Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 14 of 171
Found at i:6550344 original size:25 final size:24
Alignment explanation
Indices: 6550316--6550364 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
6550306 TTTTTATAAT
6550316 TTTTTGAAT-TTTTATGAATTATTTA
1 TTTTTGAATATTTTAT-AATT-TTTA
*
6550341 TTTTTGGATATTTTATAATTTTTA
1 TTTTTGAATATTTTATAATTTTTA
6550365 AATTATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 12 0.55
26 6 0.27
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTTTGAATATTTTATAATTTTTA
Found at i:6551067 original size:27 final size:27
Alignment explanation
Indices: 6551016--6551068 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6551006 CTTATATGTC
* *
6551016 AATAATTATATTAATATTTTGTAAAAG
1 AATAATTATATTAATAATTTATAAAAG
* *
6551043 AATAATTATGTTATTAATTTATAAAA
1 AATAATTATATTAATAATTTATAAAA
6551069 ATTAAATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (27 bp):
AATAATTATATTAATAATTTATAAAAG
Found at i:6551096 original size:12 final size:12
Alignment explanation
Indices: 6551081--6551111 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
6551071 TAAATTAAAT
6551081 TAAAATTTTATA
1 TAAAATTTTATA
*
6551093 TAAAAATTTATA
1 TAAAATTTTATA
6551105 TAAAATT
1 TAAAATT
6551112 ATACATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
TAAAATTTTATA
Found at i:6558697 original size:21 final size:22
Alignment explanation
Indices: 6558671--6558715 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
6558661 GACTAAAATT
*
6558671 CTTAAAATAAAAG-TAAAATGA
1 CTTAAAAAAAAAGATAAAATGA
6558692 CTTAAAAAAAAAGATAAAATGA
1 CTTAAAAAAAAAGATAAAATGA
6558714 CT
1 CT
6558716 AGATTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (22 bp):
CTTAAAAAAAAAGATAAAATGA
Found at i:6559450 original size:24 final size:24
Alignment explanation
Indices: 6559413--6559459 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
6559403 TAATTATTAG
*
6559413 ATTTTTTTACATAA-AATTTAATC
1 ATTTTTTTAAATAATAATTTAATC
6559436 ATTTTATTTAAATAATAATTTAAT
1 ATTTT-TTTAAATAATAATTTAAT
6559460 TAAAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 8 0.38
25 8 0.38
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTTTTAAATAATAATTTAATC
Found at i:6559456 original size:17 final size:16
Alignment explanation
Indices: 6559431--6559478 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
6559421 ACATAAAATT
6559431 TAATCATTTTATTTAAA
1 TAAT-ATTTTATTTAAA
* *
6559448 TAATAATTTAATTAAAA
1 TAAT-ATTTTATTTAAA
6559465 TAAT-TTTTATTTAA
1 TAATATTTTATTTAA
6559479 TAAATATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 8 0.31
17 18 0.69
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATTTTATTTAAA
Found at i:6561280 original size:6 final size:6
Alignment explanation
Indices: 6561269--6561301 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
6561259 AAGCCCATGC
6561269 AAAGAA AAAGAA AAAGAA AAAGAAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAG-AA AAAGAA AA
6561302 CCCAAACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:6564073 original size:2 final size:2
Alignment explanation
Indices: 6564068--6564103 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6564058 ACACACACAC
6564068 AT AT AT AT 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 AT AT AT AT
6564104 GGATGTCACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6579034 original size:22 final size:22
Alignment explanation
Indices: 6579002--6579048 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6578992 CATTCTGACT
*
6579002 TTGAAAAAATTACAAAATTATCA
1 TTGAAAAATTTA-AAAATTATCA
*
6579025 TTGAAAAATTTAAAAATTTTCA
1 TTGAAAAATTTAAAAATTATCA
6579047 TT
1 TT
6579049 TAAATCATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.38
Consensus pattern (22 bp):
TTGAAAAATTTAAAAATTATCA
Found at i:6580075 original size:27 final size:26
Alignment explanation
Indices: 6580044--6580095 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
6580034 TTCTTCCTTT
6580044 TTCATCCACTACCACTTATTCCTCATC
1 TTCATCCACTACCACTT-TTCCTCATC
*
6580071 TTCATCCACTACCACTTTTTCTCAT
1 TTCATCCACTACCACTTTTCCTCAT
6580096 ATTTTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.40
Consensus pattern (26 bp):
TTCATCCACTACCACTTTTCCTCATC
Found at i:6586892 original size:16 final size:16
Alignment explanation
Indices: 6586873--6586905 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6586863 AAAGATAGTA
*
6586873 AAATATTTTAAAAAAT
1 AAATATATTAAAAAAT
6586889 AAATATATTAAAAAAT
1 AAATATATTAAAAAAT
6586905 A
1 A
6586906 CACATGTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATATTAAAAAAT
Found at i:6588230 original size:58 final size:58
Alignment explanation
Indices: 6588117--6588236 Score: 154
Period size: 58 Copynumber: 2.1 Consensus size: 58
6588107 ACCCATCAAC
* * * **
6588117 AAACTAAATCCAAATATTTTTAAATCTAAATATAATTTCATTCTTCAAACGCACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCAT
*
6588175 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTA-T-TTCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTC-AAA-AACACTCAT
6588233 AAAC
1 AAAC
6588237 AACTTCTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
56 3 0.06
57 4 0.07
58 47 0.87
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAAAACACTCAT
Found at i:6594392 original size:37 final size:36
Alignment explanation
Indices: 6594258--6594394 Score: 175
Period size: 37 Copynumber: 3.7 Consensus size: 36
6594248 TGATTCACTG
* * * *
6594258 GCACAAAGCCTACTAGGTACAAATCCCAAATACGCC
1 GCACGAAGCCTACTAGGCACAAAGCCCAAATACACC
*
6594294 GGCACGAAGCCTACTAGGCACAAAGTCCAAATACACC
1 -GCACGAAGCCTACTAGGCACAAAGCCCAAATACACC
*
6594331 GACACGAAGCCTACTTGGCACAAAGCCCAAATACACC
1 G-CACGAAGCCTACTAGGCACAAAGCCCAAATACACC
**
6594368 AGCACGAAATCTACTAGGCACAAAGCC
1 -GCACGAAGCCTACTAGGCACAAAGCC
6594395 TGAATATTTA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
36 1 0.01
37 86 0.98
38 1 0.01
ACGTcount: A:0.39, C:0.33, G:0.17, T:0.12
Consensus pattern (36 bp):
GCACGAAGCCTACTAGGCACAAAGCCCAAATACACC
Found at i:6615537 original size:27 final size:27
Alignment explanation
Indices: 6615483--6615539 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
6615473 TTTTTGAAAT
6615483 ATTAAAATAAAAAAATTAAATTCTTAA
1 ATTAAAATAAAAAAATTAAATTCTTAA
* *
6615510 ATTAAAAGTATAAAGATTAAATTC-TAA
1 ATTAAAA-TAAAAAAATTAAATTCTTAA
6615537 ATT
1 ATT
6615540 TTATAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (27 bp):
ATTAAAATAAAAAAATTAAATTCTTAA
Found at i:6617194 original size:752 final size:749
Alignment explanation
Indices: 6616081--6617497 Score: 1777
Period size: 752 Copynumber: 1.9 Consensus size: 749
6616071 ACACTGAAGA
* * ** * * * * * *
6616081 CAAGATGACACCATATCAACTCAATTGCTTGTACCATCTTTCTCGAATAATACTACTAACTTAAT
1 CAAGATAACACCACATCAACTCAACCGCTTGTACCATCATTCTCAAACAACACTACCAACTCAAT
* * * ** ** * *
6616146 AGGTAACTGATCATATATCATCAATAATAATCAAGTTTAAAGAATCGTCATATGTCAATTTAACA
66 AGGTAACTCATCATACATCATCAATAATAACCAAGTGCAAAGAATCACCACATGCCAATTTAACA
* *
6616211 ATTTTATCTTGCTACTCCATTCACCTCACCAAAAATGTGTTTAACAAAACTTGACATTTGTTTTA
131 ATTTTATCTTGATACTCCATTCACCTCACCAAAAATGTATTTAACAAAACTTGACATTTGTTTT-
* * * *
6616276 AAAAAAATAAAATTTTCAAAGAATGCAATTCTATTTTTCATAGAATTACGTTACATCAGGATCAG
195 AAAAAAATAAAATTTTCAAAGAATGCAAATATATTTTTCATAGAATTACATTACATCAGAATCAG
** * * * ** * *
6616341 GATGACAGTGCATCAACTCAACATCCTTAGAGAAAAAATTAGGGGTAAACTATATTGGTAGTAAT
260 GATGACACCGAATCAACTCAACATCCTTAGAAAAAAAAATAAAGATAAACTATATTGATAGTAAT
** * * * * * *
6616406 TAAGTTATTAGTAATTTTTTTTGTCATCTAATTATAAGAAGTTACAAAATAATCATTTAATTAAT
325 TAAACTATTAGTAATTTTTTTCGTCAACTAATTATAAAAAATTACAAAACAATCATTCAATTAAT
* * *
6616471 TAATTTTTTTTTGGTCGTCCAATTATTCAAAATTTTCCTTCTTGGTCACCAC-CATTAAATTATT
390 TAACTTTTTTTTGGTCATCCAATTATTC-AAA-TTT--TT-TTGGCCACCACTCATTAAATTATT
* * *
6616535 AAT-GAAAAAATAACTCAACAACTTTTAAAA-TTG-ATATAGTAATAACTTTAACCATT-AGCAT
450 AATAG-AAAAATAACTCAACAACTTCTAAAATTTGCATA-A-TAATAAATTTAA-CATTCAACAT
* * *
6616596 TTATAATAATTTCAATTTAGTATTGATTCC-AAAAAAATTAATCATCAACATTTACACATTGTAT
511 TTATAATAATATCAATTTAGTATTGATTCCAAAAAAAAATAATCATCAACATTTACACATTGTAC
* *
6616660 AATTTAATATTTTTTTATAGTTTTATTTTTTATTTATGACATTAAAAATTAATTTTAAAATAAT-
576 AATTTAATA-TTTTTTATAGTTTTACTTTTTATTTATGACATCAAAAATTAATTTTAAAATAATA
6616724 AAAAAATATAAAAATTATTATCTTAAATATTTTTGAAGTTTTTATTTTTTTATATATTTCCAATC
