Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold488
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: 2093548
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 2 of 14
Found at i:145115 original size:41 final size:40
Alignment explanation
Indices: 145033--145115 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 40
145023 AATATTTAAT
* *
145033 AAATATAATATTTAAATTTTAAGTAAATAAATTTAAAATTA
1 AAATATAATATTTAAATATTAAG-AAATAAATTGAAAATTA
145074 AAATATAATATTATATAATATTAA-AAAT-AATTGAAATATTA
1 AAATATAATATT-TA-AATATTAAGAAATAAATTGAAA-ATTA
145115 A
1 A
145116 GTAAAAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
40 7 0.19
41 21 0.57
42 2 0.05
43 7 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (40 bp):
AAATATAATATTTAAATATTAAGAAATAAATTGAAAATTA
Found at i:145985 original size:11 final size:11
Alignment explanation
Indices: 145957--145990 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
145947 TAAAAAATAA
145957 ATTATATTTTTT
1 ATTA-ATTTTTT
145969 ATTTAATTTTTT
1 A-TTAATTTTTT
145981 ATTAATTTTT
1 ATTAATTTTT
145991 AAAATATAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.43
12 9 0.43
13 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTAATTTTTT
Found at i:146486 original size:2 final size:2
Alignment explanation
Indices: 146479--146517 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
146469 TTCAGTGTCA
146479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
146518 AAAGCTTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:146720 original size:21 final size:19
Alignment explanation
Indices: 146673--146721 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
146663 ATATATATTT
*
146673 AATAAATTATATAAAATTA
1 AATAAATTTTATAAAATTA
* *
146692 ATTTAATTTTATATAAATATA
1 AATAAATTTTATA-AAAT-TA
146713 AATAAATTT
1 AATAAATTT
146722 GTCTTGAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 10 0.43
20 4 0.17
21 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATAAATTTTATAAAATTA
Found at i:150807 original size:2 final size:2
Alignment explanation
Indices: 150800--150825 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
150790 CATTTCTACA
150800 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
150826 TATTTCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:152536 original size:2 final size:2
Alignment explanation
Indices: 152529--152559 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
152519 TTAAAGACAT
152529 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
152560 TTATTCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:153750 original size:20 final size:20
Alignment explanation
Indices: 153725--153763 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
153715 CGATATGAAC
*
153725 AGTAAATGTATTGATACATA
1 AGTAAATGTATCGATACATA
153745 AGTAAATGTATCGATACAT
1 AGTAAATGTATCGATACAT
153764 TTTCTTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
AGTAAATGTATCGATACATA
Found at i:158533 original size:20 final size:21
Alignment explanation
Indices: 158508--158561 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
158498 TACTTTAGGC
158508 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTGT
*
158528 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTCACTGT
* *
158549 TTGTATTGATACA
1 ATGTATCGATACA
158562 AATTGTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTCACTGT
Found at i:161380 original size:17 final size:17
Alignment explanation
Indices: 161354--161403 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
161344 TTTAAAGTTA
*
161354 ATATCGATTTTATTTTT
1 ATATCAATTTTATTTTT
161371 ATATCAATTTTATTTTT
1 ATATCAATTTTATTTTT
* *
161388 ATTTTTAATTTTATTT
1 A-TATCAATTTTATTT
161404 AAATTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 17 0.59
18 12 0.41
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (17 bp):
ATATCAATTTTATTTTT
Found at i:162359 original size:21 final size:21
Alignment explanation
Indices: 162333--162391 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
162323 AAAGATATAT
162333 TTGGATGAAATG-ATGCATTGG
1 TTGGATGAAA-GAATGCATTGG
**
162354 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAGAATGCATTGG
*
162375 TTGGATGAAAAAATGCA
1 TTGGATGAAAGAATGCA
162392 ACTTTTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 1 0.03
21 33 0.97
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (21 bp):
TTGGATGAAAGAATGCATTGG
Found at i:162397 original size:21 final size:21
Alignment explanation
Indices: 162354--162397 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
162344 GATGCATTGG
* **
162354 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAAAATGCAACTT
162375 TTGGATGAAAAAATGCAACTT
1 TTGGATGAAAAAATGCAACTT
162396 TT
1 TT
162398 AATAACTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Found at i:167418 original size:21 final size:21
Alignment explanation
Indices: 167394--167452 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
167384 AAAGATATAT
167394 TTGGATAAAATG-ATGCATTGG
1 TTGGATAAAA-GAATGCATTGG
* **
167415 TTGGATGAAAGAATGCATTTT
1 TTGGATAAAAGAATGCATTGG
167436 TTGGATGAAAA-AATGCA
1 TTGGAT-AAAAGAATGCA
167453 ACTTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.32
Consensus pattern (21 bp):
TTGGATAAAAGAATGCATTGG
Found at i:167458 original size:21 final size:21
Alignment explanation
Indices: 167415--167458 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
167405 GATGCATTGG
* **
167415 TTGGATGAAAGAATGCATTTT
1 TTGGATGAAAAAATGCAACTT
167436 TTGGATGAAAAAATGCAACTT
1 TTGGATGAAAAAATGCAACTT
167457 TT
1 TT
167459 AATAACTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (21 bp):
TTGGATGAAAAAATGCAACTT
Found at i:171454 original size:72 final size:72
Alignment explanation
Indices: 171360--171494 Score: 200
Period size: 72 Copynumber: 1.9 Consensus size: 72
171350 GAGATTACGT
* * * *
171360 TAAAAAATTATTCTAGAGATAAAAATAAATAATTAAGATAAACTTC-AAATAATGACACTCAAAA
1 TAAAAAACTATTCTAAAAATAAAAATAAATAATTAAAATAAA-TTCAAAATAATGACACTCAAAA
171424 GACTGTTC
65 GACTGTTC
* *
171432 TAAAAAACTATTTTAAAAATAAAAATAAATAATTAAAATAAATTCAAAATAGTGACACTCAAA
1 TAAAAAACTATTCTAAAAATAAAAATAAATAATTAAAATAAATTCAAAATAATGACACTCAAA
171495 TGTTTCCCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
71 3 0.05
72 53 0.95
ACGTcount: A:0.57, C:0.10, G:0.06, T:0.27
Consensus pattern (72 bp):
TAAAAAACTATTCTAAAAATAAAAATAAATAATTAAAATAAATTCAAAATAATGACACTCAAAAG
ACTGTTC
Found at i:171680 original size:23 final size:23
Alignment explanation
Indices: 171650--171696 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
171640 TGCAACAAGG
171650 CACAACTATTTGAAGTTCCTATC
1 CACAACTATTTGAAGTTCCTATC
171673 CACAACTATTTGAAGTTCCTATC
1 CACAACTATTTGAAGTTCCTATC
171696 C
1 C
171697 TTCTCATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (23 bp):
CACAACTATTTGAAGTTCCTATC
Found at i:173377 original size:26 final size:27
Alignment explanation
Indices: 173341--173398 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
173331 TAAGAGATTT
*
173341 TTAATATTTATAAAAAATTAA-TTAAA
1 TTAATAATTATAAAAAATTAATTTAAA
* *
173367 TTAATAATTATATAAATTTAATTTAAA
1 TTAATAATTATAAAAAATTAATTTAAA
173394 -TAATA
1 TTAATA
173399 TTAAATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
TTAATAATTATAAAAAATTAATTTAAA
Found at i:173392 original size:22 final size:21
Alignment explanation
Indices: 173362--173405 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
173352 AAAAAATTAA
173362 TTAAATT-AATAATTATATAAAT
1 TTAAATTAAATAA-TAT-TAAAT
*
173384 TTAATTTAAATAATATTAAAT
1 TTAAATTAAATAATATTAAAT
173405 T
1 T
173406 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 9 0.45
23 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAATTAAATAATATTAAAT
Found at i:173452 original size:17 final size:17
Alignment explanation
Indices: 173416--173461 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
173406 ATTATTATTT
*
173416 ATTTAAATATTTTTTATA
1 ATTTAAA-ATTTTATATA
*
173434 ATTTAAAATTTTATGTA
1 ATTTAAAATTTTATATA
173451 A-TT-AAATTTTA
1 ATTTAAAATTTTA
173462 AGTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 8 0.31
16 2 0.08
17 9 0.35
18 7 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTAAAATTTTATATA
Found at i:174211 original size:15 final size:16
Alignment explanation
Indices: 174167--174211 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
174157 ACATGATACG
174167 AACATAATATAAATAA
1 AACATAATATAAATAA
174183 AACATAAT-TAAATAA
1 AACATAATATAAATAA
*
174198 AA-ATAATATGAATA
1 AACATAATATAAATA
174212 TGAAATGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 14 0.52
16 8 0.30
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (16 bp):
AACATAATATAAATAA
Found at i:174702 original size:13 final size:13
Alignment explanation
Indices: 174684--174713 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
174674 TATTTTAAAT
*
174684 AATAAAAAATATG
1 AATAAAAAATATA
174697 AATAAAAAATATA
1 AATAAAAAATATA
174710 AATA
1 AATA
174714 TGTAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (13 bp):
AATAAAAAATATA
Found at i:175221 original size:9 final size:9
Alignment explanation
Indices: 175207--175240 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
175197 TAAAATGAGT
175207 TTTATATAA
1 TTTATATAA
175216 TTTATA-AA
1 TTTATATAA
175224 TTTTATATAA
1 -TTTATATAA
175234 TTTATAT
1 TTTATAT
175241 TTATTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.09
9 19 0.83
10 2 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTATATAA
Found at i:175282 original size:20 final size:20
Alignment explanation
Indices: 175215--175282 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
175205 GTTTTATATA
* *
175215 ATTTATAAATTTTATA--TA
1 ATTTATATATTTTATATTTT
*
175233 ATTTATATTTATTTA-ATTTT
1 ATTTATATAT-TTTATATTTT
175253 A-TTATCATATTTTATATTTT
1 ATTTAT-ATATTTTATATTTT
175273 ATTTATATAT
1 ATTTATATAT
175283 ATCATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.22
19 12 0.30
20 15 0.38
21 4 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTATATATTTTATATTTT
Found at i:175289 original size:20 final size:20
Alignment explanation
Indices: 175248--175289 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
