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 82 of 208
Found at i:24061734 original size:5 final size:5
Alignment explanation
Indices: 24061714--24061747 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
24061704 GCACTGGAAT
*
24061714 GAAGA GGAGAA GAAGA GAAGA GAAGA GAAGA GAA
1 GAAGA GAAG-A GAAGA GAAGA GAAGA GAAGA GAA
24061748 AAAAGAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:24068069 original size:28 final size:28
Alignment explanation
Indices: 24067996--24068088 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
24067986 GAGCCCTATA
*
24067996 CAATATCAGT-ATAGTGTCGGCCTTAGCC
1 CAATA-CAGTAATAGTGTGGGCCTTAGCC
* * * * *
24068024 CAAAACAATAACAATGTGGGCATTAGCC
1 CAATACAGTAATAGTGTGGGCCTTAGCC
24068052 CAATACAGTAATAGTGTGGGCCTTAGCC
1 CAATACAGTAATAGTGTGGGCCTTAGCC
24068080 CAATACAGT
1 CAATACAGT
24068089 GATCAGTACA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 3 0.06
28 50 0.94
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (28 bp):
CAATACAGTAATAGTGTGGGCCTTAGCC
Found at i:24070579 original size:5 final size:5
Alignment explanation
Indices: 24070561--24070594 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
24070551 GCACTGGAAT
24070561 GAAGA GAAGAA GAAGA GAAGA GAAGA GAAGA GAA
1 GAAGA GAAG-A GAAGA GAAGA GAAGA GAAGA GAA
24070595 AAGAGAAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:24073433 original size:4 final size:4
Alignment explanation
Indices: 24073424--24073453 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
24073414 TGGAAAACCT
*
24073424 AAGA AAGA AATA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
24073454 ACGAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (4 bp):
AAGA
Found at i:24075764 original size:42 final size:43
Alignment explanation
Indices: 24075683--24075767 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 43
24075673 CCATATTTCA
* *
24075683 TTTCTCATTTCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
* *
24075726 TTTCTCATCTCATATTCA-TTATCATATTTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
24075768 CAATCACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
42 22 0.58
43 16 0.42
ACGTcount: A:0.26, C:0.20, G:0.02, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:24089243 original size:31 final size:31
Alignment explanation
Indices: 24089205--24089265 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
24089195 GAATTACGAA
24089205 GGATTATATGCTTGTGTATCCCGAAAGAGAG
1 GGATTATATGCTTGTGTATCCCGAAAGAGAG
24089236 GGATTATATGCTTGTGTATCCCGAAAGAGA
1 GGATTATATGCTTGTGTATCCCGAAAGAGA
24089266 TCTTACTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (31 bp):
GGATTATATGCTTGTGTATCCCGAAAGAGAG
Found at i:24090038 original size:42 final size:43
Alignment explanation
Indices: 24089978--24090067 Score: 173
Period size: 42 Copynumber: 2.1 Consensus size: 43
24089968 CATGCCCTTA
24089978 GTCTAATCGGAAATGAGAAAATCGATTGAAAGAATAATATGTC
1 GTCTAATCGGAAATGAGAAAATCGATTGAAAGAATAATATGTC
24090021 -TCTAATCGGAAATGAGAAAATCGATTGAAAGAATAATATGTC
1 GTCTAATCGGAAATGAGAAAATCGATTGAAAGAATAATATGTC
24090063 GTCTA
1 GTCTA
24090068 TCTAGTCCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 42 0.91
43 4 0.09
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (43 bp):
GTCTAATCGGAAATGAGAAAATCGATTGAAAGAATAATATGTC
Found at i:24104155 original size:22 final size:22
Alignment explanation
Indices: 24104121--24104164 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24104111 CAAATTTGTG
* *
24104121 AAAATTTATTATAAAAATAATT
1 AAAATTAAATATAAAAATAATT
**
24104143 AAAATTAAATATATTAATAATT
1 AAAATTAAATATAAAAATAATT
24104165 TAAGAGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAAATATAAAAATAATT
Found at i:24106771 original size:50 final size:50
Alignment explanation
Indices: 24106717--24106818 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
24106707 TCCTCAGAAA
24106717 AAGACAGAGTTAATTCGCTTGAGGTCAAATTCGCATAAATTTCACAAACT
1 AAGACAGAGTTAATTCGCTTGAGGTCAAATTCGCATAAATTTCACAAACT
24106767 AAGACAGAGTTAATTCGCTTGAGGTCAAATTCGCATAAATTTCACAAACT
1 AAGACAGAGTTAATTCGCTTGAGGTCAAATTCGCATAAATTTCACAAACT
24106817 AA
1 AA
24106819 CTCTTCATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (50 bp):
AAGACAGAGTTAATTCGCTTGAGGTCAAATTCGCATAAATTTCACAAACT
Found at i:24109862 original size:66 final size:66
Alignment explanation
Indices: 24109740--24109863 Score: 185
Period size: 66 Copynumber: 1.9 Consensus size: 66
24109730 TTATTGCATT
* * *
24109740 AATGTTGCTGTATGAGTTAATTCCAGATTGCGTTCAGAATTGTCGCCGCATCTGACAGATGTCTG
1 AATGTCGCTGCATGAGTTAATTCCAGATTGCGTTCAGAATTGTCGCCGAATCTGACAGATGTCTG
24109805 C
66 C
* * * *
24109806 AATGTCGCTGCATGGGTTAATTCTAGATTGCGTTCAGAATTGTCGCTGAATTTGACAG
1 AATGTCGCTGCATGAGTTAATTCCAGATTGCGTTCAGAATTGTCGCCGAATCTGACAG
24109864 CTATCTGGAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (66 bp):
AATGTCGCTGCATGAGTTAATTCCAGATTGCGTTCAGAATTGTCGCCGAATCTGACAGATGTCTG
C
Found at i:24118014 original size:21 final size:20
Alignment explanation
Indices: 24117952--24118016 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
24117942 GCTGTTGATA
*
24117952 AGGAAGTTGATGCTGCAGAAG
1 AGGAAGTTGTTGCTG-AGAAG
* *
24117973 CAAG-AGTTGTTG-T-AGATG
1 -AGGAAGTTGTTGCTGAGAAG
24117991 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGTTGCTG-AGAAG
24118012 AGGAA
1 AGGAA
24118017 ATTGCTGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
17 2 0.06
18 12 0.35
19 1 0.03
20 1 0.03
21 16 0.47
22 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.37, T:0.23
Consensus pattern (20 bp):
AGGAAGTTGTTGCTGAGAAG
Found at i:24120011 original size:26 final size:22
Alignment explanation
Indices: 24119949--24120001 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
24119939 ATCTTATTTA
*
24119949 TTAGTACGTTAAACATGAGAGC
1 TTAGTACGTGAAACATGAGAGC
24119971 TTAGTACGTGAAACATGAGAGC
1 TTAGTACGTGAAACATGAGAGC
24119993 TTAGTACGT
1 TTAGTACGT
24120002 ACTATCAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (22 bp):
TTAGTACGTGAAACATGAGAGC
Found at i:24120266 original size:50 final size:50
Alignment explanation
Indices: 24120149--24120484 Score: 338
Period size: 50 Copynumber: 6.7 Consensus size: 50
24120139 GAATATAACA
* * * ** * *
24120149 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCT-CGG
* * * * * *
24120198 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGA-GTTCTCATATAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATCTCGG
* * ** *
24120248 TGCCCATGCCATGTCCCAGGCATGGTCTTACGGGGGACCTTTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
* *
24120298 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
* * *
24120348 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
** * * *
24120398 TG-TTATCGCCATGTCCAAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAAT-GCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
* * *
24120448 TGCCAATTCCATGTCCCATACATGGTATTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
24120485 TCTCTTTACC
Statistics
Matches: 239, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.01
49 36 0.15
50 196 0.82
51 4 0.02
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
Found at i:24120377 original size:150 final size:149
Alignment explanation
Indices: 24120149--24120484 Score: 379
Period size: 150 Copynumber: 2.2 Consensus size: 149
24120139 GAATATAACA
* * * ** * * *
24120149 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCC
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCATCTACTGCCAACGCCATATCC
* ** * *
24120214 CAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCAT-GCCATGTCCCAGGCATGGTCTTA
66 CAGACATGGTCTTACATGAGACCTCTCATATAGGTG-CCATCGCCATGTCCAAGACATGGTCTTA
* * *
24120278 CGGGGGACCTTTCATCTTGG
130 CAGGGGACCTCTCATCTCGG
* *
24120298 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCATCT-CGGTGCCAACGCCATGT
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCATCTAC--TGCCAACGCCATAT
* * **
24120362 CCCAGACATGGTCTTACATGAGACCTCTCATCTCGGTGTTATCGCCATGTCCAAGACATGGTCTT
64 CCCAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCATCGCCATGTCCAAGACATGGTCTT
* *
24120427 ATATGGGACCTCTCATCTCGG
129 ACAGGGGACCTCTCATCTCGG
** * *
24120448 TGCCAATTCCATGTCCCATACATGGTATTACATGGGA
1 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGA
24120485 TCTCTTTACC
Statistics
Matches: 156, Mismatches: 28, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
148 1 0.01
149 41 0.26
150 114 0.73
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (149 bp):
TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGACCTTTCATCTACTGCCAACGCCATATCC
CAGACATGGTCTTACATGAGACCTCTCATATAGGTGCCATCGCCATGTCCAAGACATGGTCTTAC
AGGGGACCTCTCATCTCGG
Found at i:24124118 original size:4 final size:5
Alignment explanation
Indices: 24124082--24124123 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
24124072 ATTATGTATT
24124082 TTGAA TTGAA TTGAA TTGAA -TGAA TATAGAA TT-AA TTGAA TT
1 TTGAA TTGAA TTGAA TTGAA TTGAA T-T-GAA TTGAA TTGAA TT
24124124 TACTTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
4 8 0.24
5 19 0.58
6 2 0.06
7 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (5 bp):
TTGAA
Found at i:24124121 original size:16 final size:15
Alignment explanation
Indices: 24124082--24124123 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
24124072 ATTATGTATT
24124082 TTGAATTGAATTGAA
1 TTGAATTGAATTGAA
24124097 TTGAA-TGAATATAGAA
1 TTGAATTGAAT-T-GAA
24124113 TT-AATTGAATT
1 TTGAATTGAATT
24124124 TACTTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 9 0.38
16 10 0.42
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (15 bp):
TTGAATTGAATTGAA
Found at i:24124548 original size:41 final size:41
Alignment explanation
Indices: 24124452--24124550 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 41
24124442 TGCAGATACT
*
24124452 TGTCAGCTTGTGTGAGCGGCATGGTGTAGCTACATTCTGAC
1 TGTCAGCTTGTGTGAGCGGCATCGTGTAGCTACATTCTGAC
* * * *
24124493 CGTAAACTTGTGTGAGCGGCATCGTGTAGCTACATTTTGAC
1 TGTCAGCTTGTGTGAGCGGCATCGTGTAGCTACATTCTGAC
*
24124534 TGTCAGCTTTTGTGAGC
1 TGTCAGCTTGTGTGAGC
24124551 AGACCAATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTCAGCTTGTGTGAGCGGCATCGTGTAGCTACATTCTGAC
Found at i:24131552 original size:17 final size:17
Alignment explanation
Indices: 24131530--24131562 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24131520 GTTAGTGAAC
24131530 ATTGTCATTGCATTTTT
1 ATTGTCATTGCATTTTT
24131547 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
24131563 AATGTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:24136769 original size:13 final size:13
Alignment explanation
Indices: 24136751--24136786 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
24136741 CCAGCCCGCC
24136751 TATATTAATTTTT
1 TATATTAATTTTT
24136764 TATATT-A-TTTT
1 TATATTAATTTTT
24136775 TATA-TAATTTTT
1 TATATTAATTTTT
24136787 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.43
12 5 0.24
13 6 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATATTAATTTTT
Found at i:24136945 original size:30 final size:30
Alignment explanation
Indices: 24136909--24136971 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
24136899 ACTTAACAAG
24136909 CAAATGCCTCTAAAATAAT-ATCAAAATTAA
1 CAAATGCCTCTAAAATAATAAT-AAAATTAA
24136939 CAAATGCCTCTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAATAAAATTAA
24136969 CAA
1 CAA