640 AAAAAATATAAAAATTATTATCTTAAATATTTTTGAAGTTTTTATTTTTTTATATATTTCCAATC
6616789 AAATTTAATTAATAAATTGATCATAAAATCGCATTATACTGTGGG
705 AAATTTAATTAATAAATTGATCATAAAATCGCATTATACTGTGGG
* *
6616834 CAAGATAACACCACGTCAACTCAACCGCTTGTACCATCATTCTCAAACAACACTACCAACTCAGT
1 CAAGATAACACCACATCAACTCAACCGCTTGTACCATCATTCTCAAACAACACTACCAACTCAAT
* ** * *
6616899 TGGTGTCTCATCATACATCATCAATAATCACCAAGTGCAATGAATCACCACATGCCAATTTAACA
66 AGGTAACTCATCATACATCATCAATAATAACCAAGTGCAAAGAATCACCACATGCCAATTTAACA
** **
6616964 ATTTTAT-TTGATACTCCATTCACCTCACTC-GGAATGTATTTAACAATGCTTGA-ATGTTG-TT
131 ATTTTATCTTGATACTCCATTCACCTCAC-CAAAAATGTATTTAACAAAACTTGACAT-TTGTTT
* *
6617025 T-AAAAAATCAAAAGTTTT-AAAGAATGTAAATATATATTTT-GTAGAATTACATTACATCAGAA
194 TAAAAAAAT-AAAA-TTTTCAAAGAATGCAAATATAT-TTTTCATAGAATTACATTACATCAGAA
*
6617087 TCAGGATGACACCGAATTAACTCAACAT-CTTCGAAGAAAAAAAAATAAAGATAAACTATATTGA
256 TCAGGATGACACCGAATCAACTCAACATCCTT---AGAAAAAAAAATAAAGATAAACTATATTGA
* *
6617151 TAGTAATTAAACTATTAGTAATTTTTTTCG-CAACTTAATTATAAAAAATTATAAACCAATCATT
318 TAGTAATTAAACTATTAGTAATTTTTTTCGTCAAC-TAATTATAAAAAATTACAAAACAATCATT
* ** * *
6617215 CAATTAGTTGGCTTTTTTTTGGTCATCTAATTATTCAAATTTTTTTGGCCACCACTCGTTAAATT
382 CAATTAATTAACTTTTTTTTGGTCATCCAATTATTCAAATTTTTTTGGCCACCACTCATTAAATT
** *
6617280 ATTAATAGAAAAATAACTTGACAACTTCTAAAATTTGCATAATAATAAATTTAACTTTCAACATT
447 ATTAATAGAAAAATAACTCAACAACTTCTAAAATTTGCATAATAATAAATTTAACATTCAACATT
6617345 TATAATAATATCAATTTAGTATTGATTCCAAAAAAAAATAATCATCAACATTTACACATTGTACA
512 TATAATAATATCAATTTAGTATTGATTCCAAAAAAAAATAATCATCAACATTTACACATTGTACA
** * **
6617410 ATTTGGTATTTTTTATAGTTTTACTTTTTATTTGTGACATCAAGTATTAATTTTAAAATAATGAA
577 ATTTAATATTTTTTATAGTTTTACTTTTTATTTATGACATCAAAAATTAATTTTAAAATAAT-AA
* *
6617475 AAAAATATGAAATTTATTATCTT
641 AAAAATATAAAAATTATTATCTT
6617498 GGATTTTGTT
Statistics
Matches: 563, Mismatches: 84, Indels: 37
0.82 0.12 0.05
Matches are distributed among these distances:
747 13 0.02
748 131 0.23
749 54 0.10
750 89 0.16
751 19 0.03
752 145 0.26
753 112 0.20
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (749 bp):
CAAGATAACACCACATCAACTCAACCGCTTGTACCATCATTCTCAAACAACACTACCAACTCAAT
AGGTAACTCATCATACATCATCAATAATAACCAAGTGCAAAGAATCACCACATGCCAATTTAACA
ATTTTATCTTGATACTCCATTCACCTCACCAAAAATGTATTTAACAAAACTTGACATTTGTTTTA
AAAAAATAAAATTTTCAAAGAATGCAAATATATTTTTCATAGAATTACATTACATCAGAATCAGG
ATGACACCGAATCAACTCAACATCCTTAGAAAAAAAAATAAAGATAAACTATATTGATAGTAATT
AAACTATTAGTAATTTTTTTCGTCAACTAATTATAAAAAATTACAAAACAATCATTCAATTAATT
AACTTTTTTTTGGTCATCCAATTATTCAAATTTTTTTGGCCACCACTCATTAAATTATTAATAGA
AAAATAACTCAACAACTTCTAAAATTTGCATAATAATAAATTTAACATTCAACATTTATAATAAT
ATCAATTTAGTATTGATTCCAAAAAAAAATAATCATCAACATTTACACATTGTACAATTTAATAT
TTTTTATAGTTTTACTTTTTATTTATGACATCAAAAATTAATTTTAAAATAATAAAAAAATATAA
AAATTATTATCTTAAATATTTTTGAAGTTTTTATTTTTTTATATATTTCCAATCAAATTTAATTA
ATAAATTGATCATAAAATCGCATTATACTGTGGG
Found at i:6628705 original size:2 final size:2
Alignment explanation
Indices: 6628698--6628733 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6628688 CATACTCTTT
6628698 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6628734 GGTAGATTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6634133 original size:17 final size:17
Alignment explanation
Indices: 6634113--6634152 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
6634103 ATGGAAGGTT
6634113 AAAGGTCAAGAGAGATG
1 AAAGGTCAAGAGAGATG
6634130 AAAGGTCAAGAGAGATG
1 AAAGGTCAAGAGAGATG
6634147 AAAGGT
1 AAAGGT
6634153 TGAACATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.35, T:0.12
Consensus pattern (17 bp):
AAAGGTCAAGAGAGATG
Found at i:6637095 original size:34 final size:32
Alignment explanation
Indices: 6637033--6637099 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 32
6637023 GAAACATAAG
6637033 ATTACCAGCCATTCTTTTAACATGTCCAAAGTA
1 ATTACCAGCCATTCTTTTAACATGTCC-AAGTA
* *
6637066 ATTATCAGCCATT-TCTTTAACATATTCCAAGTA
1 ATTACCAGCCATTCT-TTTAACAT-GTCCAAGTA
6637099 A
1 A
6637100 CTAAAACTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 1 0.03
33 26 0.87
34 3 0.10
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (32 bp):
ATTACCAGCCATTCTTTTAACATGTCCAAGTA
Found at i:6639639 original size:2 final size:2
Alignment explanation
Indices: 6639632--6639681 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6639622 TGGTCACATC
6639632 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
6639674 AT AT AT AT
1 AT AT AT AT
6639682 CTTGCCTTTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6645627 original size:17 final size:15
Alignment explanation
Indices: 6645594--6645639 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 15
6645584 TATTGATGTC
6645594 AAAAATATTTTTTTT
1 AAAAATATTTTTTTT
*
6645609 AATAATACTTTTATTTT
1 AAAAATA-TTTT-TTTT
6645626 AAAAATATTTTTTT
1 AAAAATATTTTTTT
6645640 ATCTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 9 0.33
16 8 0.30
17 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (15 bp):
AAAAATATTTTTTTT
Found at i:6648591 original size:31 final size:31
Alignment explanation
Indices: 6648537--6648595 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
6648527 CTTAATTTGA
* **
6648537 TCAATTTTAGTTCTTTTACTTTTTGAATCGG
1 TCAATTTTAGTCCTAATACTTTTTGAATCGG
*
6648568 TCAATTTTAGTCCTAATATTTTTTGAAT
1 TCAATTTTAGTCCTAATACTTTTTGAAT
6648596 TTTGAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.24, C:0.12, G:0.10, T:0.54
Consensus pattern (31 bp):
TCAATTTTAGTCCTAATACTTTTTGAATCGG
Found at i:6650747 original size:19 final size:18
Alignment explanation
Indices: 6650723--6650768 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
6650713 AAATTAACAA
*
6650723 AAAAATAAATTTAAAGACT
1 AAAAATAAATGT-AAGACT
6650742 AAAAATTAAATGTAAGACT
1 AAAAA-TAAATGTAAGACT
6650761 -AAAATAAA
1 AAAAATAAA
6650769 AATTTCTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 4 0.16
19 11 0.44
20 6 0.24
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAAATAAATGTAAGACT
Found at i:6650751 original size:20 final size:19
Alignment explanation
Indices: 6650722--6650764 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
6650712 TAAATTAACA
*
6650722 AAAAAATAAATTTAAAGACT
1 AAAAAATAAATGT-AAGACT
*
6650742 AAAAATTAAATGTAAGACT
1 AAAAAATAAATGTAAGACT
6650761 AAAA
1 AAAA
6650765 TAAAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAAAATAAATGTAAGACT
Found at i:6657971 original size:29 final size:29
Alignment explanation
Indices: 6657906--6657964 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
6657896 AAAGATAGCG
*
6657906 TAAATGACTAAAACGTAACATTTCAAGCA
1 TAAATGACTAAAACATAACATTTCAAGCA
*
6657935 TAAATGACTAAAACATAATATTTCAAGCA
1 TAAATGACTAAAACATAACATTTCAAGCA
6657964 T
1 T
6657965 GAGTGACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.27
Consensus pattern (29 bp):
TAAATGACTAAAACATAACATTTCAAGCA
Found at i:6667465 original size:16 final size:17
Alignment explanation
Indices: 6667444--6667477 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6667434 TTTTGCCTCG
*
6667444 TAAATT-ATTACTATTT
1 TAAATTCATTAATATTT
6667460 TAAATTCATTAATATTT
1 TAAATTCATTAATATTT
6667477 T
1 T
6667478 TTAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTCATTAATATTT
Found at i:6668885 original size:54 final size:53
Alignment explanation
Indices: 6668803--6668906 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
6668793 ATTTTTTTGA
* * *
6668803 AATACATATTTTTAATTATAAGATTGCAATGCACATTTTTAATTATAAAATGT
1 AATACATATTTTTAATTATAAAAATGCAATGCAAATTTTTAATTATAAAATGT
* *
6668856 AATACATGTTTTTTAATTATAAAAATGCAATTCAAATTTTTAATTATAAAA
1 AATACAT-ATTTTTAATTATAAAAATGCAATGCAAATTTTTAATTATAAAA
6668907 AAGTAACCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (53 bp):
AATACATATTTTTAATTATAAAAATGCAATGCAAATTTTTAATTATAAAATGT
Found at i:6668907 original size:27 final size:27
Alignment explanation
Indices: 6668803--6668907 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
6668793 ATTTTTTTGA
* * *
6668803 AATACATATTTTTAATTATAAGATTGC
1 AATACAAATTTTTAATTATAAAAATGC
* * *
6668830 AATGCACATTTTTAATTAT-AAAATGT
1 AATACAAATTTTTAATTATAAAAATGC
**
6668856 AATACATGTTTTTTAATTATAAAAATGC
1 AATACA-AATTTTTAATTATAAAAATGC
*
6668884 AATTCAAATTTTTAATTATAAAAA
1 AATACAAATTTTTAATTATAAAAA
6668908 AGTAACCCAT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
