Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 159 of 292
Found at i:47326903 original size:22 final size:21
Alignment explanation
Indices: 47326863--47326913 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
47326853 TTTTTATGGA
*
47326863 TTTTTATAGAATTTTAATATG
1 TTTTTATAAAATTTTAATATG
47326884 TTTTTATAAAATTTTAAATATG
1 TTTTTATAAAATTTT-AATATG
47326906 -TTTTATAA
1 TTTTTATAA
47326914 TTTATTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTTTATAAAATTTTAATATG
Found at i:47327022 original size:17 final size:18
Alignment explanation
Indices: 47327001--47327040 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
47326991 AATTTAAATA
*
47327001 ATTTTT-TATATTTTAT-
1 ATTTTTATAAATTTTATG
47327017 ATTTTTATAAATTTTATG
1 ATTTTTATAAATTTTATG
47327035 ATTTTT
1 ATTTTT
47327041 GTTCATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 9 0.43
18 6 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
ATTTTTATAAATTTTATG
Found at i:47327057 original size:26 final size:26
Alignment explanation
Indices: 47326998--47327066 Score: 72
Period size: 25 Copynumber: 2.7 Consensus size: 26
47326988 AATAATTTAA
*
47326998 ATAATTTTTTAT-ATTTTATATTTTT
1 ATAATTTTTTATGATTTTATATTATT
* *
47327023 ATAA-ATTTTATGATTTT-TGTTCATT
1 ATAATTTTTTATGATTTTATATT-ATT
*
47327048 ATAATTTTTTCTGATTTTA
1 ATAATTTTTTATGATTTTA
47327067 GTTTTTTATG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 9 0.26
25 15 0.43
26 11 0.31
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (26 bp):
ATAATTTTTTATGATTTTATATTATT
Found at i:47327075 original size:26 final size:26
Alignment explanation
Indices: 47326998--47327084 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 26
47326988 AATAATTTAA
47326998 ATAATTTTTTAT-ATTTTA-TATTTTT
1 ATAATTTTTTATGATTTTAGT-TTTTT
* * **
47327023 ATAA-ATTTTATGATTTTTGTTCATT
1 ATAATTTTTTATGATTTTAGTTTTTT
*
47327048 ATAATTTTTTCTGATTTTAGTTTTTT
1 ATAATTTTTTATGATTTTAGTTTTTT
* *
47327074 ATGATCTTTTA
1 ATAATTTTTTA
47327085 ATCATTTTTA
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
24 6 0.13
25 16 0.34
26 25 0.53
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (26 bp):
ATAATTTTTTATGATTTTAGTTTTTT
Found at i:47335055 original size:42 final size:43
Alignment explanation
Indices: 47334978--47335103 Score: 116
Period size: 44 Copynumber: 2.9 Consensus size: 43
47334968 TCTTACATGT
* * * *
47334978 AATCAAACATCGATGCC-ACTGTCCTAGATAGGGTCTTACA-CAA
1 AATCAAATA-CGATGCCAAC-GTCCCAGACATGGTCTTACAGCAA
47335021 AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACATGCAA
1 AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACA-GCAA
* * *
47335065 AA-CAGAAGT-CGATGCCAATGTCCCAGACGTGATCTTACA
1 AATCA-AA-TACGATGCCAACGTCCCAGACATGGTCTTACA
47335104 TGATAACACA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 24 0.34
43 12 0.17
44 34 0.48
45 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.21
Consensus pattern (43 bp):
AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACAGCAA
Found at i:47347303 original size:259 final size:258
Alignment explanation
Indices: 47346844--47347361 Score: 849
Period size: 259 Copynumber: 2.0 Consensus size: 258
47346834 TTCCATATTG
* *
47346844 TTAATTAAACCTTGAATTAGGGATCTAATTGCTAACACTTCTAAATTGATTTAATTTTACCTCTC
1 TTAATTAAACCTTGAATTAGGGATCTAATTACTAACACTCCTAAATTGATTTAATTTTACCTCTC
* * * * *
47346909 GGTCTCAAATTTACCAAATTAGACAAATTGGCCCAATTTACCTCTCGATCTCACTGGCTAATCTG
66 GGTCTCAAATTTACCAAATTAAACAAATTAGCCCAATTTACCTCTCGATCTCACAGCCTAACCTG
* * * * *
47346974 GGACAAATGAGTTGGTGCCCAATAAGATTACCTCTTGATCTCACTTCTCTTGATTTTCCCTTAGG
131 GGACAAATGAATTGGTGCCCAATAAGATTACATCTCGATCTCACTTATCTTGATTTTCCCTTAAG
*
47347039 GTTGTCAATCTTAAGTTTTTAAGTCTATTTGATTTAATCCTTCTACCAAAGACTAACTAAACA
196 GTTGTCAATCTTAAGTTTTTAAGTCTATTAGATTTAATCCTTCTACCAAAGACTAACTAAACA
47347102 TTAATTAAACCTTGAATTAGGGATCTAAATTACTAACACTCCTAAATTGATTTAATTTTACCTCT
1 TTAATTAAACCTTGAATTAGGGATCT-AATTACTAACACTCCTAAATTGATTTAATTTTACCTCT
* * * *
47347167 TGGTCAT-AACTTTACCAAATTAAACAAATTAGTCCAATTTATCTCTCGATCTCACAGCCTAACC
65 CGGTC-TCAAATTTACCAAATTAAACAAATTAGCCCAATTTACCTCTCGATCTCACAGCCTAACC
47347231 TGGGACAAATGAATTGGTGCCCAATAAGATTACATCTCGATCTCACTTATCTTGATTTTCCCTTA
129 TGGGACAAATGAATTGGTGCCCAATAAGATTACATCTCGATCTCACTTATCTTGATTTTCCCTTA
*
47347296 AGGTTGTCAATTTTAAGTTTTTAAGTCTATTAGATTTAATCCTTCTACCAAAGACTAACTAAACA
194 AGGTTGTCAATCTTAAGTTTTTAAGTCTATTAGATTTAATCCTTCTACCAAAGACTAACTAAACA
47347361 T
1 T
47347362 CACTTCCATT
Statistics
Matches: 240, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
258 26 0.11
259 213 0.89
260 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (258 bp):
TTAATTAAACCTTGAATTAGGGATCTAATTACTAACACTCCTAAATTGATTTAATTTTACCTCTC
GGTCTCAAATTTACCAAATTAAACAAATTAGCCCAATTTACCTCTCGATCTCACAGCCTAACCTG
GGACAAATGAATTGGTGCCCAATAAGATTACATCTCGATCTCACTTATCTTGATTTTCCCTTAAG
GTTGTCAATCTTAAGTTTTTAAGTCTATTAGATTTAATCCTTCTACCAAAGACTAACTAAACA
Found at i:47350406 original size:20 final size:20
Alignment explanation
Indices: 47350378--47350430 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
47350368 CGAAGCGCAG
*
47350378 GAATTCACAAATTGTTGACT
1 GAATCCACAAATTGTTGACT
* * **
47350398 GAATCCACAGAGTGTTGGTT
1 GAATCCACAAATTGTTGACT
47350418 GAATCCACAAATT
1 GAATCCACAAATT
47350431 AGATTCCCTG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (20 bp):
GAATCCACAAATTGTTGACT
Found at i:47364201 original size:8 final size:8
Alignment explanation
Indices: 47364188--47364214 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47364178 CCGTGTGGCT
47364188 GATTTAGG
1 GATTTAGG
47364196 GATTTAGG
1 GATTTAGG
47364204 GATTTAGG
1 GATTTAGG
47364212 GAT
1 GAT
47364215 CCCATATGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (8 bp):
GATTTAGG
Found at i:47367185 original size:1 final size:1
Alignment explanation
Indices: 47367179--47367206 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
47367169 TAGGTATTGA
47367179 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
47367207 GTAAAATCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:47367419 original size:57 final size:53
Alignment explanation
Indices: 47367363--47367470 Score: 184
Period size: 53 Copynumber: 2.1 Consensus size: 53
47367353 TATTGTATCA
*
47367363 TATCATTTC-TTTCTTTCTTTCTTTGTGTATTTAGTTTCTAT-TATAAATAGGC
1 TATCATATCATTTCTTTCTTTCTTTGTGTATTTAGTTTCT-TCTATAAATAGGC
47367415 TATCATATCATTTCTTTCTTTCTTTGTGTATTTAGTTTCTTCTATAAATAGGC
1 TATCATATCATTTCTTTCTTTCTTTGTGTATTTAGTTTCTTCTATAAATAGGC
47367468 TAT
1 TAT
47367471 GTAACCCAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
52 9 0.17
53 44 0.83
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.56
Consensus pattern (53 bp):
TATCATATCATTTCTTTCTTTCTTTGTGTATTTAGTTTCTTCTATAAATAGGC
Found at i:47369076 original size:2 final size:2
Alignment explanation
Indices: 47369069--47369100 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47369059 ACAAATTGAA
47369069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47369101 TTGAGACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47371085 original size:34 final size:33
Alignment explanation
Indices: 47371047--47371112 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
47371037 ATTCTTACGC
47371047 TATATACATCTCCAATTTCCCTCTTTTTAATATT
1 TATATACATCTCCAATTTCCCT-TTTTTAATATT
* * * *
47371081 TATATTCCTTTCTAATTTCCCTTTTTTAATAT
1 TATATACATCTCCAATTTCCCTTTTTTAATAT
47371113 CCTTATTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (33 bp):
TATATACATCTCCAATTTCCCTTTTTTAATATT
Found at i:47371120 original size:33 final size:34
Alignment explanation
Indices: 47371060--47371123 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
47371050 ATACATCTCC
*
47371060 AATTTCCCTCTTTTTAATATTTATATTCCTTTCT
1 AATTTCCCTCTTTTTAATATCTATATTCCTTTCT
47371094 AATTTCCCT-TTTTTAATATCCT-TATTCCTT
1 AATTTCCCTCTTTTTAATAT-CTATATTCCTT
47371124 ATATTACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.58
Consensus pattern (34 bp):
AATTTCCCTCTTTTTAATATCTATATTCCTTTCT
Found at i:47372679 original size:2 final size:2
Alignment explanation
Indices: 47372672--47372709 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
47372662 CATCATCATC
47372672 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47372710 GAAGTTATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47376781 original size:73 final size:73
Alignment explanation
Indices: 47376662--47376801 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 73
47376652 CTTTAGATCT
47376662 TATGCATGTTTTGAGTTATATATAGGAATGGATACGATATTATATATTTGTTATATAATTGTTTT
1 TATGCATGTTTTGAGTTATATATAGGAATGGATACGATATTATATATTTGTTATATAATTGTTTT
47376727 TTGCATCC
66 TTGCATCC
* * **
47376735 TATGCAAT-TTTTGAGTTATATATGGGAGTGGATGTGATATTATATATTTGTTATATAATTGTTT
1 TATGC-ATGTTTTGAGTTATATATAGGAATGGATACGATATTATATATTTGTTATATAATTGTTT
47376799 TTT
65 TTT
