Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 70 of 129
Found at i:13330312 original size:20 final size:20
Alignment explanation
Indices: 13330259--13330312 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
13330249 TTTCCATTTC
* *
13330259 TTTTATTTCTTTTTATCCTTT
1 TTTTATTTC-TTTTATACATT
* *
13330280 TTTTTTTTGTTTTATACATT
1 TTTTATTTCTTTTATACATT
13330300 TTTTATTTCTTTT
1 TTTTATTTCTTTT
13330313 CAATTTTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTATTTCTTTTATACATT
Found at i:13330320 original size:35 final size:34
Alignment explanation
Indices: 13330276--13330354 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
13330266 TCTTTTTATC
* * *
13330276 CTTTT-TTTTTTTGTTTTATACATTTTTT-ATTT
1 CTTTTATTTTTTTCTTTTAAAAATTTTTTAATTT
*
13330308 CTTTTCAATTTTTTCTTTTAAAAATTTTTTAATTT
1 CTTTT-ATTTTTTTCTTTTAAAAATTTTTTAATTT
13330343 CTTTTATTTTTT
1 CTTTTATTTTTT
13330355 AATGTAATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
32 5 0.13
34 25 0.64
35 9 0.23
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (34 bp):
CTTTTATTTTTTTCTTTTAAAAATTTTTTAATTT
Found at i:13330439 original size:21 final size:23
Alignment explanation
Indices: 13330405--13330454 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
13330395 CTTTTTTCAC
*
13330405 TTTATTTT--TCTTTTCTTTT-T
1 TTTATTTTCGTCTTTTATTTTAT
13330425 TTT-TTTTCGTCTTTTATTTTAT
1 TTTATTTTCGTCTTTTATTTTAT
13330447 TTTATTTT
1 TTTATTTT
13330455 TTTTTCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 3 0.12
21 10 0.40
22 4 0.16
23 4 0.16
ACGTcount: A:0.08, C:0.08, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTATTTTCGTCTTTTATTTTAT
Found at i:13333120 original size:185 final size:186
Alignment explanation
Indices: 13332692--13333325 Score: 759
Period size: 185 Copynumber: 3.4 Consensus size: 186
13332682 TTTGACCTTA
*
13332692 TTATTATATATATTTTTTGTTCATAATATAAAACCTTATTTTAAACATAATAAAAATGAAAACCT
1 TTATTATATATATTTTTTGTTCATAATATAAAACTTTATTTTAAACATAATAAAAATGAAAACCT
* ** * * * *
13332757 TATATTAACAAACATAGTGTATTGTTACAAATACTGTATTTATATAGCAAAATTGCATTGCTTTG
66 TATTTTAACAAATGTAGTGT-TTGTTACAAACACTGTATTTATATAACAAAAATGCAATGC-TTG
* * * * *
13332822 GTCAATGGTTTTTCTTTTAATCAAAGATTGCATTTATATTTAAAAAAAAAAACGTCTTCATTGA-
129 GTCAAT-G-ATTT-TTTTAATCAAAGACTACATTTATATTT-----AAAAAACGTCATCTTTGAC
13332886 T
186 T
*
13332887 GTTATTATATATA----TTGTTCATAATATAAAACTTTATTTCAAACATAATAAAAATGAAAACC
1 -TTATTATATATATTTTTTGTTCATAATATAAAACTTTATTTTAAACATAATAAAAATGAAAACC
* * * * *
13332948 TTATTTTAACAAATGTGGTGTTTGTTATAAACGCTATGTTTATATAACAAAAATGCAATGCTTGA
65 TTATTTTAACAAATGTAGTGTTTGTTACAAACACTGTATTTATATAACAAAAATGCAATGCTTG-
* *
13333013 GTCAATGATTTTTTTAATTAAAGACTACATTTATATTTAGAAAA-GTCATCTTTGACT
129 GTCAATGATTTTTTTAATCAAAGACTACATTTATATTTAAAAAACGTCATCTTTGACT
*
13333070 TTATTATATATA-TTTTTGTTCATTATATAAAACTTTATTTTAAACATAATAAAAATGAAAACCT
1 TTATTATATATATTTTTTGTTCATAATATAAAACTTTATTTTAAACATAATAAAAATGAAAACCT
* * * * *
13333134 TATTTTAACAAATGTAATGTTTTTTACAAACCCTGTATTTATATAA-AAATTAT--AGTGCTTGG
66 TATTTTAACAAATGTAGTGTTTGTTACAAACACTGTATTTATATAACAAA-AATGCAATGCTT-G
* * *
13333196 GTCAATAATTTTTTTAATCAAAGACTACATTTATATTTTAAAAAATGTCGTCTTTGACT
129 GTCAATGATTTTTTTAATCAAAGACTACATTTATA-TTTAAAAAACGTCATCTTTGACT
* **
13333255 TTATTATATATATTTTTTGTTCATTATATAAAACTTTATTTTAAACATAATTGAAATGAAAACCT
1 TTATTATATATATTTTTTGTTCATAATATAAAACTTTATTTTAAACATAATAAAAATGAAAACCT
13333320 T-TTTTA
66 TATTTTA
13333326 TTTTTGTTGT
Statistics
Matches: 390, Mismatches: 38, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
182 21 0.05
183 45 0.12
184 12 0.03
185 117 0.30
186 51 0.13
188 24 0.06
189 3 0.01
190 4 0.01
191 38 0.10
192 63 0.16
196 12 0.03
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (186 bp):
TTATTATATATATTTTTTGTTCATAATATAAAACTTTATTTTAAACATAATAAAAATGAAAACCT
TATTTTAACAAATGTAGTGTTTGTTACAAACACTGTATTTATATAACAAAAATGCAATGCTTGGT
CAATGATTTTTTTAATCAAAGACTACATTTATATTTAAAAAACGTCATCTTTGACT
Found at i:13333621 original size:20 final size:20
Alignment explanation
Indices: 13333593--13333631 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13333583 TTTAGTGTAT
13333593 ATTTAAAAAAATAAAAAATA
1 ATTTAAAAAAATAAAAAATA
* *
13333613 ATTTTAAAAAATGAAAAAT
1 ATTTAAAAAAATAAAAAAT
13333632 GTATTACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
ATTTAAAAAAATAAAAAATA
Found at i:13337653 original size:20 final size:20
Alignment explanation
Indices: 13337628--13337781 Score: 123
Period size: 20 Copynumber: 7.8 Consensus size: 20
13337618 GGTAGGGGGA
* * *
13337628 TGACTTTTGGTTTTAAGGTT
1 TGACTTTAGGGTTTAGGGTT
*
13337648 TGACTTTAGGGTTTAGGGGT
1 TGACTTTAGGGTTTAGGGTT
*
13337668 TGACTTTGGGGTTTAGGGTT
1 TGACTTTAGGGTTTAGGGTT
* *
13337688 TGAATTTA-GGTTTACGGTT
1 TGACTTTAGGGTTTAGGGTT
* ** *
13337707 AGGTTTTAGGGTTTACGGTT
1 TGACTTTAGGGTTTAGGGTT
* ** * *
13337727 AGGTTTTAAGGTTTAGCGTT
1 TGACTTTAGGGTTTAGGGTT
* * *
13337747 TGATTTTGGGGTTTAGGGGT
1 TGACTTTAGGGTTTAGGGTT
13337767 TGACTTT-GGGTTTAG
1 TGACTTTAGGGTTTAG
13337782 AAATCCCCAA
Statistics
Matches: 111, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
19 23 0.21
20 88 0.79
ACGTcount: A:0.15, C:0.05, G:0.34, T:0.46
Consensus pattern (20 bp):
TGACTTTAGGGTTTAGGGTT
Found at i:13338325 original size:20 final size:20
Alignment explanation
Indices: 13338284--13338327 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
13338274 CTTACCAAGA
*
13338284 TTTTCCTTATTTTTTTTATT
1 TTTTCCTTATTTTTTTGATT
*
13338304 TTTTCCTTATTTTTTTGGTT
1 TTTTCCTTATTTTTTTGATT
13338324 TTTT
1 TTTT
13338328 TCTCACTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.09, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTCCTTATTTTTTTGATT
Found at i:13338954 original size:142 final size:140
Alignment explanation
Indices: 13338698--13339058 Score: 395
Period size: 142 Copynumber: 2.5 Consensus size: 140
13338688 AACTATAAAT
*
13338698 TAGAGCTTTTCGTGAAAAATCAACCTTGAAAAGAT-AGAATTATGAAAATA-CTTTTAAAAGGTA
1 TAGAGCTTTTCGTGAAAAAT-AACC-TGAAAAG-TCA-AATTATGAAAATATC-CTT-AAAGGTA
* * *
13338761 TTTTGGTAATTTTAACCCTTATGAGGAGCAATCAAGGTCTTTAATGTATCAAAATTCATGAAATA
60 TTTTGGTAATTTCAACCCTTATGAGGAGCAATCAAGGTCTTTAATGCATCAAAATCCATGAAATA
* **
13338826 ATATTAAAATGTGATC
125 ATATCAAAACATGATC
* *
13338842 TAGAGCTTTTCGTGAAAAACTAACCTGAGAGAGTCAAATTATGAAAATATCCTTAAAGGCATTTT
1 TAGAGCTTTTCGTGAAAAA-TAACCTGA-AAAGTCAAATTATGAAAATATCCTTAAAGGTATTTT
* * * * * * *
13338907 GGTAATTTCAACCTTTTTTAGGTGTAATTAAGGT-TTTCAATGCATCAAAATCCATGGAATAATA
64 GGTAATTTCAACCCTTATGAGGAGCAATCAAGGTCTTT-AATGCATCAAAATCCATGAAATAATA
13338971 TCAAAACATGATC
128 TCAAAACATGATC
* * * * *
13338984 TAGAGTTTTTCATGAAAAATTGACCTCAAAAGGCCAAATTATGAAAATATCCTTAAAGGGTATTT
1 TAGAGCTTTTCGTGAAAAA-TAACCTGAAAA-GTCAAATTATGAAAATATCCTTAAA-GGTATTT
*
13339049 TAGTAATTTC
63 TGGTAATTTC
13339059 TCCTTTATCA
Statistics
Matches: 185, Mismatches: 25, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
141 5 0.03
142 117 0.63
143 34 0.18
144 28 0.15
145 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (140 bp):
TAGAGCTTTTCGTGAAAAATAACCTGAAAAGTCAAATTATGAAAATATCCTTAAAGGTATTTTGG
TAATTTCAACCCTTATGAGGAGCAATCAAGGTCTTTAATGCATCAAAATCCATGAAATAATATCA
AAACATGATC
Found at i:13339200 original size:30 final size:30
Alignment explanation
Indices: 13339164--13339230 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
13339154 GGTTGACTAG
*
13339164 GTTTAATTGAATTTGACTAGGTTTGATCAA
1 GTTTAATTGAATTTGACTAGGTTTGACCAA
*
13339194 GTTTAATTGAATTTGACTAGGTTTGACCAC
1 GTTTAATTGAATTTGACTAGGTTTGACCAA
13339224 GTTTAAT
1 GTTTAAT
13339231 AATGGGACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.43
Consensus pattern (30 bp):
GTTTAATTGAATTTGACTAGGTTTGACCAA
Found at i:13341382 original size:30 final size:30
Alignment explanation
Indices: 13341347--13341405 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13341337 AAAACTAAAA
*
13341347 AAAAAAACTAATAGAAGCAGAAAAAACTAGC
1 AAAAAAACTAA-AGAAGCAAAAAAAACTAGC
* *
13341378 AAAAAAATTGAAGAAGCAAAAAAAACTA
1 AAAAAAACTAAAGAAGCAAAAAAAACTA
13341406 AACAGAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.68, C:0.10, G:0.12, T:0.10
Consensus pattern (30 bp):
AAAAAAACTAAAGAAGCAAAAAAAACTAGC
Found at i:13342857 original size:16 final size:16
Alignment explanation
Indices: 13342824--13342855 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13342814 TATTATAATC
13342824 ATGTTTATTTTGATTT
1 ATGTTTATTTTGATTT
13342840 ATGTTTGATTTTGATT
1 ATGTTT-ATTTTGATT
13342856 ATTTAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.66
Consensus pattern (16 bp):
ATGTTTATTTTGATTT
Found at i:13343289 original size:19 final size:19
Alignment explanation
Indices: 13343246--13343290 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
13343236 TCGTTTAAAT
** *
13343246 TAAAACCTTAGGTGAAACG
1 TAAAACCTTAAATGAAACC
*
13343265 TCAAACCTTAAATGAAACC
1 TAAAACCTTAAATGAAACC
13343284 TAAAACC
1 TAAAACC
13343291 CCAAAATGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (19 bp):
TAAAACCTTAAATGAAACC
Found at i:13343408 original size:19 final size:19
Alignment explanation
Indices: 13343334--13343408 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
13343324 GAAATCCTCT
* *
13343334 GTGAAACCTAAAACTCTAG
1 GTGAAACCCAAAACCCTAG
*
13343353 GTGAAACCCAAAACCTTAG
1 GTGAAACCCAAAACCCTAG
* *
13343372 GTGAAATCCAAAATCCTAG
1 GTGAAACCCAAAACCCTAG
13343391 GTGAAACCCAAAACCCTA
1 GTGAAACCCAAAACCCTA
13343409 AATTAAACCC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.17
Consensus pattern (19 bp):
GTGAAACCCAAAACCCTAG
Found at i:13343431 original size:14 final size:13
Alignment explanation
Indices: 13343401--13343436 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
13343391 GTGAAACCCA
13343401 AAACCCT-AAATT
1 AAACCCTAAAATT
13343413 AAACCCTAAAATGT
1 AAACCCTAAAAT-T
13343427 AAACCCTAAA
1 AAACCCTAAA
13343437 CTCTATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 11 0.50
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.19
Consensus pattern (13 bp):
AAACCCTAAAATT
Found at i:13343465 original size:19 final size:20
Alignment explanation
Indices: 13343443--13343483 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
13343433 TAAACTCTAT
13343443 ATGAAAGC-TCAAACCCTAA
1 ATGAAAGCGTCAAACCCTAA
* *
13343462 ATGAAATCGTGAAACCCTAA
1 ATGAAAGCGTCAAACCCTAA
13343482 AT
1 AT
13343484 CCACCAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (20 bp):
ATGAAAGCGTCAAACCCTAA
Found at i:13345488 original size:26 final size:26
Alignment explanation
Indices: 13345435--13345489 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
13345425 AAACAGAGAG
* *
13345435 AAAAAAAATTTTGAAGTTTTTTTTGA
1 AAAAAAAATTTTGAAGATTTTTTGGA
13345461 AAAAAAAATTTTGGAA-ATTTTTTGGA
1 AAAAAAAATTTT-GAAGATTTTTTGGA
13345487 AAA
1 AAA
13345490 TTTTCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (26 bp):
AAAAAAAATTTTGAAGATTTTTTGGA
