Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 266 of 297
Found at i:90785656 original size:37 final size:37
Alignment explanation
Indices: 90785601--90785679 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
90785591 AAACATTATT
* *
90785601 AGAACTAGAATCATAATCAGAACCAGGTGACAGAATC
1 AGAATTAGAATCAGAATCAGAACCAGGTGACAGAATC
**
90785638 AGAATTAGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATTAGAATCAGAATCAGAACCAGGTGACAGAATC
90785675 AGAAT
1 AGAAT
90785680 CAGCATCAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (37 bp):
AGAATTAGAATCAGAATCAGAACCAGGTGACAGAATC
Found at i:90785674 original size:25 final size:25
Alignment explanation
Indices: 90785644--90785710 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
90785634 AATCAGAATT
* ** *
90785644 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAACTAAC
*
90785669 AGAATCAGAATCAGCATCAACTAAC
1 AGAATCAGAATCAGAATCAACTAAC
90785694 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
90785711 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAACTAAC
Found at i:90786062 original size:22 final size:22
Alignment explanation
Indices: 90786034--90786098 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
90786024 GCAAGTACGT
*
90786034 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
90786056 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
90786078 TTGGCACAAAGCCACAATCAG
1 TTGGCACAAAGCCATAATCAG
90786099 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:90787654 original size:79 final size:78
Alignment explanation
Indices: 90787552--90787774 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
90787542 GCTCCTCGTT
* *
90787552 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
90787617 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
90787632 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
90787696 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
90787710 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
90787773 GA
63 GA
90787775 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:90787669 original size:39 final size:40
Alignment explanation
Indices: 90787552--90787774 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
90787542 GCTCCTCGTT
* *
90787552 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
90787592 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
90787632 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
90787671 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
90787710 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
90787751 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90787775 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:90789703 original size:27 final size:27
Alignment explanation
Indices: 90789601--90789709 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
90789591 ATCAAATCCG
* ** *
90789601 TCTACCCTAAAGGGGTATTTTGGTATT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* * *
90789628 TCTACCCTATAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
90789655 TCAACCCTACAGGGATATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
90789682 TCTACCCTACAGGGGTATTTCAATAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
90789709 T
1 T
90789710 TTGTAAATCG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCAGTAAT
Found at i:90789724 original size:27 final size:27
Alignment explanation
Indices: 90789694--90789797 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
90789684 TACCCTACAG
90789694 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTGTAAATCGA
*** ** * *
90789721 GGGTAAAACGGTAATTCTGTAAATCGG
1 GGGTATTTCAATAATTTTGTAAATCGA
** ** *
90789748 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAATAATTTTGTAAATCGA
*
90789775 GGGTATTTCAATAATTTGGTAAA
1 GGGTATTTCAATAATTTTGTAAA
90789798 CTAAAATATT
Statistics
Matches: 54, Mismatches: 21, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
26 3 0.06
27 51 0.94
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTGTAAATCGA
Found at i:90791779 original size:6 final size:6
Alignment explanation
Indices: 90791749--90791879 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
90791739 AAGAAACATT
* * * *
90791749 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCTG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
90791798 ATCAGA ATCAAA ATCAGA ATCAGA ATCAGA ATTAG- GTGACTGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
90791847 ATCAGT ATCAAGTA AT-AGA ATCAGA ATCAGA AT
1 ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
90791880 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 6 0.06
6 80 0.83
7 6 0.06
8 4 0.04
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:90791803 original size:25 final size:24
Alignment explanation
Indices: 90791770--90791879 Score: 88
Period size: 25 Copynumber: 4.7 Consensus size: 24
90791760 AATCAAAATG
90791770 AGAATCAGAATCAGAATCTGGTGAC
1 AGAATCAGAATCAGAAT-TGGTGAC
*
90791795 AGAATCAGAATCA-AA---AT--C
1 AGAATCAGAATCAGAATTGGTGAC
90791813 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATT-GGTGAC
* * ** * *
90791838 TGAATCAGAATCAGTATCAAGTAAT
1 AGAATCAGAATCAGAAT-TGGTGAC
90791863 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
90791880 GTGAATGCAA
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
18 14 0.21
19 2 0.03
20 1 0.01
23 1 0.01
24 2 0.03
25 47 0.70
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (24 bp):
AGAATCAGAATCAGAATTGGTGAC
Found at i:90791805 original size:43 final size:43
Alignment explanation
Indices: 90791758--90791873 Score: 155
Period size: 43 Copynumber: 2.7 Consensus size: 43
90791748 TATCAGAACT
*
90791758 AGAATCAAAATGAGAATCAGAATCAGAATCT-GGTGACAGAATC
1 AGAATCAAAATCAGAATCAGAATCAGAAT-TAGGTGACAGAATC
*
90791801 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGACTGAATC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGACAGAATC
**
90791844 AGAATCAGTATCAAGTAAT-AGAATCAGAAT
1 AGAATCAAAATC-AG-AATCAGAATCAGAAT
90791874 CAGAATGTGA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
42 1 0.02
43 49 0.74
44 13 0.20
45 3 0.05
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (43 bp):
AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGACAGAATC
Found at i:90792231 original size:22 final size:22
Alignment explanation
Indices: 90792203--90792260 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
90792193 GCAAGTACGT
*
90792203 TTGGCACACAGCCATAAT-CAGG
1 TTGGCACAAAGCCAT-ATGCAGG
* *
90792225 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAAAGCCATATGCAGG
90792247 TTGGCACAAAGCCA
1 TTGGCACAAAGCCA
90792261 CACTCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (22 bp):
TTGGCACAAAGCCATATGCAGG
Found at i:90792786 original size:27 final size:27
Alignment explanation
Indices: 90792655--90792795 Score: 167
Period size: 27 Copynumber: 5.2 Consensus size: 27
90792645 GGGGCAAATG
* * * *
90792655 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* **
90792681 GCTAATTCCACCCTACAGGGGTATTTTG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
90792709 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
90792736 GTAATTCAACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
90792763 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
90792790 ATAATT
1 GTAATT
90792796 TTGTAAATCG
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 95 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:90792810 original size:27 final size:27
Alignment explanation
Indices: 90792780--90792883 Score: 75
Period size: 27 Copynumber: 3.9 Consensus size: 27
90792770 TACCCTACAG
90792780 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAATAATTTTGTAAATCGA
*** * * *
90792807 GGGTAAAACGATAATTCTGTAAATCGG
1 GGGTATTTCAATAATTTTGTAAATCGA
** ** *
90792834 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAATAATTTTGTAAATCGA
* *
90792861 GGGTATTTCAGTAATTTGGTAAA
1 GGGTATTTCAATAATTTTGTAAA
90792884 CTAAAGTATT
Statistics
Matches: 55, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
26 3 0.05
27 52 0.95
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAATAATTTTGTAAATCGA
Found at i:90793788 original size:23 final size:23
Alignment explanation
Indices: 90793762--90793808 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
90793752 TGATTATAGG
90793762 TCTATACTTATGATGTATAAATA
1 TCTATACTTATGATGTATAAATA
*
90793785 TCTATACTTATGATGTATGAATA
1 TCTATACTTATGATGTATAAATA
90793808 T
1 T
90793809 GTAGCCTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (23 bp):
TCTATACTTATGATGTATAAATA
Found at i:90793817 original size:23 final size:23
Alignment explanation
Indices: 90793762--90793817 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
90793752 TGATTATAGG
*
90793762 TCTATACTTATGATGTATAAATA
1 TCTAGACTTATGATGTATAAATA
* *
90793785 TCTATACTTATGATGTATGAATA
1 TCTAGACTTATGATGTATAAATA
* *
90793808 TGTAGCCTTA
1 TCTAGACTTA
90793818 CCAATGTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (23 bp):
TCTAGACTTATGATGTATAAATA
Found at i:90795161 original size:13 final size:14
Alignment explanation
Indices: 90795128--90795166 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
90795118 TAAACAATGT
90795128 TAAAG-AAAGAGATA
1 TAAAGAAAAGA-ATA
90795142 TAAAGAAAAGAATA
1 TAAAGAAAAGAATA
90795156 -AAAGAAAAGAA
1 TAAAGAAAAGAA
90795167 ATGCCCATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.46
14 8 0.33
15 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.18, T:0.10
Consensus pattern (14 bp):
TAAAGAAAAGAATA
Found at i:90833285 original size:79 final size:82
Alignment explanation
Indices: 90833174--90833358 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
90833164 GCTACTCGTT
* *
90833174 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
90833237 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
90833254 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
90833317 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
90833334 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
90833359 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:90833358 original size:40 final size:40
