Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 179 of 770
Found at i:53510505 original size:30 final size:30
Alignment explanation
Indices: 53510461--53510549 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
53510451 CAAAGATAAC
53510461 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
53510490 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
53510520 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
53510550 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:53510509 original size:15 final size:15
Alignment explanation
Indices: 53510461--53510540 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
53510451 CAAAGATAAC
*
53510461 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
53510475 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
53510490 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
53510505 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
53510520 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
53510535 AAGAAA
1 AAGAAA
53510541 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:53510549 original size:15 final size:15
Alignment explanation
Indices: 53510472--53510549 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
53510462 AGAAAACCGA
53510472 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
53510487 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
53510501 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
53510516 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
53510532 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
53510547 ATA
1 ATA
53510550 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:53513606 original size:93 final size:93
Alignment explanation
Indices: 53513494--53513665 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53513484 GCCCATAAGT
* *
53513494 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53513559 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
53513587 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53513652 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
53513666 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53513661 original size:46 final size:46
Alignment explanation
Indices: 53513486--53513661 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53513476 TGTAACCCGC
* * *
53513486 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
53513532 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
53513582 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
53513625 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53513662 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:53516088 original size:40 final size:39
Alignment explanation
Indices: 53515928--53516090 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
53515918 TGTGTATGAA
*
53515928 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
53515967 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
53516006 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
53516045 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
53516085 TGTGCG
1 TGTGCG
53516091 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:53516106 original size:40 final size:39
Alignment explanation
Indices: 53515928--53516121 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
53515918 TGTGTATGAA
* *
53515928 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
53515967 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
53516006 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
53516045 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
53516085 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
53516122 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:53518168 original size:14 final size:15
Alignment explanation
Indices: 53518144--53518181 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
53518134 AAAGAGGCAA
53518144 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
53518159 GAAG-AGGAAAAGA-
1 GAAGAAGGAAAAGAG
53518172 GAATGAAGGA
1 GAA-GAAGGA
53518182 GGTGAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.39, T:0.03
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:53520699 original size:20 final size:20
Alignment explanation
Indices: 53520674--53520713 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53520664 AAAGTTGTTG
*
53520674 GTACCATGGAGCTGGATGCA
1 GTACCATGGAGCTAGATGCA
53520694 GTACCATGGAGCTAGATGCA
1 GTACCATGGAGCTAGATGCA
53520714 ATCACTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (20 bp):
GTACCATGGAGCTAGATGCA
Found at i:53526232 original size:43 final size:42
Alignment explanation
Indices: 53526171--53526276 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 42
53526161 AAGGCCAACA
*
53526171 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACGTGGTCTTACATGAAATCAAATA-CGATGCCACTG
*
53526214 TCCCAGACAG-GGTCTTACATGAAATCAAGTACGATGCCAAC--
1 TCCCAGAC-GTGGTCTTACATGAAATCAAATACGATGCC-ACTG
* *
53526255 ACCCATACGTGGTCTTACATGA
1 TCCCAGACGTGGTCTTACATGA
53526277 TAACACATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
40 1 0.02
41 18 0.32
42 7 0.12
43 29 0.52
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACATGAAATCAAATACGATGCCACTG
Found at i:53532427 original size:28 final size:26
Alignment explanation
Indices: 53532395--53532477 Score: 85
Period size: 28 Copynumber: 3.0 Consensus size: 26
53532385 AGTGTTCACG
*
53532395 GTTGAGAGAATGGCACTAAGTGTGCGG
1 GTTGA-AGAATGGCACTAAGTGTGCGA
*
53532422 GCTTGAATGCATGGCACTAAGTGTGCGA
1 G-TTGAA-GAATGGCACTAAGTGTGCGA
*
53532450 GTTTAAAGTACATGGCACTAAGTGTGCG
1 G-TTGAAG-A-ATGGCACTAAGTGTGCG
53532478 TGGTTGATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
27 3 0.06
28 27 0.57
29 17 0.36
ACGTcount: A:0.27, C:0.14, G:0.34, T:0.25
Consensus pattern (26 bp):
GTTGAAGAATGGCACTAAGTGTGCGA
Found at i:53532473 original size:29 final size:28
Alignment explanation
Indices: 53532404--53532477 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
53532394 GGTTGAGAGA
* * *
53532404 ATGGCACTAAGTGTGCGGGCTTGAATGC
1 ATGGCACTAAGTGTGCGAGCTTAAATAC
*
53532432 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGCTTAAA-TAC
53532461 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
53532478 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 22 0.54
29 19 0.46
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTTAAATAC
Found at i:53540312 original size:26 final size:27
Alignment explanation
Indices: 53540281--53540350 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 27
53540271 GGTTGAGAGA
*
53540281 ATGGCACTAAGTGCG-GCTTGAAA-TGC
1 ATGGCACTAAGTGCGAG-TTGAAAGTAC
*
53540307 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAA--GTGCGAGTTGAAAGTAC
53540336 ATGGCACTAAGTGCG
1 ATGGCACTAAGTGCG
53540351 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
26 10 0.26
27 5 0.13
28 10 0.26
29 13 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (27 bp):
ATGGCACTAAGTGCGAGTTGAAAGTAC
Found at i:53544612 original size:40 final size:40
Alignment explanation
Indices: 53544447--53544614 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
53544437 AAATTGAATG
* * * **
53544447 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * **
53544487 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
*
53544527 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
53544567 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
53544607 ATATCCGG
1 ATATCCGG
53544615 TTATATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.04
40 100 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:53552343 original size:40 final size:40
Alignment explanation
Indices: 53552284--53552425 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
53552274 AAATTGAATG
* * *
53552284 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
53552324 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
53552364 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
53552404 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
53552426 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:53552449 original size:40 final size:39
Alignment explanation
Indices: 53552322--53552451 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
53552312 ATGCTGGAAA
* * *
53552322 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
53552363 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
53552401 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
53552442 TTATATCCGG
1 TTATATCCGG
53552452 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:53557435 original size:28 final size:28
Alignment explanation
Indices: 53557401--53557555 Score: 139
Period size: 28 Copynumber: 5.5 Consensus size: 28
53557391 AACCGATCTT
* *
53557401 GCACACACAGTGCTTGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* ** * *
53557429 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
* *
53557458 GCATACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
* * ** * *
53557486 GCACACATAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGATTACGGAACTC
*
53557515 ACACACACAGTGCTCGATTACGGAACTC
1 GCACACACAGTGCTCGATTACGGAACTC
*
53557543 ACACACACAGTGC
1 GCACACACAGTGC
53557556 CTATGTTCAC
Statistics
Matches: 96, Mismatches: 29, Indels: 4
0.74 0.22 0.03
Matches are distributed among these distances:
28 56 0.58
29 40 0.42
ACGTcount: A:0.30, C:0.34, G:0.19, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTCGATTACGGAACTC
Found at i:53557441 original size:57 final size:57
Alignment explanation
Indices: 53557371--53557557 Score: 284
Period size: 57 Copynumber: 3.2 Consensus size: 57
53557361 GATCTCATTT
* * *
53557371 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
*
53557430 CACACACAGTGCCTCAACAACCGATCTCGCATACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
* * * *
53557487 CACACATAGTGCCTCAACAACCGATCTCACACACACAGTGCTCGATTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
53557544 CACACACAGTGCCT
1 CACACACAGTGCCT
53557558 ATGTTCACTT
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
57 111 0.94
59 7 0.06
ACGTcount: A:0.29, C:0.35, G:0.17, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
Found at i:53557468 original size:29 final size:29
Alignment explanation
Indices: 53557371--53557527 Score: 120
Period size: 29 Copynumber: 5.4 Consensus size: 29
53557361 GATCTCATTT
* *
53557371 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
***** * *
53557402 CACACACAGTG-CTTGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
53557430 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* **** * *
53557459 CATACACAGTG-CTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* *
53557487 CACACATAGTGCCTCAACAACCGATCTCA
1 CACACACAGTGCCTCAACAACCGATCTCG
53557516 CACACACAGTGC
1 CACACACAGTGC
53557528 TCGATTACGG
Statistics
Matches: 91, Mismatches: 33, Indels: 6
0.70 0.25 0.05
Matches are distributed among these distances:
28 39 0.43
29 45 0.49
31 7 0.08
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:53559562 original size:28 final size:28
Alignment explanation
Indices: 53559530--53559608 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
53559520 GAATCATTCG
* *
53559530 ATATTTTGCACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
53559558 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGTACACTAAGTGCCATTCTCA
*
53559586 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGTACACTAAGTGCCAT
53559609 ATTTGATTGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGTACACTAAGTGCCATTCTCA
Found at i:53565712 original size:40 final size:40
Alignment explanation
Indices: 53565659--53565797 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
53565649 GGATATAACG
* *
53565659 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTT-TAGTA
* *
53565699 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
*
53565739 ACTCGCACAAATGCCTTCGGG-CTTAA-CCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGG-TTTAGTA
* *
53565778 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
53565798 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.33
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
Found at i:53573770 original size:40 final size:40
Alignment explanation
Indices: 53573724--53573853 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
53573714 GACTCACTCA
*
53573724 AATGCCTTCGGGAC-AAACCCCGGTTATAGTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGGTT-TAGTAACTCGCACG
* *
53573764 AATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
*
53573804 AATGCCTTCGGG-CTTAA-CCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTTAACCCCGG-TTTAGTAACTCGCACG
*
53573843 AACGCCTTCGG
1 AATGCCTTCGG
53573854 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.36
40 39 0.48
41 9 0.11
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCCGGTTTAGTAACTCGCACG
Found at i:53577986 original size:25 final size:25
Alignment explanation
Indices: 53577958--53578005 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53577948 TTATACCATG
* * *
53577958 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53577983 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53578006 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53578089 original size:11 final size:11
Alignment explanation
Indices: 53578053--53578108 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
53578043 TATGGTATGT
53578053 ATGATATGCAC
1 ATGATATGCAC
* *
53578064 ATGACATG--T
1 ATGATATGCAC
53578073 ATGATATGCAC
1 ATGATATGCAC
*
53578084 ATGATATG--T
1 ATGATATGCAC
53578093 ATGATATGCAC
1 ATGATATGCAC
53578104 ATGAT
1 ATGAT
53578109 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:53578108 original size:20 final size:20
Alignment explanation
Indices: 53578048--53578108 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
53578038 ATAAATATGG
53578048 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
53578068 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
53578088 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
53578108 T
1 T
53578109 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:53578184 original size:24 final size:24
Alignment explanation
Indices: 53578157--53578323 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
53578147 GAGGAAGTGA
53578157 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53578181 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53578205 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
53578229 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
53578252 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
53578276 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
53578300 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53578324 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
23 23 0.17
24 101 0.75
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:53578274 original size:71 final size:71
Alignment explanation
Indices: 53578157--53578324 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
53578147 GAGGAAGTGA
53578157 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
53578222 AGTTATC
65 AGTTATC
** *
53578229 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
*
53578294 GTTATT
66 GTTATC
*
53578300 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
53578325 TGATAAAGCA
Statistics
Matches: 89, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
71 54 0.61
72 35 0.39
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
GTTATC
Found at i:53578575 original size:30 final size:31
Alignment explanation
Indices: 53578515--53578577 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53578505 CGTTTACAGT
53578515 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
53578546 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
53578576 AA
1 AA
53578578 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:53586108 original size:25 final size:25
Alignment explanation
Indices: 53586080--53586127 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53586070 TTATACCATG
* * *
53586080 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
53586105 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
53586128 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:53586230 original size:20 final size:20
Alignment explanation
Indices: 53586170--53586230 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
53586160 ATAAATATGG
*
53586170 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
53586190 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
53586210 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
53586230 T
1 T
53586231 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:53586307 original size:24 final size:24
Alignment explanation
Indices: 53586280--53586398 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
53586270 GAGGAAGTGA
*
53586280 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
53586304 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
53586327 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
53586351 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
53586375 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53586399 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:53586349 original size:47 final size:48
Alignment explanation
Indices: 53586280--53586398 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
53586270 GAGGAAGTGA
53586280 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
53586327 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
53586375 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
53586399 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:53586650 original size:30 final size:31
Alignment explanation
Indices: 53586590--53586652 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
53586580 CGTTTACAGT
53586590 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
53586621 AAAGGCTTCGGCCCAGTGTTATG-AATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
53586651 AA
1 AA
53586653 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:53589188 original size:19 final size:20
Alignment explanation
Indices: 53589147--53589189 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
53589137 TTTTGTAAAG
* *
53589147 TTTGTAAAATAGATGGTATT
1 TTTGTAAAATAGATGGAAAT
*
53589167 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
53589186 TTTG
1 TTTG
53589190 GGTTGCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:53589838 original size:49 final size:49
Alignment explanation
Indices: 53589782--53589911 Score: 154
Period size: 49 Copynumber: 2.7 Consensus size: 49
53589772 GTTGTATGTT
* *
53589782 AGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTTTAGGACATGGCATCGAC-CTCGATAGATGAAAGCC
*** * * * *
53589831 AGTGTAAGACCTGTTTAGGACACAACATTGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTTTAGGACATGGCATCGACCTCGATAGATGAAAGCC
*
53589880 AGTGTAAGACCTGTCTAGGACATGGCATCGAC
