: 234
Period size: 85 Copynumber: 2.0 Consensus size: 86
17849733 AGATAAAAAC
* * * * * *
17849743 ATTTGTAGTTACTGCTACTTGTTGTAAGTACACAACATGGTTGCAGATTAAACAAATTGTCACTG
1 ATTTGTAGTTACTACCACTTGCTGTAAGTACACAACATGATTGCAGATTAAACAAACTGCCACTG
17849808 GG-TTTGTGGACGAGCCACAT
66 GGTTTTGTGGACGAGCCACAT
* *
17849828 ATTTGTAGTTACTACCACTTGCTGTGAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCACT
1 ATTTGTAGTTACTACCACTTGCTGTAAGTACACAACATGATT-GCAGATTAAACAAACTGCCACT
*
17849892 GGGTTTTGTGGATGAGCCAC
65 GGGTTTTGTGGACGAGCCAC
17849912 CACTTGTTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 2 0.03
85 56 0.77
86 15 0.21
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (86 bp):
ATTTGTAGTTACTACCACTTGCTGTAAGTACACAACATGATTGCAGATTAAACAAACTGCCACTG
GGTTTTGTGGACGAGCCACAT
Found at i:17851561 original size:24 final size:21
Alignment explanation
Indices: 17851527--17851578 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 21
17851517 GACAAATTGA
17851527 ATCATTTCACAAATAATTCATAAAC
1 ATCA-TTCACAAATAA-TCAT--AC
*
17851552 ATCATTCACACATAATCATAC
1 ATCATTCACAAATAATCATAC
17851573 ATCATT
1 ATCATT
17851579 ACGGAGTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 8 0.31
23 4 0.15
24 10 0.38
25 4 0.15
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (21 bp):
ATCATTCACAAATAATCATAC
Found at i:17853021 original size:43 final size:42
Alignment explanation
Indices: 17852950--17853076 Score: 150
Period size: 43 Copynumber: 3.0 Consensus size: 42
17852940 CGAAAAACTC
* * * *
17852950 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGACCCAGACGTGGTCTTACACGAAATCAA
*
17852992 ATATCGATGCCACTGACCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGACCCAGAC-GTGGTCTTACACGAAATCAA
*
17853035 ATACGATGCCAA-CATCCCAGACGTGGTCTTACACGTAAATCA
1 ATACGATGCCAATGA-CCCAGACGTGGTCTTACACG-AAATCA
17853077 TAAGTCGATA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.03
42 29 0.40
43 41 0.56
44 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (42 bp):
ATACGATGCCAATGACCCAGACGTGGTCTTACACGAAATCAA
Found at i:17853055 original size:42 final size:41
Alignment explanation
Indices: 17852950--17853107 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 41
17852940 CGAAAAACTC
* * * *
17852950 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAA-CTCCCAGACGTGGTCTTACACGAAATCAA
17852992 ATATCGATGCC-ACTGACCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAACT--CCCAGAC-GTGGTCTTACACGAAATCAA
17853035 ATACGATGCCAACATCCCAGACGTGGTCTTACACGTAAATCATA
1 ATACGATGCCAAC-TCCCAGACGTGGTCTTACACG-AAATCA-A
* * *
17853079 AGT-CGATACCAACGTTCCAGATGTGGTCT
1 A-TACGATGCCAAC-TCCCAGACGTGGTCT
17853108 GATACGAGAA
Statistics
Matches: 98, Mismatches: 8, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 40 0.41
44 26 0.27
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (41 bp):
ATACGATGCCAACTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:17860640 original size:43 final size:43
Alignment explanation
Indices: 17860520--17860678 Score: 184
Period size: 43 Copynumber: 3.7 Consensus size: 43
17860510 AACTCGTACA
* *
17860520 ATGCCAACGTCCCAGGCATGCTCTTACA--TATAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTA-AATCAAATA-CG
* *
17860563 ATGCC-ACTGTCCCAGAGAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAATACG
*
17860605 ATGCCAACGTCCCAGACATTGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AA-TACG
*
17860649 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
17860679 AGAACACATA
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
42 28 0.28
43 38 0.38
44 33 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATACG
Found at i:17860664 original size:86 final size:85
Alignment explanation
Indices: 17860520--17860679 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
17860510 AACTCGTACA
*
17860520 ATGCCAACGTCCCAGGCATGCTCTTACATATAATCAAATATCGATGCCACTGTCCCAGA-GAGGG
1 ATGCCAACGTCCCAGACATGCTCTTACATATAATCAAATATCGATGCCACTGTCCCAGACG-GGG
17860584 TCTTACACGAAATCAAATACG
65 TCTTACACGAAATCAAATACG
*
17860605 ATGCCAACGTCCCAGACATTG-TCTTACACGTA-AATCATAA-GTCGATGCCAAC-GTCCCAGAC
1 ATGCCAACGTCCCAGACA-TGCTCTTACA--TATAATCA-AATATCGATGCC-ACTGTCCCAGAC
*
17860666 GTGGTCTTACACGA
61 GGGGTCTTACACGA
17860680 GAACACATAT
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
85 24 0.36
86 35 0.53
87 7 0.11
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGCTCTTACATATAATCAAATATCGATGCCACTGTCCCAGACGGGGT
CTTACACGAAATCAAATACG
Found at i:17862555 original size:26 final size:26
Alignment explanation
Indices: 17862507--17862556 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17862497 CTAATTATGA
**
17862507 TAATTAAAAAATAAAATTTTAAAAAC
1 TAATTAAAAAATAAAATCGTAAAAAC
17862533 TAATTAAAAAATAAACA-CGTAAAA
1 TAATTAAAAAATAAA-ATCGTAAAA
17862557 CATATGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (26 bp):
TAATTAAAAAATAAAATCGTAAAAAC
Found at i:17864299 original size:18 final size:18
Alignment explanation
Indices: 17864276--17864312 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
17864266 TAATCTGTAA
17864276 AACATGAGATCTTGTCAT
1 AACATGAGATCTTGTCAT
17864294 AACATGAGATCTTGTCAT
1 AACATGAGATCTTGTCAT
17864312 A
1 A
17864313 TATTAGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
AACATGAGATCTTGTCAT
Found at i:17867120 original size:40 final size:40
Alignment explanation
Indices: 17867067--17867163 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
17867057 CTATGTCGAT
17867067 ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
* * *
17867107 ATCGCACATTTAGTGCCTCAAGTAGCCGAAGCTAGTTTAA
1 ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
17867147 ATCGCACACTTAGTGCC
1 ATCGCACACTTAGTGCC
17867164 AACTACTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTCAAATAGCCAAAGCTAGTTTAA
Found at i:17867842 original size:18 final size:18
Alignment explanation
Indices: 17867819--17867859 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
17867809 TCAAAAACCG
17867819 ATCAAAACTCATACCTTA
1 ATCAAAACTCATACCTTA
