Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 104 of 109
Found at i:21126610 original size:29 final size:30
Alignment explanation
Indices: 21126578--21126635 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
21126568 TTTATTTTAA
*
21126578 AAAAATAATAAAAAT-AAATAAAAATAAAG
1 AAAAACAATAAAAATAAAATAAAAATAAAG
*
21126607 AAAAACAATAAAAATAAAATAAAATTAAA
1 AAAAACAATAAAAATAAAATAAAAATAAA
21126636 AGTATTAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (30 bp):
AAAAACAATAAAAATAAAATAAAAATAAAG
Found at i:21127550 original size:17 final size:17
Alignment explanation
Indices: 21127512--21127566 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
21127502 AAAAAGAAAA
*
21127512 AATAAAA-ATAAA-AAT
1 AATAAAAGATAAATAGT
21127527 AATATAATAGATAAATAGT
1 AATA-AA-AGATAAATAGT
* *
21127546 AATAAAATATATATAGT
1 AATAAAAGATAAATAGT
21127563 AATA
1 AATA
21127567 TATGTTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.12
16 2 0.06
17 14 0.42
18 7 0.21
19 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AATAAAAGATAAATAGT
Found at i:21127604 original size:15 final size:15
Alignment explanation
Indices: 21127584--21127613 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21127574 ATAGATAAAT
*
21127584 AAATATATATGTATA
1 AAATATATATATATA
21127599 AAATATATATATATA
1 AAATATATATATATA
21127614 TAGTAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AAATATATATATATA
Found at i:21127621 original size:55 final size:56
Alignment explanation
Indices: 21127546--21127675 Score: 214
Period size: 55 Copynumber: 2.4 Consensus size: 56
21127536 GATAAATAGT
21127546 AATAAA-ATATATATAGTAATATATGTTAATAGATAAATAAATATATATGTATA-A
1 AATAAATATATATATAGTAATATATGTTAATAGATAAATAAATATATATGTATATA
* *
21127600 AATATATATATATATAGTAATATATGTTAATAGATAAATAAATATATATGTATATT
1 AATAAATATATATATAGTAATATATGTTAATAGATAAATAAATATATATGTATATA
21127656 AATAAATA-ATA-ATAGTAATA
1 AATAAATATATATATAGTAATA
21127676 ATAAATAATA
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
54 14 0.20
55 50 0.70
56 7 0.10
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (56 bp):
AATAAATATATATATAGTAATATATGTTAATAGATAAATAAATATATATGTATATA
Found at i:21127724 original size:18 final size:19
Alignment explanation
Indices: 21127678--21127725 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
21127668 TAGTAATAAT
21127678 AAATAATAAA-AATTTAGAA
1 AAATAA-AAATAATTTAGAA
*
21127697 AAAAATAAAATAATTTA-AA
1 AAATA-AAAATAATTTAGAA
21127716 AAATAAAAAT
1 AAATAAAAAT
21127726 GGGCCTACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AAATAAAAATAATTTAGAA
Found at i:21129905 original size:14 final size:14
Alignment explanation
Indices: 21129886--21129916 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
21129876 TTTAAAAAAC
21129886 TAATTCACATTACA
1 TAATTCACATTACA
21129900 TAATTCACATTACA
1 TAATTCACATTACA
21129914 TAA
1 TAA
21129917 CATGGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATTCACATTACA
Found at i:21131678 original size:135 final size:135
Alignment explanation
Indices: 21131484--21131754 Score: 418
Period size: 135 Copynumber: 2.0 Consensus size: 135
21131474 GCAGCCCTGG
* * * *
21131484 TGGTGTTGGACATTCTTTTGCAGAAGATCATGAAGATACTGAACAAAAATCTGGAAGCATTAGCC
1 TGGTGCTGGAAATTCTTTAGCAGAAGATCATGAAAATACTGAACAAAAATCTGGAAGCATTAGCC
* * *
21131549 CAAGCAATAATAAGCATTCTACTGCAGGAGCTAAGGAAGATTCCCGACCTACCAGCCCAGGACAC
66 CAAGCAATAATAAGCATTCTACTGCAGAAGCTAAAGAAGATTCCCGACCTACCAACCCAGGACAC
21131614 AGCCC
131 AGCCC
*
21131619 TGGTGCTGGAAATTCTTTAGCAGAAGATGATGAAAATACTGAACAAAAATCAT-GAAGCATTAGC
1 TGGTGCTGGAAATTCTTTAGCAGAAGATCATGAAAATACTGAACAAAAATC-TGGAAGCATTAGC
* * * *
21131683 CCAAGCAATGATAAGCATTCTATTGCAGAAGCTAAAGAAGATTTCCGACCTACCAACCCAGGACC
65 CCAAGCAATAATAAGCATTCTACTGCAGAAGCTAAAGAAGATTCCCGACCTACCAACCCAGGACA
21131748 CAGCCC
130 CAGCCC
21131754 T
1 T
21131755 AGAGCTGGTC
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
135 122 0.99
136 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (135 bp):
TGGTGCTGGAAATTCTTTAGCAGAAGATCATGAAAATACTGAACAAAAATCTGGAAGCATTAGCC
CAAGCAATAATAAGCATTCTACTGCAGAAGCTAAAGAAGATTCCCGACCTACCAACCCAGGACAC
AGCCC
Found at i:21138029 original size:2 final size:2
Alignment explanation
Indices: 21138024--21138058 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21138014 CCTTTTTTTC
*
21138024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21138059 CAGATTTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21140296 original size:20 final size:20
Alignment explanation
Indices: 21140271--21140310 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
21140261 TTTTACTGTC
21140271 GGAACATTGGACTCGACTGG
1 GGAACATTGGACTCGACTGG
*
21140291 GGAACATTGGACTGGACTGG
1 GGAACATTGGACTCGACTGG
21140311 ACAAGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.17, G:0.38, T:0.20
Consensus pattern (20 bp):
GGAACATTGGACTCGACTGG
Found at i:21143211 original size:2 final size:2
Alignment explanation
Indices: 21143198--21143233 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
21143188 TTAGGGATTT
*
21143198 TA TA TT TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21143234 CAAGTAATCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21143223 original size:15 final size:15
Alignment explanation
Indices: 21143205--21143233 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21143195 TTTTATATTT
21143205 ATATATATATATATA
1 ATATATATATATATA
21143220 ATATATATATATAT
1 ATATATATATATAT
21143234 CAAGTAATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:21144324 original size:31 final size:30
Alignment explanation
Indices: 21144283--21144343 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 30
21144273 ATGTTATTTA
*
21144283 AATTTATATCACTTTATTAATAAGATAAATT
1 AATTGATATCACTTTATTAATAA-ATAAATT
*
21144314 AATTGATATCATTTTATTAATAAATAAATT
1 AATTGATATCACTTTATTAATAAATAAATT
21144344 TAAAATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (30 bp):
AATTGATATCACTTTATTAATAAATAAATT
Found at i:21146788 original size:22 final size:20
Alignment explanation
Indices: 21146760--21146805 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
21146750 ACACATAAAT
21146760 AAAATACTAAATAAAAAAATAA
1 AAAATAC-AAA-AAAAAAATAA
* *
21146782 AAAATACCAAAGAAAAATAA
1 AAAATACAAAAAAAAAATAA
21146802 AAAA
1 AAAA
21146806 CGACTAGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (20 bp):
AAAATACAAAAAAAAAATAA
Found at i:21147076 original size:18 final size:18
Alignment explanation
Indices: 21147042--21147087 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
21147032 AAGTTTCAAC
21147042 CCTTCCCC-TCATATTTCT
1 CCTTCCCCTTC-TATTTCT
*
21147060 CCTTCCCCTTCTCTTTCT
1 CCTTCCCCTTCTATTTCT
21147078 --TTCCCCTTCT
1 CCTTCCCCTTCT
21147088 TTTTTCTCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 10 0.38
18 14 0.54
19 2 0.08
ACGTcount: A:0.04, C:0.48, G:0.00, T:0.48
Consensus pattern (18 bp):
CCTTCCCCTTCTATTTCT
Found at i:21147672 original size:5 final size:5
Alignment explanation
Indices: 21147662--21147730 Score: 59
Period size: 5 Copynumber: 12.6 Consensus size: 5
21147652 CCTATTATCT
*
21147662 TAAAA TAAAA TCAAAAA TCAAAAA TCAAA -AAAA TAAGAA TAAAAA TAAAAA
1 TAAAA TAAAA T--AAAA T--AAAA TAAAA TAAAA TAA-AA T-AAAA T-AAAA
21147713 TAAAA TAAAA TAAAA TAA
1 TAAAA TAAAA TAAAA TAA
21147731 CAAGTACTTA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
4 3 0.05
5 28 0.49
6 12 0.21
7 14 0.25
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (5 bp):
TAAAA
Found at i:21147684 original size:6 final size:7
Alignment explanation
Indices: 21147668--21147692 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21147658 ATCTTAAAAT
21147668 AAAATCA
1 AAAATCA
21147675 AAAATCA
1 AAAATCA
21147682 AAAATCA
1 AAAATCA
21147689 AAAA
1 AAAA
21147693 AATAAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATCA
Found at i:21147705 original size:28 final size:27
Alignment explanation
Indices: 21147662--21147730 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
21147652 CCTATTATCT
*
21147662 TAAAATAAAATCAAAAATCAAAAATCAAA
1 TAAAATAAAAT-AAAAAT-AAAAATAAAA
21147691 -AAAATAAGAATAAAAATAAAAATAAAA
1 TAAAATAA-AATAAAAATAAAAATAAAA
21147718 TAAAATAAAATAA
1 TAAAATAAAATAA
21147731 CAAGTACTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 14 0.38
28 20 0.54
29 3 0.08
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.17
Consensus pattern (27 bp):
TAAAATAAAATAAAAATAAAAATAAAA
Found at i:21147706 original size:15 final size:14
Alignment explanation
Indices: 21147663--21147730 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
21147653 CTATTATCTT
21147663 AAAATAAAATCAAAA
1 AAAATAAAAT-AAAA
** *
21147678 ATCA-AAAATCAAA
1 AAAATAAAATAAAA
21147691 AAAATAAGAAT-AAA
1 AAAATAA-AATAAAA
*
21147705 AATA-AAAATAAAA
1 AAAATAAAATAAAA
21147718 TAAAATAAAATAA
1 -AAAATAAAATAA
21147731 CAAGTACTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
12 3 0.07
13 10 0.24
14 16 0.39
15 12 0.29
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.16
Consensus pattern (14 bp):
AAAATAAAATAAAA
Found at i:21147707 original size:12 final size:11
Alignment explanation
Indices: 21147663--21147730 Score: 61
