Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 151 of 199
Found at i:45287495 original size:21 final size:21
Alignment explanation
Indices: 45287434--45287496 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
45287424 TTTATGAACC
*
45287434 ATGGTTTAAGGGTTAGGGTTTA
1 ATGG-TTAAGGGTTAGGGGTTA
*
45287456 AT-G-TATAGGTGTTACGGGTTA
1 ATGGTTA-AGG-GTTAGGGGTTA
45287477 ATGGTTAAGGGTTAGGGGTT
1 ATGGTTAAGGGTTAGGGGTT
45287497 TACGGTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
19 2 0.06
20 3 0.09
21 21 0.62
22 6 0.18
23 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.38, T:0.38
Consensus pattern (21 bp):
ATGGTTAAGGGTTAGGGGTTA
Found at i:45287503 original size:21 final size:20
Alignment explanation
Indices: 45287439--45287503 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 20
45287429 GAACCATGGT
*
45287439 TTAAGGGTTAGGGTTTAATG
1 TTAAGGGTTAGGGTTTAAGG
45287459 -TATAGGTGTTACGGG-TTAATGG
1 TTA-AGG-GTTA-GGGTTTAA-GG
*
45287481 TTAAGGGTTAGGGGTTTACGG
1 TTAAGGGTTA-GGGTTTAAGG
45287502 TT
1 TT
45287504 TATAGTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 11
0.72 0.06 0.22
Matches are distributed among these distances:
19 2 0.06
20 3 0.08
21 19 0.53
22 10 0.28
23 2 0.06
ACGTcount: A:0.22, C:0.03, G:0.37, T:0.38
Consensus pattern (20 bp):
TTAAGGGTTAGGGTTTAAGG
Found at i:45287713 original size:21 final size:21
Alignment explanation
Indices: 45287689--45287732 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
45287679 AAGGGTACTT
* *
45287689 GGTTTA-ATGGTTTGAGTTTAA
1 GGTTTAGA-GGTTGGAGATTAA
45287710 GGTTTAGAGGTTGGAGATTAA
1 GGTTTAGAGGTTGGAGATTAA
45287731 GG
1 GG
45287733 GATAGGGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (21 bp):
GGTTTAGAGGTTGGAGATTAA
Found at i:45288748 original size:195 final size:191
Alignment explanation
Indices: 45288394--45288777 Score: 579
Period size: 195 Copynumber: 2.0 Consensus size: 191
45288384 TGCAAATCCC
* ** *
45288394 TAGACCTTTCACCTTTTCAACGACGATTTCCCCTCTTCTCGGTCGAATATGGCTTCTCGTCTGGG
1 TAGACCATTCACCCATTCAACGACGATTTCCCCTCTTCTCGATCGAATATGGCTTCTCGTCTGGG
* * * *
45288459 CTGACTGGTAGAAAACTTTCCAAATCCCTAATTTCTCCGTTGACTCCATATATGGCTGTTCATTT
66 CTGACTGGTAAAAAACTTTCCAAATCCCTAATTTCTCCGTTGAATACATATATGGCTATTCATTT
* * *
45288524 TTATGTTCGATTTTTTCTTTCTGTAATGCTCGCTTTGTTTTTTCCTTTCTCTTTAAATTCCA
131 TTATATTCGATTTTTTCTTTCTCTAATGCTCGCTTTG-TTTTTCCTTTCGCTTTAAATTCCA
* *
45288586 TAGACCATTCACCCATTCAACGACGATTTCCCCTCTTTTCGATCGAATATTGCTTCTCGTCTGGG
1 TAGACCATTCACCCATTCAACGACGATTTCCCCTCTTCTCGATCGAATATGGCTTCTCGTCTGGG
* *
45288651 CTGACTGGTAAAAAAAATCTTTCCAAATCCCTAATTTCTTCGTTGAATACGTATATGGCTATTCA
66 CTGACTGGT--AAAAAA-CTTTCCAAATCCCTAATTTCTCCGTTGAATACATATATGGCTATTCA
* *
45288716 TTTTTCTATTTGATTTTTTCTTTCTCTAATGCTCGCTTTGTTTTTCCTTTCGCTTTAAATTC
128 TTTTTATATTCGATTTTTTCTTTCTCTAATGCTCGCTTTGTTTTTCCTTTCGCTTTAAATTC
45288778 TGTGTTGCTT
Statistics
Matches: 172, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
192 68 0.40
194 26 0.15
195 78 0.45
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (191 bp):
TAGACCATTCACCCATTCAACGACGATTTCCCCTCTTCTCGATCGAATATGGCTTCTCGTCTGGG
CTGACTGGTAAAAAACTTTCCAAATCCCTAATTTCTCCGTTGAATACATATATGGCTATTCATTT
TTATATTCGATTTTTTCTTTCTCTAATGCTCGCTTTGTTTTTCCTTTCGCTTTAAATTCCA
Found at i:45290082 original size:17 final size:17
Alignment explanation
Indices: 45290060--45290109 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
45290050 TTAATATCTA
45290060 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
45290077 TATAAGTTTTCT-AA--
1 TATAAGTTTTCTAAATT
45290091 -ATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
45290107 TAT
1 TAT
45290110 TTGTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.38
14 2 0.07
16 2 0.07
17 14 0.48
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:45290096 original size:13 final size:13
Alignment explanation
Indices: 45290078--45290105 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
45290068 TTCTAAATTT
45290078 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
45290091 ATAAGTTTTCTAA
1 ATAAGTTTTCTAA
45290104 AT
1 AT
45290106 TTATTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (13 bp):
ATAAGTTTTCTAA
Found at i:45290136 original size:15 final size:15
Alignment explanation
Indices: 45290101--45290139 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
45290091 ATAAGTTTTC
*
45290101 TAAATTTATTTGTAT
1 TAAATTTATTAGTAT
45290116 TAAAATTTATTAGTAT
1 T-AAATTTATTAGTAT
45290132 TAAATTTA
1 TAAATTTA
45290140 CTTCGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
TAAATTTATTAGTAT
Found at i:45290182 original size:62 final size:61
Alignment explanation
Indices: 45290071--45290219 Score: 165
Period size: 62 Copynumber: 2.4 Consensus size: 61
45290061 ATAAGTTTTC
* *** * * *
45290071 TAAATTTATAAGTTTTCTAAATAAGTTTTCTAAATTTATTTGTATTAAAATTTAT-TAGTAT
1 TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATATATGT-GTAT
** *
45290132 TAAATTTACTTCGTTTTCTAAATAAGTGTTCTAAATTTGGGAGAAATAAAATATATGTGTAT
1 TAAATTTA-TAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATATATGTGTAT
* *
45290194 TAAGTTTATAAGTTTTCTACATAAGT
1 TAAATTTATAAGTTTTCTAAATAAGT
45290220 TACATAATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
61 23 0.32
62 48 0.67
63 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTCTAAATAAGTGTTCTAAATTTAGGAGAAATAAAATATATGTGTAT
Found at i:45290346 original size:9 final size:9
Alignment explanation
Indices: 45290301--45290687 Score: 381
Period size: 9 Copynumber: 42.8 Consensus size: 9
45290291 TATGTTATAA
45290301 TACATAACTT
1 TACATAAC-T
*
45290311 GTATATAAGCT
1 -TACATAA-CT
*
45290322 TGCATAACT
1 TACATAACT
*
45290331 TACATAAAT
1 TACATAACT
*
45290340 TAAATAACT
1 TACATAACT
45290349 TACATAACT
1 TACATAACT
*
45290358 TACATAAAT
1 TACATAACT
45290367 TA-AGTAACT
1 TACA-TAACT
45290376 TACATAACT
1 TACATAACT
45290385 TACATAAACT
1 TACAT-AACT
* *
45290395 TGCATAAAT
1 TACATAACT
*
45290404 TAAATAACT
1 TACATAACT
45290413 TACATAACT
1 TACATAACT
*
45290422 TACATAACC
1 TACATAACT
*
45290431 TACATAAAT
1 TACATAACT
* *
45290440 TAAATATCT
1 TACATAACT
*
45290449 TACATAACC
1 TACATAACT
*
45290458 TACATAAAT
1 TACATAACT
*
45290467 TAAATAACT
1 TACATAACT
45290476 TACATAACT
1 TACATAACT
45290485 TACATAAACT
1 TACAT-AACT
* *
45290495 TGCATAAAT
1 TACATAACT
*
45290504 TAAATAACT
1 TACATAACT
45290513 TACATAACT
1 TACATAACT
*
45290522 TACATAACC
1 TACATAACT
*
45290531 TACATAAAT
1 TACATAACT
*
45290540 TAAATAACT
1 TACATAACT
45290549 TACATAACT
1 TACATAACT
*
45290558 TACATAAAT
1 TACATAACT
*
45290567 TAAATAACT
1 TACATAACT
*
45290576 TACATAAAT
1 TACATAACT
* * *
45290585 TCCGTGGACT
1 TACAT-AACT
*
45290595 TACATAACC
1 TACATAACT
*
45290604 TACATAAAT
1 TACATAACT
*
45290613 TAAATAACT
1 TACATAACT
45290622 TACATAACT
1 TACATAACT
*
45290631 TACATTACT
1 TACATAACT
45290640 TACAGT-ACT
1 TACA-TAACT
45290649 TACATAA--
1 TACATAACT
45290656 TACATAAC-
1 TACATAACT
45290664 -ACATAACT
1 TACATAACT
45290672 TACATAACT
1 TACATAACT
45290681 TACATAA
1 TACATAA
45290688 TACATAAAAA
Statistics
Matches: 304, Mismatches: 61, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
7 14 0.05
8 2 0.01
9 252 0.83
10 28 0.09
11 7 0.02
12 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:45290441 original size:100 final size:100
Alignment explanation
Indices: 45290315--45290687 Score: 495
Period size: 100 Copynumber: 3.8 Consensus size: 100
45290305 TAACTTGTAT
* * *
45290315 ATAAGCTTGCATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACA
1 ATAA-CTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACA
45290380 TAACTTACATAAACTTGCATAAATTAAATAACTTAC
65 TAACTTACATAAACTTGCATAAATTAAATAACTTAC
* *
45290416 ATAACTTACATAACCTACATAAATTAAATATCTTACATAACCTACATAAATTAAATAACTTACAT
1 ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACAT
45290481 AACTTACATAAACTTGCATAAATTAAATAACTTAC
66 AACTTACATAAACTTGCATAAATTAAATAACTTAC
45290516 ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACAT
1 ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACAT
* * * ** * ** * * *
45290581 AAATTCCGTGGACTTACATAACCTACATAAATTAA
66 AACTTACATAAACTTGCATAAATTAAATAACTTAC
* * * * * *
45290616 ATAACTTACATAACTTACATTACTTACAGT-ACTTACATAA--TACAT-AA-CACATAACTTACA
1 ATAACTTACATAACCTACATAAATTA-AATAACTTACATAACTTACATAAATTAAATAACTTACA
45290676 TAACTTACATAA
65 TAACTTACATAA
45290688 TACATAAAAA
Statistics
Matches: 242, Mismatches: 29, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
96 18 0.07
97 2 0.01
98 5 0.02
100 211 0.87
101 6 0.02
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (100 bp):
ATAACTTACATAACCTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACAT
AACTTACATAAACTTGCATAAATTAAATAACTTAC
Found at i:45290650 original size:73 final size:72
Alignment explanation
Indices: 45290325--45290687 Score: 422
Period size: 73 Copynumber: 4.9 Consensus size: 72
45290315 ATAAGCTTGC
* * * *
45290325 ATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTAAGTAACTTACATAACTTACAT
1 ATAACTTACATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACCTACAT
**
45290390 AAACTTGC
66 AAA-TTAA
* * * *
45290398 ATAAATTAAATAACTTACATAACTTACATAACCTACATAAATTAAATATCTTACATAACCTACAT
1 ATAACTTACATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACCTACAT
45290463 AAATTAA
