Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 56 of 292
Found at i:16499866 original size:53 final size:53
Alignment explanation
Indices: 16499786--16499891 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
16499776 TTGCCTAAAA
16499786 ATAAGGGTTGATATTTGCCTAAAGACTATGATAAATTATAACTAATGGAGCTT
1 ATAAGGGTTGATATTTGCCTAAAGACTATGATAAATTATAACTAATGGAGCTT
16499839 ATAAGGGTTGATATTTGCCTAAAGACTATGATAAATTATAACTAATGGAGCTT
1 ATAAGGGTTGATATTTGCCTAAAGACTATGATAAATTATAACTAATGGAGCTT
16499892 CAAAAATCAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (53 bp):
ATAAGGGTTGATATTTGCCTAAAGACTATGATAAATTATAACTAATGGAGCTT
Found at i:16509528 original size:75 final size:73
Alignment explanation
Indices: 16509440--16509611 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
16509430 GGTTTTCCTC
*** * * **
16509440 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
16509504 TCAGTATGG
65 TCAGTATGG
*
16509513 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
16509578 CTCAGTATGG
64 CTCAGTATGG
16509588 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
16509612 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:16509609 original size:35 final size:35
Alignment explanation
Indices: 16509445--16509611 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
16509435 TCCTCATTGA
*** *
16509445 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
16509480 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
16509520 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
16509555 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
16509590 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
16509612 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:16516534 original size:75 final size:73
Alignment explanation
Indices: 16516446--16516617 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
16516436 GGTTTTCCTC
*** * * **
16516446 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
16516510 TCAGTATGG
65 TCAGTATGG
*
16516519 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
16516584 CTCAGTATGG
64 CTCAGTATGG
16516594 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
16516618 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:16516615 original size:35 final size:35
Alignment explanation
Indices: 16516451--16516617 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
16516441 TCCTCATTGA
*** *
16516451 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
16516486 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
16516526 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
16516561 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
16516596 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
16516618 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:16526768 original size:16 final size:17
Alignment explanation
Indices: 16526744--16526785 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16526734 ACTAAATATA
*
16526744 AAATCAAAA-TAAAAAG
1 AAATTAAAACTAAAAAG
*
16526760 AAATTAAAACTTAAAAG
1 AAATTAAAACTAAAAAG
*
16526777 AACTTAAAA
1 AAATTAAAA
16526786 GAAATTTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (17 bp):
AAATTAAAACTAAAAAG
Found at i:16526979 original size:21 final size:22
Alignment explanation
Indices: 16526927--16526981 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
16526917 TAAATAATTT
* *
16526927 TTAATAAAATAAAATATATTAG
1 TTAATAAATTAAAATATATAAG
*
16526949 TTAATGAATTAAAA-A-ATAAG
1 TTAATAAATTAAAATATATAAG
16526969 TATAATAAATTAA
1 T-TAATAAATTAA
16526982 GAACCAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 11 0.39
22 12 0.43
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
TTAATAAATTAAAATATATAAG
Found at i:16536579 original size:21 final size:21
Alignment explanation
Indices: 16536553--16536592 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16536543 ATGTTTATAA
*
16536553 ATTTTACATTTTTTAAAAATG
1 ATTTTACATTTTTAAAAAATG
*
16536574 ATTTTATATTTTTAAAAAA
1 ATTTTACATTTTTAAAAAA
16536593 ATTAATTTTT
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:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (21 bp):
ATTTTACATTTTTAAAAAATG
Found at i:16536619 original size:22 final size:23
Alignment explanation
Indices: 16536552--16536613 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
16536542 TATGTTTATA
* *
16536552 AATTTTACATTTTT-TAAAAA-T
1 AATTTTATATTTTTAAAAAAATT
*
16536573 GATTTTATATTTTTAAAAAAATT
1 AATTTTATATTTTTAAAAAAATT
*
16536596 AATTTTTTA-TTTTAAAAA
1 AATTTTATATTTTTAAAAA
16536614 TTTTAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 12 0.35
22 14 0.41
23 8 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
AATTTTATATTTTTAAAAAAATT
Found at i:16539182 original size:22 final size:22
Alignment explanation
Indices: 16539142--16539197 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
16539132 AATAAAATTG
*
16539142 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
16539162 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
16539184 TATTAATAATTTAT
1 AAATAATAAATTAT
16539198 TATAGGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:16544430 original size:28 final size:28
Alignment explanation
Indices: 16544388--16544457 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
16544378 TATGGTACTC
*
16544388 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
* *
16544416 TGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
16544444 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
16544458 CGAATGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:16554876 original size:22 final size:20
Alignment explanation
Indices: 16554850--16554894 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
16554840 GATTTGTGTG
* *
16554850 TTTTATTATTGTTTTTATGATA
1 TTTTATAATAGTTTTT-T-ATA
16554872 TTTTATAATAGTTTTTTATA
1 TTTTATAATAGTTTTTTATA
16554892 TTT
1 TTT
16554895 AAAATAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTATAATAGTTTTTTATA
Found at i:16554922 original size:110 final size:109
Alignment explanation
Indices: 16554795--16554998 Score: 236
Period size: 110 Copynumber: 1.9 Consensus size: 109
16554785 TTGAAAGGTA
* *
16554795 ATTTTTTTATATATTTTATTA-AGTTTAAGTTTATATTAGAA-ATATGATTTGTGTGTTTTATTA
1 ATTTTTTTATATATTTTATTAGA-TTTAAGTTTATATTA-AATATATGACTAGTGTGTTTTATTA
* *
16554858 TTGTT-TT-TATGATATTTTATAATAGTTTTTTATATTTAAAATAAAT
64 ATGTTATTGT-TG-TATCTTATAATAGTTTTTTATATTTAAAATAAAT
* * * * * *
16554904 ATTTTTTTGTTATGTTTTATTAGATTTAGGTTTGTATTAAATGTATGACTAGTTTGTTTTATTAA
1 ATTTTTTT-ATATATTTTATTAGATTTAAGTTTATATTAAATATATGACTAGTGTGTTTTATTAA
*
16554969 TGTTATTGTTGTATCTTATATTAGTTTTTT
65 TGTTATTGTTGTATCTTATAATAGTTTTTT
16554999 TCGTATTTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
109 10 0.13
110 63 0.80
111 5 0.06
112 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.12, T:0.60
Consensus pattern (109 bp):
ATTTTTTTATATATTTTATTAGATTTAAGTTTATATTAAATATATGACTAGTGTGTTTTATTAAT
GTTATTGTTGTATCTTATAATAGTTTTTTATATTTAAAATAAAT
Found at i:16555206 original size:114 final size:114
Alignment explanation
Indices: 16554808--16555206 Score: 361
Period size: 117 Copynumber: 3.5 Consensus size: 114
16554798 TTTTTATATA
* * ** * * * *
16554808 TTTTATTAAGTTTAAGTTTATATTAGAA-ATATGATTTGTGTGTTTTATTATTGTTTTTATGATA
1 TTTTATT-AGTTTAAGTTTGTATTA-AATGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTA
* * * *
16554872 TTTTATAATAGTTTTTT-ATATTTAA---AATA-AATATTTTT-TTGT-TATG
64 TCTTATATTAGTTTTTTCGTATTTAAGGGAA-AGGATATTTTTGTTGTGT-TG
* * * * *
16554918 TTTTATTAGATTTAGGTTTGTATTAAATGTATGACTAGTTTGTTTTATTAATGTTATTGTTGTAT
1 TTTTATTAG-TTTAAGTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTAT
* *
16554983 CTTATATTAGTTTTTTTCGTATTTAAGGGGAAGGATATTTTTGTTGTGTTTT
65 CTTATATTAG-TTTTTTCGTATTTAAGGGAAAGGATATTTTTGTTGTG-TTG
* *
16555035 TTTTTTTAGTTTTAGATTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTAT
1 TTTTATTAGTTTAAG-TTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTAT
*** * *
16555100 CTTATATTAG-TTTTTCGTATTTACTTGAAATGTTATTTTCTGTTGCTG-TG
65 CTTATATTAGTTTTTTCGTATTTAAGGGAAAGGATATTTT-TGTTG-TGTTG
* * *
16555150 TTTTATTAGCTTTAAGTTTGTATT-TAGGTTTGATTAATTTGTTTTATTAATGTTTTT
1 TTTTATTAG-TTTAAGTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTT
16555207 AAAGAATCTT
Statistics
Matches: 238, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
109 4 0.02
110 56 0.24
111 6 0.03
112 7 0.03
114 31 0.13
115 49 0.21
116 18 0.08
117 66 0.28
118 1 0.00
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.59
Consensus pattern (114 bp):
TTTTATTAGTTTAAGTTTGTATTAAATGTATGATTAATTTGTTTTATTAATGTTTTTGTGGTATC
TTATATTAGTTTTTTCGTATTTAAGGGAAAGGATATTTTTGTTGTGTTG
Found at i:16559458 original size:5 final size:5
Alignment explanation
