Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003674.1 Hibiscus syriacus cultivar Beakdansim tig00007848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 403236
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:740 original size:23 final size:23
Alignment explanation
Indices: 709--799 Score: 107
Period size: 23 Copynumber: 4.0 Consensus size: 23
699 TTGCATTTTC
*
709 GTAAGAGTACTTTTTGTACTATG
1 GTAAGAGTACTTTGTGTACTATG
*
732 GTAATAGTACTTTGTGTACTATG
1 GTAAGAGTACTTTGTGTACTATG
* *
755 GTAAGAGTACTTTTTGTACT-TA
1 GTAAGAGTACTTTGTGTACTATG
*
777 G--AGTAGTACTTTGTGTATTATG
1 GTAAG-AGTACTTTGTGTACTATG
799 G
1 G
800 CATGTGTAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.03
21 13 0.22
22 4 0.07
23 39 0.67
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (23 bp):
GTAAGAGTACTTTGTGTACTATG
Found at i:799 original size:44 final size:46
Alignment explanation
Indices: 709--799 Score: 141
Period size: 44 Copynumber: 2.0 Consensus size: 46
699 TTGCATTTTC
*
709 GTAAGAGTACTTTTTGTACTATGGTAATAGTACTTTGTGTACTATG
1 GTAAGAGTACTTTTTGTACTATAGTAATAGTACTTTGTGTACTATG
* *
755 GTAAGAGTACTTTTTGTACT-TAG-AGTAGTACTTTGTGTATTATG
1 GTAAGAGTACTTTTTGTACTATAGTAATAGTACTTTGTGTACTATG
799 G
1 G
800 CATGTGTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 20 0.48
45 2 0.05
46 20 0.48
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (46 bp):
GTAAGAGTACTTTTTGTACTATAGTAATAGTACTTTGTGTACTATG
Found at i:1358 original size:2 final size:2
Alignment explanation
Indices: 1346--1378 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1336 TTAACATTAT
*
1346 TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1379 GTATGTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6277 original size:21 final size:21
Alignment explanation
Indices: 6253--6332 Score: 101
Period size: 21 Copynumber: 3.7 Consensus size: 21
6243 TTTTCATAAG
6253 AGTACTTTGTGTACTTGAAGT
1 AGTACTTTGTGTACTTGAAGT
6274 AGTACTTTGTG-AGCTATGGTAAG-
1 AGTACTTTGTGTA-CT-T-G-AAGT
*
6297 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGAAGT
6318 AGTACTTTGTGTACT
1 AGTACTTTGTGTACT
6333 ATGGCACATT
Statistics
Matches: 52, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
20 3 0.06
21 29 0.56
22 2 0.04
23 14 0.27
24 4 0.08
ACGTcount: A:0.23, C:0.10, G:0.26, T:0.41
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGAAGT
Found at i:6312 original size:44 final size:44
Alignment explanation
Indices: 6249--6336 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
6239 TGCATTTTCA
6249 TAAGAGTACTTTGTGTACTTGAAGTAGTACTTTGTG-AGCTATGG
1 TAAGAGTACTTTGTGTACTTGAAGTAGTACTTTGTGTA-CTATGG
*
6293 TAAGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACTATGG
1 TAAGAGTACTTTGTGTACTTGAAGTAGTACTTTGTGTACTATGG
6337 CACATTGTGT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 41 0.98
45 1 0.02
ACGTcount: A:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (44 bp):
TAAGAGTACTTTGTGTACTTGAAGTAGTACTTTGTGTACTATGG
Found at i:12180 original size:2 final size:2
Alignment explanation
Indices: 12173--12201 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
12163 ATTTTAACAT
12173 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 T
12202 GTATTTGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17640 original size:54 final size:53
Alignment explanation
Indices: 17503--17645 Score: 173
Period size: 54 Copynumber: 2.7 Consensus size: 53
17493 TCTCGGAGCC
* * *
17503 AGGGGTATATCGGTACATCC--AGTGTATCGATACACAAAATGCATTAGATGT
1 AGGGGTGTATCGGTACATCCAAAGTGTATCAATACACAAAATACATTAGATGT
* * *
17554 AGAGAGTGTATCGGTACATACAATAGTGTATCAATACACAAAATACATTCGATGT
1 AG-GGGTGTATCGGTACATCCAA-AGTGTATCAATACACAAAATACATTAGATGT
* *
17609 AGGGGTGTATCGATACATCCAAGAGTGTATCAGTACA
1 AGGGGTGTATCGGTACATCCAA-AGTGTATCAATACA
17646 TCCATTTATG
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 2 0.03
52 15 0.19
54 30 0.39
55 30 0.39
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (53 bp):
AGGGGTGTATCGGTACATCCAAAGTGTATCAATACACAAAATACATTAGATGT
Found at i:22902 original size:18 final size:16
Alignment explanation
Indices: 22862--22903 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
22852 ACTCCAACGT
22862 TCTTCTTC-TTGTCCA
1 TCTTCTTCTTTGTCCA
*
22877 TCTCCTTCTTTGTCTCA
1 TCTTCTTCTTTGTC-CA
22894 TCCTTCTTCT
1 T-CTTCTTCT
22904 CGAGGTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 5 0.23
17 3 0.14
18 7 0.32
ACGTcount: A:0.05, C:0.36, G:0.05, T:0.55
Consensus pattern (16 bp):
TCTTCTTCTTTGTCCA
Found at i:24261 original size:55 final size:55
Alignment explanation
Indices: 24196--24319 Score: 185
Period size: 55 Copynumber: 2.3 Consensus size: 55
24186 TATATCAGCC
* * *
24196 AGTGTATCGATACACAAAATGCATTCAATGTAGGGAGTGTATCGGTACATACAAT
1 AGTGTATCGATACACAAAATACATTCAATGTAGGGAGTGTATCGATACATACAAG
* * *
24251 AGTGTATCGATACACAAAATACATTCGATGTAGGGGGTGTATCGATACATCCAAG
1 AGTGTATCGATACACAAAATACATTCAATGTAGGGAGTGTATCGATACATACAAG
*
24306 AGTGTATCGGTACA
1 AGTGTATCGATACA
24320 TACATTTATG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 62 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (55 bp):
AGTGTATCGATACACAAAATACATTCAATGTAGGGAGTGTATCGATACATACAAG
Found at i:24271 original size:20 final size:20
Alignment explanation
Indices: 24231--24271 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24221 CAATGTAGGG
* * *
24231 AGTGTATCGGTACATACAAT
1 AGTGTATCGATACACAAAAT
24251 AGTGTATCGATACACAAAAT
1 AGTGTATCGATACACAAAAT
24271 A
1 A
24272 CATTCGATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
AGTGTATCGATACACAAAAT
Found at i:24701 original size:18 final size:20
Alignment explanation
Indices: 24665--24707 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
24655 TGTGAGTGTT
*
24665 GATACTCTCCGTTGGGTACC
1 GATACTCTCCGTTGAGTACC
*
24685 GATACTC-CC-TTGAGTACT
1 GATACTCTCCGTTGAGTACC
24703 GATAC
1 GATAC
24708 CAAAATCGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 12 0.57
19 2 0.10
20 7 0.33
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (20 bp):
GATACTCTCCGTTGAGTACC
Found at i:31627 original size:81 final size:81
Alignment explanation
Indices: 31533--32181 Score: 983
Period size: 81 Copynumber: 8.0 Consensus size: 81
31523 GTTTTATACC
*
31533 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
31598 CCATTAATCTTTTACT
66 CCATTAATCTTTTACT
* * * *