Found at i:13346087 original size:10 final size:10
Alignment explanation
Indices: 13346069--13346097 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13346059 AAATAAATTT
13346069 TAAAA-AATA
1 TAAAATAATA
13346078 TAAAATAATA
1 TAAAATAATA
13346088 TAAAATAATA
1 TAAAATAATA
13346098 ATTTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAATAATA
Found at i:13346153 original size:60 final size:59
Alignment explanation
Indices: 13346089--13346202 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
13346079 AAAATAATAT
** *
13346089 AAAATAATAATTTTCAAAAAAATAATTTT-AAGAAAATGTTGAAAGTATCAATTTTTCTTA
1 AAAATAA-AATTTAAAAAAAAACAATTTTAAAGAAAA-GTTGAAAGTATCAATTTTTCTTA
*
13346149 AAAATAAAATTTAAAAAAAAACATTTTTAAAGAAAAGTTGAAAGTATCAATTTT
1 AAAATAAAATTTAAAAAAAAACAATTTTAAAGAAAAGTTGAAAGTATCAATTTT
13346203 CTTTGTATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 35 0.71
60 14 0.29
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (59 bp):
AAAATAAAATTTAAAAAAAAACAATTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTA
Found at i:13348810 original size:66 final size:58
Alignment explanation
Indices: 13348722--13349022 Score: 289
Period size: 60 Copynumber: 4.9 Consensus size: 58
13348712 AACAATTTTC
* * *
13348722 AAAAAAATATTTTTAAGAAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAA-GAA
1 AAAAAAACATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAATCAA
* *
13348779 AAAGATTTCGAGAAGCGATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAACAAAATT
1 AAA-A-----A-AA-C-ATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAA--
13348844 TTCAA
55 -TCAA
* *
13348849 AAAAAAACATTTTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAAATTGCTA
1 AAAAAAACATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAA-T-CAA
* * * * ***
13348909 AAAAAAACATTTCTAAGGAAAAGTTGAAAGTACTAATTTTCCTTAAAAATAAAATTTTT
1 AAAAAAACATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAA-TCAA
* * * *
13348968 AAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAA
1 AAAAAAACATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTT-GAAAATAAAA
13349023 CCTTAAAATG
Statistics
Matches: 209, Mismatches: 20, Indels: 27
0.82 0.08 0.11
Matches are distributed among these distances:
57 3 0.01
58 1 0.00
59 41 0.20
60 65 0.31
61 43 0.21
62 1 0.00
63 3 0.01
64 3 0.01
66 43 0.21
69 1 0.00
70 5 0.02
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (58 bp):
AAAAAAACATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTGAAAATAAAATCAA
Found at i:13348979 original size:14 final size:15
Alignment explanation
Indices: 13348951--13348983 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13348941 CTAATTTTCC
13348951 TTAAAAATAAAATTT
1 TTAAAAATAAAATTT
*
13348966 TTAAAAAT-ATATTT
1 TTAAAAATAAAATTT
13348980 TTAA
1 TTAA
13348984 GGAAAAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAATAAAATTT
Found at i:13349006 original size:59 final size:59
Alignment explanation
Indices: 13348796--13349022 Score: 303
Period size: 60 Copynumber: 3.8 Consensus size: 59
13348786 TCGAGAAGCG
* * *
13348796 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAACAAAATTTTCAAAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTT--AAAAAAAAC
* * *
13348857 ATTTTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAAATTGCTAAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATT-TTAAAAAAAAC
* * * *
13348917 ATTTCTAAGGAAAAGTTGAAAGTA-CTAATTTTCCTTAAAAATAAAATTTTTAAAAATAT
1 ATTTTTAAGGAAAAGTTGAAAGTATC-AATTTTCCTTAAAAATAAAATTTTAAAAAAAAC
*
13348976 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAA
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAA
13349023 CCTTAAAATG
Statistics
Matches: 149, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
59 39 0.26
60 64 0.43
61 45 0.30
62 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (59 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTTAAAAAAAAC
Found at i:13349029 original size:59 final size:59
Alignment explanation
Indices: 13348796--13349063 Score: 289
Period size: 60 Copynumber: 4.6 Consensus size: 59
13348786 TCGAGAAGCG
* *
13348796 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAACAAAATT-TTCAAAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTCTT---AAAAAAAC
* * * *
13348857 ATTTTTAAGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAAATTGCTAAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATT-CTTAAAAAAAC
* * * * *
13348917 ATTTCTAAGGAAAAGTTGAAAGTA-CTAATTTTCCTTAAAAATAAAATTTTTAAAAATAT
1 ATTTTTAAGGAAAAGTTGAAAGTATC-AATTTTTCTTAAAAATAAAATTCTTAAAAAAAC
* **
13348976 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAA-CCTT-AAAATGC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAAAATAAAATTCTTAAAAAAAC
* *
13349034 ---TTTGAGGAAAAGTTGAAAGCATCAATTTTT
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTT
13349064 ATTGTATAAA
Statistics
Matches: 183, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
55 28 0.15
58 5 0.03
59 41 0.22
60 63 0.34
61 45 0.25
63 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (59 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTCTTAAAAAAAC
Found at i:13350038 original size:21 final size:20
Alignment explanation
Indices: 13350014--13350068 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
13350004 GGCACACAAG
*
13350014 AAAAGAAAAGGAAAAAAGTT
1 AAAAGAAAAGGAAAAAAGAT
13350034 AAAA-ATAAAGGCAAAAAAGAT
1 AAAAGA-AAAGG-AAAAAAGAT
*
13350055 GAAAGAAAA-GAAAA
1 AAAAGAAAAGGAAAA
13350069 GCCTATAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 5 0.17
20 10 0.33
21 14 0.47
22 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGGAAAAAAGAT
Found at i:13350286 original size:18 final size:20
Alignment explanation
Indices: 13350263--13350300 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
13350253 ACAAATAGAT
13350263 GAAACAAG-AA-AAAAAAAA
1 GAAACAAGCAACAAAAAAAA
13350281 GAAACAAGCAACAAAAAAAA
1 GAAACAAGCAACAAAAAAAA
13350301 TTTAAGCTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 2 0.11
20 8 0.44
ACGTcount: A:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (20 bp):
GAAACAAGCAACAAAAAAAA
Found at i:13351661 original size:17 final size:17
Alignment explanation
Indices: 13351617--13351663 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
13351607 TCTAATCTGA
*
13351617 CTAAAATTTTTTTACCT
1 CTAAAGTTTTTTTACCT
* *
13351634 CTATAGCTTTTTTACCGT
1 CTAAAGTTTTTTTACC-T
13351652 C-AAAGTTTTTTT
1 CTAAAGTTTTTTT
13351664 TACACTCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.53
Consensus pattern (17 bp):
CTAAAGTTTTTTTACCT
Found at i:13361712 original size:25 final size:24
Alignment explanation
Indices: 13361662--13361714 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
13361652 TAAATATTAA
*
13361662 AAATAAAAATAATAAAATGTAAAAT
1 AAATAAAAACAATAAAATGT-AAAT
13361687 AAATAAATAACAATAAAATTGT-AAT
1 AAATAAA-AACAATAAAA-TGTAAAT
13361712 AAA
1 AAA
13361715 AAGAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 13 0.52
26 9 0.36
27 3 0.12
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (24 bp):
AAATAAAAACAATAAAATGTAAAT
Found at i:13361911 original size:24 final size:24
Alignment explanation
Indices: 13361865--13361947 Score: 89
Period size: 24 Copynumber: 3.4 Consensus size: 24
13361855 ATGAAACCTA
**
13361865 AAACCCTAAAAAATAACCTTAAATG
1 AAACCCTAAATGA-AACCTTAAATG
*
13361890 AAACTCTAAATGAAACCTTAAATTG
1 AAACCCTAAATGAAACCTTAAA-TG
13361915 -AACCCTAAATGAAA-CTATAAATG
1 AAACCCTAAATGAAACCT-TAAATG
*
13361938 AAACCTTAAA
1 AAACCCTAAA
13361948 CTTAGGTGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.08
24 34 0.68
25 12 0.24
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.23
Consensus pattern (24 bp):
AAACCCTAAATGAAACCTTAAATG
Found at i:13361925 original size:36 final size:36
Alignment explanation
Indices: 13361879--13361947 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
13361869 CCTAAAAAAT
* *
13361879 AACCTTAAATGAAACTCTAAATGAAACCTTAAATTG
1 AACCCTAAATGAAACTATAAATGAAACCTTAAATTG
13361915 AACCCTAAATGAAACTATAAATGAAACCTTAAA
1 AACCCTAAATGAAACTATAAATGAAACCTTAAA
13361948 CTTAGGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (36 bp):
AACCCTAAATGAAACTATAAATGAAACCTTAAATTG
Found at i:13361947 original size:12 final size:12
Alignment explanation
Indices: 13361879--13361947 Score: 81
Period size: 12 Copynumber: 5.8 Consensus size: 12
13361869 CCTAAAAAAT
13361879 AACCTTAAATGA
1 AACCTTAAATGA
13361891 AA-CTCTAAATGA
1 AACCT-TAAATGA
13361903 AACCTTAAATTG-
1 AACCTTAAA-TGA
*
13361915 AACCCTAAATGA
1 AACCTTAAATGA
13361927 AA-CTATAAATGA
1 AACCT-TAAATGA
13361939 AACCTTAAA
1 AACCTTAAA
13361948 CTTAGGTGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
11 5 0.10
12 38 0.78
13 6 0.12
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (12 bp):
AACCTTAAATGA
Found at i:13362188 original size:17 final size:18
Alignment explanation
Indices: 13362161--13362194 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13362151 CCTTAATCTA
*
13362161 AAAATAATAAAATTAAAT
1 AAAATAATAAAAATAAAT
13362179 AAAA-AATAAAAATAAA
1 AAAATAATAAAAATAAA
13362195 AATGAGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATAATAAAAATAAAT
Found at i:13362196 original size:13 final size:13
Alignment explanation
Indices: 13362159--13362196 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13362149 TTCCTTAATC
13362159 TAAAAATAATAAAA
1 TAAAAATAA-AAAA
*
13362173 T-TAAATAAAAAA
1 TAAAAATAAAAAA
13362185 TAAAAATAAAAA
1 TAAAAATAAAAA
13362197 TGAGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.24
13 15 0.71
14 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:13365834 original size:15 final size:15
Alignment explanation
Indices: 13365811--13365869 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
13365801 AATTAAATAA
*
13365811 CTATGTACACTAAAG
1 CTATCTACACTAAAG
*
13365826 CTATCTACACT-AAC
1 CTATCTACACTAAAG
* *
13365840 CTATCTACATTAAAA
1 CTATCTACACTAAAG
* *
13365855 CTATGTAAACTAAAG
1 CTATCTACACTAAAG
13365870 GTTGAGCTAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 12 0.34
15 23 0.66
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (15 bp):
CTATCTACACTAAAG
Found at i:13365853 original size:29 final size:29
Alignment explanation
Indices: 13365804--13365867 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
13365794 AAACATGAAT
* *
13365804 TAAA-TAA-CTATGTACACTAAAGCTATC
1 TAAACTAACCTATCTACACTAAAACTATC
* * *
13365831 TACACTAACCTATCTACATTAAAACTATG
1 TAAACTAACCTATCTACACTAAAACTATC
13365860 TAAACTAA
1 TAAACTAA
13365868 AGGTTGAGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 3 0.10
28 3 0.10
29 23 0.79
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (29 bp):
TAAACTAACCTATCTACACTAAAACTATC
Found at i:13375385 original size:9 final size:10
Alignment explanation