Indices: 16559448--16559484 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
16559438 AATAAGTCAT
16559448 TATAA TATAA TATAA TATAA TATAA TATAA TGATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA T-ATAA T
16559485 TATTATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:16559945 original size:23 final size:23
Alignment explanation
Indices: 16559914--16559969 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
16559904 AGAGTTTTTT
*
16559914 TAAACATTTA-TACAAATTTTTAA
1 TAAAAATTTATTA-AAATTTTTAA
*
16559937 -AAAATATTTATTAATATTTTTAA
1 TAAAA-ATTTATTAAAATTTTTAA
16559960 TAAAAATTTA
1 TAAAAATTTA
16559970 AAGAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
22 3 0.11
23 19 0.68
24 6 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (23 bp):
TAAAAATTTATTAAAATTTTTAA
Found at i:16561553 original size:13 final size:13
Alignment explanation
Indices: 16561535--16561561 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16561525 AACCGATCAC
16561535 ATTGTTACAAAAA
1 ATTGTTACAAAAA
16561548 ATTGTTACAAAAA
1 ATTGTTACAAAAA
16561561 A
1 A
16561562 CTAAACCGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
ATTGTTACAAAAA
Found at i:16565299 original size:26 final size:27
Alignment explanation
Indices: 16565270--16565329 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
16565260 ATCCTCTCTC
*
16565270 AAGCCATATAA-CAGGAAGGTCACAAA
1 AAGCCATATAATCAGGAAGCTCACAAA
*
16565296 AAGCCAT-TAATCTGGAAGCTCACAAA
1 AAGCCATATAATCAGGAAGCTCACAAA
*
16565322 GAG-CATAT
1 AAGCCATAT
16565330 CAAGAAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (27 bp):
AAGCCATATAATCAGGAAGCTCACAAA
Found at i:16566327 original size:21 final size:21
Alignment explanation
Indices: 16566303--16566345 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16566293 TAATTGTTCA
16566303 ATACATAGATAAATTCCTTGT
1 ATACATAGATAAATTCCTTGT
16566324 ATACATAGATAAATTCCTTGT
1 ATACATAGATAAATTCCTTGT
16566345 A
1 A
16566346 ACTAATTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (21 bp):
ATACATAGATAAATTCCTTGT
Found at i:16567446 original size:17 final size:17
Alignment explanation
Indices: 16567417--16567457 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16567407 AACCCTTAAA
*
16567417 TTTTCCTTTTTTCTTTC
1 TTTTCCTTTTTTCATTC
16567434 TTTT-CTTTCTTTCATTC
1 TTTTCCTTT-TTTCATTC
16567451 -TTTCCTT
1 TTTTCCTT
16567458 CCCCTGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCCTTTTTTCATTC
Found at i:16567538 original size:2 final size:2
Alignment explanation
Indices: 16567531--16567561 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
16567521 ATGTTTTAAC
16567531 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16567562 ATAACATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16567683 original size:16 final size:17
Alignment explanation
Indices: 16567666--16567741 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 17
16567656 TATTTATTAT
16567666 ATAAATATCTTATAAT-
1 ATAAATATCTTATAATA
* *
16567682 ATAATTA-CTTA-ATTA
1 ATAAATATCTTATAATA
16567697 ATAAATATCTTTTATAAATA
1 ATAAATATC--TTAT-AATA
16567717 ATAAATATC-TACTAATA
1 ATAAATATCTTA-TAATA
16567734 ATTAAATA
1 A-TAAATA
16567742 CATGTATTAC
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
14 2 0.04
15 10 0.21
16 7 0.15
17 7 0.15
18 10 0.21
20 12 0.25
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATCTTATAATA
Found at i:16568245 original size:26 final size:25
Alignment explanation
Indices: 16568216--16568268 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
16568206 CATAGGAAGT
* *
16568216 TCACAAAGAACTTTTAATTAGGATGC
1 TCACAAAGAACCTTTAATCAGGA-GC
* *
16568242 TCACGAAGAGCCTTTAATCAGGAGC
1 TCACAAAGAACCTTTAATCAGGAGC
16568267 TC
1 TC
16568269 CGGATAGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (25 bp):
TCACAAAGAACCTTTAATCAGGAGC
Found at i:16570836 original size:12 final size:12
Alignment explanation
Indices: 16570819--16570854 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
16570809 GTGGTTTTGT
*
16570819 GACCACATGGGC
1 GACCACACGGGC
16570831 GACCACACGGGC
1 GACCACACGGGC
*
16570843 GATCACACGGGC
1 GACCACACGGGC
16570855 ATGCGGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.25, C:0.36, G:0.33, T:0.06
Consensus pattern (12 bp):
GACCACACGGGC
Found at i:16575544 original size:16 final size:15
Alignment explanation
Indices: 16575511--16575564 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
16575501 TGTAAGAGGG
16575511 ATTTTAATTTTTTAATA
1 ATTTTAA-TTTTT-ATA
16575528 ATTATTAATTTTTATA
1 ATT-TTAATTTTTATA
*
16575544 ATTTATATTTTTTATA
1 ATTT-TAATTTTTATA
*
16575560 GTTTT
1 ATTTT
16575565 GCACTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 2 0.06
16 19 0.58
17 8 0.24
18 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
ATTTTAATTTTTATA
Found at i:16575641 original size:32 final size:32
Alignment explanation
Indices: 16575579--16575641 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
16575569 TAATAAAAAA
* *
16575579 TGAATCTAGACATACATTTGTTTCGATTCATC
1 TGAATCTAGACATACATTTGTTACAATTCATC
16575611 TGAATCTAGACA-ATCATTTG-TACAAGTTCAT
1 TGAATCTAGACATA-CATTTGTTACAA-TTCAT
16575642 TTTAGATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (32 bp):
TGAATCTAGACATACATTTGTTACAATTCATC
Found at i:16577102 original size:30 final size:29
Alignment explanation
Indices: 16577068--16577159 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 29
16577058 ATAAGAAATG
16577068 AATTTAAAATAAATAATGTAAAAAAAAAGA
1 AATTTAAAATAAATAATGTAAAAAAAAA-A
* *
16577098 AATTTAATATCAATAATGTACACACAAAAAAA
1 AATTTAAAATAAATAATGTA-A-A-AAAAAAA
* * *
16577130 AATTAAAAATAGAGTATATGTAAAAGAAAA
1 AATTTAAAATA-AATA-ATGTAAAAAAAAA
16577160 TTTAAAATAG
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
30 18 0.36
31 6 0.12
32 11 0.22
33 10 0.20
34 5 0.10
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (29 bp):
AATTTAAAATAAATAATGTAAAAAAAAAA
Found at i:16581951 original size:18 final size:17
Alignment explanation
Indices: 16581924--16581961 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
16581914 CTTAGAGTGG
16581924 CTTTAATTTGACAA-TGA
1 CTTTAATTTGA-AATTGA
16581941 CTTTGAATTTGAAATTGA
1 CTTT-AATTTGAAATTGA
16581959 CTT
1 CTT
16581962 CAACATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (17 bp):
CTTTAATTTGAAATTGA
Found at i:16586764 original size:19 final size:17
Alignment explanation
Indices: 16586732--16586787 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
16586722 CTCTTCATTT
16586732 TTTAATAATGTTTTATAAA
1 TTTAATAAT-TTTTA-AAA
16586751 TTTATATAATTTTTAAAAA
1 TTTA-ATAATTTTT-AAAA
* *
16586770 ATTAAAAATTTTTAAAA
1 TTTAATAATTTTTAAAA
16586787 T
1 T
16586788 AATTTTAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 4 0.12
18 8 0.25
19 14 0.44
20 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTAATAATTTTTAAAA
Found at i:16587109 original size:24 final size:24
Alignment explanation
Indices: 16587061--16587109 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
16587051 TAATCATATT
*
16587061 AAAAAAGTTACAAAATTTCTAAAA
1 AAAAAAGTTACAAAATATCTAAAA
*
16587085 AAAAAAGTTACAAAATGATGTAAAA
1 AAAAAAGTTACAAAAT-ATCTAAAA
16587110 CCACTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.63, C:0.06, G:0.08, T:0.22
Consensus pattern (24 bp):
AAAAAAGTTACAAAATATCTAAAA
Found at i:16587484 original size:5 final size:5
Alignment explanation
Indices: 16587474--16587510 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
16587464 ACAATTACAC
16587474 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT AC
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT AC
16587511 TTGAAAGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (5 bp):
ACAAT
Found at i:16592382 original size:18 final size:19
Alignment explanation
Indices: 16592342--16592382 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
16592332 TTCTTTTTTA
* *
16592342 TTTTTCATTATTTAAGAAG
1 TTTTTCACTATTTAAAAAG
16592361 -TTTTCACT-TTTAAAAAG
1 TTTTTCACTATTTAAAAAG
16592378 TTTTT
1 TTTTT
16592383 TTTTTGGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTTTCACTATTTAAAAAG
Found at i:16597600 original size:19 final size:22
Alignment explanation
Indices: 16597576--16597626 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 22
16597566 TTTAATTTAC
*
16597576 TTTTATTTG-AATTTTTA-TA-
1 TTTTATTTGCAATTATTATTAT
16597595 TTTTATTTCGCAATTATTATTAT
1 TTTTATTT-GCAATTATTATTAT
16597618 TTTTATTTG
1 TTTTATTTG
16597627 TTTCAACCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 1 0.04
21 7 0.26
22 3 0.11
23 8 0.30
ACGTcount: A:0.24, C:0.04, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTATTTGCAATTATTATTAT
Found at i:16602456 original size:13 final size:13
Alignment explanation