17867837 ATCAAAACTCATACCTTA
1 ATCAAAACTCATACCTTA
17867855 ATCAA
1 ATCAA
17867860 GGATACAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (18 bp):
ATCAAAACTCATACCTTA
Found at i:17869636 original size:33 final size:33
Alignment explanation
Indices: 17869599--17869662 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
17869589 GACTACTAGA
* * *
17869599 GAGGGTGATGTTGAAGGGGTGGAAGTTGATGGG
1 GAGGGTGATGATAAAGGGGTAGAAGTTGATGGG
*
17869632 GAGGGTGATGATAAAGGGGTAGAATTTGATG
1 GAGGGTGATGATAAAGGGGTAGAAGTTGATG
17869663 ATGAAGGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.25
Consensus pattern (33 bp):
GAGGGTGATGATAAAGGGGTAGAAGTTGATGGG
Found at i:17869672 original size:33 final size:33
Alignment explanation
Indices: 17869602--17869673 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
17869592 TACTAGAGAG
* * * * *
17869602 GGTGATGTTGAAGGGGTGGAAGTTGATGGGGAG
1 GGTGATGATAAAGGGGTAGAAGTTGATGAGGAA
* *
17869635 GGTGATGATAAAGGGGTAGAATTTGATGATGAA
1 GGTGATGATAAAGGGGTAGAAGTTGATGAGGAA
17869668 GGTGAT
1 GGTGAT
17869674 CTAGAAAAGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.46, T:0.26
Consensus pattern (33 bp):
GGTGATGATAAAGGGGTAGAAGTTGATGAGGAA
Found at i:17869915 original size:51 final size:51
Alignment explanation
Indices: 17869846--17869998 Score: 243
Period size: 51 Copynumber: 3.0 Consensus size: 51
17869836 GTTGCTGGTA
*
17869846 ATGAATATGCTAGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* *
17869897 ATGAATATGTTGGTGATTTTGCAACATCAGATAGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * * *
17869948 ATAAATATGCTGGTGACTTTGCAACATCAGATGGACTAGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
17869999 CTACACGTAG
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 93 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.33
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:17872801 original size:22 final size:22
Alignment explanation
Indices: 17872775--17872819 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
17872765 TCATATGCTT
17872775 TTGTAAAGTACATTTATCAAAA
1 TTGTAAAGTACATTTATCAAAA
17872797 TTGTAAAGTACATTTATCAAAA
1 TTGTAAAGTACATTTATCAAAA
17872819 T
1 T
17872820 CATATGCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (22 bp):
TTGTAAAGTACATTTATCAAAA
Found at i:17880769 original size:40 final size:40
Alignment explanation
Indices: 17880713--17880802 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
17880703 GATATCGCAT
* * *
17880713 ACTTAGTACCTGAAATAGTCGAAGCTAGTTTAAATCACAC
1 ACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAAATCACAC
**
17880753 ACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAAATCGTAC
1 ACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAAATCACAC
17880793 ACTTAGTGCC
1 ACTTAGTGCC
17880803 AACTAATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (40 bp):
ACTTAGTGCCTCAAATAGCCGAAGCTAGTTTAAATCACAC
Found at i:17886385 original size:16 final size:17
Alignment explanation
Indices: 17886364--17886403 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
17886354 ATATATATTA
17886364 TATATTATTAATT-GAT
1 TATATTATTAATTAGAT
*
17886380 TATATTA-TAATTATAT
1 TATATTATTAATTAGAT
17886396 TATATTAT
1 TATATTAT
17886404 GAAACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TATATTATTAATTAGAT
Found at i:17886463 original size:15 final size:16
Alignment explanation
Indices: 17886437--17886469 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17886427 TGTATGGTAA
17886437 TAAAAATATATATGTG
1 TAAAAATATATATGTG
*
17886453 TAAAAAT-TATATTTG
1 TAAAAATATATATGTG
17886468 TA
1 TA
17886470 TAATTGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
TAAAAATATATATGTG
Found at i:17886563 original size:28 final size:29
Alignment explanation
Indices: 17886512--17886569 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
17886502 ATTTAAGTAT
* *
17886512 AAAGATATTTTATGATTATTAATTATATTA
1 AAAGATATTTTATGATGATAAATTA-ATTA
17886542 AAAGAT-TTTTAT-ATGATAAATTAATTA
1 AAAGATATTTTATGATGATAAATTAATTA
17886569 A
1 A
17886570 TAAGTTGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 5 0.19
28 9 0.35
29 6 0.23
30 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (29 bp):
AAAGATATTTTATGATGATAAATTAATTA
Found at i:17886695 original size:33 final size:31
Alignment explanation
Indices: 17886634--17886695 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
17886624 TATAATTGTA
* *
17886634 ATATTTTTTATTTAATTATTTAAGTAAATAG
1 ATATTTATTATTTAATTATTAAAGTAAATAG
*
17886665 ATATTTATTATTTATTATTATTAAATTAAAT
1 ATATTTATTATTTA--ATTATTAAAGTAAAT
17886696 TAAAGACAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 13 0.50
33 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
ATATTTATTATTTAATTATTAAAGTAAATAG
Found at i:17888502 original size:48 final size:48
Alignment explanation
Indices: 17888444--17888546 Score: 127
Period size: 48 Copynumber: 2.1 Consensus size: 48
17888434 TCTCTAATGG
* *
17888444 TTGATTGTTACTGAATAATAAAGATCAATTGA-TCACTACTGAAAAATA
1 TTGACTGTTACTGAATAATAAAGATAAATTGATTCA-TACTGAAAAATA
* ** * *
17888492 TTGACTGTTACTGAATGATATTGATAAATTGATTGATATTGAAAAATA
1 TTGACTGTTACTGAATAATAAAGATAAATTGATTCATACTGAAAAATA
17888540 TTGACTG
1 TTGACTG
17888547 ATAATGAGCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 45 0.96
49 2 0.04
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.37
Consensus pattern (48 bp):
TTGACTGTTACTGAATAATAAAGATAAATTGATTCATACTGAAAAATA
Found at i:17888548 original size:20 final size:18
Alignment explanation
Indices: 17888507--17888549 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
17888497 TGTTACTGAA
* *
17888507 TGATATTGATAAATTGAT
1 TGATATTGAAAAATTGAC
17888525 TGATATTGAAAAATATTGAC
1 TGATATTG-AAAA-ATTGAC
17888545 TGATA
1 TGATA
17888550 ATGAGCTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.38
19 3 0.14
20 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (18 bp):
TGATATTGAAAAATTGAC
Found at i:17896824 original size:105 final size:105
Alignment explanation