26 9 0.14
27 44 0.69
28 11 0.17
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.43
Consensus pattern (27 bp):
AATACAAATTTTTAATTATAAAAATGC
Found at i:6668923 original size:28 final size:28
Alignment explanation
Indices: 6668803--6668926 Score: 103
Period size: 27 Copynumber: 4.6 Consensus size: 28
6668793 ATTTTTTTGA
* * *
6668803 AATACAT-ATTTTTAATTATAAGATTGC
1 AATACATAATTTTTAATTATAAAAATGT
* *
6668830 AATGCA-CATTTTTAATTAT-AAAATGT
1 AATACATAATTTTTAATTATAAAAATGT
** *
6668856 AATACATGTTTTTTAATTATAAAAATGC
1 AATACATAATTTTTAATTATAAAAATGT
* *
6668884 AATTCA-AATTTTTAATTATAAAAAAGT
1 AATACATAATTTTTAATTATAAAAATGT
** *
6668911 AACCCATACTTTTTAA
1 AATACATAATTTTTAA
6668927 ACATAAAATA
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
26 9 0.12
27 49 0.64
28 19 0.25
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.42
Consensus pattern (28 bp):
AATACATAATTTTTAATTATAAAAATGT
Found at i:6668935 original size:54 final size:54
Alignment explanation
Indices: 6668827--6668934 Score: 126
Period size: 55 Copynumber: 2.0 Consensus size: 54
6668817 ATTATAAGAT
* * * ** **
6668827 TGCAATGCACATTTTTAATTATAAAATGTAATACATGTTTTTTAATTATAAAAA
1 TGCAATGCAAATTTTTAATTATAAAAAGTAACACATACTTTTTAAACATAAAAA
* *
6668881 TGCAATTCAAATTTTTAATTATAAAAAAGTAACCCATACTTTTTAAACATAAAA
1 TGCAATGCAAATTTTTAATTAT-AAAAAGTAACACATACTTTTTAAACATAAAA
6668935 TAAATTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
54 20 0.45
55 24 0.55
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (54 bp):
TGCAATGCAAATTTTTAATTATAAAAAGTAACACATACTTTTTAAACATAAAAA
Found at i:6670850 original size:23 final size:22
Alignment explanation
Indices: 6670823--6670926 Score: 95
Period size: 23 Copynumber: 4.5 Consensus size: 22
6670813 TTACCGTTCA
*
6670823 GCACTGTGTGTGCTTACTGTTTC
1 GCACT-TGTGTGCCTACTGTTTC
*
6670846 TCACTTTGTGTGCCTACTGTTTC
1 GCAC-TTGTGTGCCTACTGTTTC
6670869 GCACTTCGTGTGCCTACTGATTT-
1 GCACTT-GTGTGCCTACTG-TTTC
* * *
6670892 GCGCTATGTGCGCCTACTGATT-
1 GCACT-TGTGTGCCTACTGTTTC
6670914 GCACTGTGTGTGC
1 GCACT-TGTGTGC
6670927 TTATTGTTCC
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
22 14 0.21
23 49 0.72
24 5 0.07
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (22 bp):
GCACTTGTGTGCCTACTGTTTC
Found at i:6672514 original size:23 final size:23
Alignment explanation
Indices: 6672488--6672552 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
6672478 TGGCGCAGAT
*
6672488 CAGTAGGCACACGAAGTGCGAAA
1 CAGTAGGCACACAAAGTGCGAAA
6672511 CAGTAGGCACACAAAGTGCGAAA
1 CAGTAGGCACACAAAGTGCGAAA
* *
6672534 CAGTAAGCACACACAGTGC
1 CAGTAGGCACACAAAGTGC
6672553 TGAACGGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.40, C:0.25, G:0.26, T:0.09
Consensus pattern (23 bp):
CAGTAGGCACACAAAGTGCGAAA
Found at i:6672552 original size:46 final size:43
Alignment explanation
Indices: 6672439--6672552 Score: 104
Period size: 46 Copynumber: 2.5 Consensus size: 43
6672429 AAGTGCTGGG
** * * *
6672439 GAAACAGTAAGCACACACAGTGCAATTAGTAGGCGCAGATGGC
1 GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACAAAAGGC
* *
6672482 GCAGATCAGTAGGCACACGA-AGTGCGAAACAGTAGGCACACAAAGTGC
1 G-A-AACAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACA-AAAG-GC
6672530 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
6672553 TGAACGGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.02
44 1 0.02
45 18 0.33
46 29 0.53
47 3 0.05
48 3 0.05
ACGTcount: A:0.39, C:0.23, G:0.27, T:0.11
Consensus pattern (43 bp):
GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACAAAAGGC
Found at i:6680628 original size:24 final size:24
Alignment explanation
Indices: 6680582--6680628 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6680572 ATCTTTATAT
* *
6680582 TTTATTTTTCAAGAATTTAATTTC
1 TTTAATTTTCAAGAATTAAATTTC
6680606 TTTAATTTTCAA-AATTAAGATTT
1 TTTAATTTTCAAGAATTAA-ATTT
6680629 TAGGTCCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTAATTTTCAAGAATTAAATTTC
Found at i:6687513 original size:38 final size:38
Alignment explanation
Indices: 6687461--6687541 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
6687451 TTTTTTATAC
* *
6687461 AAAATTTAGAACTACTCATATCCCCCTCTCAACCCATA
1 AAAAGTTAAAACTACTCATATCCCCCTCTCAACCCATA
*
6687499 AAAAGTTAAAACTACTCATATCCCCCTCTCAATCCATA
1 AAAAGTTAAAACTACTCATATCCCCCTCTCAACCCATA
6687537 AAAAG
1 AAAAG
6687542 GAAAATGATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.41, C:0.31, G:0.04, T:0.25
Consensus pattern (38 bp):
AAAAGTTAAAACTACTCATATCCCCCTCTCAACCCATA
Found at i:6692247 original size:15 final size:16
Alignment explanation
Indices: 6692221--6692256 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6692211 GTAAATTATT
6692221 AAATATATTATTATAA
1 AAATATATTATTATAA
*
6692237 AAATATA-TATTATTA
1 AAATATATTATTATAA
6692252 AAATA
1 AAATA
6692257 ATAAAATTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATATTATTATAA
Found at i:6696338 original size:29 final size:27
Alignment explanation
Indices: 6696296--6696374 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 27
6696286 GTTATTTTTC
*
6696296 TATATTTTTTAAATTTGATCATAAAAA
1 TATATTTTTTAAATTTAATCATAAAAA
*
6696323 TATAGTTTTTTAAAATTTAATTAT-AAAA
1 TATA-TTTTTT-AAATTTAATCATAAAAA
* *
6696351 T-TA-TTTTTAAATTAAATAATAAAA
1 TATATTTTTTAAATTTAATCATAAAA
6696375 TAGGTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
24 10 0.22
25 8 0.18
27 6 0.13
28 11 0.24
29 10 0.22
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (27 bp):
TATATTTTTTAAATTTAATCATAAAAA
Found at i:6699212 original size:19 final size:21
Alignment explanation
Indices: 6699190--6699235 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 21
6699180 AAATTAAAAT
*
6699190 ATTTTTAA-AAAAAAT-ATTA
1 ATTTATAATAAAAAATCATTA
6699209 ATTTATAATAAAAAATCATTAA
1 ATTTATAATAAAAAATCATT-A
6699231 ATTTA
1 ATTTA
6699236 CAATCCAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 3 0.13
22 6 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTTATAATAAAAAATCATTA
Found at i:6699772 original size:30 final size:30
Alignment explanation
Indices: 6699733--6699789 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6699723 TTGTTTTAGA
6699733 TTTAATTTTTT-AAAATAATTTATTTTTATT
1 TTTAATTTTTTGAAAAT-ATTTATTTTTATT
* *
6699763 TTTATTTTTTTGAAAATTTTTATTTTT
1 TTTAATTTTTTGAAAATATTTATTTTT
6699790 GATATTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (30 bp):
TTTAATTTTTTGAAAATATTTATTTTTATT
Found at i:6700280 original size:16 final size:16
Alignment explanation
Indices: 6700244--6700279 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6700234 TAAAATAAAA
*
6700244 TAAAATAAATGTTTTT
1 TAAAAGAAATGTTTTT
6700260 TAAAAGAAAT-TTTTT
1 TAAAAGAAATGTTTTT
6700275 TAAAA
1 TAAAA
6700280 AATAACATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TAAAAGAAATGTTTTT
Found at i:6700681 original size:97 final size:97
Alignment explanation
Indices: 6700515--6700724 Score: 348
Period size: 97 Copynumber: 2.2 Consensus size: 97
6700505 ACCCAATTTG
* * *
6700515 TCAAATTTTGAAATGTAAAAGCAGCTCCTCAAAATGTAGCCGTTACATGGGAATCTCTTCTCCAT
1 TCAAAATTTGAAATATAAAAACAGCTCCTCAAAATGTAGCCGTTACATGGGAATCTCTTCTCCAT
*
6700580 TTTCTAAATTTAACGGTTACTTTTGTTAAATT
66 TTTCTAAATTTAACGGATACTTTTGTTAAATT
* * *
6700612 TCAAAATTTGAAATATAAAAACAGCTCCTCAAAATGTAGTCGTTATATGGGAATCTCTTCTCCCT
1 TCAAAATTTGAAATATAAAAACAGCTCCTCAAAATGTAGCCGTTACATGGGAATCTCTTCTCCAT
6700677 TTTCTAAATTTAACGGATACTTTTGTTAAATT
66 TTTCTAAATTTAACGGATACTTTTGTTAAATT
*
6700709 TTAAAATTTGAAATAT
1 TCAAAATTTGAAATAT
6700725 CATCTCCTTT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 105 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (97 bp):
TCAAAATTTGAAATATAAAAACAGCTCCTCAAAATGTAGCCGTTACATGGGAATCTCTTCTCCAT
TTTCTAAATTTAACGGATACTTTTGTTAAATT
Found at i:6701522 original size:73 final size:71
Alignment explanation
Indices: 6701445--6701599 Score: 161
Period size: 71 Copynumber: 2.2 Consensus size: 71
6701435 GGTGAAAAAC
* *
6701445 TTATTCTATTT-GAGAATAAAAATTAAAATCGAATAAATCTATTTCGGGACTTATTCTCG-TCGT
1 TTATTCTATTTCCA-AATAAAAATT-AAAT-GAATAAATCTATTTCGAGACTTATTCTCGCT-GT
6701508 TTAATAAATT
62 TTAATAAATT
* * * * * * * *
6701518 TTATTTTATTTCCAATTAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTTTCGCTGTTTAA
1 TTATTCTATTTCCAAATAAAAATTAAATGAATAAATCTATTTCGAGACTTATTCTCGCTGTTTAA
*
6701583 TATATT
