Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 114 of 433
Found at i:34750436 original size:29 final size:29
Alignment explanation
Indices: 34750404--34750479 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
34750394 CTGGAAATAT
* *
34750404 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
34750433 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
34750462 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
34750480 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:34750447 original size:58 final size:58
Alignment explanation
Indices: 34750347--34750479 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
34750337 GTGACGAGAT
* * * * * *
34750347 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
34750405 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
34750463 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
34750480 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:34758244 original size:29 final size:29
Alignment explanation
Indices: 34758211--34758342 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
34758201 GTGACGAGAT
*
34758211 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
34758240 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
34758269 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
34758298 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
34758327 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34758343 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:34765613 original size:23 final size:23
Alignment explanation
Indices: 34765556--34765613 Score: 91
Period size: 23 Copynumber: 2.5 Consensus size: 23
34765546 ACGTTTACCG
*
34765556 CTATTAGCAGCATTGCTGAGTTA
1 CTATTAGCAGCTTTGCTGAGTTA
34765579 CTATTAGCAGCTTTGCTGCA-TTA
1 CTATTAGCAGCTTTGCTG-AGTTA
34765602 CTATTAGCAGCT
1 CTATTAGCAGCT
34765614 ACGCTGCGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTGAGTTA
Found at i:34765619 original size:23 final size:23
Alignment explanation
Indices: 34765576--34765620 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34765566 CATTGCTGAG
**
34765576 TTACTATTAGCAGCTTTGCTGCA
1 TTACTATTAGCAGCTACGCTGCA
34765599 TTACTATTAGCAGCTACGCTGC
1 TTACTATTAGCAGCTACGCTGC
34765621 GATATTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (23 bp):
TTACTATTAGCAGCTACGCTGCA
Found at i:34767158 original size:23 final size:23
Alignment explanation
Indices: 34767138--34767195 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
34767128 ATAACAGCGT
34767138 AGCTGCTAATAGTAATGCAGCAA
1 AGCTGCTAATAGTAATGCAGCAA
34767161 AGCTGCTAATAGTAATGCAGCAA
1 AGCTGCTAATAGTAATGCAGCAA
34767184 AGCTGCTAATAG
1 AGCTGCTAATAG
34767196 CGGTAAACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
AGCTGCTAATAGTAATGCAGCAA
Found at i:34769569 original size:59 final size:59
Alignment explanation
Indices: 34769477--34769593 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
34769467 GAGAGGTTGT
*
34769477 CTTTTCTAACTCCTCATCAATAGCTTTTGCTTTATCTACAGTGACTCCTTCAATCACGA
1 CTTTTCTAACTCCTCATCAATAGCTTTTACTTTATCTACAGTGACTCCTTCAATCACGA
*
34769536 CTTTTCTAACTCCTCATCAATAGCTTTTACTTTATCTACAGTGACTCCTTCAGTCACG
1 CTTTTCTAACTCCTCATCAATAGCTTTTACTTTATCTACAGTGACTCCTTCAATCACG
34769594 GGGTCAGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.23, C:0.29, G:0.09, T:0.39
Consensus pattern (59 bp):
CTTTTCTAACTCCTCATCAATAGCTTTTACTTTATCTACAGTGACTCCTTCAATCACGA
Found at i:34791471 original size:29 final size:28
Alignment explanation
Indices: 34791439--34791544 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 28
34791429 ATAATATGAT
*
34791439 TTGGGCCTAATGGGCTATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAAT-AGAA
* *
34791468 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATA-GAA
* *
34791497 CTGGGCC-AGATGGGCCATTTGAATA-AGA
1 TTGGGCCTA-ATGGGCCATATGAATAGA-A
*
34791525 TTGGGCCTAGTGGGCCATAT
1 TTGGGCCTAATGGGCCATAT
34791545 ACATGTATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.02
28 18 0.29
29 44 0.70
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATAGAA
Found at i:34791493 original size:58 final size:57
Alignment explanation
Indices: 34791431--34791543 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
34791421 GCATGAATAT
** * *
34791431 AATATGATTTGGGCCTA-ATGGGCTATATGAATGAGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
34791489 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
34791544 TACATGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 21 0.43
58 28 0.57
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:34795726 original size:16 final size:16
Alignment explanation
Indices: 34795705--34795755 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
34795695 ATGAATCGGT
*
34795705 AAAAGCTGAAATGCCG
1 AAAAGCTGAAAAGCCG
34795721 AAAAGCTGAAAAGCCG
1 AAAAGCTGAAAAGCCG
*
34795737 AAATGCCT-AAAAGCCG
1 AAAAG-CTGAAAAGCCG
34795753 AAA
1 AAA
34795756 GATAGGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCG
Found at i:34795731 original size:8 final size:8
Alignment explanation
Indices: 34795705--34795755 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
34795695 ATGAATCGGT
*
34795705 AAAAGCTG
1 AAAAGCCG
*
34795713 AAATGCCG
1 AAAAGCCG
*
34795721 AAAAGCTG
1 AAAAGCCG
34795729 AAAAGCCG
1 AAAAGCCG
* *
34795737 AAATGCCT
1 AAAAGCCG
34795745 AAAAGCCG
1 AAAAGCCG
34795753 AAA
1 AAA
34795756 GATAGGCTAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (8 bp):
AAAAGCCG
Found at i:34795732 original size:24 final size:24
Alignment explanation
Indices: 34795705--34795755 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
34795695 ATGAATCGGT
* *
34795705 AAAAGCTGAAATGCCGAAAAGCTG
1 AAAAGCCGAAATGCCGAAAAGCCG
*
34795729 AAAAGCCGAAATGCCTAAAAGCCG
1 AAAAGCCGAAATGCCGAAAAGCCG
34795753 AAA
1 AAA
34795756 GATAGGCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCG
Found at i:34796010 original size:29 final size:29
Alignment explanation
Indices: 34795978--34796113 Score: 143
Period size: 29 Copynumber: 4.7 Consensus size: 29
34795968 ATAATATGAT
34795978 TTGGGCCTAATGGGCCATATGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAATGAGAA
* *
34796007 TTGGGCCTAATGGGCCGTAAGAATGAGAA
1 TTGGGCCTAATGGGCCATATGAATGAGAA
*
34796036 TTGGGCCTAATGGGCCATAAGAAT-ATGAA
1 TTGGGCCTAATGGGCCATATGAATGA-GAA
* * * * *
34796065 CTAGGCC-AGATGGGCCATTTGAATAAG-T
1 TTGGGCCTA-ATGGGCCATATGAATGAGAA
* *
34796093 TTGGGCCTAGTAGGCCATATG
1 TTGGGCCTAATGGGCCATATG
34796114 CATGTATGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
28 16 0.18
29 73 0.81
30 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGAGAA
Found at i:34797621 original size:30 final size:30
Alignment explanation
Indices: 34797545--34797627 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
34797535 TCAGTCTCGA
*
34797545 CATAT-ACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
*
34797575 CATATCACAGGGCCGAAGCCTTTTCATAAAT
1 CATATCAC-TGGCCGAAGCCTTTTCATAAAT
34797606 CATATCACTGGCCGAAGCCTTT
1 CATATCACTGGCCGAAGCCTTT
34797628 ACTGTAAGCG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
30 18 0.38
31 30 0.62
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:34797863 original size:25 final size:25
Alignment explanation
Indices: 34797835--34797916 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
34797825 TGGAGGCCTA
34797835 CCCTCTTTTAAT-AACTGGGGCAAAG
1 CCCT-TTTTAATAAACTGGGGCAAAG
*
34797860 CCCTTTTTGATAAACTGGGGCAAAG
1 CCCTTTTTAATAAACTGGGGCAAAG
*** *
34797885 CCCTTTTCGGTAAACTGGGGCATAG
1 CCCTTTTTAATAAACTGGGGCAAAG
34797910 CCCTTTT
1 CCCTTTT
34797917 ATCACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 6 0.12
25 46 0.88
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (25 bp):
CCCTTTTTAATAAACTGGGGCAAAG
Found at i:34798946 original size:56 final size:55
Alignment explanation
Indices: 34798818--34798948 Score: 149
Period size: 56 Copynumber: 2.4 Consensus size: 55
34798808 TTTCATCCTA
* * *
34798818 CAAGGGTGTTTTGGTAA-ATTTATAAACCAAGGGTATTTTAGTAATTTTGTAAAG
1 CAAGGGTATTTTGGTAATTTTTAGAAACCAAGGGTATTTTAGTAATTTTGTAAAG
* * * * *
34798872 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTTAGAAA-CCAAGGGTATTTTAGTAATTTTGTAAAG
*
34798928 TAAGGGTATTTTGGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
34798949 ACAAATTGAG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 12 0.19
55 9 0.15
56 41 0.66
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (55 bp):
CAAGGGTATTTTGGTAATTTTTAGAAACCAAGGGTATTTTAGTAATTTTGTAAAG
Found at i:34798954 original size:27 final size:27
Alignment explanation
Indices: 34798819--34799027 Score: 163
Period size: 27 Copynumber: 7.7 Consensus size: 27
34798809 TTCATCCTAC
* * * *
34798819 AAGGGTGTTTTGGTAAATTTATAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* **
34798846 AAGGGTATTTTAGTAATTTTGTAAAGC-
1 AAGGGTATTTTGGTAATTTTACAAA-CT
* * * *
34798873 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
* ** *
34798901 CAAGGGTATTTTTGTAATTTTGTAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
*
34798929 AAGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
34798956 GAGGGTAGTTCGGTAATTTCACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
34798983 -AGTGGTATTTTGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
34799010 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
34799028 CTACCCTATA
Statistics
Matches: 148, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.01
27 115 0.78
