Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 20 of 143
Found at i:6140294 original size:3 final size:3
Alignment explanation
Indices: 6140286--6140416 Score: 63
Period size: 3 Copynumber: 42.0 Consensus size: 3
6140276 CGGCTTCTTT
* * *
6140286 TTA TTA TTA TTTA TTA TTA TTA TTAA TTA TTG CTA TT- TAA TGCTA CTT-
1 TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA T--TA -TTA
* * *
6140334 TTA CTGA T-A TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TAAA TTA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * *
6140380 ATA TTA TTA ATA GTTA TTAA TAA TT- TAA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
6140417 ATGCTCTTTA
Statistics
Matches: 96, Mismatches: 19, Indels: 26
0.68 0.13 0.18
Matches are distributed among these distances:
2 6 0.06
3 73 0.76
4 15 0.16
5 1 0.01
6 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:6141132 original size:6 final size:6
Alignment explanation
Indices: 6141121--6141169 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
6141111 GGACATTTTA
*
6141121 TTAAAT TTAAAT TT-AA- -TAAAT TTAAAT TTAAA- ATAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
6141165 TTAAA
1 TTAAA
6141170 ATGGTTTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 1 0.03
4 2 0.05
5 6 0.16
6 28 0.76
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:6141140 original size:15 final size:15
Alignment explanation
Indices: 6141117--6141168 Score: 77
Period size: 15 Copynumber: 3.3 Consensus size: 15
6141107 ATTTGGACAT
*
6141117 TTTATTAAATTTAAA
1 TTTAATAAATTTAAA
6141132 TTTAATAAATTTAAA
1 TTTAATAAATTTAAA
6141147 TTTAAAATAAATTTAAA
1 TTT--AATAAATTTAAA
6141164 TTTAA
1 TTTAA
6141169 AATGGTTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
15 19 0.56
17 15 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAATAAATTTAAA
Found at i:6141157 original size:17 final size:17
Alignment explanation
Indices: 6141122--6141171 Score: 86
Period size: 17 Copynumber: 3.1 Consensus size: 17
6141112 GACATTTTAT
6141122 TAAATTTAAATTT--AA
1 TAAATTTAAATTTAAAA
6141137 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
6141154 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
6141171 T
1 T
6141172 GGTTTGGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.39
17 20 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:6141622 original size:92 final size:92
Alignment explanation
Indices: 6141423--6142089 Score: 1069
Period size: 92 Copynumber: 7.4 Consensus size: 92
6141413 TGATGTCGAG
* *
6141423 GCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAAC----CTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
*
6141484 TCAAGAGGATAAGAATTGACATTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
* *
6141511 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAAGTTTGTTATCCAACTTTACTATATCT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
*
6141576 TCAAGAAGATAAGAATTGACGTTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
*
6141603 GCTTCATCTTGCTCTTACTACAGCTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
6141668 TCAAGAGGATAAGAATTGACGTTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
** * * *
6141695 TATTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAACTTTATTGTAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
6141760 TC------------ATTGACGTTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
6141775 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
*
6141840 TCAAGAGGATAAGAATTGATGTTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
*
6141867 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
* *
6141932 TTAAGAGGATAAGAATCGACGTTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
*
6141959 GCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
6142024 TCAAGAGGATAAGAATTGACGTTTGAA
66 TCAAGAGGATAAGAATTGACGTTTGAA
6142051 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAG
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAG
6142090 ACTTGCTATT
Statistics
Matches: 532, Mismatches: 31, Indels: 28
0.90 0.05 0.05
Matches are distributed among these distances:
80 75 0.14
88 51 0.10
92 406 0.76
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (92 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
TCAAGAGGATAAGAATTGACGTTTGAA
Found at i:6141630 original size:52 final size:51
Alignment explanation
Indices: 6141565--6141722 Score: 124
Period size: 52 Copynumber: 3.3 Consensus size: 51
6141555 TTATCCAACT
* *
6141565 TTACTATATCTTCAAGAAGATAAGAATTGACGTTTGAAGCTTCATCTTGCTC
1 TTACTACAACTTCAAGAAGATAAGAATTGACGTTTGAAG-TTCATCTTGCTC
* ***
6141617 TTACTACAGCTTC-AGAGAGAT-A-AA--G--GTTT---GTT-ATCCAACT-
1 TTACTACAACTTCAAGA-AGATAAGAATTGACGTTTGAAGTTCATCTTGCTC
* * *
6141657 TTACTATAACTTCAAGAGGATAAGAATTGACGTTTGAATATTCATCTTGCTC
1 TTACTACAACTTCAAGAAGATAAGAATTGACGTTTGAA-GTTCATCTTGCTC
6141709 TTACTACAACTTCA
1 TTACTACAACTTCA
6141723 GAGAGACAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
40 14 0.18
41 9 0.11
42 4 0.05
43 1 0.01
44 1 0.01
46 8 0.10
48 1 0.01
50 4 0.05
51 9 0.11
52 28 0.35
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (51 bp):
TTACTACAACTTCAAGAAGATAAGAATTGACGTTTGAAGTTCATCTTGCTC
Found at i:6141908 original size:264 final size:265
Alignment explanation
Indices: 6141497--6142089 Score: 945
Period size: 264 Copynumber: 2.2 Consensus size: 265
6141487 AGAGGATAAG
* *
6141497 AATTGACATTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAAGTTTGTTATCCA
1 AATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCA
* *
6141562 ACTTTACTATATCTTCAAGAAGATAAGAATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAGC
66 ACTTTACTATAACTTCAAGAAGATAAGAATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAAC
* *
6141627 TTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATTGACGTTT
131 TTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATCGACGTTT
* * * *
6141692 GAATATTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAACTTTATTGTA
196 GAAGATTCATCTTACTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATA
6141757 ACTTC
261 ACTTC
6141762 -ATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCA
1 AATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCA
* *
6141826 ACTTTACTATAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAAC
66 ACTTTACTATAACTTCAAGAAGATAAGAATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAAC
*
6141891 TTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATAACTTTAAGAGGATAAGAATCGACGTTT
131 TTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATCGACGTTT
* *
6141956 GAAGCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATA
196 GAAGATTCATCTTACTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATA
6142021 ACTTC
261 ACTTC
6142026 AAGAGGATAAGAATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAG
1 -----------AATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAG
6142090 ACTTGCTATT
Statistics
Matches: 301, Mismatches: 15, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
264 249 0.83
276 52 0.17
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (265 bp):
AATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCA
ACTTTACTATAACTTCAAGAAGATAAGAATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAAC
TTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAATCGACGTTT
GAAGATTCATCTTACTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAACTTTACTATA
ACTTC
Found at i:6142077 original size:356 final size:352
Alignment explanation
Indices: 6141423--6142089 Score: 1163
Period size: 356 Copynumber: 1.9 Consensus size: 352
6141413 TGATGTCGAG
*
6141423 GCTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACCTACAACTTCAA
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACCTACAACTTCAA
*
6141488 GAGGATAAGAATTGACATTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAAGTT
66 GAGGATAAGAATTGACATTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAAGTT
* * *
6141553 TGTTATCCAACTTTACTATATCTTCAAGAAGATAAGAATTGACGTTTGAAGCTTCATCTTGCTCT
131 TGTTATCCAACTTTACTATAACTTCAAGAAGATAAGAATCGACGTTTGAAGCTTCATCTTACTCT
*
6141618 TACTACAGCTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAA
196 TACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAA
*
6141683 TTGACGTTTGAATATTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAAC
261 TTGACGTTTGAAGATTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAAC
6141748 TTTATTGTAACTTCATTGACGTTTGAA
326 TTTATTGTAACTTCATTGACGTTTGAA
*
6141775 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAAC----CTACAACT
**
6141840 TCAAGAGGATAAGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGACAAA
62 TCAAGAGGATAAGAATTGACATTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGACAAA
* * *
6141905 GGTTTGTTATCCAACTTTACTATAACTTTAAGAGGATAAGAATCGACGTTTGAAGCTTCATCTTA
127 AGTTTGTTATCCAACTTTACTATAACTTCAAGAAGATAAGAATCGACGTTTGAAGCTTCATCTTA
6141970 CTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATA
192 CTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATA
* *
6142035 AGAATTGACGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAG
257 AGAATTGACGTTTGAAGATTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAG
6142090 ACTTGCTATT
Statistics
Matches: 296, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
352 52 0.18
356 244 0.82
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (352 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACCTACAACTTCAA
GAGGATAAGAATTGACATTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAAGTT
TGTTATCCAACTTTACTATAACTTCAAGAAGATAAGAATCGACGTTTGAAGCTTCATCTTACTCT
TACTACAACTTCAGAGAGATAAAGGTTTGTTATCCAACTTTACTATAACTTCAAGAGGATAAGAA
TTGACGTTTGAAGATTCATCTTGCTCTTACTACAACTTCAGAGAGACAAAGGTTTGTTATCCAAC
TTTATTGTAACTTCATTGACGTTTGAA
Found at i:6142447 original size:6 final size:6
Alignment explanation
Indices: 6142429--6142537 Score: 82
Period size: 6 Copynumber: 18.0 Consensus size: 6
6142419 TTAAATTGAT
* *
6142429 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAGTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA
* ** *
6142476 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
6142525 TTAAAAA TTTAAA
1 TT-TAAA TTTAAA
6142538 GTCCAATGTC
Statistics
Matches: 83, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 52 0.63
7 11 0.13
8 8 0.10
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:6142459 original size:17 final size:15
Alignment explanation
Indices: 6142433--6142497 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
6142423 ATTGATTTTA
6142433 AATTTATTTAAATTT
1 AATTTATTTAAATTT
6142448 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
6142465 AA-GTATTTAAATTT
1 AATTTATTTAAATTT
6142479 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
