Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 37 of 295
Found at i:10428898 original size:7 final size:7
Alignment explanation
Indices: 10428874--10428905 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
10428864 GGTTTTCTCA
10428874 AAATG-G
1 AAATGAG
10428880 AAATGA-
1 AAATGAG
10428886 AAATGAG
1 AAATGAG
10428893 AAATGAG
1 AAATGAG
10428900 AAATGA
1 AAATGA
10428906 TTCATTTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 11 0.46
7 13 0.54
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:10430013 original size:27 final size:27
Alignment explanation
Indices: 10429965--10430123 Score: 200
Period size: 27 Copynumber: 5.9 Consensus size: 27
10429955 GCGAGGCTGC
* * *
10429965 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
10429992 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
10430018 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
10430045 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
10430072 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
10430099 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
10430124 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.09
27 103 0.88
28 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:10430058 original size:54 final size:54
Alignment explanation
Indices: 10429965--10430123 Score: 250
Period size: 54 Copynumber: 3.0 Consensus size: 54
10429955 GCGAGGCTGC
* * * *
10429965 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
*
10430018 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
10430072 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
10430124 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
53 12 0.12
54 86 0.88
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:10430263 original size:26 final size:27
Alignment explanation
Indices: 10430227--10430301 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
10430217 CAAAAGTAAC
*
10430227 CCTAGGGGTATAATGGTAATTTTAC-A
1 CCTAGGGGTATAATAGTAATTTTACTA
* *
10430253 CCTAGGGGTATAACAGTAATTTTCCTA
1 CCTAGGGGTATAATAGTAATTTTACTA
* *
10430280 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
10430302 AGCTGCTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 22 0.52
27 20 0.48
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTACTA
Found at i:10431766 original size:26 final size:26
Alignment explanation
Indices: 10431735--10431842 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
10431725 TGAAATGCCC
10431735 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
10431761 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
10431787 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
10431813 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
10431839 ATCA
1 ATCA
10431843 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:10442197 original size:31 final size:30
Alignment explanation
Indices: 10442132--10442198 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
10442122 AAATTATCCT
* *
10442132 TATTAATTTTTATACTACCAAAAATAGCCC
1 TATTAATTTTTATACCACCAAAAATAGCCA
*
10442162 TATTAATTTTTTATACCACCTAAAATA-CCTA
1 TATTAA-TTTTTATACCACCAAAAATAGCC-A
10442193 TATTAA
1 TATTAA
10442199 CTCTTCATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 8 0.25
31 24 0.75
ACGTcount: A:0.40, C:0.18, G:0.01, T:0.40
Consensus pattern (30 bp):
TATTAATTTTTATACCACCAAAAATAGCCA
Found at i:10444821 original size:15 final size:14
Alignment explanation
Indices: 10444776--10444834 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
10444766 TAATTTTCCC
*
10444776 TTTTCCTTTCTTTT
1 TTTTCCTTTATTTT
10444790 TCTTTCC--TA-TTT
1 T-TTTCCTTTATTTT
10444802 TTTTCCTTTATTTT
1 TTTTCCTTTATTTT
*
10444816 TATTTCTTTTATTTAT
1 T-TTTCCTTTATTT-T
10444832 TTT
1 TTT
10444835 ATGTTTCAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
11 5 0.14
12 4 0.11
13 3 0.08
14 5 0.14
15 18 0.49
16 2 0.05
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCCTTTATTTT
Found at i:10444886 original size:18 final size:17
Alignment explanation
Indices: 10444856--10444898 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
10444846 AATTAATAAT
10444856 TAATATAATAATATATTA
1 TAAT-TAATAATATATTA
*
10444874 TAATTAATAAATATCTTA
1 TAATTAAT-AATATATTA
*
10444892 TACTTAA
1 TAATTAA
10444899 AGTATAAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTAATAATATATTA
Found at i:10448710 original size:23 final size:22
Alignment explanation
Indices: 10448673--10448727 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
10448663 AAATAACAAC
*
10448673 ATAAATAATAAAATAAAATGAA-A
1 ATAAATAAT-GAATAAAAT-AATA
*
10448696 ATAATATAATGAATACAATAATA
1 ATAA-ATAATGAATAAAATAATA
10448719 ATAAATAAT
1 ATAAATAAT
10448728 AATTCAGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 7 0.25
23 16 0.57
24 5 0.18
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (22 bp):
ATAAATAATGAATAAAATAATA
Found at i:10452956 original size:16 final size:16
Alignment explanation
Indices: 10452935--10452987 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
10452925 TTTGCAAAAA
10452935 TTTTAAAGGTTTAGGT
1 TTTTAAAGGTTTAGGT
*
10452951 TTTTAAA---TT-GAT
1 TTTTAAAGGTTTAGGT
10452963 TAATTTAAAGGTTTAGGT
1 T--TTTAAAGGTTTAGGT
10452981 TTTTAAA
1 TTTTAAA
10452988 TTGATTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
12 3 0.10
13 2 0.07
14 6 0.21
16 13 0.45
17 2 0.07
18 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (16 bp):
TTTTAAAGGTTTAGGT
Found at i:10452970 original size:30 final size:30
Alignment explanation
Indices: 10452936--10452996 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
10452926 TTGCAAAAAT
10452936 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
1 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
10452966 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
1 TTTAAAGGTTTAGGTTTTTAAATTGATTAA
10452996 T
1 T
10452997 ATAGGTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (30 bp):
TTTAAAGGTTTAGGTTTTTAAATTGATTAA
Found at i:10455455 original size:18 final size:18
Alignment explanation
Indices: 10455432--10455468 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10455422 TAATGAAGTG
10455432 TGTATAATAAA-ATTAAAA
1 TGTATAA-AAATATTAAAA
10455450 TGTATAAAAATATTAAAA
1 TGTATAAAAATATTAAAA
10455468 T
1 T
10455469 AGAATTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
TGTATAAAAATATTAAAA
Found at i:10456047 original size:9 final size:9
Alignment explanation
Indices: 10456033--10456110 Score: 86
Period size: 9 Copynumber: 8.7 Consensus size: 9
10456023 ATAAGTATAA
*
10456033 AATTAACAG
1 AATTAACCG
10456042 AATTAACCG
1 AATTAACCG
**
10456051 AATTAGTCG
1 AATTAACCG
10456060 AATTAACCG
1 AATTAACCG
10456069 AATT-ACTCG
1 AATTAAC-CG
*
10456078 AATTACCCG
1 AATTAACCG
* *
10456087 AATTACCCA
1 AATTAACCG
10456096 AATTAACCG
1 AATTAACCG
10456105 AATTAA
1 AATTAA
10456111 ACAAATTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
8 2 0.03
9 55 0.95
10 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:10456062 original size:18 final size:18
Alignment explanation
Indices: 10456041--10456109 Score: 102
Period size: 18 Copynumber: 3.8 Consensus size: 18
10456031 AAAATTAACA
*
10456041 GAATTAACCGAATTAGTC
1 GAATTAACCGAATTACTC
10456059 GAATTAACCGAATTACTC
1 GAATTAACCGAATTACTC
* *
10456077 GAATTACCCGAATTACCC
1 GAATTAACCGAATTACTC
*
10456095 AAATTAACCGAATTA
1 GAATTAACCGAATTA
10456110 AACAAATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (18 bp):
GAATTAACCGAATTACTC
Found at i:10457732 original size:31 final size:28
Alignment explanation
Indices: 10457691--10457749 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 28
10457681 TTGCGTTGAG
*
10457691 AAATTTATTTAATTAGAAAAATAATTTATTT
1 AAATTAATTTAA-TA-AAAAAT-ATTTATTT
*
10457722 AAATTAATTTAATAAATAATATTTATTT
1 AAATTAATTTAATAAAAAATATTTATTT
10457750 TGAGAAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 5 0.19
30 2 0.08
31 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
AAATTAATTTAATAAAAAATATTTATTT
Found at i:10474757 original size:26 final size:26
Alignment explanation
Indices: 10474728--10474785 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
10474718 CCCGTTATAT
*
10474728 GGCTCTTCGTGAG-TTTCTCGATTAAA
1 GGCTCTTCATGAGCTTTCT-GATTAAA
* *
10474754 GGCTCTTTATGAGCTTTCTGATTAAT
1 GGCTCTTCATGAGCTTTCTGATTAAA
10474780 GGCTCT
1 GGCTCT
10474786 CCGAAGCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.41
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTTCTGATTAAA
Found at i:10478102 original size:14 final size:14
Alignment explanation
Indices: 10478083--10478109 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10478073 AAGGACAATT
10478083 CTCTTGGGAAAATA
1 CTCTTGGGAAAATA
10478097 CTCTTGGGAAAAT
1 CTCTTGGGAAAAT
10478110 TCGATTGATT
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):
CTCTTGGGAAAATA
