Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 250 of 345
Found at i:84977371 original size:18 final size:16
Alignment explanation
Indices: 84977283--84977370 Score: 67
Period size: 14 Copynumber: 5.6 Consensus size: 16
84977273 TATGTCTTTT
84977283 AAAATAAAAT--AATA
1 AAAATAAAATAAAATA
* * *
84977297 AAATTGAAATGGAAATA
1 AAAATAAAAT-AAAATA
*
84977314 AAAATCAAAAGAAATATA
1 AAAAT-AAAATAAA-ATA
84977332 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
*
84977348 AAAA-AATA-AAAATA
1 AAAATAAAATAAAATA
*
84977362 AGAATAAAA
1 AAAATAAAA
84977371 AAACAGGAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
14 17 0.29
15 6 0.10
16 7 0.12
17 17 0.29
18 11 0.19
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAATA
Found at i:84985539 original size:29 final size:29
Alignment explanation
Indices: 84985468--84985621 Score: 202
Period size: 29 Copynumber: 5.3 Consensus size: 29
84985458 AAGTCTACAT
* * * *
84985468 ACATGCATATGACCCACTAAGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
84985496 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** *
84985525 ACATTCGCATAGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
84985554 ACATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
**
84985583 ACATTCATATGGCCTTTTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
84985612 ACATTCATAT
1 ACATTCATAT
84985622 ACATGCTTTC
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 19 0.17
29 92 0.83
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:84990477 original size:44 final size:42
Alignment explanation
Indices: 84990409--84990577 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 42
84990399 TTCCGATATG
**
84990409 TGATTTCGTGTAAGACCACATCTGGGACGTTGGCATC-TATT
1 TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
* *
84990450 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
* *
84990495 TGATTTCGT-TAAGACCCTGTTTGGGACAG-TGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCATCG-TATT
* * * *
84990537 TGATTACATGTAAGACC-TCGTCTGGGATGTTGGCATTGTAT
1 TGATTTCGTGTAAGACCAT-GTCTGGGACGTTGGCATCGTAT
84990578 GAGTTTACAA
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
41 25 0.24
42 18 0.17
43 31 0.29
44 28 0.26
45 4 0.04
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGTATT
Found at i:84993515 original size:39 final size:39
Alignment explanation
Indices: 84993454--84993613 Score: 221
Period size: 39 Copynumber: 4.1 Consensus size: 39
84993444 ATTCAAGACA
* *
84993454 CTGGAAATGTATCCGGGCTAAAGCCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * * *
84993493 GTGGAAATGTATCTGGGATAAAGTCTCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
84993532 CTGGAAATGTATTCGGGCTAAAGTCCCGCAGGCTCCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
84993571 TTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
84993610 CTGG
1 CTGG
84993614 TAATATAATT
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:84995888 original size:28 final size:28
Alignment explanation
Indices: 84995856--84995956 Score: 114
Period size: 28 Copynumber: 3.6 Consensus size: 28
84995846 GTGAACATAG
84995856 GCACTGTGTGTGCGAGTTTC-GTAACTGA
1 GCACTGTGTGTGCGAG-TTCGGTAACTGA
* * ***
84995884 GCACTGTGTGTCCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCGGTAACTGA
* *
84995912 GGCACTGTGTGTGCGAGTTCTGTAACCGA
1 -GCACTGTGTGTGCGAGTTCGGTAACTGA
84995941 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
84995957 ATCAGTTTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 2 0.03
28 36 0.61
29 21 0.36
ACGTcount: A:0.16, C:0.19, G:0.36, T:0.30
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCGGTAACTGA
Found at i:84995943 original size:57 final size:58
Alignment explanation
Indices: 84995854--84995984 Score: 185
Period size: 57 Copynumber: 2.2 Consensus size: 58
84995844 AAGTGAACAT
*
84995854 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTCCGAGATC-GGTTGTTG
1 AGGCACTGTGTGTGCGAGTTTCGTAACCGAGCACTGTGTGTCCGAGATCAGGTTGTTG
* *
84995911 AGGCACTGTGTGTGCGAG-TTCTGTAACCGAGCACTGTGTGTGCGAGATCAGTTTGTTG
1 AGGCACTGTGTGTGCGAGTTTC-GTAACCGAGCACTGTGTGTCCGAGATCAGGTTGTTG
*
84995969 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
84995985 AAATGAGATC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
56 3 0.05
57 43 0.65
58 13 0.20
60 7 0.11
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.31
Consensus pattern (58 bp):
AGGCACTGTGTGTGCGAGTTTCGTAACCGAGCACTGTGTGTCCGAGATCAGGTTGTTG
Found at i:84996756 original size:14 final size:14
Alignment explanation
Indices: 84996737--84996773 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
84996727 TGTGTTCATT
84996737 ATATGTGAATTAGC
1 ATATGTGAATTAGC
84996751 ATATGTGAATTAGC
1 ATATGTGAATTAGC
84996765 ATATGTGAA
1 ATATGTGAA
84996774 GATTTTGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (14 bp):
ATATGTGAATTAGC
Found at i:85009834 original size:39 final size:39
Alignment explanation
Indices: 85009789--85009909 Score: 215
Period size: 39 Copynumber: 3.1 Consensus size: 39
85009779 ATTCAAGACA
*
85009789 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
85009828 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
85009867 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
85009906 CTGG
1 CTGG
85009910 TAATATAATT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:85018623 original size:49 final size:48
Alignment explanation
Indices: 85018546--85018732 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 48
85018536 TAGCCGAAGC
*
85018546 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* * * *
85018594 TAATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGATCACAGG
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CA-A
* ** *
85018646 TTTC-GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
* *
85018693 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
85018733 CGTTACCTCA
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
48 6 0.05
49 71 0.61
50 34 0.29
51 4 0.03
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
Found at i:85018664 original size:99 final size:99
Alignment explanation
Indices: 85018551--85018735 Score: 325
Period size: 99 Copynumber: 1.9 Consensus size: 99
85018541 GAAGCTATCT
* *
85018551 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
85018616 TGTACTTAGTACTACACACGTGATCACAGGTTTC
66 TGCACTTAGTACTACACACGTGATCACAGGTTTC
* *
85018650 GGTACGTATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
85018715 TGCACTTAGTACTACACACGT
66 TGCACTTAGTACTACACACGT
85018736 TACCTCACAA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 81 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGGTTTC
Found at i:85039529 original size:40 final size:40
Alignment explanation
Indices: 85039474--85039692 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
85039464 TTCGAATGAT
* *
85039474 ATCCGGCTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
85039514 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
85039554 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
85039593 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* * * *
85039634 AT-CGGGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAA
* *
85039673 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
85039693 TATGTGATTC
Statistics
Matches: 159, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 52 0.33
40 104 0.65
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:85039618 original size:79 final size:80
Alignment explanation
Indices: 85039485--85039692 Score: 307
Period size: 79 Copynumber: 2.6 Consensus size: 80
85039475 TCCGGCTTAG
85039485 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
1 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
*
85039550 CTA-ATTCCGGGCTAA
66 CTATAAT-CGGGCTAA
*
85039565 G-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
1 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
*
85039629 CTATAATCGGGCTAT
66 CTATAATCGGGCTAA
* * * *
85039644 GTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 GTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGG
85039693 TATGTGATTC
Statistics
Matches: 117, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
79 89 0.76
80 28 0.24
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
CTATAATCGGGCTAA
Found at i:85047727 original size:39 final size:40
Alignment explanation
Indices: 85047618--85047836 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
85047608 TTCAAATGAT
*
85047618 ATCCGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
85047658 ATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
85047698 TTCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
85047737 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
** * * *
85047778 A-CCGGGCGATGTCCCGAAGGCATTTGAGCGAG-TAGCTAT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAA
* *
85047817 ATCC-GGTTAAATTCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
85047837 TATGTGATTC
Statistics
Matches: 154, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 49 0.32
40 103 0.67
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:85047825 original size:79 final size:80
Alignment explanation
Indices: 85047629--85047836 Score: 280
Period size: 79 Copynumber: 2.6 Consensus size: 80
85047619 TCCGGGTTAG
85047629 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
1 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
* * *
85047694 CTAATTCTGGGCTAA
66 CTAATACCGGGCGAA
* *
85047709 G-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
1 GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
*
85047773 CT-ATAACCGGGCGAT
66 CTAAT-ACCGGGCGAA
* * * *
85047788 GTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 GTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCAGGTTAAGTCCCGAAGG
85047837 TATGTGATTC
Statistics
Matches: 114, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
78 2 0.02
79 86 0.75
80 26 0.23
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
GTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
CTAATACCGGGCGAA
Found at i:85051919 original size:21 final size:20
Alignment explanation
Indices: 85051891--85051930 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
85051881 CTAACCAACT
85051891 AATAAATAATAATGATAATG
1 AATAAATAATAATGATAATG
*
85051911 AATAGAATAATAATGCTAAT
1 AATA-AATAATAATGATAAT
85051931 ATTAATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (20 bp):
AATAAATAATAATGATAATG
Found at i:85054034 original size:10 final size:10
Alignment explanation
Indices: 85054019--85054046 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
85054009 CCTTTAAAAA
85054019 TTTGGCATAC
1 TTTGGCATAC
85054029 TTTGGCATAC
1 TTTGGCATAC
85054039 TTTGGCAT
1 TTTGGCAT
85054047 CTACGAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (10 bp):