Indices: 13375367--13375396 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13375357 TAGTGATGTG
13375367 AAAAGCAAAA
1 AAAAGCAAAA
*
13375377 AAAAGAAAAA
1 AAAAGCAAAA
13375387 AAAAGCAAAA
1 AAAAGCAAAA
13375397 GCAAGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:13392959 original size:17 final size:17
Alignment explanation
Indices: 13392924--13392956 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13392914 ATTATTATTG
*
13392924 TTATTATTATTCTATAA
1 TTATTATTATGCTATAA
13392941 TTATTATTATGC-ATAA
1 TTATTATTATGCTATAA
13392957 ATTTAAAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (17 bp):
TTATTATTATGCTATAA
Found at i:13393636 original size:91 final size:92
Alignment explanation
Indices: 13393509--13393699 Score: 278
Period size: 91 Copynumber: 2.1 Consensus size: 92
13393499 TGGCTTTCTT
* *
13393509 TTTTCTTTAATATTTTCTTCTATTCTTCAATCTTAAAAATCATGCAACCCATGTAGCCCCACAAA
1 TTTT-TTTAATATTTTCTTCTATTCTTCAATCTTAAAAATCATGCAA-CCATATAACCCCACAAA
*
13393574 ACTTTGTTTTCTTCTTTACATGACTTT-C
64 ACCTTGTTTTCTTCTTTACATGACTTTCC
* * *
13393602 TTTTTTTAATA-TTTCTTTTATTCTTCAATCTTAAAAGTCATGCAACCATATAACCCCACAAAGC
1 TTTTTTTAATATTTTCTTCTATTCTTCAATCTTAAAAATCATGCAACCATATAACCCCACAAAAC
**
13393666 CTTGTTTTCTTCTTTACATGGTTTTCC
66 CTTGTTTTCTTCTTTACATGACTTTCC
13393693 TTTTTTT
1 TTTTTTT
13393700 TTTTTTTCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
90 38 0.43
91 40 0.45
92 7 0.08
93 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.48
Consensus pattern (92 bp):
TTTTTTTAATATTTTCTTCTATTCTTCAATCTTAAAAATCATGCAACCATATAACCCCACAAAAC
CTTGTTTTCTTCTTTACATGACTTTCC
Found at i:13395643 original size:15 final size:14
Alignment explanation
Indices: 13395622--13395682 Score: 61
Period size: 15 Copynumber: 4.2 Consensus size: 14
13395612 GTTTCTTTCC
13395622 TTTTTTTTTGTTTT
1 TTTTTTTTTGTTTT
13395636 TCTTTTTTTTGGTTTT
1 T-TTTTTTTT-GTTTT
* *
13395652 TTGTTTTTTG-ATT
1 TTTTTTTTTGTTTT
*
13395665 TTATTTTTTGATTTT
1 TTTTTTTTTG-TTTT
13395680 TTT
1 TTT
13395683 AATTTTTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 11 0.29
14 2 0.05
15 19 0.50
16 6 0.16
ACGTcount: A:0.05, C:0.02, G:0.10, T:0.84
Consensus pattern (14 bp):
TTTTTTTTTGTTTT
Found at i:13395652 original size:17 final size:16
Alignment explanation
Indices: 13395621--13395666 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
13395611 TGTTTCTTTC
*
13395621 CTTTTTTTTTGTTTTT
1 CTTTTTTTTGGTTTTT
13395637 CTTTTTTTTGGTTTTT
1 CTTTTTTTTGGTTTTT
* *
13395653 -TGTTTTTTGATTTT
1 CTTTTTTTTGGTTTT
13395667 ATTTTTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.02, C:0.04, G:0.11, T:0.83
Consensus pattern (16 bp):
CTTTTTTTTGGTTTTT
Found at i:13395660 original size:7 final size:7
Alignment explanation
Indices: 13395625--13395681 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
13395615 TCTTTCCTTT
13395625 TTTTTTG
1 TTTTTTG
*
13395632 TTTTTCTT
1 TTTTT-TG
13395640 TTTTTTGG
1 TTTTTT-G
13395648 TTTTTTG
1 TTTTTTG
13395655 TTTTTTG
1 TTTTTTG
* *
13395662 -ATTTTA
1 TTTTTTG
13395668 TTTTTTG
1 TTTTTTG
13395675 ATTTTTT
1 -TTTTTT
13395682 TAATTTTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
6 4 0.10
7 18 0.45
8 18 0.45
ACGTcount: A:0.05, C:0.02, G:0.11, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:13395766 original size:36 final size:34
Alignment explanation
Indices: 13395726--13395918 Score: 156
Period size: 36 Copynumber: 5.4 Consensus size: 34
13395716 CTACAAGTTG
*
13395726 AAAAAATAAAGATGATCGGGACAACATCGTAGGTAA
1 AAAAAATAAA-ATGATCGGGACAACATCGTAGGT-C
* **
13395762 AAAAAATAAATATGATCGAGACAACATCACAGGTC
1 AAAAAATAAA-ATGATCGGGACAACATCGTAGGTC
**
13395797 AAAAAATAAAAATGATAAGGACAACATCGTAGGTC
1 AAAAAAT-AAAATGATCGGGACAACATCGTAGGTC
* *
13395832 AAAAAATAAAATTGATCGGGAAAACA-C-TAGCGGTTG
1 AAAAAATAAAA-TGATCGGGACAACATCGTA--GG-TC
* * * **
13395868 AAAAAACAAACATGATCAGGACAACACCACAGGTC
1 AAAAAATAAA-ATGATCGGGACAACATCGTAGGTC
*
13395903 AGAAAATAAAAATGAT
1 AAAAAAT-AAAATGAT
13395919 TGAAATAATA
Statistics
Matches: 127, Mismatches: 21, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
33 2 0.02
34 5 0.04
35 57 0.45
36 60 0.47
37 2 0.02
38 1 0.01
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (34 bp):
AAAAAATAAAATGATCGGGACAACATCGTAGGTC
Found at i:13395812 original size:35 final size:35
Alignment explanation
Indices: 13395726--13395918 Score: 151
Period size: 35 Copynumber: 5.5 Consensus size: 35
13395716 CTACAAGTTG
* * ** *
13395726 AAAAAATAAAGATGATCGGGACAACATCGTAGGTAA
1 AAAAAATAAAAATGATCGAGACAACATCACAGGT-C
*
13395762 AAAAAATAAATATGATCGAGACAACATCACAGGTC
1 AAAAAATAAAAATGATCGAGACAACATCACAGGTC
* **
13395797 AAAAAATAAAAATGAT-AAGGACAACATCGTAGGTC
1 AAAAAATAAAAATGATCGA-GACAACATCACAGGTC
* * * *
13395832 AAAAAATAAAATTGATCGGGAAAACA-CTAGC-GGTTG
1 AAAAAATAAAAATGATCGAGACAACATC-A-CAGG-TC
* * *
13395868 AAAAAACAAACATGATC-AGGACAACACCACAGGTC
1 AAAAAATAAAAATGATCGA-GACAACATCACAGGTC
*
13395903 AGAAAATAAAAATGAT
1 AAAAAATAAAAATGAT
13395919 TGAAATAATA
Statistics
Matches: 124, Mismatches: 25, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
34 2 0.02
35 67 0.54
36 54 0.44
37 1 0.01
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (35 bp):
AAAAAATAAAAATGATCGAGACAACATCACAGGTC
Found at i:13395872 original size:71 final size:71
Alignment explanation
Indices: 13395722--13395953 Score: 213
Period size: 71 Copynumber: 3.3 Consensus size: 71
13395712 AGCACTACAA
* * * *
13395722 GTTGAAAAAATAAAGATGATCGGGACAACATCGTAGGT-AAAAAAAATAAATATGATCGAGACAA
1 GTTGAAAAAATAAAAATGATCAGGACAACATCGTAGGTCAAAAAATA-AAAT-TGATCGAGAAAA
13395786 CATCACAG
64 CATCACAG
* * *
13395794 G-TCAAAAAATAAAAATGATAAGGACAACATCGTAGGTCAAAAAATAAAATTGATCGGGAAAACA
1 GTTGAAAAAATAAAAATGATCAGGACAACATCGTAGGTCAAAAAATAAAATTGATCGAGAAAACA
13395858 -CTAGC-G
66 TC-A-CAG
* * * ** * * * *
13395864 GTTGAAAAAACAAACATGATCAGGACAACACCACAGGTCAGAAAATAAAAATGATTGA-AATAAT
1 GTTGAAAAAATAAAAATGATCAGGACAACATCGTAGGTCAAAAAATAAAATTGATCGAGAA-AAC
* *
13395928 ACCGCAG
65 ATCACAG
*
13395935 GTTAAAAAAATAAAAATGA
1 GTTGAAAAAATAAAAATGA
13395954 CTAAGACAAT
Statistics
Matches: 130, Mismatches: 23, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
69 1 0.01
70 18 0.14
71 102 0.78
72 9 0.07
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.17
Consensus pattern (71 bp):
GTTGAAAAAATAAAAATGATCAGGACAACATCGTAGGTCAAAAAATAAAATTGATCGAGAAAACA
TCACAG
Found at i:13397206 original size:18 final size:19
Alignment explanation
Indices: 13397178--13397221 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
13397168 AGTCTGAATC
13397178 ATTTC-TTTTTC-CCTTTT
1 ATTTCTTTTTTCTCCTTTT
*
13397195 ATTTCTTTTTTCTTCTTTT
1 ATTTCTTTTTTCTCCTTTT
13397214 -TTTCTTTT
1 ATTTCTTTT
13397222 GATTGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 14 0.58
19 5 0.21
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (19 bp):
ATTTCTTTTTTCTCCTTTT
Found at i:13397245 original size:7 final size:8
Alignment explanation
Indices: 13397228--13397300 Score: 53
Period size: 8 Copynumber: 8.9 Consensus size: 8
13397218 TTTTGATTGA
13397228 TTTATTTT
1 TTTATTTT
13397236 TTTATTTT
1 TTTATTTT
*
13397244 TTTGTTTT
1 TTTATTTT
13397252 ATATTATTTT
1 -T-TTATTTT
*
13397262 GTTTCA--AT
1 -TTT-ATTTT
*
13397270 TTAATTTT
1 TTTATTTT
13397278 TTGT-TTTT
1 TT-TATTTT
13397286 TTTATTTT
1 TTTATTTT
13397294 TTTATTT
1 TTTATTT
13397301 GAATTTTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
6 1 0.02
7 3 0.06
8 36 0.71
9 3 0.06
10 8 0.16
ACGTcount: A:0.15, C:0.01, G:0.04, T:0.79
Consensus pattern (8 bp):
TTTATTTT
Found at i:13397251 original size:15 final size:15
Alignment explanation
Indices: 13397233--13397296 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
13397223 ATTGATTTAT
13397233 TTTTTTATTTTTTTG
1 TTTTTTATTTTTTTG
* *
13397248 TTTTATATTATTTTG
1 TTTTTTATTTTTTTG
*
13397263 TTTCAATTTAATTTTTTGTT
1 TTT---TTT-ATTTTTT-TG
13397283 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
13397297 ATTTGAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
15 17 0.44
16 7 0.18
17 3 0.08
18 2 0.05
19 6 0.15
20 4 0.10
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (15 bp):
TTTTTTATTTTTTTG
Found at i:13397306 original size:35 final size:34
Alignment explanation
Indices: 13397239--13397310 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
13397229 TTATTTTTTT
*
13397239 ATTTTTTTGTTTTATATTATTTTGTTTCAATTTA
1 ATTTTTTTGTTTTATATTATTTTATTTCAATTTA
*
13397273 A-TTTTTTGTTTT-TTTTATTTT-TTT--ATTTGA
1 ATTTTTTTGTTTTATATTATTTTATTTCAATTT-A
13397303 ATTTTTTT
1 ATTTTTTT
13397311 AACTGAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
29 4 0.11
30 2 0.06
31 9 0.26
32 8 0.23
33 11 0.31
34 1 0.03
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.76
Consensus pattern (34 bp):
ATTTTTTTGTTTTATATTATTTTATTTCAATTTA
Found at i:13409403 original size:88 final size:90
Alignment explanation
Indices: 13409213--13409416 Score: 263
Period size: 87 Copynumber: 2.3 Consensus size: 90
13409203 CTCTCCATGC
*
13409213 CATGGCTTTCTTTTTCTAATATTTTCTTTTATTCTTCAATCCTAAAAATCATGCAACCCATGTAG
1 CATGGCTTT-TTTTT-TAATATTTTCTTATATTCTTCAATCCTAAAAATCATGCAACCCATGTAG
** *
13409278 CCCCACCAAACTTTGTTTTCTTCTTTG
64 CCCCACCAAACTTTGAATTCTTCTTTA
* * *
13409305 CATGGC-TTTTTTTTAATA-TTTCTTATATTCTTCAATCTTAAAAGTCATGCAA-TCATGTAGCC
1 CATGGCTTTTTTTTTAATATTTTCTTATATTCTTCAATCCTAAAAATCATGCAACCCATGTAGCC
*
13409367 CCA-TAAAGCTTTGAATTCTTCTTTA
66 CCACCAAA-CTTTGAATTCTTCTTTA
*
13409392 CATGGCTTTTTTTTTTAACATTTTC
1 CATGGC-TTTTTTTTTAATATTTTC
13409417 ATGCTATATG
Statistics
Matches: 99, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
86 3 0.03
87 32 0.32
88 31 0.31
89 16 0.16
90 9 0.09
91 2 0.02
92 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (90 bp):
CATGGCTTTTTTTTTAATATTTTCTTATATTCTTCAATCCTAAAAATCATGCAACCCATGTAGCC
CCACCAAACTTTGAATTCTTCTTTA
Found at i:13415341 original size:15 final size:17
Alignment explanation
Indices: 13415321--13415354 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
13415311 ATCAAAATTA
13415321 ATTTGA-CATTAAA-AT
1 ATTTGACCATTAAATAT
13415336 ATTTGACCATTAAATAT
1 ATTTGACCATTAAATAT
13415353 AT
1 AT
13415355 ATATTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 7 0.41
17 4 0.24
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTGACCATTAAATAT
Found at i:13428422 original size:10 final size:10
Alignment explanation
Indices: 13428407--13428444 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
13428397 AACACAATAA
13428407 TCATTTTCTT
1 TCATTTTCTT
13428417 TCATTTTCTT
1 TCATTTTCTT
*
13428427 AT-ATTTTCTC
1 -TCATTTTCTT
13428437 TCATTTTC
1 TCATTTTC
13428445 CTAGACTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (10 bp):
TCATTTTCTT
Found at i:13428454 original size:20 final size:20
Alignment explanation
Indices: 13428411--13428455 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13428401 CAATAATCAT