28 19 0.13
29 12 0.08
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:34799043 original size:81 final size:81
Alignment explanation
Indices: 34798905--34799060 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
34798895 GAAAGTCAAG
* ** * * * *
34798905 GGTATTTTTGTAATTTTGTAAATTAAGGGTATTTTGGTAATTTTACAAATTGAGGGTAGTTCGGT
1 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTACAAATAGAGGGTAGTTCAGT
34798970 AATTTCACAAACTAGT
66 AATTTCACAAACTAGT
* ** *
34798986 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTCAG
1 GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTA-CAAATAGAGGGTAGTTCAG
34799050 TAATTTCACAA
65 TAATTTCACAA
34799061 TCGAGGGTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 59 0.94
82 4 0.06
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTACAAATAGAGGGTAGTTCAGT
AATTTCACAAACTAGT
Found at i:34799067 original size:27 final size:27
Alignment explanation
Indices: 34798931--34799067 Score: 100
Period size: 27 Copynumber: 5.1 Consensus size: 27
34798921 TGTAAATTAA
* *
34798931 GGGTATTTTGGTAATTTTACAAATTGA-
1 GGGTATTTTGGTAATTTCAC-AATCGAG
* * * *
34798958 GGGTAGTTCGGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTCACAATCGAG
* * * *
34798985 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAATCGAG
* *
34799012 GGGTATTTTGGTAATTCTACCCTAT--AG
1 GGGTATTTTGGTAATT-T-CACAATCGAG
**
34799039 GGGTATTTCAGTAATTTCACAATCGAG
1 GGGTATTTTGGTAATTTCACAATCGAG
34799066 GG
1 GG
34799068 TAAAACGGTA
Statistics
Matches: 86, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
25 4 0.05
26 4 0.05
27 75 0.87
28 1 0.01
29 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAATCGAG
Found at i:34799089 original size:27 final size:27
Alignment explanation
Indices: 34799059--34799150 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
34799049 GTAATTTCAC
* * *
34799059 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
34799086 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* * *
34799113 AATCAAGAGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
34799140 AATCGAGGGTA
1 AATCGAGGGTA
34799151 CTTTGGTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:34801563 original size:30 final size:31
Alignment explanation
Indices: 34801487--34801569 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
34801477 TCAGTCTCGA
* *
34801487 CATAT-ACCGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
34801517 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
34801548 CATATCA-TTGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
34801570 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 19 0.39
31 30 0.61
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:34801668 original size:36 final size:36
Alignment explanation
Indices: 34801621--34801693 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
34801611 TGTAACATCA
34801621 ATGAATGTATGCAAGCCCATTTGGGGAGACTACTCG
1 ATGAATGTATGCAAGCCCATTTGGGGAGACTACTCG
34801657 ATGAATGTATGCAAGCCCATTTGGGGAGACTACTCG
1 ATGAATGTATGCAAGCCCATTTGGGGAGACTACTCG
34801693 A
1 A
34801694 CCCACCATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (36 bp):
ATGAATGTATGCAAGCCCATTTGGGGAGACTACTCG
Found at i:34801841 original size:25 final size:25
Alignment explanation
Indices: 34801813--34801894 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
34801803 TAGAGGCCTA
34801813 CCCTCTTTTAAT-AACTGGGGCAAAG
1 CCCT-TTTTAATAAACTGGGGCAAAG
*
34801838 CCCTTTTTGATAAACTGGGGCAAAG
1 CCCTTTTTAATAAACTGGGGCAAAG
*** * *
34801863 CCCTTTTCGGTAAACTGGAGCATAG
1 CCCTTTTTAATAAACTGGGGCAAAG
34801888 CCCTTTT
1 CCCTTTT
34801895 AGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
24 6 0.12
25 45 0.88
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (25 bp):
CCCTTTTTAATAAACTGGGGCAAAG
Found at i:34802897 original size:27 final size:27
Alignment explanation
Indices: 34802862--34803018 Score: 138
Period size: 27 Copynumber: 5.8 Consensus size: 27
34802852 AGAAAGTCAA
* ** *
34802862 GGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
34802889 GGGTATTTTGGTAATTTTATACA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
34802915 AGGGTATTTCGGTAATTTCACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
* *
34802943 TGGTATTTTGTTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
34802970 GGGTATTTTGGTAATTCTACCCTA-TAG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
34802997 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
34803019 TCGAGGGTAA
Statistics
Matches: 104, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.03
27 97 0.93
28 4 0.04
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:34803001 original size:81 final size:81
Alignment explanation
Indices: 34802863--34803018 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
34802853 GAAAGTCAAG
** * * * * *
34802863 GGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTATACATTGAGGGTATTTCGGT
1 GGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACACATAGAGGGTATTTCAGT
34802928 AATTTCACAAACTAGT
66 AATTTCACAAACTAGT
* *
34802944 GGTA-TTTTGTTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTTA
1 GGTATTTTTG-TAATTTTACAAACTAGGGGTATTTTGGTAATTCTACAC-ATAGAGGGTATTTCA
34803007 GTAATTTCACAA
64 GTAATTTCACAA
34803019 TCGAGGGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 5 0.08
81 56 0.88
82 3 0.05
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (81 bp):
GGTATTTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACACATAGAGGGTATTTCAGT
AATTTCACAAACTAGT
Found at i:34803047 original size:27 final size:27
Alignment explanation
Indices: 34803017--34803108 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
34803007 GTAATTTCAC
* *
34803017 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
34803044 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
34803071 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
34803098 AATCGAGGGTA
1 AATCGAGGGTA
34803109 CTTTGGTAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:34813446 original size:38 final size:38
Alignment explanation
Indices: 34813390--34813462 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
34813380 TGAAAAATTG
34813390 TTCTTCAGGAAACAAATCATTTATTTCAACTTCATTTT
1 TTCTTCAGGAAACAAATCATTTATTTCAACTTCATTTT
* *
34813428 TTCTTTAGGAAACGAATCATTTATTTCAACTTCAT
1 TTCTTCAGGAAACAAATCATTTATTTCAACTTCAT
34813463 CTAGTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.44
Consensus pattern (38 bp):
TTCTTCAGGAAACAAATCATTTATTTCAACTTCATTTT
Found at i:34821627 original size:28 final size:27
Alignment explanation
Indices: 34821596--34821724 Score: 105
Period size: 28 Copynumber: 4.6 Consensus size: 27
34821586 CGAACGTATC
* *
34821596 GCACACTAAGTGCCATCCTGGATGTCTT
1 GCACACTAAGTGCCATCCTCGATAT-TT
*
34821624 GCACACTAAGTGCCATCCTCGATAATTC
1 GCACACTAAGTGCCATCCTCGAT-ATTT
* * * * * *
34821652 GCTCACTAAGAGGCATTTCTGGATGTTT
1 GCACACTAAGTGCCA-TCCTCGATATTT
* * *
34821680 CACACACTAAGTGCCATCCTCAATAACTT
1 -GCACACTAAGTGCCATCCTCGAT-ATTT
34821709 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
34821725 TTTAAAAATT
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
28 57 0.74
29 20 0.26
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (27 bp):
GCACACTAAGTGCCATCCTCGATATTT
Found at i:34821726 original size:57 final size:57
Alignment explanation
Indices: 34821594--34821726 Score: 173
Period size: 57 Copynumber: 2.4 Consensus size: 57
34821584 CACGAACGTA
* * *
34821594 TCGCACACTAAGTGCCA-TCCTGGATGTCTTGCACACTAAGTGCCATCCTCGATAAT
1 TCGCACACTAAGTGCCATTTCTGGATGTCTTACACACTAAGTGCCATCCTCAATAAT
* * *
34821650 TCGCTCACTAAGAGGCATTTCTGGATGT-TTCACACACTAAGTGCCATCCTCAATAACT
1 TCGCACACTAAGTGCCATTTCTGGATGTCTT-ACACACTAAGTGCCATCCTCAATAA-T
34821708 T-GCACACTAAGTGCCATTT
1 TCGCACACTAAGTGCCATTT
34821727 TAAAAATTGA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
56 16 0.25
57 47 0.72
58 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (57 bp):
TCGCACACTAAGTGCCATTTCTGGATGTCTTACACACTAAGTGCCATCCTCAATAAT
Found at i:34826605 original size:18 final size:18
Alignment explanation
Indices: 34826582--34826628 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
34826572 ACTAGTTTGG
34826582 TAGGCCGTGTGGCAATAA
1 TAGGCCGTGTGGCAATAA
34826600 TAGGCCGTGTGGCAATAA
1 TAGGCCGTGTGGCAATAA
34826618 -AGGGCCGTGTG
1 TA-GGCCGTGTG
34826629 ATTGACGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 1 0.04
18 27 0.96
ACGTcount: A:0.23, C:0.17, G:0.38, T:0.21
Consensus pattern (18 bp):
TAGGCCGTGTGGCAATAA
Found at i:34831670 original size:16 final size:16
Alignment explanation
Indices: 34831636--34831670 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34831626 TGTATGTATT
*
34831636 TGTGAACCCTATAATA
1 TGTGAACCCTATAACA
*
34831652 TGTGAACCCTATCACA
1 TGTGAACCCTATAACA
34831668 TGT
1 TGT
34831671 TGTAAGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (16 bp):
TGTGAACCCTATAACA
Found at i:34855399 original size:30 final size:30
Alignment explanation
Indices: 34855339--34855399 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
34855329 GAGTTTTCAG
* *
34855339 GATCCACACGGGCAGGGCACACGGCTATGT
1 GATCCACACGGGCAGGCCACACAGCTATGT
*
34855369 GATCCACACGGGTAGGCCACA-AGCTCATGT
1 GATCCACACGGGCAGGCCACACAGCT-ATGT
34855399 G
1 G
34855400 CCAGCCCATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.25, C:0.30, G:0.31, T:0.15
Consensus pattern (30 bp):
GATCCACACGGGCAGGCCACACAGCTATGT
Found at i:34856516 original size:22 final size:21
