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 119 of 129
Found at i:20092934 original size:3 final size:3
Alignment explanation
Indices: 20092926--20092954 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20092916 ACCTCTACTT
20092926 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
20092955 ATCTACCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
CTC
Found at i:20093497 original size:22 final size:23
Alignment explanation
Indices: 20093458--20093505 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
20093448 AGTCCTTATA
*
20093458 TTTTTTGTATACTCAAATAAACAT
1 TTTTTTATATACTCAAATAAAC-T
20093482 TTTTTTATATA-T-AAATAAACT
1 TTTTTTATATACTCAAATAAACT
20093503 TTT
1 TTT
20093506 ATTTCAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 8 0.35
23 1 0.04
24 10 0.43
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTTTATATACTCAAATAAACT
Found at i:20093519 original size:22 final size:22
Alignment explanation
Indices: 20093472--20093520 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
20093462 TTGTATACTC
*
20093472 AAATAAACATTTTTTTATATAT
1 AAATAAACATTTTTTTAAATAT
20093494 AAATAAAC-TTTTATTTCAAATA-
1 AAATAAACATTTT-TTT-AAATAT
20093516 AAATA
1 AAATA
20093521 TTTTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 16 0.67
23 4 0.17
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATAAACATTTTTTTAAATAT
Found at i:20093568 original size:30 final size:30
Alignment explanation
Indices: 20093532--20093606 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
20093522 TTTTTATTTT
*
20093532 AAAATTTATTTAGATATAAATTAAAAATTA
1 AAAATTTATTTAGATACAAATTAAAAATTA
*
20093562 AAAATTTATTT-GAATACAAATTAAATATTA
1 AAAATTTATTTAG-ATACAAATTAAAAATTA
*
20093592 AAGATTTATTTAGAT
1 AAAATTTATTTAGAT
20093607 TTAATCGGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 38 0.95
31 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.41
Consensus pattern (30 bp):
AAAATTTATTTAGATACAAATTAAAAATTA
Found at i:20097421 original size:27 final size:27
Alignment explanation
Indices: 20097391--20097445 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
20097381 TAACTTGGTT
20097391 AAAATACAATCTCATAATACGCTATGA
1 AAAATACAATCTCATAATACGCTATGA
20097418 AAAATACAATCTCATAATACGCTATGA
1 AAAATACAATCTCATAATACGCTATGA
20097445 A
1 A
20097446 CTAATGTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.25
Consensus pattern (27 bp):
AAAATACAATCTCATAATACGCTATGA
Found at i:20104200 original size:34 final size:30
Alignment explanation
Indices: 20104126--20104211 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 30
20104116 GATTAATTTT
* *
20104126 AATAAAATTAAAAATAATAATAATAAAATTA
1 AATAAGATT-AAAATTATAATAATAAAATTA
**
20104157 TGTAAGATTAAATATTATAATAATAAAATTAA
1 AATAAGATTAAA-ATTATAATAATAAAATT-A
20104189 AATCAATGATTAAAATATATAAT
1 AAT-AA-GATTAAAAT-TATAAT
20104212 TAAATGTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
30 3 0.07
31 22 0.50
32 2 0.05
33 4 0.09
34 13 0.30
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (30 bp):
AATAAGATTAAAATTATAATAATAAAATTA
Found at i:20110465 original size:13 final size:13
Alignment explanation
Indices: 20110428--20110532 Score: 50
Period size: 13 Copynumber: 8.8 Consensus size: 13
20110418 TATATCGTAT
*
20110428 TTTATA-TAAAAA
1 TTTATATTAATAA
20110440 TTATATATT-ATAA
1 TT-TATATTAATAA
20110453 TTTATATTAATAA
1 TTTATATTAATAA
**
20110466 -AAATA-TAA-AA
1 TTTATATTAATAA
* **
20110476 TATATATTTTTAA
1 TTTATATTAATAA
20110489 TTT-TATT-A-AA
1 TTTATATTAATAA
*
20110499 TTTAT-TT-ATGA
1 TTTATATTAATAA
*
20110510 TTTATATTAAAAA
1 TTTATATTAATAA
*
20110523 TTTAAATTAA
1 TTTATATTAA
20110533 ATTATTTTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 19
0.70 0.12 0.19
Matches are distributed among these distances:
10 10 0.14
11 14 0.20
12 18 0.25
13 28 0.39
14 1 0.01
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (13 bp):
TTTATATTAATAA
Found at i:20111191 original size:29 final size:28
Alignment explanation
Indices: 20111159--20111230 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
20111149 AAATAAAAAT
20111159 ATAAAATATTATGATTT-A-AAAA-TTTA
1 ATAAAATATTAT-ATTTAATAAAATTTTA
20111185 ATAATAATTATATATATTTAATAAAATTTTA
1 ATAA-AA-TAT-TATATTTAATAAAATTTTA
20111216 A-AAAATATTATATTT
1 ATAAAATATTATATTT
20111231 TTATATCTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
26 4 0.10
27 9 0.22
28 10 0.25
29 6 0.15
30 6 0.15
31 5 0.12
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
ATAAAATATTATATTTAATAAAATTTTA
Found at i:20111216 original size:31 final size:27
Alignment explanation
Indices: 20111175--20111230 Score: 67
Period size: 31 Copynumber: 1.9 Consensus size: 27
20111165 TATTATGATT
20111175 TAAAAATTTAATAATAATTATATATATTTAA
1 TAAAAATTTAA-AA-AA-TAT-TATATTTAA
*
20111206 TAAAATTTTAAAAAATATTATATTT
1 TAAAAATTTAAAAAATATTATATTT
20111231 TTATATCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 7 0.29
28 3 0.12
29 2 0.08
30 2 0.08
31 10 0.42
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAAATTTAAAAAATATTATATTTAA
Found at i:20113435 original size:9 final size:9
Alignment explanation
Indices: 20113421--20113459 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
20113411 GGATATGTGG
20113421 ATGAAGGAT
1 ATGAAGGAT
20113430 ATGAAGGAT
1 ATGAAGGAT
*
20113439 ACGAAGGAT
1 ATGAAGGAT
*
20113448 ATGCAGGAT
1 ATGAAGGAT
20113457 ATG
1 ATG
20113460 GTGATGTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.33, T:0.21
Consensus pattern (9 bp):
ATGAAGGAT
Found at i:20126956 original size:23 final size:21
Alignment explanation
Indices: 20126930--20126986 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
20126920 TTTAGGATAT
*
20126930 TTTAAAATTATATTTTTTTAACA
1 TTTAAAATT-TA-TTTTATAACA
20126953 TTTAAAACTCTTATTTTATAACA
1 TTTAAAA-T-TTATTTTATAACA
20126976 -TTAAAATTTAT
1 TTTAAAATTTAT
20126987 GAAATTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 1 0.03
22 6 0.19
23 16 0.52
24 3 0.10
25 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAAATTTATTTTATAACA
Found at i:20127918 original size:20 final size:19
Alignment explanation
Indices: 20127849--20127918 Score: 70
Period size: 18 Copynumber: 3.6 Consensus size: 19
20127839 AAAATAAAAA
* *
20127849 ATAATTTTATATTTATATAT
1 ATAATTTTA-ATATATAAAT
*
20127869 ATAATTTTTATATA-AAAT
1 ATAATTTTAATATATAAAT
* *
20127887 ATAATATAAATATATAAAT
1 ATAATTTTAATATATAAAT
20127906 ATAATATTTAATA
1 ATAAT-TTTAATA
20127919 CAATATAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 14 0.35
19 13 0.32
20 13 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAATTTTAATATATAAAT
Found at i:20134139 original size:22 final size:21
Alignment explanation
Indices: 20134113--20134164 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 21
20134103 AAAAATTACT
20134113 TTATTTTCTATTGATTAATAAA
1 TTATTTTCTATTG-TTAATAAA
*
20134135 TTA-TTT-T-TTGTTAATCAA
1 TTATTTTCTATTGTTAATAAA
20134153 TTAATTTTCTAT
1 TT-ATTTTCTAT
20134165 CAAATTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 9 0.36
19 4 0.16
20 4 0.16
21 4 0.16
22 4 0.16
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTTTCTATTGTTAATAAA
Found at i:20135060 original size:15 final size:16
Alignment explanation
Indices: 20135029--20135102 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 16
20135019 AATCATTTTC
20135029 TTAAAATCTTTAAATA
1 TTAAAATCTTTAAATA
*
20135045 TTAAAA-CTTTATATA
1 TTAAAATCTTTAAATA
* *
20135060 TTTAAATTAATTTAAATATA
1 -TTAAAAT-CTTT-AA-ATA
20135080 TTAAAAAT-TTTAAATA
1 TT-AAAATCTTTAAATA
20135096 TTAAAAT
1 TTAAAAT
20135103 TTTGTATAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 13 0.28
16 16 0.34
17 2 0.04
18 6 0.13
19 3 0.06
20 7 0.15
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAATCTTTAAATA
Found at i:20135078 original size:18 final size:19
Alignment explanation
Indices: 20135052--20135103 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
20135042 ATATTAAAAC
*
20135052 TTTATATATTTAAATTAA-
1 TTTAAATATTTAAATTAAT
20135070 TTTAAATATATTAAA--AAT
1 TTTAAATAT-TTAAATTAAT
*
20135088 TTTAAATATTAAAATT
1 TTTAAATATTTAAATT
20135104 TTGTATAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
17 6 0.21
18 17 0.61
19 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAATATTTAAATTAAT
Found at i:20139389 original size:27 final size:28
Alignment explanation
Indices: 20139338--20139392 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
20139328 TCAGGTTGGA
20139338 TTTGAATATAAAAAAAAATAAAAATTTT
1 TTTGAATATAAAAAAAAATAAAAATTTT
* * *
20139366 TTTGAATA-AAATACAAATATAAATTTT
1 TTTGAATATAAAAAAAAATAAAAATTTT
20139393 ATGATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
TTTGAATATAAAAAAAAATAAAAATTTT
Found at i:20144287 original size:16 final size:16
Alignment explanation
Indices: 20144263--20144296 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20144253 TCAAATCGAG
20144263 CACGAAAAATGAGGAA