66 AAATTAA
* * * * *
45290470 ATAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTACATAACTTACATAACCTACA
1 ATAACTTACATAACTTACAT-AACTTACATAACTTACATAAATTAAATAACTTACATAACCTACA
45290535 TAAATTAA
65 TAAATTAA
* * *** *
45290543 ATAACTTACATAACTTACATAAATTAAATAACTTACATAAATTCCGTGGACTTACATAACCTACA
1 ATAACTTACATAACTTACATAACTTACATAACTTACATAAATTAAAT-AACTTACATAACCTACA
45290608 TAAATTAA
65 TAAATTAA
* *
45290616 ATAACTTACATAACTTACATTACTTACAGT-ACTTACATAATACATAACACATAACTTACATAAC
1 ATAACTTACATAACTTACATAACTTACA-TAACTTACAT-A-A-ATTA-A-ATAACTTACATAAC
*
45290680 TTACATAA
60 CTACATAA
45290688 TACATAAAAA
Statistics
Matches: 245, Mismatches: 37, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
72 39 0.16
73 182 0.74
74 2 0.01
75 1 0.00
76 2 0.01
77 18 0.07
78 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (72 bp):
ATAACTTACATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACCTACAT
AAATTAA
Found at i:45294882 original size:21 final size:21
Alignment explanation
Indices: 45294856--45294924 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
45294846 CAACAACTTA
* *
45294856 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCAGCAGCGAGAG
45294877 AAGCAGAGGCTA-CAGCGAGAG
1 AAGCAGAGGC-AGCAGCGAGAG
*
45294898 AAGC-GAGAGAAGCAGCGAGAG
1 AAGCAGAG-GCAGCAGCGAGAG
45294919 AAGCAG
1 AAGCAG
45294925 CGATAGAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.10
21 36 0.88
22 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.43, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCAGCAGCGAGAG
Found at i:45294916 original size:12 final size:12
Alignment explanation
Indices: 45294899--45294933 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
45294889 CAGCGAGAGA
45294899 AGCGAGAGAAGC
1 AGCGAGAGAAGC
45294911 AGCGAGAGAAGC
1 AGCGAGAGAAGC
*
45294923 AGCGATAGAAG
1 AGCGAGAGAAG
45294934 TAGAGGTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.40, T:0.03
Consensus pattern (12 bp):
AGCGAGAGAAGC
Found at i:45295427 original size:42 final size:42
Alignment explanation
Indices: 45295371--45295470 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
45295361 CATTTGTGAA
*
45295371 ATAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTTCC
1 ATAAGCGCCGCTAAAGAACA-TGATCT-TTAGCCGCGTTTTTT-C
45295414 A-AAGCGCCGCTAAAGAACATGATCTTTAGCCGCGTTTTTTC
1 ATAAGCGCCGCTAAAGAACATGATCTTTAGCCGCGTTTTTTC
*
45295455 ATAAGCGCCGCAAAAG
1 ATAAGCGCCGCTAAAG
45295471 TTAGCGACGT
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
41 3 0.06
42 46 0.88
43 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (42 bp):
ATAAGCGCCGCTAAAGAACATGATCTTTAGCCGCGTTTTTTC
Found at i:45296157 original size:20 final size:20
Alignment explanation
Indices: 45296132--45296173 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
45296122 CTTTTCCTAT
* *
45296132 AAAATATTAAAAATCATAAA
1 AAAATATAAAAAATCAGAAA
45296152 AAAATATAAAAAATCAGAAA
1 AAAATATAAAAAATCAGAAA
45296172 AA
1 AA
45296174 CGTTATCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAATATAAAAAATCAGAAA
Found at i:45296257 original size:16 final size:19
Alignment explanation
Indices: 45296221--45296260 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
45296211 GAAAATTGGT
45296221 ATAAACTTATAAAAATATA
1 ATAAACTTATAAAAATATA
45296240 ATAAA-TTAT-AAAAT-TA
1 ATAAACTTATAAAAATATA
45296256 ATAAA
1 ATAAA
45296261 ACATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 5 0.24
18 4 0.19
19 5 0.24
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAACTTATAAAAATATA
Found at i:45296301 original size:11 final size:11
Alignment explanation
Indices: 45296239--45296332 Score: 51
Period size: 10 Copynumber: 9.1 Consensus size: 11
45296229 ATAAAAATAT
*
45296239 AATAAATTATAA
1 AATATATTA-AA
*
45296251 AAT-TAATAAA
1 AATATATTAAA
45296261 ACATA-ATT-AA
1 A-ATATATTAAA
45296271 AATAT-TTAAA
1 AATATATTAAA
* *
45296281 ATTCTA-TAAA
1 AATATATTAAA
*
45296291 AATGTATTAAA
1 AATATATTAAA
* *
45296302 ATTCTA-TAAA
1 AATATATTAAA
45296312 AATATA-TAAA
1 AATATATTAAA
45296322 AA-ATATTAAA
1 AATATATTAAA
45296332 A
1 A
45296333 TTGGTATAAG
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
9 8 0.12
10 38 0.59
11 15 0.23
12 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (11 bp):
AATATATTAAA
Found at i:45296302 original size:10 final size:10
Alignment explanation
Indices: 45296232--45296333 Score: 54
Period size: 9 Copynumber: 10.5 Consensus size: 10
45296222 TAAACTTATA
*
45296232 AAAATATAAT
1 AAAATATATT
45296242 -AAAT-TA-T
1 AAAATATATT
*
45296249 AAAAT-TAAT
1 AAAATATATT
*
45296258 AAAACATAATT
1 AAAATAT-ATT
45296269 AAAATAT-TT
1 AAAATATATT
* *
45296278 AAAATTCTATA
1 AAAA-TATATT
*
45296289 AAAATGTATT
1 AAAATATATT
* *
45296299 AAAATTCTATA
1 AAAA-TATATT
45296310 AAAATATA-T
1 AAAATATATT
*
45296319 AAAAAATATT
1 AAAATATATT
45296329 AAAAT
1 AAAAT
45296334 TGGTATAAGC
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
7 1 0.01
8 8 0.11
9 22 0.31
10 19 0.27
11 21 0.30
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
AAAATATATT
Found at i:45296302 original size:21 final size:21
Alignment explanation
Indices: 45296269--45296323 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
45296259 AAACATAATT
45296269 AAAATAT-TTAAAATTCTATA
1 AAAATATATTAAAATTCTATA
*
45296289 AAAATGTATTAAAATTCTATA
1 AAAATATATTAAAATTCTATA
*
45296310 AAAATATATAAAAA
1 AAAATATATTAAAA
45296324 ATATTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATATATTAAAATTCTATA
Found at i:45296832 original size:27 final size:26
Alignment explanation
Indices: 45296783--45296908 Score: 103
Period size: 27 Copynumber: 4.6 Consensus size: 26
45296773 TTTTTTACTT
*
45296783 ATTTTTATAAGTTTATACCAATTTTAATA
1 ATTTTTATAA-TTT-TA-AAATTTTAATA
* *
45296812 TTTTTTATAATTTTAAGAATTCTAATA
1 ATTTTTATAATTTTAA-AATTTTAATA
45296839 ATTTTTA-AATTTTAAATATTTTAATTA
1 ATTTTTATAATTTTAAA-ATTTTAA-TA
* * *
45296866 AGTTTTATTAATTTTATAA-TTTATTA
1 ATTTTTA-TAATTTTAAAATTTTAATA
45296892 GATTTTTATAATATTTA
1 -ATTTTTATAAT-TTTA
45296909 TATGTTTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 16
0.76 0.08 0.15
Matches are distributed among these distances:
25 1 0.01
26 20 0.25
27 39 0.48
28 4 0.05
29 17 0.21
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTTATAATTTTAAAATTTTAATA
Found at i:45296903 original size:26 final size:26
Alignment explanation
Indices: 45296813--45296946 Score: 92
Period size: 27 Copynumber: 4.8 Consensus size: 26
45296803 ATTTTAATAT
* *
45296813 TTTTTATAATTTTAAGAATTCTAATAA
1 TTTTTATAATTTTAATAATT-TATTAA
*
45296840 TTTTTA-AATTTTAAATATTTTAATTAA
1 TTTTTATAATTTT-AATAATTT-ATTAA
*
45296867 GTTTTATTAATTTT-ATAATTTATTAGA
1 TTTTTA-TAATTTTAATAATTTATTA-A
** * *
45296894 TTTTTATAATATTTATATGTTTTTTGTATT
1 TTTTTATAAT-TTTA-ATAATTTAT-TA-A
45296924 TTTTTATAATTTTAATAAGTTTA
1 TTTTTATAATTTTAATAA-TTTA
45296947 CGTCAATTTT
Statistics
Matches: 83, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
26 15 0.18
27 35 0.42
28 2 0.02
29 19 0.23
30 12 0.14
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTTATAATTTTAATAATTTATTAA
Found at i:45296936 original size:9 final size:9
Alignment explanation
Indices: 45296764--45296910 Score: 61
Period size: 9 Copynumber: 15.9 Consensus size: 9
45296754 CCAATTCAAG
*
45296764 TTTTTATGAT
1 TTTTTAT-AA
*
45296774 TTTTTACTTA
1 TTTTTA-TAA
45296784 TTTTTATAA
1 TTTTTATAA
* *
45296793 GTTTATACCAA
1 -TTTTTA-TAA
* *
45296804 TTTTAATAT
1 TTTTTATAA
45296813 TTTTTATAA
1 TTTTTATAA
* *
45296822 TTTTAAGAA
1 TTTTTATAA
* *
45296831 TTCTAATAA
1 TTTTTATAA
45296840 TTTTTA-AA
1 TTTTTATAA
45296848 -TTTTA-AA
1 TTTTTATAA
45296855 TATTTTAATTAA
1 T-TTTT-A-TAA
*
45296867 GTTTTATTAA
1 TTTTTA-TAA
45296877 -TTTTATAA
1 TTTTTATAA
*
45296885 TTTATTA-GA
1 TTT-TTATAA
45296894 TTTTTATAA
1 TTTTTATAA
*
45296903 TATTTATA
1 TTTTTATA
45296911 TGTTTTTTGT
Statistics
Matches: 105, Mismatches: 21, Indels: 23
0.70 0.14 0.15
Matches are distributed among these distances:
7 7 0.07
8 8 0.08
9 51 0.49
10 30 0.29
11 7 0.07
12 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (9 bp):
TTTTTATAA
Found at i:45299945 original size:21 final size:21
Alignment explanation
Indices: 45299921--45299963 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
45299911 ATCTCTTTCA
45299921 AATTTCT-CTCAATTTCTTATT
1 AATTTCTACTCAATTT-TTATT
45299942 AATTTCTCACTCAATTTTTATT
1 AATTTCT-ACTCAATTTTTATT
45299964 CCTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTCTACTCAATTTTTATT
Found at i:45299976 original size:23 final size:23
Alignment explanation
Indices: 45299928--45299972 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
45299918 TCAAATTTCT
*
45299928 CTCAATTTCTTATTAATTTCTCA
1 CTCAATTTCTTATTAATCTCTCA
**
45299951 CTCAATTT-TTATTCCTCTCTCA
1 CTCAATTTCTTATTAATCTCTCA
45299973 ACTCTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (23 bp):
CTCAATTTCTTATTAATCTCTCA
Found at i:45300179 original size:5 final size:5
Alignment explanation
Indices: 45300139--45300169 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
45300129 TTTTTATTCT
45300139 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
45300170 ATATTTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTTA
Found at i:45301112 original size:12 final size:12
Alignment explanation