24136972 TAAAACAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAATAAAATTAA
Found at i:24142990 original size:18 final size:16
Alignment explanation
Indices: 24142958--24142989 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24142948 GAAGTATGGC
24142958 CGGCCACATGAGAGAG
1 CGGCCACATGAGAGAG
24142974 CGGCCACATGAGAGAG
1 CGGCCACATGAGAGAG
24142990 ACAAGGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.38, T:0.06
Consensus pattern (16 bp):
CGGCCACATGAGAGAG
Found at i:24149648 original size:42 final size:43
Alignment explanation
Indices: 24149549--24149658 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
24149539 CAGTGATATG
* * * *
24149549 GGGAATCAACACATAGCAACCCCTTTTCACAATCAAGGATACG
1 GGGAATCAACACTTAGCAACCCCTTTTCAAAATCAAGAATACA
* *
24149592 GTGGAAT-AAGCACTTAGCAACCACC-TTT-AAAATCAATAATTCA
1 G-GGAATCAA-CACTTAGCAACC-CCTTTTCAAAATCAAGAATACA
24149635 GGGAATCAACACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
24149659 CGGGGAATCT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.04
42 17 0.30
43 16 0.29
44 19 0.34
45 2 0.04
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (43 bp):
GGGAATCAACACTTAGCAACCCCTTTTCAAAATCAAGAATACA
Found at i:24149672 original size:26 final size:26
Alignment explanation
Indices: 24149635--24149684 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24149625 CAATAATTCA
24149635 GGGAATCAACACTTAGCAACCCCTCG
1 GGGAATCAACACTTAGCAACCCCTCG
*
24149661 GGGAATCTACACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
24149685 TTCTGATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (26 bp):
GGGAATCAACACTTAGCAACCCCTCG
Found at i:24149715 original size:41 final size:42
Alignment explanation
Indices: 24149658--24149768 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 42
24149648 TAGCAACCCC
* *
24149658 TCGGGGAATCTACACTTAGCAACCCCTTTCTGATTAGAG-TT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTCTGATCAGAGATT
* * *
24149699 TCGGGGAACCTGCACTTAGCAACCCCTTTTTGATCAGTGATT
1 TCGGGGAATCTGCACTTAGCAACCCCTTTCTGATCAGAGATT
*
24149741 TCAGGGAATCTGCACTTAGCAACCCCTT
1 TCGGGGAATCTGCACTTAGCAACCCCTT
24149769 ACATTCAATG
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 34 0.55
42 28 0.45
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (42 bp):
TCGGGGAATCTGCACTTAGCAACCCCTTTCTGATCAGAGATT
Found at i:24157015 original size:41 final size:41
Alignment explanation
Indices: 24156965--24157203 Score: 155
Period size: 42 Copynumber: 5.7 Consensus size: 41
24156955 TAACCGTTAC
24156965 TCGGTGGAATCAGCACTTAGCAACCACC-TTATATTCAGTGAT
1 TCGG-GGAATCAGCACTTAGCAACC-CCTTTATATTCAGTGAT
* * * *
24157007 ACGGGGAATCAGCA-TATCGCAACCCCTTTTCACAATCAAG-GAT
1 TCGGGGAATCAGCACT-TAGCAACCCC-TTT-ATATTC-AGTGAT
* * * * * *
24157050 ACGGTAGAATCAGCACTTAGCAACCACCTTTAGAATCAATAAT
1 TCGG-GGAATCAGCACTTAGCAACC-CCTTTATATTCAGTGAT
* ** * * *
24157093 TTGGGGAATTTGCACTTAGCAACCCCTTTTTTATT-AGAGTT
1 TCGGGGAATCAGCACTTAGCAACCCC-TTTATATTCAGTGAT
* * *
24157134 TCGGGGAATCTGCACTTAACAACCCCTTTTTGA-TCAGTGATT
1 TCGGGGAATCAGCACTTAGCAACCCCTTTAT-ATTCAGTGA-T
* *
24157176 TCGGGGAATCTGCACTTAGCAACACCTT
1 TCGGGGAATCAGCACTTAGCAACCCCTT
24157204 ACATTCAATG
Statistics
Matches: 156, Mismatches: 28, Indels: 26
0.74 0.13 0.12
Matches are distributed among these distances:
40 9 0.06
41 48 0.31
42 55 0.35
43 20 0.13
44 21 0.13
45 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (41 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTTATATTCAGTGAT
Found at i:24157073 original size:44 final size:44
Alignment explanation
Indices: 24156966--24157203 Score: 128
Period size: 41 Copynumber: 5.7 Consensus size: 44
24156956 AACCGTTACT
* *
24156966 CGGTGGAATCAGCACTTAGCAACCACC--TTATATTCAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTTACAATCAGTGATA
*
24157008 CGG-GGAATCAGCA-TATCGCAACC-CCTTTTCACAATCAAG-GATA
1 CGGTGGAATCAGCACT-TAGCAACCACCTTTT-ACAATC-AGTGATA
* * * * *
24157051 CGGTAGAATCAGCACTTAGCAACCACC-TTTAGAATCAATAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTTACAATCAGTGATA
* ** ** * * * *
24157094 TGG-GGAATTTGCACTTAGCAACC-CCTTTT-TTATTAGAGTTT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTTACAATCAGTGATA
* * ** *
24157135 CGG-GGAATCTGCACTTAACAACC-CCTTTT-TGATCAGTGATTT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTTACAATCAGTGA-TA
*
24157177 CGG-GGAATCTGCACTTAGCAA-CACCTT
1 CGGTGGAATCAGCACTTAGCAACCACCTT
24157204 ACATTCAATG
Statistics
Matches: 156, Mismatches: 28, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
40 3 0.02
41 57 0.37
42 52 0.33
43 20 0.13
44 21 0.13
45 3 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTTACAATCAGTGATA
Found at i:24157087 original size:43 final size:44
Alignment explanation
Indices: 24156966--24157121 Score: 132
Period size: 41 Copynumber: 3.7 Consensus size: 44
24156956 AACCGTTACT
* *
24156966 CGGTGGAATCAGCACTTAGCAACCACC-TTATATTC-AGTGATA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAAGTGATA
*
24157008 CGG-GGAATCAGCA-TATCGCAACC-CCTTTTCACAATCAAG-GATA
1 CGGTGGAATCAGCACT-TAGCAACCACC-TTT-ACAATCAAGTGATA
* * * *
24157051 CGGTAGAATCAGCACTTAGCAACCACCTTTAGAATCAA-TAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAAGTGATA
* **
24157094 TGG-GGAATTTGCACTTAGCAACC-CCTTT
1 CGGTGGAATCAGCACTTAGCAACCACCTTT
24157122 TTTATTAGAG
Statistics
Matches: 93, Mismatches: 12, Indels: 19
0.75 0.10 0.15
Matches are distributed among these distances:
40 3 0.03
41 22 0.24
42 22 0.24
43 22 0.24
44 21 0.23
45 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (44 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTACAATCAAGTGATA
Found at i:24164668 original size:150 final size:148
Alignment explanation
Indices: 24164412--24165062 Score: 1006
Period size: 150 Copynumber: 4.4 Consensus size: 148
24164402 TAGACATTTT
*
24164412 TTCGTATTTTTTTCCTCGGATTTTATTACTTTTAAAAATATACTATTTTTTTAATTTTTTATTTT
1 TTCGTATTTTTTTCC-CGAATTTTATTACTTTTAAAAATATACTA-TTTTTTAATTTTTTATTTT
* *
24164477 ACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTCTTTTTTAAATAAATTTAAAT
64 ACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAA-
*
24164542 AAA-CTTATTTCGACCCTATG
128 AAACCTTATTTCGGCCCTATG
* * *
24164562 TTCGTATTTTTATCCCAAATTTTATTACTTATAAAAAATATACTATTTTTTAATTTTTTTATTTT
1 TTCGTATTTTTTTCCCGAATTTTATTACTT-TTAAAAATATACTATTTTTTAA-TTTTTTATTTT
* *
24164627 ACATTATTTTAGTATATTATATTTTAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTAAAAA
64 ACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAA
*
24164692 AACCCTTATCTCGGCCCTATG
129 AA-CCTTATTTCGGCCCTATG
** *
24164713 TTCGTA-TTTTTTCTTGGATTTTATTACTTTTAAAAATATACTATTTTTTAATTTTTTATTTTAC
1 TTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAATATACTATTTTTTAATTTTTTATTTTAC
*
24164777 AATATTTTAGTATATTATATTTGAAATGTATTAATTTA-T-T-TTTTTTAAATAAATTTAAAAAA
66 ATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAA
24164839 CCCTTATTTCGGCCCTATG
131 -CCTTATTTCGGCCCTATG
24164858 TTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTATTTTTTAAATTTTTTATTTT
1 TTCGTATTTTTTTCCCGAATTTTATTACTTTT-AAAAATATACTATTTTTT-AATTTTTTATTTT
*
24164923 ACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTTTGTTTTTTAAATAAATTTTAAA
64 ACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-TTTAAA
* *
24164988 AAACCCCTTCTTTTGGCCCTATG
128 AAA--CCTTATTTCGGCCCTATG
24165011 TTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAATATACTATTTTTTAA
1 TTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAATATACTATTTTTTAA
24165063 ATTTAGAGTT
Statistics
Matches: 463, Mismatches: 26, Indels: 23
0.90 0.05 0.04
Matches are distributed among these distances:
145 45 0.10
146 23 0.05
147 19 0.04
148 101 0.22
149 46 0.10
150 117 0.25
151 36 0.08
152 27 0.06
153 49 0.11
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (148 bp):
TTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAATATACTATTTTTTAATTTTTTATTTTAC
ATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAA
CCTTATTTCGGCCCTATG
Found at i:24164972 original size:296 final size:300
Alignment explanation
Indices: 24164412--24165062 Score: 1071
Period size: 296 Copynumber: 2.2 Consensus size: 300
24164402 TAGACATTTT
24164412 TTCGTATTTTTTTCCTCGGATTTTATTACTTTTAAAAATATACTATTTTTTTAATTTTTTATTTT
1 TTCGTATTTTTTT-CTCGGATTTTATTACTTTTAAAAATATACTA-TTTTTTAATTTTTTATTTT
*
24164477 ACATTATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTCTTTTTTAAATAAATTTAAAT
64 ACAATATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTCTTTTTTAAATAAATTTAAAT
24164542 AAACTTATTTCGACCCTATGTTCGTATTTTTATCCCAAATTTTATTACTTATAAAAAATATACTA
129 AAACTTATTTCGACCCTATGTTCGTATTTTTATCCCAAATTTTATTACTTATAAAAAATATACTA
* *
24164607 TTTTTTAATTTTTTTATTTTACATTATTTTAGTATATTATATTTTAAATGTATTAATTTAGTGTG
194 TTTTTTAAATTTTTTATTTTACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTG
24164672 TTTTTTAAATAAA-TTAAAAAAACCCTTATCTCGGCCCTATG
259 TTTTTTAAATAAATTTAAAAAAACCCTTATCTCGGCCCTATG
*
24164713 TTCGTA-TTTTTTCTTGGATTTTATTACTTTTAAAAATATACTATTTTTTAATTTTTTATTTTAC
1 TTCGTATTTTTTTCTCGGATTTTATTACTTTTAAAAATATACTATTTTTTAATTTTTTATTTTAC
*
24164777 AATATTTTAGTATATTATATTTGAAATGTATTAATTTA-T-T-TTTTTTAAATAAATTTAAA-AA
66 AATATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTCTTTTTTAAATAAATTTAAATAA
* * * *
24164838 ACCCTTATTTCGGCCCTATGTTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAAATATACTA
131 A--CTTATTTCGACCCTATGTTCGTATTTTTATCCCAAATTTTATTACTTATAAAAAATATACTA
*
24164903 TTTTTTAAATTTTTTATTTTACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTTTG
194 TTTTTTAAATTTTTTATTTTACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTG
* * * *
24164968 TTTTTTAAATAAATTTTAAAAAACCCCTTCTTTTGGCCCTATG
259 TTTTTTAAATAAA-TTTAAAAAAACCCTTATCTCGGCCCTATG
* *
24165011 TTCGTATTTTTTTCCCGAATTTTATTACTTTTAAAAATATACTATTTTTTAA
1 TTCGTATTTTTTTCTCGGATTTTATTACTTTTAAAAATATACTATTTTTTAA
24165063 ATTTAGAGTT
Statistics
Matches: 328, Mismatches: 17, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
294 3 0.01
295 19 0.06
296 134 0.41
297 1 0.00
298 87 0.27
299 72 0.22
300 6 0.02
301 6 0.02
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (300 bp):
TTCGTATTTTTTTCTCGGATTTTATTACTTTTAAAAATATACTATTTTTTAATTTTTTATTTTAC
AATATTTTAGTACATTATATTTGAAATGTATTAATTTAGTGTCTTTTTTAAATAAATTTAAATAA
ACTTATTTCGACCCTATGTTCGTATTTTTATCCCAAATTTTATTACTTATAAAAAATATACTATT
TTTTAAATTTTTTATTTTACATTATTTTAGTATATTATATTTGAAATGTATTAATTTAGTGTGTT
TTTTAAATAAATTTAAAAAAACCCTTATCTCGGCCCTATG
Found at i:24170503 original size:14 final size:15
Alignment explanation
Indices: 24170479--24170507 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24170469 AAAGAGGCAA
24170479 GAAGAAGGAAAAGAG
1 GAAGAAGGAAAAGAG
24170494 GAAG-AGGAAAAGAG
1 GAAGAAGGAAAAGAG
24170508 AACAAAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (15 bp):
GAAGAAGGAAAAGAG
Found at i:24181494 original size:21 final size:21
Alignment explanation
Indices: 24181464--24181511 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
24181454 ATCGAACTTT
* *
24181464 TTAAACCTTCTAGA-TTGCTTC
1 TTAAAGCTTCTA-ACTTGATTC
24181485 TTAAAGCTTCTAACTTGATTC
1 TTAAAGCTTCTAACTTGATTC
24181506 TTAAAG
1 TTAAAG
24181512 GCCTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (21 bp):
TTAAAGCTTCTAACTTGATTC
Found at i:24184046 original size:3 final size:3
Alignment explanation
Indices: 24184038--24184072 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