1 CACGAAAAATGAGGAA
*
20144279 CACGGAAAATGAGGAA
1 CACGAAAAATGAGGAA
20144295 CA
1 CA
20144297 TGGGATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.15, G:0.26, T:0.06
Consensus pattern (16 bp):
CACGAAAAATGAGGAA
Found at i:20144374 original size:58 final size:56
Alignment explanation
Indices: 20144279--20144391 Score: 199
Period size: 58 Copynumber: 2.0 Consensus size: 56
20144269 AAATGAGGAA
*
20144279 CACGGAAAATGAGGAACATGGGATGAATGAATTCGGTGCCACACACGTAATCTCATTT
1 CACGAAAAATGAGGAACATGGGATGAATGAATTCGGTG-C-CACACGTAATCTCATTT
20144337 CACGAAAAATGAGGAACATGGGATGAATGAATTCGGTGCCACACGTAATCTCATT
1 CACGAAAAATGAGGAACATGGGATGAATGAATTCGGTGCCACACGTAATCTCATT
20144392 CGTCATATAG
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
56 16 0.30
57 1 0.02
58 37 0.69
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (56 bp):
CACGAAAAATGAGGAACATGGGATGAATGAATTCGGTGCCACACGTAATCTCATTT
Found at i:20145357 original size:29 final size:29
Alignment explanation
Indices: 20145325--20145384 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
20145315 TTAATTTATG
* *
20145325 AATTGTAATAA-TATTTAATGTGATATTTA
1 AATTGTAA-AATTATTTAATATGATATATA
* *
20145354 AATTTTAAAATTTTTTAATATGATATATA
1 AATTGTAAAATTATTTAATATGATATATA
20145383 AA
1 AA
20145385 AATTATGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (29 bp):
AATTGTAAAATTATTTAATATGATATATA
Found at i:20148858 original size:27 final size:26
Alignment explanation
Indices: 20148827--20148890 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
20148817 AATAAATTAT
20148827 TTAAATTTAATATGTTT-GGATAACTA
1 TTAAATTTAATAT-TTTCGGATAACTA
* * *
20148853 TGTAAATATACTATTTTCGGATAATTA
1 T-TAAATTTAATATTTTCGGATAACTA
20148880 TTAAAATTTAA
1 TT-AAATTTAA
20148891 ATCAAAATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (26 bp):
TTAAATTTAATATTTTCGGATAACTA
Found at i:20156118 original size:16 final size:16
Alignment explanation
Indices: 20156099--20156129 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20156089 CATATATATA
20156099 TATATATATATGTGTG
1 TATATATATATGTGTG
*
20156115 TATATATATGTGTGT
1 TATATATATATGTGT
20156130 AAGCTTAATA
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:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (16 bp):
TATATATATATGTGTG
Found at i:20156124 original size:14 final size:14
Alignment explanation
Indices: 20156101--20156130 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20156091 TATATATATA
20156101 TATATATATGTGTG
1 TATATATATGTGTG
20156115 TATATATATGTGTG
1 TATATATATGTGTG
20156129 TA
1 TA
20156131 AGCTTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
TATATATATGTGTG
Found at i:20156376 original size:29 final size:30
Alignment explanation
Indices: 20156326--20156394 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
20156316 AAAATTAATC
*
20156326 TATAAATTATAACAAATATTTAATATGTTA
1 TATAAATTATAACAAATATTTAATATGATA
* * *
20156356 TTTAAATTTTAA-AAATTTTTAATATGATA
1 TATAAATTATAACAAATATTTAATATGATA
20156385 TATAAATTAT
1 TATAAATTAT
20156395 GAATTAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 23 0.70
30 10 0.30
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (30 bp):
TATAAATTATAACAAATATTTAATATGATA
Found at i:20156546 original size:30 final size:30
Alignment explanation
Indices: 20156492--20156552 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
20156482 AATTAATAAA
20156492 TTAATAATTTAAATATCATATTAAAAATTT
1 TTAATAATTTAAATATCATATTAAAAATTT
* * *
20156522 TTAA-AATTTCAAATATTATTTTAAATATTT
1 TTAATAATTT-AAATATCATATTAAAAATTT
20156552 T
1 T
20156553 ACTATAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TTAATAATTTAAATATCATATTAAAAATTT
Found at i:20156961 original size:16 final size:15
Alignment explanation
Indices: 20156940--20156969 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
20156930 TATCATATAT
20156940 ACATATATATATTACA
1 ACATATATA-ATTACA
20156956 ACATATATAATTAC
1 ACATATATAATTAC
20156970 TTGATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
ACATATATAATTACA
Found at i:20165208 original size:2 final size:2
Alignment explanation
Indices: 20165201--20165229 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20165191 ATCTAACTTG
20165201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20165230 ATTATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20167502 original size:20 final size:20
Alignment explanation
Indices: 20167477--20167515 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20167467 TCTCTTGAAC
20167477 TTAAATTTAGAACCTATACT
1 TTAAATTTAGAACCTATACT
20167497 TTAAATTTAGAACCTATAC
1 TTAAATTTAGAACCTATAC
20167516 AATATCTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (20 bp):
TTAAATTTAGAACCTATACT
Found at i:20168173 original size:16 final size:16
Alignment explanation
Indices: 20168152--20168184 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20168142 TAAGCCAACA
20168152 AGAAGTATACACAAGT
1 AGAAGTATACACAAGT
20168168 AGAAGTATACACAAGT
1 AGAAGTATACACAAGT
20168184 A
1 A
20168185 AAGGAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (16 bp):
AGAAGTATACACAAGT
Found at i:20173266 original size:26 final size:25
Alignment explanation
Indices: 20173219--20173277 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
20173209 AAATTTTTTT
*** *
20173219 ATAATTTTTTTCAATCGTAATTATA
1 ATAATTTTTTTCAATAACAATTAAA
20173244 ATAATATTTTTTCAATAACAATTAAA
1 ATAAT-TTTTTTCAATAACAATTAAA
20173270 ATAATTTT
1 ATAATTTT
20173278 AAATATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (25 bp):
ATAATTTTTTTCAATAACAATTAAA
Found at i:20173757 original size:27 final size:27
Alignment explanation
Indices: 20173693--20173779 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 27
20173683 TGAGACGATA
20173693 AAATTAAA-AATTAAAAATACAATGAT
1 AAATTAAATAATTAAAAATACAATGAT
** **
20173719 AAATTATGTAATTAAAAA-ATTATGAT
1 AAATTAAATAATTAAAAATACAATGAT
* *
20173745 AAATCTAAATAATTACATAAATAAAATAAT
1 AAAT-TAAATAATTA-A-AAATACAATGAT
20173775 AAATT
1 AAATT
20173780 TACACGAGGC
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
26 16 0.34
27 17 0.36
28 1 0.02
29 4 0.09
30 9 0.19
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (27 bp):
AAATTAAATAATTAAAAATACAATGAT
Found at i:20176204 original size:58 final size:58
Alignment explanation
Indices: 20176137--20176293 Score: 194
Period size: 59 Copynumber: 2.7 Consensus size: 58
20176127 ATGCCTTGAT
* * *
20176137 TCAAGAAAAATTAATACTTTCAACTTTTTCTCAAAAGTATC-TTTCGAAATTTTTATTC
1 TCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATCATTT-GAAATTTTAATTC
* * *
20176195 TCAATAAAAATTGATACTTTCAAC-TTTTCATCAAAAATGTCAATTTGAAATTTTAATTT
1 TCAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAAATATC-ATTTGAAATTTTAATTC
*
20176254 TCAAGAAAAATTGATACTTCCAA-TTTTTCTCCAAAAATAT
1 TCAAGAAAAATTGATACTTTCAACTTTTTCT-CAAAAATAT
20176294 TTTTTTTTCA
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
57 5 0.06
58 32 0.38
59 45 0.53
60 3 0.04
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.41
Consensus pattern (58 bp):
TCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAATATCATTTGAAATTTTAATTC
Found at i:20176305 original size:17 final size:17
Alignment explanation
Indices: 20176285--20176318 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20176275 AATTTTTCTC
20176285 CAAAAATATTTTTTTTT
1 CAAAAATATTTTTTTTT
20176302 CAAAAATATTTTTTTTT
1 CAAAAATATTTTTTTTT
20176319 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
CAAAAATATTTTTTTTT
Found at i:20178678 original size:85 final size:85
Alignment explanation
Indices: 20178429--20178733 Score: 238
Period size: 85 Copynumber: 3.6 Consensus size: 85
20178419 TGAATGAAAA
* * * * * * *** **
20178429 AAAGATCTGGCGTAGGTCAAAGTCCAAAATAAAATGACTTGGATGGAATCAAAGTAAAAAATAAT
1 AAAGATCTAGCATAGGTCAAAATCCAAAACAAAATGACTTGGATGAAACCAAAGTCTGACTTAA-
* ** *
20178494 TTAACTTGGACTAAACTGAAG
65 TTAACTTGAACTAAACCAAAT
* * * * ** * *
20178515 GAGGCTCTAGCATAAGTTGAAATCCAAAACAAAAGTGA-TCTGGATGGAACCAAAGTCTGATTTA
1 AAAGATCTAGCATAGGTCAAAATCCAAAACAAAA-TGACT-TGGATGAAACCAAAGTCTGACTTA
20178579 ATTAACTTGAACTAAATCCAAA-
64 ATTAACTTGAACTAAA-CCAAAT
* * * * **
20178601 AAAGATTTGGTATAGGTTAAAATCCAAAACAAAATGACTTGGATGAAACTGAAGTCTGACTTAAT
1 AAAGATCTAGCATAGGTCAAAATCCAAAACAAAATGACTTGGATGAAACCAAAGTCTGACTTAAT
20178666 TAACTT-ACACTAAACCAAAT
66 TAACTTGA-ACTAAACCAAAT
* * * *
20178686 GAGGATCTAGCATAGGTCGAAATCTAAAACAAAATGACTTGGACTGAA
1 AAAGATCTAGCATAGGTCAAAATCCAAAACAAAATGACTTGGA-TGAA
20178734 CCGAAGCCTG
Statistics
Matches: 173, Mismatches: 39, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
84 6 0.03
85 72 0.42
86 70 0.40
87 25 0.14
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (85 bp):
AAAGATCTAGCATAGGTCAAAATCCAAAACAAAATGACTTGGATGAAACCAAAGTCTGACTTAAT
TAACTTGAACTAAACCAAAT
Found at i:20178846 original size:86 final size:85
Alignment explanation
Indices: 20178756--20179452 Score: 425