66 TAAATT
6701589 TTATTCTATTT
1 TTATTCTATTT
6701600 TAATTTTGTT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
71 45 0.66
72 4 0.06
73 18 0.26
74 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (71 bp):
TTATTCTATTTCCAAATAAAAATTAAATGAATAAATCTATTTCGAGACTTATTCTCGCTGTTTAA
TAAATT
Found at i:6701570 original size:71 final size:71
Alignment explanation
Indices: 6701461--6701681 Score: 194
Period size: 82 Copynumber: 2.9 Consensus size: 71
6701451 TATTTGAGAA
* * *
6701461 TAAAAATTAAAATCGAATAAATCTATTTCGGGACTTATTCTCGTCGTTTAATAAATTTTATTTTA
1 TAAAAATT-AAGT-GAATAATTCTATTTCGGGATTTATTCTCGTCGTTTAATAAATTTTATTTTA
6701526 TTTCCAAT
64 TTTCCAAT
* * * *
6701534 TAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTTTCG-CTGTTTAATATATTTTATTCTAT
1 TAAAAATTAAGTGAATAATTCTATTTCGGGATTTATTCTCGTC-GTTT-A-ATA----A----AT
*
6701598 TTTAATTTTGTTTCCAAT
55 TTT-ATTTTATTTCCAAT
* * *
6701616 TAAAAATTAAGTGAATAATTTTATTTCGGGATTTATTCTCGTTGTTTAACT-GATTTTATTTTAT
1 TAAAAATTAAGTGAATAATTCTATTTCGGGATTTATTCTCGTCGTTTAA-TAAATTTTATTTTAT
6701680 TT
65 TT
6701682 TAATTTTGTT
Statistics
Matches: 118, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
70 1 0.01
71 36 0.31
72 9 0.08
73 10 0.08
77 1 0.01
80 1 0.01
81 7 0.06
82 53 0.45
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (71 bp):
TAAAAATTAAGTGAATAATTCTATTTCGGGATTTATTCTCGTCGTTTAATAAATTTTATTTTATT
TCCAAT
Found at i:6701612 original size:82 final size:82
Alignment explanation
Indices: 6701515--6701842 Score: 304
Period size: 82 Copynumber: 4.1 Consensus size: 82
6701505 CGTTTAATAA
*
6701515 ATTTTATTTT-ATTTCCAATTAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTTTCGCTGT
1 ATTTTATTTTGATTTCCAATTAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTCTCGCTGT
*
6701579 TTAATATATTTTATTCT
66 TTAATAGATTTTATTCT
* * * * *
6701596 ATTTTAATTTTG-TTTCCAATTAAAAATTAAGTGAATAATTTTATTTCGGGATTTATTCTCGTTG
1 ATTTT-ATTTTGATTTCCAATTAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTCTCGCTG
*
6701660 TTTAACT-GATTTTATTTT
65 TTTAA-TAGATTTTATTCT
* * ** * * * *
6701678 ATTTTAATTTTGTTTTCAAAACAAGAA-TAAGTTAAATAATTCTGTTTCGGGATTTATTCCCGCC
1 ATTTT-ATTTTGATTTCCAATTAAGAATTAAG-TGAATAATTCTGTTTCGAGATTTATTCTCGCT
*
6701742 ATTTAATAGATTTTATTCT
64 GTTTAATAGATTTTATTCT
* * *
6701761 A---TA-TTTGAATTT--AA-TAATAATTAATTGAATAATTCTGTTTCGAGATTTATTC-CGGTC
1 ATTTTATTTTG-ATTTCCAATTAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTCTCGCT-
*
6701818 GTTCAACT-GATTTTATTCT
64 GTTTAA-TAGATTTTATTCT
6701837 GATTTT
1 -ATTTT
6701843 GTTTCCAAAC
Statistics
Matches: 203, Mismatches: 30, Indels: 29
0.77 0.11 0.11
Matches are distributed among these distances:
75 2 0.01
76 44 0.22
77 7 0.03
78 4 0.02
79 4 0.02
80 2 0.01
81 5 0.02
82 82 0.40
83 53 0.26
ACGTcount: A:0.29, C:0.09, G:0.11, T:0.50
Consensus pattern (82 bp):
ATTTTATTTTGATTTCCAATTAAGAATTAAGTGAATAATTCTGTTTCGAGATTTATTCTCGCTGT
TTAATAGATTTTATTCT
Found at i:6701900 original size:79 final size:77
Alignment explanation
Indices: 6701673--6701925 Score: 257
Period size: 76 Copynumber: 3.3 Consensus size: 77
6701663 AACTGATTTT
* * * *
6701673 ATTTTATTTTAATTTTGTTTTCAAAACAAGAATAAGTTAAATAATTCTGTTTCGGGATTTATTCC
1 ATTTTATTCTGATTTTGATTTC-AAACAAGAATAAATTAAATAATTCTGTTTCGGGATTTATTCC
* *
6701738 CGCCATTTAA-TAG
65 CGCCGTTCAACT-G
* * * * *
6701751 ATTTTATTCT-ATATTTGAATTT--AATAATAATTAATTGAATAATTCTGTTTCGAGATTTATTC
1 ATTTTATTCTGAT-TTTG-ATTTCAAACAAGAATAAATTAAATAATTCTGTTTCGGGATTTATTC
* *
6701813 CGGTCGTTCAACTG
64 CCGCCGTTCAACTG
* *
6701827 ATTTTATTCTGATTTTG-TTTCCAAACAAGAACTAAAATTAAATAATTATGTTTCGGGATTTGTT
1 ATTTTATTCTGATTTTGATTT-CAAACAAGAA-T-AAATTAAATAATTCTGTTTCGGGATTTATT
6701891 CCCGCCGTTCAACTG
63 CCCGCCGTTCAACTG
*
6701906 ATTTGATT-TGATTTTGATTT
1 ATTTTATTCTGATTTTGATTT
6701926 AGTTTCCAAA
Statistics
Matches: 143, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
74 3 0.02
76 56 0.39
77 11 0.08
78 22 0.15
79 51 0.36
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.46
Consensus pattern (77 bp):
ATTTTATTCTGATTTTGATTTCAAACAAGAATAAATTAAATAATTCTGTTTCGGGATTTATTCCC
GCCGTTCAACTG
Found at i:6702068 original size:15 final size:15
Alignment explanation
Indices: 6702045--6702076 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6702035 ATCAAAGGAC
*
6702045 AGTGGAAGAACTTCA
1 AGTGCAAGAACTTCA
6702060 AGTGCAAGAACTTCA
1 AGTGCAAGAACTTCA
6702075 AG
1 AG
6702077 AACTATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.19
Consensus pattern (15 bp):
AGTGCAAGAACTTCA
Found at i:6711252 original size:15 final size:14
Alignment explanation
Indices: 6711214--6711254 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
6711204 TAATGCAATA
*
6711214 AATAAAATGATAGT
1 AATAAAATGATAAT
6711228 AA-AAAATGATAAT
1 AATAAAATGATAAT
6711241 AATAACAATGATAA
1 AATAA-AATGATAA
6711255 AAATGGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 12 0.50
14 4 0.17
15 8 0.33
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (14 bp):
AATAAAATGATAAT
Found at i:6711336 original size:19 final size:17
Alignment explanation
Indices: 6711287--6711340 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
6711277 ATGGTATGGT
*
6711287 AATAAAATAAAAAGATA
1 AATAAAATAAAATGATA
*
6711304 AATAAAATATAAATGCTA
1 AATAAAATA-AAATGATA
6711322 AAGTAAAAATAAAAT-ATA
1 AA-T-AAAATAAAATGATA
6711340 A
1 A
6711341 GGACTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 9 0.29
18 11 0.35
19 5 0.16
20 6 0.19
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (17 bp):
AATAAAATAAAATGATA
Found at i:6711435 original size:13 final size:13
Alignment explanation
Indices: 6711408--6711459 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
6711398 AATGTGCTAG
6711408 AAAATAAATAAAT
1 AAAATAAATAAAT
6711421 -AAATAAATAAAAT
1 AAAATAAAT-AAAT
*
6711434 AAACATGAAT-AAT
1 AAA-ATAAATAAAT
6711447 AAAAATAAATAAA
1 -AAAATAAATAAA
6711460 AAAGGGTAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
12 8 0.25
13 12 0.38
14 7 0.22
15 5 0.16
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:6712544 original size:11 final size:11
Alignment explanation
Indices: 6712528--6712556 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
6712518 TTTAAAAAAA
6712528 TCATTTTAGCT
1 TCATTTTAGCT
6712539 TCATTTTAGCT
1 TCATTTTAGCT
6712550 TCATTTT
1 TCATTTT
6712557 CTTCAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.59
Consensus pattern (11 bp):
TCATTTTAGCT
Found at i:6714081 original size:6 final size:6
Alignment explanation
Indices: 6714070--6714097 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6714060 GTAAAACATA
6714070 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
6714098 AAAGTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:6714475 original size:13 final size:13
Alignment explanation
Indices: 6714457--6714482 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6714447 CCTATTATTT
6714457 ATTTTCATTCTCA
1 ATTTTCATTCTCA
6714470 ATTTTCATTCTCA
1 ATTTTCATTCTCA
6714483 TTCTACTTTC
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:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTCATTCTCA
Found at i:6714974 original size:24 final size:24
Alignment explanation
Indices: 6714940--6714991 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6714930 CCGAATCATA
* * *
6714940 TTTTTCTATTGTTTTTGGACTGCT
1 TTTTTCAATTGATTTTGGACCGCT
6714964 TTTTTCAATTGATTTTGGACCGCT
1 TTTTTCAATTGATTTTGGACCGCT
6714988 TTTT
1 TTTT
6714992 CTTTTTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.13, G:0.15, T:0.60
Consensus pattern (24 bp):
TTTTTCAATTGATTTTGGACCGCT
Found at i:6739285 original size:12 final size:12
Alignment explanation
Indices: 6739268--6739309 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6739258 TTAGCTTAAT
6739268 CGAACATGTTCA
1 CGAACATGTTCA
**
6739280 CGAACAT-TAAA
1 CGAACATGTTCA
6739291 CGAACATGTTCA
1 CGAACATGTTCA
*
6739303 TGAACAT
1 CGAACAT
6739310 ATAATTGAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:6739289 original size:23 final size:23
Alignment explanation
Indices: 6739263--6739332 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
6739253 TTCATTTAGC
*
6739263 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCAAGAACA
* *
6739286 TTAAACGAACATGTTCATGAACA
1 TTAATCGAACATGTTCAAGAACA
* *
6739309 TATAATTGAACATTTTCAAGAACA