24184028 AAAATTTATA
24184038 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24184073 AAAAAGTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24186208 original size:50 final size:50
Alignment explanation
Indices: 24186154--24186711 Score: 476
Period size: 50 Copynumber: 11.1 Consensus size: 50
24186144 TCGGGGAAAC
* * *
24186154 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAAGAAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGGAAGT
* * * ** * * * *
24186204 AAGATTCGTCATTGTGGCTTTAATCTTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATC-TGTTCCACTGCAACGCCAGGGAAGT
** * * *
24186255 AAGATTCGCTATTATGGCTTTAATCTGTTCCACTGCACCGCCTA-GAAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCC-AGGGAAGT
* * * * ** * * *
24186305 AGGACTCGCCGTTGTGGCTTTAGTCTTTTTAACTGCAATGTCAGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGGAAGT
* *
24186355 AAGATTCGCCATTGTGGCTTTAATATGTTCCACTG-AACTGCCAGGGAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAAC-GCCAGGGAAGT
* * * ** * * *
24186405 AAGACTCGCCGTTGTGGCTTTAGTCTTTTTAACTGCAATGTCAGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGGAAGT
* * * *
24186455 AAGATTCGCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGGAAGT
* * * ** * * *
24186505 AAGACTCGCCGTTGTGGCTTTAGTCTTTTTAACTGCAATGTC-GGGCAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGG-AAGT
* *
24186555 AAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGC-ACAGCTAGGGAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAAC-GCCAGGGAAGT
** * ** * * * *
24186605 AAGATTTACCGTTGTGGCTTTAATCTTTTTAACTACAACGTCGGGGAAGC
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGGAAGT
* * * *
24186655 AAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCATCGCCTGGAAAGT
1 AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGGAAGT
24186705 AAGATTC
1 AAGATTC
24186712 AACCTACTCC
Statistics
Matches: 386, Mismatches: 113, Indels: 18
0.75 0.22 0.03
Matches are distributed among these distances:
49 6 0.02
50 336 0.87
51 44 0.11
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (50 bp):
AAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCAACGCCAGGGAAGT
Found at i:24186710 original size:100 final size:100
Alignment explanation
Indices: 24186136--24186708 Score: 824
Period size: 100 Copynumber: 5.7 Consensus size: 100
24186126 TTCTGTCTGG
* **
24186136 CTGCAATGTCGGGGAAACAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAAGAA
1 CTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAA
* * * *
24186201 AGTAAGATTCGTCATTGTGGCTTTAATCTTTTTTAA
66 AGTAAGACTCGCCGTTGTGGCTTTAGTC-TTTTTAA
** * *
24186237 CTGCAATGTCGGGGAAGCAAGATTCGCTATTATGGCTTTAATCTGTTCCACTGCACCGCCTAGAA
1 CTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAA
*
24186302 AGTAGGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
66 AGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
* * * * * * *
24186337 CTGCAATGTCAGGGAAGCAAGATTCGCCATTGTGGCTTTAATATGTTCCACTGAACTGCCAGGGA
1 CTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAA
24186402 AGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
66 AGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
* *
24186437 CTGCAATGTCAGGGAAGCAAGATTCGCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAA
1 CTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAA
24186502 AGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
66 AGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
* * * *
24186537 CTGCAATGTCGGGCAAGCAAGATTCGCTGTTGTGGCTTTAATCTGTTCCACTGCACAG-CTAGGG
1 CTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCT-GGA
* ** *
24186601 AAGTAAGATTTACCGTTGTGGCTTTAATCTTTTTAA
65 AAGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
* * * *
24186637 CTACAACGTCGGGGAAGCAAGATTCACCGTTGTGGCTTTAATCTGTTCCACTGCATCGCCTGGAA
1 CTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAA
24186702 AGTAAGA
66 AGTAAGA
24186709 TTCAACCTAC
Statistics
Matches: 426, Mismatches: 44, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
99 2 0.00
100 339 0.80
101 85 0.20
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (100 bp):
CTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGAA
AGTAAGACTCGCCGTTGTGGCTTTAGTCTTTTTAA
Found at i:24186945 original size:44 final size:44
Alignment explanation
Indices: 24186897--24187006 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
24186887 TTCGATCGAC
*
24186897 TCCACTACTG-CTTAGGGAGATAAGACCTGTAAT-TTCCAACCTAT
1 TCCACTACTGAC-CAGGGAGATAAGACCTGTAATCTT-CAACCTAT
* * *
24186941 TCCACTGCTGACCAGGGAGATAAGACTTGTCATCTTCAACCTAT
1 TCCACTACTGACCAGGGAGATAAGACCTGTAATCTTCAACCTAT
* *
24186985 TCCACTGCTAACCAGGGAGATA
1 TCCACTACTGACCAGGGAGATA
24187007 GAGTTACTAG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
44 56 0.95
45 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (44 bp):
TCCACTACTGACCAGGGAGATAAGACCTGTAATCTTCAACCTAT
Found at i:24187132 original size:132 final size:132
Alignment explanation
Indices: 24186954--24187629 Score: 953
Period size: 132 Copynumber: 5.1 Consensus size: 132
24186944 ACTGCTGACC
** * * * *
24186954 AGGGAGATAAGA-CTTGTCATCTTCAACCTATTCCACTGCTAACCAGGGAGATAGAGTTACTAGC
1 AGGGAGATAAGATC-TGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGC
* * *
24187018 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTA
65 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTA
24187083 CTT
130 CTT
* * * *
24187086 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCATTGCTGCCCAGGGA-AGTAGAATTATTGGC
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGGC
* * *
24187150 TTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCGCCATCTTCGACCTGCTCCACTACTA
65 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTA
24187215 CTT
130 CTT
* * * * *
24187218 AGGGAGATGAGATCTGAAATCCTCAATCGATTCCACTGCTGACTAGGGAGATAGAATTATTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCT
* *
24187283 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAACCCGCCATCTTCGATCTGCTCCACTACTTC
66 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTAC
24187348 TT
131 TT
* ** * * ***
24187350 AGGGAGATAAGATCTGTAAT-TTCTAGCCTATTCCACTACTGACCAAGGAGATAGGGCTACTGGC
1 AGGGAGATAAGATCTGAAATCTTC-AATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGC
*
24187414 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
65 TTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTA
24187479 CTT
130 CTT
* * *
24187482 AGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCT
1 AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCT
* * * *
24187547 TCAATGTACTCCACTATAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGC
66 TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTAC
24187612 TT
131 TT
24187614 AGGGAGATAAGATCTG
1 AGGGAGATAAGATCTG
24187630 CTATCTCCGA
Statistics
Matches: 484, Mismatches: 55, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.01
132 477 0.99
133 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
AGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCT
TCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTAC
TT
Found at i:24187641 original size:44 final size:44
Alignment explanation
Indices: 24187324--24187642 Score: 136
Period size: 44 Copynumber: 7.2 Consensus size: 44
24187314 AAAACCCGCC
* * *
24187324 ATCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTG-T
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTGCT
* * * * ** *
24187367 AAT-TTCTAGCCTATTCCACTACTGAC-CAAGGAGAT-AGGGCTACT
1 -ATCTTCGA-TCTACTCCACTACTG-CTCAGGGAGATAAGATCTGCT
** * * * * * *
24187411 GGCTTCAATGTACTCCACTGTAAC--CTCAGGGAGGTAAAATCCGCC
1 ATCTTCGATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGCT
* *
24187456 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-T
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTGCT
** * * * *
24187499 AATCTTTAATCTATTCCACTGCTGCCCAGGGAGAT-AGAAT-TACT
1 -ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAG-ATCTGCT
** * * * * * ** *
24187543 GGCTTCAATGTACTCCACTA-TAACCTCAGGGAGGTAAAATCCACC
1 ATCTTCGATCTACTCCACTACT--GCTCAGGGAGATAAGATCTGCT
*
24187588 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCT
1 ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTGCT
*
24187632 ATCTCCGATCT
1 ATCTTCGATCT
24187643 CCTTCGCCAC
Statistics
Matches: 190, Mismatches: 66, Indels: 38
0.65 0.22 0.13
Matches are distributed among these distances:
42 3 0.02
43 34 0.18
44 113 0.59
45 37 0.19
46 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (44 bp):
ATCTTCGATCTACTCCACTACTGCTCAGGGAGATAAGATCTGCT
Found at i:24187675 original size:45 final size:45
Alignment explanation
Indices: 24187622--24187944 Score: 242
Period size: 45 Copynumber: 7.2 Consensus size: 45
24187612 TTAGGGAGAT
* * *
24187622 AAGATCTGCTATCTCCGATCTCCTTCGCCACAAGTATGGGAAGAC
1 AAGATCTGCTATCTCTGATCTACTTCGCCACCAGTATGGGAAGAC
* * * * * ***
24187667 AATATCTGCTATCTCTGATCTTCTTC-ACGCCAATACATGAAGAC
1 AAGATCTGCTATCTCTGATCTACTTCGCCACCAGTATGGGAAGAC
* * ** ***
24187711 AAGATCTGCTATATTTGATCTACTTCGCTGCCAGTACAAGAAGAC
1 AAGATCTGCTATCTCTGATCTACTTCGCCACCAGTATGGGAAGAC
* *
24187756 AAGATCTGTTTTCT-TCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTCT-GATCTACTTCGCCACCAGTATGGGAAGAC
* * * * *
24187801 AAGATCTGCTATCTCTGATGTTCTTCACCACCAGTATGGGACGAT
1 AAGATCTGCTATCTCTGATCTACTTCGCCACCAGTATGGGAAGAC
* * * *** * ***
24187846 GAGATCTGCTATCT-TCAATCCACTTC-ATGCTAGTACATGAAGAC
1 AAGATCTGCTATCTCT-GATCTACTTCGCCACCAGTATGGGAAGAC
* * *
24187890 AAGATCTGCTTTCT-TCGATCTATTTCGCCACCAGTATAGGAAGAC
1 AAGATCTGCTATCTCT-GATCTACTTCGCCACCAGTATGGGAAGAC
24187935 AAGATCTGCT
1 AAGATCTGCT
24187945 GCTTTTCAAC
Statistics
Matches: 215, Mismatches: 58, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
44 65 0.30
45 149 0.69
46 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (45 bp):
AAGATCTGCTATCTCTGATCTACTTCGCCACCAGTATGGGAAGAC
Found at i:24187881 original size:134 final size:134
Alignment explanation
Indices: 24187622--24187944 Score: 414
Period size: 134 Copynumber: 2.4 Consensus size: 134
24187612 TTAGGGAGAT
* * * * *
24187622 AAGATCTGCTATCTCCGATCTCCTTCGCCACAAGTATGGGAAGACAATATCTGCTATCTCTGATC
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTCTGATC
* * ** * *
24187687 TTCTTCACGCCAATACATGAAGACAAGATCTGCTATATTTGATCTACTTCGCTGCCAGTACAAGA
66 TTCTTCACACCAATACAGGAAGACAAGATCTGCTATATTCAATCCACTTCGATGCCAGTACAAGA
24187752 AGAC
131 AGAC
* *
24187756 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTCTGATG
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTCTGATC
* ** * ** * * *
24187821 TTCTTCACCACCAGTATGGGACGATGAGATCTGCTATCTTCAATCCACTTC-ATGCTAGTACATG
66 TTCTTCA-CACCAATACAGGAAGACAAGATCTGCTATATTCAATCCACTTCGATGCCAGTACAAG
24187885 AAGAC
130 AAGAC
* *
24187890 AAGATCTGCTTTCTTCGATCTATTTCGCCACCAGTATAGGAAGACAAGATCTGCT
1 AAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCT
24187945 GCTTTTCAAC
Statistics
Matches: 163, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
134 132 0.81
135 31 0.19
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (134 bp):
AAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTCTGATC
TTCTTCACACCAATACAGGAAGACAAGATCTGCTATATTCAATCCACTTCGATGCCAGTACAAGA
AGAC
Found at i:24189252 original size:7 final size:7
Alignment explanation
Indices: 24189231--24189281 Score: 61
Period size: 7 Copynumber: 7.3 Consensus size: 7
