Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 139 of 297
Found at i:47824443 original size:39 final size:40
Alignment explanation
Indices: 47824342--47824505 Score: 169
Period size: 40 Copynumber: 4.1 Consensus size: 40
47824332 TTGAATGATG
* *
47824342 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
47824382 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
47824421 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * **
47824461 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
47824501 TCCGG
1 TCCGG
47824506 TTAAATTCCG
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 59 0.56
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:47824505 original size:79 final size:80
Alignment explanation
Indices: 47824342--47824492 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
47824332 TTGAATGATG
*
47824342 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
47824407 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
47824422 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
47824484 TTGAACGAG
64 TTGAACGAG
47824493 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:47842781 original size:9 final size:9
Alignment explanation
Indices: 47842760--47842792 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
47842750 GTGTTAATCA
47842760 AAATTAA-T
1 AAATTAATT
*
47842768 AAATTGATT
1 AAATTAATT
47842777 AAATTAATT
1 AAATTAATT
47842786 AAATTAA
1 AAATTAA
47842793 GCAACCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AAATTAATT
Found at i:47847045 original size:17 final size:17
Alignment explanation
Indices: 47847023--47847058 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47847013 AATCCTAATT
*
47847023 AAACTAAATAAAAATAA
1 AAACTAAACAAAAATAA
*
47847040 AAACTAACCAAAAATAA
1 AAACTAAACAAAAATAA
47847057 AA
1 AA
47847059 TAAGTCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAACTAAACAAAAATAA
Found at i:47859127 original size:47 final size:47
Alignment explanation
Indices: 47859073--47859588 Score: 933
Period size: 47 Copynumber: 11.0 Consensus size: 47
47859063 GATTTTATGA
** * * *
47859073 GATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47859120 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
47859167 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
47859214 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
47859261 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47859308 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47859355 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47859402 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47859449 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
47859496 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
47859543 GATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTAATG
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATG
47859589 CGAAACGTGT
Statistics
Matches: 459, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 459 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:47859628 original size:46 final size:46
Alignment explanation
Indices: 47859562--47859652 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
47859552 GAACATGAAT
* * *
47859562 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
47859608 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
47859653 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:47865141 original size:69 final size:68
Alignment explanation
Indices: 47864976--47865146 Score: 202
Period size: 69 Copynumber: 2.5 Consensus size: 68
47864966 GTTTAAGGCT
* * * * *
47864976 TAAGACCATAGCTCTATTATGGCAACTAATAGAGTCTAATGGGATAGTAAACATGATGATTTTAA
1 TAAGACCATAGCTCAACTATGGCAAC-AATAAAGTCTAATGGGATAGTAAACAAGAGGATTTTAA
47865041 AGTG
65 AGTG
* * *
47865045 TAAGACCATAGCTCAGCTATGGCAACAAATAAAGTCTATTGGGATAGTAAACACAG-GGA-TTTC
1 TAAGACCATAGCTCAACTATGGCAAC-AATAAAGTCTAATGGGATAGTAAACA-AGAGGATTTTA
47865108 AAGCTG
64 AAG-TG
**
47865114 TAAGACCATAGCTCAACTATGAAAACAATAAAG
1 TAAGACCATAGCTCAACTATGGCAACAATAAAG
47865147 CCCGCCAGGA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
68 13 0.15
69 74 0.84
70 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (68 bp):
TAAGACCATAGCTCAACTATGGCAACAATAAAGTCTAATGGGATAGTAAACAAGAGGATTTTAAA
GTG
Found at i:47869697 original size:20 final size:21
Alignment explanation
Indices: 47869651--47869697 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
47869641 AAGATGAGTA
*
47869651 AAAAC-TCTTGCAAAAAAAAT
1 AAAACATCTTGCAAAAAAAAC
* *
47869671 AAGACATCTT-CAAAATAAAC
1 AAAACATCTTGCAAAAAAAAC
47869691 AAAACAT
1 AAAACAT
47869698 TTTCCAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAACATCTTGCAAAAAAAAC
Found at i:47869840 original size:31 final size:31
Alignment explanation
Indices: 47869802--47869860 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
47869792 AACAATTTAA
* * *
47869802 CTCTTTTTGAAAGATTGATGGCCAAATTCAG
1 CTCTTTTTAAAAGATTAAGGGCCAAATTCAG
*
47869833 CTCTTTTTAAAAGCTTAAGGGCCAAATT
1 CTCTTTTTAAAAGATTAAGGGCCAAATT
47869861 GAAAGAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (31 bp):
CTCTTTTTAAAAGATTAAGGGCCAAATTCAG
Found at i:47871809 original size:47 final size:48
Alignment explanation
Indices: 47871736--47871948 Score: 160
Period size: 47 Copynumber: 4.6 Consensus size: 48
47871726 GTGTAATACT
* * *
47871736 GATGCCATGTCCTAGACATGGTCTTACACTGGC-TCATC-CATTAAGTC
1 GATGCCATGTCCCAAACAT-GTCTTACACTGGCTTCATCTCATTAAGCC
* * * *
47871783 GATGCCATGTCCCAAACATAGCCTTACACTGAC-ACATCTC-GT-AGCC
1 GATGCCATGTCCCAAACAT-GTCTTACACTGGCTTCATCTCATTAAGCC
** * *
47871829 GCCG-CATGTCCCAAACATGTCTTACACTGGCTT-A-CATCATGAGGCC
1 GATGCCATGTCCCAAACATGTCTTACACTGGCTTCATC-TCATTAAGCC
* * * * *
47871875 GATG-CATTTCCCAAACATGTCTTACACTAGCTTTCGTCTCA--ATGTC
1 GATGCCATGTCCCAAACATGTCTTACACTGGC-TTCATCTCATTAAGCC
47871921 GATGCCATGTCCCAAACATGGTCTTACA
1 GATGCCATGTCCCAAACAT-GTCTTACA
47871949 TTAGCTCTCA
Statistics
Matches: 132, Mismatches: 24, Indels: 19
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 14 0.11
45 14 0.11
46 42 0.32
47 48 0.36
48 12 0.09
49 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGTCTTACACTGGCTTCATCTCATTAAGCC
Found at i:47871890 original size:46 final size:45
Alignment explanation
Indices: 47871832--47871999 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
47871822 CGTAGCCGCC
*
47871832 GCATGTCCCAAACATGTCTTACACTGGCTTACATCATGAGGCCGAT
1 GCATGTCCCAAACATGTCTTACACTAGCTT-CATCATGAGGCCGAT
* * * * *
47871878 GCATTTCCCAAACATGTCTTACACTAGCTTTCGTC-TCAATGTCGAT
1 GCATGTCCCAAACATGTCTTACACTAGC-TTCATCAT-GAGGCCGAT
* * * *
47871924 GCCATGTCCCAAACATGGTCTTACATTAGCTCTCATAATGTGGCTGAT
1 G-CATGTCCCAAACAT-GTCTTACACTAGCT-TCATCATGAGGCCGAT
*
47871972 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAAACATGTCTTACACTAGC
47872000 ACGTAAATAA
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 48 0.48
47 29 0.29
48 20 0.20
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (45 bp):
GCATGTCCCAAACATGTCTTACACTAGCTTCATCATGAGGCCGAT
Found at i:47879138 original size:13 final size:13
Alignment explanation
Indices: 47879120--47879145 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47879110 GCTCGGCAGG
47879120 GACACGCCCGTGT
1 GACACGCCCGTGT
47879133 GACACGCCCGTGT
1 GACACGCCCGTGT
47879146 CCGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:47891167 original size:30 final size:28
Alignment explanation
Indices: 47891133--47891194 Score: 106
Period size: 28 Copynumber: 2.1 Consensus size: 28
47891123 ATGGATTTAA
47891133 ATTATTTATTATTTAAGTAAATAGATATTT
1 ATTATTTATTA-TTAAGTAAA-AGATATTT
47891163 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTATTTATTATTAAGTAAAAGATATTT
47891191 ATTA
1 ATTA
47891195 ATTAAATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 12 0.38
29 9 0.28
30 11 0.34
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (28 bp):
ATTATTTATTATTAAGTAAAAGATATTT
Found at i:47891432 original size:170 final size:170
Alignment explanation
Indices: 47891150--47891506 Score: 714
Period size: 170 Copynumber: 2.1 Consensus size: 170
47891140 ATTATTTAAG
47891150 TAAATAGATATTTATTATTTATTATTAAGTAAAAGATATTTATTAATTAAATAACTATATTATAA
1 TAAATAGATATTTATTATTTATTATTAAGTAAAAGATATTTATTAATTAAATAACTATATTATAA
47891215 GATTTTTATGTGATTAATAGATTAAAACATGACAAATGTATGGTGATGATATAGTACATGTGTAA
66 GATTTTTATGTGATTAATAGATTAAAACATGACAAATGTATGGTGATGATATAGTACATGTGTAA
47891280 ATATAAGTAATATTACACTTATAATAAATATATTGATTAT
131 ATATAAGTAATATTACACTTATAATAAATATATTGATTAT
47891320 TAAATAGATATTTATTATTTATTATTAAGTAAAAGATATTTATTAATTAAATAACTATATTATAA
1 TAAATAGATATTTATTATTTATTATTAAGTAAAAGATATTTATTAATTAAATAACTATATTATAA
47891385 GATTTTTATGTGATTAATAGATTAAAACATGACAAATGTATGGTGATGATATAGTACATGTGTAA
66 GATTTTTATGTGATTAATAGATTAAAACATGACAAATGTATGGTGATGATATAGTACATGTGTAA
47891450 ATATAAGTAATATTACACTTATAATAAATATATTGATTAT
131 ATATAAGTAATATTACACTTATAATAAATATATTGATTAT
47891490 TAAATAGATATTTATTA
1 TAAATAGATATTTATTA
47891507 AGATATTATA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 187 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (170 bp):
TAAATAGATATTTATTATTTATTATTAAGTAAAAGATATTTATTAATTAAATAACTATATTATAA
GATTTTTATGTGATTAATAGATTAAAACATGACAAATGTATGGTGATGATATAGTACATGTGTAA
ATATAAGTAATATTACACTTATAATAAATATATTGATTAT
Found at i:47892555 original size:47 final size:47
Alignment explanation
Indices: 47892503--47892603 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 47
47892493 ACCTTGTGTG
* ** *
47892503 TCGTACTGTTACTA-TTACTTTGGTTTAATCCGATGAGGTACTAAGTA
1 TCGTACTGTTACTATTTACTTCGG-CAAAGCCGATGAGGTACTAAGTA
* *
47892550 TCGTACTGTTACTATTTTCTTCGGCAAAGCCGATGAGGTACTAAGTG
1 TCGTACTGTTACTATTTACTTCGGCAAAGCCGATGAGGTACTAAGTA
47892597 TCGTACT
1 TCGTACT
47892604 AGTGTGTTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 40 0.85
48 7 0.15
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (47 bp):
TCGTACTGTTACTATTTACTTCGGCAAAGCCGATGAGGTACTAAGTA
Found at i:47892717 original size:39 final size:39
Alignment explanation
Indices: 47892658--47892806 Score: 174
Period size: 39 Copynumber: 3.8 Consensus size: 39
47892648 TTAATAGGGG
47892658 TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
1 TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
* * * *
47892697 TAAAATACTATATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
** * * *
47892736 TAAACTACTGCAATGAATATTTGATAGTTATTGAAA-AAC
1 TAAACTACTATACTGAATAATTGATAGTTACT-AAATAAC
* * *
47892775 TAAATTACTATACTGAATAACTGATTGTTACT
1 TAAACTACTATACTGAATAATTGATAGTTACT
47892807 GATTACATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 89 0.98
40 2 0.02
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (39 bp):
TAAACTACTATACTGAATAATTGATAGTTACTAAATAAC
Found at i:47908718 original size:16 final size:15
Alignment explanation
Indices: 47908688--47908721 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
