Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 187 of 276
Found at i:61566921 original size:36 final size:36
Alignment explanation
Indices: 61566874--61566947 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
61566864 ATTCGGGCCC
*
61566874 TTGAGCCTAGCAGGCTATAATACTGGTGAGATACTA
1 TTGAGCCTAGCAGGCTATAATACCGGTGAGATACTA
*
61566910 TTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTA
1 TTGAGCCTAGCAGGCTATAATACCGGTGAGATACTA
61566946 TT
1 TT
61566948 TGGGCTTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (36 bp):
TTGAGCCTAGCAGGCTATAATACCGGTGAGATACTA
Found at i:61566963 original size:45 final size:43
Alignment explanation
Indices: 61566912--61567026 Score: 126
Period size: 45 Copynumber: 2.7 Consensus size: 43
61566902 AGATACTATT
* *
61566912 GAGCCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTTGGGCTTTA
1 GAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCGGGC-TTA
* * *
61566957 GAGCCTAGCAAGCTATAATGTCGGTGAAATGATATCGGGCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTA
* *
61567000 GAGCCTAGCAGGC-AAAATGCCAGTGAA
1 GAGCCTAGCAGGCTATAATGCCGGTGAA
61567027 TGAATTCAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 11 0.18
43 14 0.23
44 5 0.08
45 29 0.48
46 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (43 bp):
GAGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTA
Found at i:61571650 original size:29 final size:28
Alignment explanation
Indices: 61571593--61571707 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 28
61571583 TACCTATATC
* *
61571593 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
*
61571621 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
*
61571650 TGGCCAATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
* * *
61571679 TGGCCCGTAAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
61571707 T
1 T
61571708 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
27 2 0.03
28 24 0.32
29 46 0.62
30 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:61571684 original size:58 final size:57
Alignment explanation
Indices: 61571584--61571694 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
61571574 AAATTCACAT
* * * *
61571584 ACCTATATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCAATTAAGCCCAATCACATTCATATGGCCCATAAGGCCCAAATC
* * * *
61571641 ACCTGTATATGGCCAATTAGGCCCAAATCACATTTATATGGCCCGTAAGGCCCA
1 ACCTATATATGGCCAATTAAGCCC-AATCACATTCATATGGCCCATAAGGCCCA
61571695 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 20 0.44
58 25 0.56
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (57 bp):
ACCTATATATGGCCAATTAAGCCCAATCACATTCATATGGCCCATAAGGCCCAAATC
Found at i:61571937 original size:9 final size:9
Alignment explanation
Indices: 61571907--61571943 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
61571897 AACTTTCAGC
61571907 TTTTTGGCA
1 TTTTTGGCA
*
61571916 -TTTCGGC-
1 TTTTTGGCA
61571923 TTTTTGGCA
1 TTTTTGGCA
61571932 TTTTTGGCA
1 TTTTTGGCA
61571941 TTT
1 TTT
61571944 CGGCTTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
8 12 0.50
9 12 0.50
ACGTcount: A:0.08, C:0.14, G:0.22, T:0.57
Consensus pattern (9 bp):
TTTTTGGCA
Found at i:61571951 original size:16 final size:16
Alignment explanation
Indices: 61571900--61571934 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
61571890 GTAGCCAAAC
61571900 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
*
61571916 TTTCGGCTTTTTGGCA
1 TTTCAGCTTTTTGGCA
61571932 TTT
1 TTT
61571935 TTGGCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.17, G:0.20, T:0.54
Consensus pattern (16 bp):
TTTCAGCTTTTTGGCA
Found at i:61578435 original size:27 final size:27
Alignment explanation
Indices: 61578405--61578456 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
61578395 CCTAATTTGA
61578405 TGAAATGACT-ATTATACCCCTATGAGG
1 TGAAATGACTGA-TATACCCCTATGAGG
61578432 TGAAATGACTGATATACCCCTATGA
1 TGAAATGACTGATATACCCCTATGA
61578457 TATGTATGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (27 bp):
TGAAATGACTGATATACCCCTATGAGG
Found at i:61584345 original size:64 final size:64
Alignment explanation
Indices: 61584264--61584447 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
61584254 AGACATTATG
* *
61584264 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
61584328 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAAAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
61584393 AA
63 AA
* * * *
61584395 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
61584448 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:61586347 original size:25 final size:25
Alignment explanation
Indices: 61586319--61586381 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
61586309 CTCAGGGTAC
61586319 ACTAACTAAAGT-GTTTTCACAATAT
1 ACTAACTAAAGTAG-TTTCACAATAT
* * *
61586344 ACTACCTACAGTAGTTTCAGAATAT
1 ACTAACTAAAGTAGTTTCACAATAT
* *
61586369 ACTATCTATAGTA
1 ACTAACTAAAGTA
61586382 TTTTTAGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (25 bp):
ACTAACTAAAGTAGTTTCACAATAT
Found at i:61590697 original size:28 final size:29
Alignment explanation
Indices: 61590633--61590748 Score: 173
Period size: 28 Copynumber: 4.1 Consensus size: 29
61590623 GAAAGCATGT
61590633 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
61590662 GTATGAATGTGATTTGGG-CTAATGGGAC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
61590690 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
61590719 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
61590747 AT
1 AT
61590749 TTACATGTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 42 0.54
29 36 0.46
ACGTcount: A:0.25, C:0.13, G:0.33, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:61608705 original size:56 final size:56
Alignment explanation
Indices: 61608643--61608788 Score: 172
Period size: 56 Copynumber: 2.6 Consensus size: 56
61608633 TTGGCGCTAC
*
61608643 GTGTGCGGGTTTAAAT-TGTGCAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAA
1 GTGTGCGAGTTTAAATATGT--AGCACTAAGTGTGCGAGATTGACTATGTAGCACTAA
* * * *
61608699 GTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAA
1 GTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCACTAA
* * * *
61608755 GTGTGCGAG-TTGATTATATAGCACTGAGTGTGCG
1 GTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCG
61608789 GACTTAATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
55 38 0.47
56 39 0.49
57 3 0.04
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (56 bp):
GTGTGCGAGTTTAAATATGTAGCACTAAGTGTGCGAGATTGACTATGTAGCACTAA
Found at i:61608721 original size:28 final size:28
Alignment explanation
Indices: 61608664--61608788 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
61608654 TAAATTGTGC
*
61608664 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
61608691 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
61608719 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
61608747 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
61608774 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61608789 GACTTAATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 39 0.42
28 54 0.58
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:61622683 original size:104 final size:104
Alignment explanation
Indices: 61622503--61622711 Score: 391
Period size: 104 Copynumber: 2.0 Consensus size: 104
61622493 CTAGTCGTTT
** *
61622503 TAAAAATCATATCTTGAGTTTCGTAACTTGAAAATCAGTTTCGTAATTTTTCCCAGAAACTAGAC
1 TAAAAATCATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAAAC
61622568 TCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGG
66 TCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGG
61622607 TAAAAATCATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAAAC
1 TAAAAATCATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAAAC
61622672 TCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGG
66 TCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGG
61622711 T
1 T
61622712 CTGGCCAATT
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (104 bp):
TAAAAATCATATCTTGAGTTTCGTAACTCAAAAATCAGTTTCGTAATTTTTCCCAGAAACTAAAC
TCATGTGCCCATCTATGTATTTTTTTCTAGAATTTTTGG
Found at i:61625957 original size:30 final size:30
Alignment explanation
Indices: 61625911--61625969 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
61625901 TTCCCGAGCC
*
61625911 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
61625941 TAGGGGTAAAAATGTAATTTTGCAAAAGT
1 TAGGGGCAAAAATGTAATTATGCAAAAGT
61625970 GTAATTGGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:61630387 original size:21 final size:21
Alignment explanation
Indices: 61630363--61630403 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
61630353 GCATGAAGCA
61630363 CATAATGGTTGTTTGGCAGTT
1 CATAATGGTTGTTTGGCAGTT
61630384 CATAATGGTTGTTTGGCAGT
1 CATAATGGTTGTTTGGCAGT
61630404 ATGAAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.29, T:0.41
Consensus pattern (21 bp):
CATAATGGTTGTTTGGCAGTT
Found at i:61632507 original size:30 final size:30
Alignment explanation
Indices: 61632471--61632531 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
61632461 TTCCCGAGCC
*
61632471 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
61632501 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
61632531 T
1 T
61632532 GTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:61633024 original size:47 final size:46
Alignment explanation
Indices: 61632955--61633079 Score: 132
Period size: 46 Copynumber: 2.7 Consensus size: 46
61632945 ATGGTTGAGT
* * *
61632955 TCCGAACTCGATGAGTTGAGTCCGAGTTC-GTGA-GATGT-AACTAGGC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGTGAAC---GC
* *
61633001 ATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGTGAACGC
61633049 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
61633080 TATGGGTGGG
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
46 30 0.44
47 26 0.38
48 4 0.06
50 5 0.07
51 3 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGTGAACGC
Found at i:61636580 original size:206 final size:206
Alignment explanation
Indices: 61636226--61636633 Score: 717
Period size: 206 Copynumber: 2.0 Consensus size: 206