31614 CAAAGGTATTTAACCTTGCATCTAACTAGCATAATTGACACCTTTTTGCCAAATGCACAGCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
31679 CCATTAATCTTTTACT
66 CCATTAATCTTTTACT
* * * * * *
31695 CAAAGTTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTCTGTCGAATACACAGCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
31760 CCATTAATCTTTTACT
66 CCATTAATCTTTTACT
* *
31776 CAAACGTATTTAACCTTTCATCTAACTGGCATAATTGACAACTTTCTGCCAAATGCACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
31841 CCATTAATCTTTTACT
66 CCATTAATCTTTTACT
* ** * *
31857 CAAAGGTATTTAACCTTTCATCTAATTGAAATAATTTACACATTTCTGCCAAATGCACAACTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
*
31922 CCATTAATCATTTACT
66 CCATTAATCTTTTACT
* * * **
31938 CAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACGTTTCTGCCAAATGCACAGCTATA
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
32003 CCATTAATCTTTTACT
66 CCATTAATCTTTTACT
* * * * **
32019 CAAAGGTATTTTACCTTTCATCTAACTAGCATAATTGATACCTTTCTTCCAAATGCACGGCTAGG
1 CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
32084 CCATTAATCTTTTACT
66 CCATTAATCTTTTACT
* * *
32100 CAAAAGGTATTTAACCTTTCATCAAACTGGCATAATTGACACCTTTATGCCAAATGCACAACAAG
1 C-AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAG
*
32165 GCCAATAATCTTTTACT
65 GCCATTAATCTTTTACT
32182 TTAGAACTGT
Statistics
Matches: 510, Mismatches: 57, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
81 440 0.86
82 70 0.14
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (81 bp):
CAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAACTAGG
CCATTAATCTTTTACT
Found at i:35650 original size:27 final size:27
Alignment explanation
Indices: 35612--35674 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
35602 TAGTCATTCA
35612 ATCAACTCTGACAATACCGATCTTAGC
1 ATCAACTCTGACAATACCGATCTTAGC
35639 ATCAACTCTGACAATACCGATCTTAGC
1 ATCAACTCTGACAATACCGATCTTAGC
35666 ATCAACTCT
1 ATCAACTCT
35675 AAAACAAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (27 bp):
ATCAACTCTGACAATACCGATCTTAGC
Found at i:38740 original size:17 final size:18
Alignment explanation
Indices: 38706--38774 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
38696 CTTAAAATTT
38706 TCTGATAACTGTAAATCA
1 TCTGATAACTGTAAATCA
*
38724 TCTGATAATTG-AAATCA
1 TCTGATAACTGTAAATCA
* * * *
38741 TCTAATCACTGAAAATAA
1 TCTGATAACTGTAAATCA
*
38759 TATGATAACTGTAAAT
1 TCTGATAACTGTAAAT
38775 ATTTAGAATT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
17 14 0.34
18 27 0.66
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (18 bp):
TCTGATAACTGTAAATCA
Found at i:40623 original size:20 final size:21
Alignment explanation
Indices: 40586--40626 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
40576 AGTTGTTGGG
40586 GCCTGATGGTATCAATACTAT
1 GCCTGATGGTATCAATACTAT
**
40607 GCCT-ATGGTATTGATACTAT
1 GCCTGATGGTATCAATACTAT
40627 TATCCATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (21 bp):
GCCTGATGGTATCAATACTAT
Found at i:41748 original size:22 final size:20
Alignment explanation
Indices: 41718--41770 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
41708 AAAATTTTCT
*
41718 TTTCTAAATCATCGATTTTGA
1 TTTCAAAATCATC-ATTTTGA
*
41739 CTTTCAAAAT-TTCATTTTGA
1 -TTTCAAAATCATCATTTTGA
41759 TTCTCAAAATCA
1 TT-TCAAAATCA
41771 ACTTTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.08
20 14 0.54
21 2 0.08
22 8 0.31
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (20 bp):
TTTCAAAATCATCATTTTGA
Found at i:45459 original size:29 final size:30
Alignment explanation
Indices: 45386--45466 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
45376 ATAATCTTTT
*
45386 AAAATTACATTTTTAGTCCCTAAACTTTTCA
1 AAAATTACA-TTTTAGTCACTAAACTTTTCA
** * *
45417 AACTTTATACTTTAG-CTACTAAAC-TTTCA
1 AAAATTACATTTTAGTC-ACTAAACTTTTCA
45446 AAAATTACATTTTAGTCACTA
1 AAAATTACATTTTAGTCACTA
45467 GTCAAAATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
29 21 0.54
30 12 0.31
31 6 0.15
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.41
Consensus pattern (30 bp):
AAAATTACATTTTAGTCACTAAACTTTTCA
Found at i:51418 original size:23 final size:23
Alignment explanation
Indices: 51350--51433 Score: 107
Period size: 23 Copynumber: 3.7 Consensus size: 23
51340 GTGCCACATA
51350 TTTGTCCCGAAGGACCATATAGTT
1 TTTGTCCCGAAGGACCATATAG-T
** * * *
51374 TTTGTCCTAAATGATCACATAGT
1 TTTGTCCCGAAGGACCATATAGT
51397 TTTGTCCCGAAGGACCATATAG-
1 TTTGTCCCGAAGGACCATATAGT
51419 TTTGTCCCGAAGGAC
1 TTTGTCCCGAAGGAC
51434 TACATAGAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.30
23 18 0.36
24 17 0.34
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (23 bp):
TTTGTCCCGAAGGACCATATAGT
Found at i:55212 original size:2 final size:2
Alignment explanation
Indices: 55207--55361 Score: 99
Period size: 2 Copynumber: 83.5 Consensus size: 2
55197 GGTACATTAT
55207 TA TA TA T- TA TA TA TA T- TA TA TGA TA TA GTA TA T- TA T- TA T-
1 TA TA TA TA TA TA TA TA TA TA TA T-A TA TA -TA TA TA TA TA TA TA
* *
55246 TA TA TA T- TA TA TA T- TA TA TA TA TA TT TA GTA TG T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
55286 T- TA TA TA TT TA AA T- TA TA TA T- TA GTT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
55326 T- TA TT TA TA TA T- TA TA TT TA T- TA TA T- TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55362 TTATTTTTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
1 16 0.13
2 97 0.81
3 7 0.06
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (2 bp):
TA
Found at i:55216 original size:7 final size:7
Alignment explanation
Indices: 55204--55356 Score: 138
Period size: 7 Copynumber: 21.1 Consensus size: 7
55194 TATGGTACAT
55204 TATTATA
1 TATTATA
55211 TATTATATA
1 TA-T-TATA
55220 TATTATA
1 TATTATA
55227 TGATATAGTA
1 T-AT-TA-TA
55237 TATTAT-
1 TATTATA
55243 TATTATA
1 TATTATA
55250 TATTATA
1 TATTATA
55257 TATTATA
1 TATTATA
55264 TA-TATA
1 TATTATA
55270 T-TTAGTA
1 TATTA-TA
*
55277 TGTTATA
1 TATTATA
55284 TATTATA
1 TATTATA
55291 TATT-TA
1 TATTATA
*
55297 AATTATA
1 TATTATA
*
55304 TATTAGTT
1 TATTA-TA
55312 TA-TATA
1 TATTATA
55318 TATATATA
1 TAT-TATA
55326 TTATTTATA
1 -TA-TTATA
55335 TATTATA
1 TATTATA
55342 T-TTATTA
1 TATTA-TA
55349 TATTATA
1 TATTATA
55356 T
1 T
55357 TATATTTATT
Statistics
Matches: 124, Mismatches: 5, Indels: 34
0.76 0.03 0.21
Matches are distributed among these distances:
6 24 0.19
7 59 0.48
8 21 0.17
9 16 0.13
