Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 319 of 425
Found at i:99433313 original size:20 final size:20
Alignment explanation
Indices: 99433290--99433347 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
99433280 AAAACATGGT
99433290 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
99433310 ATGTATGATATACACATGAT
1 ATGTATGATATGCACATGAC
99433330 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
99433348 TTGTATTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:99433503 original size:24 final size:24
Alignment explanation
Indices: 99433399--99433589 Score: 289
Period size: 24 Copynumber: 8.0 Consensus size: 24
99433389 GAGGAAGTGA
99433399 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
99433423 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
99433446 AAAAAGGGCTTATGCCCCAATTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
99433471 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
99433494 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
99433518 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
99433542 AAAAAGGCTTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
99433566 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
99433590 ATGATAAAGC
Statistics
Matches: 153, Mismatches: 9, Indels: 9
0.89 0.05 0.05
Matches are distributed among these distances:
23 45 0.29
24 75 0.49
25 33 0.22
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:99433816 original size:30 final size:30
Alignment explanation
Indices: 99433782--99433840 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
99433772 TACAGTAAAG
99433782 GCTTCGGCCCAGTAATATGAAATATGAAAA
1 GCTTCGGCCCAGTAATATGAAATATGAAAA
**
99433812 GCTTCGGCCCAGTGTTATGAAATATGAAA
1 GCTTCGGCCCAGTAATATGAAATATGAAA
99433841 TATGAAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (30 bp):
GCTTCGGCCCAGTAATATGAAATATGAAAA
Found at i:99441391 original size:25 final size:25
Alignment explanation
Indices: 99441362--99441409 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
99441352 TTATAACATG
* * *
99441362 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
99441387 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
99441410 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:99441475 original size:20 final size:20
Alignment explanation
Indices: 99441446--99441510 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
99441436 ATTTTGAAAA
*
99441446 ACATGGCATGTATGATATGC
1 ACATGACATGTATGATATGC
99441466 ACATGACATGTATGATATGC
1 ACATGACATGTATGATATGC
*
99441486 ACATGATATGTATGATATGC
1 ACATGACATGTATGATATGC
99441506 ACATG
1 ACATG
99441511 CTGTATTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (20 bp):
ACATGACATGTATGATATGC
Found at i:99441493 original size:11 final size:11
Alignment explanation
Indices: 99441457--99441510 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
99441447 CATGGCATGT
99441457 ATGATATGCAC
1 ATGATATGCAC
* *
99441468 ATGACATG--T
1 ATGATATGCAC
99441477 ATGATATGCAC
1 ATGATATGCAC
*
99441488 ATGATATG--T
1 ATGATATGCAC
99441497 ATGATATGCAC
1 ATGATATGCAC
99441508 ATG
1 ATG
99441511 CTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:99441621 original size:24 final size:24
Alignment explanation
Indices: 99441562--99441621 Score: 104
Period size: 23 Copynumber: 2.5 Consensus size: 24
99441552 GAGGAAGTGA
99441562 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
99441586 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
99441609 AAAAGGGCCTATG
1 AAAAGGGCTTATG
99441622 TGTAACACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 23 0.68
24 11 0.32
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:99449971 original size:79 final size:80
Alignment explanation
Indices: 99449860--99450045 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 80
99449850 TACTCGTTCA
* *
99449860 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGGA
* *
99449924 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCA-C
* **
99449940 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGA
*
99450003 TATAGTCACTTAGCAC
65 TATAGTAACTTAGCAC
* *
99450019 AAAGCCTTCGGGACTTAGCCCAGATAT
1 AATGCCTTCGGGACTTAGCCCGGATAT
99450046 CATTCGAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 4 0.04
79 59 0.65
80 27 0.30
81 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:99450045 original size:40 final size:40
Alignment explanation
Indices: 99449858--99450045 Score: 215
Period size: 40 Copynumber: 4.7 Consensus size: 40
99449848 GCTACTCGTT
* *
99449858 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * *
99449898 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
99449938 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* *
99449977 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
*
99450018 CAAA-GCCTTCGGGACTTAGCCCAGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
99450046 CATTCGAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 81 0.64
41 12 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:99451833 original size:47 final size:46
Alignment explanation
Indices: 99451751--99451839 Score: 160
Period size: 47 Copynumber: 1.9 Consensus size: 46
99451741 GGCTGTCACA
99451751 TTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGC
1 TTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGC
*
99451797 TTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAAA
1 TTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAAA
99451840 AGAGGCTAGG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
46 16 0.39
47 25 0.61
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (46 bp):
TTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAGGGC
Found at i:99451841 original size:24 final size:23
Alignment explanation
Indices: 99451751--99451839 Score: 160
Period size: 23 Copynumber: 3.8 Consensus size: 23
99451741 GGCTGTCACA
99451751 TTATGCCCCAGTTATTAAAGGGC
1 TTATGCCCCAGTTATTAAAGGGC
99451774 TTATGCCCCAGTTATTAAAGGGC
1 TTATGCCCCAGTTATTAAAGGGC
99451797 TTATGCCCCAGTTATTAAAAGGGC
1 TTATGCCCCAGTTATT-AAAGGGC
*
99451821 TTTTGCCCCAGTTATTAAA
1 TTATGCCCCAGTTATTAAA
99451840 AGAGGCTAGG
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
23 42 0.66
24 22 0.34
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (23 bp):
TTATGCCCCAGTTATTAAAGGGC
Found at i:99452092 original size:31 final size:31
Alignment explanation
Indices: 99452054--99452117 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
99452044 CGTTTACAGT
99452054 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
* **
99452085 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
99452116 AA
1 AA
99452118 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:99455399 original size:42 final size:42
Alignment explanation
Indices: 99455353--99455455 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
99455343 CTGAGACTAT
99455353 GTGTAAGACTATATCTGGGATATGACATCAATATCAGACTTC
1 GTGTAAGACTATATCTGGGATATGACATCAATATCAGACTTC
* * * * *
99455395 GTGTAAGA-TCACATCTGGGATATGGCATCGATATGAGATTTC
1 GTGTAAGACT-ATATCTGGGATATGACATCAATATCAGACTTC
* * * *
99455437 GCGTACGACCATAACTGGG
1 GTGTAAGACTATATCTGGG
99455456 CTATTGGCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
41 1 0.02
42 48 0.98
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
GTGTAAGACTATATCTGGGATATGACATCAATATCAGACTTC
Found at i:99455490 original size:43 final size:42
Alignment explanation
Indices: 99455409--99455507 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 42
99455399 AAGATCACAT
* * *
99455409 CTGGGATATGGCATCGATATGAGATTTCGCGTACGACCATAA
1 CTGGGATATGGCATCGATACGAGATTACACGTACGACCATAA
* * *
99455451 CTGGGCTATTGGCATCGATACGAGATTACATGTTA-GACCATAT
1 CTGGGATA-TGGCATCGATACGAGATTACACG-TACGACCATAA
*
99455494 CTAGGATATGGCAT
1 CTGGGATATGGCAT
99455508 TGGTATGGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
42 13 0.28
43 32 0.68
44 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (42 bp):
CTGGGATATGGCATCGATACGAGATTACACGTACGACCATAA
Found at i:99455705 original size:15 final size:16
Alignment explanation
Indices: 99455679--99455708 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99455669 ATGAACCCTC
99455679 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
99455695 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
99455709 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:99456635 original size:20 final size:20
Alignment explanation
Indices: 99456610--99456659 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
99456600 CAGGTTTGGG
*
