Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 180 of 438
Found at i:55479430 original size:23 final size:24
Alignment explanation
Indices: 55479319--55479438 Score: 174
Period size: 24 Copynumber: 5.0 Consensus size: 24
55479309 GCTTTATCAT
*
55479319 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
55479344 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
55479369 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55479393 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
55479417 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55479439 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 1, Indels: 10
0.89 0.01 0.10
Matches are distributed among these distances:
23 17 0.19
24 42 0.47
25 25 0.28
26 6 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55479515 original size:20 final size:20
Alignment explanation
Indices: 55479492--55479554 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
55479482 GAACATCTCG
55479492 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
55479512 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
*
55479532 TGTGCATATCATTCATATCA
1 TGTGCATATCATACATATCA
55479552 TGT
1 TGT
55479555 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:55479633 original size:25 final size:25
Alignment explanation
Indices: 55479605--55479665 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
55479595 AGGGTATAAT
*
55479605 GGTCATTTTTACCTAGGGGCAAAAC
1 GGTCATTTTCACCTAGGGGCAAAAC
*
55479630 GGTCATTTTCACCTAGGGGCAAAAT
1 GGTCATTTTCACCTAGGGGCAAAAC
55479655 GGTCATTTTCA
1 GGTCATTTTCA
55479666 TATTATAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (25 bp):
GGTCATTTTCACCTAGGGGCAAAAC
Found at i:55484114 original size:21 final size:23
Alignment explanation
Indices: 55484088--55484129 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
55484078 TAGGAATAGC
55484088 TAGGA-TTC-ATATGTCATGACA
1 TAGGATTTCGATATGTCATGACA
*
55484109 TAGGATTTCGATATGTGATGA
1 TAGGATTTCGATATGTCATGA
55484130 GAAAGTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.36
Consensus pattern (23 bp):
TAGGATTTCGATATGTCATGACA
Found at i:55491867 original size:15 final size:15
Alignment explanation
Indices: 55491847--55491878 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
55491837 CAAAGACAAA
55491847 ACTTATGAACCATCT
1 ACTTATGAACCATCT
55491862 ACTTATGAACCATCT
1 ACTTATGAACCATCT
55491877 AC
1 AC
55491879 CAAGCCTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.31
Consensus pattern (15 bp):
ACTTATGAACCATCT
Found at i:55496610 original size:40 final size:40
Alignment explanation
Indices: 55496482--55496612 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
55496472 TATGCTGGAA
* * * *
55496482 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
55496522 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
55496562 ATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
55496602 ATTATATCCGG
1 ATTATATCCGG
55496613 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:55499680 original size:17 final size:17
Alignment explanation
Indices: 55499658--55499701 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
55499648 AATTAGATAA
55499658 AAATAAATAACG-AAAAT
1 AAATAAATAA-GAAAAAT
55499675 AAATAAATAAGAAAAAT
1 AAATAAATAAGAAAAAT
*
55499692 AAACAAATAA
1 AAATAAATAA
55499702 AAATCAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 1 0.04
17 24 0.96
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATAAATAAGAAAAAT
Found at i:55500896 original size:26 final size:26
Alignment explanation
Indices: 55500846--55500896 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
55500836 TTGATAGTTT
* * *
55500846 AATGTTATAATTACATTCTGTTATGA
1 AATGTTATAATTAAATTATGCTATGA
55500872 AATGTTATAATTAAATTATGCTATG
1 AATGTTATAATTAAATTATGCTATG
55500897 GTCGAATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (26 bp):
AATGTTATAATTAAATTATGCTATGA
Found at i:55502713 original size:40 final size:40
Alignment explanation
Indices: 55502576--55502761 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
55502566 TCGAATGATG
* * *
55502576 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
55502616 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55502656 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55502696 TCCGGG-TCAAGTCCCGAAGGCATCTGTGTGAGTTACTATAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55502737 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55502762 AACAGTAGCT
Statistics
Matches: 129, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.02
40 117 0.91
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55510478 original size:40 final size:40
Alignment explanation
Indices: 55510286--55510471 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
55510276 TCGAATGATG
* * *
55510286 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
55510326 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55510366 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55510406 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55510447 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55510472 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55510478 original size:80 final size:80
Alignment explanation
Indices: 55510286--55510504 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 80
55510276 TCGAATGATG
* * **
55510286 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
55510350 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
55510366 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
55510428 TCTGTGCGAGTTACTATAA
64 TC-GTGCGAGTTACTA-AA
* **
55510447 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
55510505 TACGTGATTC
Statistics
Matches: 119, Mismatches: 11, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
79 19 0.16
80 90 0.76
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:55513610 original size:2 final size:2
Alignment explanation
Indices: 55513564--55513598 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
55513554 CTTGAGTGTT
*
55513564 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55513599 TAATGAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:55519893 original size:72 final size:72
Alignment explanation
Indices: 55519812--55519949 Score: 231
Period size: 72 Copynumber: 1.9 Consensus size: 72
55519802 ATCTATTTTC
* * *
55519812 TTTTTAAGAATTTTAGAACTCTTATAGATTTAATTTTGTTTTCAATAAATTAACATAGCAGATTT
1 TTTTTAAGAATTTTAGAACTCTTATAAATTTAATATTGTTTTCAATAAATTAACATACCAGATTT
55519877 TTTACCT
66 TTTACCT
* *
55519884 TTTTTAAGAATTTTAGAACTCTTTTAAATTTAATATTGTTTTCAATAAATTAACTTACCAGATTT
1 TTTTTAAGAATTTTAGAACTCTTATAAATTTAATATTGTTTTCAATAAATTAACATACCAGATTT
55519949 T
66 T
55519950 CTTTTACCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.49
Consensus pattern (72 bp):
TTTTTAAGAATTTTAGAACTCTTATAAATTTAATATTGTTTTCAATAAATTAACATACCAGATTT
TTTACCT
Found at i:55527725 original size:2 final size:2
Alignment explanation
Indices: 55527718--55527751 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
55527708 GCTCTTGCAC
55527718 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
55527752 GTTTGCACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55528515 original size:40 final size:40
Alignment explanation
Indices: 55528458--55528763 Score: 356
Period size: 40 Copynumber: 7.7 Consensus size: 40
55528448 TCGAATGATG
* * * *
55528458 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
55528498 TCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55528538 CCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
55528578 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
55528618 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
**
55528658 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * ** *
55528699 -CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-CTAAA
* *
55528738 TCCGGGCTATG-TCCCGAAGGCATTTG
1 TCCGGACTAAGAT-CCGAAGGCATTTG
55528764 AACGAGTAGC
Statistics
Matches: 245, Mismatches: 15, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.02
40 232 0.95
41 9 0.04
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55528675 original size:120 final size:121
Alignment explanation
Indices: 55528458--55528763 Score: 392
Period size: 120 Copynumber: 2.5 Consensus size: 121
55528448 TCGAATGATG
* *
55528458 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGACTAAGATCCGAAGGCATT
*
55528522 CGTGCGAGTTACTAAACCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTA-AA
65 TGTGCGAGTTACTAAACCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTATAA
* *
55528578 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATT
* ** *
55528642 TGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
65 TGTGCGAGTTACTAAACCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTATAA
* ** * *
55528699 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGACTAAGAT-CCGAAGGCAT
55528761 TTG
64 TTG
55528764 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
119 5 0.03
120 148 0.91
121 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (121 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAACCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTATAA
Found at i:55535017 original size:93 final size:93
Alignment explanation
Indices: 55534905--55535076 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55534895 GCCCATAAGT
* *
55534905 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55534970 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55534998 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55535063 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
55535077 AACCATCCTA
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:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55535072 original size:46 final size:46
Alignment explanation
Indices: 55534897--55535072 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
55534887 TGTAACCCGC
* * *
55534897 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55534943 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
