Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 196 of 318
Found at i:61506609 original size:19 final size:19
Alignment explanation
Indices: 61506571--61506615 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
61506561 AATTTCTCTA
* *
61506571 TTAAATTTAAATTAATTTT
1 TTAAATTTAAATCAACTTT
*
61506590 TTAAATTTACATCAACTTT
1 TTAAATTTAAATCAACTTT
61506609 TTCAAAT
1 TT-AAAT
61506616 ATTTTTATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTTAAATCAACTTT
Found at i:61506638 original size:14 final size:14
Alignment explanation
Indices: 61506627--61506658 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
61506617 TTTTTATAGG
61506627 TTAATTTATATAAA
1 TTAATTTATATAAA
*
61506641 TTAATTTATTTAAA
1 TTAATTTATATAAA
61506655 TTAA
1 TTAA
61506659 AATTTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTAATTTATATAAA
Found at i:61511840 original size:42 final size:42
Alignment explanation
Indices: 61511776--61511891 Score: 126
Period size: 42 Copynumber: 2.8 Consensus size: 42
61511766 TTGGTATGCA
* * * * * *
61511776 ATTTCATGTAAGACCATATCTGGGATATGGCGTTGATATGAG
1 ATTTCGTGTAAGACCATGTCTGGCACATGGCATTGATATAAG
61511818 ATTTCGTGTAAGACCATGTCTGGCACATGGCATTGATATAAG
1 ATTTCGTGTAAGACCATGTCTGGCACATGGCATTGATATAAG
* ** *
61511860 GTCCCGTGTAAGACCATGTATAGG-ACATGGCA
1 ATTTCGTGTAAGACCATGTCT-GGCACATGGCA
61511892 ACGGCATCGA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 61 0.97
43 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATGTCTGGCACATGGCATTGATATAAG
Found at i:61513630 original size:55 final size:53
Alignment explanation
Indices: 61513542--61513780 Score: 256
Period size: 55 Copynumber: 4.5 Consensus size: 53
61513532 ATTAGGGTTT
* **
61513542 AAGGATACCATGTAAGACCATGACAAGGGATGGCAATTGGTAAAGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGT-AAGTTTCTAAGGC
* * * *
61513597 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
61513652 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGC
*
61513705 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
* *
61513754 AAGGATACCACGTAAGACCATGACAAG
1 AAGGATACCATGTAAGACCATGTCAAG
61513781 TAATGGAAAT
Statistics
Matches: 156, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 25 0.16
52 7 0.04
53 44 0.28
54 9 0.06
55 67 0.43
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:61513748 original size:108 final size:110
Alignment explanation
Indices: 61513549--61513749 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
61513539 TTTAAGGATA
* *
61513549 CCATGTAAGACCATGACAAGGGATGGCAATTGGTAAAGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAAGTTTCTAAGGCAAGGAAACCATGTAAGA
*
61513614 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
61513659 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGT-GAG-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAAGTTTC-TAAGGCAAGGAAACCATGTAAG
*
61513721 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
61513750 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 49 0.59
109 6 0.07
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGACAAGGCATGGCAATTGGTAAAGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:61514009 original size:16 final size:16
Alignment explanation
Indices: 61513988--61514018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61513978 AAAAATTTGA
61513988 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
61514004 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
61514019 GGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:61518347 original size:93 final size:93
Alignment explanation
Indices: 61518235--61518406 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61518225 GCCCATAAGT
* *
61518235 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61518300 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61518328 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61518393 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
61518407 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61518402 original size:46 final size:46
Alignment explanation
Indices: 61518227--61518402 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61518217 TGTAACCCGC
* * *
61518227 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61518273 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61518323 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61518366 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61518403 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61520830 original size:30 final size:30
Alignment explanation
Indices: 61520786--61520874 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
61520776 CAAAGATAAC
61520786 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
61520815 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
61520845 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
61520875 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:61520834 original size:15 final size:15
Alignment explanation
Indices: 61520786--61520865 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
61520776 CAAAGATAAC
*
61520786 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61520800 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
61520815 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
61520830 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
61520845 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
61520860 AAGAAA
1 AAGAAA
61520866 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61520874 original size:15 final size:15
Alignment explanation
Indices: 61520797--61520874 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
61520787 AGAAAACCGA
61520797 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
61520812 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
61520826 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
61520841 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61520857 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61520872 ATA
1 ATA
61520875 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61526370 original size:30 final size:30
Alignment explanation
Indices: 61526326--61526414 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
61526316 CAAAGATAAC
61526326 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
61526355 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
61526385 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
61526415 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:61526374 original size:15 final size:15
Alignment explanation
Indices: 61526326--61526405 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
61526316 CAAAGATAAC
*
61526326 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61526340 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
61526355 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
61526370 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
61526385 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
61526400 AAGAAA
1 AAGAAA
61526406 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61526414 original size:15 final size:15
Alignment explanation
Indices: 61526337--61526414 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
61526327 AGAAAACCGA
61526337 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
61526352 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
61526366 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
61526381 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61526397 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61526412 ATA
1 ATA
61526415 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61529472 original size:93 final size:93
Alignment explanation
Indices: 61529360--61529531 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61529350 GCCCATAAGT
* *
61529360 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61529425 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61529453 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61529518 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
61529532 CAAATCCTAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61529527 original size:46 final size:46
Alignment explanation
Indices: 61529352--61529527 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61529342 TGTAACCCGC
* * *
61529352 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61529398 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61529448 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61529491 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61529528 TGCCCAAATC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61531603 original size:80 final size:79
Alignment explanation
Indices: 61531495--61531642 Score: 181
Period size: 80 Copynumber: 1.9 Consensus size: 79
61531485 TATGGTAACC
* * * *
61531495 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCAC-AATGCCTTCGGGTCTTAA
61531559 CCCGGATAGAATGACT
64 CCCGGATAGAATGACT
* * * * * *
61531575 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATGCCTTCGGGTCTTAACC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAATGCCTTCGGGTCTTAACC
61531640 CGG
66 CGG
61531643 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
79 23 0.40
80 34 0.60
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (79 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAATGCCTTCGGGTCTTAACC
CGGATAGAATGACT
Found at i:61531635 original size:39 final size:40
Alignment explanation