Period size: 86 Copynumber: 8.1 Consensus size: 85
20178746 ATGAATAATC
* * * * * * *
20178756 TGGACTAAGCTAAAGAAAGATTTAGCATATGTCAAAATTTGAAAACAGAATGACCTGAATTGAAC
1 TGGACTAAG-TGAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGAATTGAAC
* * *
20178821 CGAAGTAAAAAATAAATGACT
65 CGAAGTTAGAAACAAATGACT
** * * *
20178842 TGGACTAAGTCGAAGAAGGATCTGGCATATACCGAAATCTAAAAATAGAATGACATGGATTGAAC
1 TGGACTAAGT-GAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGAATTGAAC
* *
20178907 CGAAGTTTGAAACGAATGACT
65 CGAAGTTAGAAACAAATGACT
* * * * * *
20178928 TGGACTACGTTGAAGAAGGATCTGGCATACGTCAAAATTCAAAAATAGAATAACTTGAATTGAAT
1 TGGACTAAG-TGAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGAATTGAAC
*
20178993 CGAAGTTCGAAACAAATGACT
65 CGAAGTTAGAAACAAATGACT
* * * ** * * * * *
20179014 TGGATTACGTCGAAGAGGGATCTGGCATATACCAAAATTTGAAAATATAATGACCTGGATTAAAC
1 TGGACTAAGT-GAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGAATTGAAC
* * *
20179079 TGAAATCT-GAAACGAATGACT
65 CGAAGT-TAGAAACAAATGACT
* * * * * * ** * * * *
20179100 CGGACTAAGCGACAAAAAGATCTGGCATATATTAAAATTCGAAAATAAAATAACCT-AGATTAAA
1 TGGACTAAGTGA-AGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGA-ATTGAA
* ** * *
20179164 CCGAAGTTTGAAATGAATAATT
64 CCGAAGTTAGAAACAAATGACT
* * * * ** * * * * * * * *
20179186 TGGATTAAGTCAAAAAAAGATCTGGCATATACCGAAATCTGAAAATAAAATAACCTAAATTGAAT
1 TGGACTAAGT-GAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGAATTGAAC
*
20179251 CGAAGTCT-GAAATAAATGACT
65 CGAAGT-TAGAAACAAATGACT
* ** * * * * *
20179272 TAGACTAAGTCGAAGAAGGATCTGGCATATGTCAAAATCCAAAAATAAAATGACTTGGATTAAAT
1 TGGACTAAGT-GAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGAATTGAAC
* *
20179337 CGAAGTCT-GAAACGAACGACT
65 CGAAGT-TAGAAACAAATGACT
* * * * * * * *
20179358 TAGACTATGTCGAAGAAGGATATGGCATATGTCGAAATCTGAAAATAAAATGACCT-AGATTGAA
1 TGGACTAAGT-GAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGA-ATTGAA
* *
20179422 CCGAAGTCTA-AAACGACTGACT
64 CCGAAGT-TAGAAACAAATGACT
20179444 TGGACTAAG
1 TGGACTAAG
20179453 CCGAAATCAC
Statistics
Matches: 490, Mismatches: 109, Indels: 24
0.79 0.17 0.04
Matches are distributed among these distances:
85 5 0.01
86 480 0.98
87 5 0.01
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (85 bp):
TGGACTAAGTGAAGAAGGATCTGGCATATGTCAAAATTTAAAAATAGAATGACATGAATTGAACC
GAAGTTAGAAACAAATGACT
Found at i:20178989 original size:172 final size:172
Alignment explanation
Indices: 20178703--20179457 Score: 728
Period size: 172 Copynumber: 4.4 Consensus size: 172
20178693 TAGCATAGGT
* * * * * *
20178703 CGAAATCT-AAAACAAAATGACTTGGACTGAACCGAAGCCTGAAATGAAT-AATCTGGACTAAG-
1 CGAAATCTGAAAATAAAATGACCTGGATTGAACCGAAGTCTGAAACGAATGACT-TGGACTAAGT
* * * ** * * * * ***
20178765 CTAAAGAAAGATTTAGCATATGTCAAAATTTGAAAACAGAATGACCTGAATTGAACCGAAGTAAA
65 C-GAAGAAAGATCTGGCATATGTCAAAATTCAAAAATAAAATAACCTGAATTAAACCGAAGTTTG
*
20178830 AAATAAATGACTTGGACTAAGTCGAAGAAGGATCTGGCATATAC
129 AAACAAATGACTTGGACTAAGTCGAAGAAGGATCTGGCATATAC
* * * * * *
20178874 CGAAATCTAAAAATAGAATGACATGGATTGAACCGAAGTTTGAAACGAATGACTTGGACTACGTT
1 CGAAATCTGAAAATAAAATGACCTGGATTGAACCGAAGTCTGAAACGAATGACTTGGACTAAGTC
* * * * * * *
20178939 GAAGAAGGATCTGGCATACGTCAAAATTCAAAAATAGAATAACTTGAATTGAATCGAAGTTCGAA
66 GAAGAAAGATCTGGCATATGTCAAAATTCAAAAATAAAATAACCTGAATTAAACCGAAGTTTGAA
* * *
20179004 ACAAATGACTTGGATTACGTCGAAGAGGGATCTGGCATATAC
131 ACAAATGACTTGGACTAAGTCGAAGAAGGATCTGGCATATAC
* * * * * * *
20179046 CAAAATTTGAAAATATAATGACCTGGATTAAACTGAAATCTGAAACGAATGACTCGGACTAAG-C
1 CGAAATCTGAAAATAAAATGACCTGGATTGAACCGAAGTCTGAAACGAATGACTTGGACTAAGTC
* * * *
20179110 GACAAAAAGATCTGGCATATATTAAAATTCGAAAATAAAATAACCT-AGATTAAACCGAAGTTTG
66 GA-AGAAAGATCTGGCATATGTCAAAATTCAAAAATAAAATAACCTGA-ATTAAACCGAAGTTTG
** * * * * * *
20179174 AAATGAATAATTTGGATTAAGTCAAAAAAAGATCTGGCATATAC
129 AAACAAATGACTTGGACTAAGTCGAAGAAGGATCTGGCATATAC
* ** * ** *
20179218 CGAAATCTGAAAATAAAATAACCTAAATTGAATCGAAGTCTGAAATAAATGACTTAGACTAAGTC
1 CGAAATCTGAAAATAAAATGACCTGGATTGAACCGAAGTCTGAAACGAATGACTTGGACTAAGTC
* * * * * * *
20179283 GAAGAAGGATCTGGCATATGTCAAAATCCAAAAATAAAATGACTTGGATTAAATCGAAGTCTGAA
66 GAAGAAAGATCTGGCATATGTCAAAATTCAAAAATAAAATAACCTGAATTAAACCGAAGTTTGAA
* * * * * **
20179348 ACGAACGACTTAGACTATGTCGAAGAAGGATATGGCATATGT
131 ACAAATGACTTGGACTAAGTCGAAGAAGGATCTGGCATATAC
* * * *
20179390 CGAAATCTGAAAATAAAATGACCTAGATTGAACCGAAGTCTAAAACGACTGACTTGGACTAAGCC
1 CGAAATCTGAAAATAAAATGACCTGGATTGAACCGAAGTCTGAAACGAATGACTTGGACTAAGTC
20179455 GAA
66 GAA
20179458 ATCACAACTT
Statistics
Matches: 470, Mismatches: 107, Indels: 13
0.80 0.18 0.02
Matches are distributed among these distances:
171 11 0.02
172 454 0.97
173 5 0.01
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (172 bp):
CGAAATCTGAAAATAAAATGACCTGGATTGAACCGAAGTCTGAAACGAATGACTTGGACTAAGTC
GAAGAAAGATCTGGCATATGTCAAAATTCAAAAATAAAATAACCTGAATTAAACCGAAGTTTGAA
ACAAATGACTTGGACTAAGTCGAAGAAGGATCTGGCATATAC
Found at i:20179629 original size:17 final size:17
Alignment explanation
Indices: 20179607--20179720 Score: 122
Period size: 17 Copynumber: 6.7 Consensus size: 17
20179597 GAGACTCGTA
20179607 AGATTCACAAAAATTAG
1 AGATTCACAAAAATTAG
*
20179624 AGATTCACCAAAATTAG
1 AGATTCACAAAAATTAG
20179641 AGATTCACAAAAATTAG
1 AGATTCACAAAAATTAG
* * **
20179658 AGATTCTC-AATATCTTC
1 AGATTCACAAAAAT-TAG
* * *
20179675 ATATTCACAAGAATTGG
1 AGATTCACAAAAATTAG
20179692 AGATTCACAAAAATTAG
1 AGATTCACAAAAATTAG
* *
20179709 AAATTCTCAAAA
1 AGATTCACAAAA
20179721 TTTTCGGTTC
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
16 4 0.05
17 71 0.91
18 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (17 bp):
AGATTCACAAAAATTAG
Found at i:20179663 original size:51 final size:52
Alignment explanation
Indices: 20179607--20179720 Score: 135
Period size: 51 Copynumber: 2.2 Consensus size: 52
20179597 GAGACTCGTA
* *
20179607 AGATTCACAAAAAT-TAGAGATTCACCAA-AATTAGAGATTCACAAAAATTAG
1 AGATTCTCAAAAATCTACAGATTCA-CAAGAATTAGAGATTCACAAAAATTAG
* * * *
20179658 AGATTCTC-AATATCTTCATATTCACAAGAATTGGAGATTCACAAAAATTAG
1 AGATTCTCAAAAATCTACAGATTCACAAGAATTAGAGATTCACAAAAATTAG
*
20179709 AAATTCTCAAAA
1 AGATTCTCAAAA
20179721 TTTTCGGTTC
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
50 7 0.13
51 43 0.83
52 2 0.04
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (52 bp):
AGATTCTCAAAAATCTACAGATTCACAAGAATTAGAGATTCACAAAAATTAG
Found at i:20179855 original size:21 final size:21
Alignment explanation
Indices: 20179812--20179855 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20179802 TTTCAACGGT
*
20179812 TTTCATTCAAAAATTTTAGAA
1 TTTCATTCAAAAATTTTACAA
*
20179833 TTTCA-TCCAAAATTTCTACAA
1 TTTCATTCAAAAATTT-TACAA
20179854 TT
1 TT
20179856 CTGATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (21 bp):
TTTCATTCAAAAATTTTACAA
Found at i:20180514 original size:17 final size:17
Alignment explanation
Indices: 20180487--20180521 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20180477 CTCAGCCTTA
20180487 TTTCATCTTTTTCTTTTT
1 TTTCATCTTTTT-TTTTT
20180505 TTTC-TCTTTTTTTTTT
1 TTTCATCTTTTTTTTTT
20180521 T
1 T
20180522 GCCTTTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 7 0.41
18 4 0.24
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTCATCTTTTTTTTTT
Found at i:20181006 original size:23 final size:23
Alignment explanation
Indices: 20180980--20181041 Score: 54
Period size: 23 Copynumber: 2.7 Consensus size: 23
20180970 TTAATTTGAG
20180980 TTTTCTCTA-TCTTTTCATTTTCA
1 TTTTCTCTATTC-TTTCATTTTCA
* * **
20181003 TTTTTTTTATTCTTTCATTTTTT
1 TTTTCTCTATTCTTTCATTTTCA
*
20181026 TTTTCTTTTATTCTTT
1 TTTTC-TCTATTCTTT
20181042 TACCAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 20 0.62
24 12 0.38
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTCTCTATTCTTTCATTTTCA
Found at i:20181018 original size:17 final size:16
Alignment explanation
Indices: 20180998--20181033 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
20180988 ATCTTTTCAT
20180998 TTTCATTTTTTTTATTC
1 TTTCATTTTTTTT-TTC
20181015 TTTCATTTTTTTTTTC
1 TTTCATTTTTTTTTTC
20181031 TTT
1 TTT
20181034 TATTCTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.08, C:0.11, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCATTTTTTTTTTC
Found at i:20181034 original size:24 final size:23
Alignment explanation
Indices: 20180992--20181041 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
20180982 TTCTCTATCT
20180992 TTTCATTTTCATTTTTTTTATTC
1 TTTCATTTTCATTTTTTTTATTC
**
20181015 TTTCATTTTTTTTTTCTTTTATTC
1 TTTCATTTTCATTTT-TTTTATTC
20181039 TTT
1 TTT
20181042 TACCAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCATTTTCATTTTTTTTATTC
Found at i:20181042 original size:17 final size:16
Alignment explanation
Indices: 20180991--20181042 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
20180981 TTTCTCTATC
20180991 TTTTCATTTTCATTTTTT
1 TTTTC-TTTT-ATTTTTT
*
20181009 TTATTCTTTCATTTTTT
1 TT-TTCTTTTATTTTTT
*
