Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 32 of 199
Found at i:9106698 original size:7 final size:7
Alignment explanation
Indices: 9106687--9106726 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
9106677 TCCTCAATCC
9106687 TCAATTT
1 TCAATTT
*
9106694 CCAATTT
1 TCAATTT
*
9106701 TCTATTT
1 TCAATTT
9106708 TCAATTT
1 TCAATTT
*
9106715 TTAATTT
1 TCAATTT
9106722 TCAAT
1 TCAAT
9106727 CCTCAATAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (7 bp):
TCAATTT
Found at i:9106732 original size:21 final size:21
Alignment explanation
Indices: 9106680--9106733 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
9106670 TTCCCAATCC
9106680 TCAATCCTCAATTTCCAATTT
1 TCAATCCTCAATTTCCAATTT
* ** **
9106701 TCTATTTTCAATTTTTAATTT
1 TCAATCCTCAATTTCCAATTT
9106722 TCAATCCTCAAT
1 TCAATCCTCAAT
9106734 AATTTTTTAA
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (21 bp):
TCAATCCTCAATTTCCAATTT
Found at i:9108541 original size:54 final size:54
Alignment explanation
Indices: 9108469--9108698 Score: 208
Period size: 54 Copynumber: 4.1 Consensus size: 54
9108459 TTACAAGCAT
* * * * * * ** *
9108469 CACAACACGCACACTCATTCCCCACATCATCACCTTCAGCTTCGATTTATTTTA
1 CACAACATGCGCAATCATTCCCTACATCAACACATTCAGCACCAATTTATTTTA
* *
9108523 TACAACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTA
1 CACAACATGCGCAATCATTCCCTACATCAACACATTCAGCACCAATTTATTTTA
* * ** **
9108577 CACAAGCATCATGACACGCACATTCATTCCCTACATCATCACCTTCAGCTTCGGTTTATTTTA
1 CAC-A--A-CATG---CGCA-A-TCATTCCCTACATCAACACATTCAGCACCAATTTATTTTA
* *
9108640 TACAACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTA
1 CACAACATGCGCAATCATTCCCTACATCAACACATTCAGCACCAATTTATTTTA
9108694 CACAA
1 CACAA
9108699 ACATCACGAC
Statistics
Matches: 139, Mismatches: 28, Indels: 18
0.75 0.15 0.10
Matches are distributed among these distances:
54 82 0.59
55 2 0.01
56 4 0.03
57 1 0.01
58 4 0.03
59 4 0.03
60 1 0.01
61 4 0.03
62 2 0.01
63 35 0.25
ACGTcount: A:0.31, C:0.32, G:0.07, T:0.30
Consensus pattern (54 bp):
CACAACATGCGCAATCATTCCCTACATCAACACATTCAGCACCAATTTATTTTA
Found at i:9108614 original size:63 final size:61
Alignment explanation
Indices: 9108532--9108735 Score: 226
Period size: 63 Copynumber: 3.4 Consensus size: 61
9108522 ATACAACATG
9108532 CGCA-ATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCATGACA
1 CGCACATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAA-CATCATGACA
* * * ** ** *
9108593 CGCACATTCATTCCCTACATCATCACCTTCAGCTTCGGTTTATTTTATAC-A-A-CATG---
1 CGCACA-TCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAACATCATGACA
*
9108649 CGCA-ATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAACATCACGACA
1 CGCACATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACAC-AACATCATGACA
*
9108710 CGCACAATCATTCCCTGTATCAACAC
1 CGCAC-ATCATTCCCTGCATCAACAC
9108736 CTTCTCTAGG
Statistics
Matches: 114, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
54 35 0.31
55 1 0.01
56 5 0.04
57 1 0.01
58 3 0.03
59 4 0.04
60 1 0.01
61 8 0.07
62 2 0.02
63 54 0.47
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (61 bp):
CGCACATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAACATCATGACA
Found at i:9108655 original size:117 final size:117
Alignment explanation
Indices: 9108461--9108739 Score: 468
Period size: 117 Copynumber: 2.4 Consensus size: 117
9108451 TTTTTTTGTT
* * *
9108461 ACAAGCATCACAACACGCACACTCATTCCCCACATCATCACCTTCAGCTTCGATTTATTTTATAC
1 ACAAGCATCACGACACGCACAATCATTCCCTACATCATCACCTTCAGCTTCGATTTATTTTATAC
9108526 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
66 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
* * *
9108578 ACAAGCATCATGACACGCACATTCATTCCCTACATCATCACCTTCAGCTTCGGTTTATTTTATAC
1 ACAAGCATCACGACACGCACAATCATTCCCTACATCATCACCTTCAGCTTCGATTTATTTTATAC
9108643 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
66 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
* ** *
9108695 ACAAACATCACGACACGCACAATCATTCCCTGTATCAACACCTTC
1 ACAAGCATCACGACACGCACAATCATTCCCTACATCATCACCTTC
9108740 TCTAGGGATA
Statistics
Matches: 151, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 151 1.00
ACGTcount: A:0.32, C:0.33, G:0.08, T:0.28
Consensus pattern (117 bp):
ACAAGCATCACGACACGCACAATCATTCCCTACATCATCACCTTCAGCTTCGATTTATTTTATAC
AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
Found at i:9110800 original size:30 final size:30
Alignment explanation
Indices: 9110759--9110827 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
9110749 CTAAAAAGAA
*
9110759 AATATATTTTGTTTAACTTGACTTGCAAGC
1 AATATATTTTGTTTAAATTGACTTGCAAGC
*
9110789 AATACATTTTGTTTAAATTGACTTGCAAGC
1 AATATATTTTGTTTAAATTGACTTGCAAGC
9110819 AATATATTT
1 AATATATTT
9110828 AAATCTTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (30 bp):
AATATATTTTGTTTAAATTGACTTGCAAGC
Found at i:9112925 original size:41 final size:37
Alignment explanation
Indices: 9112823--9112926 Score: 91
Period size: 37 Copynumber: 2.7 Consensus size: 37
9112813 AATTCGAAGT
**** *
9112823 AGTAAATTGACACTCAGTGTCTCATTGGTTAAACCGA
1 AGTAAATTGACACTCAGTGTCTCATCAAATAAACCAA
* * * *
9112860 AGTAAATTGGCATTGAGTGCCTCATCAAATAAATCCAA
1 AGTAAATTGACACTCAGTGTCTCATCAAATAAA-CCAA
9112898 AGTGATAAATTGACACTCAGTGTCTCATC
1 A--G-TAAATTGACACTCAGTGTCTCATC
9112927 GGCTCGAAGT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
37 25 0.50
38 4 0.08
40 1 0.02
41 20 0.40
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (37 bp):
AGTAAATTGACACTCAGTGTCTCATCAAATAAACCAA
Found at i:9113813 original size:13 final size:14
Alignment explanation
Indices: 9113795--9113829 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
9113785 AAGGTCGTGC
9113795 TTTTC-TTCTTTCT
1 TTTTCTTTCTTTCT
9113808 TTTTCTTTCTTTC-
1 TTTTCTTTCTTTCT
9113821 TTTTCTTTC
1 TTTTCTTTC
9113830 CAAATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCTTTCTTTCT
Found at i:9115288 original size:50 final size:50
Alignment explanation
Indices: 9115230--9115329 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
9115220 GACTCCAATG
9115230 AAATGAGCTGATTTTGTAAGTCGATCAACAATCACCCATAAAAAAATTTT
1 AAATGAGCTGATTTTGTAAGTCGATCAACAATCACCCATAAAAAAATTTT
9115280 AAATGAGCTGATTTTGTAAGTCGATCAACAATCACCCATAAAAAAATTTT
1 AAATGAGCTGATTTTGTAAGTCGATCAACAATCACCCATAAAAAAATTTT
9115330 CTTACTTGCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (50 bp):
AAATGAGCTGATTTTGTAAGTCGATCAACAATCACCCATAAAAAAATTTT
Found at i:9117597 original size:26 final size:25
Alignment explanation
Indices: 9117562--9117629 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 25
9117552 CCATCAATTC
*
9117562 ATAATCGGGAATGCTCATACGAGCACAT
1 ATAAT-GGGAA-GCTCATACAAGC-CAT
* *
9117590 A-AATGGGAAGCTCTTTCAAGCCAT
1 ATAATGGGAAGCTCATACAAGCCAT
9117614 ATAATGGGAAGCTCAT
1 ATAATGGGAAGCTCAT
9117630 GTGAGCCATG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.11
25 22 0.63
26 5 0.14
27 3 0.09
28 1 0.03
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (25 bp):
ATAATGGGAAGCTCATACAAGCCAT
Found at i:9117636 original size:25 final size:25
Alignment explanation
Indices: 9117562--9117652 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
9117552 CCATCAATTC
*
9117562 ATAATCGGGAATGCTCATACGAGCACAT
1 ATAAT-GGGAA-GCTCATATGAGC-CAT
* *
9117590 A-AATGGGAAGCTC-TTTCAAGCCAT
1 ATAATGGGAAGCTCATAT-GAGCCAT
*
9117614 ATAATGGGAAGCTCATGTGAGCCAT
1 ATAATGGGAAGCTCATATGAGCCAT
* * *
9117639 GTAACGGAAAGCTC
1 ATAATGGGAAGCTC
9117653 CGGAGAGCCT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 5 0.10
25 36 0.69
26 7 0.13
27 3 0.06
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
ATAATGGGAAGCTCATATGAGCCAT
Found at i:9117745 original size:25 final size:25
Alignment explanation
Indices: 9117714--9117773 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
9117704 CGAGCTAATA
*
9117714 TCGGGAAGCTCCGGAGAGCCTTTAAT
1 TCGGGAAGCTCCGAAGAGCCTTT-AT
**
9117740 T-GGGAAGCTCTTAAGAGCCTTTAT
1 TCGGGAAGCTCCGAAGAGCCTTTAT
9117764 TCGGGAAGCT
1 TCGGGAAGCT
9117774 TCGAGGAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 26 0.87
26 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (25 bp):
TCGGGAAGCTCCGAAGAGCCTTTAT
Found at i:9117879 original size:24 final size:24
Alignment explanation
Indices: 9117852--9117921 Score: 63
Period size: 25 Copynumber: 2.9 Consensus size: 24
9117842 CAATCAGGAT
9117852 GCTCCGAAGAGCTATTAACGGGAA
1 GCTCCGAAGAGCTATTAACGGGAA
* *
9117876 GCT-CGCAAGAACCATATAACGGGAA
1 GCTCCG-AAGAGCTAT-TAACGGGAA
* *
9117901 GCTCATG-AGAGCTAATAACGG
1 GCTC-CGAAGAGCTATTAACGG
9117922 AATGCTCTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
23 2 0.06
24 16 0.44
25 17 0.47
27 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.16
Consensus pattern (24 bp):
GCTCCGAAGAGCTATTAACGGGAA
Found at i:9123299 original size:40 final size:40
Alignment explanation
Indices: 9123255--9123389 Score: 134
Period size: 37 Copynumber: 3.4 Consensus size: 40
9123245 ACAAGTTTGG
9123255 CACCCAGTGCCTCATCGGATAATTCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGATAATTCAAAGTAGTAAATTGA
* * * * * *
9123295 CACCCAGTGTCTCCTCGGTTAA-ACCAA--AGTAAATTGG
1 CACCCAGTGCCTCATCGGATAATTCAAAGTAGTAAATTGA
* * *
9123332 CACCTAGTGCCTCATCGAATAATTCCGAAGT-GATAAATTGA
1 CACCCAGTGCCTCATCGGATAATT-CAAAGTAG-TAAATTGA
*
9123373 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9123390 ACTAAAAGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
37 26 0.35
39 6 0.08
40 20 0.27
41 22 0.30
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATTCAAAGTAGTAAATTGA
Found at i:9124284 original size:14 final size:14
Alignment explanation
Indices: 9124265--9124322 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
9124255 GCGTTTCTTC
9124265 TTTCTTTTTCTTTA
1 TTTCTTTTTCTTTA
9124279 TTTC-TTTTCTTTCCAA
1 TTTCTTTTTCTTT---A
* *
9124295 TTTTGTTTTTCTTTC
1 -TTTCTTTTTCTTTA
9124310 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
9124323 TATTATACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
13 8 0.22
14 16 0.44
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCTTTA
Found at i:9129554 original size:46 final size:48
Alignment explanation
Indices: 9129501--9129595 Score: 131
Period size: 50 Copynumber: 2.0 Consensus size: 48