1 T-TAATCGAACATGTTCAAGAACA
6739333 ATGTTAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 22 0.55
24 18 0.45
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (23 bp):
TTAATCGAACATGTTCAAGAACA
Found at i:6739437 original size:12 final size:12
Alignment explanation
Indices: 6739408--6739440 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
6739398 ATCATTAATA
6739408 AATAAACGAATC
1 AATAAACGAATC
*
6739420 -ATAAACGAGTC
1 AATAAACGAATC
6739431 AATAAACGAA
1 AATAAACGAA
6739441 CTTATAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
AATAAACGAATC
Found at i:6739438 original size:23 final size:24
Alignment explanation
Indices: 6739408--6739463 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
6739398 ATCATTAATA
*
6739408 AATAAACGAA-TCATAAACGAGTC
1 AATAAACGAACTCATAAACGAGCC
* *
6739431 AATAAACGAACTTATAAACTAGCC
1 AATAAACGAACTCATAAACGAGCC
6739455 AATAAACGA
1 AATAAACGA
6739464 GCTTGTTCGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.54, C:0.18, G:0.11, T:0.18
Consensus pattern (24 bp):
AATAAACGAACTCATAAACGAGCC
Found at i:6746750 original size:33 final size:33
Alignment explanation
Indices: 6746708--6746773 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
6746698 AACTTTGGTG
6746708 CTTTTTTTTCTTGTAACTTGATGGGATTCATGA
1 CTTTTTTTTCTTGTAACTTGATGGGATTCATGA
6746741 CTTTTTTTTCTTGTAACTTGATGGGATTCATGA
1 CTTTTTTTTCTTGTAACTTGATGGGATTCATGA
6746774 ATCTAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (33 bp):
CTTTTTTTTCTTGTAACTTGATGGGATTCATGA
Found at i:6747791 original size:3 final size:3
Alignment explanation
Indices: 6747785--6747819 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6747775 ATTTATCCTG
6747785 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6747820 CTGGAGACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6748026 original size:2 final size:2
Alignment explanation
Indices: 6748019--6748043 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6748009 ATTGCATCAA
6748019 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6748044 CAAAGCAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6757096 original size:42 final size:43
Alignment explanation
Indices: 6757014--6757096 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
6757004 AAATACATAC
***
6757014 TGTGGAGAGTTTCCTACATCAAAGGGTCATATATGTATAACCT
1 TGTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCT
* *
6757057 TGTGGAGAGTTTCCTACATC-AAGGGTCATTTCCCAATAAC
1 TGTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAAC
6757097 ATAAGCAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 15 0.43
43 20 0.57
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
TGTGGAGAGTTTCCTACATCAAAGGGTCATATACCAATAACCT
Found at i:6763230 original size:19 final size:19
Alignment explanation
Indices: 6763208--6763252 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6763198 TTTTATTAGG
6763208 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
6763227 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
6763246 ATTTAAT
1 ATTTAAT
6763253 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:6765411 original size:21 final size:21
Alignment explanation
Indices: 6765387--6765430 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6765377 GAATTTCAGT
*
6765387 AGCAATCTATAGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
* *
6765408 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
6765429 AG
1 AG
6765431 ATAACTGAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.30
Consensus pattern (21 bp):
AGCAAACTATAGATTTTCAAA
Found at i:6766634 original size:9 final size:9
Alignment explanation
Indices: 6766620--6766661 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
6766610 AACCCAATTA
6766620 TTTTTATTT
1 TTTTTATTT
6766629 TTTTTA-TT
1 TTTTTATTT
*
6766637 TTTCTATTT
1 TTTTTATTT
*
6766646 TATTTATTT
1 TTTTTATTT
*
6766655 ATTTTAT
1 TTTTTAT
6766662 GTTCAGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:6766646 original size:17 final size:16
Alignment explanation
Indices: 6766620--6766654 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
6766610 AACCCAATTA
*
6766620 TTTTTATTTTTTTTAT
1 TTTTTATTTTATTTAT
6766636 TTTTCTATTTTATTTAT
1 TTTT-TATTTTATTTAT
6766653 TT
1 TT
6766655 ATTTTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTATTTTATTTAT
Found at i:6766648 original size:13 final size:13
Alignment explanation
Indices: 6766622--6766661 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
6766612 CCCAATTATT
*
6766622 TTTATTTTTTTTA
1 TTTATTTATTTTA
6766635 TTT-TTCTATTTTA
1 TTTATT-TATTTTA
6766648 TTTATTTATTTTA
1 TTTATTTATTTTA
6766661 T
1 T
6766662 GTTCAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.08
13 20 0.83
14 2 0.08
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:6782898 original size:3 final size:3
Alignment explanation
Indices: 6782892--6782917 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6782882 ATCATCAAAT
6782892 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
6782918 GCCGTCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:6783562 original size:4 final size:4
Alignment explanation
Indices: 6783553--6783588 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
6783543 GAGGTAGAGG
6783553 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
6783589 GAGTGGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:6784200 original size:17 final size:18
Alignment explanation
Indices: 6784178--6784223 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
6784168 AGGGGCTGCC
6784178 TTTTTTTCTTTTT-CTTT
1 TTTTTTTCTTTTTACTTT
6784195 TTTTTTT-TTTTTACTTT
1 TTTTTTTCTTTTTACTTT
*
6784212 TGCTTTTTCTTT
1 T-TTTTTTCTTT
6784224 CCTTGCATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 12 0.48
18 5 0.20
19 3 0.12
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (18 bp):
TTTTTTTCTTTTTACTTT
Found at i:6784219 original size:7 final size:6
Alignment explanation
Indices: 6784180--6784223 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
6784170 GGGCTGCCTT
*
6784180 TTTTTC TTTTTC TTTTT- TTTTT- TTTTTAC TTTTGC TTTTTC TTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTTTTC TTT
6784224 CCTTGCATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 10 0.29
6 20 0.59
7 4 0.12
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:6784446 original size:2 final size:2
Alignment explanation
Indices: 6784439--6784475 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
6784429 CGTGTTTTGG
6784439 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6784476 TATCTTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:6785525 original size:6 final size:6
Alignment explanation
Indices: 6785514--6785547 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
6785504 GAAACCCAAG
6785514 AAACTA AAACTA AAACTA AAACTA AAACTA AAAC
1 AAACTA AAACTA AAACTA AAACTA AAACTA AAAC
6785548 AAACAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.15
Consensus pattern (6 bp):
AAACTA
Found at i:6786237 original size:2 final size:2
Alignment explanation
Indices: 6786230--6786259 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6786220 AACATGCATG
6786230 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6786260 GAAACTCGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6786409 original size:13 final size:13
Alignment explanation
Indices: 6786391--6786415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6786381 TATCTTCCTG
6786391 CATGAAACAGTAC
1 CATGAAACAGTAC
6786404 CATGAAACAGTA
1 CATGAAACAGTA
6786416 TAGTTTCATT
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:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (13 bp):
CATGAAACAGTAC
Found at i:6795948 original size:29 final size:31
Alignment explanation
Indices: 6795915--6795979 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
6795905 AATAATTTAT
6795915 ATTTTTATAATTTTTAAAA-AATT-AAAT-TA
1 ATTTTTATAA-TTTTAAAATAATTAAAATATA
*
6795944 ATTTTTATTATTTTAAAATAATTAAAATATA
1 ATTTTTATAATTTTAAAATAATTAAAATATA
6795975 ATTTT
1 ATTTT
6795980 ATTTTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 8 0.25
29 13 0.41
30 4 0.12
31 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTTTTATAATTTTAAAATAATTAAAATATA
Found at i:6796007 original size:36 final size:35