TTTGGCATAC
Found at i:85056544 original size:20 final size:20
Alignment explanation
Indices: 85056510--85056559 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
85056500 AGGAACTAAA
* * *
85056510 ATGAAAAGTTGTAAAGTTTG
1 ATGAAAAATTCTAAAATTTG
*
85056530 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
85056550 ATGAATAAAT
1 ATGAA-AAAT
85056560 CTGCTGGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:85059245 original size:28 final size:28
Alignment explanation
Indices: 85059205--85059312 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
85059195 GCAGTTGAAT
*
85059205 ACTCAATATCTCGCACACTAAGTGCCAA
1 ACTCGATATCTCGCACACTAAGTGCCAA
*
85059233 ACTCGATATCTCGCACACTAAGTGCCAC
1 ACTCGATATCTCGCACACTAAGTGCCAA
* *
85059261 ACTCGATATTTCGCACACTAAGTGCCAT
1 ACTCGATATCTCGCACACTAAGTGCCAA
*
85059289 ACTTGATATCAT-GCACACTAAGTG
1 ACTCGATATC-TCGCACACTAAGTG
85059313 TCGTACATAG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
28 72 0.99
29 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (28 bp):
ACTCGATATCTCGCACACTAAGTGCCAA
Found at i:85059345 original size:40 final size:40
Alignment explanation
Indices: 85059300--85059395 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
85059290 CTTGATATCA
* *
85059300 TGCACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAAT
1 TGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAT
* * *
85059340 TGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAAT
1 TGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAT
85059380 TGCACACTAAGTGCCA
1 TGCACACTAAGTGCCA
85059396 CAAATAACCG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (40 bp):
TGCACACTAAGTGCCATACATAGCCGAAGCTATCTCAAAT
Found at i:85059418 original size:40 final size:40
Alignment explanation
Indices: 85059300--85059406 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 40
85059290 CTTGATATCA
* ** * * * *
85059300 TGCACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAAT
1 TGCACACTAAGTGCCACAAATAACCGAAGCTATGTCGAAT
* * *
85059340 TGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAAT
1 TGCACACTAAGTGCCACAAATAACCGAAGCTATGTCGAAT
85059380 TGCACACTAAGTGCCACAAATAACCGA
1 TGCACACTAAGTGCCACAAATAACCGA
85059407 TTTGTCGTCG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (40 bp):
TGCACACTAAGTGCCACAAATAACCGAAGCTATGTCGAAT
Found at i:85067141 original size:43 final size:43
Alignment explanation
Indices: 85067087--85067255 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 43
85067077 TAGGTTATCG
*
85067087 ATATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-T
1 ATATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCT
* *
85067129 ATATTGAGATTACGTGTAAGACCATGTCGGGGACATTGGCATCGT
1 ATA-TGAGATTACATGTAAGACCATGTCTGGGACATTGGCATC-T
*** * ** * * *
85067174 -TAACCGATTTCATGTAAGACTTTGTTTGGGACAGTGGCATCG
1 ATATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCT
* * * *
85067216 ATATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATATGAGATTACATGTAAGACCATGTCTGGGACATTGGCAT
85067256 TGTACAAGCT
Statistics
Matches: 99, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 9 0.09
43 87 0.88
44 2 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
ATATGAGATTACATGTAAGACCATGTCTGGGACATTGGCATCT
Found at i:85068515 original size:20 final size:22
Alignment explanation
Indices: 85068490--85068530 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
85068480 AGGCCCAAAA
*
85068490 GCCCATT-TGGCCCAA-TTACT
1 GCCCATTGAGGCCCAACTTACT
85068510 GCCCATTGAGGCCCAACTTAC
1 GCCCATTGAGGCCCAACTTAC
85068531 CATCATGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (22 bp):
GCCCATTGAGGCCCAACTTACT
Found at i:85068981 original size:27 final size:27
Alignment explanation
Indices: 85068951--85069003 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
85068941 GGGTGTTTTG
85068951 GTAAATCTAAAAACCAAGGGTATTTCA
1 GTAAATCTAAAAACCAAGGGTATTTCA
* * * *
85068978 GTAATTTTATAAACCAATGGTATTTC
1 GTAAATCTAAAAACCAAGGGTATTTC
85069004 CATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (27 bp):
GTAAATCTAAAAACCAAGGGTATTTCA
Found at i:85069009 original size:27 final size:27
Alignment explanation
Indices: 85068961--85069202 Score: 96
Period size: 27 Copynumber: 8.9 Consensus size: 27
85068951 GTAAATCTAA
85068961 AAACCAAGGGTATTTCAGTAATTTTAT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
85068988 AAACCAATGGTATTTCCA-TAATTTTTAG
1 AAACCAAGGGTATTT-CAGTAA-TTTTAT
* * * *
85069016 AAAGTCAAGGGTATTTCTGTATTTTTGT
1 AAA-CCAAGGGTATTTCAGTAATTTTAT
* * ** * *
85069044 AAATCAGGGGTATTTTGGCAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * *
85069071 AAATTGAGGGTATTTC-GATAATTTCAA
1 AAACCAAGGGTATTTCAG-TAATTTTAT
* ** * *
85069098 AAACTAATAGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* * ** * *
85069125 AAACTAGGGGTATTTTGGTAATTGTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
* ** *
85069152 AAA-CTAGGGATATTTTGGTAATTCTAT
1 AAACCAAGGG-TATTTCAGTAATTTTAT
* *
85069179 CATA-CAGGGGTATTTCAGTAATTT
1 -AAACCAAGGGTATTTCAGTAATTT
85069203 CTCAATCGAG
Statistics
Matches: 163, Mismatches: 44, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
26 4 0.02
27 122 0.75
28 25 0.15
29 12 0.07
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:85069246 original size:27 final size:27
Alignment explanation
Indices: 85069206--85069300 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
85069196 GTAATTTCTC
**
85069206 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
85069233 AATTGAGCGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
85069260 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
85069287 AATCGAGGGTAAAA
1 AATCGAGGGTAAAA
85069301 TGGCAATTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:85069308 original size:27 final size:27
Alignment explanation
Indices: 85069206--85069322 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
85069196 GTAATTTCTC
** *
85069206 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
85069233 AATTGAGCGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
85069260 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * * *
85069287 AATCGAGGGTAAAATGGCAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
85069314 AATCGAGGG
1 AATCGAGGG
85069323 CATTACAGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:85071562 original size:31 final size:31
Alignment explanation
Indices: 85071519--85071633 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
85071509 TTAGTCTAGA
* * *
85071519 CATAT-ACAGGGCCGAATCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
85071549 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
85071580 CATATCACTAGGCGGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
85071611 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
85071634 ATTGTAAACG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:85071708 original size:42 final size:42
Alignment explanation
Indices: 85071655--85071790 Score: 236
Period size: 42 Copynumber: 3.2 Consensus size: 42
85071645 TATGGCCCTT
85071655 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
1 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
** *
85071697 AAGCCTGTTTCAATGTCACATGTAATGTCAATGGATGTATGC
1 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
*
85071739 AAGCCCATTTCAATATCACATGTAATGTCAATGAATGTATGC
1 AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
85071781 AAGCCCATTT
1 AAGCCCATTT
85071791 GGGGAGACTA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (42 bp):
AAGCCCATTTCAATATCACATGTAATGTCAATGGATGTATGC
Found at i:85071951 original size:24 final size:25
Alignment explanation
Indices: 85071924--85071978 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
85071914 TTGGAGGCCT
85071924 AGCCTCTTT-TAAT-AACCGGGGCAA
1 AGCC-CTTTCTAATAAACCGGGGCAA
* *
85071948 AGCCCTTTCTGATAAACTGGGGCAA
1 AGCCCTTTCTAATAAACCGGGGCAA
85071973 AGCCCT
1 AGCCCT
85071979 AATCGGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 4 0.15
24 7 0.26
25 16 0.59
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (25 bp):
AGCCCTTTCTAATAAACCGGGGCAA
Found at i:85071973 original size:25 final size:24
Alignment explanation
Indices: 85071941--85072005 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
85071931 TTTAATAACC
85071941 GGGGCAAAGCCCTTTCTGATAAACT
1 GGGGCAAAGCCCTTTC-GATAAACT
* *
85071966 GGGGCAAAGCCCTAATCGGTAAACT
1 GGGGCAAAGCCCT-TTCGATAAACT
* *
85071991 GGGCCAGAGCCCTTT
1 GGGGCAAAGCCCTTT
85072006 TAGCACTTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.03
25 31 0.91
26 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (24 bp):
GGGGCAAAGCCCTTTCGATAAACT
Found at i:85072964 original size:27 final size:27
Alignment explanation
Indices: 85072934--85073041 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
85072924 GTAAATCTAC
85072934 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
85072961 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
85072987 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
85073017 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
85073042 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 41 0.60
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:85073039 original size:56 final size:54
Alignment explanation
Indices: 85072931--85073067 Score: 150
Period size: 56 Copynumber: 2.5 Consensus size: 54
85072921 TTGGTAAATC
* *
85072931 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAA-TTT
* * * * *
85072986 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTT-TGGTAATTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCT-ATAATTT
** *
85073041 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
85073068 CACAAACCAG
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
54 18 0.26
55 14 0.20
56 37 0.54
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATTTCTATAATTT
Found at i:85073047 original size:27 final size:27
Alignment explanation
Indices: 85072983--85073147 Score: 140
Period size: 27 Copynumber: 6.1 Consensus size: 27
85072973 TTTCTATAAT
* *
85072983 TTTTAGAAAGTCAAGGGTATTTCT-GTAA
1 TTTTACAAA-TCAGGGGTATTT-TGGTAA
**
85073011 TTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
85073038 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * * * * *
85073065 TTTCACAAACCAGTGGTATATCGATAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
*
85073092 TTTTACTAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
85073119 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
85073146 TT
1 TT
85073148 CTATCCTATA
Statistics
Matches: 113, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.03
27 102 0.90
28 8 0.07
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:85073083 original size:54 final size:53
Alignment explanation
Indices: 85072914--85073147 Score: 173