24189221 CCTTAGCCTC
24189231 TTCATTT
1 TTCATTT
24189238 TT-ACTTT
1 TTCA-TTT
24189245 TTCATTT
1 TTCATTT
24189252 TTCA-TT
1 TTCATTT
*
24189258 TTCTTTT
1 TTCATTT
24189265 TTCATTT
1 TTCATTT
24189272 TTCATATT
1 TTCAT-TT
24189280 TT
1 TT
24189282 TTTCTGACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 6 0.16
7 27 0.71
8 5 0.13
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCATTT
Found at i:24189259 original size:13 final size:13
Alignment explanation
Indices: 24189231--24189272 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
24189221 CCTTAGCCTC
*
24189231 TTCATTTTTACTTT
1 TTCATTTTT-CATT
24189245 TTCATTTTTCATT
1 TTCATTTTTCATT
*
24189258 TTCTTTTTTCATT
1 TTCATTTTTCATT
24189271 TT
1 TT
24189273 TCATATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCATTTTTCATT
Found at i:24190178 original size:12 final size:12
Alignment explanation
Indices: 24190151--24190270 Score: 80
Period size: 12 Copynumber: 9.8 Consensus size: 12
24190141 TTTTTCTCCT
**
24190151 TTTTTATTTTCT
1 TTTTTATTTTGA
24190163 TTTTTATTTTGA
1 TTTTTATTTTGA
**
24190175 TTTTTACTTTTTCC
1 TTTTTA--TTTTGA
24190189 TTTTTACTTTTGA
1 TTTTTA-TTTTGA
* * **
24190202 GTTTGATTTTTC
1 TTTTTATTTTGA
* **
24190214 TTTTTCTTTTTC
1 TTTTTATTTTGA
*
24190226 TTCTT-TTTTGA
1 TTTTTATTTTGA
*
24190237 TTTTGATTTTGA
1 TTTTTATTTTGA
*
24190249 TTTTGATTTTGA
1 TTTTTATTTTGA
24190261 TTTTTATTTT
1 TTTTTATTTT
24190271 TTTATTGAAT
Statistics
Matches: 85, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
11 7 0.08
12 60 0.71
13 8 0.09
14 10 0.12
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.74
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:24190240 original size:6 final size:6
Alignment explanation
Indices: 24190231--24190270 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
24190221 TTTTCTTCTT
*
24190231 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTTA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
24190271 TTTATTGAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.72
Consensus pattern (6 bp):
TTTTGA
Found at i:24190271 original size:6 final size:6
Alignment explanation
Indices: 24190151--24190271 Score: 66
Period size: 6 Copynumber: 19.8 Consensus size: 6
24190141 TTTTTCTCCT
* * *
24190151 TTTTTA TTTTCT- TTTTTA TTTTGA TTTTTA CTTTTTCC TTTTTA CTTTTGA
1 TTTTTA TTTT-TA TTTTTA TTTTTA TTTTTA -TTTTT-A TTTTTA -TTTTTA
* * * * * * * * *
24190202 GTTTGA TTTTTC TTTTTC TTTTTC TTCTT- TTTTGA TTTTGA TTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
24190249 TTTTGA TTTTGA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTT
24190272 TTATTGAATC
Statistics
Matches: 96, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
5 4 0.04
6 76 0.79
7 16 0.17
ACGTcount: A:0.11, C:0.07, G:0.07, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:24191098 original size:25 final size:25
Alignment explanation
Indices: 24191051--24191107 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
24191041 AAAGTCCAAT
*
24191051 AGAATGAAAGAATAATTATTCAAAA
1 AGAATGAAAGAATAATTACTCAAAA
*
24191076 AGAATGAAAGAAT-ATTGGCTCAAAA
1 AGAATGAAAGAATAATT-ACTCAAAA
24191101 ATGAATG
1 A-GAATG
24191108 TAAATATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 3 0.11
25 20 0.71
26 5 0.18
ACGTcount: A:0.54, C:0.05, G:0.18, T:0.23
Consensus pattern (25 bp):
AGAATGAAAGAATAATTACTCAAAA
Found at i:24195083 original size:3 final size:3
Alignment explanation
Indices: 24195075--24195106 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24195065 AAAATTTATA
24195075 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24195107 AAGTGAATAA
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24200916 original size:26 final size:25
Alignment explanation
Indices: 24200863--24200919 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
24200853 CAAAAATATT
24200863 TTTTCACAATATTTTTTAAAAGCAC
1 TTTTCACAATATTTTTTAAAAGCAC
* **
24200888 TTTTCTACTATATTTTTTAAAAGGTC
1 TTTTC-ACAATATTTTTTAAAAGCAC
24200914 TTTTCA
1 TTTTCA
24200920 AAAATAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (25 bp):
TTTTCACAATATTTTTTAAAAGCAC
Found at i:24202725 original size:29 final size:29
Alignment explanation
Indices: 24202676--24202748 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
24202666 AATAAAAATC
* * *
24202676 AATAAAAGTTATAAATTTA-TTAAATTTA
1 AATAAAAATTAAAAATATATTTAAATTTA
*
24202704 AATAAAAATATAAAAATATATTTAAATTTT
1 AATAAAAAT-TAAAAATATATTTAAATTTA
*
24202734 ATTAAAAATTAAAAA
1 AATAAAAATTAAAAA
24202749 AAACTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 8 0.21
29 14 0.37
30 16 0.42
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (29 bp):
AATAAAAATTAAAAATATATTTAAATTTA
Found at i:24202768 original size:19 final size:18
Alignment explanation
Indices: 24202746--24202837 Score: 87
Period size: 19 Copynumber: 4.8 Consensus size: 18
24202736 TAAAAATTAA
24202746 AAAAAACTATAAAAATCGT
1 AAAAAA-TATAAAAATCGT
*
24202765 AAAAAATAATAAAAATTGT
1 AAAAAAT-ATAAAAATCGT
**
24202784 AAAATTTTATAAAAATCGTT
1 AAAA-AATATAAAAATCG-T
*
24202804 AAAAAATATAAAATATAG-
1 AAAAAATATAAAA-ATCGT
24202822 AAAAAATTATAAAAAT
1 AAAAAA-TATAAAAAT
24202838 TATCGTACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
18 9 0.15
19 43 0.70
20 9 0.15
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.27
Consensus pattern (18 bp):
AAAAAATATAAAAATCGT
Found at i:24202778 original size:38 final size:38
Alignment explanation
Indices: 24202736--24202837 Score: 118
Period size: 38 Copynumber: 2.7 Consensus size: 38
24202726 TAAATTTTAT
*
24202736 TAAAAATTAAAAAAAACTATAAAAATCG-TAAAAAATAA
1 TAAAAATTAAAAAAAATTATAAAAATCGTTAAAAAAT-A
** **
24202774 TAAAAATTGTAAAATTTTATAAAAATCGTTAAAAAATA
1 TAAAAATTAAAAAAAATTATAAAAATCGTTAAAAAATA
*
24202812 T-AAAATATAGAAAAAATTATAAAAAT
1 TAAAAAT-TAAAAAAAATTATAAAAAT
24202838 TATCGTACAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
37 5 0.09
38 40 0.75
39 8 0.15
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.27
Consensus pattern (38 bp):
TAAAAATTAAAAAAAATTATAAAAATCGTTAAAAAATA
Found at i:24202835 original size:8 final size:9
Alignment explanation
Indices: 24202652--24202840 Score: 57
Period size: 10 Copynumber: 20.0 Consensus size: 9
24202642 ACATGTAGCA
*
24202652 AAAAATAAT
1 AAAAATTAT
*
24202661 AAAAA-AAT
1 AAAAATTAT
*
24202669 AAAAATCAAT
1 AAAAAT-TAT
*
24202679 AAAAGTTAT
1 AAAAATTAT
*
24202688 -AAATTTAT
1 AAAAATTAT
* *
24202696 TAAATTTAAAT
1 AAAAATT--AT
24202707 AAAAA-TAT
1 AAAAATTAT
24202715 AAAAATATATTT
1 AAAAAT-TA--T
**
24202727 AAATTTTATT
1 AAAAATTA-T
*
24202737 AAAAATTAAA
1 AAAAATT-AT
*
24202747 AAAAACTAT
1 AAAAATTAT
24202756 AAAAATCGTA-
1 AAAAAT--TAT
*
24202766 AAAAATAAT
1 AAAAATTAT
*
24202775 AAAAATTGT
1 AAAAATTAT
*
24202784 AAAATTTTAT
1 AAAA-ATTAT
24202794 AAAAATCGT-T
1 AAAAAT--TAT
*
24202804 AAAAAATAT
1 AAAAATTAT
*
24202813 -AAAATATAGA
1 AAAAAT-TA-T
24202823 AAAAATTAT
1 AAAAATTAT
24202832 AAAAATTAT
1 AAAAATTAT
24202841 CGTACAAAAA
Statistics
Matches: 137, Mismatches: 23, Indels: 40
0.69 0.12 0.20
Matches are distributed among these distances:
8 28 0.20
9 43 0.31
10 45 0.33
11 16 0.12
12 5 0.04
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:24203056 original size:19 final size:20
Alignment explanation
Indices: 24203032--24203112 Score: 89
Period size: 20 Copynumber: 4.1 Consensus size: 20
24203022 AATTTCTTTA
24203032 ATAATTTTT-TTATAATTTT
1 ATAATTTTTATTATAATTTT
*
24203051 ATAATTTTTTATTATTATTTT
1 ATAA-TTTTTATTATAATTTT
*
24203072 -TATATTTTTATTAAAATTTT
1 ATA-ATTTTTATTATAATTTT
24203092 AT-ATTTTT-TTATAACTTTT
1 ATAATTTTTATTATAA-TTTT
24203111 AT
1 AT
24203113 TGATTTCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.09
19 16 0.30
20 21 0.40
21 11 0.21
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (20 bp):
ATAATTTTTATTATAATTTT
Found at i:24203062 original size:41 final size:41
Alignment explanation
Indices: 24203016--24203105 Score: 112
Period size: 41 Copynumber: 2.2 Consensus size: 41
24203006 TTTTTATGCA
*
24203016 TTTTATAATT-TCTTTAATAATTTTT-TTATAATTTTATAATT
1 TTTTATAATTAT-TTTAAT-ATTTTTATTAAAATTTTATAATT
* * *
24203057 TTTTATTATTATTTTTATATTTTTATTAAAATTTTATATTT
1 TTTTATAATTATTTTAATATTTTTATTAAAATTTTATAATT
24203098 TTTTATAA
1 TTTTATAA
24203106 CTTTTATTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
40 6 0.14
41 35 0.83
42 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (41 bp):
TTTTATAATTATTTTAATATTTTTATTAAAATTTTATAATT
Found at i:24203074 original size:30 final size:29
Alignment explanation
Indices: 24203005--24203112 Score: 110
Period size: 30 Copynumber: 3.6 Consensus size: 29
24202995 TTAAAGGACA
* *
24203005 TTTTTTATGCATTTTATAATTTCTTTAATAAT
1 TTTTTTAT-AATTTTATAATTT-TTT-ATTAT
24203037 TTTTTTATAATTTTATAATTTTTTATTAT
1 TTTTTTATAATTTTATAATTTTTTATTAT
* **
24203066 TATTTTTATATTTTTATTAAAATTTTA-TAT
1 T-TTTTTATAATTTTA-TAATTTTTTATTAT
24203096 TTTTTTATAACTTTTAT
1 TTTTTTATAA-TTTTAT
24203113 TGATTTCTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
29 14 0.21
30 25 0.37
31 20 0.30
32 8 0.12
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.68
Consensus pattern (29 bp):
TTTTTTATAATTTTATAATTTTTTATTAT
Found at i:24203614 original size:25 final size:25
Alignment explanation
Indices: 24203577--24203628 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
24203567 AGAAAGAAAA
*
24203577 TTTCAATCTGTGATTGAACATTTAC
1 TTTCAATCAGTGATTGAACATTTAC
24203602 TTTCAATCAGTGATTGAACATTTAC
1 TTTCAATCAGTGATTGAACATTTAC
24203627 TT
1 TT
24203629 ACTATTGTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (25 bp):
TTTCAATCAGTGATTGAACATTTAC
Found at i:24207504 original size:50 final size:50
Alignment explanation
Indices: 24207435--24207625 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 50
24207425 TTTCTTGTAC
* * **
24207435 TGCCAATGCCATATCCCAGATATGGTCTTACATGGAAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGAACCTCTCATATCGG
* * *** *
24207485 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGAACCTCTCATTTCGG
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGAACCTCTCATATCGG
* * *
24207535 TGCCAATGCCATGTCCCAAAAATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGAACCTCTCAT-A--TC---GG
**
24207591 TGCCAATGCCATGTCCCAGGCATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGG
24207626 GATCTCTTTT
Statistics
Matches: 114, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 79 0.69
53 2 0.02
56 33 0.29
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGAAATGGTCTTACATGGAACCTCTCATATCGG
Found at i:24223375 original size:14 final size:15
Alignment explanation
Indices: 24223341--24223375 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
24223331 TCTAGTAACT
24223341 TTTACACCCTTTTCAA
1 TTTA-ACCCTTTTCAA
24223357 TTTAACCCTTTTC-A
1 TTTAACCCTTTTCAA
24223371 TTTAA
1 TTTAA
24223376 TTGACTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 9 0.47
16 4 0.21
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAACCCTTTTCAA
Found at i:24229604 original size:50 final size:50
Alignment explanation
Indices: 24229476--24229722 Score: 221
Period size: 50 Copynumber: 4.8 Consensus size: 50
24229466 GATAATAAAA
* ** * ** *
24229476 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTTTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
24229525 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *** *
