Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 125 of 129
Found at i:21733270 original size:20 final size:21
Alignment explanation
Indices: 21733242--21733298 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
21733232 TTCAATAAAA
*
21733242 AATATTAATTTTA-ATTAATTT
1 AATAATAATTTTATATT-ATTT
21733263 AA-AATAATAATTTATATTATTT
1 AATAATAAT--TTTATATTATTT
*
21733285 AATAAAAATTTTAT
1 AATAATAATTTTAT
21733299 TTACTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 5 0.17
21 7 0.23
22 10 0.33
23 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATAATAATTTTATATTATTT
Found at i:21733281 original size:23 final size:22
Alignment explanation
Indices: 21733240--21733286 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
21733230 TTTTCAATAA
*
21733240 AAAATATTAATTTTAATTAATTT
1 AAAATAATAATTTTAATT-ATTT
21733263 AAAATAATAA-TTTATATTATTT
1 AAAATAATAATTTTA-ATTATTT
21733285 AA
1 AA
21733287 TAAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATAATAATTTTAATTATTT
Found at i:21747831 original size:36 final size:36
Alignment explanation
Indices: 21747784--21747859 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
21747774 CTGATTCTGC
21747784 ATAGTTATGATGAATTCCATTCCGACAACCAGAAGA
1 ATAGTTATGATGAATTCCATTCCGACAACCAGAAGA
*
21747820 ATAGTTATGATGAATTCCATTCCGACAACCGGAAGA
1 ATAGTTATGATGAATTCCATTCCGACAACCAGAAGA
21747856 ATAG
1 ATAG
21747860 ATAGGTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (36 bp):
ATAGTTATGATGAATTCCATTCCGACAACCAGAAGA
Found at i:21756010 original size:7 final size:7
Alignment explanation
Indices: 21755998--21756023 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21755988 GGAACGTGCT
21755998 GAAGAGA
1 GAAGAGA
21756005 GAAGAGA
1 GAAGAGA
21756012 GAAGAGA
1 GAAGAGA
21756019 GAAGA
1 GAAGA
21756024 AAACAGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (7 bp):
GAAGAGA
Found at i:21756048 original size:7 final size:7
Alignment explanation
Indices: 21756038--21756069 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
21756028 AGAAAGAGGC
21756038 CTAATGG
1 CTAATGG
21756045 CTAATGG
1 CTAATGG
21756052 CTAATGG
1 CTAATGG
21756059 CTAATGG
1 CTAATGG
21756066 CTAA
1 CTAA
21756070 AGGCCTATGC
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:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (7 bp):
CTAATGG
Found at i:21756116 original size:6 final size:6
Alignment explanation
Indices: 21756099--21756134 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
21756089 GCAAGGAGCC
*
21756099 TCATAG TTATAG TCATAG TCATAG TCATAG TCATAG
1 TCATAG TCATAG TCATAG TCATAG TCATAG TCATAG
21756135 CCTCCTCCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (6 bp):
TCATAG
Found at i:21760522 original size:26 final size:25
Alignment explanation
Indices: 21760467--21760527 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
21760457 TTTTATCAAT
* *
21760467 TAAAATAAAATTTTATGTTATTTAA
1 TAAAATAAATTTTTATGATATTTAA
*
21760492 AAAAATAAATTTTCATATGATA-TTAA
1 TAAAATAAATTTT--TATGATATTTAA
21760518 TAAAATAAAT
1 TAAAATAAAT
21760528 AAAAACTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 11 0.37
26 13 0.43
27 6 0.20
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (25 bp):
TAAAATAAATTTTTATGATATTTAA
Found at i:21760716 original size:26 final size:29
Alignment explanation
Indices: 21760687--21760741 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 29
21760677 ATTAAATTTT
21760687 ATTTAATTAA-AATAA-AAAA-ATTAAAA
1 ATTTAATTAATAATAATAAAATATTAAAA
* *
21760713 ATTTGATTAATTATAATAAAATATTAAAA
1 ATTTAATTAATAATAATAAAATATTAAAA
21760742 TCGGGTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 4 0.17
28 4 0.17
29 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (29 bp):
ATTTAATTAATAATAATAAAATATTAAAA
Found at i:21760725 original size:30 final size:30
Alignment explanation
Indices: 21760680--21760741 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
21760670 TCATGAAATT
*
21760680 AAATTTTATTTAATTAAAATAAAAAAATTAA
1 AAATTTGATTTAATTAAAAT-AAAAAATTAA
* *
21760711 AAATTTGA-TTAATTATAATAAAATATTAA
1 AAATTTGATTTAATTAAAATAAAAAATTAA
21760740 AA
1 AA
21760742 TCGGGTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
AAATTTGATTTAATTAAAATAAAAAATTAA
Found at i:21763334 original size:33 final size:33
Alignment explanation
Indices: 21763297--21763365 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
21763287 ACCTGGAAAA
21763297 ACCTCGGCATACCTTGGAATTTCCAAGTGAATG
1 ACCTCGGCATACCTTGGAATTTCCAAGTGAATG
* *
21763330 ACCTCGGGATACCTTGGAATTTTCAAGTGAATG
1 ACCTCGGCATACCTTGGAATTTCCAAGTGAATG
21763363 ACC
1 ACC
21763366 ACAAACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (33 bp):
ACCTCGGCATACCTTGGAATTTCCAAGTGAATG
Found at i:21764585 original size:19 final size:20
Alignment explanation
Indices: 21764558--21764595 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
21764548 AAGAAATTGA
21764558 AGAAGAAGAT-ACGATGGAAG
1 AGAAGAAGATCA-GATGGAAG
21764578 AGAA-AAGATCAGATGGAA
1 AGAAGAAGATCAGATGGAA
21764596 TAGCAAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.53, C:0.05, G:0.32, T:0.11
Consensus pattern (20 bp):
AGAAGAAGATCAGATGGAAG
Found at i:21765593 original size:1 final size:1
Alignment explanation
Indices: 21765562--21765586 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
21765552 AAAAAATGGG
21765562 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
21765587 AGTTTTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21773334 original size:52 final size:52
Alignment explanation
Indices: 21773244--21773368 Score: 187
Period size: 52 Copynumber: 2.4 Consensus size: 52
21773234 TATAAACATA
* * *
21773244 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * *
21773296 CAAACTTACCTATTAAGAATCCCTTTCCTTTTATAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
21773348 CAAACTTACCTATTAAGAATC
1 CAAACTTACCTATTAAGAATC
21773369 ATTTTTCTCT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:21773386 original size:52 final size:52
Alignment explanation
Indices: 21773244--21773400 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
21773234 TATAAACATA
* * * * * * *
21773244 CAAACTTGCCCATTAAGAATCCCTCTCCTCTT-AGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCACTTTCCT-TTGATAATTCTTCTCTTGCAAGT
* *
21773296 CAAACTTACCTATTAAGAATCCCTTTCCTTTTATAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCACTTTCCTTTGATAATTCTTCTCTTGCAAGT
* * *
21773348 CAAACTTACCTATTAAGAATCATTTTTCTCTTGA-AATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCACTTTCCT-TTGATAATTCTTCTCTTGCAAGT
21773400 C
1 C
21773401 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 87 0.95
53 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCACTTTCCTTTGATAATTCTTCTCTTGCAAGT
Found at i:21773441 original size:11 final size:11
Alignment explanation
Indices: 21773425--21773466 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
21773415 GCAATATCTG
21773425 ACAAATCTCAA
1 ACAAATCTCAA
*
21773436 ACAAATCTCTA
1 ACAAATCTCAA
*
21773447 ATAAATCTCAA
1 ACAAATCTCAA
21773458 ACAAATCTC
1 ACAAATCTC
21773467 TTATGGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:21786125 original size:38 final size:38
Alignment explanation
Indices: 21786074--21786149 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
21786064 TAATCTCAAC
*
21786074 CTAAAGCATTTAACCAACAATAGAAAACAATCAAAGAA
1 CTAAAGCAGTTAACCAACAATAGAAAACAATCAAAGAA
*
21786112 CTAAAGCAGTTAACTAACAATAGAAAACAATCAAAGAA
1 CTAAAGCAGTTAACCAACAATAGAAAACAATCAAAGAA
21786150 TCTATATGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.58, C:0.17, G:0.09, T:0.16
Consensus pattern (38 bp):
CTAAAGCAGTTAACCAACAATAGAAAACAATCAAAGAA
Found at i:21786653 original size:13 final size:13
Alignment explanation
Indices: 21786635--21786659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21786625 AATATCTCAG
21786635 AAAAACCAAAAAA
1 AAAAACCAAAAAA
21786648 AAAAACCAAAAA
1 AAAAACCAAAAA
21786660 CAATAATAAT
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:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACCAAAAAA
Found at i:21787164 original size:17 final size:17
Alignment explanation