Period size: 54 Copynumber: 4.3 Consensus size: 53
85072904 CATCCTACAA
* * * * * ** *
85072914 GGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CTAGGGTATTTCGGTAATTTTACAAACCAG
* * * * * ** *
85072968 TGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAA-TTTTACAAA--CTAGGGTATTTCGGTAATTTTACAAACCAG
* *
85073024 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACT-AGGGTATTTCGGTAATTTTACAAACCAG
* * * * * * *
85073078 TGGTATATCGATAATTTTACTAACTAGGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTA-GGGTATTTCGGTAATTTTACAAACCAG
85073132 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
85073148 CTATCCTATA
Statistics
Matches: 141, Mismatches: 33, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
53 1 0.01
54 87 0.62
55 16 0.11
56 37 0.26
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGTATTTCGGTAATTTTACAAACCAG
Found at i:85073160 original size:54 final size:53
Alignment explanation
Indices: 85072997--85073175 Score: 125
Period size: 54 Copynumber: 3.3 Consensus size: 53
85072987 AGAAAGTCAA
** ** *
85072997 GGGTATTTCT-GTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTT-TACAAATTG
1 GGGTATTT-TGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTAT-CCTATAG
* * * * * * * *
85073050 AGGGTATTTCGGTAATTTCACAAACCAGTGGTATATCGATAATTT-TACTAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTATCCT-A-TAG
85073105 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTATAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT-TATCCTATAG
*
85073159 GGGT-TTTTCAGTAATTT
1 GGGTATTTT-GGTAATTT
85073176 CATAATCGAG
Statistics
Matches: 96, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
53 4 0.04
54 85 0.89
55 4 0.04
56 3 0.03
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.42
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTATCCTATAG
Found at i:85073308 original size:27 final size:27
Alignment explanation
Indices: 85073179--85073322 Score: 148
Period size: 27 Copynumber: 5.3 Consensus size: 27
85073169 GTAATTTCAT
* * *
85073179 AATCGAGGGTAAAACAGTAATTTTTTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
85073206 AA-CTGAGGGTAAAATGGTAATTTTGA-A
1 AATC-GAGGGTAAAACGGTAATTCT-ATA
*
85073233 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
85073260 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * * *
85073287 TATCGAGGGTAAAATGGCAATTCTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
85073314 AATTGAGGG
1 AATCGAGGG
85073323 CATTTCAGTA
Statistics
Matches: 100, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
26 2 0.02
27 97 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:85073334 original size:81 final size:80
Alignment explanation
Indices: 85073164--85073336 Score: 179
Period size: 81 Copynumber: 2.1 Consensus size: 80
85073154 TATAGGGGTT
* * * *
85073164 TTTCAGTAATTTCATAATCGAGGGTAAAACAGTAATTTTTTAAACTGAGGGTAAAATGGTAATTT
1 TTTCAGTAATTTCATAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTAAAATGGCAATTC
*
85073229 TGAAAATCGAGGGTA
66 TGAAAATCGAGGGCA
*** * * * * *
85073244 AAACGGTAATTTTATAAATCGAGGGTGAAACGGTAATTCTATATA-TCGAGGGTAAAATGGCAAT
1 TTTCAGTAATTTCAT-AATCGAGGGTAAAACAGTAATTCTATAAACT-GAGGGTAAAATGGCAAT
*
85073308 TCT-ACAAATTGAGGGCA
64 TCTGA-AAATCGAGGGCA
85073325 TTTCAGTAATTT
1 TTTCAGTAATTT
85073337 GGTAAACTAG
Statistics
Matches: 72, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
80 12 0.17
81 60 0.83
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.32
Consensus pattern (80 bp):
TTTCAGTAATTTCATAATCGAGGGTAAAACAGTAATTCTATAAACTGAGGGTAAAATGGCAATTC
TGAAAATCGAGGGCA
Found at i:85076669 original size:79 final size:80
Alignment explanation
Indices: 85076519--85076856 Score: 488
Period size: 79 Copynumber: 4.3 Consensus size: 80
85076509 GAATCACATA
* * * * * *
85076519 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAT
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-T
85076581 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
* *
85076598 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGGCCGGAATTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
85076662 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * *
85076677 CCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGAATTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
85076741 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* * *
85076756 CCTTCGGGACTTAACCCGGATTTAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
85076821 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
85076836 CCTTCGGGACCTAACCCGGAT
1 CCTTCGGGACTTAACCCGGAT
85076857 ATCATTCGAA
Statistics
Matches: 237, Mismatches: 18, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
79 160 0.68
80 77 0.32
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TAACTCGCACAAATG
Found at i:85076775 original size:119 final size:118
Alignment explanation
Indices: 85076545--85076852 Score: 447
Period size: 119 Copynumber: 2.6 Consensus size: 118
85076535 GGATATAGCT
* * * *
85076545 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGATT-TAGTAACTCGCACAAATGCCTTCGGGACTT
* * * **
85076610 AACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGGCCGGAATTAGTA
65 AACCCAGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAATTAGTA
*
85076664 ACTCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTT
1 ACTCGCACAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCACAAATGCCTTCGGGACTT
* *
85076728 AGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
65 AACCCAGAATTAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGGAATTAGTA
* *
85076783 ACTCACACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACCT
1 ACTCGCACAAATGCCTTCGGGACTTAACCC-GATTTAGTAACTCGCACAAATGCCTTCGGGACTT
85076848 AACCC
65 AACCC
85076853 GGATATCATT
Statistics
Matches: 169, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
118 35 0.21
119 125 0.74
120 9 0.05
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAATGCCTTCGGGACTTA
ACCCAGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGAATTAGTA
Found at i:85076855 original size:40 final size:40
Alignment explanation
Indices: 85076519--85076856 Score: 470
Period size: 40 Copynumber: 8.5 Consensus size: 40
85076509 GAATCACATA
* * * *
85076519 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATG
* *
85076558 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATG
*
85076598 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
** *
85076638 CCTTCGGG-CTTAGGCCGGAATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
* *
85076677 CCTTCGGGACTTAACCCAGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
* * *
85076717 CCTTCGGG-CTTAGCCCAGAATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
*
85076756 CCTTCGGGACTTAACCCGGATTTAGTAACTCACACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
85076796 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
*
85076836 CCTTCGGGACCTAACCCGGAT
1 CCTTCGGGACTTAACCCGGAT
85076857 ATCATTCGAA
Statistics
Matches: 266, Mismatches: 27, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
39 83 0.31
40 181 0.68
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:85087083 original size:30 final size:30
Alignment explanation
Indices: 85087047--85087106 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
85087037 GAATTAGCTG
*
85087047 AGCAATCCTAACCAGGCGACGGCTAATGGA
1 AGCAATCCTAACCAGGCGACAGCTAATGGA
85087077 AGCAATCCTAACCAGGCGACAGCTAATGGA
1 AGCAATCCTAACCAGGCGACAGCTAATGGA
85087107 CGCATAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.25, T:0.13
Consensus pattern (30 bp):
AGCAATCCTAACCAGGCGACAGCTAATGGA
Found at i:85097403 original size:79 final size:80
Alignment explanation
Indices: 85097301--85097485 Score: 275
Period size: 79 Copynumber: 2.3 Consensus size: 80
85097291 GCTACTTGCT
* *
85097301 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
85097365 GATTTTGTAACTCGCA
65 GATTTAGTAACTCGCA
* * *
85097381 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
85097445 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* *
85097460 CAAATGCCTTCGGGACCTAACCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
85097486 TATCATTCGA
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 71 0.76
80 23 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:85097486 original size:40 final size:40
Alignment explanation
Indices: 85097301--85097486 Score: 268
Period size: 40 Copynumber: 4.7 Consensus size: 40
85097291 GCTACTTGCT
* * *
85097301 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
85097341 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
85097381 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
85097420 CAAATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
85097460 CAAATGCCTTCGGGACCTAACCCGGAT
1 CAAATGCCTTCGGGACTTAACCCGGAT
85097487 ATCATTCGAA
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.27
40 93 0.72
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:85100503 original size:13 final size:13
Alignment explanation
Indices: 85100463--85100511 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
85100453 GCCATACATG
*
85100463 ATTAAATTAAATA
1 ATTAAATTTAATA
* *
85100476 ATAAAATATAA-A
1 ATTAAATTTAATA
85100488 ATTAAATTTAATA
1 ATTAAATTTAATA
*
85100501 ATTAATTTTAA
1 ATTAAATTTAA
85100512 AATATTTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTAAATTTAATA
Found at i:85103462 original size:48 final size:47
Alignment explanation
Indices: 85103410--85103565 Score: 181
Period size: 46 Copynumber: 3.3 Consensus size: 47
85103400 CCACATTATG
*
85103410 AGAGCCAGTGTAAGACCATGTCTGAGACATGGCATCGGCATAGAAAT-T
1 AGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATAGAAATGT
* * * *
85103458 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAAATGT
* * *
85103505 A-AGCCAGTGTAAGACATGTCTGGGACATGCATCGACACAGATATGTT
1 AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAAATG-T
* *
85103552 AAAGTCAGTGTAAG
1 AGAGCCAGTGTAAG
85103566 GTCATATTTG
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
46 51 0.55
47 17 0.18
48 25 0.27
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.22
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATAGAAATGT
Found at i:85117611 original size:33 final size:33
Alignment explanation
Indices: 85117569--85117634 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
85117559 CGGCTATTCA
85117569 ACTACTTTTGACTTTCCACGATCTAATTCTGTT
1 ACTACTTTTGACTTTCCACGATCTAATTCTGTT
85117602 ACTACTTTTGACTTTCCACGATCTAATTCTGTT
1 ACTACTTTTGACTTTCCACGATCTAATTCTGTT
85117635 TTCTTTGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.45
Consensus pattern (33 bp):
ACTACTTTTGACTTTCCACGATCTAATTCTGTT
Found at i:85124909 original size:20 final size:19
Alignment explanation
Indices: 85124886--85124930 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