Indices: 45301095--45301119 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45301085 TTTTCTTTTT
45301095 TTTCTTTTCTTA
1 TTTCTTTTCTTA
45301107 TTTCTTTTCTTA
1 TTTCTTTTCTTA
45301119 T
1 T
45301120 CTTTCATCTT
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTTCTTA
Found at i:45307510 original size:9 final size:10
Alignment explanation
Indices: 45307489--45307542 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
45307479 TTTACATCTC
*
45307489 AAAAAATTAT
1 AAAAAAATAT
45307499 AAAAAAAT-T
1 AAAAAAATAT
*
45307508 AAAGAATATAT
1 AAA-AAAATAT
*
45307519 AAAAAACT-T
1 AAAAAAATAT
45307528 -AAAAAATAT
1 AAAAAAATAT
45307537 AAAAAA
1 AAAAAA
45307543 CCCTAAATCA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
8 6 0.17
9 6 0.17
10 19 0.54
11 4 0.11
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:45307542 original size:18 final size:18
Alignment explanation
Indices: 45307489--45307543 Score: 74
Period size: 20 Copynumber: 2.9 Consensus size: 18
45307479 TTTACATCTC
*
45307489 AAAAAATTATAAAAAAATT
1 AAAAAA-TATAAAAAACTT
45307508 AAAGAATATATAAAAAACTT
1 AAA-AA-ATATAAAAAACTT
45307528 AAAAAATATAAAAAAC
1 AAAAAATATAAAAAAC
45307544 CCTAAATCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 11 0.33
19 5 0.15
20 16 0.48
21 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAAATATAAAAAACTT
Found at i:45307938 original size:22 final size:20
Alignment explanation
Indices: 45307902--45307960 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
45307892 GGCCCGGCCC
45307902 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
45307924 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
45307945 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
45307961 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:45307962 original size:11 final size:11
Alignment explanation
Indices: 45307942--45308038 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
45307932 TAAAAATTAA
45307942 AAAAAGTATTTT
1 AAAAA-TATTTT
45307954 AAAAATATTTT
1 AAAAATATTTT
45307965 --AAA-A--TT
1 AAAAATATTTT
*
45307971 AAAAAAATTTT
1 AAAAATATTTT
45307982 AAAAAGTATTTT
1 AAAAA-TATTTT
*
45307994 --AAA-A-TTA
1 AAAAATATTTT
* **
45308001 AAAAATAATAA
1 AAAAATATTTT
45308012 AAAAAGTATTTT
1 AAAAA-TATTTT
45308024 AAAAATATTTT
1 AAAAATATTTT
45308035 AAAA
1 AAAA
45308039 TTAAAAAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 5 0.07
9 7 0.10
10 4 0.06
11 30 0.44
12 18 0.26
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:45307974 original size:17 final size:17
Alignment explanation
Indices: 45307952--45307985 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45307942 AAAAAGTATT
*
45307952 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
45307969 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
45307986 AGTATTTTAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:45308005 original size:30 final size:30
Alignment explanation
Indices: 45307927--45308027 Score: 127
Period size: 30 Copynumber: 3.3 Consensus size: 30
45307917 ACCAAAAATT
45307927 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA-
1 TATTTT-AAAATTAAAAAAA--ATTTTAAAAAG
45307959 TATTTTAAAATT-AAAAAAATTTTAAAAAG
1 TATTTTAAAATTAAAAAAAATTTTAAAAAG
**
45307988 TATTTTAAAATTAAAAAATAA-TAAAAAAAG
1 TATTTTAAAATTAAAAAA-AATTTTAAAAAG
45308018 TATTTTAAAA
1 TATTTTAAAA
45308028 ATATTTTAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
28 10 0.16
29 12 0.19
30 28 0.44
31 8 0.12
32 6 0.09
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (30 bp):
TATTTTAAAATTAAAAAAAATTTTAAAAAG
Found at i:45308016 original size:41 final size:39
Alignment explanation
Indices: 45307971--45308060 Score: 126
Period size: 41 Copynumber: 2.2 Consensus size: 39
45307961 TTTTAAAATT
45307971 AAAAAAATTTTAAAAAGTATTTTAAAATTAAAAAATAATAA
1 AAAAAAATTTTAAAAA-TATTTTAAAATTAAAAAA-AATAA
* *
45308012 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAA
1 AAAAA-AATTTTAAAAATATTTTAAAATTAAAAAAAATAA
45308052 AAAATAAAT
1 AAAA-AAAT
45308061 ATAACAGGCC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
40 10 0.23
41 24 0.55
42 10 0.23
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (39 bp):
AAAAAAATTTTAAAAATATTTTAAAATTAAAAAAAATAA
Found at i:45308837 original size:41 final size:41
Alignment explanation
Indices: 45308776--45308893 Score: 170
Period size: 40 Copynumber: 2.9 Consensus size: 41
45308766 AATAAATTTA
45308776 TTTTTTTA-TTTTTAAATTTTAAAAACATTTTTAAAATAC-
1 TTTTTTTATTTTTTAAATTTTAAAAACATTTTTAAAATACT
* *
45308815 TTTTTTTATTTTTTAAATTTTTAAAATATTTTTAAAATACT
1 TTTTTTTATTTTTTAAATTTTAAAAACATTTTTAAAATACT
* *
45308856 TTTTTTTATTTTTT-AATTTTAAAATACTTTTTTTAAAT
1 TTTTTTTATTTTTTAAATTTTAAAA-ACATTTTTAAAAT
45308894 TTTTTATTTT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
39 8 0.11
40 38 0.54
41 24 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (41 bp):
TTTTTTTATTTTTTAAATTTTAAAAACATTTTTAAAATACT
Found at i:45308877 original size:28 final size:29
Alignment explanation
Indices: 45308844--45308910 Score: 109
Period size: 28 Copynumber: 2.3 Consensus size: 29
45308834 TTTAAAATAT
*
45308844 TTTTAAAATACTTTTTTT-TATTTTTTAA
1 TTTTAAAATACTTTTTTTAAATTTTTTAA
*
45308872 TTTTAAAATACTTTTTTTAAATTTTTTAT
1 TTTTAAAATACTTTTTTTAAATTTTTTAA
45308901 TTTTAAAATA
1 TTTTAAAATA
45308911 AAATTTTGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 18 0.50
29 18 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TTTTAAAATACTTTTTTTAAATTTTTTAA
Found at i:45308917 original size:29 final size:29
Alignment explanation
Indices: 45308822--45308917 Score: 86
Period size: 29 Copynumber: 3.2 Consensus size: 29
45308812 TACTTTTTTT
45308822 ATTTTTTAAATTTTTAAAATATTTTTAAAAT-A
1 ATTTTTTAAATTTTT----TATTTTTAAAATAA
* ** * *
45308854 CTTTTTTTTATTTTTTAATTTTAAAATAC
1 ATTTTTTAAATTTTTTATTTTTAAAATAA
*
45308883 TTTTTTTAAATTTTTTATTTTTAAAATAA
1 ATTTTTTAAATTTTTTATTTTTAAAATAA
*
45308912 AATTTT
1 ATTTTT
45308918 GGTGTTTATT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
28 11 0.22
29 28 0.55
32 12 0.24
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTTTTTAAATTTTTTATTTTTAAAATAA
Found at i:45309453 original size:3 final size:3
Alignment explanation
Indices: 45309447--45309481 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
45309437 GCCACCATCA
*
45309447 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCC TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
45309482 ATCCTCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.37, G:0.29, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:45309503 original size:24 final size:24
Alignment explanation
Indices: 45309476--45309562 Score: 56
Period size: 24 Copynumber: 3.8 Consensus size: 24
45309466 CGTCGTCGTC
**
45309476 CTCGTCATCCTCATCATCTACAAA
1 CTCGTCATCAACATCATCTACAAA
* * *
45309500 CTCGCCTTCAAAATCATC-ATCAAA
1 CTCGTCATCAACATCATCTA-CAAA
* *
45309524 CTCATCATCATCATCA--T-CAAA
1 CTCGTCATCAACATCATCTACAAA
* *
45309545 CTCGTTATCCACATCATC
1 CTCGTCATCAACATCATC
45309563 ATCGTCCTGC
Statistics
Matches: 45, Mismatches: 14, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
21 16 0.36
23 1 0.02
24 28 0.62
ACGTcount: A:0.32, C:0.36, G:0.03, T:0.29
Consensus pattern (24 bp):
CTCGTCATCAACATCATCTACAAA
Found at i:45310870 original size:16 final size:16
Alignment explanation
Indices: 45310851--45310892 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
45310841 CCGGGTCGAG
45310851 TTTGGGCCGGACCGGA
1 TTTGGGCCGGACCGGA
45310867 TTTGGGCCGGACCGGA
1 TTTGGGCCGGACCGGA
45310883 TTTGGGCCGG
1 TTTGGGCCGG
45310893 GCCAAGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.10, C:0.24, G:0.45, T:0.21
Consensus pattern (16 bp):
TTTGGGCCGGACCGGA
Found at i:45311054 original size:7 final size:8
Alignment explanation
Indices: 45311038--45311064 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
45311028 AATTATTTTT
45311038 AAAATAAA
1 AAAATAAA
45311046 AAAATAAA
1 AAAATAAA
45311054 AAAATAAA
1 AAAATAAA
45311062 AAA
1 AAA
45311065 GTATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:45311561 original size:22 final size:23
Alignment explanation
Indices: 45311518--45311566 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
45311508 AGCCTGGGTT
* *
45311518 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
45311541 ATTAAAACTA-ATTGTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
45311563 ATTA
1 ATTA
45311567 TATCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAAAACTATATTGTTATTAAA
Found at i:45311575 original size:22 final size:21
Alignment explanation
Indices: 45311515--45311572 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
45311505 CCGAGCCTGG
45311515 GTTATTAAAATTATAT---TT
1 GTTATTAAAATTATATCAATT
* *
45311533 -TTATTAAAATTAAAACTAATT
1 GTTATTAAAATTATATC-AATT
45311554 GTTATTAAAATTATATCAA
1 GTTATTAAAATTATATCAA
45311573 ATTATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
17 13 0.42
21 4 0.13
22 14 0.45
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
GTTATTAAAATTATATCAATT
Found at i:45311710 original size:112 final size:112
Alignment explanation
Indices: 45311561--45311800 Score: 383
Period size: 112 Copynumber: 2.1 Consensus size: 112
45311551 ATTGTTATTA
* * *
45311561 AAATTATATCAAATTATATTTTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
