Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 82 of 210
Found at i:24420492 original size:118 final size:119
Alignment explanation
Indices: 24420282--24420519 Score: 336
Period size: 118 Copynumber: 2.0 Consensus size: 119
24420272 TTTTTTTGAG
* * * * *
24420282 CTAAATATGGTCCTCAGCCTTTGAGAAAGAGTCAAAATAATGTTTTTTTAACGAGAATACTAACT
1 CTAAATATGGCCCTCAACCTTTGAAAAACAGTCAAAATAA-GTTTTTTTAACAAGAATACTAACT
* *
24420347 AAAATGTTAATTTTTAAACATTGCAGCTTCCGTGACAATTCAGATGTACTTCATT
65 AAAATGTTAATTTTTAAACATTGCAGCTTCCATGACAATTCACATGTACTTCATT
* * *
24420402 CTAAATATGGCCCTTAACCTTTGAAAAACAGTCCAAATGAA-TTTTTTTAACAATAATACT-ACT
1 CTAAATATGGCCCTCAACCTTTGAAAAACAGTCAAAAT-AAGTTTTTTTAACAAGAATACTAACT
* *
24420465 AAGATGTTAATTTTTAAACATTGCAGCTTGCATGACAATTCACATGTACTTCATT
65 AAAATGTTAATTTTTAAACATTGCAGCTTCCATGACAATTCACATGTACTTCATT
24420520 ATAATTTTTT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
118 54 0.51
119 17 0.16
120 32 0.30
121 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (119 bp):
CTAAATATGGCCCTCAACCTTTGAAAAACAGTCAAAATAAGTTTTTTTAACAAGAATACTAACTA
AAATGTTAATTTTTAAACATTGCAGCTTCCATGACAATTCACATGTACTTCATT
Found at i:24420563 original size:8 final size:8
Alignment explanation
Indices: 24420551--24420598 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
24420541 AACTTCTTAT
*
24420551 ATTTTTTT
1 ATTTTTTA
24420559 A-TTTTTA
1 ATTTTTTA
24420566 ATTTTTTA
1 ATTTTTTA
24420574 ATTTTTATA
1 ATTTTT-TA
*
24420583 ATTTTTGA
1 ATTTTTTA
*
24420591 ATTATTTA
1 ATTTTTTA
24420599 TTGATATGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
7 6 0.18
8 20 0.59
9 8 0.24
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (8 bp):
ATTTTTTA
Found at i:24420571 original size:15 final size:15
Alignment explanation
Indices: 24420551--24420580 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24420541 AACTTCTTAT
*
24420551 ATTTTTTTATTTTTA
1 ATTTTTTAATTTTTA
24420566 ATTTTTTAATTTTTA
1 ATTTTTTAATTTTTA
24420581 TAATTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTTAATTTTTA
Found at i:24420584 original size:17 final size:17
Alignment explanation
Indices: 24420547--24420599 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
24420537 TATGAACTTC
*
24420547 TTAT-ATTTTTTTA-TT
1 TTATAATTTTTTAATTT
24420562 TT-TAATTTTTTAATTT
1 TTATAATTTTTTAATTT
*
24420578 TTATAATTTTTGAATTAT
1 TTATAATTTTTTAATT-T
24420596 TTAT
1 TTAT
24420600 TGATATGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 1 0.03
15 10 0.31
16 4 0.12
17 12 0.38
18 5 0.16
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATAATTTTTTAATTT
Found at i:24423456 original size:17 final size:17
Alignment explanation
Indices: 24423396--24423513 Score: 70
Period size: 17 Copynumber: 7.1 Consensus size: 17
24423386 TTGCATAAAT
*
24423396 ATAGGCTCGCATAAACC
1 ATAGGCTCGCATATACC
* *
24423413 -TAGGGCTCACA-A-ATC
1 ATA-GGCTCGCATATACC
*
24423428 ATATGCTCGCATATACC
1 ATAGGCTCGCATATACC
*
24423445 -TAGGGTTCGCATA-ACAC
1 ATA-GGCTCGCATATAC-C
* *
24423462 ATAGGCTCACATATTCC
1 ATAGGCTCGCATATACC
*
24423479 -TAGGGTTCGCATA-ACAC
1 ATA-GGCTCGCATATAC-C
24423496 ATAGGCTCGCATATACC
1 ATAGGCTCGCATATACC
24423513 A
1 A
24423514 ATGATTCACA
Statistics
Matches: 75, Mismatches: 14, Indels: 24
0.66 0.12 0.21
Matches are distributed among these distances:
15 8 0.11
16 13 0.17
17 47 0.63
18 7 0.09
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (17 bp):
ATAGGCTCGCATATACC
Found at i:24423481 original size:34 final size:34
Alignment explanation
Indices: 24423388--24423594 Score: 195
Period size: 34 Copynumber: 6.1 Consensus size: 34
24423378 ATCCAAGTTT
* ** *
24423388 GCATAA-ATATAGGCTCGCATAAACCTAGGGCTC
1 GCATAACACATAGGCTCGCATATTCCTAGGGTTC
* * * *
24423421 ACA-AA-TCATATGCTCGCATATACCTAGGGTTC
1 GCATAACACATAGGCTCGCATATTCCTAGGGTTC
*
24423453 GCATAACACATAGGCTCACATATTCCTAGGGTTC
1 GCATAACACATAGGCTCGCATATTCCTAGGGTTC
* * * *
24423487 GCATAACACATAGGCTCGCATATACCAATGATTC
1 GCATAACACATAGGCTCGCATATTCCTAGGGTTC
* * * *
24423521 ACATAACGCATAGGCTCACATATTCCTCGGGTTC
1 GCATAACACATAGGCTCGCATATTCCTAGGGTTC
* * *
24423555 GCATAACATATATAGGCTCGCATGTTCCTAGAGTTC
1 GCATAAC--ACATAGGCTCGCATATTCCTAGGGTTC
24423591 GCAT
1 GCAT
24423595 GCAATATACA
Statistics
Matches: 139, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
32 26 0.19
33 4 0.03
34 84 0.60
36 25 0.18
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (34 bp):
GCATAACACATAGGCTCGCATATTCCTAGGGTTC
Found at i:24423801 original size:26 final size:27
Alignment explanation
Indices: 24423771--24423831 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
24423761 TCGCACAAAG
*
24423771 GGGATTCACACTAAGGGCTCGCAT-AA
1 GGGATTCACACTAAGGGCTCCCATAAA
* *
24423797 GGGATTCGCGCTAAGGGCTCCCATAAA
1 GGGATTCACACTAAGGGCTCCCATAAA
24423824 GGG-TTCAC
1 GGGATTCAC
24423832 GCACACTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.83
27 5 0.17
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.20
Consensus pattern (27 bp):
GGGATTCACACTAAGGGCTCCCATAAA
Found at i:24425586 original size:21 final size:21
Alignment explanation
Indices: 24425560--24425599 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24425550 GTTAAGATAT
24425560 TATTTCAATAAATT-TTATAGG
1 TATTTCAAT-AATTATTATAGG
24425581 TATTTCAATAATTATTATA
1 TATTTCAATAATTATTATA
24425600 TTACCACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
TATTTCAATAATTATTATAGG
Found at i:24425755 original size:12 final size:12
Alignment explanation
Indices: 24425707--24425756 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
24425697 TTTATTGATA
24425707 AAATATAA-ATAT
1 AAATATAATAT-T
*
24425719 AAATATAATTTT
1 AAATATAATATT
* *
24425731 AATTTTAAT-TT
1 AAATATAATATT
24425742 AAATATAATATT
1 AAATATAATATT
24425754 AAA
1 AAA
24425757 ATTATAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
11 9 0.29
12 21 0.68
13 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATAATATT
Found at i:24431966 original size:20 final size:19
Alignment explanation
Indices: 24431937--24431974 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
24431927 TCTTATCACA
24431937 TCATAACATATTGCAACATG
1 TCATAACATATTG-AACATG
*
24431957 TCATATCATATTGAACAT
1 TCATAACATATTGAACAT
24431975 AGCATAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (19 bp):
TCATAACATATTGAACATG
Found at i:24431995 original size:15 final size:14
Alignment explanation
Indices: 24431957--24432008 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
24431947 TTGCAACATG
*
24431957 TCATATCATATTGA
1 TCATATCATATTTA
* *
24431971 ACATAGCATAGTTTA
1 TCATATCATA-TTTA
24431986 TCATATCATATCTTA
1 TCATATCATAT-TTA
24432001 TCATATCA
1 TCATATCA
24432009 AATCATGTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 9 0.29
15 22 0.71
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (14 bp):
TCATATCATATTTA
Found at i:24437834 original size:51 final size:50
Alignment explanation
Indices: 24437689--24437881 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 50
24437679 TGATCAATGT
* * * *
24437689 TATCCGGTACATATAGTAGCCTACACTTAGTACTACACATGTGACCAATAC
1 TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAA-AC
* * * *
24437740 CATCAGGTACACGTAGTAG-TTGCACATAGTACTACACACGTGACCAAAGC
1 TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAA-C
*
24437790 TATTC-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAAC
1 TA-TCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-AAC
*** * *
24437841 TATCTTATACTCATAGTATCCTGCACATAGTACTACACATG
1 TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATG
24437882 GGTTCTCATG
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 41 0.34
51 75 0.63
52 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (50 bp):
TATCAGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAAAC
Found at i:24437858 original size:101 final size:101
Alignment explanation
Indices: 24437693--24437879 Score: 261
Period size: 101 Copynumber: 1.8 Consensus size: 101
24437683 CAATGTTATC
* * *
24437693 CGGTACATATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCAGGTACACGTAGTA
1 CGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCAGATACACATAGTA
24437758 GT-TGCACATAGTACTACACACGTGACCAAAGCTATT
66 -TCTGCACATAGTACTACACACGTGACCAAAGCTATT
* * ** *
24437794 CGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ATAACTATCTTATACTCATAGT
1 CGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAAT-ACCATCAGATACACATAGT
24437858 ATCCTGCACATAGTACTACACA
65 AT-CTGCACATAGTACTACACA
24437880 TGGGTTCTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
100 3 0.04
101 54 0.72
102 18 0.24
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (101 bp):
CGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCAGATACACATAGTA
TCTGCACATAGTACTACACACGTGACCAAAGCTATT
Found at i:24438656 original size:5 final size:5
Alignment explanation
Indices: 24438635--24438703 Score: 68
Period size: 5 Copynumber: 13.8 Consensus size: 5
24438625 GGCTGTTACA
* * ** *
24438635 CATAT CATGT CATAT CAGAT CATAT CATAT CATAT CGGAT CATAT CATGT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
24438685 CACAT CGA-AT CATAT CATA
1 CATAT C-ATAT CATAT CATA
24438704 CAATGTCCTA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
4 1 0.02
5 49 0.96
6 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (5 bp):
CATAT
Found at i:24438660 original size:20 final size:19
Alignment explanation
Indices: 24438635--24438702 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 19
24438625 GGCTGTTACA
24438635 CATATCATGTCATATCAGAT
1 CATATCATGTCATATC-GAT
*
24438655 CATATCATATCATATCGGAT
1 CATATCATGTCATATC-GAT
*
24438675 CATATCATGTCACATCGAAT
1 CATATCATGTCATATCG-AT
24438695 CATATCAT
1 CATATCAT
24438703 ACAATGTCCT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (19 bp):
CATATCATGTCATATCGAT
Found at i:24438883 original size:7 final size:7
Alignment explanation
Indices: 24438871--24438945 Score: 55
Period size: 7 Copynumber: 10.0 Consensus size: 7
24438861 TGCATATGCA
24438871 TACATAT
1 TACATAT
24438878 TACATAT
1 TACATAT
* *
24438885 AACACTTAA
1 TACA--TAT
24438894 TACATAT
1 TACATAT
24438901 TACATAT
1 TACATAT
24438908 TACATACAT
1 TACAT--AT
24438917 ATACATAT
1 -TACATAT
24438925 TACTATAAT
1 TAC-AT-AT
24438934 T--ATAT
1 TACATAT
24438939 TACATAT
1 TACATAT
24438946 AATTGTTATC
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
5 3 0.05
6 2 0.04
7 31 0.56
8 4 0.07
9 10 0.18
10 5 0.09
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (7 bp):
TACATAT
Found at i:24438899 original size:16 final size:18
Alignment explanation
Indices: 24438878--24438927 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
24438868 GCATACATAT
*
24438878 TACATATAACA-CTTA-A
1 TACATATAACATATTACA
*
24438894 TACATATTACATATTACA
1 TACATATAACATATTACA
24438912 TACATAT-ACATATTAC
1 TACATATAACATATTAC
24438928 TATAATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 10 0.33
17 12 0.40
18 8 0.27
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (18 bp):
TACATATAACATATTACA