1 AGTGTAAGACCTGTTTAGGACATGGCATCGAC
53589912 TTTGATCTGC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
48 1 0.02
49 64 0.98
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTTTAGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:53595012 original size:27 final size:27
Alignment explanation
Indices: 53594971--53595024 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
53594961 TGTCATGTGA
* *
53594971 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
53594998 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
53595025 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:53595350 original size:49 final size:50
Alignment explanation
Indices: 53595270--53595514 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
53595260 ATCTATTGTG
* *
53595270 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* ** *
53595320 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * **
53595370 CGATCACGTGTGTAGTACTAAGTG-AGGATACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
53595419 AGGTCACGTGTGTAGTACTAAGTACAGACTACTATGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
53595469 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
53595515 GCCTTGTCTA
Statistics
Matches: 159, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
49 104 0.65
50 35 0.22
51 20 0.13
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:53595451 original size:100 final size:98
Alignment explanation
Indices: 53595273--53595514 Score: 306
Period size: 100 Copynumber: 2.4 Consensus size: 98
53595263 TATTGTGAGG
*
53595273 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
* *
53595338 AAGTGCAGGCTACTATGCATACCCGATAACTTCGA
66 AAGTACAGACTACTATGCATACCCGATAA-TT-GA
* * ** *
53595373 TCACGTGTGTAGTACTAAGTG-AGGATACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACATGTGTAGTAC
** * *
53595437 TAAGTACAGACTACTATGTGTACCGGATAATTGG
65 TAAGTACAGACTACTATGCATACCCGATAATTGA
* * * *
53595471 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
53595515 GCCTTGTCTA
Statistics
Matches: 121, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
98 20 0.17
99 40 0.33
100 61 0.50
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACATGTGTAGTACT
AAGTACAGACTACTATGCATACCCGATAATTGA
Found at i:53596955 original size:16 final size:16
Alignment explanation
Indices: 53596931--53596963 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
53596921 GCCGGCCTTG
53596931 GATACGGGTAAGGGGT
1 GATACGGGTAAGGGGT
*
53596947 GATATGGGTAAGGGGT
1 GATACGGGTAAGGGGT
53596963 G
1 G
53596964 TTACAGGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.52, T:0.21
Consensus pattern (16 bp):
GATACGGGTAAGGGGT
Found at i:53602562 original size:28 final size:28
Alignment explanation
Indices: 53602514--53602618 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 28
53602504 CTGCCAGAAT
* *
53602514 AGATAATC-TGACAGAGTCACCAGATAC
1 AGATAATCGTGGCAGAGCCACCAGATAC
53602541 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAATCGTGGCAGAGCCACCAGATAC
* *
53602568 AGA-AATATGTGGCAGAGCCACTAGAT-C
1 AGATAAT-CGTGGCAGAGCCACCAGATAC
* *
53602595 AGATAATTGTGGCATAGCCACCAG
1 AGATAATCGTGGCAGAGCCACCAG
53602619 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.04
27 48 0.71
28 17 0.25
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (28 bp):
AGATAATCGTGGCAGAGCCACCAGATAC
Found at i:53606070 original size:27 final size:27
Alignment explanation
Indices: 53606040--53606092 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
53606030 ATTCCTCATA
53606040 CTTAGTGCCATCTCAATTACCCGAAAT
1 CTTAGTGCCATCTCAATTACCCGAAAT
53606067 CTTAGTGCCATCTCAATTACCCGAAA
1 CTTAGTGCCATCTCAATTACCCGAAA
53606093 CCAAGTCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.28
Consensus pattern (27 bp):
CTTAGTGCCATCTCAATTACCCGAAAT
Found at i:53620689 original size:94 final size:90
Alignment explanation
Indices: 53620574--53620786 Score: 236
Period size: 94 Copynumber: 2.3 Consensus size: 90
53620564 TATGTGCACC
*
53620574 AGTGTTAGACATGTCTGGGACATGCATCGGCCACAT-A-ATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATGAGATGAGAGCCAGTGTAAGA-CATGTCT
53620637 GGGACATGGCATCGGCATTGA-GACGA-GTGCT
63 GGGACAT-GCATCGGC--T-ACGA-GATGTGCT
* * ** ** *
53620668 AGTGTAAGACATGTCTCGGACAGGCATCGGCTTTGAGATGTTAGCCAGTGTCAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGATGAGAGCCAGTGTAAGACATGTCTGGG
*
53620733 ACATGCGTCGGCTACGAGATGTGCT
66 ACATGCATCGGCTACGAGATGTGCT
*
53620758 AGTGTAAGACATGTGTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
53620787 ACATGGTTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
89 3 0.03
90 34 0.33
92 8 0.08
93 16 0.16
94 42 0.41
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATGAGATGAGAGCCAGTGTAAGACATGTCTGGG
ACATGCATCGGCTACGAGATGTGCT
Found at i:53620704 original size:46 final size:44
Alignment explanation
Indices: 53620620--53620786 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 44
53620610 AATGAGAGCC
*
53620620 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACA-GGCATCGGCTTTGAGA-G-GTGCT
* * *
53620668 AGTGTAAGACATGTCTCGGACAGGCATCGGCTTTGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACAGGCATCGGCTTTGAGA-GGT-GCT
* * * ** *
53620714 AGTGTCAGACATGTCTGGGACATGCGTCGGCTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACAGGCATCGGCTTTGAGAGGTGCT
* *
53620758 AGTGTAAGACATGTGTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACAGGCATCG
53620787 ACATGGTTAC
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
44 28 0.28
45 2 0.02
46 50 0.50
47 12 0.12
48 9 0.09
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACAGGCATCGGCTTTGAGAGGTGCT
Found at i:53620779 original size:90 final size:93
Alignment explanation
Indices: 53620616--53620786 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 93
53620606 ACATAATGAG
53620616 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGAGACGAGTGCTAGTGTAAGACATG
53620681 TCTCGGACAGGCATCGGCTTTGAGATGTT
65 TCTCGGACAGGCATCGGCTTTGAGATGTT
* *
53620710 AGCCAGTGTCAGA-CATGTCTGGGACAT-GCGTCGGC-T-ACGA-GATGTGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGA-GACGA-GTGCTAGTGTAAGACAT
* * *
53620770 GTGTGGGACATGCATCG
64 GTCTCGGACAGGCATCG
53620787 ACATGGTTAC
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
89 3 0.04
90 34 0.49
92 7 0.10
93 14 0.20
94 12 0.17
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAGACGAGTGCTAGTGTAAGACATGT
CTCGGACAGGCATCGGCTTTGAGATGTT
Found at i:53620807 original size:90 final size:92
Alignment explanation
Indices: 53620616--53620833 Score: 225
Period size: 90 Copynumber: 2.4 Consensus size: 92
53620606 ACATAATGAG
53620616 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCA-TGAGACGAGTGCTAGTGTAAGACATG
* *
53620681 TCTCGGACAGGCATCGGCTTTGAGATGTT
64 TCTCGGACAGGCATCGACTTTGACATGTT
* *
53620710 AGCCAGTGTCAGACATGTCTGGGACAT-GCGTCGGC-T-ACGA-GATGTGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATGA-GACGA-GTGCTAGTGTAAGACATG
* * *
53620771 TGTGGGACATGCATCGACATGGTT-ACATG-T
64 TCTCGGACAGGCATCGAC-T--TTGACATGTT
* * * *
53620801 -GTCAGTGTAAAACCTGTCTGGGACACGGCATCG
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCG
53620834 ACATAGATGG
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
89 3 0.03
90 56 0.53
91 7 0.07
92 11 0.10
93 16 0.15
94 12 0.11
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (92 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCATGAGACGAGTGCTAGTGTAAGACATGTC
TCGGACAGGCATCGACTTTGACATGTT
Found at i:53622343 original size:19 final size:19
Alignment explanation
Indices: 53622306--53622344 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
53622296 AAAATCGAAT
**
53622306 TCTTTCTTCTTCTTTTCTC
1 TCTTTCTTCTTCTCATCTC
*
53622325 TCTTTCTTTTTCTCATCTC
1 TCTTTCTTCTTCTCATCTC
53622344 T
1 T
53622345 TCCTTCCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTTCTTCTTCTCATCTC
Found at i:53624338 original size:27 final size:28
Alignment explanation
Indices: 53624281--53624350 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53624271 AAATTTGTAC
**
53624281 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
53624309 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
53624336 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53624351 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:53624359 original size:27 final size:27
Alignment explanation
Indices: 53624281--53624362 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
53624271 AAATTTGTAC
* *
53624281 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
53624309 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
53624336 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
53624363 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:53632249 original size:27 final size:28
Alignment explanation
Indices: 53632192--53632261 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53632182 AAATTTGTAC
**
53632192 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
53632220 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
53632247 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
53632262 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:53632270 original size:27 final size:27
Alignment explanation
Indices: 53632192--53632273 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
53632182 AAATTTGTAC
* *
53632192 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
53632220 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
53632247 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