61636216 GACTTTGGTC
* *
61636226 CGAATCCCTTGGCACGCAAAGGTTGATTATTTTGCTATATTGGGATGGCAAGAGTTGGTGTTGGT
1 CGAATCCCTTGGCACACAAAGGTTGATTATTTTGCTATATTGGGACGGCAAGAGTTGGTGTTGGT
61636291 TTTAAACTCTAGTGATGGAGGGATCCCACATCGGGAAGCTAACATAAGAGTAGATGAAGAGCTGG
66 TTTAAACTCTAGTGATGGAGGGATCCCACATCGGGAAGCTAACATAAGAGTAGATGAAGAGCTGG
* *
61636356 CTTTAAATAGAGCAAACCATGAGGAGTGTAGGCATACCCTTCTTGGCTGATCCCTTTCGCTTTGT
131 CTTTAAATAGAGCAAACCATGAGGAGAGTAGGCATACCCTTCTTGGCTAATCCCTTTCGCTTTGT
*
61636421 GATGTGCGGTT
196 GACGTGCGGTT
*
61636432 CGAATCCCTTGGCACACAAAGGTTGATTATTTTGCTATGTTGGGACGGCAAGAGTTGGTGTTGGT
1 CGAATCCCTTGGCACACAAAGGTTGATTATTTTGCTATATTGGGACGGCAAGAGTTGGTGTTGGT
* * * *
61636497 TTTAAACTCTGGTGATGGAGGTATCTCACATCGGGAAGCTAACATAAGAGTAGATGGAGAGCTGG
66 TTTAAACTCTAGTGATGGAGGGATCCCACATCGGGAAGCTAACATAAGAGTAGATGAAGAGCTGG
*
61636562 CTTTAAATAGAGCAAACCATGAGGAGAGTAGGCATACCCTTCTTGGCTAATCCCTTTCTCTTTGT
131 CTTTAAATAGAGCAAACCATGAGGAGAGTAGGCATACCCTTCTTGGCTAATCCCTTTCGCTTTGT
61636627 GACGTGC
196 GACGTGC
61636634 TCGTTTGGGT
Statistics
Matches: 191, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
206 191 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (206 bp):
CGAATCCCTTGGCACACAAAGGTTGATTATTTTGCTATATTGGGACGGCAAGAGTTGGTGTTGGT
TTTAAACTCTAGTGATGGAGGGATCCCACATCGGGAAGCTAACATAAGAGTAGATGAAGAGCTGG
CTTTAAATAGAGCAAACCATGAGGAGAGTAGGCATACCCTTCTTGGCTAATCCCTTTCGCTTTGT
GACGTGCGGTT
Found at i:61640611 original size:22 final size:21
Alignment explanation
Indices: 61640586--61640637 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
61640576 TCACCTTTTC
* *
61640586 CTTTATTTTTTTGATTTTCTTT
1 CTTT-TTTTTTTCATTTTCTCT
*
61640608 CTTTTTCTTTTTCTTTTTCTCT
1 CTTTTT-TTTTTCATTTTCTCT
61640630 CTTTTTTT
1 CTTTTTTT
61640638 CTTGCTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (21 bp):
CTTTTTTTTTTCATTTTCTCT
Found at i:61640614 original size:6 final size:6
Alignment explanation
Indices: 61640605--61640657 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
61640595 TTTGATTTTC
* **
61640605 TTTCTT TTTCTT TTTCTT TTTCTCT CTT-TT TTTCTT GCTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT TTTCTT TTTCTT TTTCTT
61640653 TTTCT
1 TTTCT
61640658 ACAGTATCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 3 0.08
6 33 0.85
7 3 0.08
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:61640639 original size:30 final size:31
Alignment explanation
Indices: 61640600--61640657 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
61640590 ATTTTTTTGA
**
61640600 TTTTCTTTCTTTTTCTTTTTCTTTTTCTCTC
1 TTTTCTTTCTTGCTCTTTTTCTTTTTCTCTC
61640631 TTTT-TTTCTTGCTCTTTTTCTTTTTCT
1 TTTTCTTTCTTGCTCTTTTTCTTTTTCT
61640658 ACAGTATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.78
Consensus pattern (31 bp):
TTTTCTTTCTTGCTCTTTTTCTTTTTCTCTC
Found at i:61653744 original size:121 final size:121
Alignment explanation
Indices: 61653530--61654015 Score: 895
Period size: 121 Copynumber: 4.0 Consensus size: 121
61653520 AAACACATAC
* *
61653530 CTCAATCAAGCTTGGACCATGGTCAAATGCTTCAAACAGTTAAACCCTATCTTTTCATTT-TATT
1 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTC-TTTCTATT
61653594 TTCGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
65 TTCGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
61653651 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTCATTT-TATT
1 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTC-TTTCTATT
61653715 TTCGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
65 TTCGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
61653772 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTCTTTCTATTT
1 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTCTTTCTATTT
*
61653837 TTGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
66 TCGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
61653893 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTCTTTCTATTT
1 CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTCTTTCTATTT
* *
61653958 TTGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAATAATATTAA
66 TCGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
61654014 CT
1 CT
61654016 TAAATTTACC
Statistics
Matches: 360, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
120 3 0.01
121 357 0.99
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (121 bp):
CTCAATCAAGCTTGGACCATGGCCAAATGCTTCAAACACTTAAACCCTATCTTTTCTTTCTATTT
TCGGTGGAAGATGAATGAACCAAATGAATTTTTAACCTTTGTTTTAACAATATTAA
Found at i:61655193 original size:37 final size:37
Alignment explanation
Indices: 61655134--61655242 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
61655124 AGCTCAGACG
* *
61655134 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
61655171 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
61655208 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
61655243 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:61655513 original size:48 final size:48
Alignment explanation
Indices: 61655389--61656197 Score: 1557
Period size: 48 Copynumber: 16.8 Consensus size: 48
61655379 GCACATCGCC
*
61655389 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
61655439 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
61655487 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655535 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655583 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655631 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655679 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655727 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655775 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655823 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655871 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655919 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61655967 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61656015 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61656063 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61656111 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
61656159 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
61656198 TGCATGTTCA
Statistics
Matches: 752, Mismatches: 5, Indels: 6
0.99 0.01 0.01
Matches are distributed among these distances:
48 708 0.94
49 2 0.00
50 42 0.06
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:61656303 original size:47 final size:47
Alignment explanation
Indices: 61656167--61656313 Score: 186
Period size: 47 Copynumber: 3.1 Consensus size: 47
61656157 CATACATATT
* * * *
61656167 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
61656214 CCACATTGGCCATTCGGCCTTATCGCACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
61656261 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
61656308 TCACAT
1 TCACAT
61656314 AAAATCCTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 85 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:61660707 original size:26 final size:26
Alignment explanation
Indices: 61660678--61660727 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
61660668 CTGAAGTACA
61660678 AAGCTTTCTAAGGTCGGCCAAGTATG
1 AAGCTTTCTAAGGTCGGCCAAGTATG
*
61660704 AAGCTTTCTAAGGTTGGCCAAGTA
1 AAGCTTTCTAAGGTCGGCCAAGTA
61660728 CCACCGCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (26 bp):
AAGCTTTCTAAGGTCGGCCAAGTATG
Found at i:61665627 original size:27 final size:26
Alignment explanation
Indices: 61665579--61665638 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
61665569 GCGAAGCTGC
*
61665579 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
61665606 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
61665632 CAGATAT
1 CAGATAT
61665639 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:61666426 original size:55 final size:54
Alignment explanation
Indices: 61666351--61666470 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 54
61666341 AGGGGCAAAA
* * *
61666351 TAGTCATTTTACCCTCCAGGGGTAAATCGGTAGTCCTACCCTACAAGGGGTATTT
1 TAGTAATTCTACCCTCCAGGGGTAAATCGGTAATCCTACCCTA-AAGGGGTATTT
* ** * * *
61666406 TAGTAATTCTACCCTGCAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTT
1 TAGTAATTCTACCCTCCAGGGGTAAATCGGTAATCCTACCCTAAAGGGGTATTT
*
61666460 CAGTAATTCTA
1 TAGTAATTCTA
61666471 TAAATTGAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
54 20 0.36
55 35 0.64
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (54 bp):
TAGTAATTCTACCCTCCAGGGGTAAATCGGTAATCCTACCCTAAAGGGGTATTT
Found at i:61666430 original size:27 final size:27
Alignment explanation
Indices: 61666386--61666470 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
61666376 ATCGGTAGTC
*
61666386 CTACCCTACAAGGGGTATTTTAGTAATT
1 CTACCCTAC-AGGGGTATTTCAGTAATT
* *
61666414 CTACCCTGCAGGGGTATTTCGGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
* *
61666441 CTACCTTATAGGGGTATTTCAGTAATT
1 CTACCCTACAGGGGTATTTCAGTAATT
61666468 CTA
1 CTA
61666471 TAAATTGAGG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 42 0.84
28 8 0.16
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
CTACCCTACAGGGGTATTTCAGTAATT
Found at i:61666482 original size:27 final size:27
Alignment explanation
Indices: 61666425--61666548 Score: 92
Period size: 27 Copynumber: 4.6 Consensus size: 27
61666415 TACCCTGCAG
* *
61666425 GGGTATTTCGGTAATTCTACCT-TATAG-
1 GGGTATTTCGGTAATTCTA--TAAATTGA
*
61666452 GGGTATTTCAGTAATTCTATAAATTGA
1 GGGTATTTCGGTAATTCTATAAATTGA
*** * *
61666479 GGGTAAAACGATAATTCTATAAATTGG
1 GGGTATTTCGGTAATTCTATAAATTGA
* * * *
61666506 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCGGTAATTCTATAAATTGA
61666533 GGGTATTTCGGTAATT
1 GGGTATTTCGGTAATT
61666549 TGGTAAACCA
Statistics
Matches: 75, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
25 1 0.01
26 6 0.08
27 68 0.91
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTATAAATTGA
Found at i:61667931 original size:24 final size:24
Alignment explanation
Indices: 61667874--61667921 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61667864 CGCATGAATT
61667874 TAAAAGTATGTTTCAATATTTTTA
1 TAAAAGTATGTTTCAATATTTTTA
61667898 TAAAAGTATGTTTCAATATTTTTA
1 TAAAAGTATGTTTCAATATTTTTA