45311626 AGTAAAATTATTAATTGCTAATTGTATTAATTATTAGTAAAATTATC
66 AGTAAAATTATTAATTGCTAATTGTATTAATTATTAGTAAAATTATC
* *
45311673 AAATTATATCAAATTAT-TAATTGTTAGTACTAGTCAAAACATTTTGTAAAATCTAACATTTTGT
1 AAATTATATCAAATTATAT-ATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGT
* * *
45311737 TAGTCAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
65 TAGTAAAATTATTAATTGCTAATTGTATTAATTATTAGTAAAATTATC
*
45311785 AAATTATATCAGATTA
1 AAATTATATCAAATTA
45311801 GGGTTAGGGT
Statistics
Matches: 118, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 1 0.01
112 117 0.99
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (112 bp):
AAATTATATCAAATTATATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
AGTAAAATTATTAATTGCTAATTGTATTAATTATTAGTAAAATTATC
Found at i:45311809 original size:6 final size:6
Alignment explanation
Indices: 45311798--45311823 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
45311788 TTATATCAGA
45311798 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
45311824 TTTGTTAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:45311901 original size:27 final size:27
Alignment explanation
Indices: 45311871--45311934 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
45311861 GGTTTTGGTA
*
45311871 TTAAGGGTTAGGATTAGGGTTTTTAAG
1 TTAAGGGTTAGGATTAGGGTTTTAAAG
* *
45311898 TTAAGGTTTAGGGTTAGGGTTTTAAAG
1 TTAAGGGTTAGGATTAGGGTTTTAAAG
45311925 TTAAGGGTTA
1 TTAAGGGTTA
45311935 AAGTTATGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.41
Consensus pattern (27 bp):
TTAAGGGTTAGGATTAGGGTTTTAAAG
Found at i:45311911 original size:33 final size:32
Alignment explanation
Indices: 45311874--45311954 Score: 73
Period size: 27 Copynumber: 2.6 Consensus size: 32
45311864 TTTGGTATTA
*
45311874 AGGGTTAGGATTAGGGTTTTTAAGTTAAGGTTT
1 AGGGTTAGG-TTAGGGTTTTTAAGTTAAGGGTT
*
45311907 A--G---GGTTAGGGTTTTAAAGTTAAGGGTT
1 AGGGTTAGGTTAGGGTTTTTAAGTTAAGGGTT
**
45311934 AAAGTTATGGTTAGGGTTTTT
1 AGGGTTA-GGTTAGGGTTTTT
45311955 GTTAGGGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
27 22 0.56
28 2 0.05
29 1 0.03
31 1 0.03
33 13 0.33
ACGTcount: A:0.25, C:0.00, G:0.33, T:0.42
Consensus pattern (32 bp):
AGGGTTAGGTTAGGGTTTTTAAGTTAAGGGTT
Found at i:45311940 original size:27 final size:27
Alignment explanation
Indices: 45311871--45311945 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
45311861 GGTTTTGGTA
*
45311871 TTAAGGGTT-AGGATTAGGGTTTTTAAG
1 TTAAGGGTTAAGG-TTAGGGTTTTAAAG
* *
45311898 TTAAGGTTTAGGGTTAGGGTTTTAAAG
1 TTAAGGGTTAAGGTTAGGGTTTTAAAG
* *
45311925 TTAAGGGTTAAAGTTATGGTT
1 TTAAGGGTTAAGGTTAGGGTT
45311946 AGGGTTTTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 38 0.95
28 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (27 bp):
TTAAGGGTTAAGGTTAGGGTTTTAAAG
Found at i:45311985 original size:95 final size:95
Alignment explanation
Indices: 45311886--45312144 Score: 428
Period size: 95 Copynumber: 2.7 Consensus size: 95
45311876 GGTTAGGATT
* * ** *
45311886 AGGGTTTTTAAGTTAAGGTTTAGGGTTAGGGTTTTAAAGTTAAGGGTTAAAGTTATGGTTAGGGT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGT
* *
45311951 TTTTGTTAGGGTTTTGGTATTTTTAAGTTG
66 TTTTGTTAGGATTTTGATATTTTTAAGTTG
* *
45311981 AGGGTTTTTAAGTTAAGGGTTAGAGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGT
45312046 TTTTGTTAGGATTTTGATATTTTTAAGTTG
66 TTTTGTTAGGATTTTGATATTTTTAAGTTG
*
45312076 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGCTAGGGTTAGGGTTAGGGT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGT
45312141 TTTT
66 TTTT
45312145 AAGTTAAGAG
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 152 1.00
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.44
Consensus pattern (95 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGT
TTTTGTTAGGATTTTGATATTTTTAAGTTG
Found at i:45311990 original size:15 final size:15
Alignment explanation
Indices: 45311970--45312028 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
45311960 GGTTTTGGTA
*
45311970 TTTTTAAGTTGAGGG
1 TTTTTAAGTTAAGGG
45311985 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
45312000 ---TTAGAGTT-AGGG
1 TTTTTA-AGTTAAGGG
45312012 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
45312027 TT
1 TT
45312029 AGGGTTAGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
12 7 0.18
13 4 0.11
14 4 0.11
15 23 0.61
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.46
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:45312011 original size:27 final size:27
Alignment explanation
Indices: 45311976--45312038 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
45311966 GGTATTTTTA
45311976 AGTTGAGGGTTTTTAAGTTAAGGGTTAG
1 AGTT-AGGGTTTTTAAGTTAAGGGTTAG
45312004 AGTTAGGGTTTTTAAGTTAAGGGTTAG
1 AGTTAGGGTTTTTAAGTTAAGGGTTAG
*
45312031 GGTTAGGG
1 AGTTAGGG
45312039 CTAGGGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 30 0.88
28 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (27 bp):
AGTTAGGGTTTTTAAGTTAAGGGTTAG
Found at i:45312033 original size:33 final size:33
Alignment explanation
Indices: 45311996--45312290 Score: 218
Period size: 33 Copynumber: 9.6 Consensus size: 33
45311986 TTTTAAGTTA
*
45311996 AGGGTTAGAGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
* *
45312029 AGGGTTAGGGCTAGGGTTTTT--GTT-AGGATTTTGAT
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGG-----GTT
*** *
45312064 ATTTTTA-AGTTGAGGGTTTTTAAGTT-A-----
1 AGGGTTAGGGTT-AGGGTTTTTAAGTTAAGGGTT
*
45312091 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGCT
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
45312124 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGAGG-T
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAG-GGTT
*
45312157 AGGGTTAGGGCTAGGGTTTTT--GTT-AGGGTT
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
45312187 ----TTA--G-TA---TTTTTAAGTTAA-G---
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
45312206 --GGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
*
45312237 AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTT
1 AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
*
45312270 AGGGTTAGGGTTAGGATTTTT
1 AGGGTTAGGGTTAGGGTTTTT
45312291 GTTAGGGTTT
Statistics
Matches: 212, Mismatches: 16, Indels: 68
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.02
21 3 0.01
22 4 0.02
23 4 0.02
24 3 0.01
26 3 0.01
27 30 0.14
28 5 0.02
29 2 0.01
30 6 0.03
31 6 0.03
33 118 0.56
34 4 0.02
35 15 0.07
37 4 0.02
ACGTcount: A:0.21, C:0.01, G:0.36, T:0.42
Consensus pattern (33 bp):
AGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTT
Found at i:45312085 original size:15 final size:15
Alignment explanation
Indices: 45312065--45312121 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
45312055 GATTTTGATA
*
45312065 TTTTTAAGTTGAGGG
1 TTTTTAAGTTAAGGG
45312080 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
*
45312095 ---TTAGGGTT-AGGG
1 TTTTTA-AGTTAAGGG
45312107 TTTTTAAGTTAAGGG
1 TTTTTAAGTTAAGGG
45312122 CTAGGGTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
12 7 0.21
13 3 0.09
14 3 0.09
15 21 0.62
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.44
Consensus pattern (15 bp):
TTTTTAAGTTAAGGG
Found at i:45312106 original size:27 final size:27
Alignment explanation
Indices: 45312076--45312281 Score: 174
Period size: 27 Copynumber: 7.2 Consensus size: 27
45312066 TTTTAAGTTG
45312076 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
45312103 AGGGTTTTTAAGTTAAGGGCTAGGGTTAGGGTT
1 AGGGTTTTTAAGTT-A-----AGGGTTAGGGTT
45312136 AGGGTTTTTAAGTTAAGAGG-TAGGGTT
1 AGGGTTTTTAAGTTAAG-GGTTAGGGTT
*
45312163 AGGGCTAGGGTTTT-TGTT-AGGGTT----TT
1 AGGG-T----TTTTAAGTTAAGGGTTAGGGTT
**
45312189 AGTATTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
45312216 AGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTT
1 AGGGTTTTTAAGTTAAGGGTTA--G----GGTT
45312249 AGGGTTTTTAAGTTAAGGGTTAGGGTT
1 AGGGTTTTTAAGTTAAGGGTTAGGGTT
45312276 AGGGTT
1 AGGGTT
45312282 AGGATTTTTG
Statistics
Matches: 148, Mismatches: 6, Indels: 50
0.73 0.03 0.25
Matches are distributed among these distances:
21 4 0.03
22 3 0.02
23 6 0.04
25 1 0.01
26 4 0.03
27 59 0.40
28 4 0.03
29 3 0.02
30 3 0.02
31 4 0.03
32 5 0.03
33 52 0.35
ACGTcount: A:0.21, C:0.01, G:0.37, T:0.41
Consensus pattern (27 bp):
AGGGTTTTTAAGTTAAGGGTTAGGGTT
Found at i:45312206 original size:113 final size:113
Alignment explanation
Indices: 45312080--45312335 Score: 424
Period size: 113 Copynumber: 2.3 Consensus size: 113
45312070 AAGTTGAGGG
45312080 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGCTAGGGTTAGGGTTAGGGTTTTT
1 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGCTAGGGTTAGGGTTAGGGTTTTT
*
45312145 AAGTTAAGAGG-TAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTAGTA
66 AAGTTAAG-GGTTAGGGTTAGGGCTAGGATTTTTGTTAGGGTTTTAGTA
* *
45312193 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGGGTTTTT
1 TTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGCTAGGGTTAGGGTTAGGGTTTTT
* * *
45312258 AAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTTGTTAGGGTTTTGGTG
66 AAGTTAAGGGTTAGGGTTAGGGCTAGGATTTTTGTTAGGGTTTTAGTA
*
45312306 TTTTTAAGTTAAGGTTTAGGGTTTAGGGTT
1 TTTTTAAGTTAAGGGTTAGGG-TTAGGGTT
45312336 AGGGTTTTTG