* * * *
13428411 TTTCTTTCATTTTCTTATAT
1 TTTCTCTCATTTTCCTAGAC
13428431 TTTCTCTCATTTTCCTAGAC
1 TTTCTCTCATTTTCCTAGAC
13428451 TTTCT
1 TTTCT
13428456 TGGTAATCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.13, C:0.22, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTCTCTCATTTTCCTAGAC
Found at i:13436854 original size:70 final size:71
Alignment explanation
Indices: 13436720--13436855 Score: 188
Period size: 70 Copynumber: 1.9 Consensus size: 71
13436710 CTATTTTGGA
* *
13436720 TATTGCATTTGCAACATTATTTGAACCATGCATTTGCATCATTTTATGAGCATTTGAATTATTGT
1 TATTGCATTTGCAACATTATTAGAACCATGCATTTGCATCATTTTATGAGCATTTGAATCATTGT
13436785 TTAGAT
66 TTAGAT
* **
13436791 TATTGCATTTGCATCATTACTTAG-A-CATGCATTTGCATCATTTTACT-AGCATTTGTGTCATT
1 TATTGCATTTGCAACATTA-TTAGAACCATGCATTTGCATCATTTTA-TGAGCATTTGAATCATT
13436853 GTT
64 GTT
13436856 AGAATCATGC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
70 35 0.60
71 20 0.34
72 3 0.05
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (71 bp):
TATTGCATTTGCAACATTATTAGAACCATGCATTTGCATCATTTTATGAGCATTTGAATCATTGT
TTAGAT
Found at i:13436885 original size:70 final size:70
Alignment explanation
Indices: 13436746--13436877 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
13436736 TTATTTGAAC
* * **
13436746 CATGCATTTGCATCATTTTATGAGCATTTGAATTATTGTTTAGATTATTGCATTTGCATCATTAC
1 CATGCATTTGCATCATTTTATGAGCATTTGAATCATTGTTTAGATCATTGCATTTAAATCATTAC
13436811 TTAGA
66 TTAGA
**
13436816 CATGCATTTGCATCATTTTACT-AGCATTTGTGTCATTG-TTAGAATCA-TGCATTTAAATCATT
1 CATGCATTTGCATCATTTTA-TGAGCATTTGAATCATTGTTTAG-ATCATTGCATTTAAATCATT
13436878 TAGTTAGAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
69 17 0.31
70 36 0.67
71 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (70 bp):
CATGCATTTGCATCATTTTATGAGCATTTGAATCATTGTTTAGATCATTGCATTTAAATCATTAC
TTAGA
Found at i:13438049 original size:30 final size:30
Alignment explanation
Indices: 13438015--13438081 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
13438005 ATCTCTAAAT
*
13438015 TTTAATTTGCACCCAAATAA-ACCTTTAACC
1 TTTAATTTGCACCAAAATAAGACCTTT-ACC
* * *
13438045 TTTAATTTTCACCAAAATAAGTCCTTTACT
1 TTTAATTTGCACCAAAATAAGACCTTTACC
13438075 TTTAATT
1 TTTAATT
13438082 GATATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (30 bp):
TTTAATTTGCACCAAAATAAGACCTTTACC
Found at i:13438408 original size:18 final size:17
Alignment explanation
Indices: 13438387--13438446 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
13438377 TTTTTTAGTG
13438387 ATTTTTTTTCTATTTTTT
1 ATTTTTTTTCT-TTTTTT
13438405 ATTTTTTTGTC---TTTT
1 ATTTTTTT-TCTTTTTTT
*
13438420 ATTTTTTTTCCTTTTTTA
1 ATTTTTTTT-CTTTTTTT
13438438 ATTTTTTTT
1 ATTTTTTTT
13438447 TATTCGCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 1 0.03
15 13 0.36
18 20 0.56
19 2 0.06
ACGTcount: A:0.10, C:0.07, G:0.02, T:0.82
Consensus pattern (17 bp):
ATTTTTTTTCTTTTTTT
Found at i:13438409 original size:17 final size:17
Alignment explanation
Indices: 13438389--13438450 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
13438379 TTTTAGTGAT
13438389 TTTTTTTCTATTTTTTA
1 TTTTTTTCTATTTTTTA
* *
13438406 TTTTTTTGTCTTTTATT-
1 TTTTTTTCTATTTT-TTA
* *
13438423 TTTTTTCCT-TTTTTAA
1 TTTTTTTCTATTTTTTA
*
13438439 TTTTTTTTTATT
1 TTTTTTTCTATT
13438451 CGCTTATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 1 0.03
16 11 0.31
17 21 0.60
18 2 0.06
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTTTTCTATTTTTTA
Found at i:13438598 original size:26 final size:25
Alignment explanation
Indices: 13438548--13438608 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
13438538 TGAGTTATTT
13438548 TTGCATGA--TTTATTTTATATATA
1 TTGCATGATTTTTATTTTATATATA
* *
13438571 TTTGCATTATTTTTATTTTGGTAT-TA
1 -TTGCATGATTTTTATTTT-ATATATA
13438597 TTGCATGATTTT
1 TTGCATGATTTT
13438609 ATTATGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 10 0.32
27 3 0.10
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (25 bp):
TTGCATGATTTTTATTTTATATATA
Found at i:13438615 original size:11 final size:11
Alignment explanation
Indices: 13438601--13438657 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
13438591 GTATTATTGC
13438601 ATGATTTTATT
1 ATGATTTTATT
13438612 ATGATATTTTTATT
1 ATG--A-TTTTATT
* *
13438626 ATAATATTATTGT
1 ATGATTTTA-T-T
13438639 ATGATTTTATT
1 ATGATTTTATT
13438650 ATGATTTT
1 ATGATTTT
13438658 TTTGCATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
11 16 0.43
12 3 0.08
13 9 0.24
14 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (11 bp):
ATGATTTTATT
Found at i:13438619 original size:24 final size:23
Alignment explanation
Indices: 13438543--13438619 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 23
13438533 TGCTATGAGT
* *
13438543 TATTTTTGCATGA-TTTATTTTA
1 TATTATTGCATGATTTTATTTGA
* *
13438565 TATATATTTGCATTATTTTTATTTTGG
1 TAT-TA-TTGCATGA-TTTTA-TTTGA
13438592 TATTATTGCATGATTTTATTATGA
1 TATTATTGCATGATTTTATT-TGA
13438616 TATT
1 TATT
13438620 TTTATTATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 3 0.07
23 3 0.07
24 18 0.42
25 7 0.16
26 6 0.14
27 6 0.14
ACGTcount: A:0.25, C:0.04, G:0.10, T:0.61
Consensus pattern (23 bp):
TATTATTGCATGATTTTATTTGA
Found at i:13438622 original size:38 final size:38
Alignment explanation
Indices: 13438578--13438660 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
13438568 ATATTTGCAT
* **
13438578 TATTTTTATTTTGGTATTATTGCATGATTTTATTATGA
1 TATTTTTATTATAATATTATTGCATGATTTTATTATGA
*
13438616 TATTTTTATTATAATATTATTGTATGATTTTATTATGA
1 TATTTTTATTATAATATTATTGCATGATTTTATTATGA
*
13438654 TTTTTTT
1 TATTTTT
13438661 GCATAATATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.25, C:0.01, G:0.10, T:0.64
Consensus pattern (38 bp):
TATTTTTATTATAATATTATTGCATGATTTTATTATGA
Found at i:13438651 original size:24 final size:24
Alignment explanation
Indices: 13438619--13438710 Score: 75
Period size: 24 Copynumber: 4.0 Consensus size: 24
13438609 ATTATGATAT
*
13438619 TTTTATTATAATATTATTGTATGA
1 TTTTATTATAATATTTTTGTATGA
* * * *
13438643 TTTTATTATGATTTTTTTGCATAA
1 TTTTATTATAATATTTTTGTATGA
* * *
13438667 TATT-GTCT-A-ATTTTT-TATGA
1 TTTTATTATAATATTTTTGTATGA
*
13438687 TTTTTTTATAATATTTTTGTATGA
1 TTTTATTATAATATTTTTGTATGA
13438711 CATTATTTTG
Statistics
Matches: 50, Mismatches: 14, Indels: 8
0.69 0.19 0.11
Matches are distributed among these distances:
20 6 0.12
21 7 0.14
22 2 0.04
23 8 0.16
24 27 0.54
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.62
Consensus pattern (24 bp):
TTTTATTATAATATTTTTGTATGA
Found at i:13438680 original size:34 final size:31
Alignment explanation
Indices: 13438633--13438701 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 31
13438623 ATTATAATAT
*
13438633 TATTGTATGATTTTATTATGATTTTTTTGCATAA
1 TATTGTATAATTTT-TTATGATTTTTTT--ATAA
*
13438667 TATTGTCTAATTTTTTATGATTTTTTTATAA
1 TATTGTATAATTTTTTATGATTTTTTTATAA
13438698 TATT
1 TATT
13438702 TTTGTATGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 8 0.24
33 13 0.39
34 12 0.36
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (31 bp):
TATTGTATAATTTTTTATGATTTTTTTATAA
Found at i:13440874 original size:22 final size:21
Alignment explanation
Indices: 13440838--13440878 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13440828 AAAACATGGA
13440838 AAAAAAAATTACTAAGAGTTTT
1 AAAAAAAATTACTAA-AGTTTT
* *
13440860 AAAAAATATTTCTAAAGTT
1 AAAAAAAATTACTAAAGTT
13440879 GAAAGGATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
AAAAAAAATTACTAAAGTTTT
Found at i:13443386 original size:24 final size:23
Alignment explanation
Indices: 13443354--13443437 Score: 96
Period size: 24 Copynumber: 3.6 Consensus size: 23
13443344 TCAAATGATA
*
13443354 TTATAATATTATTACATGATTTT
1 TTATAATATTTTTACATGATTTT
* * *
13443377 ATTATGATATTTTTGCATGATATT
1 -TTATAATATTTTTACATGATTTT
*
13443401 TTATAATATTTTTTCATGATATTT
1 TTATAATATTTTTACATGAT-TTT
*
13443425 TTATACTATTTTT
1 TTATAATATTTTT
13443438 GTATAAAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
23 18 0.35
24 33 0.65
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.60
Consensus pattern (23 bp):
TTATAATATTTTTACATGATTTT
Found at i:13443388 original size:13 final size:12
Alignment explanation
Indices: 13443372--13443426 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
13443362 TTATTACATG
13443372 ATTTTATTATGAT
1 ATTTT-TTATGAT
*
13443385 ATTTTTGCATGAT
1 ATTTTT-TATGAT
*
13443398 A--TTTTATAAT
1 ATTTTTTATGAT
13443408 ATTTTTTCATGAT
1 ATTTTTT-ATGAT
13443421 ATTTTT
1 ATTTTT
13443427 ATACTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 5 0.15
11 3 0.09
12 5 0.15
13 21 0.62
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (12 bp):
ATTTTTTATGAT
Found at i:13444596 original size:45 final size:45
Alignment explanation
Indices: 13444459--13444691 Score: 231
Period size: 45 Copynumber: 5.2 Consensus size: 45
13444449 ATGAATTTTA
* * * *
13444459 GAATTTTAGATATAAATCTCT-AAATTTTTTCAAATGCAAACCTTT
1 GAATTTTAGATGTGAATCTATAAAATTTTTT-AAATGCAAATCTTT
* * * * *
13444504 GAATTGTGGATGT-AAACCACTAAAATTGTTTTAAATGCTAA-CTTTT
1 GAATTTTAGATGTGAATCTA-TAAAATT-TTTTAAATGCAAATC-TTT
* *
13444550 GAATTTTATATGTGAATCTATAAAATTTTTTAAATACAAATCTTT
1 GAATTTTAGATGTGAATCTATAAAATTTTTTAAATGCAAATCTTT
* ** *
13444595 GAATTTTAGTTGTGAATCTCCAAAA-TTTTTAAATGTAAATCTTT
1 GAATTTTAGATGTGAATCTATAAAATTTTTTAAATGCAAATCTTT
* * **
13444639 GAATTTTAGATGTGAATCTCTAAAATTTTTCAAATGTGAATCTTT
1 GAATTTTAGATGTGAATCTATAAAATTTTTTAAATGCAAATCTTT
13444684 GAATTTTA
1 GAATTTTA
13444692 AATATACATG
Statistics
Matches: 157, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
44 43 0.27
45 72 0.46
46 34 0.22
47 8 0.05
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (45 bp):
GAATTTTAGATGTGAATCTATAAAATTTTTTAAATGCAAATCTTT
Found at i:13444652 original size:89 final size:91
Alignment explanation
Indices: 13444452--13444691 Score: 272
Period size: 89 Copynumber: 2.6 Consensus size: 91
13444442 ATCAATTATG
* * * * *
13444452 AATTTTAGAATTTTAGATATAAATCTCT-AAATTTTTTCAAATGCAAACCTTTGAATTGTGGATG
1 AATTTT-GAATTTTAGATGTGAATCTCTAAAATTTTTT-AAATGCAAATCTTTGAATTTTAGATG
*
13444516 TAAACCACTAAAATTGTTTTAAATGCTA
64 TAAACCACCAAAATTGTTTTAAATGCTA
* * * * * *
13444544 ACTTTTGAATTTTATATGTGAATCTATAAAATTTTTTAAATACAAATCTTTGAATTTTAGTTGTG
1 AATTTTGAATTTTAGATGTGAATCTCTAAAATTTTTTAAATGCAAATCTTTGAATTTTAGATGTA
* *
13444609 AATCTCCAAAA-T-TTTTAAATG-TA
66 AACCACCAAAATTGTTTTAAATGCTA
* **
13444632 AATCTTTGAATTTTAGATGTGAATCTCTAAAATTTTTCAAATGTGAATCTTTGAATTTTA
1 AAT-TTTGAATTTTAGATGTGAATCTCTAAAATTTTTTAAATGCAAATCTTTGAATTTTA
13444692 AATATACATG
Statistics
Matches: 125, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
88 4 0.03
89 59 0.47
90 1 0.01
91 47 0.38
92 14 0.11
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.44
Consensus pattern (91 bp):
