Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 170 of 311
Found at i:58057308 original size:27 final size:27
Alignment explanation
Indices: 58057278--58057633 Score: 455
Period size: 27 Copynumber: 13.2 Consensus size: 27
58057268 AAAGTACTCC
*
58057278 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58057305 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
58057332 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
58057359 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58057386 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
58057413 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
58057440 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58057467 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
58057494 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
58057521 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
58057548 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
58057575 CAATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
58057602 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
58057629 TGATT
1 CGATT
58057634 GTGAAATTAC
Statistics
Matches: 287, Mismatches: 38, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 283 0.99
28 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:58057668 original size:27 final size:27
Alignment explanation
Indices: 58057638--58057815 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
58057628 TTGATTGTGA
*
58057638 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
58057665 AATTTCCGGAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
58057692 AATTACTAAAATACCCTTATATGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
58057719 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
58057746 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
58057773 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
58057800 AATTACCGAGATACCC
1 AATTACTGAAATACCC
58057816 TTATGGGGTA
Statistics
Matches: 124, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
27 123 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:58057706 original size:54 final size:54
Alignment explanation
Indices: 58057638--58057817 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 54
58057628 TTGATTGTGA
* * * *
58057638 AATTACTGAAATACCCCTGTAGGATAGAATTTCCGGAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
58057692 AATTACTAAAATACCCTTATATGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
58057746 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
* *
58057800 AATTACCGAGATACCCTT
1 AATTACTGAAATACCCTT
58057818 ATGGGGTAAA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 106 0.99
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:58057740 original size:81 final size:81
Alignment explanation
Indices: 58057646--58057815 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 81
58057636 GAAATTACTG
* * *
58057646 AAATACCCCTGTAGGATAGAATT-TCCGGAATACCCCTATAGGGTAGAATTACTAAAATACCCTT
1 AAATACCCCTGTAGGATAGAATTAT-CGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCT
*
58057710 ATATGATAGAATTACCA
65 ATAGGATAGAATTACCA
* * * * *
58057727 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
1 AAATACCCCTGTAGGATAGAATTATCGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTA
* *
58057792 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
*
58057808 AGATACCC
1 AAATACCC
58057816 TTATGGGGTA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
81 75 0.99
82 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (81 bp):
AAATACCCCTGTAGGATAGAATTATCGAAATACCCCTATAGGGTAGAAATACTAAAATACCCCTA
TAGGATAGAATTACCA
Found at i:58058075 original size:27 final size:26
Alignment explanation
Indices: 58058033--58058084 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
58058023 GGAGGAAGCG
58058033 TTCTGGTGGCTATGCCACAAATATCTA
1 TTCTGGTGGCTATGCCAC-AATATCTA
*
58058060 TTCTGGTGGCTCTGCCACAATATCT
1 TTCTGGTGGCTATGCCACAATATCT
58058085 GTATTTGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTA
Found at i:58058231 original size:22 final size:22
Alignment explanation
Indices: 58058199--58058257 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
58058189 CTCGTTATTA
*
58058199 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
58058221 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
58058243 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
58058258 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:58058444 original size:27 final size:27
Alignment explanation
Indices: 58058422--58058496 Score: 91
Period size: 27 Copynumber: 2.8 Consensus size: 27
58058412 TAGGTGGGTT
*
58058422 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
58058449 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
58058476 TGTCACGATATCTGT-TCTGGT
1 TGCCACAATATCTGTATCTGGT
58058497 AGCCATGCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 6 0.14
27 36 0.84
28 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:58058622 original size:6 final size:6
Alignment explanation
Indices: 58058613--58058720 Score: 107
Period size: 6 Copynumber: 17.8 Consensus size: 6
58058603 TTGCATTCAC
* *
58058613 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
58058662 -TTACTA ATAT-TG ATTCTA ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
58058710 ATTCTG ATTCT
1 ATTCTG ATTCT
58058721 CATTTTGGTT
Statistics
Matches: 85, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
5 6 0.07
6 72 0.85
7 5 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:58058678 original size:30 final size:30
Alignment explanation
Indices: 58058613--58058720 Score: 164
Period size: 30 Copynumber: 3.6 Consensus size: 30
58058603 TTGCATTCAC
*
58058613 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
58058644 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* *
58058674 ATTCTAATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
58058704 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
58058721 CATTTTGGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
29 1 0.01
30 48 0.68
31 22 0.31
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:58060599 original size:25 final size:25
Alignment explanation
Indices: 58060565--58060614 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
58060555 GTGTATGCTA
*
58060565 CATTGAGATTGTCAAGTAAAGAAAC
1 CATTGAGATTGTCAAGCAAAGAAAC
58060590 CATTGAGATTGTCAAGCAAAGAAAC
1 CATTGAGATTGTCAAGCAAAGAAAC
58060615 TATGTGACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.14, G:0.20, T:0.22
Consensus pattern (25 bp):
CATTGAGATTGTCAAGCAAAGAAAC
Found at i:58076107 original size:24 final size:25
Alignment explanation
Indices: 58076080--58076131 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
58076070 TCCTAGCCTC
58076080 TTTTAATAAC-TAGGGCAAAGCCCT
1 TTTTAATAACTTAGGGCAAAGCCCT
** *
58076104 TTTTGGTAACTTGGGGCAAAGCCCT
1 TTTTAATAACTTAGGGCAAAGCCCT
58076129 TTT
1 TTT
58076132 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTAATAACTTAGGGCAAAGCCCT
Found at i:58076365 original size:27 final size:27
Alignment explanation
Indices: 58076335--58076691 Score: 344
Period size: 27 Copynumber: 13.3 Consensus size: 27
58076325 GAGGCAGAAT
* * * *
58076335 GGTAATTTTACCCCACAAGGTTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58076362 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58076389 GGTATTTCTACCGTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
58076416 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58076443 GGTAATTCTACCCGATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * * *
58076470 AGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58076497 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
58076524 GATAATTCTACCTTA-TAGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
*
58076551 AGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
58076577 GATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58076604 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
58076631 AGTAATTCTACCCTACAGGGGTATTTTC
1 GGTAATTCTACCCTACAAGGGTA-TTTC
* ** *
58076659 -GTAATTTTA-CAAACCAAGGGTATTTT
1 GGTAATTCTACCCTA-CAAGGGTATTTC
58076685 GGTAATT
1 GGTAATT
58076692 TTACAAACTA
Statistics
Matches: 278, Mismatches: 46, Indels: 12
0.83 0.14 0.04
Matches are distributed among these distances:
26 26 0.09
27 248 0.89
28 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:58076407 original size:54 final size:54
Alignment explanation
Indices: 58076336--58076691 Score: 421
Period size: 54 Copynumber: 6.6 Consensus size: 54
58076326 AGGCAGAATG
* * * * *
58076336 GTAATTTTACCCCACAAGGTTATCTCGGTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
* * * *
58076390 GTATTTCTACCGTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
* * * * * *
58076444 GTAATTCTACCCGATAGGGGTATTTCAGTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
* * * *
58076498 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTATAGGAGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
* *
58076552 GTAATTCTACCCTAC-AGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
* * *
58076605 GTAATTCTACCCTACATGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTC-
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTA-TTTCA
* ** *
58076659 GTAATTTTA-CAAACCAAGGGTATTTTGGTAATT
1 GTAATTCTACCCTA-CAAGGGTATTTCGGTAATT
58076692 TTACAAACTA
Statistics
Matches: 263, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
53 53 0.20
54 206 0.78
55 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCA
Found at i:58076692 original size:27 final size:27
Alignment explanation
Indices: 58076649--58076716 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
58076639 TACCCTACAG
*
58076649 GGGTATTTTCGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
58076676 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAA
58076703 GGGTATTTTGGTAA
1 GGGTATTTTGGTAA
58076717 CTTTGGTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:58076710 original size:81 final size:80
Alignment explanation
Indices: 58076336--58076664 Score: 426
Period size: 81 Copynumber: 4.1 Consensus size: 80
58076326 AGGCAGAATG
* * * * * * *
58076336 GTAATTTTACCCCACAAGGTTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
* *
58076401 GTACAAGGGTATTTC
66 CTACAGGGGTATTTC
*
58076416 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCGATAGGGGTATTTCAGTAATTCTAC
1 -GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
* * *
58076481 CTTATAGGGGTATTTTA
65 CCTACAGGGGTA-TTTC
* * *
58076498 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTATAGGAGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
58076563 CTACA-GGGTATTTC