9129491 AATTATAGAA
*
9129501 AAATTTTAAATTCTATTC-A-GAGTTTTATAATTTCAAAACAAAATAC
1 AAATTTTAAATTCTAGTCAATGAGTTTTATAATTTCAAAACAAAATAC
**
9129547 AAATTTTAAATTCTAGTCAGAATGAGTTTTATGCTTTCAAAACAAAATA
1 AAATTTTAAATTCTAGTC--AATGAGTTTTATAATTTCAAAACAAAATA
9129596 AAAAATCTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 17 0.40
49 1 0.02
50 24 0.57
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (48 bp):
AAATTTTAAATTCTAGTCAATGAGTTTTATAATTTCAAAACAAAATAC
Found at i:9130314 original size:10 final size:9
Alignment explanation
Indices: 9130275--9130360 Score: 63
Period size: 9 Copynumber: 9.6 Consensus size: 9
9130265 CATGTGGCAA
9130275 AAAAATTAT
1 AAAAATTAT
9130284 AAAAA--AT
1 AAAAATTAT
*
9130291 AAAAATCAAT
1 AAAAAT-TAT
*
9130301 AAAAGTTAT
1 AAAAATTAT
9130310 AAAAATTATT
1 AAAAATTA-T
**
9130320 AAATTTTAAT
1 AAAAATT-AT
9130330 AAAAA-TAT
1 AAAAATTAT
9130338 AAAAA-TATT
1 AAAAATTA-T
*
9130347 AAAAATTAG
1 AAAAATTAT
9130356 AAAAA
1 AAAAA
9130361 AAATTAGAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
7 7 0.11
8 9 0.15
9 26 0.42
10 19 0.31
11 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9130371 original size:11 final size:12
Alignment explanation
Indices: 9130347--9130371 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9130337 TAAAAATATT
9130347 AAAAATTAGAAA
1 AAAAATTAGAAA
9130359 AAAAATTAGAAA
1 AAAAATTAGAAA
9130371 A
1 A
9130372 TGCATCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAATTAGAAA
Found at i:9130648 original size:11 final size:11
Alignment explanation
Indices: 9130628--9130662 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
9130618 CTTTATAAAA
9130628 TTTTACAATTT
1 TTTTACAATTT
*
9130639 TTTTATAATTT
1 TTTTACAATTT
*
9130650 TTTTACGATTT
1 TTTTACAATTT
9130661 TT
1 TT
9130663 CTAATTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTACAATTT
Found at i:9130648 original size:19 final size:19
Alignment explanation
Indices: 9130591--9130650 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
9130581 TTTATATTTC
*
9130591 TTTACATTTTTTTTATAAT
1 TTTACAATTTTTTTATAAT
* * *
9130610 TTT-C-ATGACTTTATAAAAT
1 TTTACAAT--TTTTTTATAAT
9130629 TTTACAATTTTTTTATAAT
1 TTTACAATTTTTTTATAAT
9130648 TTT
1 TTT
9130651 TTTACGATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
17 1 0.03
18 1 0.03
19 25 0.83
20 1 0.03
21 2 0.07
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTACAATTTTTTTATAAT
Found at i:9130652 original size:21 final size:22
Alignment explanation
Indices: 9130619--9130662 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9130609 TTTTCATGAC
9130619 TTTATAA-AATTTTACAATTTT
1 TTTATAATAATTTTACAATTTT
** *
9130640 TTTATAATTTTTTTACGATTTT
1 TTTATAATAATTTTACAATTTT
9130662 T
1 T
9130663 CTAATTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATAATAATTTTACAATTTT
Found at i:9130739 original size:19 final size:20
Alignment explanation
Indices: 9130705--9130750 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
9130695 ATATTTATAT
9130705 TTTTTATGAAAATTTAATCA
1 TTTTTATGAAAATTTAATCA
* * *
9130725 TTTTTAT-AAATTTTACTGA
1 TTTTTATGAAAATTTAATCA
9130744 TTTTTAT
1 TTTTTAT
9130751 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTTATGAAAATTTAATCA
Found at i:9133649 original size:19 final size:18
Alignment explanation
Indices: 9133613--9133661 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
9133603 ATTTTTAAAA
9133613 ATTAAAAATCATTAAATTT
1 ATTAAAAAT-ATTAAATTT
*
9133632 ATTAAAAATATATTAATTT
1 ATTAAAAATAT-TAAATTT
*
9133651 -TAAAAAATATT
1 ATTAAAAATATT
9133662 TTTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 15 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAAAATATTAAATTT
Found at i:9136173 original size:3 final size:3
Alignment explanation
Indices: 9136165--9136208 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
9136155 ATGAGCTTTA
9136165 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
9136209 GTCTTTGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:9138486 original size:24 final size:23
Alignment explanation
Indices: 9138419--9138484 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
9138409 ACCCTATTTG
* * *
9138419 GACAGCTTTTATACATC-AATTC
1 GACAGCATTTATACACCAAATTA
*
9138441 GAACAGCATTTATATACCAAATTA
1 G-ACAGCATTTATACACCAAATTA
9138465 GACAGCATTT-TCACACCAAA
1 GACAGCATTTAT-ACACCAAA
9138485 ATTTGGATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 2 0.06
23 29 0.81
24 5 0.14
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (23 bp):
GACAGCATTTATACACCAAATTA
Found at i:9138511 original size:23 final size:23
Alignment explanation
Indices: 9138484--9138527 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9138474 TTCACACCAA
9138484 AATTTGGATAGCATAAATACATC
1 AATTTGGATAGCATAAATACATC
* *
9138507 AATTTGGGTAGCATATATACA
1 AATTTGGATAGCATAAATACA
9138528 ACAGTTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (23 bp):
AATTTGGATAGCATAAATACATC
Found at i:9138535 original size:23 final size:23
Alignment explanation
Indices: 9138484--9138535 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
9138474 TTCACACCAA
*
9138484 AATTTGGATAGCATAAATACATC
1 AATTTGGATAGCATAAATACAAC
* *
9138507 AATTTGGGTAGCATATATACAAC
1 AATTTGGATAGCATAAATACAAC
*
9138530 AGTTTG
1 AATTTG
9138536 AGCAACATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
AATTTGGATAGCATAAATACAAC
Found at i:9138588 original size:23 final size:23
Alignment explanation
Indices: 9138558--9138699 Score: 162
Period size: 23 Copynumber: 6.1 Consensus size: 23
9138548 ACACCAAAAC
9138558 TGGACAGCATATATGCAACAAAT
1 TGGACAGCATATATGCAACAAAT
* * * *
9138581 TGGGCAGCATTTAAGCATAAAAAT
1 TGGACAGCATATATGCA-ACAAAT
*
9138605 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
*
9138628 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
* * *
9138651 TGGATAGCATTTAAT-CATCAAAAT
1 TGGACAGCATAT-ATGCAAC-AAAT
9138675 TGGACAGCATATATG-AACAAAT
1 TGGACAGCATATATGCAACAAAT
9138697 TGG
1 TGG
9138700 TTCAACTCAT
Statistics
Matches: 99, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
22 7 0.07
23 58 0.59
24 34 0.34
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (23 bp):
TGGACAGCATATATGCAACAAAT
Found at i:9138592 original size:47 final size:48
Alignment explanation
Indices: 9138516--9138637 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 48
9138506 CAATTTGGGT
* ** * * * *
9138516 AGCATATATACAACAGTTTGAGCAACATTTTTA-CACCAAAACTGGAC
1 AGCATATATGCAACAAATTGGGCAGCATTTTAAGCACAAAAACTGGAC
* *
9138563 AGCATATATGCAACAAATTGGGCAGCA-TTTAAGCATAAAAATTGGAC
1 AGCATATATGCAACAAATTGGGCAGCATTTTAAGCACAAAAACTGGAC
* *
9138610 AGCATATATGTAACAAATTGGACAGCAT
1 AGCATATATGCAACAAATTGGGCAGCAT
9138638 ATATGTAACA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
46 4 0.06
47 58 0.94
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (48 bp):
AGCATATATGCAACAAATTGGGCAGCATTTTAAGCACAAAAACTGGAC
Found at i:9138635 original size:70 final size:69
Alignment explanation
Indices: 9138558--9138699 Score: 230
Period size: 70 Copynumber: 2.0 Consensus size: 69
9138548 ACACCAAAAC
*
9138558 TGGACAGCATATATGCAACAAATTGGGCAGCATTTAAGCATAAAAATTGGACAGCATATATGTAA
1 TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATAAAAATTGGACAGCATATATG-AA
9138623 CAAAT
65 CAAAT
* * * *
9138628 TGGACAGCATATATGTAACAAATTGGATAGCATTTAATCATCAAAATTGGACAGCATATATGAAC
1 TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATAAAAATTGGACAGCATATATGAAC
9138693 AAAT
66 AAAT
9138697 TGG
1 TGG
9138700 TTCAACTCAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
69 10 0.15
70 57 0.85
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (69 bp):
TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATAAAAATTGGACAGCATATATGAAC
AAAT
Found at i:9139659 original size:43 final size:42
Alignment explanation
Indices: 9139546--9139670 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 42
9139536 AACTCTTACA
* * * *
9139546 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACGTATCG
1 ATGCCAACGTCCCAGAAGTGGTCTTACACGTAA-CACATATCG
*
9139589 ATGCC-ACTGTCCCAGACAG-GGTGTTACACGTAA-ACATAAGTCG
1 ATGCCAAC-GTCCCAGA-AGTGGTCTTACACGTAACACAT-A-TCG
*
9139632 ATGCCAACGTCCCAGATGTGGTCTTACACGATAACACAT
1 ATGCCAACGTCCCAGAAGTGGTCTTACACG-TAACACAT
9139671 CTCAGAAATC
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
41 3 0.04
42 4 0.06
43 50 0.75
44 6 0.09
45 4 0.06
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (42 bp):
ATGCCAACGTCCCAGAAGTGGTCTTACACGTAACACATATCG
Found at i:9140834 original size:14 final size:15
Alignment explanation
Indices: 9140815--9140843 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9140805 TCACGAAACT
9140815 TTCACACAT-ATAAA
1 TTCACACATAATAAA
9140829 TTCACACATAATAAA
1 TTCACACATAATAAA
9140844 CATAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:9160703 original size:24 final size:23
Alignment explanation
Indices: 9160672--9160722 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
9160662 CATAATTATC
*
9160672 AAGTTGGCATAGTATAAAATATT
1 AAGTTGGCATAGTACAAAATATT
9160695 AAGTCTGGCATAGTACAAAATATT
1 AAGT-TGGCATAGTACAAAATATT
9160719 AAGT
1 AAGT
9160723 AAAAAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (23 bp):
AAGTTGGCATAGTACAAAATATT
Found at i:9170313 original size:3 final size:3
Alignment explanation
Indices: 9170305--9170351 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
9170295 TTGTCGCTCT
9170305 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9170352 TTGACAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9170877 original size:12 final size:12
Alignment explanation
Indices: 9170860--9170885 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9170850 CTTATTAAAC
9170860 GTGATTATTCTT
1 GTGATTATTCTT
9170872 GTGATTATTCTT
1 GTGATTATTCTT
9170884 GT
1 GT
9170886 TGATGTAATT
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:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (12 bp):
GTGATTATTCTT
Found at i:9172717 original size:14 final size:14
Alignment explanation
Indices: 9172700--9172732 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9172690 TAACCATTTT
*
9172700 TATTTTTACTTTAA
1 TATTTTTAATTTAA
9172714 TATTTTTAATTTAA
1 TATTTTTAATTTAA
9172728 T-TTTT
