Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 309 of 333
Found at i:101286988 original size:14 final size:14
Alignment explanation
Indices: 101286969--101286997 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
101286959 ATTGTGCATC
101286969 ACAATGATAGTAAA
1 ACAATGATAGTAAA
101286983 ACAATGATAGTAAA
1 ACAATGATAGTAAA
101286997 A
1 A
101286998 TATAGTGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
ACAATGATAGTAAA
Found at i:101290226 original size:86 final size:86
Alignment explanation
Indices: 101290081--101290255 Score: 271
Period size: 86 Copynumber: 2.0 Consensus size: 86
101290071 AAAATAATAT
* ** *
101290081 TAAAATCAGATATGAAAATATTGTAAACCTAAATTGATAACTGACATGTTGATTTGAGATTCTTA
1 TAAAATCAGACATGAAAATATCATAAACCTAAATTGATAACTGACATGCTGATTTGAGATTCTTA
101290146 TGCACATTCTAAGGACTAAAA
66 TGCACATTCTAAGGACTAAAA
* *
101290167 TAAAATCAGACATGACAATATCATAAA-CTGAAATTGATAAGTGACATGCTGATTTGAGATTCTT
1 TAAAATCAGACATGAAAATATCATAAACCT-AAATTGATAACTGACATGCTGATTTGAGATTCTT
*
101290231 ATGCACATTTTAAGGACTAAAA
65 ATGCACATTCTAAGGACTAAAA
101290253 TAA
1 TAA
101290256 TTTTTTTTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
85 2 0.02
86 79 0.98
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.31
Consensus pattern (86 bp):
TAAAATCAGACATGAAAATATCATAAACCTAAATTGATAACTGACATGCTGATTTGAGATTCTTA
TGCACATTCTAAGGACTAAAA
Found at i:101291860 original size:17 final size:18
Alignment explanation
Indices: 101291840--101291884 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
101291830 ATGAAATTTT
*
101291840 AAAATATAACAAA-TAAA
1 AAAATAAAACAAATTAAA
101291857 AAAATAAAACAAATTAAA
1 AAAATAAAACAAATTAAA
101291875 ATAAATAAAA
1 A-AAATAAAA
101291885 TGTGACAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.48
18 5 0.20
19 8 0.32
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAATAAAACAAATTAAA
Found at i:101291870 original size:9 final size:9
Alignment explanation
Indices: 101291841--101291884 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
101291831 TGAAATTTTA
*
101291841 AAATATAAC
1 AAATAAAAC
101291850 AAATAAAA-
1 AAATAAAAC
101291858 AAATAAAAC
1 AAATAAAAC
*
101291867 AAATTAAAAT
1 AAA-TAAAAC
101291877 AAATAAAA
1 AAATAAAA
101291885 TGTGACAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 8 0.26
9 15 0.48
10 8 0.26
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAAAC
Found at i:101292460 original size:20 final size:22
Alignment explanation
Indices: 101292431--101292470 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
101292421 AATGAATAAA
101292431 TTAAAATG-AA-TAAAAAAATT
1 TTAAAATGAAATTAAAAAAATT
*
101292451 TTAAATTGAAATTAAAAAAA
1 TTAAAATGAAATTAAAAAAA
101292471 AAACTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (22 bp):
TTAAAATGAAATTAAAAAAATT
Found at i:101293246 original size:18 final size:17
Alignment explanation
Indices: 101293195--101293246 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
101293185 ATGAAAAACC
*
101293195 AAAGAAAAAAAA-AAG-
1 AAAGAAAAAAAATCAGA
*
101293210 AAAGAAAAACAATCAGA
1 AAAGAAAAAAAATCAGA
*
101293227 AAAGAAAACAAAATCTGA
1 AAAGAAAA-AAAATCAGA
101293245 AA
1 AA
101293247 TCACCTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 11 0.37
16 2 0.07
17 8 0.27
18 9 0.30
ACGTcount: A:0.75, C:0.08, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAGAAAAAAAATCAGA
Found at i:101294599 original size:5 final size:5
Alignment explanation
Indices: 101294591--101294624 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
101294581 GGAGAGGGAC
* *
101294591 GGGGT GGGGT GGGGT GGGGT GGGTT GGGGA GGGG
1 GGGGT GGGGT GGGGT GGGGT GGGGT GGGGT GGGG
101294625 AGGGTTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.79, T:0.18
Consensus pattern (5 bp):
GGGGT
Found at i:101294629 original size:15 final size:15
Alignment explanation
Indices: 101294586--101294630 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
101294576 GGGGAGGAGA
*
101294586 GGGACGGGGTGGGGTG
1 GGGA-GGGGTGGGTTG
*
101294602 GGGTGGGGTGGGTTG
1 GGGAGGGGTGGGTTG
*
101294617 GGGAGGGGAGGGTT
1 GGGAGGGGTGGGTT
101294631 TTATTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 22 0.88
16 3 0.12
ACGTcount: A:0.07, C:0.02, G:0.73, T:0.18
Consensus pattern (15 bp):
GGGAGGGGTGGGTTG
Found at i:101295399 original size:12 final size:12
Alignment explanation
Indices: 101295382--101295406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101295372 TTCATCTCTC
101295382 GCCACTACTATT
1 GCCACTACTATT
101295394 GCCACTACTATT
1 GCCACTACTATT
101295406 G
1 G
101295407 ATGCGGCTAA
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:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (12 bp):
GCCACTACTATT
Found at i:101305634 original size:19 final size:20
Alignment explanation
Indices: 101305602--101305645 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
101305592 TGGAAAATGA
101305602 TTTCTAGAAAATGACTTACT
1 TTTCTAGAAAATGACTTACT
*
101305622 TTTCTAG-AAATGATTTACT
1 TTTCTAGAAAATGACTTACT
101305641 TTTCT
1 TTTCT
101305646 GGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (20 bp):
TTTCTAGAAAATGACTTACT
Found at i:101309638 original size:14 final size:14
Alignment explanation
Indices: 101309619--101309670 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
101309609 GTTAAAACAT
101309619 AAATATATTTATTA
1 AAATATATTTATTA
* *
101309633 AAATATATATATGA
1 AAATATATTTATTA
*
101309647 ACATAACTAATTTATTA
1 AAAT-A-T-ATTTATTA
101309664 AAATATA
1 AAATATA
101309671 AATTACAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 16 0.55
15 2 0.07
16 2 0.07
17 9 0.31
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (14 bp):
AAATATATTTATTA
Found at i:101315341 original size:21 final size:21
Alignment explanation
Indices: 101315316--101315365 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
101315306 TTCTGCTCTG
101315316 CTCTGCTTCCCTCGCTGCTAC
1 CTCTGCTTCCCTCGCTGCTAC
*
101315337 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTAC
*
101315358 CTCCGCTT
1 CTCTGCTT
101315366 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.48, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTAC
Found at i:101318988 original size:23 final size:23
Alignment explanation
Indices: 101318958--101319003 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
101318948 AGAGGGAAAA
101318958 AGAAAGCAAAATTTGTCCATATT
1 AGAAAGCAAAATTTGTCCATATT
101318981 AGAAAGCAAAATTTGTCCATATT
1 AGAAAGCAAAATTTGTCCATATT
101319004 TTTCTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (23 bp):
AGAAAGCAAAATTTGTCCATATT
Found at i:101321250 original size:9 final size:9
Alignment explanation
Indices: 101321233--101321285 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
101321223 AATGTGTATG
*
101321233 TATTATATA
1 TATTTTATA
101321242 TATTTTATA
1 TATTTTATA
*
101321251 CATTTTATA
1 TATTTTATA
*
101321260 TATATTATA
1 TATTTTATA
101321269 TATATTTATTA
1 TAT-TTTA-TA
101321280 TATTTT
1 TATTTT
101321286 TATGTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 26 0.70
10 6 0.16
11 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:101321260 original size:20 final size:19
Alignment explanation
Indices: 101321235--101321285 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
101321225 TGTGTATGTA
101321235 TTATATATATTTTATACATT
1 TTATATATATTTTATACA-T
* *
101321255 TTATATATATTATATATAT
1 TTATATATATTTTATACAT
101321274 TTAT-TATATTTT
1 TTATATATATTTT
101321286 TATGTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 7 0.25
19 5 0.18
20 16 0.57
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATATATTTTATACAT
Found at i:101321261 original size:11 final size:11
Alignment explanation
Indices: 101321235--101321330 Score: 60
Period size: 9 Copynumber: 8.5 Consensus size: 11
101321225 TGTGTATGTA
101321235 TTATATATA-T
1 TTATATATATT
*
101321245 TT-TATACATT
1 TTATATATATT
101321255 TTATATATA--
1 TTATATATATT
101321264 TTATATATA-T
1 TTATATATATT
101321274 TTAT-TATATTT
1 TTATATATA-TT
101321285 TTATGTATATATTT
1 TTA--TATATA-TT
101321299 TTAATATCATATT
1 TT-ATAT-ATATT
*
101321312 ATTCATATATTTT
1 -TT-ATATATATT
101321325 TTATAT
1 TTATAT
101321331 TATGTAAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
9 18 0.25
10 9 0.13
11 13 0.18
12 2 0.03
13 10 0.14
14 18 0.25
15 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:101321310 original size:14 final size:14
Alignment explanation
Indices: 101321253--101321330 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
101321243 ATTTTATACA
101321253 TTTTATATATATTAT
1 TTTTATATATA-TAT
* * *
101321268 ATATATTTATTATAT