10 4 0.03
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (7 bp):
TATTATA
Found at i:55302 original size:20 final size:21
Alignment explanation
Indices: 55204--55356 Score: 138
Period size: 20 Copynumber: 7.0 Consensus size: 21
55194 TATGGTACAT
55204 TATTATATATTATATATATTATA
1 TATTATATA-T-TATATATTATA
55227 TGATATAGTATATTAT-TATTATA
1 T-AT-TA-TATATTATATATTATA
55250 TATTATATATTATATA-TATA
1 TATTATATATTATATATTATA
*
55270 T-TTAGTATGTTATATATTATA
1 TATTA-TATATTATATATTATA
* *
55291 TATT-TAAATTATATATTAGTT
1 TATTATATATTATATATTA-TA
55312 TA-TATATATATATATTATTTATA
1 TATTATATAT-TATA-TA-TTATA
55335 TATTATAT-TTATTATATTATA
1 TATTATATATTA-TATATTATA
55356 T
1 T
55357 TATATTTATT
Statistics
Matches: 110, Mismatches: 6, Indels: 30
0.75 0.04 0.21
Matches are distributed among these distances:
19 3 0.03
20 36 0.33
21 22 0.20
22 12 0.11
23 17 0.15
24 13 0.12
25 3 0.03
26 4 0.04
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTATATATTATATATTATA
Found at i:55363 original size:32 final size:32
Alignment explanation
Indices: 55206--55379 Score: 138
Period size: 32 Copynumber: 5.6 Consensus size: 32
55196 TGGTACATTA
* *
55206 TTATATATTATATATATTATATGATA-TAGTAT
1 TTATATATTATATTTATTATATTATATTA-TAT
55238 ATTAT-TATTATATATTA-TATATTATATATATAT
1 -TTATATATTATAT-TTATTATATTATAT-TATAT
* *
55271 TTAGTATGTTATA--TATTATA-TAT-TTA-AA
1 TTA-TATATTATATTTATTATATTATATTATAT
*
55299 TTATATATTA-GTTTA-TATA-TATATATATTAT
1 TTATATATTATATTTATTATATTATAT-TA-TAT
55330 TTATATATTATATTTATTATATTATATTATAT
1 TTATATATTATATTTATTATATTATATTATAT
* *
55362 TTATTTTTTAT-TTTATTA
1 TTATATATTATATTTATTA
55380 ATTTTTATTT
Statistics
Matches: 116, Mismatches: 10, Indels: 32
0.73 0.06 0.20
Matches are distributed among these distances:
27 13 0.11
28 7 0.06
29 4 0.03
30 1 0.01
31 23 0.20
32 39 0.34
33 16 0.14
34 13 0.11
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (32 bp):
TTATATATTATATTTATTATATTATATTATAT
Found at i:55373 original size:16 final size:17
Alignment explanation
Indices: 55242--55383 Score: 85
Period size: 19 Copynumber: 7.9 Consensus size: 17
55232 TAGTATATTA
*
55242 TTATTATATATTATATAT
1 TTATTATAT-TTATTTAT
*
55260 TATATATATATTTA-GTAT
1 T-TAT-TATATTTATTTAT
*
55278 GTTA-TATA-TTATATAT
1 -TTATTATATTTATTTAT
55294 TTAAATTATATATTAGTTTAT
1 TT--ATTATAT-TTA-TTTAT
*
55315 ATATATATATATTATTTAT
1 TTAT-TATAT-TTATTTAT
*
55334 ATATTATATTTATTATAT
1 TTATTATATTTATT-TAT
55352 TATATTATATTTATTT-T
1 T-TATTATATTTATTTAT
* *
55369 TTATTTTATTAATTT
1 TTATTATATTTATTT
55384 TTATTTTCGA
Statistics
Matches: 104, Mismatches: 7, Indels: 28
0.75 0.05 0.20
Matches are distributed among these distances:
15 5 0.05
16 19 0.18
17 8 0.08
18 19 0.18
19 31 0.30
20 17 0.16
21 5 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATTATATTTATTTAT
Found at i:58561 original size:76 final size:75
Alignment explanation
Indices: 58471--58635 Score: 190
Period size: 76 Copynumber: 2.2 Consensus size: 75
58461 TAAACTCAAG
* * * *
58471 TTTAGGATAATATTTTAAATACTATAT-TTTATCTTT-TTATTTTAGTTTAAATAGGTTTTTAGT
1 TTTAGGATATTATTTT-AATACTATATCTTTAT-TTTAGTATTTTAGTTTAAACAAG-TTTTAGT
*
58534 ATTTTAATTAAGT
63 ATTTTAATTAAGA
* * *
58547 TTTAGGATATTATTTTTATATTTTATCTTTATTTTAGGTATTTTAGTTTAAACAAGTTTTAGTAT
1 TTTAGGATATTATTTTAATACTATATCTTTATTTTA-GTATTTTAGTTTAAACAAGTTTTAGTAT
*
58612 TTTAATTAGGA
65 TTTAATTAAGA
*
58623 TTTAGAATATTAT
1 TTTAGGATATTAT
58636 ATTATTTTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
75 10 0.13
76 50 0.66
77 16 0.21
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (75 bp):
TTTAGGATATTATTTTAATACTATATCTTTATTTTAGTATTTTAGTTTAAACAAGTTTTAGTATT
TTAATTAAGA
Found at i:62546 original size:15 final size:17
Alignment explanation
Indices: 62495--62551 Score: 114
Period size: 17 Copynumber: 3.4 Consensus size: 17
62485 TTGAAGCCTT
62495 TCTTTTTACTTTTCCTC
1 TCTTTTTACTTTTCCTC
62512 TCTTTTTACTTTTCCTC
1 TCTTTTTACTTTTCCTC
62529 TCTTTTTACTTTTCCTC
1 TCTTTTTACTTTTCCTC
62546 TCTTTT
1 TCTTTT
62552 CACACCCTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (17 bp):
TCTTTTTACTTTTCCTC
Found at i:63532 original size:76 final size:75
Alignment explanation
Indices: 63442--63590 Score: 185
Period size: 76 Copynumber: 2.0 Consensus size: 75
63432 TAAACTCAAG
**
63442 TTTAGGATAATATTTTAAATACTATAT-TTTATATTT-TTATTTTAGTTTAAATAGGTTTATAGT
1 TTTAGGATAATATTTT-AATACTATATCTTTAT-TTTAGAATTTTAGTTTAAATAGGTTT-TAGT
63505 ATTTTAATTAAGT
63 ATTTTAATTAAGT
* * * * *
63518 TTTAGGATATTATTTTTATATTTTATCTTTGTTTTAGGAATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATAATATTTTAATACTATATCTTTATTTTA-GAATTTTAGTTTAAATAGGTTTTAGTAT
63583 TTTAATTA
65 TTTAATTA
63591 GGATTTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
75 10 0.16
76 33 0.52
77 20 0.32
ACGTcount: A:0.31, C:0.01, G:0.11, T:0.57
Consensus pattern (75 bp):
TTTAGGATAATATTTTAATACTATATCTTTATTTTAGAATTTTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGT
Found at i:65294 original size:29 final size:30
Alignment explanation
Indices: 65260--65332 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
65250 AAATTTTATA
65260 TAGTAACCAAAATACAAAATTTG-AAAGTT
1 TAGTAACCAAAATACAAAATTTGAAAAGTT
* * * *
65289 TAGTAAACAAAGTATAAACTTTGTAAAAGTT
1 TAGTAACCAAAATACAAAATTTG-AAAAGTT
**
65320 TAGGGACCAAAAT
1 TAGTAACCAAAAT
65333 GGTAATTTCA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.49, C:0.10, G:0.14, T:0.27
Consensus pattern (30 bp):
TAGTAACCAAAATACAAAATTTGAAAAGTT
Found at i:66990 original size:24 final size:24
Alignment explanation
Indices: 66972--67035 Score: 128
Period size: 24 Copynumber: 2.7 Consensus size: 24
66962 TTGTATATAT
66972 ATGTTTTATACATCATGTACATGG
1 ATGTTTTATACATCATGTACATGG
66996 ATGTTTTATACATCATGTACATGG
1 ATGTTTTATACATCATGTACATGG
67020 ATGTTTTATACATCAT
1 ATGTTTTATACATCAT
67036 CTGGAAGACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (24 bp):
ATGTTTTATACATCATGTACATGG
Found at i:85904 original size:15 final size:15
Alignment explanation
Indices: 85884--85965 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
85874 TTCCAGAAAA
85884 TGAATTACTGGAATT
1 TGAATTACTGGAATT
85899 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
85914 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
85929 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
85944 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