85124876 AAGGACTAAA
*
85124886 ATGAAAATTTGTAAAATTTG
1 ATGAAAATTT-TAAAATTTC
*
85124906 ATGAAAAATTTTGAAATTTC
1 ATG-AAAATTTTAAAATTTC
85124926 ATGAA
1 ATGAA
85124931 TACATGTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 13 0.59
21 7 0.32
ACGTcount: A:0.47, C:0.02, G:0.13, T:0.38
Consensus pattern (19 bp):
ATGAAAATTTTAAAATTTC
Found at i:85127033 original size:25 final size:23
Alignment explanation
Indices: 85126981--85127035 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
85126971 TATAAATAGT
85126981 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
85127004 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
85127029 AATAGTG
1 AATAGTG
85127036 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:85127234 original size:25 final size:26
Alignment explanation
Indices: 85127176--85127238 Score: 85
Period size: 25 Copynumber: 2.5 Consensus size: 26
85127166 TGTAGAAAAA
* *
85127176 AATATATATATAAATAATATAGTATT
1 AATATATATATACATAAAATAGTATT
*
85127202 AA-AGATATATACATAAAATAGTA-T
1 AATATATATATACATAAAATAGTATT
85127226 AATATATATATAC
1 AATATATATATAC
85127239 GTAATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 3 0.09
25 27 0.84
26 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (26 bp):
AATATATATATACATAAAATAGTATT
Found at i:85127281 original size:22 final size:22
Alignment explanation
Indices: 85127253--85127309 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
85127243 TATATAATTT
* *
85127253 AGAATATACCTAATATATTAAA
1 AGAATATACATAATATAATAAA
*
85127275 AGAATATATATAATATAATAAA
1 AGAATATACATAATATAATAAA
85127297 A-AATATA-ATAATA
1 AGAATATACATAATA
85127310 ACAAAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 6 0.19
21 6 0.19
22 20 0.62
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (22 bp):
AGAATATACATAATATAATAAA
Found at i:85127302 original size:17 final size:18
Alignment explanation
Indices: 85127282--85127317 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85127272 AAAAGAATAT
*
85127282 ATATAAT-ATAATAAAAA
1 ATATAATAATAACAAAAA
85127299 ATATAATAATAACAAAAA
1 ATATAATAATAACAAAAA
85127317 A
1 A
85127318 AAGAGGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
ATATAATAATAACAAAAA
Found at i:85127626 original size:16 final size:16
Alignment explanation
Indices: 85127588--85127626 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
85127578 CTCCAAAAAA
*
85127588 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
85127604 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
85127620 AATAACT
1 AAAAACT
85127627 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:85127821 original size:30 final size:30
Alignment explanation
Indices: 85127784--85127882 Score: 180
Period size: 30 Copynumber: 3.3 Consensus size: 30
85127774 TAGGTACAAG
*
85127784 TGGTGGTGGAGCAAGTGTGGCTAATGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
85127814 AGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
85127844 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
85127874 TGGTGGTGG
1 TGGTGGTGG
85127883 CAAAGGCTGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.17, C:0.06, G:0.51, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:85127842 original size:18 final size:18
Alignment explanation
Indices: 85127819--85127872 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
85127809 GGAGTAGGTG
85127819 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
85127837 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGCTA
85127849 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
85127867 GTGGAG
1 GTGGAG
85127873 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.07, G:0.50, T:0.24
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:85128896 original size:91 final size:91
Alignment explanation
Indices: 85128563--85129109 Score: 448
Period size: 91 Copynumber: 6.0 Consensus size: 91
85128553 ACTAAACATT
* * * * * *
85128563 AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCGATATGA
1 AAAAAAAGAAATTGAAAATACCTCAG--CGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGA
85128627 GTTGA--TTTTT-AAAACA-AAATTTG--
64 GTTGATTTTTTTGAAAACAGAAA-TTGAA
* ** * ** *
85128650 -TAAAAAGATTTTGAAAATACCTCGGTATGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAG
* * *
85128714 TTGA--TTTTTGCAAAGCATAAATTAAAAA
65 TTGATTTTTTTG-AAAACAGAAATT--GAA
* * * *
85128742 AAAATAAAAATCAATTGAACATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAAA-AAAGA--AATTGAAAATACCTCAGCGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATAT
* *
85128807 AAGTTGATTTTTTTGACAAACATAAATTGAA
62 GAGTTGATTTTTTTGA-AAACAGAAATTGAA
* *
85128838 AAAAAAAGAAATTGAAAATATCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGT
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
85128902 TGATTTTTTGGAAAAACA-AAATTTG--
66 TGATTTTTTTG-AAAACAGAAA-TTGAA
* * ** * *
85128927 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAG
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAG
*
85128992 CTGATTTTTTTGAAACACAGAAATTG--
65 TTGATTTTTTTGAAA-ACAGAAATTGAA
* * * * * * *
85129018 AAGAACAGAAATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGC
1 AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
85129080 TGATTTTTTTTGAAAGACAGAAATTGAA
66 TGA-TTTTTTTGAAA-ACAGAAATTGAA
85129108 AA
1 AA
85129110 TACCTCAACG
Statistics
Matches: 380, Mismatches: 55, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
84 3 0.01
85 2 0.01
86 53 0.14
87 30 0.08
88 29 0.08
89 33 0.09
90 9 0.02
91 113 0.30
92 4 0.01
93 21 0.06
94 4 0.01
95 4 0.01
96 58 0.15
97 1 0.00
98 16 0.04
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (91 bp):
AAAAAAAGAAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAACAGAAATTGAA
Found at i:85128944 original size:13 final size:14
Alignment explanation
Indices: 85128912--85128944 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
85128902 TGATTTTTTG
85128912 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
85128926 GAAAAACAGAATTT
1 GAAAAACAAAATTT
85128940 GAAAA
1 GAAAA
85128945 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:85128959 original size:182 final size:167
Alignment explanation
Indices: 85128754--85129690 Score: 609
Period size: 148 Copynumber: 5.9 Consensus size: 167
85128744 AATAAAAATC
* * *
85128754 AATTGAACATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * *
85128819 TTGACAAACATAAATTGAAAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTGAACTC
66 TTGACAAACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTC
*
85128884 ACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTGAAAAACAGA
129 ACCTCTCGCAATATGAGCTGA-TTTTT------------TTTGAAAAACAGA
* * * *
85128936 ATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AATTGAAAATACCTCAGCGTGTGA-TCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * *
85129000 TTTGA-AACACAGAAATTG--AAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTC
65 TTTGACAA-ACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTC
*
85129062 ACCTCTCGCAATATGAGCTGATTTTTTTTGAAAGACAGA
129 ACCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGA
* *
85129101 AATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
85129162 TTGACAAACAAAAATT----------GAAAT------TACCTCAGCGTCTTGAGGTTCAACTCAC
66 TTGACAAACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCAC
* *
85129211 CTATCGCAATATGAGTTGA-TTTTTTTGAAAAACAGA
131 CTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGA
* * * *
85129247 AATTGAAAATACCTCAACGTGT-CT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
85129310 TT-A-AAGACAGAAATTG--------A-AAAT-------ACCTCAACGTGTCTTGAGGCTCAACT
66 TTGACAA-ACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTC-A-GCGTCCTGAGGCTCAACT
* * *
85129357 CACCTCTCGCAATATGAGTTGA---TTTTTGACAAACAAA
128 CACCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGA
* * *
85129394 AATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
85129457 TTGAAAAACAGAAATTG--------A-AAAT-------ACCTCAACGTGTCTTGAGGCTCAACTC
66 TTGACAAACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTC-A-GCGTCCTGAGGCTCAACTC
* * * * *
85129506 ACCTCTTGCAATATGAGTTGA---GTTTTGACAAACAAA
129 ACCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGA
* * *
85129542 AATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * ** * * *
85129605 TT-AGAAACATAAATT-AAAAAATGA-AAATTGAAAATACCTTAGCATGTCCTGAGGCTCAACTC
66 TTGACAAACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTC
*
85129667 ACCTCTCGCAATATGAGTTGATTT
129 ACCTCTCGCAATATGAGCTGATTT
85129691 GAAAAGCAGA
Statistics
Matches: 668, Mismatches: 53, Indels: 86
0.83 0.07 0.11
Matches are distributed among these distances:
146 74 0.11
147 140 0.21
148 150 0.22
149 39 0.06
153 5 0.01
154 5 0.01
159 1 0.00
160 1 0.00
161 55 0.08
162 2 0.00
163 31 0.05
165 32 0.05
177 5 0.01
178 34 0.05
180 22 0.03
181 2 0.00
182 68 0.10
183 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (167 bp):
AATTGAAAATACCTCAGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGACAAACAAAAATTGAAAAAAAAAGAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGA
Found at i:85129236 original size:73 final size:75
Alignment explanation
Indices: 85129021--85129624 Score: 786
Period size: 73 Copynumber: 8.2 Consensus size: 75
85129011 GAAATTGAAG
* * * *
85129021 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
85129084 TTTTTTTGA-A
65 TTTTTTTGACA
*
85129094 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
85129159 --TTTTTGACA
65 TTTTTTTGACA
* * * *
85129168 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
85129231 TTTTTTGAAA
66 TTTTTTGACA
* * *
85129241 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
85129306 TTTTTT-A-A
66 TTTTTTGACA
*
85129314 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
85129379 --TTTTTGACA
65 TTTTTTTGACA
* * * * * *
85129388 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
85129453 TTTTTTGAAA
66 TTTTTTGACA
* *
85129463 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
85129527 -GTTTTGACA
66 TTTTTTGACA
* * * * * *
85129536 AACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
85129601 TTTTTT-AGA
66 TTTTTTGACA
* *
85129610 AACATAAATTAAAAA
1 AACAGAAATTGAAAA
85129625 ATGAAAATTG
Statistics
Matches: 473, Mismatches: 43, Indels: 29
0.87 0.08 0.05
Matches are distributed among these distances:
71 37 0.08
72 6 0.01
73 179 0.38
74 99 0.21
75 115 0.24
76 37 0.08
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (75 bp):
AACAGAAATTGAAAATACCTCAACGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGACA
Found at i:85129444 original size:222 final size:220
Alignment explanation
Indices: 85129015--85129604 Score: 963
Period size: 222 Copynumber: 2.7 Consensus size: 220
85129005 AACACAGAAA
* * * *
