Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 1 of 109
Found at i:1800 original size:429 final size:428
Alignment explanation
Indices: 994--1822 Score: 1157
Period size: 429 Copynumber: 1.9 Consensus size: 428
984 AAAGGGATTG
** * * * * **
994 GTACCATTAAAATGGTGAACTCTAAAGAGGTTTCAGCCATTGGAGTAACGCGGGGAGTGGAGTTA
1 GTACCATTAAAACAGTGAACTCCAAAGAGGTTCCAGCCATTAGAATAACGCGAAGAGTGGAGTTA
* * ** * *
1059 TAGCTTGGAGACTGGAAAGGTAAAGAAACCATAGAGGTAATACCTCTTGACGACTATGAGTTTGT
66 CAGCTTGGAGACTGAAAAGACAAAGAAACCATAGAGATAATACCTCTTGACAACTATGAGTTTGT
*
1124 GATTGGATTAGATTTTTTTGTTCGGATAAACGTTCTCATTATGCCTTTTGCCAATTGTATTTGCA
131 GATTGGATTAGATTTTTTTGTTCGGAGAAACGTTCTCATTATGCCTTTTGCCAATTGTATTTGCA
** * ** *
1189 TCTTGGATGCATGGTGCTAATGCTTAGTACCATTGAAAAAAGGGTTTGAATTTAGGTCGAAAGCG
196 TCTTGGATGCACAGTGCTAATGCTTAGTACCATTGAAAAAAGAGTCCGAAGTTAGGTCGAAAGCG
* *
1254 GTGTCAGCCATTCAATTTGCCAAGGCAATGAACAGAAAGAAAGACACCTTCTTAGCAGCCCTAAA
261 GTGTCAGCCATTCAAGTTGCCAAGG-AATGAACAGAAAGAAAGACACCTTCTTAACAGCCCTAAA
* *
1319 GTATGAAAAGCCAAGGAAAAAGGAGATCGAGTCACCCTCAGAGGTACTAAAGGTGCTAAAGTCCT
325 GTATGAAAAACCAAGGAAAAAGAAGATCGAGTCACCCTCAGAGGTACTAAAGGTGCTAAAGTCCT
*
1384 TTAGTGATGTTAACGTAAAGCTCTATAATTTCAATTTGT
390 TTAGCGATGTTAACGTAAAGCTCTATAATTTCAATTTGT
* *
1423 GTACCATTAAAACAGTGAACTCCAAAGAGGTTCCAGCTATTAGAATAGCGCGAAGAGTGGAGTTA
1 GTACCATTAAAACAGTGAACTCCAAAGAGGTTCCAGCCATTAGAATAACGCGAAGAGTGGAGTTA
* *
1488 CAGCTTGGAGACTGAAAAGACAAGGAGACCATAGAGATAATACCTCTTGACAACTATGAGTTTGT
66 CAGCTTGGAGACTGAAAAGACAAAGAAACCATAGAGATAATACCTCTTGACAACTATGAGTTTGT
* * *
1553 GATTAGG-TTAGATTTTTTTGTTCGGAGAAACTTTTTTC-TTGTGCCTTTTGCCAATTGTATTTG
131 GATT-GGATTAGATTTTTTTGTTCGGAGAAAC-GTTCTCATTATGCCTTTTGCCAATTGTATTTG
* **
1616 CATCTTGGATGCACAGTGCTAATGCTTAGTACCATTGAGAAAAGAGTCCGAAGTTAGGTCGAGGG
194 CATCTTGGATGCACAGTGCTAATGCTTAGTACCATTGAAAAAAGAGTCCGAAGTTAGGTCGAAAG
* *
1681 CGGTGTCAGCCATTCAAGTTGCCAA-G-ATGGTAAGCA-AAGAGAAAGATACCTTTTTAACAGCC
259 CGGTGTCAGCCATTCAAGTTGCCAAGGAAT-G-AA-CAGAA-AGAAAGACACCTTCTTAACAGCC
* * * * *
1743 TTAAAGTATGAAAAACCAAGGGAAAAA-AAGATTGAGTCACCCTTAGAGGTGCTAAAGGTGCTGA
320 CTAAAGTATGAAAAACCAA-GGAAAAAGAAGATCGAGTCACCCTCAGAGGTACTAAAGGTGCTAA
1807 AGTCCTTTAGCGATGT
384 AGTCCTTTAGCGATGT
1823 GATGCTCGTA
Statistics
Matches: 350, Mismatches: 43, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
426 2 0.01
427 1 0.00
428 5 0.01
429 329 0.94
430 13 0.04
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (428 bp):
GTACCATTAAAACAGTGAACTCCAAAGAGGTTCCAGCCATTAGAATAACGCGAAGAGTGGAGTTA
CAGCTTGGAGACTGAAAAGACAAAGAAACCATAGAGATAATACCTCTTGACAACTATGAGTTTGT
GATTGGATTAGATTTTTTTGTTCGGAGAAACGTTCTCATTATGCCTTTTGCCAATTGTATTTGCA
TCTTGGATGCACAGTGCTAATGCTTAGTACCATTGAAAAAAGAGTCCGAAGTTAGGTCGAAAGCG
GTGTCAGCCATTCAAGTTGCCAAGGAATGAACAGAAAGAAAGACACCTTCTTAACAGCCCTAAAG
TATGAAAAACCAAGGAAAAAGAAGATCGAGTCACCCTCAGAGGTACTAAAGGTGCTAAAGTCCTT
TAGCGATGTTAACGTAAAGCTCTATAATTTCAATTTGT
Found at i:8186 original size:17 final size:18
Alignment explanation
Indices: 8159--8194 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
8149 TTATAATGGG
*
8159 ATAAGATAAAATAATATT
1 ATAAGATAAAATAAAATT
8177 ATAA-ATAAAATAAAATT
1 ATAAGATAAAATAAAATT
8194 A
1 A
8195 AATAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
ATAAGATAAAATAAAATT
Found at i:14834 original size:8 final size:8
Alignment explanation
Indices: 14821--14867 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
14811 ATTTCTGTCT
14821 TTTTTTTC
1 TTTTTTTC
14829 TTTTTTTC
1 TTTTTTTC
*
14837 TTTTTGTTA
1 TTTTT-TTC
14846 TTTTGTTT-
1 TTTT-TTTC
14854 TTGTTTTTC
1 TT-TTTTTC
14863 TTTTT
1 TTTTT
14868 CAATAGTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 21 0.62
9 12 0.35
10 1 0.03
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.85
Consensus pattern (8 bp):
TTTTTTTC
Found at i:14840 original size:14 final size:14
Alignment explanation
Indices: 14823--14861 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14813 TTCTGTCTTT
*
14823 TTTTTCTTTTTTTC
1 TTTTTGTTTTTTTC
* *
14837 TTTTTGTTATTTTG
1 TTTTTGTTTTTTTC
14851 TTTTTGTTTTT
1 TTTTTGTTTTT
14862 CTTTTTCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTTTTTC
Found at i:15277 original size:16 final size:16
Alignment explanation
Indices: 15256--15289 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
15246 TGGAAATTTG
15256 AAAAAGGA-AAAAAGAA
1 AAAAAGGACAAAAA-AA
15272 AAAAAGGACAAAAAAA
1 AAAAAGGACAAAAAAA
15288 AA
1 AA
15290 GAGATAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGGACAAAAAAA
Found at i:15608 original size:46 final size:46
Alignment explanation
Indices: 15531--15746 Score: 211
Period size: 46 Copynumber: 4.7 Consensus size: 46
15521 TTCAATTAAA
** * *
15531 TCAGTTTAATTTTTAAAGTTGTTGAGTCTCTAATAAGATAAGCTTT
1 TCAGTTTAATTTTTAAAGTTGTCAAGCCTCTAATAAGAGAAGCTTT
* *
15577 TTAGTTTAATTTTTAAATTTGTCAAGCCTCTAATGAA-ATG-AGCTTT
1 TCAGTTTAATTTTTAAAGTTGTCAAGCCTCTAAT-AAGA-GAAGCTTT
* * * *
15623 TCAATTTAATTTTTAAAGTTGTCAAACCTCTAATGAGAGAAGCCTT
1 TCAGTTTAATTTTTAAAGTTGTCAAGCCTCTAATAAGAGAAGCTTT
* * * * *
15669 TCAATTTGATTTTTAAAGTTATCAAGCCTCTAATGAGAGAAACTTT
1 TCAGTTTAATTTTTAAAGTTGTCAAGCCTCTAATAAGAGAAGCTTT
* * * * * *
15715 TTAGTTTGAGTTTTAAAATTGTCGAGTCTCTA
1 TCAGTTTAATTTTTAAAGTTGTCAAGCCTCTA
15747 GCGAAATGAG
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
45 2 0.01
46 138 0.97
47 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (46 bp):
TCAGTTTAATTTTTAAAGTTGTCAAGCCTCTAATAAGAGAAGCTTT
Found at i:16960 original size:59 final size:58
Alignment explanation
Indices: 16863--17165 Score: 362
Period size: 59 Copynumber: 5.0 Consensus size: 58
16853 TGTTCTTGTG
*
16863 TAAGAAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTTTGAAATTTATTTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTTGAAATTTA-TTTT
16922 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTGAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTG-AAATTTATTTT
* * * *
16980 TAAGGAAAACTGGTACTTTCAACTTTTTCTC-AAAATATTTTTTTTGAAACTTTGATTTC
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAA-TTT-ATTTT
* * *
17039 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTCTAAAAATTTATTTTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTT-T-GAAATTTA--TTTT
*
17102 TAAGAAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTTTGGAAATTTTGATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTTT-GAAA-TTT-ATTTT
17164 TA
1 TA
17166 TTTAAAGAAA
Statistics
Matches: 212, Mismatches: 17, Indels: 27
0.83 0.07 0.11
Matches are distributed among these distances:
57 9 0.04
58 51 0.24
59 72 0.34
60 7 0.03
61 8 0.04
62 15 0.07
63 49 0.23
64 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.48
Consensus pattern (58 bp):
TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAATTTATTTT
Found at i:17014 original size:117 final size:119
Alignment explanation
Indices: 16863--17162 Score: 394
Period size: 117 Copynumber: 2.5 Consensus size: 119
16853 TGTTCTTGTG
* **
16863 TAAGAAAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTTTGAAATTT-ATTTTTTAAGG
1 TAAGAAAAACTGATACTTTCAACTTTTCT-CAAAAATATTTTTTTTGAAATTTGA-TTTCCAAGG
*
16927 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTT-TGAAAATTTA-TTTT
64 AAAATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTCTAAAAATTTATTTTT
* *
16980 TAAGGAAAACTGGTACTTTCAACTTTTTCTC-AAAATATTTTTTTTGAAACTTTGATTTCCAAGG
1 TAAGAAAAACTGATACTTTCAAC-TTTTCTCAAAAATATTTTTTTTGAAA-TTTGATTTCCAAGG
*
17044 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTCTAAAAATTTATTTTTT
64 AAAATTGATACTTTCAACTTTTCCTCAAAAA-CTATTTTTTCTAAAAATTTA-TTTTT
* *
17102 TAAGAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTTGATTT
1 TAAGAAAAACTGATACTTTCAACTTTTCTC-AAAAATA-TTTTTTTT-GAAA-TTTGATTT
17163 TTATTTAAAG
Statistics
Matches: 159, Mismatches: 12, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
116 18 0.11
117 62 0.39
118 7 0.04
119 7 0.04
120 9 0.06
121 6 0.04
122 24 0.15
123 6 0.04
124 8 0.05
125 12 0.08
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (119 bp):
TAAGAAAAACTGATACTTTCAACTTTTCTCAAAAATATTTTTTTTGAAATTTGATTTCCAAGGAA
AATTGATACTTTCAACTTTTCCTCAAAAACTATTTTTTCTAAAAATTTATTTTT
Found at i:17191 original size:5 final size:5
Alignment explanation
Indices: 17183--17253 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
17173 AAAATAGAAT
*
17183 AATAA AAT-A AA-AA AATGAA AGTGAA AAT-A AATAA AA-ATA AA-AA
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATA-A AATAA
17226 AATAA AATAA AATAA AATAA AGATAA AA
1 AATAA AATAA AATAA AATAA A-ATAA AA
17254 AGAATATTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
4 14 0.25
5 29 0.51
6 14 0.25
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:17211 original size:28 final size:27
Alignment explanation
Indices: 17173--17318 Score: 102
Period size: 30 Copynumber: 5.2 Consensus size: 27
17163 TTATTTAAAG
*
17173 AAAATAGAAT-AATAAAATAAAAAAAT
1 AAAATAAAATAAATAAAATAAAAAAAT
*
17199 GAAAGTGAAAATAAATAAAAATAAAAAAAT
1 -AAAAT-AAAATAAAT-AAAATAAAAAAAT
17229 AAAATAAAATAAAATAAAGATAAAAAGAAT
1 AAAATAAAAT-AAATAAA-ATAAAAA-AAT
* ** *
17259 ATTAAATAAACCT-AATCTAATAAATAAAT
1 A--AAATAAA-ATAAATAAAATAAAAAAAT
* *
17288 AAAAT-AAACAAAT-AAATGAAAAAAAA
1 AAAATAAAATAAATAAAAT-AAAAAAAT
17314 AAAAT
1 AAAAT
17319 CTGGAGCGGC
Statistics
Matches: 96, Mismatches: 12, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
25 3 0.03
26 16 0.17
27 8 0.08
28 12 0.12
29 22 0.23
30 23 0.24
31 4 0.04
32 7 0.07
33 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (27 bp):
AAAATAAAATAAATAAAATAAAAAAAT
Found at i:17216 original size:29 final size:28
Alignment explanation
Indices: 17183--17268 Score: 93
Period size: 29 Copynumber: 2.9 Consensus size: 28
17173 AAAATAGAAT
*
17183 AATAAAATAAAAAAATGAAAGTGAAAAT-A
1 AATAAAATAAAAAAAT-AAAAT-AAAATAA
17212 AATAAAAATAAAAAAATAAAATAAAATAA
1 AAT-AAAATAAAAAAATAAAATAAAATAA
17241 AATAAAGATAAAAAGAATATTAAATAAA
1 AATAAA-ATAAAAA-AATA--AAATAAA
17269 CCTAATCTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
28 8 0.16
29 18 0.36
30 17 0.34
32 7 0.14
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (28 bp):
AATAAAATAAAAAAATAAAATAAAATAA
Found at i:17221 original size:10 final size:9
Alignment explanation
Indices: 17206--17259 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
17196 AATGAAAGTG
17206 AAAATAAATA
1 AAAATAAA-A
17216 AAAAT-AAA
1 AAAATAAAA
17224 AAAATAAAA
1 AAAATAAAA
17233 TAAAATAAAA
1 -AAAATAAAA
17243 TAAAGATAAAA
1 -AAA-ATAAAA
*
17254 AGAATA
1 AAAATA
17260 TTAAATAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
8 6 0.15
9 8 0.20
10 20 0.50
11 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.17
Consensus pattern (9 bp):
AAAATAAAA
Found at i:17229 original size:18 final size:18
Alignment explanation
Indices: 17183--17318 Score: 64
Period size: 20 Copynumber: 6.9 Consensus size: 18
17173 AAAATAGAAT
17183 AATAAAATAAAAAAATGAA
1 AATAAAATAAAAAAAT-AA
*
17202 AGTGAAAATAAATAAAA-ATA
1 AAT-AAAATAAA-AAAATA-A
17222 AA-AAAATAAAATAAAATAA
1 AATAAAAT-AAA-AAAATAA
17241 AATAAAGATAAAAAGAATATTA
1 AATAAA-ATAAAAA-AATA--A
*
17263 AATAAACCTAATCTAATAAAT-A
1 AATAAA-ATAA---AA-AAATAA
*
17285 AATAAAATAAACAAAT-A
1 AATAAAATAAAAAAATAA
*
17302 AATGAAAAAAAAAAAAT
1 AAT-AAAATAAAAAAAT
17319 CTGGAGCGGC
Statistics
Matches: 94, Mismatches: 8, Indels: 31
0.71 0.06 0.23
Matches are distributed among these distances:
17 8 0.09
18 17 0.18
19 16 0.17
20 21 0.22
21 9 0.10
22 17 0.18
25 5 0.05
26 1 0.01
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (18 bp):
AATAAAATAAAAAAATAA
Found at i:17234 original size:13 final size:13
Alignment explanation
Indices: 17173--17318 Score: 87
Period size: 13 Copynumber: 10.4 Consensus size: 13
17163 TTATTTAAAG
* *
17173 AAAATAGAATAAT
1 AAAATAAAAAAAT
17186 AAAATAAAAAAAT
1 AAAATAAAAAAAT
*
17199 GAAAGTGAAAATAAAT
1 -AAAAT-AAAA-AAAT
17215 AAAAATAAAAAAAT
1 -AAAATAAAAAAAT
17229 AAAATAAAATAAAAT