Alignment explanation
Indices: 34856479--34856521 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
34856469 TAATTTAACC
34856479 ATTTTTATTTTATTTCATTTT
1 ATTTTTATTTTATTTCATTTT
*
34856500 ATTTTTGTTTTAGTTTCATTTT
1 ATTTTTATTTTA-TTTCATTTT
34856522 TAATTACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (21 bp):
ATTTTTATTTTATTTCATTTT
Found at i:34859619 original size:30 final size:30
Alignment explanation
Indices: 34859583--34859639 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
34859573 TCAGAGAGTT
34859583 ACACGGCCTGGCCACACGGGTGTGTGGAGC
1 ACACGGCCTGGCCACACGGGTGTGTGGAGC
34859613 ACACGGCCTGGCCACACGGGTGTGTGG
1 ACACGGCCTGGCCACACGGGTGTGTGG
34859640 GATCTCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.16, C:0.30, G:0.40, T:0.14
Consensus pattern (30 bp):
ACACGGCCTGGCCACACGGGTGTGTGGAGC
Found at i:34859825 original size:22 final size:21
Alignment explanation
Indices: 34859767--34859825 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
34859757 ATCTCCCCAA
*
34859767 TTTTATTTTAT-TTTATTTAT
1 TTTTATTTTATAATTATTTAT
*
34859787 TTTTAATTATTA-GATTATTTAT
1 TTTT-ATT-TTATAATTATTTAT
34859809 TTTTATTTTACTAATTA
1 TTTTATTTTA-TAATTA
34859826 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 7 0.22
21 6 0.19
22 19 0.59
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTATTTTATAATTATTTAT
Found at i:34859829 original size:26 final size:26
Alignment explanation
Indices: 34859778--34859829 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
34859768 TTTATTTTAT
*
34859778 TTTATTTATTTTTAATTATTAGATTA
1 TTTATTTATTTTTAATAATTAGATTA
* *
34859804 TTTATTTTTATTTTACTAATTA-ATTA
1 TTTATTTAT-TTTTAATAATTAGATTA
34859830 ATTAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTATTTATTTTTAATAATTAGATTA
Found at i:34859903 original size:18 final size:17
Alignment explanation
Indices: 34859851--34859896 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
34859841 ATTCTTATAC
34859851 TTATAT-TTTTAATTTT
1 TTATATATTTTAATTTT
*
34859867 TTACATATTTTAATTTT
1 TTATATATTTTAATTTT
34859884 TTATATACTTTTA
1 TTATATA-TTTTA
34859897 TTATTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 16 0.62
18 5 0.19
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATATTTTAATTTT
Found at i:34860009 original size:3 final size:3
Alignment explanation
Indices: 34860001--34860042 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
34859991 ATCATTGAGT
* *
34860001 TTA TTA TTA TTA TT- TTA TTA TT- TTA TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34860043 TTTTATCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (3 bp):
TTA
Found at i:34860020 original size:8 final size:8
Alignment explanation
Indices: 34860001--34860048 Score: 57
Period size: 8 Copynumber: 6.1 Consensus size: 8
34859991 ATCATTGAGT
34860001 TTATTATTA
1 TTATT-TTA
34860010 TTATTTTA
1 TTATTTTA
34860018 TTATTTTA
1 TTATTTTA
34860026 TTA-TTT-
1 TTATTTTA
34860032 TTATTTTTA
1 TTA-TTTTA
34860041 TT-TTTTA
1 TTATTTTA
34860048 T
1 T
34860049 CTTTCTCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 3 0.08
7 9 0.25
8 17 0.47
9 7 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTTA
Found at i:34860025 original size:22 final size:22
Alignment explanation
Indices: 34860000--34860048 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
34859990 TATCATTGAG
34860000 TTTATTATTATTA-TTTTATTAT
1 TTTATTATTATTATTTTTATT-T
*
34860022 TTTATTATTTTTATTTTTATTT
1 TTTATTATTATTATTTTTATTT
34860044 TTTAT
1 TTTAT
34860049 CTTTCTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 18 0.72
23 7 0.28
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTATTATTATTATTTTTATTT
Found at i:34860043 original size:6 final size:6
Alignment explanation
Indices: 34860004--34860095 Score: 55
Period size: 6 Copynumber: 15.2 Consensus size: 6
34859994 ATTGAGTTTA
* * * *
34860004 TTATTA TTA-TT TTATTA TT-TTA TTATTT TTATTT TTATTTT TTATCT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTA-TTT TTATTT
* * * *
34860051 TTCTCT TTAATT TT-GTT TTAGTTGTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTA--T-TT TTATTT TTATTT TTATTT T
34860096 CTCTTCAACT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
5 13 0.19
6 44 0.64
7 7 0.10
9 5 0.07
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:34860059 original size:19 final size:20
Alignment explanation
Indices: 34860018--34860064 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
34860008 TATTATTTTA
* *
34860018 TTATTTTATTATTTTTATTT
1 TTATTTTATTATCTTTATCT
*
34860038 TTATTTT-TTATCTTTCTCT
1 TTATTTTATTATCTTTATCT
34860057 TTAATTTT
1 TT-ATTTT
34860065 GTTTTAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTTATTATCTTTATCT
Found at i:34860747 original size:12 final size:12
Alignment explanation
Indices: 34860730--34860754 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34860720 ATGTAAGTGA
34860730 TCTTGATGATTT
1 TCTTGATGATTT
34860742 TCTTGATGATTT
1 TCTTGATGATTT
34860754 T
1 T
34860755 TGCATTTTTA
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:34861539 original size:47 final size:45
Alignment explanation
Indices: 34861471--34861833 Score: 241
Period size: 47 Copynumber: 7.8 Consensus size: 45
34861461 GATTCATGCA
* * * *
34861471 CCAGTGCAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATGATGAGTG
* * *
34861517 CCAGTGTAAGATCATGTTTGGGACATGGCATCGGCATC-TAGACGAGGG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CAT-GATGAGTG
* * * * *
34861565 CTAGTGTAAGACATGTCTAGGACATGCATCAGCCATATTATGAGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATC-GGCACATGATGAGTG
*
34861611 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACA-TGATGAGTG
* * * *
34861659 CTAGAGTAAGACATGTCTGGGACATGCATCAGC-C-TCGACAGAGATAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCACAT-GA-TGAG-T-G
* * * ** **
34861706 CTAGTGTAAGACGTGTTTGGGACACACATCGGCTA-A-GATTTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACATGATGAGTG
* * ** * *
34861750 CTAGTGTAAGACATGTTTGGGACATGCATCAACACGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CAT-GATGAGTG
*
34861798 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA
34861834 ATATATCCCA
Statistics
Matches: 246, Mismatches: 48, Indels: 42
0.73 0.14 0.12
Matches are distributed among these distances:
43 1 0.00
44 31 0.13
45 5 0.02
46 40 0.16
47 93 0.38
48 57 0.23
49 12 0.05
50 7 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCACATGATGAGTG
Found at i:34861639 original size:94 final size:93
Alignment explanation
Indices: 34861473--34861833 Score: 376
Period size: 94 Copynumber: 3.8 Consensus size: 93
34861463 TTCATGCACC
* * * * * *
34861473 AGTGCAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGATCATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
34861538 GACATGGCATCGGCATCTAGACGAGGGCT
65 GACATGGCATCGGCATCAAGATGAGTGCT
* *
34861567 AGTGTAAGACATGTCTAGGACATGCATCAGCCATATTATGAGTGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATA-TATGAGAGCCAGTGTAAGACCATGTCTGG
34861632 GACATGGCATCGGCA-CAGAGATGAGTGCT
65 GACATGGCATCGGCATCA-AGATGAGTGCT
* * * * *
34861661 AGAGTAAGACATGTCTGGGACATGCATCAGCC-TCGACA-GAGATAGCTAGTGTAAGA-CGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ATATGAG--AGCCAGTGTAAGACCATGTC
** **
34861723 TGGGACA-CACATCGGC-T-AAGATTTGTGCT
62 TGGGACATGGCATCGGCATCAAGATGAGTGCT
* *
34861752 AGTGTAAGACATGTTTGGGACATGCATCAACACGCATATATGAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATC-A-GC-CATATATGAGAGCCAGTGTAAGACCATGTCT
*
34861817 AGGACATGGCATCGGCA
63 GGGACATGGCATCGGCA
34861834 ATATATCCCA
Statistics
Matches: 221, Mismatches: 32, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
91 35 0.16
92 14 0.06
93 25 0.11
94 134 0.61
95 13 0.06
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATATATGAGAGCCAGTGTAAGACCATGTCTGGG
ACATGGCATCGGCATCAAGATGAGTGCT
Found at i:34861729 original size:141 final size:139
Alignment explanation
Indices: 34861471--34861829 Score: 318
Period size: 141 Copynumber: 2.6 Consensus size: 139
34861461 GATTCATGCA
* ** * *
34861471 CCAGTGCAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGATCATGTTT
1 CCAGTGCAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGAGTAAGATCATGTCT
* *
34861536 GGGACATGGCATCGGCATCTAGACGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAT
66 GGGACATGGCATCAGCA-CTAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAT
34861601 ATTATGAGTG
130 ATTATGAGTG
* * *
34861611 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGATGAGTGCTAGAGTAAGA-CATG
1 CCAGTGCAAGA-CATGTCTGGGACAT-GCATCGGCCACA-AGATGAGAGCCAGAGTAAGATCATG
* * * * ** *
34861674 TCTGGGACAT-GCATCAGC-CTCGACAGAGATAGCTAGTGTAAGACGTGTTTGGGACACACATCG
63 TCTGGGACATGGCATCAGCACTAGAC-GAG--AGCTAGTGTAAGACATGTCTAGGACATGCATCA
* *
34861737 GCTAAGATT-T--GTG
125 GC-CATATTATGAGTG
* * * ** * * * *
34861750 CTAGTGTAAGACATGTTTGGGACATGCATCAACACGCATATATGAGAGCCAGTGTAAGACCATGT
1 CCAGTGCAAGACATGTCTGGGACATGCATCGGC-CACA-AGATGAGAGCCAGAGTAAGATCATGT
*
34861815 CTAGGACATGGCATC
64 CTGGGACATGGCATC
34861830 GGCAATATAT
Statistics
Matches: 178, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
137 5 0.03
138 18 0.10
139 35 0.20
140 30 0.17
141 65 0.37
142 25 0.14
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (139 bp):
CCAGTGCAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCCAGAGTAAGATCATGTCT
GGGACATGGCATCAGCACTAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATA
TTATGAGTG