Indices: 61531536--61531685 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 40
61531526 ATCACGATTT
*
61531536 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
61531576 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * * ** *
61531616 GCAC-AATGCCTTCGGGTCTTAACCCGGTTATAATTTCCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* * * *
61531655 GCATAATTGTCTTCGGGGCTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
61531686 TCAATCAATT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
39 30 0.34
40 58 0.65
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:61535226 original size:30 final size:30
Alignment explanation
Indices: 61535182--61535270 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
61535172 CAAAGATAAC
61535182 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
61535211 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
61535241 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
61535271 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:61535230 original size:15 final size:15
Alignment explanation
Indices: 61535182--61535261 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
61535172 CAAAGATAAC
*
61535182 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61535196 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
61535211 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
61535226 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
61535241 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
61535256 AAGAAA
1 AAGAAA
61535262 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61535270 original size:15 final size:15
Alignment explanation
Indices: 61535193--61535270 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
61535183 AGAAAACCGA
61535193 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
61535208 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
61535222 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
61535237 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61535253 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61535268 ATA
1 ATA
61535271 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61538319 original size:93 final size:93
Alignment explanation
Indices: 61538207--61538378 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61538197 GCCCATAAGT
* *
61538207 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61538272 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61538300 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61538365 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
61538379 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61538374 original size:46 final size:46
Alignment explanation
Indices: 61538199--61538374 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61538189 TGTAACCCGC
* * *
61538199 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61538245 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61538295 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61538338 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61538375 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61540791 original size:29 final size:29
Alignment explanation
Indices: 61540752--61540839 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
61540742 CAAAGATAAC
*
61540752 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
61540781 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
61540810 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
61540840 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:61540810 original size:15 final size:15
Alignment explanation
Indices: 61540752--61540830 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
61540742 CAAAGATAAC
*
61540752 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61540766 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
61540781 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
61540795 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
61540810 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
61540825 AAGAAA
1 AAGAAA
61540831 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:61540839 original size:15 final size:15
Alignment explanation
Indices: 61540763--61540839 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
61540753 AGAAAACCGA
61540763 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
61540778 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
61540792 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
61540806 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61540822 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61540837 ATA
1 ATA
61540840 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:61546337 original size:30 final size:30
Alignment explanation
Indices: 61546293--61546381 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
61546283 CAAAGATAAC
61546293 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
61546322 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
61546352 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
61546382 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:61546341 original size:15 final size:15
Alignment explanation
Indices: 61546293--61546372 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
61546283 CAAAGATAAC
*
61546293 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61546307 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
61546322 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
61546337 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
61546352 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
61546367 AAGAAA
1 AAGAAA
61546373 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61546381 original size:15 final size:15
Alignment explanation
Indices: 61546304--61546381 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
61546294 AGAAAACCGA
61546304 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
61546319 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
61546333 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
61546348 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61546364 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61546379 ATA
1 ATA
61546382 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61549444 original size:93 final size:93
Alignment explanation
Indices: 61549332--61549503 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61549322 GCCCATAAGT
* *
61549332 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61549397 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61549425 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61549490 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
61549504 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61549499 original size:46 final size:46
Alignment explanation
Indices: 61549324--61549499 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
61549314 TGTAACCCGC
* * *
61549324 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61549370 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61549420 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
61549463 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61549500 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61555077 original size:55 final size:53
Alignment explanation
Indices: 61554989--61555235 Score: 254
Period size: 55 Copynumber: 4.7 Consensus size: 53
61554979 ATTAGGGTTT
**
61554989 AAGGATACCATGTAAGACCATGCCAAGGGATGGCGATTGATAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGATAA-GTTTCTAAGGC
* * * *
61555044 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT--TCTAAGGC
* * * *
61555099 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTC-TAAGGC
* * *
61555152 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCTAAGGC
* * *
61555201 AAGGATACCACGTAAGACCATGACAAGTCATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
61555236 ATGGTAAGGT
Statistics
Matches: 164, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 32 0.20
52 7 0.04
53 42 0.26
54 12 0.07
55 67 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTTCTAAGGC
Found at i:61555195 original size:108 final size:110
Alignment explanation
Indices: 61554996--61555196 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
61554986 TTTAAGGATA
* *
61554996 CCATGTAAGACCATGCCAAGGGATGGCGATTGATAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCGATTGATAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
61555061 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
61555106 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCGATTGATAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
61555168 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
61555197 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.58
109 6 0.07
110 26 0.31
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCGATTGATAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:61555456 original size:16 final size:16
Alignment explanation
Indices: 61555435--61555465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61555425 ATAAATTTGA
61555435 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
61555451 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
61555466 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:61558828 original size:38 final size:37
Alignment explanation
Indices: 61558771--61558885 Score: 185