47908678 TTAAACATGA
47908688 TAATAAAAATAAAAT
1 TAATAAAAATAAAAT
*
47908703 TAATAAAATTTAAAAT
1 TAATAAAA-ATAAAAT
47908719 TAA
1 TAA
47908722 AGTCTTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TAATAAAAATAAAAT
Found at i:47910607 original size:25 final size:25
Alignment explanation
Indices: 47910573--47910660 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
47910563 GGATTACCTA
* *
47910573 TAAGGCCTTTGTGGCAAACTCTTTG
1 TAAGACCTTTGTGGAAAACTCTTTG
* *
47910598 TAAGACCTTTTTGGAAAACTCTTTA
1 TAAGACCTTTGTGGAAAACTCTTTG
** * * *
47910623 TAAGGTCTTTATGGTAAACTCTCTG
1 TAAGACCTTTGTGGAAAACTCTTTG
47910648 TAA-AGCCTTTGTG
1 TAAGA-CCTTTGTG
47910661 ACGAGCTCTC
Statistics
Matches: 49, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (25 bp):
TAAGACCTTTGTGGAAAACTCTTTG
Found at i:47913332 original size:28 final size:27
Alignment explanation
Indices: 47913275--47913426 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
47913265 TAAATTGTGC
* *
47913275 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
47913302 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
47913330 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
47913357 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
47913385 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
47913412 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47913427 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:47913340 original size:55 final size:55
Alignment explanation
Indices: 47913275--47913426 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
47913265 TAAATTGTGC
* *
47913275 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
47913330 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
47913385 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
47913427 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:47922776 original size:28 final size:28
Alignment explanation
Indices: 47922694--47922898 Score: 272
Period size: 28 Copynumber: 7.4 Consensus size: 28
47922684 GAGATTGGCG
* * * *
47922694 CTAAGTGTGCGGGTTTAAATTGTGCAGCA
1 CTAAGTGTGCGAGTTT-GATTATGTAGCA
* *
47922723 CTAAGTGTGCGA-ATTGAATATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
47922750 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
47922778 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
47922806 CTAAGTGTGCGAG-TTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
47922833 CTAAGTGTGCGAGTATGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
47922861 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATGTAGCA
*
47922888 CTGAGTGTGCG
1 CTAAGTGTGCG
47922899 GACTTAATAT
Statistics
Matches: 157, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
27 67 0.43
28 79 0.50
29 11 0.07
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:47922784 original size:55 final size:55
Alignment explanation
Indices: 47922719--47922898 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
47922709 TAAATTGTGC
* *
47922719 AGCACTAAGTGTGCGAAT-TGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
47922774 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* *
47922829 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
47922884 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47922899 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 94 0.79
56 25 0.21
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:47922834 original size:83 final size:82
Alignment explanation
Indices: 47922719--47922898 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
47922709 TAAATTGTGC
*
47922719 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
47922784 GTGCGAGTATGATTATGT
66 GTGCGAGT-TGATTATAT
* * *
47922802 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
47922867 GTGCGAGTTGATTATAT
66 GTGCGAGTTGATTATAT
*
47922884 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47922899 GACTTAATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
GTGCGAGTTGATTATAT
Found at i:47925209 original size:5 final size:5
Alignment explanation
Indices: 47925199--47925234 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
47925189 TTTTTTACAC
47925199 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
47925235 TAGAACACTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAAAT
Found at i:47925583 original size:9 final size:9
Alignment explanation
Indices: 47925569--47925609 Score: 64
Period size: 9 Copynumber: 4.4 Consensus size: 9
47925559 ATTAATATTT
47925569 TAATTAAAC
1 TAATTAAAC
47925578 TAATTAAAC
1 TAATTAAAC
*
47925587 TAACTAAAC
1 TAATTAAAC
47925596 TAACTTAAAC
1 TAA-TTAAAC
47925606 TAAT
1 TAAT
47925610 GGACTTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (9 bp):
TAATTAAAC
Found at i:47931611 original size:6 final size:6
Alignment explanation
Indices: 47931592--47931635 Score: 70
Period size: 6 Copynumber: 7.0 Consensus size: 6
47931582 TTAAATCCTC
47931592 TTATCTT TTCATTT TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTAT-TT TT-ATTT TTATTT TTATTT TTATTT TTATTT TTATTT
47931636 CAATTTTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 28 0.78
7 6 0.17
8 2 0.06
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:47931641 original size:12 final size:12
Alignment explanation
Indices: 47931598--47931642 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
47931588 CCTCTTATCT
47931598 TTTC-ATTTTTA
1 TTTCTATTTTTA
*
47931609 TTTTTATTTTTA
1 TTTCTATTTTTA
*
47931621 TTTTTATTTTTA
1 TTTCTATTTTTA
*
47931633 TTTCAATTTT
1 TTTCTATTTT
47931643 ATTATTTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 3 0.10
12 27 0.90
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTATTTTTA
Found at i:47931641 original size:18 final size:17
Alignment explanation
Indices: 47931598--47931645 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
47931588 CCTCTTATCT
47931598 TTTCATTTTTATTTTTA
1 TTTCATTTTTATTTTTA
*
47931615 TTTTTATTTTTATTTTTA
1 -TTTCATTTTTATTTTTA
*
47931633 TTTCAATTTTATT
1 TTTCATTTTTATT
47931646 ATTTTCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTCATTTTTATTTTTA
Found at i:47933847 original size:473 final size:473
Alignment explanation
Indices: 47932962--47933907 Score: 1892
Period size: 473 Copynumber: 2.0 Consensus size: 473
47932952 AAGACCTTTT
47932962 GGTTTGTGTATTATATTATTTACAAGTGGTGGAGATTTGATTTTCATGCAAGCCTATAGTAATAA
1 GGTTTGTGTATTATATTATTTACAAGTGGTGGAGATTTGATTTTCATGCAAGCCTATAGTAATAA
47933027 CTTCTCATGTTAGATAATCGAGTGCTTAATCTTGAACCTTAAACACTTTGAGTGATTTGAGTGAA
66 CTTCTCATGTTAGATAATCGAGTGCTTAATCTTGAACCTTAAACACTTTGAGTGATTTGAGTGAA
47933092 TCTTTAGTGAGGATGCCATCTCTTTTATATTTAGGACTAAAGTTAATTACTTAGAGGAAGGAGAT
131 TCTTTAGTGAGGATGCCATCTCTTTTATATTTAGGACTAAAGTTAATTACTTAGAGGAAGGAGAT
47933157 TACCTATGATTTTATTATCAAAATATTTGATTTAGATTGTTTGAGGCTTTTAATGCCCCTATAGT
196 TACCTATGATTTTATTATCAAAATATTTGATTTAGATTGTTTGAGGCTTTTAATGCCCCTATAGT
47933222 TGAATTCTCACTGTATGACTTTCTGTGGAATAACTTGTAACATTATCAGTAATGACTATGTGATT
261 TGAATTCTCACTGTATGACTTTCTGTGGAATAACTTGTAACATTATCAGTAATGACTATGTGATT
47933287 GAGAGGAATGGATTCTCTCAGTAAATGAGAGTTTTGCTTGAGGACAAGCAAATGCTTAAGTGTGG
326 GAGAGGAATGGATTCTCTCAGTAAATGAGAGTTTTGCTTGAGGACAAGCAAATGCTTAAGTGTGG
47933352 GGGTATTTGATAAACGCCAAATTATACATATTTTTACCCCAAATACCTAGCATATTTATGGATGT
391 GGGTATTTGATAAACGCCAAATTATACATATTTTTACCCCAAATACCTAGCATATTTATGGATGT
47933417 TTATTACTAGATTTATGG
456 TTATTACTAGATTTATGG
47933435 GGTTTGTGTATTATATTATTTACAAGTGGTGGAGATTTGATTTTCATGCAAGCCTATAGTAATAA
1 GGTTTGTGTATTATATTATTTACAAGTGGTGGAGATTTGATTTTCATGCAAGCCTATAGTAATAA
47933500 CTTCTCATGTTAGATAATCGAGTGCTTAATCTTGAACCTTAAACACTTTGAGTGATTTGAGTGAA
66 CTTCTCATGTTAGATAATCGAGTGCTTAATCTTGAACCTTAAACACTTTGAGTGATTTGAGTGAA
47933565 TCTTTAGTGAGGATGCCATCTCTTTTATATTTAGGACTAAAGTTAATTACTTAGAGGAAGGAGAT
131 TCTTTAGTGAGGATGCCATCTCTTTTATATTTAGGACTAAAGTTAATTACTTAGAGGAAGGAGAT
47933630 TACCTATGATTTTATTATCAAAATATTTGATTTAGATTGTTTGAGGCTTTTAATGCCCCTATAGT
196 TACCTATGATTTTATTATCAAAATATTTGATTTAGATTGTTTGAGGCTTTTAATGCCCCTATAGT
47933695 TGAATTCTCACTGTATGACTTTCTGTGGAATAACTTGTAACATTATCAGTAATGACTATGTGATT
261 TGAATTCTCACTGTATGACTTTCTGTGGAATAACTTGTAACATTATCAGTAATGACTATGTGATT
47933760 GAGAGGAATGGATTCTCTCAGTAAATGAGAGTTTTGCTTGAGGACAAGCAAATGCTTAAGTGTGG
326 GAGAGGAATGGATTCTCTCAGTAAATGAGAGTTTTGCTTGAGGACAAGCAAATGCTTAAGTGTGG
47933825 GGGTATTTGATAAACGCCAAATTATACATATTTTTACCCCAAATACCTAGCATATTTATGGATGT
391 GGGTATTTGATAAACGCCAAATTATACATATTTTTACCCCAAATACCTAGCATATTTATGGATGT
47933890 TTATTACTAGATTTATGG
456 TTATTACTAGATTTATGG
47933908 ATTTTGGTGC
Statistics
Matches: 473, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
473 473 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.38
Consensus pattern (473 bp):
GGTTTGTGTATTATATTATTTACAAGTGGTGGAGATTTGATTTTCATGCAAGCCTATAGTAATAA
CTTCTCATGTTAGATAATCGAGTGCTTAATCTTGAACCTTAAACACTTTGAGTGATTTGAGTGAA
TCTTTAGTGAGGATGCCATCTCTTTTATATTTAGGACTAAAGTTAATTACTTAGAGGAAGGAGAT
TACCTATGATTTTATTATCAAAATATTTGATTTAGATTGTTTGAGGCTTTTAATGCCCCTATAGT
TGAATTCTCACTGTATGACTTTCTGTGGAATAACTTGTAACATTATCAGTAATGACTATGTGATT
GAGAGGAATGGATTCTCTCAGTAAATGAGAGTTTTGCTTGAGGACAAGCAAATGCTTAAGTGTGG
GGGTATTTGATAAACGCCAAATTATACATATTTTTACCCCAAATACCTAGCATATTTATGGATGT
TTATTACTAGATTTATGG
Found at i:47935997 original size:17 final size:17
Alignment explanation
Indices: 47935970--47936002 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47935960 TCACTACATT
47935970 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
47935988 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
47936003 TAAAATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:47938344 original size:22 final size:21
Alignment explanation
Indices: 47938316--47938356 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
47938306 AATGATTTTT
47938316 AATATTTTATAATATAAAATTA
1 AATATTTTAT-ATATAAAATTA
*
47938338 AATATTTTATATTTAAAAT
1 AATATTTTATATATAAAAT
47938357 AGTGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATTTTATATATAAAATTA
Found at i:47942321 original size:13 final size:13
Alignment explanation
Indices: 47942305--47942329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47942295 TAGGCCACAT
47942305 GGCCGTGTCCCTA
1 GGCCGTGTCCCTA
47942318 GGCCGTGTCCCT
1 GGCCGTGTCCCT
47942330 CACACGGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.40, G:0.32, T:0.24
Consensus pattern (13 bp):
GGCCGTGTCCCTA
Found at i:47945021 original size:16 final size:17
Alignment explanation
Indices: 47944990--47945023 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47944980 TTTAATGTGA
47944990 TCCAAATATCATATTTT
1 TCCAAATATCATATTTT
*
47945007 TCCAAA-ATTATATTTT
1 TCCAAATATCATATTTT
47945023 T
1 T
47945024 GCACCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (17 bp):
TCCAAATATCATATTTT
Found at i:47955061 original size:17 final size:17
Alignment explanation