85958 TGAATTAC
1 TGAATTAC
85966 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:85918 original size:30 final size:30
Alignment explanation
Indices: 85884--85965 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
85874 TTCCAGAAAA
**
85884 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
85914 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
85944 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
85966 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:85930 original size:45 final size:44
Alignment explanation
Indices: 85879--85965 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
85869 TGGTTTTCCA
**
85879 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
85924 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
85966 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:85971 original size:20 final size:20
Alignment explanation
Indices: 85948--86017 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
85938 GGAATTTGAA
85948 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
85968 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
85988 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
86008 TTCTGGAAAA
1 TTCTGGAAAA
86018 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:86236 original size:30 final size:28
Alignment explanation
Indices: 86179--86282 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 28
86169 CTTTACTAAA
*
86179 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAAAAATATTAT
86208 -TCATTATTAAATATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAA--TATTAT
*
86238 ATATTATTAAA-ATAAAAATATAATATCT-T
1 ATATTATTAAATATATAAA-A-AATAT-TAT
86267 ATATTATTATAATATA
1 ATATTATTA-AATATA
86283 ATTGATTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
28 14 0.22
29 25 0.39
30 19 0.30
31 6 0.09
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:86305 original size:15 final size:16
Alignment explanation
Indices: 86267--86345 Score: 51
Period size: 17 Copynumber: 5.0 Consensus size: 16
86257 ATAATATCTT
86267 ATATTATTATAATATA
1 ATATTATTATAATATA
*
86283 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
86300 ATATTA--AAAATATA
1 ATATTATTATAATATA
*
86314 ATATGATATTATTATA-A
1 ATAT--TATTATAATATA
*
86331 ATATTAATA-AATATA
1 ATATTATTATAATATA
86346 TTTTAAATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 17
0.67 0.10 0.24
Matches are distributed among these distances:
14 12 0.25
15 9 0.19
16 4 0.08
17 13 0.27
18 10 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:86313 original size:31 final size:32
Alignment explanation
Indices: 86267--86345 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 32
86257 ATAATATCTT
*
86267 ATATTATTATAATATAAT-TGATTATT-TTATATA
1 ATATTAATA-AATATAATATGA-TATTATTATA-A
86300 ATATTAA-AAATATAATATGATATTATTATAA
1 ATATTAATAAATATAATATGATATTATTATAA
86331 ATATTAATAAATATA
1 ATATTAATAAATATA
86346 TTTTAAATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
31 20 0.48
32 16 0.38
33 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
ATATTAATAAATATAATATGATATTATTATAA
Found at i:86332 original size:22 final size:20
Alignment explanation
Indices: 86300--86355 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
86290 ATTTTATATA
* *
86300 ATATTAAAAATATAATATGAT
1 ATATTATAAATATAATA-AAT
86321 ATTATTATAAATATTAATAAAT
1 A-TATTATAAATA-TAATAAAT
*
86343 ATATTTTAAATAT
1 ATATTATAAATAT
86356 TTTAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 11 0.37
22 13 0.43
23 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATATTATAAATATAATAAAT
Found at i:86355 original size:52 final size:51
Alignment explanation
Indices: 86236--86356 Score: 124
Period size: 54 Copynumber: 2.3 Consensus size: 51
86226 AAAATTTATT
* **
86236 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTGATATTATTATAATATAATAA
86287 AT-TATTTTATATAATATTAAAAATATAATA-TGATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTGATATTATTAT-AATA-TAATAA
86341 ATATATTTTAAATATT
1 ATATATTTTAAATATT
86357 TTAATAATTA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 19 0.32
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTGATATTATTATAATATAATAA
Found at i:86607 original size:42 final size:42
Alignment explanation
Indices: 86545--86664 Score: 213
Period size: 42 Copynumber: 2.9 Consensus size: 42
86535 ATGAATTACA
86545 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
*
86587 TTTCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
* *
86629 TTCCAGAAAACGAATTACGTGAAACAAACACTGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
86665 TTCGGGGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
Found at i:96026 original size:20 final size:21
Alignment explanation
Indices: 96001--96045 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
95991 TGTGGGTACT
*
96001 GATATT-GACCCTTTAGTATC
1 GATATTAGACCATTTAGTATC
* *
96021 GATATTATACTATTTAGTATC
1 GATATTAGACCATTTAGTATC
96042 GATA
1 GATA
96046 CCCACATGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (21 bp):
GATATTAGACCATTTAGTATC
Found at i:108641 original size:18 final size:20
Alignment explanation
Indices: 108612--108667 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 20
108602 TTTTAAAATT
108612 ACCTT-AGTATCGATACTCG
1 ACCTTGAGTATCGATACTCG
* * *
108631 -CC-TGGGTATCGATATTGG
1 ACCTTGAGTATCGATACTCG
108649 ACCTTGAGTATCGATACTC
1 ACCTTGAGTATCGATACTC
108668 CTTAGAGGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.04
18 13 0.46
19 2 0.07
20 12 0.43
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (20 bp):
ACCTTGAGTATCGATACTCG
Found at i:110637 original size:23 final size:23
Alignment explanation
Indices: 110571--110670 Score: 112
Period size: 23 Copynumber: 4.3 Consensus size: 23
110561 AAGTTCCACA
* *
110571 TAGAATTTGTCCCGAATGACCGCG
1 TAGAA-TTGTCCTGAAGGACCGCG
* *
110595 TATGATTTGTCCTGAAGGACCACG
1 TA-GAATTGTCCTGAAGGACCGCG
*
110619 TAGAATTG-CCATGAAGGACCGCA
1 TAGAATTGTCC-TGAAGGACCGCG
*
110642 TAGATTTGTCCTGAAGGACCGCG
1 TAGAATTGTCCTGAAGGACCGCG
110665 TAGAAT
1 TAGAAT
110671 CCTCGACTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
22 2 0.03
23 38 0.60
24 21 0.33
25 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (23 bp):
TAGAATTGTCCTGAAGGACCGCG
Found at i:117939 original size:15 final size:15
Alignment explanation