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
112 2 0.01
113 124 0.93
114 8 0.06
ACGTcount: A:0.20, C:0.01, G:0.36, T:0.43
Consensus pattern (113 bp):
TTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGCTAGGGTTAGGGTTAGGGTTTTT
AAGTTAAGGGTTAGGGTTAGGGCTAGGATTTTTGTTAGGGTTTTAGTA
Found at i:45312336 original size:54 final size:53
Alignment explanation
Indices: 45312127--45312354 Score: 230
Period size: 53 Copynumber: 4.2 Consensus size: 53
45312117 AAGGGCTAGG
* * *
45312127 GTTAGGG-TTAGG-GTTTTTAAGTTAAGAGG-TAGGGTTAGGGCTAGGGTTTTT
1 GTTAGGGTTTTGGTGTTTTTAAGTTAAG-GGTTAGGGTTAGGGTTAGGATTTTT
* * * ***
45312178 GTTAGGGTTTTAGTATTTTTAAGTTAAGGGTTAGGGTTAGGGTTTTTAAG-TTAAGG
1 GTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTAGGGTTAGGG---TTAGGATT-TTT
*
45312234 GTTAGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTT
1 GTTAGGGTTTTGG-T---GTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTT
* *
45312291 GTTAGGGTTTTGGTGTTTTTAAGTTAAGGTTTAGGGTTTAGGGTTAGGGTTTTT
1 GTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTAGGG-TTAGGGTTAGGATTTTT
45312345 GTTAGGGTTT
1 GTTAGGGTTT
45312355 GTCAATTAAA
Statistics
Matches: 146, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
51 7 0.05
52 5 0.03
53 45 0.31
54 26 0.18
55 2 0.01
56 15 0.10
57 17 0.12
58 2 0.01
60 27 0.18
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (53 bp):
GTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGATTTTT
Found at i:45313527 original size:7 final size:7
Alignment explanation
Indices: 45313515--45313546 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
45313505 TATTAGTTAT
45313515 ATACATA
1 ATACATA
45313522 ATACATA
1 ATACATA
45313529 ATACATA
1 ATACATA
45313536 ATACATA
1 ATACATA
45313543 ATAC
1 ATAC
45313547 TAAATACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:45313552 original size:7 final size:7
Alignment explanation
Indices: 45313542--45313574 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
45313532 CATAATACAT
45313542 AATACTA
1 AATACTA
45313549 AATACTA
1 AATACTA
45313556 AATACTA
1 AATACTA
45313563 AATACTA
1 AATACTA
45313570 AATAC
1 AATAC
45313575 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:45313552 original size:14 final size:14
Alignment explanation
Indices: 45313521--45313567 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
45313511 TTATATACAT
45313521 AATACATAATAC-A
1 AATACATAATACTA
45313534 TAATACATAATACTA
1 -AATACATAATACTA
45313549 AATAC-TAAATACTA
1 AATACAT-AATACTA
45313563 AATAC
1 AATAC
45313568 TAAATACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.03
14 29 0.94
15 1 0.03
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (14 bp):
AATACATAATACTA
Found at i:45313552 original size:21 final size:21
Alignment explanation
Indices: 45313515--45313574 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
45313505 TATTAGTTAT
45313515 ATACATAATAC-ATAATAC-ATA
1 ATACATAATACTA-AATACTA-A
45313536 ATACATAATACTAAATACTAA
1 ATACATAATACTAAATACTAA
45313557 ATAC-TAAATACTAAATAC
1 ATACAT-AATACTAAATAC
45313575 CAATCGACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATACATAATACTAAATACTAA
Found at i:45314761 original size:11 final size:11
Alignment explanation
Indices: 45314729--45314849 Score: 55
Period size: 11 Copynumber: 10.3 Consensus size: 11
45314719 TAGGGATTTA
* *
45314729 AGAGAAATTTA
1 AGAGAAAATTG
45314740 AGAGAAAATTG
1 AGAGAAAATTG
*
45314751 AGAGCAAATTG
1 AGAGAAAATTG
*
45314762 AGATTAAATATGGATTTG
1 AGA--GAA-A---ATT-G
*
45314780 AGAGAAATTTG
1 AGAGAAAATTG
*
45314791 -GAAGGAAATTG
1 AG-AGAAAATTG
* *
45314802 AGAGCAATTTG
1 AGAGAAAATTG
*
45314813 AGAGGAAATTG
1 AGAGAAAATTG
*
45314824 AGAGGAAATTG
1 AGAGAAAATTG
*
45314835 AGAAAATAATTG
1 AGAGAA-AATTG
45314847 AGA
1 AGA
45314850 AATGATTAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
10 1 0.01
11 61 0.72
12 11 0.13
13 1 0.01
14 1 0.01
15 1 0.01
16 2 0.02
17 3 0.04
18 4 0.05
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.24
Consensus pattern (11 bp):
AGAGAAAATTG
Found at i:45314777 original size:51 final size:50
Alignment explanation
Indices: 45314716--45314815 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
45314706 AAATAATTAA
45314716 AAATAGGGATTTAAGAGAAATTT-AAGAGAAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-G-AAATTGAGAGCAAATTGAGATT
* * *
45314767 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGAAATTGAGAGCAAATTGAGA
45314816 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 40 0.91
52 1 0.02
53 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:45314802 original size:22 final size:22
Alignment explanation
Indices: 45314777--45314837 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
45314767 AAATATGGAT
45314777 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
45314799 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
45314821 TTGAGAGGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
45314838 AAATAATTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 31 0.89
23 4 0.11
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:45314812 original size:33 final size:33
Alignment explanation
Indices: 45314775--45314837 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
45314765 TTAAATATGG
45314775 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAG-AGGAAATTGAGAGCA
45314808 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAGGAAATTGAGA
45314838 AAATAATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 23 0.82
34 5 0.18
ACGTcount: A:0.43, C:0.02, G:0.32, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAGGAAATTGAGAGCA
Found at i:45314845 original size:23 final size:22
Alignment explanation
Indices: 45314796--45314849 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
45314786 ATTTGGAAGG
* **
45314796 AAATTGAGAGCAATTTGAGAGG
1 AAATTGAGAGCAAATTGAGAAA
*
45314818 AAATTGAGAGGAAATTGAGAAA
1 AAATTGAGAGCAAATTGAGAAA
45314840 ATAATTGAGA
1 A-AATTGAGA
45314850 AATGATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 19 0.70
23 8 0.30
ACGTcount: A:0.48, C:0.02, G:0.28, T:0.22
Consensus pattern (22 bp):
AAATTGAGAGCAAATTGAGAAA
Found at i:45315669 original size:28 final size:28
Alignment explanation
Indices: 45315637--45315692 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
45315627 ATTATCATCT
45315637 GCGTTAATCTACAGCCATCAAATTTATC
1 GCGTTAATCTACAGCCATCAAATTTATC
45315665 GCGTTAATCTACAGCCATCAAATTTATC
1 GCGTTAATCTACAGCCATCAAATTTATC
45315693 CATACATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
GCGTTAATCTACAGCCATCAAATTTATC
Found at i:45317842 original size:14 final size:16
Alignment explanation
Indices: 45317819--45317850 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
45317809 AGATTCACAT
45317819 ACCAAGATATAA-TCA
1 ACCAAGATATAATTCA
45317834 ACCAA-ATATAATTCA
1 ACCAAGATATAATTCA
45317849 AC
1 AC
45317851 ATATCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (16 bp):
ACCAAGATATAATTCA
Found at i:45323994 original size:95 final size:95
Alignment explanation
Indices: 45323780--45323997 Score: 240
Period size: 95 Copynumber: 2.3 Consensus size: 95
45323770 CCCGAACATT
* * * * *
45323780 TAAGGTATCCAGTAAATCGAGACATTAATCGTTACACGATGCTATTTACACGAGCTATGAAAAAT
1 TAAGGTATCCAGTAAATCGAGACATTAACCATTACACAATGCTACTCACACGAGCTATGAAAAAT
** * *
45323845 CTGCAACACATACAGAATCTTATCCATTGG
66 CCACAACACATACAGAATCTTAGCCATTGA
* * * *
45323875 CAAGATATCCAATAAATCGAGACATTAACCATTACACAATGCTACTCACACGAGCTATGAAGAAT
1 TAAGGTATCCAGTAAATCGAGACATTAACCATTACACAATGCTACTCACACGAGCTATGAAAAAT
* * * *
45323940 CCACAATATATGCAGGATCTTAGCCATCT-A
66 CCACAACACATACAGAATCTTAGCCAT-TGA
* * *
45323970 TAAGGTATCTAGTAAGTCGGGACATTAA
1 TAAGGTATCCAGTAAATCGAGACATTAA
45323998 TCGATAATGA
Statistics
Matches: 99, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
95 98 0.99
96 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (95 bp):
TAAGGTATCCAGTAAATCGAGACATTAACCATTACACAATGCTACTCACACGAGCTATGAAAAAT
CCACAACACATACAGAATCTTAGCCATTGA
Found at i:45326243 original size:36 final size:36
Alignment explanation
Indices: 45326174--45326244 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
45326164 CGACGATAGG
* *
45326174 TGTGCCCTGCACTAGCCGGATAAACCAAAAATGTTT
1 TGTGCCCAGCACTAGCCGAATAAACCAAAAATGTTT
* * * *
45326210 TGTGCCCAGCGCTAGTCGAATAAGCCAACAATGTT
1 TGTGCCCAGCACTAGCCGAATAAACCAAAAATGTT
45326245 AAATGTGTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (36 bp):
TGTGCCCAGCACTAGCCGAATAAACCAAAAATGTTT
Found at i:45339768 original size:14 final size:14
Alignment explanation
Indices: 45339738--45339781 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
45339728 AGAAGAAATT
45339738 TTTTCTAATATTT--
1 TTTTCTAA-ATTTAA
45339751 TTTTCTAAATTTAA
1 TTTTCTAAATTTAA
*
45339765 TTTTTTAAATTTAA
1 TTTTCTAAATTTAA
45339779 TTT
1 TTT
45339782 ATTATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 4 0.14
13 8 0.29
14 16 0.57
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTAAATTTAA
Found at i:45339790 original size:14 final size:14
Alignment explanation
Indices: 45339756--45339790 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
45339746 TATTTTTTTC
*
45339756 TAAATTTAATTTTT
1 TAAATTTAATTTAT
45339770 TAAATTTAATTTAT
1 TAAATTTAATTTAT
*
45339784 TATATTT