85129015 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
85129078 GCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
66 GCTGA-TTTTTTT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
85129143 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCTTGAGGTTCAACT
129 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACT
85129208 CACCTATCGCAATATGAGTTGATTTTT
194 CACCTATCGCAATATGAGTTGATTTTT
85129235 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
85129300 GCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
66 GCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
85129365 GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACT
131 GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC--GTCCTGAGGCTCAACT
85129430 CACCTATCGCAATATGAGTTGATTTTT
194 CACCTATCGCAATATGAGTTGATTTTT
* *
85129457 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * * *
85129522 GTTGA-GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCT
66 GCTGATTTTTTTA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
85129585 CGCAATATGAGTTGATTTTT
130 CGCAATATGAGTTGATTTTT
85129605 TTAGAAACAT
Statistics
Matches: 349, Mismatches: 16, Indels: 9
0.93 0.04 0.02
Matches are distributed among these distances:
220 124 0.36
221 76 0.22
222 149 0.43
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (220 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GCTGATTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCA
CCTATCGCAATATGAGTTGATTTTT
Found at i:85129626 original size:148 final size:147
Alignment explanation
Indices: 85129021--85129624 Score: 819
Period size: 147 Copynumber: 4.1 Consensus size: 147
85129011 GAAATTGAAG
* * * * *
85129021 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
85129084 TTTTTTTGA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
65 -TTTTTTGACAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
85129148 ATATGAGTTGA-TTTTTGACA
128 ATATGAGTTGATTTTTTTA-A
* * * * *
85129168 AACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* * * *
85129231 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAAT
65 TTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
*
85129296 ATGAGCTGATTTTTTTAA
130 ATGAGTTGATTTTTTTAA
85129314 AGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 A-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * *
85129379 -TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAAT
65 TTTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
85129443 ATGAGTTGATTTTTTTGAAA
130 ATGAGTTGATTTTTTT--AA
*
85129463 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * *
85129527 GTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATA
66 TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
85129592 TGAGTTGATTTTTTTAGA
131 TGAGTTGATTTTTTTA-A
* *
85129610 AACATAAATTAAAAA
1 AACAGAAATTGAAAA
85129625 ATGAAAATTG
Statistics
Matches: 421, Mismatches: 28, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
146 73 0.17
147 168 0.40
148 140 0.33
149 40 0.10
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (147 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGACAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTAA
Found at i:85129786 original size:99 final size:98
Alignment explanation
Indices: 85129629--85129975 Score: 402
Period size: 99 Copynumber: 3.6 Consensus size: 98
85129619 TAAAAAATGA
* * *
85129629 AAATTGAAAATACCTTAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
* *
85129694 AAGCAGAATTTGTAAGGCAAAAATTGAAAAACAG
66 AA-CAGAATTTGAAAAGCAAAAATTGAAAAACAG
85129728 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
* *
85129793 AAAAACAGAAATT-AAAAGCAGAAATTG-AAAA-A-
64 -AAAACAGAATTTGAAAAGCAAAAATTGAAAAACAG
* * *
85129825 AAATTAAAAATACCTCGGCGTGCCC-GAGGCTCAGCTCACCTCTCGCAATATGAGTTGA-TT---
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
*
85129885 -------TTTGAAAAGCATAAATTGAAAAAACAG
66 AACAGAATTTGAAAAGCAAAAATTG-AAAAACAG
* *
85129912 AAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
85129976 TTTTGAAAGA
Statistics
Matches: 219, Mismatches: 17, Indels: 32
0.82 0.06 0.12
Matches are distributed among these distances:
82 2 0.01
83 13 0.06
85 4 0.02
86 1 0.00
87 17 0.08
89 5 0.02
90 31 0.14
91 2 0.01
93 2 0.01
96 32 0.15
97 23 0.11
98 1 0.00
99 60 0.27
100 11 0.05
101 11 0.05
102 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (98 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTGAA
AACAGAATTTGAAAAGCAAAAATTGAAAAACAG
Found at i:85129814 original size:13 final size:14
Alignment explanation
Indices: 85129790--85129824 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
85129780 GAGTTGATTT
85129790 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
85129804 TT-AAAAGCAGAAA
1 TTGAAAAACAGAAA
85129817 TTGAAAAA
1 TTGAAAAA
85129825 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.63, C:0.06, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:85129906 original size:83 final size:89
Alignment explanation
Indices: 85129806--85129977 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 89
85129796 AACAGAAATT
* *
85129806 AAAAGCAGAAATTG-AAAA-A-AAATTAAAAATACCTC-G-GCGTG-CCCGAGGCTCAGCTCACC
1 AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCACC
85129865 TCTCGCAATATGAGTTGATTTTTG
66 TCTCGCAATATGAGTTGATTTTTG
* * * *
85129889 AAAAGCATAAATTGAAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCAC
1 AAAAGCAGAAATTG-AAAAACAGAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCAC
85129954 CTCTCGCAATATGAGTTGATTTTT
65 CTCTCGCAATATGAGTTGATTTTT
85129978 TTGAAAGATA
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
83 13 0.17
85 4 0.05
86 1 0.01
87 15 0.20
88 1 0.01
89 4 0.05
90 38 0.50
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (89 bp):
AAAAGCAGAAATTGAAAAACAGAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCACC
TCTCGCAATATGAGTTGATTTTTG
Found at i:85186850 original size:27 final size:27
Alignment explanation
Indices: 85186820--85186997 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
85186810 ATATTGAGTC
* * *
85186820 CGCACACTCAATGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
85186847 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
85186873 CGCACACTTAGTGCTACATAATCAATCT
1 CGCACACTTAGTGCTACATAATCAA-CT
* ** *
85186901 CGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
85186928 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
85186955 CGCACACTTAGTGCCATCATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACT
*
85186983 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
85186998 GTACAATTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
26 26 0.20
27 58 0.45
28 46 0.35
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:85186980 original size:55 final size:54
Alignment explanation
Indices: 85186820--85186997 Score: 209
Period size: 54 Copynumber: 3.3 Consensus size: 54
85186810 ATATTGAGTC
* * * * * *
85186820 CGCACACTCAATGCTATATAATCAA-CTCGCACACTTAGTGCTACGTAATCAAT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATAGTCAAT
*
85186873 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATAGTCAA-T
* *
85186928 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCCATCATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAATCTCGCACACTTAGTGCCA-CATAGTC-AAT
*
85186983 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
85186998 GTACAATTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
53 22 0.20
54 43 0.40
55 41 0.38
56 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAATCTCGCACACTTAGTGCCACATAGTCAAT
Found at i:85190546 original size:46 final size:47
Alignment explanation
Indices: 85190445--85190561 Score: 146
Period size: 46 Copynumber: 2.5 Consensus size: 47
85190435 CTTCGACATA
** * *
85190445 GACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAATATG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCCA-ATATATATAATATG
* * *
85190493 GGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGATATG
1 GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAATATG
*
85190539 GACTTACATGGCTCATTTCTGTC
1 GACTTACATGGCTCATTCCTGTC
85190562 CTGTCCTGTC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
46 33 0.55
48 27 0.45
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
GACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAATATG
Found at i:85194868 original size:46 final size:46
Alignment explanation
Indices: 85194763--85194880 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 46
85194753 TGTCTTCGAC
** * * *
85194763 ATGGACTTACATGAATTATTCCTGTCTCCAATGCTATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAAT
* * *
85194809 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAAT
*
85194855 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
85194881 CTGTCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (46 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATAAT
Found at i:85203007 original size:53 final size:53
Alignment explanation
Indices: 85202932--85203036 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
85202922 ATAAACTACT
* * * *
85202932 ATAAGGCAAAGATCCCATGTAAGACCACGCCAAGGCATGGCAATGGTGAGTTC
1 ATAAGGCAAAGATACCACGTAAGACCACGCCAAGACATGGCAATGGTAAGTTC
* * *
85202985 ATAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 ATAAGGCAAAGATACCACGTAAGACCACGCCAAGACATGGCAATGGTAAGTT
85203037 TAAAAAGGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (53 bp):
ATAAGGCAAAGATACCACGTAAGACCACGCCAAGACATGGCAATGGTAAGTTC
Found at i:85208739 original size:40 final size:40
Alignment explanation
Indices: 85208689--85208935 Score: 309
Period size: 40 Copynumber: 6.2 Consensus size: 40
85208679 CGGAATTTAG
* * * *
85208689 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
85208729 CCGGGTATAACAACTCGAACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAACAACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
85208769 CCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAACAACTAGCACAAATGCCTTCGGGTCTTAAC
85208809 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAA-CAACTAGCACAAATGCCTTCGGGTCTTAAC
*
85208849 CCGGATAAAATC-ACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAA-CAACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
85208889 CCGGATAAAATAACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAACAACTAGCACAAATGCCTTCGGGTCTTAAC
85208929 CCGGATA
1 CCGGATA
85208936 TCATTCAAAT
Statistics
Matches: 186, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
40 185 0.99
41 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (40 bp):
CCGGATAAAACAACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:85208909 original size:120 final size:120
Alignment explanation
Indices: 85208676--85208935 Score: 346
Period size: 120 Copynumber: 2.2 Consensus size: 120
85208666 ACCCAAGTTT