1 TTTTATATA-TATAT
*
101321283 TTTTATGTATATAT
1 TTTTATATATATAT
101321297 TTTTA-ATATCATAT
1 TTTTATATAT-ATAT
* *
101321311 TATT-CATATAT-T
1 TTTTATATATATAT
101321323 TTTTATAT
1 TTTTATAT
101321331 TATGTAAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
12 4 0.08
13 7 0.14
14 21 0.43
15 15 0.31
16 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (14 bp):
TTTTATATATATAT
Found at i:101321313 original size:25 final size:25
Alignment explanation
Indices: 101321285--101321370 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
101321275 TATTATATTT
101321285 TTATGTATATATTTTTAATATCATA
1 TTATGTATATATTTTTAATATCATA
101321310 TTAT-TCATATA-TTTT--T-T-ATA
1 TTATGT-ATATATTTTTAATATCATA
* * *
101321330 TTATGTAAATATTTTCAATA-CTACA
1 TTATGTATATATTTTTAATATC-ATA
101321355 TTATGTATATATTTTT
1 TTATGTATATATTTTT
101321371 GTCTATATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
20 11 0.23
21 5 0.10
22 1 0.02
23 1 0.02
24 5 0.10
25 25 0.52
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (25 bp):
TTATGTATATATTTTTAATATCATA
Found at i:101321358 original size:45 final size:45
Alignment explanation
Indices: 101321267--101321370 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
101321257 ATATATATTA
* * * *
101321267 TATATATTTATTATATTTTTATGTATATATTTTTAATATCATATTAT-
1 TATATATTT-TT-TA-TATTATGTAAATATTTTCAATATCACATTATG
101321314 TCATATATTTTTTATATTATGTAAATATTTTCAATA-CTACATTATG
1 T-ATATATTTTTTATATTATGTAAATATTTTCAATATC-ACATTATG
101321360 TATATATTTTT
1 TATATATTTTT
101321371 GTCTATATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.02
45 35 0.70
46 3 0.06
47 3 0.06
48 8 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.59
Consensus pattern (45 bp):
TATATATTTTTTATATTATGTAAATATTTTCAATATCACATTATG
Found at i:101335087 original size:9 final size:9
Alignment explanation
Indices: 101335073--101335294 Score: 80
Period size: 9 Copynumber: 24.0 Consensus size: 9
101335063 TAAGTATAAT
101335073 TAAGTTATG
1 TAAGTTATG
101335082 TAAGTTATG
1 TAAGTTATG
* * *
101335091 ATATGATATA
1 -TAAGTTATG
*
101335101 T-ATTTATG
1 TAAGTTATG
101335109 T-A-TTATG
1 TAAGTTATG
* *
101335116 TAAGCTACG
1 TAAGTTATG
101335125 TAAGTTATG
1 TAAGTTATG
*
101335134 TGAGTTATG
1 TAAGTTATG
101335143 TAAGTTATG
1 TAAGTTATG
* *
101335152 ATATGATATATA
1 -TAAG-T-TATG
101335164 TAAGTTAT-
1 TAAGTTATG
*
101335172 TAAGTTAAGATC
1 TAAGTT---ATG
* *
101335184 TAAAGTTTTTTT
1 T-AAG--TTATG
* *
101335196 TAA-TTCTT
1 TAAGTTATG
101335204 TAAAGTTATG
1 T-AAGTTATG
101335214 TATA-TTATG
1 TA-AGTTATG
101335223 TAAGTTATG
1 TAAGTTATG
*
101335232 TAAGTTTTG
1 TAAGTTATG
* * *
101335241 ATATGATATA
1 -TAAGTTATG
* *
101335251 T-ATTTACG
1 TAAGTTATG
101335259 TAAGTTATG
1 TAAGTTATG
*
101335268 TAAATTATG
1 TAAGTTATG
*
101335277 CAAGTTATG
1 TAAGTTATG
101335286 TAAGTTATG
1 TAAGTTATG
101335295 ATTTATATTT
Statistics
Matches: 157, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
7 6 0.04
8 21 0.13
9 91 0.58
10 20 0.13
11 8 0.05
12 6 0.04
13 3 0.02
15 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:101337803 original size:35 final size:35
Alignment explanation
Indices: 101337757--101337905 Score: 149
Period size: 35 Copynumber: 4.3 Consensus size: 35
101337747 AGTATCACGA
* *
101337757 TTCACAACTCAGTATGGTTAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
* * * * * *
101337792 TTCACAACTCAGTATAGAAAATACCATGCATATGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
*
101337827 ATT-ATAGCTC-GATATGGATAATACCATACCTACGT
1 -TTCATAACTCAG-TATGGATAATACCATACCTACGT
* * *
101337862 GTCATAGCTTAGTATGGATAATACCATACCTACGT
1 TTCATAACTCAGTATGGATAATACCATACCTACGT
*
101337897 GTCATAACT
1 TTCATAACT
101337906 TTGCCATGGA
Statistics
Matches: 94, Mismatches: 16, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
34 2 0.02
35 89 0.95
36 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (35 bp):
TTCATAACTCAGTATGGATAATACCATACCTACGT
Found at i:101339297 original size:13 final size:13
Alignment explanation
Indices: 101339275--101339307 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
101339265 AAGGATTTGT
101339275 TTAT-TAAACTAA
1 TTATCTAAACTAA
101339287 TTATCTAAACTAA
1 TTATCTAAACTAA
*
101339300 TTAACTAA
1 TTATCTAA
101339308 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:101343019 original size:16 final size:16
Alignment explanation
Indices: 101342998--101343050 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
101342988 AAACCGATGA
101342998 AATGAGGTTTACATGC
1 AATGAGGTTTACATGC
101343014 AATGAGGTTT--AT--
1 AATGAGGTTTACATGC
*
101343026 --TGAGGTTTGCATGC
1 AATGAGGTTTACATGC
101343040 AATGAGGTTTA
1 AATGAGGTTTA
101343051 TAGAAATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
10 8 0.27
12 2 0.07
14 2 0.07
16 18 0.60
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (16 bp):
AATGAGGTTTACATGC
Found at i:101343029 original size:26 final size:26
Alignment explanation
Indices: 101343000--101343051 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
101342990 ACCGATGAAA
101343000 TGAGGTTTACATGCAATGAGGTTTAT
1 TGAGGTTTACATGCAATGAGGTTTAT
*
101343026 TGAGGTTTGCATGCAATGAGGTTTAT
1 TGAGGTTTACATGCAATGAGGTTTAT
101343052 AGAAATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.29, T:0.38
Consensus pattern (26 bp):
TGAGGTTTACATGCAATGAGGTTTAT
Found at i:101343533 original size:20 final size:20
Alignment explanation
Indices: 101343503--101343578 Score: 127
Period size: 20 Copynumber: 3.8 Consensus size: 20
101343493 CCACACAGGT
*
101343503 AAGTGACACGGGCGTGTCCCA
1 AAGT-ACACGGACGTGTCCCA
101343524 AAGTACACGGACGTGTCCCA
1 AAGTACACGGACGTGTCCCA
101343544 AAGTACACGGACGTGTCCCA
1 AAGTACACGGACGTGTCCCA
101343564 AAGTACACGGA-GTGT
1 AAGTACACGGACGTGT
101343579 GCTATGTCTC
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
19 4 0.07
20 46 0.85
21 4 0.07
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.16
Consensus pattern (20 bp):
AAGTACACGGACGTGTCCCA
Found at i:101351016 original size:29 final size:29
Alignment explanation
Indices: 101350984--101351039 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
101350974 TAAAATTAGA
101350984 CCCTAAACAC-TAAATCGTAAACCCTAATC
1 CCCTAAAC-CTTAAATCGTAAACCCTAATC
* *
101351013 CCCTAAACCTTAAATCTTAAACTCTAA
1 CCCTAAACCTTAAATCGTAAACCCTAA
101351040 ACCCTAAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.41, C:0.32, G:0.02, T:0.25
Consensus pattern (29 bp):
CCCTAAACCTTAAATCGTAAACCCTAATC
Found at i:101351188 original size:7 final size:7
Alignment explanation
Indices: 101350983--101351188 Score: 76
Period size: 7 Copynumber: 29.6 Consensus size: 7
101350973 TTAAAATTAG
101350983 ACCCTAA
1 ACCCTAA
*
101350990 ACACTAA
1 ACCCTAA
* *
101350997 ATCGTAA
1 ACCCTAA
101351004 ACCCTAA
1 ACCCTAA
*
101351011 TCCCCTAA
1 -ACCCTAA
*
101351019 ACCTTAA
1 ACCCTAA
* *
101351026 ATCTTAA
1 ACCCTAA
*
101351033 ACTCTAA
1 ACCCTAA
101351040 ACCCT-A
1 ACCCTAA
* * *
101351046 AGCTTTA
1 ACCCTAA
*
101351053 GCCCTTAA
1 ACCC-TAA
*
101351061 CCCCTAA
1 ACCCTAA
101351068 ACCCTAA
1 ACCCTAA
**
101351075 ACTATAA
1 ACCCTAA
*
101351082 ACACTAA
1 ACCCTAA
*
101351089 ACCTTAA
1 ACCCTAA
* *
101351096 A-CTTAC
1 ACCCTAA
101351102 ACCCTAA
1 ACCCTAA
**
101351109 ACTGTAA
1 ACCCTAA
*
101351116 ACACTAA
1 ACCCTAA
* *
101351123 ATCCTTA
1 ACCCTAA
*
101351130 ACACTAA
1 ACCCTAA
* *
101351137 ATCATAA
1 ACCCTAA
*
101351144 ACCATAA
1 ACCCTAA
*
101351151 ACCTTAA
1 ACCCTAA
*
101351158 ACCCCAA
1 ACCCTAA
*
101351165 ACCATAA
1 ACCCTAA
* *
101351172 A-CATAC
1 ACCCTAA
101351178 ACCCTAA
1 ACCCTAA
101351185 ACCC
1 ACCC
101351189 AAAATATATA
Statistics
Matches: 141, Mismatches: 53, Indels: 10
0.69 0.26 0.05
Matches are distributed among these distances:
6 14 0.10
7 116 0.82
8 11 0.08
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:101351641 original size:40 final size:40
Alignment explanation
Indices: 101351589--101351685 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
101351579 GCATTTTCTG
* *
101351589 AAAAGCGTCGCTAATGCTCGATCTACAGTGACGTT-TTTCA
1 AAAAGCGCCGCTAATGCTCGATCTACAGCGACGTTCTTT-A
* * * ** *
101351629 ACAAGCGCCGCTAATTCTCGATTTATTGCGGCGTTCTTTA
1 AAAAGCGCCGCTAATGCTCGATCTACAGCGACGTTCTTTA
101351669 AAAAGCGCCGCTAATGC
1 AAAAGCGCCGCTAATGC
101351686 CACCAAAGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
40 43 0.93
41 3 0.07
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTACAGCGACGTTCTTTA
Found at i:101351923 original size:154 final size:152
Alignment explanation
Indices: 101351522--101351971 Score: 499
Period size: 154 Copynumber: 2.9 Consensus size: 152
101351512 GCGTTTTTAT
* * * *