Indices: 16602438--16602463 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16602428 TATTTGACCC
16602438 CTTAAAAGATTAT
1 CTTAAAAGATTAT
16602451 CTTAAAAGATTAT
1 CTTAAAAGATTAT
16602464 TCTGACTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CTTAAAAGATTAT
Found at i:16605841 original size:12 final size:12
Alignment explanation
Indices: 16605824--16605864 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
16605814 TAATAGTTGA
16605824 TAATAAAAAAGT
1 TAATAAAAAAGT
*
16605836 TAATAAATAA-T
1 TAATAAAAAAGT
16605847 TAA-ATAAAAAGT
1 TAATA-AAAAAGT
16605859 TAATAA
1 TAATAA
16605865 TAATTAAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 1 0.04
11 8 0.33
12 14 0.58
13 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (12 bp):
TAATAAAAAAGT
Found at i:16605859 original size:23 final size:22
Alignment explanation
Indices: 16605829--16605871 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
16605819 GTTGATAATA
16605829 AAAAAGTTAATAAATAATTAAAT
1 AAAAAGTTAAT-AATAATTAAAT
16605852 AAAAAGTTAATAATAATTAA
1 AAAAAGTTAATAATAATTAA
16605872 GTGACATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
AAAAAGTTAATAATAATTAAAT
Found at i:16607734 original size:39 final size:38
Alignment explanation
Indices: 16607691--16607768 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
16607681 ATTTAAAATC
*
16607691 TTTAAAA-ATAATACAAATTTATAGAAAATAAAAAAATTA
1 TTTAAAAGATAATA-AAATATATA-AAAATAAAAAAATTA
* * *
16607730 TTTAAAAGATTATAAAATATATAAAAGTGAAAAAATTA
1 TTTAAAAGATAATAAAATATATAAAAATAAAAAAATTA
16607768 T
1 T
16607769 AAAATTATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
38 14 0.41
39 15 0.44
40 5 0.15
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (38 bp):
TTTAAAAGATAATAAAATATATAAAAATAAAAAAATTA
Found at i:16607756 original size:19 final size:18
Alignment explanation
Indices: 16607732--16607782 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
16607722 AAAAATTATT
16607732 TAAAAGATTATAAAATATA
1 TAAAAGATTATAAAAT-TA
* *
16607751 TAAAAG-TGAAAAAATTA
1 TAAAAGATTATAAAATTA
*
16607768 TAAAATTATTATAAA
1 TAAAA-GATTATAAA
16607783 TGGAAAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 7 0.28
18 7 0.28
19 11 0.44
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
TAAAAGATTATAAAATTA
Found at i:16607769 original size:26 final size:25
Alignment explanation
Indices: 16607733--16607851 Score: 75
Period size: 26 Copynumber: 4.6 Consensus size: 25
16607723 AAAATTATTT
*
16607733 AAAAGATTATAAAATATATAAAAGTG
1 AAAAAATTATAAAATATATAAAA-TG
16607759 AAAAAATTATAAAAT-TATTATAAATG
1 AAAAAATTATAAAATATA-TA-AAATG
* * * *
16607785 GAAAAA-TATAAATTATTAAAAAATT
1 AAAAAATTATAAAATA-TATAAAATG
* *
16607810 AAAATAA-CAAAAAAGTATATAAATTATG
1 AAAA-AATTATAAAA-TATATAAA--ATG
16607838 AAAAAATT-TAAAAT
1 AAAAAATTATAAAAT
16607852 TTTTTATAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
25 16 0.23
26 36 0.51
27 13 0.18
28 6 0.08
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (25 bp):
AAAAAATTATAAAATATATAAAATG
Found at i:16607813 original size:24 final size:26
Alignment explanation
Indices: 16607733--16607806 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
16607723 AAAATTATTT
* *
16607733 AAAAGATTATAAAA-TATATAAAAGTGA
1 AAAA-ATTATAAAATTAT-TAAAAATGG
*
16607760 AAAAATTATAAAATTATTATAAATGG
1 AAAAATTATAAAATTATTAAAAATGG
16607786 AAAAA-TAT-AAATTATTAAAAA
1 AAAAATTATAAAATTATTAAAAA
16607807 ATTAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.29
25 3 0.07
26 20 0.48
27 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (26 bp):
AAAAATTATAAAATTATTAAAAATGG
Found at i:16608484 original size:19 final size:20
Alignment explanation
Indices: 16608462--16608511 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
16608452 TTGTTTTTTC
16608462 AATTTTTAATAATTTAT-AT
1 AATTTTTAATAATTTATAAT
** *
16608481 AATTTTTTGTCATTTATAAT
1 AATTTTTAATAATTTATAAT
16608501 AATTTTATAAT
1 AATTTT-TAAT
16608512 GTTTGCATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 14 0.58
20 8 0.33
21 2 0.08
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAATAATTTATAAT
Found at i:16608486 original size:28 final size:27
Alignment explanation
Indices: 16608455--16608541 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 27
16608445 ATTTTTTTTG
16608455 TTTTTTCAATTTTTAATAATTTATATAAT
1 TTTTTTC-ATTTTTAATAATTT-TATAAT
*
16608484 TTTTTGTCATTTATAATAATTTTATAA-
1 TTTTT-TCATTTTTAATAATTTTATAAT
* * * *
16608511 TGTTTGCATTTTT-ATATATTTTCTAGT
1 TTTTTTCATTTTTAATA-ATTTTATAAT
16608538 TTTT
1 TTTT
16608542 AAGCATTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.06
26 13 0.27
27 7 0.15
28 5 0.10
29 18 0.38
30 2 0.04
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (27 bp):
TTTTTTCATTTTTAATAATTTTATAAT
Found at i:16608488 original size:29 final size:28
Alignment explanation
Indices: 16608455--16608511 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
16608445 ATTTTTTTTG
*
16608455 TTTTT-TCAATTTTTAATAATTTATATAAT
1 TTTTTGTC-ATTTATAATAATTT-TATAAT
16608484 TTTTTGTCATTTATAATAATTTTATAAT
1 TTTTTGTCATTTATAATAATTTTATAAT
16608512 GTTTGCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 6 0.23
29 18 0.69
30 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTTGTCATTTATAATAATTTTATAAT
Found at i:16608531 original size:26 final size:28
Alignment explanation
Indices: 16608463--16608532 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
16608453 TGTTTTTTCA
*
16608463 ATTTTTAATAATTTATATAATTTTTTGTC
1 ATTTTTAATAATTT-TATAATTGTTTGTC
*
16608492 ATTTATAATAATTTTATAA-TGTTTG-C
1 ATTTTTAATAATTTTATAATTGTTTGTC
16608518 ATTTTT-ATATATTTT
1 ATTTTTAATA-ATTTT
16608533 CTAGTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 3 0.08
26 11 0.30
27 5 0.14
28 5 0.14
29 13 0.35
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.61
Consensus pattern (28 bp):
ATTTTTAATAATTTTATAATTGTTTGTC
Found at i:16609073 original size:6 final size:6
Alignment explanation
Indices: 16609060--16609094 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
16609050 TTTCCCTCTC
*
16609060 CCTT-T CCTTCT CCTTCT CCTTCT CCTTCT TCTTCT
1 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT
16609095 TCATATTCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
CCTTCT
Found at i:16610555 original size:22 final size:22
Alignment explanation
Indices: 16610512--16610555 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16610502 ATAAAGATAG
* *
16610512 AAAGATAGAAACGAAACAAAAA
1 AAAGAGAGAAACGAAAAAAAAA
*
16610534 AAAGAGAGAAA-GAAAAAGAAA
1 AAAGAGAGAAACGAAAAAAAAA
16610555 A
1 A
16610556 GGGAGAAACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.75, C:0.05, G:0.18, T:0.02
Consensus pattern (22 bp):
AAAGAGAGAAACGAAAAAAAAA
Found at i:16615438 original size:19 final size:19
Alignment explanation
Indices: 16615406--16615443 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16615396 CATTTTATTT
16615406 GTTTCAATTTAATACTTAA
1 GTTTCAATTTAATACTTAA
*
16615425 GTTT-AATTTCAATATTTAA
1 GTTTCAATTT-AATACTTAA
16615444 ATTAGTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (19 bp):
GTTTCAATTTAATACTTAA
Found at i:16616298 original size:24 final size:24
Alignment explanation
Indices: 16616262--16616313 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
16616252 TTTCTAGAAG
* * *
16616262 ATTTAGTACTTATTAGTATAATAT
1 ATTTAGCACTTATCAGCATAATAT
* *
16616286 ATTTAGCATTTATCAGCATAATTT
1 ATTTAGCACTTATCAGCATAATAT
16616310 ATTT
1 ATTT
16616314 GACCTACGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCACTTATCAGCATAATAT
Found at i:16626510 original size:46 final size:46
Alignment explanation
Indices: 16626443--16626534 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
16626433 TTATTGAGGA
16626443 GATGACACTGAATAATTATTAGTGGCAAGTTACGAGAGAAAAACCT
1 GATGACACTGAATAATTATTAGTGGCAAGTTACGAGAGAAAAACCT
16626489 GATGACACTGAATAATTATTAGTGGCAAGTTACGAGAGAAAAACCT
1 GATGACACTGAATAATTATTAGTGGCAAGTTACGAGAGAAAAACCT
16626535 ACTAAGGCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (46 bp):
GATGACACTGAATAATTATTAGTGGCAAGTTACGAGAGAAAAACCT
Found at i:16629456 original size:3 final size:3
Alignment explanation
Indices: 16629448--16629584 Score: 129
Period size: 3 Copynumber: 45.7 Consensus size: 3
16629438 TTTTATTACG
16629448 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
16629496 TTA TTA TTA TTA GTG TTG TTT TTA TT- TCTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * *
16629541 GTA TTG TGT- TTA TTA TGT- TTC TTA -TA TTTA TTA TTA TTA CTA TT
1 TTA TTA T-TA TTA TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TT
16629585 GTTAATCTTA
Statistics
Matches: 113, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
2 5 0.04
3 103 0.91
4 5 0.04
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:16631165 original size:21 final size:20