Indices: 21787142--21787175 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21787132 TGATGGTTGA
*
21787142 GTTTGTTCTTGTTTCAG
1 GTTTGTTCGTGTTTCAG
21787159 GTTTGTTCGTGTTTCAG
1 GTTTGTTCGTGTTTCAG
21787176 CAACAAATGT
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:0.06, C:0.12, G:0.26, T:0.56
Consensus pattern (17 bp):
GTTTGTTCGTGTTTCAG
Found at i:21791116 original size:14 final size:14
Alignment explanation
Indices: 21791097--21791126 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21791087 GAATCCACAC
21791097 AAAGAGAAAAAGAA
1 AAAGAGAAAAAGAA
*
21791111 AAAGAGGAAAAGAA
1 AAAGAGAAAAAGAA
21791125 AA
1 AA
21791127 GTATGATCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGAGAAAAAGAA
Found at i:21794489 original size:21 final size:20
Alignment explanation
Indices: 21794422--21794491 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
21794412 TTGGATGAAT
21794422 AATAAAATTAATT-TTGATAA
1 AATAAAATTAATTATT-ATAA
* * *
21794442 AATTAAAAATAATGA-T-GAA
1 AA-TAAAATTAATTATTATAA
21794461 AA-AAAATTAATTATTATAA
1 AATAAAATTAATTATTATAA
21794480 TAATAAAATTAA
1 -AATAAAATTAA
21794492 AATTAATGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
17 9 0.24
18 1 0.03
19 6 0.16
20 4 0.11
21 18 0.47
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
AATAAAATTAATTATTATAA
Found at i:21796234 original size:13 final size:13
Alignment explanation
Indices: 21796212--21796250 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
21796202 TTTTTTTTAA
*
21796212 ATTTTTATATATT
1 ATTTTAATATATT
**
21796225 ATTTTAATATAAA
1 ATTTTAATATATT
21796238 ATTTTAATATATT
1 ATTTTAATATATT
21796251 TAAGTATATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTAATATATT
Found at i:21797927 original size:21 final size:21
Alignment explanation
Indices: 21797902--21797952 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
21797892 TAAAATATAG
* *
21797902 ATTTTATTTTTTTAATAAATA
1 ATTTTATTTGTTTAACAAATA
* *
21797923 ATTTTAATTGTTTACCAAATA
1 ATTTTATTTGTTTAACAAATA
*
21797944 ACTTTATTT
1 ATTTTATTT
21797953 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTATTTGTTTAACAAATA
Found at i:21798147 original size:30 final size:30
Alignment explanation
Indices: 21798080--21798148 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
21798070 TTATCTTTTT
21798080 AAAAAA-TTTACGTAAAACATTAAAAATTC
1 AAAAAATTTTACGTAAAACATTAAAAATTC
** * ** *
21798109 AAGTAATTTTATGTAAAATTTTGAAAATTC
1 AAAAAATTTTACGTAAAACATTAAAAATTC
21798139 AAAAAATTTT
1 AAAAAATTTT
21798149 CATCTTAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAAATTTTACGTAAAACATTAAAAATTC
Found at i:21798476 original size:54 final size:54
Alignment explanation
Indices: 21798364--21798478 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
21798354 TGTTATACAT
* * * *
21798364 CAATTTTTTTATTTTTTTAGTAACTCTTTTTTAAGATATATTATATTAATATTG
1 CAATTTATTTATTTTTTTAGTAAATCTTTTTTAAAATATATTATATTAATATTA
* **
21798418 CAATTTATTTATTTTTGTTTA-TAAAT-TTTTTTAAAATATATTTTATTGTTATTA
1 CAATTTATTTA-TTTT-TTTAGTAAATCTTTTTTAAAATATATTATATTAATATTA
21798472 CAATTTA
1 CAATTTA
21798479 ATTCTTATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 40 0.77
55 8 0.15
56 4 0.08
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.60
Consensus pattern (54 bp):
CAATTTATTTATTTTTTTAGTAAATCTTTTTTAAAATATATTATATTAATATTA
Found at i:21799470 original size:20 final size:20
Alignment explanation
Indices: 21799445--21799489 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
21799435 ATTTTAATTT
*
21799445 TATAAAAAATTAAAAATATA
1 TATAAAAAATAAAAAATATA
*
21799465 TATAAAAACTAAAAAATATA
1 TATAAAAAATAAAAAATATA
21799485 TATAA
1 TATAA
21799490 TTCGATTTGA
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:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAAAAAATAAAAAATATA
Found at i:21817444 original size:12 final size:12
Alignment explanation
Indices: 21817415--21817445 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
21817405 TTAAATGTTG
21817415 AAAATTTTATTT
1 AAAATTTTATTT
21817427 -AAATTTTATTT
1 AAAATTTTATTT
21817438 AAAATTTT
1 AAAATTTT
21817446 TAATTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
AAAATTTTATTT
Found at i:21818246 original size:2 final size:2
Alignment explanation
Indices: 21818233--21818262 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
21818223 TCTTAATCAT
21818233 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA T
21818263 GTGGAAGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21819289 original size:23 final size:23
Alignment explanation
Indices: 21819262--21819314 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
21819252 TTTTATTAAA
* * *
21819262 ATTTTTTCGATTGTAGTTATAAT
1 ATTTTTTCAATTATAATTATAAT
*
21819285 ATTTTTTTAATTATAATTATAAT
1 ATTTTTTCAATTATAATTATAAT
*
21819308 AATTTTT
1 ATTTTTT
21819315 ATTACTTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (23 bp):
ATTTTTTCAATTATAATTATAAT
Found at i:21819683 original size:12 final size:13
Alignment explanation
Indices: 21819650--21819686 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
21819640 AGTTTATTTA
21819650 AAAATATTAAAA-
1 AAAATATTAAAAT
*
21819662 AATATATTAAAAT
1 AAAATATTAAAAT
21819675 AAAAT-TTAAAAT
1 AAAATATTAAAAT
21819687 TTAAAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATATTAAAAT
Found at i:21820462 original size:4 final size:4
Alignment explanation
Indices: 21820453--21820490 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
21820443 TCTGAATAGC
21820453 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
21820491 GCTGTTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:21824810 original size:13 final size:13
Alignment explanation
Indices: 21824761--21824817 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
21824751 TTTAATGATA
21824761 TTTTTTTTCGTTTT
1 TTTTTTTTC-TTTT
* **
21824775 TTTTTTTTGTCAT
1 TTTTTTTTCTTTT
*
21824788 TGTTTTTTCTTTT
1 TTTTTTTTCTTTT
21824801 TTTTTTTTCTATTT
1 TTTTTTTTCT-TTT
21824815 TTT
1 TTT
21824818 GTGATATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
13 20 0.59
14 14 0.41
ACGTcount: A:0.04, C:0.07, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:21838053 original size:2 final size:2
Alignment explanation
Indices: 21838046--21838075 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
21838036 ACTTACACAT
21838046 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21838076 CTTCCCCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21864083 original size:33 final size:33
Alignment explanation
Indices: 21864007--21864083 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
21863997 AAATATAATT
* *
21864007 ACTTATAATATTATATCAAATATGATAATTTAA
1 ACTTATAATATCAAATCAAATATGATAATTTAA
* *
21864040 ACTTATTAATATCAAATC-ACTATGATGATTTAA
1 ACTTA-TAATATCAAATCAAATATGATAATTTAA
*
21864073 TCATTATAATA
1 AC-TTATAATA
21864084 ATTAAATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (33 bp):
ACTTATAATATCAAATCAAATATGATAATTTAA
Found at i:21865013 original size:18 final size:17
Alignment explanation
Indices: 21864988--21865038 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
21864978 TAATCACCTT
21864988 TATA-ATTTTAATATTTA
1 TATATATTTT-ATATTTA
21865005 -ATATGATTTTATGATTTA
1 TATAT-ATTTTAT-ATTTA
21865023 TATATATTTTATATTT
1 TATATATTTTATATTT
21865039 GGGTCTGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.10
17 6 0.20
18 17 0.57
19 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TATATATTTTATATTTA
Found at i:21872640 original size:2 final size:2
Alignment explanation
Indices: 21872633--21872658 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21872623 TCTTAAGATA
21872633 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21872659 GAAAGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21874541 original size:112 final size:112
Alignment explanation
Indices: 21874318--21874642 Score: 411
Period size: 112 Copynumber: 2.9 Consensus size: 112
21874308 TTTCCTTAGA
* * * ** * *
21874318 ACAAAGGCCTTATTTGATGCTTTTTCCAAAATCTTTGCAAAAGCATTGAATAAGGC-ATC-TCTT
1 ACAAATGCCTTATTTGATGCTTTTTCCAGAATCTTTACAAAAGCATCAAATAAGGCGAGCGTTTT
* * * *
21874381 TGAACAAACGCCTTATTTAACCCATTCAAATAAAGCGTTTCCTTTTT
66 TTAACAAAAGCCTTATTTGACCCATTCAAATAAGGCGTTTCCTTTTT