AATTTTGAATTTTAGATGTGAATCTCTAAAATTTTTTAAATGCAAATCTTTGAATTTTAGATGTA
AACCACCAAAATTGTTTTAAATGCTA
Found at i:13444738 original size:20 final size:20
Alignment explanation
Indices: 13444713--13444844 Score: 128
Period size: 20 Copynumber: 6.7 Consensus size: 20
13444703 TTAAAATTTA
*
13444713 TTTGCAAATTTTTGAACTCC
1 TTTGCAAATTTTTGAACTCT
* *
13444733 TTTGCAATTTTTTGAACTTT
1 TTTGCAAATTTTTGAACTCT
*** *
13444753 TTTTTGAATTTTTGAAATTCT
1 TTTGCAAATTTTTG-AACTCT
*
13444774 TTTGCAAATATTTG-ACTTCT
1 TTTGCAAATTTTTGAAC-TCT
13444794 TTTGCAAATTTTTGAA--CT
1 TTTGCAAATTTTTGAACTCT
*
13444812 TTTGCAAAATTTTGAACT-T
1 TTTGCAAATTTTTGAACTCT
13444831 ATTTGCAAATTTTT
1 -TTTGCAAATTTTT
13444845 TATTTTTAAT
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
18 17 0.19
19 2 0.02
20 55 0.62
21 15 0.17
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTGCAAATTTTTGAACTCT
Found at i:13444896 original size:20 final size:20
Alignment explanation
Indices: 13444873--13444910 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13444863 TTGAATTTAT
*
13444873 TTGCAAATGTTTAAATTTCA
1 TTGCAAATCTTTAAATTTCA
*
13444893 TTGCAAATCTTTTAATTT
1 TTGCAAATCTTTAAATTT
13444911 ATTTATGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (20 bp):
TTGCAAATCTTTAAATTTCA
Found at i:13446586 original size:34 final size:34
Alignment explanation
Indices: 13446548--13446630 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
13446538 TTGTATGCAA
* *
13446548 AAATGCCACTAAATTTAGTAGCATTTTTTACTAC
1 AAATGCCACTAAATTTAATAGCATTTTTCACTAC
*
13446582 AAATGCAACTAAATTTAATAGCATTTTTCACTAC
1 AAATGCCACTAAATTTAATAGCATTTTTCACTAC
*
13446616 AAATGTCACTAAATT
1 AAATGCCACTAAATT
13446631 AGAAATTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (34 bp):
AAATGCCACTAAATTTAATAGCATTTTTCACTAC
Found at i:13449232 original size:14 final size:15
Alignment explanation
Indices: 13449205--13449233 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13449195 TACTTTTATT
13449205 ATTTATTATTTTTAA
1 ATTTATTATTTTTAA
13449220 ATTTATT-TTTTTAA
1 ATTTATTATTTTTAA
13449234 CAAAACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTATTATTTTTAA
Found at i:13449651 original size:16 final size:17
Alignment explanation
Indices: 13449615--13449656 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
13449605 AACTAGTGTG
13449615 CATAAAAAATAAATTGA
1 CATAAAAAATAAATTGA
*
13449632 -ATAAAAAAT-AATTTA
1 CATAAAAAATAAATTGA
*
13449647 CATAATAAAT
1 CATAAAAAAT
13449657 TGCATGGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (17 bp):
CATAAAAAATAAATTGA
Found at i:13450025 original size:95 final size:94
Alignment explanation
Indices: 13449846--13450032 Score: 288
Period size: 95 Copynumber: 2.0 Consensus size: 94
13449836 AACGTTGAAA
* * *
13449846 TCATGTCATTTTTAAGCTTTCTTTACCATGTAGGAAAAAAGTATGAAAGTTTTAAGCTTTCTTCA
1 TCATGTCATTTTCAAGCTTACTTTACCATGTAGGAAAAAAGTATGAAAGCTTTAAGCTTTCTTCA
*
13449911 CGATGGAAACTTTTTTTATTATTATTAAGC
66 CAAT-GAAACTTTTTTTATTATTATTAAGC
13449941 TCATGTCATTTTCAAGCTTACTTTACCATGTAGGAAAAAA-TATGAAAGCTTTAAGCTTTCTTCA
1 TCATGTCATTTTCAAGCTTACTTTACCATGTAGGAAAAAAGTATGAAAGCTTTAAGCTTTCTTCA
13450005 CAAT-AAGACCTTTTTATTATTATTATTA
66 CAATGAA-A-CTTTTT-TTATTATTATTA
13450033 TTAAGCTTAA
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
92 2 0.02
93 1 0.01
94 32 0.38
95 50 0.59
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (94 bp):
TCATGTCATTTTCAAGCTTACTTTACCATGTAGGAAAAAAGTATGAAAGCTTTAAGCTTTCTTCA
CAATGAAACTTTTTTTATTATTATTAAGC
Found at i:13450621 original size:94 final size:95
Alignment explanation
Indices: 13450449--13450639 Score: 298
Period size: 95 Copynumber: 2.0 Consensus size: 95
13450439 AACCTTGAAA
* * *
13450449 TCATGTCATTTTTAAGCTATCTTTATCATGTAGGAAAAAAGTATGAAAGTTTTAAGCTTTCTTCA
1 TCATGTCATTTTCAAGCTATCTTTACCATGTAGGAAAAAAGTATGAAAGCTTTAAGCTTTCTTCA
13450514 CGATGGAAACTTTTTTTT-TTATTATTAAGC
66 CGAT-GAAACTTTTTTTTATTATTATTAAGC
*
13450544 TCATGTCATTTTCAAGCTTTCTTTACCATGTAGG-AAAAAGTATGAAAGCTTTAAGCTTTCTTCA
1 TCATGTCATTTTCAAGCTATCTTTACCATGTAGGAAAAAAGTATGAAAGCTTTAAGCTTTCTTCA
13450608 CGAT-AAGACCTTTTTTTTATTATTATTAAGC
66 CGATGAA-A-CTTTTTTTTATTATTATTAAGC
13450639 T
1 T
13450640 TAAATTGAAC
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
92 2 0.02
93 1 0.01
94 42 0.47
95 44 0.49
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (95 bp):
TCATGTCATTTTCAAGCTATCTTTACCATGTAGGAAAAAAGTATGAAAGCTTTAAGCTTTCTTCA
CGATGAAACTTTTTTTTATTATTATTAAGC
Found at i:13453710 original size:16 final size:19
Alignment explanation
Indices: 13453689--13453737 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
13453679 TTTTATGTAT
13453689 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
13453706 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
13453724 TGTATATATTTATT
1 TGTAT-TATTTATT
13453738 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:13454239 original size:27 final size:24
Alignment explanation
Indices: 13454196--13454250 Score: 65
Period size: 27 Copynumber: 2.2 Consensus size: 24
13454186 TTGGGAGTGA
*
13454196 GAAAAAATTTTTAGAAATTTTTGG
1 GAAAAAATTTTTAGAAATTTCTGG
*
13454220 CGAAAAAATTTTTCTGGAAATTTCTGG
1 -GAAAAAA-TTTT-TAGAAATTTCTGG
13454247 GAAA
1 GAAA
13454251 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 7 0.27
26 8 0.31
27 11 0.42
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.36
Consensus pattern (24 bp):
GAAAAAATTTTTAGAAATTTCTGG
Found at i:13454317 original size:31 final size:31
Alignment explanation
Indices: 13454259--13454323 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
13454249 AATTTCCAGA
* ** *
13454259 TTCCGATGAAAATTCCGGTGAAAATTGAATT
1 TTCCGACGAAAATTCCGACGAAAATTGAAGT
* *
13454290 TTCCGACGAAAATTCTGACGAACATTGAAGT
1 TTCCGACGAAAATTCCGACGAAAATTGAAGT
13454321 TTC
1 TTC
13454324 TGGCAACCTG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (31 bp):
TTCCGACGAAAATTCCGACGAAAATTGAAGT
Found at i:13454951 original size:59 final size:58
Alignment explanation
Indices: 13454887--13455463 Score: 783
Period size: 60 Copynumber: 9.7 Consensus size: 58
13454877 AAAAATTCCA
13454887 AAAAAAAATATTTTTTAGGG-AAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAAATA-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
* * *
13454946 -CAAAAAATATTTTT-GGGGAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
13455002 AAAAAAAACTATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
1 AAAAAAAA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
13455061 AAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
1 --AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
* * *
13455121 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT-
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
*
13455177 AAAAAAATATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTT-C
* *
13455242 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT--AAATTTC
*
13455302 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC
**
13455361 AAAAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTC
1 AAAAAAAA-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC
* *
13455422 -CAAAAAATATTTTTAGTGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
13455464 CTACAAAAAA
Statistics
Matches: 472, Mismatches: 22, Indels: 48
0.87 0.04 0.09
Matches are distributed among these distances:
56 7 0.01
57 102 0.22
58 53 0.11
59 89 0.19
60 144 0.31
61 21 0.04
62 3 0.01
63 10 0.02
64 36 0.08
65 7 0.01
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
Found at i:13459268 original size:11 final size:10
Alignment explanation
Indices: 13459247--13459271 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13459237 GAAAAATGAG
13459247 AAAAGAAAAA
1 AAAAGAAAAA
13459257 AAAAGAAAAA
1 AAAAGAAAAA
13459267 AAAAG
1 AAAAG
13459272 GGGAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:13459304 original size:16 final size:16
Alignment explanation
Indices: 13459274--13459304 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13459264 AAAAAAAGGG
*
13459274 GAAAAAATGAGAAAAT
1 GAAAAAATGAAAAAAT
13459290 GAAAAAATGAAAAAA
1 GAAAAAATGAAAAAA
13459305 GAGATCCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (16 bp):
GAAAAAATGAAAAAAT
Found at i:13460612 original size:17 final size:17
Alignment explanation
Indices: 13460590--13460625 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13460580 GAGGAACAAT
13460590 TTACTTTTCAAAGTTCG
1 TTACTTTTCAAAGTTCG
13460607 TTACTTTTCAAAGTTCG
1 TTACTTTTCAAAGTTCG
13460624 TT
1 TT
13460626 GCCTCTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (17 bp):
TTACTTTTCAAAGTTCG
Found at i:13460638 original size:57 final size:58
Alignment explanation
Indices: 13460548--13460660 Score: 167
Period size: 57 Copynumber: 1.9 Consensus size: 58
13460538 CTAGGAGTAT
*
13460548 TTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAACAATTTACTTTTCAAAGTTCG
1 TTACTTTTCCAAAGTCGT-GTACCTCTGTTTAGAGGAACAATTTACTTTCCAAAGTTCG
* *
13460607 TTACTTTT-CAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
1 TTACTTTTCCAAAG-TCGTGTACCTCTGTTTAGAGGAACAATTTACTTTCCAAAGT
13460661 CGTGGTGCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
57 33 0.66
58 5 0.10
59 12 0.24
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (58 bp):
TTACTTTTCCAAAGTCGTGTACCTCTGTTTAGAGGAACAATTTACTTTCCAAAGTTCG
Found at i:13460714 original size:42 final size:42
Alignment explanation
Indices: 13460607--13461096 Score: 767
Period size: 42 Copynumber: 11.9 Consensus size: 42
13460597 TCAAAGTTCG
13460607 TTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAAT
13460647 TTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
*
13460688 TTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
*
13460730 TTAATTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAAT
13460770 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
13460812 TTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAAT
13460852 TTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
* *
13460893 TTACTTTTTCAAAGTCGTGGTTCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
* *
13460935 TTAGTTTTCCAAAGTCTTGGTGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
13460977 TTACTTTTCC-AAGTTCGT--TGCCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAAT
*
13461017 TTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAAT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
*
13461058 TTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
13461097 TTTGGTAAAA
Statistics
Matches: 417, Mismatches: 15, Indels: 34
0.89 0.03 0.07
Matches are distributed among these distances:
39 23 0.06
40 101 0.24
41 95 0.23
42 198 0.47
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (42 bp):
TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
Found at i:13460875 original size:123 final size:122