* * * * * *
85208676 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAAC
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAC
* * * *
85208740 AACTCGAACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
66 AACTAGAACAAATGCCTTCGGGTCTTAACCCGGATAAATCAACTAGCACAAATGC
* * *
85208795 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAT
1 CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAA-
* *
85208860 C-ACTAGCATAAATGCCTTCGGGTCTTAACCCGGATAAAAT-AACTAGCACAAATGC
65 CAACTAGAACAAATGCCTTCGGGTCTTAACCCGGAT-AAATCAACTAGCACAAATGC
85208915 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
85208936 TCATTCAAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
119 10 0.08
120 108 0.89
121 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (120 bp):
CTTCGGGACTTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATAAAAC
AACTAGAACAAATGCCTTCGGGTCTTAACCCGGATAAATCAACTAGCACAAATGC
Found at i:85228333 original size:30 final size:30
Alignment explanation
Indices: 85228299--85228358 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
85228289 TTCCCGAGCC
* *
85228299 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* *
85228329 TAGGGGCAAAAATATAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
85228359 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:85230219 original size:13 final size:13
Alignment explanation
Indices: 85230201--85230228 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85230191 AGGTTAGGGA
85230201 AGAAACTATCATG
1 AGAAACTATCATG
85230214 AGAAACTATCATG
1 AGAAACTATCATG
85230227 AG
1 AG
85230229 TTTAATGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.21
Consensus pattern (13 bp):
AGAAACTATCATG
Found at i:85230966 original size:33 final size:33
Alignment explanation
Indices: 85230893--85230977 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 33
85230883 GGAAGTCAAC
*
85230893 ATAATAATTCTAGTCCTATATAGGCCTTGCTTA
1 ATAATAATTCGAGTCCTATATAGGCCTTGCTTA
* * *
85230926 AGGAATAATT-GAGTTCTATATAGGCCTTTCTTA
1 A-TAATAATTCGAGTCCTATATAGGCCTTGCTTA
*
85230959 TATAATAATTCTAGTCCTA
1 -ATAATAATTCGAGTCCTA
85230978 AGCCTTTAGC
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
33 28 0.67
34 14 0.33
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (33 bp):
ATAATAATTCGAGTCCTATATAGGCCTTGCTTA
Found at i:85239244 original size:18 final size:18
Alignment explanation
Indices: 85239218--85239252 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85239208 AAGCCAGAGG
* *
85239218 AGGAGCATGGTCAGGTGA
1 AGGAACATGCTCAGGTGA
85239236 AGGAACATGCTCAGGTG
1 AGGAACATGCTCAGGTG
85239253 CTAGAATGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.40, T:0.17
Consensus pattern (18 bp):
AGGAACATGCTCAGGTGA
Found at i:85240787 original size:48 final size:48
Alignment explanation
Indices: 85240678--85241172 Score: 362
Period size: 48 Copynumber: 10.6 Consensus size: 48
85240668 CGAGATCGCA
** *
85240678 TGTAAGACCATGTCTGGGACATGGCATCAACATTGATA-GTGAGCCT-G
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAG-CTAG
* * *
85240725 TGTAAGACCATGTTTGGGACATGGCATCGGTGTTGATATGTGAGCTAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTAG
* * * *
85240773 TGTAAAACCATGTTTGGGACATGGCATCGACGTTAATATGTGAGGC-AG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGA-GCTAG
* * * * *
85240821 TGTAAGACCATGTCTAGGAGATGGTATCGACGTTGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTAG
* * * * * * * * **
85240869 TGTAAGACTATATCTAGGATATGGCATTGAC-ATCAGTATGTGATTTCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGA-TATGTGAGCT-AG
* * *
85240917 TGTAAGACCATATTTGGG--AT---AT-GGCGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTAG
* * * * *
85240959 TGTAA-ACCATTTTTAGGACATGGCATCAGCGTTGATATGTGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTAG
*
85241006 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTAG
* * * * ** **
85241054 TGTAAGACCATATCTGGGATATGGCATTGGCATTGGCATGTGATTTCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCT-AG
* * * * ** *
85241102 TGTAAGACCATATCTAGG--AT---AT-GACGTTGATATGAGATTTCG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTAG
*
85241144 TGTGAGACCATGTCTGGGACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
85241173 ATATGAGGTC
Statistics
Matches: 360, Mismatches: 65, Indels: 45
0.77 0.14 0.10
Matches are distributed among these distances:
41 11 0.03
42 42 0.12
43 8 0.02
44 2 0.01
46 6 0.02
47 65 0.18
48 222 0.62
49 4 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCTAG
Found at i:85240999 original size:185 final size:186
Alignment explanation
Indices: 85240756--85241135 Score: 566
Period size: 185 Copynumber: 2.0 Consensus size: 186
85240746 TGGCATCGGT
* * *
85240756 GTTGATATGTGAGCTAATGTAAAACCATGTTTGGGACATGGCATCGACGTTAATATGTGAGGCAG
1 GTTGATATGTGAGCCAATGTAAAACCATGTTTAGGACATGGCATCGACGTTAATATGTGAGCCAG
* * *
85240821 TGTAAGACCATGTCTAGGAGATGGTATCGACGTTGATATGTGTGCTAGTGTAAGACTATATCTAG
66 TGTAAGACCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATATCTAG
* * * *
85240886 GATATGGCATTGACATCAGTATGTGATTTCATGTAAGACCATATTTGGGATATGGC
131 GATATGGCATTGACATCAGCATGTGATTTCATGTAAGACCATATCTAGGATATGAC
* * *
85240942 GTTGATATGTGAGCCAGTGT-AAACCATTTTTAGGACATGGCATC-AGCGTTGATATGTGAGCCA
1 GTTGATATGTGAGCCAATGTAAAACCATGTTTAGGACATGGCATCGA-CGTTAATATGTGAGCCA
* * *
85241005 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCTAGTGTAAGACCATATCTG
65 GTGTAAGACCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATATCTA
* **
85241070 GGATATGGCATTGGCATTGGCATGTGATTTCATGTAAGACCATATCTAGGATATGAC
130 GGATATGGCATTGACATCAGCATGTGATTTCATGTAAGACCATATCTAGGATATGAC
85241127 GTTGATATG
1 GTTGATATG
85241136 AGATTTCGTG
Statistics
Matches: 174, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
184 1 0.01
185 155 0.89
186 18 0.10
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (186 bp):
GTTGATATGTGAGCCAATGTAAAACCATGTTTAGGACATGGCATCGACGTTAATATGTGAGCCAG
TGTAAGACCATGTCTAGGACATGGCATCGACGTTGATATGTGTGCTAGTGTAAGACCATATCTAG
GATATGGCATTGACATCAGCATGTGATTTCATGTAAGACCATATCTAGGATATGAC
Found at i:85241154 original size:42 final size:42
Alignment explanation
Indices: 85241095--85241215 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 42
85241085 ATTGGCATGT
* * * * *
85241095 GATTTCATGTAAGACCATATCTAGGATATGACGTTGATATGA
1 GATTTCGTGTAAGACCATGTCTAGGACATGACATCGATATGA
* * *
85241137 GATTTCGTGTGAGACCATGTCTGGGACATGGCATCGATATGA
1 GATTTCGTGTAAGACCATGTCTAGGACATGACATCGATATGA
* ** *
85241179 GGTCCCGTGTAAGACCATGTCTAGGACATGGCATCGA
1 GATTTCGTGTAAGACCATGTCTAGGACATGACATCGA
85241216 CACTGACATG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTAGGACATGACATCGATATGA
Found at i:85245940 original size:18 final size:17
Alignment explanation
Indices: 85245919--85245953 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
85245909 TAACCAATAC
85245919 AAATCAAACATACATTAT
1 AAATCAAACATA-ATTAT
*
85245937 AAATCAAATATAATTAT
1 AAATCAAACATAATTAT
85245954 GTGCAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (17 bp):
AAATCAAACATAATTAT
Found at i:85247350 original size:20 final size:20
Alignment explanation
Indices: 85247323--85247501 Score: 130
Period size: 20 Copynumber: 8.9 Consensus size: 20
85247313 GTGCCCCTAT
85247323 TTGTACTTCGGTACCCCTGA
1 TTGTACTTCGGTACCCCTGA
* * *
85247343 TTGCACTTAC-GTGCCCCTGT
1 TTGTACTT-CGGTACCCCTGA
* *
85247363 TTGTACTACGGTACGCCTGA
1 TTGTACTTCGGTACCCCTGA
* * * *
85247383 TTGCACTTAC-ATTCCCCTGT
1 TTGTACTT-CGGTACCCCTGA
*
85247403 TTGTACTTTGGTACCCCTGA
1 TTGTACTTCGGTACCCCTGA
** * *
85247423 TTGTACTTATGTGCCCCTGT
1 TTGTACTTCGGTACCCCTGA
* *
85247443 TTGTACTTCGGTACTCTTGA
1 TTGTACTTCGGTACCCCTGA
* * *
85247463 TTGCACTTAC-GTGCCCCTGT
1 TTGTACTT-CGGTACCCCTGA
*
85247483 TTGTACTCCGGTACCCCTG
1 TTGTACTTCGGTACCCCTG
85247502 GTTGCACTTT
Statistics
Matches: 116, Mismatches: 37, Indels: 12
0.70 0.22 0.07
Matches are distributed among these distances:
19 2 0.02
20 111 0.96
21 3 0.03
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTACTTCGGTACCCCTGA
Found at i:85247518 original size:40 final size:40
Alignment explanation
Indices: 85247313--85247510 Score: 288
Period size: 40 Copynumber: 5.0 Consensus size: 40
85247303 ATTGAATGAT
*
85247313 GTGCCCCTATTTGTACTTCGGTACCCCTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* *
85247353 GTGCCCCTGTTTGTACTACGGTACGCCTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* * * * *
85247393 ATTCCCCTGTTTGTACTTTGGTACCCCTGATTGTACTTAT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* *
85247433 GTGCCCCTGTTTGTACTTCGGTACTCTTGATTGCACTTAC
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
* *
85247473 GTGCCCCTGTTTGTACTCCGGTACCCCTGGTTGCACTT
1 GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTT
85247511 TTGTGCCCTT
Statistics
Matches: 137, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (40 bp):
GTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACTTAC
Found at i:85255504 original size:30 final size:30
Alignment explanation
Indices: 85255463--85255611 Score: 147
Period size: 30 Copynumber: 5.0 Consensus size: 30
85255453 GAGACACGGA
* *
85255463 AGTGTGTCTCAGCCGCATGAGTCACACAAG
1 AGTGTGTCTCAGCCGTATGAGTCACACAGG
* ** * * *
85255493 AGTGTGACTCAGTTGTATAAGGCACACGGG
1 AGTGTGTCTCAGCCGTATGAGTCACACAGG
* *
85255523 AGTGTGTCTCAGCCGTATGGGTCACATAGG
1 AGTGTGTCTCAGCCGTATGAGTCACACAGG
* * * *
85255553 AGTGTGTCCCAGTCGTATGAGTCATA-TGCG
1 AGTGTGTCTCAGCCGTATGAGTCACACAG-G
*
85255583 AGTGTGTCTTAGCCGTATGAGTCACACAG
1 AGTGTGTCTCAGCCGTATGAGTCACACAG
85255612 CCTGGCCACA
Statistics
Matches: 91, Mismatches: 26, Indels: 3
0.76 0.22 0.03
Matches are distributed among these distances:
29 1 0.01
30 89 0.98
31 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (30 bp):
AGTGTGTCTCAGCCGTATGAGTCACACAGG
Found at i:85255556 original size:60 final size:60
Alignment explanation
Indices: 85255456--85255610 Score: 184
Period size: 60 Copynumber: 2.6 Consensus size: 60
85255446 ATTGCCTGAG
* * * *
85255456 ACACGGAAGTGTGTCTCAGCCGCATGAGTCACACAAGAGTGTGACTCAGTTGTATAAGGC
1 ACACGGGAGTGTGTCTCAGCCGTATGAGTCACACAAGAGTGTGACCCAGTCGTATAAGGC
* * * * * *
85255516 ACACGGGAGTGTGTCTCAGCCGTATGGGTCACATAGGAGTGTGTCCCAGTCGTATGAGTC
1 ACACGGGAGTGTGTCTCAGCCGTATGAGTCACACAAGAGTGTGACCCAGTCGTATAAGGC
* * * *
85255576 ATATGCGAGTGTGTCTTAGCCGTATGAGTCACACA
1 ACACGGGAGTGTGTCTCAGCCGTATGAGTCACACA
85255611 GCCTGGCCAC
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 79 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.25
Consensus pattern (60 bp):
ACACGGGAGTGTGTCTCAGCCGTATGAGTCACACAAGAGTGTGACCCAGTCGTATAAGGC
Found at i:85255948 original size:14 final size:14
Alignment explanation
Indices: 85255925--85255955 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
85255915 GGTCCCCGTG
85255925 AAAAAGAAAAATAA
1 AAAAAGAAAAATAA
*
85255939 AAAAATAAAAATAA
1 AAAAAGAAAAATAA