99456610 ACACGGGCGTGTCCCTAGGC
1 ACACGGGCGTGTCCCAAGGC
99456630 ACACGGGCGTGTCCCAAGGC
1 ACACGGGCGTGTCCCAAGGC
99456650 ACACGGGCGT
1 ACACGGGCGT
99456660 TTAACTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.34, G:0.36, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAGGC
Found at i:99467068 original size:33 final size:34
Alignment explanation
Indices: 99466990--99467071 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 34
99466980 GTTTCAGTTA
*
99466990 GGGCCTTAGCCCATTTCAGAATTAGAAACAGTGT
1 GGGCCTAAGCCCATTTCAGAATTAGAAACAGTGT
* * *
99467024 GGGCCTGAGCCCATTTCAGTAA-TAGTATCAGTG-
1 GGGCCTAAGCCCATTTCAG-AATTAGAAACAGTGT
99467057 GGGCCTAAGCCCATT
1 GGGCCTAAGCCCATT
99467072 ATAGAATCAG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
33 14 0.33
34 27 0.63
35 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGAATTAGAAACAGTGT
Found at i:99467622 original size:17 final size:17
Alignment explanation
Indices: 99467568--99467616 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
99467558 TTTACCCGTG
99467568 TGGGGCCTACGAGCCCA
1 TGGGGCCTACGAGCCCA
* *
99467585 TTGGGCCTACTAGCCCA
1 TGGGGCCTACGAGCCCA
99467602 TGGGGCCTACGAGCC
1 TGGGGCCTACGAGCC
99467617 TGTGGGACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (17 bp):
TGGGGCCTACGAGCCCA
Found at i:99470785 original size:28 final size:28
Alignment explanation
Indices: 99470735--99470798 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
99470725 TGGGAAGTAG
* ** *
99470735 TTGGGCCTGATGGGTGATATGAATGTGA
1 TTGGGCCTGACGGGCCATATGAATGAGA
*
99470763 TTGGGCCTGACGGGCCATGTGAATGAGA
1 TTGGGCCTGACGGGCCATATGAATGAGA
99470791 TTGGGCCT
1 TTGGGCCT
99470799 AAAGGGGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.19, C:0.14, G:0.39, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGACGGGCCATATGAATGAGA
Found at i:99470815 original size:29 final size:28
Alignment explanation
Indices: 99470753--99470815 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
99470743 GATGGGTGAT
* * *
99470753 ATGAATGTGATTGGGCCTGACGGGCCAT
1 ATGAATGAGATTGGGCCTAACGGGCCAA
* *
99470781 GTGAATGAGATTGGGCCTAAAGGGGCCAA
1 ATGAATGAGATTGGGCCT-AACGGGCCAA
99470810 ATGAAT
1 ATGAAT
99470816 AAGTGTGGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 16 0.57
29 12 0.43
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (28 bp):
ATGAATGAGATTGGGCCTAACGGGCCAA
Found at i:99471144 original size:27 final size:27
Alignment explanation
Indices: 99471114--99471253 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
99471104 TAATAAAGAG
99471114 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
** * *
99471141 AAATTACCGAAATACCCTC-AATTGTG
1 AAATTACTAAAATACCCTCGATTTGTA
* *
99471167 GAATTACTAAAATACCCTCAATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
99471194 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
99471221 AAATTA-TCGAAATGCCCTTGATTTGTA
1 AAATTACT-AAAATACCCTCGATTTGTA
99471248 AAATTA
1 AAATTA
99471254 TCGAAATACC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.22
27 74 0.78
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:99471195 original size:53 final size:54
Alignment explanation
Indices: 99471114--99471265 Score: 200
Period size: 53 Copynumber: 2.8 Consensus size: 54
99471104 TAATAAAGAG
*
99471114 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTC-AATTGTG
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGAATTGTA
* * * *
99471167 GAATTACTAAAATACCCTCAATTTGTAAAATTACCAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGAATTGTA
* * * *
99471221 AAATTA-TCGAAATGCCCTTGATTTGTAAAATTATCGAAATACCCT
1 AAATTACT-AAAATACCCTCGATTTGTAAAATTACCGAAATACCCT
99471266 TGTAGTGCAA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 44 0.52
54 41 0.48
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATACCCTCGAATTGTA
Found at i:99471254 original size:27 final size:27
Alignment explanation
Indices: 99471123--99471321 Score: 154
Period size: 27 Copynumber: 7.4 Consensus size: 27
99471113 GAAATTACTA
* *
99471123 AAATACCCTCGATTTGTAAAATTACCG
1 AAATACCCTTGATTTGTAAAATTATCG
* * ** *
99471150 AAATACCC-TCAATTGTGGAATTA-CTA
1 AAATACCCTTGATTTGTAAAATTATC-G
** * *
99471176 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTTGATTTGTAAAATTATCG
*
99471203 AAATACCCTCGATTTGTAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTATCG
*
99471230 AAATGCCCTTGATTTGTAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTATCG
* * * *
99471257 AAATACCCTTG-TAGTGCAAGATTACCG
1 AAATACCCTTGAT-TTGTAAAATTATCG
* * *
99471284 AAATACCCTTG-TAGTGTAAAATGACCG
1 AAATACCCTTGAT-TTGTAAAATTATCG
*
99471311 ACATACCCTTG
1 AAATACCCTTG
99471322 TAGGATAAAA
Statistics
Matches: 143, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
25 1 0.01
26 19 0.13
27 122 0.85
28 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.30
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTATCG
Found at i:99483091 original size:25 final size:25
Alignment explanation
Indices: 99483063--99483133 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 25
99483053 TATAATTGAG
99483063 TTATGTTGTAAACATATTAGATTCC
1 TTATGTTGTAAACATATTAGATTCC
** * *
99483088 TTAT-TT-T--TTAT-TTATA-TAC
1 TTATGTTGTAAACATATTAGATTCC
99483107 TTATGTTGTAAACATATTAGATTCC
1 TTATGTTGTAAACATATTAGATTCC
99483132 TT
1 TT
99483134 GTTTTTTATT
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
19 6 0.19
20 6 0.19
21 3 0.09
23 3 0.09
24 6 0.19
25 8 0.25
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (25 bp):
TTATGTTGTAAACATATTAGATTCC
Found at i:99483113 original size:44 final size:44
Alignment explanation
Indices: 99483063--99483153 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
99483053 TATAATTGAG
99483063 TTATGTTGTAAACATATTAGATTCCTTATTTTTTATTTATATAC
1 TTATGTTGTAAACATATTAGATTCCTTATTTTTTATTTATATAC
*
99483107 TTATGTTGTAAACATATTAGATTCCTTGTTTTTTATTTATATAC
1 TTATGTTGTAAACATATTAGATTCCTTATTTTTTATTTATATAC
99483151 TTA
1 TTA
99483154 CTTACTAAGC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.55
Consensus pattern (44 bp):
TTATGTTGTAAACATATTAGATTCCTTATTTTTTATTTATATAC
Found at i:99486495 original size:20 final size:21
Alignment explanation
Indices: 99486452--99486497 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
99486442 ACTGTTTTGC
99486452 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
99486472 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
99486491 TATGGGC
1 TATGGGC
99486498 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:99487464 original size:15 final size:15
Alignment explanation
Indices: 99487432--99487460 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
99487422 ATTTTCAGTG
99487432 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
99487447 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
99487461 ATTTTTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:99498771 original size:30 final size:30
Alignment explanation
Indices: 99498737--99498797 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
99498727 TTCCCGAGCC
99498737 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
99498767 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
99498797 T
1 T
99498798 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:99499126 original size:18 final size:19
Alignment explanation
Indices: 99499093--99499128 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99499083 TTAAATTTAG
*
99499093 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
99499112 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
99499129 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:99501340 original size:40 final size:40
Alignment explanation
Indices: 99501213--99501342 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
99501203 ATGCTGGACA
* *
99501213 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * * **
99501253 CTACATTCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
99501293 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
99501333 TTATATCCGG
1 TTATATCCGG
99501343 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 4 0.05
40 70 0.95
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:99513968 original size:40 final size:40
Alignment explanation
Indices: 99513841--99513970 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
99513831 ATGCTGGAAA
* *
99513841 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
99513881 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
99513921 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
99513961 TTATATCCGG
1 TTATATCCGG