Alignment explanation
Indices: 90833155--90833358 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
90833145 CGGAATTTAA
** *
90833155 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90833195 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
90833235 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
90833274 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
90833314 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
90833354 CCGGA
1 CCGGA
90833359 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:90837546 original size:42 final size:42
Alignment explanation
Indices: 90837486--90837569 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
90837476 ACTTATGAAT
90837486 TTTTTGTACATACTTGTACCAACTCGTAACATAACCATATCA
1 TTTTTGTACATACTTGTACCAACTCGTAACATAACCATATCA
*
90837528 TTTTTGTACATAAC-TGTACTAACTCGTAACATAACCATATCA
1 TTTTTGTACAT-ACTTGTACCAACTCGTAACATAACCATATCA
90837570 CATAACCATA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.36
Consensus pattern (42 bp):
TTTTTGTACATACTTGTACCAACTCGTAACATAACCATATCA
Found at i:90837574 original size:13 final size:13
Alignment explanation
Indices: 90837556--90837585 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
90837546 CTAACTCGTA
90837556 ACATAACCATATC
1 ACATAACCATATC
90837569 ACATAACCATATC
1 ACATAACCATATC
90837582 ACAT
1 ACAT
90837586 GGCCTGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (13 bp):
ACATAACCATATC
Found at i:90839685 original size:17 final size:17
Alignment explanation
Indices: 90839665--90839698 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
90839655 TGTCCTACAA
*
90839665 TATTCTCTGTCATTTTT
1 TATTCTCTGCCATTTTT
90839682 TATTCTCTGCCATTTTT
1 TATTCTCTGCCATTTTT
90839699 GGACAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.21, G:0.06, T:0.62
Consensus pattern (17 bp):
TATTCTCTGCCATTTTT
Found at i:90839913 original size:41 final size:41
Alignment explanation
Indices: 90839868--90839951 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
90839858 TGTCTTGTCT
90839868 GACTTTTCGTTCTTTGTCCCGTAGTAGGAGATGAATACCTA
1 GACTTTTCGTTCTTTGTCCCGTAGTAGGAGATGAATACCTA
90839909 GACTTTTCGTTCTTTGTCCCGTAGTAGGAGATGAATACCTA
1 GACTTTTCGTTCTTTGTCCCGTAGTAGGAGATGAATACCTA
90839950 GA
1 GA
90839952 ACCCCTGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.36
Consensus pattern (41 bp):
GACTTTTCGTTCTTTGTCCCGTAGTAGGAGATGAATACCTA
Found at i:90840992 original size:18 final size:21
Alignment explanation
Indices: 90840964--90841006 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
90840954 ATTTTATTAA
90840964 TTTATTA-TTTTA-ATAATGT
1 TTTATTATTTTTATATAATGT
*
90840983 TTTA-TATTTTTATATAATTT
1 TTTATTATTTTTATATAATGT
90841003 TTTA
1 TTTA
90841007 GGATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 2 0.10
19 9 0.43
20 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTTATATAATGT
Found at i:90841457 original size:31 final size:31
Alignment explanation
Indices: 90841422--90841483 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
90841412 TTTCTTAACT
* *
90841422 CTCTCAATTTTGAAATTGAGCAAATTGGTTC
1 CTCTCAATTTTGAAATTAAGCAAATTAGTTC
* *
90841453 CTCTCAATTTTGATATTAAGTAAATTAGTTC
1 CTCTCAATTTTGAAATTAAGCAAATTAGTTC
90841484 TTTTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (31 bp):
CTCTCAATTTTGAAATTAAGCAAATTAGTTC
Found at i:90848125 original size:64 final size:67
Alignment explanation
Indices: 90848042--90848185 Score: 170
Period size: 67 Copynumber: 2.2 Consensus size: 67
90848032 TACTATGTGG
* * * *
90848042 GTAGCTAGGTCACATGTGT-GATAC-GG-GATGTATACCATGTAGACAAGAGAGCTACGGGATAA
1 GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
90848104 AT
66 AT
* * * * *
90848106 GTAGCTTGGTCGCATGTGTGGTTCCAGGTGAAGGACACGATGTAGACAAGAGAGCTACGAGATAA
1 GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
90848171 A-
66 AT
*
90848172 GTGGCTAGGTCACA
1 GTAGCTAGGTCACA
90848186 CGGGTGGTAC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
64 17 0.26
65 3 0.05
66 13 0.20
67 32 0.49
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGGATACAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGATAA
AT
Found at i:90853933 original size:85 final size:85
Alignment explanation
Indices: 90853832--90854004 Score: 330
Period size: 85 Copynumber: 2.0 Consensus size: 85
90853822 ATGTAGACTT
90853832 AAAAAGAAAATGGATTGAATTTCAGGTGGGTGATAAAGTGTTCTTGAAGGTGTCACCATGGAAGA
1 AAAAAGAAAATGGATTGAATTTCAGGTGGGTGATAAAGTGTTCTTGAAGGTGTCACCATGGAAGA
90853897 AGATTCTGAGATTTGGCCGA
66 AGATTCTGAGATTTGGCCGA
90853917 AAAAAGAAAA-GAGATTGAATTTCAGGTGGGTGATAAAGTGTTCTTGAAGGTGTCACCATGGAAG
1 AAAAAGAAAATG-GATTGAATTTCAGGTGGGTGATAAAGTGTTCTTGAAGGTGTCACCATGGAAG
90853981 AAGATTCTGAGATTTGGCCGA
65 AAGATTCTGAGATTTGGCCGA
90854002 AAA
1 AAA
90854005 GGCAAGTTGA
Statistics
Matches: 87, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 1 0.01
85 86 0.99
ACGTcount: A:0.36, C:0.09, G:0.29, T:0.26
Consensus pattern (85 bp):
AAAAAGAAAATGGATTGAATTTCAGGTGGGTGATAAAGTGTTCTTGAAGGTGTCACCATGGAAGA
AGATTCTGAGATTTGGCCGA
Found at i:90857466 original size:19 final size:19
Alignment explanation
Indices: 90857425--90857466 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
90857415 CCTTATTTAC
*
90857425 ATTTTTATATTTTAGCATG
1 ATTTTTATATTGTAGCATG
90857444 -TTTTATATATTGTAGC-TG
1 ATTTT-TATATTGTAGCATG
90857462 ATTTT
1 ATTTT
90857467 GAATCATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.60
Consensus pattern (19 bp):
ATTTTTATATTGTAGCATG
Found at i:90862353 original size:50 final size:50
Alignment explanation
Indices: 90862278--90862378 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
90862268 AAGGTTAGCA
90862278 TTGTCTAATGATGGGTCAATCTTGGCAGAGATGAGGGCTAAACCATTATT
1 TTGTCTAATGATGGGTCAATCTTGGCAGAGATGAGGGCTAAACCATTATT
90862328 TTGTCTAATGATGGGTCAATCTTGGCAGAGATGAGGGCTAAACCATTATT
1 TTGTCTAATGATGGGTCAATCTTGGCAGAGATGAGGGCTAAACCATTATT
90862378 T
1 T
90862379 CTCCAGCTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (50 bp):
TTGTCTAATGATGGGTCAATCTTGGCAGAGATGAGGGCTAAACCATTATT
Found at i:90868343 original size:43 final size:42
Alignment explanation
Indices: 90868234--90868366 Score: 110
Period size: 42 Copynumber: 3.1 Consensus size: 42
90868224 TGCCAACGTT
* * * *
90868234 CCAGACGTGGTGTTACATGT-AATCAAGTATCGATGCCACTATC
1 CCAGACATGGTCTTACATGTAAATCAAATA-CGATGCCA-TGTC
* * **
90868277 CCAAACAGGGTCTTACA-CAAAATCAAATACGATGCCGATGTC
1 CCAGACATGGTCTTACATGTAAATCAAATACGATGCC-ATGTC
*
90868319 CCAGACATGGTCTTACATGTAAATCTCAAAT-CGATGCCAACGTC
1 CCAGACATGGTCTTACATGTAAA--TCAAATACGATGCC-ATGTC
90868363 CCAG
1 CCAG
90868367 GTCTTACACA
Statistics
Matches: 71, Mismatches: 14, Indels: 9
0.76 0.15 0.10
Matches are distributed among these distances:
42 25 0.35
43 25 0.35
44 15 0.21
45 6 0.08
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
CCAGACATGGTCTTACATGTAAATCAAATACGATGCCATGTC
Found at i:90875360 original size:13 final size:13
Alignment explanation
Indices: 90875342--90875380 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
90875332 ATATTATAAT
*
90875342 TATTTTGTGTTAA
1 TATTTTATGTTAA
*
90875355 TATTTTATGCTAA
1 TATTTTATGTTAA
90875368 TAATTTTATGTTA
1 T-ATTTTATGTTA
90875381 CAAAATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:90879130 original size:13 final size:13
Alignment explanation
Indices: 90879108--90879140 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
90879098 AAGGGTTTGT
90879108 TTAT-TAAACTAA
1 TTATCTAAACTAA
90879120 TTATCTAAACTAA
1 TTATCTAAACTAA
*
90879133 TTAACTAA
1 TTATCTAA
90879141 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:90881574 original size:6 final size:5
Alignment explanation
Indices: 90881545--90881606 Score: 53
Period size: 5 Copynumber: 12.8 Consensus size: 5
90881535 TATGTCTTTC
*
90881545 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAA- AAAAT AAAAT -AAA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
90881592 AAAAT AAGAAT AAAA
1 AAAAT AA-AAT AAAA
90881607 AGATAGGAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 16
0.72 0.03 0.25
Matches are distributed among these distances:
3 3 0.06
4 10 0.21
5 21 0.45
6 13 0.28
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:90881587 original size:14 final size:14
Alignment explanation
Indices: 90881565--90881607 Score: 61
Period size: 13 Copynumber: 3.0 Consensus size: 14
90881555 AATAAAATTG
90881565 AAATGAAAATAAAAA
1 AAAT-AAAATAAAAA
90881580 AAATAAAAT-AAAA
1 AAATAAAATAAAAA
90881593 AAATAAGAATAAAAA
1 AAATAA-AATAAAAA
90881608 GATAGGAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.38
14 8 0.31
15 8 0.31
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:90881594 original size:13 final size:13
Alignment explanation
Indices: 90881565--90881607 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 13
90881555 AATAAAATTG
90881565 AAATGAAAATAAAAA
1 AAAT-AAAAT-AAAA
90881580 AAATAAAATAAAA
1 AAATAAAATAAAA
90881593 AAATAAGAATAAAA
1 AAATAA-AATAAAA
90881607 A
1 A
90881608 GATAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.37
14 13 0.48
15 4 0.15
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:90884598 original size:13 final size:13
Alignment explanation
Indices: 90884580--90884604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90884570 GTATTGATCA
90884580 TGTGTTCACACCT
1 TGTGTTCACACCT
90884593 TGTGTTCACACC
1 TGTGTTCACACC
90884605 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:90886354 original size:16 final size:16
Alignment explanation
Indices: 90886321--90886353 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90886311 AACTAAACAT
*
90886321 AATATAATAATATTAA
1 AATAAAATAATATTAA
90886337 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
90886352 AA
1 AA
90886354 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:90901070 original size:24 final size:24
Alignment explanation
Indices: 90901043--90901090 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
90901033 TTGAAAAAAC
90901043 CATGTCAAACAAAGTTCTATTCCT
1 CATGTCAAACAAAGTTCTATTCCT
90901067 CATGTCAAACAAAGTTCTATTCCT