1 AAAAT-AAA-AAAAT
17244 AAAGATAAAAAGAAT
1 AAA-ATAAAAA-AAT
**
17259 ATTAAATAAACCTAAT
1 A--AAATAAA-AAAAT
** *
17275 CTAATAAATAAAT
1 AAAATAAAAAAAT
*
17288 AAAATAAACAAAT
1 AAAATAAAAAAAT
*
17301 -AAATGAAAAAAAA
1 AAAAT-AAAAAAAT
17314 AAAAT
1 AAAAT
17319 CTGGAGCGGC
Statistics
Matches: 105, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
12 4 0.04
13 35 0.33
14 23 0.22
15 23 0.22
16 18 0.17
17 2 0.02
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (13 bp):
AAAATAAAAAAAT
Found at i:17254 original size:35 final size:35
Alignment explanation
Indices: 17174--17246 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
17164 TATTTAAAGA
*
17174 AAATAGAATAATAAAATAAAAAAATGAAAGTGAAAAT
1 AAATA-AA-AATAAAATAAAAAAATGAAAATGAAAAT
17211 AAATAAAAATAAAA-AAATAAAAT-AAAAT-AAAAT
1 AAATAAAAATAAAATAAA-AAAATGAAAATGAAAAT
17244 AAA
1 AAA
17247 GATAAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 8 0.24
34 7 0.21
35 12 0.35
36 2 0.06
37 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (35 bp):
AAATAAAAATAAAATAAAAAAATGAAAATGAAAAT
Found at i:18311 original size:6 final size:6
Alignment explanation
Indices: 18302--18416 Score: 53
Period size: 6 Copynumber: 18.2 Consensus size: 6
18292 AACAAAAAAA
*
18302 AATAAT AAT-AT AATAAT AATAAAT ATATAACT ATATACAT -ATAA- ATCTAAT
1 AATAAT AATAAT AATAAT AAT-AAT A-ATAA-T A-ATA-AT AATAAT A-ATAAT
* *
18353 -CTAAT AATAAAT ATATATAT ATTAAT ACATAAT AATAAT AATAAAT AATAA-
1 AATAAT AAT-AAT A-ATA-AT AATAAT A-ATAAT AATAAT AAT-AAT AATAAT
18404 AATACAT AA-AAT A
1 AATA-AT AATAAT A
18417 CAAAAGAAAC
Statistics
Matches: 89, Mismatches: 4, Indels: 33
0.71 0.03 0.26
Matches are distributed among these distances:
5 18 0.20
6 30 0.34
7 26 0.29
8 14 0.16
9 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (6 bp):
AATAAT
Found at i:18368 original size:31 final size:34
Alignment explanation
Indices: 18306--18399 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 34
18296 AAAAAAAATA
*
18306 ATAATATA-ATAATAATAAATATATAACTATATACAT
1 ATAA-ATACATAATAAT-AATA-ATAAATATATACAT
* *
18342 ATAAAT-C-TAAT-CTAATAATAAATATATATAT
1 ATAAATACATAATAATAATAATAAATATATACAT
*
18373 ATTAATACATAATAATAATAATAAATA
1 ATAAATACATAATAATAATAATAAATA
18400 ATAAAATACA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
31 17 0.35
32 5 0.10
33 5 0.10
34 16 0.33
35 2 0.04
36 4 0.08
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (34 bp):
ATAAATACATAATAATAATAATAAATATATACAT
Found at i:18621 original size:8 final size:8
Alignment explanation
Indices: 18604--18648 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
18594 ACGTTGTCAC
*
18604 TTTTTGTT
1 TTTTTATT
18612 TTTTTA-T
1 TTTTTATT
18619 TTTTTATTT
1 TTTTTA-TT
*
18628 TTTTTGTT
1 TTTTTATT
18636 TTTTTATT
1 TTTTTATT
18644 TTTTT
1 TTTTT
18649 GACCAAAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
7 7 0.22
8 19 0.59
9 6 0.19
ACGTcount: A:0.07, C:0.00, G:0.04, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:18713 original size:41 final size:41
Alignment explanation
Indices: 18656--18989 Score: 446
Period size: 41 Copynumber: 8.1 Consensus size: 41
18646 TTTGACCAAA
* *
18656 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAGTAAATT
* *
18697 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAGTAAATT
*
18738 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGAC-TTTGAAAAGTAAATT
*
18780 GCTCCTCTAAACAGAGGCAACAA-AACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGC-ACAACGACTTTGAAAAGTAAATT
*
18820 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTT-GAAAAGTAAATT
*
18862 GCTCCTCTAAATAGAGG--CAACGAAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACG--ACTTTGAAAAGTAAATT
* * * *
18902 GCTCCTCTAAACAGAGGTACCACAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAGTAAATT
**
18943 GCTCCTCTAAACAGAGGCA-ATGGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACG-ACTTTGAAAAGTAAATT
18984 GCTCCT
1 GCTCCT
18990 TGACAATCAT
Statistics
Matches: 262, Mismatches: 20, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.01
40 69 0.26
41 119 0.45
42 68 0.26
43 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGAAAAGTAAATT
Found at i:18754 original size:82 final size:80
Alignment explanation
Indices: 18656--18989 Score: 499
Period size: 82 Copynumber: 4.1 Consensus size: 80
18646 TTTGACCAAA
* * *
18656 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--ACG
18721 -ACTTTGGAAAGTAAATT
64 AACTTT-GAAAGTAAATT
*
18738 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAA
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-G
18803 AACTTTGAAAGTAAATT
64 AACTTTGAAAGTAAATT
*
18820 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAATAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
18885 AACTTTGAAAGTAAATT
64 AACTTTGAAAGTAAATT
* * * *
18902 GCTCCTCTAAACAGAGGTACCACAACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAATGGA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAA-CGA
18967 ACTTTGAAAAGTAAATT
65 ACTTTG-AAAGTAAATT
18984 GCTCCT
1 GCTCCT
18990 TGACAATCAT
Statistics
Matches: 234, Mismatches: 11, Indels: 14
0.90 0.04 0.05
Matches are distributed among these distances:
81 42 0.18
82 154 0.66
83 38 0.16
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (80 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAGTAAATT
Found at i:20093 original size:9 final size:8
Alignment explanation
Indices: 19993--20090 Score: 151
Period size: 8 Copynumber: 11.6 Consensus size: 8
19983 TGAGTCCTCC
19993 TTTTTCACT
1 TTTTTCA-T
20002 TTTTTCATT
1 TTTTTCA-T
20011 TTTTTCAT
1 TTTTTCAT
20019 TTTTTCTAT
1 TTTTTC-AT
20028 TTTTTCATT
1 TTTTTCA-T
20037 TTTTTCATT
1 TTTTTCA-T
20046 TTTTTCAT
1 TTTTTCAT
20054 TTTTTCAT
1 TTTTTCAT
20062 TTTTTCAT
1 TTTTTCAT
20070 TTTTTCAT
1 TTTTTCAT
20078 TTTTTCAT
1 TTTTTCAT
20086 TTTTT
1 TTTTT
20091 TCAAGCATAG
Statistics
Matches: 86, Mismatches: 1, Indels: 5
0.93 0.01 0.05
Matches are distributed among these distances:
8 46 0.53
9 40 0.47
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Found at i:20124 original size:19 final size:17
Alignment explanation
Indices: 20086--20124 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20076 ATTTTTTCAT
*
20086 TTTTTTCAAGCATAGTA
1 TTTTTTCAAGCATAGAA
20103 TTTTTTCACAGCATCAGAA
1 TTTTTTCA-AGCAT-AGAA
20122 TTT
1 TTT
20125 AGAGGATGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (17 bp):
TTTTTTCAAGCATAGAA
Found at i:21031 original size:9 final size:9
Alignment explanation
Indices: 21017--21052 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
21007 AGCATATATC
21017 TGGCATTTA
1 TGGCATTTA
21026 TGGCATTTA
1 TGGCATTTA
21035 TGGCATTTA
1 TGGCATTTA
*
21044 CGGCATTTA
1 TGGCATTTA
21053 CGAGCATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (9 bp):
TGGCATTTA
Found at i:21053 original size:9 final size:9
Alignment explanation
Indices: 21018--21059 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
21008 GCATATATCT
*
21018 GGCATTTAT
1 GGCATTTAC
*
21027 GGCATTTAT
1 GGCATTTAC
21036 GGCATTTAC
1 GGCATTTAC
21045 GGCATTTAC
1 GGCATTTAC
21054 GAGCAT
1 G-GCAT
21060 AATCAATACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
9 27 0.87
10 4 0.13
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (9 bp):
GGCATTTAC
Found at i:21488 original size:82 final size:82
Alignment explanation
Indices: 21351--21517 Score: 325
Period size: 82 Copynumber: 2.0 Consensus size: 82
21341 AAGATGTCAT
*
21351 AATACCAGGGCTTTCCATCTTCTTCTCCCTCCACATTAGAACAATACGCTGGTATATCCTTAACA
1 AATACCAAGGCTTTCCATCTTCTTCTCCCTCCACATTAGAACAATACGCTGGTATATCCTTAACA
21416 TCTAACTTGATGGGCTG
66 TCTAACTTGATGGGCTG
21433 AATACCAAGGCTTTCCATCTTCTTCTCCCTCCACATTAGAACAATACGCTGGTATATCCTTAACA
1 AATACCAAGGCTTTCCATCTTCTTCTCCCTCCACATTAGAACAATACGCTGGTATATCCTTAACA
21498 TCTAACTTGATGGGCTG
66 TCTAACTTGATGGGCTG
21515 AAT
1 AAT
21518 GTCGGTATTA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 84 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.32
Consensus pattern (82 bp):
AATACCAAGGCTTTCCATCTTCTTCTCCCTCCACATTAGAACAATACGCTGGTATATCCTTAACA
TCTAACTTGATGGGCTG
Found at i:25102 original size:15 final size:14
Alignment explanation
Indices: 25078--25107 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
25068 TCTTTCTCCT
25078 TCTTTAGCCTTCTC
1 TCTTTAGCCTTCTC
25092 TCTTCTAGCCTTCTC
1 TCTT-TAGCCTTCTC
25107 T
1 T
25108 AGCATTTCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.37, G:0.07, T:0.50
Consensus pattern (14 bp):
TCTTTAGCCTTCTC
Found at i:30704 original size:59 final size:59
Alignment explanation
Indices: 30612--31079 Score: 529
Period size: 59 Copynumber: 7.7 Consensus size: 59
30602 TTCTTGTGTT
* * *
30612 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTATTTTTTAAA
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATTTATTTTTTAAG
* *
30671 GAAAATTGATACTTTCAAATTTTCCTCAAAAATATTTTTTTAAAAATTTA-TTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATTTATTTTTTAAG
* * * * **
30729 GAAAACTGATACTTTTAACTTTTTCTCAAAAATATTTTTTTTTGAAACTTTGA-TTTCCAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTT-AAAATTT-ATTTTTTAAG
*
30790 GAAAATTGATACTTTCAACTTTTCC-CAAAAA-ACCTTTTTTTTTTAAATTTATTTTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATA---TTTTTTTTAAAATTTA-TTTTTTAAG
* **
30851 GAAAATTGATACTTTCAACTTTTTCCT-AAAAAT-CTTTTTCAAAAATTT-TTATTTTCAAG
1 GAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTTTAAAATTTATT-TTTT-AAG
* *
30910 GAAAATTGATACTTTCAACTTTTCTTCAAAAATCTTTTTTTCTGAAAATTTATTTTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT-T-AAAATTTA-TTTTTTAAG
*
30972 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTTAAATTTATTTATTTTTTTTAA
1 GAAAATTGATACTTTCAACTTTT-CCTCAAAA-ATATTTTTTTTAAA---ATTTA--TTTTTTAA
31037 G
59 G
31038 GAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTT
1 GAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTT
31080 TTGAAAATTT
Statistics
Matches: 352, Mismatches: 32, Indels: 45
0.82 0.07 0.10
Matches are distributed among these distances:
57 2 0.01
58 47 0.13
59 94 0.27
60 22 0.06
61 63 0.18
62 47 0.13
63 11 0.03
64 22 0.06
65 11 0.03
66 33 0.09
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (59 bp):
GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATTTATTTTTTAAG
Found at i:30801 original size:61 final size:60
Alignment explanation
Indices: 30612--31097 Score: 508
Period size: 61 Copynumber: 7.9 Consensus size: 60
30602 TTCTTGTGTT
*
30612 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAA-TTTATTTTTTAAA
1 GAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTTTGAAATTTTATTTTTTAAG
* * *
30671 GAAAATTGATACTTTCAAATTTTCCTCAAAAATA--TTTTTTTAAAAATTTA-TTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTTGAAATTTTATTTTTTAAG
* * * * **
30729 GAAAACTGATACTTTTAACTTTTTCTCAAAAATATTTTTTTTTGAAACTTTGA-TTTCCAAG
1 GAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTTGAAA-TTTTATTTTTTAAG
*
30790 GAAAATTGATACTTTCAACTTTTCCCAAAAA-ACCTTTTTTTTTTAAA-TTTATTTTTTTAAG
1 GAAAATTGATACTTTCAACTTTTCCCAAAAATA--TTTTTTTTTGAAATTTTA-TTTTTTAAG
* * * *** *
30851 GAAAATTGATACTTTCAACTTTTTCCTAAAA-ATCTTTTTCAAAAATTTT-TATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAATTTTAT-TTTTTAAG
* * * *
30910 GAAAATTGATACTTTCAACTTTTCTTCAAAAATCTTTTTTTCTGAAAATTTATTTTTTTAAG
1 GAAAATTGATACTTTCAACTTTTC-CCAAAAATATTTTTTTTTGAAATTTTA-TTTTTTAAG
30972 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATATTTTTTTT-AAATTTATTTATTTTTTTTA
1 GAAAATTGATACTTTCAACTTTTCCC-AAAAATAT-TTTTTTTTGAAA--T-TTTA--TTTTTTA
31036 AG
59 AG
31038 GAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAAATTTTGATTTTT
1 GAAAATTGATACTTTCAACTTTTCCC-AAAAATA-TTTTTTTTTG-AAATTTT-ATTTTT
31098 ATTTAAAGAA
Statistics
Matches: 362, Mismatches: 39, Indels: 47
0.81 0.09 0.10
Matches are distributed among these distances:
58 44 0.12
59 82 0.23
60 29 0.08
61 88 0.24
62 41 0.11
63 8 0.02
64 5 0.01
65 7 0.02