20181026 TTTTCTTTTATTCTTT
1 TTTTCTTTTATTTTTT
20181042 T
1 T
20181043 ACCAATTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 13 0.43
17 9 0.30
18 5 0.17
19 3 0.10
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCTTTTATTTTTT
Found at i:20181411 original size:23 final size:20
Alignment explanation
Indices: 20181384--20181434 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
20181374 ATGTGTGGCA
*
20181384 TTTTTATTTTTCTTTTCTCTT
1 TTTTTTTTTTTCTTTT-TCTT
*
20181405 TTTTTTTGTTTCGTTTTTCTT
1 TTTTTTTTTTTC-TTTTTCTT
20181426 TTTTTTTTT
1 TTTTTTTTT
20181435 CTTTCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.02, C:0.10, G:0.04, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTTTCTTTTTCTT
Found at i:20181439 original size:23 final size:23
Alignment explanation
Indices: 20181396--20181439 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20181386 TTTATTTTTC
*
20181396 TTTTCTCTTTTTTTTTGTTTCGT
1 TTTTCTCTTTTTTTTTCTTTCGT
*
20181419 TTTTCTTTTTTTTTTTCTTTC
1 TTTTCTCTTTTTTTTTCTTTC
20181440 TATTTGAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.82
Consensus pattern (23 bp):
TTTTCTCTTTTTTTTTCTTTCGT
Found at i:20185012 original size:58 final size:58
Alignment explanation
Indices: 20184943--20185373 Score: 311
Period size: 59 Copynumber: 7.5 Consensus size: 58
20184933 ATTTATTGAT
* *
20184943 TCAAGAAAAATTGATACTTTTAACTTTTTTCTAAAAGCA-TTTTTCAAAATTTTTATTC
1 TCAAGAAAAATTGATACTTTTAACTTTTTTCTTAAAGTATTTTTTCAAAA-TTTTATTC
* * ** *** * *
20185001 TCAAGAAAAATTGATACATTTAAC-TTTTTCTCAAAAACACAATTTCGAAATTTTAATTT
1 TCAAGAAAAATTGATACTTTTAACTTTTTTCT-TAAAGTATTTTTTCAAAATTTT-ATTC
* * * *
20185060 TCAAGAAAAATTGGTACTTTTAAC-TTTTTCTCAAAAATATCTTCTTT-AAAATTTTATTT
1 TCAAGAAAAATTGATACTTTTAACTTTTTTCT-TAAAGTAT-TT-TTTCAAAATTTTATTC
* * *
20185119 TCAA-AGAAAATTGATATTTTTAA-ATTTTTCTTAAAGTATTTTTTCTTAAAATTTGATAT-
1 TCAAGA-AAAATTGATACTTTTAACTTTTTTCTTAAAGTATTTTTTC--AAAATTTTAT-TC
* * * ** * *
20185178 TCACGAAAAAATT-ATACTTTCAA-TTTTTT-TTAAACTATTTTTTTGAAATTTGATTT
1 TCAAG-AAAAATTGATACTTTTAACTTTTTTCTTAAAGTATTTTTTCAAAATTTTATTC
* * * *
20185234 TCAAGAAAAATTAATA-TTTTCAA-TTTTTTCTTAAAGTATCTTTT-GAAATTTGA-TC
1 TCAAGAAAAATTGATACTTTT-AACTTTTTTCTTAAAGTATTTTTTCAAAATTTTATTC
* * * **
20185289 TTAAAAAAAATTAATACTTTTAACTTTTTT-TTAAAGTATTTTTTTTAAATTTTATT-
1 TCAAGAAAAATTGATACTTTTAACTTTTTTCTTAAAGTATTTTTTCAAAATTTTATTC
* *
20185345 TTAAGAAAAATTGAT-CTTTTAGCTTTTTT
1 TCAAGAAAAATTGATACTTTTAACTTTTTT
20185374 GAAATTTTGA
Statistics
Matches: 314, Mismatches: 38, Indels: 45
0.79 0.10 0.11
Matches are distributed among these distances:
55 54 0.17
56 66 0.21
57 22 0.07
58 53 0.17
59 101 0.32
60 14 0.04
61 4 0.01
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (58 bp):
TCAAGAAAAATTGATACTTTTAACTTTTTTCTTAAAGTATTTTTTCAAAATTTTATTC
Found at i:20185255 original size:56 final size:57
Alignment explanation
Indices: 20185047--20185364 Score: 269
Period size: 56 Copynumber: 5.6 Consensus size: 57
20185037 ACACAATTTC
* ** ** * *
20185047 GAAATTTTAATTTTCAAGAAAAATTGGTACTTTT-AACTTTTTCTCAAAAATATCTTCTTT
1 GAAA-TTTGATTTTCAAGAAAAATTAATACTTTTCAA-TTTTT-TTTAAAGTAT-TTTTTT
* * * * * *
20185107 AAAATTTTATTTTCAA-AGAAAATTGATATTTTTAAATTTTTCTTAAAGTATTTTTTCTT
1 GAAATTTGATTTTCAAGA-AAAATTAATACTTTTCAATTTTTTTTAAAGTA-TTTTT-TT
* * * *
20185166 AAAATTTGATATTCACGAAAAAATT-ATAC-TTTCAATTTTTTTTAAACTATTTTTTT
1 GAAATTTGATTTTCAAG-AAAAATTAATACTTTTCAATTTTTTTTAAAGTATTTTTTT
*
20185222 GAAATTTGATTTTCAAGAAAAATTAATA-TTTTCAATTTTTTCTTAAAGTA-TCTTTT
1 GAAATTTGATTTTCAAGAAAAATTAATACTTTTCAATTTTTT-TTAAAGTATTTTTTT
* *
20185278 GAAATTTGATCTT-AAAAAAAATTAATACTTTT-AACTTTTTTTTAAAGTATTTTTTT
1 GAAATTTGATTTTCAAGAAAAATTAATACTTTTCAA-TTTTTTTTAAAGTATTTTTTT
* * *
20185334 TAAATTTTATTTT-AAGAAAAATTGAT-CTTTT
1 GAAATTTGATTTTCAAGAAAAATTAATACTTTT
20185365 AGCTTTTTTG
Statistics
Matches: 217, Mismatches: 29, Indels: 29
0.79 0.11 0.11
Matches are distributed among these distances:
55 35 0.16
56 84 0.39
57 12 0.06
58 26 0.12
59 48 0.22
60 11 0.05
61 1 0.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (57 bp):
GAAATTTGATTTTCAAGAAAAATTAATACTTTTCAATTTTTTTTAAAGTATTTTTTT
Found at i:20196546 original size:33 final size:33
Alignment explanation
Indices: 20196509--20196573 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
20196499 AGTTTATTTA
* * * *
20196509 TTTATTAGTTTACTATATTATAATAATAAAATT
1 TTTATTAATTTACTAAATAATAAAAATAAAATT
*
20196542 TTTATTAATTTATTAAATAATAAAAATAAAAT
1 TTTATTAATTTACTAAATAATAAAAATAAAAT
20196574 GAATTAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (33 bp):
TTTATTAATTTACTAAATAATAAAAATAAAATT
Found at i:20196936 original size:23 final size:25
Alignment explanation
Indices: 20196900--20196945 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
20196890 TTATATTAAA
*
20196900 TAAATTTTACTAAA-AT-TAATATT
1 TAAATTTAACTAAAGATATAATATT
*
20196923 TAAATTTAATTAAAGATATAATA
1 TAAATTTAACTAAAGATATAATA
20196946 AATTTAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 2 0.11
25 5 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TAAATTTAACTAAAGATATAATATT
Found at i:20197863 original size:16 final size:16
Alignment explanation
Indices: 20197842--20197884 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
20197832 ATTATTTTTT
*
20197842 AAATATAAATATTTAA
1 AAATATAAATATATAA
* *
20197858 AAATATCATTATATAA
1 AAATATAAATATATAA
*
20197874 ATATATAAATA
1 AAATATAAATA
20197885 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:20199538 original size:30 final size:30
Alignment explanation
Indices: 20199473--20199542 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
20199463 ATTATTTTTT
*
20199473 AAATAT-TA-TTAGTATGTAAATTTATTTAA
1 AAATATATATTTA-TATGTAAATTTATCTAA
**
20199502 CCATATAATATTTATATGT-AATTTATCTAA
1 AAATAT-ATATTTATATGTAAATTTATCTAA
20199532 AAATATATATT
1 AAATATATATT
20199543 GAGAAACGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
29 9 0.27
30 14 0.42
31 7 0.21
32 3 0.09
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (30 bp):
AAATATATATTTATATGTAAATTTATCTAA
Found at i:20200664 original size:2 final size:2
Alignment explanation
Indices: 20200657--20200698 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
20200647 TAATTAACTA
20200657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20200699 TGCAAATGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20201047 original size:23 final size:23
Alignment explanation
Indices: 20201021--20201065 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20201011 CGCAAAATAA
*
20201021 AAATTTTATACTAAT-AATATATC
1 AAATATTA-ACTAATAAATATATC
*
20201044 AAATATTAACTCATAAATATAT
1 AAATATTAACTAATAAATATAT
20201066 AATATATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTAACTAATAAATATATC
Found at i:20204289 original size:13 final size:13
Alignment explanation
Indices: 20204271--20204295 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20204261 CATGTTTAAA
20204271 AATACCATTTTAT
1 AATACCATTTTAT
20204284 AATACCATTTTA
1 AATACCATTTTA
20204296 ATATGGGATT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
AATACCATTTTAT
Found at i:20209458 original size:26 final size:26
Alignment explanation
Indices: 20209424--20209485 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
20209414 ATAGATATTG
* *
20209424 ATTTCAATTTTAATAA-TTATCTAAAAT
1 ATTT-AATTTAAATAATTTAT-TAAAAA
20209451 ATTTAATTTAAATAATTTATTAAAAA
1 ATTTAATTTAAATAATTTATTAAAAA
*
20209477 ATTTTATTT
1 ATTTAATTT
20209486 GATAAATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 23 0.74
27 8 0.26
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (26 bp):
ATTTAATTTAAATAATTTATTAAAAA
Found at i:20209646 original size:12 final size:12
Alignment explanation
Indices: 20209620--20209698 Score: 63
Period size: 13 Copynumber: 6.4 Consensus size: 12
20209610 GATGTGTAAA
*
20209620 TTTTAAAAAATAT
1 TTTTAATAAA-AT
20209633 TTTTAATAAAA-
1 TTTTAATAAAAT
* *
20209644 -TTTGATATATAT
1 TTTTAATA-AAAT
20209656 TTTTAAATAAATAT
1 TTTT-AATAAA-AT
*
20209670 TTTTAATAAAAA
1 TTTTAATAAAAT
*
20209682 TATTAATAAAAT
1 TTTTAATAAAAT
20209694 TTTTA
1 TTTTA
20209699 TTTTTAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
10 6 0.12
11 2 0.04
12 16 0.31
13 19 0.37
14 9 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (12 bp):
TTTTAATAAAAT
Found at i:20209671 original size:14 final size:14
Alignment explanation
Indices: 20209620--20209714 Score: 58
Period size: 14 Copynumber: 7.1 Consensus size: 14
20209610 GATGTGTAAA
20209620 TTTTAAA-AAATAT
1 TTTTAAATAAATAT
20209633 TTTT-AATAAA-A-
1 TTTTAAATAAATAT
* *
20209644 -TTT-GATATATAT
1 TTTTAAATAAATAT
20209656 TTTTAAATAAATAT
1 TTTTAAATAAATAT
*
20209670 TTTTAATAAAAATAT
1 TTTTAA-ATAAATAT
* * ***
20209685 TAATAAAATTTTTAT
1 T-TTTAAATAAATAT
20209700 TTTTAAATAAATAT
1 TTTTAAATAAATAT
20209714 T
1 T
20209715 AATTAAATTT
Statistics
Matches: 59, Mismatches: 16, Indels: 13
0.67 0.18 0.15