Indices: 47955039--47955077 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
47955029 TATAATTAAT
47955039 TTTAAAAGTTTAATATA
1 TTTAAAAGTTTAATATA
*
47955056 TTTAAAATTTTAATATA
1 TTTAAAAGTTTAATATA
*
47955073 CTTAA
1 TTTAA
47955078 TATATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAAAGTTTAATATA
Found at i:47955157 original size:58 final size:58
Alignment explanation
Indices: 47955048--47955159 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
47955038 TTTTAAAAGT
* * * * * * *
47955048 TTAATATATTTAAAATTTTAATATACTTAATATATATTTTTAATAGGTAAAAAAATTC
1 TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATAAGTAAAAAAATTC
*
47955106 TTAATATATTTAAAATTTTAAAAAACTTAA-AAAAAATTTAAATATATTAAAAAA
1 TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATA-AGTAAAAAA
47955160 TGTTAAGTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
57 10 0.22
58 35 0.78
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (58 bp):
TTAATATATTTAAAATTTTAAAAAACTTAATAAAAAATTTAAATAAGTAAAAAAATTC
Found at i:47955198 original size:72 final size:72
Alignment explanation
Indices: 47955101--47955264 Score: 224
Period size: 72 Copynumber: 2.3 Consensus size: 72
47955091 TAGGTAAAAA
*
47955101 AATTCTTAATATATTTAA-AATTTTAAAAAACTTAAAAAAAATTTAAATATATTAAAAAATG-TT
1 AATT-TTAATAT-TTTAATATTTTTAAAAAACTTAAAAAAAA-TTAAATATATTAAAAAATGTTT
47955164 AAGTATAACC
63 AAGTATAACC
* * * **
47955174 AATTTTAATATTTTAATATTTTTAATATATTTTTAAAAAATTAAATATATTAAAAAATGTTTAAG
1 AATTTTAATATTTTAATATTTTTAAAAAACTTAAAAAAAATTAAATATATTAAAAAATGTTTAAG
47955239 TATAACC
66 TATAACC
*
47955246 AATTTTAAAATTTTAATAT
1 AATTTTAATATTTTAATAT
47955265 ATTCAATATA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
71 24 0.29
72 54 0.66
73 4 0.05
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (72 bp):
AATTTTAATATTTTAATATTTTTAAAAAACTTAAAAAAAATTAAATATATTAAAAAATGTTTAAG
TATAACC
Found at i:47955212 original size:71 final size:73
Alignment explanation
Indices: 47955137--47955286 Score: 250
Period size: 72 Copynumber: 2.1 Consensus size: 73
47955127 AAAACTTAAA
* * *
47955137 AAAAATTTAAATATATTAAAAAATG-TTAAGTATAACCAATTTTAATATTTTAATATTTTTAATA
1 AAAAATTTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
47955201 TA-TTTTT
66 TATTTTTT
*
47955208 AAAAAATTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
1 AAAAATTTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
47955273 TATTTTTT
66 TATTTTTT
47955281 AAAAAT
1 AAAAAT
47955287 ATATTTTAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 24 0.33
72 38 0.53
73 10 0.14
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (73 bp):
AAAAATTTAAATATATTAAAAAATGTTTAAGTATAACCAATTTTAAAATTTTAATATATTCAATA
TATTTTTT
Found at i:47955364 original size:17 final size:17
Alignment explanation
Indices: 47955342--47955403 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
47955332 AGAGAATTTT
47955342 TTTAAATATATTTAAAA
1 TTTAAATATATTTAAAA
* * *
47955359 TTTAAAAAAAATTAAAAAA
1 TTT-AAATATATT-TAAAA
*
47955378 TGTAAATATA-TTAAAA
1 TTTAAATATATTTAAAA
47955394 TTTTAAATAT
1 -TTTAAATAT
47955404 GTTAAAGAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 4 0.12
17 12 0.35
18 12 0.35
19 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAATATATTTAAAA
Found at i:47956548 original size:12 final size:12
Alignment explanation
Indices: 47956527--47956559 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
47956517 TTGTAAAACA
47956527 TGTTAT-AAAAG
1 TGTTATAAAAAG
47956538 TGTTATAAAAAG
1 TGTTATAAAAAG
*
47956550 TGTTACAAAA
1 TGTTATAAAA
47956560 TATATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.48, C:0.03, G:0.15, T:0.33
Consensus pattern (12 bp):
TGTTATAAAAAG
Found at i:47970450 original size:57 final size:57
Alignment explanation
Indices: 47970362--47970476 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
47970352 ACTCAACGTT
47970362 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
1 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
47970419 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
1 AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
47970476 A
1 A
47970477 TCCCCCAACA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.39, C:0.30, G:0.10, T:0.21
Consensus pattern (57 bp):
AAAGAGAAAACACTGTCCCAACCACCTATTAAACCCAATAATCCATCCTTCATGGTG
Found at i:47973337 original size:26 final size:26
Alignment explanation
Indices: 47973308--47973415 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
47973298 TGGTACAAAT
*
47973308 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATGGA-TTAGGTAAATGTTCCA
*
47973334 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
47973360 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
47973386 TGATAATGGTTTAGGTAAATGTCCCA
1 TGATAATGGATTAGGTAAATGTTCCA
47973412 TGAT
1 TGAT
47973416 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
26 73 0.97
27 2 0.03
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:47973373 original size:52 final size:52
Alignment explanation
Indices: 47973308--47973415 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
47973298 TGGTACAAAT
* *
47973308 TGATAATGAGTTAGGTAAATGTTTCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATCCCA
* * *
47973360 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTCCCA
1 TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATCCCA
47973412 TGAT
1 TGAT
47973416 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGAGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATCCCA
Found at i:47976578 original size:12 final size:12
Alignment explanation
Indices: 47976561--47976591 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
47976551 ACTCAGGGAA
47976561 GAGGCCGTGGTC
1 GAGGCCGTGGTC
47976573 GAGGCCGTGGTC
1 GAGGCCGTGGTC
47976585 GAGGCCG
1 GAGGCCG
47976592 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:47981489 original size:26 final size:26
Alignment explanation
Indices: 47981460--47981567 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
47981450 TGGTACAAAT
47981460 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
47981486 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47981512 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
47981538 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
47981564 TGAT
1 TGAT
47981568 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:47986188 original size:44 final size:44
Alignment explanation
Indices: 47986129--47986216 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
47986119 TAAATATGAG
* * *
47986129 GCATCTGAGCTCGTTGAGTTAGTCCGAGTTCACT-ATGGATGCGA
1 GCATCCGAACTCGTTGAATTAGTCCGAGTTCA-TAATGGATGCGA
*
47986173 GCATCCGAACTCGTTGAATTGGTCCGAGTTCATAATGGATGCGA
1 GCATCCGAACTCGTTGAATTAGTCCGAGTTCATAATGGATGCGA
47986217 TACATGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 38 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (44 bp):
GCATCCGAACTCGTTGAATTAGTCCGAGTTCATAATGGATGCGA
Found at i:47988206 original size:12 final size:12
Alignment explanation
Indices: 47988189--47988216 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
47988179 TATTTCACAT
47988189 TCATAAGACTTG
1 TCATAAGACTTG
47988201 TCATAAGACTTG
1 TCATAAGACTTG
47988213 TCAT
1 TCAT
47988217 TTGATGACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (12 bp):
TCATAAGACTTG
Found at i:47989918 original size:45 final size:45
Alignment explanation
Indices: 47989761--47989930 Score: 132
Period size: 45 Copynumber: 3.6 Consensus size: 45
47989751 GTAGAATGCT
* * * *
47989761 GATGCCATGTCCTAGACATGGTCTTACA-CTGGC-TCATCCATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACCTCGCAT-ATCCGT---GCC
* * *
47989808 GATGCCATTTCCCAGACATGGTCTTACACTGACTATCG-AAAT-CGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACAC---C--TCGCATATCCG-TGCC
* * *
47989857 GATTCTATATCCCAGACATGGTCTTACACCTCGCATATCCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACCTCGCATATCCGTGCC
47989902 GATGCCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
47989931 TGGCTCTCGT
Statistics
Matches: 98, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
44 3 0.03
45 32 0.33
46 3 0.03
47 26 0.27
49 28 0.29
51 2 0.02
52 2 0.02
53 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGGTCTTACACCTCGCATATCCGTGCC
Found at i:47999894 original size:15 final size:16
Alignment explanation
Indices: 47999867--47999897 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
47999857 AATTTATTTG
47999867 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
47999883 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
47999898 GTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:48003613 original size:117 final size:116
Alignment explanation
Indices: 48003372--48003613 Score: 287
Period size: 117 Copynumber: 2.1 Consensus size: 116
48003362 ATACTCAAAT
* *
48003372 CGAAT-AAAAAACGAAACCCAATACGGTAGGGCACGTTTTTTTTAAACGATTAAGTATAGAAAAT
1 CGAATAAAAAAACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
* * * * *
48003436 TGCCTTTATTTAAAACTATTTGGGAACAAAATGTTGAATAAAATACTTAAAT
66 TGCCTTTATTTAAAACAAGTTGAGAACAAAATG-TGAATAAAAAACTTAAAA
48003488 CGAATAAAAAAGACG-AACCCAATACGGTAAGGCACG-TTTTTTAAAACGATTAAGTATAGAAAA
1 CGAATAAAAAA-ACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAA
** **
48003551 TTGTTTTTATGTTAAAACAAGTTGAGAATGCATTATG-GAATAAAAGAAC-TAAAA
65 TTGCCTTTAT-TTAAAACAAGTTGAGAA--CAAAATGTGAATAAAA-AACTTAAAA
*
48003605 CGATTAAAA
1 CGAATAAAA
48003614 TTTGGGGAGG
Statistics
Matches: 108, Mismatches: 12, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
116 39 0.36
117 59 0.55
118 5 0.05
119 5 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (116 bp):
CGAATAAAAAAACGAAACCCAATACGGTAAGGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
TGCCTTTATTTAAAACAAGTTGAGAACAAAATGTGAATAAAAAACTTAAAA
Found at i:48004321 original size:19 final size:20
Alignment explanation
Indices: 48004297--48004335 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48004287 GACATGTATT
48004297 AAAAATATAA-AATA-AATAA
1 AAAAATA-AATAATACAATAA
48004316 AAAAATAAATAATACAATAA
1 AAAAATAAATAATACAATAA
48004336 TACATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 11 0.61
20 5 0.28
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATAAATAATACAATAA
Found at i:48005750 original size:44 final size:44
Alignment explanation
Indices: 48005570--48005750 Score: 132
Period size: 44 Copynumber: 4.1 Consensus size: 44
48005560 ATCCGCAACT
* * * * * * *
48005570 TGCTCTCTGCAACTTTAGAGAAACAAGGTTTGGTATCTTCGATC
1 TGCTCTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
* ** * * * *
48005614 TGCTCCACTACTGCTT-AGGGAGATAAGATCTGTTATCTTTAATA
1 TGCT-CTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
** * * *
48005658 TGCTCTGCTACGGCTTCAGAGAGATAAGACTTG-TAACTTCAACC
1 TGCTCT-CTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