Found at i:10478704 original size:18 final size:18
Alignment explanation
Indices: 10478671--10478708 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
10478661 AAGGGAGATC
10478671 TCCAGTCTTGATGATGAA
1 TCCAGTCTTGATGATGAA
10478689 TCCAGCTCTTGA-GATGAA
1 TCCAG-TCTTGATGATGAA
10478707 TC
1 TC
10478709 AATCGGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (18 bp):
TCCAGTCTTGATGATGAA
Found at i:10480174 original size:47 final size:47
Alignment explanation
Indices: 10480121--10480214 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
10480111 TTACAAGCTT
*
10480121 TGCATGAAAAATAGTTGTATGCTAAATTCAGTAAATGTGAATTCTGA
1 TGCATGAAAAATAGTTGTATACTAAATTCAGTAAATGTGAATTCTGA
*
10480168 TGCATGAAAAATAGTTGTATACTAAATTCAGTGAATGTGAATTCTGA
1 TGCATGAAAAATAGTTGTATACTAAATTCAGTAAATGTGAATTCTGA
10480215 CTTTAGGAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (47 bp):
TGCATGAAAAATAGTTGTATACTAAATTCAGTAAATGTGAATTCTGA
Found at i:10488206 original size:15 final size:14
Alignment explanation
Indices: 10488185--10488231 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
10488175 AATTAATATA
10488185 TAATTAATCAAAT-T
1 TAATTAAT-AAATCT
10488199 TAACTTAATAAATCT
1 TAA-TTAATAAATCT
*
10488214 TAATTAAGTTAATCT
1 TAATTAA-TAAATCT
10488229 TAA
1 TAA
10488232 CTTTAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (14 bp):
TAATTAATAAATCT
Found at i:10490232 original size:19 final size:19
Alignment explanation
Indices: 10490210--10490246 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10490200 ACCACTGTCA
*
10490210 CCCACTGTAATAAAATTTG
1 CCCACCGTAATAAAATTTG
*
10490229 CCCACCGTAATCAAATTT
1 CCCACCGTAATAAAATTT
10490247 TTTATTAACT
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:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (19 bp):
CCCACCGTAATAAAATTTG
Found at i:10491025 original size:30 final size:30
Alignment explanation
Indices: 10490968--10491025 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
10490958 GGGAGGGGAA
* * **
10490968 TAAAAGTTTTGGGGGCAAAGTGGAAAGGAG
1 TAAAAGTTTTGAGGGAAAAGTAAAAAGGAG
10490998 TAAAAGTTTTGAGGGAAAAGTAAAAAGG
1 TAAAAGTTTTGAGGGAAAAGTAAAAAGG
10491026 TTTGTGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.34, T:0.21
Consensus pattern (30 bp):
TAAAAGTTTTGAGGGAAAAGTAAAAAGGAG
Found at i:10499773 original size:35 final size:35
Alignment explanation
Indices: 10499709--10499775 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
10499699 TGATTTGCAC
* *
10499709 ATCTGTATCTGTATCTGAGATGGATTTAGGCCCGA
1 ATCTGCATCTGTATCTGAGATGGACTTAGGCCCGA
*
10499744 ATCTGCATCTGTATCTGTA-ATGGGCTTAGGCC
1 ATCTGCATCTGTATCTG-AGATGGACTTAGGCC
10499776 TAATTTGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.34
Consensus pattern (35 bp):
ATCTGCATCTGTATCTGAGATGGACTTAGGCCCGA
Found at i:10500787 original size:31 final size:31
Alignment explanation
Indices: 10500752--10500845 Score: 188
Period size: 31 Copynumber: 3.0 Consensus size: 31
10500742 TTTTATCATG
10500752 TTTGGTTTGTATCTGATATTTAAGGATTTTC
1 TTTGGTTTGTATCTGATATTTAAGGATTTTC
10500783 TTTGGTTTGTATCTGATATTTAAGGATTTTC
1 TTTGGTTTGTATCTGATATTTAAGGATTTTC
10500814 TTTGGTTTGTATCTGATATTTAAGGATTTTC
1 TTTGGTTTGTATCTGATATTTAAGGATTTTC
10500845 T
1 T
10500846 ACTACTATCC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (31 bp):
TTTGGTTTGTATCTGATATTTAAGGATTTTC
Found at i:10502538 original size:17 final size:17
Alignment explanation
Indices: 10502512--10502544 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10502502 AGACTCGCTC
10502512 ATATTATTTTTTAAAAA
1 ATATTATTTTTTAAAAA
*
10502529 ATATTTTTTTTTAAAA
1 ATATTATTTTTTAAAA
10502545 TTACTATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATTATTTTTTAAAAA
Found at i:10508945 original size:37 final size:35
Alignment explanation
Indices: 10508902--10508985 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 35
10508892 AACATCATAC
10508902 ATATTTTATTTGTTATTAT-TAATTAATTTTAAATTAT
1 ATATTTTATTT-TTATTATAT-ATTAATTTTAAA-TAT
*
10508939 ATATTTTATTATTTATTATATGTTAATTTTAAATAT
1 ATATTTTATT-TTTATTATATATTAATTTTAAATAT
*
10508975 ACA-TTTATTTT
1 ATATTTTATTTT
10508986 CTAAATTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 2 0.05
35 6 0.14
36 5 0.12
37 28 0.65
38 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (35 bp):
ATATTTTATTTTTATTATATATTAATTTTAAATAT
Found at i:10509627 original size:16 final size:17
Alignment explanation
Indices: 10509606--10509637 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10509596 ATAAATCATT
10509606 AAAAATTT-TAAAAATA
1 AAAAATTTATAAAAATA
10509622 AAAAATTTATAAAAAT
1 AAAAATTTATAAAAAT
10509638 TAATTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATTTATAAAAATA
Found at i:10513507 original size:25 final size:24
Alignment explanation
Indices: 10513479--10513548 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
10513469 TTTAGTACAC
*
10513479 GTATAATAAAGTAAAATTTAAAATT
1 GTATAATAAA-TAAAATTAAAAATT
* *
10513504 GTATAGTAAATATAATTAAAAATT
1 GTATAATAAATAAAATTAAAAATT
*
10513528 -TGATAA-AAATAATAAATAAAA
1 GT-ATAATAAATAA-AATTAAAA
10513549 CTTTAGTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 6 0.16
24 22 0.59
25 9 0.24
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (24 bp):
GTATAATAAATAAAATTAAAAATT
Found at i:10513525 original size:24 final size:25
Alignment explanation
Indices: 10513479--10513527 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
10513469 TTTAGTACAC
*
10513479 GTATAATAAAGTAAAATTTAAAATT
1 GTATAATAAAGTAAAATTAAAAATT
* *
10513504 GTATAGTAAA-TATAATTAAAAATT
1 GTATAATAAAGTAAAATTAAAAATT
10513528 TGATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (25 bp):
GTATAATAAAGTAAAATTAAAAATT
Found at i:10513870 original size:32 final size:33
Alignment explanation
Indices: 10513832--10513897 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
10513822 ATTAATCAAT
* * *
10513832 ATGAGTTATTAAATTAAATTAATTAA-TTTATA
1 ATGAGTTACTAAATTAAAGTAATCAATTTTATA
*
10513864 ATGAGTTACTAAATTCAAGTAATCAATTTTATA
1 ATGAGTTACTAAATTAAAGTAATCAATTTTATA
10513897 A
1 A
10513898 GTTCATGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 22 0.76
33 7 0.24
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (33 bp):
ATGAGTTACTAAATTAAAGTAATCAATTTTATA
Found at i:10514087 original size:31 final size:30
Alignment explanation
Indices: 10514039--10514100 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 30
10514029 CTGAAATTTA
**
10514039 ATCATTTTATTGAAATAATATTTTAATTAAT
1 ATCATTTTATTGAAATAA-ATGATAATTAAT
*
10514070 ATCATTTTGATT-TAATAAATGATAATTAAT
1 ATCATTTT-ATTGAAATAAATGATAATTAAT
10514100 A
1 A
10514101 GATTTGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 11 0.41
31 13 0.48
32 3 0.11
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (30 bp):
ATCATTTTATTGAAATAAATGATAATTAAT
Found at i:10531098 original size:23 final size:24
Alignment explanation
Indices: 10531072--10531118 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10531062 AGAAAAGAAC
10531072 AAACTGAAAC-AAAAAATTGTCCA
1 AAACTGAAACAAAAAAATTGTCCA
10531095 AAACTGAAACAAAAAAATTGTCCA
1 AAACTGAAACAAAAAAATTGTCCA
10531119 GCTGAGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (24 bp):
AAACTGAAACAAAAAAATTGTCCA
Found at i:10533348 original size:17 final size:18
Alignment explanation
Indices: 10533320--10533353 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10533310 CATATATGTA
*
10533320 ACATAAACATATTTATTC
1 ACATAAACATATATATTC
10533338 ACATAAA-ATATATATT
1 ACATAAACATATATATT
10533354 TAATGATATG
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:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (18 bp):
ACATAAACATATATATTC
Found at i:10533628 original size:31 final size:31
Alignment explanation
Indices: 10533570--10533628 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
10533560 AGTGGGACTG
* *
10533570 AAACTAGCAGGAAGCGAAGCTAGCGAGATCA
1 AAACTAGCAGGAAGCAAAGCTAACGAGATCA
*
10533601 AAACTAGCTGGAAGCAAAAG-TAACGAGA
1 AAACTAGCAGGAAGC-AAAGCTAACGAGA
10533629 GGTGAAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.46, C:0.17, G:0.27, T:0.10
Consensus pattern (31 bp):
AAACTAGCAGGAAGCAAAGCTAACGAGATCA
Found at i:10537881 original size:16 final size:15
Alignment explanation
Indices: 10537856--10537889 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
10537846 CATAGGAAAC
*
10537856 AGAAATGGGAAAATAA
1 AGAAAAGGGAAAA-AA
10537872 AGAAAAGGGAAAAAA
1 AGAAAAGGGAAAAAA
10537887 AGA
1 AGA
10537890 GAGAGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (15 bp):
AGAAAAGGGAAAAAA
Found at i:10538777 original size:27 final size:28
Alignment explanation
Indices: 10538744--10538837 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 28
10538734 AAACAAACAA
*
10538744 CAAAATTCAAAACAAAGGAAAACAGCAG
1 CAAAATTCAAAACAAAGGAAAACACCAG
* * *
10538772 C-AAATTCAAAATAAATGATAACACCAG
1 CAAAATTCAAAACAAAGGAAAACACCAG
*