24229575 TGCTC-ATGCTATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGG
1 TGC-CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
24229625 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
24229681 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24229723 TTACCCAAAT
Statistics
Matches: 159, Mismatches: 29, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 76 0.48
51 1 0.01
53 2 0.01
56 41 0.26
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:24231003 original size:5 final size:5
Alignment explanation
Indices: 24230993--24231024 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
24230983 CCATAGTCAA
24230993 AATTT AATTT AATTT AATTT AATTT AATTT AA
1 AATTT AATTT AATTT AATTT AATTT AATTT AA
24231025 CTTACCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:24232981 original size:14 final size:14
Alignment explanation
Indices: 24232962--24232992 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24232952 ATCTCAATTT
24232962 CATACACACACACA
1 CATACACACACACA
*
24232976 CATACACACACATA
1 CATACACACACACA
24232990 CAT
1 CAT
24232993 TCAACACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.13
Consensus pattern (14 bp):
CATACACACACACA
Found at i:24242446 original size:46 final size:46
Alignment explanation
Indices: 24242315--24242449 Score: 116
Period size: 45 Copynumber: 2.9 Consensus size: 46
24242305 GATAGGATTA
* * * *
24242315 GTTTCTTCAATCTGCTTCGCTGCCAATATAGGAAGGCAAGATCTACT
1 GTTT-TTCGATCTGCTTCACTGCCAATACAGGAAGGTAAGATCTACT
* * * * **
24242362 GTTTTTAG-TCTGCTCCACTG-CAA-ACTTAGGGAGATAAGAT-TTGT
1 GTTTTTCGATCTGCTTCACTGCCAATAC--AGGAAGGTAAGATCTACT
24242406 GGTTTTTCGATCTGCTTCACTGCCAATACAGGAAGGTAAGATCT
1 -GTTTTTCGATCTGCTTCACTGCCAATACAGGAAGGTAAGATCT
24242450 GTTATTTTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
43 1 0.01
44 5 0.07
45 27 0.40
46 24 0.36
47 8 0.12
48 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (46 bp):
GTTTTTCGATCTGCTTCACTGCCAATACAGGAAGGTAAGATCTACT
Found at i:24242636 original size:89 final size:89
Alignment explanation
Indices: 24242411--24243378 Score: 1268
Period size: 89 Copynumber: 10.9 Consensus size: 89
24242401 TTTGTGGTTT
* * ** *
24242411 TTCGATCTGCTTCACTGCCAATACAGGAAGGTAAGATCTGTTATTTTCAACCTACTCCACTACTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
***
24242476 CTCAGGGAGATAAGGC-TGGGGTC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * *
24242499 TTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCTACTTTCAACCCACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* *
24242564 CTCAGGGAGATAAGACTTCCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * *
24242588 TTCAATCTACTTCGCTGCTAATACAGAAAGACAAGATCTGCTATTTTCAAACTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* * * *** *
24242653 CTCAAGGAAATAA-GTTTGGGGTT
66 CTCAGGGAGATAAGGCTTGCTATC
* *
24242676 TTCGATTTACTTC-CATACCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCT
1 TTCGATCTACTTCGC-TGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCT
*
24242740 GCTCAGGGAGATAAGGCTGGCTATC
65 GCTCAGGGAGATAAGGCTTGCTATC
* * *
24242765 TTCGATCTACTTCACTGCCAATACAGGAAAACAATATCTGTTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
*
24242830 CTCAGGGACATAAGGCTTGCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
** *
24242854 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTACTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
*
24242919 CTCAGGGAGATAAGGCTAGCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
*
24242943 TTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* *
24243008 CTTAGGGAGATAAGGCTGGCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
* * * * *
24243032 TTTGATCTACTTTGCTGCCAATACAGGAAGACAAGATATGCTATTTTCAACCTACTCCACTGTTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* * ***
24243097 TTCAGGGACG-TAA-GTTTGGGGTC
66 CTCAGGGA-GATAAGGCTTGCTATC
* * *
24243120 TTCGATCTACTTCGCTGCCAATACAGGAAAACAAGATCTGTTATTTTTAACCTACTACACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* *
24243185 CTCAAGGAGATAAGGCTAGCTATC
66 CTCAGGGAGATAAGGCTTGCTATC
24243209 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* ***
24243274 TTCAGGTG-GATAAGGC-TGGGGTC
66 CTCAGG-GAGATAAGGCTTGCTATC
* * ** *
24243297 -TCGATTTACTTCGATGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCTACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
24243361 CTCAGGGAGATAAGGCTT
66 CTCAGGGAGATAAGGCTT
24243379 TAAGGTTTCA
Statistics
Matches: 762, Mismatches: 108, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.00
87 74 0.10
88 217 0.28
89 467 0.61
90 3 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (89 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTTGCTATC
Found at i:24242647 original size:177 final size:177
Alignment explanation
Indices: 24242411--24243377 Score: 1239
Period size: 177 Copynumber: 5.5 Consensus size: 177
24242401 TTTGTGGTTT
* * * ** *
24242411 TTCGATCTGCTTCACTGCCAATACAGGAAGGTAAGATCTGTTATTTTCAACCTACTCCACTACTG
1 TTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
** * *
24242476 CTCAGGGAGATAAGGCTGGGGTCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCT
66 CTCAGGGAGATAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* * * *
24242541 ACTTTCAACCCACTCCACTGCTGCTCAGGGAGATAAGACTTCCTATC
131 ATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGCTATC
* * * *
24242588 TTCAATCTACTTCGCTGCTAATACAGAAAGACAAGATCTGCTATTTTCAAACTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* * ** ** * * * *
24242653 CTCAAGGAAATAAGTTTGGGGTTTTCGATTTACTTC-CATACCAATACAGGAAGACAAGATCTGT
66 CTCAGGGAGATAAGGCTGGTATCTTCGATCTACTTCGC-TGCCAATACAGGAAGACAAGATCTGC
*
24242717 TATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGGCTATC
130 TATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGCTATC
* *
24242765 TTCGATCTACTTCACTGCCAATACAGGAAA-ACAATATCTGTTATTTTCAACCTACTCCACTGCT
1 TTCGATCTACTTCGCTGCCAATACA-GAAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCT
* * *
24242829 GCTCAGGGACATAAGGCTTGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTA
65 GCTCAGGGAGATAAGGC-TGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
* *
24242894 CTATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGCTAGCTATC
129 CTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGCTATC
* *
24242943 TTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* * * *
24243008 CTTAGGGAGATAAGGCTGGCTATCTTTGATCTACTTTGCTGCCAATACAGGAAGACAAGATATGC
66 CTCAGGGAGATAAGGCTGG-TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* * * ***
24243073 TATTTTCAACCTACTCCACTGTTGTTCAGGGACG-TAA-GTTTGGGGTC
130 TATTTTCAACCTACTCCACTGCTGCTCAGGGA-GATAAGGCTTGCTATC
* *
24243120 TTCGATCTACTTCGCTGCCAATACAGGAAA-ACAAGATCTGTTATTTTTAACCTACTACACTGCT
1 TTCGATCTACTTCGCTGCCAATACA-GAAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCT
* *
24243184 GCTCAAGGAGATAAGGCTAGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
65 GCTCAGGGAGATAAGGCT-GGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTG
* * ***
24243249 TTATTTTCAACCTACTCCACTGCTGTTCAGGTG-GATAAGGC-TGGGGTC
129 CTATTTTCAACCTACTCCACTGCTGCTCAGG-GAGATAAGGCTTGCTATC
* * * ** *
24243297 -TCGATTTACTTCGATGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCTACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
24243361 CTCAGGGAGATAAGGCT
66 CTCAGGGAGATAAGGCT
24243378 TTAAGGTTTC
Statistics
Matches: 692, Mismatches: 85, Indels: 27
0.86 0.11 0.03
Matches are distributed among these distances:
175 3 0.00
176 70 0.10
177 379 0.55
178 238 0.34
179 2 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (177 bp):
TTCGATCTACTTCGCTGCCAATACAGAAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
ATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGCTATC
Found at i:24242868 original size:266 final size:266
Alignment explanation
Indices: 24242411--24243378 Score: 1340
Period size: 266 Copynumber: 3.6 Consensus size: 266
24242401 TTTGTGGTTT
* * ** *
24242411 TTCGATCTGCTTCACTGCCAATACAGGAAGGTAAGATCTGTTATTTTCAACCTACTCCACTACTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* *
24242476 CTCAGGGAGATAAGGCTGGGGTCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGCT
66 CTCAGGGAGATAAGGCTGGGATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCT
* * * * * *
24242541 ACTTTCAACCCACTCCACTGCTGCTCAGGGAGATAAGACTTCCTATCTTCAATCTACTTCGCTGC
131 ATTTTCAACCTACTCCACTGCTGCTCAGGGACATAAGGCTTGCTATCTTCGATCTACTTCGCTGC
* * * **
24242606 TAATACAGAAAGACAAGATCTGCTATTTTCAAACTACTCCACTGCTGCTCAAGGAAATAAGTTTG
196 CAATACAGAAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCT-
* *
24242671 GGGT-T-
260 AGCTATC
* *
24242676 TTCGATTTACTTC-CATACCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCT
1 TTCGATCTACTTCGC-TGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCT
* * *
24242740 GCTCAGGGAGATAAGGCTGGCTATCTTCGATCTACTTCACTGCCAATACAGGAAAACAATATCTG
65 GCTCAGGGAGATAAGGCTGG-GATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTG
*
24242805 TTATTTTCAACCTACTCCACTGCTGCTCAGGGACATAAGGCTTGCTATCTTCGATCTACTTCGCT
129 CTATTTTCAACCTACTCCACTGCTGCTCAGGGACATAAGGCTTGCTATCTTCGATCTACTTCGCT
* * * *
24242870 GCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTACTGCTCAGGGAGATAAGGC
194 GCCAATACAGAAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGC
24242935 TAGCTATC
259 TAGCTATC
*
24242943 TTCGATCTACTTCGCTGCCAACACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* * * ** *
24243008 CTTAGGGAGATAAGGCTGGCTATCTTTGATCTACTTTGCTGCCAATACAGGAAGACAAGATATGC
66 CTCAGGGAGATAAGGCTGG-GATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * * * ***
24243073 TATTTTCAACCTACTCCACTGTTGTTCAGGGACGTAA-GTTTGGGGTCTTCGATCTACTTCGCTG
130 TATTTTCAACCTACTCCACTGCTGCTCAGGGACATAAGGCTTGCTATCTTCGATCTACTTCGCTG
* * *
24243137 CCAATACAGGAAA-ACAAGATCTGTTATTTTTAACCTACTACACTGCTGCTCAAGGAGATAAGGC
195 CCAATACA-GAAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGC
24243201 TAGCTATC
259 TAGCTATC
24243209 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
1 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
* * * *
24243274 TTCAGGTG-GATAAGGCTGGGGTC-TCGATTTACTTCGA-TGCCAATACAGGAAGACAAGATCTA
66 CTCAGG-GAGATAAGGCTGGGATCTTCGATCTACTTC-ACTGCCAATACAGGAAGACAAGATCTG
* *
24243336 CTATTTTCAACCTACTCTACTGCTGCTCAGGGAGATAAGGCTT
129 CTATTTTCAACCTACTCCACTGCTGCTCAGGGACATAAGGCTT
24243379 TAAGGTTTCA
Statistics
Matches: 623, Mismatches: 71, Indels: 18
0.88 0.10 0.03
Matches are distributed among these distances:
264 66 0.11
265 83 0.13
266 318 0.51
267 155 0.25
268 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (266 bp):
TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGCTG
CTCAGGGAGATAAGGCTGGGATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCT
ATTTTCAACCTACTCCACTGCTGCTCAGGGACATAAGGCTTGCTATCTTCGATCTACTTCGCTGC
CAATACAGAAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAAGGAGATAAGGCTA
GCTATC
Found at i:24244279 original size:26 final size:26
Alignment explanation
Indices: 24244250--24244300 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
24244240 AGTATCTTGA
*
24244250 AAAGAACAAAGTATTCCAAGAACAGG
1 AAAGAACAAAGTACTCCAAGAACAGG
* *
24244276 AAAGAATAATGTACTCCAAGAACAG
1 AAAGAACAAAGTACTCCAAGAACAG
24244301 CAAGTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.53, C:0.16, G:0.18, T:0.14
Consensus pattern (26 bp):
AAAGAACAAAGTACTCCAAGAACAGG