55534993 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55535036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55535073 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55537494 original size:30 final size:30
Alignment explanation
Indices: 55537450--55537538 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
55537440 CAAAGATAAC
55537450 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
55537479 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
55537509 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
55537539 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:55537498 original size:15 final size:15
Alignment explanation
Indices: 55537450--55537529 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
55537440 CAAAGATAAC
*
55537450 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
55537464 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
55537479 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
55537494 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
55537509 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
55537524 AAGAAA
1 AAGAAA
55537530 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:55537538 original size:15 final size:15
Alignment explanation
Indices: 55537461--55537538 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
55537451 AGAAAACCGA
55537461 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
55537476 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
55537490 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
55537505 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
55537521 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
55537536 ATA
1 ATA
55537539 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:55540512 original size:46 final size:46
Alignment explanation
Indices: 55540445--55540618 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
55540435 TGTAACCCGC
*
55540445 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
55540491 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
55540541 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
55540583 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55540619 ATGCTCAACC
Statistics
Matches: 110, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 1 0.01
44 3 0.03
45 28 0.25
46 35 0.32
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:55540611 original size:92 final size:93
Alignment explanation
Indices: 55540453--55540622 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
55540443 GCCCATAAGT
* *
55540453 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
55540518 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
55540546 GAACTCGGACTCAACTCAACGAGTTCGGAC-ATCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
55540610 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55540623 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 46 0.62
93 28 0.38
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGATCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55544821 original size:94 final size:90
Alignment explanation
Indices: 55544595--55544860 Score: 232
Period size: 94 Copynumber: 2.9 Consensus size: 90
55544585 TGGGGTAAGG
** * * *
55544595 TGCCGATGCCATGTCCCAGACATGGTCTTACATAAGCTCTAGCATATCTATGCCTATGCTGTGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCT-TA-CATAT-TAGGCCGATGC-ATGTC
* *
55544660 CCAGACATGGTCTTACACTGACACATCTCG
62 CCAGACAT-GTCTTACAATGACACATCTCA
* * * * * * *
55544690 TAGCTGATG-TATGTCCCAGAAAT-GTCTTATACTGGCTTACATCTTAAGGCCGATGCATGTCCG
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATT-AGGCCGATGCATGTCCC
* *
55544753 AGACATGTCTTACAATAGCACTCGTCTCAA
64 AGACATGTCTTACAAT-G-ACACATCTC-A
* *
55544783 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTTCATAATGT-GGCCGGTGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACAT-AT-TAGGCCGATGCATGTCCC
*
55544847 AAACATGTCTTACA
64 AGACATGTCTTACA
55544861 CTAGTTCACA
Statistics
Matches: 136, Mismatches: 26, Indels: 19
0.75 0.14 0.10
Matches are distributed among these distances:
90 9 0.07
91 13 0.10
92 25 0.18
93 15 0.11
94 53 0.39
95 14 0.10
96 7 0.05
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (90 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTTACATATTAGGCCGATGCATGTCCCAG
ACATGTCTTACAATGACACATCTCA
Found at i:55546994 original size:24 final size:23
Alignment explanation
Indices: 55546960--55547006 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
55546950 GCTTGTATGG
*
55546960 AAAAATTTG-AAGGAAAGGGAAAAT
1 AAAAATGTGAAAGG-AA-GGAAAAT
55546984 AAAAATGTGAAAGGAAGGAAAAT
1 AAAAATGTGAAAGGAAGGAAAAT
55547007 TTGGGCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 10 0.48
25 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.26, T:0.15
Consensus pattern (23 bp):
AAAAATGTGAAAGGAAGGAAAAT
Found at i:55553044 original size:15 final size:15
Alignment explanation
Indices: 55553024--55553053 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
55553014 GCTAGGTGAT
55553024 AACATGGTGATTGAA
1 AACATGGTGATTGAA
55553039 AACATGGTGATTGAA
1 AACATGGTGATTGAA
55553054 GTATGAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AACATGGTGATTGAA
Found at i:55559596 original size:53 final size:54
Alignment explanation
Indices: 55559516--55559667 Score: 200
Period size: 53 Copynumber: 2.8 Consensus size: 54
55559506 TTCCTTTTTA
* * *
55559516 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
55559569 AACTCACCATTGTCATGCCTTGGCATGGTCTTACATGAT-TCGCTTGCCTTGTAG
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATC-CTTGCCTTATAG
* *
55559623 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
55559668 AAACCCTAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.50
54 38 0.45
55 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:55568080 original size:42 final size:41
Alignment explanation
Indices: 55568000--55568149 Score: 153
Period size: 41 Copynumber: 3.6 Consensus size: 41
55567990 GAGCTTGGTC
55568000 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
55568041 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
55568083 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
* *
55568124 TCGAAGGGCTTTTGAGTCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
55568150 GAGTCGGACT
Statistics
Matches: 89, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 36 0.40
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:55568132 original size:41 final size:40
Alignment explanation
Indices: 55567980--55568135 Score: 140
Period size: 41 Copynumber: 3.8 Consensus size: 40
55567970 GCTAATCGGG
* *
55567980 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
* *
55568021 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC--TTTAGAGCCAGT
* *
55568064 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTAGAGCCAGT
*
55568104 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTT
55568136 TGAGTCGGTG
Statistics
Matches: 94, Mismatches: 9, Indels: 24
0.74 0.07 0.19
Matches are distributed among these distances:
39 3 0.03
40 15 0.16
41 41 0.44
42 19 0.20
43 12 0.13
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTAGAGCCAGT
Found at i:55576419 original size:42 final size:41
Alignment explanation
Indices: 55576339--55576488 Score: 162
Period size: 41 Copynumber: 3.6 Consensus size: 41
55576329 GAGCTTGGTC
55576339 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
* *
55576380 TCGAAGGGCTTTTTAGAGCCAGTG-TCATAACCGGACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAGTGCTAATAACCGAACTTAGTT
* * * * * *
55576422 CCGAAGGGCCTTCGAGCCAGTAGTCTAAT--CCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAGT-G-CTAATAACCGAACTTAGTT
*
55576463 TCGAAGGGCTTTTGAGCCGGTGCTAA
1 TCGAAGGGCTTTTGAGCCAGTGCTAA
55576489 GAGTCGGACT
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 4 0.04
40 9 0.10
41 37 0.41
42 28 0.31
43 12 0.13
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAGTGCTAATAACCGAACTTAGTT
Found at i:55576471 original size:41 final size:40
Alignment explanation
Indices: 55576319--55576488 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
55576309 GCTAATCGGG
*
55576319 GTCTAAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGT
1 GTCT-AATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
* *
55576360 G-CTAATAACCGAACTTAGTTTCGAAGGGCTTTTTAGAGCCAGT
1 GTCTAAT--CCGAGCTTAGTCTCGAAGGGC-TTTT-GAGCCAGT
* *
55576403 GTCATAA-CCG-GACTTAGT-TCCGAAGGGCCTTCGAGCCAGT
1 GTC-TAATCCGAG-CTTAGTCT-CGAAGGGCTTTTGAGCCAGT
* *
55576443 AGTCTAATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCGGT
1 -GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
55576484 G-CTAA
1 GTCTAA
55576489 GAGTCGGACT
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.07
40 14 0.13
41 50 0.47
42 23 0.21
43 9 0.08
44 1 0.01
45 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAATCCGAGCTTAGTCTCGAAGGGCTTTTGAGCCAGT
Found at i:55584096 original size:46 final size:46
Alignment explanation
Indices: 55583906--55584117 Score: 214
Period size: 46 Copynumber: 4.6 Consensus size: 46
55583896 TCAATTGATT
* * * * * *
55583906 GAAGAAACCACAAATCCTGTACCCCTGAGTTATAGTGGGATGTATT
1 GAAGAAACCACAAATCTTATACCCCTGAGTTACAATGGGATGGATG
* * * * *
55583952 GAGGAAGA-TACAAATCTTATACCCCTGAGTTGCAGTGGGATGGATT
1 GAAGAA-ACCACAAATCTTATACCCCTGAGTTACAATGGGATGGATG
* * * *
55583998 GAAGATGA-TAAAAATCTTATACCCTTGAGTTACAATGGGATGGATG
1 GAAGA-AACCACAAATCTTATACCCCTGAGTTACAATGGGATGGATG
* *
55584044 GAAGAAACCACAAATTTTATACCCTTGAGTTACAATGGGATGGATG
1 GAAGAAACCACAAATCTTATACCCCTGAGTTACAATGGGATGGATG
*
55584090 GAAGAAACCACAAATTTTAT-CTCCCTGA
1 GAAGAAACCACAAATCTTATAC-CCCTGA
55584118 AGTTGTAGTG
Statistics
Matches: 143, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
45 2 0.01
46 140 0.98
47 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (46 bp):
GAAGAAACCACAAATCTTATACCCCTGAGTTACAATGGGATGGATG
Found at i:55584949 original size:45 final size:46
Alignment explanation
Indices: 55584837--55584951 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
55584827 AGATCGAAGC
55584837 CACAATCCTTATC-TCTTTGAAGTTGTAGTAGAGCAGGATAAAAATA
1 CACAATCCTTATCTTC-TTGAAGTTGTAGTAGAGCAGGATAAAAATA
* * * * * * * *
55584883 CACAAACCTTATCTCCCTGAAGTTGTAGTGGAGTAGGTTGAAATTA