175238 TATTTATTTA
* *
175248 ATTTTATTATCATATTTTAT
1 ATTTTATTATCATATATCAT
175268 ATTTTATTTAT-ATATATCAT
1 ATTTTA-TTATCATATATCAT
175288 AT
1 AT
175290 ATATTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTATTATCATATATCAT
Found at i:175291 original size:29 final size:29
Alignment explanation
Indices: 175228--175302 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
175218 TATAAATTTT
* * *
175228 ATATAATTTATA-TTTATTTAATTTTATT
1 ATATATTTTATATTTTATTTAATTATATC
175256 ATCATATTTTATATTTTATTT-ATATATATC
1 AT-ATATTTTATATTTTATTTAAT-TATATC
* *
175286 ATATATATTAAATTTTA
1 ATATATTTTATATTTTA
175303 AATAAATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.05
29 24 0.62
30 13 0.33
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (29 bp):
ATATATTTTATATTTTATTTAATTATATC
Found at i:175348 original size:21 final size:21
Alignment explanation
Indices: 175295--175353 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
175285 CATATATATT
175295 AAATTTTAA-A-TAA-ATAAA
1 AAATTTTAATATTAATATAAA
*
175313 AAATTATTTAT-TTAATATAAA
1 AAATT-TTAATATTAATATAAA
175334 AAATTTTAATATTAAATATA
1 AAATTTTAATATT-AATATA
175354 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 7 0.21
21 12 0.36
22 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTTAATATTAATATAAA
Found at i:175376 original size:18 final size:20
Alignment explanation
Indices: 175341--175378 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
175331 AAAAAATTTT
*
175341 AATATTAAATATATATTTAA
1 AATATAAAATATATATTTAA
175361 AATATAAAAT-TA-ATTTAA
1 AATATAAAATATATATTTAA
175379 TTTTATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AATATAAAATATATATTTAA
Found at i:178157 original size:94 final size:94
Alignment explanation
Indices: 178045--178253 Score: 312
Period size: 94 Copynumber: 2.2 Consensus size: 94
178035 TGACATTTAT
* *
178045 AATCCATGCATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATTTGATT-CTCGTTAAGAATT
1 AATCCATGCATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATTTGATTCCT-ATTAAAAATT
* *
178109 TATGCATTTATCATATTTATTCAAAAATAA
65 TATACATTTATCATATTTATTCAAAAACAA
* * *
178139 AATCCATGCATTAGTCTTATTAACTTCTTTTATATCAGAAAGAATTTGTTTCCTATTAAAAATTT
1 AATCCATGCATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATTTGATTCCTATTAAAAATTT
* *
178204 ATACATTTATTATATTTATTCAAAAACAG
66 ATACATTTATCATATTTATTCAAAAACAA
*
178233 AATCTATGCATTAGTCTTATC
1 AATCCATGCATTAGTCTTATC
178254 TTTTGAACTC
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 101 0.98
95 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (94 bp):
AATCCATGCATTAGTCTTATCAACTTCTTTCATATCAGAAAGAATTTGATTCCTATTAAAAATTT
ATACATTTATCATATTTATTCAAAAACAA
Found at i:178457 original size:39 final size:39
Alignment explanation
Indices: 178414--178537 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
178404 CATTAACCTC
*
178414 ATTTTTTAAATTTTAATAAAAAATTTATATATTAGTCAT
1 ATTTTTTAAATTTTAATAAAAAATTTATATATTAGTAAT
* * * * * *
178453 ATTTTTTATATTCTAAT-AAATATCTATACATTACTAAT
1 ATTTTTTAAATTTTAATAAAAAATTTATATATTAGTAAT
* * * *
178491 ATATTTTAAAATTTAATAAAAAATTTATGTATTAGTTAT
1 ATTTTTTAAATTTTAATAAAAAATTTATATATTAGTAAT
178530 ATCTTTTT
1 AT-TTTTT
178538 TATTTCAGTT
Statistics
Matches: 65, Mismatches: 18, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
38 29 0.45
39 32 0.49
40 4 0.06
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (39 bp):
ATTTTTTAAATTTTAATAAAAAATTTATATATTAGTAAT
Found at i:178508 original size:38 final size:37
Alignment explanation
Indices: 178416--178512 Score: 95
Period size: 38 Copynumber: 2.5 Consensus size: 37
178406 TTAACCTCAT
* * * * *
178416 TTTTTAAATTTTAATAAAAAATTTATATATTAGTCATA
1 TTTTTAAAATTTAAT-AAAAATCTATACATTACTAATA
* * *
178454 TTTTTTATATTCTAATAAATATCTATACATTACTAATA
1 TTTTTAAAATT-TAATAAAAATCTATACATTACTAATA
178492 TATTTTAAAATTTAATAAAAA
1 T-TTTTAAAATTTAATAAAAA
178513 ATTTATGTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
38 34 0.74
39 12 0.26
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.48
Consensus pattern (37 bp):
TTTTTAAAATTTAATAAAAATCTATACATTACTAATA
Found at i:178824 original size:41 final size:41
Alignment explanation
Indices: 178737--178851 Score: 153
Period size: 41 Copynumber: 2.9 Consensus size: 41
178727 ATAATGAATC
** * *
178737 ATTTTCTTTCATTTTCA-CCATAAACATATAA-GGCTAATT
1 ATTTTCTTTCATTTTCATCGTTAAACAAACAAGGGCTAATT
*
178776 ATTTTCTTTCAATTTCATCGTTAAACAAACAAGGGCTAATT
1 ATTTTCTTTCATTTTCATCGTTAAACAAACAAGGGCTAATT
* *
178817 ATTTTCTTTCATTTTCATAGTTAAATAAACAAGGG
1 ATTTTCTTTCATTTTCATCGTTAAACAAACAAGGG
178852 TTATTAATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
39 16 0.24
40 10 0.15
41 40 0.61
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.42
Consensus pattern (41 bp):
ATTTTCTTTCATTTTCATCGTTAAACAAACAAGGGCTAATT
Found at i:179138 original size:7 final size:8
Alignment explanation
Indices: 179119--179175 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
179109 TTTATAAATT
179119 TTAATATA
1 TTAATATA
179127 TTAATA-A
1 TTAATATA
179134 TTAATATTA
1 TTAATA-TA
179143 TATAA-ATA
1 T-TAATATA
179151 TTAATATA
1 TTAATATA
*
179159 TTTATAT-
1 TTAATATA
*
179166 TTATTATA
1 TTAATATA
179174 TT
1 TT
179176 TTTTTACATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
7 15 0.37
8 20 0.49
9 3 0.07
10 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAATATA
Found at i:179139 original size:15 final size:15
Alignment explanation
Indices: 179119--179175 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
179109 TTTATAAATT
179119 TTAATATATTAATAA
1 TTAATATATTAATAA
179134 TTAATATTATATAA-ATA
1 TTAATA-TAT-TAATA-A
* *
179151 TTAATATATTTATAT
1 TTAATATATTAATAA
*
179166 TTATTATATT
1 TTAATATATT
179176 TTTTTACATA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 17 0.49
16 8 0.23
17 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATATATTAATAA
Found at i:179164 original size:18 final size:18
Alignment explanation
Indices: 179109--179164 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 18
179099 AAAAATATTT
*
179109 TTTATAAATTTTAATATA
1 TTTATAAATATTAATATA
*
179127 -TTA-ATA-ATTAATAT-
1 TTTATAAATATTAATATA
*
179141 TATATAAATATTAATATA
1 TTTATAAATATTAATATA
179159 TTTATA
1 TTTATA
179165 TTTATTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 8
0.69 0.12 0.19
Matches are distributed among these distances:
15 9 0.31
16 4 0.14
17 11 0.38
18 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATAAATATTAATATA
Found at i:181285 original size:15 final size:16
Alignment explanation
Indices: 181265--181298 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
181255 AGGTTATGCC
181265 TAAGAAAA-AAAAAAT
1 TAAGAAAATAAAAAAT
*
181280 TAAGAAAATCAAAAAT
1 TAAGAAAATAAAAAAT
181296 TAA
1 TAA
181299 TTTGAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (16 bp):
TAAGAAAATAAAAAAT
Found at i:185735 original size:20 final size:19
Alignment explanation
Indices: 185712--185751 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
185702 TTAGATCAAA
*
185712 TAATTAGTTAGATTTTAATT
1 TAATTAATTAGA-TTTAATT
*
185732 TAATTAATTCGATTTAATT
1 TAATTAATTAGATTTAATT
185751 T
1 T
185752 TTTAATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
TAATTAATTAGATTTAATT
Found at i:185931 original size:2 final size:2
Alignment explanation
Indices: 185924--185961 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
185914 GCCTACAGAT
185924 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
185962 ATTTGACGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:186241 original size:4 final size:4
Alignment explanation
Indices: 186232--186256 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
186222 TTGCACTCAA
186232 TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT T
186257 TTCATTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TCTT
Found at i:187504 original size:13 final size:13
Alignment explanation
Indices: 187486--187513 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
187476 AAAAATATTT
187486 AAAAAATAAAATA
1 AAAAAATAAAATA
187499 AAAAAATAAAATA
1 AAAAAATAAAATA
187512 AA
1 AA
187514 TAATTGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:194533 original size:20 final size:20
Alignment explanation
Indices: 194510--194557 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
194500 TTATAGAACA
* *
194510 TATCGATATATTCATACATG
1 TATCGATATATTCAAAAATG
*
194530 TATCGATATATTGAAAAATG
1 TATCGATATATTCAAAAATG
194550 TATCGATA
1 TATCGATA
194558 CATCTGGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (20 bp):
TATCGATATATTCAAAAATG
Found at i:195557 original size:89 final size:89
Alignment explanation
Indices: 195387--195560 Score: 260
Period size: 89 Copynumber: 2.0 Consensus size: 89
195377 TCAATGAATC
*
195387 TTTTATTAGATATTAAATTGTGGTCACAATTTATATTAGCCATTGCATATTCATGATAGTGAATT
1 TTTTATTAGATATTAAATTGTGGTCACAATTTATATTAGCCATTGCATATTCATGATAGTAAATT
* *
195452 CAACATGTCTTTAATCTATAAATT
66 CAACATATCTTAAATCTATAAATT
** *
195476 TTTTATTAGATATTAAATTGTGGTCACAA-TTATATTAGCCATTTTTATATTTATGATAGTAAAT
1 TTTTATTAGATATTAAATTGTGGTCACAATTTATATTAGCCA-TTGCATATTCATGATAGTAAAT
* *
195540 TTAGCATATCTTAAATCTATA
65 TCAACATATCTTAAATCTATA
195561 GTAAGATTTA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
88 12 0.16
89 64 0.84
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (89 bp):
TTTTATTAGATATTAAATTGTGGTCACAATTTATATTAGCCATTGCATATTCATGATAGTAAATT
CAACATATCTTAAATCTATAAATT
Found at i:197001 original size:40 final size:39
Alignment explanation
Indices: 196941--197018 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
196931 TTTTACCCAG
*
196941 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTATTCAATATATCGATACAT-TATGA
* *
196981 ATGTATCGATATATTATTCAATGTATCGATACATTATG
1 ATGTATCGATACATTATTCAATATATCGATACATTATG
197019 TCTTTCTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTATTCAATATATCGATACATTATGA
Found at i:197016 original size:20 final size:20
Alignment explanation
Indices: 196941--197017 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
196931 TTTTACCCAG
*
196941 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTATTCA
* *
196961 ATATATCGATACATGTA-TGA
1 ATGTATCGATACAT-TATTCA
*
196981 ATGTATCGATATATTATTCA
1 ATGTATCGATACATTATTCA
197001 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
197018 GTCTTTCTAC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.04
20 45 0.94
21 1 0.02
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:200857 original size:18 final size:16
Alignment explanation
Indices: 200820--200849 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
200810 ATTTTAAATA
200820 AAAT-TATAACATAAT
1 AAATATATAACATAAT
200835 AAATATATAACATAA
1 AAATATATAACATAA
200850 CTTAAATACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATATAACATAAT
Found at i:209458 original size:12 final size:12
Alignment explanation
Indices: 209441--209466 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
209431 TGCAGTCATC
209441 TTCAAAATTAAT
1 TTCAAAATTAAT
209453 TTCAAAATTAAT
1 TTCAAAATTAAT
209465 TT
1 TT
209467 TTAATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTCAAAATTAAT
Found at i:210332 original size:22 final size:22
Alignment explanation
Indices: 210304--210350 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
210294 CACAATATTC
* *
210304 AAATATAAT-ATGACTTTGAATG
1 AAATAT-ATCATGACTCTAAATG
210326 AAATATATCATGACTCTAAATG
1 AAATATATCATGACTCTAAATG
210348 AAA
1 AAA
210351 CTTATTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.32
Consensus pattern (22 bp):
AAATATATCATGACTCTAAATG
Found at i:216371 original size:12 final size:12
Alignment explanation
Indices: 216356--216388 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
216346 AGTTAAAAGT
216356 TTATTTAATAAA
1 TTATTTAATAAA
*
216368 TTATTTAA-AAC
1 TTATTTAATAAA
216379 TTATTTAATA
1 TTATTTAATA
216389 TTTAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTTAATAAA
Found at i:216382 original size:23 final size:22
Alignment explanation
Indices: 216330--216388 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
216320 ATTCACAAAC
216330 AAACTTATTT-ATAAATAGTTA
1 AAACTTATTTAATAAATAGTTA
* *
216351 AAAGTTTATTTAATAAATTATTTA
1 AAA-CTTATTTAATAAA-TAGTTA
216375 AAACTTATTTAATA
1 AAACTTATTTAATA
216389 TTTAATTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 6 0.19
23 15 0.47
24 8 0.25
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (22 bp):
AAACTTATTTAATAAATAGTTA
Found at i:231929 original size:6 final size:6
Alignment explanation
Indices: 231915--231971 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
231905 ATTAATTAAT
* * *
231915 TTATTA TTATAA TTATAA TTATAA TAATAA -TATAA -TATATA TAATAA
1 TTATAA TTATAA TTATAA TTATAA TTATAA TTATAA TTATA-A TTATAA
*
231962 TAATAA TTAT
1 TTATAA TTAT
231972 TTTCTTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
5 8 0.18
6 33 0.75
7 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTATAA
Found at i:231941 original size:3 final size:3
Alignment explanation
Indices: 231923--231968 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
231913 ATTTATTATT
* *
231923 ATA ATT ATA ATT ATA ATA ATA AT- ATA AT- ATA TATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
231967 AT
1 AT
231969 TATTTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:231948 original size:23 final size:23
Alignment explanation
Indices: 231922--231968 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
231912 AATTTATTAT
*
231922 TATAAT-TATAATTATAATAATAA
1 TATAATATAT-ATAATAATAATAA
231945 TATAATATATATAATAATAATAA
1 TATAATATATATAATAATAATAA
231968 T
1 T
231969 TATTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATATATATAATAATAATAA
Found at i:232054 original size:23 final size:22
Alignment explanation
Indices: 232016--232066 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
232006 TAAAATTTGA
**
232016 ATTTTTAAAATATTTTTACTTT
1 ATTTTTAAAATATTTTTAAATT
232038 ATTTTTACAAGAT-TTTTTAAATT
1 ATTTTTA-AA-ATATTTTTAAATT
232061 ATTTTT
1 ATTTTT
232067 TATAGAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 16 0.64
24 2 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTAAAATATTTTTAAATT
Found at i:232447 original size:13 final size:14
Alignment explanation
Indices: 232429--232458 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
232419 ATATTTAAGA
232429 TTTAAAATTTT-AT
1 TTTAAAATTTTAAT
232442 TTTAAAATTTTAAT
1 TTTAAAATTTTAAT
232456 TTT
1 TTT
232459 TTATTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTAAAATTTTAAT
Found at i:236453 original size:20 final size:20
Alignment explanation
Indices: 236425--236499 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
236415 TTTTACCTTG
236425 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
236445 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
236465 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
236485 ATGTATCGATACATT
1 ATGTATCGATACATT
236500 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:236492 original size:40 final size:39
Alignment explanation
Indices: 236425--236502 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
236415 TTTTACCTTG
* *
236425 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
236465 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
236503 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:237447 original size:22 final size:22
Alignment explanation
Indices: 237413--237466 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
237403 AGCCTTTGAC
237413 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
237434 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
237456 CATGCATTTTT
1 CATGCATTTTT
237467 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:243640 original size:21 final size:21
Alignment explanation
Indices: 243616--243662 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
243606 AAATGAAAAG
243616 AAAAAGTGCAAAAACAAAA-TAA
1 AAAAAG-G-AAAAACAAAACTAA
*
243638 AAAAAGGAACAACAAAACTAA
1 AAAAAGGAAAAACAAAACTAA
243659 AAAA
1 AAAA
243663 TGAGGACATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 8 0.35
22 6 0.26
ACGTcount: A:0.74, C:0.11, G:0.09, T:0.06
Consensus pattern (21 bp):
AAAAAGGAAAAACAAAACTAA
Found at i:245883 original size:29 final size:28
Alignment explanation
Indices: 244930--247245 Score: 2214
Period size: 28 Copynumber: 81.6 Consensus size: 28
244920 CTTCTCTAGT
* *
244930 AGTGTCACCTCTTT-AAAGCCCACAACTC
1 AGTGGCACC-CTTTCAAAGCCCACAAGTC
* * * *
244958 CGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
244985 CGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245012 CGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245039 CGTGGCATCCCTTT-TAAGTCCACAACTTC
1 AGTGGCA-CCCTTTCAAAGCCCACAA-GTC
* * * *
245068 -GTGGCATCCTTTTAAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* ** * * *
245095 CGTGGCATTCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245122 CGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245149 CGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245176 CGTGGCATCCCTTT-TAAGACCACAACTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
* ** * *
245204 CGTGGCACCCTTTTTAAGTACCACAACTC
1 AGTGGCACCCTTTCAAAG-CCCACAAGTC
* * * * *
245233 CGTGGCACCCTTT-TAAGTCCATAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * *
245260 CGTGGCATCTCTTT-TAAGTCCACAACTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
* * * *
245288 TGTGGCACCCTTTTAAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* ** * *
245316 CGTGGCACCCTTT-TTAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245343 TGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245370 TGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245397 CGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245424 TGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245451 CGTGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * * *
245478 CGTGGCATCCTTT-TAAGACCTCAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
245505 CGTGGCACCCTTT--AAGTCCATAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * ** * *
245531 CGTGGCATCTCTTT-TGAGTCCACAACTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
* * ** *
245559 TGTGGCACCCTTTTAAAATCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * ** *
245587 CGTGGCACTCTTTTAAAATCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
245615 TGTGGCACCCATTTCAAAGCCCACACAAGTC
1 AGTGGCACCC-TTTCAAAG-CC-CACAAGTC
*
245646 GGTGGCAACCCATTTCAAAGCCCACAAGTC
1 AGTGGC-ACCC-TTTCAAAGCCCACAAGTC
245676 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
245704 AGTGGCACCCTTTTCAAAGCCCACGCAAGTT
1 AGTGGCACCC-TTTCAAAGCCCA--CAAGTC
* *
245735 AGTGGTACCCTTTCGAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * * *
245763 AGTGGCACCATTGCGATGCCCATAATTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
245791 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
245819 AGTGGCACCCTTTTAAAGCCCACACAAGTC
1 AGTGGCACCCTTTCAAAG-CC-CACAAGTC
245849 AGTGGCACTCCTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
245878 AGTGGCACTCCTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
*
245907 AGTGGCACTCTTTTCAAAGCCCACATA-TC
1 AGTGGCAC-CCTTTCAAAGCCCACA-AGTC
245936 AGTGGCACCCTTTTCAAAGCCCACAAGTC
1 AGTGGCACCC-TTTCAAAGCCCACAAGTC
*
245965 AGTGGCACCCTTTCAAAGCCCACAAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
245993 AGTGGCACCTTTTCAGAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
** *
246021 AGTGGCACTTTTTCGAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
246049 AGTGGCACCATTGCGAAGCCCACAATTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * *
246077 ACTAGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
246105 AGTGGCACCCTTTTAAAGCCCACACAAGTT
1 AGTGGCACCCTTTCAAAG-CC-CACAAGTC
* *
246135 AGTGGCACTCCTTTTAAAGCTCACGCAAGTC
1 AGTGGCAC-CCTTTCAAAGC-C-CACAAGTC
* * *
246166 AGTGGTACCTTTTCAAAGCCCACGAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
246194 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * *
246222 AGTGGCATCCTTTCAAAGCCCACGAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
246250 AGTGGCACCCTTTCAAAGCCCACACAAGTC
1 AGTGGCACCCTTTCAAAG-CC-CACAAGTC
246280 AGTGGCACTCCTTTCAAAGCCCACGCAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCA--CAAGTC