61667922 CTTAAGTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
TAAAAGTATGTTTCAATATTTTTA
Found at i:61674125 original size:79 final size:81
Alignment explanation
Indices: 61674023--61674207 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
61674013 GCTCCTCGTT
* *
61674023 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
61674085 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
61674103 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
61674167 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
61674183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61674208 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:61674207 original size:40 final size:40
Alignment explanation
Indices: 61674023--61674207 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
61674013 GCTCCTCGTT
* * *
61674023 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
61674063 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
61674103 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
61674142 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
61674183 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61674208 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:61682054 original size:28 final size:27
Alignment explanation
Indices: 61681999--61682111 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
61681989 AGCATGGCTG
* * *
61681999 CCAGAACAGATAA-TATGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
61682025 CCAGATACAGATAATTGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
61682053 CCAGAACAGAT-ATGTGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * * *
61682080 CCTGATCAAATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA-TTGTGGCAGAGCCA
61682108 CCAG
1 CCAG
61682112 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.09
27 35 0.47
28 31 0.42
29 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:61692221 original size:21 final size:21
Alignment explanation
Indices: 61692176--61692238 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
61692166 TTTGAACCAT
* *
61692176 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTA-CAAATTCCA
*
61692198 TACCATTTCGTACTAATTCCA
1 TACCATTTCGTACAAATTCCA
* * *
61692219 TACTATTTCGAACCAATTCC
1 TACCATTTCGTACAAATTCC
61692239 CAAATACCAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 24 0.69
22 11 0.31
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (21 bp):
TACCATTTCGTACAAATTCCA
Found at i:61699764 original size:18 final size:18
Alignment explanation
Indices: 61699741--61699831 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 18
61699731 AACAAGTGAG
61699741 GAAAAAGAAAAAGAAAAT
1 GAAAAAGAAAAAGAAAAT
* *
61699759 GAAAAAGAGCAAAAAGAGATT
1 G-AAAA-AG-AAAAAGAAAAT
* ** *
61699780 GAGAGTGAAAAAGAAATT
1 GAAAAAGAAAAAGAAAAT
*
61699798 GAAGAAAG-AAGAGAAAAT
1 GAA-AAAGAAAAAGAAAAT
**
61699816 GAATTAGAAAAAGAAA
1 GAAAAAGAAAAAGAAA
61699832 CAAAAGAAAA
Statistics
Matches: 54, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
17 2 0.04
18 31 0.57
19 7 0.13
20 4 0.07
21 10 0.19
ACGTcount: A:0.66, C:0.01, G:0.23, T:0.10
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAAAT
Found at i:61701281 original size:30 final size:30
Alignment explanation
Indices: 61701246--61701307 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
61701236 TTTACCCATT
61701246 TTACCTACTACCATTGTTTGAAGCCATTTA
1 TTACCTACTACCATTGTTTGAAGCCATTTA
61701276 TTACCTACTACCATTGTTTGAAGCCATTTA
1 TTACCTACTACCATTGTTTGAAGCCATTTA
61701306 TT
1 TT
61701308 CTATTTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.42
Consensus pattern (30 bp):
TTACCTACTACCATTGTTTGAAGCCATTTA
Found at i:61709993 original size:31 final size:31
Alignment explanation
Indices: 61709957--61710019 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
61709947 TGTGTATAAT
61709957 CGACTAAATGGGTAATTAGTGAGGATGGTTG
1 CGACTAAATGGGTAATTAGTGAGGATGGTTG
*
61709988 CGACTAAATGGGTAATTAGTGTGGATGGTTG
1 CGACTAAATGGGTAATTAGTGAGGATGGTTG
61710019 C
1 C
61710020 CGAATATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.35, T:0.30
Consensus pattern (31 bp):
CGACTAAATGGGTAATTAGTGAGGATGGTTG
Found at i:61710459 original size:27 final size:27
Alignment explanation
Indices: 61710428--61710605 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
61710418 TAAATTGTAC
61710428 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
61710455 TGCACTAAGTGTCCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61710481 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61710509 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61710537 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
61710564 AGCTCTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61710591 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61710606 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61710572 original size:82 final size:81
Alignment explanation
Indices: 61710429--61710584 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
61710419 AAATTGTACA
* *
61710429 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTCCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAAGTGT
61710494 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** * *
61710510 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCTCTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGAT-GCACTAAGT
*
61710574 GTGCGAGTTGA
64 GTGCGAATTGA
61710585 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61710596 original size:82 final size:81
Alignment explanation
Indices: 61710425--61710605 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
61710415 GATTAAATTG
* *
61710425 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTCCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAA
61710490 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** * *
61710506 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCTCT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGAT-GCACT
* **
61710570 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61710588 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61710606 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTCCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61715255 original size:107 final size:107
Alignment explanation
Indices: 61715069--61715282 Score: 410
Period size: 107 Copynumber: 2.0 Consensus size: 107
61715059 TGAGAAGAAA
*
61715069 ACCAATTGGCTGATGCTCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
61715134 ATGTCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
66 ATGTCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
61715176 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
*
61715241 ATGTCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
66 ATGTCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
61715283 TTCAGCATTG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (107 bp):
ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
ATGTCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
Found at i:61717662 original size:73 final size:72
Alignment explanation
Indices: 61717450--61717679 Score: 266
Period size: 73 Copynumber: 3.2 Consensus size: 72
61717440 TGATGTTTTT
* ** * * *
61717450 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGGGTTGAGCCTCAATAG-ACGTTGAGG
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA-GGCACGCTGAGG
61717514 TATTTTCA
65 TATTTTCA
* * * *
61717522 ATTTCTGTCTTTCAAAAAAATCAACTCATA-TGTGAGAGGTGAGTTGATCCTCAAGACATGCTGA
1 ATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGA
61717586 GGTATTTTCA
63 GGTATTTTCA
* * **
61717596 ATTTCTGTTTGTCAAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGG
61717661 TATTTTCA
65 TATTTTCA
*
61717669 ATTTTTGTTTT
1 ATTTCTGTTTT
61717680 TTAATTTATG
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
72 23 0.17
73 52 0.39
74 44 0.33
75 14 0.11
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (72 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCACGCTGAGGT
ATTTTCA
Found at i:61717798 original size:72 final size:72
Alignment explanation
Indices: 61717694--61717875 Score: 355
Period size: 72 Copynumber: 2.5 Consensus size: 72
61717684 TTTATGTTTC
*
61717694 AAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
61717759 TCATCAA
66 TCATCAA
61717766 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
61717831 TCATCAA
66 TCATCAA
61717838 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
61717876 GGCTCACATG
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 109 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
TCATCAA
Found at i:61717827 original size:157 final size:157
Alignment explanation
Indices: 61717537--61717829 Score: 354
Period size: 157 Copynumber: 1.9 Consensus size: 157
61717527 TGTCTTTCAA
* * * * * *
61717537 AAAAATCAACTCATATGTGAGAGGTGAGTTGATCCTCAAGACATGCTGAGGTATTTTCAATTTCT
1 AAAAATCAAATCATATGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGGTATTCTCAATTTAT
** *** * ** * *
61717602 GTTTGTCAAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
66 GCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGGTATTCT
61717667 CAATTTTTGTTTTTTAATTTATGTTTC
131 CAATTTTTGTTTTTTAATTTATGTTTC
* * *
61717694 AAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
1 AAAAATCAAATCATA-TGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGGTATTCTCAATTTA
* * * * *
61717759 T-CATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTC
65 TGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGGTATTC
61717823 TCAATTT
130 TCAATTT
61717830 ATCATCAAAA
Statistics
Matches: 111, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
157 69 0.62
158 42 0.38
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (157 bp):
AAAAATCAAATCATATGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGGTATTCTCAATTTAT
GCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCAAGGCACACTGAGGTATTCT
CAATTTTTGTTTTTTAATTTATGTTTC
Found at i:61717926 original size:52 final size:53
Alignment explanation
Indices: 61717838--61717940 Score: 181
Period size: 52 Copynumber: 1.9 Consensus size: 53
61717828 TTATCATCAA
*
