Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 105 of 208
Found at i:31865547 original size:22 final size:21
Alignment explanation
Indices: 31865522--31865590 Score: 52
Period size: 22 Copynumber: 3.2 Consensus size: 21
31865512 ATTAAAATAT
31865522 TTAATTTTAAAAAGTTATATAA
1 TTAA-TTTAAAAAGTTATATAA
**
31865544 TTAAATCGAACAATA-TTA-ATAA
1 TT-AATTTAA-AA-AGTTATATAA
* *
31865566 TTGAGTTAAAAAGTTATATAA
1 TTAATTTAAAAAGTTATATAA
31865587 TTAA
1 TTAA
31865591 ATCGAACAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 11
0.66 0.13 0.21
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 10 0.29
22 11 0.31
23 7 0.20
24 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (21 bp):
TTAATTTAAAAAGTTATATAA
Found at i:31865576 original size:43 final size:43
Alignment explanation
Indices: 31865528--31865614 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
31865518 ATATTTAATT
31865528 TTAAAAAGTTATATAATTAAATCGAACAATATTAATAATTGAG
1 TTAAAAAGTTATATAATTAAATCGAACAATATTAATAATTGAG
31865571 TTAAAAAGTTATATAATTAAATCGAACAATATTAATAATTGAG
1 TTAAAAAGTTATATAATTAAATCGAACAATATTAATAATTGAG
31865614 T
1 T
31865615 GACCAAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.36
Consensus pattern (43 bp):
TTAAAAAGTTATATAATTAAATCGAACAATATTAATAATTGAG
Found at i:31865609 original size:22 final size:22
Alignment explanation
Indices: 31865540--31865610 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
31865530 AAAAAGTTAT
31865540 ATAATTAAATCGAACAATATTA
1 ATAATTAAATCGAACAATATTA
* * *
31865562 ATAATTGAGT-TAA-AA-AGTTA
1 ATAATTAAATCGAACAATA-TTA
31865582 TATAATTAAATCGAACAATATTA
1 -ATAATTAAATCGAACAATATTA
31865605 ATAATT
1 ATAATT
31865611 GAGTGACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 10 0.26
22 16 0.42
23 5 0.13
24 1 0.03
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAATTAAATCGAACAATATTA
Found at i:31865913 original size:25 final size:25
Alignment explanation
Indices: 31865885--31865934 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
31865875 TTTAGAACTG
*
31865885 AAATCAACAGATTTTATGGAAAGTT
1 AAATCAACAGATTTTAAGGAAAGTT
31865910 AAATCAACAGATTTTAAGGAAAGTT
1 AAATCAACAGATTTTAAGGAAAGTT
31865935 TTAGTAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (25 bp):
AAATCAACAGATTTTAAGGAAAGTT
Found at i:31870685 original size:16 final size:16
Alignment explanation
Indices: 31870648--31870689 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
31870638 TTAATCATAT
*
31870648 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
31870664 TT-AAATATATTATAA
1 TTAAAATATATTATAA
31870679 TTAAAATATAT
1 TTAAAATATAT
31870690 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:31870696 original size:14 final size:15
Alignment explanation
Indices: 31870657--31870698 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31870647 TTTAAACATA
*
31870657 ATTATTATTAAATAT
1 ATTATAATTAAATAT
31870672 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
31870686 A-TATAATTTAATA
1 ATTATAATTAAATA
31870699 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:31870748 original size:61 final size:61
Alignment explanation
Indices: 31870683--31870873 Score: 205
Period size: 61 Copynumber: 3.2 Consensus size: 61
31870673 TTATAATTAA
31870683 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
31870744 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
31870803 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
31870864 AATATATAAT
1 AATATATAAT
31870874 ACTATAAAAG
Statistics
Matches: 99, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
58 3 0.03
59 30 0.30
60 23 0.23
61 40 0.40
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:31870796 original size:120 final size:121
Alignment explanation
Indices: 31870651--31870943 Score: 509
Period size: 120 Copynumber: 2.4 Consensus size: 121
31870641 ATCATATTTA
31870651 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
31870716 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAAGATAAATTG
*
31870771 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
31870836 TATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAAGATAAATTG
* * *
31870892 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
31870944 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 163 0.99
121 2 0.01
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAAAGATAAATTG
Found at i:31870816 original size:14 final size:15
Alignment explanation
Indices: 31870767--31870818 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31870757 ATAAAATATA
31870767 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
31870782 TATTAAATATATTAT
1 AATTAAATATATTAT
31870797 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
31870810 AATTTAATA
1 AATTAAATA
31870819 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:31870990 original size:101 final size:93
Alignment explanation
Indices: 31870884--31871166 Score: 317
Period size: 91 Copynumber: 3.0 Consensus size: 93
31870874 ACTATAAAAG
* * * *
31870884 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* *
31870948 ATAATTATAACTAATAAATTATCTTATATGAATTTGT
62 -T--CT-TAA-TAATAAATTATCTTATATGAATTTAT
* *
31870985 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
* *
31871048 GATAATAAATTTTCTTATATGAATTTAT
66 AATAATAAATTATCTTATATGAATTTAT
* *
31871076 ACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
31871139 AATAATAAAATGT-TCTTATATGAATTTA
66 AATAAT-AAAT-TATCTTATATGAATTTA
31871167 CTAAAATCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 15
0.85 0.08 0.08
Matches are distributed among these distances:
91 88 0.54
92 21 0.13
93 2 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 48 0.29
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (93 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTCTT
AATAATAAATTATCTTATATGAATTTAT
Found at i:31871013 original size:26 final size:28
Alignment explanation
Indices: 31870984--31871044 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
31870974 TATGAATTTG
*
31870984 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
31871010 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
31871038 TAAAATT
1 TATAATT
31871045 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:31871042 original size:47 final size:46
Alignment explanation
Indices: 31870991--31871134 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
31870981 TTGTATAATT
31870991 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
31871038 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
31871082 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
31871129 TAAAAT
1 TAAAAT
31871135 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:31871054 original size:91 final size:90
Alignment explanation
Indices: 31870959--31871166 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
31870949 TAATTATAAC
* * * *
31870959 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
31871024 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
31871050 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
31871115 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
31871141 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
31871167 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:31871126 original size:44 final size:43
Alignment explanation
Indices: 31870984--31871126 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
31870974 TATGAATTTG
* *
31870984 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
31871028 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
31871075 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
31871119 TATAATTT
1 TATAATTT
31871127 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:31871141 original size:47 final size:47
Alignment explanation
Indices: 31871009--31871147 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
31870999 TTATTATTAC
* *
31871009 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
31871056 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
31871100 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
31871147 A
1 A
31871148 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:31874190 original size:28 final size:28
Alignment explanation
Indices: 31874146--31874217 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
31874136 TTTATAAATT
31874146 ATAAATTTTTTTCGTCTATAGCAATTTAC
1 ATAAA-TTTTTTCGTCTATAGCAATTTAC
*
31874175 ATAAATTTTTTCGTCTATAGCAATTTGC
1 ATAAATTTTTTCGTCTATAGCAATTTAC
31874203 ATAAA-TTTTTCGTCT
1 ATAAATTTTTTCGTCT
31874218 TCGGAATTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 10 0.24
28 27 0.64
29 5 0.12
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (28 bp):
ATAAATTTTTTCGTCTATAGCAATTTAC
Found at i:31876215 original size:13 final size:13
Alignment explanation
Indices: 31876197--31876224 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31876187 CAATACAGGC
31876197 AAGAACCGAAACA
1 AAGAACCGAAACA
31876210 AAGAACCGAAACA
1 AAGAACCGAAACA
31876223 AA
1 AA
31876225 TAATGCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.21, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAACCGAAACA
Found at i:31876951 original size:30 final size:30
Alignment explanation
Indices: 31876915--31877004 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
31876905 TTGGTTTAAT
*
31876915 GTGTAATTATATACATGAAATTTTAATTTG
1 GTGTAATTATATACATGAAACTTTAATTTG
* *
31876945 GTGTAATTATACACGTGAAACTTTAATTGTG
1 GTGTAATTATATACATGAAACTTTAATT-TG
* *
31876976 GT-TCAAATATATACTTGAAACTTTAATTT
1 GTGT-AATTATATACATGAAACTTTAATTT
31877005 TGATTTAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 27 0.52
31 25 0.48
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (30 bp):
GTGTAATTATATACATGAAACTTTAATTTG
Found at i:31881617 original size:20 final size:20
Alignment explanation
Indices: 31881592--31881630 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31881582 TACTTTCTTC
31881592 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
31881612 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
31881631 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:31887439 original size:50 final size:50
Alignment explanation
Indices: 31887309--31887447 Score: 161
Period size: 50 Copynumber: 2.8 Consensus size: 50
31887299 TACTACAAAT
* * * * ** * * *
31887309 GCCATATCCCAGATATGGTCTTATATGAGAGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATATCGGTACCAAC
* *
31887359 GCCATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTACCAAC
1 GCCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATATCGGTACCAAC
* *
31887409 GCCATGTCCCAGACATGGTCTTACGTGGGACCTTTCATA
1 GCCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATA
31887448 ACCTCAATAA
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTATGTGGGACCTCTCATATCGGTACCAAC
Found at i:31893537 original size:16 final size:16
Alignment explanation
Indices: 31893516--31893584 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
31893506 TTGGTTCGCT
31893516 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
31893532 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGGC
*
31893548 GTAATGGATTAGAGGC
1 GTAATGGAATAGAGGC
* *
31893564 ATAATGGATTAGAGGC
1 GTAATGGAATAGAGGC
31893580 GTAAT
1 GTAAT
31893585 AGCAATTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:31893838 original size:18 final size:17
Alignment explanation
Indices: 31893817--31893851 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31893807 TTATTATTAA
*
31893817 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
31893835 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31893852 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31893977 original size:17 final size:17
Alignment explanation
Indices: 31893937--31893970 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31893927 TTATTATTAA
31893937 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31893954 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31893971 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31894006 original size:119 final size:119
Alignment explanation
Indices: 31893793--31894256 Score: 561
Period size: 119 Copynumber: 4.0 Consensus size: 119
31893783 TAATTTAATC
*
31893793 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATAATTTAATAAAATTCTTAA
* * *
31893858 TAATCAATATTCTTATCTGAATTTACTAAAATAATAATATATGATACTATAAAAT
65 TAATAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACTATAAAAT
31893913 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAAT
1 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAAT
* * * *
31893978 ATTAAATATTCTTATATGAATTTTCTAAAATCATACTATATAATACTATAAAAT
66 AATAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACTATAAAAT
* * *
31894032 ATAATTTAACATAATTATTATTAAATATAATTTAATAAAAT-TCTTAATATT-A-AATATTCTT-
1 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAT-ATAAT-TTAATAAAATTCTTA
* * * * *
31894093 AT-AT-GA-A-T-TTA-ATAAAATTA-T--AAT-AT-ATA-ATACTA-TATAATAT
64 ATAATAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACTATAAAAT
* *
31894136 A-A-TTTAAAAGAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAA
* * * *
31894199 TATTAAATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAAT
65 TAATAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACTATAAAAT
31894254 ATA
1 ATA
31894257 GATTAATAAT
Statistics
Matches: 293, Mismatches: 30, Indels: 43
0.80 0.08 0.12
Matches are distributed among these distances:
102 32 0.11
103 11 0.04
104 17 0.06
105 7 0.02
106 3 0.01
107 3 0.01
108 4 0.01
109 1 0.00
110 4 0.01
111 13 0.04
112 4 0.01
113 1 0.00
114 4 0.01
115 3 0.01
116 4 0.01
117 7 0.02
118 16 0.05
119 123 0.42
120 36 0.12
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (119 bp):
ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAAT
AATAAATATTCTTATATGAATTTACTAAAATAATAATATATAATACTATAAAAT
Found at i:31894018 original size:102 final size:102
Alignment explanation
Indices: 31893932--31894173 Score: 335
Period size: 102 Copynumber: 2.4 Consensus size: 102
31893922 CATAATTATT
*
31893932 ATTAAATATAATTTAATA-AAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
1 ATTAAACATAA-TTAATATAAA-ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATG
** *
31893996 AATTTTCTAAAATCATACTATATAATACTATAAAATATA
64 AATTTAATAAAATCATAATATATAATACTATAAAATATA
* * *
31894035 ATTTAACATAATTATTATTAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAA
1 ATTAAACATAATTAATATAAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAA
* *
31894100 TTTAATAAAATTATAATATATAATACTATATAATATA
66 TTTAATAAAATCATAATATATAATACTATAAAATATA
* * *
31894137 ATTTAAA-AGAATTATTATTAAATATAATTTAATAAAA
1 A-TTAAACATAATTAATATAAAATATAATTTAATAAAA
31894174 ATATATAATT
Statistics
Matches: 126, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
102 111 0.88
103 15 0.12
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (102 bp):
ATTAAACATAATTAATATAAAATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAA
TTTAATAAAATCATAATATATAATACTATAAAATATA
Found at i:31894073 original size:26 final size:26
Alignment explanation
Indices: 31894028--31894173 Score: 85
Period size: 26 Copynumber: 5.7 Consensus size: 26
31894018 TAATACTATA
* *
31894028 AAATATAATTTAACATAATTATTATT
1 AAATATAATTTAATAAAATTATTATT
*
31894054 AAATATAATTTAATAAAATTCTTAATATT
1 AAATATAATTTAATAAAA---TTATTATT
* * *
31894083 AAATAT--TCTT-ATATGAATT-TAATA
1 AAATATAAT-TTAATA-AAATTATTATT
* * *
31894107 AAATTATAATAT-ATAATACTA-TA-T
1 AAA-TATAATTTAATAAAATTATTATT
31894131 -AATATAATTTAA-AAGAATTATTATT
1 AAATATAATTTAATAA-AATTATTATT
31894156 AAATATAATTTAATAAAA
1 AAATATAATTTAATAAAA
31894174 ATATATAATT
Statistics
Matches: 89, Mismatches: 16, Indels: 30
0.66 0.12 0.22
Matches are distributed among these distances:
22 9 0.10
23 6 0.07
24 7 0.08
25 9 0.10
26 34 0.38
27 7 0.08
28 4 0.04
29 13 0.15
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
AAATATAATTTAATAAAATTATTATT
Found at i:31894104 original size:38 final size:37
Alignment explanation
Indices: 31894047--31894238 Score: 138
Period size: 38 Copynumber: 4.9 Consensus size: 37
31894037 TTAACATAAT
31894047 TATTATTAAATATAATTTAATAAAATTCTTAATATTAAA
1 TATTATT--ATATAATTTAATAAAATTCTTAATATTAAA
* *
31894086 TATTCTTATATGAATTTAATAAAATT-ATAATA-TATAA
1 TATTATTATAT-AATTTAATAAAATTCTTAATATTA-AA
* * * *
31894123 TACTATATAATATAATTTAAAAGAATTATTATTAAATATAATTTAA
1 TA-T-TATTATATAATTTAATA-AA--ATTCTT--A-AT-ATTAAA
** *
31894169 TAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 TATTATTATATAATTTAATAAAATTCTTAATATTAAA
* *
31894206 TATTCTTATATGAATTTAATAAAA-TCATAATAT
1 TATTATTATAT-AATTTAATAAAATTCTTAATAT
31894239 ATAATACTAT
Statistics
Matches: 120, Mismatches: 19, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
36 2 0.02
37 33 0.28
38 37 0.31
39 15 0.12
41 8 0.07
42 1 0.01
43 2 0.02
44 14 0.12
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (37 bp):
TATTATTATATAATTTAATAAAATTCTTAATATTAAA
Found at i:31894208 original size:73 final size:72
Alignment explanation
Indices: 31893909--31894208 Score: 176
Period size: 73 Copynumber: 4.1 Consensus size: 72
31893899 TGATACTATA
* * *
31893909 AAATATATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTC
1 AAATATAATTTAAAAGAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT-
31893973 TTAATATT
65 TTAATATT
* * * * * *
31893981 AAATAT--TCTTATATGAATT-TTCTAAAATCATACTATATAATACTATAAA-ATATAATTTAAC
1 AAATATAAT-TTAAAAGAATTATTATTAAAT-ATA--ATTTAATA--A-AAATATATAATTTAAT
* *
31894042 ATAA--TTATTATT
59 AAAATTTTAATATT
* ** **
31894054 AAATATAATTTAATAA-AATTCTTAATATTAAATAT--TCTT-ATATGAAT-T-TAATAAAATTA
1 AAATATAATTTAA-AAGAA---TTATTATTAAATATAAT-TTAATAAAAATATATAATTTAA-TA
* *
31894113 TAATATATAATACTAT
60 AAAT-TTTAATA-T-T
31894129 ATAATATAATTTAAAAGAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
1 A-AATATAATTTAAAAGAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT
31894194 CTTAATATT
65 -TTAATATT
31894203 AAATAT
1 AAATAT
31894209 TCTTATATGA
Statistics
Matches: 167, Mismatches: 30, Indels: 61
0.65 0.12 0.24
Matches are distributed among these distances:
69 6 0.04
70 15 0.09
71 10 0.06
72 6 0.04
73 45 0.27
74 11 0.07
75 15 0.09
76 40 0.24
77 13 0.08
78 6 0.04
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (72 bp):
AAATATAATTTAAAAGAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTT
TAATATT
Found at i:31894226 original size:102 final size:101
Alignment explanation
Indices: 31893954--31894207 Score: 307
Period size: 102 Copynumber: 2.5 Consensus size: 101
31893944 TTAATAAAAT
* * * *** * *
31893954 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCATACTATAT
1 ATATAATTTAATAAAAATATTAATATTAAAAATTCTTATAT-AATTAAATAAAATTATAATATAT
* *
31894019 AATACTATAAAATATAATTTAACATAATTATTATTAA
65 AATACTATAAAATATAATTTAAAAGAATTATTATTAA
* * * *
31894056 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATTATAATATAT
1 ATATAATTTAATAAAAATATTAATATTAAAAATTCTTATAT-AATTAAATAAAATTATAATATAT
*
31894121 AATACTATATAATATAATTTAAAAGAATTATTATTAA
65 AATACTATAAAATATAATTTAAAAGAATTATTATTAA
31894158 ATATAATTTAATAAAAATATATAAT-TTAATAAAATTCTTA-AT-ATTAAATA
1 ATATAATTTAATAAAAATAT-TAATATT-A-AAAATTCTTATATAATTAAATA
31894208 TTCTTATATG
Statistics
Matches: 138, Mismatches: 11, Indels: 7
0.88 0.07 0.04
Matches are distributed among these distances:
101 7 0.05
102 115 0.83
103 7 0.05
104 9 0.07
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (101 bp):
ATATAATTTAATAAAAATATTAATATTAAAAATTCTTATATAATTAAATAAAATTATAATATATA
ATACTATAAAATATAATTTAAAAGAATTATTATTAA
Found at i:31901785 original size:29 final size:29
Alignment explanation
Indices: 31901727--31901785 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
31901717 TAAAATTCAA
*
31901727 ATATCTCAAAATATATAACCCTTGTGCTT
1 ATATCTCAAAATATATAACCCTTGTACTT
*
31901756 ATATCTCAAAATATATAACCCTTTTACTT
1 ATATCTCAAAATATATAACCCTTGTACTT
31901785 A
1 A
31901786 CTCTATTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.03, T:0.39
Consensus pattern (29 bp):
ATATCTCAAAATATATAACCCTTGTACTT
Found at i:31902167 original size:45 final size:45
Alignment explanation
Indices: 31902098--31902273 Score: 205
Period size: 45 Copynumber: 4.0 Consensus size: 45
31902088 AACCGTTACA
* * * *
31902098 CGGTGG-ATCAACATATAGC-ACCACCCTTATAATCAATTATATT
1 CGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATC
* * ** *
31902141 CGATGGAATAAACACATAGCAACCACCTTTATTTTTAATGACT-TC
1 CGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGA-TATC
* * * *
31902186 CGGTGGAGTCAGCACATAGCAACCACCTTTATAATCAATGGTAAC
1 CGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATC
31902231 CGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATA
1 CGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATA
31902274 CTCAGTATAC
Statistics
Matches: 108, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