Period size: 38 Copynumber: 3.0 Consensus size: 37
61558761 TTGATGTATC
61558771 TCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTATTATA
1 TCCGGGTTAAATCC-GCAGGCTTCGTGCTGGTATTATA
61558809 TCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATTATA
1 TCCGGGTTAAATC-CGCAGGCTTCGTGCTGGTATTATA
* *
61558847 TCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATA
1 TCCGGGTTAAAT-CCGCAGGCTTCGTGCTGGTATTATA
61558885 T
1 T
61558886 TCAGGCCTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
38 71 0.97
39 2 0.03
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (37 bp):
TCCGGGTTAAATCCGCAGGCTTCGTGCTGGTATTATA
Found at i:61558947 original size:45 final size:45
Alignment explanation
Indices: 61558883--61559147 Score: 397
Period size: 45 Copynumber: 5.9 Consensus size: 45
61558873 GCTGGTATTA
* *
61558883 TATTCAGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* *
61558928 TATTCGGGGCTTTGAGCCTAGCAGGCTATTATACCGGTGAGACAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* *
61558973 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACAT
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* * *
61559018 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* *
61559063 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
* *
61559108 TATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGTCGGTGA
1 TATTCGGGCCTTT-GAGCCTAGCAGGCTATTATGCCGGTGA
61559148 AATGATAATC
Statistics
Matches: 203, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 4 0.02
45 199 0.98
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATTATGCCGGTGAGACAC
Found at i:61559125 original size:135 final size:135
Alignment explanation
Indices: 61558883--61559190 Score: 410
Period size: 135 Copynumber: 2.3 Consensus size: 135
61558873 GCTGGTATTA
* * * *
61558883 TATTCAGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACACTATTCGGGGCTTTGAGCCTA
1 TATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAACACTATTCGGGCCTTTGAGCCTA
* * *
61558948 GCAGGCTATTATACCGGTGAGACACTATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGA
66 GCAGGCTATAATACCGGTGAGACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
61559013 GACAT
131 GACAT
* *
61559018 TATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGAGCCTA
1 TATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAACACTATTCGGGCCTTTGAGCCTA
* * *
61559083 GCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGTCGGTG
66 GCAGGCTATAATACCGGTGAGACACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTG
61559147 A-A-AT
130 AGACAT
* * **
61559151 GATAATCAGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 --TATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGA
61559191 TTTGAGAAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
133 13 0.08
134 19 0.12
135 121 0.79
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (135 bp):
TATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAACACTATTCGGGCCTTTGAGCCTA
GCAGGCTATAATACCGGTGAGACACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
GACAT
Found at i:61559146 original size:90 final size:89
Alignment explanation
Indices: 61558883--61559190 Score: 406
Period size: 90 Copynumber: 3.4 Consensus size: 89
61558873 GCTGGTATTA
* *
61558883 TATTCAGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACACTATTCGGGGCTTTGAGCCTA
1 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTC-GGGCTTTGAGCCTA
* * * *
61558948 GCAGGCTATTATACCGGTGAGACAC
65 GCAGGCTATAATGCCGGTGAAATAC
* * * *
61558973 TATTCGGGCCTTTGAGCCTAGTAGGCTATTATGCCGGTGAGACATTATTCGGGCCTTTGAGCCTA
1 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGG-CTTTGAGCCTA
*
61559038 GCAGGCTATGATGCCGGTGAAATAC
65 GCAGGCTATAATGCCGGTGAAATAC
* *
61559063 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCTTTCGAGCCTA
1 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCTTT-GAGCCTA
*
61559128 GCAGGCTATAATGTCGGTGAAATGA-
65 GCAGGCTATAATGCCGGTGAAAT-AC
* * *
61559153 TAATCAGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
61559191 TTTGAGAAAA
Statistics
Matches: 199, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
88 12 0.06
89 21 0.11
90 165 0.83
91 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (89 bp):
TATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGACACTATTCGGGCTTTGAGCCTAG
CAGGCTATAATGCCGGTGAAATAC
Found at i:61569142 original size:48 final size:48
Alignment explanation
Indices: 61569043--61569258 Score: 176
Period size: 48 Copynumber: 4.6 Consensus size: 48
61569033 TGAGATCCCG
* * * * **
61569043 TGTAAAACCATTTCTGGGATATGGCATCGGCATTGATATGTG-GGCCAA
1 TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGAGTTC-A
* *
61569091 TGTAAGACCATATCTGGGATATGGCATCGGCATCGGTATGTGAGTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGAGTTCA
* * * * * **
61569139 TGTAAGGCCATATTTAGGATATGG--T--G--TTGATATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGAGTTCA
* * * * * *
61569181 TGTAAGACCATGTCTGGGACATGGCATCGGCACCGACATGAGACTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGAGTTCA
*
61569229 TATAAGACCATATCTGGGATATGGCATCGG
1 TGTAAGACCATATCTGGGATATGGCATCGG
61569259 TATGTAGACC
Statistics
Matches: 133, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
42 29 0.22
44 2 0.02
46 2 0.02
48 98 0.74
49 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGAGTTCA
Found at i:61577380 original size:32 final size:32
Alignment explanation
Indices: 61577344--61577405 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
61577334 CATTGTTTGG
*
61577344 TAGGAGAAGTATAATTTTAATATACCTCTTGA
1 TAGGAGAAGTATAATTTTAACATACCTCTTGA
* * * *
61577376 TAGGAGTATTATAGTTTTAACATACTTCTT
1 TAGGAGAAGTATAATTTTAACATACCTCTT
61577406 AATGCATCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (32 bp):
TAGGAGAAGTATAATTTTAACATACCTCTTGA
Found at i:61580535 original size:26 final size:26
Alignment explanation
Indices: 61580507--61580634 Score: 220
Period size: 26 Copynumber: 4.9 Consensus size: 26
61580497 ATTGATAAAA
* *
61580507 GGTTAGGTAAATGTTCCATGATAATA
1 GGTTAGGTAAATGTTTCATGATAATG
*
61580533 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
*
61580559 GGTTAGGTAAGTGTTTCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
61580585 GGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
61580611 GGTTAGGTAAATGTTTCATGATAA
1 GGTTAGGTAAATGTTTCATGATAA
61580635 GAATTTCATG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 98 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.37
Consensus pattern (26 bp):
GGTTAGGTAAATGTTTCATGATAATG
Found at i:61582116 original size:28 final size:26
Alignment explanation
Indices: 61582074--61582148 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
61582064 AAAAGTAGCT
* *
61582074 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGGA
* *
61582102 AAATTACTGTTATACCCCTAGGTGTA
1 AAATTACTGTTATACCCCTAGATGGA
*
61582128 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
61582149 GGTTAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGGA
Found at i:61582290 original size:27 final size:27
Alignment explanation
Indices: 61582252--61582363 Score: 161
Period size: 27 Copynumber: 4.1 Consensus size: 27
61582242 GAGGAAGCGT
61582252 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTATGCCACAAATATCTGA
61582279 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTATGCCACAAATATCTGA
* * *
61582306 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTATGCCACAAATATCTGA
* * *
61582333 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTATGCCACAAATATCTG-A
61582361 TCT
1 TCT
61582364 AGTGAGTCTG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 74 0.96
28 3 0.04
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTATGCCACAAATATCTGA
Found at i:61582337 original size:54 final size:55
Alignment explanation
Indices: 61582252--61582391 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 55
61582242 GAGGAAGCGT
* * *
61582252 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACAAATATCTGTA
* * *
61582306 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACAAATATCTGTA
* * *
61582361 TCTAGTGAG-TCTGTCACAT-TATCTATTCTGG
1 TCTGGTG-GCTCTGCCACATATATCTGTTCTGG
61582392 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
54 58 0.77
55 16 0.21
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTATGCCACAAATATCTGTA
Found at i:61582381 original size:27 final size:27
Alignment explanation
Indices: 61582252--61582384 Score: 139
Period size: 27 Copynumber: 4.9 Consensus size: 27
61582242 GAGGAAGCGT
* *
61582252 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
61582279 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
61582306 TCTGGTGGCTCTGCCACATATATCTGT-
1 TCTGGTGGCTCTGCCACAT-TATCTGTA
61582333 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-ATTATCTGTA
* *
61582361 TCTAGTGAG-TCTGTCACATTATCT
1 TCTGGTG-GCTCTGCCACATTATCT
61582385 ATTCTGGCAG
Statistics
Matches: 97, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.01
27 80 0.82
28 15 0.15
29 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACATTATCTGTA
Found at i:61584793 original size:16 final size:16
Alignment explanation
Indices: 61584772--61584826 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
61584762 GTTTGGTTCA
61584772 CTGTAATGGAATACG-G
1 CTGTAATGGAATA-GAG
* *
61584788 CTGTAATTGAATAGAA
1 CTGTAATGGAATAGAG
*
61584804 CTATAATGGAATAGAG
1 CTGTAATGGAATAGAG
61584820 CTGTAAT
1 CTGTAAT
61584827 CAGTAATCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 1 0.03
16 31 0.97