1 CATGTCAAACAAAGTTCTATTCCT
90901091 TCTCTTAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
CATGTCAAACAAAGTTCTATTCCT
Found at i:90910557 original size:40 final size:40
Alignment explanation
Indices: 90910502--90910639 Score: 174
Period size: 40 Copynumber: 3.5 Consensus size: 40
90910492 TGGATGATAA
*
90910502 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTA-TAT
* *
90910542 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATAT
* *
90910582 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGT-AGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGA-CTATAT
* *
90910622 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
90910640 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 16 0.18
40 73 0.82
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATAT
Found at i:90926322 original size:40 final size:40
Alignment explanation
Indices: 90926081--90926314 Score: 380
Period size: 40 Copynumber: 5.9 Consensus size: 40
90926071 ATTCGGATTG
*
90926081 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* * *
90926120 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
90926160 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
90926200 ATAACCGGGCTAAGTCTCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
90926240 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
90926280 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAG
90926315 AAGCTATATC
Statistics
Matches: 181, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 13 0.07
40 168 0.93
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:90926322 original size:120 final size:119
Alignment explanation
Indices: 90926081--90926341 Score: 373
Period size: 120 Copynumber: 2.2 Consensus size: 119
90926071 ATTCGGATTG
* * * *
90926081 ATAACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCTCGAAGGCAT
1 ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
* *
90926146 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
* *
90926200 ATAACCGGGCTAAGTCTCGAAGGCAATTGTGCTAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
* *
90926265 ATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCT
65 ATTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAA-CT
* *
90926320 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCT-AAGCCCGAAGG
90926342 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
119 26 0.21
120 100 0.79
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (119 bp):
ATAACCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAA
TTGTGCGAGTTACTATAACCGGGCCAAGTCCCGAAGGCAATTGAGCGAGTAACT
Found at i:90926341 original size:39 final size:40
Alignment explanation
Indices: 90926081--90926341 Score: 222
Period size: 40 Copynumber: 6.6 Consensus size: 40
90926071 ATTCGGATTG
* * * *
90926081 ATAACCGGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
* ** * * * *
90926120 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
* ** * *
90926160 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
** * * * *
90926200 ATAACCGGGCTAAGTCTCGAAGGCAATTGTGCTAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
** * *
90926240 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
** *
90926280 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCT
1 ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAA-CT
*
90926320 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAACCCCGAAGG
90926342 TACTTGGTTT
Statistics
Matches: 201, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 25 0.12
40 176 0.88
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTAACT
Found at i:90935373 original size:40 final size:40
Alignment explanation
Indices: 90935294--90935499 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
90935284 AACCCAAGTA
* * * *
90935294 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
90935333 CCTTCGGGACTTAGCCCGGACATAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
90935373 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
90935413 CCTTCGGGACTTAGCCCGAATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
90935453 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
90935493 CCTTCGG
1 CCTTCGG
90935500 ATCTTAGTCC
Statistics
Matches: 153, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.08
40 140 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:90937220 original size:49 final size:51
Alignment explanation
Indices: 90937099--90937238 Score: 194
Period size: 49 Copynumber: 2.8 Consensus size: 51
90937089 CACACTAACC
* * *
90937099 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTT
* * * *
90937150 ATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTT
*
90937199 ATCTGGTACACGTAGTAGCCTGCAGTTAGTACTACACACG
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACG
90937239 TGACCTCACA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 37 0.48
50 3 0.04
51 37 0.48
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (51 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTT
Found at i:90942784 original size:49 final size:48
Alignment explanation
Indices: 90942711--90942942 Score: 266
Period size: 49 Copynumber: 4.7 Consensus size: 48
90942701 CTGGTACGCA
*
90942711 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAT-CAGTACACG
* * ** * *
90942760 TAGTAGCCTGCACTTAGTAGTACACACGTGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCAG-TACACG
* * *
90942810 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCA-GTACACG
* * *
90942861 TAGTAGCCTGCACTTAGTACTACACATGCGACCAGTTATCTTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATC-AGTACACG
* *
90942910 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
90942943 TCACAATATC
Statistics
Matches: 154, Mismatches: 23, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
49 73 0.47
50 43 0.28
51 37 0.24
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCAGTACACG
Found at i:90942885 original size:101 final size:98
Alignment explanation
Indices: 90942711--90942942 Score: 297
Period size: 100 Copynumber: 2.3 Consensus size: 98
90942701 CTGGTACGCA
* * *
90942711 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
* * *
90942776 GTAGTACACACGTGACCTAACCATC-TGATACATG
66 GTACTACACACGCGACC-AACCATCTTG-TACACG
*
90942810 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-CAGGTACACATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCA-GTACACATAGTAGCCTGCAC
* ***
90942874 TTAGTACTACACATGCGACCAGTTATCTTGTACACG
63 TTAGTACTACACACGCGACCAACCATCTTGTACACG
*
90942910 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
90942943 TCACAATATC
Statistics
Matches: 116, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
99 30 0.26
100 44 0.38
101 42 0.36
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCAACCATCTTGTACACG
Found at i:90943624 original size:30 final size:30
Alignment explanation
Indices: 90943590--90943649 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
90943580 CTTTAATACG
90943590 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
90943620 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
90943650 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:90949806 original size:77 final size:77
Alignment explanation
Indices: 90949714--90949868 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
90949704 CGTGCACTAG
*
90949714 GCAGGGTCTTAGGAAAGGGAGGTGAGTCAAATTTGACCACTTAAAAACTAAGCCTTTCCTAGCCA
1 GCAGGGGCTTAGGAAAGGGAGGTGAGTCAAATTTGACCACTTAAAAACTAAGCCTTTCCTAGCCA
90949779 AAGCAAATCCCA
66 AAGCAAATCCCA
*
90949791 GCAGGGGCTTAGGAAAGGGAGGTGAGTCAAATTTGACCACTTAAAACCTAAGCCTTTCCTAGCCA
1 GCAGGGGCTTAGGAAAGGGAGGTGAGTCAAATTTGACCACTTAAAAACTAAGCCTTTCCTAGCCA
90949856 AAGCAAATCCCA
66 AAGCAAATCCCA
90949868 G
1 G
90949869 ACATGCACCT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (77 bp):
GCAGGGGCTTAGGAAAGGGAGGTGAGTCAAATTTGACCACTTAAAAACTAAGCCTTTCCTAGCCA
AAGCAAATCCCA
Found at i:90954487 original size:29 final size:29
Alignment explanation
Indices: 90954445--90954500 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
90954435 GGGTATTATG
90954445 GTTGAAACCACTACTAGTAAAGTTACTGT
1 GTTGAAACCACTACTAGTAAAGTTACTGT
90954474 GTTGAAACCACTACTAGTAAAGTTACT
1 GTTGAAACCACTACTAGTAAAGTTACT
90954501 AGTAAAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (29 bp):
GTTGAAACCACTACTAGTAAAGTTACTGT
Found at i:90959797 original size:22 final size:21
Alignment explanation
Indices: 90959756--90959798 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
90959746 ATTTGGTCCC
*
90959756 TTTTTGTCTCTTTTTATCTTG
1 TTTTTGTCTCTTTTGATCTTG
90959777 TTTTTG-CTCCTTTTGACTCTTG
1 TTTTTGTCT-CTTTTGA-TCTTG
90959799 GTGCTTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.05, C:0.19, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTTTGTCTCTTTTGATCTTG
Found at i:90960918 original size:54 final size:55
Alignment explanation
Indices: 90960849--90960980 Score: 135
Period size: 54 Copynumber: 2.5 Consensus size: 55
90960839 TCTAAACATA
* ** *** *
90960849 TACC-ACATAGGGGCAAAATAGTCAATTTACCATGTAGGGGCATTTCAGTTATTT
1 TACCTACATAAGGGCAAAATAGTCAATTTACCACATAGGGGCAAAACAGTCATTT
* * ***
90960903 TA-CTACATAAGGGCAAAACAATTTTTTTACCACATAGGGGCAAAACAGTCATTT
1 TACCTACATAAGGGCAAAATAGTCAATTTACCACATAGGGGCAAAACAGTCATTT
90960957 TACCT-CATAAGGGCAAAATAGTCA
1 TACCTACATAAGGGCAAAATAGTCA
90960981 TTTCATCAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
53 1 0.02
54 57 0.95
55 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (55 bp):
TACCTACATAAGGGCAAAATAGTCAATTTACCACATAGGGGCAAAACAGTCATTT
Found at i:90960930 original size:27 final size:27
Alignment explanation
Indices: 90960899--90960983 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
90960889 CATTTCAGTT
*
90960899 ATTTTACTACATAAGGGCAAAACAATT
1 ATTTTACTACATAAGGGCAAAACAATC
* * * *
90960926 TTTTTACCACATAGGGGCAAAACAGTC
1 ATTTTACTACATAAGGGCAAAACAATC
* *
90960953 ATTTTACCT-CATAAGGGCAAAATAGTC
1 ATTTTA-CTACATAAGGGCAAAACAATC
90960980 ATTT
1 ATTT
90960984 CATCAAATTG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
27 47 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (27 bp):