Indices: 17896575--17896947 Score: 642
Period size: 105 Copynumber: 3.6 Consensus size: 105
17896565 TAACCGTTAT
* * ** *
17896575 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17896640 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
17896679 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
17896743 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
17896784 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
17896849 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
17896889 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCT
17896948 TTATATACAA
Statistics
Matches: 258, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
104 81 0.31
105 176 0.68
106 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.21, T:0.18
Consensus pattern (105 bp):
TGGTGGATCACGCACATAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:17897308 original size:29 final size:29
Alignment explanation
Indices: 17897275--17897338 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
17897265 TAATCCACCA
17897275 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
17897304 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
17897334 CCCAA
1 CCCAA
17897339 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:17897312 original size:30 final size:30
Alignment explanation
Indices: 17897282--17897338 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
17897272 CCACCCAACT
17897282 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
17897311 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
17897339 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:17901320 original size:38 final size:38
Alignment explanation
Indices: 17901278--17901375 Score: 169
Period size: 38 Copynumber: 2.6 Consensus size: 38
17901268 AGTTGTTTAA
*
17901278 GCTCATCCAACCAAACACACCACGTAGGACCTCAAAAT
1 GCTCATCCAACCAAACACACCACGTAGGACCTCAAAAG
17901316 GCTCATCCAACCAAACACACCACGTAGGACCTCAAAAG
1 GCTCATCCAACCAAACACACCACGTAGGACCTCAAAAG
**
17901354 GCTCATCCAACCCTACACACCA
1 GCTCATCCAACCAAACACACCA
17901376 TGTATGTGGA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (38 bp):
GCTCATCCAACCAAACACACCACGTAGGACCTCAAAAG
Found at i:17903251 original size:93 final size:93
Alignment explanation
Indices: 17903092--17903262 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
17903082 GCCCATAAGT
* *
17903092 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17903157 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
17903185 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17903250 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17903263 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:17903259 original size:46 final size:46
Alignment explanation
Indices: 17903084--17903259 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
17903074 TGTAACCCGC
* * * *
17903084 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
17903130 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
17903180 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
17903223 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17903260 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 64 0.59
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:17905655 original size:29 final size:29
Alignment explanation
Indices: 17905616--17905703 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
17905606 CAAAGATAAC
*
17905616 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
17905645 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
17905674 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
17905704 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:17905674 original size:15 final size:15
Alignment explanation
Indices: 17905616--17905694 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
17905606 CAAAGATAAC
*
17905616 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
17905630 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
17905645 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
17905659 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
17905674 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
17905689 AAGAAA
1 AAGAAA
17905695 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:17905703 original size:15 final size:15
Alignment explanation
Indices: 17905627--17905703 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
17905617 AGAAAACCGA
17905627 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
17905642 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
17905656 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
17905670 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
17905686 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
17905701 ATA
1 ATA
17905704 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17908655 original size:45 final size:46
Alignment explanation
Indices: 17908591--17908765 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
17908581 TGTAACCCGC
17908591 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
17908636 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * * *
17908686 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
17908729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
17908766 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 8, Indels: 19
0.81 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 38 0.34
46 29 0.26
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:17908757 original size:93 final size:92
Alignment explanation
Indices: 17908599--17908768 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
17908589 GCCCATAAGT
*
17908599 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
17908664 GAGCTCGGATGCCTAGTTACATCTCAC
66 GAGCTCGGATGCCTAGTTACATCTCAC
*
17908691 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
17908756 CGAGTTCGGATGC
65 CGAGCTCGGATGC
17908769 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCAC
Found at i:17908985 original size:18 final size:18