61717838 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGTTC
1 AAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGTTC
61717892 AAAAATCAACTCATATT-GAGAGGTGAGTTGAGCCTTGGCTCACACGCTG
1 AAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTG
61717941 AGGTATTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 31 0.65
54 17 0.35
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (53 bp):
AAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGTTC
Found at i:61717943 original size:126 final size:128
Alignment explanation
Indices: 61717766--61718007 Score: 323
Period size: 133 Copynumber: 1.9 Consensus size: 128
61717756 TTATCATCAA
* *
61717766 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATTTA
1 AAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTTAAGTCACACTGAGGTATTCTCAATTTA
*
61717831 T-CA-TC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGTTC
65 TACATTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGTTC
* *
61717892 AAAAATCAACTCATATT-GAGAGGTGAGTTGAGCCTT-GGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTTAAG-TCACA--CTGAGGTATTCTCAATT
*
61717955 TCTACATTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
63 TATACA-TTC---AAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
61718008 CAGGACACGC
Statistics
Matches: 100, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
123 1 0.01
124 23 0.23
126 34 0.34
127 2 0.02
129 2 0.02
133 38 0.38
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (128 bp):
AAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTTAAGTCACACTGAGGTATTCTCAATTTAT
ACATTCAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGTTC
Found at i:61718017 original size:79 final size:79
Alignment explanation
Indices: 61717892--61718212 Score: 258
Period size: 79 Copynumber: 3.8 Consensus size: 79
61717882 CATGCTGTTC
*
61717892 AAAAATCAACTCATATT--GAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTATTTTCAAT
61717954 TTCTACATTTCAAAAAA
64 TTCT-CATTTCAAAAAA
61717971 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
**
61718035 CTGTTTGTCAAAAATCAA
66 CTCATT-TC-AAAA--AA
* *
61718053 TATTTTTCATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTA
1 -A------A-AAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG--CACACGCTGAGGTA
* * * * ***
61718117 TTTCCAATTTCTGTTTTACTTCATGTATTC
56 TTTTCAATTTC----TCATTTCA--AAAAA
* **
61718147 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
61718211 CT
66 CT
61718213 GTTTTCAATT
Statistics
Matches: 198, Mismatches: 19, Indels: 49
0.74 0.07 0.18
Matches are distributed among these distances:
78 2 0.01
79 44 0.22
80 5 0.03
81 18 0.09
82 4 0.02
83 1 0.01
84 22 0.11
86 32 0.16
87 3 0.02
89 3 0.02
90 35 0.18
92 22 0.11
93 1 0.01
94 1 0.01
95 2 0.01
96 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (79 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGCACACGCTGAGGTATTTTCAATTT
CTCATTTCAAAAAA
Found at i:61718180 original size:86 final size:87
Alignment explanation
Indices: 61717889--61718305 Score: 418
Period size: 86 Copynumber: 4.9 Consensus size: 87
61717879 TCACATGCTG
*
61717889 TTCAAAAATCAACTCATATT--GAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCA
1 TTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCA
* *
61717952 ATTTCTACATTTCAAA---A---A
66 ATTTCT--GTTTTAAATTCATGTA
*
61717970 --AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTC
1 TTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTC
* * *
61718030 AATTTCTGTTTGTCAAAAATCAATATTT
65 AATTTCTGTTT-T--AAATTC-AT-GTA
* * * *
61718058 TTCATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCA
1 TTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCA
*
61718123 ATTTCTGTTTT-ACTTCATGTA
66 ATTTCTGTTTTAAATTCATGTA
* **
61718144 TTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTC
1 TTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTC
* * *
61718206 AATTTCTGTTTTCAATTTATGTTT
65 AATTTCTGTTTTAAATTCATG-TA
* * * * *
61718230 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCA
1 TTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCA
61718295 ATTTCTGTTTT
66 ATTTCTGTTTT
61718306 TAATATCTGT
Statistics
Matches: 281, Mismatches: 30, Indels: 43
0.79 0.08 0.12
Matches are distributed among these distances:
77 3 0.01
79 42 0.15
80 3 0.01
81 18 0.06
82 2 0.01
84 29 0.10
85 8 0.03
86 76 0.27
87 4 0.01
88 30 0.11
89 2 0.01
90 36 0.13
91 1 0.00
92 27 0.10
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (87 bp):
TTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCA
ATTTCTGTTTTAAATTCATGTA
Found at i:61718234 original size:14 final size:13
Alignment explanation
Indices: 61718201--61718230 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
61718191 CGCTGAGGTA
*
61718201 TTTTCAATTTCTG
1 TTTTCAATTTATG
61718214 TTTTCAATTTATG
1 TTTTCAATTTATG
61718227 TTTT
1 TTTT
61718231 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:61718297 original size:172 final size:171
Alignment explanation
Indices: 61717889--61718305 Score: 567
Period size: 172 Copynumber: 2.4 Consensus size: 171
61717879 TCACATGCTG
* *
61717889 TTCAAAAATCAACTCATATT-GAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAA
1 TTCAAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAA
** * **
61717953 TTTC---TACATTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACA
66 TTTCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACA
61718015 CGCTGAGGTATTTTCAATTTCTGTTTGTCAAAAATCAATATTT
131 CGCTGAGGTATTTTCAATTTCTGTTTGTC--AAATCAATATTT
* * *
61718058 TTCATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCA
1 TTCAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCA
* *** *
61718123 ATTTCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
65 ATTTCTGTTTTACTTCA--AAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGG
** *
61718188 ACACGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTT
128 ACACGCTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTT
*
61718230 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCA
1 TTCAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCA
61718295 ATTTCTGTTTT
65 ATTTCTGTTTT
61718306 TAATATCTGT
Statistics
Matches: 218, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
169 19 0.09
171 44 0.20
172 79 0.36
174 6 0.03
175 2 0.01
176 68 0.31
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (171 bp):
TTCAAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAA
TTTCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTT
Found at i:61718986 original size:18 final size:18
Alignment explanation
Indices: 61718937--61718986 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
61718927 TACAAAACAG
61718937 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
61718954 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
61718973 ACCCACTAACCCAA
1 ACCCACTAACCCAA
61718987 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:61721204 original size:41 final size:40
Alignment explanation
Indices: 61721155--61721322 Score: 146
Period size: 41 Copynumber: 4.2 Consensus size: 40
61721145 AGCCCGATCC
*
61721155 TTAG-CACTGGCTCAAAAGCCCTTTGAGACCAAACTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
* * * *
61721194 TTAGACCACTGGCTCAAAGGCCCTTCG-GAACTAAGTCCGG-
1 TTAGA-CACTGGCTCAAAAGCCCTTCGAGACCAAACT-CGGA
* * * ** *
61721234 TTATGACACTGGCTCTAAAGCCCTTCGAAACTAAGTTCAGTTA
1 TTA-GACACTGGCTCAAAAGCCCTTCGAGACCAAACTC-G-GA
*
61721277 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
61721316 TTTAGAC
1 -TTAGAC
61721323 CCCGATTAGC
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
39 5 0.05
40 34 0.34
41 57 0.57
42 1 0.01
43 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAACTCGGA
Found at i:61721257 original size:40 final size:40
Alignment explanation
Indices: 61721200--61721302 Score: 136
Period size: 40 Copynumber: 2.5 Consensus size: 40
61721190 CGGATTAGAC
* *
61721200 CACTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 CACTGGCTCAAA-GCCCTTCGAAACTAAGTCCAGTTATGAG
* *
61721240 CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCAGTTATTAG
1 CACTGGCTC-AAAGCCCTTCGAAACTAAGTCCAGTTATGAG
61721281 CACTGGCTCAAAAGCCCTTCGA
1 CACTGGCTC-AAAGCCCTTCGA
61721303 GACCAAGCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
40 32 0.57
41 24 0.43
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CACTGGCTCAAAGCCCTTCGAAACTAAGTCCAGTTATGAG
Found at i:61723924 original size:29 final size:30
Alignment explanation
Indices: 61723861--61723925 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 30
61723851 ATATTATTTG
* *
61723861 TATATTATATATATATATTCTTAAATATCA
1 TATATTATATATATATATACTTAAATATAA
* * *
61723891 T-TATTATTTATATATATACTT-TATGTAA
1 TATATTATATATATATATACTTAAATATAA
61723919 TATATTA
1 TATATTA
61723926 ATAGTTATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 5 0.17
29 23 0.79
30 1 0.03
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.54
Consensus pattern (30 bp):
TATATTATATATATATATACTTAAATATAA
Found at i:61724447 original size:24 final size:25
Alignment explanation
Indices: 61724419--61724483 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
61724409 TTTTTATATA
61724419 TATTATTATGTATATATACT-TTAGC
1 TATTATTATGTATATATACTCTTA-C
* *
61724444 -ATTACTAAT-TATATATATTCTTAC
1 TATTA-TTATGTATATATACTCTTAC
61724468 TATT-TTATGTATATAT
1 TATTATTATGTATATAT
61724484 TTCAAATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 3 0.09
24 21 0.64
25 9 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (25 bp):
TATTATTATGTATATATACTCTTAC
Found at i:61728732 original size:32 final size:32
Alignment explanation
Indices: 61728686--61728755 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
61728676 GTTGGCTTTG
* * *
61728686 AAGTTAGAGATGTACACAAAATAACATTCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
61728718 AAGTCAGAGATGTACACAAAAGAACATCCGGT
1 AAGTCAGAGATGTACACAAAAGAACATCCGGT
61728750 AAGTCA
1 AAGTCA
61728756 TTCTAGTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGTCAGAGATGTACACAAAAGAACATCCGGT
Found at i:61731582 original size:25 final size:25
Alignment explanation
Indices: 61731553--61731600 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61731543 TTATAATATG