1 TATTTT
9172733 ACATTCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTTAATTTAA
Found at i:9175676 original size:30 final size:28
Alignment explanation
Indices: 9175618--9175701 Score: 82
Period size: 30 Copynumber: 3.0 Consensus size: 28
9175608 AAAATGGTAC
* * *
9175618 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATAGATAAAA
9175645 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATAGA-TA-AAA
* *
9175675 AAAGATAAT-TACATATATATATATAAA
1 AAA-ATTATATACATATATATAGATAAA
9175702 CAAATAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.08
28 17 0.35
29 4 0.08
30 19 0.40
31 4 0.08
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (28 bp):
AAAATTATATACATATATATAGATAAAA
Found at i:9175722 original size:16 final size:16
Alignment explanation
Indices: 9175679--9175732 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
9175669 TATAAAAAAG
*
9175679 ATAATTACATATATATA
1 ATAATTACAAATA-ATA
9175696 TATAA--ACAAATAATA
1 -ATAATTACAAATAATA
*
9175711 ATAATTACAAATATTA
1 ATAATTACAAATAATA
9175727 A-AATTA
1 ATAATTA
9175733 ATTAATTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 4 0.12
15 8 0.25
16 16 0.50
18 4 0.12
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAATTACAAATAATA
Found at i:9175877 original size:17 final size:17
Alignment explanation
Indices: 9175855--9175898 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
9175845 TAGTAAATAA
9175855 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
9175872 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
9175889 -ATATGTATAT
1 AAAATGTATAT
9175899 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:9176031 original size:3 final size:3
Alignment explanation
Indices: 9176023--9176116 Score: 77
Period size: 3 Copynumber: 31.0 Consensus size: 3
9176013 GTATATATAG
* *
9176023 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA TAA CTTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA
* * * *
9176073 TAA CAA GAA -AA TCA -AA T-T TAA TAA TAA TAAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA T-AA TAA TAA
9176117 ATAAAAAAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.05
3 61 0.82
4 6 0.08
5 3 0.04
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:9176107 original size:7 final size:7
Alignment explanation
Indices: 9176091--9176120 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9176081 AAATCAAATT
9176091 TAAT-AA
1 TAATAAA
9176097 TAATAAA
1 TAATAAA
9176104 TAATAAA
1 TAATAAA
9176111 TAATAAA
1 TAATAAA
9176118 TAA
1 TAA
9176121 AAAAAGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
TAATAAA
Found at i:9176434 original size:19 final size:20
Alignment explanation
Indices: 9176410--9176458 Score: 82
Period size: 21 Copynumber: 2.5 Consensus size: 20
9176400 AAATCATATA
9176410 ATCTAAGATTGC-ATATCAT
1 ATCTAAGATTGCAATATCAT
9176429 ATCTAAGATTGCATATATCAT
1 ATCTAAGATTGCA-ATATCAT
9176450 ATCTAAGAT
1 ATCTAAGAT
9176459 CATATCTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 12 0.43
21 16 0.57
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCTAAGATTGCAATATCAT
Found at i:9176478 original size:14 final size:12
Alignment explanation
Indices: 9176445--9176470 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9176435 GATTGCATAT
9176445 ATCATATCTAAG
1 ATCATATCTAAG
9176457 ATCATATCTAAG
1 ATCATATCTAAG
9176469 AT
1 AT
9176471 TGCATATCCT
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:9176614 original size:15 final size:14
Alignment explanation
Indices: 9176584--9176613 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9176574 GGACTTAGAC
*
9176584 TTGGTTTTATTATT
1 TTGGGTTTATTATT
9176598 TTGGGTTTATTATT
1 TTGGGTTTATTATT
9176612 TT
1 TT
9176614 TTTGTGAGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.17, T:0.70
Consensus pattern (14 bp):
TTGGGTTTATTATT
Found at i:9188536 original size:5 final size:6
Alignment explanation
Indices: 9188522--9188546 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9188512 TTTCAAAACA
9188522 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
9188547 CCGAAAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:9193416 original size:50 final size:50
Alignment explanation
Indices: 9193298--9193539 Score: 245
Period size: 50 Copynumber: 4.7 Consensus size: 50
9193288 AATAATAACA
* * ** * * *
9193298 TGCCAAAGCCATGTCCCAGACTTGGTCTTACATGGGATATTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
9193347 TGCCAATGCCATATCCCAGATATGGTCATACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
9193397 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
*
9193447 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
9193503 TGTCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
9193540 TCTTTTTACC
Statistics
Matches: 160, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 83 0.52
53 2 0.01
56 37 0.23
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:9200730 original size:50 final size:50
Alignment explanation
Indices: 9200606--9200791 Score: 196
Period size: 50 Copynumber: 3.7 Consensus size: 50
9200596 GATAATAACA
* * * * **
9200606 TGCCAAAGCCATGTCCCAGAAATGGTCTTACAAGGGATGTT-TCGTG-TAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATGTTGG
* * *
9200655 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATGTTGG
* ** ** *
9200705 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATGTTGG
* *
9200755 GGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
9200792 TCTCTTTACC
Statistics
Matches: 113, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
48 3 0.03
49 36 0.32
50 74 0.65
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATGTTGG
Found at i:9204802 original size:5 final size:6
Alignment explanation
Indices: 9204788--9204812 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9204778 ATATAAAATG
9204788 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
9204813 CCGGAAGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:9205776 original size:17 final size:18
Alignment explanation
Indices: 9205744--9205778 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9205734 CCACGATGTT
9205744 CGCCCGTGTGGGCCCACA
1 CGCCCGTGTGGGCCCACA
9205762 CGCCCGTGT-GGCCCACA
1 CGCCCGTGTGGGCCCACA
9205779 TGACCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.46, G:0.31, T:0.11
Consensus pattern (18 bp):
CGCCCGTGTGGGCCCACA
Found at i:9211322 original size:22 final size:22
Alignment explanation
Indices: 9211295--9211345 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
9211285 CTCTCTAATC
9211295 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9211317 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
9211339 CTCTCAA
1 CTCTCAA
9211346 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:9211373 original size:51 final size:51
Alignment explanation
Indices: 9211317--9211429 Score: 208
Period size: 51 Copynumber: 2.2 Consensus size: 51
9211307 TTCCAAAATT
9211317 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
9211368 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTC
1 CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
*
9211419 CCCTCAATTTC
1 CTCTCAATTTC
9211430 ATTTTTTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
CTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTC
Found at i:9212356 original size:21 final size:19
Alignment explanation
Indices: 9212328--9212366 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
9212318 TAACGAGGTA
9212328 AATTTTATGTTACATTTTGG
1 AATTTTATG-TACATTTTGG
*
9212348 AATTATTATGTAGATTTTG
1 AATT-TTATGTACATTTTG
9212367 TAAGAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.54
Consensus pattern (19 bp):
AATTTTATGTACATTTTGG
Found at i:9212549 original size:7 final size:7
Alignment explanation
Indices: 9212537--9212561 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9212527 AGTCGATTGA
9212537 TATTTAG
1 TATTTAG
9212544 TATTTAG
1 TATTTAG
9212551 TATTTAG
1 TATTTAG
9212558 TATT
1 TATT
9212562 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:9213282 original size:18 final size:18
Alignment explanation
Indices: 9213256--9213290 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9213246 AAGCGTGTTT
* *
9213256 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
9213274 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
9213291 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:9213773 original size:19 final size:18
Alignment explanation
Indices: 9213732--9213908 Score: 109
Period size: 18 Copynumber: 10.7 Consensus size: 18
9213722 TTTGATGTAA
* *
9213732 TAAAAACCCTAATTTATT
1 TAAAAACCCTAACTTAAT
9213750 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
9213768 TAAAAACCCTAAC---CT
1 TAAAAACCCTAACTTAAT
*
9213783 T---AA-CCTAATTTAAT
1 TAAAAACCCTAACTTAAT
*
9213797 TAAAAACCCTAACCCTAA-
1 TAAAAACCCTAA-CTTAAT
**** * *
9213815 CCCTAA-CCTAATTTGAT
1 TAAAAACCCTAACTTAAT
9213832 TAAAAA-CCTAACTTAAT
1 TAAAAACCCTAACTTAAT
**
9213849 TAAAAACCCTAAC---CC
1 TAAAAACCCTAACTTAAT
9213864 T---AA-CCTAACTTAAT
1 TAAAAACCCTAACTTAAT
9213878 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
9213896 TAAAAACCCTAAC
1 TAAAAACCCTAAC
9213909 CCTAACCTAA
Statistics
Matches: 118, Mismatches: 24, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
11 11 0.09
12 4 0.03
14 3 0.03
15 3 0.03
16 2 0.02
17 26 0.22
18 66 0.56
19 3 0.03
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:9213793 original size:47 final size:47
Alignment explanation
Indices: 9213739--9214252 Score: 349
Period size: 47 Copynumber: 10.5 Consensus size: 47
9213729 TAATAAAAAC
* *
9213739 CCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
9213786 CCTAATTTAATTAAAAA-CC---C-----T---AACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
*
9213821 CCTAATTTGATTAAAAA-CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
*
9213867 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
9213914 CCTAATTTAATTAAAAACCCTAACCCTAACCTGACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATT--AAA----AACCCT-A----ACTTAATTAAAAACCCTAACCCTAA
** * *
9213972 CCCTAACCTAAATTAATTAAATTCCCTAACTTGATTAAAAACCTTAACCCTAA
1 -CCTAA--T---TTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