Alignment explanation
Indices: 6795927--6796013 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
6795917 TTTTATAATT
*
6795927 TTTAAAAAATTAAATTAATTTTTATTATTTTAAAATA
1 TTTAAAAAATTAAATTAATTTTTATTA-ATTAAAA-A
* * * *
6795964 ATTAAAATA-TAATTTTATTTTTATTAATTAAAAA
1 TTTAAAAAATTAAATTAATTTTTATTAATTAAAAA
6795998 TTTAAAAAATTTAAAT
1 TTTAAAAAA-TTAAAT
6796014 AAAAAAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
34 8 0.20
35 6 0.15
36 19 0.47
37 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
TTTAAAAAATTAAATTAATTTTTATTAATTAAAAA
Found at i:6797069 original size:16 final size:17
Alignment explanation
Indices: 6797048--6797080 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6797038 ATAAATTTAT
*
6797048 TATTATTAATT-TAAAA
1 TATTATAAATTATAAAA
6797064 TATTATAAATTATAAAA
1 TATTATAAATTATAAAA
6797081 AAATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATTATAAATTATAAAA
Found at i:6806228 original size:23 final size:23
Alignment explanation
Indices: 6806183--6806247 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
6806173 TTTAATGTTC
*
6806183 ACGAACATGTTCATTTAAC-TTAA
1 ACGAACATGTTCA-TGAACATTAA
**
6806206 TTGAACATGTTCATGAACATTAA
1 ACGAACATGTTCATGAACATTAA
* *
6806229 ACAAACATGTTCACGAACA
1 ACGAACATGTTCATGAACA
6806248 ATGTTAATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
22 4 0.12
23 30 0.88
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (23 bp):
ACGAACATGTTCATGAACATTAA
Found at i:6816001 original size:15 final size:15
Alignment explanation
Indices: 6815961--6815994 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
6815951 ACTTTACTTA
*
6815961 ATTAAATATTAATAAT
1 ATTAAAAATT-ATAAT
6815977 ATTAAAAATTATAAT
1 ATTAAAAATTATAAT
6815992 ATT
1 ATT
6815995 TTAAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTAAAAATTATAAT
Found at i:6823506 original size:13 final size:13
Alignment explanation
Indices: 6823488--6823512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6823478 TTTTGTTGAA
6823488 AAATACCTATATC
1 AAATACCTATATC
6823501 AAATACCTATAT
1 AAATACCTATAT
6823513 TAACTATTAT
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:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATACCTATATC
Found at i:6830960 original size:28 final size:28
Alignment explanation
Indices: 6830920--6830979 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
6830910 TTTTTGTGGA
*
6830920 TTTGTCCGAATAAATGCTTGGGGGTAAG
1 TTTGTCCGAATAAAAGCTTGGGGGTAAG
6830948 TTTGTCCGAATAAAAGCTTGGGGGTAAG
1 TTTGTCCGAATAAAAGCTTGGGGGTAAG
6830976 TTTG
1 TTTG
6830980 CATCGTGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.25, C:0.10, G:0.32, T:0.33
Consensus pattern (28 bp):
TTTGTCCGAATAAAAGCTTGGGGGTAAG
Found at i:6833961 original size:18 final size:18
Alignment explanation
Indices: 6833938--6833977 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6833928 GGTTAAAGTG
**
6833938 TAAATTTTTTTATTAATT
1 TAAATTTTTTTAAAAATT
6833956 TAAATTTTTTTAAAAATT
1 TAAATTTTTTTAAAAATT
6833974 TAAA
1 TAAA
6833978 GAATCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAATTTTTTTAAAAATT
Found at i:6836500 original size:62 final size:62
Alignment explanation
Indices: 6836403--6836524 Score: 183
Period size: 62 Copynumber: 2.0 Consensus size: 62
6836393 TGGGTGCCAA
* * * *
6836403 GTTTAACAGATGAGACACTGGGTGTCATCTTTATTATAGCGCTGGGCGCGATTATTACTTTG
1 GTTTAACAGATAAGACACTGGGTGTCATCTTTATTATAGCGCTGGACACAATTATTACTTTG
*
6836465 GTTTAACCGATAAGACACTGGGTGTCA-CATTTATTATAGCGCTGGACACAATTATTACTT
1 GTTTAACAGATAAGACACTGGGTGTCATC-TTTATTATAGCGCTGGACACAATTATTACTT
6836525 CGATTTATCC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
61 1 0.02
62 53 0.98
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (62 bp):
GTTTAACAGATAAGACACTGGGTGTCATCTTTATTATAGCGCTGGACACAATTATTACTTTG
Found at i:6836537 original size:62 final size:62
Alignment explanation
Indices: 6836404--6836546 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 62
6836394 GGGTGCCAAG
* * * * * * *
6836404 TTTAACAGATGAGACACTGGGTGTCATCTTTATTATAGCGCTGGGCGCGATTATTACTTTGG
1 TTTAACCGATAAGACACTGGGTGTCATCTTTATTATAGCGCTGGACACAATTATTACTTCGA
6836466 TTTAACCGATAAGACACTGGGTGTCA-CATTTATTATAGCGCTGGACACAATTATTACTTCGA
1 TTTAACCGATAAGACACTGGGTGTCATC-TTTATTATAGCGCTGGACACAATTATTACTTCGA
* * *
6836528 TTTATCCGATGAGGCACTG
1 TTTAACCGATAAGACACTG
6836547 AATGCCAAAC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
61 1 0.01
62 69 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (62 bp):
TTTAACCGATAAGACACTGGGTGTCATCTTTATTATAGCGCTGGACACAATTATTACTTCGA
Found at i:6837437 original size:21 final size:21
Alignment explanation
Indices: 6837407--6837461 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
6837397 CCAGAACTTT
* *
6837407 TTGTACCGGTAGAT-GCTTATG
1 TTGTATCGGTAGATCGCTGA-G
*
6837428 TTGTATCGGTAGTTCGCTGAG
1 TTGTATCGGTAGATCGCTGAG
6837449 TTGTATCGGTAGA
1 TTGTATCGGTAGA
6837462 ACTTATTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.18, C:0.13, G:0.31, T:0.38
Consensus pattern (21 bp):
TTGTATCGGTAGATCGCTGAG
Found at i:6838402 original size:19 final size:19
Alignment explanation
Indices: 6838378--6838420 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
6838368 AAACATAAAT
*
6838378 TAAATATTAATTTAAATAA
1 TAAATAATAATTTAAATAA
* *
6838397 TAAATAATATTTTAAATAT
1 TAAATAATAATTTAAATAA
6838416 TAAAT
1 TAAAT
6838421 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATAATAATTTAAATAA
Found at i:6849220 original size:50 final size:50
Alignment explanation
Indices: 6849159--6849272 Score: 165
Period size: 50 Copynumber: 2.3 Consensus size: 50
6849149 TTATTTAAAC
* * * *
6849159 TTTTTATTAAAATAATCTAAAAAATTGGTTAATTACGTAAATAATTTATT
1 TTTTTAATAAAATAATCAAAAAAATTGATTAATTACGTAAATAACTTATT
*
6849209 TTTTTAATAAAATAATCAAAAAAATTGATTAATTATGTAAATAACTTATT
1 TTTTTAATAAAATAATCAAAAAAATTGATTAATTACGTAAATAACTTATT
* *
6849259 TTTCTGATAAAATA
1 TTTTTAATAAAATA
6849273 CGAAAATAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (50 bp):
TTTTTAATAAAATAATCAAAAAAATTGATTAATTACGTAAATAACTTATT
Found at i:6852179 original size:8 final size:7
Alignment explanation
Indices: 6852163--6852228 Score: 55
Period size: 7 Copynumber: 9.4 Consensus size: 7
6852153 AAAATATTTT
6852163 TTTAATA
1 TTTAATA
6852170 TTTAAATA
1 TTT-AATA
6852178 TTTAATA
1 TTTAATA
*
6852185 TTATAATT
1 TT-TAATA
* *
6852193 TTTTATT
1 TTTAATA
6852200 TTTAAT-
1 TTTAATA
*
6852206 TTTCA-A
1 TTTAATA
*
6852212 TTTAAAA
1 TTTAATA
6852219 TTTAATA
1 TTTAATA
6852226 TTT
1 TTT
6852229 TTATTTTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
6 8 0.16
7 28 0.57
8 13 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTAATA
Found at i:6852236 original size:14 final size:14
Alignment explanation
Indices: 6852162--6852236 Score: 55
Period size: 14 Copynumber: 5.4 Consensus size: 14
6852152 AAAAATATTT
*
6852162 TTTTAATATTTAAA
1 TTTTAATATTTTAA
*
6852176 TATTTAATATTATAA
1 T-TTTAATATTTTAA
*
6852191 TTTT-TTATTTTTAA
1 TTTTAATA-TTTTAA
* *
6852205 TTTTCA-ATTTAAA
1 TTTTAATATTTTAA
* *
6852218 ATTTAATATTTTTA
1 TTTTAATATTTTAA
6852232 TTTTA
1 TTTTA
6852237 TATAAACTTA
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
13 11 0.24
14 23 0.50
15 12 0.26
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTAATATTTTAA
Found at i:6852391 original size:21 final size:21
Alignment explanation
Indices: 6852367--6852409 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6852357 AATTAATACT
6852367 TTAAATACTAAAATAAAAAAA
1 TTAAATACTAAAATAAAAAAA
*
6852388 TTAAATACTGAAATAAAAAAA
1 TTAAATACTAAAATAAAAAAA
6852409 T
1 T
6852410 ACTTTAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (21 bp):
TTAAATACTAAAATAAAAAAA
Found at i:6852408 original size:29 final size:29
Alignment explanation
Indices: 6852352--6852410 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
6852342 AATGAAATTA
* **
6852352 AAAAAAATTAATACTTTAAATACTAAAAT
1 AAAAAAATTAATACTTGAAATAAAAAAAT
6852381 AAAAAAATTAAATAC-TGAAATAAAAAAAT
1 AAAAAAATT-AATACTTGAAATAAAAAAAT
6852410 A
1 A
6852411 CTTTAACAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (29 bp):
AAAAAAATTAATACTTGAAATAAAAAAAT
Found at i:6878329 original size:22 final size:23
Alignment explanation
Indices: 6878295--6878348 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
6878285 TCCTAAACAA