43 5 0.05
44 12 0.11
45 90 0.83
46 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTTATAATCAATGATATC
Found at i:31913662 original size:3 final size:3
Alignment explanation
Indices: 31913654--31913723 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
31913644 CATGAATCTT
31913654 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
31913702 TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG T
31913724 ATTTATTAAC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:31914524 original size:35 final size:36
Alignment explanation
Indices: 31914472--31914554 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 36
31914462 CACAATAGAA
* * *
31914472 TCACTGTCACATGGCATGAATAACATACCCACATAT
1 TCACTTTCACATGGCATGAACAACACACCCACATAT
* **
31914508 TTAC-TTCACATGGCATGAACAACACACCCTTATAT
1 TCACTTTCACATGGCATGAACAACACACCCACATAT
31914543 TCACTTTCACAT
1 TCACTTTCACAT
31914555 CAGTCATCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 29 0.74
36 10 0.26
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (36 bp):
TCACTTTCACATGGCATGAACAACACACCCACATAT
Found at i:31923481 original size:25 final size:25
Alignment explanation
Indices: 31923447--31923532 Score: 91
Period size: 25 Copynumber: 3.4 Consensus size: 25
31923437 CGACCCACAA
31923447 CTCGTGTGAGCATTCTGATTCAAAG
1 CTCGTGTGAGCATTCTGATTCAAAG
** ** * *
31923472 CTCGTGTGAGCAGGCCCATTTTTACAG
1 CTCGTGTGAGCATTCTGA--TTCAAAG
*
31923499 CTCGTGTGAGCATTCTGATTCATAG
1 CTCGTGTGAGCATTCTGATTCAAAG
31923524 CTCGTGTGA
1 CTCGTGTGA
31923533 ACATATATGT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
25 28 0.60
27 19 0.40
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (25 bp):
CTCGTGTGAGCATTCTGATTCAAAG
Found at i:31924998 original size:20 final size:20
Alignment explanation
Indices: 31924973--31925012 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
31924963 GCTACAGTTT
* * *
31924973 TGAAAAGTTTTATTATTTTC
1 TGAAAAATTCTATCATTTTC
31924993 TGAAAAATTCTATCATTTTC
1 TGAAAAATTCTATCATTTTC
31925013 CAATTTAGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (20 bp):
TGAAAAATTCTATCATTTTC
Found at i:31931054 original size:2 final size:2
Alignment explanation
Indices: 31931047--31931079 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31931037 GTGAATTGCC
31931047 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
31931080 CTGATTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31937808 original size:17 final size:17
Alignment explanation
Indices: 31937775--31937808 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31937765 TATTCTTTGA
*
31937775 GAATTGCCATAGTATTT
1 GAATTGCCATAGCATTT
*
31937792 GAATTGCCCTAGCATTT
1 GAATTGCCATAGCATTT
31937809 TTTTCATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (17 bp):
GAATTGCCATAGCATTT
Found at i:31940504 original size:22 final size:22
Alignment explanation
Indices: 31940479--31940520 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
31940469 ATAGGCTAAG
31940479 TAAGCTTCATAACCTTTCCCTA
1 TAAGCTTCATAACCTTTCCCTA
31940501 TAAGCTTCATAACCTTTCCC
1 TAAGCTTCATAACCTTTCCC
31940521 CATCATCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (22 bp):
TAAGCTTCATAACCTTTCCCTA
Found at i:31951376 original size:19 final size:19
Alignment explanation
Indices: 31951339--31951377 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
31951329 TCTAGAAGAT
* *
31951339 TTAGTATTTATGAGTATAA
1 TTAGCATTTATGAGCATAA
*
31951358 TTAGCATTTATTAGCATAA
1 TTAGCATTTATGAGCATAA
31951377 T
1 T
31951378 ATATTTGACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (19 bp):
TTAGCATTTATGAGCATAA
Found at i:31962282 original size:5 final size:5
Alignment explanation
Indices: 31962272--31962297 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31962262 TGAGCATTCG
31962272 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
31962298 AATTTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:31963332 original size:9 final size:9
Alignment explanation
Indices: 31963318--31963354 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
31963308 GATAGTTTGA
31963318 TATTCGAAT
1 TATTCGAAT
31963327 TATTCGAAT
1 TATTCGAAT
*
31963336 TATTCGAGT
1 TATTCGAAT
*
31963345 TATTTGAAT
1 TATTCGAAT
31963354 T
1 T
31963355 CGAAAACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31963425 original size:9 final size:9
Alignment explanation
Indices: 31963408--31963438 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
31963398 TCGAATTGAT
31963408 TCGAATAAC
1 TCGAATAAC
*
31963417 TCGATTAAC
1 TCGAATAAC
31963426 TCGAATAAC
1 TCGAATAAC
31963435 TCGA
1 TCGA
31963439 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:31967484 original size:6 final size:6
Alignment explanation
Indices: 31967473--31967512 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
31967463 GCGTAATCGA
*
31967473 ATAATT ATAATT ATAATT ATAATT A-ATTAT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAAT-T ATAATT ATAA
31967513 AATCAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:31969837 original size:4 final size:4
Alignment explanation
Indices: 31969830--31969863 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
31969820 TGTTTGATAC
*
31969830 ATTT ATTT ATTT ATTT ATTT ACTT ATTT ATTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
31969864 CCATTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:31970325 original size:106 final size:108
Alignment explanation
Indices: 31970130--31970327 Score: 292
Period size: 109 Copynumber: 1.8 Consensus size: 108
31970120 AAAAATAATA
31970130 AAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-TTTTC
31970195 TCGTTAAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAAT
65 TCGTTAAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAAT
* * * * * *
31970239 AAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTTCTCTAAGGTGCTGGGTTTCGA-TTTCT
1 AAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTCT
* * *
31970302 CTTTTAACCAAATTGCTAAATATCCT
66 CGTTAAACCAAATAGCTAAATATCCT
31970328 CTTGAATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
106 28 0.35
108 23 0.29
109 29 0.36
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (108 bp):
AAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTCT
CGTTAAACCAAATAGCTAAATATCCTTCCAAAAATTTCAAAAT
Found at i:31971018 original size:2 final size:2
Alignment explanation
Indices: 31971011--31971048 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
31971001 AAACTAAAAT
31971011 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31971049 TTGAAACATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:31971574 original size:31 final size:31
Alignment explanation
Indices: 31971536--31971597 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
31971526 CCCTCTTTAG
31971536 GTTAGTTCTTAAGATGAGTTTTTTTTTTTTT
1 GTTAGTTCTTAAGATGAGTTTTTTTTTTTTT
31971567 GTTAGTTCTTAAGATGAGTTTTTTTTTTTTT
1 GTTAGTTCTTAAGATGAGTTTTTTTTTTTTT
31971598 TTGAGACAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.03, G:0.16, T:0.65
Consensus pattern (31 bp):
GTTAGTTCTTAAGATGAGTTTTTTTTTTTTT
Found at i:31984712 original size:36 final size:36
Alignment explanation
Indices: 31984672--31984745 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
31984662 TACACTTTGC
* * * *
31984672 TCATTCAGTAATGCCTTCCTTGTATGAATTTCTCCT
1 TCATTCAATAATACATTACTTGTATGAATTTCTCCT
* * *
31984708 TCATTTAATAATATATTACTTGTATGAATTTCTTCT
1 TCATTCAATAATACATTACTTGTATGAATTTCTCCT
31984744 TC
1 TC
31984746 TTATGCTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (36 bp):
TCATTCAATAATACATTACTTGTATGAATTTCTCCT
Found at i:31989148 original size:28 final size:28
Alignment explanation
Indices: 31989108--31989168 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
31989098 TGACAGTATC
*
31989108 TTTAAAAATGAATAATTCAATTTCATGA
1 TTTATAAATGAATAATTCAATTTCATGA
31989136 TTTATAAATGAATAATTCAATTTCATGA
1 TTTATAAATGAATAATTCAATTTCATGA
31989164 TTTAT
1 TTTAT
31989169 GGTATAAGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTATAAATGAATAATTCAATTTCATGA
Found at i:31990565 original size:21 final size:20
Alignment explanation
Indices: 31990539--31990582 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
31990529 GATAACCGCG
* *
31990539 TTTATTCTATTTTCATTTTTA
1 TTTATTATATTTTC-TTTTCA
*
31990560 TTTATTATTTTTTCTTTTCA
1 TTTATTATATTTTCTTTTCA
31990580 TTT
1 TTT
31990583 GTTTTGTGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTATTATATTTTCTTTTCA
Found at i:31991363 original size:8 final size:8
Alignment explanation
Indices: 31991350--31991411 Score: 52
Period size: 9 Copynumber: 7.1 Consensus size: 8
31991340 TTTACATACG
31991350 TTTTATTT
1 TTTTATTT
31991358 TTTTATATT
1 TTTTAT-TT
31991367 TTTATATTT
1 TTT-TATTT
31991376 TTCTTATCTT
1 TT-TTAT-TT
* *
31991386 TTTAACTT
1 TTTTATTT
*
31991394 TTATATATT
1 TTTTAT-TT
31991403 TTTTATTT
1 TTTTATTT
31991411 T
1 T
31991412 ATAGATATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 14 0.33
9 21 0.49
10 8 0.19
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTATTT
Found at i:31991373 original size:34 final size:36
Alignment explanation
Indices: 31991335--31991412 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
31991325 AACGCATGCA
* *
31991335 TATATTTTACATA-CGTTTT-ATTTTTTTATATTTT
1 TATATTTTACATATCGTTTTAACTTTTATATATTTT
* * *
31991369 TATATTTTTCTTATCTTTTTAACTTTTATATATTTT
1 TATATTTTACATATCGTTTTAACTTTTATATATTTT
31991405 T-TATTTTA
1 TATATTTTA
31991413 TAGATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 11 0.31
35 11 0.31
36 14 0.39
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.69
Consensus pattern (36 bp):
TATATTTTACATATCGTTTTAACTTTTATATATTTT
Found at i:31991377 original size:19 final size:19
Alignment explanation
Indices: 31991355--31991411 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 19
31991345 ATACGTTTTA
31991355 TTTTTTTATATTTTTATAT
1 TTTTTTTATATTTTTATAT
* *
31991374 TTTTCTTATCTTTTTA-A-
1 TTTTTTTATATTTTTATAT
* *
31991391 CTTTTATATATTTTT-TAT
1 TTTTTTTATATTTTTATAT
31991409 TTT
1 TTT
31991412 ATAGATATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
17 12 0.41
18 3 0.10
19 14 0.48
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTTTTATATTTTTATAT
Found at i:31992950 original size:16 final size:16
Alignment explanation
Indices: 31992929--31992962 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
31992919 TGTGTTTCAC