Found at i:34863924 original size:11 final size:12
Alignment explanation
Indices: 34863908--34863937 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
34863898 TATTGTTCTC
34863908 AAAAAAAAA-TG
1 AAAAAAAAAGTG
34863919 AAAAAAAAAGTG
1 AAAAAAAAAGTG
34863931 AAAAAAA
1 AAAAAAA
34863938 TACATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAGTG
Found at i:34863925 original size:12 final size:12
Alignment explanation
Indices: 34863908--34863937 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34863898 TATTGTTCTC
34863908 AAAAAAAAATGA
1 AAAAAAAAATGA
*
34863920 AAAAAAAAGTGA
1 AAAAAAAAATGA
34863932 AAAAAA
1 AAAAAA
34863938 TACATTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAAAAAAATGA
Found at i:34866045 original size:8 final size:8
Alignment explanation
Indices: 34866032--34866059 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
34866022 GGTAAAAGCT
34866032 GAAATGCC
1 GAAATGCC
34866040 GAAATGCC
1 GAAATGCC
34866048 GAAATGCC
1 GAAATGCC
34866056 GAAA
1 GAAA
34866060 AGTCAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (8 bp):
GAAATGCC
Found at i:34866068 original size:16 final size:16
Alignment explanation
Indices: 34866033--34866083 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
34866023 GTAAAAGCTG
* *
34866033 AAATGCCGAAATGCCG
1 AAATGCCGAAAAGCCA
*
34866049 AAATGCCGAAAAGTCA
1 AAATGCCGAAAAGCCA
*
34866065 AAATGCAGAAAAGCCA
1 AAATGCCGAAAAGCCA
34866081 AAA
1 AAA
34866084 GTTTAGCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.10
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:34866068 original size:24 final size:23
Alignment explanation
Indices: 34866041--34866085 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34866031 TGAAATGCCG
* *
34866041 AAATGCCGAAATGCCGAAAAGTCA
1 AAATGCAGAAAAGCC-AAAAGTCA
34866065 AAATGCAGAAAAGCCAAAAGT
1 AAATGCAGAAAAGCCAAAAGT
34866086 TTAGCTACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.11
Consensus pattern (23 bp):
AAATGCAGAAAAGCCAAAAGTCA
Found at i:34873791 original size:16 final size:16
Alignment explanation
Indices: 34873767--34873810 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
34873757 GGCAGAAGCT
*
34873767 GAAATGCCGAAATACC
1 GAAAAGCCGAAATACC
**
34873783 GAAAAGCCGAAATGTC
1 GAAAAGCCGAAATACC
*
34873799 AAAAAGCCGAAA
1 GAAAAGCCGAAA
34873811 GTTTGGCTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.20, G:0.20, T:0.09
Consensus pattern (16 bp):
GAAAAGCCGAAATACC
Found at i:34874070 original size:29 final size:27
Alignment explanation
Indices: 34874034--34874113 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
34874024 TGAATGTGAC
34874034 TGGGCCTAATGGGCCATATATAAGTGATT
1 TGGGCCTAATGGGCCATATATAA-TGA-T
*
34874063 TGGGCCTAAAGAGGCCATATGACT-ATGAT
1 TGGGCCTAATG-GGCCATAT-A-TAATGAT
* *
34874092 TGGGCTTAATGGGCCAGATATA
1 TGGGCCTAATGGGCCATATATA
34874114 GGTATGTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 7 0.16
29 20 0.47
30 11 0.26
31 2 0.05
32 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (27 bp):
TGGGCCTAATGGGCCATATATAATGAT
Found at i:34878463 original size:14 final size:14
Alignment explanation
Indices: 34878444--34878470 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34878434 AGTGGTCCAG
34878444 TTGAACTGAACTGA
1 TTGAACTGAACTGA
34878458 TTGAACTGAACTG
1 TTGAACTGAACTG
34878471 GCCAAGGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (14 bp):
TTGAACTGAACTGA
Found at i:34882662 original size:40 final size:40
Alignment explanation
Indices: 34882478--34882664 Score: 143
Period size: 40 Copynumber: 4.7 Consensus size: 40
34882468 GCTACTCGTT
* *
34882478 CAAATGCCTTCGGGACATAGCCCGGTTATGGTAA-C-CC-GCA
1 CAAATGCCTTCGGGTCTTAGCCCGG--AT-GTAATCACCAGCA
* * * *
34882518 CAAAGGCCTTCGGGACTTAACCCGGAT-T--TCACAATTTGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA---GCA
* * *
34882558 CAAATGCCTTCGGGTCTTAGCCCAGATGTAGTCACTAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCAGCA
* * *
34882598 CAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCAGCA
1 CAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCAGCA
* * *
34882638 TAAATGTCTTCGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGTCTTAGCCCGGAT
34882665 ATCATTCAAT
Statistics
Matches: 118, Mismatches: 20, Indels: 18
0.76 0.13 0.12
Matches are distributed among these distances:
35 1 0.01
36 2 0.02
38 2 0.02
40 107 0.91
41 1 0.01
43 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCAGCA
Found at i:34889915 original size:46 final size:46
Alignment explanation
Indices: 34889865--34889955 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
34889855 GCCACTGGAG
* * *
34889865 TTGCAGTTAAACTGCCAGATCAAATATATGTGGTCAAGCCACTATC
1 TTGCAGTCAAACTACCAGAACAAATATATGTGGTCAAGCCACTATC
* * ** *
34889911 TTGCAGTCAAGCTACCATAACAGTTATGTGTGGTCAAGCCACTAT
1 TTGCAGTCAAACTACCAGAACAAATATATGTGGTCAAGCCACTAT
34889956 AATTGTAGTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (46 bp):
TTGCAGTCAAACTACCAGAACAAATATATGTGGTCAAGCCACTATC
Found at i:34895713 original size:27 final size:27
Alignment explanation
Indices: 34895653--34895713 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
34895643 TATACATATC
** * *
34895653 ATAGGGGCATATTAGTCATTTTACCAC
1 ATAGGGGCATAACAGTCATTTCACCAA
*
34895680 ATAGGGGCATAACAGTCATTTCATCAA
1 ATAGGGGCATAACAGTCATTTCACCAA
*
34895707 ATTGGGG
1 ATAGGGG
34895714 TCTAGGTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (27 bp):
ATAGGGGCATAACAGTCATTTCACCAA
Found at i:34895976 original size:19 final size:17
Alignment explanation
Indices: 34895934--34895968 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
34895924 TACCAGTGTG
*
34895934 GGGCCCACATGCCTATT
1 GGGCCCACATGCCCATT
34895951 GGGCCCACATGACCCATT
1 GGGCCCACATG-CCCATT
34895969 TTGGCCCAAA
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:0.20, C:0.37, G:0.23, T:0.20
Consensus pattern (17 bp):
GGGCCCACATGCCCATT
Found at i:34905363 original size:23 final size:23
Alignment explanation
Indices: 34905333--34905379 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34905323 TGGCATGTAT
34905333 AGGACAACTTGGCCATTAGTGGC
1 AGGACAACTTGGCCATTAGTGGC
34905356 AGGACAACTTGGCCATTAGTGGC
1 AGGACAACTTGGCCATTAGTGGC
34905379 A
1 A
34905380 TGAAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (23 bp):
AGGACAACTTGGCCATTAGTGGC
Found at i:34912883 original size:43 final size:43
Alignment explanation
Indices: 34912836--34912992 Score: 179
Period size: 43 Copynumber: 3.7 Consensus size: 43
34912826 TGTGTTCTCA
34912836 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* * * ** *
34912879 TGTAAAACCACGTTTGAGACGTTGGCATTAATATGTGTTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* ** * ** *
34912922 AGTAAGACCTTGTTTGGGACAATGGCATCGATATGTGATTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
* *
34912965 TGTAAGTCCACGTCTGGAACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
34912993 TGTACGATAT
Statistics
Matches: 89, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
Found at i:34919576 original size:47 final size:48
Alignment explanation
Indices: 34919507--34919638 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 48
34919497 AGGGTATAAT
* * *
34919507 GTTGATGCCATGTCCCAGACATGGTCTTATACTGGCTCATC-CATC-AA
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCGAA
*
34919554 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAG
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAA
** *
34919603 GCCGATGCCATGTCCCAGACATGGTCTTACTCTGAC
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGAC
34919639 ACCTCTATAC
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 3 0.04
47 35 0.47
48 3 0.04
49 34 0.45
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (48 bp):
GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAA
Found at i:34919739 original size:46 final size:46
Alignment explanation
Indices: 34919688--34919867 Score: 213
Period size: 46 Copynumber: 3.9 Consensus size: 46
34919678 TACCCTGACA
*
34919688 CATCTCGTA-GCCGATGCATGCCCCAGACATGTCTTACACTAGCT-T
1 CATCTC-TAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
* *
34919733 ACATCTCGAGGCCGATGCATGTCTCAGACATGTCTTACACTAGCTCT
1 -CATCTCTAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
* * * * *
34919780 CGTCTCAATGTCGATGTCATGTCCTAGACATGTTCTTACACTAGCTCT
1 CATCTCTAGGCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTCT
*
34919828 CATAATCT-GGCCGATGCATGTCCCAGACATGTCTTACACT
1 CAT-CTCTAGGCCGATGCATGTCCCAGACATGTCTTACACT
34919868 GGCACACAAA
Statistics
Matches: 114, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
45 1 0.01
46 60 0.53
47 28 0.25
48 23 0.20
49 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (46 bp):
CATCTCTAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
Found at i:34919825 original size:94 final size:92
Alignment explanation
Indices: 34919699--34919867 Score: 243
Period size: 94 Copynumber: 1.8 Consensus size: 92
34919689 ATCTCGTAGC
* *
34919699 CGATGCATGCCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGGCCGATGCATGTCTCAGAC
1 CGATGCATGCCCCAGACATGTCTTACACTAGCTCT-CATAATC-AGGCCGATGCATGTCCCAGAC
34919762 ATGTCTTACACTAGCTCTCGTCTCAATGT
64 ATGTCTTACACTAGCTCTCGTCTCAATGT
* * *
34919791 CGATGTCATGTCCTAGACATGTTCTTACACTAGCTCTCATAATCTGGCCGATGCATGTCCCAGAC
1 CGATG-CATGCCCCAGACATG-TCTTACACTAGCTCTCATAATCAGGCCGATGCATGTCCCAGAC
34919856 ATGTCTTACACT
64 ATGTCTTACACT
34919868 GGCACACAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 47 0.69