47376802 ACTGAGGTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 60 0.97
74 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.50
Consensus pattern (73 bp):
TATGCATGTTTTGAGTTATATATAGGAATGGATACGATATTATATATTTGTTATATAATTGTTTT
TTGCATCC
Found at i:47380021 original size:17 final size:18
Alignment explanation
Indices: 47379994--47380027 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47379984 CCCTTATCCT
47379994 CTAAGGGGAAACAAAAAA
1 CTAAGGGGAAACAAAAAA
*
47380012 CTAA-GGGAAAGAAAAA
1 CTAAGGGGAAACAAAAA
47380028 CCCGACTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.09, G:0.24, T:0.06
Consensus pattern (18 bp):
CTAAGGGGAAACAAAAAA
Found at i:47383785 original size:2 final size:2
Alignment explanation
Indices: 47383778--47383811 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
47383768 AAATGAATCA
47383778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47383812 GTTATGTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47384432 original size:12 final size:12
Alignment explanation
Indices: 47384415--47384441 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47384405 GTTGTGGATG
47384415 GTGCTTAGGCTT
1 GTGCTTAGGCTT
47384427 GTGCTTAGGCTT
1 GTGCTTAGGCTT
47384439 GTG
1 GTG
47384442 TCAAGCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.37, T:0.41
Consensus pattern (12 bp):
GTGCTTAGGCTT
Found at i:47387140 original size:15 final size:16
Alignment explanation
Indices: 47387111--47387142 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
47387101 AGTTTATGCT
47387111 AAGTAAATGAAATGGA
1 AAGTAAATGAAATGGA
47387127 AAGTAAAT-AAATGGA
1 AAGTAAATGAAATGGA
47387142 A
1 A
47387143 TGATAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (16 bp):
AAGTAAATGAAATGGA
Found at i:47387160 original size:20 final size:20
Alignment explanation
Indices: 47387110--47387161 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
47387100 AAGTTTATGC
*
47387110 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
*
47387130 TAAATAAATGGAAT-GATAAG
1 TAAGTAAATGGAATGGA-AAG
47387150 TAAGTAAATGGA
1 TAAGTAAATGGA
47387162 GTGGTTCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:47391927 original size:37 final size:37
Alignment explanation
Indices: 47391886--47391958 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
47391876 AATGATATCC
47391886 TCTCATTAGCATTGTGTGGATTGATAAATATGGAACT
1 TCTCATTAGCATTGTGTGGATTGATAAATATGGAACT
*
47391923 TCTCATTGGCATTGTGTGGATTGATAAATATGGAAC
1 TCTCATTAGCATTGTGTGGATTGATAAATATGGAAC
47391959 GTGGCCACAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (37 bp):
TCTCATTAGCATTGTGTGGATTGATAAATATGGAACT
Found at i:47393028 original size:37 final size:36
Alignment explanation
Indices: 47392977--47393084 Score: 100
Period size: 37 Copynumber: 2.9 Consensus size: 36
47392967 ATTCCAAAAA
*
47392977 TAATA-TTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATACTTATCTTAATAGTTT-ATATT-AATTTAATAT
*
47393013 TAATACTTATCTTAATAGTATTTTATTAATTTAATAT
1 TAATACTTATCTTAATAGT-TTATATTAATTTAATAT
47393050 TAA-AGCGATTATCTTAATA--TTATATTTAATTTAAT
1 TAATA-C--TTATCTTAATAGTTTATA-TTAATTTAAT
47393085 GTTTATATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
36 18 0.29
37 31 0.50
38 2 0.03
39 11 0.18
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATACTTATCTTAATAGTTTATATTAATTTAATAT
Found at i:47395866 original size:18 final size:20
Alignment explanation
Indices: 47395831--47395869 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
47395821 ATTATAAAAA
*
47395831 TATAACAAAATCTAATAAAT
1 TATAACAAAAACTAATAAAT
47395851 TATAA-AAAAACT-ATAAAT
1 TATAACAAAAACTAATAAAT
47395869 T
1 T
47395870 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 6 0.33
20 5 0.28
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (20 bp):
TATAACAAAAACTAATAAAT
Found at i:47395929 original size:9 final size:9
Alignment explanation
Indices: 47395917--47395970 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
47395907 ATAAAAACAC
*
47395917 ATAAAAAGT
1 ATAAAAATT
47395926 ATAAAAATT
1 ATAAAAATT
*
47395935 ATTAAAATT
1 ATAAAAATT
*
47395944 GATATAAACTT
1 -ATA-AAAATT
47395955 ATAAAAATT
1 ATAAAAATT
47395964 ATAAAAA
1 ATAAAAA
47395971 CAATCATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
9 28 0.74
10 5 0.13
11 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:47395940 original size:38 final size:39
Alignment explanation
Indices: 47395888--47395970 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 39
47395878 AAAATTTTAT
* *
47395888 TAAAAATGTATTAAATTTTATAAAAACACATAAAAAGTA
1 TAAAAATGTATTAAAATTGATAAAAACACATAAAAAGTA
* ** *
47395927 TAAAAAT-TATTAAAATTGATATAAACTTATAAAAATTA
1 TAAAAATGTATTAAAATTGATAAAAACACATAAAAAGTA
47395965 TAAAAA
1 TAAAAA
47395971 CAATCATAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
38 31 0.82
39 7 0.18
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (39 bp):
TAAAAATGTATTAAAATTGATAAAAACACATAAAAAGTA
Found at i:47395971 original size:19 final size:19
Alignment explanation
Indices: 47395905--47395971 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
47395895 GTATTAAATT
**
47395905 TTATAAAAACACATAAAAA
1 TTATAAAAACTTATAAAAA
* *
47395924 GTATAAAAA-TTATTAAAA
1 TTATAAAAACTTATAAAAA
*
47395942 TTGATATAAACTTATAAAAA
1 TT-ATAAAAACTTATAAAAA
47395962 TTATAAAAAC
1 TTATAAAAAC
47395972 AATCATAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 7 0.18
19 21 0.55
20 10 0.26
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (19 bp):
TTATAAAAACTTATAAAAA
Found at i:47395979 original size:29 final size:29
Alignment explanation
Indices: 47395908--47395980 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
47395898 TTAAATTTTA
**
47395908 TAAAAACACATA-AAAAGTATAAAAATTAT
1 TAAAAACA-ATATAAACTTATAAAAATTAT
***
47395937 TAAAATTGATATAAACTTATAAAAATTA-
1 TAAAAACAATATAAACTTATAAAAATTAT
47395965 TAAAAACAATCATAAA
1 TAAAAACAAT-ATAAA
47395981 AACTTGAGCT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 10 0.29
29 24 0.71
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (29 bp):
TAAAAACAATATAAACTTATAAAAATTAT
Found at i:47396381 original size:8 final size:9
Alignment explanation
Indices: 47396356--47396555 Score: 66
Period size: 10 Copynumber: 21.0 Consensus size: 9
47396346 CAATCCATTT
47396356 TAATTTTTA
1 TAATTTTTA
*
47396365 TGATTTTTTA
1 T-AATTTTTA
47396375 TAATTTTTA
1 TAATTTTTA
*
47396384 TAAGTTTATA
1 TAA-TTTTTA
*
47396394 TCAATTTTAA
1 T-AATTTTTA
*
47396404 T-ATTTTAA
1 TAATTTTTA
*
47396412 T-TTTTTTA
1 TAATTTTTA
*
47396420 TAATATTTAA
1 TAAT-TTTTA
* *
47396430 AAATTTTAA
1 TAATTTTTA
47396439 TACATTTTTTA
1 TA-A-TTTTTA
* **
47396450 AAATTTGAAA
1 TAATTT-TTA
*
47396460 TAAGTTTTA
1 TAATTTTTA
47396469 TTAA-TTTTA
1 -TAATTTTTA
*
47396478 TAAGCTTTTA
1 TAA-TTTTTA
47396488 -AATTTTTTA
1 TAA-TTTTTA
47396497 TAATAATTTTA
1 TAAT--TTTTA
*
47396508 TAATTTTAA
1 TAATTTTTA
* *
47396517 CAAGTTTATA
1 TAA-TTTTTA
*
47396527 TGAATTTTAA
1 T-AATTTTTA
*
47396537 TATTTTTTAA
1 TAATTTTT-A
*
47396547 TATTTTTTA
1 TAATTTTTA
47396556 ATATTTAGTT
Statistics
Matches: 144, Mismatches: 30, Indels: 34
0.69 0.14 0.16
Matches are distributed among these distances:
8 17 0.12
9 47 0.33
10 61 0.42
11 19 0.13
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (9 bp):
TAATTTTTA
Found at i:47396410 original size:19 final size:19
Alignment explanation
Indices: 47396356--47396534 Score: 70
Period size: 19 Copynumber: 9.4 Consensus size: 19
47396346 CAATCCATTT
* *
47396356 TAATTTTTATGATTTTTTA
1 TAATTTTTATAATTTTATA
*
47396375 TAATTTTTATAAGTTTATA
1 TAATTTTTATAATTTTATA
*
47396394 TCAATTTTAAT-ATTTTA-A
1 T-AATTTTTATAATTTTATA
*
47396412 T-TTTTTTATAATATTTA-A
1 TAATTTTTATAAT-TTTATA
* * *
47396430 AAATTTTAATACATTTTTTA
1 TAATTTTTATA-ATTTTATA
* **
47396450 AAATTTGAAATAAGTTTTAT-
1 TAATTT-TTATAA-TTTTATA
47396470 TAA-TTTTATAAGCTTTTA-A
1 TAATTTTTATAA--TTTTATA
*
47396489 -ATTTTTTATAATAATTT-TA
1 TAATTTTTATAAT--TTTATA
* * *
47396508 TAATTTTAACAAGTTTATA
1 TAATTTTTATAATTTTATA
47396527 TGAATTTT
1 T-AATTTT
47396535 AATATTTTTT
Statistics
Matches: 121, Mismatches: 22, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
16 6 0.05
17 3 0.02
18 15 0.12
19 54 0.45
20 34 0.28
21 9 0.07
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
TAATTTTTATAATTTTATA
Found at i:47396446 original size:45 final size:43
Alignment explanation
Indices: 47396351--47396446 Score: 97
Period size: 45 Copynumber: 2.1 Consensus size: 43
47396341 CTAATCAATC
* *
47396351 CATTTTAATTTTTATGATTTTTTATAATTTTTATAAGTTTATAT
1 CATTTTAATTTTTAT-ATTTTTTATAATTTTAAAAAGTTTATAT
*
47396395 CAATTTTAATATTTTA-ATTTTTTTATAATATTTAAAAATTTTA-AT
1 C-ATTTTAAT-TTTTATA-TTTTTTATAAT-TTTAAAAAGTTTATAT
47396440 ACATTTT
1 -CATTTT
47396447 TTAAAATTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
44 2 0.05
45 26 0.59
46 16 0.36
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (43 bp):