Alignment explanation
Indices: 13460607--13461096 Score: 781
Period size: 123 Copynumber: 4.0 Consensus size: 122
13460597 TCAAAGTTCG
*
13460607 TTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTC
1 TTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTC
*
13460672 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAAT
66 TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAAT
* *
13460730 TTAATTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCT
1 TTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCT
13460795 CTGTTTAGAGGAGCAATTTACTTTT-CAAAGTTCGT-TGCCTCTGTTTAGAGGAGCAAT
65 CTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCAAT
* *
13460852 TTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTTC
1 TTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGC
* *
13460916 CTCTGTTTAGAGGAGCAATTTAGTTTTCCAAAGTCTTGGTGCCTCTGTTTAGAGGAGCAAT
63 CTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAAT
*
13460977 TTACTTTTCC-AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCT
1 TTAC-TTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCT
*
13461041 CTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
65 CTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGC
13461097 TTTGGTAAAA
Statistics
Matches: 345, Mismatches: 13, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
121 4 0.01
122 32 0.09
123 191 0.55
124 80 0.23
125 29 0.08
126 9 0.03
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (122 bp):
TTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTC
TGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAAT
Found at i:13460929 original size:165 final size:164
Alignment explanation
Indices: 13460607--13461096 Score: 812
Period size: 165 Copynumber: 3.0 Consensus size: 164
13460597 TCAAAGTTCG
*
13460607 TTACTTTT-CAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTG
1 TTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGT--TG
13460668 CCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTA
63 CCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTA
*
13460733 ATTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAAT
127 CTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAAT
13460770 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
*
13460835 CTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTT
66 CTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTAC-TT
*
13460900 TTCAAAGTCGTGGTTCCTCTGTTTAGAGGAGCAAT
130 TTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
* * *
13460935 TTAGTTTTCCAAAGTCTTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTCGTTGCCT
1 TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
13461000 CTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTT
66 CTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTT
13461065 TCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
131 TC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
13461097 TTTGGTAAAA
Statistics
Matches: 310, Mismatches: 9, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
163 55 0.18
164 45 0.15
165 206 0.66
166 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.37
Consensus pattern (164 bp):
TTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCT
CTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTT
TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAAT
Found at i:13461121 original size:9 final size:9
Alignment explanation
Indices: 13461103--13461177 Score: 102
Period size: 9 Copynumber: 8.4 Consensus size: 9
13461093 GAGCTTTGGT
13461103 AAAAAA-AA
1 AAAAAACAA
13461111 AAAAAACAA
1 AAAAAACAA
13461120 AAAAAAC-A
1 AAAAAACAA
13461128 AAAAAAC-A
1 AAAAAACAA
13461136 AAAAAACAA
1 AAAAAACAA
13461145 AAAAAACAA
1 AAAAAACAA
*
13461154 AAAAAAAATA
1 AAAAAACA-A
13461164 AAAAAACCAA
1 AAAAAA-CAA
13461174 AAAA
1 AAAA
13461178 TGTTGAGTTG
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
8 22 0.36
9 26 0.43
10 12 0.20
11 1 0.02
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.01
Consensus pattern (9 bp):
AAAAAACAA
Found at i:13461125 original size:17 final size:17
Alignment explanation
Indices: 13461103--13461168 Score: 105
Period size: 17 Copynumber: 3.8 Consensus size: 17
13461093 GAGCTTTGGT
13461103 AAAAAAAAAAAAAACAA
1 AAAAAAAAAAAAAACAA
*
13461120 AAAAAACAAAAAAACAA
1 AAAAAAAAAAAAAACAA
*
13461137 AAAAACAAAAAAAACAA
1 AAAAAAAAAAAAAACAA
13461154 AAAAAAAATAAAAAA
1 AAAAAAAA-AAAAAA
13461169 ACCAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
17 38 0.86
18 6 0.14
ACGTcount: A:0.91, C:0.08, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAACAA
Found at i:13461177 original size:1 final size:1
Alignment explanation
Indices: 13461103--13461169 Score: 80
Period size: 1 Copynumber: 67.0 Consensus size: 1
13461093 GAGCTTTGGT
* * * * * *
13461103 AAAAAAAAAAAAAACAAAAAAAACAAAAAAACAAAAAAACAAAAAAAACAAAAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
13461168 AA
1 AA
13461170 CCAAAAAATG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.91, C:0.07, G:0.00, T:0.01
Consensus pattern (1 bp):
A
Found at i:13461394 original size:16 final size:19
Alignment explanation
Indices: 13461373--13461421 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
13461363 TTTTATGTAT
13461373 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
13461390 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
13461408 TGTATATATTTATT
1 TGTAT-TATTTATT
13461422 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:13461480 original size:18 final size:18
Alignment explanation
Indices: 13461439--13461481 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13461429 TTTTTGTTAA
* *
13461439 TATTTATGTGTATTTTAT
1 TATTTATGTATATTATAT
13461457 TATTTATGTATATATATAT
1 TATTTATGTATAT-TATAT
13461476 T-TTTAT
1 TATTTAT
13461482 CTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (18 bp):
TATTTATGTATATTATAT
Found at i:13461493 original size:15 final size:18
Alignment explanation
Indices: 13461473--13461512 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 18
13461463 TGTATATATA
13461473 TATTTTTA-TC-TTTTT-
1 TATTTTTATTCATTTTTG
13461488 TA-TTTTATTCATTTTTG
1 TATTTTTATTCATTTTTG
13461505 TATTTTTA
1 TATTTTTA
13461513 CTTATCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 4 0.19
16 5 0.24
17 2 0.10
18 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (18 bp):
TATTTTTATTCATTTTTG
Found at i:13461981 original size:31 final size:31
Alignment explanation
Indices: 13461946--13462008 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
13461936 TCCAGATTCA
* *
13461946 GACGAAAATTCTGGCGAAAATTGAATTTTTC
1 GACGAAAATTCCGGCGAAAATTGAAGTTTTC
* *
13461977 GACGACAATTCCGGCGAACATTGAAGTTTTC
1 GACGAAAATTCCGGCGAAAATTGAAGTTTTC
13462008 G
1 G
13462009 GCAACCTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (31 bp):
GACGAAAATTCCGGCGAAAATTGAAGTTTTC
Found at i:13462449 original size:23 final size:23
Alignment explanation
Indices: 13462419--13462462 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
13462409 TCCAGGTTTT
*
13462419 TTTTTTTTTTTTCTTTCTTTAAA
1 TTTTTTTTATTTCTTTCTTTAAA
*
13462442 TTTTTTTTATTTCTTTGTTTA
1 TTTTTTTTATTTCTTTCTTTA
13462463 TTTGTTTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTTTTATTTCTTTCTTTAAA
Found at i:13462639 original size:60 final size:59
Alignment explanation
Indices: 13462570--13463092 Score: 711
Period size: 60 Copynumber: 8.8 Consensus size: 59
13462560 AAATAAAAAA
13462570 TTCCAAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCC-AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
13462631 TTCC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* * *
13462688 TTCAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTGAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
*
13462747 TTCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTC-CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* *
13462807 TTCC--AAAAAATATTTTTGGGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAAT
* * *
13462869 TTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT--AAAT
*
13462930 TT-CAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
* ** *
13462988 TTTCAAAAAAAAGGTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAAT
1 TTCCAAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAAT
*
13463050 TTTC--AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
13463093 TCCTACAAAA
Statistics
Matches: 424, Mismatches: 21, Indels: 36
0.88 0.04 0.07
Matches are distributed among these distances:
57 90 0.21
58 11 0.03
59 97 0.23
60 154 0.36
61 11 0.03
62 19 0.04
64 42 0.10
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.34
Consensus pattern (59 bp):
TTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAAT
Found at i:13462795 original size:119 final size:118
Alignment explanation
Indices: 13462575--13463092 Score: 714
Period size: 119 Copynumber: 4.3 Consensus size: 118
13462565 AAAAATTCCA
* *
13462575 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC-CAAA
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTGAGAAATAAATTTTCAAAAA
*
13462638 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAAT-AAATTTC
65 AAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAATTTC
*
13462691 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTGAGAAATAAA-TTTCAAAAA
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTGAGAAATAAATTTTC--AAA
*
13462755 AAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAT-AAATTTC
63 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAATTTC
* * * *
13462810 -CAAAAAATATTTTTGGGGAAAAGTTGGAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTTCA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-T----GAGAAATAAATTTTCA
*
13462874 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATTTC
61 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATC-AAATTTC
* *
13462933 AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTGAGAAATAAATTTTCAAAAAA
*
13462998 AAGGT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTTC
66 AA--TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATC-AAA-TTTC
13463054 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
13463093 TCCTACAAAA
Statistics
Matches: 365, Mismatches: 20, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
116 49 0.13
117 45 0.12
118 1 0.00
119 113 0.31
120 42 0.12
121 54 0.15
122 9 0.02
123 12 0.03
124 40 0.11
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (118 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTGAGAAATAAATTTTCAAAAAA
AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATCAAATTTC
Found at i:13463999 original size:17 final size:17
Alignment explanation
Indices: 13463977--13464017 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