9214025 CCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATT--AAA----AA--C---CCTAACTTAATTAAAAACCCTAACCCTAA
*
9214083 CCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTCTAA
1 -CCTAA--T---TTAATT--AAA----AACCCTAA-C----TTAATTAAAAACCCTAACCCTAA
*
9214147 CCTAACTTAATTAAAAA-CC---C-----T---AACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
9214182 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
*
9214229 CCTAACTTAATTAAAAACCCTAAC
1 CCTAATTTAATTAAAAACCCTAAC
9214253 CCTAACCTAA
Statistics
Matches: 385, Mismatches: 19, Indels: 126
0.73 0.04 0.24
Matches are distributed among these distances:
35 60 0.16
36 2 0.01
38 3 0.01
39 1 0.00
43 2 0.01
44 1 0.00
46 31 0.08
47 100 0.26
49 6 0.02
50 1 0.00
51 2 0.01
52 7 0.02
53 29 0.08
54 1 0.00
55 1 0.00
56 3 0.01
57 1 0.00
58 62 0.16
59 15 0.04
60 1 0.00
61 2 0.01
62 4 0.01
63 5 0.01
64 45 0.12
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (47 bp):
CCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9213822 original size:35 final size:35
Alignment explanation
Indices: 9213772--9214205 Score: 248
Period size: 35 Copynumber: 12.1 Consensus size: 35
9213762 CTTAATTAAA
* *
9213772 AACCCTAACCTTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
* *
9213807 AACCCTAACCCTAACCTAATTTGATTAAAAA-CCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
**
9213841 AACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
1 AAC---CCT---AA--C----CCTAACCTAACTTAATTAAAAACCCT
**
9213888 AACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AAC---CCT---AACCCTAA-CCTAA-C----TTAATTAAAAACCCT
*
9213935 AACCCT------AACCTGACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
* **
9213964 AACCCTAACCCTAACCTAAATTAATTAAATTCCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
** * *
9213999 AACTTGATTAAAAACCTTAACCCTAACCTAATTTAATTAAA----
1 AAC---CCT---AACCCTAA-CCTAACTTAA-TTAA--AAACCCT
9214040 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
9214075 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
9214110 AACCCTAA-CCTAA--T---TTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
9214139 AA--CT----CTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
*
9214168 AACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
9214203 AAC
1 AAC
9214206 TTAATTAAAA
Statistics
Matches: 324, Mismatches: 25, Indels: 100
0.72 0.06 0.22
Matches are distributed among these distances:
24 4 0.01
26 1 0.00
27 2 0.01
29 55 0.17
31 5 0.02
32 1 0.00
33 5 0.02
34 24 0.07
35 130 0.40
37 1 0.00
38 2 0.01
40 2 0.01
41 15 0.05
42 14 0.04
43 5 0.02
44 1 0.00
45 2 0.01
46 20 0.06
47 35 0.11
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (35 bp):
AACCCTAACCCTAACCTAACTTAATTAAAAACCCT
Found at i:9213839 original size:29 final size:29
Alignment explanation
Indices: 9213757--9213827 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
9213747 ATTTAAAAAC
*
9213757 CCTAACTTAATTAAAAACCCTAACCTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9213786 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9213815 CCCTAACCTAATT
1 -CCTAACTTAATT
9213828 TGATTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9213870 original size:29 final size:29
Alignment explanation
Indices: 9213836--9214188 Score: 268
Period size: 29 Copynumber: 12.5 Consensus size: 29
9213826 TTTGATTAAA
9213836 AACCTAACTTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
*
9213865 AACCTAACTTAATTAAAAACCCTAA-CTT
1 AACCTAACTTAATTAAAAACCCTAACCCT
* *****
9213893 AA-TTAA---AAACCCTAACCCTAA-CCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
9213917 AA--T---TTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
*
9213941 AACCTGACTTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
* *
9213970 AACCCTAACCTAAATTAATTAAA---T-TCCCT
1 AA-CCTAA-CTTAATTAA--AAACCCTAACCCT
* *
9213999 AACTTGA-TTAA--AAACCTTAACCCTAA-CCT
1 AACCTAACTTAATTAAA----AACCCTAACCCT
9214028 AA--T---TTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
9214052 AACCTAACTTAATTAAAAACCCTAACCCTAACCCT
1 AACCTAACTTAATT--AAA----AACCCTAACCCT
9214087 AACCTAACTTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
* *
9214116 AACCTAATTTAATTAAAAACCCTAACTCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
9214145 AACCTAACTTAATTAAAAACCCTAACCCT
1 AACCTAACTTAATTAAAAACCCTAACCCT
*
9214174 AACCCTAACCTAATT
1 AA-CCTAACTTAATT
9214189 TAATTAAAAA
Statistics
Matches: 264, Mismatches: 25, Indels: 69
0.74 0.07 0.19
Matches are distributed among these distances:
22 1 0.00
23 19 0.07
24 26 0.10
25 4 0.02
26 7 0.03
27 7 0.03
28 7 0.03
29 134 0.51
30 16 0.06
31 11 0.04
33 6 0.02
35 26 0.10
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (29 bp):
AACCTAACTTAATTAAAAACCCTAACCCT
Found at i:9213877 original size:81 final size:82
Alignment explanation
Indices: 9213739--9213890 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 82
9213729 TAATAAAAAC
* *
9213739 CCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAAAAC
1 CCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
9213804 CCTAACCCTAACCCTAA
66 CCTAACCCTAACCCTAA
9213821 CCTAATTTGA-TTAAAAA-CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAA
1 CCTAATTT-ATTTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAA
9213884 CCCTAAC
65 CCCTAAC
9213891 TTAATTAAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
81 51 0.76
82 15 0.22
83 1 0.01
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (82 bp):
CCTAATTTATTTAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
CCTAACCCTAACCCTAA
Found at i:9214001 original size:64 final size:64
Alignment explanation
Indices: 9213900--9214205 Score: 339
Period size: 64 Copynumber: 5.0 Consensus size: 64
9213890 CTTAATTAAA
* *
9213900 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTGACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
* * *
9213964 AACCCTAACCCTAACCTAAATTAATT--AAA---T-----T-CCCTAACTTGATTAAAAACCTT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
9214017 AACCCTAA-CCTAA--T---TTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
* *
9214075 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
* * *
9214139 AACTCTAA-CCTAA-CTTAATTAA--AAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 AACCCTAACCCTAACCTAAATTAATTAAA----AACCCTAACCCTAACCTAACTTAATTAAAAAC
9214200 CCT
62 CCT
9214203 AAC
1 AAC
9214206 TTAATTAAAA
Statistics
Matches: 209, Mismatches: 12, Indels: 42
0.79 0.05 0.16
Matches are distributed among these distances:
47 6 0.03
49 3 0.01
50 1 0.00
52 6 0.03
53 26 0.12
54 1 0.00
57 1 0.00
58 27 0.13
59 6 0.03
60 3 0.01
61 1 0.00
62 10 0.05
63 5 0.02
64 113 0.54
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.26
Consensus pattern (64 bp):
AACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCT
Found at i:9214003 original size:111 final size:110
Alignment explanation
Indices: 9213836--9214188 Score: 473
Period size: 111 Copynumber: 3.1 Consensus size: 110
9213826 TTTGATTAAA
*
9213836 AACCTAACTTAATTAAAAACCCTAACCCTAA-CCTAA-CTTAATTAA--AAA-CCCTAACTTAAT
1 AACCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAATCCCTAACTTAAT
9213896 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
66 TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
* *
9213941 AACCTGACTTAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAATTCCCTAACTTGA
1 AACCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAA-TCCCTAACTTAA
*
9214006 TTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
65 TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
*
9214052 AACCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTA
1 AACCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATT--AAA---T--CCCTA
* *
9214117 ACCTAATTTAATTAAAAACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCT
59 A-C----TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
*
9214174 AACCCTAACCTAATT
1 AA-CCTAACTTAATT
9214189 TAATTAAAAA
Statistics
Matches: 218, Mismatches: 12, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
105 30 0.14
106 5 0.02
107 8 0.04
109 3 0.01
111 102 0.47
113 3 0.01
115 1 0.00
117 6 0.03
118 1 0.00
122 48 0.22
123 11 0.05
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (110 bp):
AACCTAACTTAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAATCCCTAACTTAAT
TAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT
Found at i:9214077 original size:18 final size:18
Alignment explanation
Indices: 9214054--9214112 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
9214044 CTAACCCTAA
9214054 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* ****
9214072 CCTAACCCTAA-CCCTAA-
1 CCTAA-CTTAATTAAAAAC
9214089 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9214107 CCTAAC
1 CCTAAC
9214113 CCTAACCTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 4 0.14
17 7 0.25
18 13 0.46
19 4 0.14
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9214095 original size:204 final size:204
Alignment explanation
Indices: 9213885--9214262 Score: 684
Period size: 204 Copynumber: 1.9 Consensus size: 204
9213875 AATTAAAAAC
*
9213885 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTGACT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACT
** *
9213950 TAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAATTCCCTAACTTGATTAAAAACC
66 TAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACTTAATTAAAAACC
* *
9214015 TTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCC
131 CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCC
9214080 TAACCCTAA
196 TAACCCTAA
*
9214089 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTCTAACCTAACT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACT
*
9214154 TAATTAAAAACCCTAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACC
66 TAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACTTAATTAAAAACC
9214219 CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
131 CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
9214263 TTTTACATAA
Statistics
Matches: 166, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
204 166 1.00
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (204 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAACT
TAATTAAAAACCCTAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACTTAATTAAAAACC
CTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCC
TAACCCTAA
Found at i:9214170 original size:18 final size:18
Alignment explanation
Indices: 9214147--9214223 Score: 77
Period size: 18 Copynumber: 4.3 Consensus size: 18
9214137 CTAACTCTAA
9214147 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
* ****
9214165 CCTAACCCTAA-CCCTAA-
1 CCTAA-CTTAATTAAAAAC
*
9214182 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9214200 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
9214218 CCTAAC
1 CCTAAC
9214224 CCTAACCTAA
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
16 3 0.07
17 7 0.16
18 30 0.68
19 4 0.09
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:9214260 original size:29 final size:29
Alignment explanation
Indices: 9213885--9214262 Score: 396
Period size: 29 Copynumber: 13.2 Consensus size: 29
9213875 AATTAAAAAC
9213885 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9213914 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9213943 CCTGACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
9213972 CCCTAACCTAAATTAATTAAA---T-TCCCTAA
1 -CCTAA-CTTAATTAA--AAACCCTAACCCTAA
* * *
9214001 CTTGA-TTAA--A--AACCTTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9214025 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9214054 CCTAACTTAATTAAAAACCCTAACCCTAACCCTAA
1 CCTAACTTAATT--AAA----AACCCTAACCCTAA
9214089 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
9214118 CCTAATTTAATTAAAAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9214147 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
9214176 CCCTAACCTAATTTAATTAAA----AACCCTAA
1 -CCTAACTTAA-TTAA--AAACCCTAACCCTAA
*
9214205 CTTAA-TTAA--A--AACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9214229 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
9214258 CCTAA
1 CCTAA
9214263 TTTTACATAA
Statistics
Matches: 295, Mismatches: 22, Indels: 64
0.77 0.06 0.17
Matches are distributed among these distances:
20 4 0.01
23 1 0.00
24 23 0.08
25 8 0.03
26 3 0.01
27 5 0.02
28 7 0.02
29 180 0.61
30 14 0.05
31 15 0.05
33 9 0.03
35 26 0.09
ACGTcount: A:0.44, C:0.29, G:0.01, T:0.26
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:9214319 original size:55 final size:54
Alignment explanation
Indices: 9214260--9214560 Score: 377
Period size: 55 Copynumber: 5.3 Consensus size: 54
9214250 AACCCTAACC
9214260 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATT-TTGGACTTAA
*
9214315 TAATTTTACATAATTTGATAATTTTACTAATCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATT-TTGGACTTAA
9214370 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAA-TTTTGGACTTAA
** * * *
9214425 TAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAAAATTTTGGCTTAATAATTTTAC
1 TAATTTTACATAATTTGATAATTTTA-CTAA--CCATTAACACAATTTTGG-------A-CTTA-
9214490 A
54 A
* *
9214491 TAATTTTACATAATTTGATAATTTTACTAACCATTAAAAAAAATTTTGGCACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATT-AACACAATTTTGG-ACTTAA
9214547 TAATTTTACATAAT
1 TAATTTTACATAAT
9214561 CTTACATAAT
Statistics
Matches: 221, Mismatches: 11, Indels: 27
0.85 0.04 0.10
Matches are distributed among these distances:
55 131 0.59
56 21 0.10
57 9 0.04
58 9 0.04
63 3 0.01
64 14 0.06
65 7 0.03
66 27 0.12
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.44
Consensus pattern (54 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTGGACTTAA
Found at i:9214447 original size:18 final size:18
Alignment explanation
Indices: 9214424--9214458 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9214414 TTTGGACTTA
9214424 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
9214442 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
9214459 AATTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:9214495 original size:10 final size:10
Alignment explanation
Indices: 9214480--9214506 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9214470 TTTTGGCTTA
9214480 ATAATTTTAC
1 ATAATTTTAC
9214490 ATAATTTTAC
1 ATAATTTTAC
9214500 ATAATTT
1 ATAATTT
9214507 GATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:9214502 original size:66 final size:65
Alignment explanation
Indices: 9214424--9214570 Score: 217
Period size: 66 Copynumber: 2.2 Consensus size: 65
9214414 TTTGGACTTA
*
9214424 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATT-AAAAAAATTTTGG-CTTAATAATTT
1 ATAATTTTACATAATTTGATAATTTTA-CTAA--CAATTAAAAAAAATTTTGGACTTAATAATTT
9214487 TAC
63 TAC
*
9214490 ATAATTTTACATAATTTGATAATTTTACTAACCATTAAAAAAAATTTTGGCACTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACTAACAATTAAAAAAAATTTTGG-ACTTAATAATTTTA
9214555 C
65 C
*
9214556 ATAATCTTACATAAT
1 ATAATTTTACATAAT
9214571 GTTAGATTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
63 3 0.04
64 13 0.17
65 4 0.05
66 55 0.73
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (65 bp):
ATAATTTTACATAATTTGATAATTTTACTAACAATTAAAAAAAATTTTGGACTTAATAATTTTAC
Found at i:9218024 original size:124 final size:124
Alignment explanation
Indices: 9217679--9218028 Score: 587
Period size: 124 Copynumber: 2.8 Consensus size: 124
9217669 CCCAAACTTG
*
9217679 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* ** *
9217744 TAGAGGCGATTTTT-TACTATTTGCTTAGAAACAACAAAAAAATTTATTTCTTACATGAC
66 TAGAGGCG-TTTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
9217803 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
9217868 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
66 TAGAGGCGTTTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* *
9217927 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCATAATTTCTCCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
9217992 TAGAAGCGTTTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAGGCGTTTTTATACTATTTG-CTCAGAAACGTCAA
9218029 CTCGAAATAA
Statistics
Matches: 214, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
123 4 0.02
124 209 0.98
125 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGTTTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:9218316 original size:28 final size:29
Alignment explanation
Indices: 9218258--9218323 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
9218248 CGATTTCCCG
*
9218258 AAAAAT-GGCCCATTCCAGTAAATAATCA
1 AAAAATCGGCCCATTCCAGTAAATAATAA
* * *
9218286 AAAAATCGGCCCATTTCGGTAAAT-TTAA
1 AAAAATCGGCCCATTCCAGTAAATAATAA
*
9218314 AAAAAACGGC
1 AAAAATCGGC
9218324 TTTTTTTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.21
Consensus pattern (29 bp):
AAAAATCGGCCCATTCCAGTAAATAATAA
Found at i:9220581 original size:17 final size:16
Alignment explanation
Indices: 9220550--9220583 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
9220540 TAATAACCAA
9220550 TATTTTTTTTCGATTT
1 TATTTTTTTTCGATTT
*
9220566 TATTTTTATTTTGATTT
1 TATTTTT-TTTCGATTT
9220583 T
1 T
9220584 TTAATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (16 bp):
TATTTTTTTTCGATTT
Found at i:9221810 original size:31 final size:30
Alignment explanation
Indices: 9221748--9221813 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
9221738 TTTAGTCATA
9221748 TAATAAATTGTTAATATAAATTATTATTTT
1 TAATAAATTGTTAATATAAATTATTATTTT
*
9221778 TAATAAATTATTTAATATTTAAATT-TTA-TTT
1 TAATAAATT-GTTAATA--TAAATTATTATTTT
9221809 TAATA
1 TAATA
9221814 GTAAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 9 0.28
31 14 0.44
32 3 0.09
33 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TAATAAATTGTTAATATAAATTATTATTTT
Found at i:9222783 original size:22 final size:21
Alignment explanation
Indices: 9222730--9222804 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
9222720 TAAGTATAAG
9222730 AATAATAAAT-AAAATAAAAA
1 AATAATAAATAAAAATAAAAA
*
9222750 AATTAGTAAAATAAAAATAAACAA
1 AA-TAAT-AAATAAAAATAAA-AA
* * *
9222774 TATAATAAATAATAATAAATA
1 AATAATAAATAAAAATAAAAA
9222795 AATAAATAAA
1 AAT-AATAAA
9222805 ATAGAAGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
20 2 0.05
21 6 0.14
22 22 0.50
23 11 0.25
24 3 0.07
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (21 bp):
AATAATAAATAAAAATAAAAA
Found at i:9226549 original size:51 final size:50
Alignment explanation
Indices: 9226491--9226666 Score: 192
Period size: 51 Copynumber: 3.5 Consensus size: 50
9226481 TTTGGGGGTT
* * * * * *
9226491 TTCACATAGTACCACCCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACAATAAT-TTTCGATACACGTAGTAGCC
* * *
9226542 TTCACATAGTACTACACACGTGACCAA-AGATTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACATGTGA-CAATA-ATTTTCGATACACGTAGTAGCC
* * *
9226593 TTCACTTACTACTACACATGTGACCATAATTTATCGATACACGTAGTAGCC
1 TTCACATAGTACTACACATGTGACAATAATTT-TCGATACACGTAGTAGCC
*
9226644 TTCACATAATACTACACATGTGA
1 TTCACATAGTACTACACATGTGA
9226667 TCATCGATAC
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
50 6 0.06
51 94 0.90
52 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (50 bp):
TTCACATAGTACTACACATGTGACAATAATTTTCGATACACGTAGTAGCC
Found at i:9234154 original size:51 final size:50
Alignment explanation
Indices: 9234096--9234316 Score: 200
Period size: 51 Copynumber: 4.4 Consensus size: 50
9234086 TTTGGGGGGT
* * * *
9234096 TTCACATAGTACCACTCATGTTACTATTATCATTCGATACACGTAGTAGCC
1 TTCACATAGTACTACACACGTGAC-ATTATCATTCGATACACGTAGTAGCC
* * *
9234147 TTCACATAGTACTACACACGTGATCAAGT-TCA--CGGTCCACGTAGTAGCC
1 TTCACATAGTACTACACACGTGA-C-ATTATCATTCGATACACGTAGTAGCC
* * * * *
9234196 TTCACATAGTACTACACACGTGACCA-AAGCTTTTCGGTACACATAGTAGCC
1 TTCACATAGTACTACACACGTGA-CATTATC-ATTCGATACACGTAGTAGCC
* * * *
9234247 TTCACTTAGTACTACACATGTGAACATTAT-TTATCGATACACGTAGTACCC
1 TTCACATAGTACTACACACGTG-ACATTATCAT-TCGATACACGTAGTAGCC
9234298 TTCACATAGTACTACACAC
1 TTCACATAGTACTACACAC
9234317 ATGATCATCG
Statistics
Matches: 139, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
48 2 0.01
49 39 0.28
50 2 0.01
51 91 0.65
52 5 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (50 bp):
TTCACATAGTACTACACACGTGACATTATCATTCGATACACGTAGTAGCC
Found at i:9234195 original size:49 final size:49
Alignment explanation
Indices: 9234133--9234323 Score: 231