ATTTTACTACATAAGGGCAAAACAATC
Found at i:90964335 original size:33 final size:34
Alignment explanation
Indices: 90964265--90964336 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 34
90964255 CTCGTATTTA
*
90964265 TGATATTGTTACTGTAATGGGCTAAGTCCCACAC
1 TGATATTGTTACTGTAATAGGCTAAGTCCCACAC
*
90964299 TGATATTGTTACTGTAATAGGCTAAG-GCCACAC
1 TGATATTGTTACTGTAATAGGCTAAGTCCCACAC
90964332 TGATA
1 TGATA
90964337 CTAGGCTGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 11 0.31
34 25 0.69
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (34 bp):
TGATATTGTTACTGTAATAGGCTAAGTCCCACAC
Found at i:90983905 original size:15 final size:15
Alignment explanation
Indices: 90983866--90983896 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
90983856 AAATATGAAA
*
90983866 GATATATTTTGGATT
1 GATATGTTTTGGATT
90983881 GATATGTTTTGGATT
1 GATATGTTTTGGATT
90983896 G
1 G
90983897 GAATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:90991756 original size:93 final size:93
Alignment explanation
Indices: 90991648--90991818 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
90991638 GCCCCTAAGT
* * *
90991648 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90991713 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
90991741 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
90991806 CGAGTTCGGATGC
66 CGAGTTCGGATGC
90991819 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:90991815 original size:46 final size:46
Alignment explanation
Indices: 90991643--90991815 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
90991633 AAACCGCCCC
* * * *
90991643 TAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
90991689 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
90991737 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
90991782 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
90991816 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:90992272 original size:30 final size:30
Alignment explanation
Indices: 90992238--90992297 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
90992228 ATTTAATACG
90992238 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
90992268 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
90992298 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:91002680 original size:27 final size:27
Alignment explanation
Indices: 91002650--91002741 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
91002640 TTATTTACTT
*
91002650 GTAAAATGACTGAAATACCCCCATAGG
1 GTAAAATGACTGAAATACCCCTATAGG
*
91002677 GTAAAATGACTGAAATA-TCCTATAGG
1 GTAAAATGACTGAAATACCCCTATAGG
* * * * *
91002703 ATAAAATGACCGTAATACCCCTGTAAG
1 GTAAAATGACTGAAATACCCCTATAGG
*
91002730 GTAAAATAACTG
1 GTAAAATGACTG
91002742 TTTTGCCCTT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 21 0.40
27 32 0.60
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
GTAAAATGACTGAAATACCCCTATAGG
Found at i:91002708 original size:26 final size:27
Alignment explanation
Indices: 91002651--91002723 Score: 94
Period size: 26 Copynumber: 2.7 Consensus size: 27
91002641 TATTTACTTG
*
91002651 TAAAATGACTGAAATACCCCCATAGGG
1 TAAAATGACTGAAATACCCCCATAGGA
* *
91002678 TAAAATGACTGAAATA-TCCTATAGGA
1 TAAAATGACTGAAATACCCCCATAGGA
* *
91002704 TAAAATGACCGTAATACCCC
1 TAAAATGACTGAAATACCCC
91002724 TGTAAGGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 21 0.54
27 18 0.46
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCCCATAGGA
Found at i:91002799 original size:54 final size:54
Alignment explanation
Indices: 91002729--91002916 Score: 247
Period size: 54 Copynumber: 3.5 Consensus size: 54
91002719 ACCCCTGTAA
* * *
91002729 GGTAAAATAACTGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCACTTATGT
1 GGTAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCCCTTATGT
* * * * *
91002783 GATAAAATGACAGTTTTGGCCTTATGTGGTAAAATGACGGTTTTACCCTTATGT
1 GGTAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCCCTTATGT
* *
91002837 GGCAAAATGACTA-TTTTTCCC-T-TGTGTTAAAATGACGATTTTGCCCTTATGT
1 GGTAAAATGAC-AGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCCCTTATGT
*
91002889 GGTAAAATGACAGTTTTGCCCCTATGTG
1 GGTAAAATGACAGTTTTGCCCTTATGTG
91002917 ATGTATGTTT
Statistics
Matches: 113, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 44 0.39
53 2 0.02
54 65 0.58
55 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (54 bp):
GGTAAAATGACAGTTTTGCCCTTATGTGTTAAAATGACGATTTTGCCCTTATGT
Found at i:91002868 original size:25 final size:27
Alignment explanation
Indices: 91002729--91002916 Score: 206
Period size: 27 Copynumber: 7.0 Consensus size: 27
91002719 ACCCCTGTAA
*
91002729 GGTAAAATAACTG-TTTTGCCCTTATGT
1 GGTAAAATGAC-GATTTTGCCCTTATGT
* *
91002756 GTTAAAATGACGATTTTGCACTTATGT
1 GGTAAAATGACGATTTTGCCCTTATGT
* *
91002783 GATAAAATGAC-AGTTTTGGCCTTATGT
1 GGTAAAATGACGA-TTTTGCCCTTATGT
* *
91002810 GGTAAAATGACGGTTTTACCCTTATGT
1 GGTAAAATGACGATTTTGCCCTTATGT
* * *
91002837 GGCAAAATGACTATTTTTCCC-T-TGT
1 GGTAAAATGACGATTTTGCCCTTATGT
*
91002862 GTTAAAATGACGATTTTGCCCTTATGT
1 GGTAAAATGACGATTTTGCCCTTATGT
*
91002889 GGTAAAATGAC-AGTTTTGCCCCTATGT
1 GGTAAAATGACGA-TTTTGCCCTTATGT
91002916 G
1 G
91002917 ATGTATGTTT
Statistics
Matches: 135, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
25 20 0.15
26 5 0.04
27 110 0.81
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (27 bp):
GGTAAAATGACGATTTTGCCCTTATGT
Found at i:91003266 original size:18 final size:18
Alignment explanation
Indices: 91003240--91003276 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
91003230 GGACTTGCAT
* *
91003240 ACTGCTTACTGTTATTGC
1 ACTGATTACTGTTACTGC
91003258 ACTGATTACTGTTACTGC
1 ACTGATTACTGTTACTGC
91003276 A
1 A
91003277 ATGGGCGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (18 bp):
ACTGATTACTGTTACTGC
Found at i:91005217 original size:55 final size:54
Alignment explanation
Indices: 91005088--91005511 Score: 360
Period size: 55 Copynumber: 7.6 Consensus size: 54
91005078 TTGGTAAGAT
* *
91005088 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
91005142 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
** * *
91005197 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * * **
91005250 AAGGATATTTCATAAGACAAGGATACCATG-TAAGACCAT-G-TTTGGAACATGGCATTTGGA-A
1 AAGGATA--TCAT--G-TAA-G--ACCATGCCAAGA-CATGGCATT-G---AT-G-AGTTCTATA
**
91005311 AGAT
51 AGGC
* * * *
91005315 ACGGGTATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
91005369 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
** * *
91005424 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
91005477 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCA
91005512 ATGGTAAGTT
Statistics
Matches: 295, Mismatches: 49, Indels: 53
0.74 0.12 0.13
Matches are distributed among these distances:
52 8 0.03
53 45 0.15
54 85 0.29
55 91 0.31
56 8 0.03
57 10 0.03
58 7 0.02
59 6 0.02
60 7 0.02
61 10 0.03
63 5 0.02
64 1 0.00
65 11 0.04
66 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:91005263 original size:18 final size:18
Alignment explanation
Indices: 91005240--91005274 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91005230 CATTGGTGAG
*
91005240 TTCATAAGGCAAGGATAT
1 TTCATAAGACAAGGATAT
91005258 TTCATAAGACAAGGATA
1 TTCATAAGACAAGGATA
91005275 CCATGTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (18 bp):
TTCATAAGACAAGGATAT
Found at i:91005430 original size:227 final size:227
Alignment explanation
Indices: 91005035--91005483 Score: 871
Period size: 227 Copynumber: 2.0 Consensus size: 227
91005025 GCATTGGCAC
*
91005035 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATAAGGATATCATG
91005100 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
91005165 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
91005230 CATTGGTGAGTTCATAAGGCAAGGATATTTCA
196 CATTGGTGAGTTCATAAGGCAAGGATATTTCA
* *
91005262 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATACGGGTATCATG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATAAGGATATCATG
91005327 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
66 TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
91005392 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
131 CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
91005457 CATTGGTGAGTTCATAAGGCAAGGATA
196 CATTGGTGAGTTCATAAGGCAAGGATA
91005484 CCACGTAAGA
Statistics
Matches: 219, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 219 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (227 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGAAAGATAAGGATATCATG
TAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGT
CAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCATGTAAGACCATGCCAAGGCATGG
CATTGGTGAGTTCATAAGGCAAGGATATTTCA
Found at i:91005658 original size:17 final size:16
Alignment explanation
Indices: 91005625--91005658 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
91005615 CTTATTTAAT
*
91005625 ATTGAGATTGTAAGTA
1 ATTGAGATTATAAGTA
91005641 ATTGAGATTATCAAGTA
1 ATTGAGATTAT-AAGTA
91005658 A
1 A
91005659 GTGATAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATTGAGATTATAAGTA
Found at i:91011507 original size:25 final size:25
Alignment explanation
Indices: 91011477--91011530 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
91011467 CTGTAAACGA
* *
91011477 TAAGCTCCTCTGAGCTAAATAATGG
1 TAAGCTCCTCCGAGCTAAATAATAG
91011502 TAAGCTCCTCCGAGCTAAATAATAG
1 TAAGCTCCTCCGAGCTAAATAATAG
91011527 TAAG
1 TAAG
91011531 ATCATACGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (25 bp):
TAAGCTCCTCCGAGCTAAATAATAG
Found at i:91011540 original size:25 final size:25
Alignment explanation
Indices: 91011488--91011542 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
91011478 AAGCTCCTCT
* * * *
91011488 GAGCTAAATAATGGTAAGCTCCTCC
1 GAGCTAAATAATAGTAAGATCATAC
91011513 GAGCTAAATAATAGTAAGATCATAC
1 GAGCTAAATAATAGTAAGATCATAC
91011538 GAGCT
1 GAGCT
91011543 GAGTATCAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (25 bp):
GAGCTAAATAATAGTAAGATCATAC
Found at i:91020719 original size:21 final size:20