Found at i:24438900 original size:23 final size:24
Alignment explanation
Indices: 24438870--24438932 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
24438860 TTGCATATGC
*
24438870 ATACATATTACATATAAC--ACTT
1 ATACATATTACATATAACATACAT
*
24438892 AATACATATTACATATTACATACAT
1 -ATACATATTACATATAACATACAT
24438917 ATACATATTAC-TATAA
1 ATACATATTACATATAA
24438933 TTATATTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 21 0.60
24 11 0.31
25 3 0.09
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.37
Consensus pattern (24 bp):
ATACATATTACATATAACATACAT
Found at i:24439511 original size:49 final size:49
Alignment explanation
Indices: 24439455--24439570 Score: 169
Period size: 49 Copynumber: 2.4 Consensus size: 49
24439445 AAACCTAGCT
* *
24439455 CGTGTGGTCCACGTGGTCTACCCACATGGTCTGCATCATTTCACATGAC
1 CGTGTGGTCCACATGGTCTACACACATGGTCTGCATCATTTCACATGAC
* * **
24439504 CGTGTGGTCCACATGGTCTACACACATGGTCTGTATGATTTCACATGGT
1 CGTGTGGTCCACATGGTCTACACACATGGTCTGCATCATTTCACATGAC
*
24439553 CGTGTGGTCCACACGGTC
1 CGTGTGGTCCACATGGTC
24439571 AAGCCACACT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (49 bp):
CGTGTGGTCCACATGGTCTACACACATGGTCTGCATCATTTCACATGAC
Found at i:24439668 original size:49 final size:49
Alignment explanation
Indices: 24439545--24439656 Score: 172
Period size: 49 Copynumber: 2.3 Consensus size: 49
24439535 TGTATGATTT
* * *
24439545 CACATGGTCGTGTGGTCCACACGGTCAAGCCACACTGGCTACAAAAACA
1 CACACGGTCGTGTGGTCCACACGGCCAAACCACACTGGCTACAAAAACA
*
24439594 CACACGGTCTTGTGGTCCACACGGCCAAACCACA-TAGGCTACAAAAACA
1 CACACGGTCGTGTGGTCCACACGGCCAAACCACACT-GGCTACAAAAACA
24439643 CACACGGTCGTGTG
1 CACACGGTCGTGTG
24439657 CCCTACACGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 1 0.02
49 56 0.98
ACGTcount: A:0.30, C:0.31, G:0.22, T:0.16
Consensus pattern (49 bp):
CACACGGTCGTGTGGTCCACACGGCCAAACCACACTGGCTACAAAAACA
Found at i:24445526 original size:51 final size:51
Alignment explanation
Indices: 24445395--24445587 Score: 196
Period size: 51 Copynumber: 3.8 Consensus size: 51
24445385 GAAAGTGATG
*
24445395 GTCACA-GTTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TGATA
1 GTCACATG-TGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * * *
24445444 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-TTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * *
24445495 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAATGGTAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
* * * * *
24445547 GTCACTTGTGTATTACGATGTGCAGGCTACTATGTGAACCG
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
24445588 AACATCAGTG
Statistics
Matches: 118, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
50 39 0.33
51 76 0.64
52 3 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (51 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTAATA
Found at i:24445824 original size:37 final size:38
Alignment explanation
Indices: 24445753--24445825 Score: 107
Period size: 37 Copynumber: 1.9 Consensus size: 38
24445743 AGGTGTGGAA
24445753 TTGAATTGAATGTCGACTTAGAAATGAAAAAGTGAATT
1 TTGAATTGAATGTCGACTTAGAAATGAAAAAGTGAATT
24445791 TTGAATTGAATTGT-GA-TT-GAAAGTGAAAAAGTGAA
1 TTGAATTGAA-TGTCGACTTAGAAA-TGAAAAAGTGAA
24445826 ATTATGAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
36 4 0.12
37 14 0.42
38 12 0.36
39 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATGTCGACTTAGAAATGAAAAAGTGAATT
Found at i:24449508 original size:32 final size:32
Alignment explanation
Indices: 24449471--24449534 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
24449461 TTTTAAAATG
24449471 TAATAATATA-TTTT-AAAAAATATATAATAATA
1 TAATAATA-ACTTTTCAAAAAA-ATATAATAATA
24449503 TAATAATAACTTTTCAAAAAAATATAATAATA
1 TAATAATAACTTTTCAAAAAAATATAATAATA
24449535 AATTTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 1 0.03
32 23 0.77
33 6 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (32 bp):
TAATAATAACTTTTCAAAAAAATATAATAATA
Found at i:24449580 original size:23 final size:23
Alignment explanation
Indices: 24449554--24449597 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
24449544 TTTAGATTAT
*
24449554 TATTTATTTTAATATTAAATATA
1 TATTTATATTAATATTAAATATA
24449577 TATTTATATTAATATTAAATA
1 TATTTATATTAATATTAAATA
24449598 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTATATTAATATTAAATATA
Found at i:24452720 original size:52 final size:52
Alignment explanation
Indices: 24452663--24452761 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
24452653 TCTAAACAAA
* *
24452663 ATAATAATTAACTACTTAAATTTAAATAAGTTAATAAAATTTTCTTAACACC
1 ATAATAATTAACTAATTAAAATTAAATAAGTTAATAAAATTTTCTTAACACC
* *
24452715 ATAATAATTAACTAATTAAAATTAAATAATTTAATAATATTTTCTTA
1 ATAATAATTAACTAATTAAAATTAAATAAGTTAATAAAATTTTCTTA
24452762 CCATTTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.41
Consensus pattern (52 bp):
ATAATAATTAACTAATTAAAATTAAATAAGTTAATAAAATTTTCTTAACACC
Found at i:24452909 original size:14 final size:14
Alignment explanation
Indices: 24452887--24452952 Score: 60
Period size: 14 Copynumber: 4.7 Consensus size: 14
24452877 TGGAATTGAG
*
24452887 AATTTAGAATAAAA
1 AATTGAGAATAAAA
* ** *
24452901 AATCGAGAATTGAC
1 AATTGAGAATAAAA
*
24452915 AATTGAAAATAAAA
1 AATTGAGAATAAAA
* *
24452929 AATTGAGAACAAGA
1 AATTGAGAATAAAA
24452943 AATTGAGAAT
1 AATTGAGAAT
24452953 CAAATTGTGA
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.23
Consensus pattern (14 bp):
AATTGAGAATAAAA
Found at i:24452925 original size:28 final size:28
Alignment explanation
Indices: 24452879--24452937 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
24452869 TTTTAATTTG
* * *
24452879 GAATTGAGAATTTAGAATAAAAAATCGA
1 GAATTGACAATTGAAAATAAAAAATCGA
*
24452907 GAATTGACAATTGAAAATAAAAAATTGA
1 GAATTGACAATTGAAAATAAAAAATCGA
24452935 GAA
1 GAA
24452938 CAAGAAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.56, C:0.03, G:0.17, T:0.24
Consensus pattern (28 bp):
GAATTGACAATTGAAAATAAAAAATCGA
Found at i:24454537 original size:22 final size:24
Alignment explanation
Indices: 24454485--24454539 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
24454475 TAATAGATGC
**
24454485 TTATTTAATATATACATGTAAAAA
1 TTATTTAATATATACAAATAAAAA
*
24454509 -TAATTAA-ATATA-AAATAAAAA
1 TTATTTAATATATACAAATAAAAA
24454530 TTATTTAATA
1 TTATTTAATA
24454540 AAATTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TTATTTAATATATACAAATAAAAA
Found at i:24466222 original size:85 final size:85
Alignment explanation
Indices: 24466079--24466248 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 85
24466069 TTTTGCAAAT
*
24466079 ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTTATCT
1 ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTAATCT
24466144 TCGGCCTGAATATACAAAAA
66 TCGGCCTGAATATACAAAAA
* * **
24466164 ATCATTCAATTACATGCGGTGCCCTCGATAATAGATTGTGTATGTATGTCTCCAAAATCTAATCT
1 ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTAATCT
* * * *
24466229 TTGGCTTGTATATACTAAAA
66 TCGGCCTGAATATACAAAAA
24466249 GTTAAATTTA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 76 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (85 bp):
ATCATTCAATTACATGCGGTGCCCTCGAAAATAAATTACGTATGTATGTCTCCAAAATCTAATCT
TCGGCCTGAATATACAAAAA
Found at i:24468304 original size:39 final size:40
Alignment explanation
Indices: 24468183--24468305 Score: 160
Period size: 40 Copynumber: 3.1 Consensus size: 40
24468173 TTTGGACAAA
* **
24468183 AAAACACCGCTAAAAATCGAGCATTAGCGGCGC-TTTACAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTA-GG
*
24468223 AAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTAGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAGG
* * *
24468263 AAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTTGG
1 AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAGG
24468302 AAAA
1 AAAA
24468306 ATGCCACAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
39 23 0.32
40 46 0.63
41 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTAGG
Found at i:24468410 original size:41 final size:41
Alignment explanation
Indices: 24468357--24468548 Score: 287
Period size: 41 Copynumber: 4.7 Consensus size: 41
24468347 ATTTTTGGGC
*
24468357 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
* *
24468398 TTTAGTGCCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
* *
24468439 TTCAGCGGCGTTTTTCAAAACGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
**
24468480 TTTAGCGGCGTTTTAAAAAAAGCGCCGCTAATGCTCAGAGC-
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAG-GCT
* *
24468521 TTTAGCGGCGTTTTTGATAAAGCGCCGC
1 TTTAGCGGCGTTTTTCAAAAAGCGCCGC
24468549 AAAAACATTT
Statistics
Matches: 136, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
41 134 0.99
42 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:24469148 original size:133 final size:132
Alignment explanation
Indices: 24469009--24469249 Score: 351
Period size: 133 Copynumber: 1.8 Consensus size: 132
24468999 TTGTGATTTT
* * * *
24469009 GGGGTTAGGGGTTTGAGATCAAGAGTTAAG-GATTTAGGGTTTATG-GATTTGATGTTAGGTTAG
1 GGGGTTAGGGGTTAGAGATCAAGAGTT-AGTGATTTAGGATTTA-GAGATTTGAGGTCAGGTTAG
* *
24469072 GGTTTATGGTTTAGATTAATTAGTGTTTTTTTAATTTATATATTAAATAAAGTTTAGAGGTTAAT
64 GGTTTAAGGTTTAGATTAATTAGT-ATTTTTTAATTTATATATTAAATAAAGTTTAGAGGTTAAT
24469137 AGTTA
128 AGTTA
* * * *
24469142 GGGGTTAGGGGTTAGAGGTTAAGAGTTAGTGATTTAGGATTTAGAGATTTGGGGTCGGGTTAGGG
1 GGGGTTAGGGGTTAGAGATCAAGAGTTAGTGATTTAGGATTTAGAGATTTGAGGTCAGGTTAGGG
24469207 TTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAA
66 TTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAA
24469250 TTAAGTTCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
132 23 0.24
133 73 0.76
ACGTcount: A:0.28, C:0.01, G:0.29, T:0.43
Consensus pattern (132 bp):
GGGGTTAGGGGTTAGAGATCAAGAGTTAGTGATTTAGGATTTAGAGATTTGAGGTCAGGTTAGGG
TTTAAGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAATAAAGTTTAGAGGTTAATAGT
TA
Found at i:24469169 original size:14 final size:14
Alignment explanation
Indices: 24469125--24469170 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
24469115 TAAATAAAGT
*
24469125 TTAGAGGTTAATAG
1 TTAGAGGTTAAGAG
* * *
24469139 TTAGGGGTTAGGGG
1 TTAGAGGTTAAGAG
24469153 TTAGAGGTTAAGAG
1 TTAGAGGTTAAGAG
24469167 TTAG
1 TTAG
24469171 TGATTTAGGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.39, T:0.33
Consensus pattern (14 bp):
TTAGAGGTTAAGAG
Found at i:24471026 original size:43 final size:43
Alignment explanation
Indices: 24470953--24471187 Score: 234
Period size: 43 Copynumber: 5.6 Consensus size: 43
24470943 GTTATGTTTT
* * * **
24470953 TAGCGGCGTTTTTGCA-AGAAGAGCCGCTAAATATCATGGCCTA
1 TAGCGGCGTTTGTG-AGAAAAGCGCCGCTAAAGGTCATGGCCTA
* * *
24470996 TAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* * **
24471039 TAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* *
24471082 TAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGG-C-A
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* * *