99513971 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:99515465 original size:68 final size:68
Alignment explanation
Indices: 99515392--99515543 Score: 170
Period size: 67 Copynumber: 2.2 Consensus size: 68
99515382 AATCATGTGT
* * *
99515392 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATA-TAGTGAAGGACACC
99515454 ATGTAG
63 ATGTAG
** *
99515460 ACAAGAGAGCTAC--GGGATATATGTAGCTAGGTCGCATGCGTGGTTATAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATATA-GTGAAGGACACCAT
99515523 GTAG
65 GTAG
*
99515527 ACAAGAGACCTACAAGA
1 ACAAGAGAGCTACAAGA
99515544 TAAACTGGCT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
64 22 0.31
65 6 0.09
66 4 0.06
67 24 0.34
68 13 0.19
69 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATATAGTGAAGGACACCATG
TAG
Found at i:99515497 original size:64 final size:64
Alignment explanation
Indices: 99515416--99515587 Score: 170
Period size: 67 Copynumber: 2.7 Consensus size: 64
99515406 AGACATTATG
* ** *
99515416 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGACCTACAAGATAA
* * * *
99515480 ATGTAGCTAGGTCGCATGCGTGGTTA-TAGGTGAAGGACACCATGTAGACAAGAGACCTACAAGA
1 ATGTAGCTAGGTCGCATGGGT-GATACTA--TG-TGTACACCATGTAGACAAGAGACCTACAAGA
99515544 TAA
62 TAA
* * * *
99515547 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
99515588 GTACAAAAGA
Statistics
Matches: 87, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
63 9 0.10
64 23 0.26
65 6 0.07
66 18 0.21
67 29 0.33
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGACCTACAAGATAA
Found at i:99527281 original size:27 final size:26
Alignment explanation
Indices: 99527243--99527328 Score: 73
Period size: 28 Copynumber: 3.2 Consensus size: 26
99527233 AGCATCGCTG
* *
99527243 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGATCAGATAATGTGACAGAGCCA
* **
99527269 CCAGATATAGATATATGTGGTAGAGCCA
1 CCAGAT-CAGATA-ATGTGACAGAGCCA
* *
99527297 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGATCAGATAA--TGTGACAGAGCCA
99527325 CCAG
1 CCAG
99527329 GACGCTTCCT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.12
27 10 0.21
28 32 0.67
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
CCAGATCAGATAATGTGACAGAGCCA
Found at i:99537309 original size:55 final size:55
Alignment explanation
Indices: 99537244--99537358 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
99537234 AGCATGGCTG
* *
99537244 CCAGATACAGAAAATA-TGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAG-AAATACTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* *
99537300 CCAGA-ACAGATATACGTGACAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGAAATAC-TGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
99537355 CCAG
1 CCAG
99537359 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 5 0.10
55 28 0.54
56 19 0.37
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (55 bp):
CCAGATACAGAAATACTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:99537311 original size:28 final size:27
Alignment explanation
Indices: 99537269--99537358 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
99537259 ATGACAGAGT
99537269 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
** * *
99537298 CACCAGAACAGATATACGTGACAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
99537325 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
99537353 CACCAG
1 CACCAG
99537359 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:99537330 original size:27 final size:28
Alignment explanation
Indices: 99537260--99537338 Score: 88
Period size: 27 Copynumber: 2.8 Consensus size: 28
99537250 ACAGAAAATA
* **
99537260 TGACAGAGTCACCAGATACAGATATTTTG
1 TGACAGAGCCACCAGA-ACAGATATTACG
* *
99537289 TGGCAGTGCCACCAGAACAGATA-TACG
1 TGACAGAGCCACCAGAACAGATATTACG
*
99537316 TGACAGGGCCACCAGAACAGATA
1 TGACAGAGCCACCAGAACAGATA
99537339 ATTTGTGGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 23 0.53
28 7 0.16
29 13 0.30
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
TGACAGAGCCACCAGAACAGATATTACG
Found at i:99539207 original size:23 final size:23
Alignment explanation
Indices: 99539177--99539361 Score: 289
Period size: 23 Copynumber: 8.0 Consensus size: 23
99539167 GCTTTATCAT
*
99539177 ATAACTGGGGCAAAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
* *
99539200 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCC-TTTA
*
99539224 ATCACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
*
99539247 ATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTA
*
99539270 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCC-TTTA
99539294 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
*
99539317 ATAACTGGGGCATAAGCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTA
99539340 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
99539362 TGCACTTCCT
Statistics
Matches: 149, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
23 106 0.71
24 43 0.29
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:99539234 original size:47 final size:46
Alignment explanation
Indices: 99539177--99539361 Score: 298
Period size: 47 Copynumber: 4.0 Consensus size: 46
99539167 GCTTTATCAT
* *
99539177 ATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCC-TTTG
*
99539224 ATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTG
* *
99539270 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTG
*
99539317 ATAACTGGGGCATAAGCCTTTTAATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTT
99539362 TGCACTTCCT
Statistics
Matches: 129, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
46 47 0.36
47 82 0.64
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (46 bp):
ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTG
Found at i:99539276 original size:70 final size:70
Alignment explanation
Indices: 99539177--99539363 Score: 329
Period size: 70 Copynumber: 2.7 Consensus size: 70
99539167 GCTTTATCAT
* * *
99539177 ATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTTGATCACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
99539242 CTTTA
66 CTTTA
*
99539247 ATAACTGGGGCATAAGCCCTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
1 ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
99539312 CTTTA
66 CTTTA
*
99539317 ATAACTGGGGCATAAGCCTTTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
99539364 CACTTCCTCC
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 111 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCC
CTTTA
Found at i:99539434 original size:9 final size:9
Alignment explanation
Indices: 99539420--99539476 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
99539410 ATCTCATGTG
99539420 CATATCATA
1 CATATCATA
*
99539429 CATATCATGTG
1 CATATCA--TA
99539440 CATATCATA
1 CATATCATA
* *
99539449 CATGTCATGTG
1 CATATCA--TA
99539460 CATATCATA
1 CATATCATA
99539469 CATATCAT
1 CATATCAT
99539477 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:99539436 original size:20 final size:20
Alignment explanation
Indices: 99539408--99539478 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
99539398 GCATTTATGA
*
99539408 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
99539428 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
99539448 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
99539468 ACATATCATGT
1 ACATATCATGT
99539479 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:99539443 original size:11 final size:11
Alignment explanation
Indices: 99539413--99539467 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
99539403 TATGAACATC
99539413 TCATGTGCATA
1 TCATGTGCATA
*
99539424 TCA--TACATA
1 TCATGTGCATA
99539433 TCATGTGCATA
1 TCATGTGCATA
* *
99539444 TCA--TACATG
1 TCATGTGCATA
99539453 TCATGTGCATA
1 TCATGTGCATA
99539464 TCAT
1 TCAT
99539468 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:99542513 original size:12 final size:13
Alignment explanation
Indices: 99542494--99542526 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
99542484 GGGTTCGACT
99542494 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
99542507 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
99542519 ATGGAGAA
1 ATGGAGAA
99542527 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:99548973 original size:17 final size:18
Alignment explanation
Indices: 99548946--99548981 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
99548936 AATCAAATAT
99548946 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
99548964 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
99548981 A
1 A