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:61585167 original size:23 final size:22
Alignment explanation
Indices: 61585128--61585179 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
61585118 ATATAATTAT
61585128 TATATAA-ATTAAAAAAATCATAA
1 TATATAATATTAAAAAAA--ATAA
*
61585151 TATATAATATT-ATAAAAATAA
1 TATATAATATTAAAAAAAATAA
61585172 TATATAAT
1 TATATAAT
61585180 CTACTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 12 0.44
23 12 0.44
24 3 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATAATATTAAAAAAAATAA
Found at i:61596441 original size:6 final size:6
Alignment explanation
Indices: 61596430--61596456 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
61596420 TTTAATTAAA
61596430 ATGAAG ATGAAG ATGAAG ATGAAG ATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATG
61596457 GCGAATAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:61597053 original size:21 final size:22
Alignment explanation
Indices: 61597008--61597058 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
61596998 TGCAGGGCTC
*
61597008 ACACGCCCGTGTGGCCCAAGGG
1 ACACGCCCGTGTGACCCAAGGG
* *
61597030 ACACTCCCGTGTGACCC-TGGG
1 ACACGCCCGTGTGACCCAAGGG
61597051 ACACGCCC
1 ACACGCCC
61597059 ATGTTAGAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGACCCAAGGG
Found at i:61599076 original size:46 final size:46
Alignment explanation
Indices: 61598932--61599103 Score: 211
Period size: 46 Copynumber: 3.7 Consensus size: 46
61598922 TTATTTGTGT
* **
61598932 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
* * * *
61598978 GCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATTAAGGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCAAGATGAGA
* **
61599026 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGCGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
*
61599072 GCTAGTGTAAGACATGTCTGGGACATCCATCG
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG
61599104 ACTACGAGAT
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
46 53 0.50
47 30 0.28
48 24 0.22
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
Found at i:61599115 original size:46 final size:46
Alignment explanation
Indices: 61598932--61599143 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 46
61598922 TTATTTGTGT
* *
61598932 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-CCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTACA-GATGAGA
* * *
61598978 GCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATTA-AGGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATCGG-ACTACAGATGAGA
* * *
61599026 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCT-CGCGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTAC-AGATG-AGA
* *
61599072 GCTAGTGTAAGACATGTCTGGGACATCCATC-GACTACGAGATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTAC-AGATGAGA
* *
61599117 TC-AATGTAAGACCATGTCTGGGACATG
1 GCTAGTGTAAGA-CATGTCTGGGACATG
61599144 GCAATGGCAT
Statistics
Matches: 137, Mismatches: 19, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
44 8 0.06
45 19 0.14
46 56 0.41
47 30 0.22
48 22 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGACTACAGATGAGA
Found at i:61600332 original size:20 final size:21
Alignment explanation
Indices: 61600294--61600332 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61600284 GTCAAAGGGC
*
61600294 CACACGGGGGTGTTGCCCTTT
1 CACACGGGCGTGTTGCCCTTT
61600315 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
61600333 GTTTCAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.33, G:0.33, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTT
Found at i:61604649 original size:18 final size:20
Alignment explanation
Indices: 61604628--61604671 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
61604618 AAAATATTTA
*
61604628 TTTTAATGT-TTTTATA-AT
1 TTTTAATGTATTATATATAT
61604646 TTTTAATGTATTATATATAT
1 TTTTAATGTATTATATATAT
61604666 TTTTAA
1 TTTTAA
61604672 AAAATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
19 6 0.26
20 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTTAATGTATTATATATAT
Found at i:61610950 original size:25 final size:25
Alignment explanation
Indices: 61610916--61610963 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
61610906 GCAAATCAAA
61610916 ATACCTCGCGGAGCATAATAGTTAT
1 ATACCTCGCGGAGCATAATAGTTAT
61610941 ATACCTCGCGGAGCATAATAGTT
1 ATACCTCGCGGAGCATAATAGTT
61610964 CTAACATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
ATACCTCGCGGAGCATAATAGTTAT
Found at i:61612993 original size:28 final size:27
Alignment explanation
Indices: 61612951--61613048 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
61612941 AGACTTCCTG
*
61612951 GCCAGACCTACTGGCGTATACCATCTT
1 GCCAGACCTACTGGCGTATACCAGCTT
* *
61612978 GCCAGAACCTATTGGCGTATACTAGCTT
1 GCCAG-ACCTACTGGCGTATACCAGCTT
* * * *
61613006 GCCA-AGCTTTCTGGCGAACT-CCAGCTC
1 GCCAGA-CCTACTGGCGTA-TACCAGCTT
*
61613033 GCCAAACCTACTGGCG
1 GCCAGACCTACTGGCG
61613049 ATCACAATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
26 1 0.02
27 30 0.54
28 25 0.45
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.23
Consensus pattern (27 bp):
GCCAGACCTACTGGCGTATACCAGCTT
Found at i:61614907 original size:46 final size:48
Alignment explanation
Indices: 61614681--61614992 Score: 229
Period size: 46 Copynumber: 6.6 Consensus size: 48
61614671 TAAAGTGCCA
* * *
61614681 CCATGTCCCAGACATGGTCTTACACTGGCTA-TCATCTTCGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGC-ACTTATC-TCTAGGCCGATG
* ** *
61614730 CCATGTCCCAGACATGGTCTTACACTAGCTCTGATATAAC-CGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACT--TATCTCTAG-GCCGATG
* *
61614780 CCATGTCCCAAACATGGTCTTACACTAACAC--ATCTCGTA-GCCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACTTATCTC-TAGGCCGATG
* * * * *
61614826 -CATGTGCTAGACAT-GTCTTATACT-G-GCTTACGTCTCTAGGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACTTA--TCTCTAGGCCGATG
* * * *
61614872 -CATGTCCCAGACAT-GTCTTACACTAGCACTTGTCTCAATGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACTTATCTCTAGGCCGATG
* * * * * *
61614918 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGCTGATG
1 CCATGTCCCAGACATGGTCTTACACTAGCACTTAT-CTCTAGGCCGATG
61614966 -CATGTCCCAGACAT-GTCTTACACTAGC
1 CCATGTCCCAGACATGGTCTTACACTAGC
61614993 TTACACAAAT
Statistics
Matches: 208, Mismatches: 39, Indels: 35
0.74 0.14 0.12
Matches are distributed among these distances:
42 1 0.00
44 10 0.05
45 13 0.06
46 63 0.30
47 29 0.14
48 23 0.11
49 31 0.15
50 36 0.17
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTAGCACTTATCTCTAGGCCGATG
Found at i:61614962 original size:94 final size:93
Alignment explanation
Indices: 61614682--61614992 Score: 296
Period size: 94 Copynumber: 3.3 Consensus size: 93
61614672 AAAGTGCCAC
* *
61614682 CATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGA-GGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-A-CATC-TC-ATAGCCGATGCCATGTCCCAGACATG
* * * *
61614746 GTCTTACACTAGCTCTGATATAACCGT-GCCGATG
61 GTCTTACACTGGCTCT-ACATAA-TGTGGCTGATG
* * * * *
61614780 CCATGTCCCAAACATGGTCTTACACTAACACATCTCGTAGCCGATG-CATGTGCTAGACAT-GTC
1 -CATGTCCCAGACAT-GTCTTACACTAGCACATCTCATAGCCGATGCCATGTCCCAGACATGGTC
* * * *
61614843 TTATACTGGCT-TACGT-CTCTAGGCTGATG
64 TTACACTGGCTCTACATAATGT-GGCTGATG
* *
61614872 CATGTCCCAGACATGTCTTACACTAGCACTTGTCTCA-ATGTCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCAC--ATCTCATA-GCCGATGCCATGTCCCAGACATGGT
61614936 CTTACACTGGCTCT-CATAATGTGGCTGATG
63 CTTACACTGGCTCTACATAATGTGGCTGATG
61614966 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
61614993 TTACACAAAT
Statistics
Matches: 176, Mismatches: 26, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
90 15 0.09
91 14 0.08
92 18 0.10
93 13 0.07
94 62 0.35
95 15 0.09
96 9 0.05
97 4 0.02
98 1 0.01
99 25 0.14
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACATCTCATAGCCGATGCCATGTCCCAGACATGGTCTT
ACACTGGCTCTACATAATGTGGCTGATG
Found at i:61614981 original size:140 final size:141
Alignment explanation
Indices: 61614682--61614997 Score: 349
Period size: 140 Copynumber: 2.2 Consensus size: 141
61614672 AAAGTGCCAC
61614682 CATGTCCCAGACATGGTCTTACACTGGC-TATCATCTTCGAGGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTTCGAGGCCGATGCCATGTCCCAGACATG
*
61614746 GTCTTACACTAGCTCTGATATAACCGTGCCGATGCCATGTCCCAAACATGGTCTTACACTAACAC
64 GTCTTACACTAGCACTGATATAA-C-TGCCGATGCCATGTCCCAAACATGGTCTTACACTAACAC
61614811 ATCTCGTAGCCGATG
127 ATCTCGTAGCCGATG
* * * * * *
61614826 CATGTGCTAGACATGTCTTATACTGGCTTACGTC-TCTAGGCTGATG-CATGTCCCAGACAT-GT
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTTCGAGGCCGATGCCATGTCCCAGACATGGT
* * * ** *
61614888 CTTACACTAGCACTTG-TCTCAA-TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T
66 CTTACACTAGCAC-TGATAT-AACTGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACAT
* * *
61614950 CATAATGTGGCTGATG
129 C-T--CGTAGCCGATG
*
61614966 CATGTCCCAGACATGTCTTACACTAGCTTACA
1 CATGTCCCAGACATGTCTTACACTGGCTTACA
61614998 CAAATGACCC
Statistics
Matches: 145, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
137 2 0.01
138 35 0.24
140 51 0.35
141 18 0.12
142 10 0.07
143 15 0.10
144 14 0.10
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (141 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTTCGAGGCCGATGCCATGTCCCAGACATGGT
CTTACACTAGCACTGATATAACTGCCGATGCCATGTCCCAAACATGGTCTTACACTAACACATCT
CGTAGCCGATG
Found at i:61626701 original size:27 final size:29
Alignment explanation
Indices: 61626640--61626701 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