101351522 CGCTAATGCCACTAAAGCTCAAAAACAAATGATGTCGTTTTGCTCAACTTTTTTGCGGCATTTTC
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTTTGCGG-TTTTTC
* * * *
101351587 TGAAAAGCGTCGCTAATGCTCGATCTACAGTGACGTTTTTCAACAAGCGCCGCTAATTCTCGATT
65 T-AAAAGCG-CTCTAATGCTCGATCTATAGCGACATTTTTCAACAAGCGCCGCTAATTCTCGATT
101351652 TATTGCGGCGTTCTTTAAAAAGCGC
128 TATTGCGGCGTTCTTTAAAAAGCGC
* * * *
101351677 CGCTAATGCCACCAAAGCTCAACAACAAACGATGTCATTTTGGTTAAATTTTTGATGC-GTTTTT
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTT--TGCGGTTTTT
* * * * * * * * *
101351741 CAAAAAGCGCTGCTAATACACGAGCTATAGCGAAATTTTTCAATAATCGTCGCTAATTCTTGATT
64 CTAAAAGCGCT-CTAATGCTCGATCTATAGCGACATTTTTCAACAAGCGCCGCTAATTCTCGATT
*
101351806 TATTGCGGCGTTTTTTAAAAAGCGC
128 TATTGCGGCGTTCTTTAAAAAGCGC
* * *
101351831 CGCTAATGCCATTAAAGTTCAACAACAAGTGATGT-GTTTTGCTTAAATTTTTTGCGGTGTTTTC
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTTTGCGGT-TTTT-
* * * ** * **
101351895 CTAAAAGCGCATCTAATGCTCGATCTATAACGGCATTTTTCAAGAAGCGCAACTAATGCTCGACC
64 CTAAAAGCGC-TCTAATGCTCGATCTATAGCGACATTTTTCAACAAGCGCCGCTAATTCTCGATT
*
101351960 TATAGCGGCGTT
128 TATTGCGGCGTT
101351972 TGTTTCGTAA
Statistics
Matches: 242, Mismatches: 46, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
151 3 0.01
152 2 0.01
153 20 0.08
154 161 0.67
155 52 0.21
156 1 0.00
157 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.32
Consensus pattern (152 bp):
CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTTAAATTTTTTGCGGTTTTTCT
AAAAGCGCTCTAATGCTCGATCTATAGCGACATTTTTCAACAAGCGCCGCTAATTCTCGATTTAT
TGCGGCGTTCTTTAAAAAGCGC
Found at i:101352973 original size:220 final size:220
Alignment explanation
Indices: 101352589--101353029 Score: 855
Period size: 220 Copynumber: 2.0 Consensus size: 220
101352579 ACGGTGTAAT
101352589 ATTCTGAAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAATAAAGTGACAA
1 ATTCTGAAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAATAAAGTGACAA
*
101352654 AAAGGGAAATTTTGAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGA
66 AAAGGGAAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGA
*
101352719 CTAAATTGTAAAAGTGAGAAAAGTTTTGTTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAA
131 CTAAATTGTAAAAGTGAGAAAAGTTTTATTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAA
101352784 AGTGTAAATATGAAAAAGTTGAAGG
196 AGTGTAAATATGAAAAAGTTGAAGG
101352809 ATTCTGAAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAATAAAGTGACAA
1 ATTCTGAAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAATAAAGTGACAA
101352874 AAAGGGAAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGA
66 AAAGGGAAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGA
*
101352939 CTAAATTGTAAAAGTGAGAAAAGTTTTATTGCACAAGAGTAAATACTCAAAATTTGAGGGGTTAA
131 CTAAATTGTAAAAGTGAGAAAAGTTTTATTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAA
101353004 AGTGTAAATATGAAAAAGTTGAAGG
196 AGTGTAAATATGAAAAAGTTGAAGG
101353029 A
1 A
101353030 CCAATAGTGT
Statistics
Matches: 218, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 218 1.00
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.30
Consensus pattern (220 bp):
ATTCTGAAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAATAAAGTGACAA
AAAGGGAAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGA
CTAAATTGTAAAAGTGAGAAAAGTTTTATTGCACAAGAGCAAATACTCAAAATTTGAGGGGTTAA
AGTGTAAATATGAAAAAGTTGAAGG
Found at i:101355454 original size:46 final size:46
Alignment explanation
Indices: 101355402--101355664 Score: 411
Period size: 46 Copynumber: 5.7 Consensus size: 46
101355392 GTGTGCTCTC
**
101355402 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
101355448 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
101355494 TGATATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
101355540 TGATATGAAATGAATATGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
101355586 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
101355632 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGA
101355665 CCGTGGATGG
Statistics
Matches: 204, Mismatches: 12, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 203 1.00
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:101357933 original size:47 final size:46
Alignment explanation
Indices: 101357860--101358179 Score: 170
Period size: 47 Copynumber: 6.8 Consensus size: 46
101357850 TGGGTTATGT
* *
101357860 GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * * *
101357908 GAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGTCACTT--CAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATC-GGCA-TTGAGAC
* ** * * * **
101357954 GATAGCCCGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGGT
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * * * *
101358002 GAGTGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGATGAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGA-GAC
** * * * * *
101358049 GTTAGCCAGTGTAAGACGTGTCTGGGACATACATCGGC--TAAGTTTC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG--AC
* * * *
101358095 -A-TGCTAGTGTAAGACATGTCTGGGACATGCATATC-ACGTAT-ACAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGC--ATCGGCAT-TGAGAC
101358140 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
101358180 CTCGATGGAG
Statistics
Matches: 205, Mismatches: 48, Indels: 38
0.70 0.16 0.13
Matches are distributed among these distances:
44 26 0.13
45 3 0.01
46 33 0.16
47 92 0.45
48 49 0.24
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
Found at i:101358032 original size:94 final size:94
Alignment explanation
Indices: 101357863--101358179 Score: 351
Period size: 94 Copynumber: 3.4 Consensus size: 94
101357853 GTTATGTGAG
* * * * *
101357863 AGCCAGTATAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
101357928 TCTGGGACATGCATCAGTCAC-TTCATGAT
65 TCTGGGACATGCATCAGTCACGTTCATGAT
* * * *
101357957 AGCCCGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGGTGAGTGCAAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TAGAGATGAGTGCTAGTGTAAGACATG
* * * * *
101358022 TCTGGGACATGCATCAGCCTCGATGATGTT
65 TCTGGGACATGCATCAGTCACGTTCATGAT
* * * *
101358052 AGCCAGTGTAAGA-CGTGTCTGGGACAT-ACATCGGCTA-AGTTTCA-TGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAG-ATGAGTGCTAGTGTAAGACATG
* *
101358113 TCTGGGACATGCAT-A-TCACGTATACACGAG
65 TCTGGGACATGCATCAGTCACGT-T-CATGAT
*
101358143 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
101358180 CTCGATGGAG
Statistics
Matches: 185, Mismatches: 32, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
89 3 0.02
90 2 0.01
91 46 0.25
92 17 0.09
93 14 0.08
94 86 0.46
95 17 0.09
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAGAGATGAGTGCTAGTGTAAGACATGT
CTGGGACATGCATCAGTCACGTTCATGAT
Found at i:101359093 original size:55 final size:55
Alignment explanation
Indices: 101358989--101359119 Score: 140
Period size: 55 Copynumber: 2.4 Consensus size: 55
101358979 CTTAAACTTT
* * * * *
101358989 TAAA-TCAGTATTGTCCATGGTTAGGCCACAAGGACGTGTGCCATAGCCGTG-TC
1 TAAAGTCAGTATTGCCCACGGGTAGGCCACAAGGACATGTGCCATAGCCGTGCCC
* * * *
101359042 TATAAGTCAGTATTGCCCACGGGTAGGCCACACGGGCATGTGTCATGGCCGTGCCC
1 TA-AAGTCAGTATTGCCCACGGGTAGGCCACAAGGACATGTGCCATAGCCGTGCCC
* *
101359098 TAAAGTCAGTGTTGCACACGGG
1 TAAAGTCAGTATTGCCCACGGG
101359120 CTGAGGAAGT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 57 0.89
56 3 0.05
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (55 bp):
TAAAGTCAGTATTGCCCACGGGTAGGCCACAAGGACATGTGCCATAGCCGTGCCC
Found at i:101359561 original size:30 final size:30
Alignment explanation
Indices: 101359527--101359588 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
101359517 ATACATATTT
101359527 ACTACTAAAACTTATCATTTGATAACTTTA
1 ACTACTAAAACTTATCATTTGATAACTTTA
101359557 ACTACTAAAACTTATCATTTGATAACTTTA
1 ACTACTAAAACTTATCATTTGATAACTTTA
101359587 AC
1 AC
101359589 ATTTCTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.39
Consensus pattern (30 bp):
ACTACTAAAACTTATCATTTGATAACTTTA
Found at i:101360439 original size:17 final size:17
Alignment explanation
Indices: 101360406--101360449 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
101360396 ATAAGGTTCT
* *
101360406 TCAATTCACTTTTCATA
1 TCAATTCAATATTCATA
101360423 TACAA-TCAATATTCATA
1 T-CAATTCAATATTCATA
101360440 TCAATTCAAT
1 TCAATTCAAT
101360450 TAATCACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (17 bp):
TCAATTCAATATTCATA
Found at i:101360477 original size:5 final size:5
Alignment explanation
Indices: 101360467--101360496 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
101360457 ACATACTCAT
*