10538799 CAAAATTC-AAATAAA-GAATAACACCAG
1 CAAAATTCAAAACAAAGGAA-AACACCAG
*
10538826 -AAAGTT-AAAACA
1 CAAAATTCAAAACA
10538838 CATGATTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 11 0.20
27 38 0.68
28 7 0.12
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.14
Consensus pattern (28 bp):
CAAAATTCAAAACAAAGGAAAACACCAG
Found at i:10539579 original size:27 final size:28
Alignment explanation
Indices: 10539549--10539618 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
10539539 AAAAAAAAAA
*
10539549 TCAAAACAAAGGA-AAACAGCAGCAAA-T
1 TCAAAACAAAGGATAAA-AACAGCAAATT
*
10539576 TCAAAACAAATGATAAAAACAGCAAATT
1 TCAAAACAAAGGATAAAAACAGCAAATT
*
10539604 TC-AAATAAAGGATAA
1 TCAAAACAAAGGATAA
10539619 CCCCAGAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 31 0.84
28 6 0.16
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (28 bp):
TCAAAACAAAGGATAAAAACAGCAAATT
Found at i:10540220 original size:2 final size:2
Alignment explanation
Indices: 10540213--10540247 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10540203 GAATATTGGA
10540213 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10540248 ATGAAGCAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10542517 original size:24 final size:27
Alignment explanation
Indices: 10542484--10542545 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 27
10542474 AACAAACAAA
*
10542484 AAAATTCAAAACAAA-G-GACAGCAGC
1 AAAATTCAAAACAAATGAAACAGCAGC
*
10542509 -AAATTCAAAAGAAATGATAACAGCAGC
1 AAAATTCAAAACAAATGA-AACAGCAGC
10542536 AAAATTCAAA
1 AAAATTCAAA
10542546 TAAAGAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 13 0.42
25 1 0.03
27 8 0.26
28 9 0.29
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (27 bp):
AAAATTCAAAACAAATGAAACAGCAGC
Found at i:10545891 original size:15 final size:15
Alignment explanation
Indices: 10545873--10545910 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
10545863 CAGTTTCCAT
10545873 GTCATCATCATCGTC
1 GTCATCATCATCGTC
10545888 GTCATCATCATCGTC
1 GTCATCATCATCGTC
*
10545903 ATCATCAT
1 GTCATCAT
10545911 GCCGTTGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.34
Consensus pattern (15 bp):
GTCATCATCATCGTC
Found at i:10545894 original size:12 final size:12
Alignment explanation
Indices: 10545877--10545910 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10545867 TTCCATGTCA
*
10545877 TCATCATCGTCG
1 TCATCATCATCG
10545889 TCATCATCATCG
1 TCATCATCATCG
10545901 TCATCATCAT
1 TCATCATCAT
10545911 GCCGTTGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.09, T:0.35
Consensus pattern (12 bp):
TCATCATCATCG
Found at i:10551959 original size:77 final size:77
Alignment explanation
Indices: 10551832--10551985 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
10551822 TATAATAGTA
10551832 TAAAATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGT
1 TAAAATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGT
*
10551897 TATATGTCATGG
66 TATATATCATGG
10551909 TAAAATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGT
1 TAAAATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGT
10551974 TATATATCATGG
66 TATATATCATGG
10551986 CACATCAGTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (77 bp):
TAAAATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGT
TATATATCATGG
Found at i:10555463 original size:42 final size:43
Alignment explanation
Indices: 10555416--10555497 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
10555406 AAGTCACTTG
*
10555416 ACTAGCAATTTGACTCAAA-TATTTGTTTAGAAGCACTCGAGA
1 ACTAGCAATTTGACTCAAACGATTTGTTTAGAAGCACTCGAGA
*
10555458 ACTAGCAATTTGATTCAAACCGATTTGTTTAGAAGCACTC
1 ACTAGCAATTTGACTCAAA-CGATTTGTTTAGAAGCACTC
10555498 AAGAGCTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 18 0.50
44 18 0.50
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (43 bp):
ACTAGCAATTTGACTCAAACGATTTGTTTAGAAGCACTCGAGA
Found at i:10560371 original size:25 final size:24
Alignment explanation
Indices: 10560325--10560372 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
10560315 TTGTGAATGT
10560325 AGTCCTATACTTTTAATCAATTTTG
1 AGTCCTATACTTTTAA-CAATTTTG
10560350 AGTCCTTATACTTTTCAA-AATTT
1 AGTCC-TATACTTTT-AACAATTT
10560373 AAAATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 10 0.48
26 9 0.43
27 2 0.10
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (24 bp):
AGTCCTATACTTTTAACAATTTTG
Found at i:10560550 original size:31 final size:29
Alignment explanation
Indices: 10560467--10560560 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 29
10560457 TTAGGTCCTA
* *
10560467 AACTTAGCAATTCTTCCCACATTAGGGCGTG
1 AACTTAGCAATT-TTTCCACATTA-GGCTTG
* * * *
10560498 GACTTGGTAACTTTTTACACATTAGGACTTG
1 AACTTAGCAA-TTTTTCCACATTAGG-CTTG
10560529 AACTTAGCAATTGTTTCCACATTAAGGCTTG
1 AACTTAGCAATT-TTTCCACATT-AGGCTTG
10560560 A
1 A
10560561 GCTTTAGGGT
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
30 4 0.08
31 40 0.82
32 5 0.10
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (29 bp):
AACTTAGCAATTTTTCCACATTAGGCTTG
Found at i:10562874 original size:58 final size:56
Alignment explanation
Indices: 10562790--10562957 Score: 201
Period size: 56 Copynumber: 2.9 Consensus size: 56
10562780 ACAAGCTTAG
* * * *
10562790 GTACCAAATTAGAAAAAAAGTTTCAAGTTTAGGTACCACATTGGATCAAAAAAACTAAT
1 GTACCAAATTAG-AAAAAAGTGTCAAGTTCAGGTACCAAATTGGA-CAAAAAAAAT-AT
* * * *
10562849 GTACTAAATTAGGAAAAAGTGTCAAGTTCAGGTATCAAATTTGACAAAAAAAATAT
1 GTACCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAATTGGACAAAAAAAATAT
* * * *
10562905 GTACCAAATTAGAAAAAAATGTCAAGTTCATGTGCCAATTTGGACAAAAAAAA
1 GTACCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAATTGGACAAAAAAAA
10562958 ACTTAGATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
56 47 0.51
57 9 0.10
58 26 0.28
59 11 0.12
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (56 bp):
GTACCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAATTGGACAAAAAAAATAT
Found at i:10562956 original size:115 final size:115
Alignment explanation
Indices: 10562790--10563003 Score: 267
Period size: 115 Copynumber: 1.9 Consensus size: 115
10562780 ACAAGCTTAG
* *
10562790 GTACCAAATTAGAAAAAAAGTTTCAAGTTTAGGTACCACATTGGATCAAAAAAACTAATG-TA-C
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCACATTGGATCAAAAAAACTAA-GATATC
* * *
10562853 TAAATTAGGAAAAAGTGTCAAGTTCAGGTATCAAATTTGACAAAAAAAATAT
65 TAAA-TAAGAAAAAGTGTCAAATTCAGGTACCAAATTTGACAAAAAAAATAT
* * *
10562905 GTACCAAATTAGAAAAAAA-TGTCAAGTTCATGTGCCA-ATTTGGA-CAAAAAAAAACTTAGATA
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCACA-TTGGATC--AAAAAAACTAAGATA
*
10562967 TCTAAATAAGAAAAAGTGTCAAATTCATGTACCAAAT
63 TCTAAATAAGAAAAAGTGTCAAATTCAGGTACCAAAT
10563004 AATATATTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
113 2 0.02
114 20 0.24
115 58 0.68
116 5 0.06
ACGTcount: A:0.48, C:0.12, G:0.14, T:0.26
Consensus pattern (115 bp):
GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCACATTGGATCAAAAAAACTAAGATATCT
AAATAAGAAAAAGTGTCAAATTCAGGTACCAAATTTGACAAAAAAAATAT
Found at i:10563872 original size:29 final size:31
Alignment explanation
Indices: 10563826--10563891 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 31
10563816 TGATTTAATA
* * *
10563826 TGCAATTGTATACATG-AACTTTAATT-TGG
1 TGCAATTATACACATGAAACTCTAATTGTGG
*
10563855 TGCAATTATACACGTGAAACTCTAATTGTGG
1 TGCAATTATACACATGAAACTCTAATTGTGG
*
10563886 TTCAAT
1 TGCAAT
10563892 ACTTGAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 13 0.43
30 9 0.30
31 8 0.27
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (31 bp):
TGCAATTATACACATGAAACTCTAATTGTGG
Found at i:10566530 original size:28 final size:28
Alignment explanation
Indices: 10566453--10566560 Score: 108
Period size: 29 Copynumber: 3.8 Consensus size: 28
10566443 ACGAGACTAT
* * * *
10566453 TTTGCTCACACAAGTTGACAGTTATCAGG
1 TTTGCTCACACAAGCTGACATTTATGA-A
* * *
10566482 GTTGCTCACACAAGTTAACATTTATGAA
1 TTTGCTCACACAAGCTGACATTTATGAA
*
10566510 TTTGCTCACACAAACTGACATTTTATGAA
1 TTTGCTCACACAAGCTGACA-TTTATGAA
* *
10566539 TTTGCTCATACAAGCGGACATT
1 TTTGCTCACACAAGCTGACATT
10566561 GTATCGAGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 18 0.27
29 48 0.73
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (28 bp):
TTTGCTCACACAAGCTGACATTTATGAA
Found at i:10573741 original size:4 final size:4
Alignment explanation
Indices: 10573734--10573772 Score: 60
Period size: 4 Copynumber: 9.2 Consensus size: 4
10573724 TTATATTAAT
10573734 TAAA TAAA GTAAA TAAA GTAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA -TAAA TAAA -TAAA TAAA TAAA TAAA TAAA T
10573773 TAATTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 25 0.76
5 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:10573765 original size:8 final size:9
Alignment explanation
Indices: 10573734--10573772 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
10573724 TTATATTAAT