CATTTTAATTTTTATATTTTTTATAATTTTAAAAAGTTTATAT
Found at i:47396546 original size:10 final size:10
Alignment explanation
Indices: 47396531--47396561 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
47396521 TTTATATGAA
47396531 TTTTAATATT
1 TTTTAATATT
47396541 TTTTAATATT
1 TTTTAATATT
47396551 TTTTAATATT
1 TTTTAATATT
47396561 T
1 T
47396562 AGTTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTAATATT
Found at i:47398424 original size:4 final size:4
Alignment explanation
Indices: 47398417--47398447 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
47398407 TTTCCTAAAA
47398417 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
47398448 AGTAGTCGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:47400271 original size:18 final size:17
Alignment explanation
Indices: 47400248--47400282 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
47400238 AAATAGATTT
47400248 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
47400266 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
47400283 ACCTTAAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:47410932 original size:20 final size:22
Alignment explanation
Indices: 47410894--47410936 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
47410884 TTAATTAATA
47410894 TTTTAAAATTTTAAAAAATTAT
1 TTTTAAAATTTTAAAAAATTAT
47410916 TTTTAAAA-TTT-AAAAATTAT
1 TTTTAAAATTTTAAAAAATTAT
47410936 T
1 T
47410937 AAAATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 3 0.14
22 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAATTTTAAAAAATTAT
Found at i:47410940 original size:29 final size:29
Alignment explanation
Indices: 47410908--47411005 Score: 106
Period size: 29 Copynumber: 3.2 Consensus size: 29
47410898 AAAATTTTAA
*
47410908 AAAATTATTTTTAAAATTTAAAAATTATT
1 AAAATTATTTTAAAAATTTAAAAATTATT
* * *
47410937 AAAATTATTTAAAAAATATAAAAGTTATT
1 AAAATTATTTTAAAAATTTAAAAATTATT
**
47410966 AAAAAAAATTTTAAAAATTTTAAAAATTAATT
1 -AAAATTATTTTAAAAA-TTTAAAAATT-ATT
47410998 AAATATTA
1 AAA-ATTA
47411006 ACATGTCATC
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
29 25 0.46
30 13 0.24
31 11 0.20
32 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (29 bp):
AAAATTATTTTAAAAATTTAAAAATTATT
Found at i:47410946 original size:20 final size:20
Alignment explanation
Indices: 47410923--47411005 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 20
47410913 TATTTTTAAA
47410923 ATTTAAAAATTATTAAAATT
1 ATTTAAAAATTATTAAAATT
*
47410943 ATTTAAAAAATA-TAAAAGTT
1 ATTTAAAAATTATTAAAA-TT
* *
47410963 ATTAAAAAAAATT-TTAAAAAT
1 ATT--TAAAAATTATTAAAATT
47410984 -TTTAAAAATTAATTAAATATT
1 ATTTAAAAATT-ATTAAA-ATT
47411005 A
1 A
47411006 ACATGTCATC
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
18 7 0.14
19 5 0.10
20 23 0.47
21 3 0.06
22 11 0.22
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
ATTTAAAAATTATTAAAATT
Found at i:47410990 original size:8 final size:9
Alignment explanation
Indices: 47410914--47410993 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
47410904 TTAAAAAATT
*
47410914 ATTTTTAAA
1 ATTTTAAAA
47410923 A-TTTAAAA
1 ATTTTAAAA
47410931 ATTATTAAAA
1 ATT-TTAAAA
*
47410941 TTATTTAAAA
1 AT-TTTAAAA
* *
47410951 AATATAAAA
1 ATTTTAAAA
*
47410960 GTTATTAAAAAAA
1 ATT-TT---AAAA
47410973 ATTTTAAAA
1 ATTTTAAAA
47410982 ATTTTAAAA
1 ATTTTAAAA
47410991 ATT
1 ATT
47410994 AATTAAATAT
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
8 7 0.13
9 25 0.45
10 14 0.25
11 1 0.02
12 2 0.04
13 6 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:47411386 original size:2 final size:2
Alignment explanation
Indices: 47411381--47411412 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
47411371 ATTAAACTTT
47411381 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47411413 AAGCCTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47411452 original size:2 final size:2
Alignment explanation
Indices: 47411441--47411476 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
47411431 CCCTTACTTT
47411441 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47411477 TGCAAGAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47413620 original size:9 final size:9
Alignment explanation
Indices: 47413598--47413653 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
47413588 AAACTTATTT
47413598 TTAAAATT-
1 TTAAAATTA
*
47413606 TAAAAATTA
1 TTAAAATTA
47413615 TTAAAATTA
1 TTAAAATTA
*
47413624 TTTAAAAGTA
1 -TTAAAATTA
*
47413634 TAAAAATTA
1 TTAAAATTA
*
47413643 TTTAAATTA
1 TTAAAATTA
47413652 TT
1 TT
47413654 TTTAAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
8 7 0.18
9 24 0.62
10 8 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (9 bp):
TTAAAATTA
Found at i:47413620 original size:10 final size:10
Alignment explanation
Indices: 47413605--47413670 Score: 55
Period size: 9 Copynumber: 6.5 Consensus size: 10
47413595 TTTTTAAAAT
47413605 TTAAAAATTA
1 TTAAAAATTA
47413615 TT-AAAATTA
1 TTAAAAATTA
* *
47413624 TTTAAAAGTA
1 TTAAAAATTA
47413634 -TAAAAATTA
1 TTAAAAATTA
* *
47413643 TTTAAATTATTT
1 -TTAAA-AATTA
47413655 TTAAAAATTAA
1 TTAAAAATT-A
47413666 TTAAA
1 TTAAA
47413671 TGTTAGACAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 16 0.36
10 11 0.25
11 14 0.32
12 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:47413637 original size:28 final size:27
Alignment explanation
Indices: 47413597--47413654 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
47413587 AAAACTTATT
*
47413597 TTTAAAATTTAAAAATTATTAAAATTA
1 TTTAAAATATAAAAATTATTAAAATTA
*
47413624 TTTAAAAGTATAAAAATTATTTAAATTA
1 TTTAAAA-TATAAAAATTATTAAAATTA
47413652 TTT
1 TTT
47413655 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TTTAAAATATAAAAATTATTAAAATTA
Found at i:47413639 original size:19 final size:19
Alignment explanation
Indices: 47413603--47413648 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
47413593 TATTTTTAAA
* *
47413603 ATTTAAAAATTATTAAAATT
1 ATTT-AAAAGTATAAAAATT
47413623 ATTTAAAAGTATAAAAATT
1 ATTTAAAAGTATAAAAATT
47413642 ATTTAAA
1 ATTTAAA
47413649 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTTAAAAGTATAAAAATT
Found at i:47413891 original size:17 final size:18
Alignment explanation
Indices: 47413869--47413902 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47413859 ATACTTATAA
47413869 TTTAAAT-TCTAATTATT
1 TTTAAATATCTAATTATT
*
47413886 TTTAAATATGTAATTAT
1 TTTAAATATCTAATTAT
47413903 CACAAACTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAAATATCTAATTATT
Found at i:47417541 original size:26 final size:26
Alignment explanation
Indices: 47417490--47417543 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
47417480 TACCTTTGTT
* * *
47417490 ATAATTTAAAATTATTTAATTTTTTA
1 ATAATTTAAAAATATATAATTATTTA
47417516 ATAATTTAAAAATA-ATAATCTATTTA
1 ATAATTTAAAAATATATAAT-TATTTA
47417542 AT
1 AT
47417544 TTAACTCAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATAATTTAAAAATATATAATTATTTA
Found at i:47418377 original size:3 final size:3
Alignment explanation
Indices: 47418369--47418395 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
47418359 ACCAAAATAT
47418369 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
47418396 AAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:47423608 original size:18 final size:18
Alignment explanation
Indices: 47423587--47423629 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
47423577 ATAAAAATAA
47423587 TTATATTAATAATATATG
1 TTATATTAATAATATATG
* **
47423605 TTATAATAATTTTATATG
1 TTATATTAATAATATATG
47423623 -TATATTA
1 TTATATTA
47423630 TATTTATATT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATATTAATAATATATG
Found at i:47423610 original size:24 final size:23
Alignment explanation
Indices: 47423583--47423641 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
47423573 TGTTATAAAA
*
47423583 ATAATTATATTAATAATATATGTT
1 ATAATTATATTAAT-ATATATATT
* * *
47423607 ATAATAAT-TTTATATGTATATT
1 ATAATTATATTAATATATATATT
*
47423629 ATATTTATATTAA
1 ATAATTATATTAA
47423642 ACCATTAATT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
22 13 0.48
23 7 0.26
24 7 0.26
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (23 bp):
ATAATTATATTAATATATATATT
Found at i:47423790 original size:142 final size:141
Alignment explanation
Indices: 47423607--47423896 Score: 492
Period size: 142 Copynumber: 2.0 Consensus size: 141
47423597 AATATATGTT
47423607 ATAATAATTTTATATGTATATTATATTTATATTAAACCATTAATTTAATAACAATTAAAATTATT
1 ATAATAATTTTATATGTATATTATATTTATATTAAACCATTAATTTAATAACAATTAAAATTATT
* *
47423672 ATTCAAAATTTAAAATAAAACTTACC-TAAGCAACCCAATCCAAACTATAAAATTTTAAAAATTA
66 ATTCAAAACTTAAAATAAAACTTACCATAAGCAACCCAATCCAAACTATAAAATTCTAAAAATTA
47423736 TATTTAATACA
131 TATTTAATACA
*
47423747 ATAATAATTTTATATGTATATATTATATTTATATTAAACCATTAATTTAATAACAATTAAACTTA