101360467 AATTC AATTC AATTC AATCC AATTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC
101360497 CACAATACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTC
Found at i:101361156 original size:12 final size:13
Alignment explanation
Indices: 101361139--101361176 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
101361129 ATTTTTCCTT
101361139 CTTTCTTTTCT-C
1 CTTTCTTTTCTCC
101361151 CTTTCTTTTTCTCC
1 CTTTC-TTTTCTCC
101361165 CTATTCTTTTCT
1 CT-TTCTTTTCT
101361177 GTTTCGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 9 0.39
15 3 0.13
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (13 bp):
CTTTCTTTTCTCC
Found at i:101364985 original size:15 final size:13
Alignment explanation
Indices: 101364949--101364977 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
101364939 ACTCTAATTC
101364949 CTCCTTT-TTTTT
1 CTCCTTTCTTTTT
101364961 CTCCTTTCTTTTT
1 CTCCTTTCTTTTT
101364974 CTCC
1 CTCC
101364978 CTATTCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
CTCCTTTCTTTTT
Found at i:101365098 original size:15 final size:15
Alignment explanation
Indices: 101365078--101365120 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
101365068 ATTATATTAT
*
101365078 AATAATAATTACTTA
1 AATAATAATTACATA
* *
101365093 AATAATAAGTAAATA
1 AATAATAATTACATA
*
101365108 CATAATAATTACA
1 AATAATAATTACA
101365121 AGTATATGTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATTACATA
Found at i:101365855 original size:37 final size:37
Alignment explanation
Indices: 101365805--101365880 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
101365795 GTGGATCGAG
*
101365805 TAAAGTGACACCAAAATCTTTCAACAAAGACTGAAGC
1 TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
*
101365842 TAAAGTGACACCAAAATCTTTCAATAAAGACTAAAGC
1 TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
101365879 TA
1 TA
101365881 GATGATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (37 bp):
TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
Found at i:101370761 original size:24 final size:25
Alignment explanation
Indices: 101370734--101370792 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
101370724 CTTATTTCAT
*
101370734 TAAATAAA-AAAATTCAAAATATAA
1 TAAATAAATAAAATTAAAAATATAA
* *
101370758 TAAATCAAATACATTTAAAAATATAA
1 TAAAT-AAATAAAATTAAAAATATAA
101370784 -AAATAAATA
1 TAAATAAATA
101370793 TTAAAACAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.33
25 7 0.23
26 13 0.43
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAATAAAATTAAAAATATAA
Found at i:101371387 original size:26 final size:26
Alignment explanation
Indices: 101371349--101371407 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
101371339 CTTGAGCAAT
101371349 ATTTTGACAATTTTACCCCCTA-TAAA
1 ATTTTGACAATTTTA-CCCCTATTAAA
** *
101371375 ATTTTGATGATTTTACCCTTATTAAA
1 ATTTTGACAATTTTACCCCTATTAAA
101371401 ATTTTGA
1 ATTTTGA
101371408 GAAATTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.32, C:0.15, G:0.07, T:0.46
Consensus pattern (26 bp):
ATTTTGACAATTTTACCCCTATTAAA
Found at i:101375807 original size:21 final size:22
Alignment explanation
Indices: 101375773--101375819 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 22
101375763 ATTTAATTTG
*
101375773 AATATGTAAGTTATAT-TTT-A
1 AATATATAAGTTATATATTTCA
101375793 AATATATAATGTTATATATTTCA
1 AATATATAA-GTTATATATTTCA
101375816 AATA
1 AATA
101375820 AATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 3 0.13
23 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (22 bp):
AATATATAAGTTATATATTTCA
Found at i:101379750 original size:43 final size:43
Alignment explanation
Indices: 101379677--101379766 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
101379667 GGCATTGTAG
* * *
101379677 TGCATCATCGGATAAACTGAAAGAAATATACTGACACACATAA
1 TGCATAATCGAATAAACCGAAAGAAATATACTGACACACATAA
* *
101379720 TGCATAATCGAATAAACCG-AAGAATGTATACTGACACACATAG
1 TGCATAATCGAATAAACCGAAAGAA-ATATACTGACACACATAA
101379763 TGCA
1 TGCA
101379767 CCATCAGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (43 bp):
TGCATAATCGAATAAACCGAAAGAAATATACTGACACACATAA
Found at i:101380851 original size:15 final size:15
Alignment explanation
Indices: 101380823--101380859 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
101380813 TTATATAGTA
101380823 TAATTAAAGATTAAT
1 TAATTAAAGATTAAT
* *
101380838 TAATTTAAGCTTAAT
1 TAATTAAAGATTAAT
101380853 TAATTAA
1 TAATTAA
101380860 CCATTAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (15 bp):
TAATTAAAGATTAAT
Found at i:101385334 original size:16 final size:16
Alignment explanation
Indices: 101385313--101385364 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
101385303 TTTGGTTCGC
101385313 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
101385329 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
101385345 TGTAATGAAATAGAGG
1 TGTATTGGATTAGAGG
101385361 TGTA
1 TGTA
101385365 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:101385411 original size:45 final size:44
Alignment explanation
Indices: 101385345--101385435 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
101385335 GGATTAGAGG
*
101385345 TGTAATGAAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGAAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
101385390 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGAAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
101385434 TG
1 TG
101385436 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAATGAAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:101385618 original size:16 final size:15
Alignment explanation
Indices: 101385588--101385624 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
101385578 TTTTAACATA
*
101385588 ATTATTATTAAATAT
1 ATTATAATTAAATAT
101385603 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
101385617 A-TATAATT
1 ATTATAATT
101385625 TTATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.33
14 3 0.14
15 11 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:101385938 original size:24 final size:27
Alignment explanation
Indices: 101385887--101385939 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
101385877 TATATGTAAT
*
101385887 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
101385914 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
101385938 AT
1 AT
101385940 GCGGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:101389360 original size:17 final size:16
Alignment explanation
Indices: 101389328--101389399 Score: 78
Period size: 17 Copynumber: 4.6 Consensus size: 16
101389318 TCTGACACCT
*
101389328 TTTTATTTTCTTTTTC
1 TTTTATTTTCTATTTC
101389344 TTTTATTTTCATATTTC
1 TTTTATTTTC-TATTTC
*
101389361 TTTTGTTTT-T-TTTC
1 TTTTATTTTCTATTTC
*
101389375 TTTTATTTACATATTTC
1 TTTTATTTTC-TATTTC
101389392 TTTT-TTTT
1 TTTTATTTT
101389400 TTTTACTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
14 11 0.23
15 1 0.02
16 14 0.30
17 21 0.45
ACGTcount: A:0.11, C:0.10, G:0.01, T:0.78
Consensus pattern (16 bp):
TTTTATTTTCTATTTC
Found at i:101389373 original size:31 final size:30
Alignment explanation
Indices: 101389333--101389409 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 30
101389323 CACCTTTTTA
* *
101389333 TTTTCTTTTTCTTTTATTTTCATATTTCTT
1 TTTTTTTTTTCTTTTATTTACATATTTCTT
101389363 TTGTTTTTTTTCTTTTATTTACATATTTCTT
1 TT-TTTTTTTTCTTTTATTTACATATTTCTT
101389394 TTTTTTTTTTACTTTT
1 TTTTTTTTTT-CTTTT
101389410 TTATTTTGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 10 0.23
31 33 0.77
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.78
Consensus pattern (30 bp):
TTTTTTTTTTCTTTTATTTACATATTTCTT
Found at i:101389416 original size:16 final size:16
Alignment explanation
Indices: 101389392--101389518 Score: 71
Period size: 16 Copynumber: 7.8 Consensus size: 16
101389382 TACATATTTC
101389392 TTTTT-TTTTTTTACT
1 TTTTTATTTTTTTACT
* *
101389407 TTTTTATTTTGTTCCT
1 TTTTTATTTTTTTACT
* *
101389423 TTTTTATTTTGTTCCT
1 TTTTTATTTTTTTACT
** * * *
101389439 TAATAAATTTTAT-C-
1 TTTTTATTTTTTTACT
101389453 TTTTTATTTTTTTTACT
1 TTTTTA-TTTTTTTACT
*
101389470 TTTTTGATTTTTTTTCT
1 TTTTT-ATTTTTTTACT
* *
101389487 TATTTCATTTTGTTTATTT
1 T-TTTTATTTT-TTTA-CT
101389506 TGTTTTATTTTTT
1 T-TTTTATTTTTT
101389519 ATTATTAACT
Statistics
Matches: 85, Mismatches: 19, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
14 3 0.04
15 11 0.13
16 32 0.38
17 20 0.24
18 9 0.11
19 10 0.12
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTTTTACT
Found at i:101389466 original size:17 final size:17
Alignment explanation
Indices: 101389446--101389523 Score: 54