Matches are distributed among these distances:
10 7 0.12
11 1 0.02
12 3 0.05
13 10 0.17
14 22 0.37
15 13 0.22
16 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (14 bp):
TTTTAAATAAATAT
Found at i:20209691 original size:29 final size:29
Alignment explanation
Indices: 20209658--20209722 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
20209648 ATATATATTT
20209658 TTAAATAAATATTTTTAATAAAAATATTAA
1 TTAAATAAATATTTTTAA-AAAAATATTAA
* *** *
20209688 TAAAATTTTTATTTTTAAATAAATATTAA
1 TTAAATAAATATTTTTAAAAAAATATTAA
20209717 TTAAAT
1 TTAAAT
20209723 TTAAATTATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAATAAATATTTTTAAAAAAATATTAA
Found at i:20209723 original size:29 final size:30
Alignment explanation
Indices: 20209667--20209724 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
20209657 TTTAAATAAA
20209667 TATTTTTAATAAAAATATTAATAAAATTTT
1 TATTTTTAATAAAAATATTAATAAAATTTT
* *
20209697 TATTTTTAA-ATAAATATTAATTAAATTT
1 TATTTTTAATAAAAATATTAATAAAATTT
20209725 AAATTATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
TATTTTTAATAAAAATATTAATAAAATTTT
Found at i:20210381 original size:26 final size:26
Alignment explanation
Indices: 20210329--20210381 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
20210319 ATTTTATATA
* * * *
20210329 TTATTAATCAATTAAATGATATAATT
1 TTATTAATAAAATAAATCAGATAATT
*
20210355 TTATTAATAAAATAAATCAGATGATT
1 TTATTAATAAAATAAATCAGATAATT
20210381 T
1 T
20210382 CATCTCATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TTATTAATAAAATAAATCAGATAATT
Found at i:20221924 original size:20 final size:19
Alignment explanation
Indices: 20221899--20221936 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
20221889 ATCAGAATTA
20221899 ATAAAATATTATTTTTTAAT
1 ATAAAATATT-TTTTTTAAT
20221919 ATAAAATATTTTTTTTAA
1 ATAAAATATTTTTTTTAA
20221937 AAATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATAAAATATTTTTTTTAAT
Found at i:20221971 original size:19 final size:21
Alignment explanation
Indices: 20221935--20221978 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
20221925 TATTTTTTTT
20221935 AAAAATATAAATATATAAATA
1 AAAAATATAAATATATAAATA
* *
20221956 AAAAATTTAAA-A-ATAATTA
1 AAAAATATAAATATATAAATA
20221975 AAAA
1 AAAA
20221979 TAATTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 1 0.05
21 10 0.48
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAATATAAATATATAAATA
Found at i:20222328 original size:12 final size:12
Alignment explanation
Indices: 20222311--20222336 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20222301 CAATAATATA
20222311 TAAAAAATTATT
1 TAAAAAATTATT
20222323 TAAAAAATTATT
1 TAAAAAATTATT
20222335 TA
1 TA
20222337 TAACTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAAAAATTATT
Found at i:20229741 original size:13 final size:11
Alignment explanation
Indices: 20229730--20229772 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
20229720 TAAATTTATG
20229730 TATTTATATTA
1 TATTTATATTA
20229741 TATTTATATATA
1 TATTTATAT-TA
*
20229753 AATTATATATTA
1 TATT-TATATTA
20229765 TAATTTAT
1 T-ATTTAT
20229773 GACAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 9 0.33
12 10 0.37
13 8 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTTATATTA
Found at i:20229885 original size:13 final size:13
Alignment explanation
Indices: 20229867--20229891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20229857 TATATCATGT
20229867 TTATATTATATTA
1 TTATATTATATTA
20229880 TTATATTATATT
1 TTATATTATATT
20229892 TTAAATTTTC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATATTATATTA
Found at i:20230451 original size:14 final size:15
Alignment explanation
Indices: 20230414--20230451 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
20230404 TTAAAATTTA
*
20230414 AATTTATTAAATATT
1 AATTTATTAAATAAT
20230429 AATTT-TTAAA-AAT
1 AATTTATTAAATAAT
20230442 AATTTATTAA
1 AATTTATTAA
20230452 GTTTCGGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 7 0.33
14 9 0.43
15 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTATTAAATAAT
Found at i:20231026 original size:30 final size:29
Alignment explanation
Indices: 20230992--20231054 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
20230982 TTTTTTCCTC
*
20230992 AAATTAACATACTTTGTAA-TTTTATTTCTT
1 AAATTAAAATA-TTTGTAAGTTTTATTT-TT
*
20231022 AAATTAAAATATTTTTAAGTTTTATTTTT
1 AAATTAAAATATTTGTAAGTTTTATTTTT
20231051 AAAT
1 AAAT
20231055 AATGCTACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 12 0.40
30 18 0.60
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (29 bp):
AAATTAAAATATTTGTAAGTTTTATTTTT
Found at i:20252644 original size:32 final size:32
Alignment explanation
Indices: 20252603--20252697 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
20252593 AACCCTCCCA
* * *
20252603 TAATAGGTCCACTTCAGCCAGGAGATGGGCCT
1 TAATAGGTCCACTTGAGACAGGAGATGGGCCC
* *
20252635 TAATAGGTCCACTTGAAACAGGAGATAGGCCC
1 TAATAGGTCCACTTGAGACAGGAGATGGGCCC
*
20252667 TAATAGGTCCACTTGAGGCAGGAGATGGGCC
1 TAATAGGTCCACTTGAGACAGGAGATGGGCC
20252698 AAAAATTATA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.20
Consensus pattern (32 bp):
TAATAGGTCCACTTGAGACAGGAGATGGGCCC
Found at i:20252801 original size:76 final size:76
Alignment explanation
Indices: 20252667--20252969 Score: 321
Period size: 76 Copynumber: 3.9 Consensus size: 76
20252657 AGATAGGCCC
* * *
20252667 TAATAGGTCCACTTGAGGCAGGAG-ATGGGCCAAAAA-TTATAAAGCACATGCCCAGTGGGAGTT
1 TAATAGGTCCACTTGAGCCAGTAGCATGGGCAAAAAATTTA-AAAGCACATGCCCAGTGGGAGTT
*
20252730 CTAAACCCGACCA
65 C-GAACCCGACCA
** * *
20252743 TAATAGGTCCACTTGAGCCAGTAGCAT-GGCAAAAAATTTAAAAGCACAAACCCGGTGGGA-CTC
1 TAATAGGTCCACTTGAGCCAGTAGCATGGGCAAAAAATTTAAAAGCACATGCCCAGTGGGAGTTC
*
20252806 GAACCCAGGAGATGGGCCC
66 GAACCC----GA----CCA
* * *
20252825 TAGTAGGTCCACTTGAGCCAGTATCATGGGCCAAAAATTTAAAAGCACATGCCCAGTGGGAGTTC
1 TAATAGGTCCACTTGAGCCAGTAGCATGGGCAAAAAATTTAAAAGCACATGCCCAGTGGGAGTTC
20252890 GAACCCGACCA
66 GAACCCGACCA
* * * * *
20252901 TAATAGGTCCACTTGAGCCAGTAGCAT-AGCAAAAAGTTTAAAAGCACACGCCCGGTGGGA-CTC
1 TAATAGGTCCACTTGAGCCAGTAGCATGGGCAAAAAATTTAAAAGCACATGCCCAGTGGGAGTTC
20252964 GAACCC
66 GAACCC
20252970 ACAATCGCCT
Statistics
Matches: 190, Mismatches: 25, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
74 13 0.07
75 30 0.16
76 74 0.39
77 5 0.03
78 2 0.01
80 2 0.01
82 27 0.14
83 29 0.15
84 8 0.04
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (76 bp):
TAATAGGTCCACTTGAGCCAGTAGCATGGGCAAAAAATTTAAAAGCACATGCCCAGTGGGAGTTC
GAACCCGACCA
Found at i:20252941 original size:158 final size:158
Alignment explanation
Indices: 20252653--20252970 Score: 514
Period size: 158 Copynumber: 2.0 Consensus size: 158
20252643 CCACTTGAAA
* *
20252653 CAGGAGATAGGCCCTAATAGGTCCACTTGAGGCAGGAGATGGGCCAAAAATTATAAAGCACATGC
1 CAGGAGATAGGCCCTAATAGGTCCACTTGAGCCAGGACATGGGCCAAAAATTATAAAGCACATGC
*
20252718 CCAGTGGGAGTTCTAAACCCGACCATAATAGGTCCACTTGAGCCAGTAGCATGGCAAAAAATTTA
66 CCAGTGGGAGTTCTAAACCCGACCATAATAGGTCCACTTGAGCCAGTAGCATAGCAAAAAATTTA
20252783 AAAGCACAAACCCGGTGGGACTCGAACC
131 AAAGCACAAACCCGGTGGGACTCGAACC
* * *
20252811 CAGGAGATGGGCCCTAGTAGGTCCACTTGAGCCAGTATCATGGGCCAAAAATT-TAAAAGCACAT
1 CAGGAGATAGGCCCTAATAGGTCCACTTGAGCCAGGA-CATGGGCCAAAAATTAT-AAAGCACAT
* *
20252875 GCCCAGTGGGAGTTC-GAACCCGACCATAATAGGTCCACTTGAGCCAGTAGCATAGCAAAAAGTT
64 GCCCAGTGGGAGTTCTAAACCCGACCATAATAGGTCCACTTGAGCCAGTAGCATAGCAAAAAATT
**
20252939 TAAAAGCACACGCCCGGTGGGACTCGAACC
129 TAAAAGCACAAACCCGGTGGGACTCGAACC
20252969 CA
1 CA
20252971 CAATCGCCTG
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
158 110 0.74
159 38 0.26
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (158 bp):
CAGGAGATAGGCCCTAATAGGTCCACTTGAGCCAGGACATGGGCCAAAAATTATAAAGCACATGC
CCAGTGGGAGTTCTAAACCCGACCATAATAGGTCCACTTGAGCCAGTAGCATAGCAAAAAATTTA
AAAGCACAAACCCGGTGGGACTCGAACC
Found at i:20257422 original size:30 final size:28
Alignment explanation
Indices: 20257352--20257430 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 28
20257342 TGATATAATC
*
20257352 TTATTTTAA-TAAATATTTAATTTTTTA
1 TTATTTTAATTAAATATTAAATTTTTTA
*
20257379 TAATTTTATATTAAA-ATTAAATCTTTTTAA
1 TTATTTTA-ATTAAATATTAAAT-TTTTT-A
20257409 TTATTATTAATT-AAT-TTAAATT
1 TTATT-TTAATTAAATATTAAATT
20257431 AACTATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 7 0.16
28 8 0.19
29 17 0.40
30 8 0.19
31 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (28 bp):
TTATTTTAATTAAATATTAAATTTTTTA
Found at i:20262067 original size:23 final size:23
Alignment explanation
Indices: 20262041--20262084 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
20262031 ACTCCTAGTA
*
20262041 CAAAATCTCTTCCTTAATCAATT
1 CAAAATCGCTTCCTTAATCAATT
*
20262064 CAAAATGGCTTCCTTAATCAA
1 CAAAATCGCTTCCTTAATCAA
20262085 GAAAATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (23 bp):
CAAAATCGCTTCCTTAATCAATT
Found at i:20262142 original size:19 final size:20
Alignment explanation