66 54 0.15
67 1 0.00
68 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (60 bp):
GAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTTGAAATTTTATTTTTTAAG
Found at i:31124 original size:5 final size:5
Alignment explanation
Indices: 31116--31190 Score: 73
Period size: 5 Copynumber: 14.4 Consensus size: 5
31106 AAAATAGAAT
*
31116 AATAA AATAA AAAAA AATGAA AATGAA AAT-A AATAAA AATAA AA-AA
1 AATAA AATAA AATAA AAT-AA AAT-AA AATAA AAT-AA AATAA AATAA
*
31162 AACAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AAT-AA AATAA AATAA A-ATAA AA
31191 AGAATATTAA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
4 8 0.13
5 28 0.46
6 25 0.41
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.15
Consensus pattern (5 bp):
AATAA
Found at i:31131 original size:22 final size:21
Alignment explanation
Indices: 31104--31205 Score: 59
Period size: 22 Copynumber: 4.7 Consensus size: 21
31094 TTTTATTTAA
* *
31104 AGAAAATAGAATAATAAAATAAA
1 AGAAAATAAAATAA-AAAA-AAT
* *
31127 AAAAAATGAAAATGAAAATAAAT
1 AGAAAAT-AAAAT-AAAAAAAAT
31150 A-AAAATAAAA-AAAACAAAAT
1 AGAAAATAAAATAAAA-AAAAT
31170 A-AAAATAAAATAAAGATAAAA-
1 AGAAAATAAAATAAA-A-AAAAT
* *
31191 AGAATATTAAATAAA
1 AGAAAATAAAATAAA
31206 CCTAATCTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
19 4 0.06
20 14 0.22
21 8 0.12
22 21 0.32
23 9 0.14
24 7 0.11
25 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.06, T:0.17
Consensus pattern (21 bp):
AGAAAATAAAATAAAAAAAAT
Found at i:31155 original size:6 final size:6
Alignment explanation
Indices: 31106--31191 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
31096 TTATTTAAAG
* *
31106 AAAATA GAATAAT- AAAAT- AAAA-A AAAATG AAAATG AAAAT- -AAATA
1 AAAATA -AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
31151 AAAATAA AAAAAA CAAAATA AAAAT- AAAATA AAGATA AAAA
1 AAAAT-A AAAATA -AAAATA AAAATA AAAATA AAAATA AAAA
31192 GAATATTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
4 4 0.06
5 16 0.24
6 31 0.47
7 12 0.18
8 3 0.05
ACGTcount: A:0.79, C:0.01, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:31160 original size:30 final size:31
Alignment explanation
Indices: 31119--31191 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
31109 ATAGAATAAT
* *
31119 AAAATAAAAAAAAATGAAAATGAAAAT-AAATA
1 AAAAT-AAAAAAAA-CAAAATAAAAATAAAATA
31151 AAAATAAAAAAAACAAAATAAAAATAAAATA
1 AAAATAAAAAAAACAAAATAAAAATAAAATA
*
31182 AAGATAAAAA
1 AAAATAAAAA
31192 GAATATTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 10 0.27
31 22 0.59
32 5 0.14
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (31 bp):
AAAATAAAAAAAACAAAATAAAAATAAAATA
Found at i:31248 original size:24 final size:24
Alignment explanation
Indices: 31214--31268 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
31204 AACCTAATCT
* *
31214 AATAAATAAATAAAAT-AAAAAACA
1 AATAAACAAAT-AAATGAAAAAAAA
31238 AATAAACAAATAAATGAAAAAAAA
1 AATAAACAAATAAATGAAAAAAAA
*
31262 AAAAAAC
1 AATAAAC
31269 CTGGAGCGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.13
Consensus pattern (24 bp):
AATAAACAAATAAATGAAAAAAAA
Found at i:32265 original size:3 final size:3
Alignment explanation
Indices: 32259--32385 Score: 54
Period size: 3 Copynumber: 41.3 Consensus size: 3
32249 AACAAAAAAA
*
32259 AAT AAT AAT AAT -AT AAT AAT AAT AAAT ATAT ATCT ATAT ACAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT A-AT A-AT A-AT A-AT AAT
* * * *
32304 AA- ATCT AAT -CT AAT AAT AAT AA- AAA AAT AA- ATAT ATAT ATT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT AAT AAT
32348 ACAT AAT AAT AAT AAT AAAT AAT AA- AAT ACAT AA- AAT A
1 A-AT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT A
32386 CAAAAGAAAC
Statistics
Matches: 99, Mismatches: 10, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
2 13 0.13
3 57 0.58
4 29 0.29
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32369 original size:50 final size:48
Alignment explanation
Indices: 32257--32372 Score: 123
Period size: 50 Copynumber: 2.4 Consensus size: 48
32247 AAAACAAAAA
*
32257 AAAATAATAATAAT-ATAATAATAATAAATATATATCTATATACATAT
1 AAAATAATAATAATAATAATAAAAATAAATATATATCTATATACATAT
* *
32304 AAATCTAATCTAATAATAATAA-AAAAATAAATATATATAT-TAATACATA-
1 AAA-ATAA--TAATAATAATAATAAAAATAAATATATATCTAT-ATACATAT
*
32353 ATAATAATAATAAATAATAA
1 AAAATAATAAT-AATAATAA
32373 AATACATAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
46 4 0.07
47 11 0.19
48 6 0.10
49 3 0.05
50 30 0.52
51 4 0.07
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (48 bp):
AAAATAATAATAATAATAATAAAAATAAATATATATCTATATACATAT
Found at i:32381 original size:16 final size:15
Alignment explanation
Indices: 32314--32382 Score: 68
Period size: 16 Copynumber: 4.5 Consensus size: 15
32304 AAATCTAATC
32314 TAAT-AATAATAAAA
1 TAATAAATAATAAAA
* * *
32328 AAATAAATATATATAT
1 TAATAAATA-ATAAAA
*
32344 TAATACATAATAATAA
1 TAATAAATAATAA-AA
32360 TAATAAATAATAAAA
1 TAATAAATAATAAAA
32375 TACATAAA
1 TA-ATAAA
32383 ATACAAAAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 3 0.07
15 11 0.26
16 29 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:32386 original size:37 final size:37
Alignment explanation
Indices: 32314--32387 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
32304 AAATCTAATC
* *
32314 TAATAATAATAAAAAAATAAATATATATATTAATACA
1 TAATAATAATAAAAAAATAAATATACATATAAATACA
32351 TAATAATAATAATAAATAATAAA-ATACATA-AAATACA
1 TAATAATAATAA-AAA-AATAAATATACATATAAATACA
32388 AAAGAAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 18 0.55
38 9 0.27
39 6 0.18
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (37 bp):
TAATAATAATAAAAAAATAAATATACATATAAATACA
Found at i:33859 original size:13 final size:13
Alignment explanation
Indices: 33841--33901 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
33831 TTTCTTTTAC
33841 TAAAAAATAAAAA
1 TAAAAAATAAAAA
*
33854 TAAAAAATAATAA
1 TAAAAAATAAAAA
* * *
33867 TAAATAGTAAATAT
1 TAAAAAATAAA-AA
*
33881 TAAATAAT-AAAA
1 TAAAAAATAAAAA
33893 TGAAAAAAT
1 T-AAAAAAT
33902 TAATAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
12 2 0.05
13 28 0.74
14 8 0.21
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:33872 original size:7 final size:7
Alignment explanation
Indices: 33841--33891 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
33831 TTTCTTTTAC
*
33841 TAAAAAA
1 TAAATAA
33848 TAAA-AA
1 TAAATAA
*
33854 TAAAAAA
1 TAAATAA
33861 T-AATAA
1 TAAATAA
*
33867 TAAATAG
1 TAAATAA
*
33874 TAAATAT
1 TAAATAA
33881 TAAATAA
1 TAAATAA
33888 TAAA
1 TAAA
33892 ATGAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
6 11 0.29
7 27 0.71
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAATAA
Found at i:38471 original size:3 final size:3
Alignment explanation
Indices: 38465--38505 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
38455 TTTTTTAAAA
38465 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
38506 GTAGTAGTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:38510 original size:3 final size:3
Alignment explanation
Indices: 38504--38551 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
38494 TTATTATTAT
* * * *
38504 TAG TAG TAG TAG TAA TAG TAA TAG TAG TAG TAG TAA TAA TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
38552 AAGAAGCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (3 bp):
TAG
Found at i:38522 original size:15 final size:15
Alignment explanation
Indices: 38504--38551 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
38494 TTATTATTAT
* *
38504 TAGTAGTAGTAGTAA
1 TAGTAATAGTAGTAG
38519 TAGTAATAGTAGTAG
1 TAGTAATAGTAGTAG
*
38534 TAGTAATAATAGTAG
1 TAGTAATAGTAGTAG
38549 TAG
1 TAG
38552 AAGAAGCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (15 bp):
TAGTAATAGTAGTAG
Found at i:40614 original size:18 final size:19
Alignment explanation
Indices: 40591--40635 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
40581 TTTTTTCATA
40591 ATATTTTCAA-TAAAAAAC
1 ATATTTTCAATTAAAAAAC
* *
40609 ATATTTTTAATTTTAAAAAC
1 ATATTTTCAA-TTAAAAAAC
40629 ATATTTT
1 ATATTTT
40636 TTGTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
20 14 0.61
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTTTCAATTAAAAAAC
Found at i:40644 original size:18 final size:19
Alignment explanation
Indices: 40603--40645 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
40593 ATTTTCAATA
*
40603 AAAAACATATTTTTAATTTT
1 AAAAACATATTTTT-ATGTT
40623 AAAAACATATTTTT-TGTT
1 AAAAACATATTTTTATGTT
40641 AAAAA
1 AAAAA
40646 TATAATGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
20 14 0.64
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAAACATATTTTTATGTT
Found at i:41280 original size:9 final size:10
Alignment explanation
Indices: 41263--41290 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
41253 CTAAATTATC
41263 AAAATTTTTT
1 AAAATTTTTT
41273 AAAATTTTTT
1 AAAATTTTTT
41283 AAAATTTT
1 AAAATTTT
41291 ACACACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AAAATTTTTT
Found at i:42862 original size:29 final size:30
Alignment explanation
Indices: 42813--42873 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
42803 GTTGAGTTAA
* *
42813 AATAAAAAATTAAAAGCTTAATTAATT-TT
1 AATAAAAAATTAAAAACTTAAATAATTATT
* *
42842 AATAAAATATTAAAAATTTAAATAATTATT
1 AATAAAAAATTAAAAACTTAAATAATTATT
42872 AA
1 AA
42874 ATTATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (30 bp):
AATAAAAAATTAAAAACTTAAATAATTATT
Found at i:44684 original size:17 final size:17
Alignment explanation
Indices: 44662--44695 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44652 AAGTTGGCCC
44662 CTTCACTTACTGTCAAT
1 CTTCACTTACTGTCAAT
*
44679 CTTCACTTATTGTCAAT
1 CTTCACTTACTGTCAAT
44696 TGGTTGTGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (17 bp):
CTTCACTTACTGTCAAT
Found at i:46410 original size:26 final size:26
Alignment explanation
Indices: 46381--46432 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46371 ATCTTATGGG
46381 TTTTCAATGTTTTCTTGATATATAAT
1 TTTTCAATGTTTTCTTGATATATAAT
46407 TTTTCAATGTTTTCTTGATATATAAT
1 TTTTCAATGTTTTCTTGATATATAAT
46433 GCAGGCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (26 bp):
TTTTCAATGTTTTCTTGATATATAAT
Found at i:50705 original size:12 final size:13
Alignment explanation
Indices: 50680--50720 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
50670 CTAAAATTTA
50680 TTTC-TATC-TTT
1 TTTCTTATCTTTT
50691 TTTCTT-TCTTTT
1 TTTCTTATCTTTT
*
50703 TTTCTTATCTTTA
1 TTTCTTATCTTTT
50716 TTTCT
1 TTTCT
50721 GAAATTTCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 6 0.23
12 10 0.38
13 10 0.38
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTATCTTTT
Found at i:55606 original size:23 final size:23
Alignment explanation
Indices: 55574--55617 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
55564 AGAACAGGGA
*
55574 AAAAATAAG-AGAGAAGAAGAAAC
1 AAAAAGAAGAAGAG-AGAAGAAAC
55597 AAAAAGAAGAAGAGAGAAGAA
1 AAAAAGAAGAAGAGAGAAGAA
55618 TATTAGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.70, C:0.02, G:0.25, T:0.02
Consensus pattern (23 bp):
AAAAAGAAGAAGAGAGAAGAAAC
Found at i:64158 original size:10 final size:10
Alignment explanation
Indices: 64143--64176 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
64133 TAAATGAGCA
64143 TATATATATT
1 TATATATATT
*
64153 TATATATATA
1 TATATATATT
*
64163 TATACATATT
1 TATATATATT
64173 TATA
1 TATA
64177 CACAAACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TATATATATT
Found at i:66920 original size:15 final size:15
Alignment explanation
Indices: 66881--66922 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
66871 GAAACTAATG
*
66881 AAAAAGAAAAGATCA
1 AAAAAAAAAAGATCA
*
66896 AAAAATAAAAGAT-A
1 AAAAAAAAAAGATCA
66910 AAAAGAAAAAAGA
1 AAAA-AAAAAAGA
66923 AATGTGAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAAGATCA
Found at i:68608 original size:23 final size:24