Period size: 17 Copynumber: 4.4 Consensus size: 17
101389436 CCTTAATAAA
101389446 TTTTATCTTTTTATTTT
1 TTTTATCTTTTTATTTT
101389463 TTTTA-CTTTTT-TGATTT
1 TTTTATCTTTTTAT--TTT
101389480 TTTT-TCTTATTTCATTTT
1 TTTTATCTT-TTT-ATTTT
* *
101389498 GTTTATTTTGTTTTATTTT
1 TTTTA-TCT-TTTTATTTT
101389517 TTATTAT
1 TT-TTAT
101389524 TAACTTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 15 0.31
18 9 0.19
19 7 0.15
20 9 0.19
21 1 0.02
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTATCTTTTTATTTT
Found at i:101389467 original size:9 final size:9
Alignment explanation
Indices: 101389453--101389524 Score: 65
Period size: 9 Copynumber: 7.9 Consensus size: 9
101389443 AAATTTTATC
101389453 TTTTTATTT
1 TTTTTATTT
*
101389462 TTTTTACTT
1 TTTTTATTT
*
101389471 TTTTGATTT
1 TTTTTATTT
*
101389480 TTTTT-CTT
1 TTTTTATTT
* *
101389488 ATTTCATTT
1 TTTTTATTT
*
101389497 TGTTTATTT
1 TTTTTATTT
101389506 TGTTTTATTT
1 T-TTTTATTT
101389516 TTTATTATT
1 TTT-TTATT
101389525 AACTTTAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
8 5 0.10
9 30 0.62
10 13 0.27
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (9 bp):
TTTTTATTT
Found at i:101389571 original size:28 final size:29
Alignment explanation
Indices: 101389534--101389595 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
101389524 TAACTTTAAA
* *
101389534 ATGATATAATATAAT-TTTTTTTTTAATT
1 ATGATATAATATAATATATATTTTTAATT
*
101389562 ATGATCTAATATAATATATATTTTTAATT
1 ATGATATAATATAATATATATTTTTAATT
101389591 ATGAT
1 ATGAT
101389596 TGGTTTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
ATGATATAATATAATATATATTTTTAATT
Found at i:101390508 original size:9 final size:8
Alignment explanation
Indices: 101390455--101390531 Score: 55
Period size: 9 Copynumber: 8.9 Consensus size: 8
101390445 TTTTAAAGTT
101390455 AATAATAAA
1 AATAA-AAA
101390464 AATAAAACAA
1 AAT-AAA-AA
101390474 AATAAACAA
1 AATAAA-AA
* *
101390483 AATGAAAT
1 AATAAAAA
*
101390491 AAGAAAAA
1 AATAAAAA
101390499 AATCAAAAA
1 AAT-AAAAA
*
101390508 AGTAAAAAA
1 AAT-AAAAA
101390517 AATAAAAA
1 AATAAAAA
*
101390525 GATAAAA
1 AATAAAA
101390532 TTTATTAAGG
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
8 19 0.35
9 29 0.53
10 7 0.13
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.13
Consensus pattern (8 bp):
AATAAAAA
Found at i:101390578 original size:12 final size:10
Alignment explanation
Indices: 101390552--101390630 Score: 52
Period size: 11 Copynumber: 7.4 Consensus size: 10
101390542 AACAAAATAA
*
101390552 AAAAGTAAAAT
1 AAAAG-AAAAG
101390563 AAAAGAAATATG
1 AAAAGAAA-A-G
*
101390575 AAAATAAAAG
1 AAAAGAAAAG
*
101390585 AAAA-AAAAC
1 AAAAGAAAAG
101390594 AAAAGAAATATG
1 AAAAGAAA-A-G
*
101390606 AAAATAAAAG
1 AAAAGAAAAG
*
101390616 AAAAAGAAAAC
1 -AAAAGAAAAG
101390627 AAAA
1 AAAA
101390631 AGGTGTCAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
9 8 0.15
10 16 0.29
11 17 0.31
12 14 0.25
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:101390580 original size:17 final size:17
Alignment explanation
Indices: 101390558--101390618 Score: 92
Period size: 17 Copynumber: 3.8 Consensus size: 17
101390548 ATAAAAAAGT
101390558 AAAATAAAAGAAATATG
1 AAAATAAAAGAAATATG
101390575 AAAATAAAAGAAA-A--
1 AAAATAAAAGAAATATG
*
101390589 AAAACAAAAGAAATATG
1 AAAATAAAAGAAATATG
101390606 AAAATAAAAGAAA
1 AAAATAAAAGAAA
101390619 AAGAAAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
14 12 0.31
15 1 0.03
16 1 0.03
17 25 0.64
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (17 bp):
AAAATAAAAGAAATATG
Found at i:101390625 original size:5 final size:5
Alignment explanation
Indices: 101390552--101390630 Score: 52
Period size: 5 Copynumber: 14.8 Consensus size: 5
101390542 AACAAAATAA
* * *
101390552 AAAAG TAAAAT AAAAG AAATATG AAAAT AAAAG AAAA- AAAAC AAAAG
1 AAAAG -AAAAG AAAAG AAA-A-G AAAAG AAAAG AAAAG AAAAG AAAAG
* *
101390599 AAATATG AAAAT AAAAG AAAAAG AAAAC AAAA
1 AAA-A-G AAAAG AAAAG -AAAAG AAAAG AAAA
101390631 AGGTGTCAGC
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.07
5 34 0.58
6 13 0.22
7 8 0.14
ACGTcount: A:0.77, C:0.03, G:0.10, T:0.10
Consensus pattern (5 bp):
AAAAG
Found at i:101390632 original size:17 final size:16
Alignment explanation
Indices: 101390551--101390630 Score: 83
Period size: 17 Copynumber: 4.9 Consensus size: 16
101390541 GAACAAAATA
101390551 AAAAAGTAAAATAAAAG
1 AAAAAG-AAAATAAAAG
*
101390568 AAATATGAAAATAAAAG
1 AAA-AAGAAAATAAAAG
*
101390585 -AAAA-AAAACAAAAG
1 AAAAAGAAAATAAAAG
*
101390599 AAATATGAAAATAAAAG
1 AAA-AAGAAAATAAAAG
*
101390616 AAAAAGAAAACAAAA
1 AAAAAGAAAATAAAA
101390631 AGGTGTCAGC
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
14 9 0.17
15 3 0.06
16 13 0.25
17 25 0.48
18 2 0.04
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAGAAAATAAAAG
Found at i:101393193 original size:3 final size:3
Alignment explanation
Indices: 101393187--101393212 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101393177 ATTCGATGTT
101393187 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
101393213 TAGTTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:101395203 original size:29 final size:30
Alignment explanation
Indices: 101395143--101395205 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
101395133 TTATAGAGAT
* **
101395143 TAAATTTGATCAAATGAAAAGTATAATCAC
1 TAAAATTGATCAAATGAAAAGTATAAGAAC
* *
101395173 TAAAATTGATCAAAT-TAGAGTATAAGAAC
1 TAAAATTGATCAAATGAAAAGTATAAGAAC
101395202 TAAA
1 TAAA
101395206 TTTATAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (30 bp):
TAAAATTGATCAAATGAAAAGTATAAGAAC
Found at i:101401113 original size:5 final size:5
Alignment explanation
Indices: 101401103--101401134 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
101401093 TTGTGTGTTC
101401103 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
101401135 TCACAAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:101401117 original size:9 final size:9
Alignment explanation
Indices: 101401103--101401133 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
101401093 TTGTGTGTTC
101401103 TTTATTTTA
1 TTTATTTTA
101401112 TTTATTTTA
1 TTTATTTTA
101401121 TTTTATTTTA
1 -TTTATTTTA
101401131 TTT
1 TTT
101401134 TTCACAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:101411591 original size:115 final size:110
Alignment explanation
Indices: 101411452--101411656 Score: 259
Period size: 115 Copynumber: 1.8 Consensus size: 110
101411442 CCAAGGCACA
*
101411452 TTTTTTTTACTTTGGGACACTGATGAGC-GGCACCAGTGTATTTAAAAAAAATAACTTTTGAGTG
1 TTTTTTTTACTTTGGAACACTGATG-GCTGGCACCAGTGTATTTAAAAAAAA-AA---TTGAGTG
* * *
101411516 CTGGCCATGTAATGGTCGCCACCAAGTACAATTTTCGACTTTCAATACAT
61 CTGGACATGTAATGGCCGACACCAAGTACAATTTTCGACTTTCAATACAT
* * * * * *
101411566 TTTTTATTTATTTTGGAACATTGATGGCTGGCATCAGTGTATTTTAAAAAAAAATTGGGTGTTGG
1 TTTTT-TTTACTTTGGAACACTGATGGCTGGCACCAGTGTATTTAAAAAAAAAATTGAGTGCTGG
101411631 ACATGTAATGGCCGACACCAAGTACA
65 ACATGTAATGGCCGACACCAAGTACA
101411657 TTTAATAATA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
111 32 0.41
114 9 0.11
115 38 0.48
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (110 bp):
TTTTTTTTACTTTGGAACACTGATGGCTGGCACCAGTGTATTTAAAAAAAAAATTGAGTGCTGGA
CATGTAATGGCCGACACCAAGTACAATTTTCGACTTTCAATACAT
Found at i:101411798 original size:5 final size:5
Alignment explanation
Indices: 101411788--101411873 Score: 59
Period size: 5 Copynumber: 16.4 Consensus size: 5
101411778 GAAAAAAATT
* * *
101411788 AATGA AATGAAA AATTA AATGA ATATGA AATGA AATGTA ATTTA TAATGA
1 AATGA AATG--A AATGA AATGA A-ATGA AATGA AATG-A AATGA -AATGA
* *
101411838 AATGA AATGA AATG- -ATGA TTATGA AATGG AATGA AA
1 AATGA AATGA AATGA AATGA -AATGA AATGA AATGA AA
101411874 GTTTAAATAA
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
3 3 0.05
5 42 0.66
6 15 0.23
7 4 0.06
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (5 bp):
AATGA
Found at i:101411800 original size:16 final size:18
Alignment explanation
Indices: 101411781--101411817 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
101411771 TTTATATGAA
101411781 AAAAATT-AATGAA-ATG
1 AAAAATTAAATGAATATG
101411797 AAAAATTAAATGAATATG
1 AAAAATTAAATGAATATG
101411815 AAA
1 AAA
101411818 TGAAATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 6 0.32
18 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAAATTAAATGAATATG
Found at i:101411800 original size:17 final size:19
Alignment explanation
Indices: 101411774--101411817 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 19
101411764 AAATAAATTT
101411774 ATATGAAAAAAATT-AATGA