66 CTACAGGGGTATTTC
* * * * *
58076577 GATAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTACATGGGTATTTCAGTAATTCTAC
1 G-TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTAC
58076642 CCTACAGGGGTATTTTC
65 CCTACAGGGGTA-TTTC
58076659 GTAATT
1 GTAATT
58076665 TTACAAACCA
Statistics
Matches: 217, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
79 4 0.02
80 66 0.30
81 139 0.64
82 8 0.04
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTC
Found at i:58079452 original size:33 final size:33
Alignment explanation
Indices: 58079379--58079456 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
58079369 GGGAATATAT
* *
58079379 GTGTAAGACCATAGCTAGGCTATGGCATCCTGA
1 GTGTAAGACCATAGCTAGGATATGGCATACTGA
* *
58079412 -TGATAAGACCATATCTGGGATATGGCACTAC-GA
1 GTG-TAAGACCATAGCTAGGATATGGCA-TACTGA
58079445 GTGTAAGACCAT
1 GTGTAAGACCAT
58079457 GGTTGCGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 32 0.84
34 4 0.11
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (33 bp):
GTGTAAGACCATAGCTAGGATATGGCATACTGA
Found at i:58079637 original size:45 final size:45
Alignment explanation
Indices: 58079519--58079627 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
58079509 TCCAGAAAGG
*
58079519 AGTAAGACCATAGATGAAAGACGCTATGGCATCGCGATTCAGACA
1 AGTAAGACCATAGATGAAAGACGCTATGGCATCACGATTCAGACA
* * *
58079564 AGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCAGATA
1 AGTAAGACCATAGATGAAAGACGCTATGGCATCACGATTCAGACA
* *
58079609 TGTAAGACCATAGTTGAAA
1 AGTAAGACCATAGATGAAA
58079628 TATACTATGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (45 bp):
AGTAAGACCATAGATGAAAGACGCTATGGCATCACGATTCAGACA
Found at i:58079671 original size:46 final size:45
Alignment explanation
Indices: 58079611--58079815 Score: 293
Period size: 46 Copynumber: 4.5 Consensus size: 45
58079601 TTCAGATATG
* * * * * *
58079611 TAAGACCATAGTTGAAATATACTATGGTAATATGACAAGATATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAA
*
58079657 TAAGACCATGGTTGAAAGATACCATGGGAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
58079703 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAA
* *
58079749 TAAGACCATGGTTGAAAGATTCCATAGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAA
58079795 TAAGACCATGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
58079816 GAAATGAACA
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
45 2 0.01
46 144 0.98
47 1 0.01
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAA
Found at i:58079829 original size:29 final size:29
Alignment explanation
Indices: 58079787--58079842 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
58079777 AACATGACAG
* *
58079787 GAAATGAATAAGACCATGGTTGAAAGATA
1 GAAATGAACAAGACCATAGTTGAAAGATA
*
58079816 GAAATGAACAAGACCATAGTTGGAAGA
1 GAAATGAACAAGACCATAGTTGAAAGA
58079843 CATTATGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.25, T:0.18
Consensus pattern (29 bp):
GAAATGAACAAGACCATAGTTGAAAGATA
Found at i:58082827 original size:11 final size:11
Alignment explanation
Indices: 58082813--58082857 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
58082803 AGATAAATAT
58082813 TATTTTATTAA
1 TATTTTATTAA
*
58082824 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
58082837 TATTTTATTAT
1 TATTTTATTAA
58082848 TATTTTATTA
1 TATTTTATTA
58082858 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:58084619 original size:200 final size:200
Alignment explanation
Indices: 58084272--58084674 Score: 761
Period size: 200 Copynumber: 2.0 Consensus size: 200
58084262 GTTGAAATTT
58084272 CATGATTATTTGTTAAATTAGGAATGATATAATGTATTATTTCATATGTTTGCAATTGAATTATG
1 CATGATTATTTGTTAAATTAGGAATGATATAATGTATTATTTCATATGTTTGCAATTGAATTATG
*
58084337 AATATTTTTAAATTATGGAAATCAGATCAGAAGTTCAAATTGAGCAGAACGCTGAATTGAATATG
66 AATATTTTTAAATTATGGAAATCAGATCAAAAGTTCAAATTGAGCAGAACGCTGAATTGAATATG
58084402 ATCGTTTAGTGATCAGTGATGAATTGACAGATAAGACCATGGCTGGGTCATGGCAATATATGTGT
131 ATCGTTTAGTGATCAGTGATGAATTGACAGATAAGACCATGGCTGGGTCATGGCAATATATGTGT
*
58084467 AATAC
196 AAGAC
*
58084472 CATGATTATTTTTTAAATTAGGAATGATATAATGTATTATTTCATATGTTTGCAATTGAATTATG
1 CATGATTATTTGTTAAATTAGGAATGATATAATGTATTATTTCATATGTTTGCAATTGAATTATG
*
58084537 AATATTTTTAAATTATGGAAATCGGATCAAAAGTTCAAATTGAGCAGAACGCTGAATTGAATATG
66 AATATTTTTAAATTATGGAAATCAGATCAAAAGTTCAAATTGAGCAGAACGCTGAATTGAATATG
*
58084602 ATCGTTTAGTTATCAGTGATGAATTGACAGATAAGACCATGGCTGGGTCATGGCAATATATGTGT
131 ATCGTTTAGTGATCAGTGATGAATTGACAGATAAGACCATGGCTGGGTCATGGCAATATATGTGT
58084667 AAGAC
196 AAGAC
58084672 CAT
1 CAT
58084675 AGCTAGTTAT
Statistics
Matches: 198, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 198 1.00
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (200 bp):
CATGATTATTTGTTAAATTAGGAATGATATAATGTATTATTTCATATGTTTGCAATTGAATTATG
AATATTTTTAAATTATGGAAATCAGATCAAAAGTTCAAATTGAGCAGAACGCTGAATTGAATATG
ATCGTTTAGTGATCAGTGATGAATTGACAGATAAGACCATGGCTGGGTCATGGCAATATATGTGT
AAGAC
Found at i:58084847 original size:45 final size:45
Alignment explanation
Indices: 58084798--58084921 Score: 162
Period size: 45 Copynumber: 2.8 Consensus size: 45
58084788 CATACCATAA
* *
58084798 ACGAGTAAGACCATAGTTAAAAGACACTATGGCATTGA-GATTCAG
1 ACGAGTAAGACCATAGTTGAAAGACACTATGGCA-TCACGATTCAG
**
58084843 ACGAGTAAGACCATAGTTGAAAGACGTTATGGCATCACGATTCAG
1 ACGAGTAAGACCATAGTTGAAAGACACTATGGCATCACGATTCAG
* *
58084888 A-TATGTAAGACCATAGTTGAAAGATACTATGGCA
1 ACGA-GTAAGACCATAGTTGAAAGACACTATGGCA
58084922 ATGTGACGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
44 3 0.04
45 66 0.96
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (45 bp):
ACGAGTAAGACCATAGTTGAAAGACACTATGGCATCACGATTCAG
Found at i:58085005 original size:45 final size:47
Alignment explanation
Indices: 58084893--58085050 Score: 252
Period size: 46 Copynumber: 3.4 Consensus size: 47
58084883 TTCAGATATG
* * **
58084893 TAAGACCATAGTTGAAAGATACTATGGCAATGTGAC-GAGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAGAAATGAA
58084939 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA-AAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAGAAATGAA
58084985 TAAGACCATGGTTG-AAGATACCATGGCAACATGACA-AGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAGAAATGAA
58085030 TAAGACCATGGTTGAAAGATA
1 TAAGACCATGGTTGAAAGATA
58085051 GAAATGAATA
Statistics
Matches: 105, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
44 1 0.01
45 43 0.41
46 59 0.56
47 2 0.02
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (47 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAGAAATGAA
Found at i:58085053 original size:29 final size:29
Alignment explanation
Indices: 58085021--58085077 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
58085011 CAACATGACA
*
58085021 AGAAATGAATAAGACCATGGTTGAAAGAT
1 AGAAATGAATAAGACCATAGTTGAAAGAT
* *
58085050 AGAAATGAATAATACCATAGTTGGAAGA
1 AGAAATGAATAAGACCATAGTTGAAAGA
58085078 CACTATGGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.49, C:0.07, G:0.23, T:0.21
Consensus pattern (29 bp):
AGAAATGAATAAGACCATAGTTGAAAGAT
Found at i:58091246 original size:26 final size:26
Alignment explanation
Indices: 58091212--58091271 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
58091202 GAGTAGGATT
*
58091212 AATTATGTAATGGTTGTAAAATTTAA
1 AATTCTGTAATGGTTGTAAAATTTAA
58091238 AATTCTGTAATGGTTGTAAAATTTAA
1 AATTCTGTAATGGTTGTAAAATTTAA
58091264 AATTCTGT
1 AATTCTGT
58091272 GTTCTGTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.43
Consensus pattern (26 bp):
AATTCTGTAATGGTTGTAAAATTTAA
Found at i:58091831 original size:12 final size:13
Alignment explanation
Indices: 58091798--58091835 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
58091788 TTTCTTTATT
58091798 TCTT-CTTCTCCA
1 TCTTCCTTCTCCA
*
58091810 TCTACCTTCTCC-
1 TCTTCCTTCTCCA
58091822 TCTTCCTTCTCCA
1 TCTTCCTTCTCCA
58091835 T
1 T
58091836 AGCCGAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.08, C:0.45, G:0.00, T:0.47
Consensus pattern (13 bp):
TCTTCCTTCTCCA
Found at i:58092934 original size:28 final size:28
Alignment explanation
Indices: 58092902--58092966 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
58092892 ATTTACTAGA
*
58092902 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
58092930 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
58092958 ATACCCCTA
1 ATACCCCTA
58092967 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:58093130 original size:27 final size:28
Alignment explanation
Indices: 58093072--58093161 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
58093062 AGGAAGCGTC
*
58093072 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
58093100 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
58093127 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
58093156 CTGGTG
1 CTGGTG
58093162 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:58093172 original size:29 final size:28
Alignment explanation
Indices: 58093082--58093172 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
58093072 CTGGTGGCTA
* * *
58093082 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
58093110 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
58093137 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
58093166 TGTCACA
1 TGCCACA
58093173 TTTTCTGCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:58094277 original size:11 final size:10
Alignment explanation
Indices: 58094249--58094282 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
58094239 AGCCTGTAAG
58094249 TATTCTGAAT
1 TATTCTGAAT
*
58094259 TTTTCTGAAT
1 TATTCTGAAT
58094269 ATATTCTGAAT
1 -TATTCTGAAT
58094280 TAT
1 TAT
58094283 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:58100757 original size:28 final size:28
Alignment explanation
Indices: 58100725--58100789 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
58100715 ATTTACTAGA
*
58100725 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
58100753 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
58100781 ATACCCCTA
1 ATACCCCTA
58100790 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:58100953 original size:27 final size:28
Alignment explanation
Indices: 58100895--58100984 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
58100885 AGGAAGCGTC
*
58100895 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
58100923 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
58100950 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
58100979 CTGGTG
1 CTGGTG
58100985 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:58100995 original size:29 final size:28
Alignment explanation
Indices: 58100905--58100995 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
58100895 CTGGTGGCTA
* * *
58100905 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