Period size: 51 Copynumber: 3.8 Consensus size: 49
9234123 TATCATTCGA
*
9234133 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTCACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTACGG
* * *
9234182 TCCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTACGG
* * * * *
9234233 TACACATAGTAGCCTTCACTTAGTACTACACATGTGAACATTA-TTTATCGA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA--AGTTTA-CGG
* *
9234284 TACACGTAGTACCCTTCACATAGTACTACACACATGATCA
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA
9234324 TCGATACTTT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
49 37 0.31
50 7 0.06
51 75 0.62
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (49 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTACGG
Found at i:9243461 original size:13 final size:13
Alignment explanation
Indices: 9243445--9243479 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9243435 TTTAAACAAA
*
9243445 TTAATTAACTTAT
1 TTAATTAACTAAT
9243458 TTAATTAACTAAT
1 TTAATTAACTAAT
*
9243471 TTAAGTAAC
1 TTAATTAAC
9243480 AGCAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:9243810 original size:51 final size:50
Alignment explanation
Indices: 9243735--9243930 Score: 196
Period size: 51 Copynumber: 3.9 Consensus size: 50
9243725 CAATGATGAT
* * ** *
9243735 CGGTTCACATAGTAGCCTGTACATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCA-TACCATC
* * * * * * *
9243786 TGATACACGTAGTACCCTACACATAGTACTACACACATGATCGAAACTATC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCATACCATC
* * * * * *
9243837 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATACCA-TC
9243887 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
9243931 CACTTTAACT
Statistics
Matches: 112, Mismatches: 30, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
49 2 0.02
50 40 0.36
51 68 0.61
52 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATACCATC
Found at i:9243950 original size:101 final size:99
Alignment explanation
Indices: 9243741--9243922 Score: 249
Period size: 101 Copynumber: 1.8 Consensus size: 99
9243731 TGATCGGTTC
* * *
9243741 ACATAGTAGCCTGTACATAGTACTACACATGTGACCATTACCATCTGATACACGTAGTACCCTAC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTACCCTAC
* *
9243806 ACATAGTACTACACACATGATCGAAACTATCCGGT
65 ACATAGTACTACACACATGATCCAAACTAACCGGT
* * *
9243841 ACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTACCCT
9243905 ACACATAGTACTACACAC
63 ACACATAGTACTACACAC
9243923 GTGACCATCA
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 5 0.07
101 35 0.48
102 33 0.45
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.24
Consensus pattern (99 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTACCCTACA
CATAGTACTACACACATGATCCAAACTAACCGGT
Found at i:9249375 original size:27 final size:27
Alignment explanation
Indices: 9249345--9249422 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
9249335 ACTTAACTTT
9249345 TAAACCATAAACCTAAACTCAAAACAC
1 TAAACCATAAACCTAAACTCAAAACAC
* * * *
9249372 TAAACCTTAAGCATTAAAGTC-AAACAC
1 TAAACCATAAAC-CTAAACTCAAAACAC
*
9249399 TAAACCCTAAATCCTAAAC-CAAAA
1 TAAACCATAAA-CCTAAACTCAAAA
9249423 TGCCAAATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 32 0.80
28 7 0.17
ACGTcount: A:0.53, C:0.27, G:0.03, T:0.18
Consensus pattern (27 bp):
TAAACCATAAACCTAAACTCAAAACAC
Found at i:9249453 original size:14 final size:14
Alignment explanation
Indices: 9249430--9249459 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9249420 AAATGCCAAA
*
9249430 TTCAAGGTTTTGGG
1 TTCAAAGTTTTGGG
9249444 TTCAAAGTTTTGGG
1 TTCAAAGTTTTGGG
9249458 TT
1 TT
9249460 TTGGGTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.47
Consensus pattern (14 bp):
TTCAAAGTTTTGGG
Found at i:9249496 original size:32 final size:32
Alignment explanation
Indices: 9249459--9249524 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
9249449 AGTTTTGGGT
* * ** *
9249459 TTTGGGTTTGGATTTAGGGTTCGAGGTTTGAG
1 TTTGGGTTTGAATTCACAGTTCAAGGTTTGAG
9249491 TTTGGGTTTGAATTCACAGTTCAAGGTTTGAG
1 TTTGGGTTTGAATTCACAGTTCAAGGTTTGAG
9249523 TT
1 TT
9249525 CGAGTTCACG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.17, C:0.06, G:0.33, T:0.44
Consensus pattern (32 bp):
TTTGGGTTTGAATTCACAGTTCAAGGTTTGAG
Found at i:9249519 original size:26 final size:26
Alignment explanation
Indices: 9249490--9249544 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
9249480 CGAGGTTTGA
* *
9249490 GTTTGGGTTTGAATTCAC-AGTTCAAG
1 GTTTGAGTTCGAATTCACGA-TTCAAG
*
9249516 GTTTGAGTTCGAGTTCACGATTCAAG
1 GTTTGAGTTCGAATTCACGATTCAAG
9249542 GTT
1 GTT
9249545 CAATCTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (26 bp):
GTTTGAGTTCGAATTCACGATTCAAG
Found at i:9250036 original size:19 final size:19
Alignment explanation
Indices: 9250012--9250065 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
9250002 AATCTTCAAG
9250012 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
9250031 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9250050 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
9250066 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9250041 original size:36 final size:36
Alignment explanation
Indices: 9250001--9250072 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
9249991 TATGGAAACA
9250001 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
9250037 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
9250073 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:9250056 original size:38 final size:40
Alignment explanation
Indices: 9250012--9250088 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
9250002 AATCTTCAAG
9250012 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
9250050 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
9250089 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:9250243 original size:22 final size:19
Alignment explanation
Indices: 9250212--9250254 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
9250202 GGGAGTTGGG
*
9250212 GAGTAATAATAATTCTTAA
1 GAGTACTAATAATTCTTAA
9250231 GAGTACTAATAATTCTTAA
1 GAGTACTAATAATTCTTAA
9250250 GAGTA
1 GAGTA
9250255 TTTACTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (19 bp):
GAGTACTAATAATTCTTAA
Found at i:9250378 original size:2 final size:2
Alignment explanation
Indices: 9250367--9250404 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9250357 GAATATTTTT
*
9250367 TA TA TT TA 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 TA TA TA TA
9250405 CGCACATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9255372 original size:6 final size:6
Alignment explanation
Indices: 9255357--9255414 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
9255347 GATGATGGAA
* * * *
9255357 AAAAAG AAAAGAA AAAAAG AAAAAAG AAAAAG AAAAAT AAAGAAG AAGAGG
1 AAAAAG AAAA-AG AAAAAG -AAAAAG AAAAAG AAAAAG AAA-AAG AAAAAG
9255408 AAAAAG A
1 AAAAAG A
9255415 GAGGCCAAGG
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
6 26 0.63
7 15 0.37
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:9255393 original size:13 final size:12
Alignment explanation
Indices: 9255355--9255403 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 12
9255345 ATGATGATGG
9255355 AAAAAAAGAAAA
1 AAAAAAAGAAAA
9255367 GAAAAAAAGAAAA
1 -AAAAAAAGAAAA
9255380 AAGAAAAAGAAAA
1 AA-AAAAAGAAAA
*
9255393 ATAAAGAAGAA
1 A-AAAAAAGAA
9255404 GAGGAAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
12 2 0.06
13 30 0.91
14 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:9256500 original size:44 final size:44
Alignment explanation
Indices: 9256428--9256514 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
9256418 CGATGACCCC
* **
9256428 AGTCCTATCTCCCTGGTCATTAGAGGAATAGGTTGAAGATTGTA
1 AGTCCTATCTCCCTAGTCAGCAGAGGAATAGGTTGAAGATTGTA
* *
9256472 AGTCCTATCTCCCTAGTTAGCAGTGGAATAGGTTGAAGATTGT
1 AGTCCTATCTCCCTAGTCAGCAGAGGAATAGGTTGAAGATTGT
9256515 GAATCTTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (44 bp):
AGTCCTATCTCCCTAGTCAGCAGAGGAATAGGTTGAAGATTGTA
Found at i:9256795 original size:167 final size:167
Alignment explanation
Indices: 9256515--9256905 Score: 489
Period size: 167 Copynumber: 2.3 Consensus size: 167
9256505 TGAAGATTGT
* * * ** * * *
9256515 GAATCTTACTTCCCTGACGTTATAGCGGAGTAGATTAAAGTTGAGGGCAGCGAATCTTATCTCCC
1 GAATCTTACTTCCCTGACGTTGTAGCGGAGCAGATTGAAG-CCACGACAGTGAATCTTATCTCCC
*
9256580 TGGCGTTAAGACTTGAAATAGCTGAAGCAGAGTGGATTAAAGCTGTGGGCAGCGAATCCTATCTC
65 TGGCGTTAAGACTTGAAATAGCTGAAGCAGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTC
* *
9256645 TTTGGCATTACAGTGAAATAGATTGAAGCCAAAACGGC
130 TTTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGC
*
9256683 GATTCTTACTTCCCTGACGTTGTAGCGGAGCAGATTGAAGCCACGACAGTGAATCTTATCTCCCT
1 GAATCTTACTTCCCTGACGTTGTAGCGGAGCAGATTGAAGCCACGACAGTGAATCTTATCTCCCT
* * * ** *
9256748 GGCGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCTCT
66 GGCGTTAAGACTTGAAATAGCTGAAGCAGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCT
* * ***
9256813 TTGGCATTACAGTGGAGCAGATTAAAGCTGCAACGGC
131 TTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGC
* * * * *
9256850 GAATCTTAC-TCCGTGAGCAG-TGTAGTGGAACAGATTGAAGCTACGACGGTGAATCT
1 GAATCTTACTTCCCTGA-C-GTTGTAGCGGAGCAGATTGAAGCCACGACAGTGAATCT
9256906 CGTTTCCCCA
Statistics
Matches: 192, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
166 6 0.03
167 149 0.78
168 37 0.19
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (167 bp):
GAATCTTACTTCCCTGACGTTGTAGCGGAGCAGATTGAAGCCACGACAGTGAATCTTATCTCCCT
GGCGTTAAGACTTGAAATAGCTGAAGCAGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCT
TTGGCATTACAGTGAAACAGATTAAAGCCAAAACGGC
Found at i:9257091 original size:101 final size:101
Alignment explanation
Indices: 9256953--9257330 Score: 542
Period size: 101 Copynumber: 3.8 Consensus size: 101
9256943 ATTTTAGATC
* * *
9256953 TTACTCCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGTTTCCCTAACAT
1 TTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
*
9257018 TGCAATTAAAAAGATTGAAGCCACAAACGGTGAATT
66 TGCAATTAAAAAGATTGAAGCCACAAACGGCGAATT
*
9257054 TTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGTGAATCTCGTTTCCCCAACAT
1 TTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