* *
61731553 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
61731578 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61731601 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61731667 original size:20 final size:20
Alignment explanation
Indices: 61731644--61731681 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
61731634 TAAACATGGT
61731644 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
61731664 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
61731682 GTGTATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:61731761 original size:22 final size:22
Alignment explanation
Indices: 61731733--61731823 Score: 128
Period size: 23 Copynumber: 4.0 Consensus size: 22
61731723 GGAAGTGCAA
*
61731733 AAGGGCTTATGCCCCAATTATT
1 AAGGGCTTATGCCCCAGTTATT
61731755 AAGGGCTTATGCCCCAGTTATT
1 AAGGGCTTATGCCCCAGTTATT
61731777 AAAGGGCTTATGCCCCAGTTATT
1 -AAGGGCTTATGCCCCAGTTATT
* *
61731800 AAAAGGGCTTTTGTCCCAGTTATT
1 --AAGGGCTTATGCCCCAGTTATT
61731824 GAAAGAGGCT
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.33
23 22 0.34
24 21 0.33
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
AAGGGCTTATGCCCCAGTTATT
Found at i:61731809 original size:24 final size:23
Alignment explanation
Indices: 61731732--61731847 Score: 146
Period size: 24 Copynumber: 5.0 Consensus size: 23
61731722 AGGAAGTGCA
*
61731732 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
61731755 -AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
61731777 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
61731800 AAAAGGGCTTTTGTCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
*
61731824 GAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAG-GGCTTATGCC-CCAGTTAT
61731848 ATGATAAAGC
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
22 21 0.26
23 22 0.27
24 28 0.34
25 11 0.13
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:61732076 original size:31 final size:31
Alignment explanation
Indices: 61732041--61732104 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
61732031 CGTTTACAGT
*
61732041 AAAGGCTTTGGCCCAATAATATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
* **
61732072 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAATAATATGAAATATGA
61732103 AA
1 AA
61732105 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATAATATGAAATATGA
Found at i:61738603 original size:25 final size:25
Alignment explanation
Indices: 61738575--61738622 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
61738565 TCGAGCCTTA
*
61738575 TAACAGGAAGCTCATGTGAGCCATG
1 TAACAGGAAGCTCATGAGAGCCATG
*
61738600 TAACGGGAAGCTCATGAGAGCCA
1 TAACAGGAAGCTCATGAGAGCCA
61738623 CAATCAGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
TAACAGGAAGCTCATGAGAGCCATG
Found at i:61740686 original size:17 final size:16
Alignment explanation
Indices: 61740661--61740708 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
61740651 AAAAAATATT
61740661 TTAATTTTTTAAAAAA
1 TTAATTTTTTAAAAAA
61740677 TT-ATATTTTTAAAATAA
1 TTAAT-TTTTTAAAA-AA
*
61740694 TTAATATTTTAAAAA
1 TTAATTTTTTAAAAA
61740709 TAAAAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 2 0.07
16 12 0.43
17 12 0.43
18 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTTTTTAAAAAA
Found at i:61740708 original size:18 final size:18
Alignment explanation
Indices: 61740661--61740711 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
61740651 AAAAAATATT
61740661 TTAAT-TTTTTAAAA-AA
1 TTAATATTTTTAAAATAA
61740677 TT-ATATTTTTAAAATAA
1 TTAATATTTTTAAAATAA
*
61740694 TTAATATTTTAAAAATAA
1 TTAATATTTTTAAAATAA
61740712 AAATATAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 2 0.06
16 11 0.35
17 4 0.13
18 14 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATTTTTAAAATAA
Found at i:61740716 original size:17 final size:18
Alignment explanation
Indices: 61740679--61740717 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
61740669 TTAAAAAATT
* *
61740679 ATATTTTTAAAATAATTA
1 ATATTTTAAAAATAATAA
61740697 ATATTTTAAAAATAA-AA
1 ATATTTTAAAAATAATAA
61740714 ATAT
1 ATAT
61740718 AAGATACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTTTAAAAATAATAA
Found at i:61741915 original size:57 final size:59
Alignment explanation
Indices: 61741832--61741952 Score: 158
Period size: 57 Copynumber: 2.1 Consensus size: 59
61741822 TTTTTCAAAT
* * *
61741832 CATTTTCATTTTTCATTTTGGAGAAAATCACATTCATTTCCAAAT-TATTT-CATTTCTC
1 CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGT-TTTACATTTCTC
** *
61741890 CATTTTCA-TTTTCATTTTAGAGAAAACCTTAATCATTTCCAAATGTTTTATATTTCTC
1 CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGTTTTACATTTCTC
61741948 CATTT
1 CATTT
61741953 CACCATTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
57 34 0.62
58 21 0.38
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (59 bp):
CATTTTCATTTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGTTTTACATTTCTC
Found at i:61750347 original size:28 final size:28
Alignment explanation
Indices: 61750281--61750372 Score: 152
Period size: 28 Copynumber: 3.3 Consensus size: 28
61750271 ATGTACTAGA
61750281 ATACCCCTATGTATGCAAAATTACCA-T
1 ATACCCCTATGTATGCAAAATTACCATT
61750308 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
61750336 ATACCCCTATGTATGCAAAATGACC-TCT
1 ATACCCCTATGTATGCAAAATTACCAT-T
61750364 ATACCCCTA
1 ATACCCCTA
61750373 GGGTAAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
27 27 0.44
28 35 0.56
ACGTcount: A:0.35, C:0.28, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:61750519 original size:28 final size:29
Alignment explanation
Indices: 61750478--61750540 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
61750468 AGGAAGCGTC
*
61750478 CTGGTGGCTATGCCACAAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTAT
61750506 CTGGTGGC-ACTGCCACAAAATATCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGTAT
61750535 CTGGTG
1 CTGGTG
61750541 ACTCTGTCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.75
29 7 0.22
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (29 bp):
CTGGTGGCTATGCCACAAAATATCTGTAT
Found at i:61750551 original size:29 final size:28
Alignment explanation
Indices: 61750488--61750551 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
61750478 CTGGTGGCTA
* *
61750488 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
61750516 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
61750545 TGTCACA
1 TGCCACA
61750552 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:61758143 original size:27 final size:27
Alignment explanation
Indices: 61758105--61758290 Score: 302
Period size: 27 Copynumber: 6.8 Consensus size: 27
61758095 TAAGTGTTTC
61758105 GCAAAATTACCATATACCCCTATGTAT
1 GCAAAATTACCATATACCCCTATGTAT
61758132 GCAAAATTACCATATACCCCTATGTAT
1 GCAAAATTACCATATACCCCTATGTAT
61758159 GCAAAATTACCATATACCCCTATGTAT
1 GCAAAATTACCATATACCCCTATGTAT
61758186 GCAAAATTACCATATACCCCTATGTAT
1 GCAAAATTACCATATACCCCTATGTAT
*
61758213 GCAAAATTACCATTATA-TCCTATGTAT
1 GCAAAATTACCA-TATACCCCTATGTAT
*
61758240 GCAAAATTGCCATTATACCCCTATGTAT
1 GCAAAATTACCA-TATACCCCTATGTAT
* *
61758268 GCAAAATGACCTCTATACCCCTA
1 GCAAAATTACC-ATATACCCCTA
61758291 GGGTAAATTT
Statistics
Matches: 150, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
27 118 0.79
28 32 0.21
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (27 bp):
GCAAAATTACCATATACCCCTATGTAT
Found at i:61758456 original size:29 final size:28
Alignment explanation
Indices: 61758396--61758458 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
61758386 AGGAAGCATC
* * *
61758396 CTGGTGGCTATGCCACAAATTATTTGTT
1 CTGGTGGCTATGCCACAAAATATCTATT
61758424 CTGGTGGC-ACTGCCACAAAATATCTATAT
1 CTGGTGGCTA-TGCCACAAAATATCTAT-T
61758453 CTGGTG
1 CTGGTG
61758459 ACTCTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 22 0.73
29 7 0.23
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCTATGCCACAAAATATCTATT
Found at i:61768218 original size:64 final size:64
Alignment explanation
Indices: 61768138--61768321 Score: 178
Period size: 67 Copynumber: 2.8 Consensus size: 64
61768128 AGACATTATG
* ** *
61768138 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
* * * *
61768202 ATGTAGCTAGGTCGCATGTGTGGCT-CTAGGTGAAGGACACCATGTAGACAAGAGAGCTACAAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAAGA
61768266 TAA
62 TAA
* * * *
61768269 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
61768322 CGAACTCTAT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 24 0.24
65 4 0.04
66 19 0.19
67 31 0.32
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATAA
Found at i:61782769 original size:200 final size:200
Alignment explanation
Indices: 61782426--61782825 Score: 746
Period size: 200 Copynumber: 2.0 Consensus size: 200
61782416 TACAGTTTAT
* *
61782426 TAGTCAAAATCTCCCATGTTACAGGGATCGACTACCCTGATCTTTGCGCATTACGACTTGGATAT
1 TAGTCAAAATCTCCCATGTTACAGGGATCGACTAACCTGACCTTTGCGCATTACGACTTGGATAT
* *
61782491 CTCCTTGTACAGGGCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGGCTCAGAGAGGAAT
66 CTCCTTGTACAGGGCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAAT
61782556 CTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGA
131 CTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGA
61782621 ACAGG
196 ACAGG
*
61782626 TAGTCAAAGTCTCCCATGTTACAGGGATCGACTAACCTGACCTTTGCGCATTACGACTTGGATAT
1 TAGTCAAAATCTCCCATGTTACAGGGATCGACTAACCTGACCTTTGCGCATTACGACTTGGATAT
61782691 CTCCTTGTACAGGGCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAAT
66 CTCCTTGTACAGGGCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAAT
*
61782756 CTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAATTCGGA
131 CTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGA
61782821 ACAGG
196 ACAGG
61782826 GAATCCAGAA
Statistics
Matches: 194, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 194 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (200 bp):
TAGTCAAAATCTCCCATGTTACAGGGATCGACTAACCTGACCTTTGCGCATTACGACTTGGATAT
CTCCTTGTACAGGGCTCCAATACTGATGCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGAAAT
CTATACATATATGGTATGACTCCTAATTATCTCTGGTTAATTTATAATGAATTTCCAAAGTCGGA