* * *
48005702 TGCTCTCTGCAACTTCAGAGAGATAAGGTTTGTTATCTTCGATC
1 TGCTCTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
48005746 TGCTC
1 TGCTC
48005751 CACTACTGCT
Statistics
Matches: 103, Mismatches: 30, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
43 22 0.21
44 61 0.59
45 20 0.19
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (44 bp):
TGCTCTCTACAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
Found at i:48005770 original size:44 final size:44
Alignment explanation
Indices: 48005598--48006126 Score: 173
Period size: 44 Copynumber: 11.9 Consensus size: 44
48005588 AGAAACAAGG
*
48005598 TTTGGTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* ** * ** * *
48005642 TCTGTTATCTTTAATATGCTCTGCTACGGCTTCAGAGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
* * * * * * ** * *
48005687 CTTG-TAACTTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGG
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
48005730 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * ** * *
48005774 TATTGTAATCCTCCAGCCTTTTACC-CTACTACTTAGGGAGTTAA-A
1 T-TTGTTATCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGA
** * ** *
48005819 GCCTGCTCATCGTCTTCGATCTGCTCCGTTGCTGCTTAGGGAGATAAGA
1 -TTTG-T--T-ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * *
48005868 TCTGTAATCTTC-AGCTTGCTCCACTGCTGCTCAGGGAGATAAGA
1 TTTGTTATCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGA
* * * * * *
48005912 TCTATAATCTTC-AGCTTGCTCCACTGCTGCTTAAGGAGATAA-A
1 TTTGTTATCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGA
* ** * * * *
48005955 GCTTGCCA-CTTTCGATCCGCTCCACTATTGCTTAGGGAAATAGGA
1 -TTTGTTATC-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * * *
48006000 TCTG-TATTTTC-AGTTTGTTACC-CTATTGCTTAGGG-GTTAAGA
1 TTTGTTATCTTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGA
* **** * * *
48006042 CTCACCATCTTTGATTTGCTCCACTATTGCTTAGGGAGATAAGA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * * * ** * *
48006086 TCTATAATTTTCGATCCACTCCAATATTGCTTAGGGAGATA
1 TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
48006127 GGATCTGCCA
Statistics
Matches: 356, Mismatches: 104, Indels: 50
0.70 0.20 0.10
Matches are distributed among these distances:
42 7 0.02
43 67 0.19
44 193 0.54
45 36 0.10
46 21 0.06
47 5 0.01
48 21 0.06
49 6 0.02
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (44 bp):
TTTGTTATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
Found at i:48006178 original size:44 final size:46
Alignment explanation
Indices: 48006122--48006239 Score: 132
Period size: 44 Copynumber: 2.6 Consensus size: 46
48006112 TTGCTTAGGG
* * * *
48006122 AGATAGGATCTGCCAAAATTTAATCTGTTCCACTCCTGC-CAGC-G
1 AGATAAGATCTGCCAAAATTTGATCTGCTCCACTCCTGCTCAGCAA
* * * *
48006166 GGATAAGATCTGCTAAAATTTGATCCGCTCCGCTCCTGCTCAGCAA
1 AGATAAGATCTGCCAAAATTTGATCTGCTCCACTCCTGCTCAGCAA
* *
48006212 AGATAAGATCTACCGAAATTTGATCTGC
1 AGATAAGATCTGCCAAAATTTGATCTGC
48006240 CCCGCTCCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
44 32 0.54
45 4 0.07
46 23 0.39
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (46 bp):
AGATAAGATCTGCCAAAATTTGATCTGCTCCACTCCTGCTCAGCAA
Found at i:48006820 original size:26 final size:26
Alignment explanation
Indices: 48006791--48006898 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
48006781 TGATACAAAT
48006791 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
48006817 TGATCATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48006843 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48006869 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
48006895 TGAT
1 TGAT
48006899 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:48012354 original size:46 final size:45
Alignment explanation
Indices: 48012301--48012476 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
48012291 TATTTGGGCA
48012301 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
48012347 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
48012394 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
48012440 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48012477 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 68 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:48012456 original size:93 final size:93
Alignment explanation
Indices: 48012297--48012468 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
48012287 AGGATATTTG
* * *
48012297 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
48012362 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
48012390 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
48012455 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
48012469 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:48030805 original size:117 final size:116
Alignment explanation
Indices: 48030564--48030805 Score: 260
Period size: 117 Copynumber: 2.1 Consensus size: 116
48030554 ATACTCAAAT
* ** *
48030564 CGAAT-AAAAAACGAAACCCAGTACGGTAGGGCACGTTTTTTTTAAACGATTAAGTATAGAAAAT
1 CGAATAAAAAAACGAAACCCAATACGGTAAAGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
* * * * *
48030628 TGCCTTTATTAAAAACTATTTGGGAACAAAATGTTGAATAAAATACTTAAAT
66 TGCCTTTATTAAAAACAAGTTGAGAACAAAATG-TGAATAAAAAACTTAAAA
48030680 CGAATAAAAAAGACG-AACCCAATACGGTAAAGCACG-TTTTTTAAAACGATTAAGTATAGAAAA
1 CGAATAAAAAA-ACGAAACCCAATACGGTAAAGCACGTTTTTTTAAAACGATTAAGTATAGAAAA
** * **
48030743 TTGTTTTTATGTTAAAACAAGTTGAGAATGCATTATG-GAATAAAAGAAC-TAAAA
65 TTGCCTTTAT-TAAAAACAAGTTGAGAA--CAAAATGTGAATAAAA-AACTTAAAA
*
48030797 CGATTAAAA
1 CGAATAAAA
48030806 TTTGGGGAGG
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
116 39 0.37
117 56 0.53
118 5 0.05
119 5 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.28
Consensus pattern (116 bp):
CGAATAAAAAAACGAAACCCAATACGGTAAAGCACGTTTTTTTAAAACGATTAAGTATAGAAAAT
TGCCTTTATTAAAAACAAGTTGAGAACAAAATGTGAATAAAAAACTTAAAA
Found at i:48031510 original size:19 final size:20
Alignment explanation
Indices: 48031486--48031524 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48031476 GACATGTATT
48031486 AAAAATATAA-AATA-AATAA
1 AAAAATA-AATAATACAATAA
48031505 AAAAATAAATAATACAATAA
1 AAAAATAAATAATACAATAA
48031525 TACATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 11 0.61
20 5 0.28
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAATAAATAATACAATAA
Found at i:48032872 original size:45 final size:43
Alignment explanation
Indices: 48032822--48032917 Score: 104
Period size: 43 Copynumber: 2.2 Consensus size: 43
48032812 ACTGCTTAGG
* * **
48032822 GAGATAAGA-TCTGTTATCTTCAATATGCTCTGCTACGGCTTCAGA
1 GAGATAAGACT-TG-TAACTTCAACATGCTCT-CTACAACTTCAGA
* *
48032867 GAGATAAGACTTGTAACTTCAACCTGCTCTCTGCAACTTCAGA
1 GAGATAAGACTTGTAACTTCAACATGCTCTCTACAACTTCAGA
48032910 GAGATAAG
1 GAGATAAG
48032918 GTTTGCCATC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
43 18 0.41
44 14 0.32
45 11 0.25
46 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (43 bp):
GAGATAAGACTTGTAACTTCAACATGCTCTCTACAACTTCAGA
Found at i:48032939 original size:44 final size:43
Alignment explanation
Indices: 48032744--48032939 Score: 135
Period size: 44 Copynumber: 4.5 Consensus size: 43
48032734 GGACACAAGG
* * * *
48032744 TTTGTATCTTCAA-CTTGCTCTCTGCAACTTCAGAGAAACAAGG
1 TTTGTATCTTCAATC-TGCTCTCTACAACTTCAGAGAGATAAGA
* * * ** *
48032787 TTTGGTATTTTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGA
1 TTT-GTATCTTCAATCTGCT-CTCTACAACTTCAGAGAGATAAGA
* * **
48032831 TCTGTTATCTTCAATATGCTCTGCTACGGCTTCAGAGAGATAAGA
1 TTTG-TATCTTCAATCTGCTCT-CTACAACTTCAGAGAGATAAGA
* * * * *
48032876 CTTGTAACTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGG
1 TTTGTATCTTCAATCTGCTCTCTACAACTTCAGAGAGATAAGA
* *
48032919 TTTGCCATCTTCGATCTGCTC
1 TTTG-TATCTTCAATCTGCTC
48032940 CACTACTGCT
Statistics
Matches: 115, Mismatches: 31, Indels: 13
0.72 0.19 0.08
Matches are distributed among these distances:
43 26 0.23
44 68 0.59
45 21 0.18
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (43 bp):
TTTGTATCTTCAATCTGCTCTCTACAACTTCAGAGAGATAAGA
Found at i:48032959 original size:44 final size:44
Alignment explanation
Indices: 48032796--48033322 Score: 160
Period size: 44 Copynumber: 11.8 Consensus size: 44
48032786 GTTTGGTATT
* **
48032796 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATC
* * ** * * * * *
48032840 TTCAATATGCTCTGCTACGGCTTCAGAGAGATAAGACTTG-TAAC
1 TTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGCCATC
* * * * ** * *
48032884 TTCAACCTGCT-CTCTGCAACTTCAGAGAGATAAGGTTTGCCATC
1 TTCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATTTGCCATC
**
48032928 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATC
* * * ** * **
48032973 CTCCAGCCTTTTACC-CTACTGCTTAGGGAGTTAA-AGCCTGCTCATCATC
1 TTCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGA-TTTG--C--CATC
* * **
48033022 TTCGATCTGCTCCATTGCTGCTTAGGGAGATAAGATCTTGTAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TTGCCATC
* * * ** * * * *
48033067 CTCTAGCCTTTTACC-CTATTGCTTAGGGAGTTAAAGCCTACT-CATCATC
1 TTCGA-TCTGCT-CCACTACTGCTTAGGGAGAT-AAG-AT-TTGC--CATC
* * **
48033116 TTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATC
* * * * * *
48033160 TTC-AGCTTGCTCCACTGCTGCTCAGGAAGATAA-AGCTTGCCATT
1 TTCGATC-TGCTCCACTACTGCTTAGGGAGATAAGA-TTTGCCATC
* * * * * * *
48033204 TTCGATCCGCTCCACTATTGCTTAGGGAAATAGGATCTG-TATT
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATC
* * * * **
48033247 TTCTG-TCAGTTACC-CTACTGCTTAGGG-GTTAAGACTCACCATC
1 TTC-GATCTGCT-CCACTACTGCTTAGGGAGATAAGATTTGCCATC
* *
48033290 TTTGATCTGCTCCACTATTGCTTAGGGAGATAA
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAA
48033323 AGATCTGTCA
Statistics
Matches: 338, Mismatches: 113, Indels: 64
0.66 0.22 0.12
Matches are distributed among these distances:
42 7 0.02
43 66 0.20
44 117 0.35
45 43 0.13
46 38 0.11
47 14 0.04
48 38 0.11
49 15 0.04
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (44 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGCCATC
Found at i:48032995 original size:46 final size:46
Alignment explanation
Indices: 48032942--48033096 Score: 136
Period size: 46 Copynumber: 3.3 Consensus size: 46
48032932 ATCTGCTCCA
48032942 CTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTTTACC
1 CTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTTTACC
* * * * * * **
48032988 CTACTGCTTAGGGAGTTAA-AGCCTGCTCATCATCTTC-GATCTGCT-CC
1 CTACTGCTTAGGGAGATAAGATCTTG-TAATC--CTCCAG-CCTTTTACC
* * *
48033035 ATTGCTGCTTAGGGAGATAAGATCTTGTAATCCTCTAGCCTTTTACC
1 -CTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTTTACC
*
48033082 CTATTGCTTAGGGAG
1 CTACTGCTTAGGGAG
48033097 TTAAAGCCTA
Statistics
Matches: 79, Mismatches: 22, Indels: 16
0.68 0.19 0.14
Matches are distributed among these distances:
45 4 0.05
46 39 0.49
47 6 0.08
48 26 0.33
49 4 0.05