1 ATAATAATTTTATATG--TATATTATATTTATATTAAACCATTAATTTAATAACAATTAAAATTA
*
47423812 TTATTCAAAACTTAAAATAAAACTTACCAAAATAAGTAACCCAATCCAAACTATAAAATTCTAAA
64 TTATTCAAAACTTAAAATAAAACTTACC---ATAAGCAACCCAATCCAAACTATAAAATTCTAAA
47423877 AATTATATTTAATACA
126 AATTATATTTAATACA
47423893 ATAA
1 ATAA
47423897 AACATTTATT
Statistics
Matches: 140, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
140 16 0.11
142 73 0.52
146 51 0.36
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (141 bp):
ATAATAATTTTATATGTATATTATATTTATATTAAACCATTAATTTAATAACAATTAAAATTATT
ATTCAAAACTTAAAATAAAACTTACCATAAGCAACCCAATCCAAACTATAAAATTCTAAAAATTA
TATTTAATACA
Found at i:47423934 original size:37 final size:41
Alignment explanation
Indices: 47423884--47423971 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 41
47423874 AAAAATTATA
* * *
47423884 TTTAATACAATAAAACATTTATTATA-TTAT-TTA-TG-TT
1 TTTAATATAATAAAACATTTATGATATTTATGGTAGTGTTT
*
47423921 TTTAATATAATAAAATATTTATGATATTTATGGTAGTGTTT
1 TTTAATATAATAAAACATTTATGATATTTATGGTAGTGTTT
47423962 TTTAATATAA
1 TTTAATATAA
47423972 ATACTTTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 23 0.53
38 4 0.09
39 2 0.05
40 2 0.05
41 12 0.28
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (41 bp):
TTTAATATAATAAAACATTTATGATATTTATGGTAGTGTTT
Found at i:47433972 original size:27 final size:26
Alignment explanation
Indices: 47433915--47433989 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
47433905 CATATTTTCC
* *
47433915 CAAAATTTTACCAGGGTTAAAATCGT
1 CAAAATTTTACTAGGGGTAAAATCGT
* *
47433941 CAAATTTTTACTAGGGGTAAAATTGT
1 CAAAATTTTACTAGGGGTAAAATCGT
* *
47433967 CAAAATTTTGCTAAGGGTAAAAT
1 CAAAATTTTACTAGGGGTAAAAT
47433990 AGGGATGAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (26 bp):
CAAAATTTTACTAGGGGTAAAATCGT
Found at i:47444656 original size:29 final size:29
Alignment explanation
Indices: 47444621--47444693 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
47444611 GTTGTGAGAT
* *
47444621 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
47444650 TGGCACTAAGTGTGCTAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
47444679 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47444694 ATGGTTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:47452418 original size:29 final size:29
Alignment explanation
Indices: 47452383--47452456 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
47452373 GTTGTGAGAT
* *
47452383 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
47452412 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
47452441 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
47452457 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:47459419 original size:3 final size:3
Alignment explanation
Indices: 47459411--47459443 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
47459401 ATATATATAT
47459411 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
47459444 TACAAGATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:47474192 original size:40 final size:40
Alignment explanation
Indices: 47474113--47474289 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
47474103 CGGATGATAA
* * * *
47474113 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** * *
47474153 CCGGGCTATGTTCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
47474193 CCGGGCTAAGACCCGAAGGCATTTGTGCGCGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
47474233 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
47474273 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
47474290 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 100 0.85
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:47474557 original size:22 final size:22
Alignment explanation
Indices: 47474517--47474558 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47474507 GAATGTGCAT
*
47474517 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
47474539 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
47474559 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:47482211 original size:40 final size:40
Alignment explanation
Indices: 47482160--47482308 Score: 178
Period size: 40 Copynumber: 3.8 Consensus size: 40
47482150 GCATTCGTGT
* * *
47482160 GAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTATGC
1 GAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGC
* * *
47482200 TAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 GAGTTG-CTATATCCGGGCTAAGACCCGAAGGCATTTATGC
* *
47482240 GAGTTGCTATATCCGAGCTAAGACCCGAAGGCATTTGTGC
1 GAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGC
*
47482280 GAGTTGTTATATCC-GGCTAA-ATCCCGAAG
1 GAGTTGCTATATCCGGGCTAAGA-CCCGAAG
47482309 ATACTTGGGT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 14 0.15
40 78 0.82
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
GAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTATGC
Found at i:47482271 original size:80 final size:79
Alignment explanation
Indices: 47482138--47482308 Score: 211
Period size: 80 Copynumber: 2.2 Consensus size: 79
47482128 ATAACCGGAT
* * * * * * * *
47482138 TAAGATCCAAAGGCATTCGTGTGAGTTGCTATATTCGGGCTATGTCCCGAAGGCATTTATGCTAG
1 TAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGAGCTAAGACCCGAAGGCATTTATGCGAG
47482203 -TGATTATATCCGGGC
66 TTG-TTATATCC-GGC
* *
47482218 TAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGAGCTAAGACCCGAAGGCATTTGTGCGAG
1 TAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGAGCTAAGACCCGAAGGCATTTATGCGAG
47482283 TTGTTATATCCGGC
66 TTGTTATATCCGGC
47482297 TAA-ATCCCGAAG
1 TAAGA-CCCGAAG
47482309 ATACTTGGGT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 13 0.16
80 63 0.80
81 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (79 bp):
TAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGAGCTAAGACCCGAAGGCATTTATGCGAG
TTGTTATATCCGGC
Found at i:47482575 original size:22 final size:22
Alignment explanation
Indices: 47482535--47482576 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
47482525 GAATGTGCAT
*
47482535 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
47482557 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
47482577 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:47489108 original size:46 final size:45
Alignment explanation
Indices: 47489058--47489233 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 45
47489048 TGGTTGAGCA
47489058 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
47489104 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
47489149 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
47489197 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47489234 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:47489214 original size:93 final size:93
Alignment explanation
Indices: 47489055--47489226 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
47489045 GGATGGTTGA
* *
47489055 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47489120 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
47489148 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47489213 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
47489227 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47492883 original size:22 final size:21
Alignment explanation
Indices: 47492858--47492908 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
47492848 TTTGTACTTA
47492858 AATTATTAACATAATAAATTTT
1 AATTATT-ACATAATAAATTTT
**
47492880 AATTAATTTTATAATAAATTTT
1 AATT-ATTACATAATAAATTTT
*
47492902 GATTATT
1 AATTATT
47492909 TTCTACAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 19 0.76
23 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTATTACATAATAAATTTT
Found at i:47493364 original size:42 final size:42
Alignment explanation
Indices: 47493303--47493512 Score: 185
Period size: 42 Copynumber: 5.0 Consensus size: 42
47493293 ACAGATTTAC
* * *
47493303 AAGTTGTGTATTA-ATGAAGCTCCCCACATGAGCTTAAGTGAG
1 AAGTTGTGTATCAGA-GAAGCTCCCCACGTGAGCTTAAGTGAT
* *
47493345 AAGTTGTGTATTAGAGAAGCTCCCTACGTGAGCTTAAGTGAT
1 AAGTTGTGTATCAGAGAAGCTCCCCACGTGAGCTTAAGTGAT
* * * *
47493387 ACA-TTGTGTATCA-ACGAAGCTCCCTATGTAAGTTTAAGTGAT
1 A-AGTTGTGTATCAGA-GAAGCTCCCCACGTGAGCTTAAGTGAT
* * * * * *
47493429 AACTTATTTGTCAGCA-AAGCTCCCCATGTGAGCTTAAGTGAC
1 AAGTTGTGTATCAG-AGAAGCTCCCCACGTGAGCTTAAGTGAT
* * * *
47493471 AAGTTATGTATCAGCGAAGCTCCCCAAGCGAGCTTAAGTGAT
1 AAGTTGTGTATCAGAGAAGCTCCCCACGTGAGCTTAAGTGAT
47493513 GATGCTCCTC
Statistics
Matches: 140, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.01
42 135 0.96
43 2 0.01
44 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
AAGTTGTGTATCAGAGAAGCTCCCCACGTGAGCTTAAGTGAT
Found at i:47497509 original size:240 final size:238
Alignment explanation
Indices: 47497037--47497678 Score: 778
Period size: 240 Copynumber: 2.7 Consensus size: 238