Found at i:24248240 original size:12 final size:12
Alignment explanation
Indices: 24248225--24248250 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24248215 AGAAAATCCA
24248225 AAAGAATAAAAG
1 AAAGAATAAAAG
24248237 AAAGAATAAAAG
1 AAAGAATAAAAG
24248249 AA
1 AA
24248251 TATTGACTCA
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:0.15, T:0.08
Consensus pattern (12 bp):
AAAGAATAAAAG
Found at i:24258332 original size:15 final size:16
Alignment explanation
Indices: 24258304--24258333 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24258294 TAAATTCATA
24258304 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
24258320 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
24258334 AATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:24258353 original size:18 final size:17
Alignment explanation
Indices: 24258325--24258359 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
24258315 ATTATTAAGA
*
24258325 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
24258342 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
24258360 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:24258551 original size:39 final size:43
Alignment explanation
Indices: 24258506--24258607 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 43
24258496 TTTCCTTTTG
*
24258506 CTATTACACCTCTATTC-T-ATTCAACCAAACACAAGAA-TA-
1 CTATTACACCTCTATTCATCATTCAACCAAACAAAAGAATTAC
**
24258545 CTATTACGTCTCTATTCCATTCCATTCAACCAAACAAAAGAATTAC
1 CTATTACACCTCTATT-CA-T-CATTCAACCAAACAAAAGAATTAC
24258591 CTATTACACCTCTATTC
1 CTATTACACCTCTATTC
24258608 CATTACGCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
39 14 0.27
40 1 0.02
42 1 0.02
44 18 0.35
45 3 0.06
46 14 0.27
ACGTcount: A:0.36, C:0.29, G:0.03, T:0.31
Consensus pattern (43 bp):
CTATTACACCTCTATTCATCATTCAACCAAACAAAAGAATTAC
Found at i:24258574 original size:44 final size:46
Alignment explanation
Indices: 24258519--24258611 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
24258509 TTACACCTCT
* * **
24258519 ATTCTATTCAACCAAACACAAGAA-TA-CTATTACGTCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
24258563 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
24258609 ATT
1 ATT
24258612 ACGCATCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 2 0.05
46 19 0.44
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACACCTCTATTCC
Found at i:24258620 original size:16 final size:16
Alignment explanation
Indices: 24258593--24258678 Score: 129
Period size: 16 Copynumber: 5.4 Consensus size: 16
24258583 AGAATTACCT
*
24258593 ATTACACCTCTATTCC
1 ATTACATCTCTATTCC
*
24258609 ATTAC-GCATCTATTCC
1 ATTACATC-TCTATTCC
24258625 ATTACATCTCTATTCC
1 ATTACATCTCTATTCC
24258641 ATTACATCTCTATTCC
1 ATTACATCTCTATTCC
*
24258657 ATTACACCTCTATTCC
1 ATTACATCTCTATTCC
24258673 ATTACA
1 ATTACA
24258679 GCGAACCAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
15 1 0.02
16 63 0.97
17 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.01, T:0.40
Consensus pattern (16 bp):
ATTACATCTCTATTCC
Found at i:24258629 original size:32 final size:32
Alignment explanation
Indices: 24258593--24258680 Score: 142
Period size: 32 Copynumber: 2.8 Consensus size: 32
24258583 AGAATTACCT
24258593 ATTACACCTCTATTCCATTAC-GCATCTATTCC
1 ATTACACCTCTATTCCATTACAGC-TCTATTCC
* *
24258625 ATTACATCTCTATTCCATTACATCTCTATTCC
1 ATTACACCTCTATTCCATTACAGCTCTATTCC
24258657 ATTACACCTCTATTCCATTACAGC
1 ATTACACCTCTATTCCATTACAGC
24258681 GAACCAAACG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 50 0.98
33 1 0.02
ACGTcount: A:0.26, C:0.33, G:0.02, T:0.39
Consensus pattern (32 bp):
ATTACACCTCTATTCCATTACAGCTCTATTCC
Found at i:24259835 original size:19 final size:20
Alignment explanation
Indices: 24259800--24259840 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
24259790 ACATACGTAT
24259800 AATAAATAACAAGT-AAATG
1 AATAAATAACAAGTAAAATG
*
24259819 AATAAATAA-TAGATAAAATG
1 AATAAATAACAAG-TAAAATG
24259839 AA
1 AA
24259841 ATAATAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 2 0.11
19 10 0.53
20 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.10, T:0.22
Consensus pattern (20 bp):
AATAAATAACAAGTAAAATG
Found at i:24261457 original size:18 final size:18
Alignment explanation
Indices: 24261423--24261464 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
24261413 TTAACTTTTA
*
24261423 TTTTTGTTTTGTTGTTTG
1 TTTTTGTTTTATTGTTTG
24261441 TTTTT-TTTTATTAGTTTG
1 TTTTTGTTTTATT-GTTTG
*
24261459 TGTTTG
1 TTTTTG
24261465 GTTTCTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.05, C:0.00, G:0.19, T:0.76
Consensus pattern (18 bp):
TTTTTGTTTTATTGTTTG
Found at i:24263913 original size:25 final size:26
Alignment explanation
Indices: 24263867--24263916 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
24263857 AATACACGGG
*
24263867 ATATAAATTGCTCATACAAGCTGTGA
1 ATATAAATTGCTCACACAAGCTGTGA
**
24263893 ATAT-AATTGCTCACATGAGCTGTG
1 ATATAAATTGCTCACACAAGCTGTG
24263917 GGTCAGGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (26 bp):
ATATAAATTGCTCACACAAGCTGTGA
Found at i:24265900 original size:17 final size:17
Alignment explanation
Indices: 24265880--24265924 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
24265870 AGATTAGTGG
*
24265880 CATTGTAAGAACATTTA
1 CATTGTGAGAACATTTA
*
24265897 CATTGTGAGAACGTTTA
1 CATTGTGAGAACATTTA
24265914 CATTGTGAGAA
1 CATTGTGAGAA
24265925 AGACAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (17 bp):
CATTGTGAGAACATTTA
Found at i:24267450 original size:37 final size:39
Alignment explanation
Indices: 24267408--24267506 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 39
24267398 ATATTATTTT
24267408 AATAGTTTAATATTAGATTTAAT-TT-AA-TGATTATCTC
1 AATAGTTTAATATTA-ATTTAATATTAAAGTGATTATCTC
* * *
24267445 AATAGTATT-TTATTAATTTAATATTAAAGTGATTATTTT
1 AATAGT-TTAATATTAATTTAATATTAAAGTGATTATCTC
24267484 AATA-TTTAAT-TTAATTTAATATT
1 AATAGTTTAATATTAATTTAATATT
24267507 TATCTTGTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
36 7 0.13
37 28 0.53
38 6 0.11
39 12 0.23
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (39 bp):
AATAGTTTAATATTAATTTAATATTAAAGTGATTATCTC
Found at i:24267569 original size:12 final size:12
Alignment explanation
Indices: 24267537--24267570 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
24267527 TATTATTTTA
24267537 ATAATATTTAAT
1 ATAATATTTAAT
24267549 ATTAA-ATTTAAT
1 A-TAATATTTAAT
24267561 ATAATATTTA
1 ATAATATTTA
24267571 TCTTGATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAATATTTAAT
Found at i:24273612 original size:67 final size:67
Alignment explanation
Indices: 24273487--24273614 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 67
24273477 CTATTGCCCA
* * ** * *
24273487 AGTAGTCATCCTAGAATGGTGAGCTTACAAGTGACCTCCCTCCTTTCTGGTGGCAGGCTTACTAT
1 AGTAGTCATCCGAGAATGGTAAGCTTACAAGTGACCTCCCAACTTGCTAGTGGCAGGCTTACTAT
24273552 TT
66 TT
* *
24273554 AGTAGTCATCCCGA-AATGGTAAGCTTACAGGTGACCTCCCAACTTGCTAGTGGTAGGCTTA
1 AGTAGTCAT-CCGAGAATGGTAAGCTTACAAGTGACCTCCCAACTTGCTAGTGGCAGGCTTA
24273615 TTGTTCAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 49 0.94
68 3 0.06
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (67 bp):
AGTAGTCATCCGAGAATGGTAAGCTTACAAGTGACCTCCCAACTTGCTAGTGGCAGGCTTACTAT
TT
Found at i:24273930 original size:7 final size:7
Alignment explanation
Indices: 24273918--24273944 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24273908 AGGAATATCA
24273918 TTTATTG
1 TTTATTG
24273925 TTTATTG
1 TTTATTG
24273932 TTTATTG
1 TTTATTG
24273939 TTTATT
1 TTTATT
24273945 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (7 bp):
TTTATTG
Found at i:24276014 original size:58 final size:58
Alignment explanation
Indices: 24275941--24276075 Score: 243
Period size: 58 Copynumber: 2.3 Consensus size: 58
24275931 AAATCTCACC
*
24275941 GTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAATTGATAAAATCTGACTTT
1 GTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAATTGATAAAATCAGACTTT
* *
24275999 GTCTACTCAATTCATTCAAAATGGAACAACTTACTTACTATTGATAAAATCAGACTTT
1 GTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAATTGATAAAATCAGACTTT
24276057 GTCTACTCAATTCATTCAA
1 GTCTACTCAATTCATTCAA
24276076 GATCCAATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (58 bp):
GTCTACTCAATTCATTCAAAATGGAACAACTTAATTACAATTGATAAAATCAGACTTT
Found at i:24279584 original size:24 final size:24
Alignment explanation
Indices: 24279550--24279608 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
24279540 CTAGAACTAG
*
24279550 TGAAACA--CAAAGGTTTAGCGCT
1 TGAAACATTCAAAGCTTTAGCGCT
* *
24279572 T-AGAACATTCAAAGCTTTGGGGCT
1 TGA-AACATTCAAAGCTTTAGCGCT
24279596 TGAAACATTCAAA
1 TGAAACATTCAAA
24279609 ACTCTCGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 5 0.17
24 23 0.77
25 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (24 bp):
TGAAACATTCAAAGCTTTAGCGCT
Found at i:24279618 original size:24 final size:24
Alignment explanation
Indices: 24279575--24279620 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
24279565 TAGCGCTTAG
* * *
24279575 AACATTCAAAGCTTTGGGGCTTGA
1 AACATTCAAAACTCTCGGGCTTGA
24279599 AACATTCAAAACTCTCGGGCTT
1 AACATTCAAAACTCTCGGGCTT
24279621 TCAGCATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
AACATTCAAAACTCTCGGGCTTGA
Found at i:24280787 original size:19 final size:19
Alignment explanation
Indices: 24280765--24280802 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24280755 TAATTTAAAA
24280765 TTTTCAAAAATATATATAAT
1 TTTTCAAAAA-ATATATAAT
*
24280785 TTTTTAAAAAATATATAA
1 TTTTCAAAAAATATATAA
24280803 AAATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTCAAAAAATATATAAT
Found at i:24281569 original size:27 final size:27
Alignment explanation
Indices: 24281539--24281671 Score: 96
Period size: 27 Copynumber: 5.0 Consensus size: 27
24281529 TTTACGTATT
*
24281539 GGCGAACCT-CCCCGTATTTATTGTCCC
1 GGCGAA-CTACCCCGTATTTAGTGTCCC
* * *
24281566 GGCGGA-TA-CTCGTATTTAGTGTCCT
1 GGCGAACTACCCCGTATTTAGTGTCCC
* *
24281591 GG-AAACTACCCCGTGTTTAGTGTCCC
1 GGCGAACTACCCCGTATTTAGTGTCCC
* * *
24281617 GACGAACTACCCCGTGTTTATTGTCCC
1 GGCGAACTACCCCGTATTTAGTGTCCC
** * *
24281644 AAC-AGACTACCCCGTGTTTACTGTCCC
1 GGCGA-ACTACCCCGTATTTAGTGTCCC
24281671 G
1 G
24281672 ATGGACTACC
Statistics
Matches: 86, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.01
25 19 0.22
26 16 0.19
27 50 0.58
ACGTcount: A:0.18, C:0.32, G:0.21, T:0.29
Consensus pattern (27 bp):
GGCGAACTACCCCGTATTTAGTGTCCC
Found at i:24281610 original size:26 final size:26
Alignment explanation
Indices: 24281580--24281710 Score: 120
Period size: 27 Copynumber: 4.9 Consensus size: 26
24281570 GATACTCGTA
*
24281580 TTTAGTGTCCTGGA-AACTACCCCGTG
1 TTTAGTGTCC-CGACAACTACCCCGTG
24281606 TTTAGTGTCCCGACGAACTACCCCGTG
1 TTTAGTGTCCCGAC-AACTACCCCGTG
* *
24281633 TTTATTGTCCCAACAGACTACCCCGTG
1 TTTAGTGTCCCGACA-ACTACCCCGTG
* ** *
24281660 TTTACTGTCCCGATGGACTACCTCGTG
1 TTTAGTGTCCCGA-CAACTACCCCGTG
* * *
24281687 TTTAATGTCTCGACGGACTACCCC
1 TTTAGTGTCCCGAC-AACTACCCC
24281711 ATGTATAATA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.02
26 11 0.12
27 75 0.85
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (26 bp):
TTTAGTGTCCCGACAACTACCCCGTG
Found at i:24281678 original size:27 final size:27
Alignment explanation
Indices: 24281595--24281719 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