95 3 0.04
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.30
Consensus pattern (92 bp):
CGATGCATGCCCCAGACATGTCTTACACTAGCTCTCATAATCAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGT
Found at i:34923480 original size:118 final size:118
Alignment explanation
Indices: 34923272--34923506 Score: 407
Period size: 118 Copynumber: 2.0 Consensus size: 118
34923262 AAATTTTCTT
34923272 TTACTGAACTTGGCGTACAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTCCGC
1 TTACTGAACTTGGCGTACAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTCCGC
34923337 ATGCTCACTCTCATCACTCGAATAAATCAAAATGTCATCAATAAAGACAACTC
66 ATGCTCACTCTCATCACTCGAATAAATCAAAATGTCATCAATAAAGACAACTC
* * * * *
34923390 TTACTGAACTTGGTGTATAACTGCGTATCTTTCAAGGTTTGTAAAACCATTCTCAAATGCTTCGC
1 TTACTGAACTTGGCGTACAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTCCGC
* *
34923455 ATGCTCACTCTCATCACTCGAATAAATCAATATGTCATCGATAAAGACAACT
66 ATGCTCACTCTCATCACTCGAATAAATCAAAATGTCATCAATAAAGACAACT
34923507 AAGAACTTAT
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (118 bp):
TTACTGAACTTGGCGTACAACTGCATATCTCTCAAGGTTTGTAAAACCATTCTCAAATGCTCCGC
ATGCTCACTCTCATCACTCGAATAAATCAAAATGTCATCAATAAAGACAACTC
Found at i:34927618 original size:45 final size:47
Alignment explanation
Indices: 34927509--34927630 Score: 153
Period size: 50 Copynumber: 2.6 Consensus size: 47
34927499 TGAGGCTGAC
* *
34927509 GCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-G--CACACATATCCGTGCCGAT
*
34927559 GCCATGTCCCAGACATGGTCTTACACTG-ACACATCT-CGTAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGCACACATATCCGT-GCCGAT
34927605 G-CATGTCCCAGACAT-GTCTTACACTG
1 GCCATGTCCCAGACATGGTCTTACACTG
34927631 GCTTACAACC
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
44 11 0.16
45 17 0.25
46 13 0.19
49 1 0.01
50 26 0.38
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGCACACATATCCGTGCCGAT
Found at i:34927662 original size:46 final size:47
Alignment explanation
Indices: 34927456--34927675 Score: 157
Period size: 46 Copynumber: 4.7 Consensus size: 47
34927446 TCCATCAAGT
* * * ***
34927456 CGATGCCACGTCCCAAACATGGTCTTACACTGAC-TATCGAAATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-C-AACCCG-GGC
* * * * * *
34927505 TGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-T-ACA-ACCCGGGC
* * * *
34927555 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAACCCG-GGC
34927601 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACAACCCAGGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAACCC-GGGC
* *
34927647 TGATG-CATGTCCCAGACAT-GTCATACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
34927676 AGTTCTCGTC
Statistics
Matches: 137, Mismatches: 26, Indels: 19
0.75 0.14 0.10
Matches are distributed among these distances:
44 12 0.09
45 16 0.12
46 44 0.32
47 1 0.01
49 27 0.20
50 32 0.23
51 4 0.03
52 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACAACCCGGGC
Found at i:34932248 original size:12 final size:12
Alignment explanation
Indices: 34932233--34932269 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
34932223 AGGCAAAAAG
34932233 AGATGCAAGAAC
1 AGATGCAAGAAC
*
34932245 AGATGCAAGCAC
1 AGATGCAAGAAC
34932257 AGATGCAAGAAC
1 AGATGCAAGAAC
34932269 A
1 A
34932270 ACTAGCTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.19, G:0.24, T:0.08
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:34937038 original size:134 final size:133
Alignment explanation
Indices: 34936821--34937063 Score: 335
Period size: 134 Copynumber: 1.8 Consensus size: 133
34936811 AGATGGCGAA
* * *
34936821 TCTTATCTTCCTGAGGTAGTAGGGGAGCAGATTTCAGCCACTAGCCTTATCTCTCGGAGGTAGCA
1 TCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTCCCGGAGGTAGCA
* ** *
34936886 AGGGAACAGGCTGCAGATTGTAGATCTTATCTCCCTGAGTCAGCAGTGGGGCGGATAAAAAATGG
66 AGGGAACAGACTAAAGATTGTAG-TCTTATCTCCCTGAGGCAGCAGTGGGGCGGATAAAAAATGG
34936951 TGAT
130 TGAT
* * * *
34936955 TCTTATCTTTCC-GAGGTAGCAGGGGAGCAGATTTTAGCCACCGGCCTTATCTCCCTGAGGTAGT
1 TCTTATC-TTCCTGAGGTAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTCCCGGAGGTAGC
* * *
34937019 AAGGGAGCAGATTAAAGATTGTAGTCTTATCTTCCTGAGGCAGCA
65 AAGGGAACAGACTAAAGATTGTAGTCTTATCTCCCTGAGGCAGCA
34937064 AGGAAGTAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
133 19 0.20
134 71 0.76
135 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (133 bp):
TCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTCAGCCACCAGCCTTATCTCCCGGAGGTAGCA
AGGGAACAGACTAAAGATTGTAGTCTTATCTCCCTGAGGCAGCAGTGGGGCGGATAAAAAATGGT
GAT
Found at i:34937085 original size:44 final size:45
Alignment explanation
Indices: 34937000--34937102 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 45
34936990 AGCCACCGGC
* * * *
34937000 CTTATCTCCCTGAGGTAGTAAGGGAGCAGATTAAAGATTGTAG-T
1 CTTATCTCCCTGAGGCAGCAAGGAAGCAGACTAAAGATTGTAGAT
* * * *
34937044 CTTATCTTCCTGAGGCAGCAAGGAAGTAGACTGAAGTTTGTAGAT
1 CTTATCTCCCTGAGGCAGCAAGGAAGCAGACTAAAGATTGTAGAT
* *
34937089 CCTATCTCTCTGAG
1 CTTATCTCCCTGAG
34937103 ATAGCAGTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
44 35 0.74
45 12 0.26
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAGGCAGCAAGGAAGCAGACTAAAGATTGTAGAT
Found at i:34937221 original size:44 final size:45
Alignment explanation
Indices: 34937173--34937274 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
34937163 AGCTACCAGC
** * *
34937173 CTTATCTCCCTGAGGTAGCAAGGGAGCAAG-CTGAAGATTGTA-GT
1 CTTATCTCCCTGAGGTAGCAAGAAAG-AAGACTGAAGATGGTACAT
* * *
34937217 CTTATCTTCTTGAGGTAGCAAGAAAGTAGACTGAAGATGGTACAT
1 CTTATCTCCCTGAGGTAGCAAGAAAGAAGACTGAAGATGGTACAT
34937262 CTTATCTCCCTGA
1 CTTATCTCCCTGA
34937275 AGTTGCAGTG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.04
44 33 0.70
45 12 0.26
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (45 bp):
CTTATCTCCCTGAGGTAGCAAGAAAGAAGACTGAAGATGGTACAT
Found at i:34937285 original size:173 final size:173
Alignment explanation
Indices: 34936900--34937285 Score: 515
Period size: 173 Copynumber: 2.2 Consensus size: 173
34936890 AACAGGCTGC
* *
34936900 AGATTGTAGATCTTATCTCCCTGAGTCAGCAGTGGGGCGGATAAAAAATGGTGATTCTTATCTTT
1 AGATTGTAGATCTTATCTCCCTGAGT-AGCAGTGGGGCAGATAAAAAATGGTGA----TATCTTC
* * *
34936965 CCGAGGTAGCAGGGGAGCAGATTTTAGCCACCGGCCTTATCTCCCTGAGGTAGTAAGGGAGCAGA
61 CCGAGCTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGA
* *
34937030 TTAAAGATTGTAGTCTTATCTTCCTGAGGCAGCAAGGAAGTAGACTGA
126 CTAAAGATTGTAGTCTTATCTTCCTGAGGCAGCAAGAAAGTAGACTGA
* * * **
34937078 AGTTTGTAGATCCTATCTCTCTGAGATAGCAGTGGGGCAGATTGAAAATGGTGA-ATCTTCCCGA
1 AGATTGTAGATCTTATCTCCCTGAG-TAGCAGTGGGGCAGATAAAAAATGGTGATATCTTCCCGA
* *
34937142 GCTAGCAGGGGAGCAGATTTTAGCTACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGCA-AGCTG
65 GCTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGA-CTA
* *
34937206 AAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGAAAGTAGACTGA
129 AAGATTGTAGTCTTATCTTCCTGAGGCAGCAAGAAAGTAGACTGA
* * *
34937251 AGATGGTACATCTTATCTCCCTGAAGTTGCAGTGG
1 AGATTGTAGATCTTATCTCCCTG-AGTAGCAGTGG
34937286 AGTAGATCAA
Statistics
Matches: 183, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
172 1 0.01
173 133 0.73
174 2 0.01
178 46 0.25
179 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (173 bp):
AGATTGTAGATCTTATCTCCCTGAGTAGCAGTGGGGCAGATAAAAAATGGTGATATCTTCCCGAG
CTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGGTAGCAAGGGAGCAGACTAAA
GATTGTAGTCTTATCTTCCTGAGGCAGCAAGAAAGTAGACTGA
Found at i:34938346 original size:39 final size:39
Alignment explanation
Indices: 34938290--34938454 Score: 258
Period size: 39 Copynumber: 4.2 Consensus size: 39
34938280 CTGGCAATTT
** * *
34938290 GCCTGCTAGGTATAAACCCCAACTTAACACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
*
34938329 GCCTGCTAGGTACAAACCTAAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
*
34938368 GCCTGCTAGGTATAAACCTTAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
* *
34938407 GCCTGCTAGGTATAAACCTGAATTTATCACCGACACGAG
1 GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
34938446 GCCTGCTAG
1 GCCTGCTAG
34938455 ACATTAAGTC
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 117 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTAAATTTATCACCGGCACGAG
Found at i:34938873 original size:39 final size:39
Alignment explanation
Indices: 34938819--34938898 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
34938809 TGCTAAAAGT
34938819 ATGGCAAATTTCTCGTGACATATCATGATTCATTCATAA
1 ATGGCAAATTTCTCGTGACATATCATGATTCATTCATAA
34938858 ATGGCAAATTTCTCGTGACATATCATGATTCATTCATAA
1 ATGGCAAATTTCTCGTGACATATCATGATTCATTCATAA
34938897 AT
1 AT
34938899 AGCTTATGTT
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:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (39 bp):
ATGGCAAATTTCTCGTGACATATCATGATTCATTCATAA
Found at i:34941642 original size:27 final size:28
Alignment explanation
Indices: 34941585--34941654 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
34941575 AAATTTGTAC
**
34941585 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
34941613 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
34941640 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
34941655 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:34941663 original size:27 final size:27
Alignment explanation
Indices: 34941585--34941666 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
34941575 AAATTTGTAC
* *
34941585 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
