Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 108 of 250
Found at i:34748168 original size:10 final size:10
Alignment explanation
Indices: 34748157--34748201 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
34748147 TTTGTACATA
*
34748157 ATATGCCATA
1 ATATGCCATG
34748167 ATATGCCATG
1 ATATGCCATG
*
34748177 ATATGAACATG
1 ATATG-CCATG
34748188 ATATGCCATG
1 ATATGCCATG
34748198 ATAT
1 ATAT
34748202 ATGTATATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:34748316 original size:24 final size:25
Alignment explanation
Indices: 34748257--34748314 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
34748247 AAGGGTTGTT
* *
34748257 CCCCAATTTACCAAAAAGGGCTTTG
1 CCCCAGTTTATCAAAAAGGGCTTTG
* *
34748282 TCGCAGTTTATCAAAAAGGGCTTTG
1 CCCCAGTTTATCAAAAAGGGCTTTG
34748307 CCCCAGTT
1 CCCCAGTT
34748315 ATTTAAAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (25 bp):
CCCCAGTTTATCAAAAAGGGCTTTG
Found at i:34755815 original size:25 final size:25
Alignment explanation
Indices: 34755765--34755815 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
34755755 CCCTTATAAT
* *
34755765 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
*
34755790 GTGAAAATGA-CTATTATACCCTTAG
1 GTGAAAATGACCT-TTATACCCCTAG
34755815 G
1 G
34755816 GTTATGTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:34755870 original size:10 final size:10
Alignment explanation
Indices: 34755859--34755903 Score: 72
Period size: 10 Copynumber: 4.4 Consensus size: 10
34755849 TTTGTACATA
*
34755859 ATATGCCATA
1 ATATGCCATG
34755869 ATATGCCATG
1 ATATGCCATG
34755879 ATATGCACATG
1 ATATGC-CATG
34755890 ATATGCCATG
1 ATATGCCATG
34755900 ATAT
1 ATAT
34755904 ATGTATATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
10 23 0.70
11 10 0.30
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:34755895 original size:21 final size:20
Alignment explanation
Indices: 34755859--34755903 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
34755849 TTTGTACATA
34755859 ATATGCCATAATATGCCATG
1 ATATGCCATAATATGCCATG
*
34755879 ATATGCACATGATATGCCATG
1 ATATGC-CATAATATGCCATG
34755900 ATAT
1 ATAT
34755904 ATGTATATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.31
Consensus pattern (20 bp):
ATATGCCATAATATGCCATG
Found at i:34755976 original size:25 final size:25
Alignment explanation
Indices: 34755948--34756016 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
34755938 AGGAAGTGAT
* *
34755948 AAAGGGCTATGCCCCAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTACCAA
*
34755973 AAAGGGCTTTGCCCCAGTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTACCAA
* *
34755998 AAAGGACTTTGCCCTAGTT
1 AAAGGGCTTTGCCCCAGTT
34756017 ATTTAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTACCAA
Found at i:34757678 original size:30 final size:31
Alignment explanation
Indices: 34757614--34757681 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 31
34757604 ACCCTTAAAA
* * *
34757614 TATTTACACTATTAGTCCTTCAAAATTTTTG
1 TATTTACACTATTAATCCCTCAAAATTTTAG
34757645 TATTTACACT-TTAATCCCTC-AAATTTTGAG
1 TATTTACACTATTAATCCCTCAAAATTTT-AG
34757675 TATTTAC
1 TATTTAC
34757682 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 7 0.21
30 16 0.48
31 10 0.30
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (31 bp):
TATTTACACTATTAATCCCTCAAAATTTTAG
Found at i:34760149 original size:46 final size:46
Alignment explanation
Indices: 34760084--34760442 Score: 418
Period size: 46 Copynumber: 7.8 Consensus size: 46
34760074 TTATCTTCGA
* * * *
34760084 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATAT
* * **
34760130 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT-CATAT
* * *
34760177 TATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
** *
34760223 CACATTGCCATGGTATCTTTCAACCATTGTCTTACAT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATAT
* *
34760269 CATGTTGCCATGGTATCTTTCAACCAGGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
34760315 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACGCATTTCATAA
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
34760361 CATGTTGCCATGGTATCTTTCAACCATTGTCTTACACATTTGA-AT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
** * * * * *
34760406 CGCGATGCCATAGCATCTTTCAGCTATGGTCTTACTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC
34760443 GTCTGAATCA
Statistics
Matches: 270, Mismatches: 39, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
45 32 0.12
46 196 0.73
47 42 0.16
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:34760438 original size:45 final size:45
Alignment explanation
Indices: 34760366--34760485 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 45
34760356 CATAACATGT
* * * * * * *
34760366 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTGAATCGCGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACACATCTGAATCACGA
* * *
34760411 TGCCATAGCATCTTTCAGCTATGGTCTTACTCGTCTGAATCATGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACACATCTGAATCACGA
* *
34760456 TGCCATAGCGTCTTTTAGCTATGGTCTTAC
1 TGCCATAGCATCTTTCAGCTATGGTCTTAC
34760486 TCGTTTCTGG
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAGCTATGGTCTTACACATCTGAATCACGA
Found at i:34763168 original size:20 final size:19
Alignment explanation
Indices: 34763143--34763215 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
34763133 ATATATATAC
34763143 TAAATAAAATAATTAAATAT
1 TAAAT-AAATAATTAAATAT
** *
34763163 TAAATATCTTATTAAAATAT
1 TAAATAAATAATT-AAATAT
*
34763183 TAAATAAATAA-TAATTAT
1 TAAATAAATAATTAAATAT
*
34763201 CTAATTAAATAATTA
1 -TAAATAAATAATTA
34763216 TAAAATATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
18 5 0.12
19 16 0.38
20 21 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATAAATAATTAAATAT
Found at i:34763477 original size:30 final size:31
Alignment explanation
Indices: 34763422--34763480 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
34763412 CACCCTTAAA
* * *
34763422 ATATTTGCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTT
34763453 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
34763481 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.19, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTT
Found at i:34763488 original size:30 final size:31
Alignment explanation
Indices: 34763422--34763490 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
34763412 CACCCTTAAA
* * * *
34763422 ATATTTGCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTG
34763453 ATATTTACACT-TTAATCCCTCAAA-TTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTTG
34763482 AGTATTTAC
1 A-TATTTAC
34763491 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTG
Found at i:34769877 original size:11 final size:10
Alignment explanation
Indices: 34769853--34769936 Score: 80
Period size: 11 Copynumber: 7.7 Consensus size: 10
34769843 AGTTTTGAAA
*
34769853 AAAAAACATGC
1 AAAAAA-ATTC
34769864 AAAAAAAGTTC
1 AAAAAAA-TTC
34769875 AAAAAAATTC
1 AAAAAAATTC
34769885 GAAAAAAAGTTC
1 -AAAAAAA-TTC
34769897 AAAAAAATTC
1 AAAAAAATTC
34769907 GAAAAAAATT-
1 -AAAAAAATTC
34769917 AGGAAAAAAGTTC
1 A--AAAAAA-TTC
34769930 AAAAAAA
1 AAAAAAA
34769937 AGTTTGAAGA
Statistics
Matches: 64, Mismatches: 1, Indels: 16
0.79 0.01 0.20
Matches are distributed among these distances:
9 1 0.02
10 7 0.11
11 50 0.78
12 5 0.08
13 1 0.02
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:34769879 original size:12 final size:12
Alignment explanation
Indices: 34769864--34769964 Score: 79
Period size: 11 Copynumber: 8.6 Consensus size: 12
34769854 AAAAACATGC
34769864 AAAAAAAGTTC-
1 AAAAAAAGTTCA
*
34769875 AAAAAAA-TTCG
1 AAAAAAAGTTCA
34769886 AAAAAAAGTTC-
1 AAAAAAAGTTCA
*
34769897 AAAAAAA-TTCG
1 AAAAAAAGTTCA
34769908 AAAAAAA-TT-A
1 AAAAAAAGTTCA
*
34769918 GGAAAAAAGTTCA
1 -AAAAAAAGTTCA
*
34769931 AAAAAAAGTTTGAA
1 AAAAAAAG-TT-CA
*
34769945 GAAAAAAATTTCA
1 -AAAAAAAGTTCA
34769958 AAAAAAA
1 AAAAAAA
34769965 AATTGAAATT
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
10 6 0.08
11 36 0.48
12 19 0.25
13 4 0.05
14 3 0.04
15 7 0.09
ACGTcount: A:0.66, C:0.06, G:0.10, T:0.18
Consensus pattern (12 bp):
AAAAAAAGTTCA
Found at i:34769889 original size:22 final size:22
Alignment explanation
Indices: 34769864--34769940 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
34769854 AAAAACATGC
34769864 AAAAAAAGTTCAAAAAAATTCG
1 AAAAAAAGTTCAAAAAAATTCG
34769886 AAAAAAAGTTCAAAAAAATTCG
1 AAAAAAAGTTCAAAAAAATTCG
*
34769908 AAAAAAA-TT-AGGAAAAAAGTTCA
1 AAAAAAAGTTCA--AAAAAA-TTCG
34769931 AAAAAAAGTT
1 AAAAAAAGTT
34769941 TGAAGAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
20 1 0.02
21 2 0.04
22 35 0.70
23 10 0.20
24 2 0.04
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.18
Consensus pattern (22 bp):
AAAAAAAGTTCAAAAAAATTCG
Found at i:34769900 original size:33 final size:33
Alignment explanation
Indices: 34769863--34769936 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 33
34769853 AAAAAACATG
*
34769863 CAAAAAAAGTTC-AAAAAAATTCGAAAAAAAGTT
1 CAAAAAAA-TTCGAAAAAAATTAGAAAAAAAGTT
*
34769896 CAAAAAAATTCGAAAAAAATTAGGAAAAAAGTT
1 CAAAAAAATTCGAAAAAAATTAGAAAAAAAGTT
34769929 CAAAAAAA
1 CAAAAAAA
34769937 AGTTTGAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 3 0.08
33 35 0.92
ACGTcount: A:0.66, C:0.08, G:0.09, T:0.16
Consensus pattern (33 bp):
CAAAAAAATTCGAAAAAAATTAGAAAAAAAGTT
Found at i:34769951 original size:15 final size:13