13463967 AAAATTACAA
13463977 GAAAATTACAAAGACAT
1 GAAAATTACAAAGACAT
*
13463994 GAAAATTACAAGGACAT
1 GAAAATTACAAAGACAT
*
13464011 TAAAATT
1 GAAAATT
13464018 TTAAGAACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (17 bp):
GAAAATTACAAAGACAT
Found at i:13474333 original size:356 final size:356
Alignment explanation
Indices: 13473674--13474562 Score: 1167
Period size: 356 Copynumber: 2.5 Consensus size: 356
13473664 ATATCGTCAT
* ** * *
13473674 ACAAATTCTAACACTGTTATTGAAGGCATATATCCAAGAA-AGACGCATTTAATAATTTTTATCA
1 ACAAATTGTAACACTGTTATTGAAGGCATATATTTAA-AATAGACGCCTTTAATAATTTCTATCA
** * *
13473738 CAGTTTGTAGT-TAATTACTGAAGGTGGTTGT-AAAAAACAATGCCTTCAATAATTTTCCTAAAA
65 CAGTTTGTA-TATAATTACTGAAGGCAGTT-TCAGAAAACAACGCCTTCAATAATTTTCCTAAAA
** * ** * * * *
13473801 ATTTTTTTTTAGATTATTAAAGGTGTCTTTTATTATGAGACGCCTTCAATATACCATGATGGTAA
128 AAATTTTTCTAGATTATTAAAGGCATCTTTTATTATAAAACGCCTTCAATATACCACGATGATAA
* *
13473866 TAGAAGGCATTTATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGAAATCCATTACTGAAG
193 GAGAAAGCATTTATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGAAATCCATTACTGAAG
* * *
13473931 GTCTTTGTTAATAACAAACGCCTTTAAAATTTTCTCACTTAATATTTTAGGAATTATTAAAGGCA
258 GTCTTTGTTAATAACAAACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAAGGCA
* *
13473996 TTTTCTACTGTAAAATACTTTCATATACC-TCCAC
323 TCTTCTACTGTAAAATACCTTCATATACCAT-CAC
* ** * * *
13474030 ACAAATTGTAATACTGTTATTGAAGGTGTATATTTAAAATAGAGGCCTTTAATAATTCCTATCAT
1 ACAAATTGTAACACTGTTATTGAAGGCATATATTTAAAATAGACGCCTTTAATAATTTCTATCAC
* * * * *
13474095 AGTTTGTATATAAATACTGAAGGCAATTTCAGAAAACAACGCCTTTAACAATTTCCCTAAAAAAA
66 AGTTTGTATATAATTACTGAAGGCAGTTTCAGAAAACAACGCCTTCAATAATTTTCCTAAAAAAA
*
13474160 TTTTTCTAGATTATTAAAGGCATCTTTTATTATAAAACGCCTTCAATATACCACGATGATAAGGG
131 TTTTTCTAGATTATTAAAGGCATCTTTTATTATAAAACGCCTTCAATATACCACGATGATAAGAG
* * * * * *
13474225 AAAGCGTTTATTAGAAAATGCGCCTTCAATATACCTTTAAATTTAGTAATCCATTACTGAAGGTG
196 AAAGCATTTATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGAAATCCATTACTGAAGGTC
* * *
13474290 TTTGTTAATAACAGACGCCTTCAAAATTTTCCCACTAAATATTTTGGGAATTATTAAAGGCGTCT
261 TTTGTTAATAACAAACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAAGGCATCT
* *
13474355 TCTATTGTAAAATGCCTTCATATACCATCAC
326 TCTACTGTAAAATACCTTCATATACCATCAC
* * * * *
13474386 ACAAATTGTAACACTGCTATTGACGGCATATATTTAATATAGATGCCTTTAACAATTTCTATCAC
1 ACAAATTGTAACACTGTTATTGAAGGCATATATTTAAAATAGACGCCTTTAATAATTTCTATCAC
* * * * *
13474451 AGTTTGTATATAATTACTAAAGGCAGTTACAGATAACAACGCCTTCAATAATTTTGCAAAAAAAA
66 AGTTTGTATATAATTACTGAAGGCAGTTTCAGAAAACAACGCCTTCAATAATTTTCCTAAAAAAA
* *
13474516 ATTTTCT-GATTATTAAAGGCATCTTTAATTATAAAACGCCTTCAATA
131 TTTTTCTAGATTATTAAAGGCATCTTTTATTATAAAACGCCTTCAATA
13474563 ATTTGTTATA
Statistics
Matches: 459, Mismatches: 70, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
355 43 0.09
356 415 0.90
357 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (356 bp):
ACAAATTGTAACACTGTTATTGAAGGCATATATTTAAAATAGACGCCTTTAATAATTTCTATCAC
AGTTTGTATATAATTACTGAAGGCAGTTTCAGAAAACAACGCCTTCAATAATTTTCCTAAAAAAA
TTTTTCTAGATTATTAAAGGCATCTTTTATTATAAAACGCCTTCAATATACCACGATGATAAGAG
AAAGCATTTATTAGAAAAAGCACCTTCAATATACCTTTAAACTTAGAAATCCATTACTGAAGGTC
TTTGTTAATAACAAACGCCTTCAAAATTTTCCCACTAAATATTTTAGGAATTATTAAAGGCATCT
TCTACTGTAAAATACCTTCATATACCATCAC
Found at i:13477279 original size:21 final size:21
Alignment explanation
Indices: 13477255--13477301 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
13477245 GAGCAACAAT
*
13477255 AGCAACAAATTAATGACCAAG
1 AGCAACAAATTAATGACCAAC
***
13477276 AGCAACGCCTTAATGACCAAC
1 AGCAACAAATTAATGACCAAC
13477297 AGCAA
1 AGCAA
13477302 AGACTCATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
AGCAACAAATTAATGACCAAC
Found at i:13481529 original size:15 final size:13
Alignment explanation
Indices: 13481494--13481555 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 13
13481484 TCTTTTTAGC
*
13481494 TTGTTTCTTTCTTT
1 TTGTTT-TTCCTTT
*
13481508 TTTTTTTTCACTCTT
1 TTGTTTTTC-CT-TT
*
13481523 TTGTTTTTTCTTATT
1 TTG-TTTTTCCT-TT
13481538 TTGTTTTTCCTTT
1 TTGTTTTTCCTTT
13481551 TTGTT
1 TTGTT
13481556 CTTTTTCCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
13 9 0.23
14 14 0.36
15 10 0.26
16 6 0.15
ACGTcount: A:0.03, C:0.13, G:0.06, T:0.77
Consensus pattern (13 bp):
TTGTTTTTCCTTT
Found at i:13481539 original size:28 final size:28
Alignment explanation
Indices: 13481494--13481560 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 28
13481484 TCTTTTTAGC
13481494 TTGTTTCTTTCTT-TTTT-TTTTTCACTCTT
1 TTGTTT-TTTCTTATTTTGTTTTTC-CT-TT
13481523 TTGTTTTTTCTTATTTTGTTTTTCCTTT
1 TTGTTTTTTCTTATTTTGTTTTTCCTTT
13481551 TTGTTCTTTT
1 TTGTT-TTTT
13481561 TCCAAGTCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
28 13 0.37
29 16 0.46
30 6 0.17
ACGTcount: A:0.03, C:0.13, G:0.06, T:0.78
Consensus pattern (28 bp):
TTGTTTTTTCTTATTTTGTTTTTCCTTT
Found at i:13481560 original size:15 final size:15
Alignment explanation
Indices: 13481494--13481560 Score: 54
Period size: 15 Copynumber: 4.6 Consensus size: 15
13481484 TCTTTTTAGC
13481494 TTGTTTCTTT-CT-TT
1 TTGTTT-TTTCCTATT
*
13481508 TT-TTTTTTCACTCTT
1 TTGTTTTTTC-CTATT
*
13481523 TTGTTTTTTCTTATT
1 TTGTTTTTTCCTATT
13481538 TTG-TTTTTCCT-TT
1 TTGTTTTTTCCTATT
13481551 TTGTTCTTTT
1 TTGTT-TTTT
13481561 TCCAAGTCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
12 3 0.07
13 8 0.18
14 12 0.27
15 14 0.32
16 7 0.16
ACGTcount: A:0.03, C:0.13, G:0.06, T:0.78
Consensus pattern (15 bp):
TTGTTTTTTCCTATT
Found at i:13490578 original size:16 final size:18
Alignment explanation
Indices: 13490541--13490580 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
13490531 CTTGAAGTTA
13490541 AAAAATAATGATAATAAC
1 AAAAATAATGATAATAAC
*
13490559 AAAAATAAT-A-AATAAT
1 AAAAATAATGATAATAAC
13490575 AAAAAT
1 AAAAAT
13490581 GCAAACACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 1 0.05
18 9 0.43
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAAATAATGATAATAAC
Found at i:13506961 original size:19 final size:19
Alignment explanation
Indices: 13506937--13506980 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
13506927 AAGAATCCCA
13506937 TTTGTTTTCTTGAAGAGAC
1 TTTGTTTTCTTGAAGAGAC
13506956 TTTGTTTTCTTGAAGAGAC
1 TTTGTTTTCTTGAAGAGAC
13506975 TTTGTT
1 TTTGTT
13506981 GTCAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.18, C:0.09, G:0.20, T:0.52
Consensus pattern (19 bp):
TTTGTTTTCTTGAAGAGAC
Found at i:13507192 original size:53 final size:52
Alignment explanation
Indices: 13507135--13507241 Score: 162
Period size: 53 Copynumber: 2.0 Consensus size: 52
13507125 TATTTTTATT
* *
13507135 TTACAAGTTTCATTTCTAAA-TTTTCTATCATTTGGGTCAAATTTAAAAATATC
1 TTACAAGTTTCATTTCTAAATTTTTC-ACCATTTGGGCCAAA-TTAAAAATATC
*
13507188 TTACAAGTTTCATTTCTAAATTTTTCACCATTTGGGCCAAATTAGAAATATC
1 TTACAAGTTTCATTTCTAAATTTTTCACCATTTGGGCCAAATTAAAAATATC
13507240 TT
1 TT
13507242 TCATAGAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
52 12 0.24
53 33 0.66
54 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (52 bp):
TTACAAGTTTCATTTCTAAATTTTTCACCATTTGGGCCAAATTAAAAATATC
Found at i:13509566 original size:34 final size:34
Alignment explanation
Indices: 13509502--13509566 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
13509492 TTCTGGAAGT
* * *
13509502 AAAGTTTTTATAAGTTTTTGAAAATGCAAATTTG
1 AAAGATTTTAAAAGTTTTTGAAAATACAAATTTG
13509536 AAAGATTTTAAAAGTTTTCTG-AAATACAAAT
1 AAAGATTTTAAAAGTTTT-TGAAAATACAAAT
13509567 CCAAAAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 25 0.93
35 2 0.07
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (34 bp):
AAAGATTTTAAAAGTTTTTGAAAATACAAATTTG
Found at i:13510761 original size:20 final size:20
Alignment explanation
Indices: 13510738--13510775 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13510728 TATGATATGT
*
13510738 CAAT-ATAAGATATGTACATG
1 CAATAATAA-ATATATACATG
13510758 CAATAATAAATATATACA
1 CAATAATAAATATATACA
13510776 AATAACAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
CAATAATAAATATATACATG
Found at i:13510951 original size:174 final size:174
Alignment explanation
Indices: 13510651--13511003 Score: 505
Period size: 174 Copynumber: 2.0 Consensus size: 174
13510641 AGGTTACTTG
* * *
13510651 ATGGT-ATCATTTATAAGACATATCCAAATGGCATTAAAGTCATACTTAAGACACACACCAAGTC
1 ATGGTAATCACTTATAAGACATATCCAAATGACATTAAAATCATACTTAAGACACACACCAAGTC
* * *
13510715 TTAAGATTTTTAATATGATATGTCAATATAAGATATGTACATGCAATAATAAATATATACAAATA
66 TTAAGATTTATAATATGACATGTCAATATAAGATATGCACATGCAATAATAAATATATACAAATA
* * *
13510780 ACAAG-TATGATGAATGTATAACATAATTATGTCTACTTAACCTT
131 A-AAGCTATGATAAATGTATAACATAATTACGTCTAATTAACCTT
* * **
13510824 ATGGTAATCACTTATAAGACATGTCCAAATGACATTAAAATCATACTTAATG-CAGACATTAAGT
1 ATGGTAATCACTTATAAGACATATCCAAATGACATTAAAATCATACTTAA-GACACACACCAAGT
* * *
13510888 CTTGAGATTTATAATATGACATGTCAATATAAGATGTGCATATGCAATAATAAATATATACAAAT
65 CTTAAGATTTATAATATGACATGTCAATATAAGATATGCACATGCAATAATAAATATATACAAAT
* *
13510953 AATAGCTATGATAAATGTATAACATAATTACGTCTAATTAACTTT
130 AAAAGCTATGATAAATGTATAACATAATTACGTCTAATTAACCTT
13510998 ATGGTA
1 ATGGTA
13511004 CCGTATTAAC
Statistics
Matches: 159, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
173 7 0.04
174 151 0.95
175 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (174 bp):
ATGGTAATCACTTATAAGACATATCCAAATGACATTAAAATCATACTTAAGACACACACCAAGTC
TTAAGATTTATAATATGACATGTCAATATAAGATATGCACATGCAATAATAAATATATACAAATA
AAAGCTATGATAAATGTATAACATAATTACGTCTAATTAACCTT
Found at i:13516656 original size:154 final size:153
Alignment explanation
Indices: 13516377--13516687 Score: 586
Period size: 154 Copynumber: 2.0 Consensus size: 153
13516367 CAAGAGAAAC
*
13516377 AAAACCCTAATATAATTCTAGAAACATTGATTGTAGTTGAGGTTTCAGCAAGACAAAGTTTTGCC
1 AAAACCCTAATATAATTCTAGAAACATTGATTGTAGTTGAGATTTCAGCAAGACAAAGTTTTGCC
13516442 CAAAAACAATTTTTTAATTGAAAACAAATTTGAAAATAATATTTTGGGTCTAATATCATATAAAG
66 CAAAAACAATTTTTTAATTGAAAACAAATTTGAAAATAATATTTTGGGTCTAATATCATATAAAG
*
13516507 AGGCTTTGATACTAAATGTGAGT
131 AGGCTTTGATACCAAATGTGAGT
13516530 AAAACCCTAATATAATTCTAGAAACATTGATTGTAGTTAGAGATTTCAGCAAGACAAAGTTTTGC
1 AAAACCCTAATATAATTCTAGAAACATTGATTGTAGTT-GAGATTTCAGCAAGACAAAGTTTTGC
*
13516595 CCAAAAACAATTTTTTAATTGAAAACAAATTTGAAAATAATATTTTGGGTCTAATATCATATAAG
65 CCAAAAACAATTTTTTAATTGAAAACAAATTTGAAAATAATATTTTGGGTCTAATATCATATAAA
13516660 GAGGCTTTGATACCAAATGTGAGT
130 GAGGCTTTGATACCAAATGTGAGT
13516684 AAAA
1 AAAA
13516688 TTTTATAATT
Statistics
Matches: 154, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
153 38 0.25
154 116 0.75
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (153 bp):
AAAACCCTAATATAATTCTAGAAACATTGATTGTAGTTGAGATTTCAGCAAGACAAAGTTTTGCC
CAAAAACAATTTTTTAATTGAAAACAAATTTGAAAATAATATTTTGGGTCTAATATCATATAAAG
AGGCTTTGATACCAAATGTGAGT