1 CACAATCCTTATCTTCTTGAAGTTGTAGTAGAGCAGGATAAAAATA
*
55584929 C-CAATTCTTATCTTCTTGAAGTT
1 CACAATCCTTATCTTCTTGAAGTT
55584952 TCAGCAGAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
45 18 0.32
46 37 0.66
47 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (46 bp):
CACAATCCTTATCTTCTTGAAGTTGTAGTAGAGCAGGATAAAAATA
Found at i:55586394 original size:12 final size:12
Alignment explanation
Indices: 55586360--55586394 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
55586350 TTAAAAAAAC
55586360 TATTTTGTTTAA
1 TATTTTGTTTAA
*
55586372 TATTCTGTTTAA
1 TATTTTGTTTAA
*
55586384 TATTTTATTTA
1 TATTTTGTTTA
55586395 TTTATTCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (12 bp):
TATTTTGTTTAA
Found at i:55587750 original size:30 final size:29
Alignment explanation
Indices: 55587714--55587774 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
55587704 AAACGAAAGT
*
55587714 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGAGATTT-AACTAGC
55587744 TTTGGCACTAAGTGTGAGATTTAACTAGC
1 TTTGGCACTAAGTGTGAGATTTAACTAGC
55587773 TT
1 TT
55587775 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGAGATTTAACTAGC
Found at i:55595831 original size:19 final size:19
Alignment explanation
Indices: 55595804--55595853 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
55595794 GGTATAGAGC
*
55595804 ACACGCCCGTGTGCTAGGG
1 ACACGCCCGTGTGATAGGG
*
55595823 ACACACCCGTGTGATAGGG
1 ACACGCCCGTGTGATAGGG
55595842 ACACGCCCGTGT
1 ACACGCCCGTGT
55595854 CCTGAACCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (19 bp):
ACACGCCCGTGTGATAGGG
Found at i:55600851 original size:50 final size:49
Alignment explanation
Indices: 55600733--55600862 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
55600723 CTAGTACGCA
* * **
55600733 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
55600782 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
*
55600832 TAGTAGCCCGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
55600863 TCACAGTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 29 0.40
50 40 0.55
51 4 0.05
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:55600908 original size:101 final size:99
Alignment explanation
Indices: 55600733--55600919 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 99
55600723 CTAGTACGCA
* * * *
55600733 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCCGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
55600798 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * * *
55600832 TAGTAGCCCGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCTTGCAC
1 TAGTAGCCCGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
55600896 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
55600920 AATAGATCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
98 4 0.05
99 29 0.39
101 42 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCCGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:55603738 original size:46 final size:46
Alignment explanation
Indices: 55603640--55603851 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 46
55603630 TAACCGTGCT
*
55603640 GATGCATGTCCCAAACATGTCTTACACTAG--CACATCTCGTA-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCG-AGGCC
* * * * *
55603684 GACGCATGTCCCAGACATGTATGACACTGGCTAACATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAGGCC
* * * * *
55603730 GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATACT-GTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCACAT-CTCGAGGCC
* * * * * *
55603776 GATGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAGGCC
55603822 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
55603852 GGCACACAAA
Statistics
Matches: 139, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
44 25 0.18
45 3 0.02
46 86 0.62
47 15 0.11
48 10 0.07
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCACATCTCGAGGCC
Found at i:55610374 original size:22 final size:20
Alignment explanation
Indices: 55610326--55610374 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
55610316 TCTTAACTAC
*
55610326 TCAAATCCATAGCCAAAACA
1 TCAAATCAATAGCCAAAACA
55610346 TACCAAATCAATATGCCAAAATCA
1 T--CAAATCAATA-GCCAAAA-CA
55610370 TCAAA
1 TCAAA
55610375 CTTACATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 13 0.54
23 7 0.29
24 3 0.12
ACGTcount: A:0.51, C:0.27, G:0.04, T:0.18
Consensus pattern (20 bp):
TCAAATCAATAGCCAAAACA
Found at i:55611230 original size:43 final size:43
Alignment explanation
Indices: 55611138--55611287 Score: 160
Period size: 43 Copynumber: 3.5 Consensus size: 43
55611128 TATCCTAGAT
* * * ** *
55611138 ATGGTCTTACATGTTATCACATATA-GATGCCACTGTCTTAGAC
1 ATGGTCTTACATGTAATCACA-ATACAATGCCAATGTCCCAAAC
* * * *
55611181 AGGGTCTTACATGAAATC-GAATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACAAT-ACAATGCCAATGTCCCAAAC
*
55611224 ATGGTCTTACACGTAATCACAATACAATGCCAATGTCCCAAAC
1 ATGGTCTTACATGTAATCACAATACAATGCCAATGTCCCAAAC
*
55611267 TTGGTCTTACATGTAATCACA
1 ATGGTCTTACATGTAATCACA
55611288 TATCGGTAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 82 0.92
44 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACAATACAATGCCAATGTCCCAAAC
Found at i:55616261 original size:45 final size:45
Alignment explanation
Indices: 55616211--55616301 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
55616201 CCAAAACATG
*
55616211 TGTCACATACATCATGAACTCAGACCACAACTTAACGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAACGAGTTCAGA
* *
55616256 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAACGAGTTCAGA
55616301 T
1 T
55616302 CACATAATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAACGAGTTCAGA
Found at i:55626100 original size:51 final size:51
Alignment explanation
Indices: 55626045--55626193 Score: 136
Period size: 51 Copynumber: 3.1 Consensus size: 51
55626035 CTACCACATA
* *
55626045 ACATGTAGCACATCCATAATGAACTTGGACCTCTCAACAAGCTTGGATGTT
1 ACATGTAGCACATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTT
* * * * ** *
55626096 ACATGAATCACATACATTATGAAC-TCAATCCTCTCAATGAGCTCGGA--TT
1 ACATGTAGCACATCCATAATGAACTTGGA-CCTCTCAACGAGCTCGGATGTT
*
55626145 -C-T-T-G--CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGCT
1 ACATGTAGCACATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTT
55626190 ACAT
1 ACAT
55626194 ATCTTATGAA
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
43 29 0.39
44 2 0.03
45 1 0.01
46 1 0.01
47 2 0.03
48 1 0.01
49 2 0.03
50 2 0.03
51 35 0.47
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (51 bp):
ACATGTAGCACATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTT
Found at i:55635478 original size:22 final size:20
Alignment explanation
Indices: 55635430--55635478 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 20
55635420 TATTAACTAC
*
55635430 TCAAATCCATAGCCAAAACA
1 TCAAATCAATAGCCAAAACA
55635450 TAGCAAATCAATATGCCAAAATCA
1 T--CAAATCAATA-GCCAAAA-CA
55635474 TCAAA
1 TCAAA
55635479 CTTACATAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
22 13 0.54
23 7 0.29
24 3 0.12
ACGTcount: A:0.51, C:0.24, G:0.06, T:0.18
Consensus pattern (20 bp):
TCAAATCAATAGCCAAAACA
Found at i:55636292 original size:43 final size:43
Alignment explanation
Indices: 55636227--55636396 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
55636217 AGCTCGTACA
* * * * *
55636227 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAATCACATATCG
* * * *
55636269 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAAATAACG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAATCACATATCG
* * *
55636312 ATGCAAATGTCCCA-AAAATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACAA-GGTCTTACACGTAATCACATAT-CG
* *
55636355 ATGCCAATG--CCATGGACATGGTCTTACATGTAATCACATATC
1 ATGCCAATGTCCCA--GACAAGGTCTTACACGTAATCACATATC
55636397 AGTAACCTAA
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 85 0.84
44 4 0.04
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAAGGTCTTACACGTAATCACATATCG
Found at i:55637017 original size:30 final size:30
Alignment explanation
Indices: 55636977--55637084 Score: 105
Period size: 30 Copynumber: 3.5 Consensus size: 30
55636967 CACTAAGCTT
55636977 TCAT-AATTCATCATCAAACATTCAAAAAC
1 TCATGAATTCATCATCAAACATTCAAAAAC
* *
55637006 ACATGAATTCATCAACAGAA-ATTCACAACTAAGC
1 TCATGAATTCATCATCA-AACATTCA-AA--AA-C
*
55637040 TTTCA-CAATTCATCATCAAACATTCAAAAAC
1 --TCATGAATTCATCATCAAACATTCAAAAAC
55637071 TCATGAATTCATCA
1 TCATGAATTCATCA
55637085 ATGGCAATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 19
0.72 0.07 0.22
Matches are distributed among these distances:
29 6 0.10
30 25 0.40
31 5 0.08
32 2 0.03
33 2 0.03
34 5 0.08
35 16 0.25
36 2 0.03
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (30 bp):
TCATGAATTCATCATCAAACATTCAAAAAC
Found at i:55637050 original size:65 final size:65
Alignment explanation
Indices: 55636968--55637099 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 65
55636958 GATACCTATC
*
55636968 ACTAAGCTTTCATAATTCATCATCAAACATTCAAAAACACATGAATTCATCAACAGAAATTCACA
1 ACTAAGCTTTCACAATTCATCATCAAACATTCAAAAACACATGAATTCATCAACAGAAATTCACA
* ** *
55637033 ACTAAGCTTTCACAATTCATCATCAAACATTCAAAAACTCATGAATTCATCAATGGCAATTCACA
1 ACTAAGCTTTCACAATTCATCATCAAACATTCAAAAACACATGAATTCATCAACAGAAATTCACA
55637098 AC
1 AC
55637100 ATCATCAATA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (65 bp):
ACTAAGCTTTCACAATTCATCATCAAACATTCAAAAACACATGAATTCATCAACAGAAATTCACA
Found at i:55638554 original size:21 final size:22
Alignment explanation
Indices: 55638522--55638562 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
55638512 TTTTTTTTAT
*
55638522 ATAAATTGTGATGTTTAGAAGC
1 ATAAATTGTGATGTTAAGAAGC
55638544 ATAAA-TGTGATGTTAAGAA
1 ATAAATTGTGATGTTAAGAA
55638563 AACCATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.41, C:0.02, G:0.22, T:0.34
Consensus pattern (22 bp):
ATAAATTGTGATGTTAAGAAGC
Found at i:55645754 original size:47 final size:46
Alignment explanation
Indices: 55645703--55645835 Score: 160
Period size: 46 Copynumber: 2.9 Consensus size: 46
55645693 GAATTATAAG
* *
55645703 GCATCCGAACTCGTTGAATTGCGTTCTGAGTTCACTTATGGATGCT-A
1 GCATCCGAACTCGTTGAGTTGTGTTCTGAGTTCA-TTATGGATG-TGA
* * *
55645750 GCATCTGAACTCATTGCGTTGTGTTCTGAGTTCATTATGGATGTGA