* * * *
21874428 ACTAATGCCTTATTTAATGCTTTTTTCAGAATCTTTACAAAAGCATCAAATAAGGCGGGCGTTTT
1 ACAAATGCCTTATTTGATGCTTTTTCCAGAATCTTTACAAAAGCATCAAATAAGGCGAGCGTTTT
* *
21874493 TTAACAAATGCCTTATTTGACCCATTCAAATAAGGTGTTTCCTTTTT
66 TTAACAAAAGCCTTATTTGACCCATTCAAATAAGGCGTTTCCTTTTT
* * * * *
21874540 ACAAATGTCTTATTCGATGCTTTTTCCAGAATCTTTACAAAAGCATCAAATAAGGTGTGAGTTTC
1 ACAAATGCCTTATTTGATGCTTTTTCCAGAATCTTTACAAAAGCATCAAATAAGGCGAGCGTTT-
*
21874605 TTTGAACAAAAGCCTTATTTGATCCATTCAAATAAGGC
65 TTT-AACAAAAGCCTTATTTGACCCATTCAAATAAGGC
21874643 AAATAAGGCA
Statistics
Matches: 184, Mismatches: 27, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
110 48 0.26
111 1 0.01
112 101 0.55
113 3 0.02
114 31 0.17
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (112 bp):
ACAAATGCCTTATTTGATGCTTTTTCCAGAATCTTTACAAAAGCATCAAATAAGGCGAGCGTTTT
TTAACAAAAGCCTTATTTGACCCATTCAAATAAGGCGTTTCCTTTTT
Found at i:21874720 original size:80 final size:80
Alignment explanation
Indices: 21874585--21874742 Score: 289
Period size: 80 Copynumber: 2.0 Consensus size: 80
21874575 TACAAAAGCA
* *
21874585 TCAAATAAGGTGTGAGTTTCTTTGAACAAAAGCCTTATTTGATCCATTCAAATAAGGCAAATAAG
1 TCAAATAAGGTGTGAGTTTCTTTCAACAAAAGCCTTATTTGACCCATTCAAATAAGGCAAATAAG
21874650 GCATTGAACAAACAC
66 GCATTGAACAAACAC
*
21874665 TCAAATAAGGTGTGAGTTTCTTTCAACAAAAGCCTTATTTGACCCATTCAGATAAGGCAAATAAG
1 TCAAATAAGGTGTGAGTTTCTTTCAACAAAAGCCTTATTTGACCCATTCAAATAAGGCAAATAAG
21874730 GCATTGAACAAAC
66 GCATTGAACAAAC
21874743 GCTTTATTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAAATAAGGTGTGAGTTTCTTTCAACAAAAGCCTTATTTGACCCATTCAAATAAGGCAAATAAG
GCATTGAACAAACAC
Found at i:21876691 original size:18 final size:18
Alignment explanation
Indices: 21876668--21876717 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
21876658 TTTGATAATT
21876668 TAAAATATAATATAAATA
1 TAAAATATAATATAAATA
21876686 TAAAATTATAA-ATAAATA
1 TAAAA-TATAATATAAATA
**
21876704 CGAAAT-TAATATAA
1 TAAAATATAATATAA
21876718 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 3 0.11
17 5 0.18
18 15 0.54
19 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAATATAATATAAATA
Found at i:21877508 original size:21 final size:23
Alignment explanation
Indices: 21877485--21877537 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
21877475 TGATATAAAA
* *
21877485 ATATAAAAATTTATTAAAATAAT
1 ATATAAAATTTTAATAAAATAAT
21877508 ATGATTTAAAATTTTAATAAAATAAT
1 AT-A--TAAAATTTTAATAAAATAAT
21877534 ATAT
1 ATAT
21877538 GAATTTGCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 3 0.12
24 1 0.04
25 1 0.04
26 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
ATATAAAATTTTAATAAAATAAT
Found at i:21878048 original size:20 final size:20
Alignment explanation
Indices: 21878025--21878069 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
21878015 TAAATTTATA
21878025 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
21878045 TTTATATTTAAAAATAATAT
1 TTTATATTTAAAAATAATAT
21878065 TTTAT
1 TTTAT
21878070 TAATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATATTTAAAAATAATAT
Found at i:21886264 original size:21 final size:21
Alignment explanation
Indices: 21886238--21886280 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21886228 CACAACGACG
21886238 GCAGAACGAGAAATTGTTTGT
1 GCAGAACGAGAAATTGTTTGT
21886259 GCAGAACGAGAAATTGTTTGT
1 GCAGAACGAGAAATTGTTTGT
21886280 G
1 G
21886281 ACATGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (21 bp):
GCAGAACGAGAAATTGTTTGT
Found at i:21889883 original size:15 final size:15
Alignment explanation
Indices: 21889863--21889923 Score: 79
Period size: 15 Copynumber: 4.1 Consensus size: 15
21889853 AAGCTCCAGC
21889863 AGAACCAAAGAAAGA
1 AGAACCAAAGAAAGA
21889878 AGAACCCAAA-AAAGA
1 AGAA-CCAAAGAAAGA
*
21889893 AGAACCGAAGAAAGA
1 AGAACCAAAGAAAGA
* *
21889908 AGAACAAAAGGAAGA
1 AGAACCAAAGAAAGA
21889923 A
1 A
21889924 CCCAAAGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
14 4 0.10
15 31 0.77
16 5 0.12
ACGTcount: A:0.66, C:0.13, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAACCAAAGAAAGA
Found at i:21889933 original size:12 final size:12
Alignment explanation
Indices: 21889873--21889941 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 12
21889863 AGAACCAAAG
21889873 AAAGAAGAACCCAAA
1 AAAGAAGAA-CC--A
21889888 AAAGAAGAACCGAA
1 AAAGAAGAACC--A
21889902 GAAAGAAGAA-CA
1 -AAAGAAGAACCA
*
21889914 AAAGGAAGAACCC
1 AAA-GAAGAACCA
21889927 AAAGAAGAACCA
1 AAAGAAGAACCA
21889939 AAA
1 AAA
21889942 CCAGACCAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
11 3 0.06
12 18 0.38
13 4 0.08
14 5 0.10
15 18 0.38
ACGTcount: A:0.65, C:0.16, G:0.19, T:0.00
Consensus pattern (12 bp):
AAAGAAGAACCA
Found at i:21889935 original size:27 final size:29
Alignment explanation
Indices: 21889863--21889932 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
21889853 AAGCTCCAGC
21889863 AGAACCAAAGAAAGAAGAACCCAAAAAAGA
1 AGAACCAAAGAAAGAAGAA-CCAAAAAAGA
* *
21889893 AGAACCGAAGAAAGAAGAA-C-AAAAGGA
1 AGAACCAAAGAAAGAAGAACCAAAAAAGA
21889920 AGAACCCAAAGAA
1 AGAA-CCAAAGAA
21889933 GAACCAAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 10 0.28
28 8 0.22
30 18 0.50
ACGTcount: A:0.64, C:0.16, G:0.20, T:0.00
Consensus pattern (29 bp):
AGAACCAAAGAAAGAAGAACCAAAAAAGA
Found at i:21892192 original size:29 final size:29
Alignment explanation
Indices: 21892133--21892192 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
21892123 TTTATAATTC
** *
21892133 AAATTTGATCAATACTTATTTAACGATAA
1 AAATTTGATCAATACTTATTTAAAAAAAA
* * *
21892162 AAATTTTATCAATATTTTTTTAAAAAAAA
1 AAATTTGATCAATACTTATTTAAAAAAAA
21892191 AA
1 AA
21892193 TCTATTTAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (29 bp):
AAATTTGATCAATACTTATTTAAAAAAAA
Found at i:21892718 original size:7 final size:7
Alignment explanation
Indices: 21892706--21892731 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21892696 GTTAATAAAT
21892706 ATAATAA
1 ATAATAA
21892713 ATAATAA
1 ATAATAA
21892720 ATAATAA
1 ATAATAA
21892727 ATAAT
1 ATAAT
21892732 TACAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
ATAATAA
Found at i:21892757 original size:13 final size:13
Alignment explanation
Indices: 21892741--21892786 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
21892731 TTACAAATAA
21892741 TTATTATTTATAG
1 TTATTATTTATAG
** *
21892754 TTATTAAAATATAA
1 TTATT-ATTTATAG
21892768 TTATTATTTATAG
1 TTATTATTTATAG
21892781 TTATTA
1 TTATTA
21892787 AAATATAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 16 0.62
14 10 0.38
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (13 bp):
TTATTATTTATAG
Found at i:21892768 original size:27 final size:27
Alignment explanation
Indices: 21892737--21892805 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
21892727 ATAATTACAA
21892737 ATAATTATTATTTATAGTTATTAAAAT
1 ATAATTATTATTTATAGTTATTAAAAT
21892764 ATAATTATTATTTATAGTTATTAAAAT
1 ATAATTATTATTTATAGTTATTAAAAT
*
21892791 ATAAATATTATTTAT
1 ATAATTATTATTTAT
21892806 TAATATATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
ATAATTATTATTTATAGTTATTAAAAT
Found at i:21892771 original size:14 final size:14
Alignment explanation
Indices: 21892749--21892800 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
21892739 AATTATTATT
*
21892749 TATAGTTATTAAAA
1 TATAATTATTAAAA
**
21892763 TATAATTATT-ATT
1 TATAATTATTAAAA
*
21892776 TATAGTTATTAAAA
1 TATAATTATTAAAA
*
21892790 TATAAATATTA
1 TATAATTATTA
21892801 TTTATTAATA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (14 bp):
TATAATTATTAAAA
Found at i:21892805 original size:21 final size:23
Alignment explanation
Indices: 21892745--21892819 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 23
21892735 AAATAATTAT
21892745 TATTTATAGTTATTAAAATATAATTA
1 TATTTATA-TTATTAAAATATAA--A
21892771 TTATTTATAGTTATTAAAATATAAA
1 -TATTTATA-TTATTAAAATATAAA
*
21892796 TA-TTAT-TTATTAATATATATAA
1 TATTTATATTATTAAAATATA-AA
21892818 TA
1 TA
21892820 ATTAATCTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 12 0.26
22 4 0.09
23 4 0.09
24 2 0.04
25 1 0.02
27 23 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
TATTTATATTATTAAAATATAAA
Found at i:21893095 original size:25 final size:26