Alignment explanation
Indices: 68574--68620 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
68564 AATCTTTGAA
68574 TTTAGAATGTGAATCCTTAAGACT
1 TTTAGAATGTGAATCCTTAAGACT
*
68598 TTTAG-ATGTGAATCTTTAAGACT
1 TTTAGAATGTGAATCCTTAAGACT
68621 ACCTAGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (24 bp):
TTTAGAATGTGAATCCTTAAGACT
Found at i:68633 original size:24 final size:23
Alignment explanation
Indices: 68583--68636 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
68573 ATTTAGAATG
* ** *
68583 TGAATCCTTAAGACTTTTAGATG
1 TGAATCTTTAAGACTCCTAGATA
68606 TGAATCTTTAAGACTACCTAGATA
1 TGAATCTTTAAGACT-CCTAGATA
68630 TGAATCT
1 TGAATCT
68637 CTATGTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (23 bp):
TGAATCTTTAAGACTCCTAGATA
Found at i:68769 original size:34 final size:34
Alignment explanation
Indices: 68730--68799 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
68720 AATTTTGTCG
* * *
68730 AATGTGAGTTACTGAATCTTGGATATGAATCTTT
1 AATGTGAATTACTAAATCTTAGATATGAATCTTT
** *
68764 AATGTGAATTTTTAAATCTTAGATGTGAATCTTT
1 AATGTGAATTACTAAATCTTAGATATGAATCTTT
68798 AA
1 AA
68800 AACTATTAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (34 bp):
AATGTGAATTACTAAATCTTAGATATGAATCTTT
Found at i:68783 original size:21 final size:22
Alignment explanation
Indices: 68757--68822 Score: 91
Period size: 21 Copynumber: 3.0 Consensus size: 22
68747 CTTGGATATG
*
68757 AATCTTTA-ATGTGAATTTTTA
1 AATCTTTAGATGTGAATCTTTA
68778 AATC-TTAGATGTGAATCTTTA
1 AATCTTTAGATGTGAATCTTTA
*
68799 AAACTATTAGATGTGAATCTTTA
1 AATCT-TTAGATGTGAATCTTTA
68822 A
1 A
68823 GATTACTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.08
21 19 0.47
23 18 0.45
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (22 bp):
AATCTTTAGATGTGAATCTTTA
Found at i:68836 original size:23 final size:23
Alignment explanation
Indices: 68765--68849 Score: 86
Period size: 23 Copynumber: 3.8 Consensus size: 23
68755 TGAATCTTTA
* *
68765 ATGTGAATTTTTAA-A-TCTTAG
1 ATGTGAATCTTTAAGATTATTAG
* *
68786 ATGTGAATCTTTAAAACTATTAG
1 ATGTGAATCTTTAAGATTATTAG
68809 ATGTGAATCTTTAAGATTACTT-G
1 ATGTGAATCTTTAAGATTA-TTAG
* *
68832 TTGTGAATCTATAAGATT
1 ATGTGAATCTTTAAGATT
68850 TTTTGAATGC
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
21 13 0.24
22 1 0.02
23 39 0.71
24 2 0.04
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (23 bp):
ATGTGAATCTTTAAGATTATTAG
Found at i:68928 original size:44 final size:43
Alignment explanation
Indices: 68843--68955 Score: 118
Period size: 44 Copynumber: 2.6 Consensus size: 43
68833 TGTGAATCTA
* * * * *
68843 TAAGATTTTTTGAATGCAAACATTTGAATTTTGTATGTGAATATC
1 TAAGA-TTTTTGAATGCAAAC-TTTTAATTTAGGATATGAATACC
*
68888 TAAGATTTTTGAATGCAAACTTTTAAGTTTAGGATATGAATCCC
1 TAAGATTTTTGAATGCAAACTTTTAA-TTTAGGATATGAATACC
* **
68932 TAAGGTTTTTGAATGTGAACTTTT
1 TAAGATTTTTGAATGCAAACTTTT
68956 GAATCTTGGA
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 5 0.09
44 48 0.83
45 5 0.09
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (43 bp):
TAAGATTTTTGAATGCAAACTTTTAATTTAGGATATGAATACC
Found at i:69156 original size:19 final size:18
Alignment explanation
Indices: 69091--69175 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 18
69081 TTCAAATGAT
69091 AATCTTTGAAATCTTT-TACG
1 AATCTTTG-AATCTTTGT--G
69111 AAT-TTTGAATCTTTGTG
1 AATCTTTGAATCTTTGTG
*
69128 ATTC-TTGAATCTTTGGTG
1 AATCTTTGAATCTTT-GTG
69146 AATCTTTGAAT-TACTTGTG
1 AATCTTTGAATCT--TTGTG
69165 AATCTTTGAAT
1 AATCTTTGAAT
69176 TTTACACTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
17 13 0.23
18 14 0.25
19 25 0.44
20 5 0.09
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.48
Consensus pattern (18 bp):
AATCTTTGAATCTTTGTG
Found at i:69162 original size:28 final size:30
Alignment explanation
Indices: 69116--69172 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
69106 TTACGAATTT
*
69116 TGAATCTTTGTGATTC-T-TGAATCTTTGG
1 TGAATCTTTGTAATTCTTGTGAATCTTTGG
69144 TGAATCTTTG-AATTACTTGTGAATCTTTG
1 TGAATCTTTGTAATT-CTTGTGAATCTTTG
69173 AATTTTACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 3 0.12
28 11 0.44
29 1 0.04
30 10 0.40
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.49
Consensus pattern (30 bp):
TGAATCTTTGTAATTCTTGTGAATCTTTGG
Found at i:69288 original size:18 final size:18
Alignment explanation
Indices: 69265--69316 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
69255 TGCAAAACTT
69265 TTAAATTCTTTACGAATC
1 TTAAATTCTTTACGAATC
* *
69283 TTAAATTTTTTATGAATC
1 TTAAATTCTTTACGAATC
*
69301 TTGAA-TCTTTTACGAA
1 TTAAATTC-TTTACGAA
69317 CTTTTGAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 1 0.04
18 27 0.96
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.48
Consensus pattern (18 bp):
TTAAATTCTTTACGAATC
Found at i:69391 original size:19 final size:18
Alignment explanation
Indices: 69351--69434 Score: 82
Period size: 18 Copynumber: 4.6 Consensus size: 18
69341 TATGCAAATC
*
69351 TTTGAGTTTTTTGAGAAT
1 TTTGAATTTTTTGAGAAT
*
69369 TTTGAATTTTTTGCGAAT
1 TTTGAATTTTTTGAGAAT
69387 ATTTGAATTTTTTTGTA-AAT
1 -TTTGAA-TTTTTTG-AGAAT
* *
69407 CTTGAATTTTTT-AAAAT
1 TTTGAATTTTTTGAGAAT
*
69424 TTTAAATTTTT
1 TTTGAATTTTT
69435 AGCAAATCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
16 1 0.02
17 12 0.21
18 22 0.39
19 11 0.20
20 10 0.18
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.58
Consensus pattern (18 bp):
TTTGAATTTTTTGAGAAT
Found at i:69392 original size:37 final size:38
Alignment explanation
Indices: 69330--69418 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
69320 TTGAATCATT
* * *
69330 ATCTTGAATCTTATGCAAATCTTTG-AGTTTTTTG-AGA
1 ATCTTGAATTTTTTGCAAATATTTGAAGTTTTTTGTA-A
* * *
69367 ATTTTGAATTTTTTGCGAATATTTGAATTTTTTTGTAA
1 ATCTTGAATTTTTTGCAAATATTTGAAGTTTTTTGTAA
69405 ATCTTGAATTTTTT
1 ATCTTGAATTTTTT
69419 AAAATTTTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 20 0.47
38 22 0.51
39 1 0.02
ACGTcount: A:0.26, C:0.07, G:0.13, T:0.54
Consensus pattern (38 bp):
ATCTTGAATTTTTTGCAAATATTTGAAGTTTTTTGTAA
Found at i:69400 original size:20 final size:19
Alignment explanation
Indices: 69357--69418 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
69347 AATCTTTGAG
69357 TTTTTTGAGAAT-TTTGAA-
1 TTTTTTG-GAATATTTGAAT
69375 TTTTTTGCGAATATTTGAAT
1 TTTTTTG-GAATATTTGAAT
*
69395 TTTTTTGTAA-ATCTTGAAT
1 TTTTTTGGAATAT-TTGAAT
69414 TTTTT
1 TTTTT
69419 AAAATTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 13 0.33
19 19 0.49
20 7 0.18
ACGTcount: A:0.24, C:0.03, G:0.13, T:0.60
Consensus pattern (19 bp):
TTTTTTGGAATATTTGAAT
Found at i:69416 original size:17 final size:17
Alignment explanation
Indices: 69396--69461 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
69386 TATTTGAATT
*
69396 TTTTTGTAAATCTTGAA
1 TTTTTGTAAATCTTAAA
*
69413 TTTTT-TAAAATTTTAAA
1 TTTTTGT-AAATCTTAAA
*
69430 TTTTTAGCAAATCTTAAA
1 TTTTT-GTAAATCTTAAA
* *
69448 CTTTTGTGAATCTT
1 TTTTTGTAAATCTT
69462 TGATTTCAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
16 1 0.03
17 25 0.64
18 13 0.33
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (17 bp):
TTTTTGTAAATCTTAAA
Found at i:69970 original size:15 final size:16
Alignment explanation
Indices: 69939--69978 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
69929 ATTAAAAGTG
*
69939 TTGAAACTCGTTTGAT
1 TTGAAACTCGATTGAT
69955 TTGAAACT-GATTGAT
1 TTGAAACTCGATTGAT
*
69970 TAGAAACTC
1 TTGAAACTC
69979 TTTCATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (16 bp):
TTGAAACTCGATTGAT
Found at i:71258 original size:35 final size:35
Alignment explanation
Indices: 71217--71287 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
71207 ATTACATAAA
* *
71217 ATAATTTTATATTATTATTTGATTTATTGCATGAT
1 ATAATTTTATATTATTACTTGAATTATTGCATGAT
*
71252 ATAATTTTATATTATTGCTTGAATTATTGCATGAT
1 ATAATTTTATATTATTACTTGAATTATTGCATGAT
71287 A
1 A
71288 AGATCTATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.54
Consensus pattern (35 bp):
ATAATTTTATATTATTACTTGAATTATTGCATGAT
Found at i:71366 original size:28 final size:29
Alignment explanation
Indices: 71335--71403 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 29
71325 TTCTTGCTTG
71335 GTATGATTTA-TTATATT-TTTGTATGAAT
1 GTATGATTTATTTAT-TTATTTGTATGAAT
*
71363 GTATGA-TTATTTATTTATTTGTATGATT
1 GTATGATTTATTTATTTATTTGTATGAAT
* *
71391 ATATTATTTATTT
1 GTATGATTTATTT
71404 GTAGGATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 5 0.14
28 24 0.69
29 6 0.17
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.61
Consensus pattern (29 bp):
GTATGATTTATTTATTTATTTGTATGAAT
Found at i:71399 original size:21 final size:20
Alignment explanation
Indices: 71362--71414 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
71352 TTTGTATGAA
71362 TGTATGATTATTTATTTATT
1 TGTATGATTATTTATTTATT
71382 TGTATGATTATATTATTTATT
1 TGTATGATTAT-TTATTTATT
*
71403 TGTAGGATTATT
1 TGTATGATTATT
71415 AATACATTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.60
Consensus pattern (20 bp):
TGTATGATTATTTATTTATT
Found at i:71577 original size:6 final size:6
Alignment explanation
Indices: 71566--71592 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
71556 ATAAATAAAA
71566 TGAATT TGAATT TGAATT TGAATT TGA
1 TGAATT TGAATT TGAATT TGAATT TGA
71593 CTTTCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (6 bp):
TGAATT
Found at i:82281 original size:47 final size:47
Alignment explanation
Indices: 82212--82306 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
82202 CTTGTTCTGG
** *
82212 CATTATCATTGCCATAGGCTCTACTATGTAGGTAGCTATTCTTTGCT
1 CATTATCATTGCCATAGGCTCTACTACATAGGCAGCTATTCTTTGCT
*
82259 CATTATCATTGCCATAGGCTCTACTACATAGGCAGCTATTTTTTGCT
1 CATTATCATTGCCATAGGCTCTACTACATAGGCAGCTATTCTTTGCT
82306 C
1 C
82307 TGAGCTTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (47 bp):
CATTATCATTGCCATAGGCTCTACTACATAGGCAGCTATTCTTTGCT
Found at i:82368 original size:51 final size:51
Alignment explanation
Indices: 82292--82444 Score: 279
Period size: 51 Copynumber: 3.0 Consensus size: 51
82282 CTACATAGGC
* * *
82292 AGCTATTTTTTGCTCTGAGCTTTGAAAGTCTTAATTTTACCTGACAACGTT
1 AGCTATTCTTTGCTCTGGGCTTTGAAAGTCTTAATTTTACCTGAGAACGTT
82343 AGCTATTCTTTGCTCTGGGCTTTGAAAGTCTTAATTTTACCTGAGAACGTT
1 AGCTATTCTTTGCTCTGGGCTTTGAAAGTCTTAATTTTACCTGAGAACGTT
82394 AGCTATTCTTTGCTCTGGGCTTTGAAAGTCTTAATTTTACCTGAGAACGTT
1 AGCTATTCTTTGCTCTGGGCTTTGAAAGTCTTAATTTTACCTGAGAACGTT
82445 TATTCCTGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 99 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (51 bp):
AGCTATTCTTTGCTCTGGGCTTTGAAAGTCTTAATTTTACCTGAGAACGTT
Found at i:84343 original size:22 final size:21
Alignment explanation
Indices: 84318--84365 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 21
84308 CCCAGACGAG
84318 TTTTTCTGAAAATACAATATC
1 TTTTTCTGAAAATACAATATC
84339 ATTTTTCTGAAAATACAATATC
1 -TTTTTCTGAAAATACAATATC
84361 TTTTT
1 TTTTT
84366 AAAAGAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.48
Consensus pattern (21 bp):
TTTTTCTGAAAATACAATATC
Found at i:84540 original size:2 final size:2
Alignment explanation
Indices: 84533--84558 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
84523 TTTAAGGCTT
84533 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
84559 GCGGCAAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:85337 original size:37 final size:36
Alignment explanation
Indices: 85296--85398 Score: 101
Period size: 37 Copynumber: 2.9 Consensus size: 36
85286 TAATAAATAA
85296 TATTAATATAATTATTAAAATATTAAAAATTATT-TAT
1 TATTAATATAATTATT--AATATTAAAAATTATTATAT
*
85333 TATT-A-A-AATTATTAATATTAAAAAATAATTATAT
1 TATTAATATAATTATTAATATT-AAAAATTATTATAT
85367 T-TTAATAATAA-TATTTAATATTAAAATATTAT
1 TATTAAT-ATAATTA-TTAATATTAAAA-ATTAT
85399 GTTAATAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
32 6 0.11
33 11 0.20
34 12 0.21
35 1 0.02
36 8 0.14
37 18 0.32
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (36 bp):