61626630 AAAATAATAA
*
61626640 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
61626669 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
61626696 AAATAT
1 AAATAT
61626702 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:61626863 original size:33 final size:35
Alignment explanation
Indices: 61626796--61626865 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 35
61626786 TGCAAATTTT
* *
61626796 TAAAATTATACATAATAATAAATATTGAAGTAATA
1 TAAAATTATACATAAAAATAAATAATGAAGTAATA
61626831 TAAAA-TATA-ATAAAAATAATATAATGAA-TAATA
1 TAAAATTATACATAAAAATAA-ATAATGAAGTAATA
61626864 TA
1 TA
61626866 TATATAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 16 0.50
34 11 0.34
35 5 0.16
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (35 bp):
TAAAATTATACATAAAAATAAATAATGAAGTAATA
Found at i:61628495 original size:44 final size:44
Alignment explanation
Indices: 61628431--61628952 Score: 767
Period size: 44 Copynumber: 11.9 Consensus size: 44
61628421 TCCATTATCC
*
61628431 TCGATCTGCTCTTTGTCAATACAGAGACGCCAAATCTG-CTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC-ATCT
* * * * * * *
61628475 CCGATCTGCTCTCTGACAATATAGAGATGCCAAACCTATTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
61628519 TCGATCTGCTCTCTGTCAATACAGAAACGCCAAATCTGTCCTCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
61628563 TCGATCTGTTCTCTGTCAATACAGAGACGCCAAATCTGTCATCC
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* ** * *
61628607 TCGATCTACTCTCTAACAATACAGAGACGCCAAACCTGTTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
61628651 TTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
61628695 TCGATCTGCTCTCTGTCAATACAGAGACACCAAATCTGTCGTCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
61628739 TCGATCTGCTCTCTGTCAATACAGAGACTCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
61628783 TTGATCTGCTCTCTGTCATTACAGAGACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
61628827 TCGATCTGCTCTCTGTCAATACAGAGATGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* * *
61628871 TCGATCTGTTCTCTATCAATACAGAGACGCCAAATCTGTTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
61628915 TCGATCTGCTCTTTGACAATACAGAGACGCCAAATCTG
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
61628953 CTATTGGTGA
Statistics
Matches: 424, Mismatches: 53, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
44 424 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (44 bp):
TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
Found at i:61640910 original size:27 final size:29
Alignment explanation
Indices: 61640849--61640910 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
61640839 AAAATAATAA
*
61640849 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
61640878 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
61640905 AAATAT
1 AAATAT
61640911 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:61641060 original size:9 final size:10
Alignment explanation
Indices: 61641039--61641114 Score: 50
Period size: 10 Copynumber: 7.5 Consensus size: 10
61641029 TTGAAGTAAT
61641039 ATAAAATATA
1 ATAAAATATA
61641049 ATAAAA-ATA
1 ATAAAATATA
*
61641058 ATATAATGAATA
1 ATAAAAT--ATA
*
61641070 ATATATATATA
1 ATA-AAATATA
*
61641081 GTAAAATGAT-
1 ATAAAAT-ATA
* *
61641091 ATAATATATT
1 ATAAAATATA
61641101 ATAAAATAT-
1 ATAAAATATA
61641110 ATAAA
1 ATAAA
61641115 TAAAATGTAT
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
9 15 0.29
10 22 0.42
11 7 0.13
12 6 0.12
13 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (10 bp):
ATAAAATATA
Found at i:61641079 original size:18 final size:18
Alignment explanation
Indices: 61641016--61641080 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
61641006 AAAATTATAC
* *
61641016 ATAATA-ATAAATATTGA
1 ATAATATATATATAATGA
*
61641033 AGTAATATAAAATATAAT-A
1 A-TAATAT-ATATATAATGA
61641052 A-AA-ATA-ATATAATGA
1 ATAATATATATATAATGA
61641067 ATAATATATATATA
1 ATAATATATATATA
61641081 GTAAAATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
14 7 0.18
15 3 0.08
16 4 0.11
17 6 0.16
18 10 0.26
19 2 0.05
20 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATAATATATATATAATGA
Found at i:61641095 original size:36 final size:32
Alignment explanation
Indices: 61641055--61641128 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
61641045 TATAATAAAA
* *
61641055 ATAATATAATGAATAATATATATATAGTAAAATGAT
1 ATAATAT-AT-AATAAAATATATA-AATAAAATG-T
*
61641091 ATAATATATTATAAAATATATAAATAAAATGT
1 ATAATATATAATAAAATATATAAATAAAATGT
61641123 ATAATA
1 ATAATA
61641129 ATGTAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 7 0.20
33 8 0.23
34 11 0.31
35 2 0.06
36 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (32 bp):
ATAATATATAATAAAATATATAAATAAAATGT
Found at i:61641099 original size:20 final size:19
Alignment explanation
Indices: 61641072--61641113 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
61641062 AATGAATAAT
61641072 ATATATATAGTAAAATGATATA
1 ATATAT-TA-TAAAAT-ATATA
61641094 ATATATTATAAAATATATA
1 ATATATTATAAAATATATA
61641113 A
1 A
61641114 ATAAAATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 2 0.10
22 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATATTATAAAATATATA
Found at i:61655070 original size:40 final size:40
Alignment explanation
Indices: 61655015--61655217 Score: 302
Period size: 40 Copynumber: 5.1 Consensus size: 40
61655005 GGATGATAAT
* * *
61655015 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
61655055 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
61655095 CGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
61655135 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * * *
61655175 CGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
61655215 CGG
1 CGG
61655218 TTCAATCCCG
Statistics
Matches: 152, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 3 0.02
40 149 0.98
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:61661031 original size:102 final size:102
Alignment explanation
Indices: 61660903--61661114 Score: 298
Period size: 102 Copynumber: 2.1 Consensus size: 102
61660893 CCGTATCCTC
* *
61660903 CACACGGCTGTGTCTCTACCCATGTGGACAATTCAAAACAAAAATTTAATATGCAGGGGACACAC
1 CACACGGCTGTGTCTCTACCCATGTGGACAATTCAAAACAAAAATTTAAAATACAGGGGACACAC
* *
61660968 AGCCATATCACATACCCATGGCGCAGACCTTGTGTCA
66 AGCCAGATCACATACCCATGGCGCAGACCGTGTGTCA
* * * * * * *
61661005 CACACGGCTGTGTCTCTATCCGTGTGGTCAATTCGAAGCTAAAATTTAAAATATAGGGGACACAC
1 CACACGGCTGTGTCTCTACCCATGTGGACAATTCAAAACAAAAATTTAAAATACAGGGGACACAC
* * *
61661070 AGCTAGATCACATACCCGTGGGGCAGACCGTGTGTCA
66 AGCCAGATCACATACCCATGGCGCAGACCGTGTGTCA
61661107 CACACGGC
1 CACACGGC
61661115 CTAGACACAC
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (102 bp):
CACACGGCTGTGTCTCTACCCATGTGGACAATTCAAAACAAAAATTTAAAATACAGGGGACACAC
AGCCAGATCACATACCCATGGCGCAGACCGTGTGTCA
Found at i:61661854 original size:35 final size:35
Alignment explanation
Indices: 61661792--61661877 Score: 120
Period size: 35 Copynumber: 2.5 Consensus size: 35
61661782 AGTGCCACAA
61661792 TTCACAACTCAGTAT-GGAAATACCATACCTACGT
1 TTCACAACTCAGTATGGGAAATACCATACCTACGT
* **
61661826 TTCGCAACTCAGTATGGGAAATGTCATACCTACGT
1 TTCACAACTCAGTATGGGAAATACCATACCTACGT
* *
61661861 TTCACCATTCAGTATGG
1 TTCACAACTCAGTATGG
61661878 TTTTCTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
34 14 0.31
35 31 0.69
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (35 bp):
TTCACAACTCAGTATGGGAAATACCATACCTACGT
Found at i:61662003 original size:16 final size:17
Alignment explanation
Indices: 61661975--61662013 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
61661965 CACGAACGTA
61661975 CTCAATCCTGCATCTTT
1 CTCAATCCTGCATCTTT
61661992 CTCAAT-CTGCATCTTT
1 CTCAATCCTGCATCTTT
61662008 CTCAAT
1 CTCAAT
61662014 TTGACTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.41
Consensus pattern (17 bp):
CTCAATCCTGCATCTTT
Found at i:61667453 original size:18 final size:18
Alignment explanation
Indices: 61667432--61667484 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
61667422 ACATTTAAGC
*
61667432 TTAAATAAAATTTAAAAT-
1 TTAAA-AAATTTTAAAATA
61667450 TTAAAATAATTTTAAAATA
1 TTAAAA-AATTTTAAAATA
61667469 TTAAAAAATTTTAAAA
1 TTAAAAAATTTTAAAA
61667485 ATCATAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 1 0.03
18 25 0.78
19 6 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAAAAATTTTAAAATA
Found at i:61667493 original size:18 final size:18
Alignment explanation
Indices: 61667438--61667493 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
61667428 AAGCTTAAAT
*
61667438 AAAA-TTTAAAAT-TTAA
1 AAAATTTTAAAATATCAA
*
61667454 AATAATTTTAAAATATTAA
1 AA-AATTTTAAAATATCAA
*
61667473 AAAATTTTAAAA-ATCAT
1 AAAATTTTAAAATATCAA
61667490 AAAA
1 AAAA
61667494 GTATATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 2 0.06
17 9 0.26
18 18 0.51
19 6 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTTTAAAATATCAA
Found at i:61669401 original size:37 final size:37
Alignment explanation
Indices: 61669351--61669426 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
61669341 ATAGTGGATT
61669351 AATATTCTGCAATAGTCAAAGGA-TTTCCTCAACTATA
1 AATATTCTGCAATAGTCAAAGGATTTTCCTCAACT-TA
61669388 AATATTCTGCAATAGTCAAAGGATTTTCCTCAACTTA
1 AATATTCTGCAATAGTCAAAGGATTTTCCTCAACTTA
61669425 AA
1 AA
61669427 AAATTCTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 27 0.71
38 11 0.29
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (37 bp):
AATATTCTGCAATAGTCAAAGGATTTTCCTCAACTTA