Alignment explanation
Indices: 21893067--21893115 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21893057 TAATTATGGT
*
21893067 ATCA-ATTTATAAAATTTTTTATTAG
1 ATCATATTTATAAAATTATTTATTAG
* *
21893092 ATCATTTTTTTAAAATTATTTATT
1 ATCATATTTATAAAATTATTTATT
21893116 TTTACACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (26 bp):
ATCATATTTATAAAATTATTTATTAG
Found at i:21899097 original size:16 final size:15
Alignment explanation
Indices: 21899076--21899109 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21899066 GATGAAAGAG
*
21899076 AAAGTAAAACATAAAA
1 AAAGTAAAA-AGAAAA
21899092 AAAGTAAAAAGAAAA
1 AAAGTAAAAAGAAAA
21899107 AAA
1 AAA
21899110 AACCTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (15 bp):
AAAGTAAAAAGAAAA
Found at i:21901944 original size:16 final size:18
Alignment explanation
Indices: 21901923--21901963 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
21901913 TTTTTAACAT
21901923 ATAAATATA-AAAT-TAA
1 ATAAATATATAAATATAA
*
21901939 ATAAATATATAAATATAT
1 ATAAATATATAAATATAA
21901957 ATAAATA
1 ATAAATA
21901964 AAATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAATATATAAATATAA
Found at i:21901948 original size:18 final size:18
Alignment explanation
Indices: 21901927--21901986 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
21901917 TAACATATAA
21901927 ATATAAAATTAAATAAAT
1 ATATAAAATTAAATAAAT
*
21901945 ATAT-AAATATATATAAAT
1 ATATAAAAT-TAAATAAAT
*
21901963 AAAATAAAATT-AAT-AAT
1 -ATATAAAATTAAATAAAT
21901980 A-ATAAAA
1 ATATAAAA
21901987 ATTTTACATG
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
15 6 0.17
16 1 0.03
17 7 0.19
18 14 0.39
19 4 0.11
20 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATATAAAATTAAATAAAT
Found at i:21901965 original size:32 final size:31
Alignment explanation
Indices: 21901921--21901981 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
21901911 ATTTTTTAAC
*
21901921 ATATAAATATAAAATTAAATAAATATATAAAT
1 ATATAAATATAAAATAAAATAAATA-ATAAAT
*
21901953 ATATATAA-ATAAAATAAAATTAATAATAA
1 ATATA-AATATAAAATAAAATAAATAATAA
21901982 TAAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.15
32 20 0.77
33 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (31 bp):
ATATAAATATAAAATAAAATAAATAATAAAT
Found at i:21902391 original size:95 final size:95
Alignment explanation
Indices: 21902228--21902418 Score: 346
Period size: 95 Copynumber: 2.0 Consensus size: 95
21902218 AGTGTGTACT
*
21902228 ATTTTACGAGGGTTAAACCAAGCAATGGTGACGATAGTGGTTCGAACTTCATATGTTTACCGGAA
1 ATTTTACAAGGGTTAAACCAAGCAATGGTGACGATAGTGGTTCGAACTTCATATGTTTACCGGAA
21902293 TGAATGTGTTGTATAAATTGGTAGCAAATG
66 TGAATGTGTTGTATAAATTGGTAGCAAATG
* * *
21902323 ATTTTACAAGGGTTATACCAAGCAATGGTGATGATAGTGGTTCGAACTTCATATGTTTGCCGGAA
1 ATTTTACAAGGGTTAAACCAAGCAATGGTGACGATAGTGGTTCGAACTTCATATGTTTACCGGAA
21902388 TGAATGTGTTGTATAAATTGGTAGCAAATG
66 TGAATGTGTTGTATAAATTGGTAGCAAATG
21902418 A
1 A
21902419 CGGAACGAGC
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.32
Consensus pattern (95 bp):
ATTTTACAAGGGTTAAACCAAGCAATGGTGACGATAGTGGTTCGAACTTCATATGTTTACCGGAA
TGAATGTGTTGTATAAATTGGTAGCAAATG
Found at i:21902521 original size:82 final size:82
Alignment explanation
Indices: 21902374--21902527 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 82
21902364 TCGAACTTCA
* * *
21902374 TATGTTTGCCGGAATGAATGTGTTGTATAAATTGGTAGCAAATGACGGAACGAGCTCGAGGATCA
1 TATGCTTGCCGGAATGAATGTGTTGTAGAAATTGGTAGCAAATGACGGAACGAGCTCAAGGATCA
21902439 AACTCTTAACTTCAAAC
66 AACTCTTAACTTCAAAC
* ** * *
21902456 TATGCTTGCTGGAATGAATGTGTTGCT-GAAATTGGTAGCATGTGATGGAACGAGCTTAAGGATC
1 TATGCTTGCCGGAATGAATGTGTTG-TAGAAATTGGTAGCAAATGACGGAACGAGCTCAAGGATC
21902520 AAACTCTT
65 AAACTCTT
21902528 GCTCCTCTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 62 0.98
83 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (82 bp):
TATGCTTGCCGGAATGAATGTGTTGTAGAAATTGGTAGCAAATGACGGAACGAGCTCAAGGATCA
AACTCTTAACTTCAAAC
Found at i:21911661 original size:15 final size:15
Alignment explanation
Indices: 21911643--21911672 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
21911633 ATCAATGTTC
21911643 TTTGCTAGTCGTTTA
1 TTTGCTAGTCGTTTA
21911658 TTTGCTAGTCGTTTA
1 TTTGCTAGTCGTTTA
21911673 ATGGAGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.53
Consensus pattern (15 bp):
TTTGCTAGTCGTTTA
Found at i:21914975 original size:23 final size:23
Alignment explanation
Indices: 21914949--21914993 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
21914939 TAAATATTAT
*
21914949 TTTTAAAAAATTATTATATAAAC
1 TTTTAAAAAATTATTACATAAAC
*
21914972 TTTTAAAAATTTATTACATAAA
1 TTTTAAAAAATTATTACATAAA
21914994 TTAACTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTTAAAAAATTATTACATAAAC
Found at i:21915736 original size:15 final size:14
Alignment explanation
Indices: 21915716--21915746 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
21915706 ATAATACGAT
21915716 ATAAAAATAATAAAA
1 ATAAAAAT-ATAAAA
21915731 ATAAAAATATAAAA
1 ATAAAAATATAAAA
21915745 AT
1 AT
21915747 GACACGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAAAATATAAAA
Found at i:21915795 original size:21 final size:21
Alignment explanation
Indices: 21915762--21915802 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21915752 GATTTAAAAT
21915762 TTTAACAAAAATCATAAATAAA
1 TTTAACAAAAATCA-AAATAAA
21915784 TTTAAC-AAAATCAAAATAA
1 TTTAACAAAAATCAAAATAA
21915803 TGTATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (21 bp):
TTTAACAAAAATCAAAATAAA
Found at i:21918469 original size:40 final size:40
Alignment explanation
Indices: 21918414--21918503 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
21918404 ATAAAATTCG
* * * * *
21918414 AATTTCACTTTATTATTATCAAATTAAGTCAAGTTCAGAC
1 AATTTAACTTTATTATTATAAAATTAAATCAAATTCAAAC
21918454 AATTTAACTTTATTATTATAAAATTAAATCAAATTCAAAC
1 AATTTAACTTTATTATTATAAAATTAAATCAAATTCAAAC
21918494 AATTTAACTT
1 AATTTAACTT
21918504 ATCCCATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.41
Consensus pattern (40 bp):
AATTTAACTTTATTATTATAAAATTAAATCAAATTCAAAC
Found at i:21918607 original size:19 final size:19
Alignment explanation
Indices: 21918583--21918626 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
21918573 AATTTACAAA
21918583 TTTAATCATATTTTTA-AAT
1 TTTAAT-ATATTTTTATAAT
* *
21918602 TTTAATGTATTTTTATTAT
1 TTTAATATATTTTTATAAT
21918621 TTTAAT
1 TTTAAT
21918627 TAAAATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTAATATATTTTTATAAT
Found at i:21922137 original size:7 final size:7
Alignment explanation
Indices: 21922122--21922153 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
21922112 CCATCTAAAA
21922122 AAACCCT
1 AAACCCT
*
21922129 AAACGCT
1 AAACCCT
21922136 AAACCCT
1 AAACCCT
21922143 AAACCCT
1 AAACCCT
21922150 AAAC
1 AAAC
21922154 ATAAGCTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.38, G:0.03, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:21928718 original size:21 final size:20
Alignment explanation
Indices: 21928693--21928737 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
21928683 ATTTTATAAC
*
21928693 AAAATT-TATTTAAATATATTT
1 AAAATTATA-TTAAATA-ATAT
21928714 AAAATTATATTAAATAATAT
1 AAAATTATATTAAATAATAT
21928734 AAAA
1 AAAA
21928738 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 7 0.32
21 13 0.59
22 2 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTATATTAAATAATAT
Found at i:21928736 original size:20 final size:21
Alignment explanation
Indices: 21928693--21928737 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
21928683 ATTTTATAAC
*
21928693 AAAATTTATTTAAATATATTT
1 AAAATTTATTTAAATATATAT
21928714 AAAA-TTATATTAAATA-ATAT
1 AAAATTTAT-TTAAATATATAT
21928734 AAAA
1 AAAA
21928738 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAAATTTATTTAAATATATAT
Found at i:21928739 original size:22 final size:21
Alignment explanation
Indices: 21928687--21928739 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
21928677 ATAATTATTT
21928687 TATAACAAAATTTATTTAAATA
1 TATAA-AAAATTTATTTAAATA
**
21928709 TATTTAAAA-TTATATTAAATAA
1 TATAAAAAATTTAT-TTAAAT-A
21928731 TATAAAAAA
1 TATAAAAAA
21928740 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.16