47497027 TTACAATCAT
* * * * *
47497037 ATTATTAAAACTAGAAATTCTATTACACGTA--TGGAAATCACAAATTTAGAATACAAATGTATG
1 ATTATTAATACTAGAAATTCTATCACATGTATGTGGAAACCACAAATTTAGAATACAAATGTGTG
* *
47497100 TTTAAAAATAACATCAAATAAATAATCAAACTATGGTTTGAAACTAATTAATAATAACACATGAA
66 TTTAAAAATAACATAAAATAAATAATGAAACTATGGTTTGAAACTAA-TAATAATAACACATGAA
**
47497165 ATATGTATGATATTAAAATGAAAAAAATTAGATCTAATTGTTTATCATGATGTTGTCATCAATCT
130 ATATGTAAAATATTAAAATG-AAAAAATTAGATCTAATTGTTTATCATGATGTTGTCATCAATCT
* * * *
47497230 TCAGCCGGTGCTGAGTTAACTTGTGACCCCAATTCAATCAAATAC
194 TCAGCCGATGCTGAATTAACTTGTGACACCAACTCAATCAAATAC
* *
47497275 ATTTTTAATACTAGAAATTTTATCACATGTATGTGGAAACCACAAATTTAGAATACAAATGTGTG
1 ATTATTAATACTAGAAATTCTATCACATGTATGTGGAAACCACAAATTTAGAATACAAATGTGTG
47497340 TTTAAAAATAACATAAAATAAATAATGAAACATATGGTTTGAAACTAATAAATAATAACACATGA
66 TTTAAAAATAACATAAAATAAATAATGAAAC-TATGGTTTGAAACTAAT-AATAATAACACATGA
* *
47497405 AATATGTAAAATATTAAAATGAAAAAATTTGAT-TAAATTGTTTATCAT-A-GTACTGTCGTCAA
129 AATATGTAAAATATTAAAATGAAAAAATTAGATCT-AATTGTTTATCATGATGT--TGTCATCAA
* *
47497467 TCTTGAGTCGATGCTGAATTAACTTGTGACACCAACTCAATCAAATAC
191 TCTTCAGCCGATGCTGAATTAACTTGTGACACCAACTCAATCAAATAC
* * * * *
47497515 ATTATTAATATTAGAAATTCTATCACATGCGTATGCATGTGAAAACCACATATTTAGATTGCATA
1 ATTATTAATACTAGAAATTCTATCACAT--GTATG--TG-G-AAACCACAAATTTAGAATACAAA
* * * * * *
47497580 GGTGTATTTATAAATAACATAACATAAATAATGAAATGTAAT-ATTTGAAACTAATAATAATAAC
60 TGTGTGTTTAAAAATAACATAAAATAAATAATGAAA-CT-ATGGTTTGAAACTAATAATAATAAC
* *
47497644 ACATGTTTAATATGTACAAA-ACTAAAAT-AAAAAAT
123 ACATG--AAATATGTA-AAATATTAAAATGAAAAAAT
47497679 AGTTTAAATT
Statistics
Matches: 352, Mismatches: 34, Indels: 28
0.85 0.08 0.07
Matches are distributed among these distances:
238 28 0.08
239 2 0.01
240 159 0.45
241 50 0.14
242 5 0.01
244 2 0.01
245 15 0.04
246 71 0.20
247 17 0.05
248 3 0.01
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.33
Consensus pattern (238 bp):
ATTATTAATACTAGAAATTCTATCACATGTATGTGGAAACCACAAATTTAGAATACAAATGTGTG
TTTAAAAATAACATAAAATAAATAATGAAACTATGGTTTGAAACTAATAATAATAACACATGAAA
TATGTAAAATATTAAAATGAAAAAATTAGATCTAATTGTTTATCATGATGTTGTCATCAATCTTC
AGCCGATGCTGAATTAACTTGTGACACCAACTCAATCAAATAC
Found at i:47498986 original size:51 final size:49
Alignment explanation
Indices: 47498926--47499029 Score: 136
Period size: 51 Copynumber: 2.1 Consensus size: 49
47498916 GGATAAATAG
* * *
47498926 GAAACATTTGGAAATGACTATGGTTTTCTCCAAAATGAAAATAGAGAAAT
1 GAAACATTTGGAAACGAATATGGTTTTCTCCAAAATGAAAAT-GAAAAAT
* * *
47498976 GAAATCATTTGGAAACGAATGTGGTTTTTTCCTAAATGAAAATGAAAAAT
1 GAAA-CATTTGGAAACGAATATGGTTTTCTCCAAAATGAAAATGAAAAAT
47499026 GAAA
1 GAAA
47499030 ATGACCTGGA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 14 0.30
51 33 0.70
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.29
Consensus pattern (49 bp):
GAAACATTTGGAAACGAATATGGTTTTCTCCAAAATGAAAATGAAAAAT
Found at i:47499027 original size:13 final size:13
Alignment explanation
Indices: 47499009--47499033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47498999 GTTTTTTCCT
47499009 AAATGAAAATGAA
1 AAATGAAAATGAA
47499022 AAATGAAAATGA
1 AAATGAAAATGA
47499034 CCTGGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:47499325 original size:37 final size:37
Alignment explanation
Indices: 47499284--47499359 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
47499274 AAAGTATTTG
47499284 ATTGAAAGTTAGGACAGTACTTGTAATTGGACCCGAT
1 ATTGAAAGTTAGGACAGTACTTGTAATTGGACCCGAT
47499321 ATTGAAAGTTAGGACAGTACTTGTAATTGGACCCGAT
1 ATTGAAAGTTAGGACAGTACTTGTAATTGGACCCGAT
47499358 AT
1 AT
47499360 AGAAGATGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (37 bp):
ATTGAAAGTTAGGACAGTACTTGTAATTGGACCCGAT
Found at i:47501001 original size:31 final size:33
Alignment explanation
Indices: 47500935--47501001 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 33
47500925 AAAAATTAAC
* *
47500935 ATTCTAGTTACTTAAATAAAAAATTTTTAAGTA
1 ATTCTAGTGACTTAAATAAAAAATTTTGAAGTA
*
47500968 ATTC-AGTGACTTAAAT-GAAAATTTTCGAA-TA
1 ATTCTAGTGACTTAAATAAAAAATTTT-GAAGTA
47500999 ATT
1 ATT
47501002 TAAAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
31 13 0.43
32 13 0.43
33 4 0.13
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (33 bp):
ATTCTAGTGACTTAAATAAAAAATTTTGAAGTA
Found at i:47507300 original size:26 final size:26
Alignment explanation
Indices: 47507264--47507322 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
47507254 TATTCTCTTT
47507264 AAATTTTATCAGGGGCAAAATCGTCA
1 AAATTTTATCAGGGGCAAAATCGTCA
* *
47507290 AAATTTTATCATGGGTAAAATCGTCA
1 AAATTTTATCAGGGGCAAAATCGTCA
*
47507316 AAGTTTT
1 AAATTTT
47507323 GTTGAGGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (26 bp):
AAATTTTATCAGGGGCAAAATCGTCA
Found at i:47518687 original size:2 final size:2
Alignment explanation
Indices: 47518680--47518735 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
47518670 ATTGTTTTAA
* *
47518680 AT AT AT AT AT AC AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47518722 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
47518736 TACTTTATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47519154 original size:26 final size:27
Alignment explanation
Indices: 47519098--47519208 Score: 84
Period size: 27 Copynumber: 4.0 Consensus size: 27
47519088 AAATCACAAT
* *
47519098 AATTTTAAAATTTAAAATATTTATAAA
1 AATTTCAAAATTTAAAATATTTAAAAA
47519125 AATTTCAAAATTT-AAAT-TTTAAAAA
1 AATTTCAAAATTTAAAATATTTAAAAA
* * *
47519150 CAATTCTAAAAAAAATCTAAAATATATAAAAA
1 -AATT-T---CAAAATTTAAAATATTTAAAAA
*
47519182 AATTT-AAAATTTTAAAATTTTCTAAAA
1 AATTTCAAAA-TTTAAAATATT-TAAAA
47519209 CAATAATTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
25 7 0.10
26 12 0.18
27 21 0.31
28 5 0.07
30 7 0.10
31 8 0.12
32 7 0.10
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
AATTTCAAAATTTAAAATATTTAAAAA
Found at i:47521830 original size:41 final size:41
Alignment explanation
Indices: 47521785--47521867 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
47521775 TGCTTTTGTA
47521785 TTCCTATTTCAATTTGGAATTGAATTATTCTCTCTTCTCTT
1 TTCCTATTTCAATTTGGAATTGAATTATTCTCTCTTCTCTT
* * *
47521826 TTCCTATTTCCATTTGGAATTGAATTATTTTCTTTTCTCTT
1 TTCCTATTTCAATTTGGAATTGAATTATTCTCTCTTCTCTT
47521867 T
1 T
47521868 CAAATTGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (41 bp):
TTCCTATTTCAATTTGGAATTGAATTATTCTCTCTTCTCTT
Found at i:47525096 original size:40 final size:40
Alignment explanation
Indices: 47525030--47525173 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
47525020 AAATTGAATG
* * * *
47525030 ATATCCGGACTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
47525069 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ** *
47525109 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAGAAACT
**
47525149 CGATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
47525174 TTTGTGCACG
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
39 15 0.17
40 71 0.83
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:47525195 original size:40 final size:40
Alignment explanation
Indices: 47525066--47525196 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
47525056 TATGCTGGAA
* * *
47525066 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
47525106 GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
**
47525146 ATTCGATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
47525186 ATTATATCCGG
1 ATTATATCCGG
47525197 TTATATTCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:47529329 original size:30 final size:30
Alignment explanation
Indices: 47529293--47529352 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47529283 ATTTAATACG
* *
47529293 AACTTTTGCAAAATTATATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
*
47529323 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
47529353 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:47543331 original size:30 final size:30
Alignment explanation
Indices: 47543295--47543354 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47543285 ATTTAATAGG
* *
47543295 AACTTTTGTAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
*
47543325 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
47543355 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:47548355 original size:11 final size:11
Alignment explanation
Indices: 47548341--47548365 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47548331 TGATATATAT
47548341 TTGACATTAAA
1 TTGACATTAAA
47548352 TTGACATTAAA
1 TTGACATTAAA
47548363 TTG
1 TTG
47548366 GAAATTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (11 bp):
TTGACATTAAA
Found at i:47549674 original size:57 final size:57
Alignment explanation
Indices: 47549582--47549697 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
47549572 CCCTAACCCT
* * * * *