1 GCATCCGAACTCGTTGAGTTGTGTTCTGAGTTCATTATGGATGTGA
* * * *
55645796 ACACCCGAGCTCGTTGAGTTGTGTTCCGAGTTCATTATGG
1 GCATCCGAACTCGTTGAGTTGTGTTCTGAGTTCATTATGG
55645836 GTGAAATTAT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
45 1 0.01
46 43 0.59
47 29 0.40
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGTGTTCTGAGTTCATTATGGATGTGA
Found at i:55652700 original size:47 final size:47
Alignment explanation
Indices: 55652649--55652781 Score: 171
Period size: 46 Copynumber: 2.9 Consensus size: 47
55652639 GAATTATGAG
*
55652649 GCATCCGAACTCGTTGAGTTGTGTTCTGAGTTCACTTATGGATG-CAA
1 GCATCCGAACTCATTGAGTTGTGTTCTGAGTTCA-TTATGGATGTCAA
* *
55652696 GCATCCGAACTCATTCAGTTGTGTTCTGAGTTCATTATGGATGTGAA
1 GCATCCGAACTCATTGAGTTGTGTTCTGAGTTCATTATGGATGTCAA
* * * * *
55652743 -CACCCGAGCTCTTTGAGTTGCGTTCCGAGTTCATTATGG
1 GCATCCGAACTCATTGAGTTGTGTTCTGAGTTCATTATGG
55652782 GTGAAATTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 42 0.55
47 34 0.45
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (47 bp):
GCATCCGAACTCATTGAGTTGTGTTCTGAGTTCATTATGGATGTCAA
Found at i:55654677 original size:28 final size:29
Alignment explanation
Indices: 55654591--55654688 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
55654581 TCATGAATTG
* *
55654591 GCACTAAGTGTGCGGGTTCAAAT-TGTATA
1 GCACTAAGTGTGCGAGTTCGAATAT-TATA
* *
55654620 GCACTAAGTGT-CGAGTTTGATTA-TATA
1 GCACTAAGTGTGCGAGTTCGAATATTATA
*
55654647 GCACTAAGTGTGCGAGTTCGACTATTA-A
1 GCACTAAGTGTGCGAGTTCGAATATTATA
55654675 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55654689 GGCTTATTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 15 0.25
28 32 0.53
29 13 0.22
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTCGAATATTATA
Found at i:55662370 original size:28 final size:29
Alignment explanation
Indices: 55662305--55662431 Score: 165
Period size: 28 Copynumber: 4.5 Consensus size: 29
55662295 TCATGAATTG
* *
55662305 GCACTAAGTGTGCG-GGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTTTC-AATTATATA
55662334 GCACTAAGTGTGCGAGTTTC-ATTATATA
1 GCACTAAGTGTGCGAGTTTCAATTATATA
55662362 GCACTAAGTGTGCGAGTTTC-ATTATATA
1 GCACTAAGTGTGCGAGTTTCAATTATATA
* *
55662390 GCACTAAGTGTGCGAG-TTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTCAATTATAT-A
55662418 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55662432 GGCTTATTAT
Statistics
Matches: 92, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
27 4 0.04
28 70 0.76
29 14 0.15
30 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTCAATTATATA
Found at i:55666369 original size:71 final size:71
Alignment explanation
Indices: 55666285--55666448 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
55666275 CGATTTGTCT
55666285 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
55666350 CTTTCA
66 CTTTCA
* *
55666356 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
55666421 CTTTCA
66 CTTTCA
55666427 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
55666449 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:55666487 original size:71 final size:70
Alignment explanation
Indices: 55666285--55666482 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
55666275 CGATTTGTCT
* * * * *
55666285 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55666350 CTTTCA
65 CTTTCA
* * * *
55666356 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
55666421 CTTTCA
65 CTTTCA
* *
55666427 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
55666483 TACATGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:55669832 original size:27 final size:27
Alignment explanation
Indices: 55669794--55669849 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
55669784 TTCAGGAGTG
55669794 TGAAAAAATCTAGGTAAGTGTATTCTA
1 TGAAAAAATCTAGGTAAGTGTATTCTA
55669821 TGAAAAAATCTAGGTAAGTGTATTCTA
1 TGAAAAAATCTAGGTAAGTGTATTCTA
55669848 TG
1 TG
55669850 TTAAATGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (27 bp):
TGAAAAAATCTAGGTAAGTGTATTCTA
Found at i:55669981 original size:17 final size:17
Alignment explanation
Indices: 55669959--55669992 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55669949 TGGTAAAGAG
*
55669959 CCATGTCATCATATGAC
1 CCATGTCAACATATGAC
55669976 CCATGTCAACATATGAC
1 CCATGTCAACATATGAC
55669993 AATGAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (17 bp):
CCATGTCAACATATGAC
Found at i:55677262 original size:42 final size:43
Alignment explanation
Indices: 55677165--55677309 Score: 145
Period size: 43 Copynumber: 3.4 Consensus size: 43
55677155 TGCCAACGTT
* * *
55677165 CCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTC
1 CCAGACATGGTCTTACACGAAATCAAATATCGATGCCACTGTC
* * *
55677208 CCAAACAGGGTCTTACACGAAATCAAATA-CGATGTCGA-TGTC
1 CCAGACATGGTCTTACACGAAATCAAATATCGATG-CCACTGTC
*
55677250 CCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTC
1 CCAGACATGGTCTTACACG-AAATCA-AATATCGATGCC-ACTGTC
**
55677294 CCAGACGCGGTCTTAC
1 CCAGACATGGTCTTAC
55677310 CAAAAACACA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.31
43 33 0.39
44 25 0.30
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
CCAGACATGGTCTTACACGAAATCAAATATCGATGCCACTGTC
Found at i:55677769 original size:40 final size:40
Alignment explanation
Indices: 55677714--55677794 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
55677704 ACATTTTAGT
55677714 CCCTAATTCACAAAATCACAAAATACACAAAATTTCCTTA
1 CCCTAATTCACAAAATCACAAAATACACAAAATTTCCTTA
55677754 CCCTAATTCACAAAATCACAAAATACACAAAATTTCCTTA
1 CCCTAATTCACAAAATCACAAAATACACAAAATTTCCTTA
55677794 C
1 C
55677795 ACATATGCTT
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:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (40 bp):
CCCTAATTCACAAAATCACAAAATACACAAAATTTCCTTA
Found at i:55679962 original size:27 final size:27
Alignment explanation
Indices: 55679878--55679962 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
55679868 TTCTTTCGTT
* *
55679878 GTTCGCCATGAATACCATTCCTTCATA
1 GTTCGCCATGAGTACCATTCCTTTATA
* * * *
55679905 GTTCGCCCTAAGTACCATTCCATTATG
1 GTTCGCCATGAGTACCATTCCTTTATA
* *
55679932 GTTCGCCATGAGTACCATTCTTTTAAA
1 GTTCGCCATGAGTACCATTCCTTTATA
55679959 GTTC
1 GTTC
55679963 TCCACAGAGG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (27 bp):
GTTCGCCATGAGTACCATTCCTTTATA
Found at i:55680085 original size:26 final size:27
Alignment explanation
Indices: 55680048--55680146 Score: 132
Period size: 26 Copynumber: 3.7 Consensus size: 27
55680038 TCAAAGATTT
* *
55680048 GCCATAAAGGCTTTATTTTCATGGTTT
1 GCCACAAAGGCTTTATTTTCATGGTTC
*
55680075 G-CACAAAGGCTTT-CTTTCATGGTTC
1 GCCACAAAGGCTTTATTTTCATGGTTC
*
55680100 GCCACAAA-GCTTTCTTTTCATGGTTC
1 GCCACAAAGGCTTTATTTTCATGGTTC
55680126 GCCACAAAGGCTTTCATTTTC
1 GCCACAAAGGCTTT-ATTTTC
55680147 TAATGTGTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
25 16 0.25
26 36 0.57
27 6 0.10
28 5 0.08
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
GCCACAAAGGCTTTATTTTCATGGTTC
Found at i:55687819 original size:46 final size:47
Alignment explanation
Indices: 55687647--55687819 Score: 167
Period size: 46 Copynumber: 3.7 Consensus size: 47
55687637 AACCCGCCCC
* * * * *
55687647 TAAGTGAAATCAGACTCAACTCAATGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCATCCA
* * * *
55687693 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-ATTTGCATCCA
* * *
55687741 TCA-CGAACTCGGACTCAACTCAACAAGCTCGGA-CATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCATCCA
*
55687786 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
55687820 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 53 0.52
47 29 0.29
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCATCCA
Found at i:55687838 original size:46 final size:45
Alignment explanation
Indices: 55687697--55687838 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 45
55687687 CATCCATAAA
55687697 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * * * *
55687744 CGAACTCGGACTCAACTCAACAAGCTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
55687790 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
55687836 TGA
1 TGA
55687839 CATGTCACTT
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 31 0.42
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:55689299 original size:49 final size:49
Alignment explanation
Indices: 55689235--55689365 Score: 174
Period size: 49 Copynumber: 2.7 Consensus size: 49
55689225 ACATCAAAGT
* *
55689235 CGATGCCATGTCCCAGATAGGTCTTACACTGACTTTTATATATCGAG-GC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * * *
55689284 CGATGTCGTGTCCCAGAAAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGC
55689333 CGATGCCATGTCCCAGATAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGAC
55689366 ACACAACAAG
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:55689528 original size:46 final size:46
Alignment explanation
Indices: 55689423--55689640 Score: 289
Period size: 46 Copynumber: 4.8 Consensus size: 46
55689413 TATATCTCGA
* *
55689423 GGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTATTA-AT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT--TATAATAT
* * * * *
55689470 -GCCAATGTATGTCTCAAACATGTTTTACACTAGCTCTTATAATAT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATAATAT
* *
55689515 GGCCGATGCATGT-CCAGACATGTCTTACACTGGCTCTTATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATAATAT
* *
55689560 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTTATAATGT
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATAATAT
*
55689606 GGCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGC
55689641 ACACATATCA
Statistics
Matches: 152, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
44 4 0.03
45 42 0.28
46 106 0.70
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATAATAT
Found at i:55689573 original size:91 final size:91
Alignment explanation
Indices: 55689423--55689638 Score: 285
Period size: 91 Copynumber: 2.4 Consensus size: 91
55689413 TATATCTCGA
* *
55689423 GGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCGTATTAATGCCAATGTATGTCTCAAA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTC-TATTAATGCCAATGCATGTCCCAAA
*
55689488 CATGTTTTACACTAGCTCTTATAATAT
65 CATGTCTTACACTAGCTCTTATAATAT