24281585 TGTCCTGGAA
* *
24281595 ACTACCCCGTGTTTAGTGTCCCGACGA
1 ACTACCCCGTGTTTAATGTCCCGACGG
* * *
24281622 ACTACCCCGTGTTTATTGTCCCAACAG
1 ACTACCCCGTGTTTAATGTCCCGACGG
* *
24281649 ACTACCCCGTGTTTACTGTCCCGATGG
1 ACTACCCCGTGTTTAATGTCCCGACGG
* *
24281676 ACTACCTCGTGTTTAATGTCTCGACGG
1 ACTACCCCGTGTTTAATGTCCCGACGG
* *
24281703 ACTACCCCATGTATAAT
1 ACTACCCCGTGTTTAAT
24281720 ATCTTAATGG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.30
Consensus pattern (27 bp):
ACTACCCCGTGTTTAATGTCCCGACGG
Found at i:24284206 original size:41 final size:40
Alignment explanation
Indices: 24284161--24284272 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 40
24284151 AGCGGCATTT
24284161 TTAGCAGCG-TTTGGACAAAAAACGCCACTAGAA-ATCGAGCA
1 TTAGCAGCGCTTT--ACAAAAAACGCCACTA-AAGATCGAGCA
* ** *
24284202 TTAGCGGCGCTTTACGTAAAACGCCGCTAAAGATCGAGCA
1 TTAGCAGCGCTTTACAAAAAACGCCACTAAAGATCGAGCA
* * *
24284242 TTAGCGGCGCATTT-TAAAAAACGCCGCTAAA
1 TTAGCAGCGC-TTTACAAAAAACGCCACTAAA
24284273 AATAAGTATT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
39 2 0.03
40 45 0.74
41 11 0.18
42 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (40 bp):
TTAGCAGCGCTTTACAAAAAACGCCACTAAAGATCGAGCA
Found at i:24284263 original size:40 final size:37
Alignment explanation
Indices: 24284177--24284273 Score: 122
Period size: 40 Copynumber: 2.5 Consensus size: 37
24284167 GCGTTTGGAC
*
24284177 AAAAAACGCCACTAGAAATCGAGCATTAGCGGCGCTTT
1 AAAAAACGCCGCTA-AAATCGAGCATTAGCGGCGCTTT
*
24284215 ACGTAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCATTTT
1 A--AAAAACGCCGCTAAA-ATCGAGCATTAGCGGCGC--TTT
24284257 AAAAAACGCCGCTAAAA
1 AAAAAACGCCGCTAAAA
24284274 ATAAGTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
38 1 0.02
39 3 0.06
40 43 0.84
42 4 0.08
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (37 bp):
AAAAAACGCCGCTAAAATCGAGCATTAGCGGCGCTTT
Found at i:24284409 original size:41 final size:40
Alignment explanation
Indices: 24284352--24284626 Score: 279
Period size: 41 Copynumber: 6.8 Consensus size: 40
24284342 TTTTGAGGCA
*
24284352 TTTAGCGGCGCTTTTGATAAAGCGCCGCTAATGCTCGGGGC
1 TTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTCGGGGC
*
24284393 TTTAGCGGCGTTTTTGAGAAAGCACCGCTAATGCTC-GGGC
1 TTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTCGGGGC
* * *
24284433 TTTAACGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGCTCGGGGC
* * ** *
24284474 TTTAGCGGCATTTTTTCAAAAATGCCGCTAATGCTTGGGGC
1 TTTAGCGGC-GTTTTTGAAAAGCGCCGCTAATGCTCGGGGC
* * *
24284515 TTTA-CTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGTGCC
1 TTTAGC-GGCGTTTTT-GAAAAGCGCCGCTAATGCTCGGGGC
* *
24284556 TTTAGCGGCGTTTTTGATAAAACGCCGCTAATGCT--GGCC
1 TTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGCTCGGGGC
* * * *
24284595 TTTAGCAGCGCTTTATCAAAAACGCCGCTAAT
1 TTTAGCGGCG-TTTTTGAAAAGCGCCGCTAAT
24284627 AATAAAATTT
Statistics
Matches: 198, Mismatches: 28, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
39 27 0.14
40 48 0.24
41 115 0.58
42 8 0.04
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.30
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGCTCGGGGC
Found at i:24286161 original size:20 final size:19
Alignment explanation
Indices: 24286136--24286207 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
24286126 TTTTTCGTGA
24286136 TTTAAAATTTTAAAATGAAT
1 TTTAAAATTTTAAAATG-AT
* * **
24286156 TTTAAAATATTTTAATTTTT
1 TTTAAAAT-TTTAAAATGAT
*
24286176 TTTAAAAATTTTAAAAAGAT
1 TTT-AAAATTTTAAAATGAT
*
24286196 TTTAAACTTTTA
1 TTTAAAATTTTA
24286208 TTTTTATAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
19 8 0.20
20 21 0.52
21 11 0.28
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (19 bp):
TTTAAAATTTTAAAATGAT
Found at i:24286169 original size:10 final size:10
Alignment explanation
Indices: 24286142--24286201 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
24286132 GTGATTTAAA
24286142 ATTTTAAAAT
1 ATTTTAAAAT
24286152 GAATTTTAAAAT
1 --ATTTTAAAAT
**
24286164 ATTTTAATTT
1 ATTTTAAAAT
*
24286174 TTTTTAAAA-
1 ATTTTAAAAT
*
24286183 ATTTTAAAAAG
1 ATTTT-AAAAT
24286194 ATTTTAAA
1 ATTTTAAA
24286202 CTTTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
9 4 0.10
10 21 0.52
11 5 0.12
12 10 0.25
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:24291418 original size:42 final size:42
Alignment explanation
Indices: 24291339--24291427 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
24291329 ATAATTTTTT
* * * *
24291339 TAAAGGTTATGTTTTTAGTGGCGTTTTTGCGAGAAGCGTCGC
1 TAAAGGTTATGTTTTTAGCGGCGTTTTAGCGAAAAGCGCCGC
24291381 TAAAGGTT-TGTTCTTTAGCGGCGTTTGTAG-GAAAAGCGCCGC
1 TAAAGGTTATGTT-TTTAGCGGCGTTT-TAGCGAAAAGCGCCGC
24291423 TAAAG
1 TAAAG
24291428 ATAGTATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 4 0.10
42 35 0.85
43 2 0.05
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.34
Consensus pattern (42 bp):
TAAAGGTTATGTTTTTAGCGGCGTTTTAGCGAAAAGCGCCGC
Found at i:24291521 original size:43 final size:43
Alignment explanation
Indices: 24291472--24291695 Score: 313
Period size: 43 Copynumber: 5.2 Consensus size: 43
24291462 TATGTTTTTG
* **
24291472 GCGGCGTTTGTGGGAAAAACGCCGCTAAAGGTCGCAGTCTATA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATA
* * *
24291515 GCGGCGTTTCTGGGAAAAGCGCCGCTAAAAGTCGCGGTCTATA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATA
* *
24291558 GCGGCGTTTTTGGGAAAAGCGCCTCTAAAGGTCGTGGTCTATA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATA
* * * *
24291601 GCGGCGTTTGTGGGAAAAGCACTGCTAAAGGTCTTGGTCTTTA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATA
* * *
24291644 GCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTA
1 GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATA
24291687 GCGGCGTTT
1 GCGGCGTTT
24291696 TTTACGGCGC
Statistics
Matches: 164, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 164 1.00
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (43 bp):
GCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTATA
Found at i:24294436 original size:15 final size:15
Alignment explanation
Indices: 24294416--24294449 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
24294406 GATTGGAAAT
24294416 GATCCAAACAGAGAA
1 GATCCAAACAGAGAA
24294431 GATCCAAACAGAGAA
1 GATCCAAACAGAGAA
24294446 GATC
1 GATC
24294450 ATTTACGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.21, T:0.09
Consensus pattern (15 bp):
GATCCAAACAGAGAA
Found at i:24301563 original size:21 final size:19
Alignment explanation
Indices: 24301518--24301598 Score: 56
Period size: 22 Copynumber: 3.9 Consensus size: 19
24301508 CATATGTTTT
* *
24301518 TAAAAAAAATAATTAAATA
1 TAAAAAAAATAATAAAAAA
24301537 TGAAAAAGAAATAATAAAGAAA
1 T-AAAAA-AAATAATAAA-AAA
*
24301559 TAAAAAAACTAATTAATTAAAAA
1 T-AAAAAA--AA-TAATAAAAAA
*
24301582 TAAAGAAAATAA-AAAAA
1 TAAAAAAAATAATAAAAA
24301599 GCTAATTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
18 4 0.08
19 4 0.08
20 7 0.14
21 10 0.20
22 13 0.26
23 6 0.12
24 6 0.12
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (19 bp):
TAAAAAAAATAATAAAAAA
Found at i:24302136 original size:19 final size:19
Alignment explanation
Indices: 24302107--24302165 Score: 100
Period size: 19 Copynumber: 3.1 Consensus size: 19
24302097 TACAAAATCA
*
24302107 CATATTCTAAGATTACATAT
1 CATA-TCTAAGATTGCATAT
24302127 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
24302146 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
24302165 C
1 C
24302166 CTCGAAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 34 0.89
20 4 0.11
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (19 bp):
CATATCTAAGATTGCATAT
Found at i:24302175 original size:17 final size:18
Alignment explanation
Indices: 24302115--24302175 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
24302105 CACATATTCT
* *
24302115 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
24302134 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
24302153 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
24302170 AAGATT
1 AAGATT
24302176 ATGTTTCCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
17 8 0.21
19 31 0.79
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:24303050 original size:44 final size:45
Alignment explanation
Indices: 24302980--24303619 Score: 528
Period size: 44 Copynumber: 14.6 Consensus size: 45
24302970 ACTGTCGGTG
* * * *
24302980 TAGGAAGGCAAGACCTGCTATTTTCGATCTACTTC-ACGCTAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* * * ** * *
24303024 AATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* * *
24303069 TGGGAAGACAAAATCTGC-ATCTTCGATCCACTTCCTA--CCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTT-CTACGCCAATA
* * * *
24303112 TAGGAAGACAGGACCTGCTATTTTTGATCTACTTC-ACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* * * * ** * *
24303156 CATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* * *
24303201 TGGGAAGATAAGATCTGC-ATCTTCGATCCACTTCCTA--CCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTT-CTACGCCAATA
* * *
24303244 TAGGAAGACAGGACCTGCTATCTTTGATCTACTTC-ACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* * ** * * ** * *
24303288 CATGAAGTTAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* *
24303333 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTA--CCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTT-CTACGCCAATA
*
24303376 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTC-ACGCCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* * *
24303420 CATGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTA--CCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTT-CTACGCCAATA
* * *
24303463 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTC-ACGCTAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* * * * * ** *
24303507 AATGAAGACAAGATCTACTTTCTTCGATCTACTCCGCCACCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
* *
24303552 TGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTA--CCAATA
1 TAGGAAGACAAGATCTGCTATCTTCGATCTACTT-CTACGCCAATA
* *
24303595 TAGGAAGACAGGACCTGCTATCTTC
1 TAGGAAGACAAGATCTGCTATCTTC
24303620 ACTGATCTGC
Statistics
Matches: 464, Mismatches: 109, Indels: 46
0.75 0.18 0.07
Matches are distributed among these distances:
42 4 0.01
43 118 0.25
44 259 0.56
45 83 0.18
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
TAGGAAGACAAGATCTGCTATCTTCGATCTACTTCTACGCCAATA
Found at i:24303217 original size:132 final size:132
Alignment explanation
Indices: 24302980--24303619 Score: 815
Period size: 132 Copynumber: 4.9 Consensus size: 132
24302970 ACTGTCGGTG
* * * * *
24302980 TAGGAAGGCAAGACCTGCTATTTTCGATCTACTTCACGCTAATAAATGAAGACAAGATCTGCTTT
1 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
*
24303045 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAAATCTGCATCTTCGATCCACTTCCTACCAA
66 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
24303110 TA
131 TA
* * *
24303112 TAGGAAGACAGGACCTGCTATTTTTGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTT
1 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
*
24303177 CTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTCCTACCAA
66 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
24303242 TA
131 TA
* ** *
24303244 TAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGTTAAGATCTGTTTT
1 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