TATTAATATAATTATTAATATTAAAAATTATTATAT
Found at i:85338 original size:17 final size:17
Alignment explanation
Indices: 85293--85405 Score: 86
Period size: 18 Copynumber: 6.3 Consensus size: 17
85283 TTTTAATAAA
85293 TAATATTAATATAATTATT
1 TAATATTAA-A-AATTATT
*
85312 AAAATATTAAAAATTATT
1 -TAATATTAAAAATTATT
*
85330 TATTATT-AAAATTA-T
1 TAATATTAAAAATTATT
* *
85345 TAATATTAAAAAATAAT
1 TAATATTAAAAATTATT
* *
85362 TATATTTTAATAATAATATT
1 TA-ATATTAA-AA-ATTATT
85382 TAATATTAAAATATTATGT
1 TAATATTAAAA-ATTAT-T
85401 TAATA
1 TAATA
85406 AAAAATACTT
Statistics
Matches: 78, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
15 7 0.09
16 13 0.17
17 8 0.10
18 20 0.26
19 15 0.19
20 15 0.19
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (17 bp):
TAATATTAAAAATTATT
Found at i:85342 original size:16 final size:15
Alignment explanation
Indices: 85314--85355 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
85304 TAATTATTAA
85314 AATATTAAAAATTATTT
1 AATATT-AAAATTA-TT
*
85331 ATTATTAAAATTATT
1 AATATTAAAATTATT
85346 AATATTAAAA
1 AATATTAAAA
85356 AATAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 11 0.48
16 7 0.30
17 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTAAAATTATT
Found at i:85458 original size:15 final size:15
Alignment explanation
Indices: 85440--85705 Score: 159
Period size: 15 Copynumber: 16.8 Consensus size: 15
85430 TATTATTCTT
85440 TATATTATTTATTAA
1 TATATTATTTATTAA
* *
85455 TATATTATATTAATAG
1 TATATTAT-TTATTAA
85471 TATATTATTTATTAA
1 TATATTATTTATTAA
85486 TATATTA-TTA-TAA
1 TATATTATTTATTAA
85499 TATTTATTATTTAAATTAA
1 TA--TATTATTT--ATTAA
*
85518 TA-A-TATTTATTAT
1 TATATTATTTATTAA
*
85531 TATATTTTTTATTAATA
1 TATATTATTTATT-A-A
85548 TAATATTATTTATTAA
1 T-ATATTATTTATTAA
* *
85564 -A-ATTAATATATTAG
1 TATATT-ATTTATTAA
* *
85578 TATAATATTTATTTA
1 TATATTATTTATTAA
**
85593 TAATAACATTTATTAA
1 T-ATATTATTTATTAA
*
85609 TATATTATTTATGAA
1 TATATTATTTATTAA
*
85624 TATATTATAATATTATTTA
1 TATA-T-T-AT-TTATTAA
85643 TGAATATTATTTATTAA
1 T--ATATTATTTATTAA
* *
85660 TACATTATATTAATT-G
1 TATATTAT-TT-ATTAA
*
85676 TTTATTATTTATTTATA
1 TATATTATTTA-TTA-A
85693 TAATATTATTTAT
1 T-ATATTATTTAT
85706 AAGTTAAATT
Statistics
Matches: 195, Mismatches: 28, Indels: 54
0.70 0.10 0.19
Matches are distributed among these distances:
13 14 0.07
14 13 0.07
15 70 0.36
16 42 0.22
17 15 0.08
18 25 0.13
19 12 0.06
20 1 0.01
21 3 0.02
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:85465 original size:13 final size:13
Alignment explanation
Indices: 85445--85673 Score: 94
Period size: 13 Copynumber: 17.9 Consensus size: 13
85435 TTCTTTATAT
85445 TATT-TATTAATA
1 TATTATATTAATA
85457 TATTATATTAATA
1 TATTATATTAATA
*
85470 GTA-TATTATTTAT-
1 -TATTA-TATTAATA
* *
85483 TAATATATTATTA
1 TATTATATTAATA
* *
85496 TAATAT-TTATTA
1 TATTATATTAATA
*
85508 T-TTAAATTAATAA
1 TATTATATTAAT-A
85521 TATT-TATTATTATA
1 TATTATATTA--ATA
* *
85535 TTTTTTATTAATA
1 TATTATATTAATA
*
85548 TA--ATATT-ATT
1 TATTATATTAATA
*
85558 TATTAAAATTAATA
1 TATT-ATATTAATA
85572 TATTAGTA-TAATA
1 TATTA-TATTAATA
*
85585 T-TTATTTATAATAA
1 TATTATAT-TAAT-A
*
85599 CATT-TATTAATA
1 TATTATATTAATA
*
85611 TATTATTTATGAATA
1 TATTA--TATTAATA
*
85626 TATTATAAT-AT-
1 TATTATATTAATA
*
85637 TATT-TATGAATA
1 TATTATATTAATA
85649 TTATT-TATTAATA
1 -TATTATATTAATA
*
85662 CATTATATTAAT
1 TATTATATTAAT
85674 TGTTTATTAT
Statistics
Matches: 165, Mismatches: 25, Indels: 53
0.68 0.10 0.22
Matches are distributed among these distances:
10 6 0.04
11 13 0.08
12 34 0.21
13 67 0.41
14 24 0.15
15 21 0.13
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (13 bp):
TATTATATTAATA
Found at i:85550 original size:52 final size:51
Alignment explanation
Indices: 85441--85597 Score: 142
Period size: 52 Copynumber: 3.0 Consensus size: 51
85431 ATTATTCTTT
* * *
85441 ATATTATTTATTAATATATT-ATATTAATAGTATATTATTTATTAATATATTATTATA
1 ATATTATTTATTAA-A-ATTAATA-TATTAGTATAATATTTA-T--T-TATTAATATA
* * *
85498 ATATT-TATTATTTAAATTAATAATATTTATTATTATATTT-TTTATTAATATA
1 ATATTAT-TTATTAAAATTAAT-ATA-TTAGTATAATATTTATTTATTAATATA
85550 ATATTATTTATTAAAATTAATATATTAGTATAATATTTATTTA-TAATA
1 ATATTATTTATTAAAATTAATATATTAGTATAATATTTATTTATTAATA
85598 ACATTTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
50 17 0.20
51 7 0.08
52 27 0.32
53 2 0.02
55 4 0.05
56 6 0.07
57 22 0.26
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (51 bp):
ATATTATTTATTAAAATTAATATATTAGTATAATATTTATTTATTAATATA
Found at i:85561 original size:78 final size:77
Alignment explanation
Indices: 85445--85627 Score: 194
Period size: 78 Copynumber: 2.4 Consensus size: 77
85435 TTCTTTATAT
* * * * *
85445 TATTTATTA-ATATATTATATTAATAGT-ATATTATTTATTAATATATTATTATAATA-TTTATT
1 TATTTATTATATATTTTTTATTAATA-TAATATTATTTATTAA-A-ATTAATATAATAGTATAAT
85507 ATTTAAAT-TAATAA
63 ATTTAAATATAATAA
*
85521 TATTTATTATTATATTTTTTATTAATATAATATTATTTATTAAAATTAATATATTAGTATAATAT
1 TATTTATTA-TATATTTTTTATTAATATAATATTATTTATTAAAATTAATATAATAGTATAATAT
**
85586 TTATTTATAATAA
65 TTAAATATAATAA
* * *
85599 CATTTATTAATATATTATTTATGAATATA
1 TATTTATT-ATATATTTTTTATTAATATA
85628 TTATAATATT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
76 19 0.21
77 12 0.13
78 58 0.64
79 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (77 bp):
TATTTATTATATATTTTTTATTAATATAATATTATTTATTAAAATTAATATAATAGTATAATATT
TAAATATAATAA
Found at i:85574 original size:21 final size:21
Alignment explanation
Indices: 85526--85576 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 21
85516 AATAATATTT
* * *
85526 ATTATTATATTTTTTATTAAT
1 ATTAATATATTATTTATTAAA
85547 A-T-A-ATATTATTTATTAAA
1 ATTAATATATTATTTATTAAA
85565 ATTAATATATTA
1 ATTAATATATTA
85577 GTATAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
18 14 0.58
19 1 0.04
20 2 0.08
21 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTAATATATTATTTATTAAA
Found at i:87958 original size:13 final size:12
Alignment explanation
Indices: 87936--87984 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
87926 AATTTTGTTC
87936 TTATATATTTAA
1 TTATATATTTAA
87948 TTATGATATTTAA
1 TTAT-ATATTTAA
* *
87961 TTAAATAATTAA
1 TTATATATTTAA
87973 TTA-ATA-TTAA
1 TTATATATTTAA
87983 TT
1 TT
87985 TAATCAACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 14 0.41
13 11 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
TTATATATTTAA
Found at i:88073 original size:11 final size:11
Alignment explanation
Indices: 88059--88105 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
88049 TTAATATAAA
88059 AATAATATTAT
1 AATAATATTAT
*
88070 AATACTATTAT
1 AATAATATTAT
* *
88081 AATATTATTAA
1 AATAATATTAT
*
88092 AATCATATT-T
1 AATAATATTAT
88102 AATA
1 AATA
88106 TTAAAATATT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 3 0.10
11 26 0.90
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (11 bp):
AATAATATTAT
Found at i:88128 original size:29 final size:29
Alignment explanation
Indices: 88075--88181 Score: 92
Period size: 29 Copynumber: 3.6 Consensus size: 29
88065 ATTATAATAC
* * *
88075 TATTATAATATTATTAAAATCATATTTAA
1 TATTAAAATATTATTAAATTAATATTTAA
* *
88104 TATTAAAATATTATTAACTTAATATTACAA
1 TATTAAAATATTATTAAATTAATATT-TAA
*
88134 CT-TTAAAAAATTATTAAATTAAT-TTTGAA
1 -TATTAAAATATTATTAAATTAATATTT-AA
88163 TATTTAACTAATATTATTA
1 TA-TTAA--AATATTATTA
88182 TAAGAATAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
28 1 0.02
29 26 0.42
30 25 0.40
31 1 0.02
32 9 0.15
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.47
Consensus pattern (29 bp):
TATTAAAATATTATTAAATTAATATTTAA
Found at i:88130 original size:40 final size:38
Alignment explanation
Indices: 88017--88130 Score: 93
Period size: 40 Copynumber: 2.8 Consensus size: 38
88007 AATTATAATT
* *
88017 AAATAATATTTAAAACATTATTAAATTAATATTTAATATAA
1 AAATAATA-TTAAAATATTATT-AATTAATA-TTAAAATAA
* * * * *
88058 AAATAATATTATAATACTATTATAATATTATTAAAATCAT
1 AAATAATATTAAAATATTATTA-ATTAATATTAAAAT-AA
**
88098 ATTTAATATTAAAATATTATTAACTTAATATTA
1 AAATAATATTAAAATATTATTAA-TTAATATTA
88131 CAACTTTAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
39 8 0.14
40 41 0.72
41 8 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (38 bp):
AAATAATATTAAAATATTATTAATTAATATTAAAATAA
Found at i:88130 original size:51 final size:51
Alignment explanation
Indices: 88014--88119 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
88004 ATAAATTATA
* * *
88014 ATTA-AATAATATTTAAAACATTATTAAATTAATATTTAATATAAAAATAAT
1 ATTATAATAATA-TTATAATATTATTAAAATAATATTTAATATAAAAATAAT
* * * *
88065 ATTATAATACTATTATAATATTATTAAAATCATATTTAATATTAAAATATT
1 ATTATAATAATATTATAATATTATTAAAATAATATTTAATATAAAAATAAT
88116 ATTA
1 ATTA
88120 ACTTAATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.87
52 6 0.13
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (51 bp):
ATTATAATAATATTATAATATTATTAAAATAATATTTAATATAAAAATAAT
Found at i:88169 original size:30 final size:29
Alignment explanation
Indices: 88084--88169 Score: 77
Period size: 30 Copynumber: 2.9 Consensus size: 29
88074 CTATTATAAT
* * *
88084 ATTATTAAAATCATATTTAATA-TTAAAAT
1 ATTATTAAATTAAT-TTTAATATTTAAAAA
* *
88113 ATTATTAACTTAATATTACA-ACTTTAAAAA
1 ATTATTAAATTAATTTTA-ATA-TTTAAAAA
88143 ATTATTAAATTAATTTTGAATATTTAA
1 ATTATTAAATTAATTTT-AATATTTAA
88170 CTAATATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
28 4 0.09
29 12 0.27
30 27 0.60
31 2 0.04
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (29 bp):
ATTATTAAATTAATTTTAATATTTAAAAA
Found at i:88558 original size:37 final size:37
Alignment explanation
Indices: 88517--88596 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
88507 AAAAAATATG
*
88517 AAATATGAAAT-A-TTATTTGAACTAATATTTAATATTA
1 AAATATGAAATAATTTA-TT-AACTAATATTTAAAATTA
* * *
88554 AAATATTAATTAATTTATTATCTAATATTTAAAATTA
1 AAATATGAAATAATTTATTAACTAATATTTAAAATTA
88591 AAATAT
1 AAATAT
88597 TATTCAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 31 0.84
38 3 0.08
39 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (37 bp):
AAATATGAAATAATTTATTAACTAATATTTAAAATTA
Found at i:88681 original size:21 final size:21
Alignment explanation
Indices: 88648--88829 Score: 122
Period size: 21 Copynumber: 8.7 Consensus size: 21
88638 TAAAATATTT
*
88648 ATATTATTTAATTAATATTGA
1 ATATTATTAAATTAATATTGA
* * *
88669 ATGTTATTGAATTAGT-TT-A
1 ATATTATTAAATTAATATTGA
*
88688 ATATTATTAAATTTAATATTTA
1 ATATTATTAAA-TTAATATTGA
* * * *
88710 ATATGATTGAATTAGTATTTA
1 ATATTATTAAATTAATATTGA
* *
88731 ATATTCTTAAA-TAATATTTA
1 ATATTATTAAATTAATATTGA
* *
88751 TTTTTATTAAA-TAATAGTT-A
1 ATATTATTAAATTAATA-TTGA
* * *
88771 ATGTAATTAAATTAGTATTGA
1 ATATTATTAAATTAATATTGA
* *
88792 ATTTTATTAAATTCATATTGA
1 ATATTATTAAATTAATATTGA
*
88813 ATAATATTCAATATTAA
1 ATATTATT-AA-ATTAA
88830 AATATTATTA
Statistics
Matches: 126, Mismatches: 27, Indels: 14
0.75 0.16 0.08
Matches are distributed among these distances:
19 10 0.08
20 38 0.30
21 62 0.49
22 12 0.10
23 4 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (21 bp):
ATATTATTAAATTAATATTGA
Found at i:88746 original size:41 final size:39
Alignment explanation
Indices: 88648--88750 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 39
88638 TAAAATATTT
* * * *
88648 ATATTATTTAATTAATATTGAATGTTATTGAATTAGTTTA
1 ATATTA-TTAAATAATATTTAATATGATTGAATTAGTTTA
88688 ATATTATTAAATTTAATATTTAATATGATTGAATTAGTATTTA
1 ATATTATTAAA--TAATATTTAATATGATTGAATTAG--TTTA
*
88731 ATATTCTTAAATAATATTTA
1 ATATTATTAAATAATATTTA
88751 TTTTTATTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
39 4 0.07
40 6 0.11
41 30 0.56
43 14 0.26
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (39 bp):
ATATTATTAAATAATATTTAATATGATTGAATTAGTTTA
Found at i:88760 original size:20 final size:20
Alignment explanation
Indices: 88641--88803 Score: 89
Period size: 20 Copynumber: 8.0 Consensus size: 20
88631 TATGTTATAA
* *
88641 AATATTT-ATATTATTTAATT