24471123 T-----CATTTGTGAAAAAAGCGCCGCTAAAGATCATGGCCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
* *
24471161 TAGCGGCGTTTGGGGGAAAAGCGCCGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGC
24471188 GGCGTTTGTG
Statistics
Matches: 161, Mismatches: 23, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
36 30 0.19
37 1 0.01
38 2 0.01
41 2 0.01
42 2 0.01
43 124 0.77
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGCCTA
Found at i:24471181 original size:79 final size:82
Alignment explanation
Indices: 24470975--24471187 Score: 270
Period size: 79 Copynumber: 2.6 Consensus size: 82
24470965 TGCAAGAAGA
* *
24470975 GCCGCTAAATATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCACTAAAGGTCATGGTCTTT
1 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC--T
*
24471040 AGCGGCATTTGTGATAAAAGC
64 A--GGCATTTGTGAAAAAAGC
* ** * *
24471061 GCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGG-C-A-
1 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTAG
*
24471123 TCATTTGTGAAAAAAGC
66 GCATTTGTGAAAAAAGC
* *
24471140 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGGGGGAAAAGCGCCGC
1 GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGC
24471188 GGCGTTTGTG
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
79 56 0.50
82 1 0.01
85 1 0.01
86 53 0.48
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (82 bp):
GCCGCTAAAGATCATGGCCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTAG
GCATTTGTGAAAAAAGC
Found at i:24471189 original size:23 final size:23
Alignment explanation
Indices: 24471163--24471210 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
24471153 ATGGCCTATA
*
24471163 GCGGCGTTTGGGGGAAAAGCGCC
1 GCGGCGTTTGGGAGAAAAGCGCC
* *
24471186 GCGGCGTTTGTGATAAAAGCGCC
1 GCGGCGTTTGGGAGAAAAGCGCC
24471209 GC
1 GC
24471211 TAAAGGTCAT
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:0.19, C:0.23, G:0.42, T:0.17
Consensus pattern (23 bp):
GCGGCGTTTGGGAGAAAAGCGCC
Found at i:24471376 original size:43 final size:43
Alignment explanation
Indices: 24471329--24471423 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
24471319 TTCACAAACA
* ** *
24471329 CCGCTATAGACCATGACCTATAGTGGCGTTTGTGGGAAAAGTG
1 CCGCTAAAGACCATGACCTATAGCAGCGTTTGTGGGAAAAATG
** **
24471372 CCGCTAAAGGTCATGGTCTATAGCAGCGTTTGTGGGAAAAATG
1 CCGCTAAAGACCATGACCTATAGCAGCGTTTGTGGGAAAAATG
24471415 CCGCTAAAG
1 CCGCTAAAG
24471424 GTTATGACCT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTATAGCAGCGTTTGTGGGAAAAATG
Found at i:24471444 original size:43 final size:43
Alignment explanation
Indices: 24471340--24471445 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
24471330 CGCTATAGAC
* *
24471340 CATGACCTATAGTGGCGTTTGTGGGAAAAGTGCCGCTAAAGGT
1 CATGACCTATACTGGCGTTTGTGGGAAAAATGCCGCTAAAGGT
** *
24471383 CATGGTCTATAGC-AGCGTTTGTGGGAAAAATGCCGCTAAAGGT
1 CATGACCTATA-CTGGCGTTTGTGGGAAAAATGCCGCTAAAGGT
* *
24471426 TATGACCTTTACTGGCGTTT
1 CATGACCTATACTGGCGTTT
24471446 ATTTCTAAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
CATGACCTATACTGGCGTTTGTGGGAAAAATGCCGCTAAAGGT
Found at i:24471704 original size:3 final size:3
Alignment explanation
Indices: 24471696--24471729 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
24471686 AAAGCCATTG
24471696 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
24471730 GACTTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:24472881 original size:40 final size:40
Alignment explanation
Indices: 24472837--24472952 Score: 105
Period size: 40 Copynumber: 2.9 Consensus size: 40
24472827 TAAAAAACCT
24472837 AGAATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGATCA
1 AGAATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGATCA
* * ** *
24472877 AGAATTAGCGGCGC--ATCATGAAAAACGTCGCTAAAGGTCA
1 AGAATTAGCGGTGCTTTTC-T-AAAAACACCGCTAAAGATCA
* * *
24472917 A-ACATTTGCGGTGCTTTACGAAAAACACCGC-AAAGA
1 AGA-ATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGA
24472953 AGTTGAGAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
38 2 0.03
39 6 0.10
40 49 0.84
42 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (40 bp):
AGAATTAGCGGTGCTTTTCTAAAAACACCGCTAAAGATCA
Found at i:24473345 original size:21 final size:21
Alignment explanation
Indices: 24473312--24473359 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
24473302 TTAGAATTTT
* *
24473312 GAGTTTTGCGTTTATGGTTTA
1 GAGTTTGGCGTTTAGGGTTTA
* *
24473333 GAGTTTGGGGTTTGGGGTTTA
1 GAGTTTGGCGTTTAGGGTTTA
*
24473354 GGGTTT
1 GAGTTT
24473360 AGGATTTAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.48
Consensus pattern (21 bp):
GAGTTTGGCGTTTAGGGTTTA
Found at i:24473421 original size:7 final size:7
Alignment explanation
Indices: 24473409--24473482 Score: 51
Period size: 7 Copynumber: 10.6 Consensus size: 7
24473399 AATATTTATA
24473409 TTTAGGG
1 TTTAGGG
24473416 TTTAGGG
1 TTTAGGG
* *
24473423 TGTA-TG
1 TTTAGGG
*
24473429 TTTATGG
1 TTTAGGG
*
24473436 TTTGGGG
1 TTTAGGG
**
24473443 TTTAAAG
1 TTTAGGG
24473450 TTTAGGG
1 TTTAGGG
* *
24473457 TCTAGAGT
1 TTTAG-GG
24473465 TTTAGGG
1 TTTAGGG
*
24473472 TTTAGAG
1 TTTAGGG
24473479 TTTA
1 TTTA
24473483 ATTAATACTG
Statistics
Matches: 49, Mismatches: 16, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
6 4 0.08
7 40 0.82
8 5 0.10
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:24473452 original size:14 final size:14
Alignment explanation
Indices: 24473435--24473482 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
24473425 TATGTTTATG
* *
24473435 GTTTGGGGTTTAAA
1 GTTTAGGGTTTAGA
*
24473449 GTTTAGGGTCTAGA
1 GTTTAGGGTTTAGA
24473463 GTTTTAGGGTTTAGA
1 G-TTTAGGGTTTAGA
24473478 GTTTA
1 GTTTA
24473483 ATTAATACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:24473470 original size:15 final size:15
Alignment explanation
Indices: 24473450--24473481 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
24473440 GGGTTTAAAG
24473450 TTTAGGGTCTAGAGT
1 TTTAGGGTCTAGAGT
*
24473465 TTTAGGGTTTAGAGT
1 TTTAGGGTCTAGAGT
24473480 TT
1 TT
24473482 AATTAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (15 bp):
TTTAGGGTCTAGAGT
Found at i:24473516 original size:7 final size:7
Alignment explanation
Indices: 24473497--24473651 Score: 62
Period size: 7 Copynumber: 21.1 Consensus size: 7
24473487 ATACTGTAAA
24473497 GGTTTATG
1 GGTTTA-G
24473505 GGTTTAG
1 GGTTTAG
24473512 GGTTTAGG
1 GGTTTA-G
*
24473520 GGATTAG
1 GGTTTAG
*
24473527 GGATTAG
1 GGTTTAG
* *
24473534 GGATTAT
1 GGTTTAG
*
24473541 GATTTAG
1 GGTTTAG
* *
24473548 AGTTTAT
1 GGTTTAG
24473555 GGTTTAG
1 GGTTTAG
*
24473562 GGTTTTAA
1 GG-TTTAG
* *
24473570 AGTTTAA
1 GGTTTAG
** *
24473577 ATTTTAT
1 GGTTTAG
24473584 GGTTTATG
1 GGTTTA-G
*
24473592 GGTTTTAA
1 GG-TTTAG
24473600 GG-TTACG
1 GGTTTA-G
*
24473607 AGTGTTTAT
1 -G-GTTTAG
24473616 GGTATT-G
1 GGT-TTAG
*
24473623 AGTTTAG
1 GGTTTAG
24473630 GGTTTAG
1 GGTTTAG
*
24473637 GGTTTAA
1 GGTTTAG
24473644 GGTTTAG
1 GGTTTAG
24473651 G
1 G
24473652 ATTTCTTTTT
Statistics
Matches: 112, Mismatches: 25, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
6 5 0.04
7 74 0.66
8 25 0.22
9 5 0.04
10 3 0.03
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:24473566 original size:14 final size:14
Alignment explanation
Indices: 24473497--24473651 Score: 71
Period size: 14 Copynumber: 10.6 Consensus size: 14
24473487 ATACTGTAAA
*
24473497 GGTTTATGGGTTTAG
1 GGTTTA-GGGTTTAT
* *
24473512 GGTTTAGGGGATTAG
1 GGTTTA-GGGTTTAT
* *
24473527 GGATTAGGGATTAT
1 GGTTTAGGGTTTAT
* *
24473541 GATTTAGAGTTTAT
1 GGTTTAGGGTTTAT
*
24473555 GGTTTAGGGTTTTAA
1 GGTTTAGGG-TTTAT
* ***
24473570 AGTTTAAATTTTAT
1 GGTTTAGGGTTTAT
*
24473584 GGTTTATGGGTTTTAA
1 GGTTTA-GGG-TTTAT
24473600 GG-TTACGAGTGTTTAT
1 GGTTTA-G-G-GTTTAT
* *
24473616 GGTATT-GAGTTTAG
1 GGT-TTAGGGTTTAT
*
24473630 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAT
24473644 GGTTTAGG
1 GGTTTAGG
24473652 ATTTCTTTTT
Statistics
Matches: 105, Mismatches: 27, Indels: 17
0.70 0.18 0.11
Matches are distributed among these distances:
13 2 0.02
14 55 0.52
15 31 0.30
16 14 0.13
17 1 0.01
18 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.45
Consensus pattern (14 bp):
GGTTTAGGGTTTAT
Found at i:24473575 original size:29 final size:30
Alignment explanation
Indices: 24473543--24473599 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
24473533 GGGATTATGA
*
24473543 TTTAGAGTTTATGGTTTA-GGGTTTTAAAG
1 TTTAAAGTTTATGGTTTATGGGTTTTAAAG
*
24473572 TTTAAATTTTATGGTTTATGGGTTTTAA
1 TTTAAAGTTTATGGTTTATGGGTTTTAA
24473600 GGTTACGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (30 bp):
TTTAAAGTTTATGGTTTATGGGTTTTAAAG
Found at i:24473912 original size:38 final size:38
Alignment explanation
Indices: 24473859--24473933 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 38
24473849 TTATATTCAG
*
24473859 TTTTAAAATTGAACAATT-AAATACTGTCATATTAAAA
1 TTTTAAAATTGAACAATTAAAATAATGTCATATTAAAA
*
24473896 TTTTAAAAATTTAACAATTAAAAATAATGTCATATTAA
1 TTTT-AAAATTGAACAATT-AAAATAATGTCATATTAA
24473934 TGTATCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 4 0.12
38 13 0.39
40 16 0.48
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.39
Consensus pattern (38 bp):
TTTTAAAATTGAACAATTAAAATAATGTCATATTAAAA
Found at i:24474408 original size:19 final size:20
Alignment explanation
Indices: 24474384--24474423 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
24474374 CGCACCCAGC
24474384 CCCTAATT-CCCTTCCAAAT
1 CCCTAATTCCCCTTCCAAAT
*
24474403 CCCTAATTCCCCTTCGAAAT
1 CCCTAATTCCCCTTCCAAAT
24474423 C
1 C
24474424 TCTTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.25, C:0.42, G:0.03, T:0.30
Consensus pattern (20 bp):
CCCTAATTCCCCTTCCAAAT
Found at i:24475090 original size:21 final size:20
Alignment explanation
Indices: 24475064--24475137 Score: 93
Period size: 21 Copynumber: 3.8 Consensus size: 20
24475054 TTCATTATTA
24475064 TATCTAAGTAAAATTCAATTT
1 TATCTAA-TAAAATTCAATTT
24475085 TATCTAAGTAAAATTCAATTT
1 TATCTAA-TAAAATTCAATTT
24475106 TATCT--T--AATTCAATTT
1 TATCTAATAAAATTCAATTT
24475122 TATCTTAATAAAATTC
1 TATC-TAATAAAATTC
24475138 TTTAATTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
16 14 0.29
17 1 0.02
18 1 0.02
19 1 0.02
21 31 0.65
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.46
Consensus pattern (20 bp):
TATCTAATAAAATTCAATTT
Found at i:24475115 original size:16 final size:16
Alignment explanation
Indices: 24475096--24475130 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
24475086 ATCTAAGTAA
24475096 AATTCAATTTTATCTT
1 AATTCAATTTTATCTT
24475112 AATTCAATTTTATCTT
1 AATTCAATTTTATCTT
24475128 AAT
1 AAT
24475131 AAAATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTCAATTTTATCTT
Found at i:24475136 original size:16 final size:16
Alignment explanation
Indices: 24475101--24475136 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24475091 AGTAAAATTC
**
24475101 AATTTTATCTTAATTC
1 AATTTTATCTTAATAA
24475117 AATTTTATCTTAATAA
1 AATTTTATCTTAATAA
24475133 AATT
1 AATT
24475137 CTTTAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTATCTTAATAA
Found at i:24475597 original size:28 final size:28
Alignment explanation
Indices: 24475559--24475612 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
24475549 AATTTCGGTA
*
24475559 TATTTGTAGTTGGGATTGTTTTATTTGG
1 TATTTGTAGTTGGGACTGTTTTATTTGG
24475587 TATTTGTAGTTGGGACTGTTTTATTT
1 TATTTGTAGTTGGGACTGTTTTATTT
24475613 AGGTTGTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.15, C:0.02, G:0.26, T:0.57
Consensus pattern (28 bp):
TATTTGTAGTTGGGACTGTTTTATTTGG
Found at i:24475662 original size:35 final size:35
Alignment explanation
Indices: 24475615--24475688 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
24475605 TTTTATTTAG
24475615 GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
1 GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
*
24475650 GTTGTCTGAATTAATTTCTGCAAGTTCTACTAAGT
1 GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
24475685 GTTG
1 GTTG
24475689 CCTTAGATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.43
Consensus pattern (35 bp):
GTTGTCTAAATTAATTTCTGCAAGTTCTACTAAGT
Found at i:24476834 original size:9 final size:9
Alignment explanation
Indices: 24476820--24477144 Score: 196
Period size: 9 Copynumber: 34.8 Consensus size: 9
24476810 ATATATATCA
*
24476820 TACATAATT
1 TACATAACT
24476829 TACATAACT
1 TACATAACT
24476838 TACATAACT
1 TACATAACT
*
24476847 TA-TTAACT
1 TACATAACT
*
24476855 TACATATATCA
1 TACATA-A-CT
24476866 TACCATAACT
1 TA-CATAACT
*
24476876 TAAATAACT
1 TACATAACT
* * *
24476885 CATAGAACT
1 TACATAACT
*
24476894 TACTTAACT
1 TACATAACT
24476903 TA-ATAACT
1 TACATAACT
* *
24476911 TATATATATCA
1 TACATA-A-CT
*
24476922 TACCACAACT
1 TA-CATAACT
*
24476932 TAAATAACT
1 TACATAACT
*
24476941 CACATAACT
1 TACATAACT
*
24476950 TACTTAACT
1 TACATAACT
24476959 TA-ATAACT
1 TACATAACT
* *
24476967 TATATATATCA
1 TACATA-A-CT
24476978 TACAATAACT
1 TAC-ATAACT
*
24476988 TAAATAACT
1 TACATAACT
*
24476997 CACATAACT
1 TACATAACT
24477006 TACATAACT
1 TACATAACT
24477015 TA-ATAACT
1 TACATAACT
* *
24477023 TATATATATCA
1 TACATA-A-CT
24477034 TACCATAACT
1 TA-CATAACT
24477044 TA-ATAACT
1 TACATAACT
*
24477052 T-CTATATATCA
1 TAC-ATA-A-CT
24477063 TATCATAACT
1 TA-CATAACT
24477073 TACATAACT
1 TACATAACT
*
24477082 CACATAACT
1 TACATAACT
24477091 TACATAACT
1 TACATAACT
24477100 TA-ATAACT
1 TACATAACT
* * *
24477108 TATGTATATCA
1 TA--CATAACT
24477119 TATCATAACT
1 TA-CATAACT
24477129 TACATAACT
1 TACATAACT
*
24477138 TGCATAA
1 TACATAA
24477145 TACATAAATA
Statistics
Matches: 245, Mismatches: 46, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
8 44 0.18
9 134 0.55
10 26 0.11
11 25 0.10
12 15 0.06
13 1 0.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:24476902 original size:56 final size:56
Alignment explanation
Indices: 24476830--24477051 Score: 365
Period size: 56 Copynumber: 4.0 Consensus size: 56
24476820 TACATAATTT
* *
24476830 ACATAACTTACATAACTTATTAACTTACATATATCATACCATAACTTAAATAACTC
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
* * * *
24476886 ATAGAACTTACTTAACTTAATAACTTATATATATCATACCACAACTTAAATAACTC
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
* *
24476942 ACATAACTTACTTAACTTAATAACTTATATATATCATACAATAACTTAAATAACTC
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
24476998 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTT-AATAACT
1 ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACT
24477052 TCTATATATC
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
55 7 0.05
56 147 0.95
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (56 bp):
ACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATAACTC
Found at i:24476959 original size:112 final size:111
Alignment explanation
Indices: 24476830--24477107 Score: 366
Period size: 112 Copynumber: 2.5 Consensus size: 111
24476820 TACATAATTT
* * *
24476830 ACATAACTTACATAACTTATTAACTTACATATATCATACCATAACTTAAATAACTCATAGAACTT
1 ACATAACTTACATAACTTAATAACTTACATATATCATACAATAACTTAAATAACTCACAGAACTT
*
24476895 ACTTAACTTAATAACTTATATATATCATACCACAACTTAAATAACTC
66 ACATAACTTAATAACTTATATATATCATACCACAACTT-AATAACTC
* * *
24476942 ACATAACTTACTTAACTTAATAACTTATATATATCATACAATAACTTAAATAACTCACATAACTT
1 ACATAACTTACATAACTTAATAACTTACATATATCATACAATAACTTAAATAACTCACAGAACTT
*
24477007 ACATAACTTAATAACTTATATATATCATACCATAACTTAATAACTTC
66 ACATAACTTAATAACTTATATATATCATACCACAACTTAATAAC-TC
* * * * *
24477054 TATATATCATATCATAACTTACATAACTCACATA-A-CTTAC-ATAACTT-AATAACT
1 -ACATAACTTA-CATAACTTA-ATAACTTACATATATCATACAATAACTTAAATAACT
24477108 TATGTATATC
Statistics
Matches: 147, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
111 13 0.09
112 104 0.71
113 11 0.07
114 9 0.06
115 10 0.07
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.35
Consensus pattern (111 bp):
ACATAACTTACATAACTTAATAACTTACATATATCATACAATAACTTAAATAACTCACAGAACTT
ACATAACTTAATAACTTATATATATCATACCACAACTTAATAACTC
Found at i:24477144 original size:56 final size:54
Alignment explanation
Indices: 24477037--24477151 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 54
24477027 TATATCATAC
*
24477037 CATAACTTAATAACTTCTATATATCATATCATAACTTACATAACTCACATAACTTA
1 CATAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAA--TA
* **
24477093 CATAACTTAATAACTTATGTATATCATATCATAACTTACATAACTTGCATAATA
1 CATAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAATA
24477147 CATAA
1 CATAA
24477152 ATATATAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 7 0.13
56 48 0.87
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (54 bp):
CATAACTTAATAACTTATATATATCATATCATAACTTACATAACTCACATAATA
Found at i:24477163 original size:85 final size:85
Alignment explanation
Indices: 24476954--24477138 Score: 291
Period size: 85 Copynumber: 2.2 Consensus size: 85
24476944 ATAACTTACT
* *
24476954 TAACTTAATAACTTATATATATCATACAATAACTTAA-ATAACTCACATAACTTACATAACTTAA
1 TAACTTAATAACTTCTATATATCATATAATAAC-TAACATAACTCACATAACTTACATAACTTAA
24477018 TAACTTATATATATCATACCA
65 TAACTTATATATATCATACCA
* *
24477039 TAACTTAATAACTTCTATATATCATATCATAACTTACATAACTCACATAACTTACATAACTTAAT
1 TAACTTAATAACTTCTATATATCATATAATAACTAACATAACTCACATAACTTACATAACTTAAT
* *
24477104 AACTTATGTATATCATATCA
66 AACTTATATATATCATACCA
24477124 TAACTTACATAACTT
1 TAACTTA-ATAACTT
24477139 GCATAATACA
Statistics
Matches: 92, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
84 2 0.02
85 83 0.90
86 7 0.08
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (85 bp):
TAACTTAATAACTTCTATATATCATATAATAACTAACATAACTCACATAACTTACATAACTTAAT
AACTTATATATATCATACCA
Found at i:24482684 original size:21 final size:21
Alignment explanation
Indices: 24482660--24482716 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
24482650 CTACAACTTA
24482660 AAGCAGAGGCAGCAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
*
24482681 AAGCAGAGGTAGCAGCAAGGG
1 AAGCAGAGGCAGCAGCAAGGG
*
24482702 AAGTAGA-GCAG-AGCA
1 AAGCAGAGGCAGCAGCA
24482717 GAAAGTACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 26 0.79
ACGTcount: A:0.40, C:0.16, G:0.40, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCAAGGG
Found at i:24486542 original size:35 final size:35
Alignment explanation
Indices: 24486496--24486562 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
24486486 TTTGCCTACT
*
24486496 CCTCTACTTTTAGGCTAAAAATACTTTTAGAATTA
1 CCTCTACTTTTAAGCTAAAAATACTTTTAGAATTA
24486531 CCTCTACTTTTAAGCTAAAAATACTTTTAGAA
1 CCTCTACTTTTAAGCTAAAAATACTTTTAGAA
24486563 CCATAAGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (35 bp):
CCTCTACTTTTAAGCTAAAAATACTTTTAGAATTA
Found at i:24495087 original size:40 final size:40
Alignment explanation
Indices: 24495026--24495206 Score: 308
Period size: 40 Copynumber: 4.5 Consensus size: 40
24495016 TGAATCAGAA
24495026 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
* *
24495066 TACCGGCATTAAGCCTACTAGACATTAAGTCTGTAAAGTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
*
24495106 CACCGGCACTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
* * *
24495146 CACCGGCATTAAGCCTGCTAAACATTAAGTCTATAAAGGT
1 CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
24495186 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
24495207 GCACAGGACC
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 131 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACATTAAGTCTGTAAAGTT
Found at i:24497598 original size:44 final size:44
Alignment explanation
Indices: 24497550--24497766 Score: 164
Period size: 44 Copynumber: 4.7 Consensus size: 44
24497540 GTTTCTTCAG
* *
24497550 TCTGCTCCTCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAA
* * * * *
24497594 TCTGCTTCACTGCAACTTTAGGAAGATAAGCTCCGCCATAATTTGTAGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG----G-C-----TGGTGGCTTTAA
* ** * ** * * *
24497648 TCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGACTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGGCT-GGTGGCTTTAA
*
24497693 TCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAA
* *
24497737 TCTGCTCCACTACAACTTCAGGAAGATAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
24497767 ATTCACCATA
Statistics
Matches: 129, Mismatches: 33, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
44 61 0.47
45 33 0.26
48 1 0.01
49 1 0.01
54 33 0.26
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTTAA
Found at i:24497636 original size:143 final size:142
Alignment explanation
Indices: 24497410--24497890 Score: 601
Period size: 143 Copynumber: 3.4 Consensus size: 142
24497400 ATTTTAATTC
* * *** * * * * *
24497410 GCTCCACTGCAACTTCAGGGAGAT-AGGATTGGTTTTTTCTATTTGCTGCACTGTAACTTCAAGA
1 GCTCCTCTGCAACTTCAGGGAGATAAGG-CTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGA
* *
24497474 AGATAAGATCCGCCATAATTTGTAGCTTCAATCTGTTCCACTGCAATCTTCAAGGAAATAAGATT
65 AGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATC--CAGGGAAATAAGATT
*
24497539 CG-TTTCTTCAGTCT
128 CGCTATCTTCAGTCT
* * *
24497553 GCTCCTCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTTAATCTGCTTCACTGCAACTTTAGGAA
1 GCTCCTCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAA
* *
24497618 GATAAGCTCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG
66 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAA-TCCAGGGAAATAAGATTCG
*
24497683 CTGA-CTTTAGTCT
130 CT-ATCTTCAGTCT
* * *
24497696 GCTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAGGAA
1 GCTCCTCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAA
* * * *
24497761 GATAAGATTCACCATAACTTGTAGCTTTAATCTATTCCACTGCAATGCCAGGGAAATAAGATTCG
66 GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAAT-CCAGGGAAATAAGATTCG
24497826 CTATCTTCAGTCT
130 CTATCTTCAGTCT
* * * *
24497839 GCT-CTGCTGCAATTTTAGGGAGATAAGGCTAGAGGCTTCAATCTGCTTCACT
1 GCTCCT-CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACT
24497891 ACTGTTTAGG
Statistics
Matches: 293, Mismatches: 38, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
142 18 0.06
143 271 0.92
144 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (142 bp):
GCTCCTCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCAACTTCAGGAA
GATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAATCCAGGGAAATAAGATTCGC
TATCTTCAGTCT
Found at i:24498221 original size:89 final size:90
Alignment explanation
Indices: 24498063--24498407 Score: 412
Period size: 89 Copynumber: 3.9 Consensus size: 90
24498053 ACCTACTCCA
* * * * *
24498063 CTGCAAACTCAGAGAGG-CAAGGCTGGTGTTTTCGATATGCTTCACTACCAGTACAGGAAGA-AA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
* * *
24498126 AGATTTGTTGTTTTCAGTCTGCTTTG
66 A-ATTTGTTATCTTCAGTCTGCTTCG
* * * * *
24498152 TTGCAAACTCAGGGAGG-CAAGGTTGGTGTCTTCAATCCGCTTCGCTGCCAATACAGGAAGACAA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
*
24498216 AATTTGTTATCTTCTGTCTGCTTCG
66 AATTTGTTATCTTCAGTCTGCTTCG
* *
24498241 CTGCAAACTCAGGGAGGTC-AGGCTGGTATCTTCGATCTGCTTCGCTTCCAGTACAGGAAGACAA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
* ** *
24498305 GATCGGTTATCTTCAGTCTGCTCCG
66 AATTTGTTATCTTCAGTCTGCTTCG
* * *
24498330 CTGCAAACTCAGGGAGGTCAA-GCTGGTGTATTCGATCTACTTCGCTGCCAGTATAGGAAGACAA
1 CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
* * *
24498394 GATCTGCTATCTTC
66 AATTTGTTATCTTC
24498408 TTCAATCCAT
Statistics
Matches: 220, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
89 215 0.98
90 5 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (90 bp):
CTGCAAACTCAGGGAGGTCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACAGGAAGACAA
AATTTGTTATCTTCAGTCTGCTTCG
Found at i:24498280 original size:44 final size:44
Alignment explanation
Indices: 24498223--24498377 Score: 138
Period size: 44 Copynumber: 3.5 Consensus size: 44
24498213 CAAAATTTGT
*
24498223 TATCTTCTG-TCTGCTTCGCTGCAAACTCAGGGAGGTCAGGCTGG
1 TATCTTC-GATCTGCTTCGCTGCAAACTCAGGGAGGTCAAGCTGG
* * * * * *
24498267 TATCTTCGATCTGCTTCGCTTC-CAGTACA-GGAAGACAAGATCGG
1 TATCTTCGATCTGCTTCGCTGCAAACT-CAGGGAGGTCAAGCT-GG
*
24498311 TTATCTTC-AGTCTGCTCCGCTGCAAACTCAGGGAGGTCAAGCTGG
1 -TATCTTCGA-TCTGCTTCGCTGCAAACTCAGGGAGGTCAAGCTGG
* * *
24498356 TGTATTCGATCTACTTCGCTGC
1 TATCTTCGATCTGCTTCGCTGC
24498378 CAGTATAGGA
Statistics
Matches: 85, Mismatches: 18, Indels: 16
0.71 0.15 0.13
Matches are distributed among these distances:
43 11 0.13
44 40 0.47
45 23 0.27
46 11 0.13
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTGCTTCGCTGCAAACTCAGGGAGGTCAAGCTGG
Found at i:24498325 original size:45 final size:44
Alignment explanation
Indices: 24498180--24498333 Score: 125
Period size: 45 Copynumber: 3.5 Consensus size: 44
24498170 AAGGTTGGTG
* * * *
24498180 TCTTCAATCCGCTTCGCTGCCAATACAGGAAGACAAAATTTGTTA
1 TCTTCAGTCTGCTTCGCTGCCAATACAGGAAGACAAGA-TGGTTA
* * * * * *
24498225 TCTTCTGTCTGCTTCGCTGCAAACT-CAGGGAGGTCAGGCTGG-TA
1 TCTTCAGTCTGCTTCGCTGCCAA-TACA-GGAAGACAAGATGGTTA
* *
24498269 TCTTC-GATCTGCTTCGCTTCCAGTACAGGAAGACAAGATCGGTTA
1 TCTTCAG-TCTGCTTCGCTGCCAATACAGGAAGACAAGAT-GGTTA
*
24498314 TCTTCAGTCTGCTCCGCTGC
1 TCTTCAGTCTGCTTCGCTGC
24498334 AAACTCAGGG
Statistics
Matches: 83, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
43 10 0.12
44 24 0.29
45 41 0.49
46 8 0.10
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTTCAGTCTGCTTCGCTGCCAATACAGGAAGACAAGATGGTTA
Found at i:24511110 original size:3 final size:3
Alignment explanation
Indices: 24511104--24511160 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
24511094 TTGGTTGTTG
24511104 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
24511152 TTA TTA TTA
1 TTA TTA TTA
24511161 AAGAGTTTGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24517622 original size:16 final size:15
Alignment explanation
Indices: 24517597--24517627 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
24517587 CATTCTTAAG
24517597 AAAAAAAAGGAAAAA
1 AAAAAAAAGGAAAAA
24517612 AAAAAAGAAGGAAAAA
1 AAAAAA-AAGGAAAAA
24517628 CAAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGGAAAAA
Found at i:24522359 original size:26 final size:26
Alignment explanation
Indices: 24522343--24522410 Score: 129
Period size: 26 Copynumber: 2.7 Consensus size: 26
24522333 AAAGAAAGCT
24522343 AAGGAAAAATGAAAAGAAGAGAAGAA
1 AAGGAAAAATGAAAAGAAGAGAAGAA
24522369 AAGGAAAAATGAAAAGAAGAGAAGAA
1 AAGGAAAAATGAAAAGAAGAGAAGAA
24522395 AAGGAAAAAT-AAAAGA
1 AAGGAAAAATGAAAAGA
24522411 TATTTTATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 6 0.14
26 36 0.86
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (26 bp):
AAGGAAAAATGAAAAGAAGAGAAGAA
Found at i:24522388 original size:21 final size:19
Alignment explanation
Indices: 24522354--24522402 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
24522344 AGGAAAAATG
*
24522354 AAAAGAAGAGAAGAAAAGGA
1 AAAAGAAAAGAAGAAAA-GA
*
24522374 AAAATGAAAAGAAGAGAAGA
1 AAAA-GAAAAGAAGAAAAGA
*
24522394 AAAGGAAAA
1 AAAAGAAAA
24522403 ATAAAAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 5 0.20
20 9 0.36
21 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAGAAGAAAAGA
Found at i:24523543 original size:15 final size:15
Alignment explanation
Indices: 24523524--24523569 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
24523514 AGGAAAAATA
24523524 AATAATAATAATAAC
1 AATAATAATAATAAC
*
24523539 GATAATAATAATAAC
1 AATAATAATAATAAC
*
24523554 AATAAT-ACAATAAC
1 AATAATAATAATAAC
24523568 AA
1 AA
24523570 CAAATGAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAATAATAATAAC
Found at i:24525411 original size:51 final size:49
Alignment explanation
Indices: 24525351--24525601 Score: 136
Period size: 51 Copynumber: 5.2 Consensus size: 49
24525341 CTTTAAGGAG
24525351 ATAAGATTTGCAACTTGTAGCTTTAATCTGTCCCACTGCAACATCAGGGAA
1 ATAAGATTTG-AACTTGTAGCTTTAATCTGTCCCACTGCAAC-TCAGGGAA
* *
24525402 ATAAGA--T----TTGTAG-TTTCAATCTG-CTCTACTGCAACTCCAGGGAG
1 ATAAGATTTGAACTTGTAGCTTT-AATCTGTC-CCACTGCAACT-CAGGGAA
* * * * *
24525446 ATAAGATTTGTAACTTGTAGATTTAATTTGTTCCATTGCAACTTTAGGGAA
1 ATAAGATTTG-AACTTGTAGCTTTAATCTGTCCCACTGCAAC-TCAGGGAA
* * * * *
24525497 AT---A--TG-ATTTGTAGCTTAAATCTG-CTCCACTGTAATTTCAGGGAG
1 ATAAGATTTGAACTTGTAGCTTTAATCTGTC-CCACTGCAA-CTCAGGGAA
* * ** * *
24525541 ATAATATTTGTAACTTGTAGCTTTAATTTGTTTCACTGAAACTCTAGGAAA
1 ATAAGATTTG-AACTTGTAGCTTTAATCTGTCCCACTGCAACTC-AGGGAA
24525592 ATAAGATTTG
1 ATAAGATTTG
24525602 TAGCTATTTT
Statistics
Matches: 148, Mismatches: 28, Indels: 48
0.66 0.12 0.21
Matches are distributed among these distances:
43 5 0.03
44 62 0.42
46 3 0.02
47 1 0.01
48 1 0.01
49 3 0.02
50 2 0.01
51 67 0.45
52 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (49 bp):
ATAAGATTTGAACTTGTAGCTTTAATCTGTCCCACTGCAACTCAGGGAA
Found at i:24525486 original size:95 final size:94
Alignment explanation
Indices: 24525347--24525651 Score: 376
Period size: 95 Copynumber: 3.2 Consensus size: 94
24525337 GTAACTTTAA
* * *
24525347 GGAGATAAGATTTGCAACTTGTAGCTTTAATCTGTCCCACTGCAACATCAGGGAAATAAGATTTG
1 GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAAC-TCAGGGAAATAAGATTTG
* *
24525412 TAGTTTCAATCTGCTCTACTGCAACTCCAG
65 TAGTTTCAATCTGCTCCACTGCAACTTCAG
* * * *
24525442 GGAGATAAGATTTGTAACTTGTAGATTTAATTTGTTCCATTGCAACTTTAGGGAAATATGATTTG
1 GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAAC-TCAGGGAAATAAGATTTG
* * * *
24525507 TAGCTTAAATCTGCTCCACTGTAATTTCAG
65 TAGTTTCAATCTGCTCCACTGCAACTTCAG
* * * *
24525537 GGAGATAATATTTGTAACTTGTAGCTTTAATTTGTTTCACTGAAACTCTAGGAAAATAAGATTTG
1 GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAACTC-AGGGAAATAAGATTTG
*
24525602 TAGCTATTTTTCAATCTGCTCCACTTCAACTTCAG
65 TAG-----TTTCAATCTGCTCCACTGCAACTTCAG
24525637 GGAGATAAGATTTGT
1 GGAGATAAGATTTGT
24525652 GCCTTTAATC
Statistics
Matches: 176, Mismatches: 28, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
94 1 0.01
95 139 0.79
100 36 0.20
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (94 bp):
GGAGATAAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTGCAACTCAGGGAAATAAGATTTGT
AGTTTCAATCTGCTCCACTGCAACTTCAG
Found at i:24525550 original size:44 final size:44
Alignment explanation
Indices: 24525365--24525868 Score: 272
Period size: 44 Copynumber: 11.0 Consensus size: 44
24525355 GATTTGCAAC
* * *
24525365 TTGTAGCTTTAATCTG-TCCCACTGCAACATCAGGGAAATAAGAT
1 TTGTAGCTTTAATCTGCT-CCACTGTAACTTCAGGGAGATAAGAT
* * *
24525409 TTGTAG-TTTCAATCTGCTCTACTGCAACTCCAGGGAGATAAGATTTGT
1 TTGTAGCTTT-AATCTGCTCCACTGTAACTTCAGGGAGATAAGA----T
* * * * * * * *
24525457 AACTTGTAGATTTAATTTGTTCCATTGCAACTTTAGGGAAATATGAT
1 ---TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
* * *
24525504 TTGTAGCTTAAATCTGCTCCACTGTAATTTCAGGGAGATAATATTTGTAAC
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGAT-A-A---G--AT
* * * * * *
24525555 TTGTAGCTTTAATTTGTTTCACTGAAAC-TCTAGGAAAATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTC-AGGGAGATAAGAT
24525599 TTGTAGCTATTTTTCAATCTGCTCCACT-TCAACTTCAGGGAGATAAGAT
1 TTGTAGC----TTT-AATCTGCTCCACTGT-AACTTCAGGGAGATAAGAT
* * *
24525648 TTGT-GCCTTTAATCTTCTCCATTGCAACTT-AGGGAGATAAGAT
1 TTGTAG-CTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
* * *
24525691 TTGT-GTCTTTAATCTGCTCCACTATGAA-TTTAGGGAGATAATAT
1 TTGTAG-CTTTAATCTGCTCCACTGT-AACTTCAGGGAGATAAGAT
* * * * *
24525735 TTGAAG-TTTCAATTTGCTTCA-TTTCAACTTCAGGGAGATAAGGT
1 TTGTAGCTTT-AATCTGCTCCACTGT-AACTTCAGGGAGATAAGAT
* * * * * *
24525779 TTGTAACTTTAATCTGCTCCACTGCAAATTCAAGGAGAGAAGAA
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
* * * * * *
24525823 TTATGGCTTCAACCTACTCCACTGTAACTTTAGGGAGATAAGAT
1 TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
24525867 TT
1 TT
24525869 TCCATGATGA
Statistics
Matches: 348, Mismatches: 78, Indels: 68
0.70 0.16 0.14
Matches are distributed among these distances:
43 45 0.13
44 187 0.54
45 10 0.03
46 1 0.00
47 1 0.00
48 5 0.01
49 31 0.09
50 5 0.01
51 60 0.17
52 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (44 bp):
TTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGAT
Found at i:24535628 original size:3 final size:3
Alignment explanation
Indices: 24535622--24535691 Score: 122
Period size: 3 Copynumber: 23.3 Consensus size: 3
24535612 ATAGGAAAAA
* *
24535622 AAT AAT AGT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24535670 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
24535692 CAAGAACAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24535770 original size:3 final size:3
Alignment explanation
Indices: 24535747--24535802 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
24535737 TAAATATATA
*
24535747 AAT AGT AAT AAAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24535792 AAT AAT AAT AA
1 AAT AAT AAT AA
24535803 AGGCGTAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:24535920 original size:23 final size:24
Alignment explanation
Indices: 24535891--24535936 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24535881 ATAAATAAAA
*
24535891 TAAATAAA-GGACTTAATTGTAAC
1 TAAATAAATGGACTAAATTGTAAC
*
24535914 TAAATAAATGGGCTAAATTGTAA
1 TAAATAAATGGACTAAATTGTAA
24535937 AAATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (24 bp):