85255953 AAA
1 AAA
85255956 CTACTGTTGA
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:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAAAGAAAAATAA
Found at i:85258850 original size:20 final size:20
Alignment explanation
Indices: 85258834--85258873 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
85258824 TTTTGCAATA
85258834 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
*
85258854 AGAGGCACCGAAGTGCAAAT
1 AGAGGCACCAAAGTGCAAAT
85258874 CCTGTACAAG
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:0.42, C:0.20, G:0.28, T:0.10
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAT
Found at i:85261312 original size:36 final size:37
Alignment explanation
Indices: 85261272--85261351 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 37
85261262 ACCAGATCGA
85261272 ATATTA-GAAGTTAAAGGCAACCCCAAAACAAAATCT
1 ATATTATGAAGTTAAAGGCAACCCCAAAACAAAATCT
*
85261308 ATATTATTTTTGAAGTTAAAGGGAACCCCAAAACAAAATCT
1 ATATTA----TGAAGTTAAAGGCAACCCCAAAACAAAATCT
85261349 ATA
1 ATA
85261352 GTAACTCATT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
36 6 0.16
41 32 0.84
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.25
Consensus pattern (37 bp):
ATATTATGAAGTTAAAGGCAACCCCAAAACAAAATCT
Found at i:85267444 original size:48 final size:48
Alignment explanation
Indices: 85267352--85267444 Score: 114
Period size: 48 Copynumber: 1.9 Consensus size: 48
85267342 TATTGATCCC
* * * * *
85267352 AATGCCATGTCCTAGACATGGTCTTACATGGGATCGTAGGTCGATATA
1 AATGCCATGTCCCAAACATGGTCTTACATGGGAACATAGATCGATATA
* * *
85267400 AATGCCATGTCCCAAACATGGTTTTACATTGGAACATATATCGAT
1 AATGCCATGTCCCAAACATGGTCTTACATGGGAACATAGATCGAT
85267445 GCCGATAGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (48 bp):
AATGCCATGTCCCAAACATGGTCTTACATGGGAACATAGATCGATATA
Found at i:85274283 original size:47 final size:46
Alignment explanation
Indices: 85274168--85274288 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 46
85274158 GCCCATAAGT
* *
85274168 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATACATCAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCACATACATCAGC
85274214 GAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGCTCG---GCC--GTTCACATACATCAGC
*
85274261 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGCTCGG
85274289 AACTCAAGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 12
0.82 0.04 0.15
Matches are distributed among these distances:
44 1 0.01
46 27 0.40
47 26 0.39
48 3 0.04
49 3 0.04
50 4 0.06
51 3 0.04
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCACATACATCAGC
Found at i:85290357 original size:1 final size:1
Alignment explanation
Indices: 85290351--85290380 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
85290341 ACTCAACCTT
85290351 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
85290381 CAGCCAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:85291512 original size:26 final size:27
Alignment explanation
Indices: 85291470--85291520 Score: 63
Period size: 26 Copynumber: 1.9 Consensus size: 27
85291460 CTTTTCTAAC
85291470 TACTTGTATTATAATAATA-TTATTATT
1 TACTTGTATTATAATAA-AGTTATTATT
85291497 TACTT-TATT-TAGATAAAGTTATTA
1 TACTTGTATTATA-ATAAAGTTATTA
85291521 GTGGAGTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
25 3 0.14
26 14 0.64
27 5 0.23
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (27 bp):
TACTTGTATTATAATAAAGTTATTATT
Found at i:85293646 original size:88 final size:88
Alignment explanation
Indices: 85293474--85293691 Score: 273
Period size: 88 Copynumber: 2.5 Consensus size: 88
85293464 CTTAAGGGTG
* * * *
85293474 CAAAAAACCGTCAAATTTTTTTAAAAAAAAGTAATTAAGCCCCTACTTTTTTTTACACTCATTTG
1 CAAAAAACCCTCAAA-TTTTTCAAAAAAAAGAAATTAAGCCCCTACTTTTTTTTACACTCAATTG
* *
85293539 GGTACTTGAACTTTCAAAATGCAT
65 AGTACTTGAAATTTCAAAATGCAT
* *
85293563 CAAAAAGACCCTCAAATCTTTACAAAAAAAAGCAATTAAGCCCCTAC-TTTTTTT-CACTCAATT
1 CAAAAA-ACCCTCAAAT-TTTTCAAAAAAAAGAAATTAAGCCCCTACTTTTTTTTACACTCAATT
*
85293626 GAGTACTTGAAATTTTAAAATGCAT
64 GAGTACTTGAAATTTCAAAATGCAT
*
85293651 AAAAAAAACCCTCAAAATTTTTC--AAAAAAGAAATTAAGCCC
1 -CAAAAAACCCTC-AAATTTTTCAAAAAAAAGAAATTAAGCCC
85293692 TTGCTTTTAT
Statistics
Matches: 114, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
86 17 0.15
88 40 0.35
89 23 0.20
90 34 0.30
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (88 bp):
CAAAAAACCCTCAAATTTTTCAAAAAAAAGAAATTAAGCCCCTACTTTTTTTTACACTCAATTGA
GTACTTGAAATTTCAAAATGCAT
Found at i:85293801 original size:19 final size:20
Alignment explanation
Indices: 85293779--85293817 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
85293769 AAAAAATTCC
*
85293779 AATATTAAA-AATCGTAAAA
1 AATATAAAACAATCGTAAAA
*
85293798 AATATAAAACAATTGTAAAA
1 AATATAAAACAATCGTAAAA
85293818 TTTTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AATATAAAACAATCGTAAAA
Found at i:85294354 original size:88 final size:90
Alignment explanation
Indices: 85294245--85294437 Score: 241
Period size: 89 Copynumber: 2.2 Consensus size: 90
85294235 TTTTAATAAG
* * * *
85294245 AGCA-AGGACTTAATTG-TTTTTTTGAAAAATTTTAAGGGTCTTTTTGATGCATTTTGAAAGTTC
1 AGCAGAGG-CTTAATTGCTTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATGCATTTTAAAAATTC
* *
85294308 AAGT-ATCCAATTAAGTG-ATAAAAAA
65 AAGTGCT-CAATTAAGTGTAAAAAAAA
* *
85294333 AGCAGAGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATGCATTTTAAAAATTCA
1 AGCAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATGCATTTTAAAAATTCA
*
85294398 AGTGCTCAATTGAGTGTAAAAAAAA
66 AGTGCTCAATTAAGTGTAAAAAAAA
* *
85294423 AGAAGGGGCTTAATT
1 AGCAGAGGCTTAATT
85294438 TTTAAAATTA
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
88 12 0.13
89 57 0.63
90 21 0.23
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (90 bp):
AGCAGAGGCTTAATTGCTTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATGCATTTTAAAAATTCA
AGTGCTCAATTAAGTGTAAAAAAAA
Found at i:85294979 original size:14 final size:14
Alignment explanation
Indices: 85294960--85294998 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
85294950 TGTTAAGAAT
85294960 AAATTATATTATAA
1 AAATTATATTATAA
* *
85294974 AAATTAAATACATAA
1 AAATTATAT-TATAA
85294989 AAATTATATT
1 AAATTATATT
85294999 CTATTTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATTATATTATAA
Found at i:85305880 original size:43 final size:43
Alignment explanation
Indices: 85305814--85305903 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
85305804 TAATTGGGAG
85305814 AATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-AGAA
1 AATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA-AA
* *
85305857 AATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATAAA
1 AATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATAAA
85305900 AATA
1 AATA
85305904 TTTCTAGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (43 bp):
AATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATAAA
Found at i:85305947 original size:19 final size:18
Alignment explanation
Indices: 85305925--85305964 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
85305915 TGAATAAAAC
85305925 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
85305944 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
85305962 TTA
1 TTA
85305965 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:85310608 original size:43 final size:44
Alignment explanation
Indices: 85310547--85310639 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
85310537 TCCTAATTGG
*
85310547 GAAAATAGTTCCCTTATTCTAATAAACTACTAGAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
85310590 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
85310634 -AAAATA
1 GAAAATA
85310640 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:85310683 original size:19 final size:18
Alignment explanation
Indices: 85310661--85310700 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
85310651 TGAATAAAAC
85310661 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
85310680 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
85310698 TTA
1 TTA
85310701 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:85314027 original size:24 final size:24
Alignment explanation
Indices: 85314000--85314048 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
85313990 GAGACATGAG
*
85314000 AATGATTTTTTGACATAGTTTTTT
1 AATGATGTTTTGACATAGTTTTTT
85314024 AATGATGTTTTGACATAGTTTTTT
1 AATGATGTTTTGACATAGTTTTTT
85314048 A
1 A
85314049 GTGTTGTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (24 bp):
AATGATGTTTTGACATAGTTTTTT
Found at i:85321617 original size:23 final size:23
Alignment explanation
Indices: 85321591--85321638 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
85321581 GAGTGTGTAA
85321591 CTTACCAGATTTCACAGAGATGG
1 CTTACCAGATTTCACAGAGATGG
85321614 CTTACCAGATTTCACAGAGATGG
1 CTTACCAGATTTCACAGAGATGG
85321637 CT
1 CT
85321639 GATATCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
CTTACCAGATTTCACAGAGATGG
Found at i:85330131 original size:46 final size:46
Alignment explanation
Indices: 85330081--85330256 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
85330071 TGGTTGAGCA
85330081 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85330127 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
85330172 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
85330220 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85330257 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:85330237 original size:93 final size:93
Alignment explanation
Indices: 85330078--85330249 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
85330068 GGATGGTTGA
* *
85330078 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
85330143 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
85330171 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
85330236 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
85330250 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:85333856 original size:6 final size:6
Alignment explanation
Indices: 85333832--85333900 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
85333822 TAATTTAGCC
* * *
85333832 ATTTTT A-TTTT A-TTAT ATTTTT ATTTTT ATTTTT AGTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* *
85333878 GTTTTCT AATTTTT -CTTTT ATTT
1 ATTTT-T -ATTTTT ATTTTT ATTT
85333901 GCTTCTGGCA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
5 13 0.27
6 30 0.61
7 2 0.04
8 4 0.08
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:85341857 original size:30 final size:30
Alignment explanation
Indices: 85341818--85341892 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
85341808 AAAAAAAAAA
*
85341818 CACAAACAGCCTGGAGACACGACCATGTGG
1 CACAAACAGCCTGGAGACACAACCATGTGG
* *
85341848 CACACACAGCCTGGAGATACAACCATGTGG
1 CACAAACAGCCTGGAGACACAACCATGTGG
* *