47549582 TATCCGTCACCGGATTAGGGTTATGAAGCACTACCGTATAATTAGAGCATTAAAACA
1 TATCCGTCACCGGATCAAGGTTACGAAGCACTACCGTATAATCAGAACATTAAAACA
*
47549639 TATCCGTCACCGGATCAAGGTTACGAAGCATTACCGTATAATCAGAACATTAAAACA
1 TATCCGTCACCGGATCAAGGTTACGAAGCACTACCGTATAATCAGAACATTAAAACA
47549696 TA
1 TA
47549698 CATTTCACAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (57 bp):
TATCCGTCACCGGATCAAGGTTACGAAGCACTACCGTATAATCAGAACATTAAAACA
Found at i:47551364 original size:35 final size:34
Alignment explanation
Indices: 47551325--47551400 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
47551315 GCTCTAGTTG
* * * *
47551325 GATAAACCAACTATATTTGTACCCAGCGTTAGTCA
1 GATAAACCAAC-AAATGTGTACCCAACATTAGTCA
* *
47551360 GATAAACCGACAAATGTGTGCCCAACATTAGTCA
1 GATAAACCAACAAATGTGTACCCAACATTAGTCA
47551394 GATAAAC
1 GATAAAC
47551401 TAACGAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
34 25 0.71
35 10 0.29
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (34 bp):
GATAAACCAACAAATGTGTACCCAACATTAGTCA
Found at i:47551466 original size:108 final size:107
Alignment explanation
Indices: 47551234--47551507 Score: 352
Period size: 108 Copynumber: 2.6 Consensus size: 107
47551224 CTGACGGAAG
* * * * * * * *
47551234 TTGCGCCCAGCGCTAGTCAAATAAACAGGCGAATGTGTGCCCAACACTAATTAGATAACCTGACG
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAACTAACG
* *
47551299 AATAATTGTGAGCCTAGCTCTAGTTGGATAAACCAACTATAT
66 AATAATTGTAAGCCTAGCTCTAGTTGGATAAACCAACGATAT
** * *
47551341 TTGTACCCAGCGTTAGTCAGATAAACCGACAAATGTGTGCCCAACATTAGTCAGATAAACTAACG
1 TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAACTAACG
47551406 AATAATTAGTAAGCCTAGCTCTAGTTGGATAAACCAACGATAT
66 AATAATT-GTAAGCCTAGCTCTAGTTGGATAAACCAACGATAT
* * * * *
47551449 TTGCGCCCATCACTAGTC-GAATAAACCGATGAATGTGTACCCAGCATTAGTCAGATAAA
1 TTGCGCCCAGCGCTAGTCAG-ATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAA
47551508 TTGACGGAAG
Statistics
Matches: 142, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
107 61 0.43
108 81 0.57
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (107 bp):
TTGCGCCCAGCGCTAGTCAGATAAACCGACGAATGTGTGCCCAACATTAGTCAGATAAACTAACG
AATAATTGTAAGCCTAGCTCTAGTTGGATAAACCAACGATAT
Found at i:47551507 original size:34 final size:34
Alignment explanation
Indices: 47551342--47551507 Score: 93
Period size: 34 Copynumber: 4.7 Consensus size: 34
47551332 CAACTATATT
* *
47551342 TGTACCCAGCGTTAGTCAGATAAACCGACAAATG
1 TGTACCCAGCATTAGTCAGATAAACCGACGAATG
* * ** *
47551376 TGTGCCCAACATTAGTCAGATAAACTAACGAATAAT
1 TGTACCCAGCATTAGTCAGATAAACCGACGAAT--G
* ** * *
47551412 TAGTAAGCCTAGC-TCTAGTTGGATAAACCAACGATATT
1 T-GT-A-CCCAGCAT-TAGTCAGATAAACCGACGA-ATG
** * * *
47551450 TGCGCCCATCACTAGTC-GAATAAACCGATGAATG
1 TGTACCCAGCATTAGTCAG-ATAAACCGACGAATG
47551484 TGTACCCAGCATTAGTCAGATAAA
1 TGTACCCAGCATTAGTCAGATAAA
47551508 TTGACGGAAG
Statistics
Matches: 96, Mismatches: 26, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
34 48 0.50
35 19 0.20
36 1 0.01
37 3 0.03
38 3 0.03
39 20 0.21
40 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (34 bp):
TGTACCCAGCATTAGTCAGATAAACCGACGAATG
Found at i:47560283 original size:40 final size:39
Alignment explanation
Indices: 47560238--47560445 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
47560228 CGGAATACAA
*
47560238 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47560278 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47560318 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
47560358 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
47560398 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47560438 CCGGATAT
1 CCGGATAT
47560446 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47560385 original size:80 final size:81
Alignment explanation
Indices: 47560238--47560443 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
47560228 CGGAATACAA
* * * *
47560238 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
47560302 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
47560318 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
47560381 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
47560398 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
47560444 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:47568268 original size:40 final size:39
Alignment explanation
Indices: 47568223--47568430 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
47568213 CGGAATACAA
*
47568223 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47568263 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
47568303 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
47568343 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
47568383 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
47568423 CCGGATAT
1 CCGGATAT
47568431 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47568370 original size:80 final size:81
Alignment explanation
Indices: 47568223--47568428 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
47568213 CGGAATACAA
* * * *
47568223 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
47568287 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
47568303 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
47568366 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
47568383 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
47568429 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:47572753 original size:38 final size:38
Alignment explanation
Indices: 47572711--47572785 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
47572701 GAAACTCTAG
47572711 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTTT
1 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTTT
47572749 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
1 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
47572786 GGACTGTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (38 bp):
GGATTTAATTGGAAATTAAAACAATTCTAACTATTTTT
Found at i:47573686 original size:18 final size:18
Alignment explanation
Indices: 47573665--47573700 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47573655 AATGAAGTTT
47573665 AATAAATAAATGCAAATG
1 AATAAATAAATGCAAATG
**
47573683 AATATGTAAATGCAAATG
1 AATAAATAAATGCAAATG
47573701 CAAATGGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (18 bp):
AATAAATAAATGCAAATG
Found at i:47573852 original size:31 final size:31
Alignment explanation
Indices: 47573817--47573875 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
47573807 GTCATTAAGG
47573817 TCTAAAAAGCAGCAGGTATGT-TGTACCAATT
1 TCTAAAAAGCAGCAGGTAT-TATGTACCAATT
* *
47573848 TCTAAAAAGTATCAGGTATTATGTACCA
1 TCTAAAAAGCAGCAGGTATTATGTACCA
47573876 GTGTTGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (31 bp):
TCTAAAAAGCAGCAGGTATTATGTACCAATT
Found at i:47574966 original size:2 final size:2
Alignment explanation
Indices: 47574954--47574994 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
47574944 GAGACTAGTC
47574954 AT AT AT A- AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47574994 A
1 A
47574995 CATGTCATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47574976 original size:17 final size:17
Alignment explanation
Indices: 47574954--47574994 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
47574944 GAGACTAGTC
47574954 ATATATAATATATATAT
1 ATATATAATATATATAT
*
47574971 ATATATTATATATATAT
1 ATATATAATATATATAT
47574988 ATATATA
1 ATATATA
47574995 CATGTCATGA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATAATATATATAT
Found at i:47577023 original size:30 final size:30
Alignment explanation
Indices: 47576989--47577049 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47576979 TCCTTAACTC
47576989 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47577019 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47577049 A
1 A
47577050 GGCTCATGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:47582357 original size:40 final size:39
Alignment explanation
Indices: 47582277--47582483 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
47582267 CGGAATACAA
* *
47582277 CCGGATATAACCACATGCACGAATG-CTTCGGGTCTTAGC
1 CCGGATATAA-CACTTGCACAAATGCCTTCGGGTCTTAGC
* *
47582316 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* *
47582356 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
47582396 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
47582436 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAAC-ACTTGCACAAATGCCTTCGGGTCTTAGC
47582476 CCGGATAT
1 CCGGATAT
47582484 CATTTAATTG
Statistics
Matches: 143, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 21 0.15
40 120 0.84
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:47582398 original size:80 final size:77
Alignment explanation
Indices: 47582277--47582482 Score: 232
Period size: 80 Copynumber: 2.6 Consensus size: 77