Alignment explanation
Indices: 91020695--91020744 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
91020685 AGTGTCATGG
91020695 CACAACCTGAGGATGTCGCGA
1 CACAACCTG-GGATGTCGCGA
*
91020716 CACAAGGCCTGGTATGTCGCGA
1 CACAA--CCTGGGATGTCGCGA
91020738 CATCAAC
1 CA-CAAC
91020745 TTTGTATAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.24
22 12 0.48
23 7 0.28
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (20 bp):
CACAACCTGGGATGTCGCGA
Found at i:91022697 original size:46 final size:49
Alignment explanation
Indices: 91022598--91022868 Score: 252
Period size: 46 Copynumber: 5.8 Consensus size: 49
91022588 ACACAATATG
*
91022598 AGAGCCAGTGTAAGACC-TG----GGACATGGCATCGGCATCGAGATG-
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGT
* * *
91022641 AGTGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGT
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGT
* *
91022688 A-AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCAG-CTGTGAGATGT
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCT-CGAGATGT
* * * **
91022734 ---GTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGTTATGT
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGT
* *
91022780 GAGAGCTAGTGTAAGACCATGTC-CGAGACATGGCATCGGCCTCGAAGATG-
1 -AGAGCCAGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTCG-AGATGT
* *
91022830 ATAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
91022869 ACCTTACCCA
Statistics
Matches: 186, Mismatches: 25, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
42 1 0.01
43 15 0.08
44 11 0.06
45 16 0.09
46 63 0.34
47 8 0.04
49 35 0.19
50 34 0.18
51 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (49 bp):
AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGT
Found at i:91022801 original size:50 final size:49
Alignment explanation
Indices: 91022736--91022869 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
91022726 TGAGATGTGT
* *
91022736 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATGGTTATG-TGAGAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCG--AAGATGAGAGC
* * * *
91022786 TAGTGTAAGACCATGTC-CGAGACATGGCATCGGCCTCGAAGATGATAGC
1 CAGTGTAAGACCATGTCTAG-GACATGGCATCGGCATCGAAGATGAGAGC
*
91022835 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
91022870 CCTTACCCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
48 2 0.03
49 37 0.51
50 33 0.46
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCGAAGATGAGAGC
Found at i:91022846 original size:99 final size:96
Alignment explanation
Indices: 91022596--91022869 Score: 293
Period size: 99 Copynumber: 2.9 Consensus size: 96
91022586 GGACACAATA
* *
91022596 TGAGAGCCAGTGTAAGACC-TG--G-GACATGGCATCGGCATCGAGATGAGTGCTAGTGTAAGA-
1 TGAGAGCCAGTGTAAGACCATGTCGAGACATGGCATCGGCCTCGAGATGA-TGCCAGTGTAAGAC
*
91022656 CATGTCTAGGACAT-GCATCGGCCTCGAGACG
65 CATGTCTAGGACATGGCATCGGCATCGAGACG
* * * *
91022687 T-A-AGCCAGTGTAAGA-CATGTCTAGGACAT-GCATCAG-CTGTGAGATG-TGTCAGTGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCGA-GACATGGCATCGGCCT-CGAGATGATGCCAGTGTAAGA
* ** *
91022746 CCATGTCTAGGACATGGCATCGGCATGGTTATG
64 CCATGTCTAGGACATGGCATCGGCATCGAGACG
*
91022779 TGAGAGCTAGTGTAAGACCATGTCCGAGACATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAG
1 TGAGAGCCAGTGTAAGACCATGT-CGAGACATGGCATCGGCCTCG-AGATGAT-GCCAGTGTAAG
*
91022844 ACCATGTCTGGGACATGGCATCGGCA
63 ACCATGTCTAGGACATGGCATCGGCA
91022870 CCTTACCCAT
Statistics
Matches: 149, Mismatches: 17, Indels: 26
0.78 0.09 0.14
Matches are distributed among these distances:
88 1 0.01
89 15 0.10
90 12 0.08
91 16 0.11
92 25 0.17
93 6 0.04
94 12 0.08
95 10 0.07
96 9 0.06
97 7 0.05
98 1 0.01
99 35 0.23
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTCGAGACATGGCATCGGCCTCGAGATGATGCCAGTGTAAGACC
ATGTCTAGGACATGGCATCGGCATCGAGACG
Found at i:91024378 original size:71 final size:71
Alignment explanation
Indices: 91024265--91024407 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
91024255 GATCCATGGT
*
91024265 TTAGTTAGTTCTAGGACTAACCTAGCGAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
1 TTAGTTAGTTCTAGGACTAACCTAGCAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
91024330 TAATAG
66 TAATAG
91024336 TTAGTTAGTTCTAGGACTAACCTAGCAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
1 TTAGTTAGTTCTAGGACTAACCTAGCAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
91024401 TAATAG
66 TAATAG
91024407 T
1 T
91024408 GTGACGATTT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (71 bp):
TTAGTTAGTTCTAGGACTAACCTAGCAAAAGTACGAGTCTAGCCATACATGCCATAAATATATAT
TAATAG
Found at i:91029588 original size:24 final size:25
Alignment explanation
Indices: 91029548--91029597 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
91029538 AGACACACGA
*
91029548 CTGTGTCGCTAGGCCGTGTGATAGC
1 CTGTGTCGCCAGGCCGTGTGATAGC
91029573 CTGTGTC-CCAGGCCGTGTGATAGC
1 CTGTGTCGCCAGGCCGTGTGATAGC
91029597 C
1 C
91029598 AAAATTTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.12, C:0.28, G:0.34, T:0.26
Consensus pattern (25 bp):
CTGTGTCGCCAGGCCGTGTGATAGC
Found at i:91030309 original size:16 final size:16
Alignment explanation
Indices: 91030288--91030353 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
91030278 GAATAACACC
91030288 GGCACTAAGCCTACTA
1 GGCACTAAGCCTACTA
*
91030304 GGCACTAAGCCTGAATAATA
1 GGCACTAAGCC----TACTA
*
91030324 CTGGCATTAAGCCTACTA
1 --GGCACTAAGCCTACTA
91030342 GGCACTAAGCCT
1 GGCACTAAGCCT
91030354 GAATAACATT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
16 22 0.55
18 4 0.10
20 4 0.10
22 10 0.25
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (16 bp):
GGCACTAAGCCTACTA
Found at i:91030329 original size:22 final size:22
Alignment explanation
Indices: 91030299--91030397 Score: 75
Period size: 22 Copynumber: 4.7 Consensus size: 22
91030289 GCACTAAGCC
91030299 TACTAGGCACTAAGCCTGAATAA
1 TACT-GGCACTAAGCCTGAATAA
* *
91030322 TACTGGCATTAAGCC----TAC
1 TACTGGCACTAAGCCTGAATAA
91030340 TA--GGCACTAAGCCTGAATAA
1 TACTGGCACTAAGCCTGAATAA
* * * *
91030360 CATTGGCGCTAAGCCTAAATAA
1 TACTGGCACTAAGCCTGAATAA
* *
91030382 CACTGACACTAAGCCT
1 TACTGGCACTAAGCCT
91030398 ACTAGGCACT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
16 10 0.17
18 4 0.07
20 3 0.05
22 39 0.65
23 4 0.07
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.22
Consensus pattern (22 bp):
TACTGGCACTAAGCCTGAATAA
Found at i:91030335 original size:38 final size:38
Alignment explanation
Indices: 91030271--91030376 Score: 149
Period size: 38 Copynumber: 2.8 Consensus size: 38
91030261 ACACCGGTAA
*
91030271 TAAGTCTGAATAACACCGGCACTAAGCCTACTAGGCAC
1 TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCAC
* * *
91030309 TAAGCCTGAATAATACTGGCATTAAGCCTACTAGGCAC
1 TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCAC
** *
91030347 TAAGCCTGAATAACATTGGCGCTAAGCCTA
1 TAAGCCTGAATAACACCGGCACTAAGCCTA
91030377 AATAACACTG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAGCCTGAATAACACCGGCACTAAGCCTACTAGGCAC
Found at i:91035689 original size:33 final size:34
Alignment explanation
Indices: 91035628--91035692 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
91035618 GTATGCATCT
91035628 CTGATACTGTACTGAAATGGGGCTAAGGCCCATA
1 CTGATACTGTACTGAAATGGGGCTAAGGCCCATA
*
91035662 CTGATACTGTTACTG-TAT-GGGCTAAGGCCCA
1 CTGATACTG-TACTGAAATGGGGCTAAGGCCCA
91035693 CAATGATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 13 0.45
34 11 0.38
35 5 0.17
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (34 bp):
CTGATACTGTACTGAAATGGGGCTAAGGCCCATA
Found at i:91035700 original size:33 final size:34
Alignment explanation
Indices: 91035629--91035700 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
91035619 TATGCATCTC
* *
91035629 TGATACTGTACTGAAATGGGGCTAAGGCCCATAC
1 TGATACTGTACTGAAATGGGGCTAAGGCCCACAA
*
91035663 TGATACTGTTACTG-TAT-GGGCTAAGGCCCACAA
1 TGATACTG-TACTGAAATGGGGCTAAGGCCCACAA
91035696 TGATA
1 TGATA
91035701 TTGCCACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 19 0.56
34 10 0.29
35 5 0.15
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (34 bp):
TGATACTGTACTGAAATGGGGCTAAGGCCCACAA
Found at i:91038619 original size:84 final size:84
Alignment explanation
Indices: 91038523--91038751 Score: 336
Period size: 83 Copynumber: 2.7 Consensus size: 84
91038513 GCAATAAGGC
*
91038523 TGCTAGACCTTTAAGTCCGATATTATTTCACCGGCATTACGCCTGCTCGGCTCAGAGCCCGATAA
1 TGCTAGACCTTTAAGTCCGATATTATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCCGATAA
91038588 TATTCACCAGCTTAAAGCT
66 TATTCACCAGCTTAAAGCT
* * * *
91038607 TGCTAGACCTTTAAGTCCGA-AATCTTTCACCGGCATTACACTTGCTAGGCTC-GAAGCCCGATA
1 TGCTAGACCTTTAAGTCCGATATTATTTCACCGGCATTACGCCTGCTAGGCTCAG-AGCCCGATA
91038670 ATATTCACCAGCTTAAAGCT
65 ATATTCACCAGCTTAAAGCT
* * * * * *
91038690 TGCTATACCTTTAAGCCCGATATCATTTCACTGGCATTATGCCTGCTAGGCTCAAAGCCCGA
1 TGCTAGACCTTTAAGTCCGATATTATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCCGA
91038752 AATTCATCAC
Statistics
Matches: 127, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
82 1 0.01
83 74 0.58
84 52 0.41
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (84 bp):
TGCTAGACCTTTAAGTCCGATATTATTTCACCGGCATTACGCCTGCTAGGCTCAGAGCCCGATAA
TATTCACCAGCTTAAAGCT
Found at i:91038651 original size:42 final size:43
Alignment explanation
Indices: 91038523--91038728 Score: 142
Period size: 41 Copynumber: 4.9 Consensus size: 43
91038513 GCAATAAGGC
* * * *
91038523 TGCTAGACCTTTAAGTCCGATATTATTTCACCGGCATT-ACGCC
1 TGCTAGACCTTTAAGCCCGATAAT-TTTCACCGGCATTAAAGCT
* * * * *
91038566 TGCTCG-GC-TCAGAGCCCGATAATATTCACCAGC-TTAAAGCT
1 TGCTAGACCTTTA-AGCCCGATAATTTTCACCGGCATTAAAGCT
* *
91038607 TGCTAGACCTTTAAGTCCGA-AATCTTTCACCGGCATTACA-CT
1 TGCTAGACCTTTAAGCCCGATAAT-TTTCACCGGCATTAAAGCT
* ** * *
91038649 TGCTAG-GCTCGAAGCCCGATAATATTCACCAGC-TTAAAGCT
1 TGCTAGACCTTTAAGCCCGATAATTTTCACCGGCATTAAAGCT
* *
91038690 TGCTATACCTTTAAGCCCGAT-ATCATTTCACTGGCATTA
1 TGCTAGACCTTTAAGCCCGATAAT--TTTCACCGGCATTA
91038729 TGCCTGCTAG
Statistics
Matches: 121, Mismatches: 30, Indels: 23
0.70 0.17 0.13
Matches are distributed among these distances:
40 6 0.05