1 TAAATTT
45339791 TATATGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TAAATTTAATTTAT
Found at i:45342348 original size:28 final size:28
Alignment explanation
Indices: 45342308--45342362 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
45342298 ACAATAAATC
45342308 TTTGTTGCTTCCCCTTGACTCAAGTTTT
1 TTTGTTGCTTCCCCTTGACTCAAGTTTT
45342336 TTTGTTGCTTCCCCTTGACTCAAGTTT
1 TTTGTTGCTTCCCCTTGACTCAAGTTT
45342363 AAGTCATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.11, C:0.25, G:0.15, T:0.49
Consensus pattern (28 bp):
TTTGTTGCTTCCCCTTGACTCAAGTTTT
Found at i:45344855 original size:10 final size:11
Alignment explanation
Indices: 45344836--45344865 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
45344826 AATTTAATAA
45344836 AATTCACATTC
1 AATTCACATTC
45344847 AATTC-CATTC
1 AATTCACATTC
45344857 AATTCACAT
1 AATTCACAT
45344866 CTCAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTCACATTC
Found at i:45349288 original size:39 final size:39
Alignment explanation
Indices: 45349234--45349309 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
45349224 AAAAAGAAAG
*
45349234 AAAAAAATTTATAGGTGTCGCCAGTCACATGCTTCCCTT
1 AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCCTT
*
45349273 AAAAAAATTTATAGGTGTTGCCAGTCACAAGCTTCCC
1 AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCC
45349310 CTTTATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (39 bp):
AAAAAAATTTATAGGTGTCGCCAGTCACAAGCTTCCCTT
Found at i:45349859 original size:3 final size:3
Alignment explanation
Indices: 45349853--45349879 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
45349843 TAAAAAAAAG
45349853 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
45349880 CCTGGTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:45372102 original size:57 final size:56
Alignment explanation
Indices: 45371974--45372082 Score: 146
Period size: 57 Copynumber: 1.9 Consensus size: 56
45371964 AGTCATTTTC
*
45371974 ATTTTCTATTTTCCATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATTTA
1 ATTTTCTATTTT-CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTA
* * ** *
45372031 ATTTCTCCATTTTCATTTTCATTTTGTAGAAAACCTTAATCATTTTCAAATG
1 ATTT-TCTATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATG
45372083 TTTCCTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 38 0.84
58 7 0.16
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.47
Consensus pattern (56 bp):
ATTTTCTATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTA
Found at i:45373647 original size:28 final size:28
Alignment explanation
Indices: 45373610--45373666 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
45373600 AGGTTTCTTT
* *
45373610 TTTTTCTTTTCTTTTTTCATTCCATTTC
1 TTTTTATTTTCTTTCTTCATTCCATTTC
* *
45373638 TTTTTATTTTCTTTCTTCTTTTCATTTC
1 TTTTTATTTTCTTTCTTCATTCCATTTC
45373666 T
1 T
45373667 AATATTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTTTATTTTCTTTCTTCATTCCATTTC
Found at i:45373660 original size:33 final size:31
Alignment explanation
Indices: 45373603--45373663 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
45373593 ATAGATTAGG
45373603 TTTCTTTTTTTTCTTTTCTTTTTTCATTCCA
1 TTTCTTTTTTTTCTTTTCTTTTTTCATTCCA
45373634 TTTCTTTTTATTT-TCTTTCTTCTTTTCATT
1 TTTCTTTTT-TTTCT-TTTCTT-TTTTCATT
45373664 TCTAATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 10 0.37
32 9 0.33
33 8 0.30
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (31 bp):
TTTCTTTTTTTTCTTTTCTTTTTTCATTCCA
Found at i:45375908 original size:20 final size:20
Alignment explanation
Indices: 45375883--45375926 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
45375873 TCCTTAGTAG
45375883 AAGAAAGAGTAAAACAAGAT
1 AAGAAAGAGTAAAACAAGAT
45375903 AAGAAAGAGTAAAACAAGAT
1 AAGAAAGAGTAAAACAAGAT
45375923 AAGA
1 AAGA
45375927 GTACGCCCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.66, C:0.05, G:0.20, T:0.09
Consensus pattern (20 bp):
AAGAAAGAGTAAAACAAGAT
Found at i:45386560 original size:21 final size:21
Alignment explanation
Indices: 45386534--45386574 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45386524 ATTTTAATTT
*
45386534 TTTTAT-TATTAGACTAGTAAG
1 TTTTATATATTACACT-GTAAG
45386555 TTTTATATATTACACTGTAA
1 TTTTATATATTACACTGTAA
45386575 ATAGGCATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTTATATATTACACTGTAAG
Found at i:45394768 original size:184 final size:184
Alignment explanation
Indices: 45394454--45394966 Score: 765
Period size: 184 Copynumber: 2.8 Consensus size: 184
45394444 TACCTTGCTG
* * * * * *
45394454 AAATTAAATTGCACATGGTTATATATTGTCGATATTGAATTCTTTATGTATATAGGATGCCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
* * * * * * *
45394519 TGGATTTGTATTTGATTATACATTATCGAACTTGATTTGTGTATGGTTATACATTGCCGAATTGT
66 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
*
45394584 TTGGTATATGGATATAAGTTGCTGAATTGATTCGTACAAGGTTGTACATTACTA
131 TTGGTATATGGATATAAGTTCCTGAATTGATTCGTACAAGGTTGTACATTACTA
45394638 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
* * *
45394703 TTAATTTGTGTATGATTATATATTGTCGATCTTGATTCGTTTATGGTTATACATTGCCAAATTGT
66 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
* *
45394768 TTGGTATATGGATATAAGTTCCTGACTTGATTCGTACAAGGTTGTACATTACTG
131 TTGGTATATGGATATAAGTTCCTGAATTGATTCGTACAAGGTTGTACATTACTA
* * * *
45394822 AAATTAATTCGTACTTGGTTATATATTGTTGATAGTGAATTGTTTATGAATATAAGATGTCGAAT
1 AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
* * * *
45394887 TTGATTTGTGTATGATTATATATTGCCGATCTTGATTCATGAATGGTTATACATTACCGAATTGT
66 TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
* *
45394952 TGGGTATATTGATAT
131 TTGGTATATGGATAT
45394967 TCATTGCTAA
Statistics
Matches: 297, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
184 297 1.00
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.43
Consensus pattern (184 bp):
AAATTAATTTGTACTTGGTTATATATTGTCGATAGTGAATTGTTTATGAATATAGGATGCCGAAT
TTGATTTGTGTATGATTATATATTGTCGATCTTGATTCGTGTATGGTTATACATTGCCGAATTGT
TTGGTATATGGATATAAGTTCCTGAATTGATTCGTACAAGGTTGTACATTACTA
Found at i:45398855 original size:22 final size:24
Alignment explanation
Indices: 45398805--45398855 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
45398795 TTGCAATGCT
45398805 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
45398830 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
45398851 TTTAT
1 TTTAT
45398856 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:45399031 original size:14 final size:15
Alignment explanation
Indices: 45399009--45399085 Score: 61
Period size: 14 Copynumber: 5.0 Consensus size: 15
45398999 CAATCAAACA
45399009 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
45399023 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
45399038 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45399058 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
*
45399072 CCGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
45399086 TTCTGTCAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
14 22 0.43
15 15 0.29
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:45399050 original size:20 final size:20
Alignment explanation
Indices: 45399025--45399064 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45399015 AATATTTTCC
*
45399025 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45399045 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45399065 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45404924 original size:8 final size:8
Alignment explanation
Indices: 45404911--45404982 Score: 54
Period size: 8 Copynumber: 8.5 Consensus size: 8
45404901 ATATTTGATA
45404911 TATTTTTT
1 TATTTTTT
*
45404919 TATTTTAT
1 TATTTTTT
*
45404927 TATTTTAT
1 TATTTTTT
45404935 TATTTTATT
1 TATTTT-TT
* *
45404944 TCTCATTATT
1 TAT--TTTTT
*
45404954 TATTTATT
1 TATTTTTT
45404962 TATTTTCTT
1 TATTTT-TT
*
45404971 TATTTTAT
1 TATTTTTT
45404979 TATT
1 TATT
45404983 ACTATTGGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
8 36 0.68
9 11 0.21
10 4 0.08
11 2 0.04
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (8 bp):
TATTTTTT
Found at i:45404988 original size:23 final size:22
Alignment explanation
Indices: 45404917--45404982 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 22
45404907 GATATATTTT
45404917 TTTATTT-T-ATTATTTTATTA
1 TTTATTTCTCATTATTTTATTA
45404937 TTTTATTTCTCATTA-TTTATTTA
1 -TTTATTTCTCATTATTTTA-TTA
*
45404960 TTTATTT-TCTTTATTTTATTA
1 TTTATTTCTCATTATTTTATTA
45404981 TT
1 TT
45404983 ACTATTGGTA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 17 0.43
22 16 0.40
23 7 0.17
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATTTCTCATTATTTTATTA
Found at i:45408545 original size:13 final size:13
Alignment explanation
Indices: 45408527--45408551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45408517 ATAATTTGAT
45408527 AATTAAACAAAAA
1 AATTAAACAAAAA
45408540 AATTAAACAAAA
1 AATTAAACAAAA
45408552 CAAAAGCCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AATTAAACAAAAA
Found at i:45409373 original size:45 final size:45
Alignment explanation
Indices: 45409321--45409434 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
45409311 TGGTTGAAAT
* * * *
45409321 ACGAGTAAGACCATGGTCGAAAGACGTTATGGCATCATGAATCAA