* *
6878295 ATAATTTAAAAATATTG-GATTC
1 ATAAATTAAAAATATTGAAATTC
* *
6878317 ATAAATTATAAATTTTGAAATTC
1 ATAAATTAAAAATATTGAAATTC
6878340 A-AAATTAAA
1 ATAAATTAAA
6878349 TTTCACTCCC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (23 bp):
ATAAATTAAAAATATTGAAATTC
Found at i:6879495 original size:17 final size:17
Alignment explanation
Indices: 6879461--6879513 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
6879451 TTCGCATATA
6879461 ATAAGAATTA-AAATAAAT
1 ATAA-AATTATAAA-AAAT
6879479 ATAAAATTATAAAAAAT
1 ATAAAATTATAAAAAAT
* * *
6879496 AGAATATTTTAAAAAAT
1 ATAAAATTATAAAAAAT
6879513 A
1 A
6879514 ATTTAACAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 24 0.77
18 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (17 bp):
ATAAAATTATAAAAAAT
Found at i:6881297 original size:22 final size:22
Alignment explanation
Indices: 6881255--6881322 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 22
6881245 TTTAATTATG
*
6881255 TTTAGGGT-TTTTAAATTAGGA
1 TTTAGGGTATTTTAAATAAGGA
6881276 TTTA-GGTATTTTAAATGAAGGA
1 TTTAGGGTATTTTAAAT-AAGGA
* *
6881298 TGTAGGGCATTTTAAATTAAGGA
1 TTTAGGGTATTTTAAA-TAAGGA
6881321 TT
1 TT
6881323 ATGGAAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 3 0.08
21 12 0.31
22 7 0.18
23 16 0.41
24 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.43
Consensus pattern (22 bp):
TTTAGGGTATTTTAAATAAGGA
Found at i:6883191 original size:19 final size:19
Alignment explanation
Indices: 6883157--6883225 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
6883147 AATTAAACAA
*
6883157 ATTTTGAGAA-TTTGAGAG
1 ATTTAGAGAATTTTGAGAG
*
6883175 CTTTAGAGAATTTTGAGAG
1 ATTTAGAGAATTTTGAGAG
* *
6883194 TTTTGAAGAGAAATTTATGTGAG
1 ATTT--AGAG-AATTT-TGAGAG
6883217 ATTTAGAGA
1 ATTTAGAGA
6883226 GAATTGAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 8 0.20
19 11 0.27
20 1 0.02
21 8 0.20
22 5 0.12
23 8 0.20
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (19 bp):
ATTTAGAGAATTTTGAGAG
Found at i:6883288 original size:14 final size:14
Alignment explanation
Indices: 6883269--6883295 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6883259 TTTTATAATT
6883269 GTTTAAGGTTTAGG
1 GTTTAAGGTTTAGG
6883283 GTTTAAGGTTTAG
1 GTTTAAGGTTTAG
6883296 AAGAGAGGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GTTTAAGGTTTAGG
Found at i:6898690 original size:24 final size:23
Alignment explanation
Indices: 6898669--6898711 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6898659 ATATAATGTA
*
6898669 AATATTTA-AAAATATTAAAATG
1 AATATATATAAAATATTAAAATG
*
6898691 ACTATATATAAAATATTAAAA
1 AATATATATAAAATATTAAAA
6898712 AATATGAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
AATATATATAAAATATTAAAATG
Found at i:6900232 original size:16 final size:16
Alignment explanation
Indices: 6900188--6900237 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
6900178 CCTAAAATGA
*
6900188 AAAATTTT--ATTTTT
1 AAAATTTTAAATTTAT
6900202 AAATATTTTATAATTTAT
1 AAA-ATTTTA-AATTTAT
*
6900220 AAAATTTTAAATTAAT
1 AAAATTTTAAATTTAT
6900236 AA
1 AA
6900238 TGGTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 5 0.17
16 8 0.27
17 6 0.20
18 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTTTAAATTTAT
Found at i:6905904 original size:23 final size:24
Alignment explanation
Indices: 6905866--6905910 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
6905856 TTTTTATTTT
6905866 ATTTAATATTAATATTATTATACA
1 ATTTAATATTAATATTATTATACA
*
6905890 ATTTAA-ATTATTATTATTATA
1 ATTTAATATTAATATTATTATA
6905911 TTTTTTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTAATATTAATATTATTATACA
Found at i:6911460 original size:56 final size:56
Alignment explanation
Indices: 6911394--6911521 Score: 193
Period size: 56 Copynumber: 2.3 Consensus size: 56
6911384 TAGTCTAGCA
* *
6911394 CCACTTATGGCTGCTAGTCAAAATAATATCGGGTGTCCGTAGTGTTATCCCGAGCG
1 CCACTCATGGCCGCTAGTCAAAATAATATCGGGTGTCCGTAGTGTTATCCCGAGCG
* * *
6911450 CCACTCATGGCCGCTAGTCAAAATAATCTCGGGTGTTCGTAGTGTTATCCCGAGTG
1 CCACTCATGGCCGCTAGTCAAAATAATATCGGGTGTCCGTAGTGTTATCCCGAGCG
* *
6911506 TCACTCATGACCGCTA
1 CCACTCATGGCCGCTA
6911522 ATTAGGTTAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (56 bp):
CCACTCATGGCCGCTAGTCAAAATAATATCGGGTGTCCGTAGTGTTATCCCGAGCG
Found at i:6912019 original size:198 final size:197
Alignment explanation
Indices: 6911747--6912356 Score: 794
Period size: 198 Copynumber: 3.1 Consensus size: 197
6911737 CCGTTTATTT
* ** ** *
6911747 TAAATGAAACTAGACTTCCGTATGATTATAAAGATATAAGGCTCACTTCCTATTTTATCTTGTGA
1 TAAACGAAACTAGACTT-CGTACAATTATAGGGATATAAGGCTCATTTCCTATTTTATCTTGT-A
* * * *
6911812 -AATTTTTGGTGATTTTTTAAATTCATTGCTAAATCTGTTTTATAAGAATTTTGCTACTAGATTT
64 CAATTTTTGGTGATTTTTCAAATTCACTGCTAAATCTGTTTTATAAGAATTCTGCTGCTAGATTT
* * * * * *
6911876 TTATGAGCTTTCAACATTCAAAAATTTATATCTTTTAAAATCAAAATCA-AAATCATTTTCTATT
129 TTATGACCTTTCAACATTCAAAAATTCATATCTTTTAAAATAAAAAT-AGAAATCAGTCTCCATT
6911940 TGTTC
193 TGTTC
* *
6911945 TAAACGAAACTAAACTTACGTACAATTATAGGGATATAAGGCTCATTTCCTATTATATCTTGTAC
1 TAAACGAAACTAGACTT-CGTACAATTATAGGGATATAAGGCTCATTTCCTATTTTATCTTGTAC
* * *
6912010 AAATTTTGGTGATTTTTCAAAGTCACTGCTAAATCTGTTTTATAAGCATTCTGCTGCTAGATTTT
65 AATTTTTGGTGATTTTTCAAATTCACTGCTAAATCTGTTTTATAAGAATTCTGCTGCTAGATTTT
* *
6912075 TATAATCTTTCAACATTCAAAAATTCATATCTTTTAAAATAAAAATAGAAATCAGTCTCCATTTG
130 TATGACCTTTCAACATTCAAAAATTCATATCTTTTAAAATAAAAATAGAAATCAGTCTCCATTTG
*
6912140 TTT
195 TTC
* * * *
6912143 TAAACGAAACTAGACTTCTGTACATTTATAGGAATATAAGGCTTATTTCCTATTTTATCTTGTGC
1 TAAACGAAACTAGACTTC-GTACAATTATAGGGATATAAGGCTCATTTCCTATTTTATCTTGTAC
* *
6912208 AATTTTTGGTGATTTTTCAAAGTT-ACTGCTAAATCTGTTTTATAAGAATTCTGCTGCCAAATTT
65 AATTTTTGGTGATTTTTCAAA-TTCACTGCTAAATCTGTTTTATAAGAATTCTGCTGCTAGATTT
* * * * * *
6912272 TTATGACCTTTGAACACTCAAAAATTCATATATTTTAAAATAAAAATGGAAATCAATCTCCGTTT
129 TTATGACCTTTCAACATTCAAAAATTCATATCTTTTAAAATAAAAATAGAAATCAGTCTCCATTT
*
6912337 ATTC
194 GTTC
**
6912341 TAAAATAAACTAGACT
1 TAAACGAAACTAGACT
6912357 AACTCACGGT
Statistics
Matches: 361, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
197 3 0.01
198 357 0.99
199 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (197 bp):
TAAACGAAACTAGACTTCGTACAATTATAGGGATATAAGGCTCATTTCCTATTTTATCTTGTACA
ATTTTTGGTGATTTTTCAAATTCACTGCTAAATCTGTTTTATAAGAATTCTGCTGCTAGATTTTT
ATGACCTTTCAACATTCAAAAATTCATATCTTTTAAAATAAAAATAGAAATCAGTCTCCATTTGT
TC
Found at i:6923131 original size:15 final size:15
Alignment explanation
Indices: 6923113--6923169 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
6923103 TTTACAAAGT
6923113 TTTTTTTTAAAAATA
1 TTTTTTTTAAAAATA
* **
6923128 TTTTATTTAGTAATA
1 TTTTTTTTAAAAATA
6923143 TTTTTATTTAAAAATA
1 TTTTT-TTTAAAAATA
6923159 TTTTTTTTAAA
1 TTTTTTTTAAA
6923170 TACTTTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 22 0.63
16 13 0.37
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TTTTTTTTAAAAATA
Found at i:6923178 original size:31 final size:31
Alignment explanation
Indices: 6923112--6923179 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
6923102 TTTTACAAAG
6923112 TTTTTT-TTTAAAAATATTTTATTTAGTAATA
1 TTTTTTATTTAAAAATATTTTATTTAG-AATA
*
6923143 -TTTTTATTTAAAAATATTTTTTTTA-AATA
1 TTTTTTATTTAAAAATATTTTATTTAGAATA
6923172 CTTTTTTA
1 -TTTTTTA
6923180 AAATCATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 4 0.12
30 5 0.15
31 24 0.73
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (31 bp):
TTTTTTATTTAAAAATATTTTATTTAGAATA
Found at i:6939502 original size:16 final size:16
Alignment explanation
Indices: 6939483--6939535 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
6939473 TATTATTCAT
6939483 AGAAATTAATATTTTC
1 AGAAATTAATATTTTC
*
6939499 AG-AATT-TTATTATTC
1 AGAAATTAATATT-TTC
6939514 ATAGAAATTAATATTTTC
1 --AGAAATTAATATTTTC
6939532 AGAA
1 AGAA
6939536 TTTGCAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 6 0.20
17 2 0.07
18 7 0.23
19 4 0.13
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (16 bp):
AGAAATTAATATTTTC
Found at i:6939508 original size:33 final size:33
Alignment explanation
Indices: 6939470--6939538 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
6939460 TTTTATATTT
6939470 TTTTATTATTCATAGAAATTAATATTTTCAGAA
1 TTTTATTATTCATAGAAATTAATATTTTCAGAA
6939503 TTTTATTATTCATAGAAATTAATATTTTCAGAA
1 TTTTATTATTCATAGAAATTAATATTTTCAGAA