41 47 0.39
42 47 0.39
43 18 0.15
44 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (43 bp):
TGCTAGACCTTTAAGCCCGATAATTTTCACCGGCATTAAAGCT
Found at i:91038692 original size:41 final size:42
Alignment explanation
Indices: 91038578--91038711 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
91038568 CTCGGCTCAG
**
91038578 AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTTTA
1 AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTCGA
* * * * *
91038620 AGTCCGA-AATCTTTCACCGGCATTACA-CTTGCTAG-GCTCGA
1 AGCCCGATAAT-ATTCACCAGC-TTAAAGCTTGCTAGACCTCGA
* **
91038661 AGCCCGATAATATTCACCAGCTTAAAGCTTGCTATACCTTTA
1 AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTCGA
91038703 AGCCCGATA
1 AGCCCGATA
91038712 TCATTTCACT
Statistics
Matches: 72, Mismatches: 15, Indels: 10
0.74 0.15 0.10
Matches are distributed among these distances:
40 4 0.06
41 27 0.38
42 37 0.51
43 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (42 bp):
AGCCCGATAATATTCACCAGCTTAAAGCTTGCTAGACCTCGA
Found at i:91049930 original size:57 final size:57
Alignment explanation
Indices: 91049831--91049946 Score: 196
Period size: 57 Copynumber: 2.0 Consensus size: 57
91049821 ATCACACTAT
* * *
91049831 ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATATTGATATTCTATATTAGTTAAG
1 ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
*
91049888 ATAGTTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
1 ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
91049945 AT
1 AT
91049947 TTTGTATTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.41
Consensus pattern (57 bp):
ATAGCTGATTCTTAGGAGATTAGTTACCTAAAATACTAATATTATATATTAGTTAAG
Found at i:91051351 original size:20 final size:20
Alignment explanation
Indices: 91051322--91051373 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
91051312 GAGGTAAAGC
91051322 ACACGCCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
91051342 ACACGTCCGTGTGCTTAGGG
1 ACACGCCCGTGTGCTTAGGG
*
91051362 ACACGCCTGTGT
1 ACACGCCCGTGT
91051374 CCCTCACTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.15, C:0.29, G:0.33, T:0.23
Consensus pattern (20 bp):
ACACGCCCGTGTGCTTAGGG
Found at i:91055276 original size:144 final size:142
Alignment explanation
Indices: 91055048--91055331 Score: 401
Period size: 144 Copynumber: 2.0 Consensus size: 142
91055038 ATGTTGAGAC
* * *
91055048 TGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTGTCTCAATGCTGATGCCATGTCCCAGA
1 TGATGCCATGTCCGAGACATGGTCTTACACTAGCTC-T-TCACAATGCCGATGCCATGTCCCAAA
* *
91055113 CATGGTTTTACACTAGCTCTCATAAT-GTGGCCAATGCCATGTCCCAGACATGGTCTTACACTAG
64 CATGGTCTTACACTAGCTCTCAT-ATCGTGGCCAATGCCATGTCCCAGACAGGGTCTTACACTAG
91055177 CGCACATATCAATGT
128 CGCACATATCAATGT
* * * *
91055192 TGATGCCATGTCCTAGACATGGTCTTATACTGGCTC-TCACAACATCGCCGATGCCATGTTCCAA
1 TGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTCAC-A-AT-GCCGATGCCATGTCCCAA
* *
91055256 ACATGGTCTTACACTGGCTCTCATATCGTGGCCGATGCCATGTCCCAGACAGGGTCTTACACTAG
63 ACATGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGACAGGGTCTTACACTAG
91055321 CGCACATATCA
128 CGCACATATCA
91055332 CCTAAATGTC
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
141 3 0.02
142 1 0.01
143 4 0.03
144 117 0.94
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (142 bp):
TGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTCACAATGCCGATGCCATGTCCCAAACA
TGGTCTTACACTAGCTCTCATATCGTGGCCAATGCCATGTCCCAGACAGGGTCTTACACTAGCGC
ACATATCAATGT
Found at i:91055330 original size:48 final size:48
Alignment explanation
Indices: 91054998--91055331 Score: 300
Period size: 48 Copynumber: 7.0 Consensus size: 48
91054988 AGGGTGAATT
* * * * * *
91054998 GCCGATGCTATGTTCCAAACATGGTCTTACACTGGCTCACATGT--TG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
* * ** *
91055044 AGACTGATGCCATGTCCGAGACATGGTCTTACACTAGCTCTTGTCTCAAT-
1 -G-CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATG
* * *
91055094 GCTGATGCCATGTCCCAGACATGGTTTTACACTAGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATG
* * *
91055142 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATG
** * * * * * *
91055190 GTTGATGCCATGTCCTAGACATGGTCTTATACTGGCTCTCACAACATC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
* * * *
91055238 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
* * *
91055286 GCCGATGCCATGTCCCAGACAGGGTCTTACACTAGCGCACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
91055332 CCTAAATGTC
Statistics
Matches: 229, Mismatches: 49, Indels: 17
0.78 0.17 0.06
Matches are distributed among these distances:
47 6 0.03
48 219 0.96
49 3 0.01
51 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATG
Found at i:91057516 original size:468 final size:463
Alignment explanation
Indices: 91056527--91057535 Score: 1192
Period size: 463 Copynumber: 2.2 Consensus size: 463
91056517 GAGCTGTTAC
* * *
91056527 ACTCCTACTTCGAGCAA-TTCAATCACATGCTCTATAGCAATGAAATCTTATTC-GACACATCCT
1 ACTCCTACTTCTAGCAACTT-AATCACATGCTCTATAGCAATGAAATCTTACTCTG-CACATCCC
* * * * * ** * *
91056590 TAACTTTTTCTTTATAACAATGAGATCATACTTTGTTTAGCCCAAACTCTTGCTTCAATCAACCT
64 AAACTCTTGCTTCATAACAATGAGATCATACTTCGCCTAACCCAAACTCTTGCTTCAATCAACCC
* * * **
91056655 AAATTCTAGGTCCATAATAGTGAAATCTTGCACTGTGCAGCCTTAGTTCTTGCTCCATAAATCCT
129 AAATTATAGGTCCATAATAGTGAAATCTTGCACTGTACAGCCTAAACTCTTGCTCCATAAATCCT
91056720 AATTCTAGCAATGCAAACTTCTACTCCATAACAAATAAATCTTACTCCAAGCATCTTCAACTCCT
194 AATTCTAGCAATGCAAACTTCTACTCCATAACAAATAAATCTTACTCCAAGCATCTTCAACTCCT
* * * *
91056785 ACTCCACAGTGGTAAAATCTTACTCTCCATAACCCAAAATCCTCTAATGAAATCTTACACGACAT
259 ACTCCAAAATGATAAAATCCTACTCTCCATAACCCAAAATCCTCTAATGAAATCTTACACGACAT
* * * ** * *
91056850 AGTTTGAACACCTATTCTGCTAAACTCGAACTTTTACTCCATAGAAATAAAATCTTTCTCCACCC
324 AGCTTGAACACCTACTCTGCTAAACCCGAACTCCTACTCCAGAGAAATAAAATCTTCCTCCACCC
* *** * * *
91056915 AGCCCAAGGTCTTACTCCCACCCAAATGGTGAAATCCTTTTTTGAGTAATTCGATCTCGTACTTA
389 AACCCAAGGTCTTACTCCCACCCAAACAATGAAATCCTTTTCTGAATAATTCGATCTCCTACTTA
*
91056980 ATAATGGCAA
454 ATAATAGCAA
* * * * *
91056990 ACCCCTACTT-TGAGCAACTCAATTAGATGCTCTATAGCAATGAAATCTTGCTCTGCACATCCCA
1 ACTCCTACTTCT-AGCAACTTAATCACATGCTCTATAGCAATGAAATCTTACTCTGCACATCCCA
* *
91057054 AACTCTTGCTTCATAACAGTGAGATTC-TAGTTCGCCTAACCCAAACTCTTGCTTC-ATGCAACC
65 AACTCTTGCTTCATAACAATGAGA-TCATACTTCGCCTAACCCAAACTCTTGCTTCAAT-CAACC
* * ** *
91057117 CAAATTATAGGTCTATAATAGTGAAATGTTGTTCTGTATAGCCTAAACTCTTGCTCCATAAATCC
128 CAAATTATAGGTCCATAATAGTGAAATCTTGCACTGTACAGCCTAAACTCTTGCTCCATAAATCC
* * * *
91057182 TACTT-TGAGCAATGCAAACTTCTGA-TCTATAACAATTAAATCTTACTCTAAGCATCTTCAACT
193 TAATTCT-AGCAATGCAAACTTCT-ACTCCATAACAAATAAATCTTACTCCAAGCATCTTCAACT
* * * * ** *
91057245 CTTGCTCTAAAATGATGAAATCCTACTCTTTATAACCCAAACTCCTTCTTATTAGTGAAATCTTA
256 CCTACTCCAAAATGATAAAATCCTACTCTCCATAACCCAAAATCC-TC-TA--A-TGAAATCTTA
* * *
91057310 CACGGCATAGCTTGAACTCCTACTCTGCTAAACCCGAACTCCTACTCCAGAGCAATAAAATCTTC
316 CACGACATAGCTTGAACACCTACTCTGCTAAACCCGAACTCCTACTCCAGAGAAATAAAATCTTC
* * * *
91057375 CTCCACCTAACCCAATGTCTTGCTCCCACCCAAGCAATGAAAT-CTTTCTCTGAATAATGT-GAA
381 CTCCACCCAACCCAAGGTCTTACTCCCACCCAAACAATGAAATCCTTT-TCTGAATAAT-TCG-A
*
91057438 T-TCCTACTTCATAATAGCAA
443 TCTCCTACTTAATAATAGCAA
* *
91057458 ACTCCTACTTCTAGCAACTTAATCACATGCTCTATAGCAATGAAACCTCACTCTGCACATCCCAA
1 ACTCCTACTTCTAGCAACTTAATCACATGCTCTATAGCAATGAAATCTTACTCTGCACATCCCAA
91057523 ACTCTTGCTTCAT
66 ACTCTTGCTTCAT
91057536 GCAACCCAAA
Statistics
Matches: 456, Mismatches: 74, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
462 3 0.01
463 241 0.53
464 7 0.02
465 2 0.00
467 5 0.01
468 194 0.43
469 4 0.01
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (463 bp):
ACTCCTACTTCTAGCAACTTAATCACATGCTCTATAGCAATGAAATCTTACTCTGCACATCCCAA
ACTCTTGCTTCATAACAATGAGATCATACTTCGCCTAACCCAAACTCTTGCTTCAATCAACCCAA
ATTATAGGTCCATAATAGTGAAATCTTGCACTGTACAGCCTAAACTCTTGCTCCATAAATCCTAA
TTCTAGCAATGCAAACTTCTACTCCATAACAAATAAATCTTACTCCAAGCATCTTCAACTCCTAC
TCCAAAATGATAAAATCCTACTCTCCATAACCCAAAATCCTCTAATGAAATCTTACACGACATAG
CTTGAACACCTACTCTGCTAAACCCGAACTCCTACTCCAGAGAAATAAAATCTTCCTCCACCCAA
CCCAAGGTCTTACTCCCACCCAAACAATGAAATCCTTTTCTGAATAATTCGATCTCCTACTTAAT
AATAGCAA
Found at i:91061835 original size:6 final size:6
Alignment explanation
Indices: 91061824--91061865 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
91061814 TATATTTTTA
*
91061824 AATATT AATATT AATATT AATAATT -TTAATT AATATT AATAT
1 AATATT AATATT AATATT AAT-ATT AAT-ATT AATATT AATAT
91061866 AAAATTATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
AATATT
Found at i:91067431 original size:19 final size:19
Alignment explanation
Indices: 91067401--91067446 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
91067391 CAAGTTAGCT
91067401 CTCATGTAGCTCCACACCAG
1 CTCAT-TAGCTCCACACCAG
***
91067421 CTCATTAGCTCGGGACCAG
1 CTCATTAGCTCCACACCAG
91067440 CTCATTA
1 CTCATTA
91067447 TCAGCTCACG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (19 bp):
CTCATTAGCTCCACACCAG
Found at i:91070233 original size:45 final size:44
Alignment explanation
Indices: 91070144--91070233 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
91070134 GAATTATGTA
*
91070144 ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGAC
** *
91070188 ATCTGAACTCATTGAGTTGTGGTCTGAGTTTGTGATATGTATGAC
1 ATCTGAACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGAC
91070233 A
1 A
91070234 CATGTTTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (44 bp):
ATCTGAACTCATTGAGTTGTGTCTGAGTTCATGATATATATGAC
Found at i:91075271 original size:31 final size:31
Alignment explanation
Indices: 91075236--91075306 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 31
91075226 ATGATGCTAG
*
91075236 AGATATTTTGATATTTTA-TAAT-TATTTAATT
1 AGATATTTTG-TATTTTATTAATAT-TTTAATA
** *
91075267 AGATAAATAGTATTTTATTAATATTTTAATA
1 AGATATTTTGTATTTTATTAATATTTTAATA
91075298 AGATATTTT
1 AGATATTTT
91075307 ATTATTATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
30 7 0.23
31 23 0.74
32 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (31 bp):
AGATATTTTGTATTTTATTAATATTTTAATA
Found at i:91075293 original size:11 final size:11
Alignment explanation