Period size: 12 Copynumber: 6.1 Consensus size: 11
21147653 CTATTATCTT
21147663 AAAATAAAATCA
1 AAAATAAAAT-A
21147675 AAAATCAAAA-A
1 AAAAT-AAAATA
*
21147686 TCAAA-AAAATA
1 -AAAATAAAATA
*
21147697 AGAATAAAAATA
1 AAAAT-AAAATA
21147709 AAAATAAAAT-
1 AAAATAAAATA
21147719 AAAATAAAATA
1 AAAATAAAATA
21147730 A
1 A
21147731 CAAGTACTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
10 16 0.35
11 8 0.17
12 18 0.39
13 4 0.09
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:21148383 original size:21 final size:21
Alignment explanation
Indices: 21148318--21148383 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
21148308 CACCTTTAAG
* *
21148318 AAATCTTAGAGTTTCACAT-CT
1 AAAT-TTAGAGATTCACATCCA
* * *
21148339 AAATTTA-AGGTTCTCACTCAA
1 AAATTTAGAGATTCACA-TCCA
21148360 AAATTTAGAGATTCACATCCA
1 AAATTTAGAGATTCACATCCA
21148381 AAA
1 AAA
21148384 ATTAAGTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 7 0.20
20 4 0.11
21 17 0.49
22 7 0.20
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (21 bp):
AAATTTAGAGATTCACATCCA
Found at i:21148741 original size:138 final size:138
Alignment explanation
Indices: 21148493--21149028 Score: 569
Period size: 138 Copynumber: 3.8 Consensus size: 138
21148483 GGTTTCACAT
* * **
21148493 CTCAAGGATTCTCATTTGAAAACCTCTTAAAGATTTTCATTTAAGACTCAAAGATGCTCATTTGA
1 CTCAAAGACTCTCATTTGAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATGCTCATTTGA
* * *
21148558 AAACGTCTTAAAGATTCTCATTTAAAACTAAAAGATTCTCATTTGAAAATGTCTTAAAAATT-TT
66 AAATGTCTTAAAGATTCTCATTTAAGACTAAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTT
21148622 CATTTAAGA
131 -ATTTAAGA
** * *
21148631 CTCAAAGA-TGCTGGTTTGAAAATGTCTTAAAGATTTTCATTTAAGACTTAAAGATGCTCATTTG
1 CTCAAAGACT-CTCATTTGAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATGCTCATTTG
* * * * *
21148695 AAAATGTATTAAAGATTTTCATTTAAGACTTAAAGATGCTCATTTGAAAATGTTTTAAAGATTCT
65 AAAATGTCTTAAAGATTCTCATTTAAGACTAAAAGATTCTCATTTGAAAATGTCTTAAAGATTCT
21148760 TATTTAAGA
130 TATTTAAGA
* * * **
21148769 CTCAAAGACTCTCAATTGAAAATATTTTAAATATTTTCATTTAAGACTCAAAGATTTTCATTTGA
1 CTCAAAGACTCTCATTTGAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATGCTCATTTGA
* * *
21148834 AAATGTCTTAAAGATTCTCATTTAAGACTCAAAGATTTTCATTT-AAAGACGTCTTAAAGATTCT
66 AAATGTCTTAAAGATTCTCATTTAAGACTAAAAGATTCTCATTTGAAA-ATGTCTTAAAGATTCT
*
21148898 TATTTAAAA
130 TATTTAAGA
* * * *
21148907 CTTAAA-AGTTTTCATTTGAGACTTAAATAT-TTACATTTGAATATTCTCATTTAAGACTCAAAG
1 CTCAAAGA-CTCTCATTT--GA---AAATATCTTA-A--AG-AT-TT-TCATTTAAGACTCAAAG
* * ** * * * *
21148970 ATTCTTATTTGAATTTATTTTAAAGATTTTCATTTAAGACTCAAAGATTCTCATTTGAA
54 ATGCTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGACTAAAAGATTCTCATTTGAA
21149029 GATTCATAAT
Statistics
Matches: 336, Mismatches: 45, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
137 5 0.01
138 245 0.73
139 3 0.01
140 2 0.01
142 3 0.01
143 7 0.02
146 2 0.01
147 2 0.01
148 65 0.19
149 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.40
Consensus pattern (138 bp):
CTCAAAGACTCTCATTTGAAAATATCTTAAAGATTTTCATTTAAGACTCAAAGATGCTCATTTGA
AAATGTCTTAAAGATTCTCATTTAAGACTAAAAGATTCTCATTTGAAAATGTCTTAAAGATTCTT
ATTTAAGA
Found at i:21148923 original size:46 final size:46
Alignment explanation
Indices: 21148493--21148904 Score: 533
Period size: 46 Copynumber: 9.0 Consensus size: 46
21148483 GGTTTCACAT
* **
21148493 CTCAAGGATTCTCATTTGAAAACCTCTTAAAGATTTTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
* * * *
21148539 CTCAAAGATGCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAAA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
* *
21148585 CTAAAAGATTCTCATTTGAAAATGTCTTAAAAATTTTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
* **
21148631 CTCAAAGATGCTGGTTTGAAAATGTCTTAAAGATTTTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
* * *
21148677 CTTAAAGATGCTCATTTGAAAATGTATTAAAGATTTTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
* * *
21148723 CTTAAAGATGCTCATTTGAAAATGTTTTAAAGATTCTT-ATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATT-TTCATTTAAGA
* * * * *
21148769 CTCAAAGACTCTCAATTGAAAATATTTTAAATATTTTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
* *
21148815 CTCAAAGATTTTCATTTGAAAATGTCTTAAAGATTCTCATTTAAGA
1 CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
* *
21148861 CTCAAAGATTTTCATTT-AAAGACGTCTTAAAGATTCTT-ATTTAA
1 CTCAAAGATTCTCATTTGAAA-ATGTCTTAAAGATT-TTCATTTAA
21148905 AACTTAAAAG
Statistics
Matches: 326, Mismatches: 36, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
45 5 0.02
46 318 0.98
47 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (46 bp):
CTCAAAGATTCTCATTTGAAAATGTCTTAAAGATTTTCATTTAAGA
Found at i:21148945 original size:21 final size:21
Alignment explanation
Indices: 21148906--21148946 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21148896 CTTATTTAAA
*
21148906 ACTTAAAAGTTTTCATTTGAG
1 ACTTAAAAGTTTACATTTGAG
21148927 ACTTAAATA-TTTACATTTGA
1 ACTTAAA-AGTTTACATTTGA
21148947 ATATTCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
ACTTAAAAGTTTACATTTGAG
Found at i:21148974 original size:21 final size:22
Alignment explanation
Indices: 21148949--21149030 Score: 78
Period size: 21 Copynumber: 3.7 Consensus size: 22
21148939 ACATTTGAAT
21148949 ATTCTCATTT-AAGACTCAAAG
1 ATTCTCATTTGAAGACTCAAAG
* * * *
21148970 ATTCTTATTTGAATTTATTTTAAAG
1 ATTCTCATTTGAA--GA-CTCAAAG
*
21148995 ATTTTCATTT-AAGACTCAAAG
1 ATTCTCATTTGAAGACTCAAAG
21149016 ATTCTCATTTGAAGA
1 ATTCTCATTTGAAGA
21149031 TTCATAATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
21 23 0.50
22 7 0.15
24 3 0.07
25 13 0.28
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (22 bp):
ATTCTCATTTGAAGACTCAAAG
Found at i:21150487 original size:10 final size:10
Alignment explanation
Indices: 21150474--21150503 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21150464 CTCTTTTTTA
21150474 TTTTTT-ATT
1 TTTTTTCATT
21150483 TTTTTTCATT
1 TTTTTTCATT
21150493 TTTTTTCATT
1 TTTTTTCATT
21150503 T
1 T
21150504 CATTAGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCATT
Found at i:21150891 original size:16 final size:18
Alignment explanation
Indices: 21150852--21150892 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
21150842 GTGTGGCATT
*
21150852 TATTTTTTTTTCTCTTAC
1 TATTTTTTTTACTCTTAC
*
21150870 TTTTTTTTTTACT-TTA-
1 TATTTTTTTTACTCTTAC
21150886 TATTTTT
1 TATTTTT
21150893 GAGATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.30
17 3 0.15
18 11 0.55
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTTTTTTTACTCTTAC
Found at i:21150891 original size:17 final size:18
Alignment explanation
Indices: 21150852--21150892 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
21150842 GTGTGGCATT
21150852 TATTTTTTTTTCTCTTAC
1 TATTTTTTTTTCTCTTAC
21150870 T-TTTTTTTTTACT-TTA-
1 TATTTTTTTTT-CTCTTAC
21150886 TATTTTT
1 TATTTTT
21150893 GAGATCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.05
17 17 0.81
18 3 0.14
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTTTTTTTTCTCTTAC
Found at i:21154789 original size:188 final size:188
Alignment explanation
Indices: 21154443--21154796 Score: 425
Period size: 188 Copynumber: 1.9 Consensus size: 188
21154433 ATAATATGAC
* *
21154443 AATTATTTTTATTGAAATTTTATTTAAATTATTCAACAATTTTGGACAAATTTAAAGAAAATTTC
1 AATTATTGTTATTGAAATTTTATTTAAATTATTCAACAATTTTGGACAAATTTAAACAAAATTTC
* *
21154508 TCACTTAGAGATTTCTTAAAAATTTACCATTTGAAATTTCTAAGAATCTCATCATTGGATAATTA
66 TCACTAAGAGATTTCTTAAAAATTTAACATTTGAAATTTCTAAGAATCTCATCATTGGATAATTA
* * ** *
21154573 TCAAATATTTTTAACTTAAATTTTTATTTTTTTATTTTATTGTTTGAAAATAAATATT
131 TCAAATATTCTCAAAATAAATTTTTATTTATTTATTTTATTGTTTGAAAATAAATATT
* *
21154631 AATTATTGTTATTGAAATTTTATTTAAATTATTCCATC-A-TTTGAGACAAATTTAGACAAAATT
1 AATTATTGTTATTGAAATTTTATTTAAATTATT-CAACAATTTTG-GACAAATTTAAACAAAATT
* * * *
21154694 TCTCATCTAAGA-ATTT-TATAGAAATTTAACATTTG-AATTTCTATA-AATTTCGTTATTGGAT
64 TCTCA-CTAAGAGATTTCT-TAAAAATTTAACATTTGAAATTTCTA-AGAATCTCATCATTGGAT
** **
21154755 AATTAAT-ATTTATTCTCAAAATATTTTATTTATTTATTTATT
126 AATT-ATCAAATATTCTCAAAATAAATT-TTTATTTATTTATT
21154797 CATCTTTTTC
Statistics
Matches: 140, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
187 42 0.30
188 90 0.64
189 8 0.06
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.48
Consensus pattern (188 bp):
AATTATTGTTATTGAAATTTTATTTAAATTATTCAACAATTTTGGACAAATTTAAACAAAATTTC
TCACTAAGAGATTTCTTAAAAATTTAACATTTGAAATTTCTAAGAATCTCATCATTGGATAATTA
TCAAATATTCTCAAAATAAATTTTTATTTATTTATTTTATTGTTTGAAAATAAATATT
Found at i:21155690 original size:5 final size:5
Alignment explanation
Indices: 21155682--21155724 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
21155672 TTATATTATC
*
21155682 ATAAA ATAAA AT-AA ATAATC A-AAA ATAAA ATAAA ATAAA ATAA
1 ATAAA ATAAA ATAAA ATAA-A ATAAA ATAAA ATAAA ATAAA ATAA
21155725 CAAGCATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 5 0.15
5 27 0.82
6 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:21155719 original size:20 final size:20
Alignment explanation
Indices: 21155679--21155715 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