53632274 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:53638063 original size:15 final size:15
Alignment explanation
Indices: 53638040--53638074 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
53638030 GTCAATGGAC
53638040 TAATATGTATGTGAT
1 TAATATGTATGTGAT
*
53638055 TAATGTGTATGTGAT
1 TAATATGTATGTGAT
53638070 TAATA
1 TAATA
53638075 CAAATATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TAATATGTATGTGAT
Found at i:53639875 original size:24 final size:24
Alignment explanation
Indices: 53639825--53639878 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
53639815 AATCGAATTT
*
53639825 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
53639849 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
53639873 GCACAC
1 GCACAC
53639879 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:53643238 original size:47 final size:47
Alignment explanation
Indices: 53643185--53643761 Score: 940
Period size: 47 Copynumber: 12.3 Consensus size: 47
53643175 ACAAGATATG
53643185 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
53643232 TATATGTGATAAGGCCGAGA-GGCCAACGTGATGAATGTGAAAGTGTG
1 TATATGTGATAAGGCCGA-ATGGCCAATGTGATGAATGTGAAAGTGTA
* *
53643279 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53643326 TATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
53643373 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
** * *
53643420 TATATGTGATAAGGCCGGGTGGCCAACGTGATGAATGTGAAAGTGTG
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
53643467 TATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
53643514 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
53643561 TATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
53643608 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
53643655 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53643702 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
53643749 TAAATGTGATAAG
1 TATATGTGATAAG
53643762 TCCCGAAGGG
Statistics
Matches: 488, Mismatches: 40, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
46 1 0.00
47 486 1.00
48 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:53651968 original size:24 final size:24
Alignment explanation
Indices: 53651918--53651971 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
53651908 AATCGAATTT
*
53651918 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
53651942 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
53651966 GCACAC
1 GCACAC
53651972 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:53657921 original size:29 final size:28
Alignment explanation
Indices: 53657889--53657960 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 28
53657879 CTTCGAGCTC
*
53657889 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATA-TTTTCCAGCAT
**
53657918 GCACACTTAGTGCCATATTTTCCAGCAT
1 GCACACCCAGTGCCATATTTTCCAGCAT
**
53657946 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
53657961 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 26 0.65
29 14 0.35
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.28
Consensus pattern (28 bp):
GCACACCCAGTGCCATATTTTCCAGCAT
Found at i:53657947 original size:28 final size:29
Alignment explanation
Indices: 53657897--53657960 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 29
53657887 TCGCACACCC
*
53657897 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATTTTTCCAGCATGCACACTT
53657926 AGTGCCATA-TTTTCCAGCATGCACACTT
1 AGTGCCATATTTTTCCAGCATGCACACTT
53657954 AGTGCCA
1 AGTGCCA
53657961 ATCTCGTCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 26 0.76
29 8 0.24
ACGTcount: A:0.23, C:0.28, G:0.17, T:0.31
Consensus pattern (29 bp):
AGTGCCATATTTTTCCAGCATGCACACTT
Found at i:53659169 original size:25 final size:24
Alignment explanation
Indices: 53659133--53659189 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
53659123 TTTTTTTCCT
53659133 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* * *
53659158 TTTCTTTTTTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
53659182 TATTCTTT
1 T-TTCTTT
53659190 CTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:53665818 original size:29 final size:29
Alignment explanation
Indices: 53665786--53665858 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
53665776 CTTCGAGCTC
* *
53665786 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
53665815 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
53665844 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
53665859 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:53667063 original size:25 final size:24
Alignment explanation
Indices: 53667027--53667083 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
53667017 TTTTTTTCCT
53667027 TTTCTTTGTTTTTCTTCATATTCTC
1 TTTCTTTGTTTTTCTTCAT-TTCTC
* * *
53667052 TTTCTTTTTTTTTTTTCATTTCTT
1 TTTCTTTGTTTTTCTTCATTTCTC
53667076 TATTCTTT
1 T-TTCTTT
53667084 CTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTCTTTGTTTTTCTTCATTTCTC
Found at i:53670643 original size:20 final size:20
Alignment explanation
Indices: 53670618--53670681 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
53670608 CATCTAGGAG
*
53670618 AATTTTGGAAATTTTGCGAA
1 AATTTTAGAAATTTTGCGAA
*
53670638 AATTTTAGAAATTTTGAGAA
1 AATTTTAGAAATTTTGCGAA
53670658 AATTTTAGAAATTTTGCGAA
1 AATTTTAGAAATTTTGCGAA
53670678 AATT
1 AATT
53670682 CTCTAAGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.41
Consensus pattern (20 bp):
AATTTTAGAAATTTTGCGAA
Found at i:53670678 original size:10 final size:10
Alignment explanation
Indices: 53670618--53670678 Score: 65
Period size: 9 Copynumber: 6.2 Consensus size: 10
53670608 CATCTAGGAG
53670618 AATTTTG-GA
1 AATTTTGAGA
*
53670627 AATTTTGCGAA
1 AATTTTGAG-A
53670638 AATTTT-AGA
1 AATTTTGAGA
53670647 AATTTTGAGAA
1 AATTTTGAG-A
53670658 AATTTT-AGA
1 AATTTTGAGA
*
53670667 AATTTTGCGA
1 AATTTTGAGA
53670677 AA
1 AA
53670679 ATTCTCTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
9 21 0.47
10 10 0.22
11 14 0.31
ACGTcount: A:0.41, C:0.03, G:0.16, T:0.39
Consensus pattern (10 bp):
AATTTTGAGA
Found at i:53672491 original size:13 final size:13
Alignment explanation
Indices: 53672473--53672498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53672463 ATATTATAAT
53672473 TATTTTATGTTAA
1 TATTTTATGTTAA
53672486 TATTTTATGTTAA
1 TATTTTATGTTAA
53672499 AAATAAAAAT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:53673094 original size:40 final size:40
Alignment explanation
Indices: 53673044--53673288 Score: 352
Period size: 40 Copynumber: 6.2 Consensus size: 40
53673034 GGACTAAGAT
* *
53673044 CCGAAAGCATTTGTGCTAGTGACTATATCCTGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
53673084 CCGAAGGCATTTGTGCTAGTTACTAT-TTCGGGATAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
53673123 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTGAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
53673163 CCGAAGGCATCTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
53673203 CCGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
53673243 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
53673282 CCGAAGG
1 CCGAAGG
53673289 TACTTGGGTT
Statistics
Matches: 185, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 50 0.27
40 134 0.72
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:53673178 original size:79 final size:79
Alignment explanation
Indices: 53673044--53673288 Score: 346
Period size: 79 Copynumber: 3.1 Consensus size: 79
53673034 GGACTAAGAT
* *
53673044 CCGAAAGCATTTGTGCTAGTGACTATATCCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
* *
53673109 TTTCGGGATAAGTC
66 TTTCAGGCTAAGTC
* * *
53673123 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTGAGTCCCGAAGGCATCTGTGCTAGTGACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
*
53673188 TATCCAGGCTAAGTC
66 T-TTCAGGCTAAGTC
* * * *
53673203 CCGAAGGCATCTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
* * *
53673268 TATCCGGCTAAATC
66 TTTCAGGCTAAGTC
53673282 CCGAAGG
1 CCGAAGG
53673289 TACTTGGGTT
Statistics
Matches: 146, Mismatches: 19, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
79 77 0.53
80 69 0.47
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
TTTCAGGCTAAGTC
Found at i:53673284 original size:119 final size:119
Alignment explanation
Indices: 53673044--53673288 Score: 377
Period size: 119 Copynumber: 2.1 Consensus size: 119
53673034 GGACTAAGAT
* * * *
53673044 CCGAAAGCATTTGTGCTAGTGACTATATCCTGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA
1 CCGAAGGCATCTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
* * * *
53673109 TTTCGGGATAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTGAGTC
66 TTCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
53673163 CCGAAGGCATCTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
1 CCGAAGGCATCTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
*
53673228 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
66 T-TCCGGGATAAGTCCCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAATC
53673282 CCGAAGG
1 CCGAAGG
53673289 TACTTGGGTT
Statistics
Matches: 115, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
119 76 0.66
120 37 0.32
121 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (119 bp):
CCGAAGGCATCTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGCATCTGTGCTAGTTACTA
TTCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
Found at i:53677032 original size:27 final size:28