Indices: 91075277--91075321 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
91075267 AGATAAATAG
91075277 TATTTTATTAA
1 TATTTTATTAA
*
91075288 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
91075301 TATTTTATTAT
1 TATTTTATTAA
91075312 TATTTTATTA
1 TATTTTATTA
91075322 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:91077521 original size:46 final size:46
Alignment explanation
Indices: 91077454--91078416 Score: 1820
Period size: 46 Copynumber: 20.9 Consensus size: 46
91077444 GTGTGCTCTC
91077454 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077500 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077546 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077592 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077638 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077684 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077730 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077776 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077822 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077868 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077914 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91077960 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91078006 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91078052 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91078098 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91078144 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91078190 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91078236 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
91078282 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * ** *
91078328 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
91078374 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
91078417 TCATGTCAAA
Statistics
Matches: 906, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
45 1 0.00
46 905 1.00
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:91101526 original size:19 final size:19
Alignment explanation
Indices: 91101502--91101539 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
91101492 AACCCATTTG
91101502 TTAGTAGGTATATTGGAGC
1 TTAGTAGGTATATTGGAGC
91101521 TTAGTAGGTATATTGGAGC
1 TTAGTAGGTATATTGGAGC
91101540 ATTTTTGCGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.32, T:0.37
Consensus pattern (19 bp):
TTAGTAGGTATATTGGAGC
Found at i:91107904 original size:47 final size:47
Alignment explanation
Indices: 91107853--91107942 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
91107843 TTATTTGATG
** *
91107853 TATAGAAATTAATTTATCTATTTTTGAGAGATAAAATACAAATTACA
1 TATAGAAATTAATTTATCTATTTTCAAAAGATAAAATACAAATTACA
* * *
91107900 TATAGAAATTATTTTATTTATTTTCAAAAGATAAAATATAAAT
1 TATAGAAATTAATTTATCTATTTTCAAAAGATAAAATACAAAT
91107943 CTAACTCTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (47 bp):
TATAGAAATTAATTTATCTATTTTCAAAAGATAAAATACAAATTACA
Found at i:91108335 original size:21 final size:21
Alignment explanation
Indices: 91108309--91108364 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
91108299 AACAGCGGTG
*
91108309 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
91108330 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
91108351 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
91108365 AACAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:91111447 original size:32 final size:32
Alignment explanation
Indices: 91111407--91111559 Score: 216
Period size: 32 Copynumber: 4.8 Consensus size: 32
91111397 AAAAAATATG
* *
91111407 ATACATTAGGTTTACGTATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
91111439 ATACATTAGTTTTGCATATAAAAAAGTAGATA
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* *
91111471 ATACATTAGGTTCACATATAAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
* * *
91111503 ATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGTTTTACATATAAAAAAGTAGATC
*
91111535 ATACATTAGTTTTACATATTAAAAA
1 ATACATTAGTTTTACATATAAAAAA
91111560 CTAGCATAGT
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 105 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (32 bp):
ATACATTAGTTTTACATATAAAAAAGTAGATC
Found at i:91111492 original size:64 final size:64
Alignment explanation
Indices: 91111407--91111559 Score: 243
Period size: 64 Copynumber: 2.4 Consensus size: 64
91111397 AAAAAATATG
* *
91111407 ATACATTAGGTTTACGTATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAGATA
1 ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
* * *
91111471 ATACATTAGGTTCACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATGAAAAAGTAGATC
1 ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
* *
91111535 ATACATTAGTTTTACATATTAAAAA
1 ATACATTAGGTTTACATATAAAAAA
91111560 CTAGCATAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (64 bp):
ATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCAAATAAAAAAGTAGATA
Found at i:91112798 original size:18 final size:18
Alignment explanation
Indices: 91112775--91112810 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
91112765 ATAACACAAG
91112775 TGTAAGCATAAATCAGTA
1 TGTAAGCATAAATCAGTA
91112793 TGTAAGCATAAATCAGTA
1 TGTAAGCATAAATCAGTA
91112811 ATACAATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
TGTAAGCATAAATCAGTA
Found at i:91113887 original size:18 final size:19
Alignment explanation
Indices: 91113852--91113887 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
91113842 ATGATATTAA
91113852 TGATATACCTACAAGGTAG
1 TGATATACCTACAAGGTAG
91113871 TGATATACCTA-AAGGTA
1 TGATATACCTACAAGGTA
91113888 TGAAAACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (19 bp):
TGATATACCTACAAGGTAG
Found at i:91117746 original size:36 final size:35
Alignment explanation
Indices: 91117663--91117763 Score: 105
Period size: 36 Copynumber: 2.7 Consensus size: 35
91117653 AATGACCATT
*
91117663 AAAAATATTTTTAGATATTAAATTAAATAATATATAA
1 AAAAATATATTT--ATATTAAATTAAATAATATATAA
* * *
91117700 TAAAATATATTTATATTAACGTTAAATTATA-ATAA
1 AAAAATATATTTATATTAA-ATTAAATAATATATAA
91117735 AAAAATCATATTTATATTGAAAATTAAAT
1 AAAAAT-ATATTTATATT--AAATTAAAT
91117764 GTATAAAAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
35 16 0.30
36 20 0.37
37 16 0.30
38 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (35 bp):
AAAAATATATTTATATTAAATTAAATAATATATAA
Found at i:91146038 original size:40 final size:40
Alignment explanation
Indices: 91145993--91146231 Score: 397
Period size: 40 Copynumber: 6.0 Consensus size: 40
91145983 CTCGATATAT
*
91145993 TGTATATCCGGGTTAGATCCCGCAGGCTTAGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
*
91146033 TGTATATCCAGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
*
91146073 TGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
* * *
91146113 AGTATATCCGGGTTAAATCCTGCATGCTTAGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
* *
91146153 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
*
91146193 AGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 TGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
91146232 CTATATCCGG
Statistics
Matches: 183, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
TGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAA
Found at i:91146207 original size:120 final size:118
Alignment explanation
Indices: 91145994--91146272 Score: 405
Period size: 120 Copynumber: 2.3 Consensus size: 118
91145984 TCGATATATT
* * * *
91145994 GTATATCCGGGTTAGATCCCGCAGGCTTAGTGCTGGTAATGTATATCCAGGTTAAATCCCGCAGG
1 GTATATCCGGGTTAAATCCTGCAAGCTTAGTGCTGGTAATATATATCCAGGTTAAATCCCGCAGG
* *
91146059 CTTAGTGCTGGTAATGTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAA
66 CTTAGTGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT--A
* *
91146114 GTATATCCGGGTTAAATCCTGCATGCTTAGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGG
1 GTATATCCGGGTTAAATCCTGCAAGCTTAGTGCTGGTAATATATATCCAGGTTAAATCCCGCAGG
*
91146179 CTTCGTGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
66 CTTAGTGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
* * * *
91146232 CTATATCCGGGCCTAAAGTCCTGCAAGCTTTGTGCTAGTAA
1 GTATATCCGGG-TTAAA-TCCTGCAAGCTTAGTGCTGGTAA
91146273 CTGGATTCGG
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
118 11 0.08
119 4 0.03
120 129 0.90
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (118 bp):
GTATATCCGGGTTAAATCCTGCAAGCTTAGTGCTGGTAATATATATCCAGGTTAAATCCCGCAGG
CTTAGTGCTGGTAAAGTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
Found at i:91161418 original size:30 final size:31
Alignment explanation
Indices: 91161347--91161429 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
91161337 CTTTTGTTTC
* *
91161347 AATTTCTTTTTCA-TCTTCTTTTCCACTCTCA
1 AATTTCTTTTTCATTC-TCTTTTTCAATCTCA
91161378 AATTTC-TTTTCATTCTCTTTTTCAATCTC-
1 AATTTCTTTTTCATTCTCTTTTTCAATCTCA
* * *
91161407 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTCATTCTCTTTTT
91161430 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.23, G:0.00, T:0.64
Consensus pattern (31 bp):
AATTTCTTTTTCATTCTCTTTTTCAATCTCA
Found at i:91161447 original size:12 final size:12
Alignment explanation
Indices: 91161432--91161462 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
91161422 TTCTTTTTGC
91161432 TTTTCAAAGGCT
1 TTTTCAAAGGCT
91161444 TTTTCAAAGGCT
1 TTTTCAAAGGCT
91161456 TTTTCAA
1 TTTTCAA
91161463 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:91161520 original size:5 final size:5
Alignment explanation
Indices: 91161510--91161566 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
91161500 CTCTTGCCTC
*
91161510 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
91161557 TCTTT TCTTT
1 TCTTT TCTTT
91161567 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:91161550 original size:15 final size:14
Alignment explanation
Indices: 91161510--91161566 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
91161500 CTCTTGCCTC
*
91161510 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
91161525 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