47582267 CGGAATACAA
* * * *
47582277 CCGGATATAACCACATGCACGAATGCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGC
1 CCGGATTTAACAACTTGCACGAATGCTTCGGGTCTTAGCCCGGATAG-AC-ACTAGCACAAATGC
*
47582342 CTTCGGGTATTAGC
64 CTTCGGGTATTAAC
* * *
47582356 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAGTCACTAGCATAATTG
1 CCGGATTTAACAACTTGCACGAATG-CTTCGGGTCTTAGCCCGGA--TAGACACTAGCACAAATG
*
47582421 CCTTCGGGTCTTAAC
63 CCTTCGGGTATTAAC
* * ** *
47582436 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATTTAACAACTTGCACGAATG-CTTCGGGTCTTAGCCCGGATA
47582483 TCATTTAATT
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
78 2 0.02
79 22 0.20
80 81 0.74
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (77 bp):
CCGGATTTAACAACTTGCACGAATGCTTCGGGTCTTAGCCCGGATAGACACTAGCACAAATGCCT
TCGGGTATTAAC
Found at i:47586809 original size:38 final size:38
Alignment explanation
Indices: 47586767--47586841 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
47586757 GAAACTCTAG
47586767 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTTT
1 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTTT
47586805 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
1 GGATTTAATTGGAAATTAAAACAATTCTAACTATTTT
47586842 GGACTGTTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (38 bp):
GGATTTAATTGGAAATTAAAACAATTCTAACTATTTTT
Found at i:47587745 original size:18 final size:18
Alignment explanation
Indices: 47587724--47587759 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47587714 AATGAAGTTT
47587724 AATAAATAAATGCAAATG
1 AATAAATAAATGCAAATG
**
47587742 AATATGTAAATGCAAATG
1 AATAAATAAATGCAAATG
47587760 CAAATGGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.25
Consensus pattern (18 bp):
AATAAATAAATGCAAATG
Found at i:47587911 original size:31 final size:31
Alignment explanation
Indices: 47587876--47587934 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
47587866 GTCATTAAGG
47587876 TCTAAAAAGCAGCAGGTATGT-TGTACCAATT
1 TCTAAAAAGCAGCAGGTAT-TATGTACCAATT
* *
47587907 TCTAAAAAGTATCAGGTATTATGTACCA
1 TCTAAAAAGCAGCAGGTATTATGTACCA
47587935 GTGTTGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (31 bp):
TCTAAAAAGCAGCAGGTATTATGTACCAATT
Found at i:47589016 original size:2 final size:2
Alignment explanation
Indices: 47589009--47589041 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47588999 GAGACTAGTC
47589009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47589042 CATGTCATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47596355 original size:40 final size:40
Alignment explanation
Indices: 47596310--47596439 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
47596300 CGGAATACAA
47596310 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
47596350 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *
47596390 CCGGATATAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
47596430 CCGGATATAA
1 CCGGATATAA
47596440 TTCCAGCATA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:47611307 original size:47 final size:47
Alignment explanation
Indices: 47611188--47611413 Score: 244
Period size: 47 Copynumber: 4.8 Consensus size: 47
47611178 TGGGATATAT
* * * *
47611188 TGCCGATGCCATGTCCCAGACATGGTCTTACAGTGGCTCTCATATACGCG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCACTCATCT-C-TG
* ** *
47611238 AGCTAATG-CATGTCCCAGACATGTCTTACATTGGCACTCATCTCTG
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
* *
47611284 TGCCGATGCCATGTCCCAGACATGTCTTACATTAGCACTCATCTCTG
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
* **
47611331 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGG-ATCTCAT-AATG
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCA-CTCATCTCTG
*
47611378 TGGCCGAAG-CATGTCCCAGACATGTCTTACACTGGC
1 T-GCCGATGCCATGTCCCAGACATGTCTTACACTGGC
47611414 GCACAAATCA
Statistics
Matches: 153, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
46 18 0.12
47 78 0.51
48 38 0.25
49 14 0.09
50 5 0.03
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG
Found at i:47611794 original size:30 final size:30
Alignment explanation
Indices: 47611753--47611810 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47611743 AAATTTACAT
* * *
47611753 CTTTGGTAAAATGACTATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
47611783 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
47611811 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:47614693 original size:43 final size:43
Alignment explanation
Indices: 47614645--47614812 Score: 137
Period size: 43 Copynumber: 3.9 Consensus size: 43
47614635 ATCGAGATGT
*
47614645 GATTACATGTAAGACCATTTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* * * *
47614688 GATTACGTGTAAGACCATGTCTGGGGCATTGACATCAT-TAAT-A
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGA
* * * * * *
47614731 TATTTCATGTAAGGCCCTGTCTGGGACAGTGGCATTG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGA
* * * * *
47614774 GATAACATGCAAGACCATATATGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
47614813 GAGCTTATAT
Statistics
Matches: 95, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
41 2 0.02
42 9 0.09
43 80 0.84
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:47616898 original size:17 final size:17
Alignment explanation
Indices: 47616871--47616903 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47616861 TCTCCATTAC
47616871 AAATTTAAAAT-TTTAT
1 AAATTTAAAATGTTTAT
47616887 AAATTATAAAATGTTTA
1 AAATT-TAAAATGTTTA
47616904 AATGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATTTAAAATGTTTAT
Found at i:47618755 original size:40 final size:40
Alignment explanation
Indices: 47618711--47618820 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 40
47618701 AATTATTGAA
* * * *
47618711 TGAATACACATACGTGCCCCTGTTTGTACTTC-AGTACCCC
1 TGAATGCACATACGTGCCCCTATTTATACTTCGA-TACACC
*
47618751 TGAATGCACATATGTGCCCCTATTTATACTTCGATACACC
1 TGAATGCACATACGTGCCCCTATTTATACTTCGATACACC
* * *
47618791 TAAATGCACTTACGTGCCTCTATTTATACT
1 TGAATGCACATACGTGCCCCTATTTATACT
47618821 CCGGTAACTC
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
40 59 0.98
41 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTATACTTCGATACACC
Found at i:47620482 original size:62 final size:62
Alignment explanation
Indices: 47620412--47620536 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
47620402 AGCTCGTGCC
47620412 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
1 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
*
47620474 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGTCATTGATGAATGCTTGAGATTTTGAA
1 TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
47620536 T
1 T
47620537 GATTGTTGAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (62 bp):
TTAATTTTCAAGTTTATTGATGATTTTGTAAAGTGCCATTGATGAATGCTTGAGATTTTGAA
Found at i:47628566 original size:21 final size:21
Alignment explanation
Indices: 47628542--47628611 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
47628532 TGATCTAAAC
*
47628542 TCATTGAGTTGTGGTCTAAGT
1 TCATTGAGTTGTGGTCTGAGT
* * *
47628563 TCA-TGATATATGTGACATCTGAGC
1 TCATTGA-GT-TGTG--GTCTGAGT
47628587 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
47628608 TCAT
1 TCAT
47628612 GATGTATGTG
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
20 3 0.08
21 14 0.38
22 4 0.11
23 4 0.11
24 9 0.24
25 3 0.08
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:47630534 original size:14 final size:14
Alignment explanation
Indices: 47630515--47630543 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
47630505 TACTTATGAC
47630515 TTATTTCAATTTAG
1 TTATTTCAATTTAG
47630529 TTATTTCAATTTAG
1 TTATTTCAATTTAG
47630543 T
1 T
47630544 CTACATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATTTCAATTTAG
Found at i:47638050 original size:39 final size:39
Alignment explanation
Indices: 47638002--47638081 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
47637992 GATTTTTATT
47638002 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
1 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
47638041 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
1 AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
47638080 AA
1 AA
47638082 ATAGAGACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (39 bp):
AACAATATTAATTAATTTACCTATTTGCTTCCCTTTTAA
Found at i:47647780 original size:17 final size:16
Alignment explanation
Indices: 47647745--47647779 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
47647735 TTATACTTTT
47647745 AAATAAAAATTATGAA
1 AAATAAAAATTATGAA
47647761 AAATAAAAATTATGAA
1 AAATAAAAATTATGAA
47647777 AAA
1 AAA
47647780 AATCAGTTCC
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:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AAATAAAAATTATGAA
Found at i:47647855 original size:14 final size:14