1 AATATTTAATTTTA-TTAAAT
* * *
88661 AATATTGAATGTTATTGAAT
1 AATATTTAATTTTATTAAAT
*
88681 --TAGTTTAATATTATTAAATTT
1 AATA-TTTAATTTTATTAAA--T
* * *
88702 AATATTTAATATGATTGAATT
1 AATATTTAATTTTATT-AAAT
* * *
88723 AGTATTTAATATTCTTAAAT
1 AATATTTAATTTTATTAAAT
*
88743 AATATTTATTTTTATTAAAT
1 AATATTTAATTTTATTAAAT
* * *
88763 AATAGTTAATGTAATTAAATT
1 AATATTTAATTTTATTAAA-T
* *
88784 AGTATTGAATTTTATTAAAT
1 AATATTTAATTTTATTAAAT
88804 TCATATTGAA
Statistics
Matches: 109, Mismatches: 26, Indels: 16
0.72 0.17 0.11
Matches are distributed among these distances:
18 2 0.02
19 12 0.11
20 45 0.41
21 35 0.32
22 11 0.10
23 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.52
Consensus pattern (20 bp):
AATATTTAATTTTATTAAAT
Found at i:88900 original size:22 final size:22
Alignment explanation
Indices: 88875--88921 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
88865 TAAAATTAAA
* *
88875 TATGAAAATAAGTTTAA-AATAT
1 TATG-AAATAAATTAAATAATAT
88897 TATGAAATAAATTAAATAATAT
1 TATGAAATAAATTAAATAATAT
88919 TAT
1 TAT
88922 ATTCTTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.38
Consensus pattern (22 bp):
TATGAAATAAATTAAATAATAT
Found at i:88965 original size:30 final size:28
Alignment explanation
Indices: 88929--89123 Score: 112
Period size: 29 Copynumber: 6.7 Consensus size: 28
88919 TATATTCTTG
*
88929 TTAAATTAGTATTTAATACTAAAATATTA
1 TTAAATTAATATTTAATA-TAAAATATTA
* * *
88958 TTGAAATT-ATATTTTATATTAAATATTG
1 TT-AAATTAATATTTAATATAAAATATTA
* * *
88986 TTAAAGTAATATGTAATATGAAAATATAA
1 TTAAATTAATATTTAATAT-AAAATATTA
*
89015 TTAAAATTAATATTTAGTACTTAAAATGAAAAAATTA
1 TT-AAATTAATATTTA--A--T---AT-AAAATATTA
** **
89052 TTAAAAGAATATAAAATATTAAAATATTA
1 TTAAATTAATATTTAATA-TAAAATATTA
* *
89081 GTAAATTAATATTTAGTAT-AAATATTA
1 TTAAATTAATATTTAATATAAAATATTA
89108 TT-AA--AATATTTAATAT
1 TTAAATTAATATTTAATAT
89124 TATTTAACAA
Statistics
Matches: 127, Mismatches: 27, Indels: 29
0.69 0.15 0.16
Matches are distributed among these distances:
24 11 0.09
26 2 0.02
27 13 0.10
28 20 0.16
29 39 0.31
30 17 0.13
32 2 0.02
34 2 0.02
36 9 0.07
37 12 0.09
ACGTcount: A:0.51, C:0.01, G:0.06, T:0.42
Consensus pattern (28 bp):
TTAAATTAATATTTAATATAAAATATTA
Found at i:89135 original size:21 final size:21
Alignment explanation
Indices: 89111--89268 Score: 144
Period size: 20 Copynumber: 7.7 Consensus size: 21
89101 AATATTATTA
* *
89111 AAATATTTAATATTATTTAAC
1 AAATATTTAATATTATTAAAT
*
89132 AAATATGTAATATTATTAAATT
1 AAATATTTAATATTATTAAA-T
* *
89154 GAATATTTAATATGATTAAAT
1 AAATATTTAATATTATTAAAT
* * *
89175 TAATATTTAATATTGTTCAAT
1 AAATATTTAATATTATTAAAT
*
89196 -AATATTTAATATTATTAAGT
1 AAATATTTAATATTATTAAAT
* * *
89216 -AACAGTTAGTATTATTAAAT
1 AAATATTTAATATTATTAAAT
* *
89236 TAATATTGAATA-TATTAAAT
1 AAATATTTAATATTATTAAAT
*
89256 AATTA-TTAATATT
1 AAATATTTAATATT
89269 TTATTCATTT
Statistics
Matches: 110, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
19 5 0.05
20 45 0.41
21 43 0.39
22 17 0.15
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
AAATATTTAATATTATTAAAT
Found at i:89166 original size:43 final size:41
Alignment explanation
Indices: 89101--89268 Score: 132
Period size: 43 Copynumber: 4.1 Consensus size: 41
89091 ATTTAGTATA
*
89101 AATATTATT-AA-AATATTTAATATTATTTAACAAATATGT
1 AATATTATTAAATAATATTTAATATTATTAAACAAATATGT
* ** *
89140 AATATTATTAAATTGAATATTTAATATGATTAAATTAATATTT
1 AATATTATTAAA-T-AATATTTAATATTATTAAACAAATATGT
* * ** *
89183 AATATTGTTCAATAATATTTAATATTATT-AAGTAACA-GTT
1 AATATTATTAAATAATATTTAATATTATTAAACAAATATG-T
* * * *
89223 AGTATTATTAAATTAATATTGAATA-TATTAAATAATTAT-T
1 AATATTATTAAA-TAATATTTAATATTATTAAACAAATATGT
89263 AATATT
1 AATATT
89269 TTATTCATTT
Statistics
Matches: 101, Mismatches: 20, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
39 9 0.09
40 28 0.28
41 30 0.30
42 1 0.01
43 33 0.33
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (41 bp):
AATATTATTAAATAATATTTAATATTATTAAACAAATATGT
Found at i:89251 original size:20 final size:21
Alignment explanation
Indices: 89074--89268 Score: 157
Period size: 21 Copynumber: 9.3 Consensus size: 21
89064 AAAATATTAA
*
89074 AATATTAGTAAATTAATATTT
1 AATATTATTAAATTAATATTT
* * * *
89095 AGTATAAATATTATTAAAATATTT
1 AATATTATTA-AATT--AATATTT
* ** *
89119 AATATTATTTAACAAATATGT
1 AATATTATTAAATTAATATTT
89140 AATATTATTAAATTGAATATTT
1 AATATTATTAAATT-AATATTT
*
89162 AATATGATTAAATTAATATTT
1 AATATTATTAAATTAATATTT
* *
89183 AATATTGTTCAA-TAATATTT
1 AATATTATTAAATTAATATTT
* * *
89203 AATATTATT-AAGTAACAGTT
1 AATATTATTAAATTAATATTT
* *
89223 AGTATTATTAAATTAATATTG
1 AATATTATTAAATTAATATTT
89244 AATA-TATTAAA-TAAT-TATT
1 AATATTATTAAATTAATAT-TT
89263 AATATT
1 AATATT
89269 TTATTCATTT
Statistics
Matches: 136, Mismatches: 30, Indels: 17
0.74 0.16 0.09
Matches are distributed among these distances:
18 1 0.01
19 11 0.08
20 38 0.28
21 50 0.37
22 22 0.16
23 1 0.01
24 13 0.10
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (21 bp):
AATATTATTAAATTAATATTT
Found at i:91671 original size:4 final size:4
Alignment explanation
Indices: 91664--91690 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
91654 TTGTTTGTAT
91664 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
91691 TGTTGTCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:94271 original size:59 final size:59
Alignment explanation
Indices: 94084--94438 Score: 480
Period size: 60 Copynumber: 6.0 Consensus size: 59
94074 CTTGCGTAGG
* * *
94084 GAAAAA-TGATACTTTCAACTTTTCCCCGAAAATATTTTTTTTGAAAATTTGATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTT-ATTTTTAA
* * *
94143 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTTTGAAAATTTATTTTTAA
*
94203 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
* * **
94262 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTTGAAACATTGATTTCCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAA-ATTTATTTTTAA
* * *** *
94322 GGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-CCATTTTTGAAAATTTATTTCTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
* *
94380 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAATTTTATTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTTGAAAATTTATTTTT
94439 TTGCAAAAAA
Statistics
Matches: 265, Mismatches: 25, Indels: 10
0.88 0.08 0.03
Matches are distributed among these distances:
58 41 0.15
59 82 0.31
60 110 0.42
61 32 0.12
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (59 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
Found at i:94295 original size:119 final size:119
Alignment explanation
Indices: 94083--94438 Score: 509
Period size: 119 Copynumber: 3.0 Consensus size: 119
94073 TCTTGCGTAG
* * * * *
94083 GGAAAAATGATACTTTCAACTTTTCCCCGAAAATATTTTTTTTGAAAATTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTT-ATTTTTAAGAAAA
*
94148 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTGGAAATTTATTTTTAA
65 ATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTTTAA
94203 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGAAAAA
* * * **
94268 TTGATACTTTCAACTTTTCCTCAAAAATA-TATTTTTTGAAACATTGATTTCCAA
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAA-ATTTATTTTTAA
* *** *
94322 GGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-CCATTTTTGAAAATTTATTTCTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGAAAAA
* *
94386 TTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAATTTTATTTTT
66 TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAA-TTTATTTTT
94439 TTGCAAAAAA
Statistics
Matches: 210, Mismatches: 23, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
118 65 0.31
119 97 0.46
120 48 0.23
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (119 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAAGAAAAA
TTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTGGAAATTTATTTTTAA
Found at i:96917 original size:50 final size:50
Alignment explanation
Indices: 96821--96918 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
96811 CCTATTCGGA
* * *
96821 TTTCTTTCCCTCTCCTAATCAAATTCTTCTTCTATCTTTTCTCCCTTTTT
1 TTTCTTTCCCTCTCCTAATCAAATTCTTCTTCTATCCTATCCCCCTTTTT
* ** *
96871 TTTC-TTCCCGTCTCCTATTCGGATTCTTCTTCTCTCCTATCCCCCTTT
1 TTTCTTTCCC-TCTCCTAATCAAATTCTTCTTCTATCCTATCCCCCTTT
96919 CTCCTCCATC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 5 0.12
50 35 0.88
ACGTcount: A:0.09, C:0.36, G:0.03, T:0.52
Consensus pattern (50 bp):
TTTCTTTCCCTCTCCTAATCAAATTCTTCTTCTATCCTATCCCCCTTTTT
Found at i:97555 original size:1 final size:1
Alignment explanation
Indices: 97549--97614 Score: 78
Period size: 1 Copynumber: 66.0 Consensus size: 1
97539 TAGAGGCAAC
* * * * * *
97549 TTTTTTTGTTTTTTTATTTTTTTTATTTTTTTTTTTTTTTTATTTTTTTGTTTTTTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
97614 T
1 T
97615 CAAAGCTCTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (1 bp):
T
Found at i:97571 original size:17 final size:16
Alignment explanation
Indices: 97549--97614 Score: 96
Period size: 16 Copynumber: 4.0 Consensus size: 16
97539 TAGAGGCAAC
*
97549 TTTTTTTGTTTTTTTAT
1 TTTTTTTATTTTTTT-T
97566 TTTTTTTATTTTTTTTT
1 TTTTTTTA-TTTTTTTT
*
97583 TTTTTTTATTTTTTTG
1 TTTTTTTATTTTTTTT
97599 TTTTTTTATTTTTTTT
1 TTTTTTTATTTTTTTT
97615 CAAAGCTCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 22 0.49
17 16 0.36
18 7 0.16
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (16 bp):
TTTTTTTATTTTTTTT
Found at i:97586 original size:26 final size:25
Alignment explanation
Indices: 97549--97614 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
97539 TAGAGGCAAC
*
97549 TTTTTTTGTTTTTTTATTTTTTTTAT
1 TTTTTTTTTTTTTTTA-TTTTTTTAT
*
97575 TTTTTTTTTTTTTTTATTTTTTTGT
1 TTTTTTTTTTTTTTTATTTTTTTAT
*
97600 TTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTT
97615 CAAAGCTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 22 0.59
26 15 0.41
ACGTcount: A:0.06, C:0.00, G:0.03, T:0.91
Consensus pattern (25 bp):
TTTTTTTTTTTTTTTATTTTTTTAT
Found at i:97648 original size:136 final size:131
Alignment explanation
Indices: 97338--97652 Score: 387
Period size: 131 Copynumber: 2.4 Consensus size: 131
97328 TTAATAAAAA
* * *
97338 AAATCTTGATCAAAGCTCCTCTAAACAGAAGTTCAATGATTTTGAAAAACATAAACAAAGCTCCT
1 AAAT-TTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAACATAAACAAAGCTCCT
*
97403 CTAAATATAGGCAACTTTTTTTGTTATTTTATTTTATTTTTTTATTTTTTTATATATATATATTT
65 CTAAATAGAGGCAACTTTTTTTGTTATTTTATTTTATTTTTTTATTTTTTTATATATATATATTT
97468 TT
130 TT
* * * *
97470 AAATTTGATCAAAGTTCCTCTAAGCAGAGGCTCAATGACTTTGAGAAACATAAACAAAGCTTCTC
1 AAATTTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAACATAAACAAAGCTCCTC
* * * * * *
97535 TAAATAGAGGCAACTTTTTTTGTTTTTTTATTTTTTTTATTTTTTTTTTTTTTTTATTTTTTTGT
66 TAAATAGAGGCAACTTTTTTTGTTATTTTA----TTTTA-TTTTTTTATTTTTTTATATATATAT
*
97600 TTTTTT
126 ATTTTT
** ** * *
97606 ATTTTTTTTCAAAGCTCTTCTAAACAGAGGCTCAACGACTTTGAAAA
1 AAATTTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAA
97653 GTAAATTGCT
Statistics
Matches: 154, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
131 82 0.53
132 4 0.03
135 5 0.03
136 63 0.41
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (131 bp):
AAATTTGATCAAAGCTCCTCTAAACAGAGGCTCAATGACTTTGAAAAACATAAACAAAGCTCCTC
TAAATAGAGGCAACTTTTTTTGTTATTTTATTTTATTTTTTTATTTTTTTATATATATATATTTT
T
Found at i:97685 original size:41 final size:41
Alignment explanation
Indices: 97619--98110 Score: 728
Period size: 41 Copynumber: 12.0 Consensus size: 41
97609 TTTTTTCAAA
* * *
97619 GCTCTTCTAAACAGAGGCTCAACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
97660 GCTCCTCTAAACAGAGGCACCACGACTTTGAGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAAGTAAATT
97702 GCTCCTCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
*
97743 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTG-AAAAGTAAATT
*
97785 ACTCCTCTAAACAGAGGCACCACGACTTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATT
* *
97826 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
97867 GCTCCTCTAAACAGAGGCACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
* * *
97908 GCTCCTCTAAACAGAGGCAACA-AACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
*
97948 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
*
97990 GCTCCTCTAAACAGAGGTA--ACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATT
* *
98030 GCTTCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATT
98072 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAAT
98111 ACTCCTAGAC
Statistics
Matches: 420, Mismatches: 18, Indels: 27
0.90 0.04 0.06
Matches are distributed among these distances:
40 92 0.22
41 187 0.45
42 133 0.32
43 8 0.02
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
Found at i:102718 original size:59 final size:58
Alignment explanation
Indices: 102589--103003 Score: 528
Period size: 59 Copynumber: 7.0 Consensus size: 58
102579 TCTTGCGTAG
* *
102589 GGAAAATTGATACTTTCAACTTTTCCCCGAAAATATTTTTTTTTGAAAATTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTTTGAAAATTT-ATTTTTAA
*
102650 GGAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGAAAATTTATTTTTAA
*
102709 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTGAAAATTTATTTTTAA
* * * **
102768 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTTGAAACATTGATTTCCAA
1 GGAAAATTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTTTGAAA-ATTTATTTTTAA
* * * *
102828 GGAAAATTGATACTTTCAACTTTTCCTTAAAAAT-CTATTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTTGAAAATTTATTTTTAA
* * * *
102886 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTTGATTCTCAA
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTTTGAAAATTT-ATTTTTAA
* *
102945 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTGAAATTTTATTTTT
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA--TATTTTTTTTGAAAATTTATTTTT
103004 TTGCAAAAAA
Statistics
Matches: 315, Mismatches: 27, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
58 60 0.19
59 148 0.47
60 55 0.17
61 34 0.11
62 18 0.06
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTTGAAAATTTATTTTTAA
Found at i:114836 original size:42 final size:42
Alignment explanation
Indices: 114703--114838 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 42
114693 AATTAGAGGA
*
114703 TTTTAATTTAAAATTGTTTAACCTTTGTATAAAGGAGCCCAT
1 TTTTAATTTAAAATTGTTTAACCTTTGTATAAAGGAACCCAT
* ** * * *
114745 TTCTTAA-TTAAAGTCATTTAGCTTTTGTATAAAGGAACCTAT
1 TT-TTAATTTAAAATTGTTTAACCTTTGTATAAAGGAACCCAT
* * * * *
114787 TCCTTAATTTAAAATTGTCTAACCTCTGTATAGAGAAACCCAT
1 T-TTTAATTTAAAATTGTTTAACCTTTGTATAAAGGAACCCAT
114830 TTTTAATTT
1 TTTTAATTT
114839 GTTTTGCTTC
Statistics
Matches: 72, Mismatches: 19, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
42 42 0.58
43 30 0.42
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (42 bp):
TTTTAATTTAAAATTGTTTAACCTTTGTATAAAGGAACCCAT
Found at i:116140 original size:3 final size:3
Alignment explanation
Indices: 116132--116174 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
116122 CAAGTTCTAG
116132 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
116175 TCTGTTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:118670 original size:12 final size:12
Alignment explanation
Indices: 118655--118679 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118645 ATGATTATGA
118655 TTTTTTCTTTTT
1 TTTTTTCTTTTT
118667 TTTTTTCTTTTT
1 TTTTTTCTTTTT
118679 T
1 T
118680 AGGTTTTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTTCTTTTT
Found at i:120602 original size:165 final size:165
Alignment explanation
Indices: 120330--120663 Score: 551
Period size: 165 Copynumber: 2.0 Consensus size: 165
120320 GAGATAATAG
* * *
120330 TTGAAAAAGTAGATCTTAGGCATCAGACTTAGGGATCTAAGCTTTACATGTTAGGAGATGACTTG
1 TTGAAAAAGTAGATCCTAGGCATCAGACTTAGGGATCTAAGCTTTACATATCAGGAGATGACTTG
* * * *
120395 TATCTGGCAATTTCTGCACTGTTATTATCTTCTTTTCTTCAAAAAGTAACATTTAGACTTCTAAA
66 TATCTGGCAATTTCTACACTGTTATTATCTTCTTTGCTTCAAAAAGTAACATTTAAACTCCTAAA
*
120460 TATGCAACAACACTTGTTTTCCAAGTTTTGCTGCT
131 TATGCAACAACACTTGCTTTCCAAGTTTTGCTGCT
*
120495 TTGAAAAAGTAGATCCTAGGCATCAGACTTAGGGATCTAAGCTTTACATATCAGGAGTTGACTTG
1 TTGAAAAAGTAGATCCTAGGCATCAGACTTAGGGATCTAAGCTTTACATATCAGGAGATGACTTG
* *
120560 TATCTGGCAATTTCTACACTGTTCTTCTCTTCTTTGCTTCAAAAAGTAACATTTAAACTCCTAAA
66 TATCTGGCAATTTCTACACTGTTATTATCTTCTTTGCTTCAAAAAGTAACATTTAAACTCCTAAA
* *
120625 TATGCAAGAACACTTGCTTTCCATGTTTTGCTGCT
131 TATGCAACAACACTTGCTTTCCAAGTTTTGCTGCT
120660 TTGA
1 TTGA
120664 GTAACTGCTA
Statistics
Matches: 156, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
165 156 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (165 bp):
TTGAAAAAGTAGATCCTAGGCATCAGACTTAGGGATCTAAGCTTTACATATCAGGAGATGACTTG
TATCTGGCAATTTCTACACTGTTATTATCTTCTTTGCTTCAAAAAGTAACATTTAAACTCCTAAA
TATGCAACAACACTTGCTTTCCAAGTTTTGCTGCT
Found at i:123170 original size:2 final size:2
Alignment explanation
Indices: 123131--123162 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
123121 GATATGATGA
123131 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123163 TGATATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:134945 original size:14 final size:14
Alignment explanation
Indices: 134926--134957 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
134916 ATGTAAAGGA
134926 TATGATTACTTTTT
1 TATGATTACTTTTT
134940 TATGATTACTTTTT
1 TATGATTACTTTTT
134954 TATG
1 TATG
134958 GGTAAGGTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.62
Consensus pattern (14 bp):
TATGATTACTTTTT
Found at i:135267 original size:7 final size:7
Alignment explanation
Indices: 135198--135250 Score: 88
Period size: 7 Copynumber: 7.4 Consensus size: 7
135188 TAATTTTAGC
*
135198 TTTTAGT
1 TTTTAAT
135205 TTTTAAT
1 TTTTAAT
135212 TTTTAAT
1 TTTTAAT
135219 TTTTAAT
1 TTTTAAT
135226 TTTTAAT
1 TTTTAAT
135233 TTTTAATT
1 TTTTAA-T
135241 TTTTAAT
1 TTTTAAT
135248 TTT
1 TTT
135251 CGTTATTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
7 37 0.84
8 7 0.16
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (7 bp):
TTTTAAT
Found at i:135556 original size:20 final size:21
Alignment explanation
Indices: 135528--135578 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
135518 AAAGGTTCTG
*
135528 AAGAATTTTGAGCAA-TTTTT
1 AAGATTTTTGAGCAATTTTTT
*
135548 AAGATTTTTG-GGAATTTTTT
1 AAGATTTTTGAGCAATTTTTT
*
135568 CAGATTTTTGA
1 AAGATTTTTGA
135579 AAAAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (21 bp):
AAGATTTTTGAGCAATTTTTT
Found at i:136595 original size:129 final size:128
Alignment explanation
Indices: 136241--137133 Score: 652
Period size: 130 Copynumber: 6.9 Consensus size: 128
136231 AATTTGATGT
* * * *
136241 CATGTCAATTT-TCTATCATATAATGAAAATGGTA-TTTTGATAATTTCTTAGGTGATTATTTAA
1 CATGTCAATTTCT-TATCATATAATGAAAAGGGTATTTTTG-TAATTTATAAGG-GATTATTTAG
* * * * *** * * *
136304 TAAATAATTATAAGAGAATGTGTATGTTT-GTAATTACGACCTGAGGGCATAATAGTCCATTTGG
63 TAAATAATTATAAAAGAA-GGGTAT-TTTCATAATTATGGTATGAGGACATAATATTCTATTTGG
**
136368 TTA
126 CCA
* *
136371 CATGAT-ATTTTCTTATCATATAATGAAAAGGGTA-TTTTGATAATTTTTAAGGGATTATTTAGT
1 CATG-TCAATTTCTTATCATATAATGAAAAGGGTATTTTTG-TAATTTATAAGGGATTATTTAGT
* * * *
136434 AAATAATTATGAGAGAAGGGTATTTTCATAATTATGGTATGAGGATATAATATTCGATTTGGCCA
64 AAATAATTATAAAAGAAGGGTATTTTCATAATTATGGTATGAGGACATAATATTCTATTTGGCCA
* ** * *
136499 CATGTCAATTTGTTATCATATAATGGTAGGGGTATTTTTGTCATTTAATAAGGGATTATTTAGTA
1 CATGTCAATTTCTTATCATATAATGAAAAGGGTATTTTTGTAATTT-ATAAGGGATTATTTAGTA
* * * * *
136564 CATAATTATAAAAGAAGGGTATTTTCGTAATTATGGTAT-AGAAGTATAATAGTCTATTTGGCCA
65 AATAATTATAAAAGAAGGGTATTTTCATAATTATGGTATGAGGA-CATAATATTCTATTTGGCCA
* * * * *
136628 CATTGT-AATTTCTTATCATATAATGCATAGTGTATTTTTGTAATTTCTTAGGGGATTATTTTA-
1 CA-TGTCAATTTCTTATCATATAATGAAAAGGGTATTTTTGTAATTT-ATAAGGGATTA-TTTAG
* ** * * * *
136691 AAAATAATTATAACAA-AAGAGGTATTTTCATAATTATAATATAATGG-CATAAGAGTCCATTTA
63 TAAATAATTATAA-AAGAAG-GGTATTTTCATAATTATGGTATGA-GGACATAATATTCTATTT-
*
136754 AG-CA
124 GGCCA
* * ** * * * *
136758 TATGTCAATTTCCTATTGTATAATGAAAAAGGCATTTTGGTAAATTTCTAAGGGATTATTTAGTA
1 CATGTCAATTTCTTATCATATAATGAAAAGGGTATTTTTGT-AATTTATAAGGGATTATTTAGTA
* * * * *
136823 AATAATTATAAAAGAATGGTATTTTCGTAATTATAGTATGAGGGCATAATAGTT-TATTTGGTCA
65 AATAATTATAAAAGAAGGGTATTTTCATAATTATGGTATGAGGACATAATA-TTCTATTTGGCCA
* * * *
136887 CATG-CTAATTTCTTATCATGTAAT-AGAATGGGTA-TTTTGAAAATTT-TATTGGAGATTATTT
1 CATGTC-AATTTCTTATCATATAATGA-AAAGGGTATTTTTG-TAATTTATA-AGG-GATTATTT
* * * * * * ** *
136948 TGTAAATAATTATAAAAAAATGGGTATTTTTATAATTATGATATTAGCACATAAT-TGGTAAATT
61 AGTAAATAATTATAAAAGAA-GGGTATTTTCATAATTATGGTATGAGGACATAATATTCT-ATTT
*
137012 GGTCA
124 GGCCA
* * * * **
137017 CATGTCAATTTCTTATTATATAAT-AGAAAGAGCATTTTAGTAATTTCATATTGGATTATTTAGT
1 CATGTCAATTTCTTATCATATAATGA-AAAGGGTATTTTTGTAATTT-ATAAGGGATTATTTAGT
* * * * * *
137081 AAATAATTATAAGAGAAATGATATTTTCATAATTATGATATAAGAACATAATA
64 AAATAATTATAAAAG-AAGGGTATTTTCATAATTATGGTATGAGGACATAATA
137134 GTACATTAGG
Statistics
Matches: 616, Mismatches: 112, Indels: 69
0.77 0.14 0.09
Matches are distributed among these distances:
127 6 0.01
128 84 0.14
129 250 0.41
130 255 0.41
131 18 0.03
132 3 0.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (128 bp):
CATGTCAATTTCTTATCATATAATGAAAAGGGTATTTTTGTAATTTATAAGGGATTATTTAGTAA
ATAATTATAAAAGAAGGGTATTTTCATAATTATGGTATGAGGACATAATATTCTATTTGGCCA
Found at i:137024 original size:259 final size:252
Alignment explanation
Indices: 136241--137116 Score: 802
Period size: 259 Copynumber: 3.4 Consensus size: 252
136231 AATTTGATGT
* * * * * *
136241 CATGTCAATTTTCTATCATATAATGAAAATGGTATTTTGATAATTTCTTAGGTGATTATTTAATA
1 CATGTCAATTTCCTATCATATAATGAAAAAGGCATTTTGGTAATTTCTAAGG-GATTATTTAGTA
* * *
136306 AATAATTATAAGAGAATGTGTATGTTT-GTAATTA-CG-ACCTGAGGGCATAATAGTCCATTTGG
65 AATAATTATAAAAGAATG-GTAT-TTTCGTAATTATAGTA--TGAGGGCATAATAGTCTATTTGG
* * * *
136368 TTACATGATATTTTCTTATCATATAATGAAAAGGGTATTTTGATAATTTTTAAGGGATTATTTAG
126 TCACATG-TAATTTCTTATCATATAATG-AATGGGTATTTTGATAATTTTT-AGGGATTATTTTG
* * * * * * *
136433 TAAATAATTATGAGAGAAGGGTATTTTCATAATTATGGTATGAGGATATAATAT--TCGATTTGG
188 TAAATAATTATAAAAAAAGGGTATTTTCATAATTATGATAT-AAGACATAAT-TGGTCAATTTGG
136496 CCA
251 -CA
** ** ** * * * *
136499 CATGTCAATTTGTTATCATATAATGGTAGGGGTATTTTTGTCATTTAATAAGGGATTATTTAGTA
1 CATGTCAATTTCCTATCATATAATGAAAAAGGCATTTTGGTAATTT-CTAAGGGATTATTTAGTA
* * * * * *
136564 CATAATTATAAAAGAAGGGTATTTTCGTAATTATGGTAT-AGAAGTATAATAGTCTATTTGGCCA
65 AATAATTATAAAAGAATGGTATTTTCGTAATTATAGTATGAG-GGCATAATAGTCTATTTGGTCA
* * **
136628 CATTGTAATTTCTTATCATATAATGCATAGTGTATTTTTG-TAATTTCTTAGGGGATTATTTTAA
129 CA-TGTAATTTCTTATCATATAATGAAT-GGGTA-TTTTGATAATTT-TTA-GGGATTATTTTGT
* * * * *
136692 AAATAATTATAACAAAAGAGGTATTTTCATAATTATAATATAATGGCATAA--GAGTCCATTTAA
189 AAATAATTATAAAAAAAG-GGTATTTTCATAATTATGATATAA-GACATAATTG-GTCAATTT-G
136755 GCA
250 GCA
* **
136758 TATGTCAATTTCCTATTGTATAATGAAAAAGGCATTTTGGTAAATTTCTAAGGGATTATTTAGTA
1 CATGTCAATTTCCTATCATATAATGAAAAAGGCATTTTGGT-AATTTCTAAGGGATTATTTAGTA
*
136823 AATAATTATAAAAGAATGGTATTTTCGTAATTATAGTATGAGGGCATAATAGTTTATTTGGTCAC
65 AATAATTATAAAAGAATGGTATTTTCGTAATTATAGTATGAGGGCATAATAGTCTATTTGGTCAC
* * *
136888 ATGCTAATTTCTTATCATGTAATAGAATGGGTATTTTGAAAATTTTATTGGAGATTATTTTGTAA
130 ATG-TAATTTCTTATCATATAAT-GAATGGGTATTTTGATAATTTT-TAGG-GATTATTTTGTAA
* * *
136953 ATAATTATAAAAAAATGGGTATTTTTATAATTATGATATTAGCACATAATTGGT-AAATTGGTCA
191 ATAATTATAAAAAAA-GGGTATTTTCATAATTATGATATAAG-ACATAATTGGTCAATTTGG-CA
* * * * **
137017 CATGTCAATTTCTTATTATATAAT-AGAAAGAGCATTTTAGTAATTTCATATTGGATTATTTAGT
1 CATGTCAATTTCCTATCATATAATGAAAAAG-GCATTTTGGTAATTTC-TAAGGGATTATTTAGT
* * *
137081 AAATAATTATAAGAGAAATGATATTTTCATAATTAT
64 AAATAATTATAAAAG-AATGGTATTTTCGTAATTAT
137117 GATATAAGAA
Statistics
Matches: 504, Mismatches: 83, Indels: 60
0.78 0.13 0.09