Indices: 117919--117949 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
117909 TCTATCATAA
117919 ATGATTGAGATAGGG
1 ATGATTGAGATAGGG
117934 ATGATTGAGATAGGG
1 ATGATTGAGATAGGG
117949 A
1 A
117950 CTCCATCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (15 bp):
ATGATTGAGATAGGG
Found at i:126604 original size:22 final size:22
Alignment explanation
Indices: 126579--126631 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
126569 AGTGAAAATT
126579 CACTTTCGTATAAGTGCTG-AGG
1 CACTTTCGTATAAGTGC-GAAGG
* *
126601 CACTTTAGTATTAGTGCGAAGG
1 CACTTTCGTATAAGTGCGAAGG
126623 CACTTTCGT
1 CACTTTCGT
126632 GATTCTATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (22 bp):
CACTTTCGTATAAGTGCGAAGG
Found at i:127769 original size:3 final size:3
Alignment explanation
Indices: 127761--127807 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
127751 TTATTTTAAT
*
127761 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
127808 CAAATTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:128255 original size:12 final size:12
Alignment explanation
Indices: 128238--128270 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
128228 GGGAAAAACA
128238 AAAAAAACAGAG
1 AAAAAAACAGAG
128250 AAAAAAACAGAG
1 AAAAAAACAGAG
128262 AAAAAAACA
1 AAAAAAACA
128271 TATATTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAACAGAG
Found at i:135411 original size:107 final size:104
Alignment explanation
Indices: 135105--135454 Score: 351
Period size: 107 Copynumber: 3.3 Consensus size: 104
135095 GCTTGAGACA
* * *
135105 ATTTCTTTCAGAACAAATTTCGTCTCATTTGAGAAATTTTTCCTTTGAGATATA-AAATTT-GTA
1 ATTT-TTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGA-ATACAAATTTCGAA
* *
135168 TTTGTTTCACATTAAACAAAGTTGATCTCATTTGAGATCGT
64 TTTGTTTCATATTAAACAAAGTTGATCTCACTTGAGATCGT
* *
135209 ATTTTCTT-AAAACAAACTTT-GTCT-TTCTTGAGACATGTTTTTCCTTTGA-TATACAAATTTC
1 ATTTT-TTCAAAACAAA-TTTCGTCTCAT-TTGAGACA--TTTTTCCTTTGAGAATACAAATTTC
* * * * * *
135270 GAATTTGATCCACT-TGAAACAAAAATTAATCTCACTTGAGATTGTT
61 GAATTTGTTTCA-TATTAAAC-AAAGTTGATCTCACTTGAGATCG-T
*
135316 ATTCTTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGAATACAAATTTCAAAT
1 ATT-TTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGAATACAAATTTCGAAT
135381 TTGTTTTCATATTAAACAAAGTTGATCTCACTTGAGATC--
65 TTG-TTTCATATTAAACAAAGTTGATCTCACTTGAGATCGT
* ** *
135420 ATTTTCTCAAAAACAACGTT-GTCTCACTTGAGACA
1 ATTTTTTC-AAAACAAATTTCGTCTCATTTGAGACA
135455 ATTTCTCTAA
Statistics
Matches: 202, Mismatches: 26, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
102 1 0.00
103 40 0.20
104 27 0.13
105 26 0.13
106 31 0.15
107 46 0.23
108 30 0.15
109 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (104 bp):
ATTTTTTCAAAACAAATTTCGTCTCATTTGAGACATTTTTCCTTTGAGAATACAAATTTCGAATT
TGTTTCATATTAAACAAAGTTGATCTCACTTGAGATCGT
Found at i:135434 original size:36 final size:34
Alignment explanation
Indices: 135394--135530 Score: 139
Period size: 36 Copynumber: 3.9 Consensus size: 34
135384 TTTTCATATT
*
135394 AAACAAAGTTGATCTCACTTGAGATCATTTTCTCAA
1 AAACAAAGTTG-TCTCACTTGAGA-CAATTTCTCAA
*
135430 AAACAACGTTGTCTCACTTGAGACAATTTCTCTAA
1 AAACAAAGTTGTCTCACTTGAGACAATTTCTC-AA
* ** * ** *
135465 AACCAATTTTTGTGTCGTTTGAGACAATTTCTCTAC
1 AAACAA-AGTTGTCTCACTTGAGACAATTTCTC-AA
135501 AAACAAATGTTGTCTCACTTGAGACAATTT
1 AAACAAA-GTTGTCTCACTTGAGACAATTT
135531 TCCAAATTAT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
34 8 0.10
35 19 0.23
36 56 0.67
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (34 bp):
AAACAAAGTTGTCTCACTTGAGACAATTTCTCAA
Found at i:135583 original size:32 final size:30
Alignment explanation
Indices: 135547--135608 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
135537 TTATGAATTT
135547 GTTTCACTGGAAACAAACATCATCTTTGAGTC
1 GTTTCACTGGAAAC-AA-ATCATCTTTGAGTC
** * *
135579 GTTTCTTTTGAAACAAATGATCTTTGAGTC
1 GTTTCACTGGAAACAAATCATCTTTGAGTC
135609 TATTTCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 13 0.50
31 2 0.08
32 11 0.42
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (30 bp):
GTTTCACTGGAAACAAATCATCTTTGAGTC
Found at i:135604 original size:30 final size:31
Alignment explanation
Indices: 135568--135626 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
135558 AACAAACATC
*
135568 ATCTTTGAGTC-GTTTCTTTTGAAACAAATG
1 ATCTTTGAGTCTATTTCTTTTGAAACAAATG
135598 ATCTTTGAGTCTATTTCTTTTGAAACAAA
1 ATCTTTGAGTCTATTTCTTTTGAAACAAA
135627 ACTTTGTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (31 bp):
ATCTTTGAGTCTATTTCTTTTGAAACAAATG
Found at i:135736 original size:99 final size:100
Alignment explanation
Indices: 135598--135777 Score: 240
Period size: 99 Copynumber: 1.8 Consensus size: 100
135588 GAAACAAATG
* *
135598 ATCTTTGAGTCTATTTCTTTTGAAACAAAACTTTGTCTCTCTTGAGACAGATTT-TCTTGAAA-A
1 ATCTTTGAGTATATTTCTTTTGAAACAAAACTTTGTCTCTCTTGAGAAAG-TTTCTCTTGAAATA
* *
135661 ATCTTTGAGTTTGTTTCACTTAAAACAAAATGAAAA
65 ATCATTGAGTATGTTTCACTTAAAACAAAATGAAAA
* * * * *
135697 ATCTTTGAGTATGTTTC-TTTGATAACAAAATTTTTTCTCTTTTGAGAAAGTTTCTTTTGAAATA
1 ATCTTTGAGTATATTTCTTTTGA-AACAAAACTTTGTCTCTCTTGAGAAAGTTTCTCTTGAAATA
135761 ATCATTGAGTATGTTTC
65 ATCATTGAGTATGTTTC
135778 TTTGGAAGCA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
98 8 0.12
99 45 0.65
100 16 0.23
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (100 bp):
ATCTTTGAGTATATTTCTTTTGAAACAAAACTTTGTCTCTCTTGAGAAAGTTTCTCTTGAAATAA
TCATTGAGTATGTTTCACTTAAAACAAAATGAAAA
Found at i:135770 original size:64 final size:63
Alignment explanation
Indices: 135691--135821 Score: 183
Period size: 64 Copynumber: 2.1 Consensus size: 63
135681 TAAAACAAAA
* * * *
135691 TGAAAAATCTTTGAGTATGTTTCTTT-GATAACAAAATTTTTTCTCTTTTGAGAAAGTTTCTTT
1 TGAAAAATCATTGAGTATGTTTCTTTGGA-AACAAAATTTTGTCACTTTTGAGAAAGTTCCTTT
* *
135754 TGAAATAATCATTGAGTATGTTTCTTTGGAAGCAAAATTTTGTCACTTTTGAGACAGTTCCTTT
1 TGAAA-AATCATTGAGTATGTTTCTTTGGAAACAAAATTTTGTCACTTTTGAGAAAGTTCCTTT
135818 TGAA
1 TGAA
135822 GAAAAATCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
63 5 0.08
64 53 0.88
65 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (63 bp):
TGAAAAATCATTGAGTATGTTTCTTTGGAAACAAAATTTTGTCACTTTTGAGAAAGTTCCTTT
Found at i:135964 original size:29 final size:29
Alignment explanation
Indices: 135894--136007 Score: 129
Period size: 29 Copynumber: 3.8 Consensus size: 29
135884 TAAAACAAAC
** *
135894 ATCTTTGAGATTGTTTCCCTTGAAACAAAA