* *
9257119 TGC--------A-ATTGAAGCCACAATC-ACGAATT
66 TGCAATTAAAAAGATTGAAGCCACAAACGGCGAATT
* * * *
9257145 TTAGTTCTCTGGCGGTGTAGTGGAACAGATTGAAGCTACGGCGGCGAATCTCGTTTCCCCAACAT
1 TTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
*
9257210 TGCAATTAAAAAGATTGAAGCCGCAAACGGCGAATT
66 TGCAATTAAAAAGATTGAAGCCACAAACGGCGAATT
* *
9257246 TTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACAT
1 TTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
* *
9257311 TGCAATTTAAAAGACTGAAG
66 TGCAATTAAAAAGATTGAAG
9257331 ATGACAAGTC
Statistics
Matches: 246, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
91 68 0.28
92 14 0.06
93 1 0.00
99 1 0.00
100 13 0.05
101 149 0.61
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (101 bp):
TTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACAT
TGCAATTAAAAAGATTGAAGCCACAAACGGCGAATT
Found at i:9257247 original size:192 final size:195
Alignment explanation
Indices: 9256831--9257317 Score: 768
Period size: 192 Copynumber: 2.5 Consensus size: 195
9256821 ACAGTGGAGC
* * * * *
9256831 AGATTAAAGCTGC-AACGGCGAATCTTAC-TCCGTGAGCAGTGTAGTGGAACAGATTGAAGCTAC
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCT-AGCGGTGTAGTGGAACAGATTGAAGCTAC
9256894 GACGGTGAATCTCGTTTCCCCAACATTGCAATTGAAGCCACAATCACGAATTTTAGATCTTACTC
65 GACGGTGAATCTCGTTTCCCCAACATTGCAATTGAAGCCACAATCACGAATTTTAGA--TTACT-
* *
9256959 CCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGATGGCGAATCTCGTTTCCCTAACATTGCAAT
127 -CCTAGCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACATTGCAAT
9257024 TAAAA
191 TAAAA
* *
9257029 AGATTGAAGCCACAAACGGTGAATTTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACG
*
9257094 ACGGTGAATCTCGTTTCCCCAACATTGCAATTGAAGCCACAATCACGAATTTTAG-TT-CT-CTG
66 ACGGTGAATCTCGTTTCCCCAACATTGCAATTGAAGCCACAATCACGAATTTTAGATTACTCCTA
*
9257156 GCGGTGTAGTGGAACAGATTGAAGCTACGGCGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
131 GCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
*
9257221 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACG
* *
9257286 ACGGCGAATCTTGTTTCCCCAACATTGCAATT
66 ACGGTGAATCTCGTTTCCCCAACATTGCAATT
9257318 TAAAAGACTG
Statistics
Matches: 271, Mismatches: 16, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
192 156 0.58
195 2 0.01
196 2 0.01
198 10 0.04
199 97 0.36
200 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (195 bp):
AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACG
ACGGTGAATCTCGTTTCCCCAACATTGCAATTGAAGCCACAATCACGAATTTTAGATTACTCCTA
GCGGTGTAGTGGAACAGATTGAAGCTACGACGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
Found at i:9257330 original size:50 final size:50
Alignment explanation
Indices: 9257171--9257330 Score: 131
Period size: 50 Copynumber: 3.2 Consensus size: 50
9257161 GTAGTGGAAC
* *
9257171 AGATTGAAGCTACGGCGGCGAATCTCGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
** * * ** *** ** * * ** *
9257221 AGATTGAAGCCGCAAACGGCGAATTTTACTTCCCTGGCGGTGTAGTGGAAC
1 AGATTGAAGCTAC-GACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
*
9257272 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
*
9257322 AGACTGAAG
1 AGATTGAAG
9257331 ATGACAAGTC
Statistics
Matches: 74, Mismatches: 35, Indels: 2
0.67 0.32 0.02
Matches are distributed among these distances:
50 42 0.57
51 32 0.43
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:9257882 original size:19 final size:19
Alignment explanation
Indices: 9257858--9257911 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
9257848 AATCTTCAAG
9257858 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
9257877 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
9257896 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
9257912 AGATATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:9267712 original size:17 final size:18
Alignment explanation
Indices: 9267690--9267723 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9267680 CTCAACAACC
9267690 AAAGGTATTGTC-CCTGG
1 AAAGGTATTGTCTCCTGG
*
9267707 AAAGGTTTTGTCTCCTG
1 AAAGGTATTGTCTCCTG
9267724 TGCTCTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (18 bp):
AAAGGTATTGTCTCCTGG
Found at i:9269108 original size:3 final size:3
Alignment explanation
Indices: 9269100--9269134 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9269090 ATGAGAGAGA
9269100 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
9269135 ATAGTGTGGG
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:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:9278337 original size:27 final size:25
Alignment explanation
Indices: 9278299--9278468 Score: 124
Period size: 27 Copynumber: 6.4 Consensus size: 25
9278289 TGCAAGTTGA
*
9278299 GTTCGCCAGTTGGTTTGGCGAGCTGGT
1 GTTCGCCAGTTGG-TT-GCGAACTGGT
* *
9278326 GTTCGCCAGTTGAGTTGTGAACTAGGG
1 GTTCGCCAGTTG-GTTGCGAACT-GGT
* * *
9278353 GTTCACTAGTTAAGTTGCGAACTGGT
1 GTTCGCCAGTT-GGTTGCGAACTGGT
* * *
9278379 GTTCGCCATTTGGTTTGGCGAGCTAGT
1 GTTCGCCAGTTGG-TT-GCGAACTGGT
* **
9278406 GTTCGCCAGTTGAATTATGAACTGGT
1 GTTCGCCAGTTG-GTTGCGAACTGGT
* *
9278432 GGTTCGCTAGTTGAGTTGCAAACTGGT
1 -GTTCGCCAGTTG-GTTGCGAACTGGT
9278459 GTTCGCCAGT
1 GTTCGCCAGT
9278469 CAAAAAGTCA
Statistics
Matches: 110, Mismatches: 26, Indels: 15
0.73 0.17 0.10
Matches are distributed among these distances:
25 1 0.01
26 32 0.29
27 76 0.69
28 1 0.01
ACGTcount: A:0.16, C:0.17, G:0.33, T:0.34
Consensus pattern (25 bp):
GTTCGCCAGTTGGTTGCGAACTGGT
Found at i:9278436 original size:80 final size:80
Alignment explanation
Indices: 9278299--9278468 Score: 261
Period size: 80 Copynumber: 2.1 Consensus size: 80
9278289 TGCAAGTTGA
* * *
9278299 GTTCGCCAGTTGGTTTGGCGAGCTGGTGTTCGCCAGTTGAGTTGTGAACTAGGGGTTCACTAGTT
1 GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAATTATGAACTAGGGGTTCACTAGTT
*
9278364 AAGTTGCGAACTGGT
66 AAGTTGCAAACTGGT
* *
9278379 GTTCGCCATTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAATTATGAACT-GGTGGTTCGCTAGT
1 GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAATTATGAACTAGG-GGTTCACTAGT
*
9278443 TGAGTTGCAAACTGGT
65 TAAGTTGCAAACTGGT
9278459 GTTCGCCAGT
1 GTTCGCCAGT
9278469 CAAAAAGTCA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 2 0.02
80 79 0.98
ACGTcount: A:0.16, C:0.17, G:0.33, T:0.34
Consensus pattern (80 bp):
GTTCGCCAGTTGGTTTGGCGAGCTAGTGTTCGCCAGTTGAATTATGAACTAGGGGTTCACTAGTT
AAGTTGCAAACTGGT
Found at i:9293221 original size:44 final size:44
Alignment explanation
Indices: 9293101--9293627 Score: 269
Period size: 44 Copynumber: 12.0 Consensus size: 44
9293091 TCTTGGTGCT
* * * *
9293101 CTTGCTTTCTTGAGTCTACTCCCCTGCAACTTCAGGGAAATAAGA
1 CTTGCTTACTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
9293146 TTTTC-CATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGA
1 CTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGA
9293191 CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * * * * * *
9293235 CTAG-ATGC-GA-TCTACT-CTCTGTAACTTTAGAGAGATAAGA
1 CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * * * *
9293275 TCCAAGGTT--TTAATCTGCTCCATTGCAACCTT-AGGGAGATAGGA
1 --CTTGCTTACTTAGTCTGCTCCACTGCAA-CTTCAGGGAGATAAGA
* * * * *
9293319 TTATCGGTT--TTAATCTGCCCCACTGCAACTTCAGGGAGATGAGA
1 CT-T-GCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
9293363 TTTGC-CATCTTCAGTCTGC-CTCATTGCAACTTCA-GGAGGATAAGA
1 CTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGA
*
9293408 CTTACTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * ** *
9293452 TCCAAGGTT--TT-GATCCACTCCACTGCAACTTCAGGGAGATAGGA
1 --CTTGCTTACTTAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
9293496 TTATCGGC-T--TTAATCTGTTCCACTGCAACGTCAGGGAGATAAGA
1 CT-T--GCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
9293540 TTTGC-CATCTTCAGTCTGC-CTCACTGCAACTTCA-GGAG--GAGA
1 CTTGCTTA-CTT-AGTCTGCTC-CACTGCAACTTCAGGGAGATAAGA
9293582 CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
9293626 CT
1 CT
9293628 AGATGCGATC
Statistics
Matches: 370, Mismatches: 70, Indels: 85
0.70 0.13 0.16
Matches are distributed among these distances:
40 20 0.05
41 27 0.07
42 21 0.06
43 15 0.04
44 187 0.51
45 95 0.26
46 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:9293491 original size:177 final size:174
Alignment explanation
Indices: 9293257--9293625 Score: 578
Period size: 177 Copynumber: 2.1 Consensus size: 174
9293247 TACTCTCTGT
* * ** *
9293257 AACTTTAGAGAGATAAGATCCAAGGTTTTAATCTGCTCCATTGCAACCTTAGGGAGATAGGATTA
1 AACTTCAGGGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACCTTAGGGAGATAGGATTA
* * * *
9293322 TCGGTTTTAATCTGCCCCACTGCAACTTCAGGGAGATGAGATTTGCCATCTTCAGTCTGCCTCAT
66 TCGGCTTTAATCTGCCCCACTGCAACGTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
9293387 TGCAACTTCAGGAGGATAAGACTTACTTACTTAGTCTGCTCCACTGC
131 TGCAACTTCAGGAGG---AGACTTACTTACTTAGTCTGCTCCACTGC
*
9293434 AACTTCAGGGAGATAAGATCCAAGGTTTTGATCCACTCCACTGCAA-CTTCAGGGAGATAGGATT
1 AACTTCAGGGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACCTT-AGGGAGATAGGATT
**
9293498 ATCGGCTTTAATCTGTTCCACTGCAACGTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCA
65 ATCGGCTTTAATCTGCCCCACTGCAACGTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCA
*
9293563 CTGCAACTTCAGGAGGAGACTTGCTTACTTAGTCTGCTCCACTGC
130 CTGCAACTTCAGGAGGAGACTTACTTACTTAGTCTGCTCCACTGC
9293608 AACTTCAGGGAGATAAGA
1 AACTTCAGGGAGATAAGA
9293626 CTAGATGCGA
Statistics
Matches: 178, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
174 46 0.26
176 3 0.02
177 129 0.72
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (174 bp):
AACTTCAGGGAGATAAGATCCAAGGTTTTAATCCACTCCACTGCAACCTTAGGGAGATAGGATTA
TCGGCTTTAATCTGCCCCACTGCAACGTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCAC
TGCAACTTCAGGAGGAGACTTACTTACTTAGTCTGCTCCACTGC
Found at i:9310448 original size:23 final size:22
Alignment explanation
Indices: 9310405--9310527 Score: 117
Period size: 23 Copynumber: 5.5 Consensus size: 22
9310395 TTCATGATTA
*
9310405 GCCATAAAGG-TAATACAGAATAC
1 GCCACAAAGGCTAA-ACAGAAT-C
* *
9310428 ACCACAAAGGCTAAACCGAAT-
1 GCCACAAAGGCTAAACAGAATC
*
9310449 GCCACAAAGGCAAAACAGAATC
1 GCCACAAAGGCTAAACAGAATC
*
9310471 TGCCACAAAGGCTAAATAGAATGC
1 -GCCACAAAGGCTAAACAGAAT-C
* *