21 10 0.40
22 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TATAAAAAATTTATTTAAATA
Found at i:21928851 original size:33 final size:32
Alignment explanation
Indices: 21928777--21928844 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
21928767 CTGAATAAAT
*
21928777 AAATTTAATTCAAATCAAATCAAATTATATAA
1 AAATTTAATTCAAATAAAATCAAATTATATAA
21928809 AAATTTAATTCAAACTAAAATCAAATT-T-TAA
1 AAATTTAATTCAAA-TAAAATCAAATTATATAA
21928840 AAATT
1 AAATT
21928845 CATAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 8 0.24
32 15 0.44
33 11 0.32
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (32 bp):
AAATTTAATTCAAATAAAATCAAATTATATAA
Found at i:21933327 original size:20 final size:20
Alignment explanation
Indices: 21933299--21933337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21933289 TTTTATTAAT
*
21933299 TTAATTTTTAATCAAAATAA
1 TTAAATTTTAATCAAAATAA
*
21933319 TTAAATTTTAATTAAAATA
1 TTAAATTTTAATCAAAATA
21933338 TAATAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATTTTAATCAAAATAA
Found at i:21933479 original size:14 final size:15
Alignment explanation
Indices: 21933462--21933490 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21933452 TTAATTAGTT
21933462 TTAAATA-TAAAATA
1 TTAAATATTAAAATA
21933476 TTAAATATTAAAATA
1 TTAAATATTAAAATA
21933491 ATTTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAATATTAAAATA
Found at i:21933587 original size:22 final size:20
Alignment explanation
Indices: 21933562--21933614 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
21933552 TTTAAATTAT
21933562 AAAATTTAATTCAATTAATAAA
1 AAAATTTAATTCAATT--TAAA
* *
21933584 AAAATATAATTTAATTTAAA
1 AAAATTTAATTCAATTTAAA
*
21933604 ATAATTTAATT
1 AAAATTTAATT
21933615 TTAAACTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 13 0.48
22 14 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTTAATTCAATTTAAA
Found at i:21933986 original size:27 final size:30
Alignment explanation
Indices: 21933932--21934012 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 30
21933922 TTGAAATTAC
* * *
21933932 TTAATAATTTATAA-AAATCATATTTTTATAA
1 TTAATAA-ATATAATAAATAATATTTATAT-A
21933963 TTTAAT-AAT-T-ATAAATAATATTTATATA
1 -TTAATAAATATAATAAATAATATTTATATA
21933991 TTAATAAATATAATAAATAATA
1 TTAATAAATATAATAAATAATA
21934013 ACTAATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 15 0.36
30 11 0.26
31 1 0.02
32 5 0.12
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TTAATAAATATAATAAATAATATTTATATA
Found at i:21934193 original size:18 final size:18
Alignment explanation
Indices: 21934167--21934205 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21934157 TAAAATCATT
*
21934167 TTTATATTTTTATATGAA
1 TTTAGATTTTTATATGAA
* *
21934185 TTTAGATTTTTTTATTAA
1 TTTAGATTTTTATATGAA
21934203 TTT
1 TTT
21934206 TACATATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTAGATTTTTATATGAA
Found at i:21934317 original size:18 final size:16
Alignment explanation
Indices: 21934277--21934319 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
21934267 AACATTTTAT
21934277 TTTTTAATTTTATATA
1 TTTTTAATTTTATATA
*
21934293 TTATTAATTTTATAATTA
1 TTTTTAATTTTAT-A-TA
21934311 TTTTTAATT
1 TTTTTAATT
21934320 ATGATATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 12 0.52
17 1 0.04
18 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTAATTTTATATA
Found at i:21938365 original size:32 final size:33
Alignment explanation
Indices: 21938328--21938423 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 33
21938318 AAGATAAAAA
21938328 ATTTAAAATAAATTACATAAATATACATTGAAG
1 ATTTAAAATAAATTACATAAATATACATTGAAG
** * *
21938361 -TTT--AATGCGATT---TAAATTTACTTTG-AG
1 ATTTAAAAT-AAATTACATAAATATACATTGAAG
21938388 ATTTAAAATAAATTACATAAATATACATTGAA-
1 ATTTAAAATAAATTACATAAATATACATTGAAG
21938420 ATTT
1 ATTT
21938424 TGGGTTTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 17
0.65 0.11 0.24
Matches are distributed among these distances:
27 2 0.04
28 14 0.30
29 3 0.06
30 6 0.13
31 3 0.06
32 18 0.38
33 1 0.02
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (33 bp):
ATTTAAAATAAATTACATAAATATACATTGAAG
Found at i:21941157 original size:26 final size:27
Alignment explanation
Indices: 21941119--21941170 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
21941109 ACCAAATAAA
21941119 ATTTTTAATTAATTATTTAAATTGAAT
1 ATTTTTAATTAATTATTTAAATTGAAT
21941146 ATTTTTAA-TAATTATTTAAATTGAA
1 ATTTTTAATTAATTATTTAAATTGAA
21941171 ATCCAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (27 bp):
ATTTTTAATTAATTATTTAAATTGAAT
Found at i:21941735 original size:21 final size:21
Alignment explanation
Indices: 21941693--21941731 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
21941683 ATTTTTTTTG
* *
21941693 TTTTATTCATTTATTCAATAT
1 TTTTATTCATTTACTAAATAT
21941714 TTTTATT-ATTTACTAAAT
1 TTTTATTCATTTACTAAAT
21941732 TATTAACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTATTCATTTACTAAATAT
Found at i:21944349 original size:17 final size:18
Alignment explanation
Indices: 21944327--21944360 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21944317 TCTTTTATTT
*
21944327 AGTTTTTTACTA-CTTAA
1 AGTTTTTAACTATCTTAA
21944344 AGTTTTTAACTATCTTA
1 AGTTTTTAACTATCTTA
21944361 GGACTTCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (18 bp):
AGTTTTTAACTATCTTAA
Found at i:21949190 original size:2 final size:2
Alignment explanation
Indices: 21949174--21949209 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
21949164 TCCTTTGTTT
* *
21949174 TA TA TA CA TA CA 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
21949210 GGTATGTATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:21954272 original size:86 final size:85
Alignment explanation
Indices: 21954134--21954307 Score: 285
Period size: 86 Copynumber: 2.0 Consensus size: 85
21954124 GGTTGAATTC
* *
21954134 TAAGAATCAACCTGTTGTTTTGCTTTTGCCCCTGGATTCAGTTTTAGAAGGTATATTCTTTGATA
1 TAAGAATCAACCTGTTGTTTTGCGTTTGCCCCTGGATTCAGTTTTAGAAGGTATATTCTTCGATA
* *
21954199 GAAATTTGTATAGTTGAAAAT
66 GAAATATGTATAATTG-AAAT
* *
21954220 TAAGAATCAACCTGTTGTTTTGCGTTTGCCCCTGGATTCAGTTTTAGTAGGTATTTTCTTCGATA
1 TAAGAATCAACCTGTTGTTTTGCGTTTGCCCCTGGATTCAGTTTTAGAAGGTATATTCTTCGATA
21954285 GAAATATGTATAATTGAAAT
66 GAAATATGTATAATTGAAAT
21954305 TAA
1 TAA
21954308 CAATGTATTA
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 7 0.09
86 75 0.91
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (85 bp):
TAAGAATCAACCTGTTGTTTTGCGTTTGCCCCTGGATTCAGTTTTAGAAGGTATATTCTTCGATA
GAAATATGTATAATTGAAAT
Found at i:21971802 original size:101 final size:101
Alignment explanation
Indices: 21971625--21971827 Score: 325
Period size: 101 Copynumber: 2.0 Consensus size: 101
21971615 TGATTTGTTG
* *
21971625 GTGACTTACGCTTCTTGATTGATTTACTTACCTAGCTTTTGATTTCCTAATTGCACTGCTCAGGA
1 GTGACTTACGCTTCTTGATTAATTTACTTACCTAGCTTTTGATTTCCTAATTGCACAGCTCAGGA
*
21971690 AACTTGGTGATTCTGAATTTCAAAATCCTTTTGCAA
66 AACTTGATGATTCTGAATTTCAAAATCCTTTTGCAA
** * **
21971726 GTGACTTGTGCTTCTTGATTAATTTACTTACCTTGCTTTTGATTTCCTTCTTGCACAGCTCAGGA
1 GTGACTTACGCTTCTTGATTAATTTACTTACCTAGCTTTTGATTTCCTAATTGCACAGCTCAGGA
*
21971791 AACTTGATGATTCTGAATTTCGAAATCCTTTTGCAA
66 AACTTGATGATTCTGAATTTCAAAATCCTTTTGCAA
21971827 G
1 G
21971828 GGCTTATATC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 93 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (101 bp):
GTGACTTACGCTTCTTGATTAATTTACTTACCTAGCTTTTGATTTCCTAATTGCACAGCTCAGGA
AACTTGATGATTCTGAATTTCAAAATCCTTTTGCAA
Found at i:21972889 original size:128 final size:128
Alignment explanation
Indices: 21972661--21972916 Score: 512
Period size: 128 Copynumber: 2.0 Consensus size: 128
21972651 CGATTGCGAT
21972661 GGACAAGTTTATGGTGCATATGTAGGTATAGGCCTATAGACCAATTGCTGAAAGAATGATTATGC
1 GGACAAGTTTATGGTGCATATGTAGGTATAGGCCTATAGACCAATTGCTGAAAGAATGATTATGC
21972726 CTGCATTAAGCAGAGTTTTTATGTTTACAATGCTATAAACTTAATGGGTGACTAATTTTAGGC
66 CTGCATTAAGCAGAGTTTTTATGTTTACAATGCTATAAACTTAATGGGTGACTAATTTTAGGC
21972789 GGACAAGTTTATGGTGCATATGTAGGTATAGGCCTATAGACCAATTGCTGAAAGAATGATTATGC
1 GGACAAGTTTATGGTGCATATGTAGGTATAGGCCTATAGACCAATTGCTGAAAGAATGATTATGC
21972854 CTGCATTAAGCAGAGTTTTTATGTTTACAATGCTATAAACTTAATGGGTGACTAATTTTAGGC