99548982 AACAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:99556352 original size:17 final size:18
Alignment explanation
Indices: 99556330--99556363 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99556320 CACATTGAAG
99556330 TGTTTT-AGCGAAAACCA
1 TGTTTTCAGCGAAAACCA
*
99556347 TGTTTTCATCGAAAACC
1 TGTTTTCAGCGAAAACC
99556364 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (18 bp):
TGTTTTCAGCGAAAACCA
Found at i:99557464 original size:28 final size:28
Alignment explanation
Indices: 99557422--99557507 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
99557412 TGTCTGTATC
* *
99557422 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* * *
99557450 TGGCCCATTTGGCCCAAACCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* * *
99557479 TGGCCCGTTAGGCTCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
99557507 T
1 T
99557508 TCATGCTCAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:99557743 original size:16 final size:16
Alignment explanation
Indices: 99557722--99557754 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
99557712 CCAAACTTTT
99557722 GGCTTTTCTG-CATTTC
1 GGCTTTTC-GACATTTC
99557738 GGCTTTTCGACATTTC
1 GGCTTTTCGACATTTC
99557754 G
1 G
99557755 ACATTTCGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.45
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:99561403 original size:42 final size:43
Alignment explanation
Indices: 99561311--99561404 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
99561301 ATGCCAACGG
* *
99561311 CCCAGACATAGTCTTACATGTAATCAAATATCGATGTCACTAT
1 CCCAGACATAGTCTTACATGAAATCAAATATCAATGTCACTAT
* *
99561354 CCCAGACA-AGGTCTTACATGAAATTAAATA-CAATGTCGA-TGT
1 CCCAGACATA-GTCTTACATGAAATCAAATATCAATGTC-ACTAT
99561396 CCCAGACAT
1 CCCAGACAT
99561405 GTTCTTATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
42 17 0.39
43 27 0.61
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
CCCAGACATAGTCTTACATGAAATCAAATATCAATGTCACTAT
Found at i:99562088 original size:47 final size:47
Alignment explanation
Indices: 99562034--99562125 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
99562024 ATTCAAAGAT
*
99562034 AAAATATACTAACCTAACACATATCTTTCATTTTCTATCATCTAAAC
1 AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAAAC
99562081 AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAA
1 AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAA
99562126 CTTCATAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (47 bp):
AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAAAC
Found at i:99567610 original size:27 final size:27
Alignment explanation
Indices: 99567573--99567628 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
99567563 AACATTTCAT
99567573 ATACATCATCCACAATCATAATCAAAC
1 ATACATCATCCACAATCATAATCAAAC
99567600 ATACATCATCCACAATCATAATCAAAC
1 ATACATCATCCACAATCATAATCAAAC
99567627 AT
1 AT
99567629 TACCGTAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (27 bp):
ATACATCATCCACAATCATAATCAAAC
Found at i:99568275 original size:22 final size:22
Alignment explanation
Indices: 99568239--99568298 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
99568229 TCAATTTACC
*
99568239 AACC-AAATCATACCAAGTCTA
1 AACCAAAATCACACCAAGTCTA
99568260 AACCAAAATCACACCAAGTCTA
1 AACCAAAATCACACCAAGTCTA
99568282 AACCAAAATCACACCAA
1 AACCAAAATCACACCAA
99568299 AGCATATGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 4 0.11
22 33 0.89
ACGTcount: A:0.52, C:0.32, G:0.03, T:0.13
Consensus pattern (22 bp):
AACCAAAATCACACCAAGTCTA
Found at i:99568845 original size:16 final size:16
Alignment explanation
Indices: 99568824--99568854 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99568814 ATACATATCA
*
99568824 TAACTCATTCTTATAG
1 TAACTCATACTTATAG
99568840 TAACTCATACTTATA
1 TAACTCATACTTATA
99568855 TAATATATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (16 bp):
TAACTCATACTTATAG
Found at i:99569089 original size:43 final size:42
Alignment explanation
Indices: 99569042--99569140 Score: 126
Period size: 42 Copynumber: 2.3 Consensus size: 42
99569032 TCCTAGATGT
*
99569042 GGTCTTACATGTAATAAAATATCGATGCCACTGTCCCAAACAA
1 GGTCTTACATGTAATAAAATA-CGATGCCAATGTCCCAAACAA
*** * * *
99569085 GGTCTTACACAAAATCAAATACGATGCCAATGTCCCATACAT
1 GGTCTTACATGTAATAAAATACGATGCCAATGTCCCAAACAA
99569127 GGTCTTACATGTAA
1 GGTCTTACATGTAA
99569141 ATCATAAGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
42 29 0.63
43 17 0.37
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATAAAATACGATGCCAATGTCCCAAACAA
Found at i:99569144 original size:43 final size:44
Alignment explanation
Indices: 99569023--99569144 Score: 133
Period size: 43 Copynumber: 2.8 Consensus size: 44
99569013 AGCTCGTACA
* * ** *
99569023 ATGCCAATGTCCTAGATGTGGTCTTACATGT-AATAAAATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAAATCAAATATCG
* * **
99569066 ATGCCACTGTCCCAAACAAGGTCTTACA-CAAAATCAAATA-CG
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAAATCAAATATCG
*
99569108 ATGCCAATGTCCCATACATGGTCTTACATGTAAATCA
1 ATGCCAATGTCCCAAACATGGTCTTACATGTAAATCA
99569145 TAAGTAGATG
Statistics
Matches: 63, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 27 0.43
43 36 0.57
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (44 bp):
ATGCCAATGTCCCAAACATGGTCTTACATGTAAATCAAATATCG
Found at i:99575076 original size:14 final size:14
Alignment explanation
Indices: 99575057--99575087 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
99575047 ATAAATGACT
99575057 TAGGTTATATTTTC
1 TAGGTTATATTTTC
99575071 TAGGTTATATTTTC
1 TAGGTTATATTTTC
99575085 TAG
1 TAG
99575088 ACTATGATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (14 bp):
TAGGTTATATTTTC
Found at i:99577100 original size:43 final size:41
Alignment explanation
Indices: 99577001--99577147 Score: 116
Period size: 43 Copynumber: 3.4 Consensus size: 41
99576991 ACCAAGATGA
* * * *
99577001 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT
1 GATTTCATGTAAGACCATGTCTAGGACATTGGCATCGTATC
* *
99577042 GTAATT-ATGTCTAAGACCATGTCTAGGACATTGGTATCGTTAATC
1 G-ATTTCATG--TAAGACCATGTCTAGGACATTGGCATCG-T-ATC
* * * *
99577087 GATTTCATGTAAGACCCTGTCTTGGACAGTGGCATCGATATGT
1 GATTTCATGTAAGACCATGTCTAGGACATTGGCATCG-TAT-C
**
99577130 GATAACATGTAAGACCAT
1 GATTTCATGTAAGACCAT
99577148 ATTTGGGATA
Statistics
Matches: 83, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
41 4 0.05
42 4 0.05
43 65 0.78
44 4 0.05
45 6 0.07
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (41 bp):
GATTTCATGTAAGACCATGTCTAGGACATTGGCATCGTATC
Found at i:99586242 original size:23 final size:23
Alignment explanation
Indices: 99586194--99586242 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
99586184 TCATTTATTC
* *
99586194 TTTTCTCTCCTTTTGCCTTTCCA
1 TTTTCTCTCCTTTTCCCTTTCAA
*
99586217 TTTTCTCTTC-TTTCCCTTGTCAA
1 TTTTCTCTCCTTTTCCCTT-TCAA
99586240 TTT
1 TTT
99586243 CCCCTCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.06, C:0.31, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTCTCTCCTTTTCCCTTTCAA
Found at i:99593364 original size:43 final size:44
Alignment explanation
Indices: 99593315--99593465 Score: 218
Period size: 43 Copynumber: 3.5 Consensus size: 44
99593305 GATTGCCGAG
* *
99593315 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGTATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
99593359 -TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
99593401 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
99593444 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
99593466 ACTTGGGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.01
43 95 0.99
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:99596033 original size:19 final size:20
Alignment explanation
Indices: 99596009--99596053 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
99595999 ATCCAAACAC
*
99596009 CAGAAAAGCAAATTA-TTTT
1 CAGAAAAGCAAATCATTTTT
*
99596028 CAGAAAAGTAAATCATTTTT
1 CAGAAAAGCAAATCATTTTT
99596048 CAGAAA
1 CAGAAA
99596054 TTATTTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (20 bp):
CAGAAAAGCAAATCATTTTT
Found at i:99598330 original size:28 final size:28
Alignment explanation
Indices: 99598299--99598416 Score: 123
Period size: 29 Copynumber: 4.1 Consensus size: 28
99598289 ACATACATGC
99598299 ATATGGCCCA-CTAAGCCCAATCTCATTT
1 ATATGGCCCATC-AAGCCCAATCTCATTT
*
99598327 ATATGGCCCATCCAGCCCAAT-TCACGTTT
1 ATATGGCCCATCAAGCCCAATCTCA--TTT
* * * *
99598356 ATATGACCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAAGCCCAA-TCTCATTT
* *
99598385 ATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATCAAGCCCAATCTCATTT
99598413 ATAT
1 ATAT
99598417 AACCCATCTG
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
27 3 0.04
28 28 0.37
29 41 0.55
30 1 0.01
31 2 0.03
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.29
Consensus pattern (28 bp):
ATATGGCCCATCAAGCCCAATCTCATTT
Found at i:99598365 original size:29 final size:28
Alignment explanation
Indices: 99598313--99598432 Score: 127
Period size: 29 Copynumber: 4.2 Consensus size: 28
99598303 GGCCCACTAA
*
99598313 GCCCAATCTCATTTATATGGCCCATCCA-
1 GCCCAATCTCATTTATATGACCCAT-CAG
99598341 GCCCAAT-TCACGTTTATATGACCCATCAG
1 GCCCAATCTCA--TTTATATGACCCATCAG
* * * *
99598370 GCCCAATTCACATTCATATGGCCCATTAG
1 GCCCAA-TCTCATTTATATGACCCATCAG
* *
99598399 GCCCAATCTCATTTATATAACCCATCTG
1 GCCCAATCTCATTTATATGACCCATCAG
99598427 GCCCAA
1 GCCCAA
99598433 ATCACATTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
27 3 0.04
28 31 0.41
29 39 0.51
30 1 0.01
31 2 0.03
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.28
Consensus pattern (28 bp):
GCCCAATCTCATTTATATGACCCATCAG
Found at i:99598415 original size:57 final size:56
Alignment explanation
Indices: 99598313--99598440 Score: 152
Period size: 57 Copynumber: 2.2 Consensus size: 56
99598303 GGCCCACTAA
* * *
99598313 GCCCAATCTCATTTATATGGCCCATCCAGCCCAATTCACGTTTATATGACCCATCAG
1 GCCCAATCACATTCATATGGCCCATCCAGCCCAATTCAC-TTTATATAACCCATCAG
* *
99598370 GCCCAATTCACATTCATATGGCCCAT-TAGGCCCAATCTCA-TTTATATAACCCATCTG
1 GCCCAA-TCACATTCATATGGCCCATCCA-GCCCAAT-TCACTTTATATAACCCATCAG
99598427 GCCCAAATCACATT
1 GCCC-AATCACATT
99598441 ATGTTCGTGC
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
57 33 0.53
58 26 0.42
59 3 0.05
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (56 bp):
GCCCAATCACATTCATATGGCCCATCCAGCCCAATTCACTTTATATAACCCATCAG
Found at i:99598545 original size:19 final size:19
Alignment explanation
Indices: 99598513--99598558 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
99598503 ATGGGCCCAA
99598513 TAGCCCA-T-CGGCCCATT
1 TAGCCCATTCCGGCCCATT
99598530 TAGCCCATTCCGGCCCATT
1 TAGCCCATTCCGGCCCATT
*
99598549 TAGCCTATTC
1 TAGCCCATTC
99598559 ACAACCCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 7 0.27
18 1 0.04
19 18 0.69
ACGTcount: A:0.17, C:0.39, G:0.15, T:0.28
Consensus pattern (19 bp):
TAGCCCATTCCGGCCCATT
Found at i:99598695 original size:16 final size:16
Alignment explanation
Indices: 99598655--99598697 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
99598645 ATAGCCACAC
99598655 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
*
99598671 TTTTGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
*
99598687 TTTCAGCTTTT
1 TTTCGGCTTTT
99598698 GCTGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:99606620 original size:42 final size:42
Alignment explanation
Indices: 99606508--99606630 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
99606498 AGAAAGCTCG
***
99606508 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAA
* * *
99606550 TATCGATGCC-ACTATCCCAGAAAG-GGTCTTACACAAAATCAAA
1 TA-CAATGCCAAC-GTCCCAG-ACGTGGTCTTACACAAAATCAAA
99606593 TACAATGCCAACGTCCCAGACGTGGTCTTACACGAAAA
1 TACAATGCCAACGTCCCAGACGTGGTCTTACAC-AAAA
99606631 CACATATCGG
Statistics
Matches: 66, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 2 0.03
42 26 0.39
43 36 0.55
44 2 0.03
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAA
Found at i:99608482 original size:67 final size:64
Alignment explanation
Indices: 99608357--99608617 Score: 214
Period size: 67 Copynumber: 4.0 Consensus size: 64
99608347 GATTGGATGA
* ** * * *
99608357 TACAG-ATAGTATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGA
1 TACAGAATA-TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGA
99608419 GC
63 GC
*
99608421 TACAAGAATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGA
1 TAC-AGAA-TAT-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGA
99608486 GC
63 GC
* * * * * * *
99608488 TACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGA
1 TACAGAATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGA
99608553 GC
63 GC
* *
99608555 TACGAGAA-A-AT-TAGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGA
1 TAC-AGAATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGA
99608615 GC
63 GC
99608617 T
1 T
99608618 GAACTATATG
Statistics
Matches: 161, Mismatches: 24, Indels: 26
0.76 0.11 0.12
Matches are distributed among these distances:
61 1 0.01
62 20 0.12
63 1 0.01
64 27 0.17
65 25 0.16
66 10 0.06
67 74 0.46
68 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
TACAGAATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGC
Found at i:99618995 original size:27 final size:28
Alignment explanation
Indices: 99618955--99619022 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
99618945 TTTAAAACCC
*
99618955 TAGGGGT-ATATCGGTAATTTTGCT-TT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99618981 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99619009 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
99619023 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 16 0.41
28 16 0.41
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:99620673 original size:20 final size:20
Alignment explanation
Indices: 99620650--99620687 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99620640 CACATCCAAA
*
99620650 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
99620670 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
99620688 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:99626965 original size:26 final size:26
Alignment explanation
Indices: 99626936--99626997 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
99626926 TTTAAAACCC
99626936 TAGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGTAATATCGGTAA-TTTGCTCTT
*
99626962 TAGGGTAATTTCGGTAATTTGCTCTT
1 TAGGGTAATATCGGTAATTTGCTCTT
99626988 TAGGGGTAAT
1 TA-GGGTAAT
99626998 TTCGTGATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 17 0.52
27 16 0.48
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.44
Consensus pattern (26 bp):
TAGGGTAATATCGGTAATTTGCTCTT
Found at i:99626980 original size:27 final size:26
Alignment explanation
Indices: 99626936--99627001 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
99626926 TTTAAAACCC
*
99626936 TAGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGTAATTTCGGTAA-TTTGCTCTT
99626962 TAGGGTAATTTCGGTAATTTGCTCTT
1 TAGGGTAATTTCGGTAATTTGCTCTT
99626988 TAGGGGTAATTTCG
1 TA-GGGTAATTTCG
99627002 TGATCTACGC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 17 0.46
27 20 0.54
ACGTcount: A:0.20, C:0.11, G:0.26, T:0.44
Consensus pattern (26 bp):
TAGGGTAATTTCGGTAATTTGCTCTT
Found at i:99633730 original size:40 final size:40
Alignment explanation
Indices: 99633671--99633801 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
99633661 CGGGACTTTA
* * *
99633671 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
99633711 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
99633751 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
99633791 CCCGGATATAA
1 CCCGGATATAA
99633802 TTTCAGCATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:99633834 original size:39 final size:40
Alignment explanation
Indices: 99633688--99633838 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
99633678 ATCACGATTT
* * * *
99633688 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
*
99633728 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
99633768 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-A
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
* * *
99633807 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
99633839 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
39 31 0.32
40 64 0.66
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACTA
Found at i:99637911 original size:68 final size:70
Alignment explanation
Indices: 99637839--99638036 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
99637829 ACACCCTGTA
* * *
99637839 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
99637901 ATAAAT
65 ATAAAT
* *
99637907 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
99637972 ATAAAT
65 ATAAAT
*
99637978 GTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCACATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
99638037 AGACAAATCG
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.03
70 1 0.01
71 92 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:99637962 original size:71 final size:71
Alignment explanation
Indices: 99637873--99638036 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