31992929 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
31992945 TTTGACTGCATGGCAT
1 TTTGACTGCATGGCAT
31992961 TT
1 TT
31992963 CATTATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGGCAT
Found at i:31993445 original size:19 final size:19
Alignment explanation
Indices: 31993405--31993446 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
31993395 GTCTCTTTTC
* *
31993405 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
31993424 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
31993443 GCAT
1 GCAT
31993447 CAAACACCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:31995372 original size:18 final size:20
Alignment explanation
Indices: 31995333--31995374 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
31995323 GCAAATGTTC
*
31995333 TTTCATTCTTTATGATATTT
1 TTTCATTCTTTATGAGATTT
31995353 TTTCATTCTTT-TG-GATTT
1 TTTCATTCTTTATGAGATTT
31995371 TTTC
1 TTTC
31995375 TGCCAAACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 2 0.10
20 11 0.52
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTCATTCTTTATGAGATTT
Found at i:31996312 original size:7 final size:7
Alignment explanation
Indices: 31996287--31996328 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
31996277 AGTGATGTGA
31996287 AAAAATG
1 AAAAATG
31996294 AAAAGATG
1 AAAA-ATG
31996302 -AAAATG
1 AAAAATG
31996308 AAAAATG
1 AAAAATG
31996315 AAAAA-G
1 AAAAATG
31996321 TAAAAATG
1 -AAAAATG
31996329 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 23 0.74
8 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:31996326 original size:21 final size:21
Alignment explanation
Indices: 31996287--31996328 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31996277 AGTGATGTGA
*
31996287 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATAAAAATG
31996308 AAAAATGAAAA-AGTAAAAATG
1 AAAAATGAAAAGA-TAAAAATG
31996329 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAATG
Found at i:31997760 original size:89 final size:89
Alignment explanation
Indices: 31997609--31998493 Score: 999
Period size: 89 Copynumber: 9.9 Consensus size: 89
31997599 GAGTAGCAGA
*
31997609 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAA-AAAGTAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTAC
*
31997673 TGACGTGAAGTAGATCAAAGATAAC
65 TGGCGTGAAGTAGATCAAAGATAAC
*
31997698 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
*
31997763 AGCGTGAAGTAGATCAAAGATAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
31997787 ATATCTTGTCTTCCCATACTGGTGGCGAAGTAAGATCGAAGAAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGT-AGATCGAAGAAAGCAGATCTTGTCTTCATGTAC
*
31997852 TGGCGTGAAGTAGATCAAAGATACC
65 TGGCGTGAAGTAGATCAAAGATAAC
* *
31997877 TGATCTTGTCTTCCCATACTGATGGCGAAGTAGATCGGAA-AAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTAC
31997941 TGGCGTGAAGTAGATCAAAGATAAC
65 TGGCGTGAAGTAGATCAAAGATAAC
* * *
31997966 AGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGTAAATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
31998031 GGCGTGAAGTAGATCAAAGATAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
31998055 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
31998120 GGCGTGAAGTAGATCAAAAGATAATC
66 GGCGTGAAGTAGATC-AAAGATAA-C
** * ***
31998146 AAGATCTTGTCTTCCCATACTGGTGATGAAGTAGAATCG--GAAA-AAGATC-TGTCTTCCCATA
1 -AGATCTTGTCTTCCCATACTGGTGGCGAAGTAG-ATCGAAGAAAGCAGATCTTGTCTTCATGTA
* * * * *
31998207 TTGGTGGCGAAGTAGATCGAAGAAAAC
64 CTGG-CGTGAAGTAGATCAAAGATAAC
*** * * * * * ***
31998234 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
* * * * *
31998298 GGTGGCGTAGTAGATCGAAA-AAAAT
66 GG-CGTGAAGTAGATC-AAAGATAAC
*** * * * ***
31998323 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATAC
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTAC
* * *
31998386 TGGTGGCGAAGTAGATCGAAGA-AAGC
65 TGG-CGTGAAGTAGATCAAAGATAA-C
* ** * * *
31998412 AGATCTTGTCTT--CAT-GTATTGGCATGAGGTAGATCAAAGATAA-CAGATCGTGTCTTCATGT
1 AGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGT
*
31998473 ATTGGCGTGAAGTAGATCAAA
63 ACTGGCGTGAAGTAGATCAAA
31998494 TACAGCAGAT
Statistics
Matches: 714, Mismatches: 62, Indels: 41
0.87 0.08 0.05
Matches are distributed among these distances:
85 3 0.00
86 9 0.01
87 24 0.03
88 29 0.04
89 496 0.69
90 113 0.16
91 5 0.01
92 31 0.04
93 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAAC
Found at i:31998203 original size:312 final size:310
Alignment explanation
Indices: 31997878--31998468 Score: 1006
Period size: 312 Copynumber: 1.9 Consensus size: 310
31997868 AAAGATACCT
*
31997878 GATCTTGTCTTCCCATACTGATGGCGAAGTAGATCGGAA-AAAGCAGATCTTGTCTTCATGTACT
1 GATCTTGTCTTCCCATACTGATGGCGAAGTAGATC-GAAGAAAACAGATCTTGTCTTCATGTACT
* *
31997942 GGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGA
65 GGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAA
*
31998007 AAGTAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
130 AAATAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
* *
31998072 ACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
195 ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATC-A
*
31998137 AAGATAATCAAGATCTTGTCTTCCCATACTGGTGATGAAGTAGAATCGGAAAAA
259 AAGATAA-C-AGATCGTGTCTTCCCATACTGGTGATGAAGTAGAATCGGAAAAA
* *
31998191 GATC-TGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
1 GATCTTGTCTTCCCATACTGATGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
* *
31998255 GCGTGAAGTAGATCAAAGATACCAGATCTTGTCTTCCCATACTGGTGGCGTAGTAGATCGAAAAA
66 GCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
*
31998320 AATAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATA
131 AATAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATA
* *
31998385 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAGGTAGATCAAA
196 CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAA
31998450 GATAACAGATCGTGTCTTC
261 GATAACAGATCGTGTCTTC
31998469 ATGTATTGGC
Statistics
Matches: 263, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
309 12 0.05
310 1 0.00
311 11 0.04
312 235 0.89
313 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (310 bp):
GATCTTGTCTTCCCATACTGATGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTG
GCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAAAA
AATAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATA
CTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATCAAA
GATAACAGATCGTGTCTTCCCATACTGGTGATGAAGTAGAATCGGAAAAA
Found at i:31998206 original size:42 final size:43
Alignment explanation
Indices: 31997608--31998424 Score: 436
Period size: 45 Copynumber: 18.3 Consensus size: 43
31997598 GGAGTAGCAG
*
31997608 AAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG-GAAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCGAG-AAA
*** ** * *
31997651 AGTAGATCTTGTCTTCATGTACTGACG-TGAAGTAGATCAAAGATAA
1 A--AGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC-GAGA-AA
* *
31997697 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCG-AGAAA
* **** * * * *
31997741 GCAGATCTTGTCTTTATGTACTAGCG-TGAAGTAGATCAAAGATAA
1 -AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC-GAGA-AA
* * *
31997786 CATATCTTGTCTTCCCATACTGGTGGCGAAGTAAGATCGAAGAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGT-AGATCG-AGAAA
* *** * * * *
31997831 GCAGATCTTGTCTTCATGTACTGGCG-TGAAGTAGATCAAAGATAC
1 -AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC-GAGA-AA
** * *
31997876 CTGATCTTGTCTTCCCATACTGATGGCGAAGTAGATCG-GAAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCGAG-AAA
*** * * *
31997919 AGCAGATCTTGTCTTCATGTACTGGCG-TGAAGTAGATCAAAGATAA
1 A--AGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC-GAGA-AA
* * *
31997965 CAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCG-AGAAA
*** * * *
31998009 GTAA-ATCTTGTCTTCATGTACTGGCG-TGAAGTAGATCAAAGATAA
1 --AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC-GAGA-AA
* *
31998054 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCG-AGAAA
* *** * * *
31998098 GTAGATCTTGTCTTCATGTACTGGCG-TGAAGTAGATCAAAAGATAA
1 -AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC--GAGA-AA
*
31998144 TCAAGATCTTGTCTTCCCATACTGGTGATGAAGTAGAATCG-GAAA
1 --AAGATCTTGTCTTCCCATACTGGTGACGAAGTAG-ATCGAGAAA
* *
31998189 AAGATC-TGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCG-AGAAA
*** * * * *
31998232 ACAGATCTTGTCTTCATGTACTGGCG-TGAAGTAGATCAAAGATAC
1 A-AGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC-GAGA-AA
* * * *
31998277 CAGATCTTGTCTTCCCATACTGGTGGCGTAGTAGATCGAAAAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCG-AGAAA
*** * * *
31998321 ATAGATCTTGTCTTCATGTACTGGCG-TGAAGTAGATCAAAGATAA
1 A-AGATCTTGTCTTCCCATACTGGTGACGAAGTAGATC-GAGA-AA
* *
31998366 CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAA
1 AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCG-AGAAA
*
31998410 GCAGATCTTGTCTTC
1 -AAGATCTTGTCTTC
31998425 ATGTATTGGC
Statistics
Matches: 593, Mismatches: 128, Indels: 104
0.72 0.16 0.13
Matches are distributed among these distances:
41 4 0.01
42 24 0.04
43 15 0.03
44 238 0.40
45 242 0.41
46 39 0.07
47 20 0.03
48 8 0.01
49 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (43 bp):
AAGATCTTGTCTTCCCATACTGGTGACGAAGTAGATCGAGAAA
Found at i:31998312 original size:268 final size:266
Alignment explanation
Indices: 31997608--31998493 Score: 1022
Period size: 268 Copynumber: 3.3 Consensus size: 266
31997598 GGAGTAGCAG
31997608 AAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAAAAAGTAGATCTTGTCTTCATGTAC
1 AAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAAAAAG-AGATCTTGTCTTCATGTAC
* *
31997673 TGACGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG
65 TGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAG
* * *
31997738 AAAGCAGATCTTGTCTTTATGTACTAGCGTGAAGTAGATCAAAGATAACATATCTTGTCTTCCCA
130 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCA
31997803 TACTGGTGGCGAAGTAAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
195 TACTGGTGGCGAAGT-AGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
31997868 AAAGATAC
259 AAAGATAC
** *
31997876 CTGATCTTGTCTTCCCATACTGATGGCGAAGTAGATCGGAAAAAGCAGATCTTGTCTTCATGTAC
1 AAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAAAAAG-AGATCTTGTCTTCATGTAC
31997941 TGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAG
65 TGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAG
* *
31998006 AAAGTAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCA
130 AAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCA
*
31998071 TACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCA
195 TACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-
31998136 AAAGATAATC
259 AAAGAT-A-C
** *** *
31998146 AAGATCTTGTCTTCCCATACTGGTGATGAAGTAGAATCGG-AAAA-AGATC-TGTCTTCCCATAT
1 AAGATCTTGTCTTCCCATACTGGTGGCGAAGTAG-ATCGGAAAAAGAGATCTTGTCTTCATGTAC
* * * * * * * * *
31998208 TGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAA
65 TGG-CGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAA
* * *** * * * * *
31998272 GATACCAGATCTTGTCTTCCCATACTGGTGGCGTAGTAGATCGAAA-AAAATAGATCTTGTCTTC
129 GAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAAGATAACAGATCTTGTCTTC
*** * * * *** * *
31998336 ATGTACTGG-CGTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTA
192 CCATACTGGTGGCGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTA
* *
31998399 GATCGAAGAAAGC
255 GATCAAAGATA-C
* ** * * * *
31998412 -AGATCTTGTCTT--CAT-GTATTGGCATGAGGTAGATC-AAAGATAACAGATCGTGTCTTCATG
1 AAGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGGAA-A-AAGAGATCTTGTCTTCATG
*
31998472 TATTGGCGTGAAGTAGATCAAA
62 TACTGGCGTGAAGTAGATCAAA
31998494 TACAGCAGAT
Statistics
Matches: 532, Mismatches: 70, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
262 3 0.01
263 7 0.01
264 7 0.01
265 14 0.03
266 20 0.04
267 145 0.27
268 293 0.55
269 4 0.01
270 34 0.06
271 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (266 bp):
AAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGGAAAAAGAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGA
AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
ACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAA
AGATAC
Found at i:31999427 original size:21 final size:20
Alignment explanation
Indices: 31999401--31999440 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
31999391 GGTTAATCGC
31999401 ATTTATTCTATTTTCATTTTT
1 ATTTATTCTATTTTC-TTTTT
*
31999422 ATTTATTCTTTTTTCTTTT
1 ATTTATTCTATTTTCTTTT
31999441 CGTTTGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (20 bp):
ATTTATTCTATTTTCTTTTT
Found at i:32000238 original size:17 final size:17
Alignment explanation
Indices: 32000218--32000279 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
32000208 TTTACATACG
32000218 TTTTATTTTTTTATATTT
1 TTTTATTTTTTTATA-TT
*
32000236 TTTTATTTTTCTTATCTT
1 TTTTATTTTT-TTATATT
* * *
32000254 TTTAACTTTTATATATT
1 TTTTATTTTTTTATATT
32000271 TTTTATTTT
1 TTTTATTTT
32000280 ATAGATCTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 12 0.33
18 20 0.56
19 4 0.11
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTTTATATT
Found at i:32000243 original size:34 final size:35
Alignment explanation
Indices: 32000205--32000280 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
32000195 CGCATGCATA
* *
32000205 TATTTTACATA-CGTTTT-ATTTTTTTATATTTTTT
1 TATTTTACATATCGTTTTAACTTTTATATA-TTTTT
* * *
32000239 TATTTTTCTTATCTTTTTAACTTTTATATATTTTT
1 TATTTTACATATCGTTTTAACTTTTATATATTTTT
32000274 TATTTTA
1 TATTTTA
32000281 TAGATCTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
34 9 0.26
35 16 0.47
36 9 0.26
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (35 bp):
TATTTTACATATCGTTTTAACTTTTATATATTTTT
Found at i:32000273 original size:10 final size:9
Alignment explanation
Indices: 32000218--32000276 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
32000208 TTTACATACG
32000218 TTTTAT-TT
1 TTTTATATT
32000226 TTTTATATT
1 TTTTATATT
32000235 TTTT-TATT
1 TTTTATATT
32000243 TTTCT-TATCT
1 TTT-TATAT-T
32000253 TTTTA-ACTT
1 TTTTATA-TT
*
32000262 TTATATATT
1 TTTTATATT
32000271 TTTTAT
1 TTTTAT
32000277 TTTATAGATC
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
8 13 0.30
9 24 0.56
10 6 0.14
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTATATT
Found at i:32005773 original size:18 final size:18
Alignment explanation
Indices: 32005752--32005786 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32005742 AATAATTTTA
32005752 AAAAATT-TTAAAAATAT
1 AAAAATTGTTAAAAATAT
*
32005769 AAAAATTGTTATAAATAT
1 AAAAATTGTTAAAAATAT
32005787 TTTCAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AAAAATTGTTAAAAATAT
Found at i:32006401 original size:28 final size:29
Alignment explanation
Indices: 32006350--32006412 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
32006340 TATAAAAAAT
**
32006350 AAAAATGATTAAATTTTCAAAAAAATACA
1 AAAAATGACAAAATTTTCAAAAAAATACA
* *
32006379 AAAAATGACAAAATTTT-AGAAAATTACA
1 AAAAATGACAAAATTTTCAAAAAAATACA
32006407 AAAAAT
1 AAAAAT
32006413 TAAAAATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.63, C:0.06, G:0.05, T:0.25
Consensus pattern (29 bp):
AAAAATGACAAAATTTTCAAAAAAATACA
Found at i:32015088 original size:17 final size:16
Alignment explanation
Indices: 32015062--32015142 Score: 63
Period size: 18 Copynumber: 4.7 Consensus size: 16
32015052 GCAGATTCAA
32015062 AAAAACAAAAAAAAAGAG
1 AAAAA-AAAAAAAAAG-G
*
32015080 AAAAAAAAAGAAAAGGG
1 AAAAAAAAA-AAAAAGG
** *
32015097 AAAAAAGGATAAAAGG
1 AAAAAAAAAAAAAAGG
*
32015113 AAAAAAAGAAAAGAATGG
1 AAAAAAA-AAAA-AAAGG
32015131 AAAAAATAAAAA
1 AAAAAA-AAAAA
32015143 CGAAATAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
16 11 0.22
17 14 0.28
18 24 0.48
19 1 0.02
ACGTcount: A:0.78, C:0.01, G:0.17, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAAAAAAGG
Found at i:32016983 original size:88 final size:88
Alignment explanation
Indices: 32016834--32017367 Score: 838
Period size: 88 Copynumber: 6.1 Consensus size: 88
32016824 GAGAACAAGC
*
32016834 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGAAGTAGGTTGAAAATAGCAGATCTTGTCTT
1 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
32016899 CCTGTGTTGGCAGCGAAGTAGAT
66 CCTGTGTTGGCAGCGAAGTAGAT
32016922 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
1 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
* *
32016987 CTTGTGTGGGCAGCGAAGTAGAT
66 CCTGTGTTGGCAGCGAAGTAGAT
* * * * *
32017010 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAATGGAGCAAGTTTAAAATAGCAAATCTTGTCTT
1 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
* *
32017075 CTTGTGTTGGCAGCTAAGTAGAT
66 CCTGTGTTGGCAGCGAAGTAGAT
32017098 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
1 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
*
32017163 TCTGTGTTGGCAGCGAAGTAGAT
66 CCTGTGTTGGCAGCGAAGTAGAT
**
32017186 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCAA
1 CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
* *
32017251 CCTGTGTTGGCATCGGAGTAGAT
66 CCTGTGTTGGCAGCGAAGTAGAT
* * * *
32017274 CGAATACAC-CAACCTTGTCTCCCTAGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTATCT
1 CGAAGAC-CTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCT
* * *
32017338 TCCTATATTGGCAG-TAAGGTAGAT
65 TCCTGTGTTGGCAGCGAA-GTAGAT
32017362 CGAAGA
1 CGAAGA
32017368 TAGCAAGTCT
Statistics
Matches: 409, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
87 1 0.00
88 407 1.00
89 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (88 bp):
CGAAGACCTCAGCCTTGTCTCCCTGGGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTT
CCTGTGTTGGCAGCGAAGTAGAT
Found at i:32017039 original size:40 final size:40
Alignment explanation
Indices: 32016907--32017039 Score: 95
Period size: 43 Copynumber: 3.1 Consensus size: 40
32016897 TTCCTGTGTT
32016907 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTGTCTCCCTG
1 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTGTCTCCCTG
* * * * * *** * **
32016947 GGCAGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCTTGTGTG
1 GGC---AGCGAAGTAGATCGAAGACCTCAG-CCTTGTC-TC---CCTG
32016995 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTGTCTCCCTG
1 GGCAGCGAAGTAGATCGAAGACCTCAGCCTTGTCTCCCTG
32017035 GGCAG
1 GGCAG
32017040 TAATGGAGCA
Statistics
Matches: 63, Mismatches: 22, Indels: 16
0.62 0.22 0.16
Matches are distributed among these distances:
40 10 0.16
43 18 0.29
44 12 0.19
45 18 0.29
48 5 0.08
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.24
Consensus pattern (40 bp):
GGCAGCGAAGTAGATCGAAGACCTCAGCCTTGTCTCCCTG
Found at i:32017455 original size:45 final size:45
Alignment explanation
Indices: 32017375--32017489 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 45
32017365 AGATAGCAAG
* **
32017375 TCTTATCT-CCTGAA-GTTGCAGT-GAGACAGATTGAAGATGGAGAA
1 TCTTATCTCCCT-AAGGTTGCAGTGGAGACAGACTGAAGACCGA-AA
*
32017419 TCTTATCTCCCTAAGGTTGCAGTGGAG-CAGACTGAAGACCTAAA
1 TCTTATCTCCCTAAGGTTGCAGTGGAGACAGACTGAAGACCGAAA
32017463 TCTTATCTCCCTAAGGTTGCAGTGGAG
1 TCTTATCTCCCTAAGGTTGCAGTGGAG
32017490 TGGATTAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
44 39 0.61
45 22 0.34
46 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTAAGGTTGCAGTGGAGACAGACTGAAGACCGAAA
Found at i:32031078 original size:53 final size:54
Alignment explanation
Indices: 32030995--32031135 Score: 196
Period size: 53 Copynumber: 2.6 Consensus size: 54
32030985 ATAATACGAT
* * * *
32030995 AATTTAGTTACTATCACTCTAGCTAAGCAAAACAATCAACATTTGGTTGAATTC
1 AATTTAGTAACTATCAATTTAGATAAGCAAAACAATCAACATTTGGTTGAATTC
*
32031049 AATTTAGTAAC-A-CAATTATAGATAAGCAAAGCAATCAACATTTGGTTGAATTC
1 AATTTAGTAACTATCAATT-TAGATAAGCAAAACAATCAACATTTGGTTGAATTC
* *
32031102 AATTTAGTTACTATCACTTTAGATAAGCAAAACA
1 AATTTAGTAACTATCAATTTAGATAAGCAAAACA
32031136 TATATATGCA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
52 3 0.04
53 44 0.58
54 25 0.33
55 4 0.05
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (54 bp):
AATTTAGTAACTATCAATTTAGATAAGCAAAACAATCAACATTTGGTTGAATTC
Found at i:32038378 original size:18 final size:18
Alignment explanation
Indices: 32038355--32038391 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32038345 TGAGTTTTCA
32038355 AATTCGAATAACTTGAAT
1 AATTCGAATAACTTGAAT
*
32038373 AATTCGAATAATTTGAAT
1 AATTCGAATAACTTGAAT
32038391 A
1 A
32038392 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (18 bp):
AATTCGAATAACTTGAAT
Found at i:32038653 original size:30 final size:31
Alignment explanation
Indices: 32038605--32038664 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
32038595 AAACCTTTTA
* *
32038605 TTTTCCCCCCAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
32038635 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
32038665 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:32038812 original size:20 final size:20