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (46 bp):
CTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTTTACC
Found at i:48033032 original size:94 final size:91
Alignment explanation
Indices: 48032924--48033418 Score: 471
Period size: 94 Copynumber: 5.5 Consensus size: 91
48032914 TAAGGTTTGC
48032924 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTTTACCC
1 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTAAT-CTCCAGCCTTTTACCC
48032989 TACTGCTTAGGGAGTTAAAGCCTGCTCAT
64 TACTGCTTAGGGAGTTAAAG-CTGCTCAT
* * *
48033018 CATCTTCGATCTGCTCCATTGCTGCTTAGGGAGATAAGATCTTGTAATCCTCTAGCCTTTTACCC
1 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTAAT-CTCCAGCCTTTTACCC
* *
48033083 TATTGCTTAGGGAGTTAAAGCCTACTCAT
64 TACTGCTTAGGGAGTTAAAG-CTGCTCAT
* * *
48033112 CATCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTCAG-CTTGCT-CCAC
1 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTCCAGCCTT-TTACC-C
* * * *
48033175 TGCTGCTCAGGAAGATAAAGCTTGC-CAT
64 TACTGCTTAGGGAGTTAAAGC-TGCTCAT
* * * * * * * * **
48033203 --T-TTCGATCCGCTCCACTATTGCTTAGGGAAATAGGATCTGT-ATTTTCTGTCAGTTACCCTA
1 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTCCAGCCTTTTACCCTA
* *
48033264 CTGCTTAGGG-GTT-AAG--ACTCAC
66 CTGCTTAGGGAGTTAAAGCTGCTCAT
* * * * *
48033286 CATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAAGATCTGTCATTTTCTC-GCCTATTACC
1 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGAT-AAGATCTGT-AATCTC-CAGCCTTTTACC
*
48033350 CTACTGCTTAGGGGGTT-AAG--GCTCAT
63 CTACTGCTTAGGGAGTTAAAGCTGCTCAT
** * *
48033376 TGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTG
1 CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
48033419 CCGAAATTTA
Statistics
Matches: 341, Mismatches: 46, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
82 1 0.00
83 2 0.01
85 4 0.01
86 30 0.09
87 25 0.07
88 38 0.11
89 31 0.09
90 43 0.13
91 9 0.03
92 23 0.07
93 6 0.02
94 129 0.38
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (91 bp):
CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTCCAGCCTTTTACCCTA
CTGCTTAGGGAGTTAAAGCTGCTCAT
Found at i:48033351 original size:268 final size:270
Alignment explanation
Indices: 48032911--48033418 Score: 616
Period size: 268 Copynumber: 1.9 Consensus size: 270
48032901 AACTTCAGAG
* * * *
48032911 AGATAAGGTTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTAATCCTC
1 AGATAAAGCTTGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAAATAAGATCTTGTAATCCTC
** * * * *
48032976 CAGCCTTTTACCCTACTGCTTAGGGAGTTAAAGCCTGCTCATCATCTTCGATCTGCTCCATTGCT
66 CAGCCAGTTACCCTACTGCTTAGGGAGTTAAAG-C-ACTCACCATCTTCGATCTGCTCCACTACT
* *
48033041 GCTTAGGGAGATAAGATCTTGTAATCCTCTAGCCTTTTACCCTATTGCTTAGGGAGTTAAAGCCT
129 GCTTAGGGAGATAAGATCTTGTAATCCTCTAGCCTATTACCCTACTGCTTAGGGAGTT-AAG---
*
48033106 ACTCATCATCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGCT
190 ACTCATCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGCT
48033171 CCACTGCTGCTCAGGA
255 CCACTGCTGCTCAGGA
* * * * *
48033187 AGATAAAGCTTGCCATTTTCGATCCGCTCCACTATTGCTTAGGGAAATAGGATC-TGT-AT-TTT
1 AGATAAAGCTTGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAAATAAGATCTTGTAATCCTC
* * * *
48033249 CTGTCAGTTACCCTACTGCTTAGGG-GTT-AAG-ACTCACCATCTTTGATCTGCTCCACTATTGC
66 CAGCCAGTTACCCTACTGCTTAGGGAGTTAAAGCACTCACCATCTTCGATCTGCTCCACTACTGC
* ** * * *
48033311 TTAGGGAGATAAAGATC-TGTCATTTTCTCGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCA
131 TTAGGGAGAT-AAGATCTTGTAATCCTCTAGCCTATTACCCTACTGCTTAGGGAGTTAAGACTCA
** * *
48033375 TTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTG
195 TCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
48033419 CCGAAATTTA
Statistics
Matches: 199, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
264 43 0.22
267 3 0.02
268 67 0.34
269 6 0.03
271 3 0.02
272 3 0.02
273 22 0.11
274 2 0.01
275 3 0.02
276 47 0.24
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (270 bp):
AGATAAAGCTTGCCATCTTCGATCCGCTCCACTACTGCTTAGGGAAATAAGATCTTGTAATCCTC
CAGCCAGTTACCCTACTGCTTAGGGAGTTAAAGCACTCACCATCTTCGATCTGCTCCACTACTGC
TTAGGGAGATAAGATCTTGTAATCCTCTAGCCTATTACCCTACTGCTTAGGGAGTTAAGACTCAT
CATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCTTGCTCCACTG
CTGCTCAGGA
Found at i:48033507 original size:46 final size:45
Alignment explanation
Indices: 48033456--48033550 Score: 127
Period size: 46 Copynumber: 2.1 Consensus size: 45
48033446 CAGCGGGATG
* *
48033456 AGATCTGCTAAAATTTGATCTGCTACGCTCTTGCTCAGCGAAGATA
1 AGATCTACCAAAATTTGATCTGCTACGCTCTT-CTCAGCGAAGATA
* * * *
48033502 AGATCTACCGAAATTTGATTTGCTCCGCTCTTCTCAGCGAAGATC
1 AGATCTACCAAAATTTGATCTGCTACGCTCTTCTCAGCGAAGATA
48033547 AGAT
1 AGAT
48033551 TTGTAGTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 16 0.37
46 27 0.63
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
AGATCTACCAAAATTTGATCTGCTACGCTCTTCTCAGCGAAGATA
Found at i:48036522 original size:431 final size:431
Alignment explanation
Indices: 48035705--48036577 Score: 1658
Period size: 431 Copynumber: 2.0 Consensus size: 431
48035695 CAATAATGAT
* * * *
48035705 AAATAATAAATAATAAGTATAATAAACTATATTTAAAATAATTAACTCTTAATAAATAAATAAAT
1 AAAT-ATAAAAAAAAAGTATAATAAACTACATTTAAAATAATTAACTCTTAATAAATAAATAAAA
48035770 AAATGAATATCATATAAAGATAATTTAAAAAAAGTAACCCAAAATAATAATAATGTACAATAGTA
65 AAATGAATATCATATAAAGATAATTTAAAAAAAGTAACCCAAAATAATAATAATGTACAATAGTA
48035835 GTAAAAAAAGATAATAAAAATAATATAATAAGTTAATGAGTTAATCGCCAACTTGAAAGAGGTTC
130 GTAAAAAAAGATAATAAAAATAATATAATAAGTTAATGAGTTAATCGCCAACTTGAAAGAGGTTC
48035900 CAAGCAAAATACCCAAATAAAATATCAAGCTTTAAAATAAAATGAACAATAGGGAAGATAGGAAA
195 CAAGCAAAATACCCAAATAAAATATCAAGCTTTAAAATAAAATGAACAATAGGGAAGATAGGAAA
48035965 TTTTTTAAAACATTAAACACTACTATAGGGGTAACACCAAAACTTTTAAACAAATAATGGATAAA
260 TTTTTTAAAACATTAAACACTACTATAGGGGTAACACCAAAACTTTTAAACAAATAATGGATAAA
48036030 ACTTAAAAATAAATAAATAAGTAATATATTAAAACAGTATCATACGAATGAATTTTAAAATCAAT
325 ACTTAAAAATAAATAAATAAGTAATATATTAAAACAGTATCATACGAATGAATTTTAAAATCAAT
48036095 GCCATAAAATAAATAATTTACATGGAATTAGACATGTATTAA
390 GCCATAAAATAAATAATTTACATGGAATTAGACATGTATTAA
*
48036137 AAATATAAAAAAAAAGTATAATAAACTACATTTAAAATAATTAACTTTTAATAAATATAATAAAA
1 AAATATAAAAAAAAAGTATAATAAACTACATTTAAAATAATTAACTCTTAATAAATA-AATAAAA
48036202 AAATGAATATCATATAAAGATAATTTAAAAAAAGTAACCCAAAATAATAATAATGTACAATAGTA
65 AAATGAATATCATATAAAGATAATTTAAAAAAAGTAACCCAAAATAATAATAATGTACAATAGTA
*
48036267 GT-AAAAAAGATAATAAAAATAATATAATAAGTTAATGAGTTAATCGCTAACTTGAAAGAGGTTC
130 GTAAAAAAAGATAATAAAAATAATATAATAAGTTAATGAGTTAATCGCCAACTTGAAAGAGGTTC
*
48036331 CAAGCAAAATACCCAAATAAAATATCAAGCTTTAAAATAAAATGAACAATATGGAAGATAGGAAA
195 CAAGCAAAATACCCAAATAAAATATCAAGCTTTAAAATAAAATGAACAATAGGGAAGATAGGAAA
48036396 TTTTTTAAAACATTAAACACTACTATAGGGGTAACACCAAAACTTTTAAACAAATAATGGATAAA
260 TTTTTTAAAACATTAAACACTACTATAGGGGTAACACCAAAACTTTTAAACAAATAATGGATAAA
48036461 ACTTAAAAATAAATAAATAAGTAATATATTAAAACAGTATCATACGAATGAATTTTAAAATCAAT
325 ACTTAAAAATAAATAAATAAGTAATATATTAAAACAGTATCATACGAATGAATTTTAAAATCAAT
48036526 GCCATAAAATAAATAATTTACATGGAATTAGACATGTATTAA
390 GCCATAAAATAAATAATTTACATGGAATTAGACATGTATTAA
48036568 AAATATAAAA
1 AAATATAAAA
48036578 TAAATAAATA
Statistics
Matches: 433, Mismatches: 7, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
431 356 0.82
432 77 0.18
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (431 bp):
AAATATAAAAAAAAAGTATAATAAACTACATTTAAAATAATTAACTCTTAATAAATAAATAAAAA
AATGAATATCATATAAAGATAATTTAAAAAAAGTAACCCAAAATAATAATAATGTACAATAGTAG
TAAAAAAAGATAATAAAAATAATATAATAAGTTAATGAGTTAATCGCCAACTTGAAAGAGGTTCC
AAGCAAAATACCCAAATAAAATATCAAGCTTTAAAATAAAATGAACAATAGGGAAGATAGGAAAT
TTTTTAAAACATTAAACACTACTATAGGGGTAACACCAAAACTTTTAAACAAATAATGGATAAAA
CTTAAAAATAAATAAATAAGTAATATATTAAAACAGTATCATACGAATGAATTTTAAAATCAATG
CCATAAAATAAATAATTTACATGGAATTAGACATGTATTAA
Found at i:48036891 original size:17 final size:18
Alignment explanation
Indices: 48036871--48036904 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48036861 ACTAAAGGGA
48036871 TAATC-TATAAATAAAAC
1 TAATCATATAAATAAAAC
*
48036888 TAATCATTTAAATAAAA
1 TAATCATATAAATAAAA
48036905 TTGCGGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCATATAAATAAAAC
Found at i:48040254 original size:17 final size:18
Alignment explanation
Indices: 48040232--48040269 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
48040222 TTTATATATG
48040232 ATATTA-ATTATTACAAA
1 ATATTATATTATTACAAA
* *
48040249 ATATTATTTTATTATAAA
1 ATATTATATTATTACAAA
48040267 ATA
1 ATA
48040270 ATTTTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTATATTATTACAAA
Found at i:48048291 original size:25 final size:25
Alignment explanation
Indices: 48048253--48048313 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
48048243 ACCAAACAAA
*
48048253 CCTTTGTGGCGAATTCTCTATAAAG
1 CCTTTGTGGTGAATTCTCTATAAAG
* * *
48048278 CCTTTATGGTGAATTCTTTGTAAAG
1 CCTTTGTGGTGAATTCTCTATAAAG
*
48048303 TCTTTGTGGTG
1 CCTTTGTGGTG
48048314 TATTATCTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.43
Consensus pattern (25 bp):
CCTTTGTGGTGAATTCTCTATAAAG
Found at i:48048333 original size:25 final size:25
Alignment explanation
Indices: 48048299--48048361 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 25
48048289 AATTCTTTGT
*
48048299 AAAGTCTTTGTGGTGTATTATCTGG
1 AAAGTCTTTGTGGTGTATAATCTGG
*
48048324 GAAG-CTTTTGTGGTGTATAATCTGG
1 AAAGTC-TTTGTGGTGTATAATCTGG
48048349 AAAGTCTTTGTGG
1 AAAGTCTTTGTGG
48048362 CATATTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.21, C:0.08, G:0.30, T:0.41
Consensus pattern (25 bp):
AAAGTCTTTGTGGTGTATAATCTGG
Found at i:48055688 original size:21 final size:21
Alignment explanation
Indices: 48055662--48055702 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
48055652 AGCTTAAATG
48055662 ATGGTTGAATAAGTA-GAATTC
1 ATGGTTGAA-AAGTATGAATTC
48055683 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
48055703 GAAATTGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:48062046 original size:21 final size:21
Alignment explanation
Indices: 48062020--48062060 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
48062010 AGCTTAAATG
48062020 ATGGTTGAATAAGTA-GAATTC
1 ATGGTTGAA-AAGTATGAATTC
48062041 ATGGTTGAAAAGTATGAATT
1 ATGGTTGAAAAGTATGAATT
48062061 GAAATTGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (21 bp):
ATGGTTGAAAAGTATGAATTC
Found at i:48064889 original size:51 final size:50
Alignment explanation
Indices: 48064792--48064912 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 50
48064782 ACAACTAAGT
* *
48064792 TATCCGGATGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTATTGAAACCAGA-CAATAAAGTAATA
* *
48064843 TATCCGGATGAAATATGAAGTTCTTATTGAAGCCAGA-ATATCAAAGTAATA
1 TATCCGGATGAAATATGAAGCTCTTATTGAAACCAGACA-AT-AAAGTAATA
* *
48064894 -ATTCTGGATGAAGTATGAA
1 TA-TCCGGATGAAATATGAA
48064913 ATAAGTTTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 3 0.05