85341878 CACATACGGCCTGGA
1 CACAAACAGCCTGGA
85341893 CACATGGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.32, C:0.31, G:0.25, T:0.12
Consensus pattern (30 bp):
CACAAACAGCCTGGAGACACAACCATGTGG
Found at i:85342180 original size:5 final size:5
Alignment explanation
Indices: 85342170--85342250 Score: 73
Period size: 5 Copynumber: 16.4 Consensus size: 5
85342160 AGCGACCCCG
*
85342170 TTTAT TTTAT TTTAT TTTA- TTTA- TTTAT TATT-T TTTAT ATTA- TTTATT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTA-T
*
85342218 TTTAT TTTACT AATT-T TTTAT TTTAT TTTAT TT
1 TTTAT TTTA-T -TTTAT TTTAT TTTAT TTTAT TT
85342251 ATTATTCTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
4 15 0.23
5 40 0.62
6 7 0.11
7 2 0.03
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:85342205 original size:23 final size:23
Alignment explanation
Indices: 85342170--85342225 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
85342160 AGCGACCCCG
*
85342170 TTTATT-TTATTTTATTTTATTTA
1 TTTATTATT-TTTTATATTATTTA
85342193 TTTATTATTTTTTATATTATTTA
1 TTTATTATTTTTTATATTATTTA
85342216 TTT-TTATTTT
1 TTTATTATTTT
85342226 ACTAATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
22 7 0.23
23 22 0.71
24 2 0.06
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTATTATTTTTTATATTATTTA
Found at i:85342336 original size:12 final size:12
Alignment explanation
Indices: 85342292--85342336 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
85342282 TTAATCTTTC
*
85342292 TATTATTTCTAT
1 TATTATTACTAT
* *
85342304 TATTTTTAATAT
1 TATTATTACTAT
*
85342316 TATTTTTACTAT
1 TATTATTACTAT
85342328 TATTATTAC
1 TATTATTAC
85342337 AAATACCTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:85345523 original size:20 final size:20
Alignment explanation
Indices: 85345489--85345526 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
85345479 AATGTTAGTG
85345489 CATTATCTTATCTCATTTTT
1 CATTATCTTATCTCATTTTT
85345509 CATT-TCTTATGCTCATTT
1 CATTATCTTAT-CTCATTT
85345527 ATTTCCTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.18, C:0.21, G:0.03, T:0.58
Consensus pattern (20 bp):
CATTATCTTATCTCATTTTT
Found at i:85351230 original size:25 final size:25
Alignment explanation
Indices: 85351202--85351249 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
85351192 ATAAAAAATA
85351202 ATTTAGTTTTT-TTGTTAAAAATTTT
1 ATTTA-TTTTTATTGTTAAAAATTTT
*
85351227 ATTTATTTTTATTGTTTAAAATT
1 ATTTATTTTTATTGTTAAAAATT
85351250 AGTTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (25 bp):
ATTTATTTTTATTGTTAAAAATTTT
Found at i:85351256 original size:24 final size:23
Alignment explanation
Indices: 85351193--85351249 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
85351183 TATATTAAAA
* *
85351193 TAAAAAATAATTTAGTTTTTTTGT
1 TAAAAATTTATTTA-TTTTTTTGT
85351217 TAAAAATTTTATTTATTTTTATTGT
1 TAAAAA-TTTATTTATTTTT-TTGT
*
85351242 TTAAAATT
1 TAAAAATT
85351250 AGTTTATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TAAAAATTTATTTATTTTTTTGT
Found at i:85357082 original size:40 final size:40
Alignment explanation
Indices: 85356975--85357175 Score: 223
Period size: 40 Copynumber: 5.1 Consensus size: 40
85356965 CGGATGATAA
* * *
85356975 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-T
* ** *
85357015 CCGGGCTAA-ACTTGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
*
85357054 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGA-A-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT-ATAT
* *
85357093 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
85357133 CCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAATTATAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
85357173 CCG
1 CCG
85357176 ACTAAATTCC
Statistics
Matches: 136, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 66 0.49
40 68 0.50
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:85357188 original size:79 final size:79
Alignment explanation
Indices: 85356971--85357190 Score: 243
Period size: 79 Copynumber: 2.8 Consensus size: 79
85356961 TATTCGGATG
* * *
85356971 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAACTT--GAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAA-TCCGGGCTAAA-TTCCGAAGGC
*
85357034 AATTGTGCGAGTTATT
64 AATTGTGCGAGTTACT
* * * * * *
85357050 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGAA-CCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATT-AATCCGGGCTAAATTCCGAAGGCA
*
85357114 TTTGTGCGAGTTACT
65 ATTGTGCGAGTTACT
* *
85357129 ATAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAATTATATCC-GACTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGCAAGTAATTA-ATCCGGGCTAAATTCCGAAGG
85357191 TACTTGGGTT
Statistics
Matches: 118, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
77 1 0.01
78 11 0.09
79 102 0.86
80 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTAATTAATCCGGGCTAAATTCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:85360135 original size:12 final size:12
Alignment explanation
Indices: 85360118--85360150 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
85360108 TTCCCTGTAA
85360118 AATAGTAAAAAT
1 AATAGTAAAAAT
*
85360130 AATAGTAAAAGT
1 AATAGTAAAAAT
85360142 AATAGTAAA
1 AATAGTAAA
85360151 GGGGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:85361042 original size:10 final size:10
Alignment explanation
Indices: 85361015--85361074 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
85361005 TGAAATTCTA
85361015 AAAGATAAAT
1 AAAGATAAAT
85361025 ACAA-ATAAAT
1 A-AAGATAAAT
*
85361035 AAAGATAATT
1 AAAGATAAAT
*
85361045 AAAGATAATT
1 AAAGATAAAT
85361055 AAAGATAAAT
1 AAAGATAAAT
85361065 GAAA-ATAAAT
1 -AAAGATAAAT
85361075 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:85365488 original size:32 final size:34
Alignment explanation
Indices: 85365451--85365522 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 34
85365441 ACGTATTTGA
85365451 AAATTTTA-ATATAAATTATTCTATTTATATTT-T
1 AAATTTTATATATAAA-TATTCTATTTATATTTAT
* *
85365484 -AA-TTTATATATAAATATTTTTTTTATATTTAT
1 AAATTTTATATATAAATATTCTATTTATATTTAT
85365516 AAATTTT
1 AAATTTT
85365523 TTCACTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
31 18 0.55
32 10 0.30
33 2 0.06
34 3 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (34 bp):
AAATTTTATATATAAATATTCTATTTATATTTAT
Found at i:85365510 original size:19 final size:19
Alignment explanation
Indices: 85365486--85365524 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
85365476 TATATTTTAA
85365486 TTTATA-TATAAATATTTTT
1 TTTATATTATAAAT-TTTTT
85365505 TTTATATTTATAAATTTTTT
1 TTTATA-TTATAAATTTTTT
85365525 CACTAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATATTATAAATTTTTT
Found at i:85379891 original size:46 final size:44
Alignment explanation
Indices: 85379798--85379891 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
85379788 ATTACAACAT
* * *
85379798 CATTCCATTCAACCAAATACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTATATTC
***
85379842 CATTCCATTCAACCAAACAGTTGAATTACTTATTACAGCTATATTC
1 CATTCCATTCAACCAAACACAAGAA-TAC-TATTACAGCTATATTC
85379888 CATT
1 CATT
85379892 ACAGCTCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 21 0.50
45 3 0.07
46 18 0.43
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTATATTC
Found at i:85379894 original size:16 final size:16
Alignment explanation
Indices: 85379873--85379944 Score: 110
Period size: 16 Copynumber: 4.5 Consensus size: 16
85379863 TGAATTACTT
*
85379873 ATTACAGCTATATTCC
1 ATTACAGCTCTATTCC
85379889 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
85379905 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
85379921 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
85379937 ATTACAGC
1 ATTACAGC
85379945 CAACCAAACG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
15 1 0.02
16 50 0.98
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:85384529 original size:42 final size:42
Alignment explanation
Indices: 85384461--85384622 Score: 105
Period size: 48 Copynumber: 3.6 Consensus size: 42
85384451 TATGTGTTAT
* * *
85384461 CATGTAAGACCATATCCGGGATATGGCGTTGATATGAGATCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGATATGAGATCC
* *
85384503 CATGTAAGACCATGTTTGGGACATGGCATTGGCATTGATATGAGA-CAT
1 CATGTAAGACCATGTCTGGGACATGGC----G--TTGATATGAGATC-C
* * *
85384551 CATATAAGACCATAG-CTGGG-CTATCGGCTTTGATATGTGCGATCC
1 CATGTAAGACCAT-GTCTGGGAC-AT-GGCGTTGATA--TGAGATCC
* *
85384596 CATGTAAGACCATGTTTGGGGCATGGC
1 CATGTAAGACCATGTCTGGGACATGGC
85384623 ATTGGCATCA
Statistics
Matches: 93, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
42 23 0.25
43 6 0.06
44 4 0.04
45 22 0.24
46 3 0.03
47 2 0.02
48 29 0.31
49 4 0.04
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATGGCGTTGATATGAGATCC
Found at i:85384543 original size:90 final size:91
Alignment explanation
Indices: 85384404--85384657 Score: 276
Period size: 90 Copynumber: 2.8 Consensus size: 91
85384394 ATTTGGGTTG
* * * * * * ** * *
85384404 ATGAGATCCCGTATAAGAGCATATATGGGATATGGCATCAGCATCGATATGTGTTATCATGTAAG
1 ATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATATCATATAAG
*
85384469 ACCATATCCGGGATAT-GGCGTTGAT
66 ACCATAGCCGGGATATCGGCGTTGAT
* * *
85384494 ATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATTGATATGAGACATCATATAAG
1 ATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATATCATATAAG
* * *
85384559 ACCATAGCTGGGCTATCGGCTTTGAT
66 ACCATAGCCGGGATATCGGCGTTGAT
* * * * **
85384585 ATGTGCGATCCCATGTAAGACCATGTTTGGGGCATGGCATTGGCATCAATATGTGGTCCCATATA
1 A--TGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATATCATATA
85384650 AGACCATA
64 AGACCATA
85384658 CATGGGATAT
Statistics
Matches: 135, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
90 65 0.48
91 9 0.07
93 61 0.45
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (91 bp):
ATGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATGTGATATCATATAAG
ACCATAGCCGGGATATCGGCGTTGAT
Found at i:85384545 original size:48 final size:47
Alignment explanation
Indices: 85384484--85384656 Score: 142
Period size: 48 Copynumber: 3.7 Consensus size: 47
85384474 ATCCGGGATA
* *
85384484 TGGCGTTGATATGAGATCCCATGTAAGACCATGTTTGGGACATGGCAT
1 TGGCATTGATATGAGATCCCATATAAGACCATGTTTGGG-CATGGCAT
* *
85384532 TGGCATTGATATGAGA-CATCATATAAGACCATAG-CTGGGCTATCGGC-T
1 TGGCATTGATATGAGATC-CCATATAAGACCAT-GTTTGGGC-AT-GGCAT
* * * *
85384580 TTG-A-T-ATGTGCGATCCCATGTAAGACCATGTTTGGGGCATGGCAT
1 TGGCATTGATATGAGATCCCATATAAGACCATGTTT-GGGCATGGCAT
** * *
85384625 TGGCATCAATATGTGGTCCCATATAAGACCAT
1 TGGCATTGATATGAGATCCCATATAAGACCAT
85384657 ACATGGGATA
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
44 4 0.04
45 24 0.24
46 7 0.07
47 3 0.03
48 56 0.57
49 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (47 bp):
TGGCATTGATATGAGATCCCATATAAGACCATGTTTGGGCATGGCAT
Done.