1 ATCTTTGAG-TTGTTTCTTTTGAAATAAAA
*
135924 CCTATCTTTGAGTTGTCTCTTTTGAAATAAAA
1 ---ATCTTTGAGTTGTTTCTTTTGAAATAAAA
* *
135956 ATCTGTGAGTTGTTTCTTTTAAAATAAAA
1 ATCTTTGAGTTGTTTCTTTTGAAATAAAA
*
135985 ATCTTTGAGTTATTTCTTTTGAA
1 ATCTTTGAGTTGTTTCTTTTGAA
136008 CCAAAGTTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
29 46 0.65
32 16 0.23
33 9 0.13
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (29 bp):
ATCTTTGAGTTGTTTCTTTTGAAATAAAA
Found at i:136062 original size:90 final size:94
Alignment explanation
Indices: 135952--136150 Score: 235
Period size: 90 Copynumber: 2.2 Consensus size: 94
135942 CTTTTGAAAT
* ** * *
135952 AAAAATCTGTGAGTTGTTTCTTTTAAAATAAAAATCTTTGAG-TTATTTCTTTTGAACCAAAGTT
1 AAAAATCTTTGAGTCATTTCTTTTAAAACAAAAATCTTTGAGTTTATTTCTTTTGAAACAAAGTT
*
136016 TTATTTCTCTTAAGACA-ATT-TCGTGA-
66 TTATCTCTCTTAAGACAGATTGTCGTGAG
* * * * *
136042 AAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATTTTTTAGTTTGTTTCTTTTGAAACAAAGTT
1 AAAAATCTTTGAGTCATTTCTTTTAAAACAAAAATCTTTGAGTTTATTTCTTTTGAAACAAAGTT
* * * *
136107 TTGTCTCTCTTGAGACAGTTTGTCTTGAG
66 TTATCTCTCTTAAGACAGATTGTCGTGAG
136136 AAAAATCTTTGAGTC
1 AAAAATCTTTGAGTC
136151 TGTTCCTTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
90 34 0.38
91 34 0.38
92 2 0.02
93 5 0.06
94 15 0.17
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (94 bp):
AAAAATCTTTGAGTCATTTCTTTTAAAACAAAAATCTTTGAGTTTATTTCTTTTGAAACAAAGTT
TTATCTCTCTTAAGACAGATTGTCGTGAG
Found at i:136117 original size:91 final size:92
Alignment explanation
Indices: 135952--136164 Score: 234
Period size: 91 Copynumber: 2.3 Consensus size: 92
135942 CTTTTGAAAT
* * * * *
135952 AAAAATCTGTGAGTTGTTTCTTTTAAAATAAAAATCTTTGAGTTATTTCTTTTGAACCAAAGTTT
1 AAAAATCTTTGAG-TCTTTCTTTTGAAACAAAAATCTTTGAGTTATTTCTTTTGAAACAAAGTTT
*
136017 TATTTCTCTTAAGACA-ATT-TCGTGA-
65 TATCTCTCTTAAGACAGATTGTCGTGAG
* * * *
136042 AAAAATCTTTGAGTCATTTCTTTTGAAACCAAAATTTTTTAGTTTGTTTCTTTTGAAACAAAGTT
1 AAAAATCTTTGAGTC-TTTCTTTTGAAACAAAAATCTTTGAG-TTATTTCTTTTGAAACAAAGTT
* * * *
136107 TTGTCTCTCTTGAGACAGTTTGTCTTGAG
64 TTATCTCTCTTAAGACAGATTGTCGTGAG
136136 AAAAATCTTTGAGTCTGTTCCTTTTGAAA
1 AAAAATCTTTGAGTCT-TT-CTTTTGAAA
136165 AATCTTTGAG
Statistics
Matches: 102, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
89 1 0.01
90 33 0.32
91 34 0.33
92 2 0.02
93 6 0.06
94 17 0.17
95 9 0.09
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.45
Consensus pattern (92 bp):
AAAAATCTTTGAGTCTTTCTTTTGAAACAAAAATCTTTGAGTTATTTCTTTTGAAACAAAGTTTT
ATCTCTCTTAAGACAGATTGTCGTGAG
Found at i:136627 original size:134 final size:134
Alignment explanation
Indices: 136387--136745 Score: 475
Period size: 134 Copynumber: 2.7 Consensus size: 134
136377 AATCATTATC
* * * *
136387 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCTGTGTCAACTCCTGATCAGATCTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCTCCCGACCAGATCTCCTCAT
* * *
136452 CACGTAGGAGCCGTGTCAACCATAGATAACAAGCAATCCTCATCACGTAGGAACCGTGTTATCGC
66 CACGTAGGAGCCGTGTCACCCATAGATAACAAGCAATCCTCATCACGTAGGAACCGAGTTATCAC
136517 CCTT
131 CCTT
* * * * *
136521 CCTAAAGATGGCTAGAACTCTTCATCATGTATGAGCCGTGTCATCTCCCGACCAAATCTCTTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCTCCCGACCAGATCTCCTCAT
* * * * ** *
136586 CGCGTATGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCCCGTAGGAACCGAGTTATCAC
66 CACGTAGGAGCCGTGTCACCCATAGATAACAAGCAATCCTCATCACGTAGGAACCGAGTTATCAC
136651 CCTT
131 CCTT
* * * * *
136655 CTTAAAGATGGCCATAACTCTTCATCACGTATGAGCAATGTCATCTCTCGACCAGATTTCCTCAT
1 CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCTCCCGACCAGATCTCCTCAT
* * *
136720 CACATAGGAACCGTGTCACCCTTAGA
66 CACGTAGGAGCCGTGTCACCCATAGA
136746 CGACCCGAAC
Statistics
Matches: 192, Mismatches: 33, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
134 192 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (134 bp):
CCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCAGTGTCATCTCCCGACCAGATCTCCTCAT
CACGTAGGAGCCGTGTCACCCATAGATAACAAGCAATCCTCATCACGTAGGAACCGAGTTATCAC
CCTT
Found at i:136960 original size:3 final size:3
Alignment explanation
Indices: 136952--136997 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
136942 TTATTTTAAT
*
136952 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA -TA TTA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
136998 CAAATTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 35 0.90
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:144145 original size:18 final size:17
Alignment explanation
Indices: 144121--144167 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
144111 GATAGTTGAC
144121 TAATTAAACTAGTTCAT
1 TAATTAAACTAGTTCAT
* * *
144138 TCATTTAAATTGGTTCAT
1 T-AATTAAACTAGTTCAT
144156 TAATTAAACTAG
1 TAATTAAACTAG
144168 CTCTTTATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.43
Consensus pattern (17 bp):
TAATTAAACTAGTTCAT
Found at i:144610 original size:24 final size:24
Alignment explanation
Indices: 144573--144618 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
144563 TAATTCAAAG
*
144573 AATTCAAGTCTGATTTAGTCATCC
1 AATTCAAGTCTGATTTAATCATCC
144597 AATTCAAGGT-TGATTTAATCAT
1 AATTCAA-GTCTGATTTAATCAT
144619 TCAAACCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (24 bp):
AATTCAAGTCTGATTTAATCATCC
Found at i:144628 original size:24 final size:24
Alignment explanation
Indices: 144583--144629 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
144573 AATTCAAGTC
* **
144583 TGATTTAGTCATCCAATTCAAGGT
1 TGATTTAATCATCCAAACCAAGGT
*
144607 TGATTTAATCATTCAAACCAAGG
1 TGATTTAATCATCCAAACCAAGG
144630 GTTGTTCATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (24 bp):
TGATTTAATCATCCAAACCAAGGT
Found at i:146685 original size:19 final size:19
Alignment explanation
Indices: 146652--146713 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 19
146642 TTGCAAAAAG
*
146652 GAAAAAGAAA-CGAGAGTT
1 GAAAAAGAAATTGAGAGTT
* *
146670 GAAAAAGACATTGAGAGTGAA
1 GAAAAAGAAATTGAGAGT--T
146691 GAAAAAGAAATTG-GAGTT
1 GAAAAAGAAATTGAGAGTT
146709 -AAAAA
1 GAAAAA
146714 TATTGAAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
17 5 0.14
18 9 0.25
19 6 0.17
20 4 0.11
21 12 0.33
ACGTcount: A:0.56, C:0.03, G:0.26, T:0.15
Consensus pattern (19 bp):
GAAAAAGAAATTGAGAGTT
Found at i:148288 original size:24 final size:24
Alignment explanation