51 57 0.93
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (50 bp):
TATCCGGATGAAATATGAAGCTCTTATTGAAACCAGACAATAAAGTAATA
Found at i:48065511 original size:24 final size:22
Alignment explanation
Indices: 48065484--48065530 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
48065474 AGGATTTATA
48065484 ATATTCCGGGTGTGTTTGGGCTGG
1 ATATT-CGGGTGTGTTTGGG-TGG
*
48065508 ATATTCTGGTGTGTTTGGGTGG
1 ATATTCGGGTGTGTTTGGGTGG
48065530 A
1 A
48065531 ATCCGCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 13 0.59
24 5 0.23
ACGTcount: A:0.11, C:0.09, G:0.40, T:0.40
Consensus pattern (22 bp):
ATATTCGGGTGTGTTTGGGTGG
Found at i:48071146 original size:12 final size:12
Alignment explanation
Indices: 48071129--48071154 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48071119 ACTCAAGAAG
48071129 TAATCATGAATA
1 TAATCATGAATA
48071141 TAATCATGAATA
1 TAATCATGAATA
48071153 TA
1 TA
48071155 GTTAAACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATCATGAATA
Found at i:48079956 original size:24 final size:24
Alignment explanation
Indices: 48079924--48080022 Score: 166
Period size: 23 Copynumber: 4.2 Consensus size: 24
48079914 GGCCTAGCTT
*
48079924 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
48079948 CTTTTAATAACTGGTGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
48079972 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
48079995 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
48080018 CTTTT
1 CTTTT
48080023 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
23 45 0.63
24 26 0.37
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:48080118 original size:20 final size:20
Alignment explanation
Indices: 48080072--48080112 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
48080062 TTATGAATAC
48080072 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
48080092 ATCATGTGCATATCATCCAT
1 ATCATGTGCATATCATACAT
48080112 A
1 A
48080113 CAATGTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:48085492 original size:19 final size:19
Alignment explanation
Indices: 48085465--48085513 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
48085455 TTCCTTATAT
48085465 AACTTAATTAA-TA-TTGTA
1 AACTTAATTAATTACTT-TA
48085483 AACTTTAATTAATTACTTTA
1 AAC-TTAATTAATTACTTTA
48085503 AACTTAATTAA
1 AACTTAATTAA
48085514 CATAACACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.11
19 16 0.57
20 7 0.25
21 2 0.07
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (19 bp):
AACTTAATTAATTACTTTA
Found at i:48085693 original size:307 final size:308
Alignment explanation
Indices: 48085100--48085712 Score: 962
Period size: 307 Copynumber: 2.0 Consensus size: 308
48085090 CTTATCCGTG
* *
48085100 AGAAAGAATGAAGATGATGAGAAAATATCTCATTTTTTTCCTTTTAAATTCCTTATATACCTTAA
1 AGAAAGAATGAAGATGATGAGAAAATATCTCATTCTTTTCCTTTTAAATTCCTTATATAACTTAA
* * * *
48085165 TTAATATTTTAAATTTTAATTAATTACTTTAAACTTGATTAACTTAACAATAAGCTTAATTAAGC
66 TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACAATAAGCTTAATTAAGC
* *
48085230 AACATAAGTGGAGAATGTTGTCATCTACCACCAAAATTCCATATAAAAAGGTAAATTTTCCATAT
131 AACATAAGTGGAGAATGTTGTCATCTACCACCAAAATCCCATATAAAAAGGTAAATTTGCCATAT
* *
48085295 TGAACCCTTAGCAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTACGCTTTAGTCCTT
196 TGAACCCTTAGAAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTACGCTTTAATCCTT
48085360 GCACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTTTT
261 GCACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTTTT
* *
48085408 AGAAATAATGAAGATGATGGGAAAATATCTCA-TCTTTTCCTTTTAAATTCCTTATATAACTTAA
1 AGAAAGAATGAAGATGATGAGAAAATATCTCATTCTTTTCCTTTTAAATTCCTTATATAACTTAA
* **
48085472 TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACACTAAGCTTAATTAATT
66 TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACAATAAGCTTAATTAAGC
* * *
48085537 AACATAAGTGGGGAATGTTTTCCTCTACCACCAAAATCCCATATAAAAAGGGT-AATTTGCCATA
131 AACATAAGTGGAGAATGTTGTCATCTACCACCAAAATCCCATATAAAAA-GGTAAATTTGCCATA
* * * * **
48085601 TTGATCCCTTAGAAAACTAATAATCTGTAGTGGTTAATCTTTTACCACTTTTACGCTTTAAAT-C
195 TTGAACCCTTAGAAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTACGCTTT-AATCC
*
48085665 TTGCACCTTAATTAACTATCATTTCAATAAATTTTCAGATCAAAATTT
259 TTGCACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTT
48085713 AGTACAACAC
Statistics
Matches: 278, Mismatches: 25, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
307 243 0.87
308 35 0.13
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (308 bp):
AGAAAGAATGAAGATGATGAGAAAATATCTCATTCTTTTCCTTTTAAATTCCTTATATAACTTAA
TTAATATTGTAAACTTTAATTAATTACTTTAAACTTAATTAACATAACAATAAGCTTAATTAAGC
AACATAAGTGGAGAATGTTGTCATCTACCACCAAAATCCCATATAAAAAGGTAAATTTGCCATAT
TGAACCCTTAGAAAACTAAAAATCTATAATGGTTAAAATTTTACCACTTTTACGCTTTAATCCTT
GCACCTTAATTAACTATCAATTCAATAAATTTTCAGATCAAAATTTTT
Found at i:48090505 original size:40 final size:40
Alignment explanation
Indices: 48090405--48090669 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
48090395 GCTCCTCGTT
* * * *
48090405 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
48090445 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
48090484 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
48090524 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
48090564 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
48090604 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48090645 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48090670 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48090629 original size:80 final size:80
Alignment explanation
Indices: 48090372--48090669 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
48090362 AAATCACGTA
* ** * * *
48090372 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
48090434 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
48090450 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
48090513 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
48090530 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
48090594 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
48090610 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
48090670 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:48090678 original size:41 final size:41
Alignment explanation
Indices: 48090601--48090678 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48090591 TTTGTATCTC
* * *
48090601 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
48090642 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
48090679 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:48098401 original size:40 final size:40
Alignment explanation
Indices: 48098353--48098580 Score: 438
Period size: 40 Copynumber: 5.7 Consensus size: 40
48098343 GCAAACACAT
* *
48098353 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48098393 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48098433 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48098473 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48098513 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
48098553 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
48098581 TCCAATGCTC
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 186 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:48106444 original size:47 final size:47
Alignment explanation
Indices: 48106390--48106720 Score: 421
Period size: 47 Copynumber: 6.9 Consensus size: 47
48106380 TTAGGATTTT
** * * * **
48106390 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCAAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
**
48106437 ATGTGATGAATGTGAACCTGTATATATATATGAGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C---ATGCATATAT--GTGATAAGGCCGAATGGCCA
* *
48106490 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48106537 ATGTGATGAATGTGAACATG-AGTATGTGTGATAAGGCGGAATGGCCA
1 ATGTGATGAATGTGAACATGCA-TATATGTGATAAGGCCGAATGGCCA
* *
48106584 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48106631 ATGTGATGAATGTGAACATGCATATAAGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48106678 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATG
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATG
48106721 CCTAATGCGA
Statistics
Matches: 253, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
47 206 0.81
49 6 0.02
51 8 0.03
52 1 0.00
53 32 0.13
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48106837 original size:46 final size:46
Alignment explanation
Indices: 48106701--48106837 Score: 168
Period size: 46 Copynumber: 3.0 Consensus size: 46
48106691 GAACATGTAT
* * * *
48106701 ATATGTGGTAAGGCCGAATGCCTAATGCGAAATGTGTATGAGATAG
1 ATATGTAGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
48106747 ATATG-AGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGTA-GTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
48106793 ATATGTAGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTAGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
48106838 TGTATATATA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 76 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26
Consensus pattern (46 bp):
ATATGTAGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:48108471 original size:40 final size:40
Alignment explanation
Indices: 48108208--48108458 Score: 376
Period size: 40 Copynumber: 6.3 Consensus size: 40
48108198 TGAGAGTTAT
* *
48108208 ATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
*
48108248 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
48108288 ATATATCCGGGCTAAGTTTCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
48108328 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* * * * *
48108368 ATATGTCCGGGCTAAGTTCCAAAGAGCATTTGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
* *
48108408 ATATGTCCGGGCTAAGTTCCGAAGAGCAATCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
48108448 ATATATCCGGG
1 ATATATCCGGG
48108459 TTAAACCTCG
Statistics
Matches: 194, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 194 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
Found at i:48108599 original size:57 final size:57
Alignment explanation
Indices: 48108490--48108624 Score: 134
Period size: 57 Copynumber: 2.4 Consensus size: 57
48108480 GCTAGAATTA
*
48108490 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAGATCAGCGGT
1 TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGCGGT
* ** * * *
48108547 TGAGGCACTAG-GTGTGCGAGTTCTTTAA-TCGAGCGCTATGTGTGCGAAATCAGTCAG-
1 TGAGGCACT-GTGTGTGCAAGTTCTCCAACT-GAGCACTATGTGTGCCAAATCAG-CGGT
*
48108604 TG-GGCACTGTGTATGCGAAGT
1 TGAGGCACTGTGTGTGC-AAGT
48108625 GTGTTTCATG
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
55 1 0.02
56 12 0.19
57 48 0.75
58 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTCCAACTGAGCACTATGTGTGCCAAATCAGCGGT