Alignment explanation
Indices: 32038766--32038812 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
32038756 CAAACTTTTA
* *
32038766 TTCCCCAAAACTTTTTATTT
1 TTCCCCTAAACTTTTTACTT
32038786 TTCCCCTAAAC-TTTTACTT
1 TTCCCCTAAACTTTTTACTT
32038805 TTCACCCT
1 TTC-CCCT
32038813 TTACTCTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (20 bp):
TTCCCCTAAACTTTTTACTT
Found at i:32045888 original size:21 final size:21
Alignment explanation
Indices: 32045844--32045893 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
32045834 AACACAAATG
* *
32045844 AATCGGTTCAAATAGAAAAAC
1 AATCGATTCAAACAGAAAAAC
* **
32045865 AATTGATTCAAACAGAAAGTC
1 AATCGATTCAAACAGAAAAAC
32045886 AATCGATT
1 AATCGATT
32045894 TAACATAAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.24
Consensus pattern (21 bp):
AATCGATTCAAACAGAAAAAC
Found at i:32046030 original size:20 final size:21
Alignment explanation
Indices: 32045991--32046040 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
32045981 TAATGAATTG
*
32045991 ATTCAAATAGAAAAACAATCA
1 ATTCAAACAGAAAAACAATCA
*
32046012 ATTCAAACAG-AAGACAATCA
1 ATTCAAACAGAAAAACAATCA
*
32046032 ATTTAAACA
1 ATTCAAACA
32046041 TTTGCTTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.58, C:0.16, G:0.06, T:0.20
Consensus pattern (21 bp):
ATTCAAACAGAAAAACAATCA
Found at i:32047980 original size:107 final size:107
Alignment explanation
Indices: 32047795--32047993 Score: 258
Period size: 107 Copynumber: 1.9 Consensus size: 107
32047785 TTGCCCGACA
* * * *
32047795 ACAATGGCTTAACACCCTAGATTGCTCGACAACGATGGTTTCATAATTCGTTTATGTCATCCTAG
1 ACAATGGCTTAACACCCTAGATTGCCCAACAACGATGGTTTCATAATTCATTTATGTCATCCGAG
* * *
32047860 ATTTCCTAACAACGATAACCTGCCACCTCGGGATGCCCAGCG
66 ATTGCCCAACAACGATAACCTACCACCTCGGGATGCCCAGCG
* * *
32047902 ACAATGGCTTACCACCCT-GAATTTCCCAACAATGATGGTTTCATAATTCATTTATGTCATCCCG
1 ACAATGGCTTAACACCCTAG-ATTGCCCAACAACGATGGTTTCATAATTCATTTATGTCAT-CCG
* *
32047966 A-ATTGCCCAGCAACGATGACCTACCACC
64 AGATTGCCCAACAACGATAACCTACCACC
32047994 CCAGGTTTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 74 0.95
108 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (107 bp):
ACAATGGCTTAACACCCTAGATTGCCCAACAACGATGGTTTCATAATTCATTTATGTCATCCGAG
ATTGCCCAACAACGATAACCTACCACCTCGGGATGCCCAGCG
Found at i:32053061 original size:66 final size:67
Alignment explanation
Indices: 32052901--32053133 Score: 281
Period size: 67 Copynumber: 3.5 Consensus size: 67
32052891 GTTGACTCCA
* * * * * *
32052901 TATGCTGCCATAGTTGAGATATGGTTTTACA-CATCATACCTCATGTTTAATGTCCTGGCAAACT
1 TATGTTGCCATAGTCGAGCTATGGTCTTACATAAT-ATACCACATGTTTAATGTCCTGGCAAACT
*
32052965 CTC
65 CTT
* * * *
32052968 TATGTTGCCATAGTCGACCTATGGTCTTACATAATATACCACATGTTTAATGTCAT-GTAGACTC
1 TATGTTGCCATAGTCGAGCTATGGTCTTACATAATATACCACATGTTTAATGTCCTGGCAAACTC
32053032 TT
66 TT
* ** * *
32053034 TATATTGATATAGTCGAGCTATGGTCTTACACAATATACCCCATGTTTAATGTCCTGGCAAACTC
1 TATGTTGCCATAGTCGAGCTATGGTCTTACATAATATACCACATGTTTAATGTCCTGGCAAACTC
32053099 TT
66 TT
* *
32053101 TATGTTTCCATAGTCGAGCTATAGTCTTACATA
1 TATGTTGCCATAGTCGAGCTATGGTCTTACATA
32053134 TTAACCCCGT
Statistics
Matches: 138, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
66 56 0.41
67 80 0.58
68 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (67 bp):
TATGTTGCCATAGTCGAGCTATGGTCTTACATAATATACCACATGTTTAATGTCCTGGCAAACTC
TT
Found at i:32057277 original size:18 final size:17
Alignment explanation
Indices: 32057245--32057278 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32057235 AACAAATAAA
*
32057245 AACTTTTTGACAAAGAC
1 AACTTTTTGAAAAAGAC
32057262 AACTTTTTAGAAAAAGA
1 AACTTTTT-GAAAAAGA
32057279 AGAAAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
AACTTTTTGAAAAAGAC
Found at i:32072734 original size:30 final size:30
Alignment explanation
Indices: 32072641--32072718 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
32072631 TCCACATTAT
* *
32072641 ATTCTTTTTA-TTTTTTCTTTCTATTCCTTC
1 ATTCCTTTTACTTTCTT-TTTCTATTCCTTC
32072671 ATTCCTTTTACTTTCTTTTTCTATTCCTTC
1 ATTCCTTTTACTTTCTTTTTCTATTCCTTC
32072701 ATTCCTTTTACTTTCTTT
1 ATTCCTTTTACTTTCTTT
32072719 GTTTTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
30 40 0.89
31 5 0.11
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (30 bp):
ATTCCTTTTACTTTCTTTTTCTATTCCTTC
Found at i:32074802 original size:146 final size:148
Alignment explanation
Indices: 32074527--32074812 Score: 414
Period size: 146 Copynumber: 1.9 Consensus size: 148
32074517 ACATCTCTTC
* * **
32074527 ACTTGTATTGATACCACAATGCAGGGTTTAACCTACTGCACTATTTTGAGCCTTTTTTTCCCCTT
1 ACTTGTATTGATACCACAATGCAGGGTTTAACATACTGCACTATTTGGAGCCTTTTCGT-CCCTT
* *
32074592 GTGAGGCCCATTTTAAGTTCTGATAAACTTTGAACTAATTTTAAATGATTTTAAATTGGTTTTAA
65 GTGAGGCCCATTCTAAGTTCTGATAAACTTTGAACCAATTTTAAATGATTTTAAATTGGTTTTAA
*
32074657 AGCCTTCAATCATATCCTT
130 AACCTTCAATCATATCCTT
* *
32074676 ACTTGTATTGATACCACAATGTAGGGTTTAACATACTGCACTATTTGGAG-CTTTTCGT-CCTTT
1 ACTTGTATTGATACCACAATGCAGGGTTTAACATACTGCACTATTTGGAGCCTTTTCGTCCCTTG
* * * * * *
32074739 TGGGGCTCATTCTAAGTTTTGGTCAACTTTGAACCAATTTTAAATGATTTTAAATTGTTTTTAAA
66 TGAGGCCCATTCTAAGTTCTGATAAACTTTGAACCAATTTTAAATGATTTTAAATTGGTTTTAAA
32074804 ACCTTCAAT
131 ACCTTCAAT
32074813 TTATCTAAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
146 69 0.57
148 6 0.05
149 47 0.39
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (148 bp):
ACTTGTATTGATACCACAATGCAGGGTTTAACATACTGCACTATTTGGAGCCTTTTCGTCCCTTG
TGAGGCCCATTCTAAGTTCTGATAAACTTTGAACCAATTTTAAATGATTTTAAATTGGTTTTAAA
ACCTTCAATCATATCCTT
Found at i:32082880 original size:27 final size:26
Alignment explanation
Indices: 32082841--32082900 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 26
32082831 AACAAGCCAC
32082841 AAAAAGGAAGCCTTTGTAGCTATCTAT
1 AAAAA-GAAGCCTTTGTAGCTATCTAT
* *
32082868 GAAAAAGAAGCCTTTGTGGCTATTTAT
1 -AAAAAGAAGCCTTTGTAGCTATCTAT
32082895 AAAAAG
1 AAAAAG
32082901 GAAAGCCCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 6 0.20
27 19 0.63
28 5 0.17
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (26 bp):
AAAAAGAAGCCTTTGTAGCTATCTAT
Found at i:32083090 original size:24 final size:24
Alignment explanation
Indices: 32083061--32083109 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
32083051 TATGGAGAAC
32083061 TTTGAAGGAAAAGCCCTCATAGTG
1 TTTGAAGGAAAAGCCCTCATAGTG
32083085 TTTGAAGGAAAAGCCCTCATAGTG
1 TTTGAAGGAAAAGCCCTCATAGTG
32083109 T
1 T
32083110 ATCTTGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (24 bp):
TTTGAAGGAAAAGCCCTCATAGTG
Found at i:32084742 original size:36 final size:36
Alignment explanation
Indices: 32084695--32084767 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
32084685 GGAGGAAAAG
32084695 AACATATAGTAGTTTACTTCTAGACATTAGAGTCTA
1 AACATATAGTAGTTTACTTCTAGACATTAGAGTCTA
32084731 AACATATAGTAGTTTACTTCTAGACATTAGAGTCTA
1 AACATATAGTAGTTTACTTCTAGACATTAGAGTCTA
32084767 A
1 A
32084768 CTCCTCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (36 bp):
AACATATAGTAGTTTACTTCTAGACATTAGAGTCTA
Found at i:32088172 original size:29 final size:29
Alignment explanation
Indices: 32088128--32088442 Score: 389
Period size: 29 Copynumber: 10.9 Consensus size: 29
32088118 TTTTCTTTAA
**
32088128 TCGATGGTCGAAACCATCCCTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
* * ** **
32088157 TAGATGGTCATCACCATCTTTTTTTTTAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
** *
32088186 TCGATGGTTATCACCATCCTTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
* *
32088215 TCGATGGTCTTCACCATCCGTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
** *
32088244 TCGATGGTCGAAACCATCCCTTTTTATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
32088273 TCGATGGTCGTCACCATCCCTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
** *
32088302 TCGATGGTCGAAACCAGT-CTTTTTCATAT
1 TCGATGGTCGTCACCA-TCCCTTTTCATAT
*
32088331 TCGATGGTTGTCACCATCCCTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
*
32088360 TCGATGGTCGTCACCATCCTTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
*
32088389 TTGATGGTCGTCACCATCCCTTTTCATAT
1 TCGATGGTCGTCACCATCCCTTTTCATAT
* * *
32088418 TCAATAGTTGTCACCATCCCTTTTC
1 TCGATGGTCGTCACCATCCCTTTTC
32088443 TTTAATCGAT
Statistics
Matches: 245, Mismatches: 39, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
28 1 0.00
29 243 0.99
30 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (29 bp):
TCGATGGTCGTCACCATCCCTTTTCATAT
Found at i:32094167 original size:16 final size:16
Alignment explanation
Indices: 32094130--32094167 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
32094120 TCTTCGTCTC
32094130 ATATTCATGCATCAAG
1 ATATTCATGCATCAAG
*
32094146 AAATTCATGC-TCATAG
1 ATATTCATGCATCA-AG
32094162 ATATTC
1 ATATTC
32094168 TTTATTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (16 bp):
ATATTCATGCATCAAG
Found at i:32096028 original size:22 final size:22
Alignment explanation
Indices: 32095985--32096033 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
32095975 GACTAAGAGT
**
32095985 CATAAACAAGATAGCTGTAAGC
1 CATAAACAAGATAGCTACAAGC
*
32096007 TATAAAC-AGAATAGCTACAAGC
1 CATAAACAAG-ATAGCTACAAGC
32096029 CATAA
1 CATAA
32096034 GTACAGTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (22 bp):
CATAAACAAGATAGCTACAAGC
Found at i:32096080 original size:32 final size:32
Alignment explanation
Indices: 32096025--32096320 Score: 258
Period size: 32 Copynumber: 9.3 Consensus size: 32
32096015 GAATAGCTAC
* *
32096025 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
32096056 AAGCCATCAGTAGCAGTGATATGATCGGCCCA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** *
32096088 CAGCCATCAGTAATGGTAACATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * * *
32096120 AAGCCATCAGCAGCAATGATATGATCGGCCCA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* ** *
32096152 CAGCCATCAGTAATGGTAACATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * * *
32096184 AAGCCATCAATAGCAGTGATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
32096216 CAA-CCATCAGTAACAGTAAAATGATCGACACA
1 -AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
32096248 CAA-CCATC-GACAACGGTAATATGATTGGCACA
1 -AAGCCATCAG-TAACAGTAATATGATCGGCACA
* * * *
32096280 AAGTCATCAGTAACGGTACTATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
32096312 AAGCCATCA
1 AAGCCATCA
32096321 ATAGCATCGC
Statistics
Matches: 207, Mismatches: 53, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
31 13 0.06
32 191 0.92