34941613 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
34941640 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
34941667 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:34944239 original size:44 final size:43
Alignment explanation
Indices: 34944191--34944453 Score: 161
Period size: 44 Copynumber: 6.0 Consensus size: 43
34944181 CCTTATCTCT
* *
34944191 CTGAGGTAGCAAGAGAGTAGGTTGAAGATTGTAGTCTCATCTTC
1 CTGAGGTAGCAAG-GAGCAGATTGAAGATTGTAGTCTCATCTTC
* * *
34944235 CTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCTCC
1 CTGAGGTAGCAAGG-AGCAGATTGAAGATTGTAG-TCTCATCTTC
* * *** * * * * * *
34944280 CT-AAGCAGTGTGGAGTAGATAGAAGATGGCGAATCTTATCTTC
1 CTGAGGTAGCAAGGAGCAGATTGAAGATTG-TAGTCTCATCTTC
* * ** ***** * *
34944323 TTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATC-TC
1 CTGAGGTAGCA-AGGAGCAGATTGAAGATTGTAGTCTCATCTTC
*
34944366 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTCATCTTC
1 -CTGAGGTAGCAAG-GAGCAGATTGAAGATTGTAGTCTCATCTTC
* *
34944411 CTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCT
1 CTGAGGTAGCAAGG-AGCAGATTGAAGATTGTAG-TCTCATCT
34944454 CCCTAAGCAG
Statistics
Matches: 159, Mismatches: 50, Indels: 19
0.70 0.22 0.08
Matches are distributed among these distances:
43 26 0.16
44 104 0.65
45 29 0.18
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (43 bp):
CTGAGGTAGCAAGGAGCAGATTGAAGATTGTAGTCTCATCTTC
Found at i:34944321 original size:88 final size:88
Alignment explanation
Indices: 34944229--34944510 Score: 271
Period size: 88 Copynumber: 3.2 Consensus size: 88
34944219 TTGTAGTCTC
34944229 ATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCTCCCTAAGCAGTGTGGA
1 ATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCTCCCTAAGCAGTGTGGA
34944294 GTAGATAGAAGATGGCGAATCTT
66 GTAGATAGAAGATGGCGAATCTT
* * * ** ***** * * * * * ***
34944317 ATCTTCTTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG-CCTTATCTCTCTGAGGTAGCAAGA
1 ATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCTCCCT-AAGCAGTGTG-
* * * * * * *
34944381 GAGCAGGTTGAAGATTG-TAGTCTC
64 GAGTAGATAGAAGATGGCGAATCTT
34944405 ATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCTCCCTAAGCAGTAGTGG
1 ATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCTCCCTAAGCAGT-GTGG
*
34944470 AGTAGATAGAAGATGACGAATCTT
65 AGTAGATAGAAGATGGCGAATCTT
* *
34944494 TTCTTCTTGAGGTAGCA
1 ATCTTCCTGAGGTAGCA
34944511 GGCGAGCAGA
Statistics
Matches: 136, Mismatches: 53, Indels: 9
0.69 0.27 0.05
Matches are distributed among these distances:
87 9 0.07
88 85 0.62
89 42 0.31
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (88 bp):
ATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCTCCCTAAGCAGTGTGGA
GTAGATAGAAGATGGCGAATCTT
Found at i:34944734 original size:177 final size:177
Alignment explanation
Indices: 34944148--34944707 Score: 856
Period size: 177 Copynumber: 3.2 Consensus size: 177
34944138 CTGCCACACC
*
34944148 TGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGT
1 TGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
34944213 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCT
66 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCT
34944278 CCCTAAGCAGT-GTGGAGTAGATAGAAGATGGCGAATCTTATCTTCT
131 CCCTAAGCAGTAGTGGAGTAGATAGAAGATGGCGAATCTTATCTTCT
*
34944324 TGAGGTAGCAGGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
1 TGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
34944389 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCT
66 TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCT
* *
34944454 CCCTAAGCAGTAGTGGAGTAGATAGAAGATGACGAATCTTTTCTTCT
131 CCCTAAGCAGTAGTGGAGTAGATAGAAGATGGCGAATCTTATCTTCT
*
34944501 TGAGGTAGC-AGGCGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAG-GAAACAG
1 TGAGGTAGCAAGG-GAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAG-AGCAG
* * * * * * * * * * *
34944564 GCTAAAGATTATAGTCTTATCTTTCTGAGGTAGCAAGGGAGGAAACTAAAGATTGTAGATTTTAT
64 GTTGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGAT
* * * * * * *
34944629 CTCCCTAAGCAGTAGTGTAGCAAATCGAAGATGGCAAATATTATCTTCC
129 CTCCCTAAGCAGTAGTGGAGTAGATAGAAGATGGCGAATCTTATCTTCT
* *
34944678 CGAGGTAGCAAGGGAGCAAATTTTAGCCAC
1 TGAGGTAGCAAGGGAGCAGATTTTAGCCAC
34944708 TAGTCTCATC
Statistics
Matches: 352, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
176 142 0.40
177 207 0.59
178 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (177 bp):
TGAGGTAGCAAGGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
TGAAGATTGTAGTCTCATCTTCCTGAGGTAGCAAGGAAGCAGATTAAAGATTGTAGATCTGATCT
CCCTAAGCAGTAGTGGAGTAGATAGAAGATGGCGAATCTTATCTTCT
Found at i:34944936 original size:133 final size:132
Alignment explanation
Indices: 34944575--34944926 Score: 438
Period size: 133 Copynumber: 2.6 Consensus size: 132
34944565 CTAAAGATTA
* * * *
34944575 TAGTCTTATCTTTCTGAGGTAGCAAGGGAGGAAACT-AAAGATTGTAGATTTTATCTCCCTAAGC
1 TAGTCTTATCTTTCTTAGGTAGCAAGGGAGTAGACTGAAA-ATTGTAGATCTTATCTCCCTAAGC
* * * * *
34944639 AGTAGTGTAGCAAATCGAAGATGGCAAATATTATCTTCCCGAGGTAGCAAGGGAGCAAATTTTAG
65 AGTAGTGGAGCAGATCGAAGATGGCGAA-CTTATCTTCCCAAGGTAGCAAGGGAGCAAATTTTAG
34944704 CCAC
129 CCAC
* * *
34944708 TAGTCTCATCTTCCTATA-GTAGCAAGGGAGTAGACTGAAGATTGTAGATCTTATCTCCCTAAGC
1 TAGTCTTATCTTTCT-TAGGTAGCAAGGGAGTAGACTGAAAATTGTAGATCTTATCTCCCTAAGC
* * * * *
34944772 AGTTGTGGAGCAGATCGAAGATGGCGAAACTTATCTTCCCAAGGTAGCAGGGGAGTAGATTTTTG
65 AGTAGTGGAGCAGATCGAAGATGGCG-AACTTATCTTCCCAAGGTAGCAAGGGAGCAAATTTTAG
34944837 CCAC
129 CCAC
* * * *
34944841 TTGTCTTATCTTTCTTAGGTAGCAAGGGAGTAGACTGAAAATTATAGATCTTATCTCCCTGACGT
1 TAGTCTTATCTTTCTTAGGTAGCAAGGGAGTAGACTGAAAATTGTAGATCTTATCTCCCT-AAGC
* *
34944906 AGCAGTGGAGTAGATCGAAGA
65 AGTAGTGGAGCAGATCGAAGA
34944927 CAGTGAACTT
Statistics
Matches: 187, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
132 2 0.01
133 160 0.86
134 25 0.13
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (132 bp):
TAGTCTTATCTTTCTTAGGTAGCAAGGGAGTAGACTGAAAATTGTAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCGAACTTATCTTCCCAAGGTAGCAAGGGAGCAAATTTTAGCC
AC
Found at i:34945361 original size:16 final size:17
Alignment explanation
Indices: 34945336--34945368 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34945326 GCAAAAAGTG
34945336 ATAAAAT-AAACCAAAA
1 ATAAAATAAAACCAAAA
*
34945352 ATAAATTAAAACCAAAA
1 ATAAAATAAAACCAAAA
34945369 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (17 bp):
ATAAAATAAAACCAAAA
Found at i:34951090 original size:38 final size:39
Alignment explanation
Indices: 34950999--34951090 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
34950989 AGGTACCTTT
* *
34950999 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA-ACA
*
34951039 TGGTGTGTAGGGTT-GAGTGGGTCGATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGA-TGGGTCGATTATATCCCCAACA
*
34951077 TGGTGTGTTGGGTT
1 TGGTGTGTAGGGTT
34951091 AGTCGGAGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 15 0.32
39 2 0.04
40 30 0.64
ACGTcount: A:0.14, C:0.13, G:0.36, T:0.37
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAACA
Found at i:34960437 original size:3 final size:3
Alignment explanation
Indices: 34960429--34960475 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
34960419 GATAATACTA
34960429 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
34960476 GGGTTAAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:34972087 original size:4 final size:4
Alignment explanation
Indices: 34972078--34972104 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
34972068 ATCCTTTTCT
34972078 CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
34972105 GCATGGATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:34974258 original size:22 final size:23
Alignment explanation
Indices: 34974223--34974269 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
34974213 CTTGTGATCT
34974223 TTTATCTTTATAAATTAGCATTA
1 TTTATCTTTATAAATTAGCATTA
34974246 TTTATC-TTATAAATTAGCATTA
1 TTTATCTTTATAAATTAGCATTA
34974268 TT
1 TT
34974270 AGAAGGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTATCTTTATAAATTAGCATTA
Found at i:34976698 original size:14 final size:13
Alignment explanation
Indices: 34976658--34976701 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
34976648 TATAATGATA
34976658 TTATTGTATGTTAT
1 TTATTGTAT-TTAT
*
34976672 TAATTGTA-TTAT
1 TTATTGTATTTAT
34976684 TTATTGTATTATAT
1 TTATTGTATT-TAT
34976698 TTAT
1 TTAT
34976702 GTGTTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
14 14 0.54
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (13 bp):
TTATTGTATTTAT
Found at i:34979787 original size:24 final size:23
Alignment explanation
Indices: 34979760--34979805 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
34979750 TATACATATT
*
34979760 AATATTATTAATTAATAAAATTTA
1 AATAATATT-ATTAATAAAATTTA
* *
34979784 AATAATATTTTTAATGAAATTT
1 AATAATATTATTAATAAAATTT
34979806 GTTAATATGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AATAATATTATTAATAAAATTTA
Found at i:34988919 original size:158 final size:158
Alignment explanation
Indices: 34988631--34988956 Score: 634
Period size: 158 Copynumber: 2.1 Consensus size: 158
34988621 CTGAGTACAC
34988631 GGGCGTGTGGGTTGACCGTGTGTGTCACATAGCCTTAGTACACAACCGTGTGTCCCCTAGGTAGC
1 GGGCGTGTGGGTTGACCGTGTGTGTCACATAGCCTTAGTACACAACCGTGTGTCCCCTAGGTAGC
*
34988696 TTCTCAAATTAAGTCAGTAGACCCTACAGACTTGACACGGCCTAGACACACGGGCGTGTCTTGTG
66 TTCTCAAATTAAGTCAGCAGACCCTACAGACTTGACACGGCCTAGACACACGGGCGTGTCTTGTG