Alignment explanation
Indices: 16631130--16631170 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
16631120 TCAATCACTG
16631130 ATTTATTTTAGTTTTCTATTT
1 ATTTATTTTAGTTTT-TATTT
16631151 ATTTATTTTTA-TTTTTATTT
1 ATTTA-TTTTAGTTTTTATTT
16631171 CCAATTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
ATTTATTTTAGTTTTTATTT
Found at i:16632204 original size:21 final size:20
Alignment explanation
Indices: 16632178--16632216 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
16632168 TTACTTTGTT
16632178 ATTAAAAAAAGAACAAAAAAA
1 ATTAAAAAAAGAA-AAAAAAA
16632199 ATTAAAAAAAGAAAAAAA
1 ATTAAAAAAAGAAAAAAA
16632217 TTGATTGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.10
Consensus pattern (20 bp):
ATTAAAAAAAGAAAAAAAAA
Found at i:16635864 original size:23 final size:24
Alignment explanation
Indices: 16635837--16635889 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
16635827 ATAAATAGTA
16635837 ATAGTGTTAGAA-ATATACTATAT-
1 ATAGTGTTAGAAGATATAC-ATATG
*
16635860 ATAGTGTTTGAAGTATATACATATG
1 ATAGTGTTAGAAG-ATATACATATG
16635885 ATAGT
1 ATAGT
16635890 AAAAAAGGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 11 0.42
24 4 0.15
25 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.40
Consensus pattern (24 bp):
ATAGTGTTAGAAGATATACATATG
Found at i:16635997 original size:22 final size:23
Alignment explanation
Indices: 16635972--16636036 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
16635962 TATTGAAAAT
*
16635972 ACATGTTCATAATATATA-TAAA
1 ACATATTCATAATATATATTAAA
*
16635994 ACATATAT-ATAATTTAATATTAAA
1 ACATAT-TCATAATAT-ATATTAAA
*
16636018 ACATTTTACATAATATATA
1 ACATATT-CATAATATATA
16636037 CACATATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
22 11 0.32
23 5 0.15
24 12 0.35
25 6 0.18
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (23 bp):
ACATATTCATAATATATATTAAA
Found at i:16636642 original size:3 final size:3
Alignment explanation
Indices: 16636634--16636676 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
16636624 ACAAAAGCAC
16636634 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16636677 ATCCTGTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:16641522 original size:15 final size:15
Alignment explanation
Indices: 16641502--16641570 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
16641492 GTATCTTGGG
16641502 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
16641517 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
16641532 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
16641547 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
16641562 TTTCTTTAT
1 TTTCTTTAT
16641571 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:16641571 original size:30 final size:30
Alignment explanation
Indices: 16641493--16641580 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
16641483 CATAGTATAG
* * * *
16641493 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
16641523 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
16641553 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
16641581 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:16644007 original size:46 final size:46
Alignment explanation
Indices: 16643957--16644132 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
16643947 TATTTGGGCA
*
16643957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
16644003 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
16644050 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
16644096 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
16644133 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
45 3 0.03
46 64 0.58
47 29 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:16644063 original size:93 final size:93
Alignment explanation
Indices: 16643953--16644124 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
16643943 TGGATATTTG
* * *
16643953 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
16644018 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
16644046 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
16644111 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
16644125 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:16655589 original size:22 final size:22
Alignment explanation
Indices: 16655564--16655606 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16655554 TATCCTAACA
16655564 ATAATAACAAAATAGTAGCAAT
1 ATAATAACAAAATAGTAGCAAT
* * *
16655586 ATAATAGCGAAATGGTAGCAA
1 ATAATAACAAAATAGTAGCAA
16655607 AATAGTGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.09, G:0.16, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAT
Found at i:16655617 original size:11 final size:11
Alignment explanation
Indices: 16655571--16655619 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
16655561 ACAATAATAA
16655571 CAAAATAGTAG
1 CAAAATAGTAG
* *
16655582 CAATATAATAG
1 CAAAATAGTAG
* *
16655593 CGAAATGGTAG
1 CAAAATAGTAG
*
16655604 CAAAATAGTGG
1 CAAAATAGTAG
16655615 CAAAA
1 CAAAA
16655620 CAACTGATTC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.20, T:0.18
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:16657556 original size:47 final size:48
Alignment explanation
Indices: 16657505--16657639 Score: 184
Period size: 48 Copynumber: 2.8 Consensus size: 48
16657495 AGTGATAATT
*
16657505 TTAAATTTTCAATACTATTTGATATTTTTTAATTTATGAAAATT-TAA
1 TTAAATTTTCAATACTATTTGATATTTTTTCATTTATGAAAATTATAA
* *
16657552 TTAAATTTGCAATACTATTTGATATTTTATTCATTTATG-CAATTATAA
1 TTAAATTTTCAATACTATTTGATATTTT-TTCATTTATGAAAATTATAA
* * *
16657600 TTAAAATTTCAATACTACTTGATTTTTTTTTCATTTATGA
1 TTAAATTTTCAATACTATTTGA-TATTTTTTCATTTATGA
16657640 TGTTTGCATT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
47 31 0.40
48 41 0.53
49 5 0.06
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (48 bp):
TTAAATTTTCAATACTATTTGATATTTTTTCATTTATGAAAATTATAA
Found at i:16658632 original size:7 final size:7
Alignment explanation
Indices: 16658620--16658645 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
16658610 TAGTCTTTTC
16658620 GTATTTA
1 GTATTTA
16658627 GTATTTA
1 GTATTTA
16658634 GTATTTA
1 GTATTTA
16658641 GTATT
1 GTATT
16658646 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:16659282 original size:18 final size:18
Alignment explanation
Indices: 16659242--16659276 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16659232 CTAGGTGCGT
*
16659242 ATCCTAGCCCTTATATGC
1 ATCCTAACCCTTATATGC
16659260 ATCCTAACCCTTATATG
1 ATCCTAACCCTTATATG
16659277 TTTCCTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
ATCCTAACCCTTATATGC
Found at i:16661950 original size:126 final size:126
Alignment explanation
Indices: 16661694--16662196 Score: 737
Period size: 126 Copynumber: 4.0 Consensus size: 126
16661684 TTATAGCTTA
* * *
16661694 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * * * * *
16661759 ATAGTG---CCTGCTTGAAGCATTTTCGACACTATTTGTTTAGAAATGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* *
16661817 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
* * *
16661882 ACAGTGTATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTTAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* **
16661943 ATTTTTCTACGAACTACTGTAACAAAAGAG-GATTTACGTGGGAGCTTTTTTCAGAAATTTTGCT
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCG-TCCACGTGGGAGCTTTTTTCAGAAATTTTGCT
* * * * *
16662007 GATAATGCATTCTGCTTGAAGCGTTTTCGACATTATTTGTTCA-AAAAGTCTACTCAAAATT
65 GACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
* *
16662068 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
*
16662133 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
16662194 ATT
1 ATT
16662197 CTTGCAGAAA
Statistics
Matches: 343, Mismatches: 31, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
123 67 0.20
125 112 0.33
126 164 0.48
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTCAAAATT
Found at i:16662137 original size:251 final size:249
Alignment explanation
Indices: 16661694--16662196 Score: 783
Period size: 251 Copynumber: 2.0 Consensus size: 249
16661684 TTATAGCTTA
* *
16661694 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAACAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGCTG
* * * * *
16661759 ATAGTGCCTGCTTGAAGCATTTTCGACACTATTTGTTTAGAAATGTCTACTTAGAATTATTTTTC
66 ATAATGCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAAAGTCTACTCAAAATTATTTTTC
* * ** *
16661824 TACGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGAAATTTTGTTGACAGTGT
131 TACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAGTGC
* * *
16661889 ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACGTCTACTTAGAATT
196 ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
* ** *