*
246311 AGTGGCACCCTTTCAAAGCCCACAAATC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * *
246339 AGTGGCACTCTTTTCAAAGCTCACAAGTT
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
246368 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
246396 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
246424 AGTGGCACTCTTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
246453 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
246481 AGTGGCACTCCTTTCAAAGCCCACAAGTT
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
246510 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
246538 AGTGGCACTCCTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
*
246567 AGTGGCACTCCTTTCAAAGCCCACAAATC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
*
246596 AGTGGCACTCTTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
* * *
246625 AATGGCACCTTTTCAAAGCCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
246653 AGT-GCACCCTTTTAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
246680 AGTGGCACTTCTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
* * * *
246709 TGTGGCACTCTTTTCAAAGCACACAAATC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
* * *
246738 AGTGGCACTCTTTTCAAAGCACACAAGTT
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
246767 AGTGGCACCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
246795 AGTGGCACTCCTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
* *
246824 AGTGGCACTCTTTTCAAAGCCCACAAATC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
* *
246853 AATGGCACTCTTTTCAAAGCCCACAAGTC
1 AGTGGCAC-CCTTTCAAAGCCCACAAGTC
*
246882 AGTGGCACCCTTTCAAAGCCCACAAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
246910 AGTGGCACCGTTTCAGAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
246938 AGTGGCACCCTTTCGAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
246966 AGTGGCACCATTGCGAAGCCCACAATTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
246994 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
247022 AGTGGCACCCTTTTAAAGCCCACACAAGTC
1 AGTGGCACCCTTTCAAAG-CC-CACAAGTC
* *
247052 AGTGGCACTCCTTTTAAAGCTCACGCAAGTC
1 AGTGGCAC-CCTTTCAAAGC-C-CACAAGTC
* *
247083 AGTGGTACCTTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
247111 AGTGGCACTCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * *
247139 AGTGGCATCCTTTCAAAGCCCACGAGTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
**
247167 AGTGGCATTCTTTCAAAGCCCACGAAAGTC
1 AGTGGCACCCTTTCAAAGCCCAC--AAGTC
*
247197 AGTGGCACCCTTTTAAAGCCCATGCAAGTC
1 AGTGGCACCCTTTCAAAGCCCA--CAAGTC
*
247227 AATGGCAACCCTTTTCAAA
1 AGTGGC-ACCC-TTTCAAA
247246 TCACCACTGT
Statistics
Matches: 2044, Mismatches: 193, Indels: 98
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.01
27 394 0.19
28 867 0.42
29 473 0.23
30 157 0.08
31 116 0.06
32 20 0.01
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.24
Consensus pattern (28 bp):
AGTGGCACCCTTTCAAAGCCCACAAGTC
Found at i:247240 original size:917 final size:922
Alignment explanation
Indices: 245588--247245 Score: 2759
Period size: 917 Copynumber: 1.8 Consensus size: 922
245578 CCACAACTCC
* * * * *
245588 GTGGCACTCTTTTAAAATCCACAACTCTGTGGCACCCATTTCAAAGCCCACACAAGTCGGTGGCA
1 GTGGCACCCTTTCAAAACCCACAACTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCA
* *
245653 ACCCATTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTT
66 ACCCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTT
* * * * * *
245718 CAAAGCCCACGCAAGTTAGTGGTACCCTTTCGAAGCCCACAAGTCAGTGGCACCATTGCGATGCC
131 CAAAGCCCAC-CAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTGCAAAGCC
* * * *
245783 CATAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTTAAAGCCCACACAAGT
195 CACAAGTCAGTGGCACTCTTTCAAAGCACACAAATCAGTGGCACCCTTTTAAAG-CCACACAAGT
245848 CAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
259 CAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGC
* *
245913 ACTCTTTTCAAAGCCCACATATCAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
324 ACTCTTTTCAAAGCCCACAAATCAATGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
* **
245978 CAAAGCCCACAAGTTAGTGGCACCTTTTCAGAGCCCACAAGTCAGTGGCACTTTTTCGAAGCCCA
389 CAAAGCCCACAAGTTAGTGGCACCGTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCA
246043 CAAGTCAGTGGCACCATTGCGAAGCCCACAATTCACTAGCACTCTTTCAAAGCCCACAAGTCAGT
454 CAAGTCAGTGGCACCATTGCGAAGCCCACAATTCACTAGCACTCTTTCAAAGCCCACAAGTCAGT
*
246108 GGCACCCTTTTAAAGCCCACACAAGTTAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTA
519 GGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTA
*
246173 CCTTTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
584 CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAA
246238 AGCCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCA
649 AGCCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCA
*
246303 CGCAAGTCAGTGGCACCC-TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCTCACAAGT
714 CGCAAGTCAATGGCACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCTCACAAGT
246367 TAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
779 TAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC
246432 TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
844 TCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCA
246497 AAGCCCACAAGTTA
909 AAGCCCACAAGTTA
* *
246511 GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCC-TTTCAAAG-CC-CACAAGTCAGTGGC
1 GTGGCACCCTTTCAAAACCCACAACTCAGTGGCAC-CCATTTCAAAGCCCACACAAGTCAGTGGC
*
246573 -ACTCC-TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAATGGCA-CCT
65 AAC-CCATTTCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAATGGCACCCT
* *
246635 TTTCAAAGCCCA-CAACTCAGT-GCACCCTTTTAAAGCCCACAAGTCAGTGGCACTTC-TTTCAA
128 TTTCAAAGCCCACCAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAC--CATTGCAA
* *
246697 AGCCCACAAGTCTGTGGCACTCTTTTCAAAGCACACAAATCAGTGGCACTCTTTTCAAAG-CACA
191 AGCCCACAAGTCAGTGGCACTC-TTTCAAAGCACACAAATCAGTGGCACCCTTTT-AAAGCCACA
*
246761 CAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
254 CAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCA
*
246825 GTGGCACTCTTTTCAAAGCCCACAAATCAATGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
319 GTGGCACTCTTTTCAAAGCCCACAAATCAATGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCAC
246890 CCTTTCAAAGCCCACAAGTTAGTGGCACCGTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAA
384 CCTTTCAAAGCCCACAAGTTAGTGGCACCGTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAA
* *
246955 GCCCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAG
449 GCCCACAAGTCAGTGGCACCATTGCGAAGCCCACAATTCACTAGCACTCTTTCAAAGCCCACAAG
247020 TCAGTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAG
514 TCAGTGGCACCCTTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAG
247085 TGGTACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCT
579 TGGTACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCT
** *
247150 TTCAAAGCCCACGAGTTAGTGGCATTCTTTCAAAGCCCACGA-AAGTCAGTGGCAC-CCTTTTAA
644 TTCAAAGCCCACGAGTTAGTGGCACCCTTTCAAAGCCCAC-ACAAGTCAGTGGCACTCCTTTCAA
*
247213 AGCCCATGCAAGTCAATGGCAACCCTTTTCAAA
708 AGCCCACGCAAGTCAATGGC-ACCCTTTTCAAA
247246 TCACCACTGT
Statistics
Matches: 685, Mismatches: 40, Indels: 25
0.91 0.05 0.03
Matches are distributed among these distances:
916 25 0.04
917 449 0.66
918 54 0.08
919 30 0.04
920 46 0.07
921 40 0.06
922 2 0.00
923 37 0.05
924 2 0.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (922 bp):
GTGGCACCCTTTCAAAACCCACAACTCAGTGGCACCCATTTCAAAGCCCACACAAGTCAGTGGCA
ACCCATTTCAAAGCCCACAAATCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTT
CAAAGCCCACCAACTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCATTGCAAAGCCC
ACAAGTCAGTGGCACTCTTTCAAAGCACACAAATCAGTGGCACCCTTTTAAAGCCACACAAGTCA
GTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCAC
TCTTTTCAAAGCCCACAAATCAATGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAGTTAGTGGCACCGTTTCAGAGCCCACAAGTCAGTGGCACCCTTTCGAAGCCCACA
AGTCAGTGGCACCATTGCGAAGCCCACAATTCACTAGCACTCTTTCAAAGCCCACAAGTCAGTGG
CACCCTTTTAAAGCCCACACAAGTCAGTGGCACTCCTTTTAAAGCTCACGCAAGTCAGTGGTACC
TTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
CCCACGAGTTAGTGGCACCCTTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACG
CAAGTCAATGGCACCCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCTCACAAGTTA
GTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTC
TTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAA
GCCCACAAGTTA
Found at i:247786 original size:20 final size:20
Alignment explanation
Indices: 247758--247832 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
247748 TCATACCATG
247758 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
247778 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
247798 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
247818 ATGTATCGATACATT
1 ATGTATCGATACATT
247833 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:247825 original size:40 final size:39
Alignment explanation
Indices: 247758--247835 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
247748 TCATACCATG
* *
247758 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
247798 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
247836 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:248344 original size:10 final size:11
Alignment explanation
Indices: 248318--248348 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
248308 ACATCAACAC
248318 CAAAAACTCAA
1 CAAAAACTCAA
248329 CAAAAACTCAA
1 CAAAAACTCAA
248340 CAAAAACTC
1 CAAAAACTC
248349 CATTCCCGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.61, C:0.29, G:0.00, T:0.10
Consensus pattern (11 bp):
CAAAAACTCAA
Found at i:248790 original size:22 final size:22
Alignment explanation
Indices: 248756--248809 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
248746 AGCCTTTGAC
248756 CATGCA-TTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
248777 CATGCATTTTTTTATTATGTTT
1 CATGCATTTTTTTATTATGTTT
248799 CATGCATTTTT
1 CATGCATTTTT
248810 AACATGTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.19, C:0.11, G:0.09, T:0.61