Alignment explanation
Indices: 17908948--17908983 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
17908938 ACCACAAAGC
*
17908948 ATAATATTTCACGATTAA
1 ATAATATTTCACGATAAA
17908966 ATAATA-TTCACGATAAA
1 ATAATATTTCACGATAAA
17908983 A
1 A
17908984 ATCAGCATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
ATAATATTTCACGATAAA
Found at i:17911904 original size:29 final size:29
Alignment explanation
Indices: 17911871--17911930 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
17911861 CTAGTATTAC
* *
17911871 TTAGTTTGTTTTAAAGGTCTAATTATGAA
1 TTAGTTCGTTTTAAAAGTCTAATTATGAA
17911900 TTAGTTCGTTTTAAAAGTCTAATTATGAA
1 TTAGTTCGTTTTAAAAGTCTAATTATGAA
17911929 TT
1 TT
17911931 TTTTCCTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (29 bp):
TTAGTTCGTTTTAAAAGTCTAATTATGAA
Found at i:17914568 original size:24 final size:24
Alignment explanation
Indices: 17914536--17914581 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
17914526 ATGCTGGTAA
17914536 AACTTAATGTTTGATTCAAATGTC
1 AACTTAATGTTTGATTCAAATGTC
*
17914560 AACTTAATGTTTGGTTCAAATG
1 AACTTAATGTTTGATTCAAATG
17914582 GTCGGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (24 bp):
AACTTAATGTTTGATTCAAATGTC
Found at i:17919067 original size:76 final size:76
Alignment explanation
Indices: 17918932--17919122 Score: 190
Period size: 76 Copynumber: 2.5 Consensus size: 76
17918922 GCAAACTTCA
* * * * *
17918932 GGCGAAGTTATCTAGGAAGTCCTTGTAGTGAATTCTCTAAAAAGCCTACGTGACATATTATTCAG
1 GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATCTAAAAAGCCTACGTGACATATTATT-AG
*
17918997 -AAAACCTTATT
65 AAAAACCTTAAT
* * * * * * * *
17919008 GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATTTGAAAGGCTTATGTGGCGTATTATTTGA
1 GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATCTAAAAAGCCTACGTGACATATTATTAGA
17919073 AAAACCTTAAT
66 AAAACCTTAAT
* *
17919084 GGCGAAGTTA-CT-TGAGAAGCCCTTATGGCGAGTTATCTA
1 GGCGAAGTTATCTAT--GAAGCCCTTGTGGCGAATTATCTA
17919123 GAACGTCTGT
Statistics
Matches: 94, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
74 1 0.01
75 3 0.03
76 90 0.96
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (76 bp):
GGCGAAGTTATCTATGAAGCCCTTGTGGCGAATTATCTAAAAAGCCTACGTGACATATTATTAGA
AAAACCTTAAT
Found at i:17920284 original size:17 final size:17
Alignment explanation
Indices: 17920244--17920277 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17920234 TATATTAAAA
* *
17920244 TTATTATTATTATGGTT
1 TTATAATTATTATGATT
17920261 TTATAATTATTATGATT
1 TTATAATTATTATGATT
17920278 ATTTAATGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (17 bp):
TTATAATTATTATGATT
Found at i:17922391 original size:20 final size:20
Alignment explanation
Indices: 17922368--17922405 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17922358 GTTATTAAGT
17922368 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
17922388 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
17922406 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:17929420 original size:18 final size:18
Alignment explanation
Indices: 17929397--17929435 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17929387 AAATAAAAAA
17929397 AAATT-GAATTATGAATAG
1 AAATTGGAATTATG-ATAG
*
17929415 AAATTGGAATTGTGATAG
1 AAATTGGAATTATGATAG
17929433 AAA
1 AAA
17929436 GAGAAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.21, T:0.31
Consensus pattern (18 bp):
AAATTGGAATTATGATAG
Found at i:17929940 original size:20 final size:20
Alignment explanation
Indices: 17929917--17929954 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17929907 GTTATTAAGT
17929917 TAAAAATTATGTTA-ATGATA
1 TAAAAATTA-GTTATATGATA
*
17929937 TAAATATTAGTTATATGA
1 TAAAAATTAGTTATATGA
17929955 ATGTGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (20 bp):
TAAAAATTAGTTATATGATA
Found at i:17931209 original size:51 final size:50
Alignment explanation
Indices: 17931143--17931329 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
17931133 TGAGGTCGCA
* * * *
17931143 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAATA-TGTGGTCACG
* ** * * *
17931194 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAG-ATGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAT-ATGTGGTCACG
* * * * *
17931244 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGACTAT-TGGTCTCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAATATGTGGTCACG
* *
17931293 TGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
17931330 TAGCTTCGGC
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 37 0.33
50 44 0.39
51 32 0.28
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAATATGTGGTCACG
Found at i:17934353 original size:15 final size:15
Alignment explanation
Indices: 17934333--17934397 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
17934323 GTATCTTGGG
17934333 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
17934348 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
17934363 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
*
17934378 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
17934392 TTTCTT
1 TTTCTT
17934398 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 12 0.28
15 27 0.63
16 4 0.09
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:17934365 original size:30 final size:31
Alignment explanation
Indices: 17934329--17934397 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
17934319 TATCGTATCT
17934329 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTCTTTATTC
17934359 TGGGTTT-TTCTATCTTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCTTGGATTTCTTTATTC
*
17934389 -GGTTTTCTT
1 TGGGTTTCTT
17934398 GTTATCTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.09, C:0.13, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTCTTTATTC
Found at i:17936658 original size:50 final size:49
Alignment explanation
Indices: 17936537--17936723 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 49
17936527 TGAGGTCGCA