16661943 ATTTTTCTACGAACTACTGTAACAAAAGAGGATTTACGTGGGAGCTTTTTTCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAACAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGCTG
* *
16662008 ATAATGCATTCTGCTTGAAGCGTTTTCGACATTATTTGTTCA-AAAAGTCTACTCAAAATTATTT
66 ATAATGC---CTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAAAGTCTACTCAAAATTATTT
16662072 TTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAG
128 TTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAG
16662137 TGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
193 TGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
16662194 ATT
1 ATT
16662197 CTTGCAGAAA
Statistics
Matches: 230, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
249 65 0.28
251 136 0.59
252 29 0.13
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (249 bp):
ATTTTTCTACGAACTACTGTAACAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGCTG
ATAATGCCTGCTTGAAGCATTTTCGACACTATTTGTTCAGAAAAGTCTACTCAAAATTATTTTTC
TACAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGACAGTGC
ATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAACATCTACTCAAAATT
Found at i:16662750 original size:19 final size:19
Alignment explanation
Indices: 16662728--16662797 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
16662718 ACGATTATGT
*
16662728 ATCAATTAACCCTAAATTA
1 ATCAATTAACCCTAATTTA
16662747 ATCAATTAACCCTAATTTA
1 ATCAATTAACCCTAATTTA
16662766 ATCAA-T--CCCTAATTTA
1 ATCAATTAACCCTAATTTA
16662782 ATCAATTAACCCTAAT
1 ATCAATTAACCCTAAT
16662798 ACCCTAAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
16 15 0.32
17 1 0.02
18 1 0.02
19 30 0.64
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.34
Consensus pattern (19 bp):
ATCAATTAACCCTAATTTA
Found at i:16662919 original size:16 final size:17
Alignment explanation
Indices: 16662891--16662933 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
16662881 TTAAATTCTA
* *
16662891 AACCCTAAAAAAATCCT
1 AACCTTAAAAAAATCAT
16662908 AACCTTAAAAAAATCAT
1 AACCTTAAAAAAATCAT
16662925 AACCTTAAA
1 AACCTTAAA
16662934 TCAATTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (17 bp):
AACCTTAAAAAAATCAT
Found at i:16663564 original size:19 final size:19
Alignment explanation
Indices: 16663541--16663592 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
16663531 ATATTTGAAA
16663541 ATTTAACATAAATTTGTAAT
1 ATTTAACATAAATTT-TAAT
* *
16663561 -TTTAAC-TATATTTTATT
1 ATTTAACATAAATTTTAAT
*
16663578 ATTTAATATAAATTT
1 ATTTAACATAAATTT
16663593 ATTACTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 3 0.12
18 11 0.42
19 12 0.46
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTAACATAAATTTTAAT
Found at i:16663573 original size:18 final size:19
Alignment explanation
Indices: 16663531--16663573 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
16663521 ATTATTACTA
16663531 ATATTTGAAAATTTAACAT
1 ATATTTGAAAATTTAACAT
* * *
16663550 AAATTTGTAATTTTAAC-T
1 ATATTTGAAAATTTAACAT
16663568 ATATTT
1 ATATTT
16663574 TATTATTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
ATATTTGAAAATTTAACAT
Found at i:16663593 original size:18 final size:18
Alignment explanation
Indices: 16663541--16663596 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
16663531 ATATTTGAAA
* * *
16663541 ATTTAACATAAATTTGTA
1 ATTTAATATAAATTTATT
*
16663559 ATTTTAACTAT-ATTTTATT
1 A-TTTAA-TATAAATTTATT
16663578 ATTTAATATAAATTTATT
1 ATTTAATATAAATTTATT
16663596 A
1 A
16663597 CTATTAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.10
18 14 0.47
19 11 0.37
20 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTTAATATAAATTTATT
Found at i:16663950 original size:3 final size:3
Alignment explanation
Indices: 16663942--16664034 Score: 186
Period size: 3 Copynumber: 31.0 Consensus size: 3
16663932 ACCATGAAGG
16663942 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
16663990 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
16664035 ATGGGCTACC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16666903 original size:27 final size:27
Alignment explanation
Indices: 16666873--16666942 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
16666863 GTTCCGACCA
*
16666873 ACAGCTTGTGTGAGCAGGCCCATTTTC
1 ACAGCTCGTGTGAGCAGGCCCATTTTC
16666900 ACAGCTCGTGTGAGCAGGCCCATTTTC
1 ACAGCTCGTGTGAGCAGGCCCATTTTC
16666927 ACAGCTCGTGTGAGCA
1 ACAGCTCGTGTGAGCA
16666943 TTCTGATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.26
Consensus pattern (27 bp):
ACAGCTCGTGTGAGCAGGCCCATTTTC
Found at i:16666951 original size:27 final size:27
Alignment explanation
Indices: 16666873--16666971 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
16666863 GTTCCGACCA
* ** *
16666873 ACAGCTTGTGTGAGCAGGCCCATTTTC
1 ACAGCTCGTGTGAGCATTCTCATTTTC
** *
16666900 ACAGCTCGTGTGAGCAGGCCCATTTTC
1 ACAGCTCGTGTGAGCATTCTCATTTTC
*
16666927 ACAGCTCGTGTGAGCATTCTGA-TTT-
1 ACAGCTCGTGTGAGCATTCTCATTTTC
* *
16666952 ACAACTCGTGTGAACATTCT
1 ACAGCTCGTGTGAGCATTCT
16666972 ATTCATAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 18 0.28
26 3 0.05
27 44 0.68
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.30
Consensus pattern (27 bp):
ACAGCTCGTGTGAGCATTCTCATTTTC
Found at i:16668948 original size:43 final size:43
Alignment explanation
Indices: 16668890--16669329 Score: 353
Period size: 43 Copynumber: 10.4 Consensus size: 43
16668880 AGTTTATCCA
*
16668890 ATGATGCACTGTGTGTGCTAGTATAGTTACTTCGATTTATTCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * *** *
16668933 ATGATGCACTTTGTGTGCTAGTATAGTTGCTTTTCTTTCTTCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * * * * * * *
16668976 ATGATGCATTATGTGTGTCGGTATAGCTACTTGGGTTTATCCA
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * *
16669019 ATGAAGCACTGTGTGT--CAGTATAGTTATTTTGATTTATTTG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * *
16669060 TTGATGCACTGTGTGTGCCAGCATAGTTACTTCAAATTA-TCTG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTC-G
* *
16669103 ATGATGCAC--TGTGTGCCAGTATAATTACTTCGATTTATCCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * * * *
16669144 TTGATGCATTGTGTGTGCCAGTATAGTTACTTCGGTTTCTCCA
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
* * * *
16669187 ATGGTGCACCGTGTGTGCCAGTATAATTACTTCAATTTA-TCTG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTC-G
* * *
16669230 ATGATACACTGTGTGTGCCAGTATAGTTA--T-GGTTT-CTCTG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTC-G
* * * * *
16669270 ATGATGCACTGTGTGTGTCAATATAGTTGCTTCGGTATA-TCG
1 ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
*
16669312 AATGATGCGCTGTGTGTG
1 -ATGATGCACTGTGTGTG
16669330 TTCTAAAAAT
Statistics
Matches: 312, Mismatches: 72, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
40 32 0.10
41 64 0.21
42 5 0.02
43 211 0.68
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (43 bp):
ATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATTCG
Found at i:16669091 original size:84 final size:84
Alignment explanation
Indices: 16668882--16669258 Score: 358
Period size: 84 Copynumber: 4.4 Consensus size: 84
16668872 TATGCTTCAG
* * * *
16668882 TTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTACTTCGATTTATTCGATGATGCACTTTGT
1 TTTATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATCCAATGATGCAC--TGT
* * * ***
16668947 GTGCTAGTATAGTTGCTTTTC
64 GTGCCAGTATAATTACTTCGA
* * * * * * * * * *
16668968 TTTCTTCGATGATGCATTATGTGTGTCGGTATAGCTACTTGGGTTTATCCAATGAAGCACTGTGT
1 TTTATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATCCAATGATGCACTGTGT
* * * *
16669033 GTCAGTATAGTTATTTTGA
66 GCCAGTATAATTACTTCGA
** * * * * **
16669052 TTTATTTGTTGATGCACTGTGTGTGCCAGCATAGTTACTTCAAATTATCTGATGATGCACTGTGT
1 TTTATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATCCAATGATGCACTGTGT
16669117 GCCAGTATAATTACTTCGA
66 GCCAGTATAATTACTTCGA
* * * * *
16669136 TTTATCCGTTGATGCATTGTGTGTGCCAGTATAGTTACTTCGGTTTCTCCAATGGTGCACCGTGT
1 TTTATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATCCAATGATGCA-C-TGT
*
16669201 GTGCCAGTATAATTACTTCAA
64 GTGCCAGTATAATTACTTCGA
* *
16669222 TTTATCTGATGATACACTGTGTGTGCCAGTATAGTTA
1 TTTATCCGATGATGCACTGTGTGTGCCAGTATAGTTA
16669259 TGGTTTCTCT
Statistics
Matches: 233, Mismatches: 56, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
84 130 0.56
85 1 0.00
86 102 0.44
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (84 bp):
TTTATCCGATGATGCACTGTGTGTGCCAGTATAGTTACTTCGATTTATCCAATGATGCACTGTGT
GCCAGTATAATTACTTCGA
Found at i:16669109 original size:127 final size:126
Alignment explanation
Indices: 16668876--16669329 Score: 382
Period size: 127 Copynumber: 3.6 Consensus size: 126
16668866 ACTGGTTATG
*
16668876 CTTCAGTTTATCCAATGATGCACTGTGTGTGCTAGTATAGTTACTTCGATTTATTCGATGATGCA
1 CTTCGGTTTATCCAATGATGCACTGTGTGTGC-AGTATAGTTACTTCGATTTATTCGATGATGCA
* * * *** * * *