Alignment explanation
Indices: 34769920--34769965 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
34769910 AAAAATTAGG
*
34769920 AAAAAAGTTCAAA
1 AAAAAATTTCAAA
* *
34769933 AAAAAGTTTGAAGA
1 AAAAAATTTCAA-A
34769947 AAAAAATTTCAAA
1 AAAAAATTTCAAA
34769960 AAAAAA
1 AAAAAA
34769966 ATTGAAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (13 bp):
AAAAAATTTCAAA
Found at i:34769967 original size:14 final size:14
Alignment explanation
Indices: 34769920--34769968 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
34769910 AAAAATTAGG
*
34769920 AAAAAAGTTC-AAA
1 AAAAAATTTCAAAA
* * *
34769933 AAAAAGTTTGAAGA
1 AAAAAATTTCAAAA
34769947 AAAAAATTTCAAAA
1 AAAAAATTTCAAAA
34769961 AAAAAATT
1 AAAAAATT
34769969 GAAATTAGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
13 7 0.25
14 21 0.75
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.20
Consensus pattern (14 bp):
AAAAAATTTCAAAA
Found at i:34769970 original size:27 final size:27
Alignment explanation
Indices: 34769908--34769971 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
34769898 AAAAAATTCG
*
34769908 AAAAAAATT--AGGAAAAAAGTTCAAA
1 AAAAAAATTGAAGAAAAAAAGTTCAAA
** *
34769933 AAAAAGTTTGAAGAAAAAAATTTCAAA
1 AAAAAAATTGAAGAAAAAAAGTTCAAA
34769960 AAAAAAATTGAA
1 AAAAAAATTGAA
34769972 ATTAGAACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
25 7 0.23
27 24 0.77
ACGTcount: A:0.67, C:0.03, G:0.11, T:0.19
Consensus pattern (27 bp):
AAAAAAATTGAAGAAAAAAAGTTCAAA
Found at i:34772086 original size:16 final size:17
Alignment explanation
Indices: 34772067--34772102 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
34772057 GAAGATTGTC
*
34772067 AAAAAATAA-AAGAAGA
1 AAAAAATAAGAAAAAGA
34772083 AAAAAATAAGAAAAAGA
1 AAAAAATAAGAAAAAGA
34772100 AAA
1 AAA
34772103 CAAAAGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAAATAAGAAAAAGA
Found at i:34775129 original size:100 final size:98
Alignment explanation
Indices: 34774989--34775625 Score: 749
Period size: 100 Copynumber: 6.4 Consensus size: 98
34774979 TAACCAAAGC
* *
34774989 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACGTAG
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACGTAG
*
34775054 TAGCCTGCACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * *
34775089 TATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACGTAG
*
34775154 TAGCCTGCACTTAGTACTACACACGTGACCTAAC
66 TAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * * *
34775188 CATCTGATACACGTAGTAGGCTGCACTTAGTACTACACAGTG-ATCGAAGTTAT-CGAGTACGCA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA-TGCAACCAA-TTATCCG-GTACACG
* *
34775251 TAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
63 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * ** ** * *
34775287 TATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACACGTA
*
34775352 GTAGCCTGCACTTAGTACTACACACGTGATCAAAGT
65 GTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
34775388 TAT-TGGGTACGCATAGTAGCCTGTACTTAGTACTACACATGCGACCAATAATCCGGTACACGTA
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACGTA
*
34775452 GTAGCCTGCACTTAGTACTACACACGTGACCTAAC
65 GTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * * * * *
34775487 AATCTGATACACGTAGTAGCCTGCACTTAGTACTACAGATGTGATCAAAGTTATCGGGTACGCAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATG-CAACCAA-TTATCCGGTACACGT
* *
34775552 AGTAGCCTGCACTTAGTACTACACATGCGACCAAT
64 AGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
34775587 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
34775626 CGTGACCTCA
Statistics
Matches: 459, Mismatches: 64, Indels: 28
0.83 0.12 0.05
Matches are distributed among these distances:
98 1 0.00
99 149 0.32
100 229 0.50
101 80 0.17
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (98 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:34775469 original size:150 final size:150
Alignment explanation
Indices: 34775002--34775633 Score: 1052
Period size: 150 Copynumber: 4.2 Consensus size: 150
34774992 CTGGTACGCA
* ** ** * *
34775002 TAGTAGCCTGCACTTAGTACTACACATGCAACC-AATTATCCGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
34775066 AGTACTACACACGTGATCGAAGTTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
*
34775131 GACCAATTATCCGGTACACG
131 GACCAATAATCCGGTACACG
*
34775151 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGGCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
34775216 AGTACTACACA-GTGATCGAAGTTATCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
* * *
34775280 GACCAATTATCTGATACACG
131 GACCAATAATCCGGTACACG
34775300 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
34775365 AGTACTACACACGTGATCAAAGTTATTGGGTACGCATAGTAGCCTGTACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
34775430 GACCAATAATCCGGTACACG
131 GACCAATAATCCGGTACACG
*
34775450 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* *
34775515 AGTACTACAGATGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
66 AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
*
34775580 GACCAATAATCTGGTACACG
131 GACCAATAATCCGGTACACG
34775600 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT
34775634 CATAATAGAT
Statistics
Matches: 455, Mismatches: 26, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
149 174 0.38
150 281 0.62
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (150 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCAAAGTTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
GACCAATAATCCGGTACACG
Found at i:34778792 original size:40 final size:40
Alignment explanation
Indices: 34778720--34778904 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
34778710 GCTACTCGTT
* * *
34778720 CAAATGCTTTCGGGACATAGGCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
34778760 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
34778800 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34778839 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34778880 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34778905 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34778837 original size:79 final size:80
Alignment explanation
Indices: 34778748--34778904 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
34778738 AGGCCGGTTA
* * *
34778748 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACCAATGCCTTC
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA-CAAAGCCTTC
34778811 GGG-CTTAGCCCGGAAT
64 GGGACTTAGCCCGGAAT
* ** * *
34778827 TAGTAGCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
34778892 GACTTAGCCCGGA
66 GACTTAGCCCGGA
34778905 CATCATTCGA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 3 0.04
79 49 0.73
80 15 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGGAAT
Found at i:34784873 original size:27 final size:27
Alignment explanation
Indices: 34784843--34785018 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
34784833 ATATTGAGTC
* *
34784843 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
34784870 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
34784897 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34784925 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
34784952 CGCACACTTAGTGC-ATCAT--TCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
34784977 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
34785004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34785019 GTACAATTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
25 22 0.17
26 1 0.01
27 82 0.64
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34785001 original size:52 final size:54
Alignment explanation
Indices: 34784843--34785018 Score: 198
Period size: 55 Copynumber: 3.3 Consensus size: 54
34784833 ATATTGAGTC
* * * * *
34784843 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
34784897 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATA-TCAAACTCGCACACTTAGTGCAACATAGTCAAAT
**
34784952 CGCACACTTAGTGC-ATCAT-TC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATATCAAACTCGCACACTTAGTGCAACATAGTCAAAT
34785004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34785019 GTACAATTTA
Statistics
Matches: 104, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
52 39 0.38
53 3 0.03
54 20 0.19
55 42 0.40
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATATCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:34790248 original size:78 final size:81
Alignment explanation
Indices: 34790126--34790306 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 81
34790116 TACTCGTTCA
* *
34790126 AATG-CTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
34790188 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
34790205 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
34790267 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
34790283 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
34790307 CATCATTCGA
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
77 3 0.03
78 45 0.51
79 32 0.36
80 8 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:34790306 original size:40 final size:40
Alignment explanation
Indices: 34790105--34790306 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
34790095 CGGAATTTAA