* * * *
17936537 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
17936588 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
17936638 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
17936687 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
17936724 TAGCTTCGGC
Statistics
Matches: 119, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 40 0.34
50 43 0.36
51 31 0.26
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:17939218 original size:59 final size:59
Alignment explanation
Indices: 17939153--17939280 Score: 141
Period size: 59 Copynumber: 2.2 Consensus size: 59
17939143 TAGGTTTTGA
* * * * * * *
17939153 ACTTTTTTTTGTCCAACTTAGGCCTTAAACTTGGCAATTGTTC-CAATATTGGGGCCTGG
1 ACTTTTTTTTGCCCAACTTAAGCCCTAAACTTGGCAAATGTTCTC-ACATTGGGACCTCG
* * * *
17939212 ACTTTTTTTGGCCCAAGTTAAGCCCTGAACTTGGCAAATGTTCTCACATTGGGACTTCG
1 ACTTTTTTTTGCCCAACTTAAGCCCTAAACTTGGCAAATGTTCTCACATTGGGACCTCG
17939271 ACTTTTTTTT
1 ACTTTTTTTT
17939281 TATCCAAGTT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 55 0.98
60 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (59 bp):
ACTTTTTTTTGCCCAACTTAAGCCCTAAACTTGGCAAATGTTCTCACATTGGGACCTCG
Found at i:17939456 original size:89 final size:88
Alignment explanation
Indices: 17939305--17939528 Score: 227
Period size: 89 Copynumber: 2.5 Consensus size: 88
17939295 CTTGAAAACC
** * * * * *
17939305 AAAAAGTTCAAGCCTTAATGTAGAAACAATTGTCAAGTTTAGGCCCCAATGTGAGAACAATTGTC
1 AAAAAGTTCAAGCCCCAATGTGGAAA-AGTTGCCAAGTCTAGGCCCCAATGTGAGAACAATTGCC
** *
17939370 AAGTTTAGGGCCTAATTTGGACAA
65 AAGTTTAGAACCTAACTTGGACAA
* *
17939394 AAAAAGTTCAAGCCCCAATGTGGGAAAAGTTGCCAAGTCTAGGTCCCATTGTG-GAAACAATTGC
1 AAAAAGTTCAAGCCCCAATGT-GGAAAAGTTGCCAAGTCTAGGCCCCAATGTGAG-AACAATTGC
* *
17939458 CAATTTTATAACCTAACTTGGACAA
64 CAAGTTTAGAACCTAACTTGGACAA
* * *
17939483 AAAAAGGTTC-AGACCCCAGTGTTGGAAAAGTTGCCAAATTTAGGCC
1 AAAAA-GTTCAAG-CCCCAATG-TGGAAAAGTTGCCAAGTCTAGGCC
17939529 TCAAATAATG
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
88 1 0.01
89 75 0.67
90 35 0.31
91 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (88 bp):
AAAAAGTTCAAGCCCCAATGTGGAAAAGTTGCCAAGTCTAGGCCCCAATGTGAGAACAATTGCCA
AGTTTAGAACCTAACTTGGACAA
Found at i:17942782 original size:43 final size:43
Alignment explanation
Indices: 17942734--17942820 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
17942724 AATAACTCAA
**
17942734 AGAGTTGAAATTTATTAATCAAGATATGTTAATAATGAATAAT
1 AGAGTTGAAATTTATTAATCAAGATATGTTAATAACAAATAAT
*
17942777 AGAGTTGAAATTTATTAATTAAGATATGTTAATAACAAATAAT
1 AGAGTTGAAATTTATTAATCAAGATATGTTAATAACAAATAAT
17942820 A
1 A
17942821 CAGAGACTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.48, C:0.02, G:0.13, T:0.37
Consensus pattern (43 bp):
AGAGTTGAAATTTATTAATCAAGATATGTTAATAACAAATAAT
Found at i:17943024 original size:20 final size:20
Alignment explanation
Indices: 17942996--17943042 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
17942986 TACGTATTAT
* * * *
17942996 CACTGTTAATGATTTGACTC
1 CACTATTAATGACTTAACCC
17943016 CACTATTAATGACTTAACCC
1 CACTATTAATGACTTAACCC
17943036 CACTATT
1 CACTATT
17943043 CATAAGACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (20 bp):
CACTATTAATGACTTAACCC
Found at i:17946450 original size:43 final size:42
Alignment explanation
Indices: 17946401--17946494 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
17946391 CCCAGACGTA
* * *
17946401 GTCTTACATGCAATCAAACATCGACGCC-ACTGTCCCAGACAAG
1 GTCTTACACGAAATCAAACA-CGACGCCGA-TGTCCCAAACAAG
* * *
17946444 GTCTTACACGAAATCAAATACGATGCCGATGTCCCAAACATG
1 GTCTTACACGAAATCAAACACGACGCCGATGTCCCAAACAAG
17946486 GTCTTACAC
1 GTCTTACAC
17946495 ATAAAATAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (42 bp):
GTCTTACACGAAATCAAACACGACGCCGATGTCCCAAACAAG
Found at i:17953786 original size:19 final size:20
Alignment explanation
Indices: 17953741--17953786 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
17953731 CACCATGTTC
17953741 ATATTTTTAATACAATTTAA
1 ATATTTTTAATACAATTTAA
*
17953761 TTA-TTTT-ATA-ATATTTAA
1 ATATTTTTAATACA-ATTTAA
17953779 ATATTTTT
1 ATATTTTT
17953787 CGACAAGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 1 0.05
18 11 0.50
19 8 0.36
20 2 0.09
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTTTTAATACAATTTAA
Found at i:17955840 original size:42 final size:41
Alignment explanation
Indices: 17955740--17955893 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 41
17955730 CAATACCAAC
* * * *
17955740 GTCCCAAACGTGGTCTTACATGCAATCAAACATCAATGCCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATA-CAATGCCA-T
* *
17955783 GTCCCAAACAGGGTCTTACATGAAATCAAATACAATGCCGAT
1 GTCCCAGACATGGTCTTACATGAAATCAAATACAATGCC-AT
* * *
17955825 GTCCTAGACATGGTCTTACACAT-AAAACAGAAGT-CGATGCCAAT
1 GTCCCAGACATGGTCTT--ACATGAAATCA-AA-TACAATGCC-AT
*
17955869 GTCCCAGACATGGTCTTACACGAAA
1 GTCCCAGACATGGTCTTACATGAAA
17955894 ACACATATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
42 25 0.27
43 37 0.40
44 30 0.32
45 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATACAATGCCAT
Found at i:17960607 original size:21 final size:23
Alignment explanation
Indices: 17960582--17960636 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
17960572 AATAAGTCCT
*
17960582 AATAAAAATAAG-GTGAAAA-AA
1 AATAAAAATAAGTCTGAAAATAA
*
17960603 AATAAAAAGT-AGTCTTAAAATAA
1 AATAAAAA-TAAGTCTGAAAATAA
17960626 AATAAAAATAA
1 AATAAAAATAA
17960637 AAACATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 10 0.36
22 7 0.25
23 11 0.39
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.20
Consensus pattern (23 bp):
AATAAAAATAAGTCTGAAAATAA
Found at i:17962541 original size:140 final size:140
Alignment explanation
Indices: 17962289--17962570 Score: 501
Period size: 140 Copynumber: 2.0 Consensus size: 140
17962279 TGCACGGGCA
*
17962289 TGGTAGGGAGGCCGTGTGGACTTGCAGTAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
1 TGGTAGGGAGGCCGTGTGGACTTGCAGCAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
*