33 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:32096126 original size:64 final size:64
Alignment explanation
Indices: 32096026--32096326 Score: 322
Period size: 64 Copynumber: 4.7 Consensus size: 64
32096016 AATAGCTACA
* * * * *
32096026 AGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCCCAC
1 AGCCATCAGTAACGGTAACATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
* * * *
32096089 AGCCATCAGTAATGGTAACATGATCGGCACAAAGCCATCAGCAGCAATGATATGATCGGCCCAC
1 AGCCATCAGTAACGGTAACATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
* * *
32096153 AGCCATCAGTAATGGTAACATGATCGGCACAAAGCCATCAATAGCAGTGATATGATCGGTACAC
1 AGCCATCAGTAACGGTAACATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
* * * * * * * * *
32096217 AACCATCAGTAACAGTAAAATGATCGACACACAA-CCATC-GACAACGGTAATATGATTGGCACA
1 AGCCATCAGTAACGGTAACATGATCGGCACA-AAGCCATCAG-TAGCAGTGATATGATCGGCACA
*
32096280 A
64 C
* * *
32096281 AGTCATCAGTAACGGT-ACTATGATTGGCACAAAGCCATCAATAGCA
1 AGCCATCAGTAACGGTAAC-ATGATCGGCACAAAGCCATCAGTAGCA
32096327 TCGCAGCAAA
Statistics
Matches: 197, Mismatches: 35, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
63 12 0.06
64 183 0.93
65 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (64 bp):
AGCCATCAGTAACGGTAACATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
Found at i:32096272 original size:128 final size:128
Alignment explanation
Indices: 32096025--32096326 Score: 360
Period size: 128 Copynumber: 2.4 Consensus size: 128
32096015 GAATAGCTAC
* * * * *
32096025 AAGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCCCAC
1 AAGCCATCAGTAACGGTAACATGATTGGCACAAAGCCATCAATAGCAGTGATATGATCGGCACAC
* ** * * * * *
32096089 AGCCATCAGTAATGGTAACATGATCGGCACAAAGCCATCAGCAGCAATGATATGATCGGCCCA
66 AACCATCAGTAACAGTAAAATGATCGACACAAAGCCATCAGCAACAATAATATGATCGGCACA
* * * *
32096152 CAGCCATCAGTAATGGTAACATGATCGGCACAAAGCCATCAATAGCAGTGATATGATCGGTACAC
1 AAGCCATCAGTAACGGTAACATGATTGGCACAAAGCCATCAATAGCAGTGATATGATCGGCACAC
** *
32096217 AACCATCAGTAACAGTAAAATGATCGACACACAA-CCATC-GACAACGGTAATATGATTGGCACA
66 AACCATCAGTAACAGTAAAATGATCGACACA-AAGCCATCAG-CAACAATAATATGATCGGCACA
*
32096280 AAGTCATCAGTAACGGT-ACTATGATTGGCACAAAGCCATCAATAGCA
1 AAGCCATCAGTAACGGTAAC-ATGATTGGCACAAAGCCATCAATAGCA
32096327 TCGCAGCAAA
Statistics
Matches: 147, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
127 12 0.08
128 133 0.90
129 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (128 bp):
AAGCCATCAGTAACGGTAACATGATTGGCACAAAGCCATCAATAGCAGTGATATGATCGGCACAC
AACCATCAGTAACAGTAAAATGATCGACACAAAGCCATCAGCAACAATAATATGATCGGCACA
Found at i:32096378 original size:26 final size:26
Alignment explanation
Indices: 32096319--32096379 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
32096309 ACAAAGCCAT
*
32096319 CAATAGCATCGCAGCAAAGCTACCAG
1 CAATAGTATCGCAGCAAAGCTACCAG
* * *
32096345 CAACAGTATCGCAGCAAAGGTGCCAG
1 CAATAGTATCGCAGCAAAGCTACCAG
*
32096371 TAATAGTAT
1 CAATAGTAT
32096380 ATGTGGCCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (26 bp):
CAATAGTATCGCAGCAAAGCTACCAG
Found at i:32096522 original size:24 final size:23
Alignment explanation
Indices: 32096495--32096576 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
32096485 CCATGCTTAG
32096495 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
* *
32096519 AATCAGTCATACCAAACACAGGCA
1 AATCAGTCAT-TCAAACACAGACA
* * *
32096543 AATCAGTCATTTAACCATAGACA
1 AATCAGTCATTCAAACACAGACA
* *
32096566 AAACAATCATT
1 AATCAGTCATT
32096577 TGACCTCAAG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 17 0.35
24 27 0.56
25 4 0.08
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.21
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:32096703 original size:54 final size:54
Alignment explanation
Indices: 32096613--32096916 Score: 335
Period size: 54 Copynumber: 5.6 Consensus size: 54
32096603 TTACCCACCA
*
32096613 GGGCATTAAGGTCATTTTACCCTACTA-GGGTATTACGAGCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTA-TAGGGGTATTACGAGCATTTTACCCTACAG
* * * * ** *
32096667 GGGAATTATGGTTATTTTACCCTATAGGGGCATTACGATTATTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGAGCATTTTACCCTACAG
* * * * * * *
32096721 GGGTATTACGGTCGTTTTACTCTACAAGGGCATTAC-AGTCATTTTACCCTACAA
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGAG-CATTTTACCCTACAG
* *
32096775 GGGCATTACGATCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTACAG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGAGCATTTTACCCTACAG
* * * *
32096829 GGGCATTACGGTCATTTTACCCTATAGGGGTATTTCG-GTATTCTACCTTACAG
1 GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGAGCATTTTACCCTACAG
** * *
32096882 GGGCATTTTGGTCATTTTAACCTATTGAGGGTATT
1 GGGCATTACGGTCATTTTACCCTATAG-GGGTATT
32096917 TCAGTCCAGA
Statistics
Matches: 209, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
53 38 0.18
54 170 0.81
55 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (54 bp):
GGGCATTACGGTCATTTTACCCTATAGGGGTATTACGAGCATTTTACCCTACAG
Found at i:32096711 original size:81 final size:81
Alignment explanation
Indices: 32096613--32096858 Score: 343
Period size: 81 Copynumber: 3.0 Consensus size: 81
32096603 TTACCCACCA
* * * *
32096613 GGGCATTAAGGTCATTTTACCCTACTA-GGGTATTACGAGCATTTTACCCTACAGGGGAATTATG
1 GGGCATTACGATCATTTTACCCTA-TAGGGGTATTACGAGCATTTTACCCTACAGGGGCATTACG
*
32096677 GTTATTTTACCCTATAG
65 GTCATTTTACCCTATAG
* * * * *
32096694 GGGCATTACGATTATTTTACCCTATAGGGGTATTACG-GTCGTTTTACTCTACAAGGGCATTACA
1 GGGCATTACGATCATTTTACCCTATAGGGGTATTACGAG-CATTTTACCCTACAGGGGCATTACG
* *
32096758 GTCATTTTACCCTACAA
65 GTCATTTTACCCTATAG
*
32096775 GGGCATTACGATCATTTTACCCTATAGGGGTATTACGATCATTTTACCCTACAGGGGCATTACGG
1 GGGCATTACGATCATTTTACCCTATAGGGGTATTACGAGCATTTTACCCTACAGGGGCATTACGG
32096840 TCATTTTACCCTATAG
66 TCATTTTACCCTATAG
32096856 GGG
1 GGG
32096859 TATTTCGGTA
Statistics
Matches: 142, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
80 3 0.02
81 139 0.98
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (81 bp):
GGGCATTACGATCATTTTACCCTATAGGGGTATTACGAGCATTTTACCCTACAGGGGCATTACGG
TCATTTTACCCTATAG
Found at i:32096883 original size:26 final size:27
Alignment explanation
Indices: 32096598--32096905 Score: 304
Period size: 27 Copynumber: 11.5 Consensus size: 27
32096588 GGCAAAAATA
*
32096598 GTCA-TTTACCC-ACCA-GGGCATTAAG
1 GTCATTTTACCCTA-CAGGGGCATTACG
*
32096623 GTCATTTTACCCTACTA-GGGTATTACG
1 GTCATTTTACCCTAC-AGGGGCATTACG
* *
32096650 AG-CATTTTACCCTACAGGGGAATTATG
1 -GTCATTTTACCCTACAGGGGCATTACG
* *
32096677 GTTATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
32096704 ATTATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
32096731 GTCGTTTTACTCTACAAGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
32096758 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
32096785 ATCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
32096812 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
32096839 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
32096866 GT-ATTCTACCTTACAGGGGCATTTTG
1 GTCATTTTACCCTACAGGGGCATTACG
*
32096892 GTCATTTTAACCTA
1 GTCATTTTACCCTA
32096906 TTGAGGGTAT
Statistics
Matches: 237, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.02
26 31 0.13
27 201 0.85
28 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:32109171 original size:30 final size:31
Alignment explanation
Indices: 32109135--32109195 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
32109125 TGATAGTACA
*
32109135 GTGTGGGCCATAACCCATTACAGTAA-CAGT
1 GTGTGGGCCATAACCCAATACAGTAATCAGT
* *
32109165 GTGTGGGCCTTAGCCCAATACAGTAATCAGT
1 GTGTGGGCCATAACCCAATACAGTAATCAGT
32109196 ACAATGTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (31 bp):
GTGTGGGCCATAACCCAATACAGTAATCAGT
Found at i:32109404 original size:26 final size:26
Alignment explanation
Indices: 32109298--32109404 Score: 144
Period size: 26 Copynumber: 4.1 Consensus size: 26
32109288 AACACACCAA
*
32109298 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
32109324 TGA-CGCAGCAAAGCTGCCAGTAACAG
1 T-ATCGCAGCAAAGCTGCCAGTAACAG
* * *
32109350 TAACGTAGCAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* *
32109376 TATCACAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
32109402 TAT
1 TAT
32109405 ACTTCCTCCA
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
25 1 0.01
26 69 0.97
27 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:32109582 original size:27 final size:27
Alignment explanation
Indices: 32109551--32109873 Score: 283
Period size: 27 Copynumber: 12.0 Consensus size: 27
32109541 GGGTATAATA
*
32109551 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* * * ** * *
32109578 TTCATTTTATCTAATAAGGGTAATTCA
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
32109605 TTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* ** * *
32109632 ATCATTCCACCCTT-TGAGGGTATTTCA
1 GTCATTTTA-CCTTATGGGGGTATTTCG
* * ***
32109659 GTCATTCTACCATATAAAGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
**
32109686 GTCATTTTACCTTATGGGGGTATTTTA
1 GTCATTTTACCTTATGGGGGTATTTCG
* *
32109713 GTGATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCTTATGGGGGTATTTCG
*
32109740 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGTATTTCG
* * * *
32109767 GTCATTCTACCCTATGGAGGTATTTCT
1 GTCATTTTACCTTATGGGGGTATTTCG
*
32109794 ATCATTTTA-CTCTATGGGGGTATTTCG
1 GTCATTTTACCT-TATGGGGGTATTTCG
*
32109821 GTCATTTTACCTTATGAGGGTAATTT-G
1 GTCATTTTACCTTATGGGGGT-ATTTCG
* * * *
32109848 GTCATTCTACCGTATAGAGGTATTTC
1 GTCATTTTACCTTATGGGGGTATTTC
32109874 AGTGCAGACA
Statistics
Matches: 238, Mismatches: 52, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
26 8 0.03
27 221 0.93
28 9 0.04
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCTTATGGGGGTATTTCG
Found at i:32110580 original size:24 final size:25
Alignment explanation
Indices: 32110548--32110594 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
32110538 CCCAAATCCC
32110548 AATATTCTCTCATCAAATCTCTCCA
1 AATATTCTCTCATCAAATCTCTCCA
* *
32110573 AATA-TCTCTCTTCAATTCTCTC
1 AATATTCTCTCATCAAATCTCTC
32110595 TACGACTAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (25 bp):
AATATTCTCTCATCAAATCTCTCCA
Found at i:32112140 original size:26 final size:26
Alignment explanation
Indices: 32112034--32112140 Score: 162
Period size: 26 Copynumber: 4.1 Consensus size: 26
32112024 AACACACCAA
*
32112034 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