Alignment explanation
Indices: 53677002--53677070 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53676992 ATAATAAGTC
*
53677002 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
53677029 CGCACACATAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
53677057 CGCA-ACTTAGTGCT
1 CGCACACTTAGTGCT
53677071 GTACAAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 31 0.82
28 7 0.18
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53684951 original size:27 final size:28
Alignment explanation
Indices: 53684921--53684990 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
53684911 ATAATAAGTC
*
53684921 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
53684948 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
53684976 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53684991 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:53691608 original size:40 final size:40
Alignment explanation
Indices: 53691560--53691845 Score: 450
Period size: 40 Copynumber: 7.2 Consensus size: 40
53691550 GGACTAAGAT
53691560 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
53691600 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
53691640 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGATAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
53691680 CCGAAGGCATTTGTGCTAGTGACTATAACCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
53691720 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
53691760 CCGAAGGCATCTGTGCTAGTTACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
53691800 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
53691839 CCGAAGG
1 CCGAAGG
53691846 TACTTGGGTT
Statistics
Matches: 229, Mismatches: 16, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
39 14 0.06
40 214 0.93
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:53704457 original size:27 final size:27
Alignment explanation
Indices: 53704417--53704509 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 27
53704407 AGGAAGCGTC
*
53704417 CTGGTGGCTATGCCACAATTATCTAATT
1 CTGGTGGCTCTGCCACAATTATCT-ATT
*
53704445 -TGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTATT
* *
53704471 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTAT-T
*
53704499 CTGGTGACTCT
1 CTGGTGGCTCT
53704510 ATCACTTTAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
26 5 0.09
27 38 0.67
28 14 0.25
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTATT
Found at i:53704523 original size:54 final size:54
Alignment explanation
Indices: 53704417--53704528 Score: 129
Period size: 54 Copynumber: 2.1 Consensus size: 54
53704407 AGGAAGCGTC
* * *
53704417 CTGGTGGCTATGCCACAATTATCTAATTTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATTTCTGTT
* * * *
53704471 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCAC-T-TTATCTGTT
1 CTGGTGGCTATGCCACAATTATCT-AATCTGGTGACTCTACCACATATT-TCTGTT
53704525 CTGG
1 CTGG
53704529 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
53 2 0.04
54 33 0.67
55 14 0.29
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGACTCTACCACATATTTCTGTT
Found at i:53713305 original size:48 final size:48
Alignment explanation
Indices: 53713236--53713762 Score: 831
Period size: 48 Copynumber: 11.0 Consensus size: 48
53713226 AGATAAATAT
*
53713236 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
53713284 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
53713332 ATATATGTGTGATATGTATATGTGGTAAATCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53713380 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
53713428 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCGAATGTAAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53713476 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
53713524 ATATATATGAGATGTGTATATGTGATAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
53713572 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
53713620 ATATATGTGTGATATGTATATGTGGTAAAACC-AATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
53713667 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * * *
53713715 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATATGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53713763 TGTTGTAACA
Statistics
Matches: 446, Mismatches: 32, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 0.10
48 403 0.90
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:53713857 original size:37 final size:37
Alignment explanation
Indices: 53713807--53713951 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
53713797 GGAAATATAT
*
53713807 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
53713844 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53713881 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* **
53713918 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
53713952 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53715249 original size:40 final size:40
Alignment explanation
Indices: 53715183--53715415 Score: 340
Period size: 40 Copynumber: 5.8 Consensus size: 40
53715173 GAGAATTGAG
* * *
53715183 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
53715223 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
**
53715263 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
*
53715303 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
* **
53715343 AGTGACGTATCCGGACTAAGTCCCGAAGAGCATTTTTTGCT
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA-TTCGTGCT
* * *
53715384 AGTGATGTATCCGGGCTAGGTCCCGAAAAGCA
1 AGTGATGTATCCGGACTAAGTCCCGAAGAGCA
53715416 ATCATGCTGG
Statistics
Matches: 178, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 144 0.81
41 34 0.19
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
Found at i:53715632 original size:25 final size:25
Alignment explanation
Indices: 53715591--53715642 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
53715581 TGTGTAATAA
53715591 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
53715616 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
53715641 TG
1 TG
53715643 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:53718972 original size:48 final size:48
Alignment explanation
Indices: 53718903--53719523 Score: 987
Period size: 48 Copynumber: 13.0 Consensus size: 48
53718893 AGATAAATAT
* *
53718903 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGACTAATGCGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
53718951 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
53718999 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53719047 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
53719095 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53719143 ATATATGTGTGATATG--TATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
53719189 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTAAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53719237 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
53719285 ATATATATGAGATGTGTATATGTGATAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
53719333 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
53719381 ATATATGTGTGATATGTATATGTGGTAAA-CCAAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
53719428 ATATATATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
53719476 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53719524 TGTTGTAACA
Statistics
Matches: 534, Mismatches: 36, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 43 0.08
47 43 0.08
48 448 0.84
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:53719618 original size:37 final size:37
Alignment explanation
Indices: 53719568--53719711 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
53719558 GGAAATATAT
*
53719568 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
53719605 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
53719642 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
53719679 TCCGGGTAAGA-CCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
53719712 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
36 19 0.19
37 83 0.81
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:53720697 original size:22 final size:22
Alignment explanation
Indices: 53720665--53720707 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
53720655 ATCACTCTTC
* *
53720665 CTCTCCTTTTATTTTTCTTTTT
1 CTCTCCATTTATTATTCTTTTT
53720687 CTCTCCATTTATTATTCTTTT
1 CTCTCCATTTATTATTCTTTT
53720708 GTTTTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.67
Consensus pattern (22 bp):
CTCTCCATTTATTATTCTTTTT
Found at i:53730617 original size:27 final size:27
Alignment explanation
Indices: 53730511--53730617 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
53730501 AGGAAGCGTC
*
53730511 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
53730538 CTGGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
53730565 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
53730593 CTGGTGACTGTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
53730618 TCTAGCAGCC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.74
28 16 0.23
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:53730617 original size:54 final size:54
Alignment explanation
Indices: 53730511--53730620 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
53730501 AGGAAGCGTC
* *
53730511 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