99637863 GAGATGTATC
*
99637873 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
99637938 AGGACA
66 AGGACA
99637944 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
99638009 AGGACA
66 AGGACA
99638015 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
99638037 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGA
AGGACA
Found at i:99640324 original size:43 final size:43
Alignment explanation
Indices: 99640259--99640460 Score: 253
Period size: 43 Copynumber: 4.7 Consensus size: 43
99640249 ATATCATACA
** *
99640259 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
* * *
99640302 ATGCC-ACTATCCTAGACATGGTCTTACATGTAATCACATGTCG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGTAATCACATATCG
* *
99640345 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
* * * *
99640388 ATTCCAACGTCCCAGACGTGGTCTTACACGTAATGACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
* **
99640431 ATGCCAACGTCTGAGACATGGTCTTACACG
1 ATGCCAACATCCCAGACATGGTCTTACACG
99640461 CACACACATG
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 2 0.01
43 136 0.97
44 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:99644129 original size:28 final size:28
Alignment explanation
Indices: 99644083--99644151 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
99644073 TTTAAAACCC
*
99644083 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99644110 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99644138 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
99644152 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:99645803 original size:20 final size:20
Alignment explanation
Indices: 99645780--99645817 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99645770 CACATCCAAA
*
99645780 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
99645800 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
99645818 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:99652138 original size:28 final size:28
Alignment explanation
Indices: 99652092--99652160 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
99652082 TTTAAAACCC
*
99652092 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99652119 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
99652147 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
99652161 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:99653812 original size:20 final size:20
Alignment explanation
Indices: 99653789--99653826 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
99653779 CACATCCAAA
*
99653789 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
99653809 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
99653827 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:99657863 original size:41 final size:41
Alignment explanation
Indices: 99657818--99657935 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
99657808 TGAAAGATAA
99657818 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
99657859 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
99657889 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
99657930 ATGTAG
1 ATGTAG
99657936 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:99657874 original size:71 final size:71
Alignment explanation
Indices: 99657786--99657949 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
99657776 GAGATGTATC
99657786 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
99657851 AGGACA
66 AGGACA
99657857 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
99657922 AGGACA
66 AGGACA
99657928 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
99657950 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:99665729 original size:40 final size:40
Alignment explanation
Indices: 99665621--99665830 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
99665611 CGGGATTTAA
* * * * *
99665621 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
99665661 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99665701 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99665741 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99665781 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99665821 CCGGATATAT
1 CCGGATATAT
99665831 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:99673865 original size:40 final size:40
Alignment explanation
Indices: 99673757--99673966 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
99673747 CGGGATTTAA
* * * * *
99673757 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
99673797 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99673837 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99673877 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99673917 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99673957 CCGGATATAT
1 CCGGATATAT
99673967 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:99676870 original size:71 final size:71
Alignment explanation
Indices: 99676782--99676945 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
99676772 GAGATGTATC
99676782 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
99676847 AGGACA
66 AGGACA
*
99676853 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
99676918 CGGACA
66 AGGACA
99676924 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
99676946 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:99680751 original size:43 final size:43
Alignment explanation
Indices: 99680661--99680757 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
99680651 TGAAATTATG
* * ** *
99680661 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATTGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATAATTGATAACA
99680704 TGTAAGA-CACTGTCTGGGACAGTGGCATCGAT-ATGTGATAACA
1 TGTAAGACCA-TGTCTGGGACAGTGGCATCGATAAT-TGATAACA
99680747 TGTAAGACCAT
1 TGTAAGACCAT
99680758 ATTTGGGATA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
42 4 0.09
43 40 0.87
44 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATAATTGATAACA
Found at i:99680765 original size:43 final size:42
Alignment explanation
Indices: 99680661--99680773 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
99680651 TGAAATTATG
* ** *
99680661 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATTGATTTCG
1 TGTAAGACCATGTCTGGGACA-TGGCATCGATAATTGATAACA
99680704 TGTAAGA-CACTGTCTGGGACAGTGGCATCGAT-ATGTGATAACA
1 TGTAAGACCA-TGTCTGGGACA-TGGCATCGATAAT-TGATAACA
* * *
99680747 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
99680774 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
42 10 0.17
43 47 0.80
44 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATCGATAATTGATAACA
Found at i:99682248 original size:4 final size:4
Alignment explanation
Indices: 99682239--99682287 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
99682229 AGATGTTAAT
99682239 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
99682287 T
1 T
99682288 GAAATGTGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:99688331 original size:11 final size:11
Alignment explanation
Indices: 99688310--99688369 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
99688300 AGCCGGGATC
99688310 ACTAA-CTAAT
1 ACTAATCTAAT
99688320 ACTAATCTAAT
1 ACTAATCTAAT
*
99688331 ACTAATAGAATAGGAT
1 ACTAAT---CTA--AT
99688347 ACTAATCTAAT
1 ACTAATCTAAT
*
99688358 ACTAATATAAT
1 ACTAATCTAAT
99688369 A
1 A
99688370 GAAAAAATAG
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
10 5 0.12
11 24 0.59
13 2 0.05
14 2 0.05
16 8 0.20
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (11 bp):
ACTAATCTAAT
Found at i:99688356 original size:27 final size:27
Alignment explanation
Indices: 99688318--99688370 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
99688308 TCACTAACTA
99688318 ATACTAATCTAATACTAATAGAATAGG
1 ATACTAATCTAATACTAATAGAATAGG
*
99688345 ATACTAATCTAATACTAATATAATAG
1 ATACTAATCTAATACTAATAGAATAG
99688371 AAAAAATAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (27 bp):
ATACTAATCTAATACTAATAGAATAGG
Found at i:99688395 original size:27 final size:26
Alignment explanation
Indices: 99688361--99688413 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
99688351 ATCTAATACT
*
99688361 AATATAATAGAA-AAAATAGAATAGAA
1 AATATAATAGAATAAAA-AGAAAAGAA
*
99688387 AATACTAATATAATAAAAAGAAAAGAA
1 AATA-TAATAGAATAAAAAGAAAAGAA
99688414 CTATCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 4 0.17
27 15 0.65
28 4 0.17
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (26 bp):
AATATAATAGAATAAAAAGAAAAGAA