1 ATATG-AAAAAATTAAATGA
101411793 A-ATG-AAAAATTAAATGA
1 ATATGAAAAAATTAAATGA
101411810 ATATGAAA
1 ATATGAAA
101411818 TGAAATGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.32
17 6 0.27
18 6 0.27
19 3 0.14
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (19 bp):
ATATGAAAAAATTAAATGA
Found at i:101411859 original size:27 final size:26
Alignment explanation
Indices: 101411788--101411873 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 26
101411778 GAAAAAAATT
101411788 AATGAAATGAAA---AATTA-AATGA
1 AATGAAATGAAATGTAATTATAATGA
101411810 ATATGAAATGAAATGTAATTTATAATGA
1 A-ATGAAATGAAATGTAA-TTATAATGA
* *
101411838 AATGAAATGAAATG--ATGATTATGA
1 AATGAAATGAAATGTAATTATAATGA
*
101411862 AATGGAATGAAA
1 AATGAAATGAAA
101411874 GTTTAAATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
22 1 0.02
23 11 0.20
24 18 0.33
25 1 0.02
26 2 0.04
27 16 0.29
28 6 0.11
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (26 bp):
AATGAAATGAAATGTAATTATAATGA
Found at i:101411947 original size:20 final size:18
Alignment explanation
Indices: 101411900--101411966 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
101411890 AATTATAAAT
*
101411900 TGAAATGAAAAAAAAGAC
1 TGAAATGAAAAAAAAAAC
101411918 TGAAATGAAAAAAAAAAC
1 TGAAATGAAAAAAAAAAC
*
101411936 TGAAATGAGAAATAATAAAAT
1 TGAAATGA-AAA-AA-AAAAC
*
101411957 TTAAATGAAA
1 TGAAATGAAA
101411967 TAGAAATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 25 0.58
19 3 0.07
20 4 0.09
21 11 0.26
ACGTcount: A:0.66, C:0.03, G:0.13, T:0.18
Consensus pattern (18 bp):
TGAAATGAAAAAAAAAAC
Found at i:101411984 original size:5 final size:5
Alignment explanation
Indices: 101411959--101412034 Score: 91
Period size: 5 Copynumber: 14.6 Consensus size: 5
101411949 AATAAAATTT
*
101411959 AAATG AAATAG AAATG TAAATG AAATG AAATAG AAATAC AAATG AAATG
1 AAATG AAAT-G AAATG -AAATG AAATG AAAT-G AAAT-G AAATG AAATG
*
101412008 AAATG GAA-G AAATG AAATG AAATG AAA
1 AAATG AAATG AAATG AAATG AAATG AAA
101412035 ATAAAAAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.05
5 40 0.63
6 20 0.32
ACGTcount: A:0.62, C:0.01, G:0.18, T:0.18
Consensus pattern (5 bp):
AAATG
Found at i:101412021 original size:9 final size:10
Alignment explanation
Indices: 101411959--101412034 Score: 91
Period size: 11 Copynumber: 7.3 Consensus size: 10
101411949 AATAAAATTT
101411959 AAATGAAATAG
1 AAATGAAAT-G
101411970 AAATGTAAATG
1 AAATG-AAATG
101411981 AAATGAAATAG
1 AAATGAAAT-G
*
101411992 AAATACAAATG
1 AAAT-GAAATG
101412003 AAATGAAATG
1 AAATGAAATG
*
101412013 GAA-GAAATG
1 AAATGAAATG
101412022 AAATGAAATG
1 AAATGAAATG
101412032 AAA
1 AAA
101412035 ATAAAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
9 8 0.14
10 20 0.35
11 21 0.37
12 8 0.14
ACGTcount: A:0.62, C:0.01, G:0.18, T:0.18
Consensus pattern (10 bp):
AAATGAAATG
Found at i:101422382 original size:21 final size:21
Alignment explanation
Indices: 101422356--101422396 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
101422346 ATCTGCTCAA
* *
101422356 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
101422377 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
101422397 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:101432443 original size:14 final size:15
Alignment explanation
Indices: 101432417--101432446 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
101432407 AAGATCTAAT
101432417 AAAAGAAACAAACAA
1 AAAAGAAACAAACAA
101432432 AAAAGAAA-AAACAA
1 AAAAGAAACAAACAA
101432446 A
1 A
101432447 GTATCCCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAGAAACAAACAA
Found at i:101438032 original size:2 final size:2
Alignment explanation
Indices: 101438027--101438063 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
101438017 TATATATATA
*
101438027 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
101438064 TTGAGTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:101438212 original size:9 final size:9
Alignment explanation
Indices: 101438187--101438235 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
101438177 AACTTTTTTT
101438187 ATTCTCTCTA
1 ATTCTCTC-A
*
101438197 AAT-TCTCA
1 ATTCTCTCA
101438205 ATTCTCTCA
1 ATTCTCTCA
*
101438214 ACTCTCTCA
1 ATTCTCTCA
*
101438223 ACTCTCTCA
1 ATTCTCTCA
101438232 ATTC
1 ATTC
101438236 CTTCATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 3 0.09
9 29 0.85
10 2 0.06
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:101441087 original size:23 final size:23
Alignment explanation
Indices: 101441061--101441158 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
101441051 ATAAGTGCCA
101441061 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
101441084 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
101441107 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
101441129 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
101441152 CACTGAT
1 CACTGAT
101441159 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:101441126 original size:45 final size:45
Alignment explanation
Indices: 101441068--101441156 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
101441058 CCACACTGAT
* *
101441068 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
101441113 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
101441157 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:101448365 original size:19 final size:19
Alignment explanation
Indices: 101448341--101448395 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
101448331 AATGCCTTTT
101448341 TTTGCATTAATTTCATTCA
1 TTTGCATTAATTTCATTCA
101448360 TTTGCATTACATTTCA-TCA
1 TTTGCATTA-ATTTCATTCA
*
101448379 TATGCATTAAGTTTCAT
1 TTTGCATTAA-TTTCAT
101448396 AAAAAAGACC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.03
19 25 0.78
20 6 0.19
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.49
Consensus pattern (19 bp):
TTTGCATTAATTTCATTCA
Found at i:101449606 original size:14 final size:14
Alignment explanation
Indices: 101449587--101449620 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
101449577 AAGTCCCTAT
101449587 ACATGCTCATGCTC
1 ACATGCTCATGCTC
101449601 ACATGCTCATGCTC
1 ACATGCTCATGCTC
*
101449615 ATATGC
1 ACATGC
101449621 AAAGACGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (14 bp):
ACATGCTCATGCTC
Found at i:101450195 original size:48 final size:48
Alignment explanation
Indices: 101450117--101450342 Score: 173
Period size: 47 Copynumber: 4.9 Consensus size: 48
101450107 CACATGGTAG
* * *
101450117 GATGCCAATGCCATATCCCCGATC-TGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGT-CCCAAACATGGTCTTACATGGGATCACATATC
* ** *
101450165 GATGCCAATGCCATGTCCCAAACATAGTCTTACATGGGAT-GTAGATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
* * * * *
101450212 GATGCGAATGCTATGTCTCAGACACGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
* * * * ** *
101450260 GATGTCGAT---A-G-CCC-AGCTATGGTCTTACACGAAATTACATATC
1 GATGCCAATGCCATGTCCCAAAC-ATGGTCTTACATGGGATCACATATC
* * *
101450303 GATGCCAAAGCAATGTCCCAGACAT-GTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATC
101450343 GTACATAACC
Statistics
Matches: 133, Mismatches: 36, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
42 1 0.01
43 28 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 55 0.41
48 45 0.34
49 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATC
Found at i:101452035 original size:23 final size:25
Alignment explanation
Indices: 101452008--101452053 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
101451998 TAACATTCAT
*
101452008 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
101452031 TTCATCATTTCCATATATTTTAT
1 TTCATCATATCCATATATTTTAT
101452054 ATATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 2 0.11
25 9 0.47
ACGTcount: A:0.28, C:0.15, G:0.02, T:0.54
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:101452492 original size:46 final size:46
Alignment explanation
Indices: 101452315--101452496 Score: 222
Period size: 46 Copynumber: 4.0 Consensus size: 46
101452305 TTTGACGTGA
* * * * * *
101452315 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
101452361 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
101452407 TGCCATGGTATCTTTCAACCATGATCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
101452453 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
101452497 AGAGCACACT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 115 0.97
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:101468110 original size:18 final size:18
Alignment explanation