53730565 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTGTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
53730619 CT
1 CT
53730621 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 32 0.65
55 17 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:53737741 original size:30 final size:30
Alignment explanation
Indices: 53737701--53737766 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
53737691 GTCTCAGCTG
53737701 TGTGTCACACACGGCCAAGTGACATAGCCA
1 TGTGTCACACACGGCCAAGTGACATAGCCA
* * *
53737731 TGTGTGACACACGGCCAAGTGACATAGTCG
1 TGTGTCACACACGGCCAAGTGACATAGCCA
53737761 TGTGTC
1 TGTGTC
53737767 CCCTGTACCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (30 bp):
TGTGTCACACACGGCCAAGTGACATAGCCA
Found at i:53737821 original size:14 final size:14
Alignment explanation
Indices: 53737802--53737832 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
53737792 TTAGTATGCT
53737802 CACACGGCCTACCA
1 CACACGGCCTACCA
*
53737816 CACACGGCCTAGCA
1 CACACGGCCTACCA
53737830 CAC
1 CAC
53737833 GGGTGTGTGG
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:0.29, C:0.48, G:0.16, T:0.06
Consensus pattern (14 bp):
CACACGGCCTACCA
Found at i:53740502 original size:40 final size:40
Alignment explanation
Indices: 53740457--53740624 Score: 198
Period size: 40 Copynumber: 4.2 Consensus size: 40
53740447 CGGAATACAA
*
53740457 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
53740497 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* **
53740537 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
* * *
53740577 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGC
53740617 CCGGATAT
1 CCGGATAT
53740625 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTATTAGC
Found at i:53740597 original size:80 final size:80
Alignment explanation
Indices: 53740457--53740624 Score: 232
Period size: 80 Copynumber: 2.1 Consensus size: 80
53740447 CGGAATACAA
* * *
53740457 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
*
53740522 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
53740537 CCGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAA
*
53740600 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
53740617 CCGGATAT
1 CCGGATAT
53740625 CATTCAATTG
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 75 0.96
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:53748511 original size:40 final size:40
Alignment explanation
Indices: 53748466--53748633 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
53748456 CGGAATACAA
53748466 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* * * *
53748506 CCGGATATAACGACTCGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* **
53748546 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
* *
53748586 CCGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTCTTAGC
53748626 CCGGATAT
1 CCGGATAT
53748634 CATTCAATTG
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.04
40 108 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGC
Found at i:53748606 original size:80 final size:80
Alignment explanation
Indices: 53748466--53748633 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 80
53748456 CGGAATACAA
* *
53748466 CCGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGCACAAATG
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
53748531 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
** *
53748546 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA-AA-GTCACTAGCACAAT
1 CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACG--ACTAGCACAAA
*
53748609 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAAC
53748626 CCGGATAT
1 CCGGATAT
53748634 CATTCAATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 76 0.96
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (80 bp):
CCGGATATAACAACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:53752191 original size:46 final size:46
Alignment explanation
Indices: 53752141--53752316 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53752131 TGGTTGAGCA
53752141 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53752187 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53752232 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53752280 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53752317 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53752297 original size:93 final size:93
Alignment explanation
Indices: 53752138--53752309 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53752128 GGATGGTTGA
* *
53752138 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53752203 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53752231 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53752296 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53752310 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53759727 original size:46 final size:46
Alignment explanation
Indices: 53759677--53759852 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
53759667 TGGTTGAGCA
53759677 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53759723 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53759768 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53759816 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53759853 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53759833 original size:93 final size:93
Alignment explanation
Indices: 53759674--53759845 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53759664 GGATGGTTGA
* *
53759674 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53759739 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53759767 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53759832 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53759846 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53764274 original size:64 final size:63
Alignment explanation
Indices: 53764097--53764274 Score: 169
Period size: 67 Copynumber: 2.7 Consensus size: 63
53764087 GGGCGTTACA
* **
53764097 TAGGTCACATAGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAGCTGTAGC
1 TAGGTCACATGGGTGATACTATGTGTACACCATGT-GACAAGAGAGCTACGAGATAGAAGTAGC
** * * * * * * * *
53764161 TAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTG
1 TAGGTCACATGGGTGATACTA--TG-TGTACACCATGT-GACAAGAGAGCTACGAGATAGAAGTA
53764225 GC
62 GC
53764227 TAGGTCACATGGGGTGATACTATGTGTACACCATGTGTACAAGAGAGC
1 TAGGTCACAT-GGGTGATACTATGTGTACACCATGTG-ACAAGAGAGC
53764275 CAAAATTATG
Statistics
Matches: 87, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
64 34 0.39
65 2 0.02
66 14 0.16
67 37 0.43
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (63 bp):
TAGGTCACATGGGTGATACTATGTGTACACCATGTGACAAGAGAGCTACGAGATAGAAGTAGC
Found at i:53767750 original size:87 final size:87
Alignment explanation
Indices: 53767604--53767783 Score: 351
Period size: 87 Copynumber: 2.1 Consensus size: 87
53767594 GACCAATAGT
53767604 GTAAATATTTTAAGGGTAGAATGATCTAGAAACTAAGGAAAATGGATAAATTAGGACCAAATTGA
1 GTAAATATTTTAAGGGTAGAATGATCTAGAAACTAAGGAAAATGGATAAATTAGGACCAAATTGA
53767669 ATAAGTGAAGAACTATGAGGGA
66 ATAAGTGAAGAACTATGAGGGA
53767691 GTAAATATTTTAAGGGTAGAATGATCTAGAAACTAAGGAAAATGGATAAATTAGGACCAAATTGA
1 GTAAATATTTTAAGGGTAGAATGATCTAGAAACTAAGGAAAATGGATAAATTAGGACCAAATTGA
53767756 ATAAGTGAAGAACTATGAGGGA
66 ATAAGTGAAGAACTATGAGGGA
*
53767778 CTAAAT
1 GTAAAT
53767784 TGTAATTTTA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.46, C:0.06, G:0.23, T:0.24
Consensus pattern (87 bp):
GTAAATATTTTAAGGGTAGAATGATCTAGAAACTAAGGAAAATGGATAAATTAGGACCAAATTGA
ATAAGTGAAGAACTATGAGGGA
Found at i:53770169 original size:46 final size:46
Alignment explanation
Indices: 53770115--53770381 Score: 338
Period size: 46 Copynumber: 5.8 Consensus size: 46
53770105 CTCTGATAGA
*
53770115 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
53770161 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
*
53770207 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * **
53770253 AAATGTTTAAGACCATGGTTGATAGATACCATGGCAACGTGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAC-ATG
** * * *
53770300 AAATGAATAAGACCTTGGTTGAATGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * * *
53770345 AAAATGAGCAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
53770382 TCATGTCAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 158 0.80
47 38 0.19
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
Found at i:53778734 original size:21 final size:21
Alignment explanation
Indices: 53778703--53778762 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
53778693 CCCTTGAAAC
53778703 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
53778723 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
53778744 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
53778763 ATCACTAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 5 0.13
21 34 0.87
ACGTcount: A:0.22, C:0.30, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:53779976 original size:49 final size:47
Alignment explanation
Indices: 53779872--53780031 Score: 144
Period size: 49 Copynumber: 3.3 Consensus size: 47
53779862 TATGTGCCAA
* * * *
53779872 ACATGGTCTTACACTGGCTCATGTCTCAAGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGACTCATGTCTCAAGCCGACGCCACGTCCCAG
*
53779919 ACATGGTCTTACACTGACT-ATTGTCATCGAGGCCGACGCCACGTCCCAG
1 ACATGGTCTTACACTGACTCA-TGTC-TC-AAGCCGACGCCACGTCCCAG
* * ** * *
53779968 ACATGGTCTTACACTAGCTCTCACATATC-CGTGCCGATGCCATGTCCCAG
1 ACATGGTCTTACACT-G-ACT--CATGTCTCAAGCCGACGCCACGTCCCAG