58100933 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
58100960 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
58100989 TGTCACA
1 TGCCACA
58100996 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:58101003 original size:55 final size:56
Alignment explanation
Indices: 58100895--58101009 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
58100885 AGGAAGCGTC
* * *
58100895 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
58100950 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
58101006 CTGG
1 CTGG
58101010 CACCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:58110727 original size:28 final size:28
Alignment explanation
Indices: 58110685--58110799 Score: 142
Period size: 29 Copynumber: 4.0 Consensus size: 28
58110675 TACCTGTATC
* *
58110685 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
58110713 TGGCCCATTAGGCCCACATCAC-TTGTACA
1 TGGCCCATTAGGCCCA-ATCACATT-CATA
*
58110742 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
58110771 TGGCCCATTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
58110799 T
1 T
58110800 TCACGCTCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
28 29 0.38
29 44 0.58
30 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:58113545 original size:37 final size:37
Alignment explanation
Indices: 58113486--58113625 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
58113476 AGCTTAGACG
* *
58113486 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58113523 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58113560 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58113597 TAATCTCCACACGTAGTCATCGGGTCTTA
1 AAATCTCCACACGTAGTCATCGGGTCTTA
58113626 TCCGAAATAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58113903 original size:48 final size:49
Alignment explanation
Indices: 58113777--58113913 Score: 197
Period size: 50 Copynumber: 2.8 Consensus size: 49
58113767 GCACATTGCC
* *
58113777 TACATATTTCACACTAGCCATTCGACTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
* * *
58113827 TATATATTTCACATT-GACCATTCAGCTTTACCACATATACATTTCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
58113875 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
58113914 TGCATGTTCA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
48 36 0.46
49 2 0.03
50 40 0.51
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:58113946 original size:47 final size:47
Alignment explanation
Indices: 58113883--58114123 Score: 365
Period size: 47 Copynumber: 5.1 Consensus size: 47
58113873 CATACATATT
* * * * *
58113883 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* *
58113930 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
58113977 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
58114024 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
* * ***
58114071 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
58114118 TCACAT
1 TCACAT
58114124 AAAATCCTAA
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:58114003 original size:22 final size:22
Alignment explanation
Indices: 58113976--58114094 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
58113966 GCTCACATTC
58113976 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
58113998 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
58114022 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
58114045 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
58114069 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
58114092 ATC
1 ATC
58114095 TCATATATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 22 0.31
23 15 0.21
24 15 0.21
25 19 0.27
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:58119387 original size:29 final size:29
Alignment explanation
Indices: 58119324--58119431 Score: 121
Period size: 29 Copynumber: 3.8 Consensus size: 29
58119314 TTCACATACC
* ** *
58119324 TGTATCTGGCCCATTAAACCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
58119352 T-TCATATGGCCCATTAGGCCTAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
*
58119381 TGTATATGGCCCATTAGGCCCAAATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
58119410 TTTATATGGCCCATTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
58119432 TTCATATTCA
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.01
28 15 0.22
29 50 0.75
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:58119391 original size:57 final size:58
Alignment explanation
Indices: 58119321--58119429 Score: 175
Period size: 58 Copynumber: 1.9 Consensus size: 58
58119311 AATTTCACAT
*
58119321 ACCTGTATCTGGCCCATTAAACCC-AATCATATTCATATGGCCCATTAGGCCTAAATC
1 ACCTGTATATGGCCCATTAAACCCAAATCATATTCATATGGCCCATTAGGCCTAAATC
** *
58119378 ACCTGTATATGGCCCATTAGGCCCAAATCATATTTATATGGCCCATTAGGCC
1 ACCTGTATATGGCCCATTAAACCCAAATCATATTCATATGGCCCATTAGGCC
58119430 CATTCATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (58 bp):
ACCTGTATATGGCCCATTAAACCCAAATCATATTCATATGGCCCATTAGGCCTAAATC
Found at i:58123863 original size:23 final size:24
Alignment explanation
Indices: 58123832--58123876 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
58123822 GATGAAAACT
58123832 GGGCTAAGTCCCGAAGGCATTTCC
1 GGGCTAAGTCCCGAAGGCATTTCC
58123856 GGGC-AAGTCCCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTT
58123877 GTGCGAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.22, C:0.27, G:0.31, T:0.20
Consensus pattern (24 bp):
GGGCTAAGTCCCGAAGGCATTTCC
Found at i:58123907 original size:40 final size:40
Alignment explanation
Indices: 58123853--58124043 Score: 316
Period size: 40 Copynumber: 4.8 Consensus size: 40
58123843 CGAAGGCATT
58123853 TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
58123892 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
58123932 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58123972 TCCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACTCTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAA
* *
58124012 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58124044 AGCTATATCC
Statistics
Matches: 144, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
39 40 0.28
40 104 0.72
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58124005 original size:79 final size:81
Alignment explanation
Indices: 58123853--58124043 Score: 318
Period size: 79 Copynumber: 2.4 Consensus size: 81
58123843 CGAAGGCATT
*
58123853 TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATT
58123917 GTGCGAGTTACT-AAA
66 GTGCGAGTTACTCAAA
58123932 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGT-CCGAAGGCAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATT
*
58123996 GTGCGAGTTACTCTAA
66 GTGCGAGTTACTCAAA
* *
58124012 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58124044 AGCTATATCC
Statistics
Matches: 106, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
79 60 0.57
80 46 0.43
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCAATT
GTGCGAGTTACTCAAA
Found at i:58124066 original size:79 final size:80
Alignment explanation
Indices: 58123853--58124069 Score: 300
Period size: 79 Copynumber: 2.8 Consensus size: 80
58123843 CGAAGGCATT
* * *
58123853 TCCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATTCCGAAGGCAATT
58123917 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
*
58123932 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT-AAGTCCGAAGGCAATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATTCCGAAGGCAATT
*
58123996 GTGCGAGTTACTCTAA
66 GTGCGAGTTACT-AAA
* * * *
58124012 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGCTAAATTCCGAAGG
58124070 TACGTGATTT
Statistics
Matches: 124, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
78 5 0.04
79 77 0.62
80 42 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAATTCCGAAGGCAATT
GTGCGAGTTACTAAA
Found at i:58129753 original size:46 final size:47
Alignment explanation
Indices: 58129692--58130081 Score: 664
Period size: 47 Copynumber: 8.4 Consensus size: 47
58129682 CAGCCAAGAC
58129692 AGTGTATA-ATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
58129737 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
58129783 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
58129830 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
58129876 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
58129922 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
58129969 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
58130016 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
58130063 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
58130082 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
45 8 0.02
46 155 0.47
47 168 0.51
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:58129889 original size:139 final size:139
Alignment explanation
Indices: 58129692--58130081 Score: 674
Period size: 139 Copynumber: 2.8 Consensus size: 139
58129682 CAGCCAAGAC
58129692 AGTGTATA-ATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 AGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58129756 GCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 GCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
58129821 GAATGTGAA
131 GAATGTGAA
58129830 AGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 AGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58129895 GCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 GCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
58129960 GAATGTGAA
131 GAATGTGAA
* *
58129969 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * *
58130034 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
65 GGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
58130082 TCCCGAAGGG
Statistics
Matches: 240, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
138 8 0.03
139 156 0.65
140 42 0.17
141 34 0.14
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (139 bp):
AGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
GCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAA
Found at i:58130256 original size:37 final size:37
Alignment explanation
Indices: 58130200--58130278 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
58130190 CCGAGCTCTA
* *
58130200 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
58130237 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
58130274 AAGAC
1 AAGAC
58130279 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:58133078 original size:40 final size:40
Alignment explanation
Indices: 58132886--58133108 Score: 240
Period size: 39 Copynumber: 5.6 Consensus size: 40
58132876 TATTCGAATG
*
58132886 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