10573734 TAAATAAAG
1 TAAATAAAG
10573743 TAAATAAAG
1 TAAATAAAG
10573752 TAAATAAA-
1 TAAATAAAG
10573760 TAAATAAA-
1 TAAATAAAG
10573768 TAAAT
1 TAAAT
10573773 TAATTAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 13 0.43
9 17 0.57
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (9 bp):
TAAATAAAG
Found at i:10573780 original size:13 final size:13
Alignment explanation
Indices: 10573731--10573780 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
10573721 ATTTTATATT
10573731 AATTAAATAAAGTA
1 AATTAAATAAA-TA
10573745 AA-TAAAGTAAATA
1 AATTAAA-TAAATA
10573758 AA-TAAATAAATA
1 AATTAAATAAATA
*
10573770 AATTAATTAAA
1 AATTAAATAAA
10573781 AGTTGACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
12 8 0.24
13 19 0.58
14 6 0.18
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (13 bp):
AATTAAATAAATA
Found at i:10575271 original size:47 final size:47
Alignment explanation
Indices: 10575192--10575293 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 47
10575182 CCTTGTATGT
** * * *
10575192 CGTACTGTTACTGTTACTTCAGATTATTCCGATGGGGTACTCTGTAC
1 CGTACTGTTACTGTTACTTCAGATTAGGCCGATGAGGCACTATGTAC
* * *
10575239 CGTACTGTTACTGTTTACTTCGGCTT-GGCCGATGAGGCACTATGTGC
1 CGTACTGTTACTG-TTACTTCAGATTAGGCCGATGAGGCACTATGTAC
10575286 CGTACTGT
1 CGTACTGT
10575294 ACTAGTGTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 36 0.78
48 10 0.22
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (47 bp):
CGTACTGTTACTGTTACTTCAGATTAGGCCGATGAGGCACTATGTAC
Found at i:10575419 original size:18 final size:18
Alignment explanation
Indices: 10575398--10575461 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
10575388 AATTGATCAT
* *
10575398 TACTAAATAACTGATTGC
1 TACTGAATAACTAATTGC
** * *
10575416 TACTGAGCAAATAATTGT
1 TACTGAATAACTAATTGC
10575434 TACTGAATAACTAATTGC
1 TACTGAATAACTAATTGC
10575452 TACTGAATAA
1 TACTGAATAA
10575462 TTGAATGTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTAATTGC
Found at i:10575421 original size:36 final size:36
Alignment explanation
Indices: 10575380--10575465 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
10575370 GATTGACTGT
*
10575380 TACTGAATAATTGATCATTACTAAATAACTGATTGC
1 TACTGAATAATTGATCATTACTAAATAACTAATTGC
** * * ** *
10575416 TACTGAGCAAATAATTGTTACTGAATAACTAATTGC
1 TACTGAATAATTGATCATTACTAAATAACTAATTGC
10575452 TACTGAATAATTGA
1 TACTGAATAATTGA
10575466 ATGTTGCTAA
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (36 bp):
TACTGAATAATTGATCATTACTAAATAACTAATTGC
Found at i:10577298 original size:46 final size:46
Alignment explanation
Indices: 10577233--10577597 Score: 421
Period size: 46 Copynumber: 8.0 Consensus size: 46
10577223 TTATCTTCGA
* * * * *
10577233 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* **
10577279 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* ** * **
10577325 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
10577370 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** * * *
10577416 CACATTGCCATGGTGTCTTTTAACCATGGTCTTACAT-ATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCATGT
* * *
10577462 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * * *
10577508 CATATTGCCATGGTGTCTTTCAATCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
*
10577554 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
10577598 TTCAGAAAAC
Statistics
Matches: 279, Mismatches: 36, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
45 43 0.15
46 235 0.84
47 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:10577504 original size:92 final size:93
Alignment explanation
Indices: 10577238--10577597 Score: 471
Period size: 92 Copynumber: 3.9 Consensus size: 93
10577228 TTCGACATGA
* * * * *
10577238 TGCCATAGTGTCTTTCAACTATAGTCTTAC-TCATTTTC-TGTCAGGTTGCCATGGTATCTTTCA
1 TGCCATGGTGTCTTTCAACCATGGTCTTACATCA-TTTCATATCATGTTGCCATGGTATCTTTCA
*** *
10577301 ACCATGGTCTTGTTCATTTCATGTTACAT
65 ACCATGGTCTTACACATTTCATGTCACAT
* * ***
10577330 TGCCATGGTATCTTTCAACCATGGTCTTA-TTCA-TTCCCGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTGTCTTTCAACCATGGTCTTACATCATTTCATATCATGTTGCCATGGTATCTTTCAA
** *
10577393 CCATGGTCTTATTCTTTTCATGTCACAT
66 CCATGGTCTTACACATTTCATGTCACAT
* *
10577421 TGCCATGGTGTCTTTTAACCATGGTCTTACAT-ATTTCATATCATGTTGCCATGGTGTCTTTCAA
1 TGCCATGGTGTCTTTCAACCATGGTCTTACATCATTTCATATCATGTTGCCATGGTATCTTTCAA
* *
10577485 CCATGGTCTTACACATTTCATATCATAT
66 CCATGGTCTTACACATTTCATGTCACAT
*
10577513 TGCCATGGTGTCTTTCAATCATGGTCTTACA-CATTTCATATCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTGTCTTTCAACCATGGTCTTACATCATTTCATATCATGTTGCCATGGTATCTTTCAA
10577577 CCATGGTCTTACACATTTCAT
66 CCATGGTCTTACACATTTCAT
10577598 TTCAGAAAAC
Statistics
Matches: 239, Mismatches: 24, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
90 3 0.01
91 77 0.32
92 159 0.67
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (93 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACATCATTTCATATCATGTTGCCATGGTATCTTTCAA
CCATGGTCTTACACATTTCATGTCACAT
Found at i:10581170 original size:26 final size:26
Alignment explanation
Indices: 10581141--10581265 Score: 93
Period size: 26 Copynumber: 5.0 Consensus size: 26
10581131 TCCTCTCTCA
10581141 AGCCATATAACAGGAAGCTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
* *
10581167 AGCCAT-TAATCGGGAAGCTCACAAAT
1 AGCCATATAA-CAGGAAGCTCACAAAG
* ***
10581193 AGCC-TAT--TAGGAAGCTC-CTCCG
1 AGCCATATAACAGGAAGCTCACAAAG
* * *
10581215 GGCTATATAACAGGAAGCTCA-TAAG
1 AGCCATATAACAGGAAGCTCACAAAG
* *
10581240 AGCCATA-ATCAGGAAGTTCACAAAG
1 AGCCATATAACAGGAAGCTCACAAAG
10581265 A
1 A
10581266 ACTTTTAATC
Statistics
Matches: 74, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
22 3 0.04
23 11 0.15
24 11 0.15
25 24 0.32
26 25 0.34
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (26 bp):
AGCCATATAACAGGAAGCTCACAAAG
Found at i:10581298 original size:26 final size:26
Alignment explanation
Indices: 10581225--10581302 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
10581215 GGCTATATAA
* *
10581225 CAGGAAGCTCAT-AAGAGCC-ATAAT
1 CAGGAAGCTCATAAAAAGCCTTTAAT
* * *
10581249 CAGGAAGTTCACAAAGAA-CTTTTAAT
1 CAGGAAGCTCATAAA-AAGCCTTTAAT
10581275 CAGGAAGCTCATAAAAAGCCTTTAAT
1 CAGGAAGCTCATAAAAAGCCTTTAAT
10581301 CA
1 CA
10581303 AGAGCTTCAG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
24 10 0.24
25 5 0.12
26 27 0.64
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (26 bp):
CAGGAAGCTCATAAAAAGCCTTTAAT
Found at i:10584606 original size:18 final size:17
Alignment explanation
Indices: 10584571--10584614 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
10584561 AATCTGGGCT
**
10584571 GTGTGAGCCACATGGGC
1 GTGTGAGCCACACAGGC
10584588 GTGTGAGCCTACACAGGC
1 GTGTGAGCC-ACACAGGC
10584606 GTGTGAGCC
1 GTGTGAGCC
10584615 CGATTTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.18, C:0.25, G:0.39, T:0.18
Consensus pattern (17 bp):
GTGTGAGCCACACAGGC
Found at i:10586071 original size:21 final size:21
Alignment explanation
Indices: 10586033--10586072 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10586023 GAATTTTCAA
*
10586033 AAATTTTAAGAAAGATTAATT
1 AAATTTTAAGAAAAATTAATT
10586054 AAATTTTCAA-AAAAATTAA
1 AAATTTT-AAGAAAAATTAA
10586073 AAAGTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
AAATTTTAAGAAAAATTAATT
Found at i:10586086 original size:30 final size:31
Alignment explanation
Indices: 10586024--10586086 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
10586014 AATTAATGAG
** *
10586024 AATTTTCAAAAATTTTAAGAAAGATTAATTA
1 AATTTTCAAAAAAATTAAGAAAGATCAATTA
10586055 AATTTTCAAAAAAATTAA-AAAG-TACAATTA
1 AATTTTCAAAAAAATTAAGAAAGAT-CAATTA
10586085 AA
1 AA
10586087 AATTGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 11 0.39
31 16 0.57
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (31 bp):
AATTTTCAAAAAAATTAAGAAAGATCAATTA
Found at i:10590496 original size:43 final size:43
Alignment explanation
Indices: 10590432--10590534 Score: 113
Period size: 42 Copynumber: 2.4 Consensus size: 43
10590422 CCCTAGACGT
* *
10590432 GGTCTTACATGTAAA-CAAATATCAATGCC-ACTATCCCAGATAG
1 GGTCTTACACGTAAATCAAATAT-AATGCCGA-TATCCCAGACAG
* * * *
10590475 GGTCTTACACG-AAATCTAATATGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCAAATATAATGCCGATATCCCAGACAG
10590517 GGTCTTACACGTAAATCA
1 GGTCTTACACGTAAATCA
10590535 TAAGTTGATG
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 28 0.56
43 22 0.44
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAAATATAATGCCGATATCCCAGACAG
Found at i:10590521 original size:42 final size:43
Alignment explanation
Indices: 10590465--10590574 Score: 143
Period size: 44 Copynumber: 2.6 Consensus size: 43
10590455 AATGCCACTA
* * * *
10590465 TCCCAGATAGGGTCTTACACGAAATC-TAA-TATGATGCCGATG
1 TCCCAGACATGGTCTTACACGAAATCATAAGT-TGATGCCAACG
10590507 TCCCAGACATGGTCTTACACGTAAATCATAAGTTGATGCCAACG
1 TCCCAGACATGGTCTTACACG-AAATCATAAGTTGATGCCAACG