Found at i:61670012 original size:87 final size:86
Alignment explanation
Indices: 61669904--61670068 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 86
61669894 ATTTAAGTTC
* * * *
61669904 GGTGTATTCATCAAGTTCGTCTTAGTAGAACCACCCAAA-TTCTAGAATATGAACTCATTAAGAG
1 GGTGAATTCATCAAGTCCGTCTCAATAGAACCACCCAAACTT-TAGAATATGAACTCATTAAGAG
*
61669968 TAAGAAACTCAACCTCACATATT
65 AAAG-AACTCAACCTCACATATT
* * *
61669991 GGTGAATTCATCAAGTCCGTCTCAATAGTACCACCCAAACTTTAGGATATGAATTCATTAAGAGA
1 GGTGAATTCATCAAGTCCGTCTCAATAGAACCACCCAAACTTTAGAATATGAACTCATTAAGAGA
61670056 AAGAACTCAACCT
66 AAGAACTCAACCT
61670069 TATGCATGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 10 0.14
87 57 0.83
88 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (86 bp):
GGTGAATTCATCAAGTCCGTCTCAATAGAACCACCCAAACTTTAGAATATGAACTCATTAAGAGA
AAGAACTCAACCTCACATATT
Found at i:61671294 original size:138 final size:138
Alignment explanation
Indices: 61671055--61671345 Score: 395
Period size: 138 Copynumber: 2.1 Consensus size: 138
61671045 CACTAGGCTG
* *
61671055 TGGGTACACAGCAAAATATCACAAATAAAATATGCCACTGGGAAGTAGATGCACAATATATTTGT
1 TGGGTACACAGCAAAATATCACAAATAAAATATGCCACTGGGAAGTAGATGCACAACATATTTGC
*
61671120 AGGTAAAAGCTGTCGATGGGTTGTAGATGTAAAACATATTTATAGTTAAAAAATAAACACCGCCA
66 AGGTAAAAGCTGTCGATGGGTTGTAGATGTAAAACATATTTACAGTTAAAAAATAAACACCGCCA
61671185 CTAGCGTA
131 CTAGCGTA
* * * * **
61671193 TGGGTGCACAGCAAAATATCGCAGATAAAATCTGCCACTGGGCTGTAGATGCACAACATATTTGC
1 TGGGTACACAGCAAAATATCACAAATAAAATATGCCACTGGGAAGTAGATGCACAACATATTTGC
* * * * ** * **
61671258 ATGTAAAAGTTGTCGATGGGTTGTAGATGTACAACATATTTGCAGTTAAAGGATAAAAATTGCCA
66 AGGTAAAAGCTGTCGATGGGTTGTAGATGTAAAACATATTTACAGTTAAAAAATAAACACCGCCA
61671323 CTAG-GTTA
131 CTAGCG-TA
*
61671331 TGGGTACACAACAAA
1 TGGGTACACAGCAAA
61671346 TTTGGAGATA
Statistics
Matches: 132, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
137 1 0.01
138 131 0.99
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (138 bp):
TGGGTACACAGCAAAATATCACAAATAAAATATGCCACTGGGAAGTAGATGCACAACATATTTGC
AGGTAAAAGCTGTCGATGGGTTGTAGATGTAAAACATATTTACAGTTAAAAAATAAACACCGCCA
CTAGCGTA
Found at i:61671506 original size:34 final size:34
Alignment explanation
Indices: 61671461--61671531 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
61671451 TTTAAAAAAA
* * *
61671461 CAATACAATAGC-AATCAATATGCCTATAATAGTT
1 CAATACAATAGCAAAT-AAAATGCATATAATAGAT
*
61671495 CAATACGATAGCAAATAAAATGCATATAATAGAT
1 CAATACAATAGCAAATAAAATGCATATAATAGAT
61671529 CAA
1 CAA
61671532 CTCAGTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.25
Consensus pattern (34 bp):
CAATACAATAGCAAATAAAATGCATATAATAGAT
Found at i:61671878 original size:28 final size:28
Alignment explanation
Indices: 61671825--61672004 Score: 108
Period size: 28 Copynumber: 6.6 Consensus size: 28
61671815 AGGGGGAAAT
* *
61671825 TGTAAAATC-CGAAAATA-AGGGAAAAAC
1 TGTAAAATCTAGAAAATAGA-GGCAAAAC
*
61671852 TATAAAATCTAGAAAATAGAGGCAAAAC
1 TGTAAAATCTAGAAAATAGAGGCAAAAC
*
61671880 TGCAAAATCT-GAAAAATAG-GGC--AAC
1 TGTAAAATCTAG-AAAATAGAGGCAAAAC
* * * *
61671905 TTTAAAATCTGGAAAACATGA-GAAAAAC
1 TGTAAAATCTAGAAAATA-GAGGCAAAAC
* * * *
61671933 TGTAAAATTTAGAAAATAGAAGTAAAAT
1 TGTAAAATCTAGAAAATAGAGGCAAAAC
* *
61671961 TGTAAAATAT-GAAAAATA-AGGGCAAAAT
1 TGTAAAATCTAG-AAAATAGA-GGCAAAAC
* *
61671989 TGTAAATTCTAAAAAA
1 TGTAAAATCTAGAAAA
61672005 AAGGGGAACA
Statistics
Matches: 120, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
25 16 0.13
26 3 0.03
27 16 0.13
28 84 0.70
29 1 0.01
ACGTcount: A:0.55, C:0.08, G:0.16, T:0.21
Consensus pattern (28 bp):
TGTAAAATCTAGAAAATAGAGGCAAAAC
Found at i:61672017 original size:28 final size:27
Alignment explanation
Indices: 61671956--61672039 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
61671946 AAATAGAAGT
* * *
61671956 AAAATTGTAAAATATGAAAAATAAGGGC
1 AAAATTGTAAAATCT-AAAAAAAAGGGG
*
61671984 AAAATTGTAAATTCTAAAAAAAAGGGG
1 AAAATTGTAAAATCTAAAAAAAAGGGG
* * *
61672011 AACAATTATAAAATCTGAAAAATAGGGG
1 AA-AATTGTAAAATCTAAAAAAAAGGGG
61672039 A
1 A
61672040 CATACGACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 12 0.26
28 35 0.74
ACGTcount: A:0.56, C:0.05, G:0.18, T:0.21
Consensus pattern (27 bp):
AAAATTGTAAAATCTAAAAAAAAGGGG
Found at i:61672711 original size:16 final size:16
Alignment explanation
Indices: 61672692--61672746 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
61672682 CCAATTTGAT
*
61672692 GAAAAGAAAAAGGAGA
1 GAAAAGAAAAAAGAGA
61672708 GAAAAGAAAAAAGAGAA
1 GAAAAGAAAAAAGAG-A
* *
61672725 TAAATAGAAAGATAGAGA
1 GAAA-AGAAA-AAAGAGA
61672743 GAAA
1 GAAA
61672747 TTCTATTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.44
17 4 0.12
18 9 0.28
19 5 0.16
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.05
Consensus pattern (16 bp):
GAAAAGAAAAAAGAGA
Found at i:61673617 original size:21 final size:21
Alignment explanation
Indices: 61673593--61673634 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
61673583 ATTAATATAA
*
61673593 TAATA-TTTTATTATATTATTT
1 TAATACTTTAATTA-ATTATTT
61673614 TAATACTTTAATTAATTATTT
1 TAATACTTTAATTAATTATTT
61673635 ATGACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TAATACTTTAATTAATTATTT
Found at i:61680588 original size:38 final size:38
Alignment explanation
Indices: 61680511--61680588 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 38
61680501 GCAAAAAAAT
* * * *
61680511 TAGACATGCTTAACATGTATTCAATTCAATGCTAGCAG
1 TAGACATGCTTAACATGTACTCAAGTCAAGGCTAACAG
61680549 TAGACATGCTTAACATGTACT-AAGT-AAGGCGATAACAG
1 TAGACATGCTTAACATGTACTCAAGTCAAGGC--TAACAG
61680587 TA
1 TA
61680589 TTAACACTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 4 0.12
37 3 0.09
38 27 0.79
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (38 bp):
TAGACATGCTTAACATGTACTCAAGTCAAGGCTAACAG
Found at i:61682356 original size:46 final size:47
Alignment explanation
Indices: 61682285--61682414 Score: 172
Period size: 46 Copynumber: 2.8 Consensus size: 47
61682275 CACAATCGAT
* *
61682285 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTA-TCCC
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATTCCA
* * * * *
61682331 GAGTACCTATACCATGGCCCATAGCCAAATCAATGTAGCTCATTTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATTCCA
* *
61682378 AAATACCTATACCATGGCCCGTAGCCACATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
61682415 TTATTCACAC
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
46 37 0.52
47 34 0.48
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATTCCA
Found at i:61684089 original size:34 final size:34
Alignment explanation
Indices: 61684051--61684153 Score: 188
Period size: 34 Copynumber: 3.0 Consensus size: 34
61684041 GGCAAGATAG
* *
61684051 TCAAAATATTTGGCAAAAACAATAAAAGATTTAT
1 TCAAAATATTTGGCAAGAACCATAAAAGATTTAT
61684085 TCAAAATATTTGGCAAGAACCATAAAAGATTTAT
1 TCAAAATATTTGGCAAGAACCATAAAAGATTTAT
61684119 TCAAAATATTTGGCAAGAACCATAAAAGATTTAT
1 TCAAAATATTTGGCAAGAACCATAAAAGATTTAT
61684153 T
1 T
61684154 AATAAAATGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (34 bp):
TCAAAATATTTGGCAAGAACCATAAAAGATTTAT
Found at i:61687681 original size:21 final size:22
Alignment explanation
Indices: 61687636--61687682 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
61687626 TTTATCGACT
*
61687636 TTTTTTTCCTTCTTCATTATTC
1 TTTTTTTCCTTCTTCATTATCC
61687658 TTTTTTT-CTTCGTTCATT-TCC
1 TTTTTTTCCTTC-TTCATTATCC
61687679 TTTT
1 TTTT
61687683 CTTTTAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.06, C:0.21, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTTTCCTTCTTCATTATCC
Found at i:61704120 original size:3 final size:3
Alignment explanation
Indices: 61704112--61704141 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
61704102 TGTATATGTG
61704112 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
61704142 GTTTTAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:61710793 original size:28 final size:28
Alignment explanation
Indices: 61710753--61710809 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
61710743 TGTATTACAG
61710753 TTATAGTCGCCGGCGCTATTTAGAATTT
1 TTATAGTCGCCGGCGCTATTTAGAATTT
61710781 TTATAGTCGCCGGCGCTATTTAGAATTT
1 TTATAGTCGCCGGCGCTATTTAGAATTT
61710809 T
1 T
61710810 CTCTCTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (28 bp):
TTATAGTCGCCGGCGCTATTTAGAATTT
Found at i:61711000 original size:33 final size:33
Alignment explanation
Indices: 61710963--61711029 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
61710953 GATGGAAATG
* *
61710963 TACTGTGTATTTGTTTAAACTATGCATGAGTGC
1 TACTGTGTATTTGTTTAAACTAAGCACGAGTGC
61710996 TACTGTGTATTTGTTTAAACTAAGCACGAGTGC
1 TACTGTGTATTTGTTTAAACTAAGCACGAGTGC
61711029 T
1 T
61711030 GCTTTCATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (33 bp):
TACTGTGTATTTGTTTAAACTAAGCACGAGTGC
Found at i:61724646 original size:5 final size:5
Alignment explanation
Indices: 61724638--61724662 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61724628 AAGGTAGTCC
61724638 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
61724663 AAATATACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:61727307 original size:21 final size:21
Alignment explanation
Indices: 61727283--61727324 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
61727273 ACTGCGAAAA
61727283 AAATTACTCTTTTAACTATTT
1 AAATTACTCTTTTAACTATTT
61727304 AAATTACTCTTTTAACTATTT
1 AAATTACTCTTTTAACTATTT
61727325 TTTTTTTACA
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:0.14, G:0.00, T:0.52
Consensus pattern (21 bp):
AAATTACTCTTTTAACTATTT