58132927 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAG-TGACT
* *
58132967 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCTA-TCGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACT
* *
58133006 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
58133045 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
58133085 ACATCCGTGATAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
58133109 CTTGTGCAAG
Statistics
Matches: 153, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 64 0.42
40 57 0.37
41 29 0.19
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58133099 original size:118 final size:119
Alignment explanation
Indices: 58132886--58133143 Score: 285
Period size: 118 Copynumber: 2.2 Consensus size: 119
58132876 TATTCGAATG
* * *
58132886 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * * * *
58132951 ATTCGTGCGAGTTGCTATATCCGGGCTAAGA-CCGAAGGCATTTGTGCTA-TCGATT
65 ATTCATGCGAGTTGCCACATCCGGGATAAGACCCGAAGGC-CTTGTGCAAGTAG-TT
* *
58133006 ATATCCGGGCTAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGGC
* * *
58133069 ATTTATGCTAG-TGACCACATCCGTGATAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 ATTCATGCGAGTTG-CCACATCCGGGATAAGACCCGAAGGCCTTGTGCAAGTAGTT
*
58133124 ATATCC-GGCTAAATCCGAAG
1 ATATCCGGGCTAAACCCGAAG
58133144 ATTACTTGAG
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
117 16 0.14
118 61 0.52
119 28 0.24
120 13 0.11
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (119 bp):
ATATCCGGGCTAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCA
TTCATGCGAGTTGCCACATCCGGGATAAGACCCGAAGGCCTTGTGCAAGTAGTT
Found at i:58133127 original size:79 final size:78
Alignment explanation
Indices: 58132886--58133143 Score: 258
Period size: 79 Copynumber: 3.3 Consensus size: 78
58132876 TATTCGAATG
* * *
58132886 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGA-TAAGACCCGAAGGC
* *
58132951 ATTCGTGCGAGTTGCT
64 ATT-GTGCAAGTAGCT
* * *
58132967 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCTA-TCGATTATATCCGGGCTAA-ACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTATATCC-GGATAAGACCCGAAGGC
* *
58133029 ATTTGTGCTAG-CGACT
64 A-TTGTGCAAGTAG-CT
* * * *
58133045 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGTGATAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCG-GATAAGACCCGAAGGCA
*
58133110 TTGTGCAAGTAGTT
65 TTGTGCAAGTAGCT
*
58133124 ATATCC-GGCTAAAT-CCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58133144 ATTACTTGAG
Statistics
Matches: 149, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
77 7 0.05
78 41 0.28
79 56 0.38
80 31 0.21
81 14 0.09
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (78 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGATAAGACCCGAAGGCAT
TGTGCAAGTAGCT
Found at i:58134677 original size:12 final size:12
Alignment explanation
Indices: 58134656--58134688 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
58134646 GAGTTAAAAG
*
58134656 AGTTGAAAGCTC
1 AGTTGCAAGCTC
58134668 AGTTGCAAGCTC
1 AGTTGCAAGCTC
58134680 AGTTGCAAG
1 AGTTGCAAG
58134689 AATTGACGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (12 bp):
AGTTGCAAGCTC
Found at i:58139101 original size:37 final size:37
Alignment explanation
Indices: 58139051--58139129 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
58139041 TTATTACGAA
* * *
58139051 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
58139088 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58139125 GTCTT
1 GTCTT
58139130 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58139319 original size:47 final size:47
Alignment explanation
Indices: 58139248--58139470 Score: 331
Period size: 47 Copynumber: 4.7 Consensus size: 47
58139238 CCCTTCGGGA
* ** * * *
58139248 CTTATCACATTTATACACTTTCACACCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
*
58139295 CCTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
*
58139342 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
*
58139389 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
* *
58139436 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
58139471 AGAATCCTAA
Statistics
Matches: 164, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.01
47 163 0.99
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
Found at i:58142930 original size:77 final size:77
Alignment explanation
Indices: 58142794--58142942 Score: 271
Period size: 77 Copynumber: 1.9 Consensus size: 77
58142784 CGGCCATGGT
*
58142794 ATATCCATAAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
1 ATATACATAAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
58142859 TGTAAAAATAAA
66 TGTAAAAATAAA
* *
58142871 ATATACATGAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGTCTATGCTTCA
1 ATATACATAAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
58142936 TGTAAAA
66 TGTAAAA
58142943 TATACATGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 69 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (77 bp):
ATATACATAAGTATGATTTATGCTTGTTATGTTACTCATGGTTAAAATGATTCGGCTATGCTTCA
TGTAAAAATAAA
Found at i:58143933 original size:40 final size:40
Alignment explanation
Indices: 58143828--58144058 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
58143818 TGGATGAAAA
* * **
58143828 CCGGGCTAAGTCCCGAAGGC-ATCTGTGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCAAT-TGTGCGAGTTACTAAAT
* *
58143868 CTGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
*
58143907 CCGGGCTAAGTCCCGAAGGAAATTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
*
58143947 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
*
58143987 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT-AAAT
* * *
58144027 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
58144059 AGCTATATCC
Statistics
Matches: 172, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 31 0.18
40 139 0.81
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAAT
Found at i:58150173 original size:15 final size:16
Alignment explanation
Indices: 58150155--58150184 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58150145 TAATTTAATA
58150155 TTATAT-CAATTAAAT
1 TTATATACAATTAAAT
58150170 TTATATACAATTAAA
1 TTATATACAATTAAA
58150185 GGAAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TTATATACAATTAAAT
Found at i:58157355 original size:30 final size:30
Alignment explanation
Indices: 58157321--58157394 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 30
58157311 ACCTAAGGGT
*
58157321 AAAATGGTCATTTTGCAAAAGTCTAGGAGC
1 AAAATGGTCATTTTACAAAAGTCTAGGAGC
* *
58157351 AAAATGTTCATTTTACAAAAGTCTAGGGGC
1 AAAATGGTCATTTTACAAAAGTCTAGGAGC
58157381 AAAATGGTCATTTT
1 AAAATGGTCATTTT
58157395 TCCCAATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (30 bp):
AAAATGGTCATTTTACAAAAGTCTAGGAGC
Found at i:58158772 original size:23 final size:23
Alignment explanation
Indices: 58158746--58158789 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
58158736 CGCAAAAATA
* *
58158746 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
58158769 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
58158790 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:58161173 original size:48 final size:48
Alignment explanation
Indices: 58161109--58161256 Score: 217
Period size: 48 Copynumber: 3.1 Consensus size: 48
58161099 TTGATGTACA
*
58161109 AGATATATATATGTGGTAAAGCTGAATGGCTAATGTAAAATATGTATG
1 AGATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
58161157 AGATATATATATGTGGTAAAG-TCGAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCT-GAATGGCTAATGTGAAATATGTATG
** ** **
58161205 AGCCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATG
1 AGATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
58161253 AGAT
1 AGAT
58161257 GTGTATATAT
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.01
48 88 0.99
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (48 bp):
AGATATATATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
Found at i:58165820 original size:40 final size:40
Alignment explanation
Indices: 58165765--58165988 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 40
58165755 TATTCGGATG
* *
58165765 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
58165805 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
58165845 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
* *
58165888 ATACCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * * *
58165928 ATAT-CAGGCTAAGACCCGACGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
58165967 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
58165989 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
39 45 0.28
40 80 0.50
43 34 0.21
44 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58165922 original size:83 final size:83
Alignment explanation
Indices: 58165765--58165962 Score: 271
Period size: 83 Copynumber: 2.4 Consensus size: 83
58165755 TATTCGGATG
* * *
58165765 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGC---TAGTGACCATATCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTGACCATACCCGGGCTAAGTCCCAAAG
58165827 GCATTTGTGCTAGTGACT
66 GCATTTGTGCTAGTGACT
* *
58165845 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CTATACCCGGGCTAAGTCCCAAA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-TGACCATACCCGGGCTAAGTCCCAAA
58165909 GGCATTTGTGCTAGTGACT
65 GGCATTTGTGCTAGTGACT
* * * *
58165928 ATAT-CAGGCTAAGACCCGACGGCATGTGTGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58165963 TGCTATATCC
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 30 0.29
82 26 0.25
83 46 0.44
84 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (83 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTGACCATACCCGGGCTAAGTCCCAAAG
GCATTTGTGCTAGTGACT
Found at i:58173784 original size:40 final size:40
Alignment explanation
Indices: 58173729--58173953 Score: 312
Period size: 40 Copynumber: 5.6 Consensus size: 40
58173719 TATTCGGATG
*
58173729 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
58173769 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
58173809 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAG-TGACT
*
58173852 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
58173892 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
58173932 ATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
58173954 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 11, Indels: 13
0.88 0.06 0.07
Matches are distributed among these distances:
39 15 0.09
40 114 0.68
41 2 0.01
43 35 0.21
44 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:58173972 original size:83 final size:80
Alignment explanation
Indices: 58173729--58173953 Score: 328