17962354 ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCCATGGAACATGCTCGTGTTCCCCAATT
66 ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCCATGGAACATGCCCGTGTTCCCCAATT
*
17962419 TTTGCTCGTG
131 TTTGCCCGTG
* * *
17962429 TGGTAGGGAGGCCGTGTGGACTTGTAGCGGCTAGGGTTAGGGATTTTGAGTGAAGAAGACAATGA
1 TGGTAGGGAGGCCGTGTGGACTTGCAGCAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
*
17962494 ATAGTGCAGGGTATTTATAGATTTTTGATACACACGGCCATGGAACATGCCCGTGTTCCCCAATT
66 ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCCATGGAACATGCCCGTGTTCCCCAATT
17962559 TTTGCCCGTG
131 TTTGCCCGTG
17962569 TG
1 TG
17962571 ATTCGCGATT
Statistics
Matches: 135, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (140 bp):
TGGTAGGGAGGCCGTGTGGACTTGCAGCAGCTAGGGTTAGGGATTTTGAGTGAAGAAAACAATGA
ATAGTGCAGGGTATTTATAGATTTTTGAGACACACGGCCATGGAACATGCCCGTGTTCCCCAATT
TTTGCCCGTG
Found at i:17967499 original size:70 final size:69
Alignment explanation
Indices: 17967270--17967694 Score: 390
Period size: 70 Copynumber: 6.1 Consensus size: 69
17967260 CAAACCTACG
* * * * * *
17967270 AGCCTTAAGATCACAGCCT-GGAACCTTAACTCTCGCTGACTATTTTA-AGGCTGCAGTATTGAA
1 AGCCTTAAGATCACAG-CTGGGAGCCTTAGCTCTTGCTAACT-GTTTAGAGGTTGCAGTATTGAA
*
17967333 CTTGCA
64 CCTGCA
* * *
17967339 AGCCCTAAGATCATAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTAGAGGCTGCAGTATTGAACC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTAGAGGTTGCAGTATTGAACC
17967404 TGCA
66 TGCA
** * *
17967408 AGACC-TAAGATCGTAGCTGGGAGCCTTAGCTCTCT-ATAACTGTTGTAGAAGTTGCAGTATTGA
1 AG-CCTTAAGATCACAGCTGGGAGCCTTAGCTCT-TGCTAACTGTT-TAGAGGTTGCAGTATTGA
*
17967471 ACCTGCG
63 ACCTGCA
* * * * ** *
17967478 AGCCTTAAGATCACAGTTGGGAGCTTTAGCTATTGCTAACTATTTTAGAGGTTGTGGTATTGTAC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACT-GTTTAGAGGTTGCAGTATTGAAC
* **
17967543 TTGTG
65 CTGCA
** * **
17967548 AGCCTTAAGATCACAATTGGGAGCCTTAGCTCTTGCTAACTGTTTGAGAGGCTGTGGTATTGAAC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTT-AGAGGTTGCAGTATTGAAC
*
17967613 CTGTA
65 CTGCA
* * * * * * **
17967618 AGCCTTAAGAGCACAGGTGAGAGCCTTAGCTCTCGCTAACGGTTTTAGAAGTTGTGGTATTGAAC
1 AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTG-TTTAGAGGTTGCAGTATTGAAC
*
17967683 CTGCG
65 CTGCA
17967688 AGCCTTA
1 AGCCTTA
17967695 GCTCTCCCTA
Statistics
Matches: 302, Mismatches: 44, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
68 6 0.02
69 96 0.32
70 195 0.65
71 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (69 bp):
AGCCTTAAGATCACAGCTGGGAGCCTTAGCTCTTGCTAACTGTTTAGAGGTTGCAGTATTGAACC
TGCA
Found at i:17967958 original size:70 final size:70
Alignment explanation
Indices: 17967725--17967993 Score: 247
Period size: 70 Copynumber: 3.9 Consensus size: 70
17967715 CAGGGCTGAA
* * * * * *
17967725 GTATTAAACCTGCGAGCTTTAAGATCAAAACTAGGAA-CCTTAGCTCTCACCAACTGCTTTAGAG
1 GTATTGAACCTGCGAGCCTTAAGATCACAA-TTGGAAGCCTTAGCTCTCACTAACTGTTTTAGAG
17967789 GCTACG
65 GCTACG
* * ** * * ** * * *
17967795 GTATTGAATCTGCAAGCCTTAAGATCGTAGTTGGGAGCCTTAGCTCTCTTTAGCTATTTTTGAGG
1 GTATTGAACCTGCGAGCCTTAAGATCACAATTGGAAGCCTTAGCTCTCACTAACTGTTTTAGAGG
17967860 CTACG
66 CTACG
** * * *
17967865 GTATTGAACCTATGAGCCCTAAGATAACAATTGGCAGCCTTAGCTCTCACTAACTGTTTTAGAGG
1 GTATTGAACCTGCGAGCCTTAAGATCACAATTGGAAGCCTTAGCTCTCACTAACTGTTTTAGAGG
17967930 CTA-G
66 CTACG
* * * * * *
17967934 AGTACTGAACCTGGGAGCATTAAGATCACAACTGGAAGCCTAAGCT-TCTCTAACTGTTTT
1 -GTATTGAACCTGCGAGCCTTAAGATCACAATTGGAAGCCTTAGCTCTCACTAACTGTTTT
17967994 TTGAGGGGAG
Statistics
Matches: 156, Mismatches: 41, Indels: 5
0.77 0.20 0.02
Matches are distributed among these distances:
69 18 0.12
70 138 0.88
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (70 bp):
GTATTGAACCTGCGAGCCTTAAGATCACAATTGGAAGCCTTAGCTCTCACTAACTGTTTTAGAGG
CTACG
Found at i:17972891 original size:27 final size:27
Alignment explanation
Indices: 17972853--17972909 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
17972843 CTAAATGACC
*
17972853 GAAAACTCCTTGATGAGCCATATTGTA
1 GAAAACTCCTTGATGAGCCATATTGCA
*
17972880 GAAAACTCCTTGATGAGCCGTATTGCA
1 GAAAACTCCTTGATGAGCCATATTGCA
17972907 GAA
1 GAA
17972910 GTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAAACTCCTTGATGAGCCATATTGCA
Found at i:17978326 original size:36 final size:36
Alignment explanation
Indices: 17978279--17978381 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
17978269 GACATTACAA
17978279 AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
1 AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
*
17978315 AAACTTTAGTTAATCGACTTCGGCTAGTAATGCAGT
1 AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
* *
17978351 AAACTTTAGTTAATCAACTTCGATTAGTAAT
1 AAACTTTAGTTAATCGACTTCGACTAGTAAT
17978382 ACAAAAATTG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (36 bp):
AAACTTTAGTTAATCGACTTCGACTAGTAATGCAGT
Found at i:17981825 original size:22 final size:22
Alignment explanation
Indices: 17981800--17981842 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
17981790 AACTTAATTC
*
17981800 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
17981822 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
17981843 AGGAGCTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:17985675 original size:35 final size:35
Alignment explanation
Indices: 17985649--17985859 Score: 273
Period size: 35 Copynumber: 6.1 Consensus size: 35
17985639 CATGGAAAAA
17985649 TTATGA-ATGTAGGTATGGTATTATCCATACTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
17985683 TTATGACATGTAGGTATGGTATTATCCATACTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
*
17985718 TTATGACACGTAGGTATGGTATTATCCATACTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
* * *
17985753 TTATAATACGTAGGTATGGTATTATCCATACTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
* * * * *
17985788 CTATAATACGTAGGTATGGTATT-TCCCATACCGAG
1 TTATGACATGTAGGTATGGTATTAT-CCATACTGAG
* * * * *
17985823 TTGTGAAATATAGGTATGGTATTAACCATATTGAG
1 TTATGACATGTAGGTATGGTATTATCCATACTGAG
17985858 TT
1 TT
17985860 GTGAATCGTG