16668941 CTTTGTGTGCTAGTATAGTTGCTT-TTCTT-TCTTCGATGATGCATTATGTGTGTCGGTATAGCT
65 CTGTGTGTGCCAGTATAGTTACTTCAAATTATC-T-GATGATGCA--ATGTGTGCCAGTATAACT
16669004 A
126 A
* * * * * *
16669005 CTTGGGTTTATCCAATGAAGCACTGTGTGT-CAGTATAGTTATTTTGATTTATTTGTTGATGCAC
1 CTTCGGTTTATCCAATGATGCACTGTGTGTGCAGTATAGTTACTTCGATTTATTCGATGATGCAC
* * *
16669069 TGTGTGTGCCAGCATAGTTACTTCAAATTATCTGATGATGCACTGTGTGCCAGTATAATTA
66 TGTGTGTGCCAGTATAGTTACTTCAAATTATCTGATGATGCAATGTGTGCCAGTATAACTA
* ** * * * * * *
16669130 CTTCGATTTATCCGTTGATGCATTGTGTGTGCCAGTATAGTTACTTCGGTTTCTCCAATGGTGCA
1 CTTCGGTTTATCCAATGATGCACTGTGTGTG-CAGTATAGTTACTTCGATTTATTCGATGATGCA
* * * * * **
16669195 CCGTGTGTGCCAGTATAATTACTTCAATTTATCTGATGATACACTGTGTGTGCCAGTATAGTTA
65 CTGTGTGTGCCAGTATAGTTACTTCAAATTATCTGATGATGCA--ATGTGTGCCAGTATAACTA
* ** * * * *
16669259 --T-GGTTTCTCTGATGATGCACTGTGTGTGTCAATATAGTTGCTTCGGTATA-TCGAATGATGC
1 CTTCGGTTTATCCAATGATGCACTGTGTGTG-CAGTATAGTTACTTCGATTTATTCG-ATGATGC
*
16669320 GCTGTGTGTG
64 ACTGTGTGTG
16669330 TTCTAAAAAT
Statistics
Matches: 262, Mismatches: 56, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
125 39 0.15
126 53 0.20
127 120 0.46
128 4 0.02
129 46 0.18
ACGTcount: A:0.21, C:0.16, G:0.23, T:0.41
Consensus pattern (126 bp):
CTTCGGTTTATCCAATGATGCACTGTGTGTGCAGTATAGTTACTTCGATTTATTCGATGATGCAC
TGTGTGTGCCAGTATAGTTACTTCAAATTATCTGATGATGCAATGTGTGCCAGTATAACTA
Found at i:16674280 original size:26 final size:26
Alignment explanation
Indices: 16674240--16674462 Score: 223
Period size: 26 Copynumber: 8.5 Consensus size: 26
16674230 AGTTTGCCAG
* *
16674240 AAAGGCATTCCTTTCATATTCCACCAC
1 AAAGG-ATTTCTTTCATATTACACCAC
* *
16674267 AAAGGATTTCTTTCCTATTACACAAC
1 AAAGGATTTCTTTCATATTACACCAC
* * * *
16674293 AAAGGCTTTCTTTCATAATACGCCAT
1 AAAGGATTTCTTTCATATTACACCAC
* *
16674319 AAAGGCTTTCTTTCATATTACACCTC
1 AAAGGATTTCTTTCATATTACACCAC
*
16674345 AAAGGTTTTCTTTCATATTACACCAC
1 AAAGGATTTCTTTCATATTACACCAC
* * *
16674371 AAACGCTTTCTTTCATATTATACCAC
1 AAAGGATTTCTTTCATATTACACCAC
* * *
16674397 AAA-GACTTTCTTTTATTTTACACCAT
1 AAAGGA-TTTCTTTCATATTACACCAC
** **
16674423 AAACAATTTCTTTCATATTATGCCAC
1 AAAGGATTTCTTTCATATTACACCAC
*
16674449 AAAGGTTTTCTTTC
1 AAAGGATTTCTTTC
16674463 TTAACTTGTT
Statistics
Matches: 161, Mismatches: 33, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
25 1 0.01
26 154 0.96
27 6 0.04
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (26 bp):
AAAGGATTTCTTTCATATTACACCAC
Found at i:16674348 original size:78 final size:78
Alignment explanation
Indices: 16674235--16674462 Score: 251
Period size: 78 Copynumber: 2.9 Consensus size: 78
16674225 TACGGAGTTT
* * * * * *
16674235 GCCAGAAAGGCATTCCTTTCATATTCCACCACAAAGGATTTCTTTCCTATTACACAACAAAGGCT
1 GCCACAAAGGC-TTTCTTTCATATTACACCTCAAAGGATTTCTTTCATATTACACCACAAAGGCT
16674300 TTCTTTCATAATAC
65 TTCTTTCATAATAC
* * *
16674314 GCCATAAAGGCTTTCTTTCATATTACACCTCAAAGGTTTTCTTTCATATTACACCACAAACGCTT
1 GCCACAAAGGCTTTCTTTCATATTACACCTCAAAGGATTTCTTTCATATTACACCACAAAGGCTT
* *
16674379 TCTTTCATATTAT
66 TCTTTCATAATAC
* * * * ** ** *
16674392 ACCACAAAGACTTTCTTTTATTTTACACCAT-AAACAATTTCTTTCATATTATGCCACAAAGGTT
1 GCCACAAAGGCTTTCTTTCATATTACACC-TCAAAGGATTTCTTTCATATTACACCACAAAGGCT
16674456 TTCTTTC
65 TTCTTTC
16674463 TTAACTTGTT
Statistics
Matches: 126, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 115 0.91
79 11 0.09
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (78 bp):
GCCACAAAGGCTTTCTTTCATATTACACCTCAAAGGATTTCTTTCATATTACACCACAAAGGCTT
TCTTTCATAATAC
Found at i:16676291 original size:46 final size:46
Alignment explanation
Indices: 16676230--16676399 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 46
16676220 CACTAACAGA
*
16676230 GCCGATGCAAGTCCCAGACATGTCTTACACAGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACAGGCTCT-CATCTCGAG
* * * *
16676276 GCCGGTGCATGTCCCA-AGCATGTCTTACACTA-GCTGTCATCTCAAT
1 GCCGATGCATGTCCCAGA-CATGTCTTACAC-AGGCTCTCATCTCGAG
* * * * *
16676322 ACCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACAGGCTCTCAT-CTCGAG
*
16676370 GCCGATGCATGTGCCAGACATGTCTTACAC
1 GCCGATGCATGTCCCAGACATGTCTTACAC
16676400 TAGCACACAA
Statistics
Matches: 100, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 50 0.50
47 25 0.25
48 23 0.23
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACAGGCTCTCATCTCGAG
Found at i:16679888 original size:13 final size:13
Alignment explanation
Indices: 16679870--16679894 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16679860 CCTAGCACAC
16679870 GGTCGTGTGACTT
1 GGTCGTGTGACTT
16679883 GGTCGTGTGACT
1 GGTCGTGTGACT
16679895 CCAATTTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.40, T:0.36
Consensus pattern (13 bp):
GGTCGTGTGACTT
Found at i:16685756 original size:48 final size:47
Alignment explanation
Indices: 16685676--16685792 Score: 119
Period size: 48 Copynumber: 2.4 Consensus size: 47
16685666 ACTAAGTACC
* * * * *
16685676 TATACCATGGCCCAAAGCCAAATCAAGGTAACTTATATCTGAAATACT
1 TATATCATGGCCCAAAGCCAAATC-AGGTAACTCACACCCGAAATACT
* *
16685724 TATATCATGGCCCAAAGCCAAATC-GGTATAACTCACACCCGAAGTGCT
1 TATATCATGGCCCAAAGCCAAATCAGG--TAACTCACACCCGAAATACT
* *
16685772 AATATCATGGCCCGAAGCCAA
1 TATATCATGGCCCAAAGCCAA
16685793 CTCAATGTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
46 2 0.03
48 56 0.97
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.21
Consensus pattern (47 bp):
TATATCATGGCCCAAAGCCAAATCAGGTAACTCACACCCGAAATACT
Found at i:16688925 original size:49 final size:49
Alignment explanation
Indices: 16688845--16688980 Score: 209
Period size: 49 Copynumber: 2.8 Consensus size: 49
16688835 AGCCGAAGCT
* * *
16688845 ATCTGGTACGCATAGTAGCCTGCACTCAGTACTACACATGCGACCAATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* *
16688894 ATTTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
* *
16688943 ATCCGGTAGACGTAGTAGCCTGCACTTAGTACTACACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
16688981 CGTGACCTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 79 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAATA
Found at i:16690804 original size:20 final size:21
Alignment explanation
Indices: 16690764--16690804 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16690754 ACTTATATAA
* *
16690764 CTATCATCAAGCATTCAAAAT
1 CTATCATCAAACATCCAAAAT
16690785 CTATCATCAAACA-CCAAAAT
1 CTATCATCAAACATCCAAAAT
16690805 AATCATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.27, G:0.02, T:0.24
Consensus pattern (21 bp):
CTATCATCAAACATCCAAAAT
Found at i:16691739 original size:39 final size:39
Alignment explanation
Indices: 16691699--16691913 Score: 335
Period size: 39 Copynumber: 5.5 Consensus size: 39
16691689 GTTCACTTTT
* *
16691699 AAGCATATATCACATTACAT-ATATAATCACATAACATTT
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTC
*
16691738 AAGCATATATCACAATACTCATATAATCATATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
16691777 -AGCATATATCACAATACTCATATAATCTCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* **
16691815 AAACATATATCACAATACTCATATAATTGCATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
16691854 AAGCATATATCATAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
16691893 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
16691914 AAAACATGTT
Statistics
Matches: 161, Mismatches: 13, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
38 37 0.23
39 124 0.77
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:16691749 original size:22 final size:22
Alignment explanation
Indices: 16691696--16691751 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 22
16691686 CGTGTTCACT
*
16691696 TTTAAGCATATATCACATTACA
1 TTTAAGCATATATCACATAACA
*
16691718 --T-A-TATA-ATCACATAACA
1 TTTAAGCATATATCACATAACA
16691735 TTTAAGCATATATCACA
1 TTTAAGCATATATCACA
16691752 ATACTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 10
0.67 0.08 0.26
Matches are distributed among these distances:
17 10 0.38
18 3 0.12
19 2 0.08
20 2 0.08
21 3 0.12
22 6 0.23
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (22 bp):
TTTAAGCATATATCACATAACA
Found at i:16691787 original size:77 final size:78
Alignment explanation
Indices: 16691699--16691913 Score: 335
Period size: 77 Copynumber: 2.8 Consensus size: 78
16691689 GTTCACTTTT
* *
16691699 AAGCATATATCACATTACAT-ATATAATCACATAACATTTAAGCATATATCACAATACTCATATA
1 AAGCATATATCACAATAC-TCATATAATCACATAACATTCAAGCATATATCACAATACTCATATA
*
16691763 ATCATATAACATTC
65 ATCACATAACATTC
* *
16691777 -AGCATATATCACAATACTCATATAATCTCATAACATTCAAACATATATCACAATACTCATATAA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
**
16691841 TTGCATAACATTC
66 TCACATAACATTC
*
16691854 AAGCATATATCATAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCA
16691914 AAAACATGTT
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