Indices: 101468087--101468122 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
101468077 TCCAGGCCGT
101468087 GTTGATTTCGTACTTTGG
1 GTTGATTTCGTACTTTGG
101468105 GTTGATTTCGTACTTTGG
1 GTTGATTTCGTACTTTGG
101468123 CTCATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.28, T:0.50
Consensus pattern (18 bp):
GTTGATTTCGTACTTTGG
Found at i:101468131 original size:18 final size:18
Alignment explanation
Indices: 101468091--101468129 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
101468081 GGCCGTGTTG
* *
101468091 ATTTCGTACTTTGGGTTG
1 ATTTCGTACTTTGGGCTC
101468109 ATTTCGTACTTT-GGCTC
1 ATTTCGTACTTTGGGCTC
101468126 ATTT
1 ATTT
101468130 TCTCCGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.51
Consensus pattern (18 bp):
ATTTCGTACTTTGGGCTC
Found at i:101469647 original size:3 final size:3
Alignment explanation
Indices: 101469635--101469670 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
101469625 CAACAACAAC
*
101469635 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
101469671 TATTATTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:101469768 original size:21 final size:21
Alignment explanation
Indices: 101469744--101469827 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 21
101469734 ATCTAATTTT
101469744 TAAAAT-A-AATAGATAGATGAA
1 TAAAATAATAATA-ATAGAT-AA
101469765 TAAAATAATAATAATAGATAA
1 TAAAATAATAATAATAGATAA
**
101469786 TAAAATGGTAATAATA-ATAA
1 TAAAATAATAATAATAGATAA
*
101469806 -AAATATAAATAA-AATAAATAA
1 TAAA-AT-AATAATAATAGATAA
101469827 T
1 T
101469828 GAAAGAAAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
19 3 0.06
20 10 0.19
21 29 0.55
22 7 0.13
23 4 0.08
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.27
Consensus pattern (21 bp):
TAAAATAATAATAATAGATAA
Found at i:101469815 original size:24 final size:24
Alignment explanation
Indices: 101469770--101469815 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
101469760 ATGAATAAAA
*
101469770 TAATAATAATAGATAATAAAATGG
1 TAATAATAATAGAAAATAAAATGG
101469794 TAATAATAATA-AAAATATAAAT
1 TAATAATAATAGAAAATA-AAAT
101469816 AAAATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (24 bp):
TAATAATAATAGAAAATAAAATGG
Found at i:101469840 original size:17 final size:17
Alignment explanation
Indices: 101469817--101469858 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
101469807 AATATAAATA
101469817 AAATAAATAA-TG-AAAG
1 AAATAAA-AATTGAAAAG
101469833 AAAGTAAAAATTGAAAAG
1 AAA-TAAAAATTGAAAAG
101469851 AAATAAAA
1 AAATAAAA
101469859 GAACGATAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 11 0.48
18 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (17 bp):
AAATAAAAATTGAAAAG
Found at i:101469909 original size:15 final size:15
Alignment explanation
Indices: 101469889--101469924 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
101469879 CAATAATTAA
101469889 AATAAAATATAAATG
1 AATAAAATATAAATG
* *
101469904 AATAAAATATATATT
1 AATAAAATATAAATG
101469919 AATAAA
1 AATAAA
101469925 TAAATGAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAAAATATAAATG
Found at i:101469926 original size:19 final size:20
Alignment explanation
Indices: 101469880--101469928 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
101469870 AAATGGATAC
*
101469880 AATAATTAAAATAAAATATA
1 AATAAATAAAATAAAATATA
* * *
101469900 AATGAATAAAAT-ATATATT
1 AATAAATAAAATAAAATATA
101469919 AATAAATAAA
1 AATAAATAAA
101469929 TGAACAAACG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAATAAAATAAAATATA
Found at i:101472082 original size:44 final size:44
Alignment explanation
Indices: 101471959--101472097 Score: 129
Period size: 44 Copynumber: 3.2 Consensus size: 44
101471949 AACGTAACGG
* * **
101471959 ATCTTATCTCCCTGAAG-TGTAGTGGAGCAAATTAAAGCCACAA
1 ATCTCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTAACAA
** * * ** *
101472002 A-CTTCATCTCCCTGAAGTTGCGGTAGAGTAGGTTGAAGTTACAA
1 ATC-TCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTAACAA
* *
101472046 ATCTCATCTCCCTGATGTTGTAGTGGAGCAAATTGAAGATAACGA
1 ATCTCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAG-TAACAA
101472091 ATCTCAT
1 ATCTCAT
101472098 TTCTCTAAAG
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 14 0.19
44 46 0.63
45 12 0.16
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
ATCTCATCTCCCTGAAGTTGTAGTGGAGCAAATTGAAGTAACAA
Found at i:101472321 original size:50 final size:51
Alignment explanation
Indices: 101472185--101472330 Score: 147
Period size: 50 Copynumber: 2.9 Consensus size: 51
101472175 TGAGGATGCG
* * *
101472185 AATCTTATTTCCCTGAAGTTTCAGTGGAATAGATTAAAG-CTACAAGTCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTC-ACAAGTCACA
* * * * * *
101472236 AATCCTAAAC-CCCTGAAGTTGCACTAGG-ATGGATTGAAGTCAC-CGTGACA
1 AAT-CTTATCTCCCTGAAGTTGCAGT-GGAATAGATTGAAGTCACAAGTCACA
*
101472286 AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGTCACAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTCACAA
101472331 ATCTCATCTC
Statistics
Matches: 74, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
49 6 0.08
50 35 0.47
51 27 0.36
52 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (51 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAATAGATTGAAGTCACAAGTCACA
Found at i:101472346 original size:44 final size:44
Alignment explanation
Indices: 101472283--101472368 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
101472273 AGTCACCGTG
* *
101472283 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTGAAGTC
1 ACAAATCTCATCTCCCTGAAGTTGCAGTAGAAAAGATTGAAGTC
* **
101472327 ACAAATCTCATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAG
1 ACAAATCTCATCTCCCTGAAGTTGCAGTAGAAAAGATTGAAG
101472369 ATAGTGAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAAATCTCATCTCCCTGAAGTTGCAGTAGAAAAGATTGAAGTC
Found at i:101472525 original size:44 final size:45
Alignment explanation
Indices: 101472432--101472530 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
101472422 TCTTATTTCA
* * * * * *
101472432 CTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAGTCTTATCTCCT
1 CTGAAGTTGTAATGGAGTAGATTGAAACAACAAATCTTATCACCT
* *
101472477 -TGAAGTTGTAATGGAGTAGATTTAAACAACAAATTTTAT-ACCT
1 CTGAAGTTGTAATGGAGTAGATTGAAACAACAAATCTTATCACCT
101472520 CTGAAGTTGTA
1 CTGAAGTTGTA
101472531 GAGAAGCACC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
43 3 0.07
44 42 0.93
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.33
Consensus pattern (45 bp):
CTGAAGTTGTAATGGAGTAGATTGAAACAACAAATCTTATCACCT
Found at i:101472935 original size:24 final size:24
Alignment explanation
Indices: 101472907--101472958 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
101472897 TGGTGACAAA
101472907 TGTATGGTGATGAATTATTACATG
1 TGTATGGTGATGAATTATTACATG
101472931 TGTATGGTGATGAATTATTACATG
1 TGTATGGTGATGAATTATTACATG
101472955 TGTA
1 TGTA
101472959 CATGTGTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
TGTATGGTGATGAATTATTACATG
Found at i:101479887 original size:26 final size:24
Alignment explanation
Indices: 101479840--101479887 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
101479830 TTCAACTTTA
*
101479840 TTAACTCCTTATTTTTTCTCTCTC
1 TTAACTCCTGATTTTTTCTCTCTC
101479864 TTAACTCTCTGATTTTTTCT-TCTC
1 TTAACTC-CTGATTTTTTCTCTCTC
101479888 CCCACAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.12, C:0.27, G:0.02, T:0.58
Consensus pattern (24 bp):
TTAACTCCTGATTTTTTCTCTCTC
Found at i:101483119 original size:23 final size:23
Alignment explanation
Indices: 101483086--101483137 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
101483076 ATAATTTAAA
*
101483086 AAAATATTCATATTTATATAAT-T
1 AAAATAATCATATTT-TATAATAT
*
101483109 AAAATAATCATATTTTATATTAT
1 AAAATAATCATATTTTATAATAT
101483132 AAAATA
1 AAAATA
101483138 TTTATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATAATCATATTTTATAATAT
Found at i:101486387 original size:16 final size:16
Alignment explanation
Indices: 101486366--101486396 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101486356 GATATTTTAA
101486366 TATATTATATTAATAT
1 TATATTATATTAATAT
*
101486382 TATATTATGTTAATA
1 TATATTATATTAATA
101486397 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:101486490 original size:12 final size:12
Alignment explanation
Indices: 101486473--101486502 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
101486463 CGGGCAGGGG
101486473 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
101486485 AGAAAAAGGGAA
1 AGAAAAAGAGAA
101486497 AGAAAA
1 AGAAAA
101486503 TAAAAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:101487656 original size:21 final size:23