Indices: 148260--148305 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
148250 TAATTCAAAT
148260 AATTCAAGGCTGATTTAATCATCC
1 AATTCAAGGCTGATTTAATCATCC
*
148284 AATTCAAGGTTGATTTAATCAT
1 AATTCAAGGCTGATTTAATCAT
148306 TTAAACCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (24 bp):
AATTCAAGGCTGATTTAATCATCC
Found at i:148315 original size:24 final size:24
Alignment explanation
Indices: 148264--148316 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
148254 TCAAATAATT
**
148264 CAAGGCTGATTTAATCATCCAATT
1 CAAGGCTGATTTAATCATCCAAAC
* **
148288 CAAGGTTGATTTAATCATTTAAAC
1 CAAGGCTGATTTAATCATCCAAAC
148312 CAAGG
1 CAAGG
148317 GCTGTTCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (24 bp):
CAAGGCTGATTTAATCATCCAAAC
Found at i:151592 original size:20 final size:22
Alignment explanation
Indices: 151548--151592 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
151538 GGAGTATCGG
*
151548 TACCATAGTATAGAAGTATCGA
1 TACCATAGTATAGAAGTACCGA
*
151570 TACCATAGTA-A-AGGTACCGA
1 TACCATAGTATAGAAGTACCGA
151590 TAC
1 TAC
151593 AATCGAGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 1 0.05
22 10 0.48
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (22 bp):
TACCATAGTATAGAAGTACCGA
Found at i:152016 original size:54 final size:54
Alignment explanation
Indices: 151921--152258 Score: 435
Period size: 54 Copynumber: 6.3 Consensus size: 54
151911 GTGTACTATG
** * * * *
151921 GGCACTAAGTGTATAACCCATGGAATCCATAATATGTTGATGAACGACCATATA
1 GGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATA
* * * * * * *
151975 GGCACTAACTATGCAACCCATGGGATTCATCATACGCTGATGAACGATCGTATA
1 GGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATA
* * *
152029 TGCACTAAGTGTGAAACCCACGAAATTCATCATATGTTGATGAACGACCGTATA
1 GGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATA
* * *
152083 GGCACTAAGTGTGCAACCCACGAAATTCATCATATGTTGATGAATGACCGCATA
1 GGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATA
*
152137 GGCACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCGTATA
1 GGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATA
* * * * *
152191 GACACTAAGTGTGCAA-CTACAGAATTAATCATATGTTGATGAACGACCGCATA
1 GGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATA
*
152244 GGCACTACGTGTGCA
1 GGCACTAAGTGTGCA
152259 TCTCAAAGAA
Statistics
Matches: 249, Mismatches: 35, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
53 47 0.19
54 202 0.81
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (54 bp):
GGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCGTATA
Found at i:158755 original size:54 final size:54
Alignment explanation
Indices: 158671--159015 Score: 465
Period size: 54 Copynumber: 6.4 Consensus size: 54
158661 CTATCTGTAC
* * * *
158671 TATAGGCACTAAGTGTGCAACCCGTGTAATTCATAATATGTTGATGAACGACTG
1 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
* * * *
158725 TGTAGGCACTAAGTGTGCAACCCATGTAATTCATAATATGTTGATGAACGACTG
1 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
* * * * * * * *
158779 TGTAGGCACTAACTGTGTAACCCATGGGATTCATCGTACGCTGATGAACGACCA
1 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
* *
158833 TATAGGCACTAAGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCA
1 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
* * * * *
158887 CATAGGAACTAAGCGTGCAACCCATGAAATTCATCATATGTTGATGAACGACTG
1 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
*
158941 TATAGGCACTAAGTGTGCAACCCAAGGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
*
158995 TATAGGCACTAAGTGTTCAAC
1 TATAGGCACTAAGTGTGCAAC
159016 TCAAAGAAAT
Statistics
Matches: 257, Mismatches: 34, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 257 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCATGGAATTCATCATATGTTGATGAACGACCG
Found at i:160923 original size:24 final size:24
Alignment explanation
Indices: 160896--160942 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
160886 CTAATTCAAA
* *
160896 CAATTCAAGGTTGATTTCATCATC
1 CAATTCAAGGTTCATTTAATCATC
160920 CAATTCAAGGTTCATTTAATCAT
1 CAATTCAAGGTTCATTTAATCAT
160943 TCAAACCAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (24 bp):
CAATTCAAGGTTCATTTAATCATC
Found at i:160952 original size:24 final size:24
Alignment explanation
Indices: 160901--160953 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
160891 TCAAACAATT
* * **
160901 CAAGGTTGATTTCATCATCCAATT
1 CAAGGTTCATTTAATCATCCAAAC
*
160925 CAAGGTTCATTTAATCATTCAAAC
1 CAAGGTTCATTTAATCATCCAAAC
160949 CAAGG
1 CAAGG
160954 ACTGTTCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (24 bp):
CAAGGTTCATTTAATCATCCAAAC
Found at i:164572 original size:24 final size:24
Alignment explanation
Indices: 164544--164637 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 24
164534 AAACATATTT
*
164544 CAGGTCAAGTATCATATTAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* * *
164568 TAGGTCATGTATCAGATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
164592 CATGTCAA-AATCATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
164615 CAGGTCAGGTATCATAACAGAAT
1 CAGGTCAAGTATCATATCAGAAT
164638 TCAAATCATA
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 19 0.34
24 37 0.66
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:164609 original size:23 final size:23
Alignment explanation
Indices: 164578--164621 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
164568 TAGGTCATGT
*
164578 ATCAGATCAGAATCCATGTCAAA
1 ATCAGATCAGAATCCAGGTCAAA
*
164601 ATCATATCAGAATCCAGGTCA
1 ATCAGATCAGAATCCAGGTCA
164622 GGTATCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.23
Consensus pattern (23 bp):
ATCAGATCAGAATCCAGGTCAAA
Found at i:170298 original size:14 final size:14
Alignment explanation
Indices: 170279--170308 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
170269 TTTAGATTTT
*
170279 TTAAAATTACATTA
1 TTAAAAATACATTA
170293 TTAAAAATACATTA
1 TTAAAAATACATTA
170307 TT
1 TT
170309 GATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:170401 original size:7 final size:7
Alignment explanation
Indices: 170389--170442 Score: 60
Period size: 7 Copynumber: 7.9 Consensus size: 7
170379 TATGTGATAG
170389 GGTTTAT
1 GGTTTAT
170396 GGTTTA-
1 GGTTTAT
170402 GGATTTA-
1 GG-TTTAT
170409 GGTTTA-
1 GGTTTAT
*
170415 GGATTCAT
1 GG-TTTAT
170423 GGTTTAT
1 GGTTTAT
170430 GGTTTAT
1 GGTTTAT
170437 GGTTTA
1 GGTTTA