76 1 0.01
77 68 0.54
78 56 0.45
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (78 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTCAAGCATATATCACAATACTCATATAA
TCACATAACATTC
Found at i:16691849 original size:116 final size:117
Alignment explanation
Indices: 16691702--16691913 Score: 347
Period size: 116 Copynumber: 1.8 Consensus size: 117
16691692 CACTTTTAAG
* *
16691702 CATATATCACATTACATATATAATCACATAACATTTAAGCATATATCACAATACTCATATAATCA
1 CATATATCACAATACATATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCA
*
16691767 TATAACATTC-AGCATATATCACAATACTCATATAATCTCATAACATTCAAA
66 CATAACATTCAAGCATATATCACAATACTCATATAATCTCATAACATTCAAA
** *
16691818 CATATATCACAATAC-TCATATAATTGCATAACATTCAAGCATATATCATAATACTCATATAATC
1 CATATATCACAATACAT-ATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATC
16691882 ACATAACATTCAAGCATATATCACAATACTCA
65 ACATAACATTCAAGCATATATCACAATACTCA
16691914 AAAACATGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
115 1 0.01
116 67 0.76
117 20 0.23
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.31
Consensus pattern (117 bp):
CATATATCACAATACATATATAATCACATAACATTCAAGCATATATCACAATACTCATATAATCA
CATAACATTCAAGCATATATCACAATACTCATATAATCTCATAACATTCAAA
Found at i:16694288 original size:27 final size:27
Alignment explanation
Indices: 16694240--16694398 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
16694230 GCGAGGCTGC
* *
16694240 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
16694267 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
16694293 CAGATATATGTGGTAGAGCCACCACAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
16694320 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
16694347 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
16694374 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
16694399 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:16694340 original size:54 final size:54
Alignment explanation
Indices: 16694258--16694398 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
16694248 GTGACGAAGT
* *
16694258 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
16694312 CACCACATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
16694366 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
16694399 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:16696033 original size:26 final size:26
Alignment explanation
Indices: 16696003--16696110 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
16695993 TGAAATTCCC
16696003 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16696029 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
16696055 ATCATGAAACATTTACGTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16696081 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16696107 ATCA
1 ATCA
16696111 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16699563 original size:51 final size:51
Alignment explanation
Indices: 16699487--16699647 Score: 268
Period size: 51 Copynumber: 3.2 Consensus size: 51
16699477 CTGATTACAT
*
16699487 TTATCACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
16699538 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * * *
16699589 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
16699640 TTGTCACT
1 TTATCACT
16699648 GATCAAAAGT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 105 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:16712905 original size:43 final size:43
Alignment explanation
Indices: 16712774--16712946 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
16712764 ATATCGTACA
* * * * *
16712774 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATGTCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCACATATCG
* * * * *
16712817 ATGCCACTGTCTCAAATAGGGTCATACACG-AATCACA-ATTACG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCACATA-T-CG
* **
16712860 ATGCCAATGTCCCAGACATGGTCTTACTTGAAATCACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCACATATCG
* *
16712903 ATGCCAATGTCCCAGACGTGGTCTTACACGAGAA-CACATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGA-AATCACATATCG
16712946 A
1 A
16712947 AAATCCTATG
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
42 8 0.08
43 86 0.82
44 10 0.10
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGAAATCACATATCG
Found at i:16714712 original size:42 final size:44
Alignment explanation
Indices: 16714635--16714745 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 44
16714625 TCGACTTGAT
16714635 ATTTACGTGTAAAACCATGTCTAGGACATCGGCATCG-TATATG
1 ATTTACGTGTAAAACCATGTCTAGGACATCGGCATCGATATATG
* * * * *
16714678 ATTT-CGTGTAAAGCCCTGTCTGGGATAGTC-GCATCGATATTTG
1 ATTTACGTGTAAAACCATGTCTAGGACA-TCGGCATCGATATATG
* * *
16714721 A-TTACATGTAAGACCACGTCTAGGA
1 ATTTACGTGTAAAACCATGTCTAGGA
16714746 TGTTGGCATT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
42 27 0.50
43 27 0.50
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (44 bp):
ATTTACGTGTAAAACCATGTCTAGGACATCGGCATCGATATATG
Found at i:16716394 original size:42 final size:43
Alignment explanation
Indices: 16716293--16716401 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 43
16716283 GTTACATGCC
* * *
16716293 ATATCCCAGATATGGTCTTACATGTGATCTCGTATCAATGTCA
1 ATATCCCAGATATGGTCTTACACGAGATCTCATATCAATGTCA
* * * *
16716336 ATAGCCCAGCTATGGTCTTACACGA-AGTCTCATATCGATGT-T
1 ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCAATGTCA
16716378 ATATCCCAGATATGGTCTTACACG
1 ATATCCCAGATATGGTCTTACACG
16716402 TAAATCTTAA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
42 23 0.41
43 33 0.59
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (43 bp):
ATATCCCAGATATGGTCTTACACGAGATCTCATATCAATGTCA
Found at i:16718228 original size:14 final size:13
Alignment explanation
Indices: 16718205--16718236 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
16718195 GGGATATCAA
16718205 AACAATAATTAAG
1 AACAATAATTAAG
16718218 AACATATAATTAAG
1 AACA-ATAATTAAG
16718232 AACAA
1 AACAA
16718237 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:16718372 original size:16 final size:15
Alignment explanation
Indices: 16718347--16718382 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
16718337 AACATCTCAT
*
16718347 AAAAATAAAGAATAC
1 AAAAATAAAGAAAAC
16718362 AAAACATAAAGAAAAC
1 AAAA-ATAAAGAAAAC
16718378 AAAAA
1 AAAAA
16718383 ACTCCTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.78, C:0.08, G:0.06, T:0.08
Consensus pattern (15 bp):
AAAAATAAAGAAAAC
Found at i:16731047 original size:40 final size:39
Alignment explanation
Indices: 16730882--16731065 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
16730872 AAATTGAATG
* * *
16730882 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
16730922 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
16730962 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
16731002 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
16731041 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
16731066 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:16731090 original size:80 final size:81
Alignment explanation
Indices: 16730922--16731110 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
16730912 GCTGGAAATT
* * * *
16730922 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
16730987 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
16731003 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
16731066 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
16731082 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
16731111 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:16736046 original size:3 final size:3
Alignment explanation
Indices: 16736038--16736082 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
16736028 CCATGAAAAG
16736038 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
16736083 ATATATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:16743800 original size:26 final size:26
Alignment explanation
Indices: 16743771--16743830 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
16743761 CCCTCAGCTT
* *
16743771 AATTTTGACGATTTTACACTTGGTAA
1 AATTTTGACGATTTTACACCTAGTAA
* *
16743797 AATTTTGACGATTTTTCCCCTAGTAA
1 AATTTTGACGATTTTACACCTAGTAA
16743823 AATTTTGA
1 AATTTTGA
16743831 GAAAATATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (26 bp):
AATTTTGACGATTTTACACCTAGTAA
Found at i:16743994 original size:12 final size:12
Alignment explanation
Indices: 16743977--16744016 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
16743967 AAATGGATTG
*
16743977 TTTTCATTTTCA
1 TTTTCATTTCCA
16743989 TTTTCATTTCCA
1 TTTTCATTTCCA
* *
16744001 TTTCCATATCCA
1 TTTTCATTTCCA
16744013 TTTT
1 TTTT