Found at i:48109082 original size:48 final size:48
Alignment explanation
Indices: 48109011--48109158 Score: 235
Period size: 48 Copynumber: 3.0 Consensus size: 48
48109001 NNNNNNNNNN
48109011 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
48109059 TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
*
48109109 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
48109157 TA
1 TA
48109159 GGCGATGTGC
Statistics
Matches: 91, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
47 1 0.01
48 44 0.48
49 4 0.04
50 41 0.45
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:48109134 original size:50 final size:50
Alignment explanation
Indices: 48109011--48109155 Score: 233
Period size: 50 Copynumber: 2.9 Consensus size: 50
48109001 NNNNNNNNNN
*
48109011 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATA
*
48109059 TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATA
*
48109109 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
48109156 GTAGGCGATG
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 2 0.02
50 47 0.53
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (50 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATA
Found at i:48109173 original size:50 final size:50
Alignment explanation
Indices: 48109011--48109179 Score: 208
Period size: 48 Copynumber: 3.4 Consensus size: 50
48109001 NNNNNNNNNN
48109011 TATGAGATAT--GTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
48109059 TATGAGATATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
*
48109109 TATGAGATAT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATG
1 TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* * *
48109157 TAGGCGATGTGCGTATATTGTGG
1 TATGAGATATGCGTATA-TGTGG
48109180 CCGAACGACC
Statistics
Matches: 104, Mismatches: 6, Indels: 19
0.81 0.05 0.15
Matches are distributed among these distances:
47 1 0.01
48 48 0.46
49 4 0.04
50 45 0.43
51 6 0.06
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (50 bp):
TATGAGATATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:48110633 original size:40 final size:40
Alignment explanation
Indices: 48110571--48110901 Score: 491
Period size: 40 Copynumber: 8.3 Consensus size: 40
48110561 TGAGAGTTAT
*
48110571 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * *
48110611 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* *
48110651 ATATATCCGGGCTAAGTTCTGAAAAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * *
48110691 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* *
48110731 ATATATCCGGGCTAAGTTCTGAAAAGCATTCGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * *
48110771 ATATGTCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
*
48110811 ATATATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTGGTA
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
* * * *
48110851 ATATGTCCGGGCTAAGTTTCGAAGAGCAATCGTGCTGGTG
1 ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
48110891 ATATATCCGGG
1 ATATATCCGGG
48110902 TTAAACCTCG
Statistics
Matches: 257, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 257 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTA
Found at i:48110704 original size:80 final size:80
Alignment explanation
Indices: 48110571--48110901 Score: 581
Period size: 80 Copynumber: 4.1 Consensus size: 80
48110561 TGAGAGTTAT
* *
48110571 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
1 ATATATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
48110636 GCATTCGTGCTAGTG
66 GCATTCGTGCTAGTG
*
48110651 ATATATCCGGGCTAAGTTCTGAAAAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
1 ATATATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
48110716 GCATTCGTGCTAGTG
66 GCATTCGTGCTAGTG
*
48110731 ATATATCCGGGCTAAGTTCTGAAAAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
1 ATATATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
48110796 GCATTCGTGCTAGTG
66 GCATTCGTGCTAGTG
* * *
48110811 ATATATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTGGTAATATGTCCGGGCTAAGTTTCGAAGA
1 ATATATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
* *
48110876 GCAATCGTGCTGGTG
66 GCATTCGTGCTAGTG
48110891 ATATATCCGGG
1 ATATATCCGGG
48110902 TTAAACCTCG
Statistics
Matches: 242, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 242 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATATCCGGGCTAAGTTCCGAAAAGCATTCGTGCTGGTAATATGTCCGGGCTAAGTTCCGAAGA
GCATTCGTGCTAGTG
Found at i:48111023 original size:57 final size:57
Alignment explanation
Indices: 48110933--48111067 Score: 141
Period size: 57 Copynumber: 2.4 Consensus size: 57
48110923 GCTAGAATTA
* *
48110933 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCAAAATCAGTAGT
* ** * * *
48110990 TGAGGCACTAG-GTGTGCGAGTTCTTTAATCGAGCGCTATTTGTGCAAAATCAGTTAG-
1 TGAGGCACT-GTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCAAAATCAG-TAGT
*
48111047 TG-GGCACTGTGTATGCGAAGT
1 TGAGGCACTGTGTGTGC-AAGT
48111068 GTGTTTCATG
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
55 1 0.02
56 11 0.17
57 48 0.75
58 4 0.06
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (57 bp):
TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCAAAATCAGTAGT
Found at i:48114173 original size:117 final size:117
Alignment explanation
Indices: 48113967--48114199 Score: 457
Period size: 117 Copynumber: 2.0 Consensus size: 117
48113957 AGTAAAGGGG
48113967 TTTCCGATAATGAGATTTTCAAAGTTGGGTGAGACAGAGTCAGAATGGCTCCGAAATCCTCTATT
1 TTTCCGATAATGAGATTTTCAAAGTTGGGTGAGACAGAGTCAGAATGGCTCCGAAATCCTCTATT
48114032 CTGTATTTGGAAAATCATTATAAATCGTACAAAAATGATTATAAGATAAAAT
66 CTGTATTTGGAAAATCATTATAAATCGTACAAAAATGATTATAAGATAAAAT
*
48114084 TTTCCGATAATGAGATTTTCAAAGTTGGGTGAGACAGAGTCAGAATGGCTCCGAAATCCTCTGTT
1 TTTCCGATAATGAGATTTTCAAAGTTGGGTGAGACAGAGTCAGAATGGCTCCGAAATCCTCTATT
48114149 CTGTATTTGGAAAATCATTATAAATCGTACAAAAATGATTATAAGATAAAA
66 CTGTATTTGGAAAATCATTATAAATCGTACAAAAATGATTATAAGATAAAA
48114200 CTTTATGCTT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 115 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.31
Consensus pattern (117 bp):
TTTCCGATAATGAGATTTTCAAAGTTGGGTGAGACAGAGTCAGAATGGCTCCGAAATCCTCTATT
CTGTATTTGGAAAATCATTATAAATCGTACAAAAATGATTATAAGATAAAAT
Found at i:48114895 original size:47 final size:49
Alignment explanation
Indices: 48114841--48114951 Score: 163
Period size: 51 Copynumber: 2.3 Consensus size: 49
48114831 GATTTTATGG
*
48114841 GATGAATGTGAA-TGTGTATATAT-GAGATAAGGCCGAATGGCAAATGT
1 GATGAATGTGAACTGTATATATATCGAGATAAGGCCGAATGGCAAATGT
* *
48114888 GATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAA-CTGTATATATAT-CGAGATAAGGCCGAATGGCAAATGT
48114939 GATGAATGTGAAC
1 GATGAATGTGAAC
48114952 NNNNNNNNNN
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
47 12 0.21
49 10 0.18
50 1 0.02
51 34 0.60
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (49 bp):
GATGAATGTGAACTGTATATATATCGAGATAAGGCCGAATGGCAAATGT
Found at i:48115088 original size:46 final size:46
Alignment explanation
Indices: 48115021--48115276 Score: 415
Period size: 46 Copynumber: 5.6 Consensus size: 46
48115011 NNNNNNNNNN
* *
48115021 GGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGCTGAAT
1 GGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAAT
48115067 GGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAAT
1 GGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAAT
48115113 GGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAAT
1 GGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAAT
*
48115159 GGCTAATGCGAAACGTGTATGAGATAGATATGAGGTAAAGCCGAAT
1 GGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAAT
* *
48115205 GGCTAATGCAAAACGTGTATGAGATGGATATGTA-GTAAAGCCAAAT
1 GGCTAATGCGAAACGTGTATGAGATGGATATG-AGGTAAAGCCGAAT
* * **
48115251 GGCTAATGTGAGATATGTATGAGATG
1 GGCTAATGCGAAACGTGTATGAGATG
48115277 TGTATATATA
Statistics
Matches: 198, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 197 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.09, G:0.31, T:0.24
Consensus pattern (46 bp):
GGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGCCGAAT
Found at i:48115489 original size:37 final size:37
Alignment explanation
Indices: 48115459--48115607 Score: 253
Period size: 37 Copynumber: 4.0 Consensus size: 37
48115449 GTGGTGACTA
*
48115459 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
48115496 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
*
48115533 TGTCCGGGTAAAACTCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
* * *
48115570 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
48115607 T
1 T
48115608 ATCTGAGCTA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (37 bp):
TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
Found at i:48116460 original size:39 final size:39
Alignment explanation
Indices: 48116417--48116587 Score: 297
Period size: 39 Copynumber: 4.4 Consensus size: 39
48116407 TGTTACAACT
*
48116417 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
48116456 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
* * *
48116495 TTAGCCCGGATATAACACCAGCATGAATACCTTCGAGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
*
48116534 TTAGCCCAGATATAACACCAGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
48116573 TTAGCCCGGATATAA
1 TTAGCCCGGATATAA
48116588 TTCTCCATTA
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 123 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (39 bp):
TTAGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC
Found at i:48128982 original size:27 final size:27
Alignment explanation
Indices: 48128883--48128992 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
48128873 GCATGGCTGT
* * *
48128883 CAGAACAGATAA-TGTGACAGAGTCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
* *
48128909 CAGATACAGATAATCGTGGCAAAGCCAC
1 CAGAT-CAGATAATTGTGGCAGAGCCAC
* *
48128937 TAGA-CAGA-AATATGCGGCAGAGCCAC
1 CAGATCAGATAAT-TGTGGCAGAGCCAC
*
48128963 CAGATCAGATAATTGTGGCATAGCCAC
1 CAGATCAGATAATTGTGGCAGAGCCAC
48128990 CAG
1 CAG
48128993 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.04
26 22 0.33
27 26 0.39
28 16 0.24
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (27 bp):
CAGATCAGATAATTGTGGCAGAGCCAC
Found at i:48136793 original size:28 final size:28
Alignment explanation
Indices: 48136748--48136852 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 28
48136738 CTGCCAGAAT
* *
48136748 AGATAA-TGTGACAGAGTCACCAGATAC
1 AGATAATTGTGGCAGAGCCACCAGATAC
* *
48136775 AGATAATCGTGGCAGAGTCACCAGA-AC
1 AGATAATTGTGGCAGAGCCACCAGATAC
*
48136802 AGA-AATATGTGGTAGAGCCACCAGAT-C
1 AGATAAT-TGTGGCAGAGCCACCAGATAC
*
48136829 AGATAATTGTGGCATAGCCACCAG
1 AGATAATTGTGGCAGAGCCACCAG
48136853 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 3 0.04
27 45 0.67