66 CTGCATTAAGCAGAGTTTTTATGTTTACAATGCTATAAACTTAATGGGTGACTAATTTTAGGC
21972917 TCATCATACA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (128 bp):
GGACAAGTTTATGGTGCATATGTAGGTATAGGCCTATAGACCAATTGCTGAAAGAATGATTATGC
CTGCATTAAGCAGAGTTTTTATGTTTACAATGCTATAAACTTAATGGGTGACTAATTTTAGGC
Found at i:21974355 original size:21 final size:22
Alignment explanation
Indices: 21974317--21974357 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21974307 TAATCAAATT
**
21974317 AAATTTAAATTTTATTATAATA
1 AAATTTAAATAATATTATAATA
21974339 AAATTTAAATAAT-TTATAA
1 AAATTTAAATAATATTATAA
21974358 ATATTAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTTAAATAATATTATAATA
Found at i:21978912 original size:19 final size:21
Alignment explanation
Indices: 21978874--21978916 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
21978864 ATATTAAGTA
21978874 TATTTATATATAAATGAATTAT
1 TATTTATATATAAA-GAATTAT
21978896 TATTT-TATATAAA-AATTAT
1 TATTTATATATAAAGAATTAT
21978915 TA
1 TA
21978917 CAATAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
21 8 0.38
22 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTATATATAAAGAATTAT
Found at i:21988453 original size:62 final size:57
Alignment explanation
Indices: 21988387--21988704 Score: 252
Period size: 58 Copynumber: 5.3 Consensus size: 57
21988377 AAGAATAATC
* *
21988387 ATTTTTGTGCAGGAAAAATTAATACTTTTAACTTTTCCCAAAAAATTGATTTTTTTTAATTT
1 ATTTTT-T-CAGG-AAAATTGATACTTTCAACTTTTCCCAAAAAA-T-ATTTTTTTTAATTT
* *
21988449 ATTTTTTTAAGGAAAATTGATACTTTCAACTTTTTCCCAAGAAATATTTTTTTTGAAAATTT
1 A-TTTTTTCAGGAAAATTGATACTTTCAAC-TTTTCCCAAAAAATATTTTTTTT---AATTT
* *
21988511 -TGATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAATTT
1 AT-TTTTTC-AGGAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTT-TAATTT
* * * ***
21988571 -TATTTTTAAGAAAAATTGATACTTTCAATTTTTCCTC-AAAAATATTTTTGGAAACTTT
1 AT-TTTTTCAGGAAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTTAA-TTT
** *
21988629 -GGTTTTCAAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATATTTTTT-ATTT
1 ATTTTTTC-AGGAAAATTGATACTTTCAACTTTT-CCCAAAAA-ATATTTTTTTTAATTT
* * *
21988687 -TTATTTAAAGAAAATTGA
1 ATTTTTTCAGGAAAATTGA
21988705 ATAATAAAAC
Statistics
Matches: 213, Mismatches: 29, Indels: 33
0.77 0.11 0.12
Matches are distributed among these distances:
57 17 0.08
58 45 0.21
59 43 0.20
60 35 0.16
61 25 0.12
62 43 0.20
63 5 0.02
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (57 bp):
ATTTTTTCAGGAAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTTAATTT
Found at i:21988590 original size:59 final size:58
Alignment explanation
Indices: 21988401--21988682 Score: 318
Period size: 62 Copynumber: 4.7 Consensus size: 58
21988391 TTGTGCAGGA
* * * * *
21988401 AAAATTAATACTTTTAACTTTTCCCAAAAAATTGATTTTTTT-TAATTTATTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCAAAAAA-T-ATTTTTTTGAAATTT-TATTTTCAAGG
*
21988461 AAAATTGATACTTTCAACTTTTTCCCAAGAAATATTTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCAAAAAATA-TTTTTTTG-AAATTTT-ATTTTCAAGG
* *
21988523 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTGAAATTTTATTTTCAAGG
* * **
21988582 AAAATTGATACTTTCAATTTTTCCTC-AAAAATA-TTTTTGGAAACTTTGGTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCC-CAAAAAATATTTTTTTGAAA-TTTTATTTTCAAGG
21988640 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATATTTTTT
1 AAAATTGATACTTTCAACTTTT-CCCAAAAA-ATAT-TTTTTT
21988683 ATTTTTATTT
Statistics
Matches: 193, Mismatches: 17, Indels: 22
0.83 0.07 0.09
Matches are distributed among these distances:
57 9 0.05
58 39 0.20
59 40 0.21
60 34 0.18
61 27 0.14
62 44 0.23
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.46
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCAAAAAATATTTTTTTGAAATTTTATTTTCAAGG
Found at i:21988645 original size:58 final size:58
Alignment explanation
Indices: 21988401--21988673 Score: 286
Period size: 58 Copynumber: 4.6 Consensus size: 58
21988391 TTGTGCAGGA
* * ** *
21988401 AAAATTAATACTTTTAACTTTTCC-CAAAAAATTGATTTTTT-TTAATTT-ATTTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAA-T-ATTTTTTGGAAATTTGA--TTTTCAAGG
*
21988461 AAAATTGATACTTTCAACTTTTTCC-CAAGAAATATTTTTTTTGAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAA-AAATA--TTTTTTGGAAA-TTTGATTTTCAAGG
* * * *
21988523 AAAATTGATACTTTCAACTTTTCCTCAAAAAATATTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGGAAATTTGATTTTCAAGG
* *
21988582 AAAATTGATACTTTCAATTTTTCCTCAAAAATA-TTTTTGGAAACTTTGGTTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAA-TTTGATTTTCAAGG
*
21988640 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT
21988674 ATATTTTTTA
Statistics
Matches: 184, Mismatches: 18, Indels: 23
0.82 0.08 0.10
Matches are distributed among these distances:
57 9 0.05
58 48 0.26
59 37 0.20
60 28 0.15
61 22 0.12
62 34 0.18
63 5 0.03
64 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAATTTGATTTTCAAGG
Found at i:21988730 original size:6 final size:5
Alignment explanation
Indices: 21988707--21988787 Score: 67
Period size: 5 Copynumber: 15.4 Consensus size: 5
21988697 AAAATTGAAT
*
21988707 AATAA AACAA AATAAA AATGAA AATAA AA-AA AATAA AATAA AGA-AA
1 AATAA AATAA AAT-AA AAT-AA AATAA AATAA AATAA AATAA A-ATAA
* *
21988753 AGTAA AACAAA AATAAA AATAA AATAA AGATAA AA
1 AATAA AA-TAA AAT-AA AATAA AATAA A-ATAA AA
21988788 AATATTAACT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.06
5 33 0.53
6 25 0.40
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (5 bp):
AATAA
Found at i:21988818 original size:4 final size:4
Alignment explanation
Indices: 21988809--21988868 Score: 74
Period size: 4 Copynumber: 15.8 Consensus size: 4
21988799 AACTTAATCT
*
21988809 AATA AAT- AA-A AATA AATA AATA AA-A AACA AAT- AATAA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A AATA AATA
21988854 AATA AATA AATA AAT
1 AATA AATA AATA AAT
21988869 TAAAAAAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
3 10 0.20
4 37 0.74
5 3 0.06
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.22
Consensus pattern (4 bp):
AATA
Found at i:21988874 original size:27 final size:26
Alignment explanation
Indices: 21988809--21988874 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 26
21988799 AACTTAATCT
21988809 AATAAA-TAAAAATAAATAAATAAAA
1 AATAAATTAAAAATAAATAAATAAAA
* *
21988834 AACAAATAATAAAATAAATAAATAAATA
1 AATAAATTA-AAAATAAATAAATAAA-A
21988862 AATAAATTAAAAA
1 AATAAATTAAAAA
21988875 AAAACCTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 5 0.15
26 1 0.03
27 20 0.59
28 8 0.24
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (26 bp):
AATAAATTAAAAATAAATAAATAAAA
Found at i:21989806 original size:8 final size:8
Alignment explanation
Indices: 21989793--21989831 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
21989783 ATAATTAGAT
21989793 AAATAAAA
1 AAATAAAA
*
21989801 ATATAAAA
1 AAATAAAA
21989809 TAAATAAAA
1 -AAATAAAA
21989818 AAATAAAA
1 AAATAAAA
21989826 TAAATA
1 -AAATA
21989832 TATATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 15 0.56
9 12 0.44
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAATAAAA
Found at i:21989813 original size:17 final size:17
Alignment explanation
Indices: 21989791--21989831 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
21989781 ATATAATTAG
*
21989791 ATAAATAAAAATATAAA
1 ATAAATAAAAAAATAAA
21989808 ATAAATAAAAAAATAAA
1 ATAAATAAAAAAATAAA
21989825 ATAAATA
1 ATAAATA
21989832 TATATTACTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
ATAAATAAAAAAATAAA
Found at i:21989940 original size:12 final size:12
Alignment explanation
Indices: 21989900--21989946 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
21989890 ATATACATAA
*
21989900 AAAATAAAA-AT
1 AAAATAAAATAC
*
21989911 AAAATAAAAGGAAC
1 AAAATAAAA--TAC
21989925 AAAATAAAATAC
1 AAAATAAAATAC
21989937 AAAATAAAAT
1 AAAATAAAAT
21989947 TGGACTTACC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 9 0.29
12 12 0.39
14 10 0.32
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAC
Found at i:21991260 original size:41 final size:40
Alignment explanation
Indices: 21991214--21991298 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