** *
55689515 GGCCGATGCATGT-CCAGACATGTCTTACACTGGCTCT-TA-TAATGTGGCCGATGCATGTCCCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCTATTAA--T-GCCAATGCATGTCCCA
* * *
55689577 GACATGTCTTACACTGGCTCTTATAATGT
63 AACATGTCTTACACTAGCTCTTATAATAT
*
55689606 GGCTGATGCATGTCCCAGACATGTCTTACACTA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTA
55689639 GCACACATAT
Statistics
Matches: 109, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
88 3 0.03
89 2 0.02
90 1 0.01
91 72 0.66
92 31 0.28
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (91 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAACTCTCTATTAATGCCAATGCATGTCCCAAAC
ATGTCTTACACTAGCTCTTATAATAT
Found at i:55692150 original size:54 final size:54
Alignment explanation
Indices: 55692068--55692223 Score: 219
Period size: 54 Copynumber: 2.9 Consensus size: 54
55692058 AAGCGTCCTA
*
55692068 GTGGCTATGCCACAATTATCTAATCTGGTGGCTTTGCCACATATATCTG-TCATG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTC-TG
*
55692122 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTG
* * * *
55692176 GTGGCTCTGCCACAA-TATCTGTATCTGGTGACTTCGTCACA-ATATCTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTGGCTTTGCCACATATATCTG
55692224 GCATCCTCTC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
53 13 0.14
54 78 0.84
55 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCCACATATATCTGTTCTG
Found at i:55692201 original size:32 final size:27
Alignment explanation
Indices: 55692068--55692205 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
55692058 AAGCGTCCTA
* *
55692068 GTGGCTATGCCACA-ATTATCTAATCTG
1 GTGGCTCTGCCACATA-TATCTGATCTG
*
55692095 GTGGCTTTGCCACATATATCTG-TCATG
1 GTGGCTCTGCCACATATATCTGATC-TG
*
55692122 GTGGCTATGCCACA-ATTATCTGATCTG
1 GTGGCTCTGCCACATA-TATCTGATCTG
*
55692149 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACATATATCTGATCTG
55692176 GTGGCTCTGCCACA-ATATCTGTATCTG
1 GTGGCTCTGCCACATATATCTG-ATCTG
55692203 GTG
1 GTG
55692206 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
26 10 0.10
27 85 0.86
28 4 0.04
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACATATATCTGATCTG
Found at i:55692216 original size:27 final size:27
Alignment explanation
Indices: 55692068--55692223 Score: 162
Period size: 27 Copynumber: 5.8 Consensus size: 27
55692058 AAGCGTCCTA
* *
55692068 GTGGCTATGCCACAATTATCT-AATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
*
55692095 GTGGCTTTGCCACATATATCTG--TCATG
1 GTGGCTCTGCCACA-ATATCTGTATC-TG
*
55692122 GTGGCTATGCCACAATTATCTG-ATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
55692149 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
55692176 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
55692203 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
55692224 GCATCCTCTC
Statistics
Matches: 115, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
26 12 0.10
27 99 0.86
28 4 0.03
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:55692217 original size:81 final size:80
Alignment explanation
Indices: 55692068--55692223 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 80
55692058 AAGCGTCCTA
* *
55692068 GTGGCTATGCCACAATTATCTAATCTGGTGGCTTTGCCACATATATCTGTCATGGTGGCTATGCC
1 GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCATGGTGACTATGCC
55692133 ACAATTATCTGATCTG
66 ACAA-TATCTGATCTG
* **
55692149 GTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGT-ATCTGGTGACT-T
1 GTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATATATCTGTCA--TGGTGACTAT
*
55692210 CGTCACAATATCTG
63 -GCCACAATATCTG
55692224 GCATCCTCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
79 1 0.02
80 17 0.26
81 47 0.72
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (80 bp):
GTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCATGGTGACTATGCC
ACAATATCTGATCTG
Found at i:55695500 original size:18 final size:18
Alignment explanation
Indices: 55695477--55695511 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55695467 TTCTTAGGTG
55695477 GTAGTCGGTTATCAACTT
1 GTAGTCGGTTATCAACTT
**
55695495 GTAGTCTTTTATCAACT
1 GTAGTCGGTTATCAACT
55695512 CCAACCATCT
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:0.17, G:0.17, T:0.43
Consensus pattern (18 bp):
GTAGTCGGTTATCAACTT
Found at i:55700315 original size:49 final size:49
Alignment explanation
Indices: 55700252--55700379 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
55700242 ACATCAAAGT
*
55700252 CGATGCCATGTCCCAGATAGGTCTTACACTAACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGATAGGTCTTACACTAACTCTCATATATCGAGGC
* * * * ** * * *
55700301 CGATGTCGTGTCCCAGAAAGGTCTTACATTGGCTCTCATCTATCGATGT
1 CGATGCCATGTCCCAGATAGGTCTTACACTAACTCTCATATATCGAGGC
*
55700350 CGATGCCATGTCCCAAATAGGTCTTACACT
1 CGATGCCATGTCCCAGATAGGTCTTACACT
55700380 GACACACAGT
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (49 bp):
CGATGCCATGTCCCAGATAGGTCTTACACTAACTCTCATATATCGAGGC
Found at i:55700405 original size:98 final size:97
Alignment explanation
Indices: 55700212--55700405 Score: 223
Period size: 98 Copynumber: 2.0 Consensus size: 97
55700202 GCCGACACCA
* *
55700212 TGTCCCAGACATGGTCTTACATTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGATAGGTCTT
1 TGTCCCAGACAAGGTCTTACATTGGCTAGCACATCAAAGTCGATGCCATGTCCCAAATAGGTCTT
*** * *
55700277 ACACTAACTTTCATATATCGAGGCCGATGTCG
66 ACACTAACACACATATAGCGACGCCGATGTCG
** * *
55700309 TGTCCCAGA-AAGGTCTTACATTGGCTCTCATCTATCGATGTCGATGCCATGTCCCAAATAGGTC
1 TGTCCCAGACAAGGTCTTACATTGGCTAGCA-C-ATCAAAGTCGATGCCATGTCCCAAATAGGTC
*
55700373 TTACACTGACACACAGTA-AGCTGACGCC-ATGTC
64 TTACACTAACACACA-TATAGC-GACGCCGATGTC
55700406 CCCAGACAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
96 18 0.22
97 10 0.12
98 46 0.57
99 7 0.09
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (97 bp):
TGTCCCAGACAAGGTCTTACATTGGCTAGCACATCAAAGTCGATGCCATGTCCCAAATAGGTCTT
ACACTAACACACATATAGCGACGCCGATGTCG
Found at i:55700546 original size:46 final size:46
Alignment explanation
Indices: 55700491--55700613 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
55700481 TCTTAATGCT
* * *
55700491 GATGTATGTCCCAAACATGTCTTACAGTGGCTCTTATAATGTGACC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTTATAATGTGACC
* *
55700537 GATGCATGTCCCAGATATGTCTTACACTGGCTCTTATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTTATAATGTGACC
55700583 GATGCATGTCCCAGACATGTCTTACACTGGC
1 GATGCATGTCCCAGACATGTCTTACACTGGC
55700614 ACACATATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTTATAATGTGACC
Found at i:55709466 original size:25 final size:25
Alignment explanation
Indices: 55709429--55709487 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
55709419 ATGCTTAATT
55709429 GTGAAAAAGGACTAAATCGCATAAA
1 GTGAAAAAGGACTAAATCGCATAAA
*
55709454 GTGAAAAATGACTAAATCGCATAAA
1 GTGAAAAAGGACTAAATCGCATAAA
55709479 GTGAAAAAG
1 GTGAAAAAG
55709488 TCCTATTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (25 bp):
GTGAAAAAGGACTAAATCGCATAAA
Found at i:55711269 original size:40 final size:41
Alignment explanation
Indices: 55711199--55711456 Score: 270
Period size: 40 Copynumber: 6.5 Consensus size: 41
55711189 GAATCACGTA
* * **
55711199 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGATCTTAACCCGGATTTAG-TAACTCGCACAAATG
* *
55711238 CCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGATCTTAACCCGGATT-TAGTAACTCGCACAAATG
55711278 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGATCTTAACCCGGATTTAGTAACTCGCACAAATG
**
55711318 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGATCTTAACCCGGATTTAGTAACTCGCACAAATG
*
55711358 CCTTC-GGATCTTAATCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGATCTTAACCCGGATTTAGTAACTCGCACAAATG
** * * *
55711398 CCTTC--GATCTTAGTCCGGATATAGTCACTTAGCACAAA-G
1 CCTTCGGGATCTTAACCCGGATTTAGTAAC-TCGCACAAATG
*
55711437 CCTTCGGGA-CTTAGCCCGGA
1 CCTTCGGGATCTTAACCCGGA
55711457 CATCATTCGA
Statistics
Matches: 194, Mismatches: 16, Indels: 17
0.85 0.07 0.07
Matches are distributed among these distances:
39 41 0.21
40 149 0.77
41 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
CCTTCGGGATCTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:55711344 original size:80 final size:80
Alignment explanation
Indices: 55711232--55711456 Score: 316
Period size: 80 Copynumber: 2.8 Consensus size: 80
55711222 GCTACTCGTT
* *
55711232 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
55711295 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
*
55711312 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAATCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
55711376 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* * * *
55711392 CAAATGCCTTC-GATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
55711455 GA
65 GA
55711457 CATCATTCGA
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
79 42 0.32
80 88 0.67
81 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:55711440 original size:39 final size:40
Alignment explanation
Indices: 55711232--55711456 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
55711222 GCTACTCGTT
* *
55711232 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
**
55711272 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
55711312 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
*
55711352 CAAATGCCTTCGGATCTTAATCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * *
55711392 CAAATGCCTTC-GATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
55711432 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
55711457 CATCATTCGA
Statistics
Matches: 170, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
39 29 0.17
40 137 0.81
41 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:55718896 original size:48 final size:46
Alignment explanation
Indices: 55718786--55719000 Score: 173
Period size: 46 Copynumber: 4.6 Consensus size: 46
55718776 GTGATTGTGT
* * * * *
55718786 GCTAGTGTAAGACATGTCTCA-GACATGCATCACCCACAAGATGA-GA
1 GCTAGTGTAAGACATGTCT-AGGACATGCATAAGCCTCGAGAT-ACAA
* ** *
55718832 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATAAGCCTCGAGATA--CAA
* * * * * **
55718880 GCTAGTGTAAGACATGTCTAGGACATGCAAAAACATTGAGACAGGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATAAGCCTCGAGATACAA
* * *
55718926 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGACAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATAAGCCTCGAGAT--ACAA
* *
55718974 GCTAGTGTAAGACCTATCTAGGACATG
1 GCTAGTGTAAGACATGTCTAGGACATG
55719001 GCGTCGGCTT
Statistics
Matches: 133, Mismatches: 30, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 70 0.53
48 62 0.47
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATAAGCCTCGAGATACAA
Found at i:55718947 original size:94 final size:94
Alignment explanation
Indices: 55718830--55719000 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 94
55718820 CACAAGATGA
** ***
55718830 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATTTAAGCTAGTGTAAGACAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAGTGTAAGACAT
*
55718895 GTCTAGGACATGCAAAAACATTGAGACAG
66 ATCTAGGACATGCAAAAACATTGAGACAG
* *
55718924 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGACAAGCTAGTGTAAGACCT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAGTGTAAGACAT
55718989 ATCTAGGACATG
66 ATCTAGGACATG
55719001 GCGTCGGCTT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (94 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAGTGTAAGACAT
ATCTAGGACATGCAAAAACATTGAGACAG
Found at i:55720311 original size:21 final size:20
Alignment explanation
Indices: 55720287--55720326 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
55720277 GTCATAGTGG
55720287 CCACACAAGCGTGTTGCCTTT
1 CCACACAAGCGTG-TGCCTTT
**
55720308 CCACACGGGCGTGTGCCTT
1 CCACACAAGCGTGTGCCTT
55720327 GCTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (20 bp):
CCACACAAGCGTGTGCCTTT
Found at i:55728838 original size:39 final size:40
Alignment explanation
Indices: 55728729--55728913 Score: 220
Period size: 40 Copynumber: 4.7 Consensus size: 40
55728719 GCTACTCGTT
* *
55728729 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
55728769 CAAATGCCTTCGGGA-CTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
55728809 CAAATGCCTTC-GATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * *
55728848 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
55728889 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
55728914 CATCATTCGA
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.02
39 35 0.27
40 83 0.63
41 12 0.09
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:55729625 original size:2 final size:2
Alignment explanation
Indices: 55729618--55729643 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55729608 CATGTGAAAC
55729618 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
55729644 GTGCAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55731085 original size:42 final size:43
Alignment explanation
Indices: 55730995--55731085 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 43
55730985 TGAACGGTCT
* ** * *
55730995 GAGTTCGTGATATATGTGAGAATCCGAACTTGTTGAGTGGTCC
1 GAGTTCGTGAGATATGTGAGAATCCGAACTCATTGAGAGATCC
* * *
55731038 AAGTTCGTGAGATATGTG-GCATCCGAGCTCATTGAGAGATCC
1 GAGTTCGTGAGATATGTGAGAATCCGAACTCATTGAGAGATCC
55731080 GAGTTC
1 GAGTTC
55731086 ATTATGGATG
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
42 23 0.59
43 16 0.41
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
GAGTTCGTGAGATATGTGAGAATCCGAACTCATTGAGAGATCC
Found at i:55731116 original size:43 final size:46
Alignment explanation
Indices: 55731057--55731188 Score: 137
Period size: 50 Copynumber: 2.8 Consensus size: 46
55731047 AGATATGTGG
* * *
55731057 CATCCGAGCTCATTGAGAGATCCGAGTTCATTATGGATGC-CA-G-
1 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCTCATGA
* * *
55731100 CATCCAAGCTTGTTGAGAGGTCTGAGTTCA-TAAGGATGCGATTCATGTAA
1 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGC---TCATG--A
55731150 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
1 CATCCAAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
55731189 TGTTACATGT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 8 0.11
43 25 0.35
46 2 0.03
47 1 0.01
50 28 0.39
51 7 0.10
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (46 bp):
CATCCAAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCTCATGA
Found at i:55734800 original size:49 final size:51
Alignment explanation
Indices: 55734634--55734802 Score: 202
Period size: 52 Copynumber: 3.3 Consensus size: 51
55734624 AGGGATACCC
* * * * *
55734634 AGTGGCCTGCACATAGTACCATC-CTTGT-AGTCAAATCTACCTTCTTCATAA
1 AGTGGCCTTCACATAGTA-CAACACTTGTGA-TCAAAGCTATCTTCTTCACAA
*
55734685 ATTGGCCTTCACATAGTACAACACTTGTGATCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACAACACTTGTGATCAAAGCTATC-TTCTTCACAA
* * *
55734737 AGTGGCCTTCACATAGTACCACATTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACAACACTTGTGATCAAAGCTATCTTCTTCACAA
55734786 AGTGGCCTTCACATAGT
1 AGTGGCCTTCACATAGT
55734803 GTAACACCCC
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
49 25 0.24
50 3 0.03
51 38 0.36
52 39 0.37
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACAACACTTGTGATCAAAGCTATCTTCTTCACAA
Found at i:55736194 original size:40 final size:40
Alignment explanation
Indices: 55736149--55736316 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
55736139 CGGAATACAA
*
55736149 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
55736189 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
55736229 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
55736269 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
55736309 CCGGATAT
1 CCGGATAT
55736317 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:55736289 original size:80 final size:80
Alignment explanation
Indices: 55736149--55736316 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
55736139 CGGAATACAA
* * *
55736149 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
55736214 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
55736229 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
55736292 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
55736309 CCGGATAT
1 CCGGATAT
55736317 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:55740259 original size:46 final size:46
Alignment explanation
Indices: 55740192--55740361 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 46
55740182 AACCCGCCCC
* *
55740192 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
55740238 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
55740286 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
55740331 T-AGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
55740362 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 28 0.26
46 31 0.29
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:55740305 original size:93 final size:91
Alignment explanation
Indices: 55740197--55740365 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 91
55740187 GCCCCTAAGT
* *
55740197 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
55740262 CGAGTTCGGATGCCTAGTTACATCTCAC
65 CGAGTTC-GATGCCTAGTTACATCTCAC
* *
55740290 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
55740355 GAGTTCGATGC
66 GAGTTCGATGC
55740366 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 5 0.07
92 29 0.40
93 38 0.53
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (91 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGTTCGATGCCTAGTTACATCTCAC
Found at i:55740380 original size:45 final size:45
Alignment explanation
Indices: 55740194--55740381 Score: 149
Period size: 45 Copynumber: 4.1 Consensus size: 45
55740184 CCCGCCCCTA
* * * * *
55740194 AGTGAACTCAGACTCAACTCAACGAGCTCG--GGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCATAC-CATCC-T
55740239 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT-CT
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GATGCC-A--TACCATCCT
* * *
55740287 CA-CGAACTCGGACTCAACTCAACGAGTTCG--GACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCATAC-CATCC-T
55740332 AGTGAACTCGGACTCAACTCAACGAGTTCGATGCTCA-ACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGATGC-CATACCATCCT
55740377 AGTGA
1 AGTGA
55740382 CATGTCACTT
Statistics
Matches: 116, Mismatches: 12, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
41 1 0.01
43 4 0.03
44 4 0.03
45 34 0.29
46 33 0.28
47 29 0.25
48 4 0.03
49 3 0.03
50 3 0.03
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGATGCCATACCATCCT
Found at i:55740817 original size:29 final size:29
Alignment explanation
Indices: 55740785--55740840 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
55740775 ATTTAATACG
55740785 AACTTTAGAAAAATTACACTTTTGCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCTA
* * *
55740814 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAGAAAAATTACACTTTTGCCC
55740841 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (29 bp):
AACTTTAGAAAAATTACACTTTTGCCCTA
Found at i:55744255 original size:45 final size:45
Alignment explanation
Indices: 55744203--55744422 Score: 311
Period size: 45 Copynumber: 4.9 Consensus size: 45
55744193 CGGGCTTCGG
*
55744203 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGT
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
55744248 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * *
55744293 GCCTAGCAGGCTATGATGCTGGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* * * *
55744338 GCCTAGCAGGCTATAATGCCTGTGAGATACTATTCTGG-CTTTCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT-GA
* *
55744383 GCCTAGTAGGCTATAATGCCGGTGAAATGA-TA-TCGGGCCT
1 GCCTAGCAGGCTATGATGCCGGTGAAAT-ACTATTCGGGCCT
55744423 CGGGCCTCGG
Statistics
Matches: 159, Mismatches: 13, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
44 8 0.05
45 150 0.94
46 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:55746778 original size:29 final size:29
Alignment explanation
Indices: 55746717--55746817 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
55746707 GGGACGAGAT
* *
55746717 TGGCACTGAGTGTGC--GCTTGTAAT-GTA
1 TGGCACTAAGTGTGCGAGCTTG-AATCATA
* *
55746744 TGGCACTAAGTGTGCGAGTTTGGA-CTATA
1 TGGCACTAAGTGTGCGAGCTTGAATC-ATA
* * *
55746773 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAATCATA
55746802 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55746818 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 14 0.24