** *
34790105 CCGGATATAGCT-ACTCGTTCAAATG-CTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34790144 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34790184 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34790223 CCGGA-ATTAGT-ACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34790262 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34790302 CCGGA
1 CCGGA
34790307 CATCATTCGA
Statistics
Matches: 139, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
37 2 0.01
38 18 0.13
39 47 0.34
40 61 0.44
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34805938 original size:10 final size:10
Alignment explanation
Indices: 34805923--34805948 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
34805913 TGGAAACTTT
34805923 AAACTACACA
1 AAACTACACA
34805933 AAACTACACA
1 AAACTACACA
34805943 AAACTA
1 AAACTA
34805949 TACGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.27, G:0.00, T:0.12
Consensus pattern (10 bp):
AAACTACACA
Found at i:34807133 original size:15 final size:15
Alignment explanation
Indices: 34807113--34807141 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34807103 CTCGGTTCAT
34807113 TAACCCAATTTTTAA
1 TAACCCAATTTTTAA
34807128 TAACCCAATTTTTA
1 TAACCCAATTTTTA
34807142 GGATGTGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (15 bp):
TAACCCAATTTTTAA
Found at i:34809117 original size:26 final size:27
Alignment explanation
Indices: 34809056--34809117 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
34809046 CCACAAGGAA
* *
34809056 CATTTCTTTAGGGTATGCCACGAAAGC
1 CATTTCTTTAGAGTACGCCACGAAAGC
* *
34809083 CATTCCTTTAGAGTACGCCAC-AAAGG
1 CATTTCTTTAGAGTACGCCACGAAAGC
34809109 CATTTCTTT
1 CATTTCTTT
34809118 CAGTTTATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (27 bp):
CATTTCTTTAGAGTACGCCACGAAAGC
Found at i:34809182 original size:27 final size:27
Alignment explanation
Indices: 34809152--34809229 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
34809142 CTTTTAGAGA
*
34809152 TTTCCACAAATGCTATTCTTTCATAAT
1 TTTCCACAAAAGCTATTCTTTCATAAT
*
34809179 TTTCCACAAAAGTTATTCTTTCATAAT
1 TTTCCACAAAAGCTATTCTTTCATAAT
34809206 TTTCCACAAAAGCTATTCTTTCAT
1 TTTCCACAAAAGCTATTCTTTCAT
34809230 GACATGTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.04, T:0.44
Consensus pattern (27 bp):
TTTCCACAAAAGCTATTCTTTCATAAT
Found at i:34810973 original size:29 final size:29
Alignment explanation
Indices: 34810941--34811070 Score: 136
Period size: 29 Copynumber: 4.5 Consensus size: 29
34810931 TTTATCAAGC
34810941 ACTATGTACCGGTGTTATATTTATTAGGT
1 ACTATGTACCGGTGTTATATTTATTAGGT
* ** *
34810970 ACTATGTATCGGTGACCATA-TTATCAGGT
1 ACTATGTACCGGTG-TTATATTTATTAGGT
* * *
34810999 ACTTTGTATCGGTGTTATATTTATTAGGC
1 ACTATGTACCGGTGTTATATTTATTAGGT
* * * *
34811028 ATTATATGCCGGTGTTATATTTATAAGGT
1 ACTATGTACCGGTGTTATATTTATTAGGT
*
34811057 ACTATGTACTGGTG
1 ACTATGTACCGGTG
34811071 GTGGATACCA
Statistics
Matches: 79, Mismatches: 20, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
28 3 0.04
29 73 0.92
30 3 0.04
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.42
Consensus pattern (29 bp):
ACTATGTACCGGTGTTATATTTATTAGGT
Found at i:34819300 original size:24 final size:24
Alignment explanation
Indices: 34819249--34819344 Score: 142
Period size: 24 Copynumber: 4.0 Consensus size: 24
34819239 GCTTTATCAT
*
34819249 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
34819274 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34819298 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34819321 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34819345 CACTTCCTCC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.47
25 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34819324 original size:23 final size:23
Alignment explanation
Indices: 34819270--34819342 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
34819260 CCTAGCCTCT
*
34819270 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34819293 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
34819317 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34819340 TTT
1 TTT
34819343 TACACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:34819418 original size:20 final size:20
Alignment explanation
Indices: 34819393--34819459 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
34819383 TTATGATTAC
34819393 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
34819413 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34819433 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
34819453 ACCATGT
1 ATCATGT
34819460 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:34819424 original size:11 final size:11
Alignment explanation
Indices: 34819393--34819448 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
34819383 TTATGATTAC
34819393 ATCATGTGCAT
1 ATCATGTGCAT
*
34819404 ATCA--TACAT
1 ATCATGTGCAT
34819413 ATCATGTGCAT
1 ATCATGTGCAT
*
34819424 ATCA--TACAT
1 ATCATGTGCAT
*
34819433 GTCATGTGCAT
1 ATCATGTGCAT
34819444 ATCAT
1 ATCAT
34819449 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:34824028 original size:73 final size:73
Alignment explanation
Indices: 34823923--34824062 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
34823913 AGGTTTTTGC
* * * * * * **
34823923 GTATAGTAGTAAAATAGTTTGTCTAGCGAAGTGTAATCTACCCAATTTCATATTGTGGTGTATAC
1 GTATAGTAGTAAAATAATCTGTCTAGCAAAGTGCAATCCACCCAAGTTCATATTGTGGCATATAC
34823988 GTGTGGGT
66 GTGTGGGT
* * *
34823996 GTATAGTAGTAAAATAATCTGTCTGGCAAAGTGCAATCCGCCCAAGTTCATGTTGTGGCATATAC
1 GTATAGTAGTAAAATAATCTGTCTAGCAAAGTGCAATCCACCCAAGTTCATATTGTGGCATATAC
34824061 GT
66 GT
34824063 AATCAAATAA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (73 bp):
GTATAGTAGTAAAATAATCTGTCTAGCAAAGTGCAATCCACCCAAGTTCATATTGTGGCATATAC
GTGTGGGT
Found at i:34825976 original size:13 final size:13
Alignment explanation
Indices: 34825905--34825939 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
34825895 CAAAAACAAC
*
34825905 TTAATAAGCTTAA
1 TTAATAAACTTAA
*
34825918 TTAATAGACTTAA
1 TTAATAAACTTAA
34825931 TTAATAAAC
1 TTAATAAAC
34825940 ACATTTAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (13 bp):
TTAATAAACTTAA
Found at i:34830004 original size:11 final size:11
Alignment explanation
Indices: 34829976--34830010 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
34829966 ATCAACCAAA
*
34829976 AAATTTATTTT
1 AAATTGATTTT
34829987 AAA-TGATTTT
1 AAATTGATTTT
34829997 AAATTGATTTT
1 AAATTGATTTT
34830008 AAA
1 AAA
34830011 AACCACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (11 bp):
AAATTGATTTT
Found at i:34837691 original size:23 final size:23
Alignment explanation
Indices: 34837664--34837709 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34837654 TTGCAAACTC
34837664 CTTATTGTATACTCTTTATGAAA
1 CTTATTGTATACTCTTTATGAAA
34837687 CTTATTGTATACTCTTTATGAAA
1 CTTATTGTATACTCTTTATGAAA
34837710 GCAATTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (23 bp):
CTTATTGTATACTCTTTATGAAA
Found at i:34846950 original size:51 final size:49
Alignment explanation
Indices: 34846868--34847063 Score: 212
Period size: 50 Copynumber: 3.9 Consensus size: 49
34846858 TCTATTGTGA
* *
34846868 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* ** * * **
34846918 CGATCACGTGTGTAGTACTAAGTGCAACCTACTACGTGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * * *
34846968 AGGTCATGTGGGTAGTACTAAGTGCAGGCTACTACGTGCACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
34847018 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
34847064 GCTTTGGCTA
Statistics
Matches: 117, Mismatches: 28, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
49 38 0.32
50 41 0.35
51 38 0.32
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:34853421 original size:43 final size:44
Alignment explanation
Indices: 34853374--34853499 Score: 122
Period size: 43 Copynumber: 2.9 Consensus size: 44
34853364 TCTTACATGT
34853374 AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACAC-AA
1 AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACGAA
* * * *
34853417 AATCATATA-CGATGCTGA-TGTCCCAGACATGGTCTTACACGAA
1 AATCAAATATCGATGC-CACTATCCCAGACAGGGTCTTACACGAA
*
34853460 ATATCAAGT-T-GATGCCAAC-ATCCCAGAC-GTGGTCTTACAC
1 A-ATCAAATATCGATGCC-ACTATCCCAGACAG-GGTCTTACAC
34853500 TATCACACCT
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
42 26 0.39
43 36 0.54
44 5 0.07
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (44 bp):
AATCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACGAA
Found at i:34854586 original size:39 final size:39
Alignment explanation
Indices: 34854543--34854655 Score: 163
Period size: 39 Copynumber: 2.9 Consensus size: 39
34854533 CCAGACATAT
* * * *
34854543 TTCCAGCACGTAGCCTGCAGACCTTAAGTCCGGTTATAA
1 TTCCAGCACATAGCCTACGGACCTTAAGTCCGGATATAA
*
34854582 TTCCAGCACATAGCCTATGGACCTTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTACGGACCTTAAGTCCGGATATAA
* *
34854621 TTCTAGCACATAGCCTACGGACCCTAAGTCCGGAT
1 TTCCAGCACATAGCCTACGGACCTTAAGTCCGGAT
34854656 GAACATCACT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (39 bp):
TTCCAGCACATAGCCTACGGACCTTAAGTCCGGATATAA
Found at i:34856010 original size:27 final size:27
Alignment explanation
Indices: 34855861--34856254 Score: 176
Period size: 27 Copynumber: 14.6 Consensus size: 27
34855851 TTAGTTTACC
* * * *
34855861 AAATTACTAAAATGCCCTCAAATTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* *
34855888 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* *** * *