Statistics
Matches: 160, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
34 7 0.04
35 153 0.96
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (35 bp):
TTATGACATGTAGGTATGGTATTATCCATACTGAG
Found at i:17987398 original size:21 final size:20
Alignment explanation
Indices: 17987367--17987405 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
17987357 TCTTTGAAAT
17987367 AGGGCACACGCCTATGTGTA
1 AGGGCACACGCCTATGTGTA
*
17987387 AGGGCAACACGCCTGTGTG
1 AGGGC-ACACGCCTATGTG
17987406 GAATTAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (20 bp):
AGGGCACACGCCTATGTGTA
Found at i:17988574 original size:46 final size:45
Alignment explanation
Indices: 17988523--17988645 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
17988513 CGTAGCCGAT
17988523 GCATGTCCCAGACATGTCTTACACTGGCTTACATCGCAAGGCCAAA
1 GCATGTCCCAGACATGTCTTACACTGGCTT-CATCGCAAGGCCAAA
* * * * * * * *
17988569 GCATGTCTCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGC-TTCATCGCAAGGCCAAA
17988615 GCCATGTCCCAGACATGGTCTTACACTGGCT
1 G-CATGTCCCAGACAT-GTCTTACACTGGCT
17988646 CTTAAAATGT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 37 0.59
47 14 0.22
48 12 0.19
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTGGCTTCATCGCAAGGCCAAA
Found at i:17988667 original size:94 final size:89
Alignment explanation
Indices: 17988471--17988690 Score: 225
Period size: 94 Copynumber: 2.4 Consensus size: 89
17988461 CAGGTCAGGT
17988471 GCCGATGTCATGTCTCAGACATAGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGAC
1 GCCGATG-CATGTCTCAGACAT-GTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGAC
*
17988536 ATGTCTTACACTGGCTTACATCGCAAG
64 ATGTCTTACACTGGCTTAAATCG-AAG
* * *
17988563 GCCAAAGCATGTCTCAGACATGTCTTACACTAGCAC-TCGTC-TCAATGCCGATGCCATGTCCCA
1 GCCGATGCATGTCTCAGACATGTCTTACACTAACACATC-TCGT--A-GCCGATG-CATGTCCCA
*
17988626 GACATGGTCTTACACTGGCTCTTAAAAT-G-TG
61 GACAT-GTCTTACACTGG--CTT-AAATCGAAG
* *
17988657 GCCGATGCATGT-TCCAGACATGCCTTACGCTAAC
1 GCCGATGCATGTCT-CAGACATGTCTTACACTAAC
17988691 TCACACAAGT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
89 3 0.03
90 16 0.15
91 15 0.14
92 12 0.11
93 15 0.14
94 40 0.37
96 4 0.04
97 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (89 bp):
GCCGATGCATGTCTCAGACATGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACAT
GTCTTACACTGGCTTAAATCGAAG
Found at i:17999112 original size:30 final size:30
Alignment explanation
Indices: 17999072--17999131 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
17999062 TTCTCGAGCC
*
17999072 TAGGGACAAAAGTGTAATTATGCAAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
* * *
17999102 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
17999132 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAAATGTAATTATGCAAAAGTT
Found at i:18013938 original size:46 final size:44
Alignment explanation
Indices: 18013836--18013943 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 44
18013826 TGTCTTTGAC
** * *
18013836 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
*
18013880 ATGGACTTACATGGCTCAATCCTGTCTCCGAA-GCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCC-AATGCCATA--TATAAT
18013926 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
18013944 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
44 31 0.55
45 2 0.04
46 23 0.41
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAATGCCATATATAAT
Found at i:18017329 original size:22 final size:22
Alignment explanation
Indices: 18017304--18017346 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18017294 AACTTAATTC
**
18017304 ACATTTATTGATTGAATGTAAT
1 ACATTTATCAATTGAATGTAAT
18017326 ACATTTATCAATTGAATGTAA
1 ACATTTATCAATTGAATGTAA
18017347 AGGAGTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (22 bp):
ACATTTATCAATTGAATGTAAT
Found at i:18020088 original size:21 final size:22
Alignment explanation
Indices: 18020048--18020090 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
18020038 AATTTTTGAA
18020048 AAACAACAAAAGTATCGATATT
1 AAACAACAAAAGTATCGATATT
* *
18020070 AAACAA-AAAGGTATTGATATT
1 AAACAACAAAAGTATCGATATT
18020091 TTGGTCTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (22 bp):
AAACAACAAAAGTATCGATATT
Found at i:18020358 original size:34 final size:34
Alignment explanation
Indices: 18020294--18020359 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
18020284 CTCAATCTTA
*
18020294 AACATCAAAATGTCCATAAGCGAAGTCCAAAAGC
1 AACATCAAAATGTCCATAAGCCAAGTCCAAAAGC
*
18020328 AACATCAACAT-TCCATAAGTCCAA-TCCCAAAA
1 AACATCAAAATGTCCATAAG-CCAAGT-CCAAAA
18020360 TAGTAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 9 0.32
34 19 0.68
ACGTcount: A:0.47, C:0.27, G:0.09, T:0.17
Consensus pattern (34 bp):
AACATCAAAATGTCCATAAGCCAAGTCCAAAAGC
Found at i:18023312 original size:19 final size:19
Alignment explanation
Indices: 18023290--18023337 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
18023280 TTCATTCTAG
18023290 AATTATAAAAAGCATAAAA
1 AATTATAAAAAGCATAAAA
* *
18023309 AATTAT-AAAAGGATTAAA
1 AATTATAAAAAGCATAAAA
*
18023327 ATTTATAAAAA
1 AATTATAAAAA
18023338 TTATTAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (19 bp):
AATTATAAAAAGCATAAAA
Found at i:18023407 original size:13 final size:13
Alignment explanation
Indices: 18023385--18023418 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
18023375 AACCCTAAAG
18023385 ATTTAGAAAAATT
1 ATTTAGAAAAATT
*
18023398 ATTTATAAAAATT
1 ATTTAGAAAAATT
18023411 A-TTAGAAA
1 ATTTAGAAA
18023419 TGAATTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (13 bp):
ATTTAGAAAAATT
Found at i:18024009 original size:26 final size:26
Alignment explanation
Indices: 18023971--18024038 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
18023961 TGTTAATTAA
**
18023971 TTTCTAACCATTTTTATAAGTGGTTT
1 TTTCTAATTATTTTTATAAGTGGTTT
**
18023997 TTTCTAATTATTTTT-TTTGTGGTTT
1 TTTCTAATTATTTTTATAAGTGGTTT
**
18024022 TTGATAAATTATTTTTA
1 TTTCT-AATTATTTTTA
18024039 CAAATTTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 11 0.32