170443 ATTTATACAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 8 0.19
7 32 0.76
8 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.50
Consensus pattern (7 bp):
GGTTTAT
Found at i:170403 original size:14 final size:14
Alignment explanation
Indices: 170386--170442 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
170376 AATTATGTGA
*
170386 TAGGGTTTATGGTT
1 TAGGATTTATGGTT
170400 TAGGATTTA-GGTT
1 TAGGATTTATGGTT
*
170413 TAGGATTCATGGTT
1 TAGGATTTATGGTT
170427 TATGG-TTTATGGTT
1 TA-GGATTTATGGTT
170441 TA
1 TA
170443 ATTTATACAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
13 12 0.32
14 24 0.63
15 2 0.05
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (14 bp):
TAGGATTTATGGTT
Found at i:170762 original size:17 final size:17
Alignment explanation
Indices: 170733--170765 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
170723 AATTAAAATT
170733 ACAAGACACAATTGAAA
1 ACAAGACACAATTGAAA
170750 ACAAG-CACAAATTGAA
1 ACAAGACAC-AATTGAA
170766 GGAACACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.58, C:0.18, G:0.12, T:0.12
Consensus pattern (17 bp):
ACAAGACACAATTGAAA
Found at i:171854 original size:11 final size:11
Alignment explanation
Indices: 171838--171899 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
171828 AATTTCGAGT
171838 TCGAGCTTGAA
1 TCGAGCTTGAA
171849 TCGAGCTTGAA
1 TCGAGCTTGAA
* **
171860 CCGAGCTCAAA
1 TCGAGCTTGAA
* *
171871 TTCGAGTTTGAGT
1 -TCGAGCTTGA-A
171884 TCGAGCTTGAA
1 TCGAGCTTGAA
171895 TCGAG
1 TCGAG
171900 TTCGAGCTTG
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
11 24 0.62
12 15 0.38
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:171898 original size:23 final size:23
Alignment explanation
Indices: 171834--171901 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
171824 GTTCAATTTC
*
171834 GAGTTCGAGCTTGAATCGAGCTT
1 GAGTTCGAGCTTGAATCGAGTTT
** **
171857 GA-ACCGAGCTCAAATTCGAGTTT
1 GAGTTCGAGCTTGAA-TCGAGTTT
171880 GAGTTCGAGCTTGAATCGAGTT
1 GAGTTCGAGCTTGAATCGAGTT
171902 CGAGCTTGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.24
23 18 0.53
24 8 0.24
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (23 bp):
GAGTTCGAGCTTGAATCGAGTTT
Found at i:171902 original size:17 final size:17
Alignment explanation
Indices: 171880--171913 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
171870 ATTCGAGTTT
171880 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
171897 GAGTTCGAGCTTGAATC
1 GAGTTCGAGCTTGAATC
171914 AAGCTTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (17 bp):
GAGTTCGAGCTTGAATC
Found at i:175476 original size:14 final size:14
Alignment explanation
Indices: 175457--175495 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
175447 TTGATAGACT
*
175457 GAAAATGAATTTTG
1 GAAAATGAATTCTG
175471 GAAAATGAATTCTG
1 GAAAATGAATTCTG
*
175485 AAAAATGAATT
1 GAAAATGAATT
175496 ACATTTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.31
Consensus pattern (14 bp):
GAAAATGAATTCTG
Found at i:180273 original size:11 final size:11
Alignment explanation
Indices: 180257--180293 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
180247 TTGATTGTAC
180257 TTGTTGTTTAT
1 TTGTTGTTTAT
180268 TTGTTGTTTAT
1 TTGTTGTTTAT
*
180279 ATGGTTGTTTAT
1 -TTGTTGTTTAT
180291 TTG
1 TTG
180294 CTATTTATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.68
Consensus pattern (11 bp):
TTGTTGTTTAT
Found at i:181071 original size:11 final size:11
Alignment explanation
Indices: 181055--181128 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
181045 CTTTAATTAC
*
181055 TTGTTGTTTAT
1 TTGTTGTTTAG
*
181066 TTGTTGTTTAT
1 TTGTTGTTTAG
181077 TTGATAT-TTTAG
1 TTG-T-TGTTTAG
* *
181089 TTGTTTTTTAT
1 TTGTTGTTTAG
*
181100 TTGTTATTTAG
1 TTGTTGTTTAG
* *
181111 TTGCTATTTAG
1 TTGTTGTTTAG
181122 TTGTTGT
1 TTGTTGT
181129 GAATTCAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
10 1 0.02
11 43 0.81
12 8 0.15
13 1 0.02
ACGTcount: A:0.14, C:0.01, G:0.18, T:0.68
Consensus pattern (11 bp):
TTGTTGTTTAG
Found at i:181087 original size:23 final size:23
Alignment explanation
Indices: 181061--181113 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
181051 TTACTTGTTG
*
181061 TTTATTTGTTGTTTATTTGATAT
1 TTTAGTTGTTGTTTATTTGATAT
* *
181084 TTTAGTTGTTTTTTATTTGTTA-
1 TTTAGTTGTTGTTTATTTGATAT
181106 TTTAGTTG
1 TTTAGTTG
181114 CTATTTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (23 bp):
TTTAGTTGTTGTTTATTTGATAT
Found at i:181099 original size:34 final size:33
Alignment explanation
Indices: 181055--181128 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 33
181045 CTTTAATTAC
* *
181055 TTGTTGTTTATTTGTTGTTTATTTGATATTTTAG
1 TTGTTGTTTATTTGTTATTTAGTTGATA-TTTAG
* *
181089 TTGTTTTTTATTTGTTATTTAGTTGCTATTTAG
1 TTGTTGTTTATTTGTTATTTAGTTGATATTTAG
181122 TTGTTGT
1 TTGTTGT
181129 GAATTCAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 11 0.31
34 24 0.69
ACGTcount: A:0.14, C:0.01, G:0.18, T:0.68
Consensus pattern (33 bp):
TTGTTGTTTATTTGTTATTTAGTTGATATTTAG
Found at i:181120 original size:22 final size:23
Alignment explanation
Indices: 181072--181126 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
181062 TTATTTGTTG
* * *
181072 TTTATTTGATATTTTAGTTGTTT
1 TTTATTTGTTATTTTAGTTGCTA
181095 TTTATTTGTTA-TTTAGTTGCTA
1 TTTATTTGTTATTTTAGTTGCTA
*
181117 TTTAGTTGTT
1 TTTATTTGTT
181127 GTGAATTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 18 0.64
23 10 0.36
ACGTcount: A:0.16, C:0.02, G:0.15, T:0.67
Consensus pattern (23 bp):
TTTATTTGTTATTTTAGTTGCTA
Found at i:182238 original size:29 final size:29
Alignment explanation
Indices: 182179--182241 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
182169 AGCTTCAATA
* **
182179 TGTGTTGATGGATGTTAACTACCATTTTT
1 TGTGTTGATAGATGTTAACTACCATCATT
* **
182208 TGTGTTGATAGATGTTACCTGTCATCATT
1 TGTGTTGATAGATGTTAACTACCATCATT
182237 TGTGT
1 TGTGT
182242 CACTTTTTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.11, G:0.22, T:0.48
Consensus pattern (29 bp):
TGTGTTGATAGATGTTAACTACCATCATT
Found at i:182283 original size:41 final size:41
Alignment explanation
Indices: 182204--182292 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
182194 TAACTACCAT
* * * *
182204 TTTTTGTGTTGATAGATGTTACCTGTCATCATTTGTGTCAC
1 TTTTTGTGTTGATAAATGTAAACTGCCATCATTTGTGTCAC
* *
182245 TTTTTGTGTTGATAAATGTAAAGTGCCATC-TTTAGTGTCAT
1 TTTTTGTGