Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 38 of 84
Found at i:8960369 original size:19 final size:19
Alignment explanation
Indices: 8960345--8960387 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8960335 ATTTTTATTT
**
8960345 TATAAAAATTTTAAAAATA
1 TATAAAAATAATAAAAATA
*
8960364 TATAAAACTAATAAAAATA
1 TATAAAAATAATAAAAATA
8960383 TATAA
1 TATAA
8960388 TTCAGTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATAATAAAAATA
Found at i:8960465 original size:13 final size:13
Alignment explanation
Indices: 8960447--8960481 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
8960437 ATTAATTTTC
8960447 AAATTTAATATAT
1 AAATTTAATATAT
* *
8960460 ATATTTAATATTT
1 AAATTTAATATAT
8960473 AAATTTAAT
1 AAATTTAAT
8960482 TTAAATCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAATTTAATATAT
Found at i:8962210 original size:26 final size:25
Alignment explanation
Indices: 8962168--8962239 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 25
8962158 TATTAATATA
*
8962168 ATTATTAAA-ATACTAAAATTATTT
1 ATTATTAAATATATTAAAATTATTT
8962192 ATTATTAAAGTATATTAAAATTATTT
1 ATTATTAAA-TATATTAAAATTATTT
*
8962218 ATTATTAAA-ATTATTAATATTA
1 ATTATTAAATA-TATTAAAATTA
8962240 AAACATATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 10 0.23
25 10 0.23
26 23 0.53
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTATTAAATATATTAAAATTATTT
Found at i:8962240 original size:15 final size:16
Alignment explanation
Indices: 8962203--8962242 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
8962193 TTATTAAAGT
8962203 ATATTAAAATTATTTA
1 ATATTAAAATTATTTA
*
8962219 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
8962234 ATATTAAAA
1 ATATTAAAA
8962243 CATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:8962563 original size:164 final size:169
Alignment explanation
Indices: 8962391--8962726 Score: 443
Period size: 168 Copynumber: 2.0 Consensus size: 169
8962381 AACATATAAA
* * *
8962391 ATAAAAATATTTAAAACTGAAATATCAAAAAACTTTTAATGTTAATAATT-T-A-TTTTTAATTA
1 ATAAAAATATTTAAAACTAAAATATCAAAAAACTTTTAATATTAAT-ATTGTAATTTTTTAAGTA
*
8962453 AAATTAAAT-AAAATA-TTTTTATTAATAAAATAATATTTTAAATCGAATCAAATCAAGTTCGAG
65 AAATTAAATAAAAATATTTTTTATTAATAAAATAATATTTTAAATCGAATCAAATCAAATTCGAG
* * *
8962516 CTT-AAAATATTATATTCAAAATCTTATTTGAA-TAAAATT
130 CTTAAAAAAATTATATACAAAATCTAATTT-AAGTAAAATT
* * *
8962555 ATAAAAATATTTAAAATTAAAATATTAAAAGACTTTTAATATTAATATTGTAATTTTTTAAGTAA
1 ATAAAAATATTTAAAACTAAAATATCAAAAAACTTTTAATATTAATATTGTAATTTTTTAAGTAA
* ** ** * *
8962620 AATTAAATAAAAATATTTTTTATTAATATAATAATATTTTAGGTCGGGTCAAATTAAATTTGAGC
66 AATTAAATAAAAATATTTTTTATTAATAAAATAATATTTTAAATCGAATCAAATCAAATTCGAGC
*
8962685 TTAAAAAAATTATATACAATATCTAATTTAAGTAAAATT
131 TTAAAAAAATTATATACAAAATCTAATTTAAGTAAAATT
8962724 ATA
1 ATA
8962727 TTCAAATATA
Statistics
Matches: 147, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
163 3 0.02
164 42 0.29
165 1 0.01
166 18 0.12
167 6 0.04
168 45 0.31
169 32 0.22
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (169 bp):
ATAAAAATATTTAAAACTAAAATATCAAAAAACTTTTAATATTAATATTGTAATTTTTTAAGTAA
AATTAAATAAAAATATTTTTTATTAATAAAATAATATTTTAAATCGAATCAAATCAAATTCGAGC
TTAAAAAAATTATATACAAAATCTAATTTAAGTAAAATT
Found at i:8962659 original size:20 final size:20
Alignment explanation
Indices: 8962621--8962659 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8962611 TTTAAGTAAA
8962621 ATTAAATAAAAATATTTTTT
1 ATTAAATAAAAATATTTTTT
*
8962641 ATTAATATAATAATATTTT
1 ATTAA-ATAAAAATATTTT
8962660 AGGTCGGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTAAATAAAAATATTTTTT
Found at i:8965556 original size:51 final size:51
Alignment explanation
Indices: 8965471--8965571 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
8965461 AATTACTATT
*
8965471 ACATGCTATATTAGCTTACTTGTTCGGGTCTAAAGCTGAAAAGTACAGTTG
1 ACATGCTATATTAGCTGACTTGTTCGGGTCTAAAGCTGAAAAGTACAGTTG
* *
8965522 ACATTCTATATTAGCTGACTT-TTACGGGTTTAAAGCTGAAAAGTACAGTT
1 ACATGCTATATTAGCTGACTTGTT-CGGGTCTAAAGCTGAAAAGTACAGTT
8965572 CTAAGGTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 2 0.04
51 44 0.96
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.35
Consensus pattern (51 bp):
ACATGCTATATTAGCTGACTTGTTCGGGTCTAAAGCTGAAAAGTACAGTTG
Found at i:8969531 original size:7 final size:7
Alignment explanation
Indices: 8969510--8969575 Score: 50
Period size: 6 Copynumber: 9.4 Consensus size: 7
8969500 ATCCTAAATA
8969510 ATTTT-T
1 ATTTTAT
8969516 ATTTT-T
1 ATTTTAT
8969522 ATTTTAT
1 ATTTTAT
8969529 A-TTTAT
1 ATTTTAT
8969535 A-TTTACTT
1 ATTTTA--T
*
8969543 AGTTTAT
1 ATTTTAT
8969550 ATTTTAT
1 ATTTTAT
8969557 ATTTTTCAT
1 A-TTTT-AT
*
8969566 ATTTAAT
1 ATTTTAT
8969573 ATT
1 ATT
8969576 ATTTTGTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
6 21 0.40
7 15 0.29
8 9 0.17
9 7 0.13
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (7 bp):
ATTTTAT
Found at i:8969730 original size:14 final size:15
Alignment explanation
Indices: 8969711--8969746 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
8969701 TATGTATAAA
8969711 TTTTAATTTAA-TAT
1 TTTTAATTTAATTAT
8969725 TTTTAA--TAATTAT
1 TTTTAATTTAATTAT
8969738 TTTTAATTT
1 TTTTAATTT
8969747 CATTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 6 0.32
15 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTAATTTAATTAT
Found at i:8972361 original size:84 final size:85
Alignment explanation
Indices: 8972216--8972380 Score: 260
Period size: 84 Copynumber: 2.0 Consensus size: 85
8972206 AAAATTAAAG
* ** * * *
8972216 AAAATTAAATTTAAACTCATTTGATTAATAGAATTTAATGAGTAAATTAGTCAAATGTAAAAATT
1 AAAATTAAATTTAAACTCATTAGATTAATAGAATAAAATAAGTAAATTAATCAAATGTAAAAAAT
8972281 GTTG-AAAAAATGGCCGACA
66 GTTGAAAAAAATGGCCGACA
*
8972300 AAAATTAAATTTAAACTCATTAGATTAATAGAATAAAATAAGTAAATTAATCAAATTTAAAAAAT
1 AAAATTAAATTTAAACTCATTAGATTAATAGAATAAAATAAGTAAATTAATCAAATGTAAAAAAT
8972365 GTTGAAAAAAATGGCC
66 GTTGAAAAAAATGGCC
8972381 AAGAGCTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 62 0.85
85 11 0.15
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.31
Consensus pattern (85 bp):
AAAATTAAATTTAAACTCATTAGATTAATAGAATAAAATAAGTAAATTAATCAAATGTAAAAAAT
GTTGAAAAAAATGGCCGACA
Found at i:8976294 original size:18 final size:18
Alignment explanation
Indices: 8976267--8976324 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 18
8976257 TTTAAAATTT
8976267 TAAA-TATATATTTTTAG
1 TAAATTATATATTTTTAG
8976284 TAAATTATATA-TTTTAG
1 TAAATTATATATTTTTAG
* * * *
8976301 CAAATT-TTTATATATAG
1 TAAATTATATATTTTTAG
8976318 TAAATTA
1 TAAATTA
8976325 AAAAAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 3 0.09
17 24 0.73
18 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
TAAATTATATATTTTTAG
Found at i:8978628 original size:23 final size:21
Alignment explanation
Indices: 8978595--8978636 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
8978585 AATTAAAAAA
8978595 AATTATAAATT-TAATTTAATT
1 AATTATAAATTAT-ATTTAATT
8978616 AATTCATATAATTATATTTAA
1 AATT-ATA-AATTATATTTAA
8978637 AAAAATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.22
22 3 0.17
23 10 0.56
24 1 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTATAAATTATATTTAATT
Found at i:8981207 original size:2 final size:2
Alignment explanation
Indices: 8981200--8981235 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8981190 CTGCAATCTT
8981200 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8981236 AATGAAAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8981450 original size:3 final size:3
Alignment explanation
Indices: 8981442--8981468 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8981432 TTATGTATTC
8981442 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
8981469 GTATATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8982086 original size:31 final size:31
Alignment explanation
Indices: 8982027--8982097 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
8982017 AATTTCCAGA
* * * ** *
8982027 TTCCGACGAAAATTTCGGCGAAGTTTGAATT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
8982058 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
1 TTCCGGCGAAAATTCCGGCCAACATTGAAGT
8982089 TTCCGGCGA
1 TTCCGGCGA
8982098 CCTGCCCAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCCAACATTGAAGT
Found at i:8985557 original size:17 final size:17
Alignment explanation
Indices: 8985535--8985567 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8985525 GTCAAAATCA
8985535 TATTTCT-TCTTTCTTAT
1 TATTTCTAT-TTTCTTAT
8985552 TATTTCTATTTTCTTA
1 TATTTCTATTTTCTTA
8985568 AATTTTCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTCTATTTTCTTAT
Found at i:8990468 original size:2 final size:2
Alignment explanation
Indices: 8990461--8990496 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8990451 GCCCCATGTA
*
8990461 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8990497 GGCTCCTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:8991002 original size:18 final size:19
Alignment explanation
Indices: 8990981--8991026 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
8990971 AAAAAAAGGA
*
8990981 AAAAATATAAAATAAAT-T
1 AAAAATAGAAAATAAATAT
8990999 AAAAATAAGAAAATAAATAAT
1 AAAAAT-AGAAAATAAAT-AT
8991020 AAAAATA
1 AAAAATA
8991027 CCTATCAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 10 0.42
20 1 0.04
21 7 0.29
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AAAAATAGAAAATAAATAT
Found at i:9004223 original size:20 final size:21
Alignment explanation
Indices: 9004183--9004227 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
9004173 GTAAAATTTA
*
9004183 ATAACTTTTAATATAATTTTG
1 ATAACATTTAATATAATTTTG
9004204 ATAACATTTAATAT-ATTTTG
1 ATAACATTTAATATAATTTTG
9004224 ATAA
1 ATAA
9004228 TCTTTGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (21 bp):
ATAACATTTAATATAATTTTG
Found at i:9004246 original size:21 final size:21
Alignment explanation
Indices: 9004220--9004264 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9004210 TTTAATATAT
9004220 TTTGATAATCTTTGTTA-AAAA
1 TTTGATAAT-TTTGTTATAAAA
* *
9004241 TTTGATTATTTTTTTATAAAA
1 TTTGATAATTTTGTTATAAAA
9004262 TTT
1 TTT
9004265 TTATAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (21 bp):
TTTGATAATTTTGTTATAAAA
Found at i:9004545 original size:2 final size:2
Alignment explanation
Indices: 9004538--9004574 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
9004528 AATCCCTCAA
*
9004538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9004575 AAGGAGATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9006075 original size:22 final size:22
Alignment explanation
Indices: 9006050--9006122 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
9006040 TATTGATTTC
* *
9006050 ATGATATATTATTAACTTATCA
1 ATGATTTATTATTAAATTATCA
*
9006072 ATGATTTATTATTAAATTATCG
1 ATGATTTATTATTAAATTATCA
*
9006094 ATGATTTATTATGTAAGTTAT-A
1 ATGATTTATTAT-TAAATTATCA
9006116 ATTGATT
1 A-TGATT
9006123 CACTACTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
22 32 0.73
23 12 0.27
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGATTTATTATTAAATTATCA
Found at i:9006207 original size:22 final size:21
Alignment explanation
Indices: 9006182--9006240 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
9006172 TTTATTACTT
*
9006182 AATTATAATTGATTTACAACTC
1 AATTATAATTGATTTACAAC-A
* *
9006204 AATTATTATTAATTTACAACA
1 AATTATAATTGATTTACAACA
**
9006225 AATTATAGGTGATTTA
1 AATTATAATTGATTTA
9006241 TAATTATATA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (21 bp):
AATTATAATTGATTTACAACA
Found at i:9006273 original size:11 final size:11
Alignment explanation
Indices: 9006259--9006317 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
9006249 TATTAATGAC
*
9006259 TTATTATTAAG
1 TTATTATTAAA
* *
9006270 TTATTAATAAT
1 TTATTATTAAA
*
9006281 TTATTACTAAA
1 TTATTATTAAA
*
9006292 TTATCA-TAAA
1 TTATTATTAAA
9006302 TTTATTATTAAA
1 -TTATTATTAAA
9006314 TTAT
1 TTAT
9006318 CCATTCTTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 4 0.10
11 32 0.80
12 4 0.10
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (11 bp):
TTATTATTAAA
Found at i:9006277 original size:22 final size:22
Alignment explanation
Indices: 9006249--9006317 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
9006239 TATAATTATA
* * *
9006249 TATTAATGACTTATTATTAAGT
1 TATTAATAACTTATTACTAAAT
*
9006271 TATTAATAATTTATTACTAAAT
1 TATTAATAACTTATTACTAAAT
* * *
9006293 TA-TCATAAATTTATTATTAAAT
1 TATTAAT-AACTTATTACTAAAT
9006315 TAT
1 TAT
9006318 CCATTCTTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
21 3 0.08
22 36 0.92
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (22 bp):
TATTAATAACTTATTACTAAAT
Found at i:9006318 original size:22 final size:22
Alignment explanation
Indices: 9006259--9006318 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
9006249 TATTAATGAC
* *
9006259 TTATTATTAAGTTATTAATAAT
1 TTATTATTAAATTATCAATAAT
*
9006281 TTATTACTAAATTATC-ATAAAT
1 TTATTATTAAATTATCAAT-AAT
9006303 TTATTATTAAATTATC
1 TTATTATTAAATTATC
9006319 CATTCTTGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (22 bp):
TTATTATTAAATTATCAATAAT
Found at i:9006509 original size:22 final size:22
Alignment explanation
Indices: 9006474--9006557 Score: 80
Period size: 23 Copynumber: 3.7 Consensus size: 22
9006464 AAATTTTCAA
9006474 TAATTAACTACTAAATTAT-TAT
1 TAATT-ACTACTAAATTATCTAT
* * *
9006496 TAGTTTACTTCTAAGTTATCTAT
1 TA-ATTACTACTAAATTATCTAT
*
9006519 TAATTACTACTAAATTTATCAAT
1 TAATTACTACTAAA-TTATCTAT
* *
9006542 TAATTTCTATTAAATT
1 TAATTACTACTAAATT
9006558 GAAATTGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 24 0.48
23 26 0.52
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (22 bp):
TAATTACTACTAAATTATCTAT
Found at i:9006590 original size:22 final size:22
Alignment explanation
Indices: 9006563--9006643 Score: 101
Period size: 22 Copynumber: 3.7 Consensus size: 22
9006553 AAATTGAAAT
9006563 TGATTTATTATTAAGATATCAC
1 TGATTTATTATTAAGATATCAC
* * * *
9006585 TAATTTACTACTAA-ATTATCAT
1 TGATTTATTATTAAGA-TATCAC
9006607 TGATTTATTATTAAGATATCAC
1 TGATTTATTATTAAGATATCAC
*
9006629 TGATTAATTATTAAG
1 TGATTTATTATTAAG
9006644 TTATTAATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
21 1 0.02
22 46 0.96
23 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (22 bp):
TGATTTATTATTAAGATATCAC
Found at i:9006600 original size:44 final size:43
Alignment explanation
Indices: 9006542--9006629 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
9006532 ATTTATCAAT
*
9006542 TAATTTCTATTAAATTGA-AATTGATTTATTATTAAGATATCAC
1 TAATTTCTACTAAATT-ATAATTGATTTATTATTAAGATATCAC
*
9006585 TAATTTACTACTAAATTATCATTGATTTATTATTAAGATATCAC
1 TAATTT-CTACTAAATTATAATTGATTTATTATTAAGATATCAC
9006629 T
1 T
9006630 GATTAATTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
43 7 0.17
44 34 0.83
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.47
Consensus pattern (43 bp):
TAATTTCTACTAAATTATAATTGATTTATTATTAAGATATCAC
Found at i:9006662 original size:44 final size:44
Alignment explanation
Indices: 9006552--9006665 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
9006542 TAATTTCTAT
*
9006552 TAAATTGA-AATTGATTTATTATTAAGATATCACTAATTTACTAC
1 TAAATT-ATAATTGATTTATTATTAAGATATCACTAATTAACTAC
* * * *
9006596 TAAATTATCATTGATTTATTATTAAGATATCACTGATTAATTAT
1 TAAATTATAATTGATTTATTATTAAGATATCACTAATTAACTAC
* *
9006640 TAAGTTATTAATT-ATTTTTTATTAAG
1 TAAATTA-TAATTGATTTATTATTAAG
9006666 CTATATTTGA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.02
44 55 0.92
45 4 0.07
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (44 bp):
TAAATTATAATTGATTTATTATTAAGATATCACTAATTAACTAC
Found at i:9007197 original size:2 final size:2
Alignment explanation
Indices: 9007190--9007235 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9007180 ATTAAAAAGT
9007190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9007232 TA TA
1 TA TA
9007236 AAAGATGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9007633 original size:47 final size:48
Alignment explanation
Indices: 9007564--9007654 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
9007554 ATATATCAAC
* * * *
9007564 AATTAATTTCACAATTTTTTAGAAGTTT-TTTTTAAAACAAAAAAATA
1 AATTAAATTAACAATTTCTTAGAAGTTTCTTCTTAAAACAAAAAAATA
*
9007611 AATTAAATTAACAATTTCTTAGAAGTTTCTTCTTCAAACAAAAA
1 AATTAAATTAACAATTTCTTAGAAGTTTCTTCTTAAAACAAAAA
9007655 CTTGCATGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 25 0.66
48 13 0.34
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (48 bp):
AATTAAATTAACAATTTCTTAGAAGTTTCTTCTTAAAACAAAAAAATA
Found at i:9008613 original size:2 final size:2
Alignment explanation
Indices: 9008606--9008638 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9008596 ATCAGTTCCT
9008606 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9008639 TCATCTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9014953 original size:11 final size:11
Alignment explanation
Indices: 9014939--9014964 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9014929 AATCTTTTTG
9014939 TTATCAAAACA
1 TTATCAAAACA
9014950 TTATCAAAACA
1 TTATCAAAACA
9014961 TTAT
1 TTAT
9014965 TCACAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (11 bp):
TTATCAAAACA
Found at i:9015444 original size:28 final size:28
Alignment explanation
Indices: 9015394--9015477 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 28
9015384 ACGTGTATAT
* * *
9015394 ATATATATATATTACATTGTAAATTATTA
1 ATATATTTATATTA-TTTTTAAATTATTA
*
9015423 TTATATTTA-ATTATTTTTTAAAATT-TTA
1 ATATATTTATATTA-TTTTT-AAATTATTA
9015451 ATATATTTATATTATTTTTAATATTAT
1 ATATATTTATATTATTTTTAA-ATTAT
9015478 AAAAATCATT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
27 2 0.04
28 26 0.58
29 17 0.38
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (28 bp):
ATATATTTATATTATTTTTAAATTATTA
Found at i:9018999 original size:2 final size:2
Alignment explanation
Indices: 9018992--9019017 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9018982 AATAATGATA
9018992 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
9019018 TTGGATGGCT
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:9027933 original size:21 final size:21
Alignment explanation
Indices: 9027893--9027933 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9027883 TTAATAAAAC
*
9027893 ATTAAAATTTAAATTTTAATT
1 ATTAAAATTTAAATTATAATT
9027914 ATTAAAATTT-AATTAATAAT
1 ATTAAAATTTAAATT-ATAAT
9027934 AACTTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAAAATTTAAATTATAATT
Found at i:9035076 original size:2 final size:2
Alignment explanation
Indices: 9035069--9035114 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9035059 CTTTCTCCTT
9035069 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9035111 TC TC
1 TC TC
9035115 ATGATTGGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9042842 original size:17 final size:17
Alignment explanation
Indices: 9042806--9042844 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
9042796 TATTTTTAAG
**
9042806 ATTATTATAATAATTTA
1 ATTATTATAATAATAAA
*
9042823 ATTATTATAGTAATAAA
1 ATTATTATAATAATAAA
9042840 ATTAT
1 ATTAT
9042845 CAAGTGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTATTATAATAATAAA
Found at i:9043399 original size:18 final size:18
Alignment explanation
Indices: 9043363--9043400 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
9043353 TCATTGTCGC
*
9043363 ATAATTTTTTAAATTATT
1 ATAATTTTTTAAATAATT
9043381 ATAA-TTTTTAAATGAATT
1 ATAATTTTTTAAAT-AATT
9043399 AT
1 AT
9043401 TTTGTGCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
ATAATTTTTTAAATAATT
Found at i:9045522 original size:2 final size:2
Alignment explanation
Indices: 9045515--9045561 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
9045505 TCTCTTGTGC
9045515 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
9045557 AT AT A
1 AT AT A
9045562 GGGATGTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9054185 original size:15 final size:15
Alignment explanation
Indices: 9054165--9054214 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
9054155 AGAAGATGCT
9054165 GATGAGGTTGAAAGA
1 GATGAGGTTGAAAGA
*
9054180 GATGAGGTGGAAAGA
1 GATGAGGTTGAAAGA
9054195 GATGAGGTTGAAAGA
1 GATGAGGTTGAAAGA
9054210 GATGA
1 GATGA
9054215 AGACTCTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.42, T:0.18
Consensus pattern (15 bp):
GATGAGGTTGAAAGA
Found at i:9057102 original size:289 final size:288
Alignment explanation
Indices: 9056569--9057147 Score: 980
Period size: 289 Copynumber: 2.0 Consensus size: 288
9056559 TATTCTCAAA
* *
9056569 TGAAAATTTGTACAAAAGTTGAATCCTAACTTGAGCATTTAGTCTTTTAATAGTTTATGACATTT
1 TGAAAAATTGTACAAAAGTTGAATCCTAACTTGAGCATTTAGTCTTTTAACAGTTTATGACATTT
*
9056634 AGCTAACCATTCTGCCAGGTTCTTTGCTCATGTTTCTTGTTCAACGTATTTATATTATGCTGAGG
66 AGCTAACCAATCTGCCAGGTTCTTTGCTCATGTTTCTTGTTCAACGTATTTATATTATGCTGAGG
* * *
9056699 TTCTCTTCTAGCAGAAGCTGTGGCCATTTTGCTTGTGCCTAATACTATGAGACATTTGTTGCTGA
131 TTCTCTTCTAGCAGAAGCTGTGGCCATCTTGCATGTGCCTAATACAATGAGACATTTGTTGCTGA
* *
9056764 CTAATCACTGATATTACATTGCCTATCAGATGATTAAATATGTTTTATAGATACAGTTCTGATCT
196 CTAATCACCGATATTACATTGCCTATCAAATGATTAAATATGTTTTATAGATACAGTTCTGATCT
9056829 TGGTCTCACTAAAATGTCAT-TATGGTGT
261 TGGTCTCACTAAAATGTCATGT-TGGTGT
* *
9056857 TGAAAAATTGTACAAATGTTGAATCCTAACTTGAGCATTTTGTCTTTTAACAGTTTATGACATTT
1 TGAAAAATTGTACAAAAGTTGAATCCTAACTTGAGCATTTAGTCTTTTAACAGTTTATGACATTT
* *
9056922 AGCTAACCAATCTGCCAGGTTCTTTGCTCATGTTTCTTGTTCTACGTATTTGTATTATTGCTGAG
66 AGCTAACCAATCTGCCAGGTTCTTTGCTCATGTTTCTTGTTCAACGTATTTATATTA-TGCTGAG
* *
9056987 GTTCTCTTCTAGCAGAAGCTTTTGCCATCTTGCATGTGCCTAATACAATGAGACATTTGTTGCTG
130 GTTCTCTTCTAGCAGAAGCTGTGGCCATCTTGCATGTGCCTAATACAATGAGACATTTGTTGCTG
* *
9057052 AGTAATCACCGATATTACATTTCCTATCAAATGATTAAATATGTTTTATAGATACAGTTCTGATC
195 ACTAATCACCGATATTACATTGCCTATCAAATGATTAAATATGTTTTATAGATACAGTTCTGATC
*
9057117 TTGGTCTCACTCAAATGTCATGTTGGTGT
260 TTGGTCTCACTAAAATGTCATGTTGGTGT
9057146 TG
1 TG
9057148 CAGTTGTTGA
Statistics
Matches: 272, Mismatches: 17, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
288 115 0.42
289 156 0.57
290 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (288 bp):
TGAAAAATTGTACAAAAGTTGAATCCTAACTTGAGCATTTAGTCTTTTAACAGTTTATGACATTT
AGCTAACCAATCTGCCAGGTTCTTTGCTCATGTTTCTTGTTCAACGTATTTATATTATGCTGAGG
TTCTCTTCTAGCAGAAGCTGTGGCCATCTTGCATGTGCCTAATACAATGAGACATTTGTTGCTGA
CTAATCACCGATATTACATTGCCTATCAAATGATTAAATATGTTTTATAGATACAGTTCTGATCT
TGGTCTCACTAAAATGTCATGTTGGTGT
Found at i:9058294 original size:18 final size:18
Alignment explanation
Indices: 9058252--9058286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9058242 TGGAAGCTAG
*
9058252 TGATGAAGATGATGATGC
1 TGATGAAGATGATAATGC
*
9058270 TTATGAAGATGATAATG
1 TGATGAAGATGATAATG
9058287 GCGATGAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.29, T:0.31
Consensus pattern (18 bp):
TGATGAAGATGATAATGC
Found at i:9059600 original size:1 final size:1
Alignment explanation
Indices: 9059594--9059621 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
9059584 TAGCAAACAC
9059594 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
9059622 CAGCCACGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9062115 original size:16 final size:16
Alignment explanation
Indices: 9062096--9062131 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
9062086 ATTTTTTTTA
9062096 TTTTTTGCTTT-TTATT
1 TTTTTTG-TTTATTATT
9062112 TTTTTTGTTTATTATT
1 TTTTTTGTTTATTATT
9062128 TTTT
1 TTTT
9062132 ATTAGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.08, C:0.03, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTTTGTTTATTATT
Found at i:9062130 original size:23 final size:23
Alignment explanation
Indices: 9062086--9062134 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9062076 ATAGGGAATA
* *
9062086 ATTTTTTTTATTTTTTGCTTTTT
1 ATTTTTTTTATTTATTACTTTTT
* *
9062109 ATTTTTTTTGTTTATTATTTTTT
1 ATTTTTTTTATTTATTACTTTTT
9062132 ATT
1 ATT
9062135 AGATAAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (23 bp):
ATTTTTTTTATTTATTACTTTTT
Found at i:9062209 original size:21 final size:22
Alignment explanation
Indices: 9062183--9062223 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
9062173 ACATAATACC
9062183 TTCATTTTTT-TTTTGTTTTCT
1 TTCATTTTTTATTTTGTTTTCT
*
9062204 TTCATTTTTTATTTTTTTTT
1 TTCATTTTTTATTTTGTTTT
9062224 GTATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.83
Consensus pattern (22 bp):
TTCATTTTTTATTTTGTTTTCT
Found at i:9062511 original size:28 final size:28
Alignment explanation
Indices: 9062480--9062535 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
9062470 AATTTTATAT
9062480 TTATAT-ATATATTACA-TTAATAAAATTA
1 TTATATGATATATTA-ATTTAA-AAAATTA
*
9062508 TTATTTGATATATTAATTTAAAAAATTA
1 TTATATGATATATTAATTTAAAAAATTA
9062536 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (28 bp):
TTATATGATATATTAATTTAAAAAATTA
Found at i:9062519 original size:33 final size:31
Alignment explanation
Indices: 9062451--9062520 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 31
9062441 ATATATAAAA
** *
9062451 ATATATATATTATTAATTTAATTTTATATTT
1 ATATATATATTATTAATAAAATTTTATATTG
9062482 ATATATATATTACATTAATAAAATTATTAT-TTG
1 ATATATATATT--ATTAATAAAATT-TTATATTG
9062515 ATATAT
1 ATATAT
9062521 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.33
33 18 0.55
34 4 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
ATATATATATTATTAATAAAATTTTATATTG
Found at i:9062541 original size:28 final size:29
Alignment explanation
Indices: 9062486--9062541 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
9062476 ATATTTATAT
*
9062486 ATATATTACATTAATAAAATTATTATTTG
1 ATATATTACATTAATAAAATTAATATTTG
9062515 ATATATTA-ATTTAA-AAAATTAATATTT
1 ATATATTACA-TTAATAAAATTAATATTT
9062542 TAAATTCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATATTACATTAATAAAATTAATATTTG
Found at i:9063270 original size:22 final size:21
Alignment explanation
Indices: 9063245--9063290 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9063235 TTTTTATTTT
* *
9063245 TTTATTTATAAATTTTAAAATA
1 TTTAATTA-AAATTTTAAAAAA
*
9063267 TTTAATTAATATTTTAAAAAA
1 TTTAATTAAAATTTTAAAAAA
9063288 TTT
1 TTT
9063291 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATTAAAATTTTAAAAAA
Found at i:9063648 original size:12 final size:11
Alignment explanation
Indices: 9063626--9063654 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9063616 TAGCGCTCTA
9063626 TTTTA-TTTTT
1 TTTTACTTTTT
9063636 TTTTACTTTTT
1 TTTTACTTTTT
9063647 TTTTACTT
1 TTTTACTT
9063655 AAATAATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTACTTTTT
Found at i:9064030 original size:29 final size:29
Alignment explanation
Indices: 9063990--9064050 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
9063980 AATCCAAATG
* *
9063990 ATGAGAAAGACAGGTAAAGATATAAAAAA
1 ATGAGAAAGACAAGTAAAAATATAAAAAA
*
9064019 ATGAGAATGACAAGTAAAAATATAAAAAA
1 ATGAGAAAGACAAGTAAAAATATAAAAAA
9064048 ATG
1 ATG
9064051 GTTTAATCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.16
Consensus pattern (29 bp):
ATGAGAAAGACAAGTAAAAATATAAAAAA
Found at i:9064586 original size:100 final size:100
Alignment explanation
Indices: 9064480--9064671 Score: 366
Period size: 100 Copynumber: 1.9 Consensus size: 100
9064470 ACCCTAAATA
*
9064480 TATATACAACTATATTTTTAATTATTTATTTTATTTTATATTTGTATACTATCATATTAATAAAG
1 TATATACAACTATATTTTTAATTATTTATTTTATTTTATATTTATATACTATCATATTAATAAAG
9064545 TTATTATTTAATATCTTAATTTAATAAGAGTGTTT
66 TTATTATTTAATATCTTAATTTAATAAGAGTGTTT
*
9064580 TATATACAACTATATTTTTAATTATTTATTTTATTTTATATTTATATACTATCATATTAATGAAG
1 TATATACAACTATATTTTTAATTATTTATTTTATTTTATATTTATATACTATCATATTAATAAAG
9064645 TTATTATTTAATATCTTAATTTAATAA
66 TTATTATTTAATATCTTAATTTAATAA
9064672 AAAATTTTAT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (100 bp):
TATATACAACTATATTTTTAATTATTTATTTTATTTTATATTTATATACTATCATATTAATAAAG
TTATTATTTAATATCTTAATTTAATAAGAGTGTTT
Found at i:9065650 original size:20 final size:19
Alignment explanation
Indices: 9065621--9065670 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
9065611 CCTTTTATCC
9065621 TTTTTCTTTTTTGTTTTGTG
1 TTTTTCTTTTTTGTTTT-TG
*
9065641 TTTTTATTTTTTGTTTTTG
1 TTTTTCTTTTTTGTTTTTG
*
9065660 CTTTTCTTTTT
1 TTTTTCTTTTT
9065671 AATGGCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTTTGTTTTTG
Found at i:9073434 original size:18 final size:18
Alignment explanation
Indices: 9073413--9073462 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
9073403 AAAAAAAAAG
9073413 AAAGCAAAAGTAAAAGCC
1 AAAGCAAAAGTAAAAGCC
*
9073431 AAAGCAAAAGTAAAATCC
1 AAAGCAAAAGTAAAAGCC
*
9073449 AAAACAAAAG-AAAA
1 AAAGCAAAAGTAAAA
9073463 AAAATATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.68, C:0.14, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAGCAAAAGTAAAAGCC
Found at i:9074231 original size:26 final size:26
Alignment explanation
Indices: 9074202--9074279 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
9074192 ATGTATTTAA
9074202 ATTGGTATTTAAGGATATGTCTCTCT
1 ATTGGTATTTAAGGATATGTCTCTCT
* * * **
9074228 ATTGG---TT-ATGA-AAGTCATTTAA
1 ATTGGTATTTAAGGATATGTC-TCTCT
9074250 ATTGGTATTTAAGGATATGTCTCTCT
1 ATTGGTATTTAAGGATATGTCTCTCT
9074276 ATTG
1 ATTG
9074280 ATTGTGAAAG
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
21 4 0.11
22 10 0.28
23 2 0.06
25 2 0.06
26 14 0.39
27 4 0.11
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (26 bp):
ATTGGTATTTAAGGATATGTCTCTCT
Found at i:9074267 original size:48 final size:48
Alignment explanation
Indices: 9074196--9074290 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
9074186 GTTTAGATGT
*
9074196 ATTTAAATTGGTATTTAAGGATATGTCTCTCTATTGGTTATGAAAGTC
1 ATTTAAATTGGTATTTAAGGATATGTCTCTCTATTGATTATGAAAGTC
*
9074244 ATTTAAATTGGTATTTAAGGATATGTCTCTCTATTGATTGTGAAAGT
1 ATTTAAATTGGTATTTAAGGATATGTCTCTCTATTGATTATGAAAGT
9074291 TAAGTAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.44
Consensus pattern (48 bp):
ATTTAAATTGGTATTTAAGGATATGTCTCTCTATTGATTATGAAAGTC
Found at i:9076413 original size:147 final size:147
Alignment explanation
Indices: 9076146--9076447 Score: 532
Period size: 147 Copynumber: 2.1 Consensus size: 147
9076136 GCATCCAACA
* *
9076146 ACAACAATAACAAAAACACTTACTATTACAACAAGAATGCCTACGAGAGCACTGAGCAGCAAAAC
1 ACAACAATAACAAAAACACCTACTATTACAACAAGAATGCCTACGAGAGCACAGAGCAGCAAAAC
* *
9076211 TTGGGTGGGGCCAGGTTCACAGAGAAAGGATGGAGCACTAAGGAAAACCAGAACAACAACTACTA
66 TTGGGTGAGGCCAGGTTCACAGAGAAAGGATGGAGCACCAAGGAAAACCAGAACAACAACTACTA
* *
9076276 CTACGGTAATAATGGGT
131 CTACGGCAACAATGGGT
* *
9076293 ACAACAATAACAAAAATACCTACTATTACAACAAGAATGCCTACGAGAGTACAGAGCAGCAAAAC
1 ACAACAATAACAAAAACACCTACTATTACAACAAGAATGCCTACGAGAGCACAGAGCAGCAAAAC
9076358 TTGGGTGAGGCCAGGTTCACAGAGAAAGGATGGAGCACCAAGGAAAACCAGAACAACAACTACTA
66 TTGGGTGAGGCCAGGTTCACAGAGAAAGGATGGAGCACCAAGGAAAACCAGAACAACAACTACTA
9076423 CTACGGCAACAATGGGT
131 CTACGGCAACAATGGGT
9076440 ACAACAAT
1 ACAACAAT
9076448 GGTGAAAAAC
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
147 147 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (147 bp):
ACAACAATAACAAAAACACCTACTATTACAACAAGAATGCCTACGAGAGCACAGAGCAGCAAAAC
TTGGGTGAGGCCAGGTTCACAGAGAAAGGATGGAGCACCAAGGAAAACCAGAACAACAACTACTA
CTACGGCAACAATGGGT
Found at i:9088510 original size:26 final size:25
Alignment explanation
Indices: 9088481--9088536 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
9088471 TATCTTTCTC
9088481 TTTTATAATGGGAGTTTCAGATTAAA
1 TTTT-TAATGGGAGTTTCAGATTAAA
**
9088507 TTTTTTTTGGGAGTTTCAGATTAAA
1 TTTTTAATGGGAGTTTCAGATTAAA
9088532 TTTTT
1 TTTTT
9088537 TTGTGGACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.52
Consensus pattern (25 bp):
TTTTTAATGGGAGTTTCAGATTAAA
Found at i:9088517 original size:25 final size:25
Alignment explanation
Indices: 9088489--9088538 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
9088479 TCTTTTATAA
9088489 TGGGAGTTTCAGATTAAATTTTTTT
1 TGGGAGTTTCAGATTAAATTTTTTT
9088514 TGGGAGTTTCAGATTAAATTTTTTT
1 TGGGAGTTTCAGATTAAATTTTTTT
9088539 GTGGACTGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.52
Consensus pattern (25 bp):
TGGGAGTTTCAGATTAAATTTTTTT
Found at i:9089275 original size:12 final size:12
Alignment explanation
Indices: 9089267--9089327 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
9089257 AAATTATTTT
9089267 TTTAATTATATA
1 TTTAATTATATA
9089279 TTTAATTATATA
1 TTTAATTATATA
* *
9089291 --TACTTTTATA
1 TTTAATTATATA
*
9089301 TAT-ATT-TATA
1 TTTAATTATATA
9089311 TTTATATT-TATA
1 TTTA-ATTATATA
9089323 TTTAA
1 TTTAA
9089328 AATAATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 14 0.34
11 3 0.07
12 24 0.59
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTAATTATATA
Found at i:9089312 original size:6 final size:6
Alignment explanation
Indices: 9089301--9089326 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
9089291 TACTTTTATA
9089301 TATATT TATATT TATATT TATATT TA
1 TATATT TATATT TATATT TATATT TA
9089327 AAATAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATATT
Found at i:9090622 original size:6 final size:6
Alignment explanation
Indices: 9090602--9090653 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
9090592 CCAGTTGATG
** * * * *
9090602 CACCGT CACTAT CACCTT CACCGT CAACGT CACCGT CACCCT CACCCT
1 CACCGT CACCGT CACCGT CACCGT CACCGT CACCGT CACCGT CACCGT
9090650 CACC
1 CACC
9090654 CCCAGTGGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.21, C:0.52, G:0.08, T:0.19
Consensus pattern (6 bp):
CACCGT
Found at i:9098037 original size:51 final size:51
Alignment explanation
Indices: 9097977--9098079 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
9097967 CAAAATGAGA
* *
9097977 TAGTTGCTTTATCAGTCAAAACCTTAGCATGTGTTCAATCTTTATGCAGTT
1 TAGTTGCTTTATCAGACAAAACCTTAGAATGTGTTCAATCTTTATGCAGTT
9098028 TAGTTGCTTTATCAGACAAAACCTTAGAATGTGTTCAATCTTTATGCAGTT
1 TAGTTGCTTTATCAGACAAAACCTTAGAATGTGTTCAATCTTTATGCAGTT
9098079 T
1 T
9098080 TTATTGGGTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (51 bp):
TAGTTGCTTTATCAGACAAAACCTTAGAATGTGTTCAATCTTTATGCAGTT
Found at i:9114439 original size:3 final size:3
Alignment explanation
Indices: 9114429--9114462 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
9114419 AATTTTTTTA
*
9114429 ATT A-T ATT ATT GTT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
9114463 ATGGATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9116017 original size:21 final size:21
Alignment explanation
Indices: 9115993--9116032 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9115983 ATAATCTCTT
* *
9115993 TTATTAATTTTATATTTAAAA
1 TTATTAATATTAAATTTAAAA
9116014 TTATTAATATTAAATTTAA
1 TTATTAATATTAAATTTAA
9116033 TCAGTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTAATATTAAATTTAAAA
Found at i:9116629 original size:18 final size:17
Alignment explanation
Indices: 9116583--9116629 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
9116573 TTTTCAAATT
9116583 TAATTTA-ATATTTAAA
1 TAATTTATATATTTAAA
* * *
9116599 TATTTTTTATATTTAAC
1 TAATTTATATATTTAAA
9116616 TCAATTTATATATT
1 T-AATTTATATATT
9116630 CATAAATTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
TAATTTATATATTTAAA
Found at i:9116675 original size:14 final size:14
Alignment explanation
Indices: 9116658--9116695 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
9116648 TGATTCAATT
9116658 TAAATTTATTTTAA
1 TAAATTTATTTTAA
*
9116672 TAAATTTAATTTAA
1 TAAATTTATTTTAA
9116686 TATAATTTAT
1 TA-AATTTAT
9116696 AAAATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATTTATTTTAA
Found at i:9116722 original size:26 final size:27
Alignment explanation
Indices: 9116683--9116734 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
9116673 AAATTTAATT
*
9116683 TAATATAATTTATAAA-ATATTATTTG
1 TAATATAATTTATAAAGATAATATTTG
9116709 TAATAT-ATTATATAAAGATAATATTT
1 TAATATAATT-TATAAAGATAATATTT
9116735 TTATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 12 0.52
27 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
TAATATAATTTATAAAGATAATATTTG
Found at i:9116787 original size:16 final size:16
Alignment explanation
Indices: 9116768--9116801 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
9116758 ATATTTTTAT
9116768 TAATATAAT-ATAAAAA
1 TAATA-AATAATAAAAA
9116784 TAATAAATAATAAAAA
1 TAATAAATAATAAAAA
9116800 TA
1 TA
9116802 TATTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.18
16 14 0.82
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATAAATAATAAAAA
Found at i:9119359 original size:26 final size:26
Alignment explanation
Indices: 9119312--9119383 Score: 69
Period size: 25 Copynumber: 2.8 Consensus size: 26
9119302 ATAGTTCAAA
* * *
9119312 TTTTATGAAAAATTGTCT-TAAAAAT
1 TTTTATAAAAAATTATATATAAAAAT
9119337 TTTTATAAAAAATTATATAT-AAAAT
1 TTTTATAAAAAATTATATATAAAAAT
*
9119362 TTAGTCA-AAAAAATTATATATA
1 TT--TTATAAAAAATTATATATA
9119384 TATATTGAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 22 0.56
26 15 0.38
27 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (26 bp):
TTTTATAAAAAATTATATATAAAAAT
Found at i:9120427 original size:3 final size:3
Alignment explanation
Indices: 9120419--9120459 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9120409 AACCAATAAC
9120419 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9120460 CGACTCGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9122159 original size:21 final size:21
Alignment explanation
Indices: 9122135--9122185 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
9122125 TTATCTGTAC
9122135 TTTAATATTATTTAT-ATAAAA
1 TTTAATA-TATTTATAATAAAA
*
9122156 TTTAATA-ATTTATAATATAA
1 TTTAATATATTTATAATAAAA
9122176 TATTAATATA
1 T-TTAATATA
9122186 AATAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.23
20 6 0.23
21 13 0.50
22 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATATTTATAATAAAA
Found at i:9133245 original size:29 final size:29
Alignment explanation
Indices: 9133201--9133258 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
9133191 ATGTCTCCAA
9133201 AATGAGAGTTACAAAACATAGGTATTAAG
1 AATGAGAGTTACAAAACATAGGTATTAAG
* * *
9133230 AATGGGAGTTATAAAACATGGGTATTAAG
1 AATGAGAGTTACAAAACATAGGTATTAAG
9133259 TAGGCATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (29 bp):
AATGAGAGTTACAAAACATAGGTATTAAG
Found at i:9133719 original size:15 final size:15
Alignment explanation
Indices: 9133681--9133724 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
9133671 GAAGTATTTA
9133681 TTCTGTGAACAGCTG
1 TTCTGTGAACAGCTG
*
9133696 TTCCT-TGAATAGCTG
1 TT-CTGTGAACAGCTG
9133711 TTCTGTGAACAGCT
1 TTCTGTGAACAGCT
9133725 ATTCCATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.36
Consensus pattern (15 bp):
TTCTGTGAACAGCTG
Found at i:9133734 original size:15 final size:15
Alignment explanation
Indices: 9133686--9133734 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
9133676 ATTTATTCTG
*
9133686 TGAACAGCTGTTCCT
1 TGAACAGCTGTTCCA
* **
9133701 TGAATAGCTGTTCTG
1 TGAACAGCTGTTCCA
*
9133716 TGAACAGCTATTCCA
1 TGAACAGCTGTTCCA
9133731 TGAA
1 TGAA
9133735 GGAACCATTC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (15 bp):
TGAACAGCTGTTCCA
Found at i:9140925 original size:15 final size:17
Alignment explanation
Indices: 9140891--9140927 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9140881 TGAAATATAG
9140891 ATATTTTAATTACTATAA
1 ATATTTTAATTAC-ATAA
9140909 ATATTTTAA-TA-ATAA
1 ATATTTTAATTACATAA
9140924 ATAT
1 ATAT
9140928 CACTATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTTTAATTACATAA
Found at i:9140927 original size:39 final size:37
Alignment explanation
Indices: 9140883--9140960 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
9140873 TTTCAATATG
*
9140883 AAATAT-AGATATTTTAATTACTATAA-ATATTTTAATAAT
1 AAATATCA-ATATTTTAA-TA-T-TAATATATTTTAAGAAT
*
9140922 AAATATCACTATTTTAATATTAATATATTTTAAGAAT
1 AAATATCAATATTTTAATATTAATATATTTTAAGAAT
9140959 AA
1 AA
9140961 TAATACTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 3 0.09
37 15 0.43
38 2 0.06
39 14 0.40
40 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (37 bp):
AAATATCAATATTTTAATATTAATATATTTTAAGAAT
Found at i:9140960 original size:37 final size:36
Alignment explanation
Indices: 9140892--9140988 Score: 99
Period size: 37 Copynumber: 2.6 Consensus size: 36
9140882 GAAATATAGA
*
9140892 TATTTTAATTACTATAAATATTTTAATAATAA-ATATCAC
1 TATTTTAA-TACT-TAAATATTTTAAGAATAATA-AT-AC
9140931 TATTTTAATA-TTAATATATTTTAAGAATAATAATAC
1 TATTTTAATACTTAA-ATATTTTAAGAATAATAATAC
*
9140967 TATTTTAAATATTTAAAATATT
1 TATTTT-AATACTT-AAATATT
9140989 AATGCAAAGA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
36 11 0.21
37 21 0.40
38 10 0.19
39 10 0.19
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.48
Consensus pattern (36 bp):
TATTTTAATACTTAAATATTTTAAGAATAATAATAC
Found at i:9140964 original size:19 final size:20
Alignment explanation
Indices: 9140937--9140974 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9140927 TCACTATTTT
*
9140937 AATATTAATA-TATTTTAAG
1 AATAATAATACTATTTTAAG
9140956 AATAATAATACTATTTTAA
1 AATAATAATACTATTTTAA
9140975 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AATAATAATACTATTTTAAG
Found at i:9141099 original size:26 final size:26
Alignment explanation
Indices: 9141070--9141165 Score: 92
Period size: 26 Copynumber: 3.7 Consensus size: 26
9141060 TTATTAAAAA
*
9141070 TAATAATTATTGAATATTTATA-ATTT
1 TAATAATAATT-AATATTTATATATTT
9141096 TAATAATAAATT-AT-TTTAATATATTT
1 TAATAAT-AATTAATATTT-ATATATTT
* *
9141122 TAATAATAAATAAAATTTA-ATATTT
1 TAATAATAATTAATATTTATATATTT
9141147 TAATAATTATATTAATATT
1 TAATAA-TA-ATTAATATT
9141166 ATTTGAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
24 3 0.05
25 20 0.34
26 22 0.38
27 13 0.22
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
TAATAATAATTAATATTTATATATTT
Found at i:9141128 original size:13 final size:13
Alignment explanation
Indices: 9141091--9141132 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9141081 GAATATTTAT
9141091 AATTTTAATAATA
1 AATTTTAATAATA
*
9141104 AATTATT-TTAATA
1 AATT-TTAATAATA
*
9141117 TATTTTAATAATA
1 AATTTTAATAATA
9141130 AAT
1 AAT
9141133 AAAATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTTAATAATA
Found at i:9141150 original size:25 final size:26
Alignment explanation
Indices: 9141085--9141153 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
9141075 ATTATTGAAT
*
9141085 ATTT-ATA-ATTTTAATAATAAATTA
1 ATTTAATATATTTTAATAATAAATAA
*
9141109 TTTTAATATATTTTAATAATAAATAAA
1 ATTTAATATATTTTAATAATAAAT-AA
9141136 ATTT-A-ATATTTTAATAAT
1 ATTTAATATATTTTAATAAT
9141154 TATATTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
24 3 0.08
25 16 0.41
26 16 0.41
27 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTAATATATTTTAATAATAAATAA
Found at i:9143272 original size:33 final size:33
Alignment explanation
Indices: 9143225--9143316 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
9143215 ATTTATAGGT
* * *
9143225 TTTTAAAATTAAATTTTTTATTTTTATATAT-TA
1 TTTTAAAA-TAAAATTTTTATTTTTATAAATAGA
* *
9143258 TTTTAACATAAAATTTTAATTTATT-TAAATAGA
1 TTTTAAAATAAAATTTTTATTT-TTATAAATAGA
*
9143291 TTTTAAAATAAAATTATTATTTTTAT
1 TTTTAAAATAAAATTTTTATTTTTAT
9143317 TTTATAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 18 0.38
33 30 0.62
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (33 bp):
TTTTAAAATAAAATTTTTATTTTTATAAATAGA
Found at i:9143415 original size:11 final size:11
Alignment explanation
Indices: 9143399--9143451 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
9143389 TTTTAATCTA
9143399 AAATTTAATTT
1 AAATTTAATTT
9143410 AAATTTAATTT
1 AAATTTAATTT
9143421 ACATATTTAATATCT
1 A-A-ATTTAAT-T-T
* *
9143436 AAATTTGATTC
1 AAATTTAATTT
9143447 AAATT
1 AAATT
9143452 AAATAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 17 0.47
12 2 0.06
13 13 0.36
14 2 0.06
15 2 0.06
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:9144966 original size:20 final size:19
Alignment explanation
Indices: 9144928--9144964 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
9144918 ATCAATTAAT
9144928 TTTTTTAAAAAATTATTTA
1 TTTTTTAAAAAATTATTTA
9144947 TTTTTTAATAAAA-TATTT
1 TTTTTTAA-AAAATTATTT
9144965 TAATTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTTTAAAAAATTATTTA
Found at i:9145138 original size:15 final size:14
Alignment explanation
Indices: 9145101--9145143 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
9145091 AAAAAACTTA
9145101 TAAAATTTATTTTT
1 TAAAATTTATTTTT
*
9145115 TAATTAATTAATTTTT
1 TAA--AATTTATTTTT
9145131 GTAAAATTTATTT
1 -TAAAATTTATTT
9145144 ATTCATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 3 0.12
15 8 0.33
16 10 0.42
17 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TAAAATTTATTTTT
Found at i:9150560 original size:36 final size:37
Alignment explanation
Indices: 9150496--9150567 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 37
9150486 ATCATACTTA
* *
9150496 ACAGCCCTTCTGGTTTTCTTTAGAATGCCATAATTTG
1 ACAGCCCTTATGGTTTGCTTTAGAATGCCATAATTTG
9150533 ACAGCCCTTATGG-TTGCTTTAGAATGCCATAATTT
1 ACAGCCCTTATGGTTTGCTTTAGAATGCCATAATTT
9150568 ATAGTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 21 0.64
37 12 0.36
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (37 bp):
ACAGCCCTTATGGTTTGCTTTAGAATGCCATAATTTG
Found at i:9160651 original size:5 final size:5
Alignment explanation
Indices: 9160641--9160677 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
9160631 CTTGACTTTT
9160641 CTTCC CTTCC CTTCC CTTCC CTTCC CTT-C CTTCC CTT
1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTT
9160678 GGCTTTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (5 bp):
CTTCC
Found at i:9161356 original size:2 final size:2
Alignment explanation
Indices: 9161349--9161378 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9161339 ATTGCTTGAT
9161349 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9161379 GTGTATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9161857 original size:17 final size:17
Alignment explanation
Indices: 9161802--9161857 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
9161792 AAATAATACA
9161802 TATTATTTT-TTAATTT
1 TATTATTTTATTAATTT
* *
9161818 TAATATATTTTA-AAATATA
1 T-AT-TATTTTATTAAT-TT
9161837 TATTATTTTATTAATTT
1 TATTATTTTATTAATTT
9161854 TATT
1 TATT
9161858 TATAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
16 1 0.03
17 14 0.45
18 14 0.45
19 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTATTTTATTAATTT
Found at i:9165001 original size:3 final size:3
Alignment explanation
Indices: 9164993--9165052 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
9164983 AAAATGCTAA
9164993 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9165040 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
9165053 GAATATTTTT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9165117 original size:3 final size:3
Alignment explanation
Indices: 9165111--9165147 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9165101 TAATTTTTAT
9165111 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9165148 CAAAAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9165332 original size:14 final size:14
Alignment explanation
Indices: 9165279--9165332 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
9165269 CGTTTTCTTT
*
9165279 AAATCCTAAAATCC
1 AAATCCTAAAATTC
* *
9165293 AAACCCTAAATTTC
1 AAATCCTAAAATTC
* *
9165307 AAAACCTAAAAATTG
1 AAATCCT-AAAATTC
9165322 AAATCCTAAAA
1 AAATCCTAAAA
9165333 ATTAAACCCC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
14 21 0.66
15 11 0.34
ACGTcount: A:0.54, C:0.22, G:0.02, T:0.22
Consensus pattern (14 bp):
AAATCCTAAAATTC
Found at i:9165354 original size:29 final size:29
Alignment explanation
Indices: 9165322--9165397 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
9165312 CTAAAAATTG
9165322 AAATCCTAAAAATTAAACCCCAAA-CATCC
1 AAATCCT-AAAATTAAACCCCAAACCATCC
** * *
9165351 AAATTTTAAAATTAAACCCTAAACCCTCC
1 AAATCCTAAAATTAAACCCCAAACCATCC
* *
9165380 GAACCCTAAAATTAAACC
1 AAATCCTAAAATTAAACC
9165398 TAAAACCCTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.49, C:0.29, G:0.01, T:0.21
Consensus pattern (29 bp):
AAATCCTAAAATTAAACCCCAAACCATCC
Found at i:9165403 original size:29 final size:29
Alignment explanation
Indices: 9165357--9165419 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
9165347 ATCCAAATTT
9165357 TAAAATTAAACCCTAAACCCTCCGAACCC
1 TAAAATTAAACCCTAAACCCTCCGAACCC
**
9165386 TAAAATTAAA-CCTAAAACCCTTTGAACCC
1 TAAAATTAAACCCT-AAACCCTCCGAACCC
9165415 TAAAA
1 TAAAA
9165420 ACGAAACCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 3 0.10
29 28 0.90
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.21
Consensus pattern (29 bp):
TAAAATTAAACCCTAAACCCTCCGAACCC
Found at i:9165434 original size:30 final size:29
Alignment explanation
Indices: 9165364--9165434 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
9165354 TTTTAAAATT
* **
9165364 AAACCCTAAACCCTCCGAACCCTAAAATT
1 AAACCTTAAACCCTCCGAACCCTAAAACG
* **
9165393 AAACCTAAAACCCTTTGAACCCTAAAAACG
1 AAACCTTAAACCCTCCGAACCCT-AAAACG
9165423 AAACCTTAAACC
1 AAACCTTAAACC
9165435 TTCAAAACCT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (29 bp):
AAACCTTAAACCCTCCGAACCCTAAAACG
Found at i:9165455 original size:14 final size:14
Alignment explanation
Indices: 9165436--9165520 Score: 57
Period size: 14 Copynumber: 5.9 Consensus size: 14
9165426 CCTTAAACCT
9165436 TCAAAACCTTAAAA
1 TCAAAACCTTAAAA
* *
9165450 TCAAAACCTCAAACC
1 TCAAAACCTTAAA-A
*
9165465 TC-AAACTTTAAAA
1 TCAAAACCTTAAAA
*
9165478 CCAAAA-CTCTAAAA
1 TCAAAACCT-TAAAA
* * *
9165492 TCTCCAATCCCTAAAA
1 --TCAAAACCTTAAAA
9165508 TCAAAACCTTAAA
1 TCAAAACCTTAAA
9165521 CCTCCTAAAC
Statistics
Matches: 51, Mismatches: 14, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
13 2 0.04
14 38 0.75
15 2 0.04
16 8 0.16
17 1 0.02
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
TCAAAACCTTAAAA
Found at i:9165552 original size:30 final size:29
Alignment explanation
Indices: 9165357--9165563 Score: 138
Period size: 30 Copynumber: 7.2 Consensus size: 29
9165347 ATCCAAATTT
* * * *
9165357 TAAAATTAAACCCTAAACCCTCCGAACCC
1 TAAAATCAAAACCTAAAACCTCCAAACCC
* ***
9165386 TAAAAT-TAAACCTAAAACCCTTTGAACCC
1 TAAAATCAAAACCTAAAA-CCTCCAAACCC
* * * * *
9165415 TAAAAACGAAACCTTAAACCTTCAAAACCT
1 TAAAATCAAAACCTAAAACC-TCCAAACCC
* **
9165445 TAAAATCAAAACCTCAAACCT-CAAACTT
1 TAAAATCAAAACCTAAAACCTCCAAACCC
* * *
9165473 TAAAACCAAAACTCTAAAATCTCCAATCCC
1 TAAAATCAAAAC-CTAAAACCTCCAAACCC
*
9165503 TAAAATCAAAACCTTAAACCTCCTAAACCC
1 TAAAATCAAAACCTAAAACCTCC-AAACCC
*
9165533 TAAAATTC-AAGCCTAAAA---CCAAACCC
1 TAAAA-TCAAAACCTAAAACCTCCAAACCC
9165559 TAAAA
1 TAAAA
9165564 CCCTTAAAAC
Statistics
Matches: 142, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
26 11 0.08
27 2 0.01
28 24 0.17
29 39 0.27
30 64 0.45
31 2 0.01
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (29 bp):
TAAAATCAAAACCTAAAACCTCCAAACCC
Found at i:9166639 original size:47 final size:47
Alignment explanation
Indices: 9166585--9166679 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
9166575 TAACAAAGAT
*
9166585 TGGTGGCAACTCTCCTTTTATTTTTCCCGACTTTAAAATTCTTTACA
1 TGGTGGCAACTCTCCTTTTATTTTTCCCAACTTTAAAATTCTTTACA
**
9166632 TGGTGGCAACTCTCCTTTTATTTTTTTCAACTTTAAAATTCTTTACA
1 TGGTGGCAACTCTCCTTTTATTTTTCCCAACTTTAAAATTCTTTACA
9166679 T
1 T
9166680 TTGGCAGTCC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.47
Consensus pattern (47 bp):
TGGTGGCAACTCTCCTTTTATTTTTCCCAACTTTAAAATTCTTTACA
Found at i:9172168 original size:8 final size:8
Alignment explanation
Indices: 9172155--9172248 Score: 54
Period size: 8 Copynumber: 12.0 Consensus size: 8
9172145 GCATCACAAG
9172155 ATAAAAAA
1 ATAAAAAA
9172163 ATAAAAAA
1 ATAAAAAA
9172171 A-AAACAAA
1 ATAAA-AAA
9172179 A-AAAAACA
1 ATAAAAA-A
9172187 A-AAAAAA
1 ATAAAAAA
**
9172194 GCAAAAAA
1 ATAAAAAA
** *
9172202 GCAAAAAG
1 ATAAAAAA
9172210 ATAAAAAA
1 ATAAAAAA
9172218 GAT-AAAAA
1 -ATAAAAAA
**
9172226 A-AAGCAA
1 ATAAAAAA
*
9172233 ACAAAAAA
1 ATAAAAAA
9172241 ATAAAAAA
1 ATAAAAAA
9172249 GACATCTTCA
Statistics
Matches: 70, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
7 11 0.16
8 57 0.81
9 2 0.03
ACGTcount: A:0.83, C:0.06, G:0.05, T:0.05
Consensus pattern (8 bp):
ATAAAAAA
Found at i:9172182 original size:20 final size:20
Alignment explanation
Indices: 9172157--9172201 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9172147 ATCACAAGAT
*
9172157 AAAAAAATA-AAAAAAAAAC
1 AAAAAAAAACAAAAAAAAAC
*
9172176 AAAAAAAAACAAAAAAAAGC
1 AAAAAAAAACAAAAAAAAAC
9172196 AAAAAA
1 AAAAAA
9172202 GCAAAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.89, C:0.07, G:0.02, T:0.02
Consensus pattern (20 bp):
AAAAAAAAACAAAAAAAAAC
Found at i:9173809 original size:18 final size:18
Alignment explanation
Indices: 9173783--9173823 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
9173773 TCTTGTATTT
*
9173783 GCATCGACATTTACATTC
1 GCATCGACATTTACATTA
* *
9173801 GCATTGACATTTCCATTA
1 GCATCGACATTTACATTA
9173819 GCATC
1 GCATC
9173824 ATTTAATGAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (18 bp):
GCATCGACATTTACATTA
Found at i:9173997 original size:41 final size:41
Alignment explanation
Indices: 9173921--9174007 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
9173911 TTAAAGTTTC
* * *
9173921 AAAGTTCTGTTTAAGAGGAACCATTTTGAATCAAGA-TTTT
1 AAAGTTCTGTTTAAGAGGAACCATTTTCAAACAAGACCTTT
*
9173961 AAAGCTTCTGTTTAGGAGGAACC-TTCTTCAAACAAGACCTTT
1 AAAG-TTCTGTTTAAGAGGAACCATT-TTCAAACAAGACCTTT
9174003 AAAGT
1 AAAGT
9174008 CTCAAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.15
41 27 0.68
42 7 0.17
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (41 bp):
AAAGTTCTGTTTAAGAGGAACCATTTTCAAACAAGACCTTT
Found at i:9174312 original size:128 final size:129
Alignment explanation
Indices: 9174042--9174356 Score: 367
Period size: 128 Copynumber: 2.4 Consensus size: 129
9174032 AGCCATTTTA
* * *
9174042 AAAAAGATTTTTAAATTTTTAAAGTTTTATTGCCTTTGATTAGGAGAAGCATTCAAAGATTTTTG
1 AAAAA-ATTTTTAAATTTTTAAAGTTTTATCGCCTCTGATTAGGAGAAGCATTCAAAGAATTTTG
* * * *
9174107 AGACTTATAAGACCTTCGGGCATAATCTCTAATACTTTTGGACACAACTTTTAAGACATCTAAGT
65 AGACTTATAAGACCTCCGAGCATAATCTCTAATACTTTAGGACACAACTTTCAAGACATCTAAGT
*
9174172 AAAATATTTTTAAATTTTTAAAGTTTTATCGCCTCTGATTAGGAGAAGCATTCAAA-AATTTTGA
1 AAAAAATTTTTAAATTTTTAAAGTTTTATCGCCTCTGATTAGGAGAAGCATTCAAAGAATTTTGA
* * * * * *
9174236 GATTTGTAAGACCTCCGAGCGTAATCTCTAA-AGCCTTTAGG-CACAACTTTCAAGA-TTTTCGA
66 GACTTATAAGACCTCCGAGCATAATCTCTAATA--CTTTAGGACACAACTTTCAAGACATCT-AA
9174298 GT
128 GT
* *
9174300 AAAAAATTTTTAAATTTTCAAAG-TTCA-CAGACCTCTGATTA-GAGGAA-CATTCAAAGA
1 AAAAAATTTTTAAATTTTTAAAGTTTTATC-G-CCTCTGATTAGGA-GAAGCATTCAAAGA
9174357 TTTAATTTGT
Statistics
Matches: 161, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
126 1 0.01
127 17 0.11
128 84 0.52
129 55 0.34
130 4 0.02
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.36
Consensus pattern (129 bp):
AAAAAATTTTTAAATTTTTAAAGTTTTATCGCCTCTGATTAGGAGAAGCATTCAAAGAATTTTGA
GACTTATAAGACCTCCGAGCATAATCTCTAATACTTTAGGACACAACTTTCAAGACATCTAAGT
Found at i:9174821 original size:131 final size:130
Alignment explanation
Indices: 9174567--9174898 Score: 350
Period size: 131 Copynumber: 2.5 Consensus size: 130
9174557 CTGTAAAACC
* * *
9174567 TTGGGCATAATCTTTAAGACCTCCGGGTATAATTTTGATTCGCGATATTGTCCCAATCGATTATT
1 TTGGGCATAATCTTTAAGACCTCCGGGCATAATTTTGATTCACGATATTGTCCCAATCAATTATT
* * ***
9174632 TATTTTGACTTATAGTGTTATCTTGATCGATTCTATAAGACCTTCGGGTATGATTTTTAAGA-AT
66 TATTTTAACTTACAGTGTTATCTTGATCGATTCTATAAGACCTTCGAACATGATTTTTAAGACAT
* * **
9174696 TTGGGCATAATCTTTAAGGCCTCCGGGCATAA-TTTGAATTCACGATGTTGTCCTGATCAATT-T
1 TTGGGCATAATCTTTAAGACCTCCGGGCATAATTTTG-ATTCACGATATTGTCCCAATCAATTAT
* *
9174759 TTAATTTTTTAACTTACGGTGTTAT-TCTGATCGATTCTGTAAGACCTTCGAACATGATTTTTAA
65 TT-A--TTTTAACTTACAGTGTTATCT-TGATCGATTCTATAAGACCTTCGAACATGATTTTTAA
*
9174823 GACCT
126 GACAT
* * ** * * * * * *
9174828 TCGGGCATAAT-TTCTAAGATCTTTGGGTAAAAATTTGATTCACGATGTTGTCCCAATCGATTCT
1 TTGGGCATAATCTT-TAAGACCTCCGGGCATAATTTTGATTCACGATATTGTCCCAATCAATTAT
9174892 TTATTTT
65 TTATTTT
9174899 TTGACTTGCG
Statistics
Matches: 169, Mismatches: 25, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
128 7 0.04
129 51 0.30
130 5 0.03
131 53 0.31
132 46 0.27
133 7 0.04
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (130 bp):
TTGGGCATAATCTTTAAGACCTCCGGGCATAATTTTGATTCACGATATTGTCCCAATCAATTATT
TATTTTAACTTACAGTGTTATCTTGATCGATTCTATAAGACCTTCGAACATGATTTTTAAGACAT
Found at i:9174840 original size:22 final size:22
Alignment explanation
Indices: 9174798--9174846 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9174788 ATCGATTCTG
* *
9174798 TAAGACCTTCGAACATGATTTT
1 TAAGACCTTCGAACATAATTTC
**
9174820 TAAGACCTTCGGGCATAATTTC
1 TAAGACCTTCGAACATAATTTC
9174842 TAAGA
1 TAAGA
9174847 TCTTTGGGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGAACATAATTTC
Found at i:9174927 original size:132 final size:130
Alignment explanation
Indices: 9174564--9174937 Score: 391
Period size: 132 Copynumber: 2.9 Consensus size: 130
9174554 ATTCTGTAAA
* * * *
9174564 ACCTTGGGCATAATCTTTAAGACCTCCGGGTATAATTTTGATTCGCGATATTGTCCCAATCGATT
1 ACCTTGGGCATAATCTTTAAGACCTCCGGGTAAAAATTTGATTCACGATGTTGTCCCAATCGATT
** * * ***
9174629 ATTTA--TTTTGACTTATAGTGTTATCTTGATCGATTCTATAAGACCTTCGGGTATGATTTTTAA
66 -TTTATTTTTTGACTTCGAGTGTTATCCTGATCGATTCTGTAAGACCTTCGAACATGATTTTTAA
9174692 G
130 G
** * * * ** *
9174693 AATTTGGGCATAATCTTTAAGGCCTCCGGG-CATAATTTGAATTCACGATGTTGTCCTGATCAAT
1 ACCTTGGGCATAATCTTTAAGACCTCCGGGTAAAAATTTG-ATTCACGATGTTGTCCCAATCGAT
* *
9174757 TTTTAATTTTTTAACTTACG-GTGTTATTCTGATCGATTCTGTAAGACCTTCGAACATGATTTTT
65 TTTT-ATTTTTTGACTT-CGAGTGTTATCCTGATCGATTCTGTAAGACCTTCGAACATGATTTTT
9174821 AAG
128 AAG
* **
9174824 ACCTTCGGGCATAAT-TTCTAAGATCTTTGGGTAAAAATTTGATTCACGATGTTGTCCCAATCGA
1 ACCTT-GGGCATAATCTT-TAAGACCTCCGGGTAAAAATTTGATTCACGATGTTGTCCCAATCGA
* * *
9174888 TTCTTTATTTTTTGACTTGCGATTGTT-TCCCGATTGATTCTGTAAGACCT
64 TT-TTTATTTTTTGACTT-CGAGTGTTATCCTGATCGATTCTGTAAGACCT
9174938 CGGGCAATCT
Statistics
Matches: 197, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
128 8 0.04
129 48 0.24
131 54 0.27
132 73 0.37
133 14 0.07
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.41
Consensus pattern (130 bp):
ACCTTGGGCATAATCTTTAAGACCTCCGGGTAAAAATTTGATTCACGATGTTGTCCCAATCGATT
TTTATTTTTTGACTTCGAGTGTTATCCTGATCGATTCTGTAAGACCTTCGAACATGATTTTTAAG
Found at i:9175265 original size:22 final size:22
Alignment explanation
Indices: 9175235--9175289 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
9175225 ATCTCGATCA
9175235 ATTTATAAGACCTCCGGACATG
1 ATTTATAAGACCTCCGGACATG
* ** *
9175257 ATTTTTAAGACCTTTGGGCATG
1 ATTTATAAGACCTCCGGACATG
*
9175279 ATTTCTAAGAC
1 ATTTATAAGAC
9175290 TTTCAAGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (22 bp):
ATTTATAAGACCTCCGGACATG
Found at i:9175489 original size:87 final size:88
Alignment explanation
Indices: 9175393--9175559 Score: 237
Period size: 87 Copynumber: 1.9 Consensus size: 88
9175383 CTTTCAGGCA
* * * *
9175393 AATTTTGATTTATGATATTGTCTTGATCGATTCTTTATTTTTTGAC-TACGGTGTTATCTCAGTT
1 AATTTTGATTTATGATATTATCTCGATCGATTCTTTATTTTTTGACTTACGATGTTATCTCAGTC
9175457 GATTCTATAAGACCTCCGGACAT
66 GATTCTATAAGACCTCCGGACAT
* * * *
9175480 AATTTTGATTTGTGGTGTTATCTCGATTGATTCTTTATTTTTTGACTTACGATGTTATCTCAGTC
1 AATTTTGATTTATGATATTATCTCGATCGATTCTTTATTTTTTGACTTACGATGTTATCTCAGTC
* *
9175545 GATTTTGTAAGACCT
66 GATTCTATAAGACCT
9175560 TCGAACATGA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
87 40 0.58
88 29 0.42
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.48
Consensus pattern (88 bp):
AATTTTGATTTATGATATTATCTCGATCGATTCTTTATTTTTTGACTTACGATGTTATCTCAGTC
GATTCTATAAGACCTCCGGACAT
Found at i:9175578 original size:22 final size:22
Alignment explanation
Indices: 9175552--9175594 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9175542 GTCGATTTTG
*
9175552 TAAGACCTTCGAACATGATTTC
1 TAAGACCTTCGAACATAATTTC
*
9175574 TAAGACCTTCGAGCATAATTT
1 TAAGACCTTCGAACATAATTT
9175595 TGATTTACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCGAACATAATTTC
Found at i:9175591 original size:110 final size:110
Alignment explanation
Indices: 9175464--9175781 Score: 367
Period size: 110 Copynumber: 2.9 Consensus size: 110
9175454 GTTGATTCTA
* * * * *
9175464 TAAGACCTCCGGACATAATTTTGATTTGTGGTGTTATCTCGATTGATTCTTTATTTTTTGACTTA
1 TAAGACCTTCGG-CATAATTTTGATTTGTGATGTTGTCCCGATCGATTCTTTATTTTTTGACTTA
* *
9175529 CGATGTTATCTCAGTCGATTTTGTAAGACCTTCGA-ACATGATTTC
65 CGATGTTATCTCAGTCGATTCTGTAAGACCTTCGAGACACGATTTC
** *
9175574 TAAGACCTTCGAGCATAATTTTGATTTACGATGTTGTCCCGATCGATTTTTTATTTTTTGACTTA
1 TAAGACCTTCG-GCATAATTTTGATTTGTGATGTTGTCCCGATCGATTCTTTATTTTTTGACTTA
* * * * *
9175639 C-AGTGTTAT-TCATATCGATTCTATAAGACC-TCTAGGCACGATTTT
65 CGA-TGTTATCTCA-GTCGATTCTGTAAGACCTTCGAGACACGATTTC
* * *
9175684 TAAAACCTCTGGGCATAATTTTGATTTGTAATGTTGTCCCGATCGATTCTTTATTTTTTGACTTA
1 TAAGACCT-TCGGCATAATTTTGATTTGTGATGTTGTCCCGATCGATTCTTTATTTTTTGACTTA
* *
9175749 CGATATTATC-CTAGTCGATTCTGTAAGATCTTC
65 CGATGTTATCTC-AGTCGATTCTGTAAGACCTTC
9175782 AGGCATAATT
Statistics
Matches: 174, Mismatches: 25, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
109 7 0.04
110 160 0.92
111 7 0.04
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (110 bp):
TAAGACCTTCGGCATAATTTTGATTTGTGATGTTGTCCCGATCGATTCTTTATTTTTTGACTTAC
GATGTTATCTCAGTCGATTCTGTAAGACCTTCGAGACACGATTTC
Found at i:9175907 original size:22 final size:22
Alignment explanation
Indices: 9175860--9175908 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
9175850 GTCGATTTTG
* **
9175860 TAAGATCTTTGGGCATGATTTC
1 TAAGATCTCTGGGCACAATTTC
9175882 TAAGATCTCTGGGCACAATCTT-
1 TAAGATCTCTGGGCACAAT-TTC
9175904 TAAGA
1 TAAGA
9175909 CCTCCAGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (22 bp):
TAAGATCTCTGGGCACAATTTC
Found at i:9176396 original size:24 final size:23
Alignment explanation
Indices: 9176364--9176409 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
9176354 GTGCCAGTGG
9176364 TGCATGATAAATTTTTAATATTTA
1 TGCATGATAAATTTTTAA-ATTTA
9176388 TGCATGATAAATTTTTAAATTT
1 TGCATGATAAATTTTTAAATTT
9176410 GTTAGAACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (23 bp):
TGCATGATAAATTTTTAAATTTA
Found at i:9176805 original size:14 final size:14
Alignment explanation
Indices: 9176788--9176820 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9176778 CTAAATTTCA
9176788 AAACC-TAAAAATT
1 AAACCTTAAAAATT
9176801 GAAACCTTAAAAATT
1 -AAACCTTAAAAATT
9176816 AAACC
1 AAACC
9176821 CCAAACCTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.58, C:0.18, G:0.03, T:0.21
Consensus pattern (14 bp):
AAACCTTAAAAATT
Found at i:9176869 original size:29 final size:29
Alignment explanation
Indices: 9176837--9176930 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
9176827 CTCCAAATAT
9176837 TAAAATTAAATCC-TAAACCCTCTGAACCC
1 TAAAATTAAA-CCTTAAACCCTCTGAACCC
*
9176866 TAAAATTAAACCTTAAACCCTTTGAACCC
1 TAAAATTAAACCTTAAACCCTCTGAACCC
** **
9176895 TAAAAACGAAACCTTAAACCCTCAAAACCC
1 T-AAAATTAAACCTTAAACCCTCTGAACCC
9176925 TAAAAT
1 TAAAAT
9176931 CAAAACCCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.04
29 30 0.54
30 24 0.43
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.22
Consensus pattern (29 bp):
TAAAATTAAACCTTAAACCCTCTGAACCC
Found at i:9176924 original size:9 final size:8
Alignment explanation
Indices: 9176910--9177017 Score: 52
Period size: 8 Copynumber: 14.4 Consensus size: 8
9176900 ACGAAACCTT
9176910 AAACCCTCA
1 AAACCCT-A
9176919 AAACCCTA
1 AAACCCTA
*
9176927 AAA-TC-A
1 AAACCCTA
9176933 AAACCC-A
1 AAACCCTA
*
9176940 AAA-CCTC
1 AAACCCTA
**
9176947 AAACTTTA
1 AAACCCTA
9176955 AAA-CC-A
1 AAACCCTA
*
9176961 AAACTCTA
1 AAACCCTA
* * *
9176969 AAATCTTC
1 AAACCCTA
9176977 AAACCCTA
1 AAACCCTA
*
9176985 AAA-TC-A
1 AAACCCTA
9176991 AAACCCTA
1 AAACCCTA
* *
9176999 AACCCCTC
1 AAACCCTA
9177007 AAACCCTA
1 AAACCCTA
9177015 AAA
1 AAA
9177018 TTCAAGCCCT
Statistics
Matches: 70, Mismatches: 22, Indels: 15
0.65 0.21 0.14
Matches are distributed among these distances:
6 14 0.20
7 12 0.17
8 37 0.53
9 7 0.10
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (8 bp):
AAACCCTA
Found at i:9176935 original size:14 final size:14
Alignment explanation
Indices: 9176916--9177000 Score: 75
Period size: 14 Copynumber: 5.9 Consensus size: 14
9176906 CCTTAAACCC
9176916 TCAAAACCCTAAAA
1 TCAAAACCCTAAAA
9176930 TCAAAACCC-AAAA
1 TCAAAACCCTAAAA
**
9176943 CCTC-AAACTTTAAAA
1 --TCAAAACCCTAAAA
* *
9176958 CCAAAACTCTAAAA
1 TCAAAACCCTAAAA
*
9176972 TCTTCAAACCCTAAAA
1 TC--AAAACCCTAAAA
9176988 TCAAAACCCTAAA
1 TCAAAACCCTAAA
9177001 CCCCTCAAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
13 5 0.09
14 34 0.60
15 6 0.11
16 12 0.21
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (14 bp):
TCAAAACCCTAAAA
Done.