34855915 TAA-TACTATTTTACCATCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* *****
34855941 GAATTACCGTTTTACCCTCGATTTATA
1 AAATTACTAAAATACCCTCGATTTATA
* **** *
34855968 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
34855995 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
34856022 AAATTACCAAAAAAACCTCGA-TTAGTA
1 AAATTACTAAAATACCCTCGATTTA-TA
* * *
34856049 AAATTACCAAAATACCCTAG-TTTGTA
1 AAATTACTAAAATACCCTCGATTTATA
* * *
34856075 AAATTGCTAAAATACCC-CTGGTTTGTA
1 AAATTACTAAAATACCCTC-GATTTATA
* * *
34856102 AAATTACCAAAATACCACTAG-TTTGTA
1 AAATTACTAAAATACC-CTCGATTTATA
* * *
34856129 AAATTA-TCGAAATACCCTCAATTTGTA
1 AAATTACT-AAAATACCCTCGATTTATA
* *
34856156 AAATTACCAAAATACCC-CTGATTTACA
1 AAATTACTAAAATACCCTC-GATTTATA
* * *
34856183 AAGTTAC-AGAAATACCCTTGACTTTCTAA
1 AAATTACTA-AAATACCCTCGA-TTTAT-A
* * * *
34856212 AAATTA-TAGAAATACCATTGGTTTACA
1 AAATTACTA-AAATACCCTCGATTTATA
*
34856239 AAATTACTGAAATACC
1 AAATTACTAAAATACC
34856255 ATTGGTTTGT
Statistics
Matches: 288, Mismatches: 62, Indels: 34
0.75 0.16 0.09
Matches are distributed among these distances:
26 44 0.15
27 217 0.75
28 9 0.03
29 18 0.06
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTATA
Found at i:34856105 original size:80 final size:81
Alignment explanation
Indices: 34855980--34856189 Score: 244
Period size: 80 Copynumber: 2.6 Consensus size: 81
34855970 ATTACTGTTT
* ** * *
34855980 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAAAAACCTCGA-T
1 TACCCTCAATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACC-AAAAAACCACGAGT
34856044 TAGTAAAATTACCAAAA
65 TAGTAAAATTACCAAAA
* * ** * *
34856061 TACCCT-AGTTTGTAAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCACTAGTT
1 TACCCTCAATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAAAACCACGAGTT
* * *
34856125 TGTAAAATTATCGAAA
66 AGTAAAATTACCAAAA
* * *
34856141 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTAC
1 TACCCTCAATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTAC
34856190 AGAAATACCC
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
79 9 0.08
80 56 0.53
81 41 0.39
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAAAACCACGAGTT
AGTAAAATTACCAAAA
Found at i:34856200 original size:54 final size:54
Alignment explanation
Indices: 34855980--34856174 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
34855970 ATTACTGTTT
** * * * **
34855980 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
* * * * *
34856034 AAACCTCGATTAGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
* * * *
34856087 TACCC-CTGGTTTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
*
34856141 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCGATTTGTAAAATTACCAAAATACCCCT
34856175 GATTTACAAA
Statistics
Matches: 114, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
52 1 0.01
53 41 0.36
54 71 0.62
55 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
Found at i:34856272 original size:27 final size:27
Alignment explanation
Indices: 34856211--34856262 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
34856201 TGACTTTCTA
34856211 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
34856238 AAAATTACTGAAATACCATTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
34856263 GTAGATTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:34856407 original size:27 final size:27
Alignment explanation
Indices: 34856317--34856407 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
34856307 CCCCTATTAA
*
34856317 GTAAAAAGACCGTAAAGCCCCTGTAGG
1 GTAAAATGACCGTAAAGCCCCTGTAGG
*
34856344 GTAAAGA-GACCGTAAAGCTCCTGTAGG
1 GTAAA-ATGACCGTAAAGCCCCTGTAGG
* *
34856371 GTAAAGTGACCGTAATA-CCCCTGTATG
1 GTAAAATGACCGTAA-AGCCCCTGTAGG
34856398 GTAAAATGAC
1 GTAAAATGAC
34856408 GAATATGCCC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GTAAAATGACCGTAAAGCCCCTGTAGG
Found at i:34857235 original size:26 final size:26
Alignment explanation
Indices: 34857206--34857393 Score: 258
Period size: 26 Copynumber: 7.3 Consensus size: 26
34857196 GAGGAAGTGC
34857206 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
34857232 AAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
34857258 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
***
34857284 AAAAGGGCTTATGCCCCAGTTTGCCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
34857310 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
34857336 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
34857361 AAAAGGG-TTTTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
34857384 AAAAGAGGCT
1 AAAAG-GGCT
34857394 AGGCCTCCAG
Statistics
Matches: 143, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
23 5 0.03
24 7 0.05
25 29 0.20
26 102 0.71
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:34857268 original size:52 final size:52
Alignment explanation
Indices: 34857206--34857393 Score: 312
Period size: 52 Copynumber: 3.7 Consensus size: 52
34857196 GAGGAAGTGC
*
34857206 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATACCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
34857258 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTGCCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
34857310 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
34857361 AAAAGGG-TTTTGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
34857394 AGGCCTCCAG
Statistics
Matches: 131, Mismatches: 4, Indels: 5
0.94 0.03 0.04
Matches are distributed among these distances:
48 5 0.04
49 9 0.07
50 10 0.08
51 21 0.16
52 86 0.66
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:34857676 original size:31 final size:31
Alignment explanation
Indices: 34857599--34857677 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
34857589 CGTTTACAGT
*
34857599 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34857630 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34857661 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
34857678 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34864048 original size:46 final size:46
Alignment explanation
Indices: 34863981--34864155 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
34863971 TGTAACCCGC
*
34863981 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
34864027 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
34864077 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGTACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
34864120 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
34864156 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 59 0.57
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:34864100 original size:93 final size:93
Alignment explanation
Indices: 34863988--34864159 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
34863978 CGCCCATAAG
* *
34863988 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
34864053 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * *
34864081 CGAACTCGGACTCAACTCAACGAGTTTGTACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
34864146 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
34864160 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:34865475 original size:27 final size:27
Alignment explanation
Indices: 34865444--34865523 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
34865434 CGGGATATTA
*
34865444 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTCAGTAATTTTACAAAC
* **
34865471 CAAGGGTATTTCATTAATTTTACAATT
1 CAAGGGTATTTCAGTAATTTTACAAAC
*
34865498 C-GGGGTATTTC-GATAATTTTACAAAC
1 CAAGGGTATTTCAG-TAATTTTACAAAC
34865524 TGGGGTCTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 20 0.45
27 24 0.55
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTACAAAC
Found at i:34865528 original size:26 final size:26
Alignment explanation
Indices: 34865447--34865529 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
34865437 GATATTACAA
* * **
34865447 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTCATTAATTTTACAAA-CTG
*
34865474 GGGTATTTCATTAATTTTAC-AATTCG
1 GGGTATTTCATTAATTTTACAAACT-G
34865500 GGGTATTTCGA-TAATTTTACAAACTG
1 GGGTATTTC-ATTAATTTTACAAACTG
34865526 GGGT
1 GGGT
34865530 CTTAACGACC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 25 0.53
27 22 0.47
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (26 bp):
GGGTATTTCATTAATTTTACAAACTG
Found at i:34868502 original size:14 final size:15
Alignment explanation
Indices: 34868483--34868511 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34868473 TTACATTCTT
34868483 TTTAG-TTATTTTTA
1 TTTAGTTTATTTTTA
34868497 TTTAGTTTATTTTTA
1 TTTAGTTTATTTTTA
34868512 GTGAGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (15 bp):
TTTAGTTTATTTTTA
Found at i:34870324 original size:184 final size:184
Alignment explanation
Indices: 34869816--34870372 Score: 814
Period size: 185 Copynumber: 3.0 Consensus size: 184
34869806 GAGATAATAA
* * * **
34869816 TAAATTACAATTATTTCTAGAAATCACAACTTTGGAAAAATTACTTTATCATCCACGGCAATAAA
1 TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAAA
* * * ** * *
34869881 ATAATTGCATATATTCATTCATATGCATTCCCTGAAACATGCATACAATTACAAGAATGTCACAT
66 TTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACAT
* * *
34869946 CTTATCAAAAATAATCATACATAAAGAAGAGAGAATTTTGGTCTCAGTTTACAC
131 CTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
* ** *
34870000 TAAATTACATTTAATCTCTAGGAATC-CTAAATTTGGAAATTTTACTTTATCTTCCATAGCAATA