34988761 GCCGTGTAAGGCACACGAACTGGCACAT
131 GCCGTGTAAGGCACACGAACTGGCACAT
34988789 GGGCGTGTGGGTTGACCGTGTGTGTCACATAGCCTTAGTACACAACCGTGTGTCCCCTAGGTAGC
1 GGGCGTGTGGGTTGACCGTGTGTGTCACATAGCCTTAGTACACAACCGTGTGTCCCCTAGGTAGC
*
34988854 TTCTCGAATTAAGTCAGCAGACCCTACAGACTTGACACGGCCTAGACACACGGGCGTGTCTTGTG
66 TTCTCAAATTAAGTCAGCAGACCCTACAGACTTGACACGGCCTAGACACACGGGCGTGTCTTGTG
34988919 GCCGTGTAAGGCACACGAACTGGCACAT
131 GCCGTGTAAGGCACACGAACTGGCACAT
34988947 GGGCGTGTGG
1 GGGCGTGTGG
34988957 CCGGTCATGT
Statistics
Matches: 166, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 166 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (158 bp):
GGGCGTGTGGGTTGACCGTGTGTGTCACATAGCCTTAGTACACAACCGTGTGTCCCCTAGGTAGC
TTCTCAAATTAAGTCAGCAGACCCTACAGACTTGACACGGCCTAGACACACGGGCGTGTCTTGTG
GCCGTGTAAGGCACACGAACTGGCACAT
Found at i:34992786 original size:21 final size:22
Alignment explanation
Indices: 34992761--34992818 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
34992751 CGTAAGGTAA
34992761 CACACGGCAGTGTGACAG-AGG
1 CACACGGCAGTGTGACAGCAGG
* *
34992782 CACACGCCCGTGTGA-AGCAGG
1 CACACGGCAGTGTGACAGCAGG
* * *
34992803 GACATGGCTGTGTGAC
1 CACACGGCAGTGTGAC
34992819 CAGACCGTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.24, C:0.26, G:0.36, T:0.14
Consensus pattern (22 bp):
CACACGGCAGTGTGACAGCAGG
Found at i:34994214 original size:37 final size:37
Alignment explanation
Indices: 34994164--34994251 Score: 158
Period size: 37 Copynumber: 2.4 Consensus size: 37
34994154 TCGATTGAAC
* *
34994164 TAGCTCTTATGAGCATCTGGTGTGTTATCGGGTGGAT
1 TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
34994201 TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
1 TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
34994238 TAGCTCTTATGAGC
1 TAGCTCTTATGAGC
34994252 GATTGGCATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (37 bp):
TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
Found at i:34996072 original size:13 final size:13
Alignment explanation
Indices: 34996054--34996114 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
34996044 CATTGGGCGG
34996054 AAAATGAATATAT
1 AAAATGAATATAT
*
34996067 AAAATGATTATAT
1 AAAATGAATATAT
* * **
34996080 GAATTGGTTATAT
1 AAAATGAATATAT
34996093 GGAAAATGAATATAT
1 --AAAATGAATATAT
34996108 AAAATGA
1 AAAATGA
34996115 TAATATGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 29 0.76
15 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (13 bp):
AAAATGAATATAT
Found at i:34996097 original size:41 final size:41
Alignment explanation
Indices: 34996052--34996175 Score: 189
Period size: 41 Copynumber: 3.1 Consensus size: 41
34996042 TTCATTGGGC
*
34996052 GGAAAATGAATATATAAAATGATTATATGAATTGGTTATAT
1 GGAAAATGAATATATAAAATGATTATATGAATCGGTTATAT
* **
34996093 GGAAAATGAATATATAAAATGATAATATGAATCAATTATAT
1 GGAAAATGAATATATAAAATGATTATATGAATCGGTTATAT
*
34996134 GG-AAATG-ATATATAGAATGATTATATGAATCGGTTATAT
1 GGAAAATGAATATATAAAATGATTATATGAATCGGTTATAT
34996173 GGA
1 GGA
34996176 TAGATATTTA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.41
40 5 0.07
41 39 0.53
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.34
Consensus pattern (41 bp):
GGAAAATGAATATATAAAATGATTATATGAATCGGTTATAT
Found at i:34996145 original size:13 final size:13
Alignment explanation
Indices: 34996069--34996175 Score: 60
Period size: 13 Copynumber: 8.1 Consensus size: 13
34996059 GAATATATAA
34996069 AATGATTATAT-G
1 AATGATTATATGG
*
34996081 AATTGGTTATATGG
1 AA-TGATTATATGG
* **
34996095 AAAATGAATATATAA
1 --AATGATTATATGG
*
34996110 AATGATAATAT-G
1 AATGATTATATGG
*
34996122 AATCAATTATATGG
1 AAT-GATTATATGG
*
34996136 AAATGA-TATATAG
1 -AATGATTATATGG
34996149 AATGATTATAT-G
1 AATGATTATATGG
*
34996161 AATCGGTTATATGG
1 AAT-GATTATATGG
34996175 A
1 A
34996176 TAGATATTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
12 14 0.19
13 41 0.57
14 5 0.07
15 10 0.14
16 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.36
Consensus pattern (13 bp):
AATGATTATATGG
Found at i:34996146 original size:26 final size:27
Alignment explanation
Indices: 34996109--34996160 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
34996099 TGAATATATA
34996109 AAATGATAATAT-GAATCAATTATATGG
1 AAATGATAATATAGAAT-AATTATATGG
*
34996136 AAATGAT-ATATAGAATGATTATATG
1 AAATGATAATATAGAATAATTATATG
34996161 AATCGGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (27 bp):
AAATGATAATATAGAATAATTATATGG
Found at i:35003615 original size:27 final size:28
Alignment explanation
Indices: 35003553--35003615 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
35003543 ATTTTAACAC
*
35003553 ATTAAAA-TTTTAACTATTTTACCCTTG
1 ATTAAAATTTTTAACAATTTTACCCTTG
* *
35003580 A-TAACATTTTTTACAATTTTACCCTT-
1 ATTAAAATTTTTAACAATTTTACCCTTG
35003606 ATTAAAATTT
1 ATTAAAATTT
35003616 CTATAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTAAAATTTTTAACAATTTTACCCTTG
Found at i:35006401 original size:19 final size:19
Alignment explanation
Indices: 35006367--35006405 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
35006357 GATTTCGTAC
*
35006367 TTTGGCCCATTTTCTCCGTT
1 TTTGGCCCAGTTTCT-CGTT
35006387 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
35006405 T
1 T
35006406 CTTTCTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.03, C:0.28, G:0.18, T:0.51
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:35020204 original size:2 final size:2
Alignment explanation
Indices: 35020197--35020224 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35020187 AAATCACCTT
35020197 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
35020225 AATCCACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35020746 original size:25 final size:24
Alignment explanation
Indices: 35020705--35020786 Score: 69
Period size: 27 Copynumber: 3.3 Consensus size: 24
35020695 TGTAATATAG
*
35020705 ATTTTAAAACTCTTTTACATTATTT
1 ATTTT-AAACTCGTTTACATTATTT
* *
35020730 ATTTTAAACTCGCTTTATGTATTATTC
1 ATTTTAAACTCG-TTTA--CATTATTT
*
35020757 ATTTTAAA-TTGTTT-CATTATTT
1 ATTTTAAACTCGTTTACATTATTT
*
35020779 ACTTTAAA
1 ATTTTAAA
35020787 ACTATATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
22 13 0.28
24 6 0.13
25 12 0.26
26 2 0.04
27 14 0.30
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (24 bp):
ATTTTAAACTCGTTTACATTATTT
Found at i:35026886 original size:43 final size:43
Alignment explanation
Indices: 35026741--35026873 Score: 216
Period size: 43 Copynumber: 3.1 Consensus size: 43
35026731 GATATATCCC
* * *
35026741 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
35026782 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
35026825 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
35026868 GCAGGC
1 GCAGGC
35026874 GTAATACCGG
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
41 15 0.17
42 2 0.02
43 69 0.80
ACGTcount: A:0.12, C:0.25, G:0.34, T:0.29
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:35031959 original size:19 final size:19
Alignment explanation
Indices: 35031937--35031976 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35031927 TTTAATTTTT
35031937 AATTCCAATTTTATACATA
1 AATTCCAATTTTATACATA
** *
35031956 AATTCCTCTTTTATATATA
1 AATTCCAATTTTATACATA
35031975 AA
1 AA
35031977 AGATGTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCCAATTTTATACATA
Found at i:35039851 original size:85 final size:85
Alignment explanation
Indices: 35039748--35039918 Score: 270
Period size: 85 Copynumber: 2.0 Consensus size: 85
35039738 TCTCATGCTA
* * * *
35039748 ATTGTTCATTTGCCCTTTAAAATCCTTAAAAATTTCATCCTTAAATCATCACTTAATTTAATAAA
1 ATTGATCATTTGCCCTTTAAAATCCTTAAAAACTCCATCATTAAATCATCACTTAATTTAATAAA
35039813 ATTGTGATTTAGTCCCTCAT
66 ATTGTGATTTAGTCCCTCAT
* * * *
35039833 ATTGATCATTTGCTCTTTATAATCCTTAAAAACTCCATCATTGAATCATCATTTAATTTAATAAA
1 ATTGATCATTTGCCCTTTAAAATCCTTAAAAACTCCATCATTAAATCATCACTTAATTTAATAAA
35039898 ATTGTGATTTAGTCCCTCAT
66 ATTGTGATTTAGTCCCTCAT
35039918 A
1 A
35039919 ATTCTTCATT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (85 bp):
ATTGATCATTTGCCCTTTAAAATCCTTAAAAACTCCATCATTAAATCATCACTTAATTTAATAAA
ATTGTGATTTAGTCCCTCAT
Found at i:35041582 original size:30 final size:30
Alignment explanation
Indices: 35041548--35041615 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
35041538 TATTAAAATA
* *
35041548 AAGGGCTTTTATGAGTAAAAATCATAAGTT
1 AAGGGCTTTAATGAGTAAAAACCATAAGTT
35041578 AAGGGCTTTAATGAGTAAAAACCATAAGTT
1 AAGGGCTTTAATGAGTAAAAACCATAAGTT
35041608 AAGGGCTT
1 AAGGGCTT
35041616 ATTTAACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (30 bp):
AAGGGCTTTAATGAGTAAAAACCATAAGTT
Found at i:35043629 original size:20 final size:19
Alignment explanation
Indices: 35043591--35043628 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35043581 CTATACTAAG
35043591 TAATGTTATTTTTAGAAAA
1 TAATGTTATTTTTAGAAAA
35043610 TAATGTTATTTTTAGAAAA
1 TAATGTTATTTTTAGAAAA
35043629 AAGCCATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
TAATGTTATTTTTAGAAAA
Found at i:35045578 original size:64 final size:65
Alignment explanation
Indices: 35045504--35045633 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 65
35045494 ATGAAATACT
35045504 TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAA-TTTTTCAA
1 TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
*
35045568 TAGTTCAATTAGGACCATTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
1 TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