16744017 TGGAAACCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTCATTTCCA
Found at i:16754618 original size:3 final size:3
Alignment explanation
Indices: 16754610--16754636 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
16754600 TTTTGGGTTT
16754610 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
16754637 ATTTAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16760257 original size:5 final size:5
Alignment explanation
Indices: 16760241--16760279 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
16760231 CCAAAAGGAA
16760241 AAAAG -AAA- AAAAG AAAAG AAAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG
16760280 TAAGAAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 6 0.19
5 20 0.65
6 5 0.16
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:16760263 original size:21 final size:21
Alignment explanation
Indices: 16760233--16760279 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
16760223 CAACCACTCC
*
16760233 AAAAGGAAAAA-AGAAAAAAAG
1 AAAA-GAAAAAGAAAAAAAAAG
*
16760254 AAAAGAAAAAGAAAAGAAAAG
1 AAAAGAAAAAGAAAAAAAAAG
16760275 AAAAG
1 AAAAG
16760280 TAAGAAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAAGAAAAAAAAAG
Found at i:16760264 original size:11 final size:11
Alignment explanation
Indices: 16760248--16760279 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
16760238 GAAAAAAGAA
16760248 AAAAAGAAAAG
1 AAAAAGAAAAG
16760259 AAAAAGAAAAG
1 AAAAAGAAAAG
16760270 -AAAAGAAAAG
1 AAAAAGAAAAG
16760280 TAAGAAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:16765907 original size:11 final size:10
Alignment explanation
Indices: 16765893--16765949 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 10
16765883 ATTTATGATT
16765893 TGAATATGAAA
1 TGAA-ATGAAA
16765904 TGAAATTGAAA
1 TGAAA-TGAAA
*
16765915 TGAGAATGATA
1 TGA-AATGAAA
16765926 TGAAAATGGAAA
1 TG-AAAT-GAAA
*
16765938 TGAAACGAAA
1 TGAAATGAAA
16765948 TG
1 TG
16765950 GATGTTACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.18
11 24 0.62
12 8 0.21
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (10 bp):
TGAAATGAAA
Found at i:16765938 original size:6 final size:5
Alignment explanation
Indices: 16765893--16765949 Score: 51
Period size: 5 Copynumber: 10.4 Consensus size: 5
16765883 ATTTATGATT
*
16765893 TGAATA TGAAA TGAAA TTGAAA TGAGAA TGATA TGAAAA TGGAAA TGAAA
1 TGAA-A TGAAA TGAAA -TGAAA TGA-AA TGAAA TG-AAA T-GAAA TGAAA
*
16765943 CGAAA TG
1 TGAAA TG
16765950 GATGTTACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
5 21 0.49
6 21 0.49
7 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.23, T:0.23
Consensus pattern (5 bp):
TGAAA
Found at i:16767655 original size:9 final size:9
Alignment explanation
Indices: 16767641--16767665 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16767631 CTAAATTGGA
16767641 AATTAAATT
1 AATTAAATT
16767650 AATTAAATT
1 AATTAAATT
16767659 AATTAAA
1 AATTAAA
16767666 AGATGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:16768662 original size:57 final size:58
Alignment explanation
Indices: 16768545--16768681 Score: 188
Period size: 57 Copynumber: 2.4 Consensus size: 58
16768535 GCTAACAGGG
* * * **
16768545 TTTAGCCTGGACTGGTAATCCTGATATAATCTCTCTCGAGCATATGTTACAATTAGGA
1 TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAGCATATATTACAAAAAGGA
* *
16768603 TTTAGCCTGGACTGATAATCCTAAT-TGAGCTCT-TCTGAGCATATATTACAAAAAGGA
1 TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTC-GAGCATATATTACAAAAAGGA
16768660 TTTAGCCTGGACTGGTAATCCT
1 TTTAGCCTGGACTGGTAATCCT
16768682 GTTATATGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 2 0.03
57 45 0.64
58 23 0.33
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (58 bp):
TTTAGCCTGGACTGGTAATCCTAATATAAGCTCTCTCGAGCATATATTACAAAAAGGA
Found at i:16771009 original size:14 final size:14
Alignment explanation
Indices: 16770992--16771025 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16770982 GGTGCATCCG
16770992 CATACATACATCTA
1 CATACATACATCTA
*
16771006 CATACATACATCTG
1 CATACATACATCTA
16771020 CATACA
1 CATACA
16771026 AAGCTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (14 bp):
CATACATACATCTA
Found at i:16774145 original size:40 final size:39
Alignment explanation
Indices: 16774059--16774170 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 39
16774049 GCTGGTAATT
*
16774059 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
* *
16774098 TACATCCGGGCTAAGACCCGAAGGCATTTGTGCAATTTGTGA-
1 -ACATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGAC
* *
16774140 A-ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGC
16774171 GGGTTACCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
40 57 0.90
41 1 0.02
43 5 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
Found at i:16782192 original size:40 final size:40
Alignment explanation
Indices: 16782084--16782193 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
16782074 ATTGAATGAT
* * * * *
16782084 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
16782124 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
16782164 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
16782194 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:16782208 original size:40 final size:39
Alignment explanation
Indices: 16782084--16782233 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
16782074 ATTGAATGAT
* * * * * * *
16782084 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
16782124 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
16782164 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
16782204 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
16782234 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:16783931 original size:22 final size:23
Alignment explanation
Indices: 16783901--16783950 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
16783891 TACAGCATGG
**
16783901 GTGTGCCCTAGGGTCACACGGGC
1 GTGTGCCCTAGGACCACACGGGC
*
16783924 GTGT-CCCTTGGACCACACGGGC
1 GTGTGCCCTAGGACCACACGGGC
16783946 GTGTG
1 GTGTG
16783951 AACCTTGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.12, C:0.30, G:0.38, T:0.20
Consensus pattern (23 bp):
GTGTGCCCTAGGACCACACGGGC
Found at i:16788257 original size:21 final size:21
Alignment explanation
Indices: 16788210--16788303 Score: 116
Period size: 21 Copynumber: 4.5 Consensus size: 21
16788200 AGAACACACC
* * * *
16788210 AACAGAAGCTCATAAAAGCTG
1 AACAGAAGCTCGTGAGAGCCG
*
16788231 AGCAGAAGCTCGTGAGAGCCG
1 AACAGAAGCTCGTGAGAGCCG
16788252 AACAGAAGCTCGTGAGAGCCG
1 AACAGAAGCTCGTGAGAGCCG
* **
16788273 AATAGAAGCTCGTGAGAGTTG
1 AACAGAAGCTCGTGAGAGCCG
16788294 AACAGAAGCT
1 AACAGAAGCT
16788304 TGTAAGAACT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.37, C:0.19, G:0.30, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTGAGAGCCG
Found at i:16790086 original size:46 final size:44
Alignment explanation
Indices: 16790027--16790141 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
16790017 ACAGGACAGA
* *
16790027 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
16790073 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
16790117 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
16790142 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:16790122 original size:44 final size:45
Alignment explanation
Indices: 16790027--16790160 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
16790017 ACAGGACAGA
* *
16790027 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
16790073 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
16790117 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
16790161 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:16794162 original size:47 final size:47
Alignment explanation
Indices: 16793963--16794165 Score: 307
Period size: 47 Copynumber: 4.3 Consensus size: 47
16793953 GTATGAGATA
* * *
16793963 TATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
16794010 CATATATGTGACAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
16794057 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
16794104 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
16794151 TATAAATGTGATAAG
1 TATATATGTGATAAG
16794166 TCCCGAAGGG
Statistics
Matches: 148, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 148 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:16794342 original size:37 final size:37
Alignment explanation
Indices: 16794283--16794365 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
16794273 CCAAGCTCTA
* *
16794283 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
16794320 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
16794357 AAGCCCCGA
1 AAGACCCGA
16794366 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Done.