1 TAAATTACATTT-ATTTCTAGGAATCAC-AAATTTGGAAAAATTACTTTATCATCCATAGCAATA
* *
34870064 AATTAATTACATACATTCATTCGCATACATTCCTCAAAACATGCATACAATTACAAGAATGTCAC
64 AATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCAC
*
34870129 ATCTTATCAAATATAATCATACATGAAGAATAGAGAATTTTGGTCTAAGTTTACAC
129 ATCTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
34870185 TAAATTACATTTATTTTCTAGGAATCACAAATTT-GAAAAATTACTTTATCATCCATAGCAATAA
1 TAAATTACATTTA-TTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAA
*
34870249 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTATAAGAATGTCACA
65 ATTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACA
* *
34870314 TCTTATCAAATATACTCATACATGAAGAAGAGAAAGAATTTTTGTCTCAA-TTTACAC
130 TCTTATCAAATATAATCATACATGAAGAAGAG--AGAATTTTGGTCT-AAGTTTACAC
34870371 TA
1 TA
34870373 TAAACATAGC
Statistics
Matches: 334, Mismatches: 32, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
184 132 0.40
185 178 0.53
186 22 0.07
187 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (184 bp):
TAAATTACATTTATTTCTAGGAATCACAAATTTGGAAAAATTACTTTATCATCCATAGCAATAAA
TTAATTACATACATTCATTCGCATACATTCCCCGAAACATGCATACAATTACAAGAATGTCACAT
CTTATCAAATATAATCATACATGAAGAAGAGAGAATTTTGGTCTAAGTTTACAC
Found at i:34874491 original size:21 final size:18
Alignment explanation
Indices: 34874465--34874511 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 18
34874455 TTTTCCGTTA
34874465 TTTATAAATTGTAAAGTTATT
1 TTTATAAATT-TAAA--TATT
34874486 TTTATAATATTTAAATATT
1 TTTATAA-ATTTAAATATT
34874505 TTT-TAAA
1 TTTATAAA
34874512 AAAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 7 0.28
21 11 0.44
22 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTTATAAATTTAAATATT
Found at i:34874554 original size:27 final size:27
Alignment explanation
Indices: 34874512--34874575 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
34874502 ATTTTTTAAA
34874512 AAAAT-TATATTTT-AT-TTTTAA-TTT
1 AAAATATA-ATTTTAATATTTTAATTTT
*
34874536 ATAATATAATTTTAATATTTTAATTTT
1 AAAATATAATTTTAATATTTTAATTTT
*
34874563 AAAATATCATTTT
1 AAAATATAATTTT
34874576 TATTTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 9 0.27
25 4 0.12
26 6 0.18
27 14 0.42
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
AAAATATAATTTTAATATTTTAATTTT
Found at i:34876054 original size:10 final size:10
Alignment explanation
Indices: 34876016--34876053 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
34876006 TTAAAAATTT
34876016 AAAAATTACA
1 AAAAATTACA
34876026 AAAAATTACA
1 AAAAATTACA
34876036 AAAAATTA-A
1 AAAAATTACA
34876045 AATAAATTA
1 AA-AAATTA
34876054 ATTCAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 3 0.11
10 24 0.89
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATTACA
Found at i:34876079 original size:23 final size:24
Alignment explanation
Indices: 34876027--34876081 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
34876017 AAAATTACAA
34876027 AAAATTACAAAAAATTAAAATAAAT
1 AAAATT-CAAAAAATTAAAATAAAT
*
34876052 -TAATTCAAAAAA-TAAAA-AAACT
1 AAAATTCAAAAAATTAAAATAAA-T
34876074 AAAATTCA
1 AAAATTCA
34876082 TCAAACTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 13 0.50
24 4 0.15
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAATTCAAAAAATTAAAATAAAT
Found at i:34880682 original size:63 final size:63
Alignment explanation
Indices: 34880604--34880726 Score: 219
Period size: 63 Copynumber: 2.0 Consensus size: 63
34880594 CATTCAACCT
34880604 AATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTGACCC
1 AATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTGACCC
* * *
34880667 AATACTTACAGAGTTGTCCCCTCATATTTTGTAAAGATTAAATTAAGCTATGAAGTGTGA
1 AATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTGA
34880727 TACATCAAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (63 bp):
AATACTTACAGAGTTGCCCCCTCACATTTTGTAAAGATTAAATTAAGCTATGAAATGTGACCC
Found at i:34897578 original size:15 final size:16
Alignment explanation
Indices: 34897558--34897587 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34897548 ACTATTTAAG
34897558 TTTAAT-AATAAATTA
1 TTTAATAAATAAATTA
34897573 TTTAATAAATAAATT
1 TTTAATAAATAAATT
34897588 TAAATAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAATAAATAAATTA
Found at i:34901250 original size:28 final size:28
Alignment explanation
Indices: 34901210--34901269 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
34901200 GTCATTATCA
34901210 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
34901238 ACCCCATAAGTTATGAGACTTTTTCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
34901266 ACCC
1 ACCC
34901270 TATTAATATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:34906670 original size:28 final size:28
Alignment explanation
Indices: 34906630--34906692 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
34906620 GTCATTATCA
34906630 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
34906658 ACCCCATAAGTTATGAGACTTTTTCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
34906686 ACCCCAT
1 ACCCCAT
34906693 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:34907036 original size:35 final size:38
Alignment explanation
Indices: 34906967--34907037 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
34906957 TAAATATAAA
* * *
34906967 AATAATTATATTAAGAATGTTATTAAGTTATATTTAAT
1 AATAATTATATTAAGAATATGATTAAGATATATTTAAT
34907005 AATAATTATATTAA-AATATGATTAA-AT-TATTTA
1 AATAATTATATTAAGAATATGATTAAGATATATTTA
34907038 TTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 6 0.20
36 1 0.03
37 9 0.30
38 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (38 bp):
AATAATTATATTAAGAATATGATTAAGATATATTTAAT
Found at i:34907261 original size:16 final size:16
Alignment explanation
Indices: 34907240--34907290 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
34907230 TGAATTACTG
34907240 ATTACAGGCCTATTCC
1 ATTACAGGCCTATTCC
34907256 ATTACA-GCTCTATTCC
1 ATTACAGGC-CTATTCC
34907272 ATTAC-GGCCCTATTCC
1 ATTACAGG-CCTATTCC
34907288 ATT
1 ATT
34907291 CCAGTGAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 2 0.06
16 29 0.91
17 1 0.03
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.35
Consensus pattern (16 bp):
ATTACAGGCCTATTCC
Found at i:34907909 original size:21 final size:21
Alignment explanation
Indices: 34907870--34907913 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
34907860 TAGTCAATGG
34907870 GATTAAAATTAACTTTTTATAT
1 GATTAAAATTAACTTTTTA-AT
34907892 GATTAAAATTAA-TTTTTAAT
1 GATTAAAATTAACTTTTTAAT
34907912 GA
1 GA
34907914 AAATAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 6 0.27
22 12 0.55
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (21 bp):
GATTAAAATTAACTTTTTAAT
Found at i:34908016 original size:53 final size:53
Alignment explanation
Indices: 34907913--34908019 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
34907903 ATTTTTAATG
* * **
34907913 AAAATAGTAAAGAAGTGAGTTATGGAGTATTCTTTAATGGATGGGAGATTAAA
1 AAAATAGCAAAGAAGTGAGTTATGGAGTATTCTCTAATCAATGGGAGATTAAA
* *
34907966 AAAATAGCGAAGAAGTGAGTTGTGGAGTATTCTCTAATCAATGTGG-GATTAAA
1 AAAATAGCAAAGAAGTGAGTTATGGAGTATTCTCTAATCAATG-GGAGATTAAA
34908019 A
1 A
34908020 TTAACTTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 45 0.96
54 2 0.04
ACGTcount: A:0.40, C:0.05, G:0.26, T:0.29
Consensus pattern (53 bp):
AAAATAGCAAAGAAGTGAGTTATGGAGTATTCTCTAATCAATGGGAGATTAAA
Found at i:34912218 original size:52 final size:52
Alignment explanation
Indices: 34912140--34912244 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
34912130 AAATGTGAAA
*
34912140 GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGCTTGCCTGTAGT
1 GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGATTGCCTGTAGT
*
34912192 GTGGTGGCATTCTTCGGGTTGAATTAGATGAATCGGATAGATTGCCTGTAGT
1 GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGATTGCCTGTAGT
34912244 G
1 G
34912245 ATTTCTTCTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.34
Consensus pattern (52 bp):
GTGGTGACATTCTTCGGGTTGAATTAGATGAATCGGATAGATTGCCTGTAGT
Found at i:34916935 original size:29 final size:29
Alignment explanation
Indices: 34916903--34916962 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
34916893 AATATTAGCG
34916903 AAAATAACCTATACACT-CCATTATAACCA
1 AAAATAACCTATACA-TGCCATTATAACCA
34916932 AAAATAACCTATACATGCCATTATAACCA
1 AAAATAACCTATACATGCCATTATAACCA
34916961 AA
1 AA
34916963 CTCAAACCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (29 bp):
AAAATAACCTATACATGCCATTATAACCA
Found at i:34917322 original size:30 final size:30
Alignment explanation
Indices: 34917267--34917328 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
34917257 CACTAAGCAA
34917267 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
34917296 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
34917327 GT
1 GT
34917329 ATTTCATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:34917513 original size:25 final size:25
Alignment explanation
Indices: 34917485--34917533 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
34917475 ATGTATGCTC
34917485 TCACGAGCTGTGAATCGATAAGCTT
1 TCACGAGCTGTGAATCGATAAGCTT
*
34917510 TCACGAGTTGTGAATCGATAAGCT
1 TCACGAGCTGTGAATCGATAAGCT
34917534 CATATGAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (25 bp):
TCACGAGCTGTGAATCGATAAGCTT
Found at i:34917546 original size:25 final size:25
Alignment explanation
Indices: 34917485--34917546 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
34917475 ATGTATGCTC
*
34917485 TCACGAGCTGTGAATCGATAAGCTT
1 TCACGAGCTGTGAATCGATAAGCTA
*
34917510 TCACGAGTTGTGAATCGATAAGCTCA
1 TCACGAGCTGTGAATCGATAAGCT-A
*
34917536 T-ATGAGCTGTG
1 TCACGAGCTGTG
34917547 GTGTGTCTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (25 bp):
TCACGAGCTGTGAATCGATAAGCTA
Found at i:34922881 original size:21 final size:21
Alignment explanation
Indices: 34922857--34922905 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
34922847 TATAATGAGT
*
34922857 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
*
34922878 ATATCAGAACATATCATGTGC
1 ATATCATAACATATCATGTGC
34922899 ATATCAT
1 ATATCAT
34922906 GTCCTATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:34922915 original size:10 final size:11
Alignment explanation
Indices: 34922843--34922917 Score: 66
Period size: 10 Copynumber: 7.1 Consensus size: 11
34922833 ACCCAAACCA
*
34922843 TGCATATAATG
1 TGCATATCATG
* *
34922854 AGTATATCAT-
1 TGCATATCATG
*
34922864 AGCATATCATG
1 TGCATATCATG
34922875 TGCATATCA-G
1 TGCATATCATG
**
34922885 AACATATCATG
1 TGCATATCATG
34922896 TGCATATCATG
1 TGCATATCATG
*
34922907 T-CCTATCATG
1 TGCATATCATG
34922917 T
1 T
34922918 ATAACAATAT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
10 26 0.50
11 26 0.50
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (11 bp):
TGCATATCATG
Found at i:34923170 original size:27 final size:27
Alignment explanation
Indices: 34923029--34923158 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
34923019 GGGGCAAAAT
* * * * *
34923029 GGTAATTTTACCCCACAAAGTTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34923056 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34923083 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34923110 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34923137 GGTAATTCTACCCTACAAGGGT
1 GGTAATTCTACCCTACAAGGGT
34923159 GCTTTGGTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34923170 original size:54 final size:54
Alignment explanation
Indices: 34923029--34923158 Score: 188
Period size: 54 Copynumber: 2.4 Consensus size: 54
34923019 GGGGCAAAAT
* * * * * *
34923029 GGTAATTTTACCCCACAAAGTTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
34923083 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
34923137 GGTAATTCTACCCTACAAGGGT
1 GGTAATTCTACCCTACAAGGGT
34923159 GCTTTGGTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:34923184 original size:27 final size:26
Alignment explanation
Indices: 34923154--34923447 Score: 110
Period size: 27 Copynumber: 10.9 Consensus size: 26
34923144 CTACCCTACA
*
34923154 AGGGTGCTTTGGTAATTTTGTAAATC
1 AGGGTACTTTGGTAATTTTGTAAATC
*** * *
34923180 GAGGGTAAAATGGTAACTCTGTAAATC
1 -AGGGTACTTTGGTAATTTTGTAAATC
** *
34923207 AGAGGTACTTTGGTAATTTTACAAGTC
1 AG-GGTACTTTGGTAATTTTGTAAATC
* * **
34923234 GAGGGTA-TTTCAGTAATTTTATAGGTC
1 -AGGGTACTTT-GGTAATTTTGTAAATC
* ***
34923261 GAGGGTA-TTTCGATAATTTCACAAATC
1 -AGGGTACTTT-GGTAATTTTGTAAATC
* **
34923288 AAGGGTATTTTGGTAATTTTACAAA-C
1 -AGGGTACTTTGGTAATTTTGTAAATC
* * *
34923314 TAGGGGTATTTTGGTAATTTTATAAACTA
1 -A-GGGTACTTTGGTAATTTTGTAAA-TC
* * *
34923343 AGGGTATTTTGGTAATTTTATAAACC
1 AGGGTACTTTGGTAATTTTGTAAATC
* * ** *
34923369 AAAGGTATTTTGGTAATTTTACAAGTC
1 -AGGGTACTTTGGTAATTTTGTAAATC
* **
34923396 AAGGGTATTTTGGTAATTTTACAAA-C
1 -AGGGTACTTTGGTAATTTTGTAAATC
* *
34923422 TAGGGGTATTTTGGTAATTTGGTAAA
1 -A-GGGTACTTTGGTAATTTTGTAAA
34923448 CTAAAGTATT
Statistics
Matches: 217, Mismatches: 41, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
26 9 0.04
27 202 0.93
28 6 0.03
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
AGGGTACTTTGGTAATTTTGTAAATC
Found at i:34923321 original size:54 final size:54
Alignment explanation
Indices: 34923210--34923441 Score: 270
Period size: 54 Copynumber: 4.3 Consensus size: 54
34923200 GTAAATCAGA
* * * ** * ** *
34923210 GGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTA-TAGGTCGAG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAG-G
* * *
34923264 GGTATTTCGATAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
* * * **
34923318 GGTATTTTGGTAATTTTATAAA-CTAAGGGTATTTTGGTAATTTTATAAACCAAA
1 GGTATTTTGGTAATTTTACAAATC-AAGGGTATTTTGGTAATTTTACAAACTAGG
*
34923372 GGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
34923426 GGTATTTTGGTAATTT
1 GGTATTTTGGTAATTT
34923442 GGTAAACTAA
Statistics
Matches: 149, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 144 0.97
55 4 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGG
Found at i:34923448 original size:27 final size:27
Alignment explanation
Indices: 34923262--34923451 Score: 222
Period size: 27 Copynumber: 7.0 Consensus size: 27
34923252 TTATAGGTCG
* * * *
34923262 AGGGTATTTCGATAATTTCACAAA-TCA
1 AGGGTATTTTGGTAATTTTATAAACT-A
*
34923289 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACTA
*
34923316 GGGGTATTTTGGTAATTTTATAAACTA
1 AGGGTATTTTGGTAATTTTATAAACTA
*
34923343 AGGGTATTTTGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACTA
* * *
34923370 AAGGTATTTTGGTAATTTTA-CAAGTCA
1 AGGGTATTTTGGTAATTTTATAAACT-A
*
34923397 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACTA
* **
34923424 GGGGTATTTTGGTAATTTGGTAAACTA
1 AGGGTATTTTGGTAATTTTATAAACTA
34923451 A
1 A
34923452 AGTATTCTAA
Statistics
Matches: 141, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 2 0.01
27 135 0.96
28 4 0.03
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACTA
Found at i:34923448 original size:81 final size:80
Alignment explanation
Indices: 34923209--34923441 Score: 270
Period size: 81 Copynumber: 2.9 Consensus size: 80
34923199 TGTAAATCAG
* * ** * ** * * *
34923209 AGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTATAGGTCGAGGGTATTTCGA
1 AGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAAAACTAG-GGGTATTTTGG
* *
34923274 TAATTTCACAAATCAA
65 TAATTTCATAAACCAA
* * * *
34923290 GGGTATTTTGGTAATTTTACAA-ACTAGGGGTATTTTGGTAATTTTATAAACTAAGGGTATTTTG
1 AGGTATTTTGGTAATTTTACAAGTC-AAGGGTATTTTGGTAATTTTA-AAACTAGGGGTATTTTG
*
34923354 GTAATTTTATAAACCAA
64 GTAATTTCATAAACCAA
34923371 AGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 AGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTA-AAACTAGGGGTATTTTGG
34923436 TAATTT
65 TAATTT
34923442 GGTAAACTAA
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 123 0.97
82 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTTAAAACTAGGGGTATTTTGGT
AATTTCATAAACCAA
Found at i:34923633 original size:17 final size:18
Alignment explanation
Indices: 34923613--34923647 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34923603 AACTTATCCA
*
34923613 ATTGGGCCTATA-GGCCC
1 ATTGGGCCCATATGGCCC
34923630 ATTGGGCCCATATGGCCC
1 ATTGGGCCCATATGGCCC
34923648 CTTTCGGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (18 bp):
ATTGGGCCCATATGGCCC
Found at i:34927133 original size:31 final size:32
Alignment explanation
Indices: 34927049--34927135 Score: 97
Period size: 32 Copynumber: 2.8 Consensus size: 32
34927039 TCATAAATTT
* * * *
34927049 ATAAATTGATTACTTAAATTTAATAACTCATG
1 ATAAATTAATTAATTTAATTAAATAACTCATG
34927081 ATAAATTAATTAATTTAATTAAATAACTCAT-
1 ATAAATTAATTAATTTAATTAAATAACTCATG
* *
34927112 ATAGATTAATTGATCTT-ATTAAAT
1 ATAAATTAATTAAT-TTAATTAAAT
34927136 TTATGAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 19 0.40
32 29 0.60
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.43
Consensus pattern (32 bp):
ATAAATTAATTAATTTAATTAAATAACTCATG
Found at i:34929284 original size:116 final size:116
Alignment explanation
Indices: 34929080--34929315 Score: 427
Period size: 116 Copynumber: 2.0 Consensus size: 116
34929070 CCAAGAAAAG
34929080 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
1 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
* * *
34929145 AGGTATTAGTTTTAATTTTCAAATAAGTAATCTTATAATCAATTCAAATAT
66 AAGTATTAGTTTTAATTATCAAATAAGTAATATTATAATCAATTCAAATAT
*
34929196 AATTTCCAGCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
1 AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
*
34929261 AAGTATTAGTTTTAATTATCAAATAAGTAATATTCTAATCAATTCAAATAT
66 AAGTATTAGTTTTAATTATCAAATAAGTAATATTATAATCAATTCAAATAT
34929312 AATT
1 AATT
34929316 CCCTTTTAAA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.39
Consensus pattern (116 bp):
AATTTCCACCCCCACATAATGACTAGTATTACATTTAGTTGTATGAGATTTGCAGATTCATACTT
AAGTATTAGTTTTAATTATCAAATAAGTAATATTATAATCAATTCAAATAT
Found at i:34931632 original size:77 final size:77
Alignment explanation
Indices: 34931476--34931625 Score: 230
Period size: 77 Copynumber: 1.9 Consensus size: 77
34931466 AGTGGAAGGG
* * *
34931476 AAGCTCACCCAACAAGGTACACTTTCTCTTTCTCTCTCTTAAAAATTGGTGTGTATTTTAAAATT
1 AAGCTCACCCAACAAGGCACACTTTCTCTTTCTCTCTCCTAAAAATTGGTGTGTATTCTAAAATT
34931541 TAGGGTTTTGGA
66 TAGGGTTTTGGA
** *
34931553 AAGCTCACCCAACTGGGCACACTTTCTCTTTCTCTCTCCTAAAAATTTGTG-GTTATTCTAAAAT
1 AAGCTCACCCAACAAGGCACACTTTCTCTTTCTCTCTCCTAAAAATTGGTGTG-TATTCTAAAAT
34931617 TTAGGGTTT
65 TTAGGGTTT
34931626 GAGAAAGATT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
76 1 0.02
77 65 0.98
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.39
Consensus pattern (77 bp):
AAGCTCACCCAACAAGGCACACTTTCTCTTTCTCTCTCCTAAAAATTGGTGTGTATTCTAAAATT
TAGGGTTTTGGA
Found at i:34933323 original size:7 final size:7
Alignment explanation
Indices: 34933311--34933351 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
34933301 TAATAATGCC
34933311 GATAAAT
1 GATAAAT
34933318 GATAAAT
1 GATAAAT
34933325 GATAAAT
1 GATAAAT
*
34933332 TATAAAT
1 GATAAAT
34933339 GATAAAT
1 GATAAAT
34933346 GATAAA
1 GATAAA
34933352 AATGTTACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (7 bp):
GATAAAT
Found at i:34936668 original size:39 final size:39
Alignment explanation
Indices: 34936604--34936745 Score: 230
Period size: 39 Copynumber: 3.6 Consensus size: 39
34936594 AACATAATTT
* * *
34936604 CCTTTGGGACTTAGCCCGGATATAACACCAGTATGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
* *
34936643 TCTTCGGGATTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
*
34936682 CCTTCGGGACTTAGGCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
34936721 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
34936746 ATCTCACACA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
Found at i:34938986 original size:25 final size:25
Alignment explanation
Indices: 34938957--34939009 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
34938947 TTAATAATGT
34938957 AGTCAAAATTGAGAATGGGTTAATA
1 AGTCAAAATTGAGAATGGGTTAATA
34938982 AGTCAAAATTGAGAATGGGTTAATA
1 AGTCAAAATTGAGAATGGGTTAATA
34939007 AGT
1 AGT
34939010 AAATATGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.28
Consensus pattern (25 bp):
AGTCAAAATTGAGAATGGGTTAATA
Found at i:34943119 original size:7 final size:7
Alignment explanation
Indices: 34943107--34943147 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
34943097 TAATAATGCC
34943107 GATAAAT
1 GATAAAT
34943114 GATAAAT
1 GATAAAT
34943121 GATAAAT
1 GATAAAT
34943128 GATAAAT
1 GATAAAT
34943135 GATAAAT
1 GATAAAT
34943142 GATAAA
1 GATAAA
34943148 AATGTTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.27
Consensus pattern (7 bp):
GATAAAT
Found at i:34952129 original size:55 final size:55
Alignment explanation
Indices: 34952045--34952156 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
34952035 TCTTGTTGAG
*
34952045 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCGACTAAAATCATC
1 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCAACTAAAATCATC
*
34952100 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAGTGGCTCAACTAAAATCATC
1 TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCAACTAAAATCATC
34952155 TC
1 TC
34952157 TCGACTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (55 bp):
TCGCCTTAATTTTATTTGATCGTTCTGGCATTGGAATGGCTCAACTAAAATCATC
Found at i:34957397 original size:42 final size:42
Alignment explanation
Indices: 34957337--34957443 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
34957327 CGGAAACCTG
* *
34957337 TAAGGGTTAAAC-GAAAGCTCATAGGAACTGAATAGAAACCCA
1 TAAGGGTTAAACTG-AAGCTCATAAGAACTAAATAGAAACCCA
* *** * *
34957379 TAAGGGTTAATCTGAAGCTTGGAAGAGCTAAATTGAAACCCA
1 TAAGGGTTAAACTGAAGCTCATAAGAACTAAATAGAAACCCA
* *
34957421 AAAGGGTTAAACTGAAACTCATA
1 TAAGGGTTAAACTGAAGCTCATA
34957444 TGAGTTGACT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.21
Consensus pattern (42 bp):
TAAGGGTTAAACTGAAGCTCATAAGAACTAAATAGAAACCCA
Found at i:34958592 original size:18 final size:18
Alignment explanation
Indices: 34958569--34958605 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34958559 CCTTTTCACT
34958569 TAATTAACTATCAAAATG
1 TAATTAACTATCAAAATG
34958587 TAATTAACTATCAAAATG
1 TAATTAACTATCAAAATG
34958605 T
1 T
34958606 TAAAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.05, T:0.35
Consensus pattern (18 bp):
TAATTAACTATCAAAATG
Found at i:34964068 original size:11 final size:11
Alignment explanation
Indices: 34964054--34964086 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
34964044 CTATAGTATT
34964054 GCTACAATATC
1 GCTACAATATC
34964065 GCTACAATATC
1 GCTACAATATC
34964076 GCTACAATATC
1 GCTACAATATC
34964087 TAATCTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (11 bp):
GCTACAATATC
Found at i:34964315 original size:19 final size:19
Alignment explanation
Indices: 34964279--34964315 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34964269 ATTTTGCAAA
* *
34964279 TTAATCAATCTAACAAAAG
1 TTAATAAATCTAAAAAAAG
34964298 TTAATAAATCTAAAAAAA
1 TTAATAAATCTAAAAAAA
34964316 AATTTCACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (19 bp):
TTAATAAATCTAAAAAAAG
Found at i:34965217 original size:22 final size:22
Alignment explanation
Indices: 34965191--34965236 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34965181 TTTTCTCCTT
34965191 CTCTAAACCAAGTATCATTTTC
1 CTCTAAACCAAGTATCATTTTC
34965213 CTCTAAACCAAGTATCATTTTC
1 CTCTAAACCAAGTATCATTTTC
34965235 CT
1 CT
34965237 TAGAAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.37
Consensus pattern (22 bp):
CTCTAAACCAAGTATCATTTTC
Found at i:34968558 original size:24 final size:23
Alignment explanation
Indices: 34968525--34968572 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
34968515 TCTGGGCTAT
34968525 ATAATGGGAAACTCATGAGAGCC
1 ATAATGGGAAACTCATGAGAGCC
* **
34968548 ATAATCGGGAAGCTTGTGAGAGCC
1 ATAAT-GGGAAACTCATGAGAGCC
34968572 A
1 A
34968573 ATTACAGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.19
Consensus pattern (23 bp):
ATAATGGGAAACTCATGAGAGCC
Found at i:34968699 original size:26 final size:26
Alignment explanation
Indices: 34968640--34968722 Score: 107
Period size: 26 Copynumber: 3.3 Consensus size: 26
34968630 AAGTTCAAGC
* **
34968640 GAGCCATT-ATCAGGAAACTC-CGGA
1 GAGCCATTAATCAGGAAGCTCACAAA
34968664 GAGCCATTAATCAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
34968690 GAGCCTTTAATCAGGAAGCTCACAAA
1 GAGCCATTAATCAGGAAGCTCACAAA
*
34968716 AAGCCAT
1 GAGCCAT
34968723 ATAACGGGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.16
25 11 0.22
26 32 0.63
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (26 bp):
GAGCCATTAATCAGGAAGCTCACAAA
Found at i:34980306 original size:47 final size:47
Alignment explanation
Indices: 34980234--34980375 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
34980224 GTTGAATTTA
34980234 AAGCTTGTTAAA-TTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
*
34980280 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
* *
34980327 AAGCTTGTTAAATTTGCCCTTATTATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
34980374 AA
1 AA
34980376 AGAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.13
47 79 0.87
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTTCGGATAAGTTACTTAGTT
Found at i:34981268 original size:43 final size:43
Alignment explanation
Indices: 34981180--34981353 Score: 190
Period size: 44 Copynumber: 4.0 Consensus size: 43
34981170 ATATCGCACA
* *
34981180 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAG
1 ATACTATTCGGG-CTTTGAGCCTAGCAGGCGA-AATGCCGGTGAG
* *
34981225 ATACTATTCGAGCTTTTAGCCTAGCAGGCGAAATGCCGGTGAG
1 ATACTATTCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGAG
* * *
34981268 ATACTATTCGGGCTTTCGAGCCTAGCAGGCTGTAATGCCGATGAA
1 ATACTATTCGGGCTTT-GAGCCTAGCAGGC-GAAATGCCGGTGAG
** * *
34981313 ATGA-TA-TCGGGCTTCAAGCCTATCAGGTGAAATGCCGGTGA
1 AT-ACTATTCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGA
34981354 ATGAATTCGG
Statistics
Matches: 111, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
42 11 0.10
43 36 0.32
44 37 0.33
45 26 0.23
46 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (43 bp):
ATACTATTCGGGCTTTGAGCCTAGCAGGCGAAATGCCGGTGAG
Found at i:34981323 original size:44 final size:44
Alignment explanation
Indices: 34981179--34981386 Score: 173
Period size: 43 Copynumber: 4.8 Consensus size: 44
34981169 AATATCGCAC
*
34981179 AATACTATTCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCC-AGTGA
1 AATACTATTCGGG-CTTTAAGCCTAGCAGGCTGA-AATGCCGA-TGA
* * * *
34981224 GATACTATTCGAGCTTTTAGCCTAGCAGGC-GAAATGCCGGTGA
1 AATACTATTCGGGCTTTAAGCCTAGCAGGCTGAAATGCCGATGA
* * *
34981267 GATACTATTCGGGCTTTCGAGCCTAGCAGGCTGTAATGCCGATGA
1 AATACTATTCGGGCTTT-AAGCCTAGCAGGCTGAAATGCCGATGA
* * *
34981312 AATGA-TA-TCGGGCTTCAAGCCTATCAGG-TGAAATGCCGGTG-
1 AAT-ACTATTCGGGCTTTAAGCCTAGCAGGCTGAAATGCCGATGA
* *
34981353 AATGA--ATTCGGGTTTTTAAACCTAGCAGGCTGAA
1 AAT-ACTATTCGGG-CTTTAAGCCTAGCAGGCTGAA
34981387 TGTCGGTAAT
Statistics
Matches: 137, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
40 1 0.01
41 10 0.07
42 23 0.17
43 39 0.28
44 37 0.27
45 26 0.19
46 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (44 bp):
AATACTATTCGGGCTTTAAGCCTAGCAGGCTGAAATGCCGATGA
Found at i:34981911 original size:16 final size:18
Alignment explanation
Indices: 34981880--34981912 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
34981870 AACTCGTCAC
34981880 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
34981898 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
34981913 AGCTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:34987751 original size:25 final size:24
Alignment explanation
Indices: 34987723--34987805 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
34987713 ACACTCTCTC
34987723 GAGCCATATAACGGGAAGCTCATA
1 GAGCCATATAACGGGAAGCTCATA
* * * *
34987747 TGAGCCATGTAACGGGGAGCTTATCC
1 -GAGCCATATAACGGGAAGCTCAT-A
* *
34987773 GGGCTATATAACGGGAAGCTCATGA
1 GAGCCATATAACGGGAAGCTCAT-A
34987798 GAGCCATA
1 GAGCCATA
34987806 ATCGGAAAGG
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.19
Consensus pattern (24 bp):
GAGCCATATAACGGGAAGCTCATA
Found at i:34987947 original size:25 final size:26