ACAGG
Found at i:61783852 original size:79 final size:80
Alignment explanation
Indices: 61783741--61783963 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
61783731 GCTCCTCGTT
* *
61783741 CAAATGCCTTCGGAACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTTA-CCC
1 CAAATGCCTTCGGAACTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGAC-TTAGCCC
*
61783804 GGATTTAGTAACTCACA
64 GGAATTAGTAACTCACA
*
61783821 CAAATGCCTTCGG-GCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGAACTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCG
* *
61783883 GAATTAGTATCTCGCA
65 GAATTAGTAACTCACA
* * * *
61783899 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGAACTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
61783961 GGA
64 GGA
61783964 CATCATTCAA
Statistics
Matches: 125, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
77 3 0.02
78 42 0.34
79 57 0.46
80 22 0.18
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGAACTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCACA
Found at i:61783862 original size:39 final size:39
Alignment explanation
Indices: 61783741--61783963 Score: 226
Period size: 39 Copynumber: 5.6 Consensus size: 39
61783731 GCTCCTCGTT
* * *
61783741 CAAATGCCTTCGGAACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
61783781 CAAATGCCTTCGGGACTTTA-CCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGG-C-TTAGCCCGGAATTAGTATCTCGCA
61783821 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
61783860 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
61783899 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
61783940 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
61783964 CATCATTCAA
Statistics
Matches: 161, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
38 3 0.02
39 89 0.55
40 56 0.35
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:61794373 original size:28 final size:28
Alignment explanation
Indices: 61794340--61794466 Score: 236
Period size: 28 Copynumber: 4.5 Consensus size: 28
61794330 ATATTAAGTC
*
61794340 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61794368 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61794396 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61794424 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
61794452 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61794467 GTTCAATTTA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 97 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:61798701 original size:40 final size:40
Alignment explanation
Indices: 61798655--61798839 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
61798645 CTCGCACAAG
* *
61798655 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
61798695 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * *
61798735 GCCTTCGGGTTTTGGCCCAGATATAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
61798775 GCCTTCGGATCTTAGTCCGAATATAGTCACTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
61798816 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
61798840 CATTCGAATA
Statistics
Matches: 120, Mismatches: 24, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
40 92 0.77
41 28 0.23
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:61813499 original size:40 final size:40
Alignment explanation
Indices: 61813448--61813593 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
61813438 ACTTTATATC
* * * * * *
61813448 TCGCACCCTAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
61813488 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
* * *
61813528 TCACACATTAAGTGCCATATATGGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
61813568 TCGCACACTAAGTGCCATATATAGCC
1 TCGCACACTAAGTGCCATATATAGCC
61813594 AATTTGTCAT
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
Found at i:61814995 original size:12 final size:12
Alignment explanation
Indices: 61814978--61815003 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61814968 CATTCCGAAG
61814978 TATATATATACA
1 TATATATATACA
61814990 TATATATATACA
1 TATATATATACA
61815002 TA
1 TA
61815004 AGTATGCCAT
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:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:61815518 original size:27 final size:27
Alignment explanation
Indices: 61815487--61815664 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61815477 TAAATTGTAC
61815487 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61815514 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61815540 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61815568 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61815596 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61815623 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61815650 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61815665 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61815601 original size:82 final size:81
Alignment explanation
Indices: 61815488--61815643 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61815478 AAATTGTACA
* *
61815488 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61815552 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61815569 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61815634 TGCGAGTTGA
65 TGCGAATTGA
61815644 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61815655 original size:82 final size:81
Alignment explanation
Indices: 61815484--61815664 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61815474 GATTAAATTG
* *
61815484 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61815549 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61815565 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61815629 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61815647 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61815665 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61821132 original size:39 final size:38
Alignment explanation
Indices: 61821089--61821222 Score: 171
Period size: 40 Copynumber: 3.4 Consensus size: 38
61821079 CCTACGGGAA
* *
61821089 TTTAAACCCGGTATAATACCAGC-TCGTAGCCTGTGGGTC
1 TTTAAGCCCGG-ATAATTCCAGCAT-GTAGCCTGTGGGTC
*
61821128 TTTAAGCCCGGATACAATTCCAGCATGAAGCCTGTGGGTC
1 TTTAAGCCCGGAT--AATTCCAGCATGTAGCCTGTGGGTC
*
61821168 TTTAAGCCCGGATAACATTCCAGCATATAGCCTGTGGGTC
1 TTTAAGCCCGGAT-A-ATTCCAGCATGTAGCCTGTGGGTC
61821208 TTTAAGCCCGGATAA
1 TTTAAGCCCGGATAA
61821223 CATTCCTCAA
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
38 3 0.04
39 12 0.14
40 69 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (38 bp):
TTTAAGCCCGGATAATTCCAGCATGTAGCCTGTGGGTC
Found at i:61821160 original size:40 final size:40
Alignment explanation
Indices: 61821115--61821228 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
61821105 TACCAGCTCG
61821115 TAGCCTGTGGGTCTTTAAGCCCGGAT-ACAATTCCAGCATGA
1 TAGCCTGTGGGTCTTTAAGCCCGGATAAC-ATTCCAGCAT-A
61821156 -AGCCTGTGGGTCTTTAAGCCCGGATAACATTCCAGCATA
1 TAGCCTGTGGGTCTTTAAGCCCGGATAACATTCCAGCATA
61821195 TAGCCTGTGGGTCTTTAAGCCCGGATAACATTCC
1 TAGCCTGTGGGTCTTTAAGCCCGGATAACATTCC
61821229 TCAAGTATCA
Statistics
Matches: 71, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
39 1 0.01
40 68 0.96
41 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
TAGCCTGTGGGTCTTTAAGCCCGGATAACATTCCAGCATA
Found at i:61830482 original size:21 final size:21
Alignment explanation
Indices: 61830456--61830528 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
61830446 ATTGTTGAGA
* *
61830456 AGGAAGTTGTTGTTGCAGAAG
1 AGGAAGTTGTTGCTGAAGAAG
*
61830477 AGGAAGTTGTTGCTGAAGAAT
1 AGGAAGTTGTTGCTGAAGAAG
* * *
61830498 AAGAAGTTGTTGATAAAAGGAAG
1 AGGAAGTTGTTGCT-GAA-GAAG
61830521 AGGAAGTT
1 AGGAAGTT
61830529 TATGCTGTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 30 0.71
22 2 0.05
23 10 0.24
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (21 bp):
AGGAAGTTGTTGCTGAAGAAG
Found at i:61837775 original size:22 final size:22
Alignment explanation
Indices: 61837729--61837782 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
61837719 TTGGGTGAGG
* * *
61837729 AAATATATCAGCTTCTATGAGA
1 AAATATGTCAGCTTCTAAGAAA
*
61837751 AAATATGTCAGCTTGTAAGAAA
1 AAATATGTCAGCTTCTAAGAAA
61837773 AAATATGTCA
1 AAATATGTCA
61837783 AGTTGTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (22 bp):
AAATATGTCAGCTTCTAAGAAA
Found at i:61841513 original size:29 final size:29
Alignment explanation
Indices: 61841471--61841533 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
61841461 TGTGACTAGA
* *
61841471 CCTAACGGGCCATATAAATGTGATTTGGG
1 CCTAACGGACCATATAAAGGTGATTTGGG
* *
61841500 CCTAATGGACCATATACAGGTGATTTGGG
1 CCTAACGGACCATATAAAGGTGATTTGGG
61841529 CCTAA
1 CCTAA
61841534 AGGGGCCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (29 bp):
CCTAACGGACCATATAAAGGTGATTTGGG
Found at i:61841554 original size:30 final size:28
Alignment explanation
Indices: 61841471--61841554 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
61841461 TGTGACTAGA
*
61841471 CCTAACGGGCCATATAAATGTGATTTGGG
1 CCTAAGGGGCCATAT-AATGTGATTTGGG
* * *
61841500 CCTAATGGACCATATACAGGTGATTTGGG
1 CCTAAGGGGCCATATA-ATGTGATTTGGG
*
61841529 CCTAAAGGGGCCATATGAATATGATT
1 CCT-AAGGGGCCATAT-AATGTGATT
61841555 GAGCTTAATG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.02
29 27 0.60
30 16 0.36
31 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (28 bp):
CCTAAGGGGCCATATAATGTGATTTGGG
Found at i:61848813 original size:29 final size:29
Alignment explanation
Indices: 61848781--61848863 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
61848771 GACATCTTCT
* *
61848781 TGGCTATCTCTATTAAAAGGACGCCTTTA
1 TGGCTATCTCTATTAAAAGGAAGCCCTTA
* *
61848810 TGGCTATCTTTATTAAAAGGAAGCCCTTG
1 TGGCTATCTCTATTAAAAGGAAGCCCTTA
* ** *
61848839 TGGCAATCTCTGCTCAAAGGAAGCC
1 TGGCTATCTCTATTAAAAGGAAGCC
61848864 TTTGTGGAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (29 bp):
TGGCTATCTCTATTAAAAGGAAGCCCTTA
Found at i:61848894 original size:28 final size:29
Alignment explanation
Indices: 61848825--61848886 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
61848815 ATCTTTATTA