*
10590551 TCCCAGACGTGGTCTTACACGAAA
1 TCCCAGACATGGTCTTACACGAAA
10590575 ACACATATTG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 19 0.32
43 8 0.13
44 32 0.53
45 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGAAATCATAAGTTGATGCCAACG
Found at i:10591163 original size:23 final size:23
Alignment explanation
Indices: 10591137--10591182 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10591127 TTCATCAAAA
*
10591137 TTTCAAAGGCAAAACATGTTAAC
1 TTTCAAAGACAAAACATGTTAAC
*
10591160 TTTCAAAGATAAAACATGTTAAC
1 TTTCAAAGACAAAACATGTTAAC
10591183 CCAACATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
TTTCAAAGACAAAACATGTTAAC
Found at i:10592500 original size:32 final size:30
Alignment explanation
Indices: 10592455--10592513 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
10592445 AAATATCCTT
*
10592455 CCATAACTTTCTATATTTTTTTAAAATATA
1 CCATAACTTTCTATATTTTTTAAAAATATA
10592485 CCATAACTTTCTCTATATTTTTTAAAAAT
1 CCATAAC-TT-TCTATATTTTTTAAAAAT
10592514 TTGAAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 7 0.27
31 2 0.08
32 17 0.65
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (30 bp):
CCATAACTTTCTATATTTTTTAAAAATATA
Found at i:10592804 original size:20 final size:22
Alignment explanation
Indices: 10592766--10592806 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
10592756 GGGACTAAAC
10592766 TGAAATCTTATAAAATTTTTCG
1 TGAAATCTTATAAAATTTTTCG
*
10592788 TGAAAT-TT-TAAATTTTTTC
1 TGAAATCTTATAAAATTTTTC
10592807 TTAAATACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (22 bp):
TGAAATCTTATAAAATTTTTCG
Found at i:10594110 original size:24 final size:23
Alignment explanation
Indices: 10594081--10594133 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
10594071 AGCCTTGGAA
* * *
10594081 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCCCACAAAGAGCC-TAT
10594105 CGGGAAGCCCACAAAGAGCCTAT
1 CGGGAAGCCCACAAAGAGCCTAT
10594128 CGGGAA
1 CGGGAA
10594134 TTTTATCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.32, C:0.28, G:0.28, T:0.11
Consensus pattern (23 bp):
CGGGAAGCCCACAAAGAGCCTAT
Found at i:10594230 original size:23 final size:23
Alignment explanation
Indices: 10594198--10594243 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
10594188 CAAAGAACCA
* *
10594198 TATCGGGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCAAGAAGAGCC
*
10594221 TATCGAGAAGCTCAATAAGAGCC
1 TATCGAGAAGCTCAAGAAGAGCC
10594244 ATATAACTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (23 bp):
TATCGAGAAGCTCAAGAAGAGCC
Found at i:10594355 original size:26 final size:25
Alignment explanation
Indices: 10594294--10594368 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 25
10594284 TAAGCGAGCA
* *
10594294 TTATCGGGAAGCTCACAAAGAGTCAAT
1 TTATAGGGAAGCTCA-TAAGAG-CAAT
*
10594321 TTA-ATGGGAAGCTCATGAAGAGCCAT
1 TTATA-GGGAAGCTCAT-AAGAGCAAT
10594347 TTATAGGGATA-CTCATAAGAGC
1 TTATAGGGA-AGCTCATAAGAGC
10594369 TAAGGTGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
25 6 0.15
26 15 0.37
27 20 0.49
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (25 bp):
TTATAGGGAAGCTCATAAGAGCAAT
Found at i:10595641 original size:5 final size:5
Alignment explanation
Indices: 10595608--10595667 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
10595598 TTTTATTAAA
* * *
10595608 TATAT TATTT TATTAT TGTAT TAATAT TACAT TATAT TATA- T-TAT TATAT
1 TATAT TATAT TA-TAT TATAT T-ATAT TATAT TATAT TATAT TATAT TATAT
10595658 TATAT CTATA
1 TATAT -TATA
10595668 AAACAAAAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 29 0.66
6 11 0.25
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:10598681 original size:24 final size:23
Alignment explanation
Indices: 10598551--10598837 Score: 103
Period size: 23 Copynumber: 11.7 Consensus size: 23
10598541 GCCTTCTAAT
* *
10598551 GGGAAGCTCATACAGAGCCATTTC
1 GGGAAGCTCA-AAAGAGCCATATC
*
10598575 GGGAAGCCCACAAAGAG-CATATC
1 GGGAAGCTCA-AAAGAGCCATATC
* * *** * *
10598598 AGGAAGCTTATCCGGGCTATATAAC
1 GGGAAGCTCAAAAGAGCCATAT--C
* *
10598623 GGGAAGCTCATAAGAGCCATAACC
1 GGGAAGCTCAAAAGAGCCAT-ATC
* * *
10598647 GAGAAGTTCACAAAGAACCATATC
1 GGGAAGCTCA-AAAGAGCCATATC
*
10598671 GGGAAGCTCACGAAGAGCC-TATC
1 GGGAAGCTCA-AAAGAGCCATATC
10598694 GGGAAGCTCAATAAGAGCCATATAAC
1 GGGAAGCTCAA-AAGAGCCATAT--C
* ** * * *
10598720 AGGAAATTCCAGATAGCCATATATC
1 GGGAAGCTCAAAAGAGCC--ATATC
* ** *
10598745 GGGAAGTTCAAGCGAG-CACTGTC
1 GGGAAGCTCAAAAGAGCCA-TATC
*
10598768 GGGAAGCTCACAAAGAGCCAATTTAAC
1 GGGAAGCTCA-AAAGAGCC-A--TATC
*
10598795 GGGAAGCTCATGAAGAGCCCTATATC
1 GGGAAGCTCA-AAAGAG-CC-ATATC
* *
10598821 GGGATGCTCATAAGAGC
1 GGGAAGCTCAAAAGAGC
10598838 TAAGGTGTGT
Statistics
Matches: 193, Mismatches: 53, Indels: 34
0.69 0.19 0.12
Matches are distributed among these distances:
22 3 0.02
23 49 0.25
24 49 0.25
25 46 0.24
26 22 0.11
27 21 0.11
28 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (23 bp):
GGGAAGCTCAAAAGAGCCATATC
Found at i:10598697 original size:23 final size:24
Alignment explanation
Indices: 10598551--10598716 Score: 117
Period size: 24 Copynumber: 7.0 Consensus size: 24
10598541 GCCTTCTAAT
*
10598551 GGGAAGCTCA-TACAGAGCCATTTC
1 GGGAAGCTCACTA-AGAGCCATATC
* *
10598575 GGGAAGCCCACAAAGAG-CATATC
1 GGGAAGCTCACTAAGAGCCATATC
* * ** * *
10598598 AGGAAGCTTA-TCCGGGCTATATAAC
1 GGGAAGCTCACTAAGAGCCATAT--C
*
10598623 GGGAAGCTCA-TAAGAGCCATAACC
1 GGGAAGCTCACTAAGAGCCAT-ATC
* * * *
10598647 GAGAAGTTCACAAAGAACCATATC
1 GGGAAGCTCACTAAGAGCCATATC
*
10598671 GGGAAGCTCACGAAGAGCC-TATC
1 GGGAAGCTCACTAAGAGCCATATC
*
10598694 GGGAAGCTCAATAAGAGCCATAT
1 GGGAAGCTCACTAAGAGCCATAT
10598717 AACAGGAAAT
Statistics
Matches: 106, Mismatches: 29, Indels: 14
0.71 0.19 0.09
Matches are distributed among these distances:
22 2 0.02
23 37 0.35
24 42 0.40
25 24 0.23
26 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (24 bp):
GGGAAGCTCACTAAGAGCCATATC
Found at i:10605213 original size:10 final size:10
Alignment explanation
Indices: 10605198--10605223 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10605188 TTAGAGTAGA
10605198 GAAATGAATT
1 GAAATGAATT
10605208 GAAATGAATT
1 GAAATGAATT
10605218 GAAATG
1 GAAATG
10605224 TGTTGGTCAT
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:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (10 bp):
GAAATGAATT
Found at i:10609072 original size:27 final size:26
Alignment explanation
Indices: 10609012--10609073 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
10609002 ATTTTATTTT
10609012 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
10609038 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
10609066 ATTTTATT
1 ATTTTATT
10609074 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:10612771 original size:6 final size:6
Alignment explanation
Indices: 10612760--10612837 Score: 83
Period size: 6 Copynumber: 13.3 Consensus size: 6
10612750 CAGCCCAATC
** *
10612760 TTTATT TTTATT TTTATT TTTATT TATTATT TTCCTT TCT-TT TTTATT
1 TTTATT TTTATT TTTATT TTTATT T-TTATT TTTATT TTTATT TTTATT
10612808 TATTA-T TTTA-T TTTATT TTTA-T TTTATT TT
1 T-TTATT TTTATT TTTATT TTTATT TTTATT TT
10612838 AGTTAAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
5 17 0.27
6 36 0.58
7 9 0.15
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:10614144 original size:9 final size:9
Alignment explanation
Indices: 10614132--10614157 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10614122 TAAAATTTAA
10614132 AAAAAAAAG
1 AAAAAAAAG
10614141 AAAAAAAAG
1 AAAAAAAAG
10614150 AAAAAAAA
1 AAAAAAAA
10614158 AGAAGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:10614144 original size:10 final size:10
Alignment explanation
Indices: 10614131--10614161 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
10614121 ATAAAATTTA
10614131 AAAAAAAAAG
1 AAAAAAAAAG
10614141 -AAAAAAAAG
1 AAAAAAAAAG
10614150 AAAAAAAAAG
1 AAAAAAAAAG
10614160 AA
1 AA
10614162 GAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:10614146 original size:13 final size:13
Alignment explanation
Indices: 10614130--10614172 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
10614120 AATAAAATTT
10614130 AAAAAAAAAAGAA
1 AAAAAAAAAAGAA
*
10614143 AAAAAAGAAA-AA
1 AAAAAAAAAAGAA
* *
10614155 AAAAGAAGAAGAA
1 AAAAAAAAAAGAA
10614168 AAAAA
1 AAAAA
10614173 TAAGTACTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGAA
Found at i:10614172 original size:16 final size:17
Alignment explanation
Indices: 10614133--10614172 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10614123 AAAATTTAAA
10614133 AAAAAAAGAAAAAAAAG
1 AAAAAAAGAAAAAAAAG
* *
10614150 AAAAAAA-AAGAAGAAG
1 AAAAAAAGAAAAAAAAG
10614166 AAAAAAA
1 AAAAAAA
10614173 TAAGTACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAG
Found at i:10614740 original size:5 final size:5
Alignment explanation
Indices: 10614732--10614760 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