Alignment explanation
Indices: 101487614--101487656 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
101487604 CAATATTCCG
*
101487614 GGTGTGTTTGGGTTGGATATCCT
1 GGTGTGTTTGGGATGGATATCCT
101487637 GGTGTGTTT-GGATGGA-ATCC
1 GGTGTGTTTGGGATGGATATCC
101487657 GCGTATCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 6 0.32
23 9 0.47
ACGTcount: A:0.12, C:0.09, G:0.40, T:0.40
Consensus pattern (23 bp):
GGTGTGTTTGGGATGGATATCCT
Found at i:101494009 original size:16 final size:16
Alignment explanation
Indices: 101493988--101494018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101493978 GATATTTTAA
101493988 TATATTATATTAATAT
1 TATATTATATTAATAT
*
101494004 TATATTATGTTAATA
1 TATATTATATTAATA
101494019 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:101494115 original size:12 final size:12
Alignment explanation
Indices: 101494098--101494127 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
101494088 GAAGCAGGGG
101494098 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
101494110 AGAAAAAGGGAA
1 AGAAAAAGAGAA
101494122 AGAAAA
1 AGAAAA
101494128 TAAAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:101506411 original size:18 final size:17
Alignment explanation
Indices: 101506388--101506433 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
101506378 AGCATACCAC
*
101506388 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
101506406 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
101506424 TTCTGACCAC
1 TTTTGACCAC
101506434 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:101506465 original size:21 final size:21
Alignment explanation
Indices: 101506416--101506475 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
101506406 TTTTGACCAG
* *
101506416 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
101506437 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
101506458 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
101506476 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:101508906 original size:22 final size:22
Alignment explanation
Indices: 101508881--101508931 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
101508871 TCAGAAGTTA
*
101508881 TAAAAATCTAAAAAAATATAAG
1 TAAAAATATAAAAAAATATAAG
* * **
101508903 TAAAAAAATCAAAAAATATATT
1 TAAAAATATAAAAAAATATAAG
101508925 TAAAAAT
1 TAAAAAT
101508932 TCAAATAGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAAAATATAAAAAAATATAAG
Found at i:101509067 original size:28 final size:27
Alignment explanation
Indices: 101509035--101509094 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
101509025 ATGTTATATT
* * *
101509035 AAAAAGTATATCTTTTAATAAAAATAGAA
1 AAAAATTA-ATCTTTCAAAAAAAATA-AA
101509064 AAAAATTAATCTTTCAAAAAAAATAAA
1 AAAAATTAATCTTTCAAAAAAAATAAA
101509091 AAAA
1 AAAA
101509095 TAAATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 15 0.54
29 7 0.25
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (27 bp):
AAAAATTAATCTTTCAAAAAAAATAAA
Found at i:101509084 original size:27 final size:28
Alignment explanation
Indices: 101509035--101509095 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
101509025 ATGTTATATT
* *
101509035 AAAAAGTATATCTTTTAATAAAAATAGAA
1 AAAAATTATATCTTTCAATAAAAA-AGAA
*
101509064 AAAAATTA-ATCTTTCAA-AAAAAATAA
1 AAAAATTATATCTTTCAATAAAAAAGAA
101509090 AAAAAT
1 AAAAAT
101509096 AAATTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 5 0.17
28 8 0.28
29 7 0.24
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (28 bp):
AAAAATTATATCTTTCAATAAAAAAGAA
Found at i:101509447 original size:13 final size:13
Alignment explanation
Indices: 101509429--101509465 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
101509419 CAACCCGCCC
101509429 ATATTAATTTTTT
1 ATATTAATTTTTT
*
101509442 ATATTATTTTTTT
1 ATATTAATTTTTT
*
101509455 ATATAAATTTT
1 ATATTAATTTT
101509466 AAATATACAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:101511464 original size:61 final size:61
Alignment explanation
Indices: 101511369--101511500 Score: 246
Period size: 61 Copynumber: 2.2 Consensus size: 61
101511359 ATCTCTGGCT
101511369 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
1 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
* *
101511430 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTATTGTGCATGAAAGAATAACA
1 TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
101511491 TTTCATGCTT
1 TTTCATGCTT
101511501 GAGCTCTAGG
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 69 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (61 bp):
TTTCATGCTTCACATAACACTCAGCCTTATAAACAATTTTACTGTGCATGAAAGAAAAACA
Found at i:101520889 original size:12 final size:12
Alignment explanation
Indices: 101520872--101520899 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
101520862 TTTAAGATAA
101520872 AATAATGAGTAT
1 AATAATGAGTAT
101520884 AATAATGAGTAT
1 AATAATGAGTAT
101520896 AATA
1 AATA
101520900 CTGCAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (12 bp):
AATAATGAGTAT
Found at i:101521639 original size:19 final size:18
Alignment explanation
Indices: 101521611--101521647 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
101521601 AAATATATAA
*
101521611 TAATATTTTATATTTCTT
1 TAATATTTTATAATTCTT
101521629 TAATGATTTTATAATTCTT
1 TAAT-ATTTTATAATTCTT
101521648 GTTATTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TAATATTTTATAATTCTT
Found at i:101525384 original size:27 final size:27
Alignment explanation
Indices: 101525343--101525419 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
101525333 AGTGAGTCAT
101525343 ATCGGGAAGCTCACAAAGAGCCAATTTA
1 ATCGGGAAGCTCACAAAGAGCC-ATTTA
101525371 AT-GGGAAGCTCACAAAGAGCC-TTTA
1 ATCGGGAAGCTCACAAAGAGCCATTTA
* *
101525396 ATCAGGAAGCTCACGAAGAGCCAT
1 ATCGGGAAGCTCACAAAGAGCCAT
101525420 ATAACAGAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
25 6 0.13
26 17 0.38
27 20 0.44
28 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
ATCGGGAAGCTCACAAAGAGCCATTTA
Found at i:101525881 original size:21 final size:21
Alignment explanation
Indices: 101525855--101525896 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
101525845 TAAAATTAAC
*
101525855 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* *
101525876 TCAATTCCATCCAATTCACAT
1 TCAATTCAATACAATTCACAT
101525897 CCTAGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.36
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:101525882 original size:11 final size:11
Alignment explanation
Indices: 101525866--101525898 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
101525856 CAATTTAATA
*
101525866 CAATTCACATT
1 CAATTCACATC
101525877 CAATTC-CATC
1 CAATTCACATC
101525887 CAATTCACATC
1 CAATTCACATC
101525898 C
1 C
101525899 TAGGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (11 bp):
CAATTCACATC
Found at i:101536698 original size:6 final size:6
Alignment explanation
Indices: 101536687--101536719 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
101536677 TAACTGTTCA
101536687 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATG
101536720 GTTTGCCGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (6 bp):
ATGTAT
Found at i:101544978 original size:21 final size:22
Alignment explanation
Indices: 101544949--101544995 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
101544939 CAGAAGGAGT
*
101544949 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101544971 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
101544992 GAGT
1 GAGT
101544996 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:101548101 original size:36 final size:36
Alignment explanation
Indices: 101548054--101548127 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
101548044 AAAAAAAAAC
101548054 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
1 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
101548090 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
1 AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
101548126 AA
1 AA
101548128 TTTTAGGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (36 bp):
AAGGAAAGTAAGGGATTGAAAATACTTTGTATAGTT
Found at i:101549957 original size:30 final size:30
Alignment explanation
Indices: 101549912--101549968 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
101549902 GTAACCTTAA
*
101549912 TATAATGTCAACTTGTGTGAGCAACTTTAT
1 TATAATATCAACTTGTGTGAGCAACTTTAT
*
101549942 TATAATATCAGCTTGTGTGAGCAACTT
1 TATAATATCAACTTGTGTGAGCAACTT
101549969 ATTCCCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (30 bp):
TATAATATCAACTTGTGTGAGCAACTTTAT
Done.