21991204 TAAATCATAC
* * *
21991214 ATTATA-TTTTGATTTAATTAAATTGATATATTTTTTTATAT
1 ATTATAGTTTTGATTT-ATTAAATTGA-AAATATCTTTATAT
*
21991255 ATTATAGGTTTTGATTTCTTAAATTGAAAATATCTTTATAT
1 ATTATA-GTTTTGATTTATTAAATTGAAAATATCTTTATAT
21991296 ATT
1 ATT
21991299 TCTGAACTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 20 0.53
42 9 0.24
43 9 0.24
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (40 bp):
ATTATAGTTTTGATTTATTAAATTGAAAATATCTTTATAT
Found at i:21996450 original size:269 final size:269
Alignment explanation
Indices: 21995967--21996481 Score: 913
Period size: 269 Copynumber: 1.9 Consensus size: 269
21995957 CAGAACAAAG
21995967 AACAAACAAGTCAAAAGATTTCAAGTAAAGGGTAAGAACAAAATCTATAAAGAGAGTTATCTTTT
1 AACAAACAAGTCAAAAGATTTCAAGTAAAGGGTAAGAACAAAATCTATAAAGAGAGTTATCTTTT
*
21996032 ATAGGTGAATAAATAATTTTTTTTTAATTTTGAATAAATAATATTGATTGTTAAGTCTTGAGGTA
66 AGAGGTGAATAAATAATTTTTTTTTAATTTTGAATAAATAATATTGATTGTTAAGTCTTGAGGTA
21996097 TAACTTATAATAAAAAAACTCTAAAACTTTAAAAAATCCATTATCCCTCTTCAAGATTGGTTTGA
131 TAACTTATAATAAAAAAACTCTAAAACTTTAAAAAATCCATTATCCCTCTTCAAGATTGGTTTGA
*
21996162 GCAAATCATTTAGACTTTAATAAGAGTTTAATAAAGTGTTGAGAAAGTTTATTTCTTCTTTCTTT
196 GCAAATCATTTAAACTTTAATAAGAGTTTAATAAAGTGTTGAGAAAGTTTATTTCTTCTTTCTTT
21996227 CTTATACAA
261 CTTATACAA
* *
21996236 AACAAACAAGTCAAAAGATTTCAAGTAAATGGTAAGAACAAAATCTATAAAGAGTGTTATCTTTT
1 AACAAACAAGTCAAAAGATTTCAAGTAAAGGGTAAGAACAAAATCTATAAAGAGAGTTATCTTTT
* * *
21996301 AGAGGTGAGTAAATAATTTTTTTTTAATTTTGAATAAATAATGTTGATTGTTAAGTCTTGAGGTG
66 AGAGGTGAATAAATAATTTTTTTTTAATTTTGAATAAATAATATTGATTGTTAAGTCTTGAGGTA
* ** * *
21996366 TAACTTGTAATAAAAAAACTCTAAAACTTTAGGAAATTCATTATCCCTCTTCAAGATTGGTTTGG
131 TAACTTATAATAAAAAAACTCTAAAACTTTAAAAAATCCATTATCCCTCTTCAAGATTGGTTTGA
*
21996431 GCAAATTATTTAAACTTTAATAAGAGTTTAATAAAGTGTTGAGAAAGTTTA
196 GCAAATCATTTAAACTTTAATAAGAGTTTAATAAAGTGTTGAGAAAGTTTA
21996482 GTAATGTGAT
Statistics
Matches: 233, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
269 233 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (269 bp):
AACAAACAAGTCAAAAGATTTCAAGTAAAGGGTAAGAACAAAATCTATAAAGAGAGTTATCTTTT
AGAGGTGAATAAATAATTTTTTTTTAATTTTGAATAAATAATATTGATTGTTAAGTCTTGAGGTA
TAACTTATAATAAAAAAACTCTAAAACTTTAAAAAATCCATTATCCCTCTTCAAGATTGGTTTGA
GCAAATCATTTAAACTTTAATAAGAGTTTAATAAAGTGTTGAGAAAGTTTATTTCTTCTTTCTTT
CTTATACAA
Found at i:22016042 original size:16 final size:16
Alignment explanation
Indices: 22016015--22016054 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
22016005 TTAATTGAAT
22016015 AATAAA-TATA-TTTA
1 AATAAATTATATTTTA
22016029 AATTAAATTATATTTTA
1 AA-TAAATTATATTTTA
22016046 AATAAATTA
1 AATAAATTA
22016055 AATAAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 4 0.17
16 11 0.48
17 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATAAATTATATTTTA
Found at i:22016073 original size:26 final size:28
Alignment explanation
Indices: 22016014--22016073 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
22016004 ATTAATTGAA
* *
22016014 TAATAAATATATTTAAATTAAATTATAT
1 TAATAAATATAATTAAATAAAATTATAT
*
22016042 T-TTAAATA-AATTAAATAAAATTAT-T
1 TAATAAATATAATTAAATAAAATTATAT
22016067 TAATAAA
1 TAATAAA
22016074 ATATTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 18 0.67
27 6 0.22
28 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAATAAATATAATTAAATAAAATTATAT
Found at i:22016196 original size:22 final size:21
Alignment explanation
Indices: 22016148--22016208 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
22016138 ATATTTTTCC
* *
22016148 AATTTATATTTAAATTATATT
1 AATTTTTATTAAAATTATATT
*
22016169 ATATTTTTATTAAAATTTTAATT
1 A-ATTTTTATTAAAATTAT-ATT
*
22016192 AATTTTT-TAAAAATTAT
1 AATTTTTATTAAAATTAT
22016209 TTTTATTAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 9 0.27
22 20 0.61
23 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTTTATTAAAATTATATT
Found at i:22018781 original size:2 final size:2
Alignment explanation
Indices: 22018774--22018809 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
22018764 TGCATCACGC
* *
22018774 CT CT CT CT CT CT CT CT CT CT GT CT CT CT CT CG CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
22018810 TTCTTCTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.06, T:0.47
Consensus pattern (2 bp):
CT
Found at i:22029372 original size:134 final size:134
Alignment explanation
Indices: 22029132--22029399 Score: 527
Period size: 134 Copynumber: 2.0 Consensus size: 134
22029122 TAATATAAAC
22029132 CCTTGTTTTTAATGATGAGGTTCAAATATGAACTTCGAAGTTTGAACTACTGAAACTGGGGATGA
1 CCTTGTTTTTAATGATGAGGTTCAAATATGAACTTCGAAGTTTGAACTACTGAAACTGGGGATGA
22029197 CTGGGATTCGCATCTAATATGAAGACACCAGTGCTCTTCAGGGAAGACAGTAGAACAAATTTCCC
66 CTGGGATTCGCATCTAATATGAAGACACCAGTGCTCTTCAGGGAAGACAGTAGAACAAATTTCCC
22029262 TGGG
131 TGGG
22029266 CCTTGTTTTTAATGATGAGGTTCAAATATGAACTTCGAAGTTTGAACTACTGAAACTGGGGATGA
1 CCTTGTTTTTAATGATGAGGTTCAAATATGAACTTCGAAGTTTGAACTACTGAAACTGGGGATGA
*
22029331 CTGGGATTCGCATCTAATATGAAGACATCAGTGCTCTTCAGGGAAGACAGTAGAACAAATTTCCC
66 CTGGGATTCGCATCTAATATGAAGACACCAGTGCTCTTCAGGGAAGACAGTAGAACAAATTTCCC
22029396 TGGG
131 TGGG
22029400 GATGAGTTAT
Statistics
Matches: 133, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (134 bp):
CCTTGTTTTTAATGATGAGGTTCAAATATGAACTTCGAAGTTTGAACTACTGAAACTGGGGATGA
CTGGGATTCGCATCTAATATGAAGACACCAGTGCTCTTCAGGGAAGACAGTAGAACAAATTTCCC
TGGG
Found at i:22034331 original size:23 final size:23
Alignment explanation
Indices: 22034301--22034346 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
22034291 CTCGATTACA
22034301 TAGATTGCATTCAATTGCTGCTG
1 TAGATTGCATTCAATTGCTGCTG
*
22034324 TAGATTGCATTCGATTGCTGCTG
1 TAGATTGCATTCAATTGCTGCTG
22034347 ACCCAGTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.39
Consensus pattern (23 bp):
TAGATTGCATTCAATTGCTGCTG
Found at i:22041798 original size:15 final size:15
Alignment explanation
Indices: 22041736--22041798 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
22041726 ATGAATTTTG
22041736 AATTTAATTTATATTT
1 AATTTAA-TTATATTT
**
22041752 AATTTTTTTAATATTTT
1 AATTTAATT-ATA-TTT
22041769 AATTTAATT-TGATTT
1 AATTTAATTAT-ATTT
*
22041784 AATTTGATTATATTT
1 AATTTAATTATATTT
22041799 TTATTATCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
15 18 0.47
16 10 0.26
17 10 0.26
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (15 bp):
AATTTAATTATATTT
Found at i:22041801 original size:32 final size:32
Alignment explanation
Indices: 22041729--22041801 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 32
22041719 TTGAAGTATG
* * **
22041729 AATTTTGAATTTAATTTATATTTAATTTTTTT
1 AATTTTTAATTTAATTTAGATTTAATTTGATT
22041761 AATATTTTAATTTAATTT-GATTTAATTTGATT
1 AAT-TTTTAATTTAATTTAGATTTAATTTGATT
22041793 ATATTTTTA
1 A-ATTTTTA
22041802 TTATCAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (32 bp):
AATTTTTAATTTAATTTAGATTTAATTTGATT
Found at i:22045759 original size:99 final size:97
Alignment explanation
Indices: 22045648--22045842 Score: 275
Period size: 99 Copynumber: 2.0 Consensus size: 97
22045638 TTAATAAAGC
* * *
22045648 TTTTTACTGTTTTTAAAAAACAACCTA-TCCAAATGTGATTTTTAAAGTTTCATATGATTAATAT
1 TTTTTAATGTTTTTAAAAAACAACCTACT-CAAATGTAATTTTTAAAGTTTCATATGATAAATAT
22045712 TTTATTTTTTATTATAAAAATATAAATAAAAAATG
65 TTTATTTTTTATTA-AAAAA-ATAAATAAAAAATG
* * ***
22045747 TTTTTAATGTTTTTAGAAAATAACCTACTTGTATGTAATTTTTAAAGTTTCATATGATAAATATT
1 TTTTTAATGTTTTTAAAAAACAACCTACTCAAATGTAATTTTTAAAGTTTCATATGATAAATATT
*
22045812 TTATTTTTTATTAAAAAAATAAATAATAAAT
66 TTATTTTTTATTAAAAAAATAAATAAAAAAT
22045843 TAGAAATTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
97 12 0.14
98 5 0.06
99 68 0.79
100 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (97 bp):
TTTTTAATGTTTTTAAAAAACAACCTACTCAAATGTAATTTTTAAAGTTTCATATGATAAATATT
TTATTTTTTATTAAAAAAATAAATAAAAAATG
Found at i:22060942 original size:13 final size:13
Alignment explanation
Indices: 22060924--22060949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22060914 TAAAAAGTCA
22060924 TTGAATCTTGACC
1 TTGAATCTTGACC
22060937 TTGAATCTTGACC
1 TTGAATCTTGACC
22060950 GTCCATTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGAATCTTGACC
Found at i:22078890 original size:17 final size:17