21155669 ATGTTATATT
21155679 ATCATAAAATAAAATAAATA
1 ATCATAAAATAAAATAAATA
21155699 ATCA-AAAATAAAATAAA
1 ATCATAAAATAAAATAAA
21155716 ATAAAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (20 bp):
ATCATAAAATAAAATAAATA
Found at i:21160828 original size:44 final size:42
Alignment explanation
Indices: 21160725--21160830 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 42
21160715 TCCTCTTTCT
* *
21160725 TTTTCCCACTTACCAAACATAATGTAAGCCCTTTCCTTCCTC
1 TTTTCCCTCCTACCAAACATAATGTAAGCCCTTTCCTTCCTC
* * *
21160767 TTTT-CTTCGTA-CAAACATAATGTCAA-CCCTTTTCTTCCTCC
1 TTTTCCCTCCTACCAAACATAATGT-AAGCCCTTTCCTTCCT-C
21160808 TGTTTCCCTCCTACCAAACATAA
1 T-TTTCCCTCCTACCAAACATAA
21160831 AAGACCATAC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
40 24 0.45
41 8 0.15
42 7 0.13
43 5 0.09
44 9 0.17
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.37
Consensus pattern (42 bp):
TTTTCCCTCCTACCAAACATAATGTAAGCCCTTTCCTTCCTC
Found at i:21162238 original size:72 final size:72
Alignment explanation
Indices: 21162121--21162260 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
21162111 ATCTCGAGCT
* * * * *
21162121 TTTAATTGCAGTTATGGTCTAGGTCTTGTTGACTGATTTCTGTAGCCTGAAGGGGTTCCATTTTT
1 TTTAATTGCAGTTAGGGTCTAGGTCTCGTTAACTCATTTCTGTAGCCTAAAGGGGTTCCATTTTT
21162186 TTTACCC
66 TTTACCC
*
21162193 TTTAATTGCAGTTAGGGTCTAGGTCTCGTTAACTCATTTCTGTAGCCTAAAGGGGTTCCTTTTTT
1 TTTAATTGCAGTTAGGGTCTAGGTCTCGTTAACTCATTTCTGTAGCCTAAAGGGGTTCCATTTTT
21162258 TTT
66 TTT
21162261 TCATATATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.45
Consensus pattern (72 bp):
TTTAATTGCAGTTAGGGTCTAGGTCTCGTTAACTCATTTCTGTAGCCTAAAGGGGTTCCATTTTT
TTTACCC
Found at i:21162268 original size:2 final size:2
Alignment explanation
Indices: 21162263--21162293 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21162253 TTTTTTTTTC
21162263 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21162294 CATTGGACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21165106 original size:56 final size:56
Alignment explanation
Indices: 21165037--21165147 Score: 204
Period size: 56 Copynumber: 2.0 Consensus size: 56
21165027 TTTTTTTACA
21165037 GTCAGTATATATGAGTCAGCATGTTAGTTATTTTGTTGAAAACTTGACAGCTGGTT
1 GTCAGTATATATGAGTCAGCATGTTAGTTATTTTGTTGAAAACTTGACAGCTGGTT
* *
21165093 GTCAGTATATATGAGTCAGCATGTTGGTTATTTTGTTGAAAATTTGACAGCTGGT
1 GTCAGTATATATGAGTCAGCATGTTAGTTATTTTGTTGAAAACTTGACAGCTGGT
21165148 GTAACAATGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (56 bp):
GTCAGTATATATGAGTCAGCATGTTAGTTATTTTGTTGAAAACTTGACAGCTGGTT
Found at i:21167813 original size:252 final size:252
Alignment explanation
Indices: 21167368--21168125 Score: 1489
Period size: 252 Copynumber: 3.0 Consensus size: 252
21167358 GGCTGGAATT
21167368 ATAAGAGATAGCAACAGTTCATTCGCATCTCCAGTGGTTCTAGTGAAAAAGAAAGATGGCTCGTG
1 ATAAGAGATAGCAACAGTTCATTCGCATCTCCAGTGGTTCTAGTGAAAAAGAAAGATGGCTCGTG
21167433 GAGGCTTTGTGTGACTACAGGCAGTTGAACAATATCACACTTAAAGATAAGTTTCCCATTCCTTT
66 GAGGCTTTGTGTGACTACAGGCAGTTGAACAATATCACACTTAAAGATAAGTTTCCCATTCCTTT
21167498 AATAGAAGAGTTGTTAGATGAATTATCTGCTGCTTGCTGGTTCTCTAAGCTGGATCTCAGATCTG
131 AATAGAAGAGTTGTTAGATGAATTATCTGCTGCTTGCTGGTTCTCTAAGCTGGATCTCAGATCTG
21167563 GTTATCACCAGATTCGAATGGATCCTGCAGATATTCATAAAACAGCTTTCAGGACTC
196 GTTATCACCAGATTCGAATGGATCCTGCAGATATTCATAAAACAGCTTTCAGGACTC
21167620 ATAAGAGATAGCAACAGTTCATTCGCATCTCCAGTGGTTCTAGTGAAAAAGAAAGATGGCTCGTG
1 ATAAGAGATAGCAACAGTTCATTCGCATCTCCAGTGGTTCTAGTGAAAAAGAAAGATGGCTCGTG
21167685 GAGGCTTTGTGTGACTACAGGCAGTTGAACAATATCACACTTAAAGATAAGTTTCCCATTCCTTT
66 GAGGCTTTGTGTGACTACAGGCAGTTGAACAATATCACACTTAAAGATAAGTTTCCCATTCCTTT
21167750 AATAGAAGAGTTGTTAGATGAATTATCTGCTGCTTGCTGGTTCTCTAAGCTGGATCTCAGATCTG
131 AATAGAAGAGTTGTTAGATGAATTATCTGCTGCTTGCTGGTTCTCTAAGCTGGATCTCAGATCTG
21167815 GTTATCACCAGATTCGAATGGATCCTGCAGATATTCATAAAACAGCTTTCAGGACTC
196 GTTATCACCAGATTCGAATGGATCCTGCAGATATTCATAAAACAGCTTTCAGGACTC
*
21167872 ATAAGAGATAGCAACAGTTCATTCGCATCTCCAGTGGTTCTAGTGAAAAAGAAAGATGGCTCATG
1 ATAAGAGATAGCAACAGTTCATTCGCATCTCCAGTGGTTCTAGTGAAAAAGAAAGATGGCTCGTG
*
21167937 GAGGCTTTGTGTGGACTACAGGCAGTTGAACAAGATCACACTTAAAGATAAGTTTCCCATTCCTT
66 GAGGCTTTGTGT-GACTACAGGCAGTTGAACAATATCACACTTAAAGATAAGTTTCCCATTCCTT
21168002 TAATAGAAGAGTTGTTAGATGAATTATCTGCTGCTTGCTGGTTCTCTAAGCTGGATCTCAGATCT
130 TAATAGAAGAGTTGTTAGATGAATTATCTGCTGCTTGCTGGTTCTCTAAGCTGGATCTCAGATCT
21168067 GGTTATCACCAGATTCGAATGGATCCTGCAGATATTCATAAAACAGCTTTCAGGACTC
195 GGTTATCACCAGATTCGAATGGATCCTGCAGATATTCATAAAACAGCTTTCAGGACTC
21168125 A
1 A
21168126 CCAAGGGCAC
Statistics
Matches: 503, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
252 328 0.65
253 175 0.35
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (252 bp):
ATAAGAGATAGCAACAGTTCATTCGCATCTCCAGTGGTTCTAGTGAAAAAGAAAGATGGCTCGTG
GAGGCTTTGTGTGACTACAGGCAGTTGAACAATATCACACTTAAAGATAAGTTTCCCATTCCTTT
AATAGAAGAGTTGTTAGATGAATTATCTGCTGCTTGCTGGTTCTCTAAGCTGGATCTCAGATCTG
GTTATCACCAGATTCGAATGGATCCTGCAGATATTCATAAAACAGCTTTCAGGACTC
Found at i:21171498 original size:22 final size:22
Alignment explanation
Indices: 21171473--21171529 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
21171463 AAGAAGCTCT
*
21171473 TTCTTTTGTTCTCTCCTTTAGC
1 TTCTTTTGTTCTCTCCTTTAAC
*
21171495 TTCTTTTGCTCTCTCCTTTAAC
1 TTCTTTTGTTCTCTCCTTTAAC
*
21171517 TTATTTTGATTCT
1 TTCTTTTG-TTCT
21171530 AGGGTTTGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.09, C:0.25, G:0.07, T:0.60
Consensus pattern (22 bp):
TTCTTTTGTTCTCTCCTTTAAC
Found at i:21174460 original size:16 final size:16
Alignment explanation
Indices: 21174439--21174470 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21174429 AAAAAATAAG
21174439 ATTGGATTATTTTTTT
1 ATTGGATTATTTTTTT
21174455 ATTGGATTATTTTTTT
1 ATTGGATTATTTTTTT
21174471 TTAATGAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (16 bp):
ATTGGATTATTTTTTT
Found at i:21184772 original size:12 final size:12
Alignment explanation
Indices: 21184757--21184781 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21184747 TGTTATTGAA
21184757 AAAAAAATTTAT
1 AAAAAAATTTAT
21184769 AAAAAAATTTAT
1 AAAAAAATTTAT
21184781 A
1 A
21184782 CTAAATAGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAAAATTTAT
Found at i:21193117 original size:24 final size:24
Alignment explanation
Indices: 21193090--21193139 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
21193080 AGATAAATGG
*
21193090 TTTATATTTGTTAAAAACAAACAA
1 TTTATATCTGTTAAAAACAAACAA
* * *
21193114 TTTATATCTGTTTAAAATAAATAA
1 TTTATATCTGTTAAAAACAAACAA
21193138 TT
1 TT
21193140 AAATCTATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (24 bp):
TTTATATCTGTTAAAAACAAACAA
Found at i:21193792 original size:12 final size:12
Alignment explanation
Indices: 21193777--21193811 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21193767 ATTATATAAA
*
21193777 AATTTATTTTTT
1 AATTTATTATTT
21193789 AATTTATTATTT
1 AATTTATTATTT
*
21193801 AATTTTTTATT
1 AATTTATTATT
21193812 ATATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
AATTTATTATTT
Found at i:21193872 original size:22 final size:22
Alignment explanation
Indices: 21193843--21193916 Score: 134
Period size: 22 Copynumber: 3.5 Consensus size: 22
21193833 GATATTTTTA
21193843 AATA-TTTATATTTAAAAAAAT
1 AATATTTTATATTTAAAAAAAT
21193864 AATATTTTATATTT-AAAAAAT
1 AATATTTTATATTTAAAAAAAT
21193885 AATATTTTATATTTAAAAAAAT
1 AATATTTTATATTTAAAAAAAT
21193907 AATATTTTAT
1 AATATTTTAT
21193917 TAATTTCGGG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
21 25 0.49
22 26 0.51
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTTTATATTTAAAAAAAT
Found at i:21195389 original size:32 final size:30
Alignment explanation
Indices: 21195334--21195417 Score: 91
Period size: 32 Copynumber: 2.7 Consensus size: 30
21195324 AGTTTAAAAA
* *
21195334 ATTAAAATTTTAAAAATTATTTAAATGTAAAT
1 ATTAATATTTTAAATATT-TTTAAAT-TAAAT
21195366 ATTAATATTTTAAATATATTTTAAAATTAAAT
1 ATTAATATTTTAAATAT-TTTT-AAATTAAAT
*
21195398 -TTAAT-TTTAAAATATTTTTA
1 ATTAATATTTTAAATATTTTTA
21195418 TTAAAAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.02
29 4 0.09
30 9 0.19
31 5 0.11
32 23 0.49
33 5 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTAATATTTTAAATATTTTTAAATTAAAT
Found at i:21195395 original size:17 final size:18
Alignment explanation
Indices: 21195375--21195410 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21195365 TATTAATATT
21195375 TTAAATAT-ATTTTAAAA
1 TTAAATATAATTTTAAAA
*
21195392 TTAAATTTAATTTTAAAA
1 TTAAATATAATTTTAAAA
21195410 T
1 T
21195411 ATTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATATAATTTTAAAA
Found at i:21196891 original size:20 final size:21
Alignment explanation
Indices: 21196868--21196914 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
21196858 ATTTAATTTT
*
21196868 ATATTTATATTTTAAAA-ATA
1 ATATTTATATATTAAAATATA
21196888 ATATTT-TATATTAAAATATA
1 ATATTTATATATTAAAATATA
21196908 ATATTTA
1 ATATTTA
21196915 ATTAATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTATATATTAAAATATA
Found at i:21207758 original size:29 final size:28
Alignment explanation
Indices: 21207716--21207786 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
21207706 AAGAAAGAAA
* *
21207716 AATATATAATTTAACAAATTATTTAATAT
1 AATATATAAATTAAAAAATT-TTTAATAT
*
21207745 AATATTTAAATTAAAAAATTTTTAATAT
1 AATATATAAATTAAAAAATTTTTAATAT
* *
21207773 AATTTATTAATTAA
1 AATATATAAATTAA
21207787 TATGATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 19 0.53
29 17 0.47
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (28 bp):
AATATATAAATTAAAAAATTTTTAATAT
Found at i:21207786 original size:28 final size:29
Alignment explanation
Indices: 21207716--21207775 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
21207706 AAGAAAGAAA
* * *
21207716 AATATATAATTTAACAAATTATTTAATAT
1 AATATTTAAATTAAAAAATTATTTAATAT
21207745 AATATTTAAATTAAAAAATT-TTTAATAT
1 AATATTTAAATTAAAAAATTATTTAATAT
21207773 AAT
1 AAT
21207776 TTATTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATTTAAATTAAAAAATTATTTAATAT
Found at i:21213354 original size:3 final size:3
Alignment explanation
Indices: 21213348--21213384 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
21213338 GTGTTCATGC
21213348 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21213385 GTTTATGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21217946 original size:16 final size:16
Alignment explanation
Indices: 21217925--21217963 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
21217915 TTGTTAAAAT
*
21217925 TTTATATGATATCATC
1 TTTATATCATATCATC
*
21217941 TTTATATCATATCATT
1 TTTATATCATATCATC
21217957 TTTATAT
1 TTTATAT
21217964 TGTGTTATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTATATCATATCATC
Found at i:21222293 original size:11 final size:10
Alignment explanation
Indices: 21222273--21222317 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
21222263 TCAAGTATGC
21222273 AAAATTTAAT
1 AAAATTTAAT
21222283 AAAATTTTAAT
1 AAAA-TTTAAT
21222294 AAAATTTAAT
1 AAAATTTAAT
*
21222304 ATATATTTAA-
1 A-AAATTTAAT
21222314 AAAA
1 AAAA
21222318 AAACTTTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 2 0.06
10 12 0.39
11 17 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTTAAT
Found at i:21222312 original size:21 final size:21
Alignment explanation
Indices: 21222273--21222319 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21222263 TCAAGTATGC
*
21222273 AAAATTTAATAAAATTTTAAT
1 AAAATTTAATAAAATTTTAAA
* *
21222294 AAAATTTAATATATATTTAAAA
1 AAAATTTAATA-AAATTTTAAA
21222316 AAAA
1 AAAA
21222320 ACTTTAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATTTAATAAAATTTTAAA
Found at i:21224243 original size:24 final size:23
Alignment explanation
Indices: 21224184--21224245 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
21224174 CAACAAGGAC
**
21224184 AACCACAGCAACAGGCACAGCAA
1 AACCACAGCAACAAACACAGCAA
* * *
21224207 AATCAAAATCAACAAACACAGCAA
1 AA-CCACAGCAACAAACACAGCAA
21224231 AACCAGCAGCAACAA
1 AACCA-CAGCAACAA
21224246 CAAAGGTCAG
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.55, C:0.31, G:0.11, T:0.03
Consensus pattern (23 bp):
AACCACAGCAACAAACACAGCAA
Found at i:21225293 original size:2 final size:2
Alignment explanation
Indices: 21225286--21225312 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21225276 TCTGTAACGC
21225286 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21225313 ACCATTAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21240054 original size:22 final size:22
Alignment explanation
Indices: 21240024--21240065 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21240014 TGTATTCCGC
*
21240024 AATTCTATGATTTTATGTGTGT
1 AATTCTATGAATTTATGTGTGT
*
21240046 AATTTTATGAATTTATGTGT
1 AATTCTATGAATTTATGTGT
21240066 ATTTTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.55
Consensus pattern (22 bp):
AATTCTATGAATTTATGTGTGT
Found at i:21240852 original size:16 final size:16
Alignment explanation
Indices: 21240833--21240864 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21240823 TTATATAATA
*
21240833 TTTATTTTTTATTATT
1 TTTATATTTTATTATT
21240849 TTTATATTTTATTATT
1 TTTATATTTTATTATT
21240865 ATATCATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATATTTTATTATT
Found at i:21254097 original size:15 final size:16
Alignment explanation
Indices: 21254067--21254099 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21254057 GATTGAAACC
*
21254067 TGAAACTAAAATTTTT
1 TGAAACTAAAAGTTTT
21254083 TGAAAC-AAAAGTTTT
1 TGAAACTAAAAGTTTT
21254098 TG
1 TG
21254100 GGGGCCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (16 bp):
TGAAACTAAAAGTTTT
Found at i:21267166 original size:6 final size:6
Alignment explanation
Indices: 21267114--21267164 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
21267104 TGATGTGATA
* * * *
21267114 CACTCC CAATCC CACTCC CACTCC CACTAC CACTCC CACTGC CACACC
1 CACTCC CACTCC CACTCC CACTCC CACTCC CACTCC CACTCC CACTCC
21267162 CAC
1 CAC
21267165 ACATTCTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.24, C:0.61, G:0.02, T:0.14
Consensus pattern (6 bp):
CACTCC
Found at i:21271341 original size:21 final size:21
Alignment explanation
Indices: 21271315--21271357 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21271305 TTCTTGTTAA
21271315 TCAAGCAGTCTGCATGTGCTT
1 TCAAGCAGTCTGCATGTGCTT
21271336 TCAAGCAGTCTGCATGTGCTT
1 TCAAGCAGTCTGCATGTGCTT
21271357 T
1 T
21271358 TGTTGGTTAA
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:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (21 bp):
TCAAGCAGTCTGCATGTGCTT
Found at i:21275099 original size:2 final size:2
Alignment explanation
Indices: 21275092--21275122 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21275082 GTAAGGCGCC
21275092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21275123 GAGGCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21275675 original size:22 final size:22
Alignment explanation
Indices: 21275628--21275676 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
21275618 TTATATTTAT
* *
21275628 ATTACATAATAATAAATAGATA
1 ATTAAATAATAATAAATACATA
*
21275650 ATTAAATAAT-ATATATACATA
1 ATTAAATAATAATAAATACATA
21275671 CATTAA
1 -ATTAA
21275677 TATCCTATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (22 bp):
ATTAAATAATAATAAATACATA
Found at i:21277106 original size:2 final size:2
Alignment explanation
Indices: 21277099--21277129 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21277089 GAGGCAAGTT
21277099 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21277130 TTTAACAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21281851 original size:13 final size:13
Alignment explanation
Indices: 21281833--21281857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21281823 CGATCATATT
21281833 ATTTTAAAATAAA
1 ATTTTAAAATAAA
21281846 ATTTTAAAATAA
1 ATTTTAAAATAA
21281858 TATAAATCTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTTTAAAATAAA
Found at i:21314904 original size:19 final size:18
Alignment explanation
Indices: 21314876--21314911 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21314866 TTGATATATT
*
21314876 ATTTTTTATTATTTATTTA
1 ATTTTATATT-TTTATTTA
21314895 ATTTTATATTTTTATTT
1 ATTTTATATTTTTATTT
21314912 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTATATTTTTATTTA
Found at i:21314935 original size:18 final size:19
Alignment explanation
Indices: 21314912--21314948 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
21314902 ATTTTTATTT
21314912 TTAAAA-TAATATTTTATA
1 TTAAAAGTAATATTTTATA
21314930 TTAAAAGTTAATATTTTAT
1 TTAAAAG-TAATATTTTAT
21314949 TTATTTCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TTAAAAGTAATATTTTATA
Found at i:21316377 original size:33 final size:34
Alignment explanation
Indices: 21316305--21316378 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 34
21316295 TTTTTATATA
* * * *
21316305 AAATATAACATAAATATATTAATTATTAATATTT
1 AAATATAACACAAATATATAAATGATCAATATTT
* *
21316339 -TATATAATACAAATATATAAATGATCAA-ATTT
1 AAATATAACACAAATATATAAATGATCAATATTT
21316371 AAATATAA
1 AAATATAA
21316379 AAATTAGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (34 bp):
AAATATAACACAAATATATAAATGATCAATATTT
Found at i:21324513 original size:2 final size:2
Alignment explanation
Indices: 21324506--21324537 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21324496 TAAACAAGTA
21324506 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21324538 CAACTTCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21337848 original size:22 final size:21
Alignment explanation
Indices: 21337808--21337857 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
21337798 TTTTATTATT
* *
21337808 ATTTTAATTTTATCAAAATTA
1 ATTTTAAATTTATCAAAATAA
*
21337829 ATTTTATAATTTATCCAAATAA
1 ATTTTA-AATTTATCAAAATAA
21337851 ATTTTAA
1 ATTTTAA
21337858 GAGTATCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAAATTTATCAAAATAA
Found at i:21339158 original size:22 final size:22
Alignment explanation
Indices: 21339133--21339188 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
21339123 TAAAATAATC
* *
21339133 AAAT-TAATCAAAATTTTAATTA
1 AAATATAA-CAAAATTTAAATAA
21339155 AAATATAACAAAATTTAAATAA
1 AAATATAACAAAATTTAAATAA
21339177 AAA-ATAA-AAAAT
1 AAATATAACAAAAT
21339189 ATATGAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.16
21 4 0.13
22 19 0.61
23 3 0.10
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATATAACAAAATTTAAATAA
Found at i:21339171 original size:21 final size:21
Alignment explanation
Indices: 21339133--21339188 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
21339123 TAAAATAATC
*
21339133 AAAT-TAATCAAAATTTTAATTA
1 AAATATAA-CAAAA-TTTAAATA
21339155 AAATATAACAAAATTTAAATA
1 AAATATAACAAAATTTAAATA
*
21339176 AAAAATAA-AAAAT
1 AAATATAACAAAAT
21339189 ATATGAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 5 0.16
21 14 0.45
22 9 0.29
23 3 0.10
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATATAACAAAATTTAAATA
Found at i:21339441 original size:6 final size:7
Alignment explanation
Indices: 21339424--21339448 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21339414 ACTTCAATTA
21339424 AAAAAAT
1 AAAAAAT
21339431 AAAAAAT
1 AAAAAAT
21339438 AAAAAAT
1 AAAAAAT
21339445 AAAA
1 AAAA
21339449 TAATTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:21341927 original size:25 final size:25
Alignment explanation
Indices: 21341898--21341967 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 25
21341888 TTAATAAAAC
21341898 TATTAAAATATTAAAATTTATTTAT
1 TATTAAAATATTAAAATTTATTTAT
*
21341923 TATTAAAATATATTGAAA-TTATTTAT
1 TATT-AAA-ATATTAAAATTTATTTAT
21341949 TATTAAAATTATTAAAATT
1 TATTAAAA-TATTAAAATT
21341968 AAAAAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 1 0.03
25 14 0.36
26 16 0.41
27 8 0.21
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
TATTAAAATATTAAAATTTATTTAT
Found at i:21341968 original size:25 final size:25
Alignment explanation
Indices: 21341898--21341968 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 25
21341888 TTAATAAAAC
21341898 TATTAAAA-TATTAAAATTTATTTAT
1 TATTAAAATTATTAAAA-TTATTTAT
*
21341923 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAAT-TATTAAAATTATTTAT
21341949 TATTAAAATTATTAAAATTA
1 TATTAAAATTATTAAAATTA
21341969 AAAAATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.43
26 17 0.40
27 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
TATTAAAATTATTAAAATTATTTAT
Found at i:21342007 original size:18 final size:18
Alignment explanation
Indices: 21341942--21342032 Score: 61
Period size: 18 Copynumber: 5.4 Consensus size: 18
21341932 ATATTGAAAT
*
21341942 TATTTATTATTAAAAT--
1 TATTTAATATTAAAATAA
*
21341958 TA-TTAAAATTAAAA-AA
1 TATTTAATATTAAAATAA
* **
21341974 TAATT-ATATTTTAATAA
1 TATTTAATATTAAAATAA
*
21341991 TATTTAATATTAAAATAT
1 TATTTAATATTAAAATAA
21342009 TATGTTAATA-TAAAA-AA
1 TAT-TTAATATTAAAATAA
*
21342026 TACTTAA
1 TATTTAA
21342033 AATATAACTA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
15 10 0.17
16 14 0.24
17 11 0.19
18 17 0.29
19 6 0.10
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
TATTTAATATTAAAATAA
Found at i:21342118 original size:18 final size:19
Alignment explanation
Indices: 21342055--21342314 Score: 117
Period size: 18 Copynumber: 13.1 Consensus size: 19
21342045 TATTGCTCTT
21342055 TATATTATTTATTAATATA
1 TATATTATTTATTAATATA
21342074 TTATATTATTTATTAATA-A
1 -TATATTATTTATTAATATA
* *
21342093 TATCTTATTTATTCATATA
1 TATATTATTTATTAATATA
*
21342112 T-TATTATAATTAAATTAATTAAA
1 TATATTAT--TT--ATTAA-TATA
*
21342135 TTAATAATATTTATT-ATAT-
1 -T-ATATTATTTATTAATATA
21342154 TAATATTATATTA-TAATAT-
1 T-ATATTAT-TTATTAATATA
*
21342173 GAT-TTATTTATTAATATA
1 TATATTATTTATTAATATA
* * *
21342191 -ATAGTATTTACTGATGTATTA
1 TATATTATTTA-TTA-ATA-TA
21342212 TAATATTATTTATTAATATA
1 T-ATATTATTTATTAATATA
* * *
21342232 TTGTAATATAATATTAATAATA
1 -TATATTAT-TTATTAAT-ATA
*
21342254 TTAATAGTATATTATATTAAAATA
1 -T-ATA-T-TATT-TATTAATATA
*
21342278 -ATATTGTTTATTAATATA
1 TATATTATTTATTAATATA
* *
21342296 -ACATTATTTATTAGTATA
1 TATATTATTTATTAATATA
21342314 T
1 T
21342315 TATAATATAA
Statistics
Matches: 186, Mismatches: 27, Indels: 55
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.02
17 12 0.06
18 61 0.33
19 15 0.08
20 31 0.17
21 16 0.09
22 14 0.08
23 14 0.08
24 6 0.03
25 9 0.05
26 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TATATTATTTATTAATATA
Found at i:21342149 original size:4 final size:5
Alignment explanation
Indices: 21342113--21342272 Score: 52
Period size: 5 Copynumber: 32.0 Consensus size: 5
21342103 ATTCATATAT
* * *
21342113 TATTA TAATTA AATTA -ATTA AATTA -ATAA TATT- TATTA TATTAA TATTA
1 TATTA T-ATTA TATTA TATTA TATTA TATTA TATTA TATTA TATT-A TATTA
* * *
21342162 TATTA TAATA TGATT- TATT- TATTAA TATAA TAGTA T-TTA CTGATGTA
1 TATTA TATTA T-ATTA TATTA TATT-A TATTA TATTA TATTA -T-AT-TA
* * * * *
21342209 TTATAA TATTA T-TTA TTAATA TATTG TA--A TATAA TATTA -ATAA TATTAA
1 -TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATT-A
*
21342258 TAGTA TATTA TATTA
1 TATTA TATTA TATTA
21342273 AAATAATATT
Statistics
Matches: 116, Mismatches: 21, Indels: 36
0.67 0.12 0.21
Matches are distributed among these distances:
3 2 0.02
4 26 0.22
5 61 0.53
6 21 0.18
7 3 0.03
8 3 0.03
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (5 bp):
TATTA
Found at i:21358103 original size:12 final size:12
Alignment explanation
Indices: 21358086--21358110 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21358076 AGAAAAAATG
21358086 GAAGATGAGTTT
1 GAAGATGAGTTT
21358098 GAAGATGAGTTT
1 GAAGATGAGTTT
21358110 G
1 G
21358111 TATCCGTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (12 bp):
GAAGATGAGTTT
Found at i:21363020 original size:22 final size:22
Alignment explanation
Indices: 21362994--21363035 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21362984 TGCATATTTA
* *
21362994 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
21363016 TATTTGTATCCCTAAAATTA
1 TATTTGTATCCCTAAAATTA
21363036 GGATAGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:21375632 original size:24 final size:22
Alignment explanation
Indices: 21375604--21375658 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 22
21375594 ATATAATAAT
*
21375604 ATAAATATAATATTATTTTATGTA
1 ATAAATATAATAATA-TTTAT-TA
21375628 ATAAATATAATAATATTTATTA
1 ATAAATATAATAATATTTATTA
21375650 ATATAATAT
1 ATA-AATAT
21375659 TTATATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 5 0.17
23 10 0.34
24 14 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAATATAATAATATTTATTA
Found at i:21375639 original size:38 final size:37
Alignment explanation
Indices: 21375585--21375670 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 37
21375575 ACTCCATTTG
*
21375585 TTATTAAT-AATATAATAATATAAATATAATATTAT-T
1 TTATTAATAAATATAATAATATAAAT-TAATATAATAT
**
21375621 TTATGTAATAAATATAATAATATTTATTAATATAATAT
1 TTAT-TAATAAATATAATAATATAAATTAATATAATAT
21375659 TTATATAATAAA
1 TTAT-TAATAAA
21375671 AAATATTGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
36 4 0.09
37 12 0.28
38 27 0.63
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (37 bp):
TTATTAATAAATATAATAATATAAATTAATATAATAT
Found at i:21375657 original size:15 final size:16
Alignment explanation
Indices: 21375637--21375668 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21375627 AATAAATATA
21375637 ATAATATTTAT-TAAT
1 ATAATATTTATATAAT
21375652 ATAATATTTATATAAT
1 ATAATATTTATATAAT
21375668 A
1 A
21375669 AAAAATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAATATTTATATAAT
Found at i:21379450 original size:269 final size:270
Alignment explanation
Indices: 21378971--21379497 Score: 894
Period size: 269 Copynumber: 2.0 Consensus size: 270
21378961 TAATATTTAT
* **
21378971 TTTTTTAATACTCCAATTTGAGAGCAAAGTTAAGAAAAAAAAAGTTGAAAATTTTTTATTTTTAT
1 TTTTTTAATACTCCAATTTGAGAGAAAAGTTAAGAAAAAAAAAGTTGAAAAAATTTTATTTTTAT
* * * * * *
21379036 AAAAATATTATTATATCCATCATTTTATTAATATTAAAAATTTAGTCAAAAAAACTTAACTACAT
66 AAAAAGATTATTATACCCATCATTTTATTAATATTAAAAACTTAATAAAAAAAACCTAACTACAT
* * * *
21379101 CACAATCTTCTTGTAATTTTTTTAAAATCATATCTTTTTTCAAGTAAATTTCACATGTTTCTTTT
131 CACAATCTACTTGTAATTTTTTTAAAACCATATCTTTTTTCAAATAAATTTCACATATTTCTTTT
*
21379166 AATATAAAAATTTTTTATAATTTTTTTGGTGATTTGATTTTGATAAATGATTGAAT-TAAATATG
196 AATATAAAAATTTTTTATAATTTTTTTGGTGATTTAATTTTGATAAATGATTGAATATAAATATG
21379230 AATAGACATA
261 AATAGACATA
21379240 TTTTTTAATACTCCAATTTGAGAGAAAAGTTAAGAAAAAAAAAGTTGAAAAAATTTTATTTTTAT
1 TTTTTTAATACTCCAATTTGAGAGAAAAGTTAAGAAAAAAAAAGTTGAAAAAATTTTATTTTTAT
21379305 AAAAAGATTATTATACCCATCATTTTATTAATATTAAAAACTTAATAAAAAAAACCTAACTACAT
66 AAAAAGATTATTATACCCATCATTTTATTAATATTAAAAACTTAATAAAAAAAACCTAACTACAT
* *
21379370 CACAATCTACTTGTAATTTTTTTAAAACCATCTCTTTTTTCAAATAAGTTTCACATATTTCTTTT
131 CACAATCTACTTGTAATTTTTTTAAAACCATATCTTTTTTCAAATAAATTTCACATATTTCTTTT
*
21379435 AATATAAAAATTTTTTATAATTTTTTTGGTGATTTAATTTTGATGAATGATTGAATATAAATA
196 AATATAAAAATTTTTTATAATTTTTTTGGTGATTTAATTTTGATAAATGATTGAATATAAATA
21379498 AACATTTTTT
Statistics
Matches: 240, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
269 234 0.98
270 6 0.03
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (270 bp):
TTTTTTAATACTCCAATTTGAGAGAAAAGTTAAGAAAAAAAAAGTTGAAAAAATTTTATTTTTAT
AAAAAGATTATTATACCCATCATTTTATTAATATTAAAAACTTAATAAAAAAAACCTAACTACAT
CACAATCTACTTGTAATTTTTTTAAAACCATATCTTTTTTCAAATAAATTTCACATATTTCTTTT
AATATAAAAATTTTTTATAATTTTTTTGGTGATTTAATTTTGATAAATGATTGAATATAAATATG
AATAGACATA
Found at i:21380650 original size:18 final size:18
Alignment explanation
Indices: 21380615--21380651 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21380605 AATAAAATAT
**
21380615 TTCGAATTCGAGTTTGAA
1 TTCGAATTCGAGCATGAA
21380633 TTCGAATTCGAGCATGAA
1 TTCGAATTCGAGCATGAA
21380651 T
1 T
21380652 AATCGAACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.35
Consensus pattern (18 bp):
TTCGAATTCGAGCATGAA
Found at i:21383462 original size:31 final size:31
Alignment explanation
Indices: 21383402--21383464 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
21383392 ATAATAAATT
* *
21383402 TTATATATTTATATTATATTTTATTCAAAAA
1 TTATATATTTATATTATATTCTATACAAAAA
21383433 TTATATA-TTATAATT-TATGTCTATACAAAAA
1 TTATATATTTAT-ATTATAT-TCTATACAAAAA
21383464 T
1 T
21383465 ATAAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (31 bp):
TTATATATTTATATTATATTCTATACAAAAA
Found at i:21384126 original size:2 final size:2
Alignment explanation
Indices: 21384119--21384144 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21384109 AAAATGTAGT
21384119 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
21384145 CACACAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21387585 original size:58 final size:57
Alignment explanation
Indices: 21387402--21388037 Score: 688
Period size: 58 Copynumber: 11.0 Consensus size: 57
21387392 TTTTGTGCAG
* * * * * **
21387402 GAAAAATTGATACTTTCAATTTTTCC-CTAAAATATTTTTTAGAAATTTTAATCTCGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAATTT-ATTTTTAA
* * * **
21387460 -AAAAATTGATACTTTCAACTTTTTCC-C-AAAATATCTTTTGAAACTTTAATTTCGAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTTTTTTGAAAATTT-ATTTTTAA
21387516 G-AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA-TTTTTTTTGAAAATTTATTTTTAA
* * * ** * **
21387573 GGAAAATTGATACTTTCAACTTTT-TTCAAAAAATATTTTTTGGAAACCTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAAAT-TTTTTTTGAAAATTTATTTTTAA
*
21387631 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAATTTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT--TTTTTTTGAAAATTTATTTTTAA
*
21387690 GAAAAATTGATACTTTCAATTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAATTTATTTTTAA
21387748 -AGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAATTTATTTTTAA
1 GA-AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTGAAAATTTATTTTTAA
*
21387806 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTGAAAACTTTGATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAA--ATTTTTTTTGAAAA-TTT-ATTTTTAA
*
21387868 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTTGGAAACTTTGATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTC-AAAA--A-TTTTTTTT-GAAAATTT-ATTTTTAA
* * *
21387931 GAAAAATTGCTACTTTCAACTTTTCCTCAAAAATTCCTTTTT-----TTTA-TTTTAG
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATT-TTTTTTGAAAATTTATTTTTAA
* *
21387983 GAAAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTGAAAATTTATTTTT
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAAATTTTTTTTGAAAATTTATTTTT
21388038 TTTTAGATTT
Statistics
Matches: 510, Mismatches: 41, Indels: 55
0.84 0.07 0.09
Matches are distributed among these distances:
51 6 0.01
52 35 0.07
53 1 0.00
54 3 0.01
55 6 0.01
56 42 0.08
57 42 0.08
58 196 0.38
59 58 0.11
60 18 0.04
61 5 0.01
62 47 0.09
63 47 0.09
64 4 0.01
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTGAAAATTTATTTTTAA
Found at i:21387731 original size:175 final size:177
Alignment explanation
Indices: 21387404--21388038 Score: 743
Period size: 175 Copynumber: 3.6 Consensus size: 177
21387394 TTGTGCAGGA
* * * * *
21387404 AAAATTGATACTTTCAATTTTTCC-C-TAAAATATTTTTTAGAAATTTTAATCTCGAAAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAAATTTAATTTCGAGAAAAATT
* **
21387467 GATACTTTCAACTTTTTCC-C-AAAATA-TCTTTTGAAACTTTAATTTCGAAG-AAAATTGATAC
66 GATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTTAAGAAAAATTGATAC
21387528 TTTCAACTTTTCCTCAAAAACT-TTTTTTTGAAAATTTATTTTTAAGG
130 TTTCAACTTTTCCTCAAAAACTATTTTTTTGAAAATTTATTTTTAAGG
* * **
21387575 AAAATTGATACTTTCAACTTTT-TTCAAAAAATATTTTTTGGAAACCTTAATTTCGAGAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAAATTTAATTTCGAGAAAAATT
*
21387639 GATACTTTCAACTTTTCCTCAAAAATACTTTTTTTGAAA-TTTTATTTTTAAGAAAAATTGATAC
66 GATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAACTTTAATTTTTAAGAAAAATTGATAC
* *
21387703 TTTCAATTTTTCCTCAAAAA-TATTTTTTTGAAAATTTATTTTTAAAG
130 TTTCAACTTTTCCTCAAAAACTATTTTTTTGAAAATTTATTTTTAAGG
* * ** *
21387750 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAAATTTATTTTTAAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAAATTTAATTTCGAGAAAAATT
*
21387814 GATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTGAAAACTTTGATTTTTAAGAAAAATTGAT
66 GATACTTTCAACTTTTCCTCAAAAA-TA-TTTTTTTG-AAACTTTAATTTTTAAGAAAAATTGAT
* * *
21387879 ACTTTCAACTTTTCCTCAAAAATTATTTTTTTTTGGAAACTTTGATTTTTAAGA
128 ACTTTCAACTTTTCCTCAAAAACTA--TTTTTTT-GAAAATTT-ATTTTTAAGG
* * ** * *
21387933 AAAATTGCTACTTTCAACTTTTCCTCAAAAATTCCTTTTT------TTTATTTTAG-GAAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAAATTTAATTTCGAGAAAAATT
* * *
21387991 GATACTTTCAACTTTT-TTCCAAAAATA-TTTTTTGAAAATTTATTTTTT
66 GATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAACTTTAATTTTT
21388039 TTTAGATTTT
Statistics
Matches: 406, Mismatches: 39, Indels: 36
0.84 0.08 0.07
Matches are distributed among these distances:
171 28 0.07
172 45 0.11
173 17 0.04
174 18 0.04
175 141 0.35
176 15 0.04
177 32 0.08
178 51 0.13
179 2 0.00
181 7 0.02
182 7 0.02
183 33 0.08
184 10 0.02
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (177 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTAGAAAATTTAATTTCGAGAAAAATT
GATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAACTTTAATTTTTAAGAAAAATTGATACT
TTCAACTTTTCCTCAAAAACTATTTTTTTGAAAATTTATTTTTAAGG
Found at i:21388093 original size:21 final size:21
Alignment explanation
Indices: 21388069--21388148 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 21
21388059 AAATAAAATT
*
21388069 ATAAAATAAAAGAAGAAAAAA
1 ATAAAATAAAAGAAAAAAAAA
21388090 ATAAAA-AAAA-AAATTAAAAAA
1 ATAAAATAAAAGAAA--AAAAAA
*
21388111 ATAAAACCAAAA-ATAAAAATAAA
1 ATAAAA-TAAAAGA-AAAAA-AAA
21388134 ATAAAGATAAAAGAA
1 ATAAA-ATAAAAGAA
21388149 CATTAAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
19 2 0.04
20 4 0.08
21 18 0.37
22 3 0.06
23 18 0.37
24 4 0.08
ACGTcount: A:0.80, C:0.03, G:0.05, T:0.12
Consensus pattern (21 bp):
ATAAAATAAAAGAAAAAAAAA
Found at i:21388101 original size:12 final size:13
Alignment explanation
Indices: 21388084--21388134 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
21388074 ATAAAAGAAG
21388084 AAAAAAA-TAAAA
1 AAAAAAACTAAAA
*
21388096 AAAAAAATTAAAA
1 AAAAAAACTAAAA
*
21388109 AAATAAAACCAAAA
1 AAA-AAAACTAAAA
*
21388123 ATAAAAA-TAAAA
1 AAAAAAACTAAAA
21388135 TAAAGATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.33
13 12 0.36
14 10 0.30
ACGTcount: A:0.84, C:0.04, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAAACTAAAA
Found at i:21388143 original size:11 final size:11
Alignment explanation
Indices: 21388059--21388207 Score: 60
Period size: 11 Copynumber: 13.3 Consensus size: 11
21388049 TTAAAAAAGG
21388059 AAATAAAATTATA
1 AAATAAAA-TA-A
*
21388072 AAATAAAAGAA
1 AAATAAAATAA
21388083 GAAA-AAAATAA
1 -AAATAAAATAA
21388094 AAA-AAAA-AA
1 AAATAAAATAA
21388103 TTAAA-AAAATAA
1 --AAATAAAATAA
21388115 AACCA-AAAATAA
1 AA--ATAAAATAA
21388127 AAATAAAATAA
1 AAATAAAATAA
* *
21388138 AGATAAAA-GA
1 AAATAAAATAA
* *
21388148 ACATTAAATAA
1 AAATAAAATAA
* * **
21388159 TACTAATGTAA
1 AAATAAAATAA
*
21388170 TAAATAAAAAAA
1 -AAATAAAATAA
*
21388182 CAAAAAAAATAA
1 -AAATAAAATAA
21388194 ATAATAAAA-AA
1 A-AATAAAATAA
21388205 AAA
1 AAA
21388208 ACCTAGAGCG
Statistics
Matches: 104, Mismatches: 22, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
9 2 0.02
10 19 0.18
11 38 0.37
12 37 0.36
13 8 0.08
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:21388193 original size:17 final size:18
Alignment explanation
Indices: 21388171--21388208 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21388161 CTAATGTAAT
21388171 AAATAAA-AA-AACAAAAA
1 AAATAAATAATAA-AAAAA
21388188 AAATAAATAATAAAAAAA
1 AAATAAATAATAAAAAAA
21388206 AAA
1 AAA
21388209 CCTAGAGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 10 0.53
19 2 0.11
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.11
Consensus pattern (18 bp):
AAATAAATAATAAAAAAA
Found at i:21388194 original size:21 final size:20
Alignment explanation
Indices: 21388168--21388208 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 20
21388158 ATACTAATGT
21388168 AATAAATAAAAAAACAAAAAA
1 AATAAATAAAAAAA-AAAAAA
21388189 AATAAATAATAAAAAAAAAA
1 AATAAATAA-AAAAAAAAAA
21388209 CCTAGAGCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.12
Consensus pattern (20 bp):
AATAAATAAAAAAAAAAAAA
Found at i:21388553 original size:21 final size:20
Alignment explanation
Indices: 21388529--21388568 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