Found at i:13518417 original size:36 final size:35
Alignment explanation
Indices: 13518373--13518457 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
13518363 TATTAAATTG
*
13518373 TATA-ATTAAT-TATAAAATATTACTAAATTAAT-T
1 TATATATTAATAT-TAAAATATTACTAAAATAATAT
*
13518406 TAATAATATTAATATTAAAATATTATTAAAATAATAT
1 T-AT-ATATTAATATTAAAATATTACTAAAATAATAT
13518443 TATATATTAAATATT
1 TATATATT-AATATT
13518458 GTTAAATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 1 0.02
34 2 0.05
35 6 0.14
36 32 0.73
37 3 0.07
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (35 bp):
TATATATTAATATTAAAATATTACTAAAATAATAT
Found at i:13518418 original size:14 final size:14
Alignment explanation
Indices: 13518399--13518444 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
13518389 ATATTACTAA
13518399 ATTAATTTAATAAT
1 ATTAATTTAATAAT
13518413 ATTAATATTAA-AAT
1 ATTAAT-TTAATAAT
*
13518427 ATT-ATTAAAATAAT
1 ATTAATT-TAATAAT
13518441 ATTA
1 ATTA
13518445 TATATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
12 1 0.04
13 4 0.15
14 18 0.67
15 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTAATTTAATAAT
Found at i:13518430 original size:28 final size:28
Alignment explanation
Indices: 13518407--13518499 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
13518397 AAATTAATTT
13518407 AATAATATTA-ATATTAAAATATTATTAA
1 AATAATATTATATATT-AAATATTATTAA
*
13518435 AATAATATTATATATTAAATATTGTTAA
1 AATAATATTATATATTAAATATTATTAA
* * *
13518463 ATTATTATT-TA-ATACAAATATTATTAA
1 AATAATATTATATAT-TAAATATTATTAA
13518490 AATAATATTA
1 AATAATATTA
13518500 AAATAGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.04
27 20 0.36
28 28 0.51
29 5 0.09
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
AATAATATTATATATTAAATATTATTAA
Found at i:13518434 original size:11 final size:11
Alignment explanation
Indices: 13518418--13518510 Score: 61
Period size: 11 Copynumber: 8.5 Consensus size: 11
13518408 ATAATATTAA
13518418 TATTAAAATAT
1 TATTAAAATAT
*
13518429 TATTAAAATAA
1 TATTAAAATAT
13518440 TATT---ATA-
1 TATTAAAATAT
13518447 TATT-AAATAT
1 TATTAAAATAT
*
13518457 TGTTAAATTATTATT
1 TATTAAA--A-TA-T
*
13518472 TAATACAAATAT
1 TATTA-AAATAT
*
13518484 TATTAAAATAA
1 TATTAAAATAT
*
13518495 TATTAAAATAG
1 TATTAAAATAT
13518506 TATTA
1 TATTA
13518511 CATAACAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
7 4 0.06
8 3 0.05
9 3 0.05
10 3 0.05
11 36 0.55
12 5 0.08
13 3 0.05
14 3 0.05
15 4 0.06
16 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (11 bp):
TATTAAAATAT
Found at i:13518475 original size:66 final size:64
Alignment explanation
Indices: 13518387--13518510 Score: 160
Period size: 66 Copynumber: 1.9 Consensus size: 64
13518377 ATTAATTATA
* *
13518387 AAATATTACTAAATTAATTTAATA-ATATTAATATTAAAATATTATTAAAATAATATTATATATT
1 AAATATTACTAAATTAATTTAATACA-AATAATATTAAAATAATATTAAAATAATATTATATATT
** * *
13518451 AAATATTGTTAAATTATTATTTAATACAAATATTATTAAAATAATATTAAAATAGTATTA
1 AAATATTACTAAATTA--ATTTAATACAAATAATATTAAAATAATATTAAAATAATATTA
13518511 CATAACAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
64 14 0.27
66 36 0.71
67 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (64 bp):
AAATATTACTAAATTAATTTAATACAAATAATATTAAAATAATATTAAAATAATATTATATATT
Found at i:13518555 original size:29 final size:30
Alignment explanation
Indices: 13518517--13518821 Score: 114
Period size: 29 Copynumber: 10.7 Consensus size: 30
13518507 ATTACATAAC
* * *
13518517 AAAAAATTATTAAATTATTTTTTAAAAT-TG
1 AAAATATTATTAAATTA-ATATTAAAATATG
* *
13518547 -AAATGTTATTAAAATAATATTAAAATATG
1 AAAATATTATTAAATTAATATTAAAATATG
13518576 AAAATATTATTAAATTAATACTT--AATA-G
1 AAAATATTATTAAATTAATA-TTAAAATATG
* * *
13518604 TAACATAATATT-AA--AAT-TT---ATATT
1 -AAAATATTATTAAATTAATATTAAAATATG
* * *
13518628 AAAATATTATTGAATTAATATT-TAATATT
1 AAAATATTATTAAATTAATATTAAAATATG
* *
13518657 CAAATATTATTAAA--AAAATT-AAATAAT-
1 AAAATATTATTAAATTAATATTAAAAT-ATG
* * * * *
13518684 AAAATATTCTTAAATTATTTTTTAAAT-TT
1 AAAATATTATTAAATTAATATTAAAATATG
** * * * **
13518713 AACTTATGATTAAAATAATACTGGAATATG
1 AAAATATTATTAAATTAATATTAAAATATG
* * *
13518743 GAAATATTATTAAATTAATATT-CAATATT
1 AAAATATTATTAAATTAATATTAAAATATG
* * *
13518772 AAAAT-TTGATTAAAATAAAACT-AAATAT-
1 AAAATATT-ATTAAATTAATATTAAAATATG
* *
13518800 TAAATATTATTAAATTACTATT
1 AAAATATTATTAAATTAATATT
13518822 TAATATTAAC
Statistics
Matches: 206, Mismatches: 50, Indels: 40
0.70 0.17 0.14
Matches are distributed among these distances:
23 12 0.06
24 4 0.02
26 6 0.03
27 22 0.11
28 30 0.15
29 92 0.45
30 38 0.18
31 2 0.01
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (30 bp):
AAAATATTATTAAATTAATATTAAAATATG
Found at i:13518559 original size:69 final size:66
Alignment explanation
Indices: 13518418--13518573 Score: 186
Period size: 69 Copynumber: 2.3 Consensus size: 66
13518408 ATAATATTAA
* * ** * *
13518418 TATTAAAATATTATTAAAATAATATTATATATTAAATATTGTTAAATTATTATTTAATACAAATA
1 TATTAAAATAATATTAAAATAATATTACATACAAAAAATTATTAAATTATTATTTAATACAAATA
13518483 T
66 T
* * **
13518484 TATTAAAATAATATTAAAATAGTATTACATAACAAAAAATTATTAAATTATTTTTTAAAATTGAA
1 TATTAAAATAATATTAAAATAATATTACAT-ACAAAAAATTATTAAATTATTATTT--AATACAA
*
13518549 ATGT
63 ATAT
13518553 TATTAAAATAATATTAAAATA
1 TATTAAAATAATATTAAAATA
13518574 TGAAAATATT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
66 27 0.36
67 20 0.26
69 29 0.38
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.43
Consensus pattern (66 bp):
TATTAAAATAATATTAAAATAATATTACATACAAAAAATTATTAAATTATTATTTAATACAAATA
T
Found at i:13518644 original size:52 final size:52
Alignment explanation
Indices: 13518571--13518671 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 52
13518561 TAATATTAAA
13518571 ATATGAAAATATTATTAAATTAATACTTAATAGT-AACATAATATTAAAATTT
1 ATATGAAAATATTATTAAATTAATACTTAATAGTCAA-ATAATATTAAAATTT
* * * * *
13518623 ATATTAAAATATTATTGAATTAATATTTAATATTCAAATATTATTAAAA
1 ATATGAAAATATTATTAAATTAATACTTAATAGTCAAATAATATTAAAA
13518672 AAATTAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 41 0.95
53 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (52 bp):
ATATGAAAATATTATTAAATTAATACTTAATAGTCAAATAATATTAAAATTT
Found at i:13518987 original size:29 final size:28
Alignment explanation
Indices: 13518906--13518987 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
13518896 TTATTAAAAT
* * * *
13518906 AATATGAAATTATTATTAAATTAACATTT
1 AATAT-AAAATATTATTAAATTAATACTA
* *
13518935 AATATAAAATAATATTAAAATAATACTA
1 AATATAAAATATTATTAAATTAATACTA
*
13518963 AATATAAAAATATTATGAAATTAAT
1 AATAT-AAAATATTATTAAATTAAT
13518988 GAAATAATAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (28 bp):
AATATAAAATATTATTAAATTAATACTA
Found at i:13519028 original size:21 final size:21
Alignment explanation
Indices: 13518891--13519098 Score: 155
Period size: 21 Copynumber: 10.1 Consensus size: 21
13518881 AATATTTCTA
* *
13518891 TAATATTATTAAAATAATATG
1 TAATATTATTAAATTAATATT
* *
13518912 AAATTATTATTAAATTAACATT
1 TAA-TATTATTAAATTAATATT
13518934 TAATA-TA--AAA-TAATATT
1 TAATATTATTAAATTAATATT
* * *
13518951 AAAATAATACTAAATATAA-A--
1 -TAATATTATTAAAT-TAATATT
* **
13518971 -AATATTATGAAATTAATGAAA
1 TAATATTATTAAATTAAT-ATT
*
13518992 TAATATTTACTAAATTAATATT
1 TAATA-TTATTAAATTAATATT
* *
13519014 TAGTATTATTAAATTAGTATT
1 TAATATTATTAAATTAATATT
*
13519035 TAGTATTATTAAATTAATA-T
1 TAATATTATTAAATTAATATT
*
13519055 TAATATTATTGAATTAATATT
1 TAATATTATTAAATTAATATT
* *
13519076 CAATATTATTAAATTAACATT
1 TAATATTATTAAATTAATATT
13519097 TA
1 TA
13519099 TTATAGTTAA
Statistics
Matches: 149, Mismatches: 24, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
17 9 0.06
18 17 0.11
19 3 0.02
20 20 0.13
21 59 0.40
22 27 0.18
23 14 0.09
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.44
Consensus pattern (21 bp):
TAATATTATTAAATTAATATT
Found at i:13519070 original size:41 final size:42
Alignment explanation
Indices: 13518891--13519098 Score: 148
Period size: 41 Copynumber: 5.0 Consensus size: 42
13518881 AATATTTCTA
* ** *
13518891 TAATATTATTAAAATAATATGAAATTATTATTAAATTAACATT
1 TAATATTATTAAATTAATATTCAA-TATTATTAAATTAATATT
* * *
13518934 TAATA-TA--AAA-TAATATTAAAATAATACTAAATATAA-A--
1 TAATATTATTAAATTAATATT-CAATATTATTAAAT-TAATATT
* * *
13518971 -AATATTATGAAATTAATGAAAT-AATATTTACTAAATTAATATT
1 TAATATTATTAAATTAAT--ATTCAATA-TTATTAAATTAATATT
* * * *
13519014 TAGTATTATTAAATTAGTATTTAGTATTATTAAATTAATA-T
1 TAATATTATTAAATTAATATTCAATATTATTAAATTAATATT
* *
13519055 TAATATTATTGAATTAATATTCAATATTATTAAATTAACATT
1 TAATATTATTAAATTAATATTCAATATTATTAAATTAATATT
13519097 TA
1 TA
13519099 TTATAGTTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 31
0.73 0.09 0.17
Matches are distributed among these distances:
36 4 0.03
37 2 0.02
39 19 0.14
40 20 0.15
41 44 0.33
42 22 0.17
43 8 0.06
44 14 0.11
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.44
Consensus pattern (42 bp):
TAATATTATTAAATTAATATTCAATATTATTAAATTAATATT
Found at i:13519127 original size:62 final size:62
Alignment explanation
Indices: 13519004--13519131 Score: 145
Period size: 62 Copynumber: 2.1 Consensus size: 62
13518994 ATATTTACTA
* * ** * *
13519004 AATTAATATTTAGTATTATTAAATTAGTATTTAGTATTATTAAATTAATATTAATATTATTG
1 AATTAATATTCAATATTATTAAATTAACATTTAGTATTATTAAATTAATATAAATAATATTG
*
13519066 AATTAATATTCAATATTATTAAATTAACATTTATTA-TAGTTAATATT-AT-TAAATGAATATTG
1 AATTAATATTCAATATTATTAAATTAACATTTAGTATTA-TTAA-ATTAATATAAAT-AATATTG
13519128 AATT
1 AATT
13519132 TTTTAAATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
61 6 0.11
62 47 0.84
63 3 0.05
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (62 bp):
AATTAATATTCAATATTATTAAATTAACATTTAGTATTATTAAATTAATATAAATAATATTG
Found at i:13519167 original size:20 final size:20
Alignment explanation
Indices: 13518996--13519202 Score: 114
Period size: 20 Copynumber: 10.8 Consensus size: 20
13518986 ATGAAATAAT
*
13518996 ATTTACTAAATTAATATTTA
1 ATTTATTAAATTAATATTTA
* *
13519016 GTATTATTAAATTAGTATTTA
1 AT-TTATTAAATTAATATTTA
*
13519037 GTATTATTAAATTAATA-TTA
1 AT-TTATTAAATTAATATTTA
* *
13519057 ATATTATTGAATTAATATTCA
1 AT-TTATTAAATTAATATTTA
*
13519078 ATATTATTAAATTAACATTT-
1 AT-TTATTAAATTAATATTTA
*
13519098 A-TTA-T-AGTT-A-A--T-
1 ATTTATTAAATTAATATTTA
* *
13519110 A-TTATTAAATGAATATTGA
1 ATTTATTAAATTAATATTTA
* *
13519129 ATTTTTTAAATTTATATTTA
1 ATTTATTAAATTAATATTTA
* *
13519149 CTTTATTAAATTAAAATTTA
1 ATTTATTAAATTAATATTTA
* * ** *
13519169 ATATCTTAAA-TACGAGTTA
1 ATTTATTAAATTAATATTTA
*
13519188 TTTTATTAAATTAAT
1 ATTTATTAAATTAAT
13519203 TTTGAATAAA
Statistics
Matches: 143, Mismatches: 33, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
12 5 0.03
13 1 0.01
14 3 0.02
15 2 0.01
16 4 0.03
17 1 0.01
18 3 0.02
19 14 0.10
20 59 0.41
21 51 0.36
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (20 bp):
ATTTATTAAATTAATATTTA
Done.