Period size: 83 Copynumber: 2.8 Consensus size: 80
58173719 TATTCGGATG
* *
58173729 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACCATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTCCCGAAGGC
58173793 ATTTGTGCTAGTGACT
65 ATTTGTGCTAGTGACT
* *
58173809 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAAG
58173874 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* * * *
58173892 ATATCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTGCTATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
58173954 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 14 0.11
80 43 0.33
81 1 0.01
83 71 0.54
84 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:58180152 original size:46 final size:45
Alignment explanation
Indices: 58180096--58180269 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
58180086 ATGTTTGTGT
*
58180096 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCATGTTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCG-GCATGTTATGAGA
* * *
58180142 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAAGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-TGTTATGAGA
* * * *
58180190 GGTAGTGTAAGACATGTCTGTGACATGCATCGGGC-TCTTGATCTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCATGTT-AT-GAGA
*
58180236 GCTAGTGTAAGACATGTCTAGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC
58180270 TATAAGAGTG
Statistics
Matches: 108, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
45 5 0.05
46 46 0.43
47 33 0.31
48 24 0.22
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATGTTATGAGA
Found at i:58180164 original size:47 final size:47
Alignment explanation
Indices: 58180099--58180409 Score: 218
Period size: 47 Copynumber: 6.7 Consensus size: 47
58180089 TTTGTGTGCT
* *
58180099 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAGC-TGATATGAGAGCC
* **
58180145 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGATAAGAGAGGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAGC--TGATATGAGAGCC
* * * *
58180193 AGTGTAAGA-CATGTCTGTGACAT-GCATCGGGCTCTTGATCT-A-AGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAG--C-TGATATGAGAGCC
* * * *
58180239 AGTGTAAGA-CATGTCTAGGACAT-GCATCG-GCT-ATAAGAGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAGCTGATATGAGAGCC
* * * * *
58180282 AGTATAAGACCATGTTTGGGACATGGCATC-AGCACGGATACGTGGGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAG--CTGATA--TGAGAGCC
* * *
58180332 AGTGTAAGACCATGTTTGGGACATGGCATCGA-CTTA-ACGGGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAGCTGATA--TGAGAGCC
*
58180379 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
58180410 GCATTATACC
Statistics
Matches: 218, Mismatches: 30, Indels: 33
0.78 0.11 0.12
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 10 0.05
44 12 0.06
45 7 0.03
46 45 0.21
47 70 0.32
48 34 0.16
49 1 0.00
50 34 0.16
51 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGAGCTGATATGAGAGCC
Found at i:58180355 original size:140 final size:141
Alignment explanation
Indices: 58180096--58180362 Score: 335
Period size: 137 Copynumber: 1.9 Consensus size: 141
58180086 ATGTTTGTGT
* * * *
58180096 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCATGTTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCATGATAAGAGAGCCAGTATAAGACCATGTC
* ** *
58180161 TGGGACATGGCATCGGCATTGATAAGAGAGGTAGTGTAAGACATGTCTGTGACAT-GCATCGGGC
66 TGGGACATGGCATCAGCACGGATAAGAGAGGTAGTGTAAGACATGTCTGGGACATGGCATCGGGC
58180225 TCTTGATCTAA
131 TCTTGATCTAA
* * * *
58180236 GCTAGTGTAAGACATGTCTAGGACATGCATCG-GC-T-ATAAGAGTGTCAGTATAAGACCATGTT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACCATGATAAGAGAGCCAGTATAAGACCATGTC
* * * *
58180298 TGGGACATGGCATCAGCACGGATACGTGGGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCG
66 TGGGACATGGCATCAGCACGGATAAGAGAG-GT-AGTGTAAGA-CATGTCTGGGACATGGCATCG
58180363 ACTTAACGGG
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
137 45 0.42
138 3 0.03
139 10 0.09
140 43 0.40
141 6 0.06
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (141 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGACCATGATAAGAGAGCCAGTATAAGACCATGTC
TGGGACATGGCATCAGCACGGATAAGAGAGGTAGTGTAAGACATGTCTGGGACATGGCATCGGGC
TCTTGATCTAA
Found at i:58182604 original size:154 final size:153
Alignment explanation
Indices: 58182325--58182634 Score: 602
Period size: 154 Copynumber: 2.0 Consensus size: 153
58182315 GTTCTTGATA
*
58182325 GATGAATTGGTTTCCATCTTCTGATATCAATTTTTGACTGAATAATATGTCCCACCATTACATGC
1 GATGAATTGGTTTCCATCTTCTGATATCAATTTTCGACTGAATAATATGTCCCACCATTACATGC
58182390 AGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTTC
66 AGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTTC
58182455 TGAGTGGGAACGACACTCCAGAT
131 TGAGTGGGAACGACACTCCAGAT
58182478 GATGAATTGGTTTCCATCTTCTGATATCAATTTTCGACTGAATAATATGTCCCACCCATTACATG
1 GATGAATTGGTTTCCATCTTCTGATATCAATTTTCGACTGAATAATATGTCCCA-CCATTACATG
58182543 CAGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTT
65 CAGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTT
58182608 CTGAGTGGGAACGACACTCCAGAT
130 CTGAGTGGGAACGACACTCCAGAT
58182632 GAT
1 GAT
58182635 TTGCATAAAA
Statistics
Matches: 155, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
153 53 0.34
154 102 0.66
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (153 bp):
GATGAATTGGTTTCCATCTTCTGATATCAATTTTCGACTGAATAATATGTCCCACCATTACATGC
AGAGCACAGAAAGATAAGGTGATAAAGGGCATCCCTGACGAATACCTCTGACCGGTTTAAACTTC
TGAGTGGGAACGACACTCCAGAT
Found at i:58183445 original size:17 final size:17
Alignment explanation
Indices: 58183411--58183444 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
58183401 GGCGCAACTT
58183411 ATTTTTTTAATATTAAA
1 ATTTTTTTAATATTAAA
*
58183428 ATTTTTTTCAT-TTAAA
1 ATTTTTTTAATATTAAA
58183444 A
1 A
58183445 AATTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTTAATATTAAA
Found at i:58183555 original size:27 final size:27
Alignment explanation
Indices: 58183517--58183574 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
58183507 ATACATACAT
* *
58183517 GTTGCGCCTATCTGACAGGCTCAACTA
1 GTTGAGCCTATCTGACAGGCGCAACTA
* *
58183544 GTTGAGCCTATCTGATAGGCGCGACTA
1 GTTGAGCCTATCTGACAGGCGCAACTA
58183571 GTTG
1 GTTG
58183575 TACCTTCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.28
Consensus pattern (27 bp):
GTTGAGCCTATCTGACAGGCGCAACTA
Found at i:58187247 original size:33 final size:33
Alignment explanation
Indices: 58187200--58187317 Score: 132
Period size: 33 Copynumber: 3.6 Consensus size: 33
58187190 ATGAACTTGA
* * *
58187200 GCCGAGAGGAGTAGAATACGGTGGTGGATACGG
1 GCCGGGAGGAGTAGAGTACGATGGTGGATACGG
*
58187233 GCCGGGAGGAGTAGAGTACGACGGTGGATAC-G
1 GCCGGGAGGAGTAGAGTACGATGGTGGATACGG
* *
58187265 GCTCCGGAGGAGTTGAGTAC-ATGGGTGGATACGG
1 GC-CGGGAGGAGTAGAGTACGAT-GGTGGATACGG
* *
58187299 GCCGGAAGGAGTGGAGTAC
1 GCCGGGAGGAGTAGAGTAC
58187318 TGAGATAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 4 0.06
33 65 0.90
34 3 0.04
ACGTcount: A:0.25, C:0.14, G:0.46, T:0.15
Consensus pattern (33 bp):
GCCGGGAGGAGTAGAGTACGATGGTGGATACGG
Found at i:58189384 original size:15 final size:16
Alignment explanation
Indices: 58189364--58189395 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
58189354 ATAAATAATA
58189364 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
58189379 ATATAAAAATTACATT
1 ATATAAAAATTACATT
58189395 A
1 A
58189396 AAAAATCGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:58189568 original size:111 final size:113
Alignment explanation
Indices: 58189444--58189900 Score: 669
Period size: 116 Copynumber: 4.0 Consensus size: 113
58189434 AACAATTTAG
* * * * *
58189444 AATCATAAATTACTAACACAAAATAACTATAAAATTATTTTTTTAAAATACATTACTAAATAAA-
1 AATCTTAAATTACT-A-ATAAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAAAAAAC
58189508 A-AAT-CA-TAATACACTAAACCACTAAACACTAACAATTTATATAACCT
64 ACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
58189555 AATCTTAAATTACTAATAAAATAGCTAT-AAA-T-TTTTTTT-AAATATATTACTAAAGAAAATC
1 AATCTTAAATTACTAATAAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAA-AAAA-C
58189616 ACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
64 ACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
* *
58189666 AATCTTAAATTACTAATAAAATAGCTATAAAAATATATTTTTTAAATTATATTACTAAAAAAAAT
1 AATCTTAAATTACTAATAAAATAGCTATAAAATTAT-TTTTTTAAAATATATTACT-AAAAAAA-
*
58189731 CACAATACACTAATACACAAAACCACTAAACACTAACAATTTATATAACCT
63 CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
* *
58189782 AATCTTAAATTACAAATAAAATAGCTATAAAATTATTTTTTAGAAAATATATTACTAAAAAAATC
1 AATCTTAAATTACTAATAAAATAGCTATAAAATTATTTTTT-TAAAATATATTACTAAAAAAA-C
* *
58189847 ACAATATACTAATACACTAAACTACTAAACACTAACAATTTATATAACCT
64 ACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
58189897 AATC
1 AATC
58189901 AACTATAAAA
Statistics
Matches: 319, Mismatches: 14, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
105 14 0.04
106 10 0.03
107 1 0.00
108 4 0.01
109 14 0.04
110 3 0.01
111 82 0.26
112 3 0.01
113 1 0.00
114 1 0.00
115 71 0.22
116 112 0.35
117 3 0.01
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.32
Consensus pattern (113 bp):
AATCTTAAATTACTAATAAAATAGCTATAAAATTATTTTTTTAAAATATATTACTAAAAAAACAC
AATACACTAATACACTAAACCACTAAACACTAACAATTTATATAACCT
Found at i:58189778 original size:227 final size:224
Alignment explanation
Indices: 58189444--58189901 Score: 692
Period size: 227 Copynumber: 2.0 Consensus size: 224
58189434 AACAATTTAG
* *
58189444 AATCATAAATTACTAACACAAAATAACTATAAAATTATTTTTTTAAAATACATTACTAAATAAAA
1 AATCATAAATTACTAACACAAAATAACTATAAAAATATTTTTTTAAAATACATTACTAAAAAAAA
* *
58189509 AATCATAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAATAA
66 AATCATAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACAAATAA
58189574 AATAGCTAT-AAATT-TTTTTT-AAATATATTACTAAAGAAAATCACAATACACTAATACACTAA
131 AATAGCTATAAAATTATTTTTTAAAATATATTACTAAA-AAAATCACAATACACTAATACACTAA
58189636 ACCACTAAACACTAACAATTTATATAACCT
195 ACCACTAAACACTAACAATTTATATAACCT
* * * * *
58189666 AATCTTAAATTACT-A-ATAAAATAGCTATAAAAATATATTTTTTAAATTATATTACTAAAAAAA
1 AATCATAAATTACTAACACAAAATAACTATAAAAATAT-TTTTTTAAAATACATTACT-AAAAAA
58189729 ATCACAATACACTAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTA
64 A--A-AAT-CA-TAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTA
*
58189794 CAAATAAAATAGCTATAAAATTATTTTTTAGAAAATATATTACTAAAAAAATCACAATATACTAA
124 CAAATAAAATAGCTATAAAATTATTTTTT--AAAATATATTACTAAAAAAATCACAATACACTAA
*
58189859 TACACTAAACTACTAAACACTAACAATTTATATAACCT
187 TACACTAAACCACTAAACACTAACAATTTATATAACCT
58189897 AATCA
1 AATCA
58189902 ACTATAAAAT
Statistics
Matches: 212, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
220 18 0.08