9310495 GCCACAAAGGCCAAATAGAAT-
1 GCCACAAAGGCTAAACAGAATC
*
9310516 GCCACCAAGGCT
1 GCCACAAAGGCT
9310528 TAGTGTTGAT
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
21 28 0.33
23 53 0.62
24 4 0.05
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (22 bp):
GCCACAAAGGCTAAACAGAATC
Found at i:9310467 original size:44 final size:45
Alignment explanation
Indices: 9310405--9310515 Score: 118
Period size: 44 Copynumber: 2.5 Consensus size: 45
9310395 TTCATGATTA
* * * *
9310405 GCCATAAAGGTAATACAGAATAC-ACCACAAAGGCTAAACCGAAT-
1 GCCACAAAGGCAAAACAGAAT-CTACCACAAAGGCTAAACAGAATC
* *
9310449 GCCACAAAGGCAAAACAGAATCTGCCACAAAGGCTAAATAGAATGC
1 GCCACAAAGGCAAAACAGAATCTACCACAAAGGCTAAACAGAAT-C
* *
9310495 GCCACAAAGGCCAAATAGAAT
1 GCCACAAAGGCAAAACAGAAT
9310516 GCCACCAAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 36 0.64
46 19 0.34
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.12
Consensus pattern (45 bp):
GCCACAAAGGCAAAACAGAATCTACCACAAAGGCTAAACAGAATC
Found at i:9310519 original size:44 final size:43
Alignment explanation
Indices: 9310429--9310527 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 43
9310419 ACAGAATACA
*
9310429 CCACAAAGGCTAAACCGAATGCCACAAAGGCAAAACAGAATCTG
1 CCACAAAGGCTAAACAGAATGCCACAAAGGCAAAACAGAA-CTG
* * *
9310473 CCACAAAGGCTAAATAGAATGCGCCACAAAGGCCAAATAGAA-TG
1 CCACAAAGGCTAAACAGAAT--GCCACAAAGGCAAAACAGAACTG
*
9310517 CCACCAAGGCT
1 CCACAAAGGCT
9310528 TAGTGTTGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
44 30 0.62
46 18 0.38
ACGTcount: A:0.43, C:0.27, G:0.19, T:0.10
Consensus pattern (43 bp):
CCACAAAGGCTAAACAGAATGCCACAAAGGCAAAACAGAACTG
Found at i:9311397 original size:24 final size:24
Alignment explanation
Indices: 9311370--9311417 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9311360 AAGAGAACAT
9311370 TTAATTTTAAAAAGAAGAACTAGA
1 TTAATTTTAAAAAGAAGAACTAGA
9311394 TTAATTTTAAAAAGAAGAACTAGA
1 TTAATTTTAAAAAGAAGAACTAGA
9311418 AAGTAGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (24 bp):
TTAATTTTAAAAAGAAGAACTAGA
Found at i:9323293 original size:29 final size:29
Alignment explanation
Indices: 9323237--9323293 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
9323227 ATCAGTTAAG
* *
9323237 TAAGGCTAGGATTTTATCAAAGATAGATC
1 TAAGGCTAGGATATTATCAAAGAAAGATC
*
9323266 TAAGGTCTA-GATATTATCAAATAAAGAT
1 TAAGG-CTAGGATATTATCAAAGAAAGAT
9323294 TAAAGGTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.32
Consensus pattern (29 bp):
TAAGGCTAGGATATTATCAAAGAAAGATC
Found at i:9324655 original size:46 final size:46
Alignment explanation
Indices: 9324551--9324656 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
9324541 GAAATAGGAT
* *
9324551 AAGCTCAAAACCTATTCTTGTATTCTCGAGTCCGCAACATATGCAA
1 AAGCTCAAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
* * *** * *
9324597 GATCTTGGAACCTATTCTTATTTTCTTGAGTCAGCAACATATGCAA
1 AAGCTCAAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
9324643 AAGCTCAAAACCTA
1 AAGCTCAAAACCTA
9324657 GGCAAAACTC
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (46 bp):
AAGCTCAAAACCTATTCTTATATTCTCGAGTCAGCAACATATGCAA
Found at i:9326740 original size:3 final size:3
Alignment explanation
Indices: 9326732--9326801 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
9326722 TCTACATGAC
9326732 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9326780 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
9326802 ACATTTACCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:9335483 original size:31 final size:31
Alignment explanation
Indices: 9335448--9335517 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
9335438 TTCAAAATGG
*
9335448 TCAAATAAGAGCCA-AATCTTCTTGAAAGTGC
1 TCAAATAAGAGACACAA-CTTCTTGAAAGTGC
* * *
9335479 TCAAATAA-AGACACGACTTTTTGAAATTGC
1 TCAAATAAGAGACACAACTTCTTGAAAGTGC
9335509 TCAAATAAG
1 TCAAATAAG
9335518 GGCTTCTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.27
Consensus pattern (31 bp):
TCAAATAAGAGACACAACTTCTTGAAAGTGC
Found at i:9346611 original size:176 final size:177
Alignment explanation
Indices: 9346316--9346636 Score: 391
Period size: 176 Copynumber: 1.8 Consensus size: 177
9346306 TTTCGCGAAG
* * * *
9346316 CGCCACAAAGTTTTTCACCGAACGACGCCGTTTTCTTGTTAAATTTTAGACAGAAATAGTGGCGT
1 CGCCACAAAGATTTTCACCGAACGACACCGTTTTCGTGTTAAATTTTAGACAGAAATAGTGGCGC
*
9346381 TTTAAATGAAGCGCCGCTGAAGCCAATCATTAGCGGCGCAAAAACGGAAGCGCCGGAA-AATGTT
66 TTTAAATGAAGCGCCGCTGAAGCCAATCATTAGCGGCGCAAAAACGGAAGCGCCGCAATAA-GTT
9346445 TCAAGCATACGCCGTCTTAGGGACAATAGTAGCAGCGCTTTACTGGAA
130 TCAAGCATACGCCGTCTTAGGGACAATAGTAGCAGCGCTTTACTGGAA
* * * * ** *
9346493 CGCCACAAAAGATTTT-ACCGAACGACATCGTTTTCGTGTTGAGTTTTATACA-CTATGGTGGCG
1 CGCCAC-AAAGATTTTCACCGAACGACACCGTTTTCGTGTTAAATTTTAGACAGAAATAGTGGCG
* * *** **
9346556 CTTTAAA-GAAATCGCCGCTGAAGTCAATCATTAGCGGCGCTTCCAA-TTAAGCGCCGCAATAAG
65 CTTTAAATG-AAGCGCCGCTGAAGCCAATCATTAGCGGCGC-AAAAACGGAAGCGCCGCAATAAG
*
9346619 TTTTAAGCATACGCCGTC
128 TTTCAAGCATACGCCGTC
9346637 GTTTTCTGTT
Statistics
Matches: 120, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
175 1 0.01
176 71 0.59
177 40 0.33
178 8 0.07
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (177 bp):
CGCCACAAAGATTTTCACCGAACGACACCGTTTTCGTGTTAAATTTTAGACAGAAATAGTGGCGC
TTTAAATGAAGCGCCGCTGAAGCCAATCATTAGCGGCGCAAAAACGGAAGCGCCGCAATAAGTTT
CAAGCATACGCCGTCTTAGGGACAATAGTAGCAGCGCTTTACTGGAA
Found at i:9347147 original size:23 final size:23
Alignment explanation
Indices: 9347117--9347164 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
9347107 TTATAGTTTA
* *
9347117 TATATGTTTTATGATTTAGGGTT
1 TATATGTTCTATGATTCAGGGTT
*
9347140 TATATGTTCTATGGTTCAGGGTT
1 TATATGTTCTATGATTCAGGGTT
9347163 TA
1 TA
9347165 AGGAATATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.52
Consensus pattern (23 bp):
TATATGTTCTATGATTCAGGGTT
Found at i:9347252 original size:7 final size:7
Alignment explanation
Indices: 9347242--9347273 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9347232 TAGGGTTAAA
9347242 GGTTAGG
1 GGTTAGG
9347249 GGTTAGG
1 GGTTAGG
*
9347256 GGTTAAG
1 GGTTAGG
9347263 GGTTAGG
1 GGTTAGG
9347270 GGTT
1 GGTT
9347274 TATAGTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.31
Consensus pattern (7 bp):
GGTTAGG
Found at i:9347260 original size:21 final size:21
Alignment explanation
Indices: 9347234--9347273 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9347224 TAAGTGTTTA
9347234 GGGTTAAAGGTTAGGGGTTAG
1 GGGTTAAAGGTTAGGGGTTAG
*
9347255 GGGTTAAGGGTTAGGGGTT
1 GGGTTAAAGGTTAGGGGTT
9347274 TATAGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.50, T:0.30
Consensus pattern (21 bp):
GGGTTAAAGGTTAGGGGTTAG
Found at i:9347471 original size:7 final size:7
Alignment explanation
Indices: 9347459--9347524 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
9347449 AGGTTAATTT
9347459 AGGGTTA
1 AGGGTTA
9347466 AGGGTTA
1 AGGGTTA
* *
9347473 AGTGTTT
1 AGGGTTA
*
9347480 AGTGTTA
1 AGGGTTA
9347487 AGGGTTA
1 AGGGTTA
9347494 AGGGTTTA
1 AGGG-TTA
*
9347502 AGGTTTA
1 AGGGTTA
*
9347509 AGGTTTA
1 AGGGTTA
*
9347516 AGGTTTA
1 AGGGTTA
9347523 AG
1 AG
9347525 AAATAGAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
7 47 0.89
8 6 0.11
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (7 bp):
AGGGTTA
Found at i:9347523 original size:21 final size:22
Alignment explanation
Indices: 9347462--9347524 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 22
9347452 TTAATTTAGG
9347462 GTTAAGGGTTAAGTGTTT-A-GT
1 GTTAAGGGTTAAG-GTTTAAGGT
9347483 GTTAAGGGTTAAGGGTTTAAGGT
1 GTTAAGGGTTAA-GGTTTAAGGT
*
9347506 -TTAAGGTTTAAGGTTTAAG
1 GTTAAGGGTTAAGGTTTAAG
9347525 AAATAGAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
21 24 0.63
22 12 0.32
23 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (22 bp):
GTTAAGGGTTAAGGTTTAAGGT
Found at i:9348294 original size:251 final size:251
Alignment explanation
Indices: 9347871--9348380 Score: 740
Period size: 251 Copynumber: 2.0 Consensus size: 251
9347861 TAAAACGGCG
* * * *
9347871 CCGTTTGGCTACAGGAATTTGAATTTTAGTGGCTTTTTTCATAAAAACGCCACTGAAGGTATGCT
1 CCGTTTCGCTACAGGAATTTGAATTTTAGTGGCGTTTTTCATAAAAACGCCACAGAAGGTATACT
* * *
9347936 ATAGTGGCGTTTTATATTGAAACGCCGCAAATCCATAAATGTTTGTCTGTACAAAAACGGCGTCG
66 ATAGTGGCGTTTTATATAGAAACGCCGCAAATCCATAAATGTTTGTCTGAACAAAAACAGCGTCG
* ** * * *
9348001 TTTTCTTAAATGATTTGAACTCCTTACTGGCGTTTTTATTTAAAATTCCGCAAACTGTGATCTTT
131 TTTTCTTAAATGATTTGAACTCCTTACTGGCGTTTGTATTTAAAACGCCGC-AACTATAAGCTTT
* *
9348066 AGCGGTGTTT-GATATGGAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCA
195 AGCGGCGTTTAG-TATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCA
* *
9348123 CCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTTT-ATGAAAAACGCCACAGAAGGTATAC
1 CCGTTTCGCTACAGGAATTTGAATTTTAGTGGCGTTTTTCAT-AAAAACGCCACAGAAGGTATAC
* * * *
9348187 -AGTAGTGGCGTTTT-TATAGAAACGTCGCAAATCCATATATGTTTTTGTGAACAAAAACAGCGT
65 TA-TAGTGGCGTTTTATATAGAAACGCCGCAAATCCATAAATGTTTGTCTGAACAAAAACAGCGT
* *
9348250 CGTTTTCTTAAATGATTTGAACTCGTTAGTGGCGTTTGTATTTAAAACGCCGCAACTATAAGCTT
129 CGTTTTCTTAAATGATTTGAACTCCTTACTGGCGTTTGTATTTAAAACGCCGCAACTATAAGCTT
*
9348315 TAGCGGCGTTTAGTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCG
194 TAGCGGCGTTTAGTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCA
9348373 CCGTTTCG
1 CCGTTTCG
9348381 GTTGAGGAAC
Statistics
Matches: 231, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
250 70 0.30
251 94 0.41
252 67 0.29
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (251 bp):
CCGTTTCGCTACAGGAATTTGAATTTTAGTGGCGTTTTTCATAAAAACGCCACAGAAGGTATACT
ATAGTGGCGTTTTATATAGAAACGCCGCAAATCCATAAATGTTTGTCTGAACAAAAACAGCGTCG
TTTTCTTAAATGATTTGAACTCCTTACTGGCGTTTGTATTTAAAACGCCGCAACTATAAGCTTTA
GCGGCGTTTAGTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCA
Found at i:9350359 original size:18 final size:18
Alignment explanation
Indices: 9350336--9350380 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
9350326 AAACAATTTT
9350336 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
9350354 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
*
9350372 TAACTTATA
1 TAAATTATA
9350381 AATATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATATAACTTACA
Done.