Consensus pattern (22 bp):
CATGCATTTTTTTATTATGTTT
Found at i:251535 original size:13 final size:13
Alignment explanation
Indices: 251517--251541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
251507 CATAAAATGT
251517 TGTATCGATACAA
1 TGTATCGATACAA
251530 TGTATCGATACA
1 TGTATCGATACA
251542 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:251539 original size:33 final size:33
Alignment explanation
Indices: 251497--251566 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
251487 TTCAACGATT
251497 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
251530 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
251563 TGTA
1 TGTA
251567 AACTACTGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:251626 original size:13 final size:13
Alignment explanation
Indices: 251608--251632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
251598 ATTACTCACA
251608 TGTATCGATACAT
1 TGTATCGATACAT
251621 TGTATCGATACA
1 TGTATCGATACA
251633 CGGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:251769 original size:52 final size:52
Alignment explanation
Indices: 251641--251761 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
251631 CACGGATCTT
*
251641 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
251693 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
251745 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
251762 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:258567 original size:25 final size:23
Alignment explanation
Indices: 258525--258613 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 23
258515 GTTCTTTTCC
258525 AAAAAAAAGAAACA-AAACAAAAA
1 AAAAAAAAGAAA-AGAAACAAAAA
258548 AGAAAAAAAGAAGAAGAAACAAAAAA
1 A-AAAAAAAGAA-AAGAAAC-AAAAA
* *
258574 AAACAAAAAAAAAAGAAAGGAAAAA
1 AAA-AAAAAGAAAAGAAA-CAAAAA
258599 ACAAAAAAACGAAAA
1 A-AAAAAAA-GAAAA
258614 ACCCCTTTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
23 1 0.02
24 11 0.20
25 24 0.44
26 19 0.35
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (23 bp):
AAAAAAAAGAAAAGAAACAAAAA
Found at i:258567 original size:30 final size:29
Alignment explanation
Indices: 258525--258607 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
258515 GTTCTTTTCC
258525 AAAAA-AAAGAAACAAAACAAAAAAGAAAA
1 AAAAAGAAAGAAACAAAACAAAAAA-AAAA
258554 AAAGAAG-AAGAAACAAAA-AAAAACAAAAA
1 AAA-AAGAAAGAAACAAAACAAAAA-AAAAA
*
258583 AAAAAGAAAGGAA-AAAACAAAAAAA
1 AAAAAGAAAGAAACAAAACAAAAAAA
258608 CGAAAAACCC
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
28 9 0.19
29 25 0.52
30 14 0.29
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (29 bp):
AAAAAGAAAGAAACAAAACAAAAAAAAAA
Found at i:258608 original size:31 final size:32
Alignment explanation
Indices: 258534--258614 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
258524 CAAAAAAAAG
258534 AAACAAAACAAA-AAAGAAAAAAAGAAGAAGAAA
1 AAACAAAA-AAACAAA-AAAAAAAGAAGAAGAAA
* *
258567 CAA-AAAAAAACAAAAAAAAAAGAA-AGGAAA
1 AAACAAAAAAACAAAAAAAAAAGAAGAAGAAA
*
258597 AAACAAAAAAACGAAAAA
1 AAACAAAAAAACAAAAAA
258615 CCCCTTTTCA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 7 0.17
31 26 0.62
32 7 0.17
33 2 0.05
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (32 bp):
AAACAAAAAAACAAAAAAAAAAGAAGAAGAAA
Found at i:259588 original size:30 final size:31
Alignment explanation
Indices: 259551--259635 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 31
259541 CAAATACCTT
259551 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
*
259582 -TCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * * *
259612 TTTAAAGCCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
259636 CACTTTTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 29 0.60
31 19 0.40
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:259715 original size:72 final size:71
Alignment explanation
Indices: 259612--259984 Score: 397
Period size: 72 Copynumber: 5.4 Consensus size: 71
259602 GCATTTTTTC
* *
259612 TTTAAAGCCCACAACTCTGTGGCACAC-TTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
259676 TTTCCCT
65 TTTCCCT
259683 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTT-TTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
259747 TTTCCCTT
65 TTTCCC-T
* *
259755 TTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCA-----
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
259814 ---CCCT
65 TTTCCCT
* * * *
259818 TTT-AAGTCCACGACTCCGTGGCA-CTCTTTTC-CTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
259880 TT-CCT
66 TTCCCT
* * *
259885 TCT-AAGCCCACAACTCCGTGGCATTCTTTTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC-
1 TTTAAAGCCCACAACTCCGTGGCA--C-CTTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACT
*
259948 CTTGTT--CT
62 CTTTTTCCCT
* * * *
259956 TTTTAAGTCCACAACTTCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT
259985 CACCCTTTCT
Statistics
Matches: 259, Mismatches: 22, Indels: 44
0.80 0.07 0.14
Matches are distributed among these distances:
59 2 0.01
60 25 0.10
61 2 0.01
62 18 0.07
63 4 0.02
64 3 0.01
67 23 0.09
69 3 0.01
71 74 0.29
72 78 0.30
73 27 0.10
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (71 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
TTCCCT
Found at i:259722 original size:106 final size:104
Alignment explanation
Indices: 259605--260004 Score: 432
Period size: 106 Copynumber: 3.9 Consensus size: 104
259595 CTCAGTGGCA
* * * *
259605 TTTTTTCTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGC
1 TTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
259670 ACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
66 ACTCTTTTTCCC--TTCAAAGCCCACAACTCCGTGGCACCT
259711 TTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTG
1 TTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTTAAAGCCCACAACTCCGTG
* *
259776 GCAC-CTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACC-
64 GCACTCTT-TTTCCCTTCAAAGCCCACAACTCCGTGGCACCT
* * * *
259816 -----CTTTT-AAGTCCACGACTCCGTGGCACTC-TTTTC-CTTTAAAGCCCACAACTCCGTGGC
1 TTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
* *
259873 ACTCTTTTT-CCTTCTAAGCCCACAACTCCGTGGCATTCTTT
66 ACTCTTTTTCCCTTCAAAGCCCACAACTCCGTGGCA--C-CT
* * * *
259914 TTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC-CTTGTTCTTTTT-AAGTCCACAACTTCGTG
1 TTTTT--TTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTG
**
259977 GCA-TCTTTCACCCTTTCTAAAGCCCACA
64 GCACTCTTTTTCCC-TTC-AAAGCCCACA
260005 CAAGTCGGTG
Statistics
Matches: 251, Mismatches: 22, Indels: 40
0.80 0.07 0.13
Matches are distributed among these distances:
94 26 0.10
95 28 0.11
96 5 0.02
98 4 0.02
99 21 0.08
100 4 0.02
105 10 0.04
106 103 0.41
107 9 0.04
108 41 0.16
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (104 bp):
TTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTTAAAGCCCACAACTCCGTGGC
ACTCTTTTTCCCTTCAAAGCCCACAACTCCGTGGCACCT
Found at i:259740 original size:71 final size:70
Alignment explanation
Indices: 259612--259984 Score: 382
Period size: 71 Copynumber: 5.4 Consensus size: 70
259602 GCATTTTTTC
* * *
259612 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
259677 TTCCCT
65 TTCCCT
259683 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTT
259748 TTCCCTT
65 TTCCC-T
* *
259755 TTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCA-----
1 TTTAAAGCCCACAACTCCGTGGCACCTT-TTTT-TTTTTAAAGCCCACAACTCCGTGGCACTCTT
259814 ---CCCT
64 TTTCCCT
* * * **
259818 TTT-AAGTCCACGACTCCGTGGCA-CTCTTTTCCTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
259881 T-CCT
66 TCCCT
* * *
259885 TCT-AAGCCCACAACTCCGTGGCATTCTTTTTTTTCCTTTTTAAAGCCCACAACTCTGTGGCAC-
1 TTTAAAGCCCACAACTCCGTGGCA--C-CTTTTTT--TTTTTAAAGCCCACAACTCCGTGGCACT
*
259948 CTTGTT--CT
61 CTTTTTCCCT
* * * *
259956 TTTTAAGTCCACAACTTCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTT
259985 CACCCTTTCT
Statistics
Matches: 258, Mismatches: 24, Indels: 42
0.80 0.07 0.13
Matches are distributed among these distances:
59 3 0.01
60 24 0.09
61 2 0.01
62 18 0.07
63 4 0.02
64 3 0.01
67 23 0.09
69 3 0.01
71 79 0.31
72 72 0.28
73 27 0.10
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (70 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
TCCCT
Found at i:259828 original size:27 final size:27
Alignment explanation
Indices: 259788--259880 Score: 87
Period size: 27 Copynumber: 3.2 Consensus size: 27
259778 ACCTTCTTTT
*
259788 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
* *
259815 CCTTTTAAGTCCACGACTCCGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCA--C
*
259844 TTTTCCTTTAAAGCCCACAACTCCGTGGCAC
1 ----CCTTTTAAGCCCACAACTCCGTGGCAC
*
259875 TCTTTT
1 CCTTTT
259881 TCCTTCTAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
27 27 0.52
29 1 0.02
31 1 0.02
33 23 0.44
ACGTcount: A:0.19, C:0.38, G:0.14, T:0.29
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:259858 original size:60 final size:63
Alignment explanation
Indices: 259754--259948 Score: 191
Period size: 60 Copynumber: 3.0 Consensus size: 63
259744 CTTTTTCCCT
259754 TTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACCC
* *
259817 TTTT-AAGTCCACGACTCCGTGGCA-C-TCTTTTCCTT-TAAAGCCCACAACTCCGTGGCACTCT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT-AAGCCCACAACTCCGTGGCAC-C-
*
259878 TT
63 -C
* * * * *
259880 TTCCTTCTAAGCCCACAACTCCGTGGCATTCTTTTTTTTCCTTTTTAAAGCCCACAACTCTGTGG
1 TT--TT-AAAGCCCACAACTCCGTGGCA--CCTTCTTTTCC-TTCT-AAGCCCACAACTCCGTGG
259945 CACC
59 CACC
259949 TTGTTCTTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
59 1 0.01
60 31 0.28
61 2 0.02
62 18 0.16
63 6 0.05
65 2 0.02
67 18 0.16
71 7 0.06
72 3 0.03
73 22 0.20
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.32
Consensus pattern (63 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACCC
Found at i:259970 original size:166 final size:170
Alignment explanation
Indices: 259646--259979 Score: 459
Period size: 166 Copynumber: 2.0 Consensus size: 170
259636 CACTTTTTCT
*
259646 TTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
** *
259711 TTTTTTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTG
66 TTTTCCTTCTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTG
259776 GCACCTTCTTTTCCTTCTAAGCCCACAACTCCGTGGCACCC
131 GCACCTTCTTTT-CTTCTAAGCCCACAACTCCGTGGCACCC
* *
259817 TTTT-AAGTCCACGACTCCGTGGCACTC-TTTT-CC-TTT-AAAGCCCACAACTCCGTGGCACTC
1 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-C
* * *
259877 TTTTTCCTTCT-AAGCCCACAACTCCGTGGCATTCTTTTTTTTCCTTTTTAAAGCCCACAACTCT
65 TTTTTCCTTCTAAAGCCCACAACTCCGTGGCA--CTCTTTTTCCCTTTTTAAAGCCCACAACTCC
* * *
259941 GTGGCACCTTGTTCTT-TT-TAAGTCCACAACTTCGTGGCA
128 GTGGCACCTTCTT-TTCTTCTAAGCCCACAACTCCGTGGCA
259980 TCTTTCACCC
Statistics
Matches: 147, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
166 61 0.41
167 14 0.10
168 42 0.29
169 6 0.04
170 20 0.14
171 4 0.03
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (170 bp):
TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCT
TTTTCCTTCTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTG
GCACCTTCTTTTCTTCTAAGCCCACAACTCCGTGGCACCC
Found at i:260035 original size:34 final size:34
Alignment explanation
Indices: 259986--260155 Score: 225
Period size: 34 Copynumber: 5.2 Consensus size: 34
259976 GGCATCTTTC
259986 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
260019 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
260053 CACCC--C-C-AAAGCCCACACAAGTCGGTGGCAA
1 -ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
260084 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGC-A
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
260117 ACGCC--C-CCAAAGCCCACACAAGTCGGTGGC-A
1 AC-CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
260148 ACCCTTCT
1 ACCCTTCT
260156 AAGTCCAATG
Statistics
Matches: 122, Mismatches: 5, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
30 6 0.05
31 48 0.39
32 4 0.03
33 11 0.09
34 49 0.40
35 4 0.03
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.16
Consensus pattern (34 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:260070 original size:65 final size:65
Alignment explanation
Indices: 259995--260155 Score: 306
Period size: 65 Copynumber: 2.5 Consensus size: 65
259985 CACCCTTTCT
259995 AAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACACCCCC
1 AAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACACCCCC
*
260060 AAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACGCCCCC
1 AAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACACCCCC
260125 AAAGCCCACACAAGTCGGTGGC-AACCCTTCT
1 AAAGCCCACACAAGTCGGTGGCAAACCCTTCT
260156 AAGTCCAATG
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
64 9 0.09
65 86 0.91
ACGTcount: A:0.30, C:0.37, G:0.19, T:0.14
Consensus pattern (65 bp):
AAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACACCCCC
Found at i:260264 original size:43 final size:43
Alignment explanation
Indices: 260201--260554 Score: 375
Period size: 43 Copynumber: 7.8 Consensus size: 43
260191 GCACCTTTAT
*
260201 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* *
260244 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
260291 ATCTTTAAGTCCTATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
260336 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
260379 CTTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
*
260426 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
260471 CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C
* *
260518 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
260555 GTTGACATCC
Statistics
Matches: 262, Mismatches: 31, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
43 154 0.59
45 2 0.01
47 2 0.01
49 104 0.40
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:260312 original size:92 final size:91
Alignment explanation
Indices: 260150--260563 Score: 425
Period size: 92 Copynumber: 4.5 Consensus size: 91
260140 CGGTGGCAAC
* * * *
260150 CCTTCTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTCTCTTTAAGTCCAATA
260215 TAGCTGGCCTTGAATCAGCACATTGGCA-
63 TAGCTGGCCTTGAATCAGCACATTGGCAT
* * * * *
260243 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCTATGT
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC-TC-TCTTTAAGTCCAATAT
260308 AGCTGGCCTTGAATCAGCACATTGGCA-
64 AGCTGGCCTTGAATCAGCACATTGGCAT
* * * *
260335 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCT-TC---AAGTCCAATATCG
1 CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTCTCTTTAAGTCCAATATAG
* *
260396 CTGGCCTTGAATCAACATATTGGCATCTT
66 CTGGCCTTGAATCAGCACATTGGCA---T
* *
260425 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C-CTTTAAGCCCGATAT
1 C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTCTCTTTAAGTCCAATAT
* *
260486 CGCTGGCCTTGAATCAGCATATTGGCATCTT
64 AGCTGGCCTTGAATCAGCACATTGGCA---T
* * *
260517 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATC
1 C--CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
260564 CTTTTTCTCA
Statistics
Matches: 286, Mismatches: 21, Indels: 27
0.86 0.06 0.08
Matches are distributed among these distances:
86 33 0.12
89 3 0.01
90 2 0.01
91 2 0.01
92 242 0.85
93 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (91 bp):
CCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTCTCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCACATTGGCAT
Found at i:260403 original size:135 final size:135
Alignment explanation
Indices: 260155--260518 Score: 584
Period size: 135 Copynumber: 2.7 Consensus size: 135
260145 GCAACCCTTC
* * *
260155 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-----CTTTAAGTCCAATATCGCT
* * * *
260220 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
60 GGCCTTGAATCAGCATATTGGCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGC
260285 ATCTTCATCTT
125 ATCTTCATCTT
*
260296 TAAGTCCTATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
260361 GAATCAGCATATTGGCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTC
66 GAATCAGCATATTGGCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTC
260426 ATCTT
131 ATCTT
* *
260431 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGCCCGATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
260496 GAATCAGCATATTGGCATCTTCA
66 GAATCAGCATATTGGCATCTTCA
260519 TCTTTAAGTT
Statistics
Matches: 212, Mismatches: 11, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
135 174 0.82
140 1 0.00
141 37 0.17
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (135 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCATCTTCAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCATCTTC
ATCTT
Found at i:260415 original size:22 final size:22
Alignment explanation
Indices: 260347--260415 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
260337 TTTAAGTCCA
*
260347 ATATCGCTGGCCTTGAATCAGC
1 ATATCGCTGGCCTTGAATCAAC
* *
260369 ATAT---TGGCATCTTCAAGTCCA-
1 ATATCGCTGGC--CTTGAA-TCAAC
260390 ATATCGCTGGCCTTGAATCAAC
1 ATATCGCTGGCCTTGAATCAAC
260412 ATAT
1 ATAT
260416 TGGCATCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
19 4 0.11
21 12 0.34
22 15 0.43
24 4 0.11
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (22 bp):
ATATCGCTGGCCTTGAATCAAC
Found at i:261548 original size:13 final size:13
Alignment explanation
Indices: 261530--261554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
261520 ATTACTCACA
261530 TGTATCGATACAT
1 TGTATCGATACAT
261543 TGTATCGATACA
1 TGTATCGATACA
261555 CGGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:261691 original size:52 final size:52
Alignment explanation
Indices: 261563--261683 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
261553 CACGGATCTT
*
261563 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
261615 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
261667 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
261684 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:265888 original size:47 final size:47
Alignment explanation
Indices: 265831--265923 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
265821 CTAAGTATGA
*
265831 AGGTAGCAAGTAACCACTCTAGGATTTCAATTTCTCAGAGGAAGTAT
1 AGGTAGCAAGTAACCACACTAGGATTTCAATTTCTCAGAGGAAGTAT
265878 AGGTAGCAAGTAACCACACTAGGATTTCAATTTCTCAGAGGAAGTA
1 AGGTAGCAAGTAACCACACTAGGATTTCAATTTCTCAGAGGAAGTA
265924 CATCCTAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (47 bp):
AGGTAGCAAGTAACCACACTAGGATTTCAATTTCTCAGAGGAAGTAT
Found at i:271939 original size:13 final size:13
Alignment explanation
Indices: 271921--271946 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
271911 ATGGTAGCTT
271921 TGTATCGATACAA
1 TGTATCGATACAA
271934 TGTATCGATACAA
1 TGTATCGATACAA
271947 CACTTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:272819 original size:49 final size:49
Alignment explanation
Indices: 272686--272972 Score: 192
Period size: 49 Copynumber: 5.8 Consensus size: 49
272676 GAGAAAAATA
* ** * *
272686 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAGGAATG-TTATAGATG
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGA-AGGTG
* * * ** ** * *
272738 CCAATATGCTGATTTAAGGCCAGTAATTTTGGACTTAAAGGTGAAGGTT
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTG
** * *
272787 TTAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCG
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTG
* * * *
272839 CCAATATGTTGATTCAAAGCCAGCGATATTGAACTTAAAGATGAAGGTG
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTG
** *
272888 CCAATGTCCTGATTCAAGGCCAGCAACATTGGACTT----A--AAGGTG
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTG
* * * *
272931 CCAATATGATGATTCAAGGCCAGCGATATTGAACTTAGAAGA
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
272973 AAATGCCACC
Statistics
Matches: 181, Mismatches: 45, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
43 36 0.20
45 1 0.01
48 1 0.01
49 70 0.39
50 4 0.02
52 69 0.38
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (49 bp):
CCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTG
Found at i:272842 original size:101 final size:101
Alignment explanation
Indices: 272686--272926 Score: 275
Period size: 101 Copynumber: 2.4 Consensus size: 101
272676 GAGAAAAATA