221 18 0.08
222 19 0.09
224 1 0.00
225 3 0.01
226 2 0.01
227 67 0.32
228 5 0.02
229 6 0.03
231 58 0.27
232 15 0.07
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (224 bp):
AATCATAAATTACTAACACAAAATAACTATAAAAATATTTTTTTAAAATACATTACTAAAAAAAA
AATCATAATACACAAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACAAATAA
AATAGCTATAAAATTATTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAA
CCACTAAACACTAACAATTTATATAACCT
Found at i:58190162 original size:3 final size:3
Alignment explanation
Indices: 58190156--58190190 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
58190146 CCCTTTTTTT
*
58190156 TTC TTC TTC TTC TTCC TTC TTC TTC TTC TCC TTC T
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC T
58190191 CCTTTCTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:58190176 original size:13 final size:13
Alignment explanation
Indices: 58190158--58190183 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58190148 CTTTTTTTTT
58190158 CTTCTTCTTCTTC
1 CTTCTTCTTCTTC
58190171 CTTCTTCTTCTTC
1 CTTCTTCTTCTTC
58190184 TCCTTCTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
CTTCTTCTTCTTC
Found at i:58190197 original size:19 final size:18
Alignment explanation
Indices: 58190155--58190197 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
58190145 ACCCTTTTTT
* *
58190155 TTTCTTCTTCTTCTTCCT
1 TTTCTTCTTCTCCTTCCC
58190173 TCTTCTTCTTCTCCTTCTCC
1 T-TTCTTCTTCTCCTTC-CC
58190193 TTTCT
1 TTTCT
58190198 CTCCTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.86
20 2 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTCTTCTTCTCCTTCCC
Found at i:58190994 original size:21 final size:21
Alignment explanation
Indices: 58190968--58191029 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 21
58190958 AATTAAATTT
58190968 TTTTAAAATAAAAATATTAAA
1 TTTTAAAATAAAAATATTAAA
*
58190989 TTTTAAAAAAATTATAATATTAAA
1 TTTTAAAATAA--A-AATATTAAA
58191013 TATTTAAATATTAAAAA
1 T-TTTAAA-A-TAAAAA
58191030 ATACTATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
21 10 0.30
23 1 0.03
24 12 0.36
25 7 0.21
26 1 0.03
27 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAATAAAAATATTAAA
Found at i:58190999 original size:24 final size:25
Alignment explanation
Indices: 58190972--58191020 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
58190962 AAATTTTTTT
58190972 AAAATAAAAATATTAAAT-TTTAAA
1 AAAATAAAAATATTAAATATTTAAA
* *
58190996 AAAATTATAATATTAAATATTTAAA
1 AAAATAAAAATATTAAATATTTAAA
58191021 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
AAAATAAAAATATTAAATATTTAAA
Found at i:58196461 original size:49 final size:49
Alignment explanation
Indices: 58196389--58196582 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
58196379 GTCGAAGCTA
* *
58196389 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
58196438 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAG
** * * *
58196488 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
* * *
58196536 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
58196583 TCACAATAGA
Statistics
Matches: 122, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.31
50 41 0.34
51 40 0.33
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG
Found at i:58196573 original size:101 final size:99
Alignment explanation
Indices: 58196400--58196586 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
58196390 CTGGTACGCA
* * *
58196400 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
58196465 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* * *
58196499 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
58196563 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
58196587 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 4 0.05
99 30 0.39
101 43 0.56
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:58198768 original size:15 final size:15
Alignment explanation
Indices: 58198712--58198776 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
58198702 TAAAGATAAC
*
58198712 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
58198726 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
58198741 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
58198756 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
58198771 AAGAAA
1 AAGAAA
58198777 CCAAGATACG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:58198778 original size:30 final size:30
Alignment explanation
Indices: 58198712--58198778 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
58198702 TAAAGATAAC
*
58198712 AAGAAAACCGAATAAAGAAATCCAAGATAG
1 AAGAAACCCGAATAAAGAAATCCAAGATAG
58198742 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCC-GAATAAAGAAATCCAAG-ATAG
58198771 AAGAAACC
1 AAGAAACC
58198779 AAGATACGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.61, C:0.16, G:0.13, T:0.09
Consensus pattern (30 bp):
AAGAAACCCGAATAAAGAAATCCAAGATAG
Found at i:58201917 original size:50 final size:49
Alignment explanation
Indices: 58201794--58201969 Score: 185
Period size: 50 Copynumber: 3.5 Consensus size: 49
58201784 CTGGTACGCA
* * **
58201794 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
* *
58201843 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
58201893 TAGTAGCCTGCACTTAGTACTACACACGTGATCAA-AGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
58201944 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
58201970 TGCGACCTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 29 0.27
50 40 0.37
51 35 0.33
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:58201967 original size:101 final size:99
Alignment explanation
Indices: 58201794--58201980 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 99
58201784 CTGGTACGCA
* * *
58201794 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
58201859 GTACTACACACGTGACCTCACCATCTAATACATG
66 GTACTACACACGCGACCTCACCATCTAATACATG
* * *
58201893 TAGTAGCCTGCACTTAGTACTACACACGTGATCAA-AGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
58201957 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
58201981 AATAGATCAT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 2 0.03
99 32 0.42
101 43 0.56
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACATG
Found at i:58204796 original size:22 final size:23
Alignment explanation
Indices: 58204754--58204797 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
58204744 TTGAATAGGT
*
58204754 ATTTGTCTTGAATTGATTATGGA
1 ATTTGTCTTGAATGGATTATGGA
58204777 ATTTGT-TTGAAATGGA-TATGG
1 ATTTGTCTTG-AATGGATTATGG
58204798 TATGAATTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.45
Consensus pattern (23 bp):
ATTTGTCTTGAATGGATTATGGA
Found at i:58207487 original size:16 final size:17
Alignment explanation
Indices: 58207466--58207504 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
58207456 ACTGTAACGC
58207466 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCGAAAT
*
58207482 CCCAAAAATCTCGAAAT
1 CCCAAAAATCCCGAAAT
58207499 CCCAAA
1 CCCAAA
58207505 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.49, C:0.36, G:0.05, T:0.10
Consensus pattern (17 bp):
CCCAAAAATCCCGAAAT
Found at i:58209042 original size:29 final size:29
Alignment explanation
Indices: 58208997--58209114 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
58208987 GTGAGCATGT
*
58208997 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
58209025 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* ** *
58209054 ATAAGAATATGAACAGGGCC-AGATAGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
58209083 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
58209111 ATAT
1 ATAT
58209115 CATGTATGTA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
28 19 0.27
29 51 0.73
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:58216393 original size:47 final size:50
Alignment explanation
Indices: 58216309--58216545 Score: 209
Period size: 47 Copynumber: 5.0 Consensus size: 50
58216299 CAAACATAGG
* * * *
58216309 GTAT-AATGCCGATGCCATGCCCCATACATGGTTTTACACTGGCTCTCAC
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
* *
58216358 GT-T-AA-GTCC-ATGCCATATCCCAGACATGGTCTTACACTGACTCTCAC
1 GTATCAATG-CCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
* *
58216405 GTATCTATGCCGATGCCATGTCTCAAACATGGTCTTACACTGA----CAC
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
*
58216451 --ATCATATGGCCAATG-CATGTCCCAAACAT-GTCTTACACT-AGCTCT--C
1 GTATCA-AT-GCCGATGCCATGTCCCAAACATGGTCTTACACTGA-CTCTCAC
* * * *
58216497 GTCTCAATGCTGATGCCATGTCCCAAACATGCTCTTACACTGGCTCTCA
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCA
58216546 TAATGTGGCC
Statistics
Matches: 152, Mismatches: 17, Indels: 37
0.74 0.08 0.18
Matches are distributed among these distances:
43 1 0.01
44 13 0.09
45 15 0.10
46 15 0.10
47 52 0.34
48 22 0.14
49 5 0.03
50 29 0.19
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (50 bp):
GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCAC
Found at i:58216564 original size:47 final size:45
Alignment explanation
Indices: 58216311--58216583 Score: 193
Period size: 47 Copynumber: 5.8 Consensus size: 45
58216301 AACATAGGGT
* * *
58216311 ATAAT-GCCGATGCCATGCCCCATACATGGTTTTACACTGGCTCTC
1 ATAATGGCCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTCTC
* * * *
58216356 ACGTTAA-GTCC-ATGCCATATCCCAGACATGGTCTTACACTGACTCTC
1 A---TAATGGCCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTCTC
* * *
58216403 ACGTATCTAT-GCCGATGCCATGTCTCAAACATGGTCTTACACTGACACATC
1 A--TA---ATGGCCGATGCCATGTCCCAAACAT-GTCTTACACTGGCTC-TC
* *
58216454 AT-ATGGCCAATG-CATGTCCCAAACATGTCTTACACTAGCTCTC
1 ATAATGGCCGATGCCATGTCCCAAACATGTCTTACACTGGCTCTC
* *
58216497 GTCTCAAT-GCTGATGCCATGTCCCAAACATGCTCTTACACTGGCTCTC
1 --AT-AATGGCCGATGCCATGTCCCAAACATG-TCTTACACTGGCTCTC
*
58216545 ATAATGTGGCCGATG-CATGTCCCAAACATATCTTACACT
1 ATAA--TGGCCGATGCCATGTCCCAAACATGTCTTACACT
58216584 AGCACACAAA
Statistics
Matches: 183, Mismatches: 25, Indels: 39
0.74 0.10 0.16
Matches are distributed among these distances:
43 2 0.01
44 12 0.07
45 19 0.10
46 23 0.13
47 64 0.35
48 26 0.14
49 4 0.02
50 30 0.16
51 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (45 bp):
ATAATGGCCGATGCCATGTCCCAAACATGTCTTACACTGGCTCTC
Found at i:58216565 original size:94 final size:93
Alignment explanation
Indices: 58216309--58216586 Score: 291
Period size: 94 Copynumber: 2.9 Consensus size: 93
58216299 CAAACATAGG
* * *
58216309 GTAT-AATGCCGATGCCATGCCCCATACATGGTTTTACACTGGCTCTCACGTTAAGT--CCATGC
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCA---TAAGTGGCCATG-
* *
58216371 CATATCCCAGACATGGTCTTACACT-GACTCTCAC
62 CATGTCCCAAACAT-GTCTTACACTAG-CTCT-AC
* * * *
58216405 GTATCTATGCCGATGCCATGTCTCAAACATGGTCTTACACTGACACATCAT-A-TGGCCAATGCA