28 1 0.02
29 43 0.73
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAATCATA
Found at i:55754316 original size:13 final size:13
Alignment explanation
Indices: 55754288--55754335 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
55754278 CATCATGTGC
*
55754288 TTTTACCATATTAA
1 TTTTATCAT-TTAA
55754302 TTTTATCATTTAA
1 TTTTATCATTTAA
*
55754315 TTTTAT-AATTAA
1 TTTTATCATTTAA
55754327 TTTTTATCA
1 -TTTTATCA
55754336 CTTTTTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 5 0.17
13 16 0.53
14 9 0.30
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTATCATTTAA
Found at i:55758779 original size:29 final size:29
Alignment explanation
Indices: 55758746--55758819 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
55758736 CCTTCGAGCT
55758746 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
55758775 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55758804 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55758820 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55758780 original size:58 final size:58
Alignment explanation
Indices: 55758687--55758819 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
55758677 ATACTCGATT
* * * * *
55758687 TCGCACACTTAGTGCCATGCGATTTAAGCCCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
* * * ** * *
55758745 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTTAGTGCCATGAGATTT-AAGCACGCACACACAGTGCCATACACTTCCAGC
*
55758803 ACGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
55758820 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (58 bp):
TCGCACACTTAGTGCCATGAGATTTAAGCACGCACACACAGTGCCATACACTTCCAGC
Found at i:55761167 original size:29 final size:29
Alignment explanation
Indices: 55761134--55761265 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
55761124 CCTCCGAACT
** * * *
55761134 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
55761163 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55761192 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55761221 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
55761250 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55761266 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:55772490 original size:40 final size:40
Alignment explanation
Indices: 55772445--55772611 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
55772435 CGGAATATAA
55772445 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55772485 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
55772525 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
55772565 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
55772604 CCGGATAT
1 CCGGATAT
55772612 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:55772595 original size:80 final size:79
Alignment explanation
Indices: 55772461--55772611 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
55772451 ATAATCACGT
*
55772461 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
55772526 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
55772541 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
55772604 CCGGATAT
64 CCGGATAT
55772612 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:55773459 original size:17 final size:19
Alignment explanation
Indices: 55773436--55773481 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
55773426 AAGAAGCATG
55773436 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
55773454 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
55773472 AATCATGCTC
1 AATCATGCTC
55773482 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:55774711 original size:28 final size:28
Alignment explanation
Indices: 55774642--55774742 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55774632 GACAAGATTG
* * * *
55774642 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
55774672 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55774700 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
55774729 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55774743 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55782623 original size:28 final size:28
Alignment explanation
Indices: 55782554--55782654 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
55782544 GACAAGATTG
* * * *
55782554 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
55782584 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
55782612 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
55782641 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55782655 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:55785319 original size:39 final size:39
Alignment explanation
Indices: 55785265--55785390 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
55785255 TTAAGCGATG
55785265 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
55785304 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
55785343 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
55785382 TATGTCCGG
1 TATATCCGG
55785391 GCTAAAGTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:55785404 original size:78 final size:78
Alignment explanation
Indices: 55785265--55785408 Score: 191
Period size: 78 Copynumber: 1.8 Consensus size: 78
55785255 TTAAGCGATG
* * * **
55785265 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCAGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
55785330 TATGTGCTGGAAT
66 TATGTGCTGGAAT
* * * *
55785343 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGT-CCGCAGG
55785407 CT
65 CT
55785409 TCGAGCTGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
77 4 0.07
78 52 0.93
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCAGACTTAAAGTCCGCAGGC
TATGTGCTGGAAT
Found at i:55785406 original size:39 final size:39
Alignment explanation
Indices: 55785265--55785417 Score: 155
Period size: 39 Copynumber: 3.9 Consensus size: 39
55785255 TTAAGCGATG
** * *
55785265 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* ** * *
55785304 TATATCCAGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* *
55785343 TATATCCGGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* * * *
55785382 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGG
1 TATATCCGGACTTAAAGT-CCGCAGGCTACGTGCTGG
55785418 TATTACACCG
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 5 0.05
39 96 0.95
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:55788121 original size:49 final size:49
Alignment explanation
Indices: 55788053--55788248 Score: 257
Period size: 49 Copynumber: 3.9 Consensus size: 49
55788043 TCTATTGTGA
* * *
55788053 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
55788102 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA--TT
* * * **
55788153 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
*
55788202 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
55788249 GCTTTGGCTA
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
49 44 0.34
50 43 0.34
51 41 0.32
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:55788189 original size:26 final size:26
Alignment explanation
Indices: 55788160--55788241 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
55788150 TTTGATCACG
55788160 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* *
55788186 TGTGTA-T-C--AGATGGTTAGG-TCAC-G
1 TGTGTAGTACTAAG-T-G-CAGGCT-ACTA
55788210 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
55788236 TGTGTA
1 TGTGTA
55788242 CCAGATAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 20
0.64 0.06 0.30
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 9 0.21
25 12 0.29
26 15 0.36
27 1 0.02
28 2 0.05
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:55788230 original size:50 final size:50
Alignment explanation
Indices: 55788052--55788248 Score: 261
Period size: 50 Copynumber: 3.9 Consensus size: 50
55788042 ATCTATTGTG
* * *
55788052 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
55788102 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * **
55788152 TGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
*
55788202 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
55788249 GCTTTGGCTA
Statistics
Matches: 128, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 42 0.33
50 47 0.37
51 39 0.30
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:55788243 original size:101 final size:100
Alignment explanation
Indices: 55788055--55788254 Score: 292
Period size: 101 Copynumber: 2.0 Consensus size: 100
55788045 TATTGTGAGG
* * *
55788055 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
*
55788120 AAGTGCAGGCTACTATGCGTACCCGATAACTTTGA
66 AAGTGCAGGCTACTATGCGTACCAGATAACTTTGA
* * * * *
55788155 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTAC
* *
55788220 TAAGTGCAGGCTACTATGTGTACCAGATAGCTTTG
65 TAAGTGCAGGCTACTATGCGTACCAGATAACTTTG
55788255 GCTACAAGTG
Statistics
Matches: 88, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 41 0.47
101 47 0.53
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCAGATAACTTTGA
Found at i:55788278 original size:101 final size:100
Alignment explanation
Indices: 55788070--55788281 Score: 246
Period size: 101 Copynumber: 2.1 Consensus size: 100
55788060 TGTGTAGTAC
* * *
55788070 TAAGTGCAGGCTACTACGTGTACCGGATTATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
* ** ** *
55788135 TGCGTACCCGATAACTTTGATCACGTGTGTAGTAC
66 TGCGTACCAGATAACTTTGATCACAAGTGTAAAAA
* * * *
55788170 TAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACT
1 TAAGTGCAGGCTACTACGTGTACCAGATGATT-GGTCACATGTGTAGTACTAAGTGCAGGCTACT
* * *
55788235 ATGTGTACCAGATAGCTTTG-GCTACAAGTGTAAAAA
65 ATGCGTACCAGATAACTTTGATC-ACAAGTGTAAAAA
*
55788271 TATGTGCAGGC
1 TAAGTGCAGGC
55788282 AACTGAGTAT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
100 28 0.30
101 65 0.70
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (100 bp):
TAAGTGCAGGCTACTACGTGTACCAGATGATTGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCAGATAACTTTGATCACAAGTGTAAAAA
Found at i:55790904 original size:2 final size:2
Alignment explanation
Indices: 55790897--55790931 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
55790887 GACTGATTAT