** ** ** * *
272686 CCAATGTGCTGATTCAAGGCCAGCGACATTGGGTTTAGGAATGTTATAGATGCCAATATGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGACGCCAATATGCTGAT
* * * * * * *
272751 TTAAGGCCAGTAATTTTGGACTTAAAGGTGAAGGTT
66 TCAAAGCCAGCAATATTGAACTTAAAGATGAAGGTG
** * * *
272787 TTAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCCAATATGTTGAT
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGACGCCAATATGCTGAT
*
272852 TCAAAGCCAGCGATATTGAACTTAAAGATGAAGGTG
66 TCAAAGCCAGCAATATTGAACTTAAAGATGAAGGTG
* *
272888 CCAATGTCCTGATTCAAGGCCAGCAACATTGGACTTAAA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA
272927 GGTGCCAATA
Statistics
Matches: 114, Mismatches: 26, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
101 114 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (101 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGACGCCAATATGCTGAT
TCAAAGCCAGCAATATTGAACTTAAAGATGAAGGTG
Found at i:272861 original size:52 final size:49
Alignment explanation
Indices: 272793--272967 Score: 164
Period size: 43 Copynumber: 3.6 Consensus size: 49
272783 GGTTTTAATG
272793 TGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGACAAAGGCGCCAATA
1 TGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATG---AAGGCGCCAATA
* * * * * *
272845 TGTTGATTCAAAGCCAGCGATATTGAACTTAAAGATGAAGGTGCCAATG
1 TGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGGCGCCAATA
** * *
272894 TCCTGATTCAAGGCCAGCAACATTGGACTT----A--AAGGTGCCAATA
1 TGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGGCGCCAATA
* * *
272937 TGATGATTCAAGGCCAGCGATATTGAACTTA
1 TGTTGATTCAAGGCCAGCGACATTGGACTTA
272968 GAAGAAAATG
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
43 36 0.35
45 1 0.01
49 34 0.33
52 33 0.32
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (49 bp):
TGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGGCGCCAATA
Found at i:273054 original size:28 final size:29
Alignment explanation
Indices: 272989--273348 Score: 287
Period size: 29 Copynumber: 12.6 Consensus size: 29
272979 CACCAACTTA
**
272989 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-GGTTGCCACTGACT
* * *
273018 TGTGTGCTTTTG-AAGGTTGCCACTGCCA
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
273046 TGTGGGC-TTTGAAAAGGGTGCCACCGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
* *
273075 TGTAGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
* *
273103 TGTGGGCTTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* * *
273132 TATGGGCTTTTG-AAGGTTTCCACTTACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
*
273160 TGTGGGC-TTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
* * * *
273188 TGTAGGCTTTTGAAAAGATGCTACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
273217 TGTGGGC-TTTGAAAGGGGTGCTA-TCGACT
1 TGTGGGCTTTTGAAA-GGTTGCCACT-GACT
* *
273246 TGTGGGC-TTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* * * * **
273274 TGTGGACTTTGGAAGGGGTGCCACCAACT
1 TGTGGGCTTTTGAAAGGTTGCCACTGACT
* *
273303 TGTGGGC-TTTGAAAACGATGCCACTGACT
1 TGTGGGCTTTTG-AAAGGTTGCCACTGACT
273332 TGTGGGC-TTTGAAAGGT
1 TGTGGGCTTTTGAAAGGT
273349 GAGGAATGTC
Statistics
Matches: 267, Mismatches: 50, Indels: 29
0.77 0.14 0.08
Matches are distributed among these distances:
27 13 0.05
28 98 0.37
29 156 0.58
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAGGTTGCCACTGACT
Found at i:273062 original size:57 final size:57
Alignment explanation
Indices: 272989--273345 Score: 350
Period size: 57 Copynumber: 6.2 Consensus size: 57
272979 CACCAACTTA
* * * *
272989 TGTGGGCTTTTG-AAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGCCA
1 TGTGGGC-TTTGAAAAGGG-TGCCACCAACTTGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
273046 TGTGGGCTTTGAAAAGGGTGCCACCGACTTGTAGGCTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTGAAAAGGGTGCCACCAACTTGTGGGCTTTG-AAAGGATGCCACTGACT
* ** * * * *
273103 TGTGGGCTTTTGAAAA-GATGCCACTGACTTATGGGCTTTTG-AAGGTTTCCACTTACT
1 TGTGGGC-TTTGAAAAGGGTGCCACCAACTTGTGGGC-TTTGAAAGGATGCCACTGACT
* * * *
273160 TGTGGGCTTTGAAAA-GGTGCCACTAACTTGTAGGCTTTTGAAAAGATGCTACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACCAACTTGTGGGC-TTTGAAAGGATGCCACTGACT
* * * * *
273217 TGTGGGCTTTGAAAGGGGTGCTATCGACTTGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACCAACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
273274 TGTGGACTTTGGAAGGGGTGCCACCAACTTGTGGGCTTTGAAAACGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGGTGCCACCAACTTGTGGGCTTTG-AAAGGATGCCACTGACT
273332 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
273346 GGTGAGGAAT
Statistics
Matches: 254, Mismatches: 36, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
56 43 0.17
57 152 0.60
58 59 0.23
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (57 bp):
TGTGGGCTTTGAAAAGGGTGCCACCAACTTGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:273068 original size:29 final size:28
Alignment explanation
Indices: 273030--273349 Score: 324
Period size: 29 Copynumber: 11.2 Consensus size: 28
273020 TGTGCTTTTG
* *
273030 AAGGTTGCCACTGCCATGTGGGCTTTGAA
1 AAGG-TGCCACTGACTTGTGGGCTTTGAA
* *
273059 AAGGGTGCCACCGACTTGTAGGCTTTGAA
1 AA-GGTGCCACTGACTTGTGGGCTTTGAA
*
273088 AAGGTGCCACTAACTTGTGGGCTTTTGAA
1 AAGGTGCCACTGACTTGTGGGC-TTTGAA
* *
273117 AAGATGCCACTGACTTATGGGCTTTTG--
1 AAGGTGCCACTGACTTGTGGGC-TTTGAA
* *
273144 AAGGTTTCCACTTACTTGTGGGCTTTGAA
1 AAGG-TGCCACTGACTTGTGGGCTTTGAA
* *
273173 AAGGTGCCACTAACTTGTAGGCTTTTGAA
1 AAGGTGCCACTGACTTGTGGGC-TTTGAA
* *
273202 AAGATGCTACTGACTTGTGGGCTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAA
* *
273230 AGGGGTGCTA-TCGACTTGTGGGCTTTGAA
1 A-AGGTGCCACT-GACTTGTGGGCTTTGAA
* *
273259 AAGATGCCACTGACTTGTGGACTTTGGAA
1 AAGGTGCCACTGACTTGTGGGCTTT-GAA
** **
273288 GGGGTGCCACCAACTTGTGGGCTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTTTGAA
*
273316 AACGATGCCACTGACTTGTGGGCTTTG-A
1 AA-GGTGCCACTGACTTGTGGGCTTTGAA
273344 AAGGTG
1 AAGGTG
273350 AGGAATGTCT
Statistics
Matches: 241, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
27 10 0.04
28 79 0.33
29 150 0.62
30 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (28 bp):
AAGGTGCCACTGACTTGTGGGCTTTGAA
Found at i:273114 original size:85 final size:86
Alignment explanation
Indices: 272989--273349 Score: 390
Period size: 86 Copynumber: 4.2 Consensus size: 86
272979 CACCAACTTA
* * * * * * *
272989 TGTGGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTG-AAGGTTGCCACTGCCATGTGGG
1 TGTGGGC-TTTGAAAAGG-TGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGG
273052 CTTTGAAAAGGGTGCCACCGACT
64 CTTTGAAAAGGGTGCCACCGACT
* *
273075 TGTAGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTATGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGC-
* * **
273140 TTTG--AAGGTTTCCACTTACT
65 TTTGAAAAGGGTGCCACCGACT
* *
273160 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTAGGCTTTTGAAAAGATGCTACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCT
* * *
273225 TTGAAAGGGGTGCTATCGACT
66 TTGAAAAGGGTGCCACCGACT
* * * * ** * **
273246 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGACTTTGGAAGGGGTGCCACCAACTTGTGGGCT
1 TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCT
* * *
273311 TTGAAAACGATGCCACTGACT
66 TTGAAAAGGGTGCCACCGACT
273332 TGTGGGCTTTG-AAAGGTG
1 TGTGGGCTTTGAAAAGGTG
273350 AGGAATGTCT
Statistics
Matches: 228, Mismatches: 42, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
84 6 0.03
85 105 0.46
86 113 0.50
87 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (86 bp):
TGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGACTTGTGGGCT
TTGAAAAGGGTGCCACCGACT
Found at i:273171 original size:114 final size:114
Alignment explanation
Indices: 273023--273346 Score: 404
Period size: 114 Copynumber: 2.8 Consensus size: 114
273013 CAACTTGTGT
* * *
273023 GCTTTTGAAGGTTGCCACTGCCATGTGGGCTTTGAAAAGGGTGCCACCGACTTGTAGGCTTTGAA
1 GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACCAACTTGTAGGCTTTGAA
* *
273088 AAGGTGCCACTAACTTGTGGGCTTTTGAAA-AGATGCCA-CTGACTTATGG
66 AAGATGCCACTGACTTGTGGGC-TTTGAAAGAGATGCCATC-GACTTATGG
* * *
273137 GCTTTTGAAGGTTTCCACTTACTTGTGGGCTTTGAAAA-GGTGCCACTAACTTGTAGGCTTTTGA
1 GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACCAACTTGTAGGC-TTTGA
* * * * *
273201 AAAGATGCTACTGACTTGTGGGCTTTGAAAGGGGTGCTATCGACTTGTGG
65 AAAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCCATCGACTTATGG
* * * * * *
273251 GC-TTTGAAAAGATGCCACTGACTTGTGGACTTTGGAAGGGGTGCCACCAACTTGTGGGCTTTGA
1 GCTTTTG-AAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACCAACTTGTAGGCTTTGA
273315 AAACGATGCCACTGACTTGTGGGCTTTGAAAG
65 AAA-GATGCCACTGACTTGTGGGCTTTGAAAG
273347 GTGAGGAATG
Statistics
Matches: 181, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
113 29 0.16
114 106 0.59
115 46 0.25
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (114 bp):
GCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACCAACTTGTAGGCTTTGAA
AAGATGCCACTGACTTGTGGGCTTTGAAAGAGATGCCATCGACTTATGG
Found at i:273787 original size:37 final size:37
Alignment explanation
Indices: 273706--273790 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
273696 AAAGATAAAA
*
273706 CACAAATACATCACGCAAAATGAAATGTTATGAATAT
1 CACAAATGCATCACGCAAAATGAAATGTTATGAATAT
* * *
273743 GACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCACGCAAAATGAAATGTTATGAATAT
*
273780 CATAAATGCAT
1 CACAAATGCAT
273791 GATTGTGGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCACGCAAAATGAAATGTTATGAATAT
Found at i:274859 original size:18 final size:17
Alignment explanation
Indices: 274812--274864 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
274802 CATCCAGACC
274812 CTTTTTGTTGTTTTTTTT
1 CTTTTTGTT-TTTTTTTT
*
274830 CTTTATGTTTTTTTTATT
1 CTTTTTGTTTTTTTT-TT
274848 -TTTTTGTCTTTTTTTTT
1 CTTTTTGT-TTTTTTTTT
274865 TGCGAAGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.04, C:0.06, G:0.08, T:0.83
Consensus pattern (17 bp):
CTTTTTGTTTTTTTTTT
Found at i:285874 original size:13 final size:13
Alignment explanation
Indices: 285856--285881 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
285846 CAATTTTTTG
285856 TGTATCGATACAT
1 TGTATCGATACAT
285869 TGTATCGATACAT
1 TGTATCGATACAT