Alignment explanation
Indices: 34987897--34987977 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
34987887 AGTTCAAGCA
* * *
34987897 AGCCATT-ATCAGGAAACTC-TAGAG
1 AGCCATTAATCAGGAAGCTCACAAAG
*
34987921 AGCCATTAATCAGGAAG-TTACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* **
34987946 AGCCTTTAATTGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
34987972 AGCCAT
1 AGCCAT
34987978 ATAACGGGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
24 8 0.18
25 25 0.56
26 12 0.27
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:34987986 original size:26 final size:25
Alignment explanation
Indices: 34987919--34987986 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
34987909 GAAACTCTAG
* *
34987919 AGAGCCATTAATCAGGAAGTTACAA
1 AGAGCCATTAATCGGGAAGTCACAA
* *
34987944 AGAGCCTTTAATTGGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAG-TCACAA
34987970 AGAGCCATATAA-CGGGA
1 AGAGCCAT-TAATCGGGA
34987987 CACTCATAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 16 0.46
26 16 0.46
27 3 0.09
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (25 bp):
AGAGCCATTAATCGGGAAGTCACAA
Found at i:34991907 original size:26 final size:26
Alignment explanation
Indices: 34991878--34991951 Score: 123
Period size: 26 Copynumber: 2.8 Consensus size: 26
34991868 GCTCGAATTC
*
34991878 AATTTAAA-TAATAATAATAAATTTTA
1 AATTTAAATTAATTATAA-AAATTTTA
34991904 AATTTAAATTAATTATAAAAATTTTA
1 AATTTAAATTAATTATAAAAATTTTA
34991930 AATTTAAATTAATTATAAAAAT
1 AATTTAAATTAATTATAAAAAT
34991952 ACATAAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 38 0.83
27 8 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTTAAATTAATTATAAAAATTTTA
Found at i:34992172 original size:25 final size:25
Alignment explanation
Indices: 34992138--34992189 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
34992128 AATATTTTTA
34992138 TTGATCAATAAAATACATAATTCTC
1 TTGATCAATAAAATACATAATTCTC
34992163 TTGATCAATAAAATACATAATTCTC
1 TTGATCAATAAAATACATAATTCTC
34992188 TT
1 TT
34992190 TTACTATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (25 bp):
TTGATCAATAAAATACATAATTCTC
Found at i:34992222 original size:20 final size:21
Alignment explanation
Indices: 34992194--34992236 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
34992184 TCTCTTTTAC
*
34992194 TATTCTATTTCTTA-TTATTT
1 TATTCTATTTATTATTTATTT
*
34992214 TATTTTATTTATTATTTATTT
1 TATTCTATTTATTATTTATTT
34992235 TA
1 TA
34992237 ATAACATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (21 bp):
TATTCTATTTATTATTTATTT
Found at i:34992225 original size:17 final size:16
Alignment explanation
Indices: 34992205--34992236 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
34992195 ATTCTATTTC
34992205 TTATTATTTTATTTTAT
1 TTATTA-TTTATTTTAT
34992222 TTATTATTTATTTTA
1 TTATTATTTATTTTA
34992237 ATAACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (16 bp):
TTATTATTTATTTTAT
Found at i:34992571 original size:18 final size:19
Alignment explanation
Indices: 34992538--34992573 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34992528 TTAAGAATTT
34992538 TTTTATTTAATATTTAATA
1 TTTTATTTAATATTTAATA
*
34992557 TTTTA-TTAATTTTTAAT
1 TTTTATTTAATATTTAAT
34992574 TAATTAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATTTAATATTTAATA
Found at i:34994877 original size:20 final size:20
Alignment explanation
Indices: 34994826--34994877 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
34994816 ATAAGAATTT
34994826 ACATGAATATTTATTAAAGA
1 ACATGAATATTTATTAAAGA
* *
34994846 GCATAAATATTTATTAAAGA
1 ACATGAATATTTATTAAAGA
* *
34994866 ACTTGAAGATTT
1 ACATGAATATTT
34994878 TTCATTATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (20 bp):
ACATGAATATTTATTAAAGA
Found at i:35005903 original size:58 final size:58
Alignment explanation
Indices: 35005833--35005948 Score: 189
Period size: 58 Copynumber: 2.0 Consensus size: 58
35005823 TAAACATGGC
* *
35005833 AACCACATATCAACAAGGTGAGTATCAACATATATTGCAT-CTTATAATAAATCAAGCA
1 AACCACATATCAACAAGATGAGTATAAACATATATTGCATCCTT-TAATAAATCAAGCA
*
35005891 AACCACATATCAATAAGATGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
1 AACCACATATCAACAAGATGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
35005949 TATAACACTC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 51 0.94
59 3 0.06
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (58 bp):
AACCACATATCAACAAGATGAGTATAAACATATATTGCATCCTTTAATAAATCAAGCA
Found at i:35009469 original size:42 final size:42
Alignment explanation
Indices: 35009410--35009578 Score: 214
Period size: 42 Copynumber: 4.0 Consensus size: 42
35009400 TTAGGGTTAC
* *
35009410 TGAGA-TTACGTGTAAGACCATATCTGGGATATGGTATCAATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* * * *
35009452 TGAGACTTCGTATAAGACTATATTTAGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
35009494 TGAGACTTTGTGTAAGACCATATTTGGGATATGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
35009536 TGAGACTTCGTGTAAGAACATAGCTGGGCTATTGGCATCGATA
1 TGAGACTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
35009579 CCAGATTACA
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 97 0.88
43 13 0.12
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:35009710 original size:12 final size:12
Alignment explanation
Indices: 35009680--35009704 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35009670 TTTAACGTGA
35009680 AATTCAACGGGT
1 AATTCAACGGGT
35009692 AATTCAACGGGT
1 AATTCAACGGGT
35009704 A
1 A
35009705 TGTCAAAGAA
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:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (12 bp):
AATTCAACGGGT
Found at i:35014271 original size:47 final size:47
Alignment explanation
Indices: 35014176--35014418 Score: 335
Period size: 47 Copynumber: 5.1 Consensus size: 47
35014166 TTTAGGATTT
*
35014176 AATGTGATGAATGTGAACATGTATATATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATG----CATATGTGTGATAAGGCCGAATGGCC
* *
35014227 AATGTGATGAATGTGAACATGCGTATGTGTGACAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
*
35014274 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
* *
35014321 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
* * * * *
35014368 AATGTGATGAACGTGGAA-GTGTATATGTGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATGTGTGATAAGGCCGAATGGCC
35014415 AATG
1 AATG
35014419 CGAAACGTGT
Statistics
Matches: 177, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
47 153 0.86
48 3 0.02
51 21 0.12
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
Found at i:35014302 original size:23 final size:23
Alignment explanation
Indices: 35014228--35014302 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
35014218 CGAATGGCCA
35014228 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
35014251 ATGTG-TGACAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
35014275 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
35014298 ATGTG
1 ATGTG
35014303 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.12, G:0.32, T:0.27
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:35014458 original size:46 final size:46
Alignment explanation
Indices: 35014395--35014482 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
35014385 AGTGTATATG
* * *
35014395 TGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATA
1 TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGGATA
* * *
35014441 TGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
35014483 TGTATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.32, C:0.09, G:0.33, T:0.26
Consensus pattern (46 bp):
TGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGGATA
Found at i:35018011 original size:34 final size:34
Alignment explanation
Indices: 35017950--35018103 Score: 157
Period size: 34 Copynumber: 4.5 Consensus size: 34
35017940 TTTTTACTTG
* * *
35017950 TTATAATGTTGTCCAAATCTGGTTGTTTTGCATA
1 TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
* *
35017984 TTATAATGCTATCAAAATGTGGCTGTTTTGCATA
1 TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
* ** * *
35018018 TTAAAATGCTGTCCAAATACGGTTGTTTTGCATG
1 TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
* *
35018052 TTATAATGATGTCCAAATGTGGCT-TTTATGCATG
1 TTATAATGCTGTCCAAATGTGGCTGTTT-TGCATA
* * *
35018086 TTACAATGATGACCAAAT
1 TTATAATGCTGTCCAAAT
35018104 ATGTTTACAA
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
33 3 0.03
34 97 0.97
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (34 bp):
TTATAATGCTGTCCAAATGTGGCTGTTTTGCATA
Found at i:35018070 original size:68 final size:69
Alignment explanation
Indices: 35017954--35018104 Score: 191
Period size: 68 Copynumber: 2.2 Consensus size: 69
35017944 TACTTGTTAT
* *
35017954 AATGTTGTCCAAAT-CTGGTTGTTTTGCATATTATAATGCTATCAAAATGTGGCTGTTT-TGCAT
1 AATGATGTCCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCT-TTTATGCAT
35018017 ATTAA
65 ATTAA
* * * * *
35018022 AATGCTGTCCAAATAC-GGTTGTTTTGCATGTTATAATGATGTCCAAATGTGGCTTTTATGCATG
1 AATGATGTCCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTTTTATGCATA
*
35018086 TTAC
66 TTAA
*
35018090 AATGATGACCAAATA
1 AATGATGTCCAAATA
35018105 TGTTTACAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
67 3 0.04
68 68 0.94
69 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (69 bp):
AATGATGTCCAAATACTGGTTGTTTTGCATATTATAATGATATCAAAATGTGGCTTTTATGCATA
TTAA
Done.