* * *
61848825 AAAGGAAGCCCTTGTGGCAATCTCTGCTC
1 AAAGGAAGCCTTTGTGGAAATCTCTGATC
61848854 AAAGGAAGCCTTTGTGGAAATCTCT-ATC
1 AAAGGAAGCCTTTGTGGAAATCTCTGATC
61848882 AAAGG
1 AAAGG
61848887 TTGCCTTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (29 bp):
AAAGGAAGCCTTTGTGGAAATCTCTGATC
Found at i:61855898 original size:31 final size:31
Alignment explanation
Indices: 61855849--61855922 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
61855839 TCAGTCTCGA
* *
61855849 CATAT-ACTGGGCCGAAGCCTTCTCATAAAT
1 CATATCACTGGCCCAAAGCCTTCTCATAAAT
*
61855879 CATATCACTGGCCCAAAGCCTTTTCATAAAT
1 CATATCACTGGCCCAAAGCCTTCTCATAAAT
*
61855910 CATATCAGTGGCC
1 CATATCACTGGCC
61855923 ATGTCATGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.13
31 34 0.87
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (31 bp):
CATATCACTGGCCCAAAGCCTTCTCATAAAT
Found at i:61856837 original size:27 final size:27
Alignment explanation
Indices: 61856807--61856892 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
61856797 GTAAATCTAC
61856807 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
61856834 AAACCAATGGTATTTCTA-TAATTTTTAT
1 AAACCAAGGGTATTTC-AGTAA-TTTTGT
* * *
61856862 AAAGTCAAGGGTATTTCTGAAATTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTGT
61856890 AAA
1 AAA
61856893 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
27 18 0.38
28 17 0.35
29 13 0.27
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:61856912 original size:27 final size:27
Alignment explanation
Indices: 61856894--61856993 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
61856884 TTTTGTAAAT
61856894 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
61856920 TTGAGGGTATTTCGGTAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* *
61856948 CAGTGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
61856975 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
61856994 CTACCCTATA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.03
27 59 0.95
28 1 0.02
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:61857044 original size:26 final size:27
Alignment explanation
Indices: 61857013--61857072 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
61857003 AGGGGTATTT
61857013 CAGTAA-GTT-CACAATCGAGGGTAAAA
1 CAGTAATGTTGCA-AATCGAGGGTAAAA
* * *
61857039 CGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATGTTGCAAATCGAGGGTAAAA
61857066 CAGTAAT
1 CAGTAAT
61857073 TCTATACATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 5 0.18
27 22 0.79
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (27 bp):
CAGTAATGTTGCAAATCGAGGGTAAAA
Found at i:61857116 original size:27 final size:27
Alignment explanation
Indices: 61857025--61857116 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
61857015 GTAAGTTCAC
* * *
61857025 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
61857052 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* * * *
61857079 CATCAATGGTAAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
61857106 AATTGAGGGTA
1 AATCGAGGGTA
61857117 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:61859511 original size:31 final size:31
Alignment explanation
Indices: 61859473--61859675 Score: 397
Period size: 31 Copynumber: 6.5 Consensus size: 31
61859463 TTTAACGGTT
61859473 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
61859504 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
61859535 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
61859566 ACTGGGTCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
61859597 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
61859628 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
61859659 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
61859676 ACTGTAAACG
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 170 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:61859746 original size:42 final size:42
Alignment explanation
Indices: 61859699--61859790 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
61859689 TGGCCCATAG
* ** *
61859699 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
61859741 GCCCATTTCAATATCACATGAAATACCAATGAATGTATTCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
61859783 GCCCATTT
1 GCCCATTT
61859791 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:61859955 original size:25 final size:26
Alignment explanation
Indices: 61859927--61860007 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 26
61859917 GTAGGCCTAG
* *
61859927 CCTTTTTTAAT-AACTGGGGCAAAGT
1 CCTTTTCTAATAAACTGGGGCAAAGC
*
61859952 CC-TTTCTGATAAACTGGGGCAAAGC
1 CCTTTTCTAATAAACTGGGGCAAAGC
** *
61859977 CCTTTTC-CGTAAACTGGGGCAGAGC
1 CCTTTTCTAATAAACTGGGGCAAAGC
61860002 CCTTTT
1 CCTTTT
61860008 TGCATTTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.12
25 38 0.79
26 4 0.08
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (26 bp):
CCTTTTCTAATAAACTGGGGCAAAGC
Found at i:61861070 original size:27 final size:27
Alignment explanation
Indices: 61861032--61861106 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
61861022 TGGCCTACGG
*
61861032 TAATTTTGTAAATCGAGGGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACAA
* * *
61861059 TAATTCTGTAAATCAAGGGTAAAATAG
1 TAATTCTGTAAATCGAGGGTAAAACAA
* * *
61861086 TGATTCTATAAATTGAGGGTA
1 TAATTCTGTAAATCGAGGGTA
61861107 CTTTGGTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACAA
Found at i:61861209 original size:208 final size:208
Alignment explanation
Indices: 61860851--61861235 Score: 770
Period size: 208 Copynumber: 1.9 Consensus size: 208
61860841 TACGGTCACG
61860851 TAATTCTGTAAATCAAGGGTAAAATAGTGATTCTATAAATTGAGGGTACTTTGGTAATGTTACAA
1 TAATTCTGTAAATCAAGGGTAAAATAGTGATTCTATAAATTGAGGGTACTTTGGTAATGTTACAA
61860916 GTCGAGGGCATTTCTGTAATTGGTAAACTAAAGTATTCTAAATAGGGATAATAATACAAATGACC
66 GTCGAGGGCATTTCTGTAATTGGTAAACTAAAGTATTCTAAATAGGGATAATAATACAAATGACC
61860981 CTAAAGCCCATTCTCGGCCTAAATAGGCCCACACGCTCGTGTGGCCTACGGTAATTTTGTAAATC
131 CTAAAGCCCATTCTCGGCCTAAATAGGCCCACACGCTCGTGTGGCCTACGGTAATTTTGTAAATC
61861046 GAGGGTAAAACAA
196 GAGGGTAAAACAA
61861059 TAATTCTGTAAATCAAGGGTAAAATAGTGATTCTATAAATTGAGGGTACTTTGGTAATGTTACAA
1 TAATTCTGTAAATCAAGGGTAAAATAGTGATTCTATAAATTGAGGGTACTTTGGTAATGTTACAA
61861124 GTCGAGGGCATTTCTGTAATTGGTAAACTAAAGTATTCTAAATAGGGATAATAATACAAATGACC
66 GTCGAGGGCATTTCTGTAATTGGTAAACTAAAGTATTCTAAATAGGGATAATAATACAAATGACC
61861189 CTAAAGCCCATTCTCGGCCTAAATAGGCCCACACGCTCGTGTGGCCT
131 CTAAAGCCCATTCTCGGCCTAAATAGGCCCACACGCTCGTGTGGCCT
61861236 TTTTAGCCCA
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
208 177 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (208 bp):
TAATTCTGTAAATCAAGGGTAAAATAGTGATTCTATAAATTGAGGGTACTTTGGTAATGTTACAA
GTCGAGGGCATTTCTGTAATTGGTAAACTAAAGTATTCTAAATAGGGATAATAATACAAATGACC
CTAAAGCCCATTCTCGGCCTAAATAGGCCCACACGCTCGTGTGGCCTACGGTAATTTTGTAAATC
GAGGGTAAAACAA
Found at i:61868846 original size:42 final size:42
Alignment explanation
Indices: 61868795--61868908 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
61868785 TTTGAGATTA
* * *
61868795 CATGTAAGACCATATCTCGGATATGGCATCGATATGAGA-CTT
1 CATGTAAGACCATATCTGGGATATGGCATCAATATGAGATC-C
** * * *
61868837 TGTGTAAGACCATATCTGGGCTGTTGGCATCAATATGATATCC
1 CATGTAAGACCATATCTGGGAT-ATGGCATCAATATGAGATCC
61868880 CATGTAAGACCATATCTGGGATATGGCAT
1 CATGTAAGACCATATCTGGGATATGGCAT
61868909 TGGTATAATA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 24 0.41
43 33 0.57
44 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATCTGGGATATGGCATCAATATGAGATCC
Found at i:61874492 original size:18 final size:18
Alignment explanation
Indices: 61874469--61874503 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61874459 TGGTTGTTTC
61874469 TAATGAGAATAAGAATGT
1 TAATGAGAATAAGAATGT
* *
61874487 TAATGAGCATAATAATG
1 TAATGAGAATAAGAATG
61874504 CACAAATTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.29
Consensus pattern (18 bp):
TAATGAGAATAAGAATGT
Found at i:61880571 original size:48 final size:48
Alignment explanation
Indices: 61880519--61880750 Score: 190
Period size: 48 Copynumber: 4.9 Consensus size: 48
61880509 CAGCAGTGAA
* * *
61880519 ATGTGATCCCATGTAAGACCATGTTTTGGACATGGCTTTGGCATCGTT
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGTT
* * * *
61880567 ATGTGATCCCATGTAAGACCATGTCCACGACATGGCATTGGCATCATA
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGTT
* * * * * *
61880615 ATGAGA-CATCGTGTAAGACCATAGT-T-GGGCTATTGGC-TTAG-AT--AT
1 ATGTGATC-CCATGTAAGACCAT-GTCTAGGAC-A-TGGCATTGGCATCGTT
* **
61880660 GTGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGGGTCGTT
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGTT
* * * * *
61880708 ATTTGGTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
61880751 CCTTACCTTG
Statistics
Matches: 141, Mismatches: 32, Indels: 22
0.72 0.16 0.11
Matches are distributed among these distances:
44 6 0.04
45 21 0.15
46 5 0.04
47 5 0.04
48 98 0.70
49 6 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
ATGTGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGTT
Found at i:61883230 original size:28 final size:28
Alignment explanation
Indices: 61883145--61883236 Score: 130
Period size: 28 Copynumber: 3.3 Consensus size: 28
61883135 TGGGAAGTTG
*
61883145 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
**
61883173 TTCAGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
61883201 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
61883229 TTGGGCCT
1 TTGGGCCT
61883237 AAAACAGCCA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.22, C:0.17, G:0.34, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:61892289 original size:27 final size:27
Alignment explanation
Indices: 61892251--61892591 Score: 334
Period size: 27 Copynumber: 12.7 Consensus size: 27
61892241 AAATAAAGAG
* *
61892251 AAATTACTGAAATACCATCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
61892278 AAATTACCGAAATACCCTCGATTATG--
1 AAATTACCGAAATACCCTCGATT-TGTA
** ** *
61892304 AAATTATTGAAATACCCTTAATTCGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
61892331 AAATTACCAAAATACCCCCGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