285882 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:285896 original size:32 final size:33
Alignment explanation
Indices: 285836--285899 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
285826 TACAAGCCAA
** *
285836 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
285869 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
285900 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:288450 original size:13 final size:13
Alignment explanation
Indices: 288427--288463 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
288417 ATAATCCCCC
288427 TGTAT-GATACAG
1 TGTATCGATACAG
*
288439 TGTATCGATACAT
1 TGTATCGATACAG
288452 TGTATCGATACA
1 TGTATCGATACA
288464 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:290566 original size:15 final size:15
Alignment explanation
Indices: 290546--290576 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
290536 ATTTCGTTTG
*
290546 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
290561 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
290576 G
1 G
290577 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:294661 original size:13 final size:13
Alignment explanation
Indices: 294643--294668 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
294633 CAATTTTTTG
294643 TGTATCGATACAT
1 TGTATCGATACAT
294656 TGTATCGATACAT
1 TGTATCGATACAT
294669 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:294683 original size:32 final size:33
Alignment explanation
Indices: 294623--294686 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
294613 TACAAGCCAA
** *
294623 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
294656 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
294687 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:298914 original size:35 final size:33
Alignment explanation
Indices: 298838--298917 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
298828 TTCCCAGATA
** * *
298838 TATCGATACAAAGATTAATGTATCGATACAATG
1 TATCGATACATTGAATAATATATCGATACAATG
*
298871 TATTGATACATTGAATAATATATCGATATTCAATG
1 TATCGATACATTGAATAATATATCGATA--CAATG
298906 TATCGATACATT
1 TATCGATACATT
298918 TCCTTGGCAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 23 0.59
35 16 0.41
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (33 bp):
TATCGATACATTGAATAATATATCGATACAATG
Found at i:298960 original size:13 final size:13
Alignment explanation
Indices: 298942--298967 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
298932 CAGGGTAGCT
298942 TTGTATCGATACA
1 TTGTATCGATACA
298955 TTGTATCGATACA
1 TTGTATCGATACA
298968 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:300659 original size:18 final size:17
Alignment explanation
Indices: 300617--300682 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 17
300607 AATAACAAAG
*
300617 ATAAAATTTATAAAAT-
1 ATAAAATTTATTAAATA
300633 AT-AAA-TTATTAATATA
1 ATAAAATTTATTAA-ATA
300649 ATAAAATTTATATAAATA
1 ATAAAATTTAT-TAAATA
300667 A-AAAATATT-TTAAATA
1 ATAAAAT-TTATTAAATA
300683 CATACAACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 6 0.14
15 5 0.12
16 10 0.23
17 9 0.21
18 10 0.23
19 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAAATTTATTAAATA
Found at i:300668 original size:15 final size:15
Alignment explanation
Indices: 300617--300669 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
300607 AATAACAAAG
300617 ATAAAATTTATA-AA
1 ATAAAATTTATATAA
300631 ATATAAA-TTATTAATATA
1 ATA-AAATTTA-T-ATA-A
300649 ATAAAATTTATATAA
1 ATAAAATTTATATAA
300664 ATAAAA
1 ATAAAA
300670 AATATTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 6 0.18
15 11 0.33
16 4 0.12
17 5 0.15
18 7 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATTTATATAA
Found at i:304556 original size:2 final size:2
Alignment explanation
Indices: 304551--304589 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
304541 AGGTGTGTAA
304551 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
304590 AGCTTAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:306857 original size:17 final size:18
Alignment explanation
Indices: 306830--306864 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
306820 TACTAAGATA
306830 AAAATATAAAAATTAATT
1 AAAATATAAAAATTAATT
*
306848 AAAA-ATAAAATTTAATT
1 AAAATATAAAAATTAATT
306865 TAATTTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAATATAAAAATTAATT
Found at i:307515 original size:20 final size:20
Alignment explanation
Indices: 307478--307515 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
307468 TATCTAAATT
*
307478 AAAATAAATCAAATTTAATA
1 AAAATAAATCAAAATTAATA
*
307498 AAAATAAATTAAAATTAA
1 AAAATAAATCAAAATTAA
307516 ATCAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATAAATCAAAATTAATA
Found at i:307568 original size:17 final size:18
Alignment explanation
Indices: 307532--307570 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
307522 TTATTTTTAT
307532 TTTTATTTTTTACATAAA
1 TTTTATTTTTTACATAAA
*
307550 TTTTATTTTTTA-ATTAA
1 TTTTATTTTTTACATAAA
307567 TTTT
1 TTTT
307571 TTAATATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTTTTTACATAAA
Found at i:310947 original size:18 final size:17
Alignment explanation
Indices: 310904--310951 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
310894 CTATTAAATA
*
310904 AATTTTTT-AAAATTAT
1 AATTTTTTAAAAATCAT
*
310920 ATTTTATTTAAAAAGTCAT
1 AATTT-TTTAAAAA-TCAT
310939 AATTTTTTAAAAA
1 AATTTTTTAAAAA
310952 ATTAATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.15
17 3 0.12
18 12 0.46
19 7 0.27
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
AATTTTTTAAAAATCAT
Found at i:312046 original size:2 final size:2
Alignment explanation
Indices: 312039--312066 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
312029 ATCATACAAC
312039 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
312067 TGAATTGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:312450 original size:38 final size:39
Alignment explanation
Indices: 312399--312508 Score: 136
Period size: 38 Copynumber: 2.9 Consensus size: 39
312389 AAAATACACG
*
312399 TATTATTTA-TAAAATTT-AAAAATATTAGTAATATATA
1 TATTATTTATTAAAATTTAAAAAATATGAGTAATATATA
*
312436 TATTATTTATTAAAATTTAAAAAATATGATTAATATATA
1 TATTATTTATTAAAATTTAAAAAATATGAGTAATATATA
* * * * *
312475 -ATTTTTTATTAAAATTCAGAATATATGACTAATA
1 TATTATTTATTAAAATTTAAAAAATATGAGTAATA
312509 CATAATTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
37 9 0.14
38 37 0.58
39 18 0.28
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (39 bp):
TATTATTTATTAAAATTTAAAAAATATGAGTAATATATA
Found at i:312979 original size:35 final size:37
Alignment explanation
Indices: 312940--313011 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 37
312930 AATTACATAT
*
312940 AAATTTAAATATAAT-ATAAAT-TATTAAATCTATTA
1 AAATTTAAATATAATAATAAATATATTAAATATATTA
*
312975 AAATTTAAATATAATAATACATATATTAAATATATTA
1 AAATTTAAATATAATAATAAATATATTAAATATATTA
313012 TATTAATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 15 0.45
36 5 0.15
37 13 0.39
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (37 bp):
AAATTTAAATATAATAATAAATATATTAAATATATTA
Found at i:312984 original size:16 final size:18
Alignment explanation
Indices: 312936--313013 Score: 63
Period size: 17 Copynumber: 4.3 Consensus size: 18
312926 AAATAATTAC
312936 ATAT-AAATTTAAATATA
1 ATATAAAATTTAAATATA
* *
312953 ATATAAATTATTAAATCT-
1 ATATAAAAT-TTAAATATA
312971 AT-TAAAATTTAAATATA
1 ATATAAAATTTAAATATA
*
312988 ATAATACATATATTAAATATA
1 AT-ATA-AAAT-TTAAATATA
*
313009 TTATA
1 ATATA
313014 TTAATCATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 7 0.15
17 11 0.23
18 5 0.10
19 9 0.19
20 6 0.12
21 10 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATAAAATTTAAATATA
Found at i:313009 original size:9 final size:9
Alignment explanation
Indices: 312944--313011 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
312934 ACATATAAAT
312944 TTAAATATAA
1 TTAAATAT-A
312954 TATAAAT-TA
1 T-TAAATATA
*
312963 TTAAATCTA
1 TTAAATATA
312972 TTAAA-AT-
1 TTAAATATA
312979 TTAAATATAA
1 TTAAATAT-A
*
312989 TAATACATATA
1 T--TAAATATA
313000 TTAAATATA
1 TTAAATATA
313009 TTA
1 TTA
313012 TATTAATCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
7 5 0.10
8 8 0.17
9 19 0.40
10 3 0.06
11 7 0.15
12 6 0.12
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
TTAAATATA
Found at i:313464 original size:11 final size:11
Alignment explanation
Indices: 313431--313467 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
313421 AATAATTTAT
313431 TATAATATAAA
1 TATAATATAAA
* *
313442 AATTATATAAA
1 TATAATATAAA
313453 TATAATATAAA
1 TATAATATAAA
313464 TATA
1 TATA
313468 TAAATACACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TATAATATAAA
Found at i:313469 original size:19 final size:21
Alignment explanation
Indices: 313431--313473 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
313421 AATAATTTAT
313431 TATAATATAAAAATTATATAAA
1 TATAATAT-AAAATTATATAAA
313453 TATAATAT-AAA-TATATAAA
1 TATAATATAAAATTATATAAA
313472 TA
1 TA
313474 CACATTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
22 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAATATAAAATTATATAAA
Found at i:314729 original size:18 final size:19
Alignment explanation
Indices: 314706--314761 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
314696 ATTTGAATCG
*
314706 AATTTAATTTAAT-TTTAA
1 AATTTAAATTAATATTTAA
*
314724 AATTTAAATTATTATTTAA
1 AATTTAAATTAATATTTAA
* *
314743 AATTTTAAAGTAATTTTTA
1 AA-TTTAAATTAATATTTA
314762 TATTTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 11 0.35
19 7 0.23
20 13 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTTAAATTAATATTTAA
Found at i:314741 original size:19 final size:18
Alignment explanation
Indices: 314706--314759 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
314696 ATTTGAATCG
*
314706 AATTTAATTTAATTTTAA
1 AATTTAAATTAATTTTAA
*
314724 AATTTAAATTATTATTTAA
1 AATTTAAATTAAT-TTTAA
*
314743 AATTTTAAAGTAATTTT
1 AA-TTTAAATTAATTTT
314760 TATATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 11 0.37
19 10 0.33
20 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTAAATTAATTTTAA
Done.