26 23 0.68
ACGTcount: A:0.22, C:0.06, G:0.10, T:0.62
Consensus pattern (26 bp):
TTTCTAATTATTTTTATAAGTGGTTT
Found at i:18026113 original size:69 final size:69
Alignment explanation
Indices: 18026002--18026132 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
18025992 ATAGTACCTC
* * * *
18026002 CATTTCTTTGAGCCCCTCGCCGCTTTTCTGGAAACCCTGGAGGAGCTTTAACTTCACTCTCCCGT
1 CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
18026067 CCAT
66 CCAT
* *
18026071 CATTTCTTTCA-CTCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGGTTCAACTTCAGTCTCC
1 CATTTCTTTCAGC-CCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCC
18026133 TGACCACTGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.17, C:0.35, G:0.18, T:0.31
Consensus pattern (69 bp):
CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
CCAT
Found at i:18027747 original size:32 final size:31
Alignment explanation
Indices: 18027709--18027792 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 31
18027699 TTTGTTATTA
*
18027709 ATATTTTAATATATAAAATATAAATTTTAAA-T
1 ATATTTTAA-ATATAAAATATAAA-TATAAACT
*
18027741 ATATTTTAAAT-TATAAT-TCAAATATAAACT
1 ATATTTTAAATATAAAATAT-AAATATAAACT
18027771 ATATTTTAAATATTAAAATATA
1 ATATTTTAAATA-TAAAATATA
18027793 TGCAATAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
29 6 0.14
30 20 0.45
31 2 0.05
32 15 0.34
33 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (31 bp):
ATATTTTAAATATAAAATATAAATATAAACT
Found at i:18029395 original size:16 final size:16
Alignment explanation
Indices: 18029374--18029409 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18029364 AATCCCTAAC
* *
18029374 AATCTTCAAGTCCCTA
1 AATCTTCAAATACCTA
18029390 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
18029406 AATC
1 AATC
18029410 GATAGCATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.03, T:0.31
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:18030508 original size:22 final size:22
Alignment explanation
Indices: 18030477--18030522 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
18030467 TTAAGCATAT
*
18030477 AATTTGGATAAATGTACTTTAC
1 AATTTCGATAAATGTACTTTAC
18030499 AATTTCGATAAATGTACTTTAC
1 AATTTCGATAAATGTACTTTAC
18030521 AA
1 AA
18030523 AAGCATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (22 bp):
AATTTCGATAAATGTACTTTAC
Found at i:18033376 original size:51 final size:51
Alignment explanation
Indices: 18033298--18033451 Score: 200
Period size: 51 Copynumber: 3.0 Consensus size: 51
18033288 TACGTGTAGC
* * * * * *
18033298 AGCAACATTTTCTAGTCCATCTGATGTTGCAAAGTCACCAGCATATTCATT
1 AGCAACATTATCCACTCCAGCTAATGTTGCAAAATCACCAGCATATTCATT
* * *
18033349 AGCAACATTATCCACTCTAGCTAATGTTGCAAAATCACCAACATATTCATC
1 AGCAACATTATCCACTCCAGCTAATGTTGCAAAATCACCAGCATATTCATT
* * *
18033400 AGCAACATTATCCACTCCATCTGATGTTGCAAAATCACTAGCATATTCATT
1 AGCAACATTATCCACTCCAGCTAATGTTGCAAAATCACCAGCATATTCATT
18033451 A
1 A
18033452 CCAGCAACTT
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 88 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (51 bp):
AGCAACATTATCCACTCCAGCTAATGTTGCAAAATCACCAGCATATTCATT
Found at i:18034713 original size:16 final size:16
Alignment explanation
Indices: 18034692--18034727 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18034682 GAATGCTATC
* *
18034692 GATTTAGGTATTTGAA
1 GATTTAGGGACTTGAA
18034708 GATTTAGGGACTTGAA
1 GATTTAGGGACTTGAA
18034724 GATT
1 GATT
18034728 GTTAGAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGACTTGAA
Found at i:18038633 original size:55 final size:55
Alignment explanation
Indices: 18038526--18038642 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 55
18038516 CCAAAAACAG
* **
18038526 CACGGGCGTGTGACACGCCCATGCCTTGATCCTGTGGCTGAACATGTCAAATTAA
1 CACGGGCGTGCGACACGCCCATGCCAAGATCCTGTGGCTGAACATGTCAAATTAA
* * * *
18038581 CACGGGCGTGCGACACGCCCGTGCCAAGCAATCGTG-GGC-GAACCTGTTAAATTAA
1 CACGGGCGTGCGACACGCCCATGCCAAG--ATCCTGTGGCTGAACATGTCAAATTAA
*
18038636 CAAGGGC
1 CACGGGC
18038643 ATAGGCCTAC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
55 44 0.85
56 3 0.06
57 5 0.10
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (55 bp):
CACGGGCGTGCGACACGCCCATGCCAAGATCCTGTGGCTGAACATGTCAAATTAA
Found at i:18044732 original size:42 final size:43
Alignment explanation
Indices: 18044673--18044865 Score: 166
Period size: 43 Copynumber: 4.5 Consensus size: 43
18044663 CCTGATTTCA
* **
18044673 TCACCGGCCA-TA-AGCCTGCTAGACCTTTAAGTCTGAAT-TCA-T
1 TCACCGG-CATTATAGCCTGCTAG-CCTTGAAG-CCCAATATCATT
* *
18044715 TCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCAATATCATT
1 TCACCGGCATTATAGCCTGCTAGCCTTGAAGCCCAATATCATT
* * * * *
18044757 TCACCGGCATTATAGCCTGCTAGGCC-CGAGGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTA-GCCTTGAAGCCCAATATCATT
* ** *
18044800 TCACCAGCATTATAGCCTGCTAGGCC-CAAAGCCCGATATCATT
1 TCACCGGCATTATAGCCTGCTA-GCCTTGAAGCCCAATATCATT
18044843 TCACCGGCATTATAGCCTGCTAG
1 TCACCGGCATTATAGCCTGCTAG
18044866 GCCCGAAGCC
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
40 4 0.03
41 11 0.09
42 30 0.24
43 80 0.63
44 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGCCTTGAAGCCCAATATCATT
Found at i:18044804 original size:43 final size:43
Alignment explanation
Indices: 18044714--18044884 Score: 245
Period size: 43 Copynumber: 4.0 Consensus size: 43
18044704 TCTGAATTCA
* ** *
18044714 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCAATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* *
18044756 TTCACCGGCATTATAGCCTGCTAGGCCCGAGGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
* * *
18044799 CTCACCAGCATTATAGCCTGCTAGGCCCAAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
18044842 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGTATATCA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCG-ATATCA
18044885 CATTTCGATA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
42 12 0.11
43 95 0.84
44 6 0.05
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Done.