10614722 TGGAAGACTC
10614732 TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATT
10614761 AGGATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:10622893 original size:43 final size:43
Alignment explanation
Indices: 10622803--10622916 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
10622793 ATCGAGATGT
* * * * *
10622803 GATTACATGTAAGACCATGTTTGAGACATTGGAATTGTATTGT
1 GATTACGTGTAAGACCATGTTTGGGACATTGGAATCGTAATGC
*
10622846 GATTATGTGTAAGACCATGTTTGGGACATT-GACATCGTTAAT-C
1 GATTACGTGTAAGACCATGTTTGGGACATTGGA-ATCG-TAATGC
*
10622889 GATTACGTGTAAGA-CATTGTCTGGGACA
1 GATTACGTGTAAGACCA-TGTTTGGGACA
10622917 ATGGCATTGA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 4 0.07
43 53 0.88
44 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTTTGGGACATTGGAATCGTAATGC
Found at i:10624344 original size:32 final size:32
Alignment explanation
Indices: 10624303--10624366 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
10624293 TCACACGGGC
10624303 GTGTGACCCTGTAATGCAAGAAAATTTTTTTA
1 GTGTGACCCTGTAATGCAAGAAAATTTTTTTA
* **
10624335 GTGTGACCCTTTAATGCAAGAATTTTTTTTTA
1 GTGTGACCCTGTAATGCAAGAAAATTTTTTTA
10624367 TGTTTTCCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.42
Consensus pattern (32 bp):
GTGTGACCCTGTAATGCAAGAAAATTTTTTTA
Found at i:10625907 original size:17 final size:18
Alignment explanation
Indices: 10625875--10625908 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10625865 TAATAATTAA
*
10625875 ATAAATAATTTTAAAATC
1 ATAAATAATTTAAAAATC
10625893 ATAAA-AATTTAAAAAT
1 ATAAATAATTTAAAAAT
10625909 TGGTTCAGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAATAATTTAAAAATC
Found at i:10630022 original size:78 final size:78
Alignment explanation
Indices: 10629853--10630448 Score: 797
Period size: 78 Copynumber: 7.7 Consensus size: 78
10629843 AAATACTTAA
* * * * * *
10629853 AAGGTCAAATATTATAATATATTTCTTCTAATCTCGACA-TTCCCCACAAGTTAATTGGATCCTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
*
10629917 ATATAAATTACTT
66 ATATCAATTACTT
* * * * * * * *
10629930 AAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACTCTCTCATAAGCTAACTGGATTTTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
*
10629995 ATATCAATTAATT
66 ATATCAATTACTT
*
10630008 GAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
10630073 ATATCAATTACTT
66 ATATCAATTACTT
* * **
10630086 AAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCCA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
10630151 ATATCAATTACTT
66 ATATCAATTACTT
* * * * *
10630164 AAGGTCAAAGATTTCAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCTAACTGGACCTTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
10630229 ATATCAATTACTT
66 ATATCAATTACTT
* ** * *
10630242 AAGGTCAAAGATTACAACATATTTC-TCTTAGTCTCGACTTTACCCCACAAGTTAACTGGATTTT
1 AAGGTCAAAGATTACAACATATTTCTTC-TAATCTCGACACTCCCCCACAAGTTAACTGGATCTT
10630306 AATATCAATTACTT
65 AATATCAATTACTT
* * * * *
10630320 AAGGTCAAAGATTACAACATATTTCTTCTAATATCGACACT-TCCC-CATGTTAACTAGATCCTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
*
10630383 ATATCAATTAGTT
66 ATATCAATTACTT
*
10630396 AAGGTCAAAGATTACAACATATTTCTT-TCAATCTCAACACTCCCCCACAAGTT
1 AAGGTCAAAGATTACAACATATTTCTTCT-AATCTCGACACTCCCCCACAAGTT
10630449 GGTGCGTAGA
Statistics
Matches: 451, Mismatches: 62, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
75 1 0.00
76 63 0.14
77 42 0.09
78 343 0.76
79 2 0.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (78 bp):
AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCTTA
ATATCAATTACTT
Found at i:10630261 original size:234 final size:233
Alignment explanation
Indices: 10629853--10630442 Score: 887
Period size: 234 Copynumber: 2.5 Consensus size: 233
10629843 AAATACTTAA
* * * * * *
10629853 AAGGTCAAATATTATAATATATTTCTTCTAATCTCGACATTCCCCACAAGTTAATTGGATCCTAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCTAA
* * * * *
10629918 TATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACTCTCTCATAAGCT
66 TATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCT
** *
10629983 AACTGGATTTTAATATCAATTAATTGAGGTCAAAGATTACAACATATTTCT-TCTAATCTCGACA
131 AACTGGACCTTAATATCAATTAATTAAGGTCAAAGATTACAACATATTTCTCT-TAATCTCGACA
*
10630047 CTCCCCCACAAGTTAACTGGATCTTAATATCAATTACTT
195 CTACCCCACAAGTTAACTGGATCTTAATATCAATTACTT
* *
10630086 AAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTAGATCCCA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACT-CCCCACAAGTTAACTAGATCCTA
*
10630151 ATATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCGACACTCCCCCATAAGC
65 ATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCATAAGC
* * *
10630216 TAACTGGACCTTAATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTCTTAGTCTCGACT
130 TAACTGGACCTTAATATCAATTAATTAAGGTCAAAGATTACAACATATTTCTCTTAATCTCGACA
* *
10630281 TTACCCCACAAGTTAACTGGATTTTAATATCAATTACTT
195 CTACCCCACAAGTTAACTGGATCTTAATATCAATTACTT
* * *
10630320 AAGGTCAAAGATTACAACATATTTCTTCTAATATCGACACTTCCC-CATGTTAACTAGATCCTAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCTAA
* * *
10630384 TATCAATTAGTTAAGGTCAAAGATTACAACATATTTCTTTCAATCTCAACACTCCCCCA
66 TATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCA
10630443 CAAGTTGGTG
Statistics
Matches: 323, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
232 72 0.22
233 39 0.12
234 211 0.65
235 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (233 bp):
AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCTAA
TATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCT
AACTGGACCTTAATATCAATTAATTAAGGTCAAAGATTACAACATATTTCTCTTAATCTCGACAC
TACCCCACAAGTTAACTGGATCTTAATATCAATTACTT
Found at i:10631469 original size:21 final size:21
Alignment explanation
Indices: 10631423--10631474 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
10631413 TTAATTATCA
* *
10631423 TTATAGTTTAGGGTTTACAGT
1 TTATGGTTAAGGGTTTACAGT
*
10631444 ATATGGTTAAGGGTTTA-ATGT
1 TTATGGTTAAGGGTTTACA-GT
10631465 TTATGAGTTA
1 TTATG-GTTA
10631475 TTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTACAGT
Found at i:10631504 original size:22 final size:22
Alignment explanation
Indices: 10631445--10631504 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 22
10631435 GTTTACAGTA
* *
10631445 TATGG-TTAAGGGTTTAATGTT
1 TATGGATTATGGGTTTAAGGTT
***
10631466 TAT-GAGTTATTATTTTAAGGTT
1 TATGGA-TTATGGGTTTAAGGTT
10631488 TATGGATTATGGGTTTA
1 TATGGATTATGGGTTTA
10631505 GAGATTATAG
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
20 1 0.04
21 3 0.11
22 22 0.79
23 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (22 bp):
TATGGATTATGGGTTTAAGGTT
Found at i:10631541 original size:14 final size:14
Alignment explanation
Indices: 10631522--10631578 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
10631512 TAGTTCAATG
10631522 GTGGTTTAAGGGTT
1 GTGGTTTAAGGGTT
*
10631536 GTGGTTTAAGGTTT
1 GTGGTTTAAGGGTT
** *
10631550 AAGGTTTAAGTGTT
1 GTGGTTTAAGGGTT
* *
10631564 AGGGGGTTAAGGGTT
1 -GTGGTTTAAGGGTT
10631579 AGGGGTTTAG
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 23 0.70
15 10 0.30
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (14 bp):
GTGGTTTAAGGGTT
Found at i:10631819 original size:22 final size:21
Alignment explanation
Indices: 10631794--10631843 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
10631784 GAGTTATTAT
*
10631794 TTTAAGGTTTATGAATTATGGG
1 TTTAAGGATTATGAATTAT-GG
* **
10631816 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGAATTATGG
10631837 TTTAAGG
1 TTTAAGG
10631844 GTTGGGGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGAATTATGG
Found at i:10631852 original size:14 final size:15
Alignment explanation
Indices: 10631835--10631875 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
10631825 TATGGTTTAT
10631835 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
10631849 GGTTTAAGGCTTAGG
1 GGTTTAAGGGTTAGG
10631864 GG-TTAAGGGTTA
1 GGTTTAAGGGTTA
10631876 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:10631866 original size:21 final size:21
Alignment explanation
Indices: 10631828--10631867 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10631818 TAGGGATTAT
* *
10631828 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
10631849 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
10631868 AAGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:10641967 original size:39 final size:39
Alignment explanation
Indices: 10641923--10642140 Score: 391
Period size: 39 Copynumber: 5.6 Consensus size: 39
10641913 ATGCAAGACA
10641923 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
10641962 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
10642001 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
10642040 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
10642079 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
10642118 CTGGAAATGTATCCGGGCTAAAG