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAAGTGGCC-ATGCA
58216468 TGTCCCAAACATGTCTTACACTAGCTCT-C
64 TGTCCCAAACATGTCTTACACTAGCTCTAC
* * *
58216497 GTCTCAATGCTGATGCCATGTCCCAAACATGCTCTTACACTGGCTCTCATAATGTGGCCGATGCA
1 GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAA-GTGGCC-ATGCA
*
58216562 TGTCCCAAACATATCTTACACTAGC
64 TGTCCCAAACATGTCTTACACTAGC
58216587 ACACAAATAT
Statistics
Matches: 155, Mismatches: 18, Indels: 20
0.80 0.09 0.10
Matches are distributed among these distances:
91 4 0.03
92 41 0.26
93 1 0.01
94 49 0.32
95 16 0.10
96 7 0.05
97 34 0.22
98 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (93 bp):
GTATCAATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAGTGGCCATGCATG
TCCCAAACATGTCTTACACTAGCTCTAC
Found at i:58217985 original size:21 final size:21
Alignment explanation
Indices: 58217960--58218000 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
58217950 CATTGATTGA
58217960 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
58217981 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
58218001 AGAATATGCA
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:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:58218700 original size:39 final size:39
Alignment explanation
Indices: 58218646--58218737 Score: 159
Period size: 39 Copynumber: 2.4 Consensus size: 39
58218636 GCATGATATT
*
58218646 TGGAAACACATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
58218685 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
*
58218724 TGG-AATATATCCGG
1 TGGAAACATATCCGG
58218738 GCCTAAAGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 10 0.20
39 41 0.80
ACGTcount: A:0.24, C:0.25, G:0.30, T:0.21
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
Found at i:58218752 original size:39 final size:39
Alignment explanation
Indices: 58218646--58218756 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
58218636 GCATGATATT
* * * *
58218646 TGGAAACACATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
* * *
58218685 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
* *
58218724 TGG-AATATATCCGGGCCTAAAGTCCCGCAGGCT
1 TGGAAACATATCCGGACCTAAAGT-CCGCAGGCT
58218757 TTGTGCTAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.23
39 50 0.77
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (39 bp):
TGGAAACATATCCGGACCTAAAGTCCGCAGGCTACGTGC
Found at i:58220486 original size:17 final size:16
Alignment explanation
Indices: 58220463--58220538 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 16
58220453 AACCATATAT
58220463 AAATAATAATAAAATA
1 AAATAATAATAAAATA
*
58220479 ATAATAATAGTAATTAATA
1 A-AATAATAATAA--AATA
*
58220498 GAAATAATTAATAAAACA
1 -AAATAA-TAATAAAATA
*
58220516 ACAGTAATAAT-AAATA
1 A-AATAATAATAAAATA
*
58220532 CAATAAT
1 AAATAAT
58220539 GTAATAAACA
Statistics
Matches: 47, Mismatches: 7, Indels: 13
0.70 0.10 0.19
Matches are distributed among these distances:
15 5 0.11
16 5 0.11
17 15 0.32
18 7 0.15
19 9 0.19
20 6 0.13
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (16 bp):
AAATAATAATAAAATA
Found at i:58220505 original size:13 final size:11
Alignment explanation
Indices: 58220463--58220513 Score: 57
Period size: 13 Copynumber: 4.3 Consensus size: 11
58220453 AACCATATAT
58220463 AAATAATAATA
1 AAATAATAATA
58220474 AAATAATAATA
1 AAATAATAATA
*
58220485 ATAGTAATTAATA
1 A-AATAA-TAATA
58220498 GAAATAATTAATA
1 -AAATAA-TAATA
58220511 AAA
1 AAA
58220514 CAACAGTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
11 12 0.34
12 7 0.20
13 15 0.43
14 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (11 bp):
AAATAATAATA
Found at i:58220847 original size:14 final size:14
Alignment explanation
Indices: 58220828--58220858 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58220818 ATATATTTAC
*
58220828 ATAATAAATATATA
1 ATAATAAATAAATA
58220842 ATAATAAATAAATA
1 ATAATAAATAAATA
58220856 ATA
1 ATA
58220859 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:58220859 original size:19 final size:18
Alignment explanation
Indices: 58220830--58220866 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
58220820 ATATTTACAT
58220830 AATAAATATATAATAATA
1 AATAAATATATAATAATA
58220848 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
58220867 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:58220918 original size:63 final size:63
Alignment explanation
Indices: 58220841--58220974 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 63
58220831 ATAAATATAT
* * *
58220841 AATAATAAATAAA-TAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AA
1 AATAATAAA-AAACAAATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAA
* *
58220901 AATAATAAAAAACAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAA
1 AATAATAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
*
58220964 AATAACAAAAA
1 AATAATAAAAA
58220975 TAAAAAAGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
59 3 0.05
60 21 0.33
61 7 0.11
62 20 0.32
63 12 0.19
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.26
Consensus pattern (63 bp):
AATAATAAAAAACAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAA
Found at i:58221307 original size:18 final size:18
Alignment explanation
Indices: 58221284--58221356 Score: 78
Period size: 18 Copynumber: 4.0 Consensus size: 18
58221274 ATAACAAGTA
58221284 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
58221302 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
58221320 ACGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
58221339 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
58221357 ATGGTTTACT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.07
18 28 0.64
19 10 0.23
20 3 0.07
ACGTcount: A:0.16, C:0.01, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:58221335 original size:29 final size:29
Alignment explanation
Indices: 58221302--58221401 Score: 74
Period size: 29 Copynumber: 3.2 Consensus size: 29
58221292 GAGGTAGTGG
58221302 GGGTGATGGAGGTAGTGGACGGTTTAGTA
1 GGGTGATGGAGGTAGTGGACGGTTTAGTA
* *
58221331 GGGTGTGGGGGTGATGGAGGTAGTGGATGGTTTACTA
1 --------GGGTGATGGAGGTAGTGGACGGTTTAGTA
* * * *
58221368 GGGTGATAGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGACGGTTTAGTA
58221397 GGGTG
1 GGGTG
58221402 TTTAATTTGG
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 28 0.51
37 27 0.49
ACGTcount: A:0.17, C:0.03, G:0.50, T:0.30
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGACGGTTTAGTA
Found at i:58221348 original size:37 final size:37
Alignment explanation
Indices: 58221298--58221372 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
58221288 GATGGAGGTA
*
58221298 GTGGGGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGACGGTTTACTAGGGT
*
58221335 GTGGGGGTGATGGAGGTAGTGGATGGTTTACTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGACGGTTTACTAGGGT
58221372 G
1 G
58221373 ATAGAGTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.16, C:0.03, G:0.53, T:0.28
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGACGGTTTACTAGGGT
Found at i:58221841 original size:133 final size:133
Alignment explanation
Indices: 58221630--58222055 Score: 663
Period size: 133 Copynumber: 3.2 Consensus size: 133
58221620 ATCTGCTTTA
** *
58221630 CTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAA
1 CTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAA
* *
58221695 GGCTGGTGGCTGAAATCTGTTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTTATCTG
64 GGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTG
58221760 CTCCG
129 CTCCG
*
58221765 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTATCCTGCTCCACTCTTGCTCAGTGAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGG
* * *
58221830 CTTGTGGCTGAAATCTGCTCCATTGCTGATACATGGAGATAAGATTAACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
58221895 CCG
131 CCG
* * ** * *
58221898 CTCCTACTCAGTGAAGATAAGATCTAGTATTTAGATTGCTCCACTCCTGCTTAGTGAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGG
* *
58221963 CTGGTGGCTGAAATATACTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
58222028 CCG
131 CCG
* *
58222031 CTTCTGTTCAGCGAAGATAAGATCT
1 CTCCTGCTCAGCGAAGATAAGATCT
58222056 GTCGAAATTT
Statistics
Matches: 266, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
133 240 0.90
135 26 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGG
CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
CCG
Found at i:58223005 original size:24 final size:24
Alignment explanation
Indices: 58222978--58223050 Score: 60
Period size: 24 Copynumber: 3.0 Consensus size: 24
58222968 TAGCCTTGGC
*
58222978 CTCTCCTTTGCTTTTCTTTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
** *
58223002 CTCTTTTTTGTTTTTCTCTTCTTT
1 CTCTCCTTTGCTTTTCTCTTCTTT
*
58223026 -T-TCCTTTTCCTTTTTTCTCTTCTTT
1 CTCTCC-TTTGC--TTTTCTCTTCTTT
58223051 TTTTTGAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
22 1 0.03
23 4 0.11
24 20 0.53
25 13 0.34
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (24 bp):
CTCTCCTTTGCTTTTCTCTTCTTT
Found at i:58223027 original size:12 final size:12
Alignment explanation
Indices: 58223012--58223053 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
58223002 CTCTTTTTTG
58223012 TTTTTCTCTTCT
1 TTTTTCTCTTCT
* *
58223024 TTTTCCTTTTCCT
1 TTTTTCTCTT-CT
58223037 TTTTTCTCTTCT
1 TTTTTCTCTTCT
58223049 TTTTT
1 TTTTT
58223054 TTGAAAGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTCTTCT
Found at i:58223052 original size:13 final size:13
Alignment explanation
Indices: 58222991--58223054 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
58222981 TCCTTTGCTT
58222991 TTCTTTTCTTTCTC
1 TTCTTTT-TTTCTC
*
58223005 TTTTTTGTTTTTCTC
1 -TTCTT-TTTTTCTC
* *
58223020 TTC-TTTTTCCTT
1 TTCTTTTTTTCTC
*
58223032 TTCCTTTTTTCTC
1 TTCTTTTTTTCTC
58223045 TTCTTTTTTT
1 TTCTTTTTTT
58223055 TGAAAGTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
12 9 0.22
13 17 0.43
14 2 0.05
15 10 0.25
16 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.77
Consensus pattern (13 bp):
TTCTTTTTTTCTC
Found at i:58224276 original size:15 final size:14
Alignment explanation
Indices: 58224251--58224329 Score: 63
Period size: 14 Copynumber: 5.5 Consensus size: 14
58224241 CTTTCTTTTC
*
58224251 TTTTCTTTCT-CTT
1 TTTTCTTTTTCCTT
*
58224264 TTTTGTTTTTCTCCTCT
1 TTTT-CTTTT-TCCT-T
*
58224281 TTTTCCTTTTCCTT
1 TTTTCTTTTTCCTT
*
58224295 TTTTCTCTTTCC-T
1 TTTTCTTTTTCCTT
*
58224308 TTTTCTCTTTCCTT
1 TTTTCTTTTTCCTT
58224322 TTTCTCTT
1 TTT-TCTT
58224330 CTTTTTCTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
13 17 0.32
14 18 0.34
15 8 0.15
16 5 0.09
17 5 0.09
ACGTcount: A:0.00, C:0.27, G:0.01, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTTCCTT
Found at i:58224297 original size:13 final size:14
Alignment explanation
Indices: 58224279--58224329 Score: 72
Period size: 13 Copynumber: 3.9 Consensus size: 14
58224269 TTTTTCTCCT
58224279 CTTTTTCCT-TTTC
1 CTTTTTCCTCTTTC
*
58224292 CTTTTTTCTCTTTC
1 CTTTTTCCTCTTTC
58224306 CTTTTT-CTCTTTC
1 CTTTTTCCTCTTTC
58224319 CTTTTT-CTCTT
1 CTTTTTCCTCTT
58224330 CTTTTTCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
13 26 0.72
14 10 0.28
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTTTTCCTCTTTC
Found at i:58224304 original size:51 final size:50
Alignment explanation
Indices: 58224239--58224340 Score: 125
Period size: 51 Copynumber: 2.0 Consensus size: 50
58224229 CCTTGGCCTC
* * **
58224239 TCCTTTCTTTTCTTTTCTTTCTCTTTTTTGTTTTTCTCCTCTTTTTCCTTT
1 TCCTTTCTTTTCTTTCCTTTCTCTCTTTCCTTTTTCTCCTCTTTTT-CTTT
* *
58224290 TCCTTT-TTTCTCTTTCCTTTTTCTCTTTCCTTTTTCTCTTCTTTTTCTTT
1 TCCTTTCTTT-TCTTTCCTTTCTCTCTTTCCTTTTTCTCCTCTTTTTCTTT
58224340 T
1 T
58224341 GAAAGTGAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 8 0.18
51 36 0.82
ACGTcount: A:0.00, C:0.26, G:0.01, T:0.73
Consensus pattern (50 bp):
TCCTTTCTTTTCTTTCCTTTCTCTCTTTCCTTTTTCTCCTCTTTTTCTTT
Found at i:58224318 original size:27 final size:25
Alignment explanation
Indices: 58224246--58224337 Score: 91
Period size: 24 Copynumber: 3.7 Consensus size: 25
58224236 CTCTCCTTTC
* * **
58224246 TTTTCTTTTCTTTCTCT-TTTTTGT
1 TTTTCTCTTCTTTTTCTCTTTTCCT
*
58224270 TTTTCTCCTCTTTTTC-CTTTTCCTT
1 TTTTCTCTTCTTTTTCTCTTTTCC-T
58224295 TTTTCTCTTTCCTTTTTCTC-TTTCCT
1 TTTTCTC-TT-CTTTTTCTCTTTTCCT
58224321 TTTTCTCTTCTTTTTCT
1 TTTTCTCTTCTTTTTCT
58224338 TTTGAAAGTG
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
24 25 0.44
25 10 0.18
26 9 0.16
27 12 0.21
28 1 0.02
ACGTcount: A:0.00, C:0.26, G:0.01, T:0.73
Consensus pattern (25 bp):
TTTTCTCTTCTTTTTCTCTTTTCCT
Found at i:58224337 original size:6 final size:6
Alignment explanation
Indices: 58224242--58224340 Score: 53
Period size: 6 Copynumber: 16.3 Consensus size: 6
58224232 TGGCCTCTCC
* * **
58224242 TTTC-T TTTC-T TTTCTT TCTCTTT TTTGTT TTTC-T CCTCTT TTTCCTT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTT-CTT
* * * *
58224289 TTCCTTT TTTCTCT TTCCTT TTTCTCT TTCCTT TTTC-T CTTCTT TTTCTT
1 TTTC-TT TTTCT-T TTTCTT TTTCT-T TTTCTT TTTCTT TTTCTT TTTCTT
58224339 TT
1 TT
58224341 GAAAGTGAAG
Statistics
Matches: 70, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
5 16 0.23
6 30 0.43
7 24 0.34
ACGTcount: A:0.00, C:0.25, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTCTT
Found at i:58226881 original size:14 final size:13
Alignment explanation
Indices: 58226859--58226896 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
58226849 AAAAAAAAAG
58226859 AAGAGAAAAAGGA
1 AAGAGAAAAAGGA
58226872 AAGAGAAAAAAGGA
1 AAGAG-AAAAAGGA
58226886 AA-AGGAAAAAG
1 AAGA-GAAAAAG
58226897 AGGAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AAGAGAAAAAGGA
Found at i:58228573 original size:133 final size:133
Alignment explanation
Indices: 58228178--58228810 Score: 980
Period size: 133 Copynumber: 4.7 Consensus size: 133
58228168 TTAAAATTAT
* *
58228178 AGATTTCAGCCACAAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
1 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
* *
58228243 CTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCCAATGG
66 CTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGG
58228308 AGC
131 AGC
*
58228311 AGATTTCAGCCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAACATACTAGATCTT
1 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCTT
*
58228376 ATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCAGCAAT
64 ATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAAT
*
58228441 AGAGC
129 GGAGC
* *
58228446 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCATGCTAAATACTATATCTTAT
1 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
58228511 CTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGG
66 CTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGG
58228576 AGC
131 AGC
* *
58228579 ATATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTATATACTAGATCTTAT
1 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
* *** *
58228644 CTTCGCTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCAATGG
66 CTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGG
58228709 AGC
131 AGC
*** * *
58228712 AGATTAT-AATAATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCT
1 AGATT-TCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCT
** ***
58228776 TATCTTTACTGAGCAGGAGTAAAGCAGATCAAATT
63 TATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATT
58228811 ACAGTAGATC
Statistics
Matches: 463, Mismatches: 32, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
133 291 0.63
134 6 0.01
135 166 0.36
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (133 bp):
AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
CTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGG
AGC
Found at i:58228778 original size:268 final size:267
Alignment explanation
Indices: 58228178--58228810 Score: 973
Period size: 268 Copynumber: 2.4 Consensus size: 267
58228168 TTAAAATTAT
* * * *
58228178 AGATTTCAGCCACAAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
1 AGATTTCAACAACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
58228243 CTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCCAATGG
66 CTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCCAATGG
58228308 AGCAGATTTCAGCCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAAACATACTAGAT
131 AGCAGATTTCAGCCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCT-AACATACTAGAT
* *** *
58228373 CTTATCTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCAGC
195 CTTATCTTCGCTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGC
58228438 AATAGAGC
260 AATAGAGC
* * * *
58228446 AGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCATGCTAAATACTATATCTTAT
1 AGATTTCAACAACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
* *
58228511 CTTCGCTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGGCAATGG
66 CTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCCAATGG
* * *
58228576 AGCATATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-ATATACTAGATC
131 AGCAGATTTCAGCCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAACATACTAGATC
*
58228640 TTATCTTCGCTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCGGCA
196 TTATCTTCGCTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGCA
*
58228705 ATGGAGC
261 ATAGAGC
* * *
58228712 AGATTAT-AATAATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCAGATCT
1 AGATT-TCAACAACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA-ATACTAGATCT
* ***
58228776 TATCTTTACTGAGCAGGAGTAAAGCAGATCAAATT
63 TATCTTCACTGAGCAGGAGCGGAGCAGATCAAATT
58228811 ACAGTAGATC
Statistics
Matches: 334, Mismatches: 28, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
266 118 0.35
267 3 0.01
268 213 0.64
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (267 bp):
AGATTTCAACAACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATACTAGATCTTAT
CTTCACTGAGCAGGAGCGGAGCAGATCAAATTTTGGTGAATCTTATCTCCATGTATCGCCAATGG
AGCAGATTTCAGCCACCAGCCTTATCTTCACTAAGCAGGAGTGGAGCAGGCTAACATACTAGATC
TTATCTTCGCTGAGCAAGAGAAAAGCAGATCAAATTTTGATGAATCTTATCTCCATGTATCAGCA
ATAGAGC
Found at i:58229071 original size:29 final size:29
Alignment explanation
Indices: 58229039--58229114 Score: 127
Period size: 29 Copynumber: 2.6 Consensus size: 29
58229029 ACTAGATCGA
*
58229039 CCACTAACTCTATCACCCTACTAAACCAT
1 CCACTAACTCCATCACCCTACTAAACCAT
58229068 CCACTAACTCCATCACCCTACTAAACCAT
1 CCACTAACTCCATCACCCTACTAAACCAT
58229097 CCACT-ACTTCCATCACCC
1 CCACTAAC-TCCATCACCC
58229115 CCACACCCTA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 2 0.04
29 43 0.96
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (29 bp):
CCACTAACTCCATCACCCTACTAAACCAT
Found at i:58229131 original size:37 final size:37
Alignment explanation
Indices: 58229081--58229151 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
58229071 CTAACTCCAT
*
58229081 CACCCTACTAAACCATCCACTACTTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
*
58229118 CACCCTACTAAACCGTCCACTACCTCCATCACCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCC
58229152 TAGTTGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.28, C:0.52, G:0.01, T:0.18
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:58229596 original size:63 final size:63
Alignment explanation
Indices: 58229456--58229598 Score: 159
Period size: 63 Copynumber: 2.3 Consensus size: 63
58229446 TTTAACCCCT
* * * *
58229456 TTTTTATTTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATCATA
* *
58229520 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATCATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATCATA
58229581 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
58229599 ATATTTATTA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
61 16 0.24
62 8 0.12
63 27 0.40
64 15 0.22
65 2 0.03
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATCATA
Found at i:58229617 original size:17 final size:14
Alignment explanation
Indices: 58229579--58229631 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
58229569 CATATTATCA
*
58229579 TATTATTTATTTAT
1 TATTATATATTTAT
58229593 TATTATATATTTAT
1 TATTATATATTTAT
* *
58229607 TATGTAAATATATA-
1 TAT-TATATATTTAT
58229621 TA-TATATATTT
1 TATTATATATTT
58229632 TTAAGCGAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
12 7 0.21
14 18 0.55
15 8 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:58229857 original size:21 final size:21
Alignment explanation
Indices: 58229799--58229858 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 21
58229789 ATTTTTTTAC
** **
58229799 TATTATCCCCATATTTAATGT
1 TATTATCAACATATTTTTTGT
*
58229820 TATTGTCAACATATTTTTTGT
1 TATTATCAACATATTTTTTGT
* *
58229841 TATTATCATCATGTTTTT
1 TATTATCAACATATTTTT
58229859 AATATTATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.07, T:0.55
Consensus pattern (21 bp):
TATTATCAACATATTTTTTGT
Found at i:58229915 original size:3 final size:3
Alignment explanation
Indices: 58229907--58229971 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
58229897 ATTATTGTAT
* * *
58229907 TTA TTA TTA TTG TTG TT- TTA TTAA TTA TT- TCTA TTAA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA T-TA TT-A TTA TTA TTA
58229953 TTA TTA TT- TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
58229972 TATATATAGT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
2 5 0.09
3 41 0.77
4 7 0.13
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Done.