32112060 TGA-CGCAGCAAAGCTGCCAGTAACAG
1 T-ATCGCAGCAAAGCTGCCAGTAACAG
* * *
32112086 TAACACAGCAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
32112112 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
32112138 TAT
1 TAT
32112141 ACTTCCTCCA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
25 1 0.01
26 71 0.97
27 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.16
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:32112327 original size:27 final size:27
Alignment explanation
Indices: 32112297--32112482 Score: 171
Period size: 27 Copynumber: 6.9 Consensus size: 27
32112287 AGTGTTTCAG
*
32112297 TCATTTTACCTTTTGGGGGTATTTTGA
1 TCATTTTACCTTATGGGGGTATTTTGA
* *
32112324 TCATTTTGCCTTATGGGGGTATTTCGA
1 TCATTTTACCTTATGGGGGTATTTTGA
*
32112351 TCATTTTAACC-TATGGGGGTATTTCGA
1 TCATTTT-ACCTTATGGGGGTATTTTGA
* * * ** *
32112378 TCATTCTACCCTATAGAAGTA-TTTCA
1 TCATTTTACCTTATGGGGGTATTTTGA
* *
32112404 GTCATTTTACCTTATGAGGGTATTTTGG
1 -TCATTTTACCTTATGGGGGTATTTTGA
* *
32112432 TCATTTTAACC-TATGAGGGTATTTTGG
1 TCATTTT-ACCTTATGGGGGTATTTTGA
* * *
32112459 TCGTTCTACCCTATGGGGGTATTT
1 TCATTTTACCTTATGGGGGTATTT
32112483 CAGTGCAGAC
Statistics
Matches: 132, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
26 9 0.07
27 115 0.87
28 8 0.06
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
TCATTTTACCTTATGGGGGTATTTTGA
Found at i:32112411 original size:81 final size:81
Alignment explanation
Indices: 32112324--32112486 Score: 227
Period size: 81 Copynumber: 2.0 Consensus size: 81
32112314 GGTATTTTGA
* * *
32112324 TCATTTTGCCTTATGGGGGTATTTCGATCATTTTAACCTATGGGGGTATTTCGATCATTCTACCC
1 TCATTTTACCTTATGAGGGTATTTCGATCATTTTAACCTATGAGGGTATTTCGATCATTCTACCC
32112389 TATAGAAGTATTTCAG
66 TATAGAAGTATTTCAG
* * * * *
32112405 TCATTTTACCTTATGAGGGTATTTTGGTCATTTTAACCTATGAGGGTATTTTGGTCGTTCTACCC
1 TCATTTTACCTTATGAGGGTATTTCGATCATTTTAACCTATGAGGGTATTTCGATCATTCTACCC
* **
32112470 TATGGGGGTATTTCAG
66 TATAGAAGTATTTCAG
32112486 T
1 T
32112487 GCAGACATCG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 71 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (81 bp):
TCATTTTACCTTATGAGGGTATTTCGATCATTTTAACCTATGAGGGTATTTCGATCATTCTACCC
TATAGAAGTATTTCAG
Found at i:32117242 original size:15 final size:15
Alignment explanation
Indices: 32117222--32117250 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32117212 GTATTGTTGC
32117222 TTGATAACATGGTGA
1 TTGATAACATGGTGA
32117237 TTGATAACATGGTG
1 TTGATAACATGGTG
32117251 TGTGTGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
TTGATAACATGGTGA
Found at i:32125832 original size:15 final size:15
Alignment explanation
Indices: 32125812--32125843 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32125802 GTTGCTATAG
*
32125812 AAATAAAATAAATAA
1 AAATAAAAGAAATAA
32125827 AAATAAAAGAAATAA
1 AAATAAAAGAAATAA
32125842 AA
1 AA
32125844 TGAGTGAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (15 bp):
AAATAAAAGAAATAA
Found at i:32128021 original size:51 final size:51
Alignment explanation
Indices: 32127962--32128152 Score: 237
Period size: 51 Copynumber: 3.8 Consensus size: 51
32127952 CCGGTTCACA
*
32127962 TAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * *
32128013 TAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCCGA-TACACG
* ** * *
32128064 TAGTAGCCTGCACATAGTACTACACATGCAACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATACACG
32128114 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
32128153 TTCACTTTCA
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
49 4 0.03
50 39 0.33
51 72 0.62
52 1 0.01
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:32128137 original size:101 final size:102
Alignment explanation
Indices: 32127960--32128144 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
32127950 TACCGGTTCA
**
32127960 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACGTAGTAGCCTGCA
32128025 CATAGTACTACACACGTGATCAAAGCTATCCAGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCCAGTACG
* *
32128062 CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACC-ATCACTATCCGATACACGTAGTAGCCTGC
32128125 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
32128145 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
101 40 0.51
102 34 0.44
103 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAGCTATCCAGTACG
Found at i:32129616 original size:3 final size:3
Alignment explanation
Indices: 32129608--32129639 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
32129598 GTCTCAAAAT
32129608 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
32129640 TGTGTCTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:32130730 original size:12 final size:12
Alignment explanation
Indices: 32130713--32130738 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32130703 TGTCTATAGA
32130713 AATAAAATAAAT
1 AATAAAATAAAT
32130725 AATAAAATAAAT
1 AATAAAATAAAT
32130737 AA
1 AA
32130739 AGTGTGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAAATAAAT
Found at i:32133261 original size:31 final size:32
Alignment explanation
Indices: 32133205--32133289 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 32
32133195 TTATATACTA
*
32133205 AATAAAATAATAAAATATCTCATTAAA-ATATT
1 AATAAAATAATAAAATATCTAATTAAATA-ATT
**
32133237 AATAAAATAAT-ATTTATCTAATTAAATAATT
1 AATAAAATAATAAAATATCTAATTAAATAATT
32133268 -ATAAAATATCATCAAAATATCT
1 AATAAAATA--AT-AAAATATCT
32133290 CTAATATCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
30 8 0.19
31 15 0.35
32 14 0.33
34 6 0.14
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (32 bp):
AATAAAATAATAAAATATCTAATTAAATAATT
Found at i:32136245 original size:11 final size:11
Alignment explanation
Indices: 32136229--32136253 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32136219 GGCGAGAGAA
32136229 GTGGATATAAG
1 GTGGATATAAG
32136240 GTGGATATAAG
1 GTGGATATAAG
32136251 GTG
1 GTG
32136254 TTTCTGCCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (11 bp):
GTGGATATAAG
Found at i:32137482 original size:25 final size:25
Alignment explanation
Indices: 32137420--32137532 Score: 70
Period size: 25 Copynumber: 4.5 Consensus size: 25
32137410 GTACATGTAT
* * *
32137420 GCTCATACGAGCTATGAATCGGTAT
1 GCTCATACGAGCTATAAATCAGTAA
* *
32137445 GCTC-TCACAAGCTGTAAATCAGTAA
1 GCTCAT-ACGAGCTATAAATCAGTAA
**
32137470 GCTCATACGAGCTA-AGAATTGGTAA
1 GCTCATACGAGCTATA-AATCAGTAA
* * * *
32137495 GCTCTTACGAACTA-AGTATCATTAA
1 GCTCATACGAGCTATA-AATCAGTAA
*
32137520 GCTCATATGAGCT
1 GCTCATACGAGCT
32137533 GAGAATCGGT
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
24 2 0.03
25 64 0.96
26 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCAGTAA
Found at i:32137521 original size:50 final size:49
Alignment explanation
Indices: 32137420--32137543 Score: 135
Period size: 50 Copynumber: 2.5 Consensus size: 49
32137410 GTACATGTAT
* *
32137420 GCTCATACGAGCTATGAATCGGTATGCTCTCACAAGCTGTAAATCAGTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGT-AATCAGTAA
* * *
32137470 GCTCATACGAGCTAAGAATTGGTAAGCTCTTACGAA-CTAAGT-ATCATTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCAC-AAGCT--GTAATCAGTAA
* *
32137520 GCTCATATGAGCTGAGAATCGGTA
1 GCTCATACGAGCTAAGAATCGGTA
32137544 GTCCCTAATG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 59 0.94
51 2 0.03
52 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (49 bp):
GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGTAATCAGTAA
Found at i:32146494 original size:27 final size:27
Alignment explanation
Indices: 32146455--32146522 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
32146445 GATATACCCC
* *
32146455 GTGTTTATCGTCCTGACAAACTATCCT
1 GTGTTTAACGTCCCGACAAACTATCCT
* * *
32146482 GTGTTTAAGGTCCCGACAGACTATCTT
1 GTGTTTAACGTCCCGACAAACTATCCT
*
32146509 GTGTTTAACATCCC
1 GTGTTTAACGTCCC
32146523 ATTGGACTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTGTTTAACGTCCCGACAAACTATCCT
Found at i:32161157 original size:15 final size:15
Alignment explanation
Indices: 32161145--32161175 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32161135 CATGGGCCGA
32161145 GCCGAGTTGGGCCAT
1 GCCGAGTTGGGCCAT
32161160 GCCGAGTTGGGCCAT
1 GCCGAGTTGGGCCAT
32161175 G
1 G
32161176 TGGGCTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GCCGAGTTGGGCCAT
Found at i:32164553 original size:15 final size:16
Alignment explanation
Indices: 32164517--32164547 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32164507 ATTTGGTTGA
*
32164517 GAAAATTTTTTAATTG
1 GAAATTTTTTTAATTG
32164533 GAAATTTTTTTAATT
1 GAAATTTTTTTAATT
32164548 TAAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (16 bp):
GAAATTTTTTTAATTG
Found at i:32166190 original size:39 final size:39
Alignment explanation
Indices: 32166147--32166226 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
32166137 GTAAAAACAA
32166147 AAAACATTA-CAAATAATGTAATAATTTGA-ATAATTGTAT
1 AAAACATTATCAAA-AATGTAATAATTT-ATATAATTGTAT
* *
32166186 AAAACATTATGAAAATTGTAATAATTTATATAATTGTAT
1 AAAACATTATCAAAAATGTAATAATTTATATAATTGTAT
32166225 AA
1 AA
32166227 TATTCTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 1 0.03
39 33 0.89
40 3 0.08
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (39 bp):
AAAACATTATCAAAAATGTAATAATTTATATAATTGTAT
Found at i:32166576 original size:23 final size:24
Alignment explanation
Indices: 32166533--32166578 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32166523 ATCAGTTTAT
*
32166533 ATTTTTAAAATTTTAAGAAATAAG
1 ATTTTTAAAATTTCAAGAAATAAG
32166557 ATTTTTAATAA-TTCAA-AAATAA
1 ATTTTTAA-AATTTCAAGAAATAA
32166579 AATATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 12 0.60
25 2 0.10
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
ATTTTTAAAATTTCAAGAAATAAG
Found at i:32171660 original size:34 final size:33
Alignment explanation
Indices: 32171620--32171725 Score: 117
Period size: 34 Copynumber: 3.2 Consensus size: 33
32171610 AAATATAAAA
*
32171620 ATAAAATATTTGAAATATTTTAATATAATTTAAT
1 ATAAAATATTT-AAATATTATAATATAATTTAAT
* *
32171654 ATAAAATATTT-AAT-TTCAAAATATAATTTAAA
1 ATAAAATATTTAAATATT-ATAATATAATTTAAT
* * *
32171686 ATACAATATTTTAAACATTCTAATATAATTTAAT
1 ATAAAATA-TTTAAATATTATAATATAATTTAAT
32171720 ATAAAA
1 ATAAAA
32171726 ATAATTATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
31 2 0.03
32 22 0.37
33 3 0.05
34 30 0.51
35 2 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (33 bp):
ATAAAATATTTAAATATTATAATATAATTTAAT
Done.