6939536 TTT
1 TTT
6939539 GCAATTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (33 bp):
TTTTATTATTCATAGAAATTAATATTTTCAGAA
Found at i:6939519 original size:17 final size:17
Alignment explanation
Indices: 6939470--6939519 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 17
6939460 TTTTATATTT
6939470 TTTTATTATTCATAGAAA
1 TTTTATTATTCATAG-AA
*
6939488 TTAATATT-TTC--AGAA
1 TT-TTATTATTCATAGAA
6939503 TTTTATTATTCATAGAA
1 TTTTATTATTCATAGAA
6939520 ATTAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 9
0.70 0.05 0.24
Matches are distributed among these distances:
14 4 0.15
15 7 0.27
16 2 0.08
17 4 0.15
18 5 0.19
19 4 0.15
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTTATTATTCATAGAA
Found at i:6939669 original size:24 final size:24
Alignment explanation
Indices: 6939633--6939681 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
6939623 AATATGAGTG
*
6939633 AAAACATTAATATAATAAATTAAAT
1 AAAACATTAATATAA-AAATCAAAT
*
6939658 AAAA-ATTGATATAAAAATCAAAT
1 AAAACATTAATATAAAAATCAAAT
6939681 A
1 A
6939682 TGATTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 9 0.41
25 4 0.18
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (24 bp):
AAAACATTAATATAAAAATCAAAT
Found at i:6940214 original size:24 final size:23
Alignment explanation
Indices: 6940187--6940236 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
6940177 GAAATGCGTA
6940187 TAAAATTAAA-ATAAAAAATTATAT
1 TAAAATTAAACA-AAAAAA-TATAT
* *
6940211 TAAATTTAAACAAATAAATATAT
1 TAAAATTAAACAAAAAAATATAT
6940234 TAA
1 TAA
6940237 CTTAAGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 14 0.61
25 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATTAAACAAAAAAATATAT
Found at i:6940232 original size:23 final size:23
Alignment explanation
Indices: 6940189--6940241 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
6940179 AATGCGTATA
*
6940189 AAATTAAAATAAAAAATTATATT
1 AAATTAAAACAAAAAATTATATT
*
6940212 AAATTTAAACAAATAAA-TATATT
1 AAATTAAAACAAA-AAATTATATT
*
6940235 AACTTAA
1 AAATTAA
6940242 GAATATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATTAAAACAAAAAATTATATT
Found at i:6944108 original size:3 final size:3
Alignment explanation
Indices: 6944100--6944130 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
6944090 CTTATTGCAA
6944100 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6944131 TCTGAACACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6944183 original size:3 final size:3
Alignment explanation
Indices: 6944175--6944210 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6944165 ACTATAATCC
6944175 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6944211 TAACATGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6956572 original size:18 final size:17
Alignment explanation
Indices: 6956533--6956574 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6956523 TAGAGGAATC
*
6956533 TTTATATTTTTCAATAA
1 TTTATATTTTTAAATAA
6956550 TTTATATATTTTAAATTAA
1 TTTATAT-TTTTAAA-TAA
6956569 -TTATAT
1 TTTATAT
6956575 GAATCACAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 7 0.32
18 12 0.55
19 3 0.14
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATATTTTTAAATAA
Found at i:6956912 original size:22 final size:20
Alignment explanation
Indices: 6956877--6956922 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
6956867 AATTTAATTT
6956877 TTTATTTTTTATTTTTAAAA
1 TTTATTTTTTATTTTTAAAA
*
6956897 TTTAGTTTATTTATTTTTTAAA
1 TTTA-TTT-TTTATTTTTAAAA
6956919 TTTA
1 TTTA
6956923 AAAATTTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 3 0.13
22 16 0.70
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TTTATTTTTTATTTTTAAAA
Found at i:6957739 original size:10 final size:9
Alignment explanation
Indices: 6957690--6957771 Score: 60
Period size: 9 Copynumber: 8.7 Consensus size: 9
6957680 AAATTTCTAT
6957690 AAAATT-TA
1 AAAATTATA
6957698 ATAAA-TATA
1 A-AAATTATA
* *
6957707 AAACATTTTT
1 AAA-ATTATA
*
6957717 AAAATTTTA
1 AAAATTATA
*
6957726 AAAAATATA
1 AAAATTATA
6957735 TAAAATTATA
1 -AAAATTATA
6957745 AAAATTCATA
1 AAAATT-ATA
6957755 AAAACTTATA
1 AAAA-TTATA
6957765 TAAAATT
1 -AAAATT
6957772 CTTAAAAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
8 4 0.07
9 25 0.42
10 25 0.42
11 6 0.10
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (9 bp):
AAAATTATA
Found at i:6957748 original size:28 final size:28
Alignment explanation
Indices: 6957690--6957771 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
6957680 AAATTTCTAT
* * *
6957690 AAAA-TTTAATAAATATA-AAACATTTTT
1 AAAATTTTAAAAAATATATAAA-ATTATA
6957717 AAAATTTTAAAAAATATATAAAATTATA
1 AAAATTTTAAAAAATATATAAAATTATA
* *
6957745 AAAATTCATAAAAACTTATATAAAATT
1 AAAATT-TTAAAAA-ATATATAAAATT
6957772 CTTAAAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.09
28 22 0.48
29 9 0.20
30 11 0.24
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (28 bp):
AAAATTTTAAAAAATATATAAAATTATA
Found at i:6957757 original size:37 final size:36
Alignment explanation
Indices: 6957665--6957757 Score: 82
Period size: 38 Copynumber: 2.5 Consensus size: 36
6957655 TTGTAAGAGC
* *
6957665 TTATAAAAAATTCTTAAATTTCTATAAAATTTAATAA
1 TTAT-AAAAATTCTAAAATTTCTAAAAAATTTAATAA
* *
6957702 ATATAAAACATTTTTAAAATTT-TAAAAAATATATAA-AA
1 TTATAAAA-A-TTCTAAAATTTCTAAAAAAT-T-TAATAA
6957740 TTATAAAAATTCATAAAA
1 TTATAAAAATTC-TAAAA
6957758 ACTTATATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
36 6 0.13
37 17 0.38
38 19 0.42
39 3 0.07
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (36 bp):
TTATAAAAATTCTAAAATTTCTAAAAAATTTAATAA
Found at i:6957771 original size:21 final size:19
Alignment explanation
Indices: 6957717--6957779 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
6957707 AAACATTTTT
* *
6957717 AAAATTTTAAAAAAT-ATA
1 AAAATTATAAAAATTCATA
6957735 TAAAATTATAAAAATTCATA
1 -AAAATTATAAAAATTCATA
*
6957755 AAAACTTATATAAAATTCTTA
1 AAAA-TTATA-AAAATTCATA
6957776 AAAA
1 AAAA
6957780 ATATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.45
20 8 0.21
21 13 0.34
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAAATTCATA
Found at i:6962355 original size:81 final size:83
Alignment explanation
Indices: 6962261--6962440 Score: 203
Period size: 81 Copynumber: 2.2 Consensus size: 83
6962251 TCGGCCCCTT
* * * ** *
6962261 AAAATGAAAAAAATTTA-TTTAGATTTTTTATAAATTATAA-AAT-TTTA-AATTAATAATGATA
1 AAAATGATAAAAATTTATTTTA-ATCTTTTAAAAATTATAATAATATAAACAATTAA-AATAATA
* *
6962322 AAATTATATTTTGAC-TCCTA
64 AAATTACATTTT-ACATCATA
6962342 AAAATGATAAAAATTTATTTTAATCTTTTAAAAATTATAATAATATAAACAATTAAAATAATAAA
1 AAAATGATAAAAATTTATTTTAATCTTTTAAAAATTATAATAATATAAACAATTAAAATAATAAA
6962407 ATTACATTTTACTATCATA
66 ATTACATTTTAC-ATCATA
6962426 AAAAT-AT-AAAATTTA
1 AAAATGATAAAAATTTA
6962441 ATTCCGTCCC
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
81 32 0.38
82 17 0.20
83 21 0.25
84 15 0.18
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (83 bp):
AAAATGATAAAAATTTATTTTAATCTTTTAAAAATTATAATAATATAAACAATTAAAATAATAAA
ATTACATTTTACATCATA
Found at i:6962374 original size:30 final size:30
Alignment explanation
Indices: 6962310--6962381 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
6962300 AAATTTTAAA
* *
6962310 TTAATAATGAT-AAAATTATATTTTGACTC
1 TTAAAAATGATAAAAATTATATTTTAACTC
* *
6962339 CTAAAAATGATAAAAATT-TATTTTAATCTT
1 TTAAAAATGATAAAAATTATATTTTAA-CTC
*
6962369 TTAAAAATTATAA
1 TTAAAAATGATAA
6962382 TAATATAAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
29 16 0.46
30 19 0.54
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (30 bp):
TTAAAAATGATAAAAATTATATTTTAACTC
Found at i:6962401 original size:18 final size:17
Alignment explanation
Indices: 6962370--6962404 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6962360 TTTAATCTTT
*
6962370 TAAAAATTATAATAATA
1 TAAAAATTAAAATAATA
6962387 TAAACAATTAAAATAATA
1 TAAA-AATTAAAATAATA
6962405 AAATTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAATTAAAATAATA
Found at i:6962512 original size:4 final size:4
Alignment explanation
Indices: 6962503--6962527 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6962493 GAACAATTAA
6962503 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
6962528 TTATAGATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Done.