Found at i:99690484 original size:23 final size:23
Alignment explanation
Indices: 99690442--99690495 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
99690432 AAATTATATC
*
99690442 ATATTATTAAATTTACATTTTAAA
1 ATATTATAAAATTTACA-TTTAAA
99690466 ATATTATAAAATTTA-ATTTAAA
1 ATATTATAAAATTTACATTTAAA
99690488 ATTATTAT
1 A-TATTAT
99690496 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 7 0.25
23 7 0.25
24 14 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTATAAAATTTACATTTAAA
Found at i:99690556 original size:17 final size:17
Alignment explanation
Indices: 99690528--99690571 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
99690518 ATTTTAGGAC
99690528 AATTATACATTTAA-AAA
1 AATTATA-ATTTAATAAA
99690545 TAATTATAATTTAATAAA
1 -AATTATAATTTAATAAA
*
99690563 CATTATAAT
1 AATTATAAT
99690572 AGTTACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTATAATTTAATAAA
Found at i:99691460 original size:10 final size:10
Alignment explanation
Indices: 99691437--99691497 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
99691427 TAAAAGATCA
*
99691437 TTTTTATTATT
1 TTTTTA-TAAT
99691448 TTTTTATAAT
1 TTTTTATAAT
99691458 TTTTTATAAT
1 TTTTTATAAT
* * *
99691468 TTGTAATTAT
1 TTTTTATAAT
* *
99691478 TCTTAATAAT
1 TTTTTATAAT
*
99691488 TTCTTATAAT
1 TTTTTATAAT
99691498 GATTAATAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 34 0.85
11 6 0.15
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:99691521 original size:27 final size:28
Alignment explanation
Indices: 99691484--99691538 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
99691474 TTATTCTTAA
*
99691484 TAATTTCTTATAATGAT-TAATAATTAC
1 TAATTTCTTATAATGATCTAAAAATTAC
* *
99691511 TAATTTTTTATAATTATCTAAAAATTAC
1 TAATTTCTTATAATGATCTAAAAATTAC
99691539 GGTAGAAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (28 bp):
TAATTTCTTATAATGATCTAAAAATTAC
Found at i:99697321 original size:29 final size:29
Alignment explanation
Indices: 99697288--99697448 Score: 259
Period size: 29 Copynumber: 5.6 Consensus size: 29
99697278 GTGACGAGAT
99697288 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
99697317 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
99697346 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
99697375 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
99697404 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
99697433 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
99697449 AGTTCGGAGG
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 123 1.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:99700489 original size:25 final size:25
Alignment explanation
Indices: 99700461--99700575 Score: 104
Period size: 25 Copynumber: 4.6 Consensus size: 25
99700451 ATACACCATG
* *
99700461 AAAGTCTTTTCAGAGAATTTGCCAC
1 AAAGGCTTTACAGAGAATTTGCCAC
* * * * **
99700486 AAAGTCTTTATAAAGAGTTCACCAC
1 AAAGGCTTTACAGAGAATTTGCCAC
* *
99700511 AAAGGCTTCACAGAGCATTTGCCAC
1 AAAGGCTTTACAGAGAATTTGCCAC
* * *
99700536 AAAGGCTTCACAGAGCATTTTCCAC
1 AAAGGCTTTACAGAGAATTTGCCAC
*
99700561 AAAGGCTTTATAGAG
1 AAAGGCTTTACAGAG
99700576 CCTTCATTAC
Statistics
Matches: 73, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (25 bp):
AAAGGCTTTACAGAGAATTTGCCAC
Found at i:99700576 original size:25 final size:25
Alignment explanation
Indices: 99700507--99700568 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
99700497 AAAGAGTTCA
99700507 CCACAAAGGCTTCACAGAGCATTTG
1 CCACAAAGGCTTCACAGAGCATTTG
*
99700532 CCACAAAGGCTTCACAGAGCATTTT
1 CCACAAAGGCTTCACAGAGCATTTG
99700557 CCACAAAGGCTT
1 CCACAAAGGCTT
99700569 TATAGAGCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (25 bp):
CCACAAAGGCTTCACAGAGCATTTG
Found at i:99701513 original size:153 final size:153
Alignment explanation
Indices: 99701232--99701538 Score: 596
Period size: 153 Copynumber: 2.0 Consensus size: 153
99701222 GATAGGTCTA
*
99701232 GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGTCCGTCCTGATCCAACAACAACA
1 GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGCCCGTCCTGATCCAACAACAACA
*
99701297 ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCTATTACAGATAGTTTACTATCGTTCCAA
66 ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCTATTACAGATAGTTTACTATCATTCCAA
99701362 TCATATAGCTCCCCTAAGCAGGG
131 TCATATAGCTCCCCTAAGCAGGG
99701385 GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGCCCGTCCTGATCCAACAACAACA
1 GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGCCCGTCCTGATCCAACAACAACA
99701450 ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCTATTACAGATAGTTTACTATCATTCCAA
66 ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCTATTACAGATAGTTTACTATCATTCCAA
99701515 TCATATAGCTCCCCTAAGCAGGG
131 TCATATAGCTCCCCTAAGCAGGG
99701538 G
1 G
99701539 CTTCCTAATC
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 152 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (153 bp):
GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGCCCGTCCTGATCCAACAACAACA
ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCTATTACAGATAGTTTACTATCATTCCAA
TCATATAGCTCCCCTAAGCAGGG
Found at i:99710043 original size:68 final size:67
Alignment explanation
Indices: 99709971--99710120 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
99709961 CATCATGTGT
* * * *
99709971 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
99710033 ATGTAG
62 ATGTAG
** * *
99710039 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
99710104 AG
66 AG
99710106 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
99710121 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:99710076 original size:64 final size:64
Alignment explanation
Indices: 99709995--99710178 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
99709985 AGACATTATG
* *
99709995 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
99710059 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
99710124 AA
63 AA
* * * *
99710126 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
99710179 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:99714478 original size:68 final size:67
Alignment explanation
Indices: 99714406--99714555 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
99714396 CATCATGTGT
* * * *
99714406 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
99714468 ATGTAG
62 ATGTAG
** * *
99714474 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
99714539 AG
66 AG
99714541 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
99714556 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:99714511 original size:64 final size:64
Alignment explanation
Indices: 99714430--99714613 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
99714420 AGACATTATG
* *
99714430 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
99714494 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
99714559 AA
63 AA
* * * *
99714561 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
99714614 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:99721458 original size:41 final size:41
Alignment explanation
Indices: 99721412--99721542 Score: 129
Period size: 42 Copynumber: 3.1 Consensus size: 41
99721402 GCTTTAAGCT
99721412 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
* * * *** * * * *
99721453 GGTGAAATAATATCAGACTTAAAGGTCTAGCAAGCTTTAA-GCT
1 GGTG-AATATTATCGGGCTCCGA-GCCTAGCAGGC-GTAATGCC
99721496 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
*
99721537 GATGAA
1 GGTGAA
99721543 ATGATATTGA
Statistics
Matches: 65, Mismatches: 21, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
40 3 0.05
41 20 0.31
42 24 0.37
43 15 0.23
44 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCGTAATGCC
Found at i:99721472 original size:84 final size:84
Alignment explanation
Indices: 99721352--99721573 Score: 365
Period size: 84 Copynumber: 2.6 Consensus size: 84
99721342 GGCTTTGAGT
* * *
99721352 CTAGCAGGCGTAATGCCAGTGAAATGATATCGGACTTAAAGGTCTGGCAAGCTTTAAGCTGGTGA
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
99721417 ATATTATCGGGCTCCGAGC
66 ATATTATCGGGCTCCGAGC
*
99721436 CTAGCAGGCGTAATGCCGGTGAAATAATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
99721501 ATATTATCGGGCTCCGAGC
66 ATATTATCGGGCTCCGAGC
* * *
99721520 CTAGCAGGCGTAATGCCGATGAAATGATAT-TGAACTTAAAGGTCTAGCAGGCTT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCAG-ACTTAAAGGTCTAGCAAGCTT
99721574 ATTGCCGGTG
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
83 1 0.01
84 128 0.99
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (84 bp):
CTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