1 ACGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCAA
* * *
45409366 ACGAGTAAAACCATAGTTGAAAGACGCTATGGCATCACGATTTAA
1 ACGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCAA
* *
45409411 ACGTGTAAGATCATAGTTGAAAGA
1 ACGAGTAAGACCATAGTTGAAAGA
45409435 AACTATGGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (45 bp):
ACGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAATCAA
Found at i:45409500 original size:35 final size:35
Alignment explanation
Indices: 45409454--45409520 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
45409444 AACATGATGG
*
45409454 AAATGAATAAGACCATAGTAT-AAAGACACTATAGA
1 AAATGAATAAGACAATAGT-TGAAAGACACTATAGA
* *
45409489 AAATGAGTAAGATAATAGTTGAAAGACACTAT
1 AAATGAATAAGACAATAGTTGAAAGACACTAT
45409521 GGCATCAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.04
35 27 0.96
ACGTcount: A:0.52, C:0.09, G:0.16, T:0.22
Consensus pattern (35 bp):
AAATGAATAAGACAATAGTTGAAAGACACTATAGA
Found at i:45410980 original size:28 final size:28
Alignment explanation
Indices: 45410941--45411008 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
45410931 ATGAATATTT
* *
45410941 AAAATGTTTATATGAATCAACTATGTGA
1 AAAATGATTATATGAATCAACTATATGA
* * *
45410969 AAAATGATTATATGAATCGATTATATGG
1 AAAATGATTATATGAATCAACTATATGA
45410997 AAAATGATTATA
1 AAAATGATTATA
45411009 AAAAATGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.46, C:0.04, G:0.15, T:0.35
Consensus pattern (28 bp):
AAAATGATTATATGAATCAACTATATGA
Found at i:45410992 original size:13 final size:12
Alignment explanation
Indices: 45410971--45411116 Score: 80
Period size: 13 Copynumber: 11.0 Consensus size: 12
45410961 CTATGTGAAA
45410971 AATGATTATATG
1 AATGATTATATG
45410983 AATCGATTATATGG
1 AAT-GATTATAT-G
**
45410997 AAAATGATTATAAAA
1 --AATGATTAT-ATG
45411012 AATGATTATATG
1 AATGATTATATG
45411024 AATTGATTATATGG
1 AA-TGATTATAT-G
45411038 AAATAGA-TATATGG
1 -AAT-GATTATAT-G
45411052 AATGATTATATG
1 AATGATTATATG
*
45411064 AATTGGTTATATGG
1 AA-TGATTATAT-G
*
45411078 AAAT-AGTTAGATG
1 -AATGA-TTATATG
*
45411091 AATTGCTTATATG
1 AA-TGATTATATG
*
45411104 AAATGTTTATATG
1 -AATGATTATATG
45411117 GATAGATATG
Statistics
Matches: 107, Mismatches: 10, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
12 13 0.12
13 59 0.55
14 19 0.18
15 12 0.11
16 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.38
Consensus pattern (12 bp):
AATGATTATATG
Found at i:45411018 original size:28 final size:28
Alignment explanation
Indices: 45410969--45411023 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
45410959 AACTATGTGA
**
45410969 AAAATGATTATATGAATCGATTATATGG
1 AAAATGATTATAAAAATCGATTATATGG
45410997 AAAATGATTATAAAAAAT-GATTATATG
1 AAAATGATTAT-AAAAATCGATTATATG
45411024 AATTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.49, C:0.02, G:0.15, T:0.35
Consensus pattern (28 bp):
AAAATGATTATAAAAATCGATTATATGG
Found at i:45411067 original size:40 final size:39
Alignment explanation
Indices: 45410971--45411125 Score: 163
Period size: 40 Copynumber: 3.9 Consensus size: 39
45410961 CTATGTGAAA
* **
45410971 AATGATTATATGAATCGATTATATGGAAA-ATGATTATAAAA
1 AATGATTATATGAATTGATTATATGGAAATA-GA-TAT-ATG
45411012 AATGATTATATGAATTGATTATATGGAAATAGATATATGG
1 AATGATTATATGAATTGATTATATGGAAATAGATATAT-G
* * *
45411052 AATGATTATATGAATTGGTTATATGGAAATAGTTAGATG
1 AATGATTATATGAATTGATTATATGGAAATAGATATATG
* * *
45411091 AATTGCTTATATGAAATGTTTATATGG--ATAGATAT
1 AA-TGATTATATGAATTGATTATATGGAAATAGATAT
45411126 GTAAAAAAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
38 6 0.06
39 4 0.04
40 59 0.59
41 30 0.30
42 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.38
Consensus pattern (39 bp):
AATGATTATATGAATTGATTATATGGAAATAGATATATG
Found at i:45411100 original size:27 final size:27
Alignment explanation
Indices: 45410970--45411108 Score: 81
Period size: 27 Copynumber: 5.2 Consensus size: 27
45410960 ACTATGTGAA
* * *
45410970 AAATGATTATATGAATCGATTATATGG
1 AAATGATTAGATGAATTGCTTATATGG
* ** * *
45410997 AAAATGATTATAAAAAATGATTATAT-G
1 -AAATGATTAGATGAATTGCTTATATGG
* * * *
45411024 AATTGATTATATGGAAATAG-ATATATGG
1 AAATGATTAGAT-G-AATTGCTTATATGG
* *
45411052 -AATGATTATATGAATTGGTTATATGG
1 AAATGATTAGATGAATTGCTTATATGG
45411078 AAAT-AGTTAGATGAATTGCTTATAT-G
1 AAATGA-TTAGATGAATTGCTTATATGG
45411104 AAATG
1 AAATG
45411109 TTTATATGGA
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
25 4 0.04
26 24 0.27
27 36 0.40
28 25 0.28
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (27 bp):
AAATGATTAGATGAATTGCTTATATGG
Found at i:45411933 original size:20 final size:20
Alignment explanation
Indices: 45411908--45411952 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
45411898 TTTGGCATGT
45411908 TTTAATGTGTTAAGGATAGG
1 TTTAATGTGTTAAGGATAGG
**
45411928 TTTAATGTGTTTTGGATAGG
1 TTTAATGTGTTAAGGATAGG
45411948 TTTAA
1 TTTAA
45411953 AGGGTGATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.47
Consensus pattern (20 bp):
TTTAATGTGTTAAGGATAGG
Found at i:45413621 original size:40 final size:40
Alignment explanation
Indices: 45413567--45413655 Score: 171
Period size: 40 Copynumber: 2.2 Consensus size: 40
45413557 AACTAAAACT
45413567 TCAT-ATATAAAATCATATAGCCCAAGAACATTTTCAATC
1 TCATAATATAAAATCATATAGCCCAAGAACATTTTCAATC
45413606 TCATAATATAAAATCATATAGCCCAAGAACATTTTCAATC
1 TCATAATATAAAATCATATAGCCCAAGAACATTTTCAATC
45413646 TCATAATATA
1 TCATAATATA
45413656 CTTGAAACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 4 0.08
40 45 0.92
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.31
Consensus pattern (40 bp):
TCATAATATAAAATCATATAGCCCAAGAACATTTTCAATC
Found at i:45413761 original size:40 final size:41
Alignment explanation
Indices: 45413694--45413834 Score: 115
Period size: 41 Copynumber: 3.5 Consensus size: 41
45413684 CATGATACAG
* ** * *
45413694 TTCACCGGCACGAAGTTTTCTAGGCTCAAAGCCTGATATAA
1 TTCACCGGCACAAAGCCTGCTAAGCTCAAAGCCTGATATAA
* * * *
45413735 TACA-CGGCACAAAGCCTGCTAAGCTCAAGGCTTGATGTAA
1 TTCACCGGCACAAAGCCTGCTAAGCTCAAAGCCTGATATAA
* ** * *
45413775 TTCACCGGCATGAAA-CCTATTAGGCTCAGAGCCTGATATAA
1 TTCACCGGCA-CAAAGCCTGCTAAGCTCAAAGCCTGATATAA
**
45413816 TTCACCGGCATGAAGCCTG
1 TTCACCGGCACAAAGCCTG
45413835 TTGAACTCAA
Statistics
Matches: 76, Mismatches: 21, Indels: 6
0.74 0.20 0.06
Matches are distributed among these distances:
40 33 0.43
41 40 0.53
42 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (41 bp):
TTCACCGGCACAAAGCCTGCTAAGCTCAAAGCCTGATATAA
Found at i:45418578 original size:23 final size:23
Alignment explanation
Indices: 45418519--45418616 Score: 81
Period size: 23 Copynumber: 4.3 Consensus size: 23
45418509 CAAAACTTAC
* *
45418519 CACAAAGACATTGCAGAATACGT
1 CACAAAGGCATTACAGAATACGT
45418542 CACAAAGG-AGTTACAGAATACGT
1 CACAAAGGCA-TTACAGAATACGT
* * * * *
45418565 CTCCAAGGCATTACAAAATATGC
1 CACAAAGGCATTACAGAATACGT
* * * *
45418588 CACAAGGGCATTTCAGAATATGC
1 CACAAAGGCATTACAGAATACGT
45418611 CACAAA
1 CACAAA
45418617 AACTTCAAAG
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
22 1 0.02
23 58 0.97
24 1 0.02
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.18
Consensus pattern (23 bp):
CACAAAGGCATTACAGAATACGT
Found at i:45420038 original size:37 final size:39
Alignment explanation
Indices: 45419942--45420045 Score: 98
Period size: 37 Copynumber: 2.8 Consensus size: 39
45419932 GAAGATAAAC
45419942 ATTAAATTTAAT-TT-AAC-ATTAAGATAATGACTTTAAT
1 ATTAAATTTAATATTAAACTATTAAGATAATGAC-TTAAT
* *
45419979 ATTAAA-TTAATA-AAATATTATTAAGATAA-GTAC-TAA-
1 ATTAAATTTAATATTAA-ACTATTAAGATAATG-ACTTAAT
*
45420015 ATTAAATTTAATATTAAACTATTAAAATAAT
1 ATTAAATTTAATATTAAACTATTAAGATAAT
45420046 ATTATTTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
36 11 0.20
37 27 0.50
38 4 0.07
39 12 0.22
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (39 bp):
ATTAAATTTAATATTAAACTATTAAGATAATGACTTAAT
Found at i:45427463 original size:25 final size:24
Alignment explanation
Indices: 45427428--45427479 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
45427418 CATACCGCAA
45427428 CTCTTTATGAGCATCCTGATATAGG
1 CTCTTTATGAGCATCCTGATAT-GG
* *
45427453 CTCTTTGTGAGCTTCCTGATATGG
1 CTCTTTATGAGCATCCTGATATGG
45427477 CTC
1 CTC
45427480 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.38
Consensus pattern (24 bp):
CTCTTTATGAGCATCCTGATATGG
Found at i:45427865 original size:17 final size:17
Alignment explanation
Indices: 45427809--45427866 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
45427799 AAGATGATTT
*
45427809 TTTATGGAAATGCATATG
1 TTTAT-GAAAAGCATATG
45427827 TTATATG-AAA--ATATG
1 TT-TATGAAAAGCATATG
*
45427842 -ATATGAAAAGCATATG
1 TTTATGAAAAGCATATG
45427858 TTTATGAAA
1 TTTATGAAA
45427867 GTTATTACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
13 4 0.12
14 3 0.09
15 5 0.16
16 5 0.16
17 9 0.28
18 3 0.09
19 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.36
Consensus pattern (17 bp):
TTTATGAAAAGCATATG
Found at i:45438034 original size:19 final size:19
Alignment explanation
Indices: 45438010--45438052 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
45438000 GTACTTAACT
*
45438010 AATTATCCAATTAAATAAA
1 AATTATCAAATTAAATAAA
45438029 AATTATCAAATTAAATAAA
1 AATTATCAAATTAAATAAA
45438048 AATTA
1 AATTA
45438053 CGTACTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AATTATCAAATTAAATAAA
Found at i:45440837 original size:2 final size:2
Alignment explanation
Indices: 45440830--45440865 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
45440820 CAAATAGTAG
45440830 TA TA TA TA TA 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 TA TA TA TA TA
45440866 ATAGAATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45458923 original size:17 final size:19
Alignment explanation
Indices: 45458884--45458924 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
45458874 TTTTAATCAT
*
45458884 ATTAATAGTTTTTTATAGTA
1 ATTAATAGTTTTCTATAG-A
45458904 ATTAATA-TTTTCTATA-A
1 ATTAATAGTTTTCTATAGA
45458921 ATTA
1 ATTA
45458925 TAAATTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
19 8 0.40
20 7 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
ATTAATAGTTTTCTATAGA
Found at i:45462030 original size:22 final size:22
Alignment explanation
Indices: 45462002--45462047 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
45461992 AAATCTAGAA
45462002 TTAAATACGTGTTGGTACATCC
1 TTAAATACGTGTTGGTACATCC
45462024 TTAAATACGTGTTGGTACATCC
1 TTAAATACGTGTTGGTACATCC
45462046 TT
1 TT
45462048 TCTCATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (22 bp):
TTAAATACGTGTTGGTACATCC
Found at i:45462298 original size:20 final size:20
Alignment explanation
Indices: 45462270--45462308 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45462260 TAATTTTTTA
*
45462270 AATTTTAAAATTCAAAAAAT
1 AATTATAAAATTCAAAAAAT
* *
45462290 AATTATAAATTTTAAAAAA
1 AATTATAAAATTCAAAAAA
45462309 ATAAAAATCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTATAAAATTCAAAAAAT
Found at i:45463316 original size:8 final size:9
Alignment explanation
Indices: 45463292--45463332 Score: 50
Period size: 8 Copynumber: 4.7 Consensus size: 9
45463282 TTAGTTGTGG
45463292 ATTAAAAATT
1 ATTAAAAA-T
45463302 ATTAAAAAT
1 ATTAAAAAT
45463311 -TTAAAAAT
1 ATTAAAAAT
*
45463319 AAT-AAAAT
1 ATTAAAAAT
45463327 ATTAAA
1 ATTAAA
45463333 TAATTTAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
8 15 0.56
9 4 0.15
10 8 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:45463464 original size:34 final size:34
Alignment explanation
Indices: 45463412--45463482 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
45463402 AATCTAATCA
* *
45463412 ATTCAATTAACTATTCCGATCTAATTAAAACAAG
1 ATTCAATCAACTATTCCGATCCAATTAAAACAAG
* *
45463446 ATTCAATCAACTGA-TCCGATCCGATTAAAATAAG
1 ATTCAATCAACT-ATTCCGATCCAATTAAAACAAG
45463480 ATT
1 ATT
45463483 GGGCTACACT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 31 0.97
35 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.31
Consensus pattern (34 bp):
ATTCAATCAACTATTCCGATCCAATTAAAACAAG
Found at i:45471128 original size:42 final size:43
Alignment explanation
Indices: 45470990--45471139 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
45470980 GTCATATTCT
* * * * * *
45470990 AGATATGGTCTTACATGTAATCTCGTATTGATGCCAATAGCCC
1 AGATATGGTCTTACACGAAATCACATATCGATGCCAATATCCC
** * *
45471033 AGCCATGGTCTTACGCGAAATCACATATCTATGCCAATATCCC
1 AGATATGGTCTTACACGAAATCACATATCGATGCCAATATCCC
*
45471076 AGATATGGTCTTACAC-AAATTATCATATCGATGCC-ATATCCC
1 AGATATGGTCTTACACGAAATCA-CATATCGATGCCAATATCCC
*
45471118 AGATATGGTCTTACACGTAATC
1 AGATATGGTCTTACACGAAATC
45471140 TTAGTAACCC
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
42 28 0.32
43 60 0.68
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
AGATATGGTCTTACACGAAATCACATATCGATGCCAATATCCC
Found at i:45475761 original size:21 final size:21
Alignment explanation
Indices: 45475731--45475770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45475721 AATAAACTAA
*
45475731 ACTAAATAAAATCCTAAAACT
1 ACTAAATAAAACCCTAAAACT
*
45475752 ACTAACTAAAACCCTAAAA
1 ACTAAATAAAACCCTAAAA
45475771 TAGCTTGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (21 bp):
ACTAAATAAAACCCTAAAACT
Found at i:45480587 original size:29 final size:29
Alignment explanation
Indices: 45480545--45480638 Score: 125
Period size: 29 Copynumber: 3.2 Consensus size: 29
45480535 GCTTGTCGAT
*
45480545 GCCACACGGCCGTGTGGTAGGTTATGCGC
1 GCCACACGGCCGTGTGGTAGGTCATGCGC
*
45480574 GCCACACGGCCGTGTGGTAGGTCGTGCGC
1 GCCACACGGCCGTGTGGTAGGTCATGCGC
* * * *
45480603 GCTACATGACCGTGTGGTAGGTCATGCAC
1 GCCACACGGCCGTGTGGTAGGTCATGCGC
*
45480632 GACACAC
1 GCCACAC
45480639 AGTCATGTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.17, C:0.29, G:0.35, T:0.19
Consensus pattern (29 bp):
GCCACACGGCCGTGTGGTAGGTCATGCGC
Found at i:45493237 original size:18 final size:18
Alignment explanation
Indices: 45493210--45493247 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
45493200 TCTTCTTCCT
45493210 TTCCCCTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
*
45493228 TTCCCTTTTCCCTTCCCC
1 TTCCCCTTTCCCTTCCCC
45493246 TT
1 TT
45493248 GTGCTGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (18 bp):
TTCCCCTTTCCCTTCCCC
Found at i:45493341 original size:25 final size:25
Alignment explanation
Indices: 45493307--45493356 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
45493297 CAGGTAAGGC
45493307 TCCTTCTTCTTCTTCCGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
45493332 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
45493357 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:45496191 original size:20 final size:21
Alignment explanation
Indices: 45496161--45496199 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
45496151 ATAATTTAAA
45496161 ATATAAAATTTATTAATATGT
1 ATATAAAATTTATTAATATGT
45496182 ATAT-AAATTTATTAATAT
1 ATATAAAATTTATTAATAT
45496200 ATGTAAAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATAAAATTTATTAATATGT
Found at i:45496304 original size:14 final size:15
Alignment explanation
Indices: 45496282--45496358 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
45496272 CAATCAAACA
45496282 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
45496296 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
45496311 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
45496331 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
* *
45496345 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
45496359 ACTGCCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 11 0.22
16 1 0.02
19 1 0.02
20 13 0.26
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:45496323 original size:20 final size:20
Alignment explanation
Indices: 45496298--45496338 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
45496288 AATATTTTCC
*
45496298 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45496318 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45496338 A
1 A
45496339 TATTTTACGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45496352 original size:34 final size:35
Alignment explanation
Indices: 45496286--45496352 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
45496276 CAAACACCAG
* *
45496286 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
*
45496321 AAAACATTTTCCAGAAAAT-ATTTTACGGAAAA
1 AAAACATTTTCCAGAAAATCATTTTACAGAAAA
45496353 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 12 0.41
35 17 0.59
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGAAAATCATTTTACAGAAAAGT
Found at i:45496359 original size:14 final size:14
Alignment explanation
Indices: 45496321--45496360 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45496311 ACAGAAAAGT
*
45496321 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
45496335 AAAATATTTTACGG
1 AAAACATTTTACAG
45496349 AAAACATTTTAC
1 AAAACATTTTAC
45496361 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:45497117 original size:6 final size:7
Alignment explanation
Indices: 45497101--45497138 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
45497091 TCTCACCTAC
45497101 TTTTTAT
1 TTTTTAT
45497108 TTTTTAT
1 TTTTTAT
45497115 TTTTTA-
1 TTTTTAT
45497121 TTTTTATT
1 TTTTTA-T
45497129 ATTTTTAT
1 -TTTTTAT
45497137 TT
1 TT
45497139 CAGCTGCCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
8 1 0.04
9 6 0.21
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:45500634 original size:11 final size:11
Alignment explanation
Indices: 45500594--45500634 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
45500584 AAAAGCAGCC
*
45500594 AAAGCAGCT-A
1 AAAGAAGCTGA
45500604 AAAG-AGCTGA
1 AAAGAAGCTGA
45500614 AAAGGAAGCTGA
1 AAA-GAAGCTGA
45500626 AAAGAAGCT
1 AAAGAAGCT
45500635 CAAGGAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 4 0.14
10 8 0.29
11 7 0.25
12 9 0.32
ACGTcount: A:0.51, C:0.12, G:0.27, T:0.10
Consensus pattern (11 bp):
AAAGAAGCTGA
Found at i:45504494 original size:40 final size:40
Alignment explanation
Indices: 45504437--45504538 Score: 159
Period size: 40 Copynumber: 2.5 Consensus size: 40
45504427 ATCGTCAAAT
* *
45504437 CAACCGAAACACCCCAAACAGAAGCTCATAAGAGCTGGTC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
**
45504477 CAACCGAAACATGCCAAACAGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
*
45504517 CAACCAAAACACACCAAACAGA
1 CAACCGAAACACACCAAACAGA
45504539 GAGTATAGCA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.45, C:0.31, G:0.15, T:0.09
Consensus pattern (40 bp):
CAACCGAAACACACCAAACAGAAGCTCATAAGAGCTGATC
Done.