91161540 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
91161557 TCTTTTCTTT
1 TCTTTTCTTT
91161567 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:91161576 original size:21 final size:20
Alignment explanation
Indices: 91161508--91161577 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
91161498 GCCTCTTGCC
91161508 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
91161531 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
91161551 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
91161571 TCTCTTT
1 TCTCTTT
91161578 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:91161652 original size:93 final size:93
Alignment explanation
Indices: 91161543--91161735 Score: 359
Period size: 93 Copynumber: 2.1 Consensus size: 93
91161533 TTTTTCTTCT
*
91161543 TTTGCTTTTTCTTTTCTTTTCTTTATTTTCTCTTTACAAGAATGTACAAAAGAACGATGAGAATA
1 TTTGCGTTTTCTTTTCTTTTCTTTATTTTCTCTTTACAAGAATGTACAAAAGAACGATGAGAATA
*
91161608 CAAATCTTGTTCAAAAGATGAAGAACTG
66 CAAATCTTGTTCAAAAGATGAAGAACTA
91161636 TTTGCGTTTTCTTTTCTTTTCTTTATTTTCTCTTTACAAGAATGTACAAAAGAACGATGAGAATA
1 TTTGCGTTTTCTTTTCTTTTCTTTATTTTCTCTTTACAAGAATGTACAAAAGAACGATGAGAATA
*
91161701 CAAATCTTGTTCGAAAGATGAAGAACTA
66 CAAATCTTGTTCAAAAGATGAAGAACTA
91161729 TTTGCGT
1 TTTGCGT
91161736 ATGATTCACA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 97 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (93 bp):
TTTGCGTTTTCTTTTCTTTTCTTTATTTTCTCTTTACAAGAATGTACAAAAGAACGATGAGAATA
CAAATCTTGTTCAAAAGATGAAGAACTA
Found at i:91162585 original size:73 final size:73
Alignment explanation
Indices: 91162498--91162647 Score: 266
Period size: 73 Copynumber: 2.1 Consensus size: 73
91162488 AATCAAGATT
* * *
91162498 TCAA-ATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAACATGCATTGGGTCTCCAT
1 TCAACATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAACGCATTGGATCTCCAT
91162562 TACGAGCG
66 TACGAGCG
91162570 TCAACATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAACGCATTGGATCTCCAT
1 TCAACATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAACGCATTGGATCTCCAT
91162635 TACGAGCG
66 TACGAGCG
91162643 TCAAC
1 TCAAC
91162648 GACCCAATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 4 0.05
73 70 0.95
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (73 bp):
TCAACATCTTGGAAATCTTGGTCCAAGAAACCAAATCTTGCAGCCAAAACGCATTGGATCTCCAT
TACGAGCG
Found at i:91163011 original size:56 final size:56
Alignment explanation
Indices: 91162941--91163053 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
91162931 TTGTTGGAGG
91162941 CCTATATAAGCATTGGCCAGCCACCCTTTGTAAACACATCTTATTATTTTTTTTCT
1 CCTATATAAGCATTGGCCAGCCACCCTTTGTAAACACATCTTATTATTTTTTTTCT
91162997 CCTATATAAGCATTGGCCAGCCACCCTTTGTAAACACATCTTATTATTTTTTTTCT
1 CCTATATAAGCATTGGCCAGCCACCCTTTGTAAACACATCTTATTATTTTTTTTCT
91163053 C
1 C
91163054 TCAAGTTTCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.25, C:0.26, G:0.09, T:0.41
Consensus pattern (56 bp):
CCTATATAAGCATTGGCCAGCCACCCTTTGTAAACACATCTTATTATTTTTTTTCT
Found at i:91165408 original size:30 final size:30
Alignment explanation
Indices: 91165374--91165470 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
91165364 AGCTCACTCC
91165374 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * *
91165404 TAGCTCAACTTCAGCTTA-GCAGTTTAATCT
1 TAGCTCAACTTCAGCTCACG-AGCTAAACCT
* * *
91165434 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
91165464 TAGCTCA
1 TAGCTCA
91165471 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
29 2 0.04
30 50 0.94
31 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:91165840 original size:34 final size:34
Alignment explanation
Indices: 91165802--91165913 Score: 97
Period size: 34 Copynumber: 3.3 Consensus size: 34
91165792 ATTTGTCAAA
91165802 TACATGAATGTTTGGGTTCAAATGCACATTCGGT
1 TACATGAATGTTTGGGTTCAAATGCACATTCGGT
* * * ***
91165836 TACATGAATG-ATGAAGATTCATGCATGCACA---AAA
1 TACATGAATGTTTG--GGTTCA--AATGCACATTCGGT
91165870 TACATGAATGTTTGGGTTCAAATGCACATTCGGT
1 TACATGAATGTTTGGGTTCAAATGCACATTCGGT
*
91165904 AACATGAATG
1 TACATGAATG
91165914 ATAAAGATTC
Statistics
Matches: 57, Mismatches: 13, Indels: 16
0.66 0.15 0.19
Matches are distributed among these distances:
31 7 0.12
33 7 0.12
34 29 0.51
35 7 0.12
37 7 0.12
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (34 bp):
TACATGAATGTTTGGGTTCAAATGCACATTCGGT
Found at i:91165894 original size:68 final size:68
Alignment explanation
Indices: 91165799--91165927 Score: 240
Period size: 68 Copynumber: 1.9 Consensus size: 68
91165789 TGTATTTGTC
* *
91165799 AAATACATGAATGTTTGGGTTCAAATGCACATTCGGTTACATGAATGATGAAGATTCATGCATGC
1 AAATACATGAATGTTTGGGTTCAAATGCACATTCGGTAACATGAATGATAAAGATTCATGCATGC
91165864 ACA
66 ACA
91165867 AAATACATGAATGTTTGGGTTCAAATGCACATTCGGTAACATGAATGATAAAGATTCATGC
1 AAATACATGAATGTTTGGGTTCAAATGCACATTCGGTAACATGAATGATAAAGATTCATGC
91165928 TTGAATGTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.29
Consensus pattern (68 bp):
AAATACATGAATGTTTGGGTTCAAATGCACATTCGGTAACATGAATGATAAAGATTCATGCATGC
ACA
Found at i:91168156 original size:47 final size:47
Alignment explanation
Indices: 91168104--91168196 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
91168094 ATATGTGCCG
*
91168104 TCCAAAGGAAATGTATGACACTAATCCATATGCATGTATCCAAGCCA
1 TCCAAAAGAAATGTATGACACTAATCCATATGCATGTATCCAAGCCA
*
91168151 TCCAAAAGAAATGTATGACATTAATCCATATGCATGTATCCAAGCC
1 TCCAAAAGAAATGTATGACACTAATCCATATGCATGTATCCAAGCC
91168197 GCCCAAGTGC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
TCCAAAAGAAATGTATGACACTAATCCATATGCATGTATCCAAGCCA
Found at i:91169795 original size:30 final size:30
Alignment explanation
Indices: 91169759--91170035 Score: 277
Period size: 30 Copynumber: 9.2 Consensus size: 30
91169749 AGATCACTTC
91169759 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
91169789 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
*
91169819 CAGCTCAACTTTAGCTCACGAGCTAAACCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * * * * *
91169849 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
*
91169879 CAGCTCAACTTTAGCTCACGAGCTAAACCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * * * * *
91169909 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
*
91169939 CAGCTCAACTTTAGCTCACGAGCTAAACCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * * * * *
91169969 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
91169999 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
91170029 TAGCTCA
1 TAGCTCA
91170036 TTTTAGTTTA
Statistics
Matches: 190, Mismatches: 56, Indels: 2
0.77 0.23 0.01
Matches are distributed among these distances:
29 1 0.01
30 189 0.99
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:91169853 original size:60 final size:60
Alignment explanation
Indices: 91169760--91170035 Score: 527
Period size: 60 Copynumber: 4.6 Consensus size: 60
91169750 GATCACTTCT
91169760 AGCTCATA-TTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
1 AGCTCA-ACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
91169820 AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
1 AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
91169880 AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
1 AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
91169940 AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
1 AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
*
91170000 AGCTCAACTTTAGCTCACGAGCTAAAGCTTAGCTCA
1 AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCA
91170036 TTTTAGTTTA
Statistics
Matches: 214, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
59 1 0.00
60 213 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (60 bp):
AGCTCAACTTTAGCTCACGAGCTAAACCTTAGCTCAACTTCAGCTTAGGAGTTTAATCTC
Found at i:91176952 original size:27 final size:27
Alignment explanation
Indices: 91176921--91177098 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
91176911 TAAATTGTAC
91176921 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
91176948 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
91176974 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
91177002 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
91177030 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
91177057 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
91177084 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
91177099 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:91177035 original size:82 final size:81
Alignment explanation
Indices: 91176922--91177077 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
91176912 AAATTGTACA
* *
91176922 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
91176986 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
91177003 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
91177068 TGCGAGTTGA
65 TGCGAATTGA
91177078 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:91177089 original size:82 final size:81
Alignment explanation
Indices: 91176918--91177098 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
91176908 GATTAAATTG
* *
91176918 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
91176983 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
91176999 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
91177063 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
91177081 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
91177099 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:91182575 original size:19 final size:19
Alignment explanation
Indices: 91182551--91182608 Score: 53
Period size: 25 Copynumber: 2.7 Consensus size: 19
91182541 AATCAGAATT
*
91182551 AGAATCAAAATTAGGTGAC
1 AGAATCAAAATTAGGTAAC
91182570 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCA-AA--A-T-T-AGGTAAC
91182595 AGAATCAAAATTAG
1 AGAATCAAAATTAG
91182609 AATCTGTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
19 9 0.28
20 3 0.09
21 1 0.03
22 2 0.06
23 1 0.03
24 3 0.09
25 13 0.41
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (19 bp):
AGAATCAAAATTAGGTAAC
Done.