ATATTATCGGGCTCCGAGC
Found at i:99721484 original size:43 final size:43
Alignment explanation
Indices: 99721350--99721584 Score: 158
Period size: 43 Copynumber: 5.6 Consensus size: 43
99721340 CGGGCTTTGA
* *
99721350 GTCTAGCAGGCGTAATGCCAGTGAAATGATATCGGACTTAAAG
1 GTCTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAG
* * * * * * ***
99721393 GTCTGGCAAGCTTTAA-GCTGGTG-AATATTATCGGGCTCCGA-
1 GTCTAGCAGGC-GTAATGCCGGTGAAATAATATCGGACTTAAAG
* *
99721434 GCCTAGCAGGCGTAATGCCGGTGAAATAATATCAGACTTAAAG
1 GTCTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAG
* * * * * ***
99721477 GTCTAGCAAGCTTTAA-GCTGGTG-AATATTATCGGGCTCCGA-
1 GTCTAGCAGGC-GTAATGCCGGTGAAATAATATCGGACTTAAAG
* * * * *
99721518 GCCTAGCAGGCGTAATGCCGATGAAATGATATTGAACTTAAAG
1 GTCTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAG
* *
99721561 GTCTAGCAGGCTTATTGCCGGTGA
1 GTCTAGCAGGCGTAATGCCGGTGA
99721585 TGAAACCAGG
Statistics
Matches: 135, Mismatches: 49, Indels: 16
0.68 0.25 0.08
Matches are distributed among these distances:
40 6 0.04
41 28 0.21
42 46 0.34
43 49 0.36
44 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (43 bp):
GTCTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAG
Found at i:99732170 original size:25 final size:27
Alignment explanation
Indices: 99732141--99732193 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 27
99732131 GGACTCAAAT
99732141 TTTCTC-AGTTTGGAATTT-TTA-GGGC
1 TTTCTCAAGTTT-GAATTTGTTACGGGC
99732166 TTTCTCAAGTTTGAATTTGTTACGGGC
1 TTTCTCAAGTTTGAATTTGTTACGGGC
99732193 T
1 T
99732194 CAGGCTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 12 0.48
26 8 0.32
27 5 0.20
ACGTcount: A:0.17, C:0.13, G:0.23, T:0.47
Consensus pattern (27 bp):
TTTCTCAAGTTTGAATTTGTTACGGGC
Found at i:99733774 original size:9 final size:9
Alignment explanation
Indices: 99733745--99733781 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
99733735 GAGTTTTTTG
99733745 AATTCGAAT
1 AATTCGAAT
*
99733754 AACTCGAAT
1 AATTCGAAT
99733763 AATTCGAAT
1 AATTCGAAT
*
99733772 AATTAGAAT
1 AATTCGAAT
99733781 A
1 A
99733782 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:99739867 original size:18 final size:18
Alignment explanation
Indices: 99739846--99739880 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99739836 AGTAGTACAT
99739846 TATATATTACTTATTATA
1 TATATATTACTTATTATA
*
99739864 TATATATTATTTATTAT
1 TATATATTACTTATTAT
99739881 TTGTAACGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATATTACTTATTATA
Found at i:99740949 original size:63 final size:65
Alignment explanation
Indices: 99740803--99740989 Score: 199
Period size: 63 Copynumber: 3.0 Consensus size: 65
99740793 TAGCAAATAC
* * *
99740803 GAGC-CACACGGG-CAAGAGACACAGGTGTGTGTTCAGGCCGTGTGACTCATTGTTTGTAATTAG
1 GAGCGCACACGGGTC-AGAGACACAGGCGTGTGTCCAGGCCGTGTGACTCATTGTTTGTGATTAG
99740866 A
65 A
* * * *
99740867 GAGCGCACA-GGCT-AAAGACACAGGCGTGTGTCCAGACCGTGTGACTCACTGTTTGTGATTAGA
1 GAGCGCACACGGGTCAGAGACACAGGCGTGTGTCCAGGCCGTGTGACTCATTGTTTGTGATTAGA
* * * * *
99740930 G-G-GTACACGGGTCAGAGACACGGGCGTAT-ACCTAGGCTGTGTGACTCATTGTTTGTGATT
1 GAGCGCACACGGGTCAGAGACACAGGCGTGTGTCC-AGGCCGTGTGACTCATTGTTTGTGATT
99740990 TAGGACCACA
Statistics
Matches: 102, Mismatches: 16, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
61 4 0.04
62 6 0.06
63 82 0.80
64 6 0.06
65 4 0.04
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.25
Consensus pattern (65 bp):
GAGCGCACACGGGTCAGAGACACAGGCGTGTGTCCAGGCCGTGTGACTCATTGTTTGTGATTAGA
Found at i:99742161 original size:30 final size:28
Alignment explanation
Indices: 99742100--99742180 Score: 76
Period size: 30 Copynumber: 2.9 Consensus size: 28
99742090 ATCATATATT
* *
99742100 TTAT-TATAATTTATATTATAATAATAC
1 TTATATATTATTTATATTATAATAATAA
* *
99742127 TTATATATGTATTTATATTTTTAGTAATAA
1 TTATATAT-TATTTATA-TTATAATAATAA
*
99742157 TTATATATTATATTAT-TAATAATA
1 TTATATATTAT-TTATATTATAATA
99742181 TATTAGTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
27 4 0.09
28 8 0.19
29 10 0.23
30 21 0.49
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (28 bp):
TTATATATTATTTATATTATAATAATAA
Found at i:99742181 original size:19 final size:18
Alignment explanation
Indices: 99742153--99742207 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
99742143 ATTTTTAGTA
*
99742153 ATAATTATATATTATATT
1 ATAATAATATATTATATT
*
99742171 ATTAATAATATATTAGTAAT
1 A-TAATAATATATTA-TATT
* *
99742191 ATACTAATTTATTATAT
1 ATAATAATATATTATAT
99742208 CAATTTAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.10
19 23 0.77
20 4 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAATAATATATTATATT
Found at i:99745957 original size:32 final size:32
Alignment explanation
Indices: 99745885--99746007 Score: 116
Period size: 31 Copynumber: 3.9 Consensus size: 32
99745875 AATCATGAAT
* *
99745885 AAATTTTGATTTAATATTTAATT-T-GATATAT-
1 AAATTTTGATTT-A-ATTCAATTATATATATATG
99745916 AAATTTTGATTTAATGT-AATTATATATATATG
1 AAATTTTGATTTAAT-TCAATTATATATATATG
* *
99745948 AAATTTTGATTTTATTCAA--ATATATACATG
1 AAATTTTGATTTAATTCAATTATATATATATG
99745978 AAACTTTT-ATTTTAATTCAATTATATATAT
1 AAA-TTTTGA-TTTAATTCAATTATATATAT
99746008 TTAAAGATGT
Statistics
Matches: 78, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
29 6 0.08
30 17 0.22
31 32 0.41
32 16 0.21
33 7 0.09
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (32 bp):
AAATTTTGATTTAATTCAATTATATATATATG
Found at i:99746003 original size:31 final size:30
Alignment explanation
Indices: 99745937--99746004 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
99745927 TAATGTAATT
*
99745937 ATATATATATGAAATTTTGATTTTATTCAA
1 ATATATACATGAAATTTTGATTTTATTCAA
99745967 ATATATACATGAAACTTTT-ATTTTAATTCAA
1 ATATATACATGAAA-TTTTGATTTT-ATTCAA
*
99745998 TTATATA
1 ATATATA
99746005 TATTTAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATATACATGAAATTTTGATTTTATTCAA
Found at i:99751138 original size:21 final size:21
Alignment explanation
Indices: 99751112--99751152 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
99751102 TTATTGTTGT
*
99751112 TGCACTCGCATTTGTAATTGC
1 TGCACTCGAATTTGTAATTGC
99751133 TGCACTCGAATTTGTAATTG
1 TGCACTCGAATTTGTAATTG
99751153 TTCCCATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (21 bp):
TGCACTCGAATTTGTAATTGC
Found at i:99752581 original size:21 final size:20
Alignment explanation
Indices: 99752543--99752581 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
99752533 TAAAATTAGT
*
99752543 TATTATAGCATGAGATTAAA
1 TATTATAGAATGAGATTAAA
*
99752563 TATTATAGTAATGATATTA
1 TATTATAG-AATGAGATTA
99752582 CAATCAGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
TATTATAGAATGAGATTAAA
Found at i:99752814 original size:19 final size:19
Alignment explanation
Indices: 99752773--99752815 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
99752763 ATGATATTTT
* *
99752773 TTATTATTGATGTAATTAT
1 TTATTATTGATGTAAATAA
* *
99752792 TTATTATTTATTTAAATAA
1 TTATTATTGATGTAAATAA
99752811 TTATT
1 TTATT
99752816 TTCTTTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTATTGATGTAAATAA
Found at i:99762171 original size:40 final size:40
Alignment explanation
Indices: 99762126--99762292 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
99762116 CGGAATATAA
99762126 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
99762166 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
99762206 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
99762246 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
99762285 CCGGATAT
1 CCGGATAT
99762293 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:99762276 original size:80 final size:79
Alignment explanation
Indices: 99762142--99762290 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
99762132 ATAACCACGT
*
99762142 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
99762207 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
99762222 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
99762285 CCGGAT
64 CCGGAT
99762291 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:99769665 original size:40 final size:40
Alignment explanation
Indices: 99769620--99769786 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
99769610 CGGAATATAA
99769620 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
99769660 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
99769700 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
99769740 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
99769779 CCGGATAT
1 CCGGATAT
99769787 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.