Indices: 20262098--20262155 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
20262088 AATTGGAACA
*
20262098 AAAAATAAAAAAAAGAAACT
1 AAAAATAAAAAAAAGAAACC
* *
20262118 ACAAATAAAAAAAA-AGACC
1 AAAAATAAAAAAAAGAAACC
*
20262137 AAAAATAAGAAAAATGAAA
1 AAAAATAA-AAAAAAGAAA
20262156 AAGAAAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 10 0.33
20 18 0.60
21 2 0.07
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.09
Consensus pattern (20 bp):
AAAAATAAAAAAAAGAAACC
Found at i:20262167 original size:17 final size:17
Alignment explanation
Indices: 20262147--20262179 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20262137 AAAAATAAGA
20262147 AAAATGAAAA-AGAAAAC
1 AAAAT-AAAACAGAAAAC
20262164 AAAATAAAACAGAAAA
1 AAAATAAAACAGAAAA
20262180 GAACAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.06, G:0.09, T:0.06
Consensus pattern (17 bp):
AAAATAAAACAGAAAAC
Found at i:20263721 original size:16 final size:17
Alignment explanation
Indices: 20263679--20263718 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
20263669 TTAAAATAAT
*
20263679 TATTAAATATAAAAAAA
1 TATTAAATAAAAAAAAA
*
20263696 TCTTAAATAAAAAAAAA
1 TATTAAATAAAAAAAAA
20263713 TATTAA
1 TATTAA
20263719 TAACAATGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TATTAAATAAAAAAAAA
Found at i:20264552 original size:29 final size:28
Alignment explanation
Indices: 20264520--20264606 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
20264510 TCTACATATT
* * *
20264520 TTATGAATTTTGATTTATATTCAAATAA
1 TTATTAATTTTAATTTGTATTCAAATAA
20264548 GTTATTAACTTTTAATTTGTA-TCTAAATAA
1 -TTATTAA-TTTTAATTTGTATTC-AAATAA
*
20264578 TTATTAATCTTTAATTTGTATTTAAATAA
1 TTATTAAT-TTTAATTTGTATTCAAATAA
20264607 AATTTAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 1 0.02
29 32 0.64
30 17 0.34
ACGTcount: A:0.38, C:0.05, G:0.06, T:0.52
Consensus pattern (28 bp):
TTATTAATTTTAATTTGTATTCAAATAA
Found at i:20264636 original size:17 final size:16
Alignment explanation
Indices: 20264590--20264661 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
20264580 ATTAATCTTT
20264590 AATTTGTATTTAAATAA
1 AATTT-TATTTAAATAA
* *
20264607 AATTTAATATAAATTAA
1 AATTTTATTTAAA-TAA
*
20264624 TATTTTATTTAAAATAA
1 AATTTTATTT-AAATAA
* * *
20264641 GAGTTTATTTAGATACA
1 AATTTTATTTAAATA-A
20264658 AATT
1 AATT
20264662 AAAAATTTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
16 10 0.24
17 29 0.69
18 3 0.07
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.46
Consensus pattern (16 bp):
AATTTTATTTAAATAA
Found at i:20265273 original size:37 final size:36
Alignment explanation
Indices: 20265231--20265308 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 36
20265221 TTTTAAGTAA
*
20265231 ATTTAACTCCATATATATATATTATTTTTAATTATT-T
1 ATTTAACTCCATATATATATATT-TATTTAATT-TTAT
* ** *
20265268 ATTTAATTTTATATTTATATATTTATTTAATTTTAT
1 ATTTAACTCCATATATATATATTTATTTAATTTTAT
20265304 ATTTA
1 ATTTA
20265309 TATTAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 2 0.06
36 14 0.40
37 19 0.54
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (36 bp):
ATTTAACTCCATATATATATATTTATTTAATTTTAT
Found at i:20265274 original size:12 final size:13
Alignment explanation
Indices: 20265250--20265313 Score: 66
Period size: 12 Copynumber: 5.2 Consensus size: 13
20265240 CATATATATA
*
20265250 TATTATTTTTAAT
1 TATTATATTTAAT
20265263 TATT-TATTTAAT
1 TATTATATTTAAT
20265275 T-TTATATTT-AT
1 TATTATATTTAAT
20265286 ATATT-TATTTAAT
1 -TATTATATTTAAT
20265299 T-TTATATTTATAT
1 TATTATATTTA-AT
20265312 TA
1 TA
20265314 AAAAATATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
11 6 0.14
12 26 0.60
13 11 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATATTTAAT
Found at i:20265284 original size:24 final size:24
Alignment explanation
Indices: 20265252--20265313 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
20265242 TATATATATA
*
20265252 TTATTTTTAATTATTTATTTAATT
1 TTATATTTAATTATTTATTTAATT
20265276 TTATATTT-ATATATTTATTTAATT
1 TTATATTTAAT-TATTTATTTAATT
20265300 TTATATTTATATTA
1 TTATATTTA-ATTA
20265314 AAAAATATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 2 0.06
24 28 0.82
25 2 0.06
26 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATATTTAATTATTTATTTAATT
Found at i:20268814 original size:16 final size:18
Alignment explanation
Indices: 20268795--20268837 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
20268785 TTATTTTCAA
20268795 ATTTTTATAT-TATA-TT
1 ATTTTTATATCTATATTT
20268811 ATTTTTATATCTATATTT
1 ATTTTTATATCTATATTT
*
20268829 AATTTTATA
1 ATTTTTATA
20268838 GATATTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.42
17 4 0.17
18 10 0.42
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTTATATCTATATTT
Found at i:20268836 original size:18 final size:16
Alignment explanation
Indices: 20268797--20268837 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 16
20268787 ATTTTCAAAT
*
20268797 TTTTATATTATATTAT
1 TTTTATATTATATTAA
20268813 TTTTATATCTATATTTAA
1 TTTTATAT-TATA-TTAA
20268831 TTTTATA
1 TTTTATA
20268838 GATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 4 0.18
18 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATATTATATTAA
Found at i:20268980 original size:20 final size:20
Alignment explanation
Indices: 20268925--20268981 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
20268915 ATAAATTAAA
*
20268925 AAATAATTTTTTTTATTTTT
1 AAATAATTTTTTTTATATTT
*
20268945 AAAT--TTTACTTATTATATTT
1 AAATAATTT--TTTTTATATTT
20268965 AAATAATTTTTTTTATA
1 AAATAATTTTTTTTATA
20268982 ATATATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 3 0.10
20 24 0.80
22 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
AAATAATTTTTTTTATATTT
Found at i:20269066 original size:21 final size:22
Alignment explanation
Indices: 20269017--20269068 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
20269007 AAAATAAGTT
20269017 AATTTTA-ATTAATTTAAAATA
1 AATTTTATATTAATTTAAAATA
20269038 ATATTTTATATT-ATTTAATAA-A
1 A-ATTTTATATTAATTTAA-AATA
20269060 AATTTTATA
1 AATTTTATA
20269069 CATTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 9 0.32
22 14 0.50
23 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTTATATTAATTTAAAATA
Found at i:20270525 original size:21 final size:21
Alignment explanation
Indices: 20270486--20270525 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20270476 TTTTTTTCAT
***
20270486 TTTTATTTTTCATTGATGAGG
1 TTTTATTTTTCAAAAATGAGG
20270507 TTTTATTTTTCAAAAATGA
1 TTTTATTTTTCAAAAATGA
20270526 AGATTATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTATTTTTCAAAAATGAGG
Found at i:20274279 original size:14 final size:14
Alignment explanation
Indices: 20274260--20274289 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20274250 TTTTATAGAG
20274260 TTCTCAGATCAGAA
1 TTCTCAGATCAGAA
20274274 TTCTCAGATCAGAA
1 TTCTCAGATCAGAA
20274288 TT
1 TT
20274290 TTGTGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (14 bp):
TTCTCAGATCAGAA
Found at i:20276086 original size:16 final size:16
Alignment explanation
Indices: 20276052--20276085 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20276042 GATCAGCAGG
20276052 TTTCTTCACTGTTTCT
1 TTTCTTCACTGTTTCT
*
20276068 TTTCTTC-CTTTTTCT
1 TTTCTTCACTGTTTCT
20276083 TTT
1 TTT
20276086 TTGAGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTCTTCACTGTTTCT
Found at i:20276875 original size:39 final size:39
Alignment explanation
Indices: 20276832--20276909 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
20276822 AAGCACAATC
20276832 TATAATGACTTGGTTGCATTTGAAACAAACAAAGATTTT
1 TATAATGACTTGGTTGCATTTGAAACAAACAAAGATTTT
20276871 TATAATGACTTGGTTGCATTTGAAACAAACAAAGATTTT
1 TATAATGACTTGGTTGCATTTGAAACAAACAAAGATTTT
20276910 GTCCTGAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (39 bp):
TATAATGACTTGGTTGCATTTGAAACAAACAAAGATTTT
Found at i:20285338 original size:19 final size:20
Alignment explanation
Indices: 20285314--20285366 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
20285304 AAATAATATT
*
20285314 AAATAATATTTTGTATTAA-
1 AAATAATATTTTATATTAAC
**
20285333 AAATAATATAATATATTAAC
1 AAATAATATTTTATATTAAC
*
20285353 AATTAATATTTTAT
1 AAATAATATTTTAT
20285367 TAATTTATGA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATAATATTTTATATTAAC
Found at i:20286679 original size:11 final size:12
Alignment explanation
Indices: 20286665--20286699 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
20286655 GTTATATAAA
20286665 AATTATTT-TTT
1 AATTATTTATTT
20286676 AATTATTTATTT
1 AATTATTTATTT
20286688 AATT-TTTATTT
1 AATTATTTATTT
20286699 A
1 A
20286700 TATATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
AATTATTTATTT
Found at i:20286695 original size:19 final size:19
Alignment explanation
Indices: 20286671--20286708 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
20286661 TAAAAATTAT
*
20286671 TTTTTAATTATTTATTTAA
1 TTTTTAATTATATATTTAA
*