TAAATAAATGGACTAAATTGTAAC
Found at i:24538198 original size:19 final size:19
Alignment explanation
Indices: 24538174--24538216 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
24538164 TGAAAGGAAG
*
24538174 AAAAGTTTTGGGAGAAAGT
1 AAAAGTTTTGGGAGAAAGC
24538193 AAAAGTTTTGGGAGAAAGC
1 AAAAGTTTTGGGAGAAAGC
24538212 AAAAG
1 AAAAG
24538217 AAAAAAATAT
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:0.47, C:0.02, G:0.30, T:0.21
Consensus pattern (19 bp):
AAAAGTTTTGGGAGAAAGC
Found at i:24553420 original size:13 final size:12
Alignment explanation
Indices: 24553404--24553446 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
24553394 ATAAAAAGTA
24553404 AAAAAAAAATTGT
1 AAAAAAAAATT-T
24553417 AAAAAAAAATTT
1 AAAAAAAAATTT
24553429 AAAATTAAAAA-TT
1 AAAA--AAAAATTT
24553442 AAAAA
1 AAAAA
24553447 CTTGAAGGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 1 0.04
12 5 0.18
13 17 0.61
14 5 0.18
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAAAAAAATTT
Found at i:24554032 original size:95 final size:94
Alignment explanation
Indices: 24553858--24554047 Score: 249
Period size: 95 Copynumber: 2.0 Consensus size: 94
24553848 TCGACTAGCT
* * *
24553858 TTGTTGAAAAACACAAATGGGATGAAATTTTGTGGTTTATGATTCATGGATGGGGCCCAAAAATA
1 TTGTTGAAAAACACAAATGGGATCAAATTTTGTGGTTTATGATTCATGAATGGGACCCAAAAATA
*
24553923 TCGGATACATTAAGCACTAAGCAGCTATA
66 TCGGATACAGTAAGCACTAAGCAGCTATA
** *
24553952 TTGTTGAAAAACACAAATGGGATCAAACTTTTGTGGTTTATGATTGGTGAATGGGACTCAAAAGT
1 TTGTTGAAAAACACAAATGGGATCAAA-TTTTGTGGTTTATGATTCATGAATGGGACCCAAAA--
* * *
24554017 ATAT-TG-TGCAGTAAGCACTAAGCAGTTATA
63 ATATCGGATACAGTAAGCACTAAGCAGCTATA
24554047 T
1 T
24554048 ATGTAGCCCT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
94 26 0.31
95 52 0.63
96 1 0.01
97 4 0.05
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (94 bp):
TTGTTGAAAAACACAAATGGGATCAAATTTTGTGGTTTATGATTCATGAATGGGACCCAAAAATA
TCGGATACAGTAAGCACTAAGCAGCTATA
Found at i:24554590 original size:13 final size:13
Alignment explanation
Indices: 24554572--24554597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24554562 TTTTACACGC
24554572 ATTAAAATATAAT
1 ATTAAAATATAAT
24554585 ATTAAAATATAAT
1 ATTAAAATATAAT
24554598 GATTTTGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTAAAATATAAT
Found at i:24558339 original size:26 final size:26
Alignment explanation
Indices: 24558310--24558359 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
24558300 AACACAATTT
* *
24558310 TAAAGTAATA-GCACAACAATTTAAGG
1 TAAA-TAATATGCAAAACAAATTAAGG
24558336 TAAATAATATGCAAAACAAATTAA
1 TAAATAATATGCAAAACAAATTAA
24558360 AATGAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.24
Consensus pattern (26 bp):
TAAATAATATGCAAAACAAATTAAGG
Found at i:24559060 original size:18 final size:18
Alignment explanation
Indices: 24559037--24559072 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
24559027 GTTAGAAGAA
24559037 CAAATCAAACTTATTTGG
1 CAAATCAAACTTATTTGG
24559055 CAAATCAAACTTATTTGG
1 CAAATCAAACTTATTTGG
24559073 AACCTCGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
CAAATCAAACTTATTTGG
Found at i:24559474 original size:15 final size:15
Alignment explanation
Indices: 24559454--24559492 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
24559444 TATTCTTTAC
* *
24559454 AAAAAAAGTGAAAAG
1 AAAAAAAATAAAAAG
24559469 AAAAAAAATAAAAAG
1 AAAAAAAATAAAAAG
24559484 AAATAAAAA
1 AAA-AAAAA
24559493 AAGGAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:24560290 original size:44 final size:45
Alignment explanation
Indices: 24560184--24560293 Score: 116
Period size: 45 Copynumber: 2.5 Consensus size: 45
24560174 TGTAGCTTCG
*
24560184 ATCTACTCCACTGGAACTTCAAGGAGATAAGAAAGGGTAACTTTA
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGAAAGGGTAACTTTA
* * * *** **
24560229 ATCTACTCCATTACAACTTCATGGAGATAAG-GTTGGT-GGTTTCA
1 ATCTACTCCACTGCAACTTCAAGGAGATAAGAAAGGGTAACTTT-A
24560273 ATCTACTCCACTGCAACTTCA
1 ATCTACTCCACTGCAACTTCA
24560294 GGAATATAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 3 0.06
44 23 0.43
45 27 0.51
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (45 bp):
ATCTACTCCACTGCAACTTCAAGGAGATAAGAAAGGGTAACTTTA
Found at i:24560629 original size:45 final size:44
Alignment explanation
Indices: 24560576--24560730 Score: 136
Period size: 44 Copynumber: 3.4 Consensus size: 44
24560566 TTCAATCTGT
* * *
24560576 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTTCAC
1 TCCACTGCAACTTCA-GGAAATAAGATTCGCTAACTTCAATCCAC
* *
24560621 TCCACTGCAACTTCAGGAAGATAACACTT-G-TAACTTCAATCCGC
1 TCCACTGCAACTTCAGGAA-ATAAGA-TTCGCTAACTTCAATCCAC
*
24560665 TCCACTGCAACTTCAAGGAGATAAGATTCGCCATAACGACTTCAATCCA-
1 TCCACTGCAACTTC-AGGAAATAAGATTCG-C-T-A--ACTTCAATCCAC
*
24560714 TCCCACTACAACTTCAG
1 T-CCACTGCAACTTCAG
24560731 CGGTATAGGA
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
43 2 0.02
44 34 0.38
45 25 0.28
46 2 0.02
47 1 0.01
48 1 0.01
49 3 0.03
50 22 0.24
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.25
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGAAATAAGATTCGCTAACTTCAATCCAC
Found at i:24571103 original size:26 final size:26
Alignment explanation
Indices: 24571072--24571130 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
24571062 CAATTTAAGG
*
24571072 TAAATAATATGCAAAACAAATTAAAA
1 TAAATAATATACAAAACAAATTAAAA
* * * *
24571098 TGAATAATATACACAGCAATTTAAAA
1 TAAATAATATACAAAACAAATTAAAA
24571124 TAAATAA
1 TAAATAA
24571131 CCTCCATGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.61, C:0.08, G:0.05, T:0.25
Consensus pattern (26 bp):
TAAATAATATACAAAACAAATTAAAA
Found at i:24572626 original size:17 final size:17
Alignment explanation
Indices: 24572604--24572644 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
24572594 CTGTTAGGTT
24572604 TTGGGCTAGGGTTTGTA
1 TTGGGCTAGGGTTTGTA
*
24572621 TTGGGCTTGGGTTTGTA
1 TTGGGCTAGGGTTTGTA
*
24572638 TTAGGCT
1 TTGGGCT
24572645 TATTTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.10, C:0.07, G:0.39, T:0.44
Consensus pattern (17 bp):
TTGGGCTAGGGTTTGTA
Found at i:24572670 original size:18 final size:19
Alignment explanation
Indices: 24572647--24572690 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
24572637 ATTAGGCTTA
*
24572647 TTTATTTGTAATTGGA-TT
1 TTTATTTGTAAATGGACTT
24572665 TTTA-TTGTAAATGGACTT
1 TTTATTTGTAAATGGACTT
24572683 TGTTATTT
1 T-TTATTT
24572691 TTGGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 3 0.14
20 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (19 bp):
TTTATTTGTAAATGGACTT
Found at i:24573175 original size:27 final size:27
Alignment explanation
Indices: 24573145--24573238 Score: 154
Period size: 27 Copynumber: 3.5 Consensus size: 27
24573135 ACCCCCAAAC
24573145 TGTTATAAAATGACTATTATGCCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
24573172 TGTTATAAAATGA-TGATTATGCCCCTA
1 TGTTATAAAATGACT-ATTATGCCCCTA
* *
24573199 TGTTATAAAATTACTATTATACCCCTA
1 TGTTATAAAATGACTATTATGCCCCTA
24573226 TGTTATAAAATGA
1 TGTTATAAAATGA
24573239 TTGTATGCCT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
26 1 0.02
27 60 0.97
28 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (27 bp):
TGTTATAAAATGACTATTATGCCCCTA
Found at i:24575142 original size:33 final size:33
Alignment explanation
Indices: 24575094--24575157 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
24575084 ATCAAATTGG
*
24575094 TATATCTTTCCATGAGA-GACTCTTTCATAGGGA
1 TATATCTTTCAATGAGATGAC-CTTTCATAGGGA
* *
24575127 TATATCTTTTAATGAGATGTCCTTTCATAGG
1 TATATCTTTCAATGAGATGACCTTTCATAGG
24575158 ATTATTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.41
Consensus pattern (33 bp):
TATATCTTTCAATGAGATGACCTTTCATAGGGA
Found at i:24575607 original size:27 final size:27
Alignment explanation
Indices: 24575571--24575622 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
24575561 AGTCTACAAG
* *
24575571 GGAAATGTATTAATTATGTTTTATTTT
1 GGAAAGGTATTAATTATATTTTATTTT
24575598 GGAAAGGTATTAATTATATTTTATT
1 GGAAAGGTATTAATTATATTTTATT
24575623 AAATAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (27 bp):
GGAAAGGTATTAATTATATTTTATTTT
Found at i:24577412 original size:163 final size:162
Alignment explanation
Indices: 24577140--24577442 Score: 498
Period size: 163 Copynumber: 1.9 Consensus size: 162
24577130 GAACATGGTC
* * *
24577140 CTCGTCGTAATGTTAAATACTGTCCTCATCCTTCATGTTGCTGATGGCCAGAAGCTAAGAAATTA
1 CTCGTCGTAATGGTAAATACTGTCCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTA
* * *
24577205 CGTTACCAGGGCAACCGAAATGAATGGTTATTAGACATGATTACTTGTGATTTTGTATTCTTATG
66 CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGA-TTTGTATTCTTATG
24577270 GTTTTCATATTCGCAATCATGCAGGTGGTGATT
130 GTTTTCATATTCGCAATCATGCAGGTGGTGATT
* * *
24577303 CTCGTCGTCATGGTAAATACTGTTCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTG
1 CTCGTCGTAATGGTAAATACTGTCCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTA
* *
24577368 CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGATTTGTATTCTTTTGT
66 CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGATTTGTATTCTTATGG
24577433 TTTTCATATT
131 TTTTCATATT
24577443 TCTAATCCTA
Statistics
Matches: 129, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
162 23 0.18
163 106 0.82
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (162 bp):
CTCGTCGTAATGGTAAATACTGTCCTCATCCTTAATGTTGCTGATAGCCAGAAGCTAAGAAATTA
CGTTACCAGGGAAACCCAAATGAATGGTTATTAGACACGATTACTTGTGATTTGTATTCTTATGG
TTTTCATATTCGCAATCATGCAGGTGGTGATT
Found at i:24581677 original size:44 final size:44
Alignment explanation
Indices: 24581629--24581778 Score: 144
Period size: 44 Copynumber: 3.4 Consensus size: 44
24581619 GTGGTTTTAG
24581629 TCTGCTCCACTGCAA-TGTTAGGGAAATAAGACTTGTAGCTTCAA
1 TCTGCTCCACTGCAACT-TTAGGGAAATAAGACTTGTAGCTTCAA
* * *
24581673 TCTGCTCCACTGCAACTTTAGGGAGATGAGACTTGTATCTTCAA
1 TCTGCTCCACTGCAACTTTAGGGAAATAAGACTTGTAGCTTCAA
* * * * ** * *
24581717 CCTGCCCCACTACAACTTCAGGGGGATAAGGTCTAT-TA-CTTTAA
1 TCTGCTCCACTGCAACTTTAGGGAAATAA-GACT-TGTAGCTTCAA
*
24581761 TCTGCTCTACTGCAACTT
1 TCTGCTCCACTGCAACTT
24581779 CAGAGAGATA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
44 81 0.92
45 6 0.07
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTTAGGGAAATAAGACTTGTAGCTTCAA
Found at i:24581858 original size:85 final size:84
Alignment explanation
Indices: 24581769--24582138 Score: 291
Period size: 85 Copynumber: 4.3 Consensus size: 84
24581759 AATCTGCTCT
* ** *
24581769 ACTGCAACTTCAGAGAGATAAGGTTTGATATGATCCGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
*
24581834 CGGTAATTTTAATCCGCTTC
66 CTGTAATTTTAATCC-CTTC
* * * * *
24581854 ACTGCAACTTCAGAAAGATAGGATTGATTT-CTTCAATCTGCTCCACTGCAACTTCA-AGGAGAT
1 ACTGCAACTTCAGAGAGATA--A--GATTTGATGCGATCTGCTCTACTGCAACTTCAGA-GAGAT
* * * * *
24581917 AGGA-CTAGTAACTTCT-GTCTACTCC
61 AAGATCT-GTAA-TTTTAATC-CCTTC
** * * * *
24581942 GTTGCAACTTCAG-GAAGATAAGACTAGATGCGATCTACTCTACTGCAACTTTAGAGAGATAAGA
1 ACTGCAACTTCAGAG-AGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