Found at i:61731828 original size:21 final size:20
Alignment explanation
Indices: 61731796--61731834 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
61731786 TTAGATATAA
*
61731796 AATAATTAAATATGAATATT
1 AATAATTAAATATAAATATT
*
61731816 AATAATTTTAATATAAATA
1 AATAA-TTAAATATAAATA
61731835 GAATAAGCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
AATAATTAAATATAAATATT
Found at i:61737721 original size:21 final size:20
Alignment explanation
Indices: 61737674--61737722 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
61737664 AAAAAAAATT
*
61737674 AAAAAATTTGACTACATAAA
1 AAAAAATTTGACTAAATAAA
*
61737694 AATAAAATTTGATTAAATTTAAA
1 AA-AAAATTTGACTAAA--TAAA
61737717 AAAAAA
1 AAAAAA
61737723 CTAAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 12 0.50
22 4 0.17
23 6 0.25
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (20 bp):
AAAAAATTTGACTAAATAAA
Found at i:61738170 original size:19 final size:20
Alignment explanation
Indices: 61738141--61738183 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
61738131 AAAAGTAGTG
*
61738141 TTTTTATAATTTTTATATAA
1 TTTTTATAATTTTTATAAAA
*
61738161 TTTTTA-AATTTTTTTAAAA
1 TTTTTATAATTTTTATAAAA
61738180 TTTT
1 TTTT
61738184 AAAAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATAATTTTTATAAAA
Found at i:61738495 original size:12 final size:12
Alignment explanation
Indices: 61738478--61738503 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61738468 ATCTAAATTT
61738478 ATGTTTTCTATC
1 ATGTTTTCTATC
61738490 ATGTTTTCTATC
1 ATGTTTTCTATC
61738502 AT
1 AT
61738504 TGCAAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (12 bp):
ATGTTTTCTATC
Found at i:61740673 original size:24 final size:23
Alignment explanation
Indices: 61740645--61740750 Score: 108
Period size: 23 Copynumber: 4.5 Consensus size: 23
61740635 TCAGCTTGTA
*
61740645 AGAGCTTACTATTTTCAGCTCATT
1 AGAGCTTACT-GTTTCAGCTCATT
*
61740669 GGAGCTTACTGTTCTCAGCT--TGT
1 AGAGCTTACTGTT-TCAGCTCAT-T
* *
61740692 ATGAGCTTACTGTTTCAGCTCGTC
1 A-GAGCTTACTGTTTCAGCTCATT
* *
61740716 AGAGCTTTCTGTTTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCATT
61740739 AGAGCTTACTGT
1 AGAGCTTACTGT
61740751 CCATCAGCTC
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
22 1 0.01
23 38 0.56
24 28 0.41
25 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCATT
Found at i:61740698 original size:48 final size:46
Alignment explanation
Indices: 61740635--61740734 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 46
61740625 TACCGGTATA
* **
61740635 TCAGCTTGTAAGAGCTTACTATTTTCAGCTCATTGGAGCTTACTGTT
1 TCAGCTTGTAAGAGCTTACT-GTTTCAGCTCATCAGAGCTTACTGTT
* * *
61740682 CTCAGCTTGTATGAGCTTACTGTTTCAGCTCGTCAGAGCTTTCTGTT
1 -TCAGCTTGTAAGAGCTTACTGTTTCAGCTCATCAGAGCTTACTGTT
61740729 TCAGCT
1 TCAGCT
61740735 CAATAGAGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 6 0.13
47 21 0.46
48 19 0.41
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (46 bp):
TCAGCTTGTAAGAGCTTACTGTTTCAGCTCATCAGAGCTTACTGTT
Found at i:61744438 original size:8 final size:8
Alignment explanation
Indices: 61744425--61744473 Score: 80
Period size: 8 Copynumber: 6.1 Consensus size: 8
61744415 GTCTAATATA
61744425 TTATTTTG
1 TTATTTTG
61744433 TTATTTTG
1 TTATTTTG
*
61744441 TGATTTTG
1 TTATTTTG
*
61744449 TGATTTTG
1 TTATTTTG
61744457 TTATTTTG
1 TTATTTTG
61744465 TTATTTTG
1 TTATTTTG
61744473 T
1 T
61744474 AGTAAGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 39 1.00
ACGTcount: A:0.12, C:0.00, G:0.16, T:0.71
Consensus pattern (8 bp):
TTATTTTG
Found at i:61747441 original size:21 final size:21
Alignment explanation
Indices: 61747417--61747480 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
61747407 TGCAAATCAT
61747417 AGATCATACTTTCAAAGAACA
1 AGATCATACTTTCAAAGAACA
* *
61747438 AGATGAT--TTTGC-AA-ATCA
1 AGATCATACTTT-CAAAGAACA
61747456 TAGATCATACTTTCAAAGAACA
1 -AGATCATACTTTCAAAGAACA
61747478 AGA
1 AGA
61747481 ATCACATCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
18 3 0.09
19 11 0.33
20 2 0.06
21 14 0.42
22 3 0.09
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (21 bp):
AGATCATACTTTCAAAGAACA
Found at i:61747444 original size:40 final size:40
Alignment explanation
Indices: 61747400--61747480 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
61747390 GAAATAATGT
61747400 ATGATTTTGCAAATCATAGATCATACTTTCAAAGAACAAG
1 ATGATTTTGCAAATCATAGATCATACTTTCAAAGAACAAG
61747440 ATGATTTTGCAAATCATAGATCATACTTTCAAAGAACAAG
1 ATGATTTTGCAAATCATAGATCATACTTTCAAAGAACAAG
61747480 A
1 A
61747481 ATCACATCAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (40 bp):
ATGATTTTGCAAATCATAGATCATACTTTCAAAGAACAAG
Found at i:61752018 original size:48 final size:45
Alignment explanation
Indices: 61751916--61752328 Score: 303
Period size: 48 Copynumber: 8.8 Consensus size: 45
61751906 GGTGACATGT
* * ** *
61751916 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCAACATTTCGTA
1 GAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCATGATAT-G-A
* *
61751965 -TGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCTATGTTATGA
1 GAGCCAGTGTAAGACCATG-TTGG-ACATGGCATCGGC-ATGATATGA
* * *
61752012 GAGCCAGTGTAAGACCATGTTGGACATGGCATCAGCATTGA-CTGT
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCA-TGATATGA
* * **
61752057 GAGCCAGTGTAAGACTATGTTGGACATGGCGTCGGCCACCATATGA
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCGG-CATGATATGA
* * * * * *
61752103 GAGCCAGTGTAAAACCATGTTGGACATAGTATCGATG-TTGATTTTA
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCG--GCATGATATGA
* * * * **
61752149 -AGCCAGTGTAAGACCATGTCTAGTACATAGCTTCGACCACCATATGA
1 GAGCCAGTGTAAGACCATGT-T-GGACATGGCATCG-GCATGATATGA
* * * *
61752196 GAGCCAGTGTAAGACCATGTTGGACATGGCCTCAGCATTGAGACGA
1 GAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCA-TGATATGA
* * * * *
61752242 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCCTCGACATGT
1 GAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCAT-GATATGA
61752290 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 GAGCCAGTGTAAGACCATGT-T-GGACATGGCATCGGCA
61752329 ATTCACCCTC
Statistics
Matches: 286, Mismatches: 61, Indels: 35
0.75 0.16 0.09
Matches are distributed among these distances:
45 56 0.20
46 84 0.29
47 24 0.08
48 118 0.41
49 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACCATGTTGGACATGGCATCGGCATGATATGA
Found at i:61752103 original size:91 final size:93
Alignment explanation
Indices: 61751966--61752324 Score: 388
Period size: 91 Copynumber: 3.8 Consensus size: 93
61751956 CATTTCGTAT
* * ***
61751966 GCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCTATGTTATGAGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCACCATATGAGAGCCAGTGTAAGACCAT
61752030 GTTGGACATGGCATCAGCATTGACTGTGA
65 GTTGGACATGGCATCAGCATTGACTGTGA
* * *
61752059 GCCAGTGTAAGACTATGT-T-GGACATGGCGTCGGCCACCATATGAGAGCCAGTGTAAAACCATG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACCATATGAGAGCCAGTGTAAGACCATG
* * * * *
61752122 TTGGACATAGTATC-G-ATGTTGATTTTAA
66 TTGGACATGGCATCAGCA--TTGACTGTGA
* * * *
61752150 GCCAGTGTAAGACCATGTCTAGTACATAGCTTCGACCACCATATGAGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACCATATGAGAGCCAGTGTAAGACCATG
* *
61752215 TTGGACATGGCCTCAGCATTGAGAC-GAGA
66 TTGGACATGGCATCAGCATT--GACTGTGA
* * * * * *
61752244 GCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCCTCGACATGTGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACCATATGAGAGCCAGTGTAAGACCATG
61752309 TCTGGGACATGGCATC
66 T-T-GGACATGGCATC
61752325 GGCAATTCAC
Statistics
Matches: 220, Mismatches: 36, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
89 1 0.00
90 1 0.00
91 72 0.33
92 3 0.01
93 70 0.32
94 58 0.26
95 4 0.02
96 11 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (93 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACCATATGAGAGCCAGTGTAAGACCATG
TTGGACATGGCATCAGCATTGACTGTGA
Found at i:61753533 original size:35 final size:35
Alignment explanation
Indices: 61753487--61753620 Score: 160
Period size: 35 Copynumber: 3.8 Consensus size: 35
61753477 GCCACAATTC
** * *
61753487 ACAACTCAGTATGGTTAATACCATACCTACATTTT
1 ACAACTCAGTATGGAAAATACCATACCTACGTATT
*
61753522 ACAACTCAGTATGGGAAATACCATACCTACGTATT
1 ACAACTCAGTATGGAAAATACCATACCTACGTATT
***
61753557 ATTGCTCAGTATGGAAAATACCATACCTACGTATT
1 ACAACTCAGTATGGAAAATACCATACCTACGTATT
* * * *
61753592 ATAGCTCAGCATGGATAATACCATACCTA
1 ACAACTCAGTATGGAAAATACCATACCTA
61753621 TGTGTCATAA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (35 bp):
ACAACTCAGTATGGAAAATACCATACCTACGTATT
Found at i:61768008 original size:8 final size:8
Alignment explanation
Indices: 61767948--61768008 Score: 50
Period size: 9 Copynumber: 7.0 Consensus size: 8
61767938 TACTTCTTTC
*
61767948 ATATATTT
1 ATATTTTT
61767956 ATATTTGTT
1 ATATTT-TT
*
61767965 ATAATTTT
1 ATATTTTT
61767973 ATAATTTTT
1 AT-ATTTTT
*
61767982 TTATTAATTT
1 ATATT--TTT
61767992 ATATATTTT
1 ATAT-TTTT
61768001 ATATTTTT
1 ATATTTTT
61768009 CAAAATACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
8 16 0.37
9 20 0.47
10 6 0.14
11 1 0.02
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
ATATTTTT
Found at i:61768052 original size:25 final size:26
Alignment explanation
Indices: 61768023--61768087 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
61768013 ATACTAAAAG
61768023 ATTTTTTATATATTTT-T-AATTGTAT
1 ATTTTTTATATATTTTATAAATT-TAT
61768048 ATTTTTTATAT-TTTTATAAATTTAT
1 ATTTTTTATATATTTTATAAATTTAT
**
61768073 ATTTTACATATATTT
1 ATTTTTTATATATTT