Alignment explanation
Indices: 22078868--22078900 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22078858 AATATAAATT
*
22078868 AAAAAAATTAAAAACAA
1 AAAAAAAGTAAAAACAA
22078885 AAAAAAAGTAAAAACA
1 AAAAAAAGTAAAAACA
22078901 TATATGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAAAAAGTAAAAACAA
Found at i:22083708 original size:193 final size:192
Alignment explanation
Indices: 22083364--22083747 Score: 646
Period size: 193 Copynumber: 2.0 Consensus size: 192
22083354 AATTTGTTTA
* *
22083364 TGAAGTTGATTTTTTTTGGTCCAAATTCGTGAATGTTATCTCGTTTACTTGAGTTTTATTTTGGG
1 TGAAGTTGATTTTTTTTGGTCCAAATTCGTGAATGTTATATCGTTTACTTGAATTTTATTTTGGG
* *
22083429 TTATGTTGAAACGTTCATATCTAATCCGGGTTCTTCGAATTTTATGCTTTTTGAGTGTATTTGTA
66 TTATCTTGAAACGTTCATATCTAATCCGGGTTCTTCGAATTTTACGCTTTTTGAGTGTATTTGTA
22083494 AGCAATGCTAATGCTTTTTTATGTTTATGGGTTTAACTCACATGAAAAGTTTCATTCATTTG
131 AGCAATGCTAATGCTTTTTTATGTTTATGGGTTTAACTCACATGAAAAGTTTCATTCATTTG
22083556 TGAAGTTGATTTTTTTTGGGTCCAAATTCGTGAATGTTATATCGTTTACTTGAATTTTGA-TTTG
1 TGAAGTTGATTTTTTTT-GGTCCAAATTCGTGAATGTTATATCGTTTACTTGAATTTT-ATTTTG
* *
22083620 GGTTTATCTTGAAATGTTCATATCTAATCTGGGTTCTTCGAATTTTACGCTTTTTGAGTGTATTT
64 GG-TTATCTTGAAACGTTCATATCTAATCCGGGTTCTTCGAATTTTACGCTTTTTGAGTGTATTT
* * *
22083685 GTATGCAATGCTAATGC-TTTTTATGTTTCTGGGTTTAACTCACGTGAAAAGTTTCATTCATTT
128 GTAAGCAATGCTAATGCTTTTTTATGTTTATGGGTTTAACTCACATGAAAAGTTTCATTCATTT
22083748 CTGCATGGTT
Statistics
Matches: 180, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
192 17 0.09
193 88 0.49
194 75 0.42
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.48
Consensus pattern (192 bp):
TGAAGTTGATTTTTTTTGGTCCAAATTCGTGAATGTTATATCGTTTACTTGAATTTTATTTTGGG
TTATCTTGAAACGTTCATATCTAATCCGGGTTCTTCGAATTTTACGCTTTTTGAGTGTATTTGTA
AGCAATGCTAATGCTTTTTTATGTTTATGGGTTTAACTCACATGAAAAGTTTCATTCATTTG
Found at i:22089463 original size:18 final size:17
Alignment explanation
Indices: 22089412--22089457 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
22089402 AATTTTATTA
22089412 AATTTATAT-AAA-TTT
1 AATTTATATAAAATTTT
22089427 --TTTAT-TAAAATTTT
1 AATTTATATAAAATTTT
22089441 AATTTATATAAAATTTT
1 AATTTATATAAAATTTT
22089458 TTATTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 1 0.04
13 8 0.31
14 3 0.12
16 5 0.19
17 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATTTATATAAAATTTT
Found at i:22089468 original size:18 final size:17
Alignment explanation
Indices: 22089425--22089468 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22089415 TTATATAAAT
22089425 TTTTTATTAAAATTTTAA
1 TTTTTA-TAAAATTTTAA
* *
22089443 TTTATATAAAATTTTTTA
1 TTTTTATAAAA-TTTTAA
22089461 TTTTTATA
1 TTTTTATA
22089469 CATATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTATAAAATTTTAA
Found at i:22093152 original size:16 final size:14
Alignment explanation
Indices: 22093124--22093164 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
22093114 TCATTAACAT
*
22093124 TAAATGAATATAT-
1 TAAATAAATATATA
22093137 TAAATAATATATATA
1 TAAATAA-ATATATA
22093152 TAAATAAATATAT
1 TAAATAAATATAT
22093165 TTATGAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 12 0.48
15 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TAAATAAATATATA
Found at i:22093173 original size:16 final size:16
Alignment explanation
Indices: 22093131--22093174 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
22093121 CATTAAATGA
22093131 ATATAT-TAAAT-AAT
1 ATATATATAAATAAAT
22093145 ATATATATAAATAAAT
1 ATATATATAAATAAAT
* *
22093161 ATATTTATGAATAA
1 ATATATATAAATAA
22093175 TAAATAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 6 0.23
15 5 0.19
16 15 0.58
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
ATATATATAAATAAAT
Found at i:22093196 original size:22 final size:23
Alignment explanation
Indices: 22093137--22093196 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
22093127 ATGAATATAT
22093137 TAAATA-ATATAT--AT-ATAAA
1 TAAATATATATATGAATAATAAA
*
22093156 TAAATATATTTATGAATAATAAA
1 TAAATATATATATGAATAATAAA
22093179 TAAAT-TATA-ATTGAATAA
1 TAAATATATATA-TGAATAA
22093197 ATTCAAAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 6 0.18
20 5 0.15
21 1 0.03
22 12 0.35
23 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
TAAATATATATATGAATAATAAA
Found at i:22095220 original size:24 final size:24
Alignment explanation
Indices: 22095177--22095222 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22095167 TTTATATAAA
* *
22095177 ATATATTATAAATATATAAATTTT
1 ATATAATATAAATACATAAATTTT
*
22095201 ATATAATATAAATACGTAAATT
1 ATATAATATAAATACATAAATT
22095223 ATCAAATCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATAATATAAATACATAAATTTT
Found at i:22098641 original size:20 final size:21
Alignment explanation
Indices: 22098618--22098656 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
22098608 TGTATGTGTC
22098618 TATGCATGC-ATGTTTATTTG
1 TATGCATGCTATGTTTATTTG
* *
22098638 TATGTATGCTATTTTTATT
1 TATGCATGCTATGTTTATT
22098657 ATACATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.56
Consensus pattern (21 bp):
TATGCATGCTATGTTTATTTG
Found at i:22108111 original size:23 final size:26
Alignment explanation
Indices: 22108066--22108119 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 26
22108056 TTTTAGAAAA
22108066 ATCTTTATATATAAAATATTAATTTT
1 ATCTTTATATATAAAATATTAATTTT
*
22108092 ATCTTT-TA-ATAAATTA-TAATTTT
1 ATCTTTATATATAAAATATTAATTTT
22108115 ATCTT
1 ATCTT
22108120 CTTTATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 12 0.44
24 7 0.26
25 2 0.07
26 6 0.22
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (26 bp):
ATCTTTATATATAAAATATTAATTTT
Found at i:22110199 original size:91 final size:91
Alignment explanation
Indices: 22110044--22110228 Score: 343
Period size: 91 Copynumber: 2.0 Consensus size: 91
22110034 TCTGAGTATG
22110044 TACGTTCTATAAACATTCAAATGAAAAGGTATAAAATATTAGTACAAGCAATCCTATTATTCATG
1 TACGTTCTATAAACATTCAAATGAAAAGGTATAAAATATTAGTACAAGCAATCCTATTATTCATG
*
22110109 CTTATTCTTAAATATATTCAAGAGAT
66 CTTATTCTTAAATACATTCAAGAGAT
* *
22110135 TACGTTCTATAAACATTCAAATGAAAAGGTATAACATATTAGTACAAGCAATCCTATTTTTCATG
1 TACGTTCTATAAACATTCAAATGAAAAGGTATAAAATATTAGTACAAGCAATCCTATTATTCATG
22110200 CTTATTCTTAAATACATTCAAGAGAT
66 CTTATTCTTAAATACATTCAAGAGAT
22110226 TAC
1 TAC
22110229 ATGCATGCCA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.35
Consensus pattern (91 bp):
TACGTTCTATAAACATTCAAATGAAAAGGTATAAAATATTAGTACAAGCAATCCTATTATTCATG
CTTATTCTTAAATACATTCAAGAGAT
Found at i:22118727 original size:2 final size:2
Alignment explanation
Indices: 22118720--22118747 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
22118710 AAAAGTCTTC
22118720 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22118748 GGAATCTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22124654 original size:2 final size:2
Alignment explanation
Indices: 22124647--22124684 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
22124637 TTTTCACAAG
*
22124647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22124685 TATGATGAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:22125970 original size:26 final size:28
Alignment explanation
Indices: 22125941--22126000 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 28
22125931 ATTTTTATCT
22125941 TATATATTTAAGTA-AT-TTTTT-ATAAA
1 TATATATTTAA-TATATATTTTTAATAAA
22125967 TATATA-TTAATATATATTTTTAATAAA
1 TATATATTTAATATATATTTTTAATAAA
22125994 -ATATATT
1 TATATATT
22126001 AATTTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
24 2 0.07
25 6 0.20
26 16 0.53
27 6 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
TATATATTTAATATATATTTTTAATAAA
Found at i:22126023 original size:20 final size:21
Alignment explanation
Indices: 22126000--22126061 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
22125990 TAAAATATAT
22126000 TAATTTTA-ATTAATTTAA-AA
1 TAATTTTATATT-ATTTAATAA
22126020 TAATAATTTATATTATTTAATAA
1 TAAT--TTTATATTATTTAATAA
* *
22126043 AAATTTTATA-TATTAAATA
1 TAATTTTATATTATTTAATA
22126062 TATATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 12 0.33
21 6 0.17
22 10 0.28
23 8 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTTTATATTATTTAATAA
Done.