** *
24582006 TCTGTGGTTTTAATCCATTCC
65 TCTGTAATTTTAATCCCTT-C
* * * *
24582027 GCTGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
** *
24582092 CTGTGGTTTTAATCCATTCC
66 CTGTAATTTTAATCCCTT-C
* * *
24582112 ACTACCACTTCAGGGAGATAAGATTTG
1 ACTGCAACTTCAGAGAGATAAGATTTG
24582139 TAGTCCATCT
Statistics
Matches: 226, Mismatches: 44, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
84 7 0.03
85 151 0.67
86 5 0.02
87 3 0.01
88 53 0.23
89 7 0.03
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (84 bp):
ACTGCAACTTCAGAGAGATAAGATTTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
CTGTAATTTTAATCCCTTC
Found at i:24581918 original size:44 final size:44
Alignment explanation
Indices: 24581667--24581920 Score: 161
Period size: 44 Copynumber: 5.8 Consensus size: 44
24581657 AGACTTGTAG
* * *
24581667 CTTCAATCTGCTCCACTGCAACTTTAGGGAGAT-GAGACTTG-TAT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAG-GA-TTGATTT
* * * * * *
24581711 CTTCAACCTGCCCCACTACAACTTCAGGGGGATAAGG-TCT-ATTA
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AGGAT-TGATTT
* * *
24581755 CTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGGTTTGA--T
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGAT-AGGATTGATTT
* * * * * * *
24581798 -AT-GATCCGCTCTACTGCAACTTCAGAGAGATAAGATCGGTAATT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGAT-TG-ATTT
* * *
24581842 -TT-AATCCGCTTCACTGCAACTTCAGAAAGATAGGATTGATTT
1 CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGATTT
24581884 CTTCAATCTGCTCCACTGCAACTTCA-AGGAGATAGGA
1 CTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAGGA
24581921 CTAGTAACTT
Statistics
Matches: 165, Mismatches: 32, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
40 3 0.02
41 28 0.17
42 5 0.03
43 5 0.03
44 120 0.73
45 3 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAGGATTGATTT
Found at i:24581991 original size:41 final size:41
Alignment explanation
Indices: 24581944--24582090 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 41
24581934 TCTACTCCGT
*
24581944 TGCAACTTCAG-GAAGATAAGACTAGATGCGATCTACTCTAC
1 TGCAACTTCAGAG-AGATAAGACTGGATGCGATCTACTCTAC
* * *** * * **
24581985 TGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCCGC
1 TGCAACTTCAGAGAGATAAGA-C--TGGATGCGATCTACTCTAC
* * * *
24582029 TGCAACTTTAGGGAGATAAGATTGGATGCGATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGACTGGATGCGATCTACTCTAC
24582070 TGCAACTTCAGAGAGATAAGA
1 TGCAACTTCAGAGAGATAAGA
24582091 TCTGTGGTTT
Statistics
Matches: 79, Mismatches: 23, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
41 47 0.59
42 2 0.03
44 30 0.38
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (41 bp):
TGCAACTTCAGAGAGATAAGACTGGATGCGATCTACTCTAC
Found at i:24582035 original size:44 final size:44
Alignment explanation
Indices: 24581983--24582135 Score: 150
Period size: 44 Copynumber: 3.5 Consensus size: 44
24581973 GATCTACTCT
*
24581983 ACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
* * * * *** *** *
24582027 GCTGCAACTTTAGGGAGATAAGA--T-TGGATGCGATCTGCTCT
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
24582068 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
* * *
24582112 ACTACCACTTCAGGGAGATAAGAT
1 ACTGCAACTTCAGAGAGATAAGAT
24582136 TTGTAGTCCA
Statistics
Matches: 82, Mismatches: 24, Indels: 6
0.73 0.21 0.05
Matches are distributed among these distances:
41 29 0.35
42 1 0.01
43 1 0.01
44 51 0.62
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCATTCC
Found at i:24582644 original size:45 final size:45
Alignment explanation
Indices: 24582145--24582644 Score: 692
Period size: 45 Copynumber: 11.0 Consensus size: 45
24582135 TTTGTAGTCC
* *
24582145 ATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTATAGTCC
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC--T-G-CT
* **
24582194 ATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTATT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
24582239 ATCTTC-AGTCTACTTCGCTGCCAATATAGGAAGACAAGA-CTTGCT
1 ATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
* *
24582284 ATCTTCGATCTACTTTGCTGCCAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
24582329 ATCTTC-AGTCTACTTAGCTGCCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
* * *
24582374 ATCTTCAATCTACTTTGCTGCCAATACAGGAATACAAGA-CTTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
*
24582419 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
24582464 ATCTTC-AGTCTACTTCACTGCCAATACAGGAAGACAAGA-CTTGCT
1 ATCTTCGA-TCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
*
24582509 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTACT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
24582554 ATCTTCTG-TCTACTTTGCTGCCAATACAGGAAGACAAGA-CTTGCT
1 ATCTTC-GATCTACTTCGCTGCCAATACAGGAAGACAAGATC-TGCT
24582599 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
24582644 A
1 A
24582645 CTTTCAGTCT
Statistics
Matches: 410, Mismatches: 25, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
44 8 0.02
45 352 0.86
46 8 0.02
47 1 0.00
49 41 0.10
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
Found at i:24582871 original size:44 final size:45
Alignment explanation
Indices: 24582779--24582880 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 45
24582769 CTTCACTGTT
* *
24582779 AGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTATC
1 AGTACAGGAAGGCAAGAGCTGCTATCTTCAGTCTGCTCCGCTACC
* * *
24582824 AGTACAGGAAGGCAAG-GCTGGTATCTTC-GATCTGCTTCGCTGCC
1 AGTACAGGAAGGCAAGAGCTGCTATCTTCAG-TCTGCTCCGCTACC
24582868 AGTACAGGAAGGC
1 AGTACAGGAAGGC
24582881 GTGATCTGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.67
45 16 0.31
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTACAGGAAGGCAAGAGCTGCTATCTTCAGTCTGCTCCGCTACC
Found at i:24584145 original size:12 final size:12
Alignment explanation
Indices: 24584128--24584184 Score: 62
Period size: 12 Copynumber: 4.5 Consensus size: 12
24584118 TTGGCCTCTC
24584128 CTTTTTCTTTTT
1 CTTTTTCTTTTT
*
24584140 CTTTTTATTTTT
1 CTTTTTCTTTTT
24584152 CTTCTTTCTTTTTT
1 CTT-TTTC-TTTTT
24584166 CTTTTT-TTTCTCT
1 CTTTTTCTTT-T-T
24584179 CTTTTT
1 CTTTTT
24584185 TATATTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 3 0.08
12 15 0.38
13 13 0.33
14 8 0.21
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:24584159 original size:25 final size:25
Alignment explanation
Indices: 24584131--24584196 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
24584121 GCCTCTCCTT
24584131 TTTCTTTTTCTTTTTATTTTTCT-TC
1 TTTCTTTTT-TTTTTATTTTTCTCTC
*
24584156 TTTCTTTTTTCTTT-TTTTTCTCTC
1 TTTCTTTTTTTTTTATTTTTCTCTC
*
24584180 TTT-TTTATATTTTTATT
1 TTTCTTT-TTTTTTTATT
24584197 GAATTTGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 10 0.29
24 14 0.40
25 11 0.31
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTCTTTTTTTTTTATTTTTCTCTC
Found at i:24584170 original size:20 final size:20
Alignment explanation
Indices: 24584128--24584185 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
24584118 TTGGCCTCTC
24584128 CTTTTTCTT-TTTC-TTTTT
1 CTTTTTCTTCTTTCTTTTTT
*
24584146 ATTTTTCTTCTTTCTTTTTT
1 CTTTTTCTTCTTTCTTTTTT
* *
24584166 CTTTTTTTTCTCTCTTTTTT
1 CTTTTTCTTCTTTCTTTTTT
24584186 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.24
19 4 0.12
20 22 0.65
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (20 bp):
CTTTTTCTTCTTTCTTTTTT
Found at i:24584192 original size:20 final size:19
Alignment explanation
Indices: 24584141--24584193 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
24584131 TTTCTTTTTC
*
24584141 TTTTTATTTTTCTTCTTTCT
1 TTTTTATTTTT-TTCTCTCT
*
24584161 TTTTTCTTTTTTTTCTCTCT
1 TTTTT-ATTTTTTTCTCTCT
24584181 TTTTTATATTTTT
1 TTTTTAT-TTTTT
24584194 ATTGAATTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.79
21 5 0.18
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTATTTTTTTCTCTCT
Found at i:24584192 original size:27 final size:27
Alignment explanation
Indices: 24584123--24584185 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
24584113 TCGCCTTGGC
*
24584123 CTCTCCTTTTTCTTTTTCTTTTTATTT
1 CTCTCTTTTTTCTTTTTCTTTTTATTT
*
24584150 -T-TCTTCTTTCTTTTTTCTTTTT-TTT
1 CTCTCTTTTTTC-TTTTTCTTTTTATTT
24584175 CTCTCTTTTTT
1 CTCTCTTTTTT
24584186 ATATTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 10 0.33
26 13 0.43
27 7 0.23
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.78
Consensus pattern (27 bp):
CTCTCTTTTTTCTTTTTCTTTTTATTT
Found at i:24584389 original size:12 final size:12
Alignment explanation
Indices: 24584372--24584396 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24584362 TATGGTGAAC
24584372 TCTTCTTCTTTT
1 TCTTCTTCTTTT
24584384 TCTTCTTCTTTT
1 TCTTCTTCTTTT
24584396 T
1 T
24584397 GTGAGCTCGG
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTCTTCTTTT
Found at i:24597313 original size:3 final size:3
Alignment explanation
Indices: 24597305--24597352 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
24597295 TTTACTTCAC
24597305 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24597353 CATGGTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:24597465 original size:22 final size:23
Alignment explanation
Indices: 24597422--24597466 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
24597412 ACCCACCTAT
24597422 TTTTATTAATGTACATTATTTTA
1 TTTTATTAATGTACATTATTTTA
24597445 TTTTATT-ATGTACTATT-TTTTA
1 TTTTATTAATGTAC-ATTATTTTA
24597467 ATTCTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.64
Consensus pattern (23 bp):
TTTTATTAATGTACATTATTTTA
Found at i:24603873 original size:44 final size:44
Alignment explanation
Indices: 24603789--24604433 Score: 533
Period size: 44 Copynumber: 14.7 Consensus size: 44
24603779 GGTGAAACTA
* ** *
24603789 TAAGTTCTATCTCCCT-AGACAACAGTGAAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGA-ACAGTAGTGGAATAGGTTGAAGATTG
* * * * *
24603833 CATGTCCTATCTCCCTGAACAATAGTGGAATAAGTGGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* *
24603877 TAAGTCTTATCTCCTTGAACAGTAGTGGAATAGG-TGAAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTG-AAGATTG
* * *
24603921 TAAGTCTTATCTCCCT-AGACAGTAGTGGAATATGTTGAAGATTT
1 TAAGTCCTATCTCCCTGA-ACAGTAGTGGAATAGGTTGAAGATTG
*
24603965 TAAG-CTCTATCTCCCTGGACAGTAGTGGAATAGGTTGAAGATTG
1 TAAGTC-CTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * * * ** * ** **
24604009 T-AGATCTTGTCTCCCT-AAGCACTAGTAGAGCAGATCAAAGACGG
1 TAAG-TCCTATCTCCCTGAA-CAGTAGTGGAATAGGTTGAAGATTG
* * * * * **
24604053 TGAA-TCTTATCTTCCC--AA-GGTAGTAGGGAAGCAGATTTAAG-CCG
1 T-AAGTCCTATC-TCCCTGAACAGTAGT--GGAA-TAGGTTGAAGATTG
** * * *
24604097 CCAGTCCTATCTCCTTGAATAGCAGTGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * **
24604141 TAAGTCCTATCTACCTGGACAGTAGCAGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * *
24604185 TAAGTCCTATCTCCCTGGACAGCAGCGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * * *
24604229 TAAGTCCTATCTCCCTGGACAGCAGCGGAATAGGTCGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * * *
24604273 TAAATCCTATCTCCCTGGACAGCAGCGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * *
24604317 TAAGTCCTATCTCCCTGGACAGCAGTGGAATAGGTTCAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* * *
24604361 TAAGTCATATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTG
1 TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
* *
24604405 T-AGATCCTGTCTCCCT-AAGCAGCAGTGGA
1 TAAG-TCCTATCTCCCTGAA-CAGTAGTGGA
24604434 GCAGATCAAA
Statistics
Matches: 504, Mismatches: 75, Indels: 44
0.81 0.12 0.07
Matches are distributed among these distances:
42 4 0.01
43 20 0.04
44 457 0.91
45 18 0.04
46 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (44 bp):
TAAGTCCTATCTCCCTGAACAGTAGTGGAATAGGTTGAAGATTG
Found at i:24604460 original size:132 final size:133
Alignment explanation
Indices: 24603796--24604611 Score: 480
Period size: 132 Copynumber: 6.2 Consensus size: 133
24603786 CTATAAGTTC
* * * * * * **
24603796 TATC-TCCCTAGACAACAGTGAAATAGGTTGAAGATTGCATGTCCTATCTCCCTGAACAATAGTG
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
* * * * * ** * * *
24603860 GAATAAGTGGAAGATTGTA-AGTCTTATCTCCTTGAA-CAGTAGTGGAATAGGTGAAAGATTGTA
66 GAATAGGTTGAAGATTGTAGA-TCCTATCTCCCT-AAGCAGCAGTGGAGCAGATCAAAGA-CG-A
*
24603923 --AGTCT
127 CGAATCT
* * * * *
24603928 TATC-TCCCTAGACAGTAGTGGAATATGTTGAAGATTTTAAG-CTCTATCTCCCTGGACAGTAGT
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTC-CTATCTCCCTGGACAGCAGT
* * * **
24603991 GGAATAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCA-CTAGTAGAGCAGATCAAAGACGGTG
65 GGAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGC-AGTGGAGCAGATCAAAGACGACG
24604055 AATCT
129 AATCT
* * * * * * ** ** * * *
24604060 TATCTTCCCAAGG-TAGTAG-GGAAGCAGATTTAAG-CCGCCAGTCCTATCTCCTTGAATAGCAG
1 TATCTTCCC-TGGACAGCAGTGGAA-TAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAG
* * ** *
24604122 TGGAATAGGTTGAAGATTGTA-AGTCCTATCTACCT--GGA-CAGT--AGCAGAAT-AGGTTGAA
64 TGGAATAGGTTGAAGATTGTAGA-TCCTATCTCCCTAAGCAGCAGTGGAGCAG-ATCA--AAGAC
* *
24604180 GATTGTAAGTCC
125 GA-CG-AA-TCT
* *
24604192 TATC-TCCCTGGACAGCAGCGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGCG
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
* * * * ** * ** *
24604256 GAATAGGTCGAAGATTGTAAATCCTATCTCCCT-GGACAGCAGCGGAATAGGTTGAAGATTGTA-
66 GAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAG-CAGCAGTGGAGCAGATCAAAGA-CG-AC
* *
24604319 -AGTCC
128 GAATCT
* *
24604324 TATC-TCCCTGGACAGCAGTGGAATAGGTTCAAGATTGTAAGTCATATCTCCCTGGACAGCAGTG
1 TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
*
24604388 GAATAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGAA
66 GAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGAA
24604453 TCT
131 TCT
** * * * * * ** ** * * *
24604456 TATCTTCCCAAGATAGTAG-GGAAGCAGATTTAAGCCT-CCAGTCCTATCTCCTTGGGCAACAGT
1 TATCTTCCCTGGACAGCAGTGGAA-TAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGT
* * * * * *
24604519 GGAACAGGTTGAAGATTGTAGATCCTATCTCTCTAAGCAGTAGTGGAGCAGATCGAAGACAACAA
65 GGAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGA
24604584 ATCT
130 ATCT
24604588 TA-CTTCCCTGG-CAGTGCAGTGGAA
1 TATCTTCCCTGGACA--GCAGTGGAA
24604612 CAGATTAAAG
Statistics
Matches: 531, Mismatches: 116, Indels: 73
0.74 0.16 0.10
Matches are distributed among these distances:
127 6 0.01
128 2 0.00
129 6 0.01
130 9 0.02
131 30 0.06
132 422 0.79
133 43 0.08
134 2 0.00
135 5 0.01
136 2 0.00
137 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (133 bp):
TATCTTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGACAGCAGTG
GAATAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGCAGTGGAGCAGATCAAAGACGACGAA
TCT
Found at i:24604733 original size:50 final size:50
Alignment explanation
Indices: 24604577--24604745 Score: 169
Period size: 50 Copynumber: 3.4 Consensus size: 50
24604567 CAGATCGAAG
* * * * **
24604577 ACAACAAATCTTACTTCCCTGGCAGTGCAGTGGAACAGATTAAAGCTACA
1 ACAACGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACA
** * * * * *
24604627 ACAGTGAATCTTACTTCCCCAACATTACA-TTCAAATAGACTGAAGCTACA
1 ACAACGAATCTTACTTCCCCGACATTGCAGTT-AAACAGATTAAAGCTACA
* * *
24604677 ATAACGAATCTTACTTCCCCGATATTGCAGTTAAACAGATTAAAGCAACA
1 ACAACGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACA
*
24604727 ACAACGAATCTTATTTCCC
1 ACAACGAATCTTACTTCCC
24604746 TGACGTTGTA
Statistics
Matches: 92, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
49 1 0.01
50 89 0.97
51 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (50 bp):
ACAACGAATCTTACTTCCCCGACATTGCAGTTAAACAGATTAAAGCTACA
Found at i:24606272 original size:12 final size:13
Alignment explanation
Indices: 24606227--24606275 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
24606217 TATTTGTTTT
24606227 TTATTAATTATT-
1 TTATTAATTATTA
24606239 TTATTAATTAATTCA
1 TTATTAATT-ATT-A
*
24606254 CTATT-ATTATTA
1 TTATTAATTATTA
24606266 TTATT-ATTAT
1 TTATTAATTAT
24606276 CATCATGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 19 0.59
13 6 0.19
14 3 0.09
15 4 0.12
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:24606472 original size:39 final size:39
Alignment explanation
Indices: 24606364--24606481 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 39
24606354 GGCATTTGGA
*
24606364 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
*** * * *
24606403 TAAAAAAATAACACTAAAGATCGAGTATTAGCGGCGCTTCT
1 T-AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTT-T
24606444 TAAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-TTT
1 TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
24606481 T
1 T
24606482 CCAAATAGCG
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 14 0.22
40 44 0.69
41 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (39 bp):
TAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
Found at i:24606601 original size:41 final size:41
Alignment explanation
Indices: 24606541--24606782 Score: 349
Period size: 41 Copynumber: 5.9 Consensus size: 41
24606531 TTTTTAGGCA
*
24606541 TTAGCGGCGTTTTTGAAGAAACGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* * * *
24606582 TTAGCGGCGTTTTTAAAGAAGCGCGGTTAATCCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* * * * * *
24606623 TTAGTGGCATTTTTAAAGAAGCGTCGCTAATGCTCAAGGAT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
24606664 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
*
24606705 TTAGAGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
* **
24606746 TTAGCGACGTACTTGAAGAAGCGCCGCTAATGCTCAG
1 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAG
24606783 ATTGATCATA
Statistics
Matches: 177, Mismatches: 24, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 177 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (41 bp):
TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGCT
Found at i:24609558 original size:23 final size:23
Alignment explanation
Indices: 24609532--24609583 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
24609522 TAAAATTGAA
*
24609532 CATACTCATCTCAGACATGCCTT
1 CATACTCATATCAGACATGCCTT
* * *
24609555 CATACCCATATCTGACATGTCTT
1 CATACTCATATCAGACATGCCTT
*
24609578 TATACT
1 CATACT
24609584 GACACCTAAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.35
Consensus pattern (23 bp):
CATACTCATATCAGACATGCCTT
Found at i:24610434 original size:43 final size:43
Alignment explanation
Indices: 24610373--24610597 Score: 324
Period size: 43 Copynumber: 5.2 Consensus size: 43
24610363 CGCTAAAGGT
* *
24610373 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCGAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
24610416 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAAGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* *
24610459 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
24610502 TTTAGCGGCGTTTTGTGGAAAAAGTGCCGCTAAAGGTTGTGGTC
1 TTTAGCGGCG-TTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
* * *
24610546 TTTAGCGGCCTTTCTGGTAAAAGCGCCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
24610589 TTTAGCGGC
1 TTTAGCGGC
24610598 ATTTTTTGAA
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
43 128 0.77
44 39 0.23
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTC
Found at i:24610568 original size:87 final size:87
Alignment explanation
Indices: 24610373--24610611 Score: 327
Period size: 87 Copynumber: 2.8 Consensus size: 87
24610363 CGCTAAAGGT
* * *
24610373 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCGAAAGGTCGTGGTCTTTAGCGGCG-TTTGTGGGAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTTGTGGAAAA
24610437 AGCGCCGCGAAAAGTCATGGTC
66 AGCGCCGCGAAAAGTCATGGTC
* *
24610459 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTGTGGAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTTGTGGAAAA
* * * **
24610524 AGTGCCGCTAAAGGTTGTGGTC
66 AGCGCCGCGAAAAGTCATGGTC
* * * * * *
24610546 TTTAGCGGCCTTTCTGGTAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCATTTTTTGAAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTTGTGGAAAA
24610611 A
66 A
24610612 AAAGCCGCTA
Statistics
Matches: 134, Mismatches: 18, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
86 49 0.37
87 85 0.63
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (87 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTTGTGGAAAA
AGCGCCGCGAAAAGTCATGGTC
Found at i:24610568 original size:130 final size:122
Alignment explanation
Indices: 24610335--24610597 Score: 328
Period size: 130 Copynumber: 2.1 Consensus size: 122
24610325 ACAGGTTTGT
* * *
24610335 TCTTTAGAGGCGCTTGTGGGAAAAGCGCCGCTAAAGGTTTTAGCGGCGTTTGTGGGAAAAGCGTC
1 TCTTTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGGTTTTAGCGGCGTTTGTGGAAAAAGCGCC
* *
24610400 GCGAAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCGAAAAGTCATGG
66 GCGAAAGGTCGTGGTCTTTAGCGGCCTTTCTGGGAAAAGCGCCGCGAAAAGTCATGG
* *
24610457 TCTTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTTGTGGAA
1 TCTTTAGCGGCGCTTGTGGGAAAAGCGCCGCT-AA----A-GGT-TTTAGCGGCG-TTTGTGGAA
* * * * * * *
24610522 AAAGTGCCGCTAAAGGTTGTGGTCTTTAGCGGCCTTTCTGGTAAAAGCGCCGCTAAAGGTCGTGG
58 AAAGCGCCGCGAAAGGTCGTGGTCTTTAGCGGCCTTTCTGGGAAAAGCGCCGCGAAAAGTCATGG
24610587 TCTTTAGCGGC
1 TCTTTAGCGGC
24610598 ATTTTTTGAA
Statistics
Matches: 119, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
122 29 0.24
123 2 0.02
127 1 0.01
128 3 0.03
129 10 0.08
130 74 0.62
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.27
Consensus pattern (122 bp):
TCTTTAGCGGCGCTTGTGGGAAAAGCGCCGCTAAAGGTTTTAGCGGCGTTTGTGGAAAAAGCGCC
GCGAAAGGTCGTGGTCTTTAGCGGCCTTTCTGGGAAAAGCGCCGCGAAAAGTCATGG
Found at i:24610778 original size:23 final size:23
Alignment explanation
Indices: 24610738--24610783 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
24610728 ACCCACCTAT
24610738 TTTTATTTATGTACATTATTTTA
1 TTTTATTTATGTACATTATTTTA
24610761 TTTTA-TTATGTACTATTATTTTA
1 TTTTATTTATGTAC-ATTATTTTA
24610784 ATTCTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTATTTATGTACATTATTTTA
Done.