Matches are distributed among these distances:
256 6 0.01
257 61 0.12
258 122 0.24
259 283 0.56
260 31 0.06
261 1 0.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (252 bp):
CATGTCAATTTCCTATCATATAATGAAAAAGGCATTTTGGTAATTTCTAAGGGATTATTTAGTAA
ATAATTATAAAAGAATGGTATTTTCGTAATTATAGTATGAGGGCATAATAGTCTATTTGGTCACA
TGTAATTTCTTATCATATAATGAATGGGTATTTTGATAATTTTTAGGGATTATTTTGTAAATAAT
TATAAAAAAAGGGTATTTTCATAATTATGATATAAGACATAATTGGTCAATTTGGCA
Found at i:137027 original size:130 final size:128
Alignment explanation
Indices: 136364--137134 Score: 401
Period size: 129 Copynumber: 6.0 Consensus size: 128
136354 AATAGTCCAT
* * * * * * **
136364 TTGGTTACATGATATTTTCTTATCATATAAT-GAAAAGGGTATTTT-GATAATTTTTAAGGGATT
1 TTGGTCACATGCTAATTTCTTATCATATAATAG-AAAGAGCATTTTAGA-AATTTATATTGGATT
* * * * * * * * * *
136427 ATTTAGTAAATAATTATGAGAGAAGGGTATTTTCATAATTATGGTATGAGGATATAATA-TTCGA
64 ATTTAGTAAATAATTATAAAAAAATGGTATTTTCATAATTATGATATAAGAACATAATAGGT-AA
*
136491 T
128 A
* * * * * * * * ** **
136492 TTGGCCACATG-TCAATTTGTTATCATATAATGGTAGGGGTATTTTTGTCATTTAATAAGGGATT
1 TTGGTCACATGCT-AATTTCTTATCATATAATAGAAAGAGCATTTTAGAAATTT-ATATTGGATT
* * * * * * *
136556 ATTTAGTACATAATTATAAAAGAAGGGTATTTTCGTAATTATGGTAT-AGAAGTATAATA-GTCT
64 ATTTAGTAAATAATTATAAAAAAATGGTATTTTCATAATTATGATATAAGAA-CATAATAGGT-A
*
136619 AT
127 AA
* * * * * * * **
136621 TTGGCCACATTG-TAATTTCTTATCATATAAT-GCATAGTGTATTTTTGTAATTTCTTAGGGGAT
1 TTGGTCACA-TGCTAATTTCTTATCATATAATAG-AAAGAGCATTTTAGAAATTT-ATATTGGAT
* * * *
136684 TATTTTA-AAAATAATTATAACAAAAGA-GGTATTTTCATAATTATAATATAATG-GCATAAGA-
63 TA-TTTAGTAAATAATTATAA-AAAA-ATGGTATTTTCATAATTATGATATAA-GAACATAATAG
* *
136745 GTCCAT
124 GT-AAA
* * * ** * * * **
136751 TTAAG-CATATG-TCAATTTCCTATTGTATAAT-GAAAAAGGCATTTTGGTAAATTTCTAAGGGA
1 TT-GGTCACATGCT-AATTTCTTATCATATAATAGAAAGA-GCATTTTAG-AAATTTATATTGGA
* * * ** *
136813 TTATTTAGTAAATAATTATAAAAGAATGGTATTTTCGTAATTAT-AGTATGAGGGCATAATAGTT
62 TTATTTAGTAAATAATTATAAAAAAATGGTATTTTCATAATTATGA-TATAAGAACATAATAGGT
* *
136877 TAT
126 AAA
* * * *
136880 TTGGTCACATGCTAATTTCTTATCATGTAATAGAATGGGTATTTT-GAAAATTT-TATTGGAGAT
1 TTGGTCACATGCTAATTTCTTATCATATAATAGAAAGAGCATTTTAG-AAATTTATATT-G-GAT
* * * * *
136943 TATTTTGTAAATAATTATAAAAAAATGGGTATTTTTATAATTATGATATTAGCACATAATTGGTA
63 TATTTAGTAAATAATTATAAAAAAAT-GGTATTTTCATAATTATGATATAAGAACATAATAGGTA
137008 AA
127 AA
* *
137010 TTGGTCACATG-TCAATTTCTTATTATATAATAGAAAGAGCATTTTAGTAATTTCATATTGGATT
1 TTGGTCACATGCT-AATTTCTTATCATATAATAGAAAGAGCATTTTAGAAATTT-ATATTGGATT
* *
137074 ATTTAGTAAATAATTATAAGAGAAATGATATTTTCATAATTATGATATAAGAACATAATAG
64 ATTTAGTAAATAATTATAA-AAAAATGGTATTTTCATAATTATGATATAAGAACATAATAG
137135 TACATTAGGA
Statistics
Matches: 518, Mismatches: 92, Indels: 64
0.77 0.14 0.09
Matches are distributed among these distances:
127 3 0.01
128 55 0.11
129 222 0.43
130 217 0.42
131 16 0.03
132 5 0.01
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (128 bp):
TTGGTCACATGCTAATTTCTTATCATATAATAGAAAGAGCATTTTAGAAATTTATATTGGATTAT
TTAGTAAATAATTATAAAAAAATGGTATTTTCATAATTATGATATAAGAACATAATAGGTAAA
Found at i:137671 original size:130 final size:127
Alignment explanation
Indices: 137231--137689 Score: 413
Period size: 130 Copynumber: 3.5 Consensus size: 127
137221 TAATAGAAAT
* * * * *
137231 GGTATTTTCATAATTTCAATTGGA-ATTATTTAGTGAATAATTATTAA-AGAAAGAGCATTTTTG
1 GGTATTTT-AAAATTTC-ATAGGAGATTATTTAGTAAATAATTA-TAAGAGAAAGTGTATTTTTG
* * * * **
137294 TAATTATGGTACGAGGGTATAATAGTCCATTTGGTCATATATCAATTTTCTATCA-TATATTTGA
63 TAATTATGGTATGAGGGTATAATAGTCAATTTCGTCATATATCAATTTTTTATCATTA-AAAT-A
*
137358 AC
126 AA
* * * * * *
137360 GTGTATTGTGAAAATTTTATAGGGGATTATTTAGTAAATAATTATAAGAAAAATTGTATTTTCGT
1 G-GTATT-TTAAAATTTCATAGGAGATTATTTAGTAAATAATTATAAGAGAAAGTGTATTTTTGT
* * * * * * * *
137425 AATTATGGTATGAGGGTAGAGTAGTTAATATCGTCATATGTCAATTTATTATCATAAAAAGAAAA
64 AATTATGGTATGAGGGTATAATAGTCAATTTCGTCATATATCAATTTTTTATCATTAAAA-TAAA
* * *
137490 GGTTATTTTAGAAATTTCATAGGGGATTATTTATTAAATAATTATATGAGAAAGTGTATTTTTGT
1 GG-TATTTTA-AAATTTCATAGGAGATTATTTAGTAAATAATTATAAGAGAAAGTGTATTTTTGT
* * * ** * *
137555 AATTATGGTATGAGGGCATAATAATCGATTTCACCA-AGTCTCAATTTTTTATCATGTAACATAA
64 AATTATGGTATGAGGGTATAATAGTCAATTTCGTCATA-TATCAATTTTTTATCAT-TAAAATAA
137619 A
127 A
* * *
137620 GGTAATTTTAATAATTTCATAGGAGATTATTTAGTAAATAATTATAAGAGAACGGGTATTTTGGT
1 GGT-ATTTTAA-AATTTCATAGGAGATTATTTAGTAAATAATTATAAGAGAAAGTGTATTTTTGT
137685 AATTA
64 AATTA
137690 AAGTATGATG
Statistics
Matches: 265, Mismatches: 53, Indels: 23
0.78 0.16 0.07
Matches are distributed among these distances:
129 14 0.05
130 246 0.93
131 5 0.02
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (127 bp):
GGTATTTTAAAATTTCATAGGAGATTATTTAGTAAATAATTATAAGAGAAAGTGTATTTTTGTAA
TTATGGTATGAGGGTATAATAGTCAATTTCGTCATATATCAATTTTTTATCATTAAAATAAA
Found at i:137870 original size:130 final size:128
Alignment explanation
Indices: 137701--140129 Score: 1337
Period size: 130 Copynumber: 18.6 Consensus size: 128
137691 AGTATGATGG
* * * *
137701 CCACATTTAAATTTCTTGTCATATAATGGAAA-GTGTATTTTAGTAATTTTTTAAGGGATTATTT
1 CCACATGTCAATTTCTTATCATATAATGGAAATG-GCATTTTAGTAATTTTTTAAGGGATTATTT
* * * * * *
137765 AGTTAATAATTATAAGAAAAGTTGTATTTTTGTAATTATGGTATAACGGTAAAATAGTCCATTTG
65 AGTAAATAATTATAAGAAAAG-GGTATTTTCGTAATTATGATATAA-GGTATAATAGTCAATTTG
137830 A
128 A
* * * ***
137831 TCAAATGTCAATTTCTTATCATATAATAGAAATTATATTTTCA-TAATTTCATTT--GGGATTAT
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTT-AGTAATTT--TTTAAGGGATTAT
* * * * * * *
137893 CTAGTAAATAATTATAAGATAATGGGTATTTTCATACTTATGATATAAGGTGTAATTGTTAATTT
63 TTAGTAAATAATTATAAGA-AAAGGGTATTTTCGTAATTATGATATAAGGTATAATAGTCAATTT
*
137958 CA
127 GA
* *
137960 CCACATGTCAATTTCCTATTATATAATGGAAAATGGCATTTTGGTAATTTTGATAATAGTCAATT
1 CCACATGTCAATTTCTTATCATATAATGG-AAATGGCA-TTT--T-A----G-T-A-A-T---TT
* * * * *
138025 TTAATAAGGGATTGTTTAGT-AATAATTATAAGAATAAAGGTATTTTGGTAATTAAGGTATGAAG
50 TT--TAAGGGATTATTTAGTAAATAATTATAAGAA-AAGGGTATTTTCGTAATTATGATAT-AAG
* * *
138089 GAATACTAGTAAATTTGA
111 GTATAATAGTCAATTTGA
* * ** * * *
138107 CCACATATCAA-TTCTTATCATATAATGAAAATGATATTTTGGTAATTCTAT-AGGTGATTA-TT
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAGG-GATTATTT
* * * * * * * *
138169 AGTAAATAATGATAAGAGAATGTGTATTTTCATAATAATGGTTTGAAGGTATAATAGTCCATTTG
65 AGTAAATAATTATAAGA-AAAGGGTATTTTCGTAATTATGATAT-AAGGTATAATAGTCAATTTG
138234 A
128 A
* * * * * * * *
138235 CCACATGACAATTTTTTTATCATATATTTG-AATGGGTATTTTGGTAATTTCATT-AGGGATTAC
1 CCACATGTCAA-TTTCTTATCATATAATGGAAAT-GGCATTTTAGTAATTT-TTTAAGGGATTAT
** * * ** * * * **
138298 CAAGTAAGTAATTATAATAGATGGGGTATTTTCATAATTAT-ACTATGAGGGTATCATAGTTTAT
63 TTAGTAAATAATTATAAGA-AAAGGGTATTTTCGTAATTATGA-TAT-AAGGTATAATAGTCAAT
*
138362 TTTA
125 TTGA
* * * * * ** *
138366 CCACATGTTAATTTCTTATAAGATATTGGAAACGATATTTTAGTAATTTCTTT-AGTGATTATTT
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTT-TTTAAGGGATTATTT
** ** * * * * *
138430 AGTAAATAAAGATACTAGAAGTGATATTTTTGTAATTATGATATAAGGGCATAATAGTCAATTTA
65 AGTAAATAATTATAAGAAAAG-GGTATTTTCGTAATTATGATATAA-GGTATAATAGTCAATTTG
138495 A
128 A
* * * * * * * **
138496 TCACATGTCAATTTTTTATCATATAATGCAAA-GGTAATTTTGGTAATTTCTTATGTAATTATTT
1 CCACATGTCAATTTCTTATCATATAATGGAAATGG-CATTTTAGTAATTTTTTAAGGGATTATTT
* * *
138560 AGT-AATAATTATAA-AAGAAGGGGTATATTT-GTAATTATGATATGAATGCATAATTGTCAATT
65 AGTAAATAATTATAAGAA-AA-GGGTAT-TTTCGTAATTATGATAT-AAGGTATAATAGTCAATT
138622 T-A
126 TGA
* * * * *
138624 GCCATATGTCAATTTTTTATCATATAATGGAAAAT-GCATTCTAGTAATTTTTTGAGAGATTATT
1 -CCACATGTCAATTTCTTATCATATAATGG-AAATGGCATTTTAGTAATTTTTTAAGGGATTATT
* * * * * *
138688 TAGTAAATAATTATAAGAGAAGAGGTATTTTAGTAGTTATGTTATGATGGCATAATAGT-ACA-T
64 TAGTAAATAATTATAAGAAAAG-GGTATTTTCGTAATTATGATAT-AAGGTATAATAGTCA-ATT
*
138751 TCA
126 TGA
* * * * * * ** **
138754 GTCATATGAT-AATTTCTTATCATATAATGAAAAGGGTAATTTCA-TAATTTCATAAAAGATTAT
1 -CCACATG-TCAATTTCTTATCATATAATGGAAATGG-CATTTTAGTAATTTTTTAAGGGATTAT
* * * ** *
138817 TTAGTAAATAATTATAAGAGAAGGGATTTTTTCATAATTATGATATGAAGGCGTAATTA-TCAAG
63 TTAGTAAATAATTATAAGAAAAGGG-TATTTTCGTAATTATGATAT-AAGGTATAA-TAGTCAAT
*
138881 TTCA
125 TTGA
* * * * * * * * **
138885 CCATATGCCAATATCCTATAATATAATGGAAATGGAATTTTGGTAAATTTTTAAAAGATTATTTA
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAGGGATTATTTA
* * * ** * ** *
138950 GTAAATAATTATAAGATAAATGATATTTTCATAATTAT-AGTATTCGGGCATAATAACCTATTTG
66 GTAAATAATTATAAGA-AAAGGGTATTTTCGTAATTATGA-TA-TAAGGTATAATAGTCAATTTG
139014 A
128 A
* * * * * ** *
139015 CTACATGTCAAATTCTTATCATGTAATAGAAATGGCATTTTGGTAATTTCATAAAGGATTATTTA
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAGGGATTATTTA
** * * * * * * *
139080 GTAAATAATTATAAGAAAAGTATATTTTCATAATTATGGTATGAAAGAATGATAGTCCATTTGG
66 GTAAATAATTATAAGAAAAGGGTATTTTCGTAATTATGATAT-AAGGTATAATAGTCAATTTGA
* * * * * * * ** *
139144 CCAAATTTTAATTTCTTATCATATAATTGAAAGGGTATTTTATTAATTTCATAAGGGATTACTTA
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAGGGATTATTTA
* * * *
139209 GCAAATAATTATAA-AAAAGGGTATTTTCGTAATTATGGTATGAAGGTAAAATATTCAATTTGA
66 GTAAATAATTATAAGAAAAGGGTATTTTCGTAATTATGATAT-AAGGTATAATAGTCAATTTGA
* * * * * * *
139272 CTAAATTTTAATTTCTTATTATATAATGG-AGTGTGCATTTTTGTAATTTTTT-AGAGGATTATT
1 CCACATGTCAATTTCTTATCATATAATGGAAATG-GCATTTTAGTAATTTTTTAAG-GGATTATT
*** * ** *
139335 TAGTAAATAATTATAAGAGATTCGGTATTTTCATAATTATGATATAATGCCATAATAGTTAATTT
64 TAGTAAATAATTATAAGA-AAAGGGTATTTTCGTAATTATGATATAA-GGTATAATAGTCAATTT
*
139400 TA
127 GA
* * * * * * * * * *
139402 CCTCATGGCAACTTCTTATAATATATTGAAAAGGGCAATTTAGTAATTTCTTGAA-AGATTATTT
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTT-TTTAAGGGATTATTT
** * * * *
139466 TCTAAATAATTATAAGAGAAGGGATATTGTT-GTAATTATGAAATGAGGTCATAA-ATGTCTATT
65 AGTAAATAATTATAAGAAAAGGG-TATT-TTCGTAATTATGATATAAGGT-ATAATA-GTCAATT
139529 TGA
126 TGA
* * * * * ** *
139532 TCACATCTCAATTTCTTATCATATAATAGAAATGGTATTTTCGTAATTTCATAAGAGATTATTTA
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAGGGATTATTTA
* * * * *
139597 GTAAATAATTATAAAAGAAAA-GGTATTTTTGTAATTATGATATGAGGGCATAATGGTTAATTTG
66 GTAAATAATTAT--AAGAAAAGGGTATTTTCGTAATTATGATAT-AAGGTATAATAGTCAATTTG
139661 A
128 A
* * * * ** * *
139662 CAACATATCAATTTATTATCATATATTATAAAGGGCATTTTAGTAATTTCTT-AGAGGATTATTT
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAG-GGATTATTT
* * ** * * * *
139726 AGTAAATATTTATAAGAGAAGTGGTATTTTCGTAATTATGGCATGAGGGCAAAATAGTCCATTTG
65 AGTAAATAATTATAAGAAAAG-GGTATTTTCGTAATTATGATAT-AAGGTATAATAGTCAATTTG
*
139791 G
128 A
** * * * * * **
139792 TTAAATATCAATTTCTTATCATATAATTGAAAATGACATTTTAGT-GTTTTCTTAAGTAATTATT
1 CCACATGTCAATTTCTTATCATATAA-TGGAAATGGCATTTTAGTAATTTT-TTAAGGGATTATT
** * * *
139856 TAGTAAATAATTATAA-AAGAATGAATATTTTCGTAATTACGATATAAATGTGTAATAGTCAATT
64 TAGTAAATAATTATAAGAA-AA-GGGTATTTTCGTAATTATGATAT-AAGGTATAATAGTCAATT
139920 TGA
126 TGA
* * * ** * * *
139923 TCATATATCAATTTCTTATCATATAATGGAAATGTAATTTTGGTAATTTCTTATGGGATTATTTA
1 CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAGGGATTATTTA
* * * * * * * * * *
139988 GTAAATAATTATTAGGGAATGCGTATATTCGTAATTATGATATAAGCGCATAATTGTTAATCTGG
66 GTAAATAATTA-TAAGAAAAGGGTATTTTCGTAATTATGATATAAG-GTATAATAGTCAATTTGA
* ** * * * * **
140053 TCACATGTCAATTTCGCATCATAAAATGAAAAAT-GTATTTTAGTAATTTCTTAAAAGATTATTT
1 CCACATGTCAATTTCTTATCATATAATG-GAAATGGCATTTTAGTAATTTTTTAAGGGATTATTT
* *
140117 AGTTAGTAATTAT
65 AGTAAATAATTAT
140130 GGTATATTGG
Statistics
Matches: 1778, Mismatches: 420, Indels: 203
0.74 0.17 0.08
Matches are distributed among these distances:
127 12 0.01
128 170 0.10
129 272 0.15
130 997 0.56
131 205 0.12
132 14 0.01
133 3 0.00
134 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
139 1 0.00
140 1 0.00
141 1 0.00
142 2 0.00
143 2 0.00
144 3 0.00
145 10 0.01
146 45 0.03
147 36 0.02
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (128 bp):
CCACATGTCAATTTCTTATCATATAATGGAAATGGCATTTTAGTAATTTTTTAAGGGATTATTTA
GTAAATAATTATAAGAAAAGGGTATTTTCGTAATTATGATATAAGGTATAATAGTCAATTTGA
Done.