24303309 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
66 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
24303374 TA
131 TA
* *
24303376 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-AT
1 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
* * * * * * *
24303440 CTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTT-C-ACGC
66 CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTCCTAC-C
24303502 TAATA
129 -AATA
* * * * * * * * * *** *
24303507 AATGAAGACAAGATCTACTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGC-A
1 TAGGAAGACAGGACCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
* * * * * *
24303571 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTC
65 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTC
24303620 ACTGATCTGC
Statistics
Matches: 468, Mismatches: 36, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
129 2 0.00
130 24 0.05
131 61 0.13
132 381 0.81
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
TAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAA
TA
Found at i:24303473 original size:219 final size:220
Alignment explanation
Indices: 24303088--24303619 Score: 746
Period size: 219 Copynumber: 2.4 Consensus size: 220
24303078 AAAATCTGCA
* * * * * * * * *
24303088 TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATTTTTGATCTACTTCAC-GC
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTAC
* * * * * * * ** *
24303151 CAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATC
64 CAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATC
*
24303216 TGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCAC
129 TGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC
* ** **
24303281 GCCAATACATGAAGTTAAGATCTGTTT
194 GCCAATAAATGAAGACAAGATCTACTT
*
24303308 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* *
24303373 ATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTG
66 ATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTG
24303437 CATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGC
131 CATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGC
*
24303502 TAATAAATGAAGACAAGATCTACTT
196 CAATAAATGAAGACAAGATCTACTT
*
24303527 TCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
*
24303592 ATATAGGAAGACAGGACCTGCTATCTTC
66 ATATAGGAAGACAGGATCTGCTATCTTC
24303620 ACTGATCTGC
Statistics
Matches: 278, Mismatches: 32, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
219 193 0.69
220 63 0.23
221 22 0.08
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (220 bp):
TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
ATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCGACACCAATACAGGAAGACAAGATCTG
CATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGC
CAATAAATGAAGACAAGATCTACTT
Found at i:24304892 original size:6 final size:6
Alignment explanation
Indices: 24304883--24304916 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
24304873 TCCATTTTTA
24304883 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTT
24304917 ATCACTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTCT
Found at i:24304892 original size:12 final size:13
Alignment explanation
Indices: 24304877--24304916 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
24304867 GGCCTCTCCA
24304877 TTTT-TATTTTCT
1 TTTTCTATTTTCT
24304889 TTTTCT-TTTTCT
1 TTTTCTATTTTCT
24304901 TTTTCT-TTTTCT
1 TTTTCTATTTTCT
24304913 TTTT
1 TTTT
24304917 ATCACTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 26 0.96
13 1 0.04
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTCTATTTTCT
Found at i:24309595 original size:23 final size:23
Alignment explanation
Indices: 24309563--24309614 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
24309553 ATTAAATATG
*
24309563 AAAAAGAAA-TAATAAAGAAATAA
1 AAAAACAAATTAATAAA-AAATAA
*
24309586 AAAAACAAATTAATTAAAAATAA
1 AAAAACAAATTAATAAAAAATAA
24309609 AGAAAA
1 A-AAAA
24309615 TAAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (23 bp):
AAAAACAAATTAATAAAAAATAA
Found at i:24310179 original size:21 final size:21
Alignment explanation
Indices: 24310137--24310196 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
24310127 TACAAAATCA
*
24310137 CATATTCTAAGATT--ACATAT
1 CATA-TCTAAGATTGCATATAT
24310157 CATATCTAAGATTGCATATAT
1 CATATCTAAGATTGCATATAT
24310178 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
24310197 CCTCGAAGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 9 0.24
20 4 0.11
21 24 0.65
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (21 bp):
CATATCTAAGATTGCATATAT
Found at i:24311681 original size:9 final size:9
Alignment explanation
Indices: 24311667--24311733 Score: 73
Period size: 9 Copynumber: 7.4 Consensus size: 9
24311657 TTTGGTTAAA
24311667 AATTAACCG
1 AATTAACCG
*
24311676 AATTAAACG
1 AATTAACCG
*
24311685 AATTAACCT
1 AATTAACCG
*
24311694 AATT-ACTTG
1 AATTAAC-CG
24311703 AATTAACCG
1 AATTAACCG
*
24311712 AATTACCCG
1 AATTAACCG
*
24311721 AATTAATCG
1 AATTAACCG
24311730 AATT
1 AATT
24311734 GAATCACTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
8 2 0.04
9 43 0.91
10 2 0.04
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTAACCG
Found at i:24312368 original size:2 final size:2
Alignment explanation
Indices: 24312361--24312389 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24312351 CTTTATATTT
24312361 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24312390 GTCTTTGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24322552 original size:25 final size:25
Alignment explanation
Indices: 24322524--24322572 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
24322514 TTCAAGTGAG
24322524 CTATATCAGGAAGCTCACAAAGAGC
1 CTATATCAGGAAGCTCACAAAGAGC
* *
24322549 CTATATCAGGACGCTCATAAAGAG
1 CTATATCAGGAAGCTCACAAAGAG
24322573 TTGTGGTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (25 bp):
CTATATCAGGAAGCTCACAAAGAGC
Found at i:24322659 original size:64 final size:64
Alignment explanation
Indices: 24322550--24322676 Score: 148
Period size: 64 Copynumber: 2.0 Consensus size: 64
24322540 ACAAAGAGCC
* * * * * ** *
24322550 TATATCAGGACGCTCATAAAGAGTTGTGGTATGTCCGCATTATATGC-AGGATCCATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCGGTATGACCGCAACATATGCAAGG-TCAATACCGATCA
* *
24322614 TATAACAGGATGCTCACAAAGAGCTGCGGTATGACTGCAACATATGCAAGGTCAATACCGATC
1 TATAACAGGACGCTCACAAAGAGCTGCGGTATGACCGCAACATATGCAAGGTCAATACCGATC
24322677 GGGATGCTTG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 49 0.94
65 3 0.06
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.24
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGCGGTATGACCGCAACATATGCAAGGTCAATACCGATCA
Found at i:24327021 original size:22 final size:22
Alignment explanation
Indices: 24326970--24327021 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
24326960 TAACAACCTT
*
24326970 TAAACATGTTCAAAACATCCCA
1 TAAACATGTTCAAAACATACCA
24326992 -AAACCATG-TCAAAACATACCA
1 TAAA-CATGTTCAAAACATACCA
24327013 TAAATCATG
1 TAAA-CATG
24327022 ATCCCAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.48, C:0.25, G:0.06, T:0.21
Consensus pattern (22 bp):
TAAACATGTTCAAAACATACCA
Found at i:24328107 original size:23 final size:23
Alignment explanation
Indices: 24328081--24328125 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
24328071 CTATATAGTA
24328081 ATTCATTTCGATTTATCAATTCT
1 ATTCATTTCGATTTATCAATTCT
24328104 ATTCATTTCGATTTATCAATTC
1 ATTCATTTCGATTTATCAATTC
24328126 AAACTACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.04, T:0.51
Consensus pattern (23 bp):
ATTCATTTCGATTTATCAATTCT
Found at i:24330454 original size:24 final size:24
Alignment explanation
Indices: 24330427--24330473 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
24330417 AAATTTTAAA
*
24330427 TTTA-TTAATAAATGGATGTTTATG
1 TTTATTTAA-AAATGGATATTTATG
*
24330451 TTTATTTAAAATTGGATATTTAT
1 TTTATTTAAAAATGGATATTTAT
24330474 TTGTCTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (24 bp):
TTTATTTAAAAATGGATATTTATG
Found at i:24332299 original size:21 final size:22
Alignment explanation
Indices: 24332275--24332326 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
24332265 TGGCCAGTAC
*
24332275 AAATAACAA-AAACAATAGC-AA
1 AAATAACAACAAA-AACAGCAAA
24332296 AAATAACAACAAAAACAGCAGAA
1 AAATAACAACAAAAACAGCA-AA
24332319 AAATAACA
1 AAATAACA
24332327 CCACCAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 14 0.52
22 3 0.11
23 10 0.37
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAAAACAGCAAA
Found at i:24332320 original size:23 final size:24
Alignment explanation
Indices: 24332279--24332326 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
24332269 CAGTACAAAT
*
24332279 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
24332303 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
24332326 A
1 A
24332327 CCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:24332879 original size:27 final size:24
Alignment explanation
Indices: 24332827--24332880 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
24332817 TTTTGACTCT
*
24332827 AATTTTTTTTTTTAAATTTCTCTC
1 AATTTTTTTTTTTAAATTTATCTC
*
24332851 AATTTATTTATTTTTAACTTTATCGTC
1 AATTT-TTT-TTTTTAAATTTATC-TC
24332878 AAT
1 AAT
24332881 ATGCTTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 3 0.12
26 12 0.48
27 5 0.20
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (24 bp):
AATTTTTTTTTTTAAATTTATCTC
Found at i:24332975 original size:11 final size:11
Alignment explanation
Indices: 24332955--24332992 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
24332945 CTCAACACCA
24332955 AAATTGAGAGG
1 AAATTGAGAGG
*
24332966 AAATTTAGAGG
1 AAATTGAGAGG
24332977 AAATTGAGAGG
1 AAATTGAGAGG
24332988 AAATT
1 AAATT
24332993 TTAGAGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:24332983 original size:22 final size:23
Alignment explanation
Indices: 24332955--24332998 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
24332945 CTCAACACCA
24332955 AAATTGAGAGGAAA-TTTAGAGG
1 AAATTGAGAGGAAATTTTAGAGG
24332977 AAATTGAGAGGAAATTTTAGAG
1 AAATTGAGAGGAAATTTTAGAG
24332999 AGGATTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (23 bp):
AAATTGAGAGGAAATTTTAGAGG
Found at i:24334099 original size:3 final size:3
Alignment explanation
Indices: 24334091--24334122 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24334081 TCTATCTACC
24334091 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
24334123 CCATCACATG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:24339152 original size:31 final size:32
Alignment explanation
Indices: 24339102--24339161 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
24339092 TTGCTTGGCA
* *
24339102 AAGTGGAATGAAAATTAGAAAGATGGAAATTG
1 AAGTGGAATGAAAAATAGAAAGATAGAAATTG
* *
24339134 AAGTGGTA-GAAAAATAGAAGGATAGAAA
1 AAGTGGAATGAAAAATAGAAAGATAGAAA
24339162 ATATAATTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.18
Consensus pattern (32 bp):
AAGTGGAATGAAAAATAGAAAGATAGAAATTG
Found at i:24341358 original size:2 final size:2
Alignment explanation
Indices: 24341313--24341342 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24341303 AGATTAACAT
24341313 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24341343 AAGATTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.