1 CTGGAAATGTATCCGGGCTAAAG
10642141 CCTGCGATAT
Statistics
Matches: 169, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 169 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:10642180 original size:60 final size:60
Alignment explanation
Indices: 10642087--10642200 Score: 210
Period size: 60 Copynumber: 1.9 Consensus size: 60
10642077 TGCTGGAAAT
*
10642087 ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGCCTGCG
1 ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGCCTGCG
*
10642147 ATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAG
1 ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAG
10642201 TCCCGCAGGC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.23, C:0.27, G:0.30, T:0.20
Consensus pattern (60 bp):
ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGCCTGCG
Found at i:10642202 original size:39 final size:39
Alignment explanation
Indices: 10642148--10642258 Score: 195
Period size: 39 Copynumber: 2.8 Consensus size: 39
10642138 AAGCCTGCGA
10642148 TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATG
*
10642187 TATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATG
1 TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATG
* *
10642226 TATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
10642259 ATAATATAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATG
Found at i:10642220 original size:99 final size:99
Alignment explanation
Indices: 10642049--10642239 Score: 355
Period size: 99 Copynumber: 1.9 Consensus size: 99
10642039 GCTGGAAATG
*
10642049 TATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTT
1 TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTT
10642114 CGTGCTGGAAATGTATCCGGGCTAAAGCCTGCGA
66 CGTGCTGGAAATGTATCCGGGCTAAAGCCTGCGA
*
10642148 TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTT
1 TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTT
*
10642213 CGTGCTGGAAATGTATCCGGGTTAAAG
66 CGTGCTGGAAATGTATCCGGGCTAAAG
10642240 TCCCGCAGGC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.23
Consensus pattern (99 bp):
TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTT
CGTGCTGGAAATGTATCCGGGCTAAAGCCTGCGA
Found at i:10642257 original size:138 final size:138
Alignment explanation
Indices: 10642009--10642258 Score: 437
Period size: 138 Copynumber: 1.8 Consensus size: 138
10641999 TGCTGGAAAT
*
10642009 ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCT
1 ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCT
*
10642074 TTGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAA
66 TCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAA
10642139 AGCCTGCG
131 AGCCTGCG
*
10642147 ATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCT
1 ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCT
* ** *
10642212 TCGTGCTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
66 TCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTG
10642259 ATAATATAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 105 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (138 bp):
ATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCT
TCGTGCTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAA
AGCCTGCG
Found at i:10645260 original size:30 final size:30
Alignment explanation
Indices: 10645215--10645274 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10645205 CAATAGATGA
*
10645215 CACACGACTATGTCACCAAG-CTGTGTGTCT
1 CACACGACTAAGTCA-CAAGCCTGTGTGTCT
* *
10645245 CACACGGCTAAGTCACACGCCTGTGTGTCT
1 CACACGACTAAGTCACAAGCCTGTGTGTCT
10645275 GGTCGTGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (30 bp):
CACACGACTAAGTCACAAGCCTGTGTGTCT
Found at i:10650858 original size:42 final size:42
Alignment explanation
Indices: 10650804--10650924 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
10650794 GCCCAGGTTG
*
10650804 TGTGAGTC-ACACAGGCAAGGACATGGGCGTGTGTCTAGGCCA
1 TGTGAG-CAACACAGGTAAGGACATGGGCGTGTGTCTAGGCCA
* *
10650846 TGTG-GCTAACACAGGTAAGGACATGGGCGTGTGTCTAGGTCG
1 TGTGAGC-AACACAGGTAAGGACATGGGCGTGTGTCTAGGCCA
* * * *
10650888 TGTGAGCCATACGGGTAAGGACATGGGCATGTGTCTA
1 TGTGAGCAACACAGGTAAGGACATGGGCGTGTGTCTA
10650925 TGCCGTATGA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 65 0.94
43 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
TGTGAGCAACACAGGTAAGGACATGGGCGTGTGTCTAGGCCA
Found at i:10656260 original size:27 final size:22
Alignment explanation
Indices: 10656206--10656250 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
10656196 GAATGAGATT
*
10656206 ATTAAAGGAAAGCATTCTGATA
1 ATTAAAGGAAAGCATCCTGATA
10656228 ATTAAAGGAAAGCATCCTGATA
1 ATTAAAGGAAAGCATCCTGATA
10656250 A
1 A
10656251 ACTTAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (22 bp):
ATTAAAGGAAAGCATCCTGATA
Found at i:10664172 original size:23 final size:25
Alignment explanation
Indices: 10664146--10664193 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10664136 GTCTTGATTC
10664146 TTAAAAA-ATTAAAA-TTAATTTTT
1 TTAAAAATATTAAAAGTTAATTTTT
* *
10664169 TTAAAAATTTTAAAAGTTTATTTTT
1 TTAAAAATATTAAAAGTTAATTTTT
10664194 CAATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TTAAAAATATTAAAAGTTAATTTTT
Found at i:10664319 original size:20 final size:20
Alignment explanation
Indices: 10664296--10664346 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
10664286 AAATTTATTT
* *
10664296 AATAAAATAATGATTTTATA
1 AATAAAATAATAATCTTATA
10664316 AATAAAATAATAATCTTATA
1 AATAAAATAATAATCTTATA
*
10664336 AACAAAATAAT
1 AATAAAATAAT
10664347 TCAAGAGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AATAAAATAATAATCTTATA
Found at i:10670736 original size:43 final size:44
Alignment explanation
Indices: 10670675--10670767 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
10670665 TCCTAATTGG
10670675 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
10670718 GAAAATAGTTCCTTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
10670762 -AAAATA
1 GAAAATA
10670768 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:10675474 original size:43 final size:44
Alignment explanation
Indices: 10675413--10675509 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 44
10675403 TCCTAATTGG
*
10675413 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
10675456 GAAAATAGTTTCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
10675500 -AAAATA-TTTC
1 GAAAATAGTTTC
10675510 TAGAATATGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
42 4 0.08
43 45 0.90
44 1 0.02
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.31
Consensus pattern (44 bp):
GAAAATAGTTTCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:10675803 original size:20 final size:19
Alignment explanation
Indices: 10675770--10675808 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10675760 AAAATTACAA
*
10675770 TAAAAAAAGGAGAAAATAAT
1 TAAAAAAAGAAG-AAATAAT
*
10675790 TAAAAGAAGAAGAAATAAT
1 TAAAAAAAGAAGAAATAAT
10675809 AGAATAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (19 bp):
TAAAAAAAGAAGAAATAAT
Found at i:10693550 original size:40 final size:40
Alignment explanation
Indices: 10693506--10693583 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
10693496 CGGTACCTTA
* * *
10693506 TGGTGTGTAGGGTTAGATGGGTTGATTTTATCCCCATACT
1 TGGTGTATAGGGCTAGATGGGTCGATTTTATCCCCATACT
*
10693546 TGGTGTATAGGGCTGGATGGGTCGATTTTATCCCCATA
1 TGGTGTATAGGGCTAGATGGGTCGATTTTATCCCCATA
10693584 TGGTATGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.37
Consensus pattern (40 bp):
TGGTGTATAGGGCTAGATGGGTCGATTTTATCCCCATACT
Found at i:10694085 original size:22 final size:22
Alignment explanation
Indices: 10694058--10694101 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10694048 GCGACAGCAA
*
10694058 AAATACGTTTTGGAACCTTAAC
1 AAATACATTTTGGAACCTTAAC
10694080 AAATACATTTTGGAACCTTAAC
1 AAATACATTTTGGAACCTTAAC
10694102 TTAAGGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (22 bp):
AAATACATTTTGGAACCTTAAC
Found at i:10702412 original size:143 final size:143
Alignment explanation
Indices: 10702164--10702438 Score: 426
Period size: 143 Copynumber: 1.9 Consensus size: 143
10702154 TGTGCCTGGC
* *
10702164 GCTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGACGAAGGTTGCGCC
1 GCTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGACGAAAGTTGCACC
* * * *
10702229 CAGAGCTAGCTGGATAAACCGACAAATAATTAGTGAGCCCAATTCTAGTTGGATAAACCAATGAT
66 CAGAGCTAGATGAATAAACCGACAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACGAT
10702294 ATCTGTGCCCAGG
131 ATCTGTGCCCAGG
** * *
10702307 GCTAGTCGGATAAACCGATGAATGTGTGCCTAGCACTAGTCAGATAAACTGACGAAAGTTGCACC
1 GCTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGACGAAAGTTGCACC
* *
10702372 CA-ACGCTAGATGAATAAACCGACAAATAATTAGTGAGCCCAGCTCTAGTTGTATAAACCAACGA
66 CAGA-GCTAGATGAATAAACCGACAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACGA
10702436 TAT
130 TAT
10702439 TTGCACCCAA
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
142 1 0.01
143 118 0.99
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (143 bp):
GCTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGACGAAAGTTGCACC
CAGAGCTAGATGAATAAACCGACAAATAATTAGTGAGCCCAACTCTAGTTGGATAAACCAACGAT
ATCTGTGCCCAGG
Found at i:10702443 original size:74 final size:72
Alignment explanation
Indices: 10702233--10702455 Score: 188
Period size: 74 Copynumber: 3.1 Consensus size: 72
10702223 TGCGCCCAGA
** * *
10702233 GCTAGCTGGATAAACCGACAAATAATTAGTGAGCCCAATTCTAGTTGGATAAACCAATGATATCT
1 GCTAG-TGGATAAACCGACAAATAATTAGTGAGCCCAGCTCTAGTT-GATAAACCAACGATATTT
** **
10702298 GTGCCCAGG
64 GCACCCAAC
* * * * ** * *
10702307 GCTAGTCGGATAAACCG----ATGAA-T-GTGTGCCTAGCACTAGTCAGATAAACTGACGAAAGT
1 GCTAGT-GGATAAACCGACAAAT-AATTAGTGAGCCCAGCTCTAGT-TGATAAACCAACGATATT
10702366 TGCACCCAAC
63 TGCACCCAAC
*
10702376 GCTAGATGAATAAACCGACAAATAATTAGTGAGCCCAGCTCTAGTTGTATAAACCAACGATATTT
1 GCTAG-TGGATAAACCGACAAATAATTAGTGAGCCCAGCTCTAGTTG-ATAAACCAACGATATTT
10702441 GCACCCAAC
64 GCACCCAAC
10702450 GCTAGT
1 GCTAGT
10702456 CGAATGAATC
Statistics
Matches: 113, Mismatches: 25, Indels: 23
0.70 0.16 0.14
Matches are distributed among these distances:
69 43 0.38
70 4 0.04
71 2 0.02
72 2 0.02
73 6 0.05
74 56 0.50
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (72 bp):
GCTAGTGGATAAACCGACAAATAATTAGTGAGCCCAGCTCTAGTTGATAAACCAACGATATTTGC
ACCCAAC
Found at i:10702671 original size:36 final size:36
Alignment explanation
Indices: 10702599--10702671 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
10702589 AATGTCACAT
*
10702599 TCCATAAACCTCCATTCAATTGAATTAACTTATACA
1 TCCATAAACCTCCATTCAATTGAATTAACTAATACA
* *
10702635 TCCATAAACTTCCATTCAATTTAATTAA-TAATTACA
1 TCCATAAACCTCCATTCAATTGAATTAACTAA-TACA
10702671 T
1 T
10702672 TAGGAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.40, C:0.22, G:0.01, T:0.37
Consensus pattern (36 bp):
TCCATAAACCTCCATTCAATTGAATTAACTAATACA
Found at i:10705923 original size:17 final size:17
Alignment explanation
Indices: 10705901--10705933 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10705891 GCCCATACAA
10705901 AAACCAAAAAACAAAAT
1 AAACCAAAAAACAAAAT
*
10705918 AAACCAAAATACAAAA
1 AAACCAAAAAACAAAA
10705934 ACCAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.18, G:0.00, T:0.06
Consensus pattern (17 bp):
AAACCAAAAAACAAAAT
Found at i:10705941 original size:14 final size:14
Alignment explanation
Indices: 10705895--10705941 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
10705885 GCCCTGGCCC
10705895 ATACAAAAACCAAA
1 ATACAAAAACCAAA
*
10705909 AAACAAAATAAACCAAA
1 ATAC--AA-AAACCAAA
10705926 ATACAAAAACCAAA
1 ATACAAAAACCAAA
10705940 AT
1 AT
10705942 TAAAGTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 13 0.46
15 2 0.07
16 2 0.07
17 11 0.39
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (14 bp):
ATACAAAAACCAAA
Found at i:10708303 original size:26 final size:24
Alignment explanation
Indices: 10708261--10708311 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
10708251 AGTGTACGAG
10708261 TTTTTGAAAGTCAAAAGTCGATCGTA
1 TTTTTGAAAGTCAAAAG--GATCGTA
*
10708287 TTTTTGAAGGT-ATAAAGGATCGTA
1 TTTTTGAAAGTCA-AAAGGATCGTA
10708311 T
1 T
10708312 CCAATCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 8 0.35
25 1 0.04
26 14 0.61
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (24 bp):
TTTTTGAAAGTCAAAAGGATCGTA
Found at i:10710603 original size:14 final size:14
Alignment explanation
Indices: 10710584--10710613 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10710574 TTATATCGAG
10710584 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
10710598 ACCAATCCAATTCA
1 ACCAATCCAAATCA
10710612 AC
1 AC
10710614 ATATTTTCAA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:10715748 original size:16 final size:16
Alignment explanation
Indices: 10715729--10715771 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 16
10715719 ATAAAAATAA
10715729 AAAAAGAGAAAGAAAT
1 AAAAAGAGAAAGAAAT
10715745 AAAAAGAG--A-AAAT
1 AAAAAGAGAAAGAAAT
10715758 AAAAA-AGAAAGAAA
1 AAAAAGAGAAAGAAA
10715772 GAAAGAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 2 0.08
13 9 0.38
14 2 0.08
15 3 0.12
16 8 0.33
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAAGAGAAAGAAAT
Found at i:10715764 original size:14 final size:14
Alignment explanation
Indices: 10715713--10715765 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
10715703 CTTGAGAACT
*
10715713 TAAAAAATA-AAAA
1 TAAAAAAGAGAAAA
10715726 TAAAAAAAGAGAAAGA
1 T-AAAAAAGAGAAA-A
*
10715742 AATAAAAAGAGAAAA
1 TA-AAAAAGAGAAAA
10715757 TAAAAAAGA
1 TAAAAAAGA
10715766 AAGAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 14 0.42
15 6 0.18
16 12 0.36
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.09
Consensus pattern (14 bp):
TAAAAAAGAGAAAA
Found at i:10716865 original size:18 final size:17
Alignment explanation
Indices: 10716830--10716861 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10716820 TAAGCATTTA
10716830 AAAAAAAGAGATCATTC
1 AAAAAAAGAGATCATTC
10716847 AAAAAAA-AGATCATT
1 AAAAAAAGAGATCATT
10716862 TTCATTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.19
Consensus pattern (17 bp):
AAAAAAAGAGATCATTC
Found at i:10716968 original size:64 final size:64
Alignment explanation
Indices: 10716887--10717094 Score: 353
Period size: 64 Copynumber: 3.2 Consensus size: 64
10716877 TTCATAACAC
*
10716887 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACACCAGCATCACATCTA
1 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
* * * *
10716951 ATTAGGAGTATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAAGCATCACATCTA
1 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
*
10717015 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTAACATCAGCATCACATCTA
1 GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
*
10717079 GTTAGGAGTATTTGAT
1 GTTAGGAGCATTTGAT
10717095 CGTAGCATCC
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 133 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (64 bp):
GTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATCAGCATCACATCTA
Found at i:10717441 original size:133 final size:132
Alignment explanation
Indices: 10717294--10717627 Score: 333
Period size: 133 Copynumber: 2.5 Consensus size: 132
10717284 TCTTCCTAAG
* * * *
10717294 GTAGCAAGGAAGCAGATTGAAGGTTGAAGATCTTATCTCCCT-AGGCA-ATAGTTG-GGCAGA-T
1 GTAGCAAGGGAGCAGGTTGAAGATTGAAG-TCTTATCTCCCTGAGGCACA-AG--GAAGCAGACT
* *
10717355 CGAAGATGGCGA-ATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAG-CCTTAT
62 -GAAGATGG-AATATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCA-CAGACCTTAT
10717418 CTCTCTGAA
124 CTCTCTGAA
** * * * *
10717427 GTAGCAAGGGAGCAGGTTGGCGATTGTAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAA
1 GTAGCAAGGGAGCAGGTTGAAGATTGAAGTCTTATCTCCCTGAGGCA-CAAGGAAGCAGACTGAA
* * **
10717492 GATTGAATATCTTATCTCCATGTACCGGTAATGGAGCAGATTTTAGCCATTGACCTTATCTCTCT
65 GATGGAATATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCACAGACCTTATCTCTCT
*
10717557 GAG
130 GAA
* * *
10717560 GTAGCAAGAGAGCAGGTTGAAGA-TGATAGTCTTATC-CTCTTGAGGCAGCAATGAAGCAGACTG
1 GTAGCAAGGGAGCAGGTTGAAGATTGA-AGTCTTATCTC-CCTGAGGCA-CAAGGAAGCAGACTG
10717623 AAGAT
63 AAGAT
10717628 TGCAGGTCTT
Statistics
Matches: 168, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
132 15 0.09
133 149 0.89
134 3 0.02
135 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (132 bp):
GTAGCAAGGGAGCAGGTTGAAGATTGAAGTCTTATCTCCCTGAGGCACAAGGAAGCAGACTGAAG
ATGGAATATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCACAGACCTTATCTCTCTG
AA
Found at i:10717496 original size:44 final size:43
Alignment explanation
Indices: 10717413--10717639 Score: 119
Period size: 44 Copynumber: 5.1 Consensus size: 43
10717403 AGCCACCAGC
* * * **
10717413 CTTATCTCTCTGAAGTAGCAAGGGAGCAGGTTGGCGATTGTAGT
1 CTTATCTCT-TGAGGTAGCAAGGAAGCAGATTGAAGATTGTAGT
*
10717457 CTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAATA-T
1 CTTATC-TCTTGAGGTAGCAAGGAAGCAGATTGAAGATTG--TAGT
* * ** *
10717502 CTTATCTCCATGTACCGGTA--ATGG-AGCAGATTTTAGCCATTG-A-C
1 CTTATCT-CTTG-A--GGTAGCAAGGAAGCAGATTGAAG--ATTGTAGT
*
10717546 CTTATCTCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGA-TGATAGT
1 CTTATCTCT-TGAGGTAGCAAGGA-AGCAGATTGAAGATTG-TAGT
* * * *
10717590 CTTATCCTCTTGAGGCAGCAATGAAGCAGACTGAAGATTGCAGGT
1 CTTAT-CTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTGTA-GT
10717635 CTTAT
1 CTTAT
10717640 TTCCCTAAGC
Statistics
Matches: 140, Mismatches: 22, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
41 6 0.04
42 2 0.01
43 4 0.03
44 77 0.55
45 37 0.26
46 6 0.04
47 4 0.03
48 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (43 bp):
CTTATCTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTGTAGT
Done.