28 19 0.28
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (28 bp):
AGATAATTGTGGCAGAGCCACCAGATAC
Found at i:48143142 original size:13 final size:12
Alignment explanation
Indices: 48143124--48143154 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
48143114 TTCAAAAAAA
48143124 TTTTTTCTTCTTT
1 TTTTTTC-TCTTT
48143137 TTTTTTCTCTTT
1 TTTTTTCTCTTT
48143149 TTTTTT
1 TTTTTT
48143155 GAAAATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:48143163 original size:16 final size:16
Alignment explanation
Indices: 48143144--48143177 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48143134 TTTTTTTTTC
*
48143144 TCTTTTTTTTTGAAAA
1 TCTTTGTTTTTGAAAA
*
48143160 TCTTTGTTTTTGTAAA
1 TCTTTGTTTTTGAAAA
48143176 TC
1 TC
48143178 CATTCCACAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.62
Consensus pattern (16 bp):
TCTTTGTTTTTGAAAA
Found at i:48144193 original size:28 final size:27
Alignment explanation
Indices: 48144139--48144250 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
48144129 AACATGGCTG
* *
48144139 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
48144165 CCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
48144193 CCAGAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
48144220 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
48144247 CCAG
1 CCAG
48144251 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.64
28 19 0.25
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:48144231 original size:54 final size:54
Alignment explanation
Indices: 48144139--48144250 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
48144129 AACATGGCTG
* * *
48144139 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
48144193 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
48144247 CCAG
1 CCAG
48144251 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:48155007 original size:16 final size:17
Alignment explanation
Indices: 48154986--48155017 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48154976 ACCAATTTGT
48154986 TAAAAT-AAATAAAAAA
1 TAAAATAAAATAAAAAA
48155002 TAAAATAAAATAAAAA
1 TAAAATAAAATAAAAA
48155018 GAACACAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
TAAAATAAAATAAAAAA
Found at i:48156929 original size:31 final size:31
Alignment explanation
Indices: 48156889--48156947 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
48156879 AACTCTTCCT
* *
48156889 GCATTAAATCTAACCAAAAACAACAAATATA
1 GCATGAAATCCAACCAAAAACAACAAATATA
*
48156920 GCATGAAATCCAACCAAAAACAGCAAAT
1 GCATGAAATCCAACCAAAAACAACAAAT
48156948 GTAACATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.56, C:0.22, G:0.07, T:0.15
Consensus pattern (31 bp):
GCATGAAATCCAACCAAAAACAACAAATATA
Found at i:48163130 original size:13 final size:15
Alignment explanation
Indices: 48163097--48163133 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
48163087 CTAGGGACAC
*
48163097 GCCCGTGTCTCATAT
1 GCCCGTGTCTCATAG
48163112 GCCCGTGTCT-AT-G
1 GCCCGTGTCTCATAG
48163125 GCCCGTGTC
1 GCCCGTGTC
48163134 CCTCACACGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 2 0.10
15 10 0.48
ACGTcount: A:0.08, C:0.35, G:0.27, T:0.30
Consensus pattern (15 bp):
GCCCGTGTCTCATAG
Found at i:48169145 original size:16 final size:16
Alignment explanation
Indices: 48169120--48169152 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48169110 TTATTTATAT
*
48169120 TTATTCATATAATAAA
1 TTATTAATATAATAAA
48169136 TTATTAATATAATAAA
1 TTATTAATATAATAAA
48169152 T
1 T
48169153 ATAATTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATTAATATAATAAA
Found at i:48169156 original size:22 final size:22
Alignment explanation
Indices: 48169131--48169174 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
48169121 TATTCATATA
48169131 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
48169153 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
48169175 GATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:48169210 original size:13 final size:14
Alignment explanation
Indices: 48169193--48169236 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
48169183 ATTTCAATTT
*
48169193 TATTTTAATAATAA
1 TATTTTAAAAATAA
48169207 -ATTTTAAAAATAA
1 TATTTTAAAAATAA
*
48169220 TATTTT-TAAATAA
1 TATTTTAAAAATAA
48169233 TATT
1 TATT
48169237 ATTCACATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 22 0.81
14 5 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTTAAAAATAA
Found at i:48169287 original size:15 final size:15
Alignment explanation
Indices: 48169267--48169323 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
48169257 ATTCTATATT
48169267 AATATTTTAATAATA
1 AATATTTTAATAATA
*
48169282 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
48169301 AATATATTAATAATA
1 AATATTTTAATAATA
*
48169316 AATGTTTT
1 AATATTTT
48169324 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:48170004 original size:34 final size:34
Alignment explanation
Indices: 48169961--48170035 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
48169951 GGTTTAAATT
*
48169961 TTTTTGTAGTTATTATTGTTATCAAAATTTAGTA
1 TTTTGGTAGTTATTATTGTTATCAAAATTTAGTA
*
48169995 TTTTGGTAGTTATTATTGTTGTCAAAATTTAGTA
1 TTTTGGTAGTTATTATTGTTATCAAAATTTAGTA
48170029 TTTTGGT
1 TTTTGGT
48170036 CACTCTTCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (34 bp):
TTTTGGTAGTTATTATTGTTATCAAAATTTAGTA
Found at i:48170037 original size:19 final size:19
Alignment explanation
Indices: 48169982--48170037 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
48169972 ATTATTGTTA
48169982 TCAAAATTTAGTATTTTGG
1 TCAAAATTTAGTATTTTGG
* *
48170001 T----AGTTATTATTGTT-G
1 TCAAAATTTAGTATT-TTGG
48170016 TCAAAATTTAGTATTTTGG
1 TCAAAATTTAGTATTTTGG
48170035 TCA
1 TCA
48170038 CTCTTCCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 12
0.63 0.09 0.28
Matches are distributed among these distances:
15 10 0.37
16 2 0.07
18 2 0.07
19 13 0.48
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (19 bp):
TCAAAATTTAGTATTTTGG
Found at i:48173125 original size:9 final size:9
Alignment explanation
Indices: 48173113--48173272 Score: 50
Period size: 10 Copynumber: 17.4 Consensus size: 9
48173103 AAAAATAGAA
48173113 AAAAATTAT
1 AAAAATTAT
48173122 AAAAAATTA-
1 -AAAAATTAT
48173131 AAATAA--AT
1 AAA-AATTAT
**
48173139 AAAAGCTAT
1 AAAAATTAT
*
48173148 AAATATTATT
1 AAAAATTA-T
**
48173158 AAATTTTAAT
1 AAAAATT-AT
48173168 AAAAAATT-T
1 -AAAAATTAT
*
48173177 AAATATT--
1 AAAAATTAT
*
48173184 AAAAATTAGA
1 AAAAATTA-T
*
48173194 AAAAAATCAT
1 AAA-AATTAT
48173204 AAAAA-TAT
1 AAAAATTAT
*
48173212 -AAAATCAT
1 AAAAATTAT
48173220 AAAAATATAT
1 AAAAAT-TAT
*
48173230 AAAAAATTGT
1 -AAAAATTAT
*
48173240 AAAATTTTAT
1 AAAA-ATTAT
48173250 AAAAATCGTA-
1 AAAAAT--TAT
48173260 AAAAATTAT
1 AAAAATTAT
48173269 AAAA
1 AAAA
48173273 TATAAAATTT
Statistics
Matches: 113, Mismatches: 18, Indels: 39
0.66 0.11 0.23
Matches are distributed among these distances:
7 12 0.11
8 18 0.16
9 26 0.23
10 39 0.35
11 18 0.16
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48173142 original size:26 final size:26
Alignment explanation
Indices: 48173104--48173237 Score: 64
Period size: 26 Copynumber: 5.0 Consensus size: 26
48173094 CTTTTATTAA
48173104 AAAATAGAA-AAAAATTATAAAAAATT
1 AAAATA-AATAAAAATTATAAAAAATT
** *
48173130 AAAATAAATAAAAGCTATAAATATTATT
1 AAAATAAATAAAAATTATAAA-A-AATT
* * *
48173158 AAATTTTAATAAAAAATT-T-AAATATT
1 AAA-ATAAAT-AAAAATTATAAAAAATT
*
48173184 AAAAATTAGAA-AAAAATCAT-AAAAATAT
1 -AAAA-TA-AATAAAAATTATAAAAAAT-T
*
48173212 AAAAT-CATAAAAATATATAAAAAATT
1 AAAATAAATAAAAAT-TATAAAAAATT
48173238 GTAAAATTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
24 1 0.01
25 8 0.10
26 30 0.37
27 22 0.27
28 11 0.13
29 5 0.06
30 5 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAATAAATAAAAATTATAAAAAATT
Found at i:48173217 original size:16 final size:16
Alignment explanation
Indices: 48173196--48173228 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48173186 AAATTAGAAA
48173196 AAAATCATAAAAATAT
1 AAAATCATAAAAATAT
48173212 AAAATCATAAAAATAT
1 AAAATCATAAAAATAT
48173228 A
1 A
48173229 TAAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATCATAAAAATAT
Found at i:48173242 original size:20 final size:20
Alignment explanation
Indices: 48173212--48173272 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
48173202 ATAAAAATAT
*
48173212 AAAATCATAAAAATATATAA
1 AAAATCGTAAAAATATATAA
* * *
48173232 AAAATTGTAAAATTTTAT-A
1 AAAATCGTAAAAATATATAA
48173251 AAAATCGTAAAAA-ATTATAA
1 AAAATCGTAAAAATA-TATAA
48173271 AA
1 AA
48173273 TATAAAATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (20 bp):
AAAATCGTAAAAATATATAA
Found at i:48173243 original size:19 final size:19
Alignment explanation
Indices: 48173194--48173272 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
48173184 AAAAATTAGA
*
48173194 AAAAAATCATAAAA-ATAT
1 AAAAAATCGTAAAATATAT
*
48173212 --AAAATCATAAAAATATAT
1 AAAAAATCGT-AAAATATAT
* *
48173230 AAAAAATTGTAAAAT-TTT
1 AAAAAATCGTAAAATATAT
*
48173248 ATAAAAATCGTAAAAAATTAT
1 A-AAAAATCGTAAAATA-TAT
48173269 AAAA
1 AAAA
48173273 TATAAAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 8 0.17
17 4 0.08
18 7 0.15
19 17 0.35
20 9 0.19
21 3 0.06
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAAATCGTAAAATATAT
Found at i:48173252 original size:82 final size:82
Alignment explanation
Indices: 48173098--48173254 Score: 194
Period size: 82 Copynumber: 1.9 Consensus size: 82
48173088 CCCCTTCTTT
* * * *
48173098 TATTAAAAAATAGAAAAAAATTATAAAAAATTAAAATAAATAAAAGCTATAAATATTATTAAATT
1 TATTAAAAAATAGAAAAAAATCATAAAAAATTAAAATAAATAAAAGATATAAAAATTATAAAATT
48173163 TTAATAAAAAATTTAAA
66 TTAATAAAAAATTTAAA
* * * *
48173180 TATTAAAAATTAGAAAAAAATCAT-AAAAATATAAAAT-CATAAAAATATATAAAAAATTGTAAA
1 TATTAAAAAATAGAAAAAAATCATAAAAAAT-TAAAATAAAT-AAAAGATAT-AAAAATTATAAA
48173243 ATTTT-ATAAAAA
63 ATTTTAATAAAAA
48173255 TCGTAAAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
81 8 0.12
82 42 0.66
83 14 0.22
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.31
Consensus pattern (82 bp):
TATTAAAAAATAGAAAAAAATCATAAAAAATTAAAATAAATAAAAGATATAAAAATTATAAAATT
TTAATAAAAAATTTAAA
Found at i:48173286 original size:36 final size:36
Alignment explanation
Indices: 48173209--48173305 Score: 115
Period size: 36 Copynumber: 2.6 Consensus size: 36
48173199 ATCATAAAAA
* * *
48173209 TATAAAATCATAAAAATATATAAAAAATTGTAAAATTT
1 TATAAAATCGTAAAAA-AT-TATAAAATTATAAAATTT
48173247 TATAAAAATCGTAAAAAATTATAAAA-TATAAAATTT
1 TAT-AAAATCGTAAAAAATTATAAAATTATAAAATTT
*
48173283 TATAAAGTCGTAAGAAAATTATA
1 TATAAAATCGTAA-AAAATTATA
48173306 CAAAATGTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
35 9 0.17
36 21 0.40
37 6 0.11
38 5 0.09
39 12 0.23
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (36 bp):
TATAAAATCGTAAAAAATTATAAAATTATAAAATTT
Done.