53780018 ACATGGTCTTACAC
1 ACATGGTCTTACAC
53780032 AACACATCTC
Statistics
Matches: 94, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
46 1 0.01
47 22 0.23
48 2 0.02
49 31 0.33
50 31 0.33
51 3 0.03
53 3 0.03
54 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.26
Consensus pattern (47 bp):
ACATGGTCTTACACTGACTCATGTCTCAAGCCGACGCCACGTCCCAG
Found at i:53780025 original size:50 final size:48
Alignment explanation
Indices: 53779856--53780121 Score: 158
Period size: 47 Copynumber: 5.6 Consensus size: 48
53779846 GGTATGATGT
* * * * * * * * *
53779856 CGATGCTATGTGCCAAACATGGTCTTACACTGGCTCATGTCTC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTAATATCACGAGGC
* *
53779903 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATTGTCATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTAATATCA-CGAGGC
* * * *
53779952 CGACGCCACGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CG-TGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACT-A-ATATCACGAGGC
* * *
53780002 CGATGCCATGTCCCAGACATGGTCTTACAC-AAC-ACATCTCA-TA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTA-ATATCACGAGGC
* * * * ** * *
53780047 CGATG-CATGTCCCTGACAT-GTCTTATACTGGCTTACCTTACGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTAATATCACGAGGC
*
53780093 CGATG-CATGTCCCAGACA-CGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
53780122 AGCTCTTGTT
Statistics
Matches: 174, Mismatches: 32, Indels: 27
0.75 0.14 0.12
Matches are distributed among these distances:
43 8 0.05
44 18 0.10
45 14 0.08
46 27 0.16
47 36 0.21
48 1 0.01
49 31 0.18
50 31 0.18
51 4 0.02
52 1 0.01
53 3 0.02
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTAATATCACGAGGC
Found at i:53783751 original size:40 final size:40
Alignment explanation
Indices: 53783583--53783751 Score: 214
Period size: 40 Copynumber: 4.2 Consensus size: 40
53783573 GTTTGGATAG
* * * *
53783583 AAAATGCCACTATAGATCGAGCATTAGTGGCGC-TATTGA
1 AAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGA
* * *
53783622 AAGACGCTGCTATAGATCGAGAATTAGCGGCGCTTTTTGA
1 AAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGA
** *
53783662 AAAACATCGCTATAGATCGAGCATTAGCGGCGCTTTTTAA
1 AAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGA
* * *
53783702 AAAATGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTGA
1 AAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGA
53783742 AAAACGCCGC
1 AAAACGCCGC
53783752 AAAAAATGTA
Statistics
Matches: 109, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 27 0.25
40 82 0.75
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (40 bp):
AAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGA
Found at i:53783875 original size:73 final size:75
Alignment explanation
Indices: 53783723--53783876 Score: 197
Period size: 73 Copynumber: 2.1 Consensus size: 75
53783713 ATAGGTCGAC
* * * * *
53783723 CATTAGCGGCGCTTTTTGAAAAACGCCGCAAAAAATGTAAGCACAACACCGTCGTTTTATGTTGA
1 CATTAGCGGCACTTTTTAAAAAACGCCGCAAAAAATGTAAGCACAACACCATCATCTTATGTTGA
53783788 GATTTAGTGG
66 GATTTAGTGG
* * *
53783798 CATTAGCGGCACTTTTTAAAAAACGTCG-GAAAAAT-TTAGCA-AGACACCATCATCTTATGTTG
1 CATTAGCGGCACTTTTTAAAAAACGCCGCAAAAAATGTAAGCACA-ACACCATCATCTTATGTTG
*
53783860 AGCTTTAGTGG
65 AGATTTAGTGG
53783871 CATTAG
1 CATTAG
53783877 TGATGCCTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
72 1 0.01
73 37 0.54
74 6 0.09
75 25 0.36
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (75 bp):
CATTAGCGGCACTTTTTAAAAAACGCCGCAAAAAATGTAAGCACAACACCATCATCTTATGTTGA
GATTTAGTGG
Found at i:53784242 original size:7 final size:7
Alignment explanation
Indices: 53784219--53784320 Score: 66
Period size: 7 Copynumber: 14.4 Consensus size: 7
53784209 TTAATTGTCA
*
53784219 TTATAGT
1 TTATGGT
53784226 TTA-GGTT
1 TTATGG-T
53784233 TTATGGT
1 TTATGGT
53784240 TTATGGT
1 TTATGGT
*
53784247 ATATGGT
1 TTATGGT
*
53784254 TTAGGGT
1 TTATGGT
*
53784261 TTAAGGT
1 TTATGGT
*
53784268 TTAAGAGT
1 TTATG-GT
53784276 TACTAT--T
1 T--TATGGT
*
53784283 TTAAGGT
1 TTATGGT
* *
53784290 TTATAGA
1 TTATGGT
*
53784297 TTATGGA
1 TTATGGT
53784304 TTATGGT
1 TTATGGT
53784311 TTATGGT
1 TTATGGT
53784318 TTA
1 TTA
53784321 AATTATTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
5 2 0.03
6 1 0.01
7 66 0.87
8 5 0.07
10 2 0.03
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:53785260 original size:23 final size:22
Alignment explanation
Indices: 53785230--53785289 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 22
53785220 AACACCGAAA
*
53785230 AATTTCATTTCCACCTTCTTTTG
1 AATTTCATTTCC-CCTTCTTCTG
53785253 AATTTCATTTCCCCGTTCTTCTG
1 AATTTCATTTCCCC-TTCTTCTG
53785276 AATTTCATTTCCCC
1 AATTTCATTTCCCC
53785290 CTTTTTCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 2 0.06
23 33 0.94
ACGTcount: A:0.17, C:0.30, G:0.05, T:0.48
Consensus pattern (22 bp):
AATTTCATTTCCCCTTCTTCTG
Found at i:53785367 original size:28 final size:28
Alignment explanation
Indices: 53785336--53785394 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
53785326 AATTTTGTAG
* *
53785336 CCCAACCTTTTTTCCTCTGCT-TTTTTTC
1 CCCAACCTTTTCTCCT-TACTCTTTTTTC
53785364 CCCAACCTTTTCTCCTTACTCTTTTTTC
1 CCCAACCTTTTCTCCTTACTCTTTTTTC
53785392 CCC
1 CCC
53785395 CGAAATCCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.08, C:0.41, G:0.02, T:0.49
Consensus pattern (28 bp):
CCCAACCTTTTCTCCTTACTCTTTTTTC
Found at i:53787319 original size:2 final size:2
Alignment explanation
Indices: 53787312--53787364 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
53787302 ATTTACTATG
53787312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53787354 AT AT AT AT AT A
1 AT AT AT AT AT A
53787365 CGTGTGGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53789445 original size:27 final size:27
Alignment explanation
Indices: 53789403--53789457 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
53789393 TAGGGTAAGT
*
53789403 ATGTGGGCCCTAGTTATATGGAGGCTC
1 ATGTGAGCCCTAGTTATATGGAGGCTC
* *
53789430 ATGTGAGCCCTCGTTATGTGGAGGCTC
1 ATGTGAGCCCTAGTTATATGGAGGCTC
53789457 A
1 A
53789458 ACTGTTGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.29
Consensus pattern (27 bp):
ATGTGAGCCCTAGTTATATGGAGGCTC
Found at i:53797416 original size:20 final size:21
Alignment explanation
Indices: 53797393--53797441 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
53797383 AAATCCAAAT
*
53797393 TAAAATACA-AAAATTCAGGA
1 TAAAATACATAAAATTCAGAA
*
53797413 TAAAAT-CATGAAATTCAGAA
1 TAAAATACATAAAATTCAGAA
53797433 TAAGAATAC
1 TAA-AATAC
53797442 TGATGTGGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 18 0.75
21 3 0.12
22 1 0.04
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
TAAAATACATAAAATTCAGAA
Found at i:53801234 original size:43 final size:43
Alignment explanation
Indices: 53801165--53801315 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
53801155 AATATTTTTT
* * * *
53801165 TAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGTGCCGC
1 TAAAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
53801208 TAAAGGTCATGCTCTTTAGTGACGTTTGT-GGTAAAGCGCCAC
1 TAAAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
* * * *
53801250 TAAAGGTCATGTTCTATAGTGGCGCTTGTGGAAAAAGCACTGC
1 TAAAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
*
53801293 TAAGGGTCATGTTCTATAGTGGC
1 TAAAGGTCATGTTCTATAGTGGC
53801316 TTTTTTTCCA
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 35 0.39
43 55 0.61
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGTGGCGTTTGTGGGAAAAGCGCCGC
Found at i:53803903 original size:93 final size:93
Alignment explanation
Indices: 53803791--53803962 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53803781 GCCCATAAGT
* *
53803791 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53803856 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
53803884 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53803949 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
53803963 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53803958 original size:46 final size:46
Alignment explanation
Indices: 53803783--53803958 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53803773 TGTAACCCGC
* * *
53803783 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
53803829 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
53803879 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
53803922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53803959 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:53806383 original size:30 final size:30
Alignment explanation
Indices: 53806339--53806427 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
53806329 CAAAGATAAC
53806339 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
53806368 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
53806398 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
53806428 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:53806387 original size:15 final size:15
Alignment explanation
Indices: 53806339--53806418 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
53806329 CAAAGATAAC
*
53806339 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
53806353 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
53806368 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
53806383 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
53806398 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
53806413 AAGAAA
1 AAGAAA