Alignment explanation
Indices: 47647836--47647863 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
47647826 CGTACCAATA
47647836 CACCAACTAGTTTC
1 CACCAACTAGTTTC
47647850 CACCAACTAGTTTC
1 CACCAACTAGTTTC
47647864 TAGTTCGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.36, G:0.07, T:0.29
Consensus pattern (14 bp):
CACCAACTAGTTTC
Found at i:47648400 original size:23 final size:22
Alignment explanation
Indices: 47648352--47648399 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
47648342 TTGTGGGGTG
47648352 TTTTATGTTGAAATTTTTAAAA
1 TTTTATGTTGAAATTTTTAAAA
*
47648374 TTTTATGTTGGAATTTTTAAAA
1 TTTTATGTTGAAATTTTTAAAA
47648396 TTTT
1 TTTT
47648400 TTTATTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.58
Consensus pattern (22 bp):
TTTTATGTTGAAATTTTTAAAA
Found at i:47648890 original size:30 final size:30
Alignment explanation
Indices: 47648856--47648915 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
47648846 TTTTAATACA
47648856 AGAGGAATAGAATTTGTCTATTTATAGGCT
1 AGAGGAATAGAATTTGTCTATTTATAGGCT
*
47648886 AGAGGAATAGACTTTGTCTATTTATAGGCT
1 AGAGGAATAGAATTTGTCTATTTATAGGCT
47648916 TTGTAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (30 bp):
AGAGGAATAGAATTTGTCTATTTATAGGCT
Found at i:47650904 original size:47 final size:45
Alignment explanation
Indices: 47650835--47651100 Score: 205
Period size: 47 Copynumber: 5.7 Consensus size: 45
47650825 TGGGTAAAGT
* *
47650835 GCCGATGCTATGTCCCAGACATGGTCTTACATTGGCTTACATCTCAA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGACTTACATCTCAA
* * *
47650882 GCCGATGCAATGTCCCAAACATGGTTTTACACTGAC-TATCATCTTATA
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGACTTA-CATCTCA-A
* * * *
47650930 GCTGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACATC-TCAA
***
47650976 GCCGATGCATGTCCCAGACATGTCTTACACTAGA-TTTTGTCTCAA
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GACTTACATCTCAA
* * * * * * ***
47651021 TACTGATACCATGTCCCAGAAATGGTCTTAGACTGACTCT-CATAATGTG
1 -GCCGAT-GCATGTCCCAGACAT-GTCTTACACTGACT-TACAT-CTCAA
47651070 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
47651101 AGCTCACAAA
Statistics
Matches: 175, Mismatches: 33, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
45 2 0.01
46 65 0.37
47 83 0.47
48 23 0.13
49 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTTACATCTCAA
Found at i:47651927 original size:26 final size:24
Alignment explanation
Indices: 47651885--47651944 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
47651875 TTATTTCATT
* * *
47651885 AAATAAAAATTTTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
47651909 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
47651935 AAATAAATAT
1 AAATAAATAT
47651945 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:47651956 original size:22 final size:22
Alignment explanation
Indices: 47651915--47651973 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
47651905 ATAATAAATC
* *
47651915 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
47651935 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
47651957 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
47651974 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:47652050 original size:15 final size:16
Alignment explanation
Indices: 47652020--47652052 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
47652010 AAATAGTTAT
47652020 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
47652037 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
47652052 A
1 A
47652053 AAAAATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:47656726 original size:48 final size:48
Alignment explanation
Indices: 47656668--47657004 Score: 523
Period size: 48 Copynumber: 6.9 Consensus size: 48
47656658 TTGATGCATA
*
47656668 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
47656716 AGATATGTATATGGGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
47656764 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
47656812 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
*
47656864 AGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
47656912 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
*
47656962 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
47657005 TTAGGCGATG
Statistics
Matches: 266, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
47 1 0.00
48 173 0.65
49 5 0.02
50 43 0.16
51 2 0.01
52 42 0.16
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:47656924 original size:100 final size:98
Alignment explanation
Indices: 47656668--47657004 Score: 561
Period size: 100 Copynumber: 3.4 Consensus size: 98
47656658 TTGATGCATA
* *
47656668 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGGGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
47656733 AAAGCCGAATGGCTAATGTG-AA-ATATGTATG
66 AAAGCCGAATGGTTAATGTGAAATATATATATG
47656764 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
47656829 AAAGCTGAATGGTTAATGTGAAATATATATATATG
66 AAAGCCGAATGGTTAATGTG-AA-ATATATATATG
* *
47656864 AGATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
47656929 AAAGCCGAATGGTCAATGTGAAATATATATATG
66 AAAGCCGAATGGTTAATGTGAAATATATATATG
*
47656962 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
47657005 TTAGGCGATG
Statistics
Matches: 226, Mismatches: 11, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
96 81 0.36
98 53 0.23
99 3 0.01
100 89 0.39
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGTTAATGTGAAATATATATATG
Found at i:47656932 original size:148 final size:150
Alignment explanation
Indices: 47656668--47657004 Score: 535
Period size: 148 Copynumber: 2.3 Consensus size: 150
47656658 TTGATGCATA
* *
47656668 AGATATGTATACGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATG
* *
47656729 GGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-
66 GGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
*
47656793 CTAATGTG-AA-ATATGTATG
131 C-AATGTGAAATATATATATG
* *
47656812 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATG
*
47656877 TGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
66 GGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
47656942 CAATGTGAAATATATATATG
131 CAATGTGAAATATATATATG
*
47656962 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
47657005 TTAGGCGATG
Statistics
Matches: 175, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
144 34 0.19
146 1 0.01
147 1 0.01
148 88 0.50
149 3 0.02
150 48 0.27
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (150 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATGTATATG
GGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGCCGAATGGT
CAATGTGAAATATATATATG
Found at i:47657238 original size:36 final size:36
Alignment explanation
Indices: 47657153--47657261 Score: 173
Period size: 36 Copynumber: 3.0 Consensus size: 36
47657143 TGGAAATATA
*
47657153 TTCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
1 TTCCGGGTAAGACCCGATAACTACGTGTGGAGATT-T
* *
47657190 GTCCGGGTAAGACCCGATAACTACGTGTGAAGATTT
1 TTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
*
47657226 TTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
47657262 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
36 34 0.52
37 32 0.48
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (36 bp):
TTCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
Found at i:47658583 original size:40 final size:40
Alignment explanation
Indices: 47658529--47659035 Score: 683
Period size: 40 Copynumber: 12.7 Consensus size: 40
47658519 GAGTTATATA
* *
47658529 TATATCTGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
** * *
47658569 TATATTGGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
47658609 TATATCCGGGCTAAGTCTCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
47658649 TATATCCGGGCCAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
47658689 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
47658729 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* *
47658769 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
47658809 TGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
47658849 TATATCCAGGCTAAGTCTCC-AAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTC-CCGAAGAGCATTCGTGCTAGTGT
* * *
47658889 TATATCAGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*** * *
47658929 TATATCCGGGCTAAGTCTTAAAGAGCATTTGTGCTAGAGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
* * *
47658969 TATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
*
47659009 TATATCCGGGCTAGGTCCCGAAGAGCA
1 TATATCCGGGCTAAGTCCCGAAGAGCA
47659036 ATTATGCTGG
Statistics
Matches: 412, Mismatches: 53, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
39 2 0.00
40 408 0.99
41 2 0.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGT
Done.