21388519 AACTTCGGTT
21388529 AAATTTTCATC-GAATTCTGGA
1 AAATTTT-ATCAGAA-TCTGGA
21388550 AAATTTTATCAGAATCTGG
1 AAATTTTATCAGAATCTGG
21388569 TTTTTTCGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
AAATTTTATCAGAATCTGGA
Found at i:21389041 original size:15 final size:15
Alignment explanation
Indices: 21389021--21389073 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
21389011 TCCAGCCAAG
21389021 TAAATAAAAAATAAA
1 TAAATAAAAAATAAA
21389036 TAAATAAAAAATACAA
1 TAAATAAAAAATA-AA
* *
21389052 AAAATCAAAAGA-AAA
1 TAAAT-AAAAAATAAA
21389067 TAAATAA
1 TAAATAA
21389074 GATAAATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 2 0.06
15 19 0.58
16 7 0.21
17 5 0.15
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (15 bp):
TAAATAAAAAATAAA
Found at i:21389097 original size:21 final size:21
Alignment explanation
Indices: 21389063--21389120 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
21389053 AAATCAAAAG
21389063 AAAATAAAT-A-AGATAAATC
1 AAAATAAATAACAGATAAATC
*
21389082 AAAA-AAATTAACAGAT-AATT
1 AAAATAAA-TAACAGATAAATC
21389102 AAAATTAAATAACAGATAA
1 AAAA-TAAATAACAGATAA
21389121 TACATAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
18 3 0.09
19 5 0.16
20 8 0.25
21 12 0.38
22 4 0.12
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAATAAATAACAGATAAATC
Found at i:21389244 original size:5 final size:5
Alignment explanation
Indices: 21389223--21389288 Score: 51
Period size: 6 Copynumber: 11.6 Consensus size: 5
21389213 TATAATAATA
*
21389223 AAAAT AAAAAT AGAAAT AAAAT AAAAT AAAAATGT AAAAT ACAAT AAAAAT
1 AAAAT -AAAAT A-AAAT AAAAT AAAAT -AAAA--T AAAAT AAAAT -AAAAT
21389274 AAAAAT AAAAAT AAA
1 -AAAAT -AAAAT AAA
21389289 GAAGAAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
5 18 0.34
6 30 0.57
7 4 0.08
8 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:21389287 original size:18 final size:17
Alignment explanation
Indices: 21389214--21389288 Score: 80
Period size: 18 Copynumber: 4.3 Consensus size: 17
21389204 AAATATATAT
*
21389214 ATAATAATAAAAATAAAA
1 ATAAAAATAAAAAT-AAA
*
21389232 ATAGAAAT-AAAATAAA
1 ATAAAAATAAAAATAAA
* *
21389248 ATAAAAATGTAAAATACA
1 ATAAAAAT-AAAAATAAA
21389266 ATAAAAATAAAAATAAAA
1 ATAAAAATAAAAAT-AAA
21389284 ATAAA
1 ATAAA
21389289 GAAGAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
16 10 0.21
17 10 0.21
18 28 0.58
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (17 bp):
ATAAAAATAAAAATAAA
Found at i:21389296 original size:13 final size:12
Alignment explanation
Indices: 21389222--21389297 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
21389212 ATATAATAAT
*
21389222 AAAAATAAAAAT
1 AAAAATAAAAAG
*
21389234 AGAAAT-AAAA-
1 AAAAATAAAAAG
*
21389244 TAAAATAAAAATG
1 AAAAATAAAAA-G
* * *
21389257 TAAAAT-ACAAT
1 AAAAATAAAAAG
*
21389268 AAAAATAAAAAT
1 AAAAATAAAAAG
21389280 AAAAATAAAGAAG
1 AAAAATAAA-AAG
21389293 AAAAA
1 AAAAA
21389298 AAATAGACTT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
10 4 0.08
11 13 0.25
12 21 0.41
13 13 0.25
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAATAAAAAG
Found at i:21389296 original size:18 final size:18
Alignment explanation
Indices: 21389223--21389300 Score: 76
Period size: 18 Copynumber: 4.5 Consensus size: 18
21389213 TATAATAATA
*
21389223 AAAATAAAAATAGAAAT-
1 AAAATAAAAATAAAAATG
21389240 AAAAT-AAAATAAAAATG
1 AAAATAAAAATAAAAATG
* *
21389257 TAAAAT-ACAATAAAAATA
1 -AAAATAAAAATAAAAATG
21389275 AAAATAAAAATAAAGAA-G
1 AAAATAAAAATAAA-AATG
21389293 AAAA-AAAA
1 AAAATAAAA
21389301 TAGACTTACC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.19
17 14 0.27
18 26 0.50
19 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.15
Consensus pattern (18 bp):
AAAATAAAAATAAAAATG
Found at i:21389597 original size:42 final size:41
Alignment explanation
Indices: 21389498--21389835 Score: 437
Period size: 42 Copynumber: 8.1 Consensus size: 41
21389488 TTTTATCAAA
* * *
21389498 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAGTAAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* ** * * *
21389539 GCTCCTCTAATCAGAGGTTCAATGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
21389581 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
21389623 ACTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
21389665 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* *
21389706 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
* *
21389748 GCTCTTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
21389789 GCTCATCTAAACAGA-G-ACAACGAAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAGTAAATT
*
21389830 ACTCCT
1 GCTCCT
21389836 TAACAATCAT
Statistics
Matches: 268, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
39 5 0.02
40 1 0.00
41 117 0.44
42 141 0.53
43 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:21389746 original size:83 final size:82
Alignment explanation
Indices: 21389498--21389835 Score: 462
Period size: 83 Copynumber: 4.1 Consensus size: 82
21389488 TTTTATCAAA
* * * * ** *
21389498 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGTTCAATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATG
21389563 ACTTTGAAAAAATAAATT
66 ACTTTG-AAAAATAAATT
* * *
21389581 GCTCCTCTAAATAGAGGCACCACGACTTTGGAAAAGTAAATTACTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAT
*
21389646 GACTTTTGAAAAGTAAATT
65 GAC-TTTGAAAAATAAATT
21389665 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATG
21389730 ACTTTGAAAAAATAAATT
66 ACTTTG-AAAAATAAATT
* * * * *
21389748 GCTCTTCTAAACAGAGGCACCACGACTTTGAAAAATAAATTGCTCATCTAAACAGAGACAACGA-
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC-ACCAT
*
21389812 AACTTTGAAAAATAAATT
65 GACTTTGAAAAATAAATT
*
21389830 ACTCCT
1 GCTCCT
21389836 TAACAATCAT
Statistics
Matches: 228, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
82 19 0.08
83 133 0.58
84 72 0.32
85 4 0.02
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (82 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCATG
ACTTTGAAAAATAAATT
Found at i:21390868 original size:8 final size:8
Alignment explanation
Indices: 21390832--21390876 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
21390822 TGAGTCTTCC
*
21390832 TTTTTCAC
1 TTTTTCAT
*
21390840 TTTTTCTT
1 TTTTTCAT
21390848 TTTTTCAT
1 TTTTTCAT
21390856 TTTTTCAT
1 TTTTTCAT
*
21390864 TTTTTTAT
1 TTTTTCAT
21390872 TTTTT
1 TTTTT
21390877 TAAGCATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTCAT
Found at i:21398132 original size:15 final size:16
Alignment explanation
Indices: 21398112--21398143 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
21398102 TATTAAGTGT
21398112 AATGAATG-AAAATGC
1 AATGAATGAAAAATGC
21398127 AATGAATGAAAAATGC
1 AATGAATGAAAAATGC
21398143 A
1 A
21398144 TGTATGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.06, G:0.19, T:0.19
Consensus pattern (16 bp):
AATGAATGAAAAATGC
Found at i:21401473 original size:58 final size:58
Alignment explanation
Indices: 21401290--21401676 Score: 404
Period size: 58 Copynumber: 6.7 Consensus size: 58
21401280 TTTGTGCAGA
* * * **
21401290 AAAAATTGATACTTTCAACTTTTCC-CCAAAA-TATTTTTTAAAAATTTTAATTTCGAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAA-TTT-ATTTTTAAG
* * * * **
21401348 -AAAATTGATACTTTCAACTTTTTCC-C-AAAA-TATTTTTTGAAACTTTAATCTCGAG
1 AAAAATTGATACTTTCAAC-TTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAAG
* *
21401403 AAAAATTAATACTTTCAACTTTTCCTTAAAAATTTTTTTTTGAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAAG
* * *
21401461 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTTTTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAAG
* *
21401519 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTGGAAACTTTGATTTTCAA-
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-TTTTTTTT-GAAAATTT-ATTTTTAAG
* *
21401580 AGAAAATTGATACTTTCAACTTTTCCTTAAAAATCCTTTTTTT-----TTTA-TTTTAAG
1 A-AAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTTTTGAAAATTTATTTTTAAG
21401634 AAAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTT
1 -AAAAATTGATACTTTCAACTTTTCCTCAAAAATT-TTTTTTT
21401677 TAGAAACTTT
Statistics
Matches: 286, Mismatches: 30, Indels: 30
0.83 0.09 0.09
Matches are distributed among these distances:
53 5 0.02
54 39 0.14
55 14 0.05
56 20 0.07
57 37 0.13
58 111 0.39
59 1 0.00
60 7 0.02
61 16 0.06
62 36 0.13
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.47
Consensus pattern (58 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTATTTTTAAG
Found at i:21401550 original size:116 final size:116
Alignment explanation
Indices: 21401290--21401676 Score: 447
Period size: 116 Copynumber: 3.4 Consensus size: 116
21401280 TTTGTGCAGA
* * *
21401290 AAAAATTGATACTTTCAACTTTTCC-CCAAAA-TATTTTTTAAAAATTTTAA-TTTCGAAG-AAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAA-TTTAATTTTC-AAGAAAA
* * * **
21401351 ATTGATACTTTCAACTTTTTCC-C-AAAATATTTTTTGAAACTTTAATCTCGAG
64 ATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAATTTTTATTTTAAG
* * *
21401403 AAAAATTAATACTTTCAACTTTTCCTTAAAAATTTTTTTTTGAAAATTT-ATTTTTAAGAAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTAATTTTCAAGAAAAAT
*
21401467 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTTTTTTTTAAG
66 TGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTGAAATTTTTATTTTAAG
* *
21401519 AAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTTTGGAAACTTTGATTTTCAA-AGA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA-T-TTTTTTTT-GAAAATTTAATTTTCAAGA-A
* **
21401583 AAATTGATACTTTCAACTTTTCCTTAAAAATCCTTTTT----TTTTTATTTTAAG
62 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTTATTTTAAG
21401634 AAAAAATTGATACTTTCAACTTTTCCTCAAAAATTATTTTTTT
1 -AAAAATTGATACTTTCAACTTTTCCTCAAAAATT-TTTTTTT
21401677 TAGAAACTTT
Statistics
Matches: 240, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
113 34 0.14
114 30 0.12
115 37 0.15
116 79 0.33
117 1 0.00
118 8 0.03
119 13 0.05
120 38 0.16
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.47
Consensus pattern (116 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTGAAAATTTAATTTTCAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAATTTTTATTTTAAG
Found at i:21410230 original size:12 final size:12
Alignment explanation
Indices: 21410213--21410237 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21410203 CAATAATATA
21410213 TAAAAAAATTAT
1 TAAAAAAATTAT
21410225 TAAAAAAATTAT
1 TAAAAAAATTAT
21410237 T
1 T
21410238 TATAATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAAAAAAATTAT
Found at i:21413084 original size:26 final size:26
Alignment explanation
Indices: 21413051--21413105 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
21413041 TGCAGTTTTA
* *
21413051 AAAATAAAAATTAAATTATATATATT
1 AAAATAAAAATAAAAATATATATATT
21413077 AAAATAAAAATAAAAATATATATATT
1 AAAATAAAAATAAAAATATATATATT
21413103 AAA
1 AAA
21413106 TAATACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAATAAAAATAAAAATATATATATT
Found at i:21413493 original size:11 final size:11
Alignment explanation
Indices: 21413473--21413509 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
21413463 GTGTCGTTCA
*
21413473 TATTTAAATAT
1 TATTTTAATAT
21413484 TATTTTAATAT
1 TATTTTAATAT
*
21413495 TATTTTAATAA
1 TATTTTAATAT
21413506 TATT
1 TATT
21413510 AAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTTAATAT
Found at i:21417606 original size:25 final size:25
Alignment explanation
Indices: 21417552--21417606 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
21417542 ATAAATATTT
21417552 AATTT-TTGATTTAAATTGAATCAA
1 AATTTATTGATTTAAATTGAATCAA
* * * *
21417576 ATTTTATTGATTTAATTTGATTTAA
1 AATTTATTGATTTAAATTGAATCAA
21417601 AATTTA
1 AATTTA
21417607 GTTTGATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (25 bp):
AATTTATTGATTTAAATTGAATCAA
Found at i:21420288 original size:2 final size:2
Alignment explanation
Indices: 21420281--21420310 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21420271 CATATCTCCT
21420281 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
21420311 ATGTAGACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:21423688 original size:8 final size:8
Alignment explanation
Indices: 21423675--21423734 Score: 70
Period size: 8 Copynumber: 7.5 Consensus size: 8
21423665 ATTCGATTTA
21423675 TAATTTTT
1 TAATTTTT
21423683 TAATTTTT
1 TAATTTTT
21423691 TAATTTTT
1 TAATTTTT
21423699 TAA-TTTT
1 TAATTTTT
* *
21423706 AAAGTTTT
1 TAATTTTT
21423714 T-ATTTTT
1 TAATTTTT
21423721 TATATTATTT
1 TA-ATT-TTT
21423731 TAAT
1 TAAT
21423735 AAAAATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
7 12 0.27
8 23 0.51
9 5 0.11
10 5 0.11
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (8 bp):
TAATTTTT
Found at i:21423696 original size:16 final size:16
Alignment explanation
Indices: 21423675--21423734 Score: 70
Period size: 15 Copynumber: 3.8 Consensus size: 16
21423665 ATTCGATTTA
21423675 TAATTTTTTAATTTTT
1 TAATTTTTTAATTTTT
21423691 TAATTTTTTAA-TTTT
1 TAATTTTTTAATTTTT
* *
21423706 AAAGTTTTT-ATTTTT
1 TAATTTTTTAATTTTT
21423721 TATATTATTTTAAT
1 TA-ATT-TTTTAAT
21423735 AAAAATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
14 1 0.03
15 16 0.44
16 13 0.36
17 4 0.11
18 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TAATTTTTTAATTTTT
Found at i:21423743 original size:22 final size:22
Alignment explanation
Indices: 21423717--21423759 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21423707 AAGTTTTTAT
* *
21423717 TTTTTATATTATTTTAATAAAAA
1 TTTTAATA-TATTTAAATAAAAA
21423740 TTTTAATATATTTAAATAAA
1 TTTTAATATATTTAAATAAA
21423760 TACATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTAATATATTTAAATAAAAA
Found at i:21423837 original size:56 final size:52
Alignment explanation
Indices: 21423725--21423826 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 52
21423715 ATTTTTTATA
* * * *
21423725 TTATTTTAATAAAAATTTTAATATATTTAAATAAATACATATAATTATTATTT
1 TTATTTT-ATAAAAATTTTAATATATATAAATAAATAAAAATAATAATTATTT
*
21423778 TTATTTTATAAAAA-TTTAAGTATATATAAATTAATAAAAATATATAATT
1 TTATTTTATAAAAATTTTAA-TATATATAAATAAATAAAAATA-ATAATT
21423827 CAATTTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
51 5 0.12
52 25 0.60
53 12 0.29
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (52 bp):
TTATTTTATAAAAATTTTAATATATATAAATAAATAAAAATAATAATTATTT
Found at i:21432310 original size:28 final size:30
Alignment explanation
Indices: 21432276--21432332 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
21432266 CAATATCAAA
21432276 TATTTTTAAAAA-T-ATAAAATAATAAAAG
1 TATTTTTAAAAAGTAATAAAATAATAAAAG
*
21432304 TATTTTTAAAAAGTAATAAAATATTAAAA
1 TATTTTTAAAAAGTAATAAAATAATAAAA
21432333 AAAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 12 0.46
29 1 0.04
30 13 0.50
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (30 bp):
TATTTTTAAAAAGTAATAAAATAATAAAAG
Found at i:21434166 original size:14 final size:15
Alignment explanation
Indices: 21434147--21434181 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21434137 GATAGATATT
21434147 AATAAAA-AAAAAGA
1 AATAAAAGAAAAAGA
*
21434161 AATAAAAGAAAACGA
1 AATAAAAGAAAAAGA
21434176 AATAAA
1 AATAAA
21434182 TTGAAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.09
Consensus pattern (15 bp):
AATAAAAGAAAAAGA
Found at i:21451583 original size:30 final size:30
Alignment explanation
Indices: 21451549--21451609 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
21451539 CAACAAACTA
21451549 AATTCTGAGGTAAACATAGGCAAAAATGAG
1 AATTCTGAGGTAAACATAGGCAAAAATGAG
*
21451579 AATTCTGAGGTAAACATAGGCAAAACTGAG
1 AATTCTGAGGTAAACATAGGCAAAAATGAG
21451609 A
1 A
21451610 CTACAAGCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (30 bp):
AATTCTGAGGTAAACATAGGCAAAAATGAG
Found at i:21458226 original size:24 final size:23
Alignment explanation
Indices: 21458182--21458226 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
21458172 TTTAATTTGA
*
21458182 TTTAAAATTAATAAAATATTATT
1 TTTAAAATAAATAAAATATTATT
21458205 TTTAAATATAAATATAAA-ATTA
1 TTTAAA-ATAAATA-AAATATTA
21458227 AATAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAAAATAAATAAAATATTATT
Found at i:21462377 original size:2 final size:2
Alignment explanation
Indices: 21462365--21462408 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
21462355 ACTCCATCCC
*
21462365 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
21462407 CT
1 CT
21462409 TATATAGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:21470894 original size:31 final size:31
Alignment explanation
Indices: 21470859--21470922 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
21470849 CAAGGGGCCC
*
21470859 TGTGCATCAGTCACAAGGCTTTCTTTTCTCG
1 TGTGCATCAGTCACAAGGCCTTCTTTTCTCG
**
21470890 TGTGCATCAGTTGCAAGGCCTTCTTTTCTCG
1 TGTGCATCAGTCACAAGGCCTTCTTTTCTCG
21470921 TG
1 TG
21470923 GGGCAGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (31 bp):
TGTGCATCAGTCACAAGGCCTTCTTTTCTCG
Found at i:21477125 original size:80 final size:80
Alignment explanation
Indices: 21476985--21477141 Score: 251
Period size: 80 Copynumber: 2.0 Consensus size: 80
21476975 CATGTCGAAA
* *
21476985 CTTCAGTTATGTCAAGTGGATCATGAACAAATTTTCTCCGTAAACAAACAGAAGCAGGGATCCCT
1 CTTCAGTTATGTCAAGTGGATCATGAACAAATTTTCTCCGTAAACAAACAGAAACAGGGATCACT
*
21477050 ATGTATCAGTCTAAG
66 ATGCATCAGTCTAAG
* * * *
21477065 CTTCAGTTTTGTCAAGTGGGTCATGAACAAATTTTCTTCGTAAACAAACAGAAACTGGGATCACT
1 CTTCAGTTATGTCAAGTGGATCATGAACAAATTTTCTCCGTAAACAAACAGAAACAGGGATCACT
21477130 ATGCATCAGTCT
66 ATGCATCAGTCT
21477142 TTTTACTGAC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (80 bp):
CTTCAGTTATGTCAAGTGGATCATGAACAAATTTTCTCCGTAAACAAACAGAAACAGGGATCACT
ATGCATCAGTCTAAG
Found at i:21484838 original size:30 final size:32
Alignment explanation
Indices: 21484786--21484849 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 32
21484776 ATTATTTTAT
**
21484786 TTATTTATATTTATTCGTTTAAA-T-AATAAA
1 TTATTTATATTTATTCAATTAAATTAAATAAA
* *
21484816 TTATTTGTATTTGTTCAATTAAATTAAATAAA
1 TTATTTATATTTATTCAATTAAATTAAATAAA
21484848 TT
1 TT
21484850 TATTCGTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 19 0.68
31 1 0.04
32 8 0.29
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (32 bp):
TTATTTATATTTATTCAATTAAATTAAATAAA
Done.