61768088 AAAATAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 4 0.11
25 24 0.69
26 7 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (26 bp):
ATTTTTTATATATTTTATAAATTTAT
Found at i:61768480 original size:46 final size:46
Alignment explanation
Indices: 61768423--61768517 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
61768413 AAAAGTAGAA
61768423 ATTAAACCCAAATAAAGAAGTTCATACGTAAGGGTTTCTAGAGTGT
1 ATTAAACCCAAATAAAGAAGTTCATACGTAAGGGTTTCTAGAGTGT
* **
61768469 ATTAACCCCAAATAAATTAGTTCATACGTAAGGGTTTCTAGAGTGT
1 ATTAAACCCAAATAAAGAAGTTCATACGTAAGGGTTTCTAGAGTGT
61768515 ATT
1 ATT
61768518 GGGTTTCATC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (46 bp):
ATTAAACCCAAATAAAGAAGTTCATACGTAAGGGTTTCTAGAGTGT
Found at i:61769008 original size:21 final size:21
Alignment explanation
Indices: 61768984--61769037 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
61768974 AATTAGTAAA
*
61768984 AAAAATT-ATTTAGAAAT-TTT
1 AAAAATTCATATA-AAATATTT
*
61769004 TAAAATTCATATAAAATATTT
1 AAAAATTCATATAAAATATTT
*
61769025 AAAAATTTATATA
1 AAAAATTCATATA
61769038 TATACATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAAATTCATATAAAATATTT
Found at i:61769046 original size:31 final size:31
Alignment explanation
Indices: 61768985--61769047 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
61768975 ATTAGTAAAA
* * *
61768985 AAAATTATTTAGAAATTTTTAAAATTCATAT
1 AAAATTATTTAAAAATTTATAAAATACATAT
*
61769016 AAAA-TATTTAAAAATTTATATATATACATAT
1 AAAATTATTTAAAAATTTATA-AAATACATAT
61769047 A
1 A
61769048 TATATAAGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (31 bp):
AAAATTATTTAAAAATTTATAAAATACATAT
Found at i:61770623 original size:20 final size:20
Alignment explanation
Indices: 61770587--61770624 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61770577 ATTTATGATT
*
61770587 CCTTATTTCTATCTCATTAG
1 CCTTATTTCAATCTCATTAG
*
61770607 CCTTATTTCAATTTCATT
1 CCTTATTTCAATCTCATT
61770625 TCATATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (20 bp):
CCTTATTTCAATCTCATTAG
Found at i:61772492 original size:18 final size:18
Alignment explanation
Indices: 61772471--61772505 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61772461 GAATTTTTTT
*
61772471 ATTTTATATATTTTTTGC
1 ATTTTATATAATTTTTGC
*
61772489 ATTTTATGTAATTTTTG
1 ATTTTATATAATTTTTG
61772506 AAAAATTTAA
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:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (18 bp):
ATTTTATATAATTTTTGC
Found at i:61772593 original size:18 final size:18
Alignment explanation
Indices: 61772572--61772612 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
61772562 AAAAATTCTT
61772572 ATTTTCATAAAAAAATAA
1 ATTTTCATAAAAAAATAA
* **
61772590 ATTTTTATAACTAAATAA
1 ATTTTCATAAAAAAATAA
61772608 ATTTT
1 ATTTT
61772613 ATTATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTTCATAAAAAAATAA
Found at i:61776429 original size:12 final size:12
Alignment explanation
Indices: 61776394--61776430 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61776384 GATCGAATTT
61776394 TATATTTTCGTA
1 TATATTTTCGTA
*
61776406 TAAATTTT--TA
1 TATATTTTCGTA
61776416 TATATTTTCGTA
1 TATATTTTCGTA
61776428 TAT
1 TAT
61776431 TAGTTTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.43
12 12 0.57
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (12 bp):
TATATTTTCGTA
Found at i:61776591 original size:15 final size:15
Alignment explanation
Indices: 61776573--61776607 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
61776563 CAGAATAAAT
61776573 AATTAAAAAAATCAA
1 AATTAAAAAAATCAA
61776588 AATTAAAAAAATCAA
1 AATTAAAAAAATCAA
61776603 AATTA
1 AATTA
61776608 TGTAGATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
AATTAAAAAAATCAA
Found at i:61779290 original size:47 final size:47
Alignment explanation
Indices: 61779225--61779454 Score: 229
Period size: 47 Copynumber: 5.1 Consensus size: 47
61779215 TTGTTGAATA
*
61779225 ATTT-ATTTATTTATTTTACACTATATAATAATTGAATAATTTGTTT
1 ATTTAATTTATTTATTTTACACTATATAATAATTGAATAATTTATTT
* *
61779271 ATTTAATTTATTTACTTTACACTATATAATAATTTAATAATTTATTT
1 ATTTAATTTATTTATTTTACACTATATAATAATTGAATAATTTATTT
***
61779318 ATTTAAAACATTTATTTTACAC--TATAATAATTG---AA--TA---
1 ATTTAATTTATTTATTTTACACTATATAATAATTGAATAATTTATTT
* *
61779355 ATTT-ATTTATTTACTTTACACTATATAATAACTT-AATACTTTATTT
1 ATTTAATTTATTTATTTTACACTATATAATAA-TTGAATAATTTATTT
**
61779401 ATTTCAA-ACATTTATTTTACACTATATAATAATTGAA-AATTTTATTT
1 ATTT-AATTTATTTATTTTACACTATATAATAATTGAATAA-TTTATTT
*
61779448 CTTTAAT
1 ATTTAAT
61779455 AATTGGATAA
Statistics
Matches: 149, Mismatches: 18, Indels: 33
0.75 0.09 0.17
Matches are distributed among these distances:
36 13 0.09
37 4 0.03
38 8 0.05
39 2 0.01
40 2 0.01
41 1 0.01
42 2 0.01
43 2 0.01
45 10 0.07
46 13 0.09
47 91 0.61
48 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (47 bp):
ATTTAATTTATTTATTTTACACTATATAATAATTGAATAATTTATTT
Found at i:61779377 original size:83 final size:83
Alignment explanation
Indices: 61779271--61779452 Score: 285
Period size: 83 Copynumber: 2.2 Consensus size: 83
61779261 TAATTTGTTT
*
61779271 ATTTAATTTATTTACTTTACACTATATAATAATTTAATAATTTATTTATTTAAAACATTTATTTT
1 ATTT-ATTTATTTACTTTACACTATATAATAACTTAATAATTTATTTATTTAAAACATTTATTTT
61779336 ACAC-TATAATAATTGAATA
65 ACACATATAATAATTGAA-A
* *
61779355 ATTTATTTATTTACTTTACACTATATAATAACTTAATACTTTATTTATTTCAAACATTTATTTTA
1 ATTTATTTATTTACTTTACACTATATAATAACTTAATAATTTATTTATTTAAAACATTTATTTTA
61779420 CACTATATAATAATTGAAA
66 CAC-ATATAATAATTGAAA
*
61779439 ATTTTATTTCTTTA
1 A-TTTATTTATTTA
61779453 ATAATTGGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
83 61 0.67
84 6 0.07
85 24 0.26
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (83 bp):
ATTTATTTATTTACTTTACACTATATAATAACTTAATAATTTATTTATTTAAAACATTTATTTTA
CACATATAATAATTGAAA
Found at i:61779431 original size:130 final size:130
Alignment explanation
Indices: 61779218--61779453 Score: 352
Period size: 130 Copynumber: 1.8 Consensus size: 130
61779208 CTTCAATTTG
* * **
61779218 TTGAATAATTTATTTATTTATTTTACACTATATAATAATTGAATAATTTGTTTATTTAATTTATT
1 TTGAATAATTTATTTATTTACTTTACACTATATAATAATTGAATAATTTATTTATTTAATACATT
*
61779283 TACTTTACACTATATAATAATTTAATAA-TTTATTTATTTAAAACATTTATTTTACACTATAATA
66 TACTTTACACTATATAATAATTGAA-AATTTTATTTATTTAAAACATTTATTTTACACTATAATA
61779347 A
130 A
*
61779348 TTGAATAATTTATTTATTTACTTTACACTATATAATAACTT-AATACTTTATTTATTTCAA-ACA
1 TTGAATAATTTATTTATTTACTTTACACTATATAATAA-TTGAATAATTTATTTATTT-AATACA
* *
61779411 TTTATTTTACACTATATAATAATTGAAAATTTTATTTCTTTAA
64 TTTACTTTACACTATATAATAATTGAAAATTTTATTTATTTAA
61779454 TAATTGGATA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
129 2 0.02
130 89 0.94
131 4 0.04
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (130 bp):
TTGAATAATTTATTTATTTACTTTACACTATATAATAATTGAATAATTTATTTATTTAATACATT
TACTTTACACTATATAATAATTGAAAATTTTATTTATTTAAAACATTTATTTTACACTATAATAA
Found at i:61779456 original size:24 final size:24
Alignment explanation
Indices: 61779427--61779476 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
61779417 TTACACTATA
*
61779427 TAATAATT-GAAAATTTTATTTCTT
1 TAATAATTGGAAAA-TTTATTTATT
*
61779451 TAATAATTGGATAATTTATTTATT
1 TAATAATTGGAAAATTTATTTATT
61779475 TA
1 TA
61779477 TTTCACACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
TAATAATTGGAAAATTTATTTATT
Found at i:61786693 original size:51 final size:50
Alignment explanation
Indices: 61786629--61786755 Score: 200
Period size: 51 Copynumber: 2.5 Consensus size: 50
61786619 TTTCGATATA
* * *
61786629 TTTTTTTAGAATTTTTCTATAGAATTTTCTAGTTTTTAAACAGTTTCGAT
1 TTTTTTTATAATTTTTATATAGAATTTTCTAGCTTTTAAACAGTTTCGAT
*
61786679 TTTATTTTATAATTTTTATATAGAATTTTCTAGCTTTTAAATAGTTTCGAT
1 TTT-TTTTATAATTTTTATATAGAATTTTCTAGCTTTTAAACAGTTTCGAT
*
61786730 TTTTTTTATAATTTTTATATAAAATT
1 TTTTTTTATAATTTTTATATAGAATT
61786756 AAGGTGATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 25 0.35
51 46 0.65
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (50 bp):
TTTTTTTATAATTTTTATATAGAATTTTCTAGCTTTTAAACAGTTTCGAT
Found at i:61791819 original size:2 final size:2
Alignment explanation
Indices: 61791812--61791836 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
61791802 ATGAAACAAC
61791812 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
61791837 GAGAGAGAGA
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:61796436 original size:2 final size:2
Alignment explanation
Indices: 61796429--61796472 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
61796419 TATGAACCCG
61796429 TA TA TA 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 TA TA TA
61796471 TA
1 TA
61796473 GTGTAAGGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61796646 original size:18 final size:18
Alignment explanation
Indices: 61796623--61796659 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
61796613 AAGGAAAGAG
*
61796623 GGAGAAGAAAGAAAGAAA
1 GGAGAAGAAAAAAAGAAA
61796641 GGAGAAGAAAAAAAGAAA
1 GGAGAAGAAAAAAAGAAA
61796659 G
1 G
61796660 AAAATGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
GGAGAAGAAAAAAAGAAA
Found at i:61798815 original size:80 final size:80
Alignment explanation
Indices: 61798731--61798879 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
61798721 TATGGTAACC
* * * *
61798731 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
61798795 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
61798811 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
61798876 CCGG
66 CCGG
61798880 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Done.