53806419 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:53806427 original size:15 final size:15
Alignment explanation
Indices: 53806350--53806427 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
53806340 AGAAAACCGA
53806350 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
53806365 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
53806379 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
53806394 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
53806410 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
53806425 ATA
1 ATA
53806428 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:53809489 original size:93 final size:93
Alignment explanation
Indices: 53809377--53809548 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
53809367 GCCCATAAGT
* *
53809377 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53809442 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
53809470 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
53809535 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
53809549 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:53809544 original size:46 final size:46
Alignment explanation
Indices: 53809369--53809544 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
53809359 TGTAACCCGC
* * *
53809369 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
53809415 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
53809465 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
53809508 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
53809545 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:53813698 original size:49 final size:49
Alignment explanation
Indices: 53813630--53814290 Score: 1135
Period size: 49 Copynumber: 13.5 Consensus size: 49
53813620 TACATAATAG
* *
53813630 TATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53813679 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53813728 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG--TGTATA
53813779 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
53813828 TATATGTGATAAGGCCAAAGGGCCGATGTGAAGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53813877 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53813926 TATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
53813975 TATATGTGATAAGACCTAATGGCCGATATGAAGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53814024 TATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53814073 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53814122 TATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
53814171 TATATGTGATAAGGCCTAATGGGCGATGTGATGAATGTGAAAATGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53814220 TATATGTGATAAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTATT
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
53814268 TATATGTGGTAAAGCCGAATGGC
1 TATATGTGATAAGGCCTAATGGC
53814291 TAATGTGAAA
Statistics
Matches: 582, Mismatches: 27, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
48 43 0.07
49 491 0.84
51 48 0.08
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:53814320 original size:48 final size:48
Alignment explanation
Indices: 53814268--53814443 Score: 352
Period size: 48 Copynumber: 3.7 Consensus size: 48
53814258 AAAGTGTATT
53814268 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
53814316 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
53814364 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
53814412 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAA
53814444 TGTTGTAACA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 128 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:53816647 original size:40 final size:40
Alignment explanation
Indices: 53816418--53816633 Score: 297
Period size: 40 Copynumber: 5.4 Consensus size: 40
53816408 GAATTGAGGG
* * *
53816418 TGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAA
1 TGATATATCCGGGCTAAATTCCAAAGAGCATTCGTGCTAA
* *
53816458 TGATAGATCCGGGCTAAATCCCAAAGAGCATTCGTGCTAA
1 TGATATATCCGGGCTAAATTCCAAAGAGCATTCGTGCTAA
*
53816498 TGATATATCCGGGCTAAATTCCAAAGAGCATTCATGCTAA
1 TGATATATCCGGGCTAAATTCCAAAGAGCATTCGTGCTAA
* *
53816538 TGATATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAATTCCAAAGAGCATTCGTGCTAA
* * * * * *
53816578 TGATGTATTCAGACTAAGTTCCAAAGAGCATTCGTGCTAG
1 TGATATATCCGGGCTAAATTCCAAAGAGCATTCGTGCTAA
*
53816618 TGATGTATCCGGGCTA
1 TGATATATCCGGGCTA
53816634 GGTCCCGAAG
Statistics
Matches: 156, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (40 bp):
TGATATATCCGGGCTAAATTCCAAAGAGCATTCGTGCTAA
Found at i:53820063 original size:49 final size:49
Alignment explanation
Indices: 53819592--53820055 Score: 847
Period size: 49 Copynumber: 9.5 Consensus size: 49
53819582 TACATAATAG
53819592 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53819641 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53819690 TATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53819739 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53819788 TATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
53819837 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53819886 TATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
53819935 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAATGTATA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
53819984 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
53820033 TATATGTGGTAAAGCCGAATGGC
1 TATATGTGATAAGGCCTAATGGC
53820056 TAATGTGAAA
Statistics
Matches: 401, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 401 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
Found at i:53820089 original size:48 final size:48
Alignment explanation
Indices: 53820029--53820160 Score: 264
Period size: 48 Copynumber: 2.8 Consensus size: 48
53820019 TGTGAAAGTG
53820029 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGA
53820077 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGA
53820125 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
53820161 TGTTGTAACA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (48 bp):
TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGA
Found at i:53820133 original size:147 final size:145
Alignment explanation
Indices: 53819592--53820121 Score: 637
Period size: 147 Copynumber: 3.6 Consensus size: 145
53819582 TACATAATAG
* *
53819592 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-ATA-TATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGA--AATAT--ATGTGTGATATTATATGTGATAAGG
**
53819655 CCTAATGGCCGATGTGATGA-ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
62 CCTAATGGCCGATGTGAAAATATGTGAAA-TGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
53819719 GAAGAATGTGAAAGTGTATA
126 GATGAATGTGAAAGTGTATA
* *
53819739 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-ATA-TATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGA--AATAT--ATGTGTGATATTATATGTGATAAGG
*
53819802 CCTAATGGCCGATGTGAAGA-ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
62 CCTAATGGCCGATGTGAAAATATGTGAAA-TGTATATATATGTGATAAGGCCTAATGGCCGATGT
53819866 GATGAATGTGAAAGTGTATA
126 GATGAATGTGAAAGTGTATA
* *
53819886 TATATGTGATAAGGCCTAATGGCCGATGTGAAGA-ATGTGAAAGTG-TATATATATGTGATAAGG
1 TATATGTGATAAGGCCTAATGGCCGATGTGAA-ATATATG--TGTGATAT-TATATGTGATAAGG
* *
53819949 CCTAATGGCCGATGTGATGAATATG-AAAATGTATATATATGTGATAAGGCCTAATGGCCGATGT
62 CCTAATGGCCGATGTGA-AAATATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
53820013 GATGAATGTGAAAGTGTATG
126 GATGAATGTGAAAGTGTATA
* * * ** * * *
53820033 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGATAAGGCCTAATGGCCGATGTGAAATATATGTGTGATAT-TATATGTGATAAGGCCT
**
53820098 AATGGCTAATGTGAAATATATGTG
65 AATGGCCGATGTGAAA-ATATGTG
53820122 TGATATGTAT
Statistics
Matches: 346, Mismatches: 25, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
143 1 0.00
145 10 0.03
146 36 0.10
147 292 0.84
148 4 0.01
149 3 0.01
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (145 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGAAATATATGTGTGATATTATATGTGATAAGGCCTA
ATGGCCGATGTGAAAATATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATA
Found at i:53820255 original size:37 final size:36
Alignment explanation
Indices: 53820200--53820286 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
53820190 AACTTGGAAA
53820200 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
53820238 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
53820275 TATGTCCGGGTA
1 TATGTCCGGGTA
53820287 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:53824647 original size:24 final size:24
Alignment explanation
Indices: 53824620--53824706 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
53824610 AATCTCAAAT
53824620 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
53824644 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
53824668 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
53824692 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
53824707 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:53824672 original size:48 final size:48
Alignment explanation
Indices: 53824620--53824728 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
53824610 AATCTCAAAT
** *
53824620 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
53824668 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
53824716 GCACTATGTGTGC
1 GCACTATGTGTGC
53824729 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Done.