35045633 T
1 T
35045634 CTGTTTTGCA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 55 0.86
65 9 0.14
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (65 bp):
TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
Found at i:35046925 original size:19 final size:19
Alignment explanation
Indices: 35046897--35046933 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35046887 TCAATTTTTT
* *
35046897 TAAAATTTTCAAATATTTA
1 TAAAAATTTCAAAAATTTA
35046916 TAAAAATTTCAAAAATTT
1 TAAAAATTTCAAAAATTT
35046934 TATTTTTTTA
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:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAAATTTCAAAAATTTA
Found at i:35049480 original size:79 final size:79
Alignment explanation
Indices: 35049342--35049487 Score: 215
Period size: 79 Copynumber: 1.8 Consensus size: 79
35049332 ACATTTATAA
* *
35049342 GTGTTCTATCATATAGCCTATACCCTCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
1 GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
35049407 TGTAGTGTATGTTT
66 TGTAGTGTATGTTT
* * *
35049421 GTGTTCTATCAGATA-CCTTATACCATCCATGTTCTCAAATGCTAGTTAGGCC-AGCTGATGTTC
1 GTGTTCTATCAGATAGCC-TATACCATCCATGCTCTCAAACGCTAGTTAGACCGAG-TGATGTTC
35049484 AATG
64 AATG
35049488 CAGTATGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
78 4 0.07
79 56 0.93
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (79 bp):
GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
TGTAGTGTATGTTT
Found at i:35049776 original size:19 final size:17
Alignment explanation
Indices: 35049739--35049772 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
35049729 AGTTTAGAAA
*
35049739 TGCTTTTTTCTCAAAAG
1 TGCTTTTTTCGCAAAAG
35049756 TGCTTTTTGTCGCAAAA
1 TGCTTTTT-TCGCAAAA
35049773 AGTGTTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.44
Consensus pattern (17 bp):
TGCTTTTTTCGCAAAAG
Found at i:35056035 original size:25 final size:25
Alignment explanation
Indices: 35056006--35056056 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
35055996 CAAAGGAAAA
**
35056006 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
*
35056031 TCCTAATAGAATTCTTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
35056056 T
1 T
35056057 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:35057625 original size:29 final size:27
Alignment explanation
Indices: 35057559--35057625 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 27
35057549 TTTTCTTTAT
35057559 TTTTCTTCCTT-TTTTTTTCCTTATTC
1 TTTTCTTCCTTATTTTTTTCCTTATTC
* *
35057585 TTTCCTTTCTTATTTCTTTTCCTTCATTC
1 TTTTCTTCCTTATTT-TTTTCCTT-ATTC
*
35057614 TTTTCTCCCTTA
1 TTTTCTTCCTTA
35057626 GAAAACTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
26 9 0.27
27 3 0.09
28 8 0.24
29 13 0.39
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTCTTCCTTATTTTTTTCCTTATTC
Found at i:35060578 original size:14 final size:14
Alignment explanation
Indices: 35060556--35060585 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35060546 AATTTATTCA
*
35060556 TAATTTTAAAAATT
1 TAATCTTAAAAATT
35060570 TAATCTTAAAAATT
1 TAATCTTAAAAATT
35060584 TA
1 TA
35060586 CAAACAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATCTTAAAAATT
Found at i:35063588 original size:29 final size:28
Alignment explanation
Indices: 35063547--35063604 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
35063537 TGAATTTTTA
*
35063547 AATCTAAACTCATAACCTCAAACCATTG
1 AATCTAAACTCATAACCCCAAACCATTG
* * *
35063575 AATCTTAAATTCATTACCCCAAACCTTTG
1 AATC-TAAACTCATAACCCCAAACCATTG
35063604 A
1 A
35063605 CCCGTAACCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.40, C:0.28, G:0.03, T:0.29
Consensus pattern (28 bp):
AATCTAAACTCATAACCCCAAACCATTG
Found at i:35063629 original size:112 final size:112
Alignment explanation
Indices: 35063432--35063634 Score: 289
Period size: 112 Copynumber: 1.8 Consensus size: 112
35063422 ATCTCAAACC
* * * *
35063432 TTAAATCCAAACTCGTAACCCCAAACTATTGAATCTTGAACCCATAACCCCAAACCTTTGAACTG
1 TTAAATCCAAACTCATAACCCCAAACCATTGAATCTTAAACCCATAACCCCAAACCTTTGAACCG
35063497 TAACATAAACAATTGAACATTGAACCCTGAACCCAAATCATGAATTT
66 TAACATAAACAATTGAACATTGAACCCTGAACCCAAATCATGAATTT
* * ** * *
35063544 TTAAATCTAAACTCATAACCTCAAACCATTGAATCTTAAATTCATTACCCCAAACCTTTGACCCG
1 TTAAATCCAAACTCATAACCCCAAACCATTGAATCTTAAACCCATAACCCCAAACCTTTGAACCG
* * *
35063609 TAACCTGAACTATTGAACATTGAACC
66 TAACATAAACAATTGAACATTGAACC
35063635 TCAAATCTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 78 1.00
ACGTcount: A:0.39, C:0.27, G:0.07, T:0.27
Consensus pattern (112 bp):
TTAAATCCAAACTCATAACCCCAAACCATTGAATCTTAAACCCATAACCCCAAACCTTTGAACCG
TAACATAAACAATTGAACATTGAACCCTGAACCCAAATCATGAATTT
Found at i:35063846 original size:32 final size:32
Alignment explanation
Indices: 35063810--35063885 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
35063800 ATAATAACTT
35063810 ATGAAAAAAAATAAAATGGTTAAAATTTGTAA
1 ATGAAAAAAAATAAAATGGTTAAAATTTGTAA
35063842 ATGAAAAAAAATAAAATGGTTAAAATTTGTAA
1 ATGAAAAAAAATAAAATGGTTAAAATTTGTAA
35063874 ATGAAAAAAAAT
1 ATGAAAAAAAAT
35063886 CTTTATAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (32 bp):
ATGAAAAAAAATAAAATGGTTAAAATTTGTAA
Found at i:35065467 original size:21 final size:21
Alignment explanation
Indices: 35065443--35065482 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35065433 TGGGTAAAAA
*
35065443 AGTGAAAAAATGGAAAGAAGT
1 AGTGAAAAAATAGAAAGAAGT
*
35065464 AGTGGAAAAATAGAAAGAA
1 AGTGAAAAAATAGAAAGAA
35065483 AATAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (21 bp):
AGTGAAAAAATAGAAAGAAGT
Found at i:35067715 original size:4 final size:4
Alignment explanation
Indices: 35067706--35067738 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
35067696 TCTAATCATA
35067706 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
35067739 TTTCCACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:35068267 original size:20 final size:20
Alignment explanation
Indices: 35068252--35068339 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
35068242 AATTTTGCTT
35068252 AATTCTTAAAAATTTTAGTA
1 AATTCTTAAAAATTTTAGTA
*
35068272 AATTGTTAAAAATTTTAGTA
1 AATTCTTAAAAATTTTAGTA
* * *
35068292 AA-TCTATATAAATATTGGTA
1 AATTCT-TAAAAATTTTAGTA
* *
35068312 AA-TCGTTAAGAATATTAGTA
1 AATTC-TTAAAAATTTTAGTA
*
35068332 AAGTCTTA
1 AATTCTTA
35068340 CATATCGGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
19 2 0.04
20 52 0.91
21 3 0.05
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
AATTCTTAAAAATTTTAGTA
Found at i:35068634 original size:20 final size:20
Alignment explanation
Indices: 35068611--35068673 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
35068601 TGATAAAAAT
35068611 TTAGATATTTTAGTAAAT-C
1 TTAGATATTTTAGTAAATGC
*
35068630 GTTAGAT-TTTTTGATAAATGC
1 -TTAGATATTTTAG-TAAATGC
* * *
35068651 TTAGAAATATTAGTAAATTC
1 TTAGATATTTTAGTAAATGC
35068671 TTA
1 TTA
35068674 AAAGTTTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.46
Consensus pattern (20 bp):
TTAGATATTTTAGTAAATGC
Found at i:35068682 original size:40 final size:39
Alignment explanation
Indices: 35068575--35068689 Score: 95
Period size: 40 Copynumber: 2.9 Consensus size: 39
35068565 AAATCTTTAT
* * *
35068575 AAATATTGGTAAAGCCTTAAAAATTTTGATAAAAATTTAG
1 AAATATTAGTAAA-TCTTAAAAATTTTGATAAAAACTTAG
* * * ** **
35068615 ATATTTTAGTAAATCGTTAGATTTTTTGATAAATGCTTAG
1 AAATATTAGTAAATC-TTAAAAATTTTGATAAAAACTTAG
* *
35068655 AAATATTAGTAAATTCTTAAAAGTTTTGGTAAAAA
1 AAATATTAGTAAA-TCTTAAAAATTTTGATAAAAA
35068690 GTGTAGAAGT
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
39 1 0.02
40 52 0.95
41 2 0.04
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.40
Consensus pattern (39 bp):
AAATATTAGTAAATCTTAAAAATTTTGATAAAAACTTAG
Found at i:35068722 original size:20 final size:20
Alignment explanation
Indices: 35068611--35068728 Score: 55
Period size: 20 Copynumber: 5.8 Consensus size: 20
35068601 TGATAAAAAT
**
35068611 TTAGATATTTTAGTAAATCG
1 TTAGATATTTTAGTAAATTA
* **
35068631 TTAGAT-TTTTTGATAAATGC
1 TTAGATATTTTAG-TAAATTA
* * *
35068651 TTAGAAATATTAGTAAATTC
1 TTAGATATTTTAGTAAATTA
* * *
35068671 TTA-AAAGTTTTGGTAAA-AA
1 TTAGATA-TTTTAGTAAATTA
*
35068690 GTGTAGA-AGTTTTGGTAAATTA
1 -T-TAGATA-TTTTAGTAAATTA
35068712 TTAGATATTTTAGTAAA
1 TTAGATATTTTAGTAAA
35068729 CCTTAATGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
19 8 0.10
20 47 0.61
21 20 0.26
22 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (20 bp):
TTAGATATTTTAGTAAATTA
Found at i:35068767 original size:19 final size:19
Alignment explanation
Indices: 35068730--35068772 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
35068720 TTTAGTAAAC
*
35068730 CTTAATGATATTTGAAAAT
1 CTTAATGATATTTCAAAAT
* *
35068749 TTTAATGATATTTCTAAAT
1 CTTAATGATATTTCAAAAT
35068768 CTTAA
1 CTTAA
35068773 AAATTTGATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (19 bp):
CTTAATGATATTTCAAAAT
Found at i:35069365 original size:29 final size:31
Alignment explanation
Indices: 35069311--35069376 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
35069301 TAATAATTTA
35069311 TATTTTTATAATTTTTAAATAGTTAAATTAT
1 TATTTTTATAATTTTTAAATAGTTAAATTAT
*
35069342 TATTTTT-TTATTTTTGAAA-A-TTAAATTAT
1 TATTTTTATAATTTTT-AAATAGTTAAATTAT
*
35069371 AATTTT
1 TATTTT
35069377 ATCATTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 14 0.44
30 8 0.25
31 10 0.31
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TATTTTTATAATTTTTAAATAGTTAAATTAT
Done.