6142496 AA
1 AA
6142498 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:6142475 original size:31 final size:31
Alignment explanation
Indices: 6142437--6142497 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
6142427 ATTTTAAATT
*
6142437 TATTTAAATTTAGATTT-ATTTTAAATTTAAG
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAG
6142468 TATTTAAATTTAATTTGAATTTAAATTTAA
1 TATTTAAATTTAATTTGAATTTAAATTTAA
6142498 ATAAAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAG
Found at i:6142483 original size:11 final size:11
Alignment explanation
Indices: 6142419--6142497 Score: 56
Period size: 11 Copynumber: 6.9 Consensus size: 11
6142409 GACTTTTGAG
* *
6142419 TTAAATTGATT
1 TTAAATTTAAT
6142430 TTAAATTT-AT
1 TTAAATTTAAT
6142440 TTAAATTTAGAT
1 TTAAATTTA-AT
*
6142452 TT-ATTTTAAAT
1 TTAAATTT-AAT
6142463 TTAAGTATTTAAAT
1 TTAA--ATTT-AAT
6142477 TT-AATTTGAAT
1 TTAAATTT-AAT
6142488 TTAAATTTAA
1 TTAAATTTAA
6142498 ATAAAAATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
10 9 0.16
11 26 0.46
12 11 0.20
13 1 0.02
14 9 0.16
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:6142536 original size:20 final size:18
Alignment explanation
Indices: 6142485--6142537 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
6142475 ATTTAATTTG
*
6142485 AATTTAAATTTAAATAAA
1 AATTAAAATTTAAATAAA
*
6142503 AATTAAAATATTAAATTTAA
1 AATTAAAAT-TTAAA-TAAA
*
6142523 CATTAAAAATTTAAA
1 AATT-AAAATTTAAA
6142538 GTCCAATGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 11 0.38
21 5 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAAATTTAAATAAA
Found at i:6143236 original size:19 final size:19
Alignment explanation
Indices: 6143214--6143298 Score: 75
Period size: 19 Copynumber: 4.4 Consensus size: 19
6143204 ATGTTAACGG
6143214 TAATAAATAATATTAATAA
1 TAATAAATAATATTAATAA
*
6143233 TAATTAATAAAGGGTATT-ATAA
1 TAATAAAT-AA---TATTAATAA
*
6143255 TAA-ATATAATATTAATAA
1 TAATAAATAATATTAATAA
* * *
6143273 TAATAAATATTAATGATAA
1 TAATAAATAATATTAATAA
6143292 TAATAAA
1 TAATAAA
6143299 AGAAGATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
17 4 0.08
18 7 0.13
19 25 0.47
20 4 0.08
21 2 0.04
22 7 0.13
23 4 0.08
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TAATAAATAATATTAATAA
Found at i:6143583 original size:22 final size:23
Alignment explanation
Indices: 6143552--6143594 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6143542 ATTTTGTTTT
6143552 AACAATAAAGAAAGAAAAAAGAA
1 AACAATAAAGAAAGAAAAAAGAA
*
6143575 AACAA-AAAGGAAGAAAAAAG
1 AACAATAAAGAAAGAAAAAAG
6143595 GGAAGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (23 bp):
AACAATAAAGAAAGAAAAAAGAA
Found at i:6143628 original size:11 final size:11
Alignment explanation
Indices: 6143612--6143641 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6143602 ATACTACCTT
6143612 GGACGGCGGTC
1 GGACGGCGGTC
*
6143623 GGACGGTGGTC
1 GGACGGCGGTC
6143634 GGACGGCG
1 GGACGGCG
6143642 CGAGCGGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.10, C:0.23, G:0.57, T:0.10
Consensus pattern (11 bp):
GGACGGCGGTC
Found at i:6144229 original size:162 final size:162
Alignment explanation
Indices: 6144033--6144371 Score: 511
Period size: 162 Copynumber: 2.1 Consensus size: 162
6144023 TCTTTTCAAT
* * *
6144033 TTAGTCCTTTGACTATTTGACTGCACCAGGGGCTGCCACGTGTCTTTTTTTGGATTATTCATGCA
1 TTAGTCCTTTGACTGTTTGACAGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTCATGCA
* * *
6144098 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTT-TATTTAATTACG
66 TTTAGTCCTTTTTATTTTTAATATATTTTAATTTAATCCCCAAATCAA-TTTGCATTTAATTACG
* * * *
6144162 AAATTAG-TCCAAGAATTTTTCATGGTTTATAAA
130 AAATT-GCCCCAAGAATTTTTCAAGATTTACAAA
* **
6144195 TTAGTCCTTTGACTGTTTGGCAGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTTTGCA
1 TTAGTCCTTTGACTGTTTGACAGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTCATGCA
6144260 TTTAGTCCTTTTTATTTTTAATATATTTTAATTTAATCCCCAAATCAATTTGCATTTAATTACGA
66 TTTAGTCCTTTTTATTTTTAATATATTTTAATTTAATCCCCAAATCAATTTGCATTTAATTACGA
*
6144325 AATTGCCCCAAGAATTTTTCAAGATTTACAAC
131 AATTGCCCCAAGAATTTTTCAAGATTTACAAA
*
6144357 TTAATCCTTTGACTG
1 TTAGTCCTTTGACTG
6144372 CTGGATGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
161 4 0.03
162 156 0.98
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.44
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACAGCACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTCATGCA
TTTAGTCCTTTTTATTTTTAATATATTTTAATTTAATCCCCAAATCAATTTGCATTTAATTACGA
AATTGCCCCAAGAATTTTTCAAGATTTACAAA
Found at i:6144479 original size:30 final size:30
Alignment explanation
Indices: 6144445--6144558 Score: 142
Period size: 30 Copynumber: 3.8 Consensus size: 30
6144435 AACAATCCAG
* * *
6144445 AAATTATATTTTGACCCTAAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
* *
6144475 AAATTACATTTTGACCCCAAAATTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
*
6144505 AAATTACATTTTAACCCCAAAAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCAA
*
6144534 AAATTATCATTTT-ACCCCTAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
6144559 CCCTAAAACC
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
29 20 0.27
30 54 0.73
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.38
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCAA
Found at i:6144594 original size:59 final size:58
Alignment explanation
Indices: 6144531--6144723 Score: 246
Period size: 59 Copynumber: 3.3 Consensus size: 58
6144521 CCAAAACTTT
* * * * *
6144531 CAAAAATTATCATTTTACCCCTAAACTTCCCTAAAA-CCCATTTTTTACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCGAATCTT--CTAAAATTCCATTTTTAACCCCGATTTCAC
* *
6144590 CAAAATTTGCCATTTTACCCTCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCC-CGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
* *
6144649 CGAAAATTACCATTTTACCCTCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCGC
1 CAAAAATTACCATTTTA-CC-CCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
6144709 C-AAAATTACCATTTT
1 CAAAAATTACCATTTT
6144724 GCCCTCGGGT
Statistics
Matches: 119, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
58 6 0.05
59 66 0.55
60 46 0.39
61 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.04, T:0.36
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:6144655 original size:30 final size:30
Alignment explanation
Indices: 6144568--6144723 Score: 123
Period size: 30 Copynumber: 5.2 Consensus size: 30
6144558 TCCCTAAAAC
* *
6144568 CCATTTTTTACCCCGATTTCACCAAAATTTG
1 CCATTTTTAACCCCGATTTCACCAAAA-TTA
*
6144599 CCA-TTTT-ACCCTCGAATCTT--CTAAAATT-
1 CCATTTTTAACCC-CG-AT-TTCACCAAAATTA
6144627 CCATTTTTAACCCCGATTTCACCGAAAATTA
1 CCATTTTTAACCCCGATTTCACC-AAAATTA
* *
6144658 CCA-TTTTACCCTCCGAATCTT--CTAAAATT-
1 CCATTTTTAACC-CCG-AT-TTCACCAAAATTA
*
6144687 CCATTTTTAACCCCGATTTCGCCAAAATTA
1 CCATTTTTAACCCCGATTTCACCAAAATTA
6144717 CCATTTT
1 CCATTTT
6144724 GCCCTCGGGT
Statistics
Matches: 103, Mismatches: 6, Indels: 33
0.73 0.04 0.23
Matches are distributed among these distances:
27 4 0.04
28 7 0.07
29 26 0.25
30 48 0.47
31 12 0.12
32 4 0.04
33 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.05, T:0.37
Consensus pattern (30 bp):
CCATTTTTAACCCCGATTTCACCAAAATTA
Found at i:6144684 original size:60 final size:59
Alignment explanation
Indices: 6144568--6144729 Score: 263
Period size: 59 Copynumber: 2.7 Consensus size: 59
6144558 TCCCTAAAAC
* *
6144568 CCATTTTTTACCCCGATTTCACCAAAATTTGCCATTTTACCCT-CGAATCTTCTAAAATT
1 CCATTTTTAACCCCGATTTCACCAAAA-TTACCATTTTACCCTCCGAATCTTCTAAAATT
6144627 CCATTTTTAACCCCGATTTCACCGAAAATTACCATTTTACCCTCCGAATCTTCTAAAATT
1 CCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTACCCTCCGAATCTTCTAAAATT
* *
6144687 CCATTTTTAACCCCGATTTCGCCAAAATTACCATTTTGCCCTC
1 CCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCTC
6144730 GGGTATCCGT
Statistics
Matches: 97, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
59 55 0.57
60 42 0.43
ACGTcount: A:0.27, C:0.31, G:0.06, T:0.36
Consensus pattern (59 bp):
CCATTTTTAACCCCGATTTCACCAAAATTACCATTTTACCCTCCGAATCTTCTAAAATT
Found at i:6150611 original size:18 final size:18
Alignment explanation
Indices: 6150588--6150623 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6150578 GTGTTCTTCT
6150588 TATCTCTCGCTTCTTTTC
1 TATCTCTCGCTTCTTTTC
**
6150606 TATCTCTTTCTTCTTTTC
1 TATCTCTCGCTTCTTTTC
6150624 CTTTACATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.31, G:0.03, T:0.61
Consensus pattern (18 bp):
TATCTCTCGCTTCTTTTC
Found at i:6157580 original size:58 final size:59
Alignment explanation
Indices: 6157511--6157762 Score: 325
Period size: 60 Copynumber: 4.3 Consensus size: 59
6157501 GAGGACTCGA
* * * * * ** *
6157511 GGGTAAAATGGTAA-ATTTGGTTGAAATTGGGTCAAAAATGGGATTTTCAAAAGTTCGG
1 GGGTAAAATGGTAATTTTTGGGTAAAATCGGGTCAAAAATGGAATTTTGGAAAGTTCAG
*
6157569 GGGTAAAATGGTAATTTTT-GATAAAATCGGGTC-AAAATGGAATTTTGGAAAGTTCAG
1 GGGTAAAATGGTAATTTTTGGGTAAAATCGGGTCAAAAATGGAATTTTGGAAAGTTCAG
*
6157626 GGGTAAAATGGTAATTTTTGGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAG
1 GGGTAAAATGGTAATTTTTGGGTAAAATC-GGGTCAAAAATGGAATTTTGGAAAGTTCAG
* * *
6157686 GAGTAAAATGGTAATTTTTGGGTAAAATCGAGGTCAAAAATGGAATTATGGAAAACTT-AG
1 GGGTAAAATGGTAATTTTTGGGTAAAATCG-GGTCAAAAATGGAATTTTGG-AAAGTTCAG
6157746 GGGTAAAAT-GTAATTTT
1 GGGTAAAATGGTAATTTT
6157763 AGAAAGTTTT
Statistics
Matches: 173, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
57 39 0.23
58 33 0.19
59 16 0.09
60 80 0.46
61 5 0.03
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.31
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGGTAAAATCGGGTCAAAAATGGAATTTTGGAAAGTTCAG
Found at i:6157586 original size:29 final size:28
Alignment explanation
Indices: 6157545--6157830 Score: 108
Period size: 30 Copynumber: 9.8 Consensus size: 28
6157535 AATTGGGTCA
* * *
6157545 AAAATGGGATTTTCAAAAGTTCGGGGGT
1 AAAATGGAATTTTGAAAAGTTCAGGGGT
*
6157573 AAAATGGTAATTTTTGATAAA-ATC--GGGT
1 AAAATGG-AA-TTTTGA-AAAGTTCAGGGGT
*
6157601 CAAAATGGAATTTTGGAAAGTTCAGGGGT
1 -AAAATGGAATTTTGAAAAGTTCAGGGGT
6157630 AAAATGGTAATTTTTGGGTAAAA--TC-GGGGTT
1 AAAATGG-AA-TTTT--G-AAAAGTTCAGGGG-T
* *
6157661 AAAAATGGAATTTTGGAAAGTTCAGGAGT
1 -AAAATGGAATTTTGAAAAGTTCAGGGGT
*
6157690 AAAATGGTAATTTTTGGGTAAAA--TC-GAGGT
1 AAAATGG-AA-TTTT--G-AAAAGTTCAGGGGT
* *
6157720 CAAAAATGGAATTATGGAAAACTT-AGGGGT
1 --AAAATGGAATT-TTGAAAAGTTCAGGGGT
* **
6157750 AAAATGTAATTTT-AGAAAGTTTTGGGGT
1 AAAATGGAATTTTGA-AAAGTTCAGGGGT
** * *
6157778 CAAAATATAATTTTAGAAAAGTTTAAGGGT
1 -AAAATGGAATTTT-GAAAAGTTCAGGGGT
* *
6157808 CAAAATGTAATTTATAAAAAGTT
1 -AAAATGGAATTT-TGAAAAGTT
6157831 TTGGGATCAA
Statistics
Matches: 202, Mismatches: 22, Indels: 66
0.70 0.08 0.23
Matches are distributed among these distances:
26 4 0.02
27 16 0.08
28 47 0.23
29 32 0.16
30 66 0.33
31 15 0.07
32 16 0.08
33 6 0.03
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
AAAATGGAATTTTGAAAAGTTCAGGGGT
Found at i:6157767 original size:28 final size:29
Alignment explanation
Indices: 6157717--6157903 Score: 139
Period size: 30 Copynumber: 6.3 Consensus size: 29
6157707 GTAAAATCGA
* * * *
6157717 GGTCAAAAATGGAATTATGGAAAACTTAGG
1 GGTC-AAAATGTAATTTTAGAAAATTTAGG
* *
6157747 GGT-AAAATGTAATTTTAGAAAGTTTTGG
1 GGTCAAAATGTAATTTTAGAAAATTTAGG
* *
6157775 GGTCAAAATATAATTTTAGAAAAGTTTAAG
1 GGTCAAAATGTAATTTTAGAAAA-TTTAGG
*
6157805 GGTCAAAATGTAATTTATA-AAAAGTTTTGG
1 GGTCAAAATGTAATTT-TAGAAAA-TTTAGG
* * *
6157835 GATCAAAATATAATTTTA-AAGAAGTTTGGG
1 GGTCAAAATGTAATTTTAGAA-AA-TTTAGG
* * *
6157865 GGTTAAAATATAATTTTCAAAAAGATTT-GG
1 GGTCAAAATGTAATTTT-AGAAA-ATTTAGG
6157895 GGTCAAAAT
1 GGTCAAAAT
6157904 ATTGTTTTTG
Statistics
Matches: 131, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
28 22 0.17
29 21 0.16
30 78 0.60
31 7 0.05
32 3 0.02
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (29 bp):
GGTCAAAATGTAATTTTAGAAAATTTAGG
Found at i:6157864 original size:29 final size:29
Alignment explanation
Indices: 6157745--6157905 Score: 198
Period size: 30 Copynumber: 5.4 Consensus size: 29
6157735 GGAAAACTTA
* *
6157745 GGGGT-AAAATGTAATTTTAGAAAGTTTT
1 GGGGTCAAAATATAATTTTAAAAAGTTTT
*
6157773 GGGGTCAAAATATAATTTTAGAAAAGTTTA
1 GGGGTCAAAATATAATTTTA-AAAAGTTTT
* *
6157803 AGGGTCAAAATGTAATTTATAAAAAGTTTT
1 GGGGTCAAAATATAATTT-TAAAAAGTTTT
* *
6157833 GGGATCAAAATATAATTTTAAAGAAGTTTG
1 GGGGTCAAAATATAATTTTAAA-AAGTTTT
* *
6157863 GGGGTTAAAATATAATTTTCAAAAAGATTT
1 GGGGTCAAAATATAATTTT-AAAAAGTTTT
6157893 GGGGTCAAAATAT
1 GGGGTCAAAATAT
6157906 TGTTTTTGGA
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.04
29 17 0.15
30 86 0.76
31 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (29 bp):
GGGGTCAAAATATAATTTTAAAAAGTTTT
Found at i:6159035 original size:3 final size:3
Alignment explanation
Indices: 6159027--6159099 Score: 67
Period size: 3 Copynumber: 23.7 Consensus size: 3
6159017 CTGTTATTGA
* * *
6159027 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT AAAT TAA TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* *
6159073 TAGT TAT TAAT AAT T-T AAT TAT TAT TA
1 TA-T TAT T-AT TAT TAT TAT TAT TAT TA
6159100 ATGCTCTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
2 1 0.02
3 49 0.88
4 6 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:6159068 original size:25 final size:27
Alignment explanation
Indices: 6159034--6159101 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 27
6159024 TGATATTATT
* *
6159034 ATTATTATTATTATTA-TTATT-ATAA
1 ATTAATATTATTAATAGTTATTAATAA
6159059 ATTAATATTATTAATAGTTATTAATAA
1 ATTAATATTATTAATAGTTATTAATAA
*
6159086 TTTAATTATTATTAAT
1 ATTAA-TATTATTAAT
6159102 GCTCTTTATG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.38
26 5 0.14
27 8 0.22
28 10 0.27
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
ATTAATATTATTAATAGTTATTAATAA
Found at i:6159079 original size:10 final size:9
Alignment explanation
Indices: 6159020--6159101 Score: 76
Period size: 9 Copynumber: 8.9 Consensus size: 9
6159010 AATGCTACTG
*
6159020 TTATTGATA
1 TTATTAATA
*
6159029 TTATTATTA
1 TTATTAATA
*
6159038 TTATTATTA
1 TTATTAATA
*
6159047 TTATTATTA
1 TTATTAATA
*
6159056 TAAATTAATA
1 T-TATTAATA
6159066 TTATTAATA
1 TTATTAATA
6159075 GTTATTAATA
1 -TTATTAATA
*
6159085 AT-TTAATTA
1 TTATTAA-TA
6159094 TTATTAAT
1 TTATTAAT
6159102 GCTCTTTATG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
8 4 0.06
9 38 0.61
10 20 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
TTATTAATA
Found at i:6159831 original size:6 final size:6
Alignment explanation
Indices: 6159820--6159885 Score: 63
Period size: 6 Copynumber: 12.0 Consensus size: 6
6159810 TTGTAATAAT
**
6159820 TTTAAA TTTAAA -TTAAA TCCAAA TTTAAA -TTAAA TTT-AA --TAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
6159863 TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
6159886 ATGGTTTGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 16 0.33
6 29 0.60
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:6159837 original size:11 final size:11
Alignment explanation
Indices: 6159821--6159885 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
6159811 TGTAATAATT
6159821 TTAAATTTAAA
1 TTAAATTTAAA
**
6159832 TTAAATCCAAA
1 TTAAATTTAAA
6159843 TTTAAA-TTAAA
1 -TTAAATTTAAA
*
6159854 TTTAA--TAAA
1 TTAAATTTAAA
6159863 TTTAAATTTAAA
1 -TTAAATTTAAA
*
6159875 ATAAATTTAAA
1 TTAAATTTAAA
6159886 ATGGTTTGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 4 0.09
10 8 0.19
11 22 0.51
12 9 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:6160191 original size:15 final size:15
Alignment explanation
Indices: 6160171--6160215 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
6160161 TCTCATCCTT
6160171 AATAATTAAAAAATA
1 AATAATTAAAAAATA
*
6160186 AATAATTAAATTAA-A
1 AATAATTAAA-AAATA
6160201 AAT-ATT-AAAAATA
1 AATAATTAAAAAATA
6160214 AA
1 AA
6160216 AAATGCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 2 0.08
13 5 0.19
14 3 0.12
15 14 0.54
16 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAATTAAAAAATA
Found at i:6160295 original size:27 final size:28
Alignment explanation
Indices: 6160209--6160316 Score: 119
Period size: 28 Copynumber: 3.9 Consensus size: 28
6160199 AAAATATTAA
* * **
6160209 AAATAAAAAATGCAAAATGAACCTACTC
1 AAATTAAAAATGCAAAATCAAAATACTC
* * * *
6160237 AAACTAAAAATGGAAAATCAAACTTCTC
1 AAATTAAAAATGCAAAATCAAAATACTC
6160265 AAATTAAAAATGCAAAATCAAAATACT-
1 AAATTAAAAATGCAAAATCAAAATACTC
* *
6160292 AAATTAAAATTACAAAATCAAAATA
1 AAATTAAAAATGCAAAATCAAAATA
6160317 TATGGTTGGA
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 23 0.34
28 45 0.66
ACGTcount: A:0.60, C:0.14, G:0.05, T:0.21
Consensus pattern (28 bp):
AAATTAAAAATGCAAAATCAAAATACTC
Found at i:6160315 original size:14 final size:14
Alignment explanation
Indices: 6160277--6160315 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6160267 ATTAAAAATG
6160277 CAAAATCAAAA-TA
1 CAAAATCAAAATTA
* *
6160290 CTAAATTAAAATTA
1 CAAAATCAAAATTA
6160304 CAAAATCAAAAT
1 CAAAATCAAAAT
6160316 ATATGGTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.64, C:0.13, G:0.00, T:0.23
Consensus pattern (14 bp):
CAAAATCAAAATTA
Found at i:6164292 original size:2 final size:2
Alignment explanation
Indices: 6164285--6164324 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6164275 TTTTAAGTTC
6164285 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
6164325 GATAAAATCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6167707 original size:16 final size:18
Alignment explanation
Indices: 6167686--6167719 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6167676 AAATGATGAT
6167686 TATTTT-AA-TAATTTTA
1 TATTTTAAATTAATTTTA
6167702 TATTTTAAATTAATTTTA
1 TATTTTAAATTAATTTTA
6167720 AAATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTAAATTAATTTTA
Found at i:6167719 original size:11 final size:11
Alignment explanation
Indices: 6167703--6167769 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
6167693 ATAATTTTAT
*
6167703 ATTTTAAATTA
1 ATTTTAAAATA
6167714 ATTTTAAAATA
1 ATTTTAAAATA
6167725 ATTTT---ATA
1 ATTTTAAAATA
*
6167733 TTTTTAAAAAATA
1 ATTTT--AAAATA
6167746 ATTTT--AATA
1 ATTTTAAAATA
*
6167755 ATTTTAAAATC
1 ATTTTAAAATA
6167766 ATTT
1 ATTT
6167770 GCTGACATGG
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
8 7 0.16
9 9 0.20
11 22 0.49
13 7 0.16
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTAAAATA
Found at i:6167729 original size:22 final size:22
Alignment explanation
Indices: 6167703--6167769 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
6167693 ATAATTTTAT
6167703 ATTTTAAATTAATTTTAAAATA
1 ATTTTAAATTAATTTTAAAATA
* *
6167725 ATTTTATATT--TTTAAAAAATA
1 ATTTTAAATTAATTT-TAAAATA
*
6167746 ATTTT-AA-TAATTTTAAAATC
1 ATTTTAAATTAATTTTAAAATA
6167766 ATTT
1 ATTT
6167770 GCTGACATGG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
19 1 0.03
20 13 0.35
21 14 0.38
22 9 0.24
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTAAATTAATTTTAAAATA
Found at i:6167745 original size:21 final size:22
Alignment explanation
Indices: 6167703--6167763 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
6167693 ATAATTTTAT
6167703 ATTTTAAATTAATTTT--AAAATA
1 ATTTT-AA-TAATTTTAAAAAATA
*
6167725 ATTTT-ATATTTTTAAAAAATA
1 ATTTTAATAATTTTAAAAAATA
6167746 ATTTTAATAATTTTAAAA
1 ATTTTAATAATTTTAAAA
6167764 TCATTTGCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 6 0.18
20 1 0.03
21 11 0.32
22 16 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTAATAATTTTAAAAAATA
Found at i:6170095 original size:22 final size:21
Alignment explanation
Indices: 6170070--6170129 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 21
6170060 TTCGATTTTC
6170070 CTATTTTTTATTTCTTTTAATT
1 CTATTTTTTATTT-TTTTAATT
6170092 CTATTTTCTT-TTATTTTTAATT
1 CTATTTT-TTATT-TTTTTAATT
*
6170114 CTGTTTTTTTATTTTT
1 CT-ATTTTTTATTTTT
6170130 CCTCAGATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (21 bp):
CTATTTTTTATTTTTTTAATT
Found at i:6170115 original size:15 final size:15
Alignment explanation
Indices: 6170074--6170127 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 15
6170064 ATTTTCCTAT
6170074 TTTTTATTTCTTTTA
1 TTTTTATTTCTTTTA
* *
6170089 ATTCTATTTTCTTTTA
1 TTTTTA-TTTCTTTTA
* *
6170105 TTTTTAATTCTGTT-
1 TTTTTATTTCTTTTA
6170119 TTTTTATTT
1 TTTTTATTT
6170128 TTCCTCAGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 8 0.26
15 10 0.32
16 13 0.42
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTTATTTCTTTTA
Found at i:6170125 original size:20 final size:22
Alignment explanation
Indices: 6170084--6170129 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
6170074 TTTTTATTTC
*
6170084 TTTTAATTCTATTTTCTTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
6170106 TTTTAATTCT-GTTT-TTTTAT
1 TTTTAATTCTAGTTTCTTTTAT
6170126 TTTT
1 TTTT
6170130 CCTCAGATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 3 0.13
22 10 0.43
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (22 bp):
TTTTAATTCTAGTTTCTTTTAT
Found at i:6172363 original size:27 final size:27
Alignment explanation
Indices: 6172304--6172356 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
6172294 TACCTGATTG
* *
6172304 TATAATTTGGAGACAATAATCCTAATA
1 TATAATTTAGAAACAATAATCCTAATA
*
6172331 TATAATTTAGAAACATTAATCCTAAT
1 TATAATTTAGAAACAATAATCCTAAT
6172357 TTTTAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.36
Consensus pattern (27 bp):
TATAATTTAGAAACAATAATCCTAATA
Found at i:6173325 original size:15 final size:14
Alignment explanation
Indices: 6173299--6173331 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
6173289 TTATTTGACT
6173299 GAAAATGATTTTTG
1 GAAAATGATTTTTG
6173313 GAAAATGATTTTTG
1 GAAAATGATTTTTG
6173327 GAAAA
1 GAAAA
6173332 CGAATTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTTTG
Found at i:6175131 original size:17 final size:18
Alignment explanation
Indices: 6175099--6175132 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6175089 TTTGATTTTA
*
6175099 AATTTATTTCTAAATTTG
1 AATTTACTTCTAAATTTG
6175117 AATTTACTT-TAAATTT
1 AATTTACTTCTAAATTT
6175133 AGTTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
AATTTACTTCTAAATTTG
Found at i:6175740 original size:3 final size:3
Alignment explanation
Indices: 6175732--6175766 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6175722 TCGTTATCAT
6175732 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6175767 GTCTTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6175909 original size:22 final size:22
Alignment explanation
Indices: 6175881--6175925 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6175871 AAAAAGAAAG
6175881 TGAGAAGTCAGTCAGGGCTACT
1 TGAGAAGTCAGTCAGGGCTACT
6175903 TGAGAAGTCAGTCAGGGCTACT
1 TGAGAAGTCAGTCAGGGCTACT
6175925 T
1 T
6175926 CCCTTGGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (22 bp):
TGAGAAGTCAGTCAGGGCTACT
Found at i:6176210 original size:18 final size:19
Alignment explanation
Indices: 6176183--6176220 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6176173 ACAGATTTGG
6176183 TTTTTCTT-AAAAAAGAAA
1 TTTTTCTTAAAAAAAGAAA
*
6176201 TTTTTTTTAAAAAAAGAAA
1 TTTTTCTTAAAAAAAGAAA
6176220 T
1 T
6176221 CCTTTTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TTTTTCTTAAAAAAAGAAA
Found at i:6177089 original size:29 final size:29
Alignment explanation
Indices: 6177006--6177195 Score: 86
Period size: 30 Copynumber: 6.4 Consensus size: 29
6176996 CAAAAATCAT
* * * *
6177006 ATTTTAACCCCTGAACTTTTCCAAAGTTCC
1 ATTTTTACCCCT-AAATTTTCCAAAATTAC
* *
6177036 ATTTTTGA-CCTTAAACTTTTTCAAAATTAC
1 ATTTTT-ACCCCTAAA-TTTTCCAAAATTAC
**
6177066 ATTTTTACCCCTAAATTTTCCAAAATTTG
1 ATTTTTACCCCTAAATTTTCCAAAATTAC
* * ** *
6177095 ATTTTTAACCTCGATTTTTTCAAAAATTATC
1 ATTTTT-ACCCCTAAATTTTCCAAAATTA-C
* * * *
6177126 A-TTTTA-CCCTCGAA-CTCCCAAAAATTCC
1 ATTTTTACCCCT-AAATTTTCC-AAAATTAC
*
6177154 ATTTTTGACCCC-AATTTTTCCAAAAATTACC
1 ATTTTT-ACCCCTAAATTTTCC-AAAATTA-C
6177185 A-TTTTACCCCT
1 ATTTTTACCCCT
6177196 TGAACCTCTA
Statistics
Matches: 116, Mismatches: 31, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
28 6 0.05
29 37 0.32
30 66 0.57
31 7 0.06
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.41
Consensus pattern (29 bp):
ATTTTTACCCCTAAATTTTCCAAAATTAC
Found at i:6177231 original size:60 final size:60
Alignment explanation
Indices: 6177095--6177429 Score: 274
Period size: 59 Copynumber: 5.7 Consensus size: 60
6177085 CCAAAATTTG
* * * *
6177095 ATTTTTAACCTCGATTTTTTCAAAAATTATCATTTTA-CCCTCGAA-CTCCCAAAAATTCC
1 ATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCTCGAATCT-CTAAAAATTCC
* * * *
6177154 ATTTTTGACCCCAATTTTTCCAAAAATTACCATTTTACCCCTTGAACCTCTAAAAATTCC
1 ATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCTCGAATCTCTAAAAATTCC
* * * * * ** *
6177214 ATTTTTGATCTTGATTTTTCCAAAAGTTACCATTTTACCCC-CAAATTTCTTGAAATTCT
1 ATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCTCGAATCTCTAAAAATTCC
* ** *
6177273 ATTTTTGACCTCGATTTTTCC-AAAATTACCATTTTA-CCCTTGGGTGTCTAAAAATTCC
1 ATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCTCGAATCTCTAAAAATTCC
* * ** * * **
6177331 A-TTTTAAACTCCGAACTTTCCAAAAATTATCATTTTA-CCCTC-AGATGTCTAAAAATTTT
1 ATTTTTGACCT-CGATTTTTCCAAAAATTACCATTTTACCCCTCGA-ATCTCTAAAAATTCC
* * *** *
6177390 ATTTTTAACCCCGAACATTCCCAAAATTACCA-TTTACCCC
1 ATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCC
6177430 CAGGTATCCA
Statistics
Matches: 223, Mismatches: 45, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
57 10 0.04
58 37 0.17
59 114 0.51
60 60 0.27
61 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (60 bp):
ATTTTTGACCTCGATTTTTCCAAAAATTACCATTTTACCCCTCGAATCTCTAAAAATTCC
Found at i:6177307 original size:29 final size:29
Alignment explanation
Indices: 6177022--6177307 Score: 84
Period size: 30 Copynumber: 9.7 Consensus size: 29
6177012 ACCCCTGAAC
* **
6177022 TTTTCCAAAGTTCCATTTTTGACCTTAAACT
1 TTTTCCAAAATTCCATTTTTGACC-TCGA-T
* * * *
6177053 TTTT-CAAAATTACATTTTT-ACCCCTAAA
1 TTTTCCAAAATTCCATTTTTGACCTC-GAT
** *
6177081 TTTTCCAAAATTTGATTTTTAACCTCGATT
1 TTTTCCAAAATTCCATTTTTGACCTCGA-T
* *
6177111 TTTTCAAAAATTATCA-TTTT-ACCCTCGA-
1 TTTTCCAAAATT-CCATTTTTGA-CCTCGAT
** * * *
6177139 ACTCCCAAAAATTCCATTTTTGACCCCAAT
1 TTTTCC-AAAATTCCATTTTTGACCTCGAT
*** *
6177169 TTTTCCAAAAATTACCATTTTACCCCTTGA-
1 TTTTCC-AAAATT-CCATTTTTGACCTCGAT
*** * * *
6177199 ACCTCTAAAAATTCCATTTTTGATCTTGAT
1 TTTTC-CAAAATTCCATTTTTGACCTCGAT
* * *
6177229 TTTTCCAAAAGTTACCA-TTTT-ACCCCCAA
1 TTTTCCAAAA-TT-CCATTTTTGACCTCGAT
* ** *
6177258 ATTTCTTGAAATTCTATTTTTGACCTCGAT
1 TTTTC-CAAAATTCCATTTTTGACCTCGAT
6177288 TTTTCCAAAATTACCATTTT
1 TTTTCCAAAATT-CCATTTT
6177308 ACCCTTGGGT
Statistics
Matches: 180, Mismatches: 56, Indels: 39
0.65 0.20 0.14
Matches are distributed among these distances:
28 10 0.06
29 68 0.38
30 83 0.46
31 19 0.11
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (29 bp):
TTTTCCAAAATTCCATTTTTGACCTCGAT
Found at i:6177366 original size:117 final size:117
Alignment explanation
Indices: 6177115--6177428 Score: 326
Period size: 117 Copynumber: 2.7 Consensus size: 117
6177105 TCGATTTTTT
* * * * * *
6177115 CAAAAATTATCATTTTACCCTCGAACTCCCAAAAATTCCATTTTTGACCCCAATTTTTCCAAAAA
1 CAAAAATTATCATTTTACCCTCAAATTTCTAAAAATTCTATTTTTGACCCCGATTTTTCC-AAAA
** * **
6177180 TTACCATTTTACCCCTTGAACCTCTAAAAATTCCATTTTTGATCTTGATTTTTC
65 TTACCATTTTA-CCCTTGAACCTCTAAAAATTCCATTTTAAATCTCGAACTTTC
* * * ** *
6177234 CAAAAGTTACCATTTTACCCCCAAATTTCTTGAAATTCTATTTTTGACCTCGATTTTTCCAAAAT
1 CAAAAATTATCATTTTACCCTCAAATTTCTAAAAATTCTATTTTTGACCCCGATTTTTCCAAAAT
****
6177299 TACCATTTTACCCTTGGGTGTCTAAAAATTCCATTTTAAA-CTCCGAACTTTC
66 TACCATTTTACCCTTGAACCTCTAAAAATTCCATTTTAAATCT-CGAACTTTC
* * * * ** *
6177351 CAAAAATTATCATTTTACCCTCAGATGTCTAAAAATTTTATTTTTAACCCCGAACATTCCCAAAA
1 CAAAAATTATCATTTTACCCTCAAATTTCTAAAAATTCTATTTTTGACCCCG-ATTTTTCCAAAA
6177416 TTACCA-TTTACCC
65 TTACCATTTTACCC
6177429 CCAGGTATCC
Statistics
Matches: 159, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
116 2 0.01
117 79 0.50
118 30 0.19
119 48 0.30
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (117 bp):
CAAAAATTATCATTTTACCCTCAAATTTCTAAAAATTCTATTTTTGACCCCGATTTTTCCAAAAT
TACCATTTTACCCTTGAACCTCTAAAAATTCCATTTTAAATCTCGAACTTTC
Found at i:6177387 original size:29 final size:29
Alignment explanation
Indices: 6177294--6177387 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
6177284 CGATTTTTCC
** *
6177294 AAAATTACCATTTTACCCTTGGGTGTCTA
1 AAAATTACCATTTTACCCTCAGATGTCTA
** * * *
6177323 AAAATT-CCATTTTAAACTCCGAACTTTCCA
1 AAAATTACCATTTTACCCTCAG-A-TGTCTA
*
6177353 AAAATTATCATTTTACCCTCAGATGTCTA
1 AAAATTACCATTTTACCCTCAGATGTCTA
6177382 AAAATT
1 AAAATT
6177388 TTATTTTTAA
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
28 11 0.22
29 16 0.33
30 11 0.22
31 11 0.22
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.36
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCAGATGTCTA
Found at i:6177443 original size:117 final size:117
Alignment explanation
Indices: 6177230--6177461 Score: 252
Period size: 117 Copynumber: 2.0 Consensus size: 117
6177220 GATCTTGATT
* * ** * * ** *
6177230 TTTCCAAAAGTTACCATTTTACCCCCAAATTTCTTGAAATTCTATTTTTGACCTCGATTTTTCCA
1 TTTCCAAAAATTACCATTTTACCCCCAAATGTCTAAAAATTCTATTTTTAACCCCGACATTCCCA
*** * *
6177295 AAATTACCATTTTACCCTTGGGTGTCTAAAAAT-TCCATTTTAAACTCCGAAC
66 AAATTACCATTTTACCCCCAGGTATCCAAAAATCT-CATTTTAAACTCCGAAC
* * * *
6177347 TTTCCAAAAATTATCATTTTACCCTCAGATGTCTAAAAATTTTATTTTTAACCCCGAACATTCCC
1 TTTCCAAAAATTACCATTTTACCCCCAAATGTCTAAAAATTCTATTTTTAACCCCG-ACATTCCC
**
6177412 AAAATTACCA-TTTACCCCCAGGTATCCAAAAATCTCATTTTCGACTCCGA
65 AAAATTACCATTTTACCCCCAGGTATCCAAAAATCTCATTTTAAACTCCGA
6177462 TTGTTTTATC
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
117 77 0.83
118 16 0.17
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (117 bp):
TTTCCAAAAATTACCATTTTACCCCCAAATGTCTAAAAATTCTATTTTTAACCCCGACATTCCCA
AAATTACCATTTTACCCCCAGGTATCCAAAAATCTCATTTTAAACTCCGAAC
Found at i:6182973 original size:29 final size:28
Alignment explanation
Indices: 6182886--6183124 Score: 89
Period size: 29 Copynumber: 8.2 Consensus size: 28
6182876 TCATAGTTTG
* *
6182886 ACCCCTGAACTTTTCCAAAGTTCCATTTTT
1 ACCCCT-AAATTTTCCAAAATTCCA-TTTT
* * * * *
6182916 GA-CCCTGAACTTTCTAAAAAATACATTTT
1 -ACCCCTAAATTTTC-CAAAATTCCATTTT
6182945 ACCCCTAAATTTTCCAAAATTCCATTTTTT
1 ACCCCTAAATTTTCCAAAATTCCA--TTTT
* * *
6182975 ACCTC-GATTTTTCCAAAAATTACCATTTT
1 ACCCCTAAATTTTCC-AAAATT-CCATTTT
* *
6183004 ACCTCC-AAA-CTCCCAAAAATTCCATTTTT
1 ACC-CCTAAATTTTCC-AAAATTCCA-TTTT
* * *
6183033 GATCCC-GATTTTTCCAAAAGTTACCATTTT
1 -ACCCCTAAATTTTCCAAAA-TT-CCATTTT
* **
6183063 ACCCTCGAAA-TTTCTGAAATTCCATTTTTT
1 ACCC-CTAAATTTTCCAAAATTCCA--TTTT
*
6183093 A-CCCT-AATTTTTCAAAATTACCATTTT
1 ACCCCTAAATTTTCCAAAATT-CCATTTT
6183120 ACCCC
1 ACCCC
6183125 CGAGTGTCTA
Statistics
Matches: 155, Mismatches: 34, Indels: 41
0.67 0.15 0.18
Matches are distributed among these distances:
27 7 0.05
28 26 0.17
29 64 0.41
30 50 0.32
31 8 0.05
ACGTcount: A:0.30, C:0.27, G:0.04, T:0.39
Consensus pattern (28 bp):
ACCCCTAAATTTTCCAAAATTCCATTTT
Found at i:6183005 original size:59 final size:58
Alignment explanation
Indices: 6182897--6183124 Score: 234
Period size: 59 Copynumber: 3.9 Consensus size: 58
6182887 CCCCTGAACT
* ** * *
6182897 TTTCCAAAGTTCCATTTTTGACCCTGAACTTTCTAAAAAATA-CATTTTACCCCTAAA
1 TTTCCAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTACCCCTAAA
*
6182954 TTTTCCAAAATTCCATTTTTTA-CCTCGATTTTTCCAAAAATTACCATTTTACCTCC-AAA
1 -TTTCCAAAATTCCATTTTTGACCCT-GATTTTTCCAAAAATTACCATTTTACC-CCTAAA
* * * *
6183013 CTCCCAAAAATTCCATTTTTGATCCC-GATTTTTCCAAAAGTTACCATTTTACCCTCGAAA
1 TTTCC-AAAATTCCATTTTTGA-CCCTGATTTTTCCAAAAATTACCATTTTACCC-CTAAA
** * *
6183073 TTTCTGAAATTCCATTTTTTACCCTAATTTTT-C-AAAATTACCATTTTACCCC
1 TTTCCAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTACCCC
6183125 CGAGTGTCTA
Statistics
Matches: 144, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
56 1 0.01
57 20 0.14
58 40 0.28
59 74 0.51
60 7 0.05
61 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (58 bp):
TTTCCAAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCATTTTACCCCTAAA
Found at i:6183163 original size:116 final size:118
Alignment explanation
Indices: 6182939--6183183 Score: 277
Period size: 116 Copynumber: 2.1 Consensus size: 118
6182929 CTAAAAAATA
* *
6182939 CATTTTACCCCTAAATTTTCCAAAATTCCATTTTTTACCTCGATTTTTCCAAAAATTACCATTTT
1 CATTTTACCCCGAAATTTTCCAAAATTCCATTTTTTACCTCAATTTTTCCAAAAATTACCATTTT
** * * *
6183004 ACCTCCAAACTCCCAAAAATTCCATTTTTGATCCCGATTTTTCC-AAAAGTTAC
66 ACCTCCAAACTCCCAAAAATTCCATTTTAAATCCCAATCTTTCCAAAAAG-AAC
**
6183057 CATTTTACCCTCGAAA-TTTCTGAAATTCCATTTTTTACC-CTAATTTTT-C-AAAATTACCATT
1 CATTTTACCC-CGAAATTTTCCAAAATTCCATTTTTTACCTC-AATTTTTCCAAAAATTACCATT
** * * * *
6183118 TTACC-CCCGAGTGTCTAAAAATTCCATTTTAAATTCCAATCTTTCCAAAAAGAAC
64 TTACCTCCAAACT-CCCAAAAATTCCATTTTAAATCCCAATCTTTCCAAAAAGAAC
6183173 CATTTTACCCC
1 CATTTTACCCC
6183184 CGGATATCAA
Statistics
Matches: 108, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
115 5 0.05
116 55 0.51
117 7 0.06
118 37 0.34
119 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (118 bp):
CATTTTACCCCGAAATTTTCCAAAATTCCATTTTTTACCTCAATTTTTCCAAAAATTACCATTTT
ACCTCCAAACTCCCAAAAATTCCATTTTAAATCCCAATCTTTCCAAAAAGAAC
Found at i:6183199 original size:116 final size:115
Alignment explanation
Indices: 6182960--6183265 Score: 269
Period size: 116 Copynumber: 2.6 Consensus size: 115
6182950 TAAATTTTCC
* ** * *
6182960 AAAATTCCATTTTTTA-CCTCGATTTTTCCAAAAATTACCATTTTACCTCCAAACTCCCAAAAAT
1 AAAATTCCATTTTTTACCCT-AATTTTT-C-AAAATTACCATTTTACC-CCCGAGTTCCAAAAAT
** * * * * * *
6183024 TCCATTTTTGATCCCGATTTTTCCAAAAGTTACCATTTTACCCTCGAAATTTCT
62 TCCATTTTAAATCCCAATCTTTCCAAAAGTAACCATTTTACCCCCGAAATATCA
* *
6183078 GAAATTCCATTTTTTACCCTAATTTTTCAAAATTACCATTTTACCCCCGAGTGTCTAAAAATTCC
1 AAAATTCCATTTTTTACCCTAATTTTTCAAAATTACCATTTTACCCCCGAGT-TCCAAAAATTCC
* *
6183143 ATTTTAAATTCCAATCTTTCCAAAAAG-AACCATTTTACCCCCG-GATATCAA
65 ATTTTAAATCCCAATCTTTCC-AAAAGTAACCATTTTACCCCCGAAATATC-A
* * * * ** *
6183194 AAAATTCTATTTTTGACCTCGAACATTCCCAAAATTACCATTTTACCCTCGAGTATCCAAAAA-T
1 AAAATTCCATTTTTTACC-CTAA-TTTTTCAAAATTACCATTTTACCCCCGAGT-TCCAAAAATT
6183258 CTCATTTT
63 C-CATTTT
6183266 CGACTCCGAT
Statistics
Matches: 154, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
115 8 0.05
116 72 0.47
117 11 0.07
118 60 0.39
119 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.37
Consensus pattern (115 bp):
AAAATTCCATTTTTTACCCTAATTTTTCAAAATTACCATTTTACCCCCGAGTTCCAAAAATTCCA
TTTTAAATCCCAATCTTTCCAAAAGTAACCATTTTACCCCCGAAATATCA
Found at i:6183234 original size:59 final size:59
Alignment explanation
Indices: 6183105--6183265 Score: 157
Period size: 59 Copynumber: 2.7 Consensus size: 59
6183095 CCTAATTTTT
* * * *
6183105 CAAAATTACCATTTTACCCCCGAGTGTCTAAAAATTCCATTTTAAATTCCAATCTTTCC
1 CAAAATTACCATTTTACCCCCGAGTATCAAAAAATTCCATTTTAAACTCCAATCATTCC
* ** * * * *
6183164 AAAAAGAACCATTTTACCCCCG-GATATCAAAAAATTCTATTTTTGACCTCGAA-CATTCC
1 CAAAATTACCATTTTACCCCCGAG-TATCAAAAAATTCCA-TTTTAAACTCCAATCATTCC
* *
6183223 CAAAATTACCATTTTACCCTCGAGTATCCAAAAA-TCTCATTTT
1 CAAAATTACCATTTTACCCCCGAGTATCAAAAAATTC-CATTTT
6183266 CGACTCCGAT
Statistics
Matches: 81, Mismatches: 17, Indels: 9
0.76 0.16 0.08
Matches are distributed among these distances:
58 7 0.09
59 64 0.79
60 10 0.12
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (59 bp):
CAAAATTACCATTTTACCCCCGAGTATCAAAAAATTCCATTTTAAACTCCAATCATTCC
Found at i:6184944 original size:7 final size:6
Alignment explanation
Indices: 6184908--6184947 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
6184898 GGAAAGAATA
*
6184908 AAGGGG AAGGGG AAGGGG AAGGGA AAGGGG AATGGGG AAG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AA-GGGG AAG
6184948 ACGTTTTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.03
Consensus pattern (6 bp):
AAGGGG
Found at i:6188385 original size:20 final size:20
Alignment explanation
Indices: 6188360--6188415 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
6188350 TCAACAAAAA
6188360 TTTAAAAATTCAAAATAATT
1 TTTAAAAATTCAAAATAATT
6188380 TTT-AAAATTCAAAAT-ATT
1 TTTAAAAATTCAAAATAATT
* *
6188398 TATAAAAAATTCAGAATA
1 T-TTAAAAATTCAAAATA
6188416 TATATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 4 0.13
19 13 0.42
20 14 0.45
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (20 bp):
TTTAAAAATTCAAAATAATT
Found at i:6188398 original size:18 final size:19
Alignment explanation
Indices: 6188358--6188404 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
6188348 TCTCAACAAA
6188358 AATTTA-AAAATTCAAAAT
1 AATTTATAAAATTCAAAAT
*
6188376 AATTTTTAAAATTCAAAAT
1 AATTTATAAAATTCAAAAT
6188395 -ATTTATAAAA
1 AATTTATAAAA
6188405 AATTCAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTTATAAAATTCAAAAT
Found at i:6188405 original size:19 final size:18
Alignment explanation
Indices: 6188360--6188416 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
6188350 TCAACAAAAA
6188360 TTTAAAAATTCAAAATAAT
1 TTTAAAAATTCAAAAT-AT
*
6188379 TTTTAAAATTCAAAATAT
1 TTTAAAAATTCAAAATAT
*
6188397 TTATAAAAAATTCAGAATAT
1 TT-T-AAAAATTCAAAATAT
6188417 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 16 0.48
20 13 0.39
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (18 bp):
TTTAAAAATTCAAAATAT
Found at i:6188741 original size:26 final size:26
Alignment explanation
Indices: 6188681--6188743 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
6188671 ATTTTACTCG
6188681 ATTCGACTCGACCTGAATTTCATTTC
1 ATTCGACTCGACCTGAATTTCATTTC
*
6188707 ATTCAACTCGACCTGAATTTCATTTC
1 ATTCGACTCGACCTGAATTTCATTTC
*
6188733 ATTTGACTCGA
1 ATTCGACTCGA
6188744 TTTAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.38
Consensus pattern (26 bp):
ATTCGACTCGACCTGAATTTCATTTC
Found at i:6192677 original size:11 final size:11
Alignment explanation
Indices: 6192661--6192691 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
6192651 AAGGCGAGAT
6192661 TTTTTCTTTTC
1 TTTTTCTTTTC
6192672 TTTTTCTTTTC
1 TTTTTCTTTTC
6192683 TTTTT-TTTT
1 TTTTTCTTTT
6192692 TTGCGAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:6192683 original size:16 final size:15
Alignment explanation
Indices: 6192660--6192693 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
6192650 AAAGGCGAGA
6192660 TTTTTTCTTTTCTTT
1 TTTTTTCTTTTCTTT
6192675 TTCTTTTCTTTT-TTT
1 TT-TTTTCTTTTCTTT
6192690 TTTT
1 TTTT
6192694 GCGAAAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.11
15 7 0.39
16 9 0.50
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Found at i:6196625 original size:15 final size:16
Alignment explanation
Indices: 6196599--6196634 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6196589 TTTATTTAAT
6196599 TTAAATTCAAATCGAA
1 TTAAATTCAAATCGAA
6196615 TTAAA-TCAAATCGAA
1 TTAAATTCAAATCGAA
*
6196630 ATAAA
1 TTAAA
6196635 ACATACTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (16 bp):
TTAAATTCAAATCGAA
Found at i:6197056 original size:18 final size:20
Alignment explanation
Indices: 6197016--6197064 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
6197006 TCTTTCAATA
*
6197016 AAAAATACAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
*
6197035 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTTAT
6197054 AAAAATTCAAA
1 AAAAATTCAAA
6197065 TTTTATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:6197364 original size:21 final size:21
Alignment explanation
Indices: 6197326--6197369 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6197316 AACAATTTCA
6197326 TTCAGTTCAACTCAACTCGAAT
1 TTCAGTTCAACTCAACTC-AAT
* *
6197348 TTCATTTC-ACTCGACTCAAT
1 TTCAGTTCAACTCAACTCAAT
6197368 TT
1 TT
6197370 GAAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (21 bp):
TTCAGTTCAACTCAACTCAAT
Found at i:6198822 original size:22 final size:22
Alignment explanation
Indices: 6198783--6198824 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6198773 ATAAAGATTT
*
6198783 AAATAAATTTATTAAAAATAAA
1 AAATAAATTCATTAAAAATAAA
* *
6198805 AAATAAATTCCTTTAAAATA
1 AAATAAATTCATTAAAAATA
6198825 GAATTTAGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAATTCATTAAAAATAAA
Found at i:6199881 original size:13 final size:12
Alignment explanation
Indices: 6199863--6199943 Score: 54
Period size: 13 Copynumber: 6.2 Consensus size: 12
6199853 TAAAACTTGA
6199863 GTTTGAGGTTTGG
1 GTTTGA-GTTTGG
6199876 GTTTGAGTTTAGG
1 GTTTGAGTTT-GG
*
6199889 GTTTCAAGTTTGG
1 GTTT-GAGTTTGG
* *
6199902 GTTTAAATTTGAG
1 GTTTGAGTTTG-G
*
6199915 GTTTAAGATTTAGG
1 GTTTGAG-TTT-GG
* *
6199929 GTTTTAGTTTAG
1 GTTTGAGTTTGG
6199941 GTT
1 GTT
6199944 CAGAGTTCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
12 14 0.24
13 28 0.48
14 15 0.26
15 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (12 bp):
GTTTGAGTTTGG
Found at i:6199931 original size:14 final size:13
Alignment explanation
Indices: 6199870--6199941 Score: 69
Period size: 13 Copynumber: 5.5 Consensus size: 13
6199860 TGAGTTTGAG
*
6199870 GTTT-GGGTTTGA
1 GTTTAGGGTTTAA
6199882 GTTTAGGGTTTCAA
1 GTTTAGGGTTT-AA
6199896 GTTT-GGGTTTAA
1 GTTTAGGGTTTAA
*
6199908 ATTT-GAGGTTTAA
1 GTTTAG-GGTTTAA
*
6199921 GATTTAGGGTTTTA
1 G-TTTAGGGTTTAA
6199935 GTTTAGG
1 GTTTAGG
6199942 TTCAGAGTTC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
12 10 0.20
13 25 0.49
14 15 0.29
15 1 0.02
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.47
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:6199942 original size:26 final size:25
Alignment explanation
Indices: 6199870--6199943 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 25
6199860 TGAGTTTGAG
*
6199870 GTTTGGGTTTGAGTTTAGGGTTTCAA
1 GTTTGGGTTTAAGTTTA-GGTTTCAA
*
6199896 GTTTGGGTTTAAATTTGAGGTTT-AA
1 GTTTGGGTTTAAGTTT-AGGTTTCAA
*
6199921 GATTTAGGGTTTTAGTTTAGGTT
1 G-TTT-GGGTTTAAGTTTAGGTT
6199944 CAGAGTTCAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 3 0.07
26 27 0.66
27 11 0.27
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (25 bp):
GTTTGGGTTTAAGTTTAGGTTTCAA
Found at i:6200423 original size:21 final size:21
Alignment explanation
Indices: 6200397--6200440 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6200387 AAAGTATGGA
6200397 TTACAATAAGTAATGGCTTTT
1 TTACAATAAGTAATGGCTTTT
6200418 TTACAATAAGTAATGGCTTTT
1 TTACAATAAGTAATGGCTTTT
6200439 TT
1 TT
6200441 TGTTCTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
TTACAATAAGTAATGGCTTTT
Found at i:6203038 original size:19 final size:18
Alignment explanation
Indices: 6202985--6203037 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 18
6202975 TCAAAAAAAA
6202985 AAAAGGGAGGGGGGGGAG
1 AAAAGGGAGGGGGGGGAG
* * ** *
6203003 AGAAGGGATTGATGGGGTG
1 AAAAGGGA-GGGGGGGGAG
6203022 AAAAGGGAGGGGGGGG
1 AAAAGGGAGGGGGGGG
6203038 GGACCTTTTA
Statistics
Matches: 25, Mismatches: 9, Indels: 2
0.69 0.25 0.06
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.30, C:0.00, G:0.62, T:0.08
Consensus pattern (18 bp):
AAAAGGGAGGGGGGGGAG
Found at i:6205292 original size:13 final size:13
Alignment explanation
Indices: 6205274--6205308 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
6205264 CTTTGACAAG
6205274 GCACACACACCTT
1 GCACACACACCTT
6205287 GCACACACACCTT
1 GCACACACACCTT
6205300 GCACACACA
1 GCACACACA
6205309 GATGCTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.46, G:0.09, T:0.11
Consensus pattern (13 bp):
GCACACACACCTT
Found at i:6207467 original size:3 final size:3
Alignment explanation
Indices: 6207459--6207488 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6207449 GGGGTTTGAA
6207459 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
6207489 TCTTAATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:6214325 original size:41 final size:41
Alignment explanation
Indices: 6214268--6214363 Score: 158
Period size: 41 Copynumber: 2.3 Consensus size: 41
6214258 AAATTTTATT
*
6214268 TTAACAAGAATTCTAGTCATCCAATTCTAACAAT-CTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCCT-CACC
6214309 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCCTCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCCTCACC
*
6214350 TTGACAAGAATTCT
1 TTAACAAGAATTCT
6214364 TTACGAACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 50 0.96
42 2 0.04
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCCTCACC
Found at i:6223081 original size:28 final size:27
Alignment explanation
Indices: 6223029--6223083 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
6223019 GGGGGCCCAG
6223029 AATTAAATTGTATATTTTACGATAGTAA
1 AATTAAATTGTATATTTTAC-ATAGTAA
*
6223057 AATTACAATTTTATCATTTTA-ATAGTA
1 AATTA-AATTGTAT-ATTTTACATAGTA
6223084 TATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 11 0.46
29 7 0.29
30 6 0.25
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (27 bp):
AATTAAATTGTATATTTTACATAGTAA
Found at i:6230613 original size:21 final size:21
Alignment explanation
Indices: 6230587--6230633 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
6230577 TTAGGGTCCA
* *
6230587 ATTGCCCTGGAGGAGTAGAGT
1 ATTGCCCGGGAGGAGTAAAGT
6230608 ATTGCCCGGGAGGAGTAAAGT
1 ATTGCCCGGGAGGAGTAAAGT
6230629 ATTGC
1 ATTGC
6230634 GGTGGCTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (21 bp):
ATTGCCCGGGAGGAGTAAAGT
Found at i:6232789 original size:91 final size:94
Alignment explanation
Indices: 6232602--6232777 Score: 232
Period size: 91 Copynumber: 1.9 Consensus size: 94
6232592 TATATTATTT
*
6232602 TTTTAAATCAATAAATATTAACAATATTTTTTACTTACTACTACTTACTAACAACAAAATAAAAT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTA-TACTACTTACTAACAACAAAATAAAAT
***** *
6232667 TACTAACTAATTTTTTTAAACATTATTAAA
65 TACTAACTAACAAAATTAAACATTAGTAAA
* *
6232697 TTTTAAATCAATAAATATGAACAATGTTTTTTAC-T-TACTAC-TACTAACAATAAAATAAAATT
1 TTTTAAATCAATAAATATGAACAATATTTTTTACTTATACTACTTACTAACAACAAAATAAAATT
*
6232759 ACTAACTAGCAAAATTAAA
66 ACTAACTAACAAAATTAAA
6232778 TTAAAGTAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
91 33 0.46
92 6 0.08
94 1 0.01
95 32 0.44
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (94 bp):
TTTTAAATCAATAAATATGAACAATATTTTTTACTTATACTACTTACTAACAACAAAATAAAATT
ACTAACTAACAAAATTAAACATTAGTAAA
Found at i:6233141 original size:9 final size:9
Alignment explanation
Indices: 6233129--6233162 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
6233119 TTTTCTTTCT
6233129 CCTTCTTCC
1 CCTTCTTCC
6233138 CCTTCTTCC
1 CCTTCTTCC
*
6233147 CCTTCTTCT
1 CCTTCTTCC
6233156 CCTTCTT
1 CCTTCTT
6233163 TCTCTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (9 bp):
CCTTCTTCC
Found at i:6234334 original size:17 final size:16
Alignment explanation
Indices: 6234313--6234375 Score: 81
Period size: 17 Copynumber: 3.8 Consensus size: 16
6234303 AAACCCAATT
6234313 TTTAATTTTAAATTTA
1 TTTAATTTTAAATTTA
6234329 TCTTAATTTTAAATTTA
1 T-TTAATTTTAAATTTA
*
6234346 TTTCAAATTTAAATTTA
1 TTT-AATTTTAAATTTA
*
6234363 TTTCAAATTTAAA
1 TTT-AATTTTAAA
6234376 ATTTGAAAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
16 3 0.07
17 41 0.93
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAATTTTAAATTTA
Found at i:6235046 original size:16 final size:17
Alignment explanation
Indices: 6235020--6235056 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
6235010 ATAAATAAAT
*
6235020 AATAAAGTATATTAATA
1 AATAAAGTATAATAATA
6235037 AATAAA-TATAATAATA
1 AATAAAGTATAATAATA
6235053 AATA
1 AATA
6235057 GTAAAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AATAAAGTATAATAATA
Found at i:6235496 original size:13 final size:13
Alignment explanation
Indices: 6235477--6235510 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6235467 GTCCCTTTTT
*
6235477 GAAAAAAGAGAAA
1 GAAAAAAGAAAAA
*
6235490 TAAAAAAGAAAAA
1 GAAAAAAGAAAAA
6235503 GAAAAAAG
1 GAAAAAAG
6235511 GGGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (13 bp):
GAAAAAAGAAAAA
Found at i:6236056 original size:28 final size:29
Alignment explanation
Indices: 6236006--6236213 Score: 172
Period size: 29 Copynumber: 7.2 Consensus size: 29
6235996 TTGAACCTCC
* * * *
6236006 CAAAAATCATATTTTGATCCCTAACTTTT
1 CAAAAATTACATTTTGACCCCAAACTTTT
* * *
6236035 CAAAAATTACATTTTAACCCTAAACTTTC
1 CAAAAATTACATTTTGACCCCAAACTTTT
*
6236064 CAAAAA-TACATTTTGACCCCAAAC-TTC
1 CAAAAATTACATTTTGACCCCAAACTTTT
* *
6236091 CAAAAATCACATTTTGACCCCCAAACTTCT
1 CAAAAATTACATTTTGA-CCCCAAACTTTT
* * *
6236121 -AAAAATTATAATTTTTACCCTCTAACTTTT
1 CAAAAATTA-CATTTTGACCC-CAAACTTTT
* * *
6236151 -AAAAATCACATTTTGACCCCGAACTTTC
1 CAAAAATTACATTTTGACCCCAAACTTTT
* * * *
6236179 CAAAAAATTACTTTTTAACCTCAAACTCTT
1 C-AAAAATTACATTTTGACCCCAAACTTTT
6236209 CAAAA
1 CAAAA
6236214 CTTGATTTTT
Statistics
Matches: 143, Mismatches: 29, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
27 9 0.06
28 32 0.22
29 59 0.41
30 43 0.30
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (29 bp):
CAAAAATTACATTTTGACCCCAAACTTTT
Found at i:6236213 original size:29 final size:28
Alignment explanation
Indices: 6236032--6236213 Score: 152
Period size: 28 Copynumber: 6.3 Consensus size: 28
6236022 ATCCCTAACT
*
6236032 TTTCAAAAATTACATTTTAACCCTAAAC
1 TTTCAAAAATTACATTTTAACCCCAAAC
*
6236060 TTTCCAAAAA-TACATTTTGACCCCAAAC
1 TTT-CAAAAATTACATTTTAACCCCAAAC
* * *
6236088 TTCCAAAAATCACATTTTGACCCCCAAAC
1 TTTCAAAAATTACATTTT-AACCCCAAAC
* * *
6236117 -TTCTAAAAATTATAATTTTTACCCTCTAAC
1 TTTC-AAAAATTA-CATTTTAACCC-CAAAC
* * * *
6236147 TTTTAAAAATCACATTTTGACCCCGAAC
1 TTTCAAAAATTACATTTTAACCCCAAAC
* *
6236175 TTTCCAAAAAATTACTTTTTAACCTCAAAC
1 TTT-C-AAAAATTACATTTTAACCCCAAAC
6236205 TCTTCAAAA
1 T-TTCAAAA
6236214 CTTGATTTTT
Statistics
Matches: 121, Mismatches: 23, Indels: 19
0.74 0.14 0.12
Matches are distributed among these distances:
27 6 0.05
28 37 0.31
29 37 0.31
30 37 0.31
31 4 0.03
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTCAAAAATTACATTTTAACCCCAAAC
Found at i:6236362 original size:14 final size:14
Alignment explanation
Indices: 6236334--6236368 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
6236324 GCTTTTGTAT
*
6236334 TTTATTTTTCTTATA
1 TTTA-TTTTCATATA
6236349 TTTATTTTCATATA
1 TTTATTTTCATATA
6236363 TTTATT
1 TTTATT
6236369 CATTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTCATATA
Found at i:6238288 original size:20 final size:19
Alignment explanation
Indices: 6238256--6238303 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
6238246 TTGTAATGAT
6238256 TATATTTTAATATCTAAAG
1 TATATTTTAATATCTAAAG
* * *
6238275 TATAGTTTTTATATTTAAAT
1 TATA-TTTTAATATCTAAAG
*
6238295 TAAATTTTA
1 TATATTTTA
6238304 CAAACAATTC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (19 bp):
TATATTTTAATATCTAAAG
Found at i:6242422 original size:17 final size:18
Alignment explanation
Indices: 6242400--6242443 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
6242390 TTTACACATA
*
6242400 AAAAATTAT-ATATTTTT
1 AAAAATTATCATACTTTT
*
6242417 AAAAATAATCATACTTTT
1 AAAAATTATCATACTTTT
*
6242435 AATAATTAT
1 AAAAATTAT
6242444 TTGATTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (18 bp):
AAAAATTATCATACTTTT
Found at i:6244241 original size:21 final size:21
Alignment explanation
Indices: 6244215--6244263 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
6244205 AAGAATAGTG
*
6244215 TACAAGTGACAGTTCTACCGA
1 TACAAGTGACACTTCTACCGA
*
6244236 TACAAGTGACTCTTCTACCGA
1 TACAAGTGACACTTCTACCGA
*
6244257 AACAAGT
1 TACAAGT
6244264 CTTACTTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (21 bp):
TACAAGTGACACTTCTACCGA
Found at i:6246915 original size:40 final size:40
Alignment explanation
Indices: 6246852--6247038 Score: 232
Period size: 40 Copynumber: 4.7 Consensus size: 40
6246842 GAAATAAGTG
* * *
6246852 ACTGAACTGGTAGTGACATTGTAAACACTGCAATATTATT
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
* * *
6246892 ACTTAACTGGCAGTGACACTGTAAACACTACAATATTACC
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
*
6246932 ACTGAACTGGCAGTGACACTGTAAACACTGCGATATTACT
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
* * * * *
6246972 ACTAAACTGACAGTGACACTG-AAACATTGTAATGTTACT
1 ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
* * *
6247011 ACTGAACTAGCCGTGACACTATAAACAC
1 ACTGAACTGGCAGTGACACTGTAAACAC
6247039 AGCTAGACTA
Statistics
Matches: 124, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 30 0.24
40 94 0.76
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (40 bp):
ACTGAACTGGCAGTGACACTGTAAACACTGCAATATTACT
Found at i:6253343 original size:63 final size:63
Alignment explanation
Indices: 6253208--6253344 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
6253198 TAGGCGTAGA
* * * * * *** *
6253208 TGTGGGAGGGACAGTGGTGGGTTGGGACATTGGTATGGTGAATTGTTCAGGTGGAGGGGTAGT
1 TGTGGGAGGTACAATAGTGGGTAGGGACATTGGTATGGTGAATTGTGCAGGTGGAGGAACAGG
* *
6253271 TGTGAGAGGTACAATAGTGGGTAGGGACATTGGTAT-GTGGACTTGTGCAGGTGGAGGAACAGG
1 TGTGGGAGGTACAATAGTGGGTAGGGACATTGGTATGGT-GAATTGTGCAGGTGGAGGAACAGG
6253334 TGTGGGAGGTA
1 TGTGGGAGGTA
6253345 TAGTTGGAGA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
62 2 0.03
63 59 0.97
ACGTcount: A:0.21, C:0.06, G:0.47, T:0.26
Consensus pattern (63 bp):
TGTGGGAGGTACAATAGTGGGTAGGGACATTGGTATGGTGAATTGTGCAGGTGGAGGAACAGG
Found at i:6262966 original size:6 final size:6
Alignment explanation
Indices: 6262942--6263032 Score: 64
Period size: 6 Copynumber: 15.7 Consensus size: 6
6262932 AGTTTATTTC
* * * **
6262942 TAAAAT TAAATT T-ACTT TAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * *
6262989 TAAATT T-AGTT TAAATT TGAAA-- TAATTT TAAAAT TAAAAT TAAA
1 TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAA
6263033 AAGCCCAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
4 2 0.03
5 9 0.14
6 52 0.79
7 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (6 bp):
TAAATT
Found at i:6262967 original size:17 final size:18
Alignment explanation
Indices: 6262928--6262972 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
6262918 TAAAATGGTT
* *
6262928 TTTAAGTTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
*
6262946 ATTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
6262963 TTTAAATTTA
1 TTTAAATTTA
6262973 AATTCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:6263002 original size:35 final size:35
Alignment explanation
Indices: 6262963--6263029 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
6262953 TTACTTTAAA
* * *
6262963 TTTAAATTT-AAATTCATTTTTAAATTTAAATTTAG
1 TTTAAATTTGAAA-TAATTTTAAAATTAAAATTTAG
6262998 TTTAAATTTGAAATAATTTTAAAATTAAAATT
1 TTTAAATTTGAAATAATTTTAAAATTAAAATT
6263030 AAAAAGCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 25 0.89
36 3 0.11
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTAAATTTGAAATAATTTTAAAATTAAAATTTAG
Found at i:6263018 original size:17 final size:17
Alignment explanation
Indices: 6262947--6263031 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
6262937 ATTTCTAAAA
** *
6262947 TTAAATTTACTTTAAAT
1 TTAAATTTAAATTAATT
*
6262964 TTAAATTTAAATTCATTT
1 TTAAATTTAAATT-AATT
* *
6262982 TTAAATTTAAATTTAGT
1 TTAAATTTAAATTAATT
6262999 TTAAATTTGAAA-TAATT
1 TTAAATTT-AAATTAATT
*
6263016 TTAAAATTAAAATTAA
1 TT-AAATTTAAATTAA
6263032 AAAGCCCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
17 28 0.52
18 26 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:6264833 original size:162 final size:163
Alignment explanation
Indices: 6264664--6264979 Score: 449
Period size: 163 Copynumber: 1.9 Consensus size: 163
6264654 TGTGTGACTG
*
6264664 CACCAGAGGCTGCCACATGTCAC-TTTTTGGCTTATTTATGTATCTAGTCTCAACCATTTTTAAT
1 CACCAGAGGCTGCCACATGTCACTTTTTTGGCTTATTTATGTATCTAGTCCCAACCATTTTTAAT
* **
6264728 TTATTTTAATTTAATCC-TCAAATCAACTTTTGCTTAATTACAAAATTGACCCTGGAATCTTTT-
66 TTATTTTAATTTAATCCAT-AAATCAACTTTTACTTAATTACAAAATTGACCCAAGAAT-TTTTC
* **
6264791 GAGATTTTTAAATTAGTCCTTTGACTGTTTGACCA
129 AAGATTTACAAATTAGTCCTTTGACTGTTTGACCA
* **
6264826 CACCAGAGGCTGCCACGTGTCACTTTTTTGGCTTATTTATGTATCTAGTCCCTGCCATTTTTAAT
1 CACCAGAGGCTGCCACATGTCACTTTTTTGGCTTATTTATGTATCTAGTCCCAACCATTTTTAAT
* * * * * *
6264891 TTGTTTTAATTTCATCCATAAATTAACTTTTATTTAATTATAAAATTGGCCCAAGAATTTTTCAA
66 TTATTTTAATTTAATCCATAAATCAACTTTTACTTAATTACAAAATTGACCCAAGAATTTTTCAA
6264956 GATTTACAAATTAGTCCTTTGACT
131 GATTTACAAATTAGTCCTTTGACT
6264980 TCTGGATGCC
Statistics
Matches: 135, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
162 26 0.19
163 108 0.80
164 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (163 bp):
CACCAGAGGCTGCCACATGTCACTTTTTTGGCTTATTTATGTATCTAGTCCCAACCATTTTTAAT
TTATTTTAATTTAATCCATAAATCAACTTTTACTTAATTACAAAATTGACCCAAGAATTTTTCAA
GATTTACAAATTAGTCCTTTGACTGTTTGACCA
Found at i:6265117 original size:30 final size:30
Alignment explanation
Indices: 6265083--6265244 Score: 135
Period size: 30 Copynumber: 5.4 Consensus size: 30
6265073 CGAACTTCCT
*
6265083 AAAATTTCATTTTTAACCCCGATTTCACCA
1 AAAATTCCATTTTTAACCCCGATTTCACCA
6265113 AAAATTACCA-TTTT-ACCCCTGAACTTT--CC-
1 AAAATT-CCATTTTTAACCCC-G-A-TTTCACCA
** *
6265142 AAAATTCCATTTTTAACCTTGATTTCACAA
1 AAAATTCCATTTTTAACCCCGATTTCACCA
*
6265172 AAAATTACCA-TTTTACCCCCGAACTTT--CC-
1 AAAATT-CCATTTTTAACCCCG-A-TTTCACCA
*
6265201 AAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTCCATTTTTAACCCCGATTTCACCA
6265231 AAAATTACCATTTT
1 AAAATT-CCATTTT
6265245 GACCCCCGGG
Statistics
Matches: 105, Mismatches: 10, Indels: 33
0.71 0.07 0.22
Matches are distributed among these distances:
27 6 0.06
28 8 0.08
29 34 0.32
30 37 0.35
31 14 0.13
32 6 0.06
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:6265124 original size:59 final size:59
Alignment explanation
Indices: 6265052--6265252 Score: 332
Period size: 59 Copynumber: 3.4 Consensus size: 59
6265042 CTGTACTGTT
* *
6265052 CAAAAATTACCATTTTACCCCCGAAC-TTCCTAAAATTTCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCC-AAAATTCCATTTTTAACCTCGATTTCAC
* *
6265111 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTTGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
*
6265170 AAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
6265229 CAAAAATTACCATTTTGACCCCCG
1 CAAAAATTACCATTTT-ACCCCCG
6265253 GGTACCCAAA
Statistics
Matches: 132, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
59 121 0.92
60 11 0.08
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
Found at i:6265231 original size:29 final size:30
Alignment explanation
Indices: 6265054--6265244 Score: 136
Period size: 29 Copynumber: 6.5 Consensus size: 30
6265044 GTACTGTTCA
* * *
6265054 AAAATTACCA-TTTTACCCCCGAACTTC-CT
1 AAAATTACCATTTTTAACCCCG-ATTTCACC
*
6265083 AAAATT-TCATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTTAACCCCGATTTCACC
6265112 AAAAATTACCA-TTTT-ACCCCTGAACTTT--CC
1 -AAAATTACCATTTTTAACCCC-G-A-TTTCACC
** *
6265142 AAAATT-CCATTTTTAACCTTGATTTCACAA
1 AAAATTACCATTTTTAACCCCGATTTCAC-C
*
6265172 AAAATTACCA-TTTTACCCCCGAACTTT--CC
1 AAAATTACCATTTTTAACCCCG-A-TTTCACC
*
6265201 AAAATT-CCATTTTTAACCTCGATTTCACC
1 AAAATTACCATTTTTAACCCCGATTTCACC
6265230 AAAAATTACCATTTT
1 -AAAATTACCATTTT
6265245 GACCCCCGGG
Statistics
Matches: 128, Mismatches: 14, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
27 6 0.05
28 14 0.11
29 51 0.40
30 37 0.29
31 14 0.11
32 6 0.05
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.36
Consensus pattern (30 bp):
AAAATTACCATTTTTAACCCCGATTTCACC
Found at i:6265262 original size:118 final size:119
Alignment explanation
Indices: 6265053--6265286 Score: 330
Period size: 118 Copynumber: 2.0 Consensus size: 119
6265043 TGTACTGTTC
*
6265053 AAAAATTACCATTTTACCCCCGAACTTCCTAAAATTTCATTTTTAACCCCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCGAACTTCCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
* ** * * *
6265118 TACCATTTTACCCCTGAACTTTCCAAAA-TTCCATTTTTAACCTTGATTTCACA
66 TACCATTTTACCCCCGAACTACCCAAAAGTCCCATTTTCAACCTCGATTTCACA
*
6265171 AAAAATTACCATTTTACCCCCGAACTTTCC-AAAATTCCATTTTTAACCTCGATTTCACCAAAAA
1 AAAAATTACCATTTTACCCCCGAAC-TTCCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
** *
6265235 TTACCATTTTGACCCCCG-GGTACCCAAAAGTCCCGTTTTCAACCTCGATTTC
65 TTACCATTTT-ACCCCCGAACTACCCAAAAGTCCCATTTTCAACCTCGATTTC
6265287 GTCGTTTCTT
Statistics
Matches: 102, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
118 74 0.73
119 28 0.27
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (119 bp):
AAAAATTACCATTTTACCCCCGAACTTCCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
TACCATTTTACCCCCGAACTACCCAAAAGTCCCATTTTCAACCTCGATTTCACA
Found at i:6277482 original size:76 final size:76
Alignment explanation
Indices: 6277352--6278190 Score: 1365
Period size: 76 Copynumber: 11.0 Consensus size: 76
6277342 TCAATCCAAC
* * * * *
6277352 ATCATTTCCTATCCTTTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6277417 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
6277428 ATCATTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTCATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6277493 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
6277504 ATCATTTCCTATCCTCTTGAAATTGAAGTAAGGCTGGATATCAAATCTTCATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6277569 G-AAGAGCAAG
66 GTAAGAGCAAG
* **
6277579 ATCATTTCCTATCCTCTTGAAATTGAAGTAAGGCTGGATATCAAATCTTCGTCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
*
6277644 GTAAGAGTAAG
66 GTAAGAGCAAG
* * *
6277655 ATAATTTCCTATCCTCTTGAAATTGAAGTAAGGCTGGATATCAAATCTTCATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6277720 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
6277731 ATTATTTCCTATCCTCTTGAAATAGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6277796 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * *
6277807 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6277872 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
6277883 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTCATCTCTAAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6277948 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
6277959 ATTATTTCCTATCCTCTTGAAATTGAAGTAAAGCAGGATATCAAATCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
6278024 GTAAGAGCAAG
66 GTAAGAGCAAG
*
6278035 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTAAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
*
6278100 GTGAGAGCAAG
66 GTAAGAGCAAG
* * * *
6278111 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAATTTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCT-GAAA-TTG
6278176 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
6278189 AT
1 AT
6278191 GAAGCCTCGA
Statistics
Matches: 716, Mismatches: 44, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
75 74 0.10
76 623 0.87
77 3 0.00
78 16 0.02
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATATCAAATCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:6278504 original size:11 final size:12
Alignment explanation
Indices: 6278483--6278590 Score: 82
Period size: 11 Copynumber: 9.3 Consensus size: 12
6278473 AGTTTATTTC
*
6278483 TAAAATTAAATT
1 TAAATTTAAATT
*
6278495 T-ACTTTAAATT
1 TAAATTTAAATT
6278506 TAAATTTAAATT
1 TAAATTTAAATT
* **
6278518 CATTTTTAAATT
1 TAAATTTAAATT
*
6278530 TAAATTT-ATTT
1 TAAATTTAAATT
6278541 TAAATTTAAATT
1 TAAATTTAAATT
*
6278553 T-AGTTTAAATT
1 TAAATTTAAATT
*
6278564 TGAAA--TAATTT
1 T-AAATTTAAATT
* *
6278575 TAAAATTAAAAT
1 TAAATTTAAATT
6278587 TAAA
1 TAAA
6278591 AAGCCCAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
10 3 0.04
11 35 0.47
12 35 0.47
13 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (12 bp):
TAAATTTAAATT
Found at i:6278507 original size:6 final size:6
Alignment explanation
Indices: 6278483--6278590 Score: 82
Period size: 6 Copynumber: 18.7 Consensus size: 6
6278473 AGTTTATTTC
* * * **
6278483 TAAAAT TAAATT T-ACTT TAAATT TAAATT TAAATT CATTTT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * *
6278530 TAAATT T-ATTT TAAATT TAAATT T-AGTT TAAATT TGAAA-- TAATTT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT T-AAATT TAAATT
* *
6278575 TAAAAT TAAAAT TAAA
1 TAAATT TAAATT TAAA
6278591 AAGCCCAAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
4 2 0.03
5 13 0.16
6 62 0.77
7 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:6278514 original size:41 final size:41
Alignment explanation
Indices: 6278469--6278559 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
6278459 TAAAATGGTT
6278469 TTTAAGTTTATTTCTAAAATTAAATTTACTTTAAATTTAAA
1 TTTAAGTTTATTTCTAAAATTAAATTTACTTTAAATTTAAA
* * * * *
6278510 TTTAAATTCATTTTTAAATTTAAATTTATTTTAAATTTAAA
1 TTTAAGTTTATTTCTAAAATTAAATTTACTTTAAATTTAAA
6278551 TTT-AGTTTA
1 TTTAAGTTTA
6278560 AATTTGAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 4 0.09
41 39 0.91
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (41 bp):
TTTAAGTTTATTTCTAAAATTAAATTTACTTTAAATTTAAA
Found at i:6278527 original size:18 final size:17
Alignment explanation
Indices: 6278504--6278584 Score: 101
Period size: 17 Copynumber: 4.7 Consensus size: 17
6278494 TTACTTTAAA
*
6278504 TTTAAATTTAAATTCATT
1 TTTAAATTTAAATTTA-T
6278522 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
6278539 TTTAAATTTAAATTTAG
1 TTTAAATTTAAATTTAT
*
6278556 TTTAAATTTGAAA-TAAT
1 TTTAAATTT-AAATTTAT
*
6278573 TTTAAAATTAAA
1 TTTAAATTTAAA
6278585 ATTAAAAAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
16 3 0.05
17 36 0.63
18 18 0.32
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:6279400 original size:9 final size:9
Alignment explanation
Indices: 6279362--6279417 Score: 58
Period size: 9 Copynumber: 6.0 Consensus size: 9
6279352 CAATAATGCT
*
6279362 TTAATAGTA
1 TTAATAATA
*
6279371 TTAATTAACA
1 TTAA-TAATA
*
6279381 TTGATTAATA
1 TT-AATAATA
6279391 TTAATAATA
1 TTAATAATA
6279400 TTAATAATA
1 TTAATAATA
*
6279409 ATAATAATA
1 TTAATAATA
6279418 AATATTTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 27 0.69
10 11 0.28
11 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.43
Consensus pattern (9 bp):
TTAATAATA
Found at i:6280543 original size:162 final size:162
Alignment explanation
Indices: 6280227--6280553 Score: 415
Period size: 162 Copynumber: 2.0 Consensus size: 162
6280217 TAATCCCCCA
* * *
6280227 ACTGTGTGACTACATCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTAATCCCCG
1 ACTGTGTGACCACACCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTAATCCCCA
* * * **
6280292 CCATTTTTAATTTTTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTACAAAATTGACCCTG
66 CCATTTTTAATTTGTTTTAATTTAATCATCAAATCAACTTTTACTTAATTACAAAATTGACCCAA
* **
6280357 GAATCTTTTGAGATTTTTAAATTAG-CCATTTG
131 GAATCTTTTAAGATTTACAAATTAGTCC-TTTG
* * * * **
6280389 ACTGTTTGACCACACCAGAGGCTGCCACTTGTCACTTTTTGGCTTATTTATGTATCTAGTCCTTA
1 ACTGTGTGACCACACCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTAATCCCCA
* * * * *
6280454 CCATTTTTAATTTGTTTTAATTTCATCATTAAATTAACTTTTATTTAATTACAAAATTGGCCCAA
66 CCATTTTTAATTTGTTTTAATTTAATCATCAAATCAACTTTTACTTAATTACAAAATTGACCCAA
*
6280519 G-ATTTTTTCAAGATTTACAAATTAGTCCTTTG
131 GAATCTTTT-AAGATTTACAAATTAGTCCTTTG
6280551 ACT
1 ACT
6280554 TCTGGATGCC
Statistics
Matches: 140, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
161 6 0.04
162 132 0.94
163 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.43
Consensus pattern (162 bp):
ACTGTGTGACCACACCAAAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTAATCCCCA
CCATTTTTAATTTGTTTTAATTTAATCATCAAATCAACTTTTACTTAATTACAAAATTGACCCAA
GAATCTTTTAAGATTTACAAATTAGTCCTTTG
Found at i:6280692 original size:58 final size:58
Alignment explanation
Indices: 6280628--6280822 Score: 286
Period size: 59 Copynumber: 3.3 Consensus size: 58
6280618 GGACTGTCCG
* *
6280628 AAAATTACCATTTTA-CCCTCGAACTTCCCAAAATTCTATTTTAACCTTGATTTCACCA
1 AAAATTACCATTTTACCCCT-GAACTTTCCAAAATTCTATTTTAACCTCGATTTCACCA
6280686 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTTCGT-TTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAA-TTC-TATTTTAACCTCGATTTCACCA
* * * *
6280745 AAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTAACCCCGATTTTACCA
1 AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCTATTTTAACCTCGATTTCACCA
6280803 AAAATTACCATTTTGACCCC
1 AAAATTACCATTTT-ACCCC
6280823 CGGTACCCAA
Statistics
Matches: 126, Mismatches: 6, Indels: 9
0.89 0.04 0.06
Matches are distributed among these distances:
58 62 0.49
59 63 0.50
60 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTGAACTTTCCAAAATTCTATTTTAACCTCGATTTCACCA
Found at i:6280842 original size:117 final size:115
Alignment explanation
Indices: 6280628--6280857 Score: 295
Period size: 117 Copynumber: 2.0 Consensus size: 115
6280618 GGACTGTCCG
* * **
6280628 AAAATTACCATTTTACCCTCGAACTTCCCAAAATTCTATTTTAACCTTGATTTCACCAAAAATTA
1 AAAATTACCATTTTACCCTCAAACTTCCCAAAATTCCATTTTAACCCCGATTTCACCAAAAATTA
* *
6280693 CCATTTTACCCCTGAACTTTCCAAAATTTCGTTTTTAACCTCGATTTCACCA
66 CCATTTTACCCCGGAAC--TCCAAAATTTCGTTTTCAACCTCGATTTCACCA
* *
6280745 AAAATTACCATTTTACCC-CTAAACTTTCCAAAATTCCATTTTAACCCCGATTTTACCAAAAATT
1 AAAATTACCATTTTACCCTC-AAACTTCCCAAAATTCCATTTTAACCCCGATTTCACCAAAAATT
*
6280809 ACCATTTTGACCCCCGGTAC-CC-AAATGTCTCGTTTTCAACCTCGATTTC
65 ACCATTTT-A-CCCCGGAACTCCAAAAT-T-TCGTTTTCAACCTCGATTTC
6280858 GTCGTTTCTT
Statistics
Matches: 99, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
115 4 0.04
116 4 0.04
117 83 0.84
118 1 0.01
119 7 0.07
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (115 bp):
AAAATTACCATTTTACCCTCAAACTTCCCAAAATTCCATTTTAACCCCGATTTCACCAAAAATTA
CCATTTTACCCCGGAACTCCAAAATTTCGTTTTCAACCTCGATTTCACCA
Found at i:6297258 original size:95 final size:95
Alignment explanation
Indices: 6297080--6297270 Score: 301
Period size: 95 Copynumber: 2.0 Consensus size: 95
6297070 CATTAAAAAG
* *
6297080 GTTCCAAACCATGCCCATTGAGCTGATCTATTCCCTGCAGTTCAAGTCTATTGCTTTTGGACCTG
1 GTTCCAAACCATGCCCATTGAACTGATCTATTCCCTGCAGTTCAAGTCTATTGCTTTTGGACCCG
** * * *
6297145 ATTTGATTTCGTTTTGGCATTGGCTGTTGA
66 ATTCAATGTCATTGTGGCATTGGCTGTTGA
* *
6297175 GTTCCAAACCATGCCCATTGAACTGATCTATTCCTTTCAGTTCAAGTCTATTGCTTTTGGACCCG
1 GTTCCAAACCATGCCCATTGAACTGATCTATTCCCTGCAGTTCAAGTCTATTGCTTTTGGACCCG
6297240 ATTCAATGTCATTGTGGCATTGGCTGTTGA
66 ATTCAATGTCATTGTGGCATTGGCTGTTGA
6297270 G
1 G
6297271 ATCAAATAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 87 1.00
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (95 bp):
GTTCCAAACCATGCCCATTGAACTGATCTATTCCCTGCAGTTCAAGTCTATTGCTTTTGGACCCG
ATTCAATGTCATTGTGGCATTGGCTGTTGA
Found at i:6303272 original size:23 final size:22
Alignment explanation
Indices: 6303241--6303284 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
6303231 AAAGAAATAA
*
6303241 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
6303263 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
6303285 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:6317521 original size:22 final size:22
Alignment explanation
Indices: 6317495--6317579 Score: 79
Period size: 22 Copynumber: 3.9 Consensus size: 22
6317485 TTATTGATTC
6317495 GCACTTTC-ATGCCTACTACTTT
1 GCACTTTCGATGCCTACTA-TTT
* * *
6317517 GCACTAT-GGTGCCTACTAATTC
1 GCACTTTCGATGCCTACT-ATTT
6317539 GCAC-TTCGATGCCTACTATTAAT
1 GCACTTTCGATGCCTACTATT--T
6317562 GCA-TTTCGATGCCTACTA
1 GCACTTTCGATGCCTACTA
6317580 GTGTAGTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.08
22 29 0.57
23 18 0.35
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.35
Consensus pattern (22 bp):
GCACTTTCGATGCCTACTATTT
Found at i:6324849 original size:21 final size:20
Alignment explanation
Indices: 6324823--6324862 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
6324813 GAAAAACCCA
6324823 CAAAAATTTAAAAACAAAAAC
1 CAAAAATTTAAAAA-AAAAAC
6324844 CAAAAATTTAAAAAAAAAA
1 CAAAAATTTAAAAAAAAAA
6324863 TCCTTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.75, C:0.10, G:0.00, T:0.15
Consensus pattern (20 bp):
CAAAAATTTAAAAAAAAAAC
Found at i:6328210 original size:21 final size:21
Alignment explanation
Indices: 6328186--6328237 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6328176 TGAGGCAATA
6328186 CTACCGATACAAGT-ATGACTT
1 CTACCGATACAAGTCATG-CTT
* *
6328207 CTACCGAAACATGTCATGCTT
1 CTACCGATACAAGTCATGCTT
6328228 CTACCGATAC
1 CTACCGATAC
6328238 TACAAACTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (21 bp):
CTACCGATACAAGTCATGCTT
Found at i:6329430 original size:201 final size:194
Alignment explanation
Indices: 6328984--6329436 Score: 502
Period size: 201 Copynumber: 2.3 Consensus size: 194
6328974 TACCAGTACT
* * *
6328984 CGATGCTGCTCACACGAGCTGTCGAGGAATCGCAACATATGCGGTACCCCAACCATCTGTACAGT
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCTCAACCATCTGTACAGT
* * * *
6329049 GCCTGTCTGTACTATAAACTGTTCCCTAACGATGCTGCTCACACGAGCTGTCGAGAGTATGCAAT
66 G-CTATCTGTACTATAAACTGTTCCCTAACGATACTACTCACACGAGCTGTCGAGAATATGCAAT
* * * * * * *
6329114 AAGCATAGTCCCAGCCATCGTAGGGCTTGTAATCCATTTAGGATCCATATCTCTTTCCCGAGTCA
130 AAGCATAATCCCAGCCATCGTAGAGCCTATAATCCATTTAAGATCCATATCTCTTTCCCAACTCA
* * * * **
6329179 CGATGCTGTTCACACGAGCTGTCGAGGACTTGTAAAATATACGGTACCTCAGTCATC-GATAC-G
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCTCAACCATCTG-TACAG
*
6329242 -G-TATCTGTGC-ATATAACTGTTCCCTAACGATACTACTCACACGAGCTGTCGAGAATATGCAT
65 TGCTATCTGTACTATA-AACTGTTCCCTAACGATACTACTCACACGAGCTGTCGAGAATATGCA-
* * *
6329304 TTATGCATAAATCTCAGCCATCGTAGAGCCTATAATCCATTTAAGATCCATATTTCTTTTCTTAT
128 ATAAGCAT-AATCCCAGCCATCGTAGAGCCTATAATCCATTTAAGATCCATA--TC---TC---T
6329369 TTCCCAACTCA
184 TTCCCAACTCA
* * * *
6329380 CGATGCTGCTCGCACGAGCTATCGAGGACTCGTAACATATGCAGTACCTCATCCATC
1 CGATGCTGCTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCTCAACCATC
6329437 GTGTCGATTT
Statistics
Matches: 213, Mismatches: 33, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
190 3 0.01
191 51 0.24
192 6 0.03
193 38 0.18
194 2 0.01
195 53 0.25
198 2 0.01
201 58 0.27
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (194 bp):
CGATGCTGCTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCTCAACCATCTGTACAGT
GCTATCTGTACTATAAACTGTTCCCTAACGATACTACTCACACGAGCTGTCGAGAATATGCAATA
AGCATAATCCCAGCCATCGTAGAGCCTATAATCCATTTAAGATCCATATCTCTTTCCCAACTCA
Found at i:6340380 original size:21 final size:23
Alignment explanation
Indices: 6340340--6340382 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6340330 TAAAACTAAA
*
6340340 AAAATTTAATATATATTAAATAT
1 AAAATATAATATATATTAAATAT
6340363 AAAATATAATATA-A-TAAATA
1 AAAATATAATATATATTAAATA
6340383 AAAGTCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATATAATATATATTAAATAT
Found at i:6340568 original size:22 final size:22
Alignment explanation
Indices: 6340525--6340568 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6340515 AACTTTATTA
*
6340525 AAATTTATCTTTATTTTTAATT
1 AAATTTATCTTTATTTTGAATT
6340547 AAATTTAT-TTTATTATTGAATT
1 AAATTTATCTTTATT-TTGAATT
6340569 TTATTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
AAATTTATCTTTATTTTGAATT
Found at i:6340574 original size:22 final size:22
Alignment explanation
Indices: 6340525--6340581 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
6340515 AACTTTATTA
* *
6340525 AAATTTATCTTTATTTTTAATT
1 AAATTTATATTTATTTTGAATT
6340547 AAATTTAT-TTTATTATTGAATT
1 AAATTTATATTTATT-TTGAATT
**
6340569 TTATTTATATTTA
1 AAATTTATATTTA
6340582 CGAAAGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 20 0.67
23 4 0.13
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
AAATTTATATTTATTTTGAATT
Done.