20286690 TTTTTATTTATATATTTAA
1 TTTTTAATTATATATTTAA
20286709 ATATTTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTAATTATATATTTAA
Found at i:20286715 original size:16 final size:15
Alignment explanation
Indices: 20286694--20286724 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
20286684 ATTTAATTTT
20286694 TATTTATATATTTAAA
1 TATTTATAT-TTTAAA
20286710 TATTTATATTTTAAA
1 TATTTATATTTTAAA
20286725 AAATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATATTTTAAA
Found at i:20294659 original size:28 final size:28
Alignment explanation
Indices: 20294615--20294669 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
20294605 AAAAAAGAGG
20294615 GTTTAATAGTATATGAGAATTTTCTTTA
1 GTTTAATAGTATATGAGAATTTTCTTTA
*
20294643 GTTTAATAGTATCTGAGAATTTTCTTT
1 GTTTAATAGTATATGAGAATTTTCTTT
20294670 CTTACATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (28 bp):
GTTTAATAGTATATGAGAATTTTCTTTA
Found at i:20295210 original size:130 final size:130
Alignment explanation
Indices: 20295029--20295286 Score: 489
Period size: 130 Copynumber: 2.0 Consensus size: 130
20295019 ATTCTCGATC
20295029 CAAACAAATACATACCCATGTGCACTCTTTCAACACAACCAAATACATATTCATATGCATCCATA
1 CAAACAAATACATACCCATGTGCACTCTTTCAACACAACCAAATACATATTCATATGCATCCATA
*
20295094 CATCATACTTATGTTGACTCTCTCAGTCTTTTCTAGTCCACTCACAAATAAACATACACACCTGT
66 CATCATACTTATGTTGACTCTCTCAGTCTCTTCTAGTCCACTCACAAATAAACATACACACCTGT
*
20295159 CAAACAAATACATACGCATGTGCACTCTTTCAACACAACCAAATACATATTCATATGCATCCATA
1 CAAACAAATACATACCCATGTGCACTCTTTCAACACAACCAAATACATATTCATATGCATCCATA
*
20295224 TATCATACTTATGTTGACTCTCTCAGTCTCTTCTAGTCCACTCACAAATAAACATACACACCT
66 CATCATACTTATGTTGACTCTCTCAGTCTCTTCTAGTCCACTCACAAATAAACATACACACCT
20295287 ATCGTAAATC
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 125 1.00
ACGTcount: A:0.36, C:0.29, G:0.06, T:0.29
Consensus pattern (130 bp):
CAAACAAATACATACCCATGTGCACTCTTTCAACACAACCAAATACATATTCATATGCATCCATA
CATCATACTTATGTTGACTCTCTCAGTCTCTTCTAGTCCACTCACAAATAAACATACACACCTGT
Found at i:20295487 original size:17 final size:17
Alignment explanation
Indices: 20295453--20295485 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
20295443 TCAAATTTGC
20295453 CTATTAAGAATTCTTTT
1 CTATTAAGAATTCTTTT
20295470 CTATT-AGAATTCTTTT
1 CTATTAAGAATTCTTTT
20295486 TCGAAAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.27, C:0.12, G:0.06, T:0.55
Consensus pattern (17 bp):
CTATTAAGAATTCTTTT
Found at i:20300698 original size:23 final size:22
Alignment explanation
Indices: 20300667--20300711 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
20300657 AAATAAGTAA
*
20300667 ATAACATTAAAACTCTTTGAATT
1 ATAAAATTAAAACTC-TTGAATT
* *
20300690 ATAAAATTAGAATTCTTGAATT
1 ATAAAATTAAAACTCTTGAATT
20300712 CAATTTGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAAAATTAAAACTCTTGAATT
Found at i:20302196 original size:15 final size:14
Alignment explanation
Indices: 20302174--20302208 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
20302164 TTTATTAAAC
20302174 TTAA-TTTTAATTT
1 TTAATTTTTAATTT
20302187 TTATATTTTTAATTT
1 TTA-ATTTTTAATTT
20302202 TTAATTT
1 TTAATTT
20302209 ATATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 3 0.15
14 5 0.25
15 12 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTAATTTTTAATTT
Found at i:20302203 original size:22 final size:21
Alignment explanation
Indices: 20302174--20302214 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
20302164 TTTATTAAAC
*
20302174 TTAATTTTAATTTTTATATTT
1 TTAATTTTAATTTATATATTT
20302195 TTAATTTTTAATTTATATAT
1 TTAA-TTTTAATTTATATAT
20302215 ATATATGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTAATTTTAATTTATATATTT
Found at i:20302205 original size:7 final size:7
Alignment explanation
Indices: 20302174--20302208 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
20302164 TTTATTAAAC
20302174 TTAA-TT
1 TTAATTT
20302180 TTAATTT
1 TTAATTT
20302187 TTATATTT
1 TTA-ATTT
20302195 TTAATTT
1 TTAATTT
20302202 TTAATTT
1 TTAATTT
20302209 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 4 0.15
7 16 0.59
8 7 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTAATTT
Found at i:20302469 original size:2 final size:2
Alignment explanation
Indices: 20302462--20302487 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20302452 ACAGATCTTT
20302462 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
20302488 CATGTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20302729 original size:16 final size:18
Alignment explanation
Indices: 20302710--20302746 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20302700 AATTTAAATT
20302710 ATTTA-TCATT-TATAAA
1 ATTTATTCATTATATAAA
*
20302726 ATTTATTTATTATATAAA
1 ATTTATTCATTATATAAA
20302744 ATT
1 ATT
20302747 GAAATTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTATTCATTATATAAA
Found at i:20302827 original size:29 final size:29
Alignment explanation
Indices: 20302795--20302854 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
20302785 TTTTCATATA
*
20302795 TACCACCT-TACTTTTTTTTTTTGCAATTT
1 TACCA-CTATACTTTTTTTTTATGCAATTT
20302824 TACCACTATACTTTTTTTTTATGCAATTT
1 TACCACTATACTTTTTTTTTATGCAATTT
20302853 TA
1 TA
20302855 GTTATTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.22, C:0.18, G:0.03, T:0.57
Consensus pattern (29 bp):
TACCACTATACTTTTTTTTTATGCAATTT
Found at i:20304447 original size:19 final size:19
Alignment explanation
Indices: 20304423--20304473 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
20304413 TTTTTATTTA
20304423 ATAAATAATTAAATTAATC
1 ATAAATAATTAAATTAATC
** *
20304442 ATAAATTTTTAAA-TAATT
1 ATAAATAATTAAATTAATC
20304460 A-ATAATAATTAAAT
1 ATA-AATAATTAAAT
20304474 CAATTAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 1 0.04
18 13 0.52
19 11 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAATAATTAAATTAATC
Found at i:20304548 original size:18 final size:17
Alignment explanation
Indices: 20304516--20304550 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20304506 TTAAATAATC
*
20304516 AATTTTTTATTATAAAT
1 AATTATTTATTATAAAT
20304533 AATTATTTAGTTATAAAT
1 AATTATTTA-TTATAAAT
20304551 TTAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTATTTATTATAAAT
Found at i:20308005 original size:12 final size:12
Alignment explanation
Indices: 20307988--20308017 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
20307978 TTATTTAAAG
20307988 AAAAATCAAAAT
1 AAAAATCAAAAT
20308000 AAAAATCAAAAT
1 AAAAATCAAAAT
20308012 AGAAAA
1 A-AAAA
20308018 GAAGGAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.77, C:0.07, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAATCAAAAT
Found at i:20308187 original size:117 final size:116
Alignment explanation
Indices: 20308048--20308436 Score: 536
Period size: 118 Copynumber: 3.3 Consensus size: 116
20308038 TTGTGTAGGA
* *
20308048 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTTTTAAGAAAAATTAA
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGA
*
20308113 TACTTTCAACTTTTCCTCAAAAA-ATTTTTTTATGAAATTTTGATTTCCAAGG
66 TACTTTCAACTTTTCCTCAAAAATA-TTTTTTA-GAAATTTTGATTTTCAAGG
* ** *
20308165 AAAATTGATACTTTCAACTTTTCCTTAAAAATCCCTTTTTGAAAATTTATTTCTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAAT-ATTTTTTGAAAATTTATTTTTAAGGAAAATTG
* * * *
20308230 ATACTTTCAACTTTTCCTTAAAAATGTTTTTCAAAAATTTTGATTTTCAAGG
65 ATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAATTTTGATTTTCAAGG
* *
20308282 AAAATTCATACTTTCAACTTTT-CCTCAAAAACCTTTTTTTTGAAAATTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA--TATTTTTTGAAAATTTATTTTTAAGGAAAAT
* * *
20308346 TGATACTTTCAACTTTTTCC-CAAAGATATTTTTTGGAAA-TTT-ATTTTTAAGG
63 TGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAATTTTGATTTTCAAGG
20308398 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT
20308437 TTGGAAATTT
Statistics
Matches: 240, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
114 7 0.03
116 37 0.15
117 80 0.33
118 109 0.45
119 7 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (116 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAATTTTGATTTTCAAGG
Found at i:20308312 original size:59 final size:57
Alignment explanation
Indices: 20308048--20308436 Score: 471
Period size: 57 Copynumber: 6.7 Consensus size: 57
20308038 TTGTGTAGGA
* *
20308048 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTGAAAATTTATTTTCAAGG
* * * *
20308105 AAAATTAATACTTTCAACTTTTCCTCAAAAAATTTTTTTATGAAATTTTGATTTCCAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTT-TGAAAATTT-ATTTTCAAGG
* **
20308165 AAAATTGATACTTTCAACTTTTCCTTAAAAATCCCTTTTTGAAAATTTA-TTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTGAAAATTTATTTTC-AAGG
* * **
20308223 AAAATTGATACTTTCAACTTTTCCTTAAAAATGTTTTTCAAAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAA-TTT-ATTTTCAAGG
* * *
20308282 AAAATTCATACTTTCAACTTTTCCTCAAAAACCTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTGAAAATTTATTTTCAAGG
* * *
20308341 AAAATTGATACTTTCAACTTTTTCC-CAAAGATATTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGAAAATTTATTTTCAAGG
20308398 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTT
20308437 TTGGAAATTT
Statistics
Matches: 292, Mismatches: 28, Indels: 24
0.85 0.08 0.07
Matches are distributed among these distances:
56 7 0.02
57 88 0.30
58 52 0.18
59 87 0.30
60 48 0.16
61 10 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTCAAGG
Found at i:20308486 original size:25 final size:24
Alignment explanation
Indices: 20308458--20308525 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 24
20308448 GATTTTTATT
*
20308458 TAAAGAAAATAGAATAA-TAAAAAAA
1 TAAA-AAAAAAGAA-AAGTAAAAAAA
20308483 TAAAAAATAAAGAAAAGTAAAAAAA
1 TAAAAAA-AAAGAAAAGTAAAAAAA
20308508 -AAATAAAAAA-AAAA-TAAA
1 TAAA-AAAAAAGAAAAGTAAA
20308526 GATAAAAAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
22 4 0.10
23 4 0.10
24 11 0.28
25 20 0.51
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (24 bp):
TAAAAAAAAAGAAAAGTAAAAAAA
Found at i:20308510 original size:21 final size:22
Alignment explanation
Indices: 20308479--20308533 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
20308469 GAATAATAAA
*
20308479 AAAATAAAAAATAAAGAAAAGT
1 AAAATAAAAAATAAAAAAAAGT
*
20308501 AAAA-AAAAAATAAAAAAAAAAT
1 AAAATAAAAAAT-AAAAAAAAGT
20308523 AAAGATAAAAA
1 AAA-ATAAAAA
20308534 GAATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 15 0.54
23 1 0.04
24 5 0.18
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (22 bp):
AAAATAAAAAATAAAAAAAAGT
Found at i:20308515 original size:28 final size:28
Alignment explanation
Indices: 20308463--20308533 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
20308453 TTATTTAAAG
* *
20308463 AAAATAGA-ATAATAAAAAAATAAAAAA
1 AAAATAAAGATAAAAAAAAAATAAAAAA
20308490 TAAAGA-AAAG-TAAAAAAAAAATAAAAAA
1 -AAA-ATAAAGATAAAAAAAAAATAAAAAA
20308518 AAAATAAAGATAAAAA
1 AAAATAAAGATAAAAA
20308534 GAATATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 1 0.03
27 7 0.19
28 28 0.76
29 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.13
Consensus pattern (28 bp):
AAAATAAAGATAAAAAAAAAATAAAAAA
Found at i:20308520 original size:32 final size:32
Alignment explanation
Indices: 20308458--20308538 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
20308448 GATTTTTATT
* *
20308458 TAAAGAAAATAGAATAATAAAAAAATAAAAAA
1 TAAAGAAAATAGAATAAAAAAAAAAAAAAAAA
20308490 TAAAGAAAAGTA-AA-AAAAAAATAAAAAAAAAA
1 TAAAGAAAA-TAGAATAAAAAAA-AAAAAAAAAA
*
20308522 TAAAGATAAAAAGAATA
1 TAAAGA-AAATAGAATA
20308539 TTAAATAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
31 6 0.15
32 27 0.66
33 7 0.17
34 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (32 bp):
TAAAGAAAATAGAATAAAAAAAAAAAAAAAAA
Found at i:20308530 original size:17 final size:17
Alignment explanation
Indices: 20308479--20308533 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
20308469 GAATAATAAA
20308479 AAAATAAAAAATAAAGA-
1 AAAA-AAAAAATAAAGAT
*
20308496 AAAGTAAAAAA-AAA-AT
1 AAA-AAAAAAATAAAGAT
20308512 AAAAAAAAAATAAAGAT
1 AAAAAAAAAATAAAGAT
20308529 AAAAA
1 AAAAA
20308534 GAATATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 7 0.22
16 9 0.28
17 16 0.50
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAAAAAAAATAAAGAT
Found at i:20308532 original size:11 final size:11
Alignment explanation
Indices: 20308473--20308525 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 11
20308463 AAAATAGAAT
20308473 AATAAAAAAATA
1 AATAAAAAAA-A
20308485 AA-AAATAAAGAA
1 AATAAA-AAA-AA
20308497 AAGTAAAAAAAA
1 AA-TAAAAAAAA
20308509 AATAAAAAAAA
1 AATAAAAAAAA
20308520 AATAAA
1 AATAAA
20308526 GATAAAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
11 18 0.49
12 12 0.32
13 4 0.11
14 3 0.08
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:20308535 original size:8 final size:8
Alignment explanation
Indices: 20308458--20308525 Score: 61
Period size: 7 Copynumber: 8.5 Consensus size: 8
20308448 GATTTTTATT
20308458 TAAAGAAAA
1 TAAA-AAAA
* *
20308467 TAGAATAA
1 TAAAAAAA
20308475 TAAAAAAA
1 TAAAAAAA
20308483 T-AAAAAA
1 TAAAAAAA
20308490 TAAAGAAAA
1 TAAA-AAAA
20308499 GTAAAAAAA
1 -TAAAAAAA
*
20308508 -AAATAAA
1 TAAAAAAA
20308515 -AAAAAAA
1 TAAAAAAA
20308522 TAAA
1 TAAA
20308526 GATAAAAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
7 19 0.39
8 15 0.31
9 11 0.22
10 4 0.08
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (8 bp):
TAAAAAAA
Found at i:20309606 original size:4 final size:4
Alignment explanation
Indices: 20309599--20309725 Score: 54
Period size: 4 Copynumber: 31.8 Consensus size: 4
20309589 CAAGAAAAAA
* * * * *
20309599 AAAT AAAT -AAT AAAT AAAT -TAT AATAT ATAAT AAAT ATAG AACT ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT A-AAT AAAT AAAT AAAT AAAT
* *
20309647 AAAT AAAAT ACATAT AAAT -ATT AACA- AAAT AAAT AAAT AAAT AAGT
1 AAAT -AAAT A-A-AT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT
*
20309693 AAA- AATAT ACAT ATAAT -AAT -AAT AAAT -AAT AAA
1 AAAT AA-AT AAAT A-AAT AAAT AAAT AAAT AAAT AAA
20309726 ATACATAAAA
Statistics
Matches: 92, Mismatches: 16, Indels: 30
0.67 0.12 0.22
Matches are distributed among these distances:
3 19 0.21
4 54 0.59
5 15 0.16
6 4 0.04
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (4 bp):
AAAT
Found at i:20309631 original size:17 final size:20
Alignment explanation
Indices: 20309608--20309653 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 20
20309598 AAAATAAATA
*
20309608 ATAAATAAAT-TATAA-TAT
1 ATAAATAAATATAGAACTAT
20309626 AT-AATAAATATAGAACTAT
1 ATAAATAAATATAGAACTAT
20309645 ATAAATAAA
1 ATAAATAAA
20309654 ATACATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 6 0.25
19 5 0.21
20 6 0.25
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAAATAAATATAGAACTAT
Found at i:20309656 original size:25 final size:23
Alignment explanation
Indices: 20309599--20309681 Score: 66
Period size: 25 Copynumber: 3.6 Consensus size: 23
20309589 CAAGAAAAAA
*
20309599 AAAT-AAATAATAAATAAAT-TAT
1 AAATAAAATAA-ATATAAATATAT
*
20309621 AATATATAATAAATATAGAACTATAT
1 AA-ATAAAATAAATATA-AA-TATAT
*
20309647 AAATAAAATACATATAAATAT-T
1 AAATAAAATAAATATAAATATAT
*
20309669 -AACAAAATAAATA
1 AAATAAAATAAATA
20309682 AATAAATAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
21 11 0.22
22 3 0.06
23 9 0.18
24 9 0.18
25 13 0.26
26 5 0.10
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (23 bp):
AAATAAAATAAATATAAATATAT
Found at i:20309667 original size:21 final size:21
Alignment explanation
Indices: 20309607--20309737 Score: 62
Period size: 21 Copynumber: 6.2 Consensus size: 21
20309597 AAAAATAAAT
* *
20309607 AATAAATA-AATTATAATATAT
1 AATAAATATAAATATAA-ATAA
20309628 AATAAATATAGAACTATATAAATAA
1 AATAAATAT--AA--ATATAAATAA
* * *
20309653 AATACATATAAATATTAACAA
1 AATAAATATAAATATAAATAA
20309674 AAT-AA-AT-AA-ATAAATAA
1 AATAAATATAAATATAAATAA
*
20309691 GTAA-AAATATACATAT-AATAA
1 --AATAAATATAAATATAAATAA
*
20309712 TAATAAATAATAAA-ATACATAA
1 -AATAAAT-ATAAATATAAATAA
20309734 AATA
1 AATA
20309738 CAAAAAAAAA
Statistics
Matches: 85, Mismatches: 11, Indels: 28
0.69 0.09 0.23
Matches are distributed among these distances:
17 6 0.07
18 2 0.02
19 6 0.07
20 6 0.07
21 35 0.41
22 10 0.12
23 2 0.02
24 2 0.02
25 11 0.13
26 5 0.06
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATATAAATATAAATAA
Found at i:20309716 original size:27 final size:27
Alignment explanation
Indices: 20309600--20309737 Score: 72
Period size: 27 Copynumber: 4.9 Consensus size: 27
20309590 AAGAAAAAAA
* *
20309600 AATAAATAAT-AAATAAATTATAATATAT
1 AATAAATAATAAAATACA-TAAAATA-AT
* *
20309628 AATAAAT-ATAGAACTATAT-AAATAA-
1 AATAAATAATA-AAATACATAAAATAAT
* *
20309653 AATACAT-ATAAATATTA-ACAAAATAAAT
1 AATAAATAATAAA-A-TACATAAAAT-AAT
*
20309681 AAATAAATAAGTAAAAATATACATATAATAAT
1 -AATAAATAA-T--AAA-ATACATAAAATAAT
20309713 AATAAATAATAAAATACATAAAATA
1 AATAAATAATAAAATACATAAAATA
20309738 CAAAAAAAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 27
0.70 0.08 0.22
Matches are distributed among these distances:
24 2 0.02
25 10 0.11
26 7 0.08
27 19 0.22
28 11 0.13
29 11 0.13
30 2 0.02
31 10 0.11
32 5 0.06
33 10 0.11
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (27 bp):
AATAAATAATAAAATACATAAAATAAT
Found at i:20309971 original size:20 final size:19
Alignment explanation
Indices: 20309946--20310010 Score: 76
Period size: 20 Copynumber: 3.3 Consensus size: 19
20309936 AACATTGTCA
*
20309946 TTTTTTATTTTTATTTTTGT
1 TTTTTTGTTTTT-TTTTTGT
*
20309966 TTTTTTGTGTTTTTTCTTGT
1 TTTTTTGT-TTTTTTTTTGT
* *
20309986 TTTTTTGTTTTTTTTATAT
1 TTTTTTGTTTTTTTTTTGT
20310005 TTTTTT
1 TTTTTT
20310011 TTACCAAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 14 0.36
20 21 0.54
21 4 0.10
ACGTcount: A:0.06, C:0.02, G:0.08, T:0.85
Consensus pattern (19 bp):
TTTTTTGTTTTTTTTTTGT
Done.