61892358 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
61892385 AAATTACTAAAATACCCTCGATTTAG-A
1 AAATTACCGAAATACCCTCGATTT-GTA
* * * *
61892412 AAATTATCGATATACCCCCTATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * * *
61892439 AAATTACTAAAATACCATTGATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
61892466 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
61892493 AAGTTA-CTAAAGTACCCTCGATTTGTA
1 AAATTACCGAAA-TACCCTCGATTTGTA
*
61892520 AAATTACCGAAACACACC-CGATTTGTA
1 AAATTACCGAAATAC-CCTCGATTTGTA
* * *
61892547 AAATTATCGAAATACCCTTG-TGGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
61892574 AAATTACCAAAATACCCT
1 AAATTACCGAAATACCCT
61892592 TGTAGTGTAA
Statistics
Matches: 254, Mismatches: 50, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
25 1 0.00
26 27 0.11
27 217 0.85
28 9 0.04
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:61892471 original size:108 final size:107
Alignment explanation
Indices: 61892251--61892591 Score: 377
Period size: 108 Copynumber: 3.2 Consensus size: 107
61892241 AAATAAAGAG
** * ** *
61892251 AAATTACTGAAATACCATCGATTTGTAAAATTACCGAAATACCCTCGA-TTATG-AAATTATTGA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTA-GAAAATTATCGA
* * * **
61892314 AATA-CCCTTAATTCGTAAAATTACCAAAATACCCCCGGTTTGTA
65 AATACCCCCT-ATTTGTAAAATTACTAAAATA-CCCTTGTTTGTA
* *
61892358 AAATTACCGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTAGAAAATTATCGAT
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTAGAAAATTATCGAA
* *
61892423 ATACCCCCTATTTGTAAAATTACTAAAATACCATTGATTTTTA
66 ATACCCCCTATTTGTAAAATTACTAAAATACCCTTG-TTTGTA
* * *
61892466 AAATTACCAAAATACCCTCGATTTGTAAAGTTACTAAAGTACCCTCGATTT-GTAAAATTACCGA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTAG-AAAATTATCGA
* * * * *
61892530 AACACACCCGATTTGTAAAATTA-TCGAAATACCCTTGTGGTGTA
65 AATACCCCCTATTTGTAAAATTACT-AAAATACCCTTGT-TTGTA
61892574 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
61892592 TGTAGTGTAA
Statistics
Matches: 202, Mismatches: 25, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
107 51 0.25
108 147 0.73
109 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (107 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTAGAAAATTATCGAA
ATACCCCCTATTTGTAAAATTACTAAAATACCCTTGTTTGTA
Found at i:61892629 original size:27 final size:27
Alignment explanation
Indices: 61892569--61892634 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
61892559 TACCCTTGTG
* * *
61892569 GTGTAAAATTACCAAAATACCCTTGTA
1 GTGTAAAATGACCAAAATACCCCTCTA
*
61892596 GTGTAAAATGACCAACATACCCCTCTA
1 GTGTAAAATGACCAAAATACCCCTCTA
61892623 G-GATAAAATGAC
1 GTG-TAAAATGAC
61892635 TGTTTTGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (27 bp):
GTGTAAAATGACCAAAATACCCCTCTA
Found at i:61898934 original size:43 final size:42
Alignment explanation
Indices: 61898826--61898934 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
61898816 AACTTATGAT
* * *
61898826 TTACGTGTAAGACCATGTTTGGGACATTGGCATCTTATTTGA
1 TTACATGTAAGACCACGTTTGGGACAGTGGCATCTTATTTGA
* *
61898868 TTTCACGTAAGACC-C-TATCTGGGACAGTGGCAT-TGATATTTGA
1 TTACATGTAAGACCACGT-T-TGGGACAGTGGCATCT--TATTTGA
61898911 TTACATGTAAGACCACGTTTGGGA
1 TTACATGTAAGACCACGTTTGGGA
61898935 TGTTGTCATT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
40 1 0.02
41 2 0.04
42 24 0.44
43 24 0.44
44 2 0.04
45 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
TTACATGTAAGACCACGTTTGGGACAGTGGCATCTTATTTGA
Found at i:61905811 original size:42 final size:43
Alignment explanation
Indices: 61905750--61905844 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
61905740 ATGATTTATG
* *
61905750 TGTAAGACCATGTGGGGGACA-TCAGCA-TCATATTTGATTTCA
1 TGTAAGACCATGTCGGGGACAGT-AGCATTCATATTTGATTACA
* * * *
61905792 TGTAAGACCCTGTCTGGGACAGTGGCATTGATATTTGATTACA
1 TGTAAGACCATGTCGGGGACAGTAGCATTCATATTTGATTACA
61905835 TGTAAGACCA
1 TGTAAGACCA
61905845 CGTCTAGAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 21 0.48
43 23 0.52
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCGGGGACAGTAGCATTCATATTTGATTACA
Found at i:61906095 original size:22 final size:23
Alignment explanation
Indices: 61906054--61906103 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
61906044 TATTATGTAG
61906054 AAATG-TTATGTATATATGAGC-
1 AAATGATTATGTATATATGAGCT
* *
61906075 AAATGATTATGTGTATTTGAGCT
1 AAATGATTATGTATATATGAGCT
61906098 AAATGA
1 AAATGA
61906104 GAAATATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (23 bp):
AAATGATTATGTATATATGAGCT
Found at i:61906446 original size:14 final size:14
Alignment explanation
Indices: 61906411--61906450 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
61906401 TATGTCTAGA
61906411 TTATGG-TTGA-AT
1 TTATGGTTTGATAT
61906423 TTATGGTTTGATAT
1 TTATGGTTTGATAT
61906437 TTA-GGATTTGATAT
1 TTATGG-TTTGATAT
61906451 GTGATGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 6 0.24
14 13 0.52
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (14 bp):
TTATGGTTTGATAT
Found at i:61910017 original size:13 final size:12
Alignment explanation
Indices: 61909999--61910042 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
61909989 CCAACCACAT
61909999 GCCCATGTGACTA
1 GCCCATGTG-CTA
61910012 GCCCATGTGCTA
1 GCCCATGTGCTA
* *
61910024 GGCCGTGTGCTA
1 GCCCATGTGCTA
*
61910036 GGCCATG
1 GCCCATG
61910043 CCAAACCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.23
Consensus pattern (12 bp):
GCCCATGTGCTA
Found at i:61913821 original size:37 final size:37
Alignment explanation
Indices: 61913761--61913907 Score: 249
Period size: 37 Copynumber: 4.0 Consensus size: 37
61913751 TCTAGCTCGA
* *
61913761 ATAATCCCCACACGTAGTTATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
61913798 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
61913835 ATAATCTCTACACGTAGTCATCGGGTCTTACCCGGAC
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
61913872 ATAATCTCCACACGTAATCATCGGGTCTTACCCGGA
1 ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
61913908 ATATGTTTCC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
ATAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:61914083 original size:47 final size:47
Alignment explanation
Indices: 61914052--61914484 Score: 758
Period size: 47 Copynumber: 9.2 Consensus size: 47
61914042 CACTTCCACG
**
61914052 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61914099 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
61914146 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
61914193 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61914240 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61914287 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61914334 TTCATCACATTGGCCATTCGGCCTTATCACATATTTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
61914381 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* * * **
61914428 TTCATCACATTGGCCATTCAGCCTTATCTCATATATACACATTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
61914475 TTCATCACAT
1 TTCATCACAT
61914485 AAAATCCTAA
Statistics
Matches: 371, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 371 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:61914516 original size:141 final size:137
Alignment explanation
Indices: 61914228--61914516 Score: 364
Period size: 141 Copynumber: 2.1 Consensus size: 137
61914218 ATCACATATA
61914228 TGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
1 TGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
* *** * *
61914293 ACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCC-ATTCGGCC
66 ACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAATCCTAATC--AC
*
61914357 TTATCACATATT
129 ATAT-A-A-ATT
61914369 TGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
1 TGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
* * * **
61914434 ACATTGGCCATTCAGCCTTATCTCATATATACACATTCACATTCATCACATAAAATCCTAAATCA
66 ACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT--AATCCT-AATC-
*
61914499 AAATATAAATT
127 ACATATAAATT
*
61914510 TTCATGT
1 TGCATGT
61914517 ATTCACATCA
Statistics
Matches: 129, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
141 119 0.92
142 1 0.01
143 3 0.02
144 3 0.02
145 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (137 bp):
TGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATC
ACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAATCCTAATCACAT
ATAAATT
Found at i:61918877 original size:18 final size:19
Alignment explanation
Indices: 61918841--61918877 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
61918831 GCCCAATGCA
61918841 TTGGCATGGTTGAAATTGT
1 TTGGCATGGTTGAAATTGT
61918860 TTGGCATGGTTG-AATTGT
1 TTGGCATGGTTGAAATTGT
61918878 GAATATGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.19, C:0.05, G:0.32, T:0.43
Consensus pattern (19 bp):
TTGGCATGGTTGAAATTGT
Found at i:61919829 original size:8 final size:8
Alignment explanation
Indices: 61919816--61919844 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
61919806 TTATGTTTAG
61919816 TATATTAT
1 TATATTAT
61919824 TATATTAT
1 TATATTAT
61919832 TATATTAT
1 TATATTAT
61919840 TATAT
1 TATAT
61919845 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:61919874 original size:5 final size:5
Alignment explanation
Indices: 61919864--61919917 Score: 85
Period size: 5 Copynumber: 11.2 Consensus size: 5
61919854 ACTTTATGTT
*
61919864 TTATA TTATA TTATA TTATA TT-TA TGATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
61919913 -TATA T
1 TTATA T
61919918 AAACTAAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 7 0.16
5 38 0.84
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
TTATA
Found at i:61919894 original size:24 final size:24
Alignment explanation
Indices: 61919865--61919917 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
61919855 CTTTATGTTT
61919865 TATATTATATTATATTATATT-TA
1 TATATTATATTATATTATATTATA
61919888 TGATATTATATTATATTATATTATA
1 T-ATATTATATTATATTATATTATA
61919913 TATAT
1 TATAT
61919918 AAACTAAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 1 0.04
24 24 0.86
25 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TATATTATATTATATTATATTATA
Done.