55790897 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
55790932 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:55793726 original size:49 final size:50
Alignment explanation
Indices: 55793547--55793738 Score: 210
Period size: 50 Copynumber: 3.8 Consensus size: 50
55793537 ATCTATTGTG
* * *
55793547 AGGTCACATGTGTAGTACTAAGTGCAAGCTATTATGCGTACCCG-ATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCGAATAA-TT
* * * * * * **
55793598 CGATCACATGTGTAGCACTAAGTGCAGGCTACTACGTCTATC-AGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGA-ATAATT
*
55793648 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATT
* *
55793698 -GGTCGCATGTATAGTACTAAGTGCAGGCTACTATGTGTACC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
55793739 AGATAGCTTT
Statistics
Matches: 115, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
49 38 0.33
50 42 0.37
51 35 0.30
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGAATAATT
Found at i:55798102 original size:47 final size:47
Alignment explanation
Indices: 55798024--55798436 Score: 601
Period size: 47 Copynumber: 8.7 Consensus size: 47
55798014 CCCTTCGGGA
* * * * * *
55798024 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
55798071 CCTATCACATATATACACTTTCATATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55798118 CTTATCACATATATACACCTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55798165 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55798212 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55798261 CTTATCATATATATACACTTTCACATTCATCACTTTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55798308 CTTATCACATATATATACACTTTCACATTCATCACTTTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55798357 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55798404 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATA--TATACACTTTCACATTCATC
55798437 GCGTAAAATC
Statistics
Matches: 338, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
47 226 0.67
49 112 0.33
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55798256 original size:96 final size:96
Alignment explanation
Indices: 55798024--55798436 Score: 627
Period size: 96 Copynumber: 4.3 Consensus size: 96
55798014 CCCTTCGGGA
* * * * * *
55798024 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
55798087 ACTTTCATATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
55798118 CTTATCAC--ATATATACACCTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55798181 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
55798212 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
55798277 ACTTTCACATTCATCACTTTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
55798308 CTTATCACATATATATACACTTTCACATTCATCACTTTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
55798373 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
55798404 CTTATCTCATATTTATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
55798437 GCGTAAAATC
Statistics
Matches: 291, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
93 1 0.00
94 88 0.30
96 202 0.69
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55798284 original size:143 final size:141
Alignment explanation
Indices: 55798024--55798436 Score: 610
Period size: 143 Copynumber: 2.9 Consensus size: 141
55798014 CCCTTCGGGA
* * * * * *
55798024 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* * * * *
55798089 TTTCATATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACATTCACATTCATCACATC
55798154 GACCATTAGGC
131 GACCATTAGGC
*
55798165 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
* *
55798230 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACATTCACATTCATCACA
* *
55798295 TTGGCCATTAGGC
129 TCGACCATTAGGC
*
55798308 CTTATCACATATATATACACTTTCACATTCATCACTTTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
55798373 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATTTATACACATTCACATTCATC
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTA--TCATATATATACACATTCACATTCATC
55798437 GCGTAAAATC
Statistics
Matches: 247, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
141 48 0.19
143 129 0.52
145 70 0.28
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCATATATATACACATTCACATTCATCACATC
GACCATTAGGC
Found at i:55806912 original size:43 final size:42
Alignment explanation
Indices: 55806851--55807207 Score: 298
Period size: 43 Copynumber: 8.4 Consensus size: 42
55806841 AGACATCATG
* * * *
55806851 TAAGACCGTGTGTGGGACATAGACCTCGAT-TGAAATTTACGTA
1 TAAGACCATGTCTGGGACATAGGCATCGATCTG-AATTT-CGTA
* *
55806894 TAAGACCATGTCTGGGACATCGGCATCGTATCTG-ATTTCGTG
1 TAAGACCATGTCTGGGACATAGGCATCG-ATCTGAATTTCGTA
*
55806936 TAAGACCATGTCTGGGACATAGGCCTCGAT-TGAAATTTACGTA
1 TAAGACCATGTCTGGGACATAGGCATCGATCTG-AATTT-CGTA
* * * * * * *
55806979 TATGACTATATCTGGGACATCGGCATCGTATCAG-ATTTCATG
1 TAAGACCATGTCTGGGACATAGGCATCG-ATCTGAATTTCGTA
* *
55807021 TAAGACCATGTCTGGGACACAGGCCTCGAT-TGAAATTTACGTA
1 TAAGACCATGTCTGGGACATAGGCATCGATCTG-AATTT-CGTA
* * * * *
55807064 TAAGACCATGTCTGGGACATCGACATCGTCTCTG-ATTTCATG
1 TAAGACCATGTCTGGGACATAGGCATCG-ATCTGAATTTCGTA
* * * * *
55807106 TAAGACCATATCTGGGACATAGGCCTTGAT-TGAGATTTACATT
1 TAAGACCATGTCTGGGACATAGGCATCGATCTGA-ATTT-CGTA
*
55807149 TAAGACCATGTCTGGGACATCGGCATCGTATCTG-ATTTCGTA
1 TAAGACCATGTCTGGGACATAGGCATCG-ATCTGAATTTCGTA
*
55807191 TAAGACCCTGTCTGGGA
1 TAAGACCATGTCTGGGA
55807208 TAGAGGCTTC
Statistics
Matches: 250, Mismatches: 47, Indels: 35
0.75 0.14 0.11
Matches are distributed among these distances:
40 5 0.02
41 5 0.02
42 108 0.43
43 118 0.47
44 7 0.03
45 7 0.03
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATAGGCATCGATCTGAATTTCGTA
Found at i:55806943 original size:42 final size:43
Alignment explanation
Indices: 55806885--55807207 Score: 317
Period size: 42 Copynumber: 7.6 Consensus size: 43
55806875 CTCGATTGAA
55806885 ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTG
1 ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTG
* * *
55806928 ATTT-CGTGTAAGACCATGTCTGGGACATAGGCCTCG-AT-TG
1 ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTG
* * * *
55806968 AAATTTACGTATATGACTATATCTGGGACATCGGCATCGTATCAG
1 --ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTG
* * *
55807013 ATTT-CATGTAAGACCATGTCTGGGACA-CAGGCCTCG-AT-TG
1 ATTTACGTATAAGACCATGTCTGGGACATC-GGCATCGTATCTG
* *
55807053 AAATTTACGTATAAGACCATGTCTGGGACATCGACATCGTCTCTG
1 --ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTG
* * * * * *
55807098 ATTT-CATGTAAGACCATATCTGGGACATAGGCCTTG-AT-TGAG
1 ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCT--G
* *
55807140 ATTTACATTTAAGACCATGTCTGGGACATCGGCATCGTATCTG
1 ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTG
*
55807183 ATTT-CGTATAAGACCCTGTCTGGGA
1 ATTTACGTATAAGACCATGTCTGGGA
55807208 TAGAGGCTTC
Statistics
Matches: 225, Mismatches: 38, Indels: 35
0.76 0.13 0.12
Matches are distributed among these distances:
40 4 0.02
41 6 0.03
42 109 0.48
43 96 0.43
44 6 0.03
45 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
ATTTACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTG
Found at i:55806993 original size:85 final size:85
Alignment explanation
Indices: 55806846--55807259 Score: 553
Period size: 85 Copynumber: 4.9 Consensus size: 85
55806836 GTCTGAGACA
* * *
55806846 TCATGTAAGACCGTGTGTGGGACATAGACCTCGATTGAAATTTACGTATAAGACCATGTCTGGGA
1 TCATGTAAGACCATGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACCATGTCTGGGA
55806911 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * * *
55806931 TCGTGTAAGACCATGTCTGGGACATAGGCCTCGATTGAAATTTACGTATATGACTATATCTGGGA
1 TCATGTAAGACCATGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACCATGTCTGGGA
*
55806996 CATCGGCATCGTATCAGATT
66 CATCGGCATCGTATCTGATT
*
55807016 TCATGTAAGACCATGTCTGGGACACAGGCCTCGATTGAAATTTACGTATAAGACCATGTCTGGGA
1 TCATGTAAGACCATGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACCATGTCTGGGA
* *
55807081 CATCGACATCGTCTCTGATT
66 CATCGGCATCGTATCTGATT
* * * * *
55807101 TCATGTAAGACCATATCTGGGACATAGGCCTTGATTGAGATTTACATTTAAGACCATGTCTGGGA
1 TCATGTAAGACCATGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACCATGTCTGGGA
55807166 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * * * * * * * ***
55807186 TCGTATAAGACCCTGTCTGGGATAGAGGCTTCGATATTG-AA-TTACATGTAAGACCACACCTGG
1 TCATGTAAGACCATGTCTGGGACATAGGCCTCG--ATTGAAATTTACGTATAAGACCATGTCTGG
55807249 GACATCGGCAT
64 GACATCGGCAT
55807260 TGTACTTGTT
Statistics
Matches: 290, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
85 285 0.98
86 1 0.00
87 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (85 bp):
TCATGTAAGACCATGTCTGGGACATAGGCCTCGATTGAAATTTACGTATAAGACCATGTCTGGGA
CATCGGCATCGTATCTGATT
Found at i:55823226 original size:15 final size:14
Alignment explanation
Indices: 55823207--55823261 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
55823197 ATTTTCTTGT
*
55823207 TTTGGATTTCTTTA
1 TTTGGATTTCTATA
55823221 TGTTGGATTTCTATA
1 T-TTGGATTTCTATA
* *
55823236 TTCTGGATTTCTCTG
1 TT-TGGATTTCTATA
55823251 TTATGGATTTC
1 TT-TGGATTTC
55823262 CTTATCTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 33 0.94
ACGTcount: A:0.15, C:0.11, G:0.18, T:0.56
Consensus pattern (14 bp):
TTTGGATTTCTATA
Found at i:55826071 original size:50 final size:52
Alignment explanation
Indices: 55825953--55826139 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 52
55825943 TTGTGAGAAA
* *** *
55825953 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATAGTTTTAAGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAGTGTTAAGTC
* * * *
55826005 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-G-GTTATGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAGTGTTAAGTC
* * * *
55826055 GCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTAATAG-CTT-CGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAGTGTTAAG-TC
* * *
55826106 ACATGTGTGGTATTAAGTGCAGGCCACTATGTGT
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGT
55826140 CAAAGATAGC
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 43 0.38
51 36 0.32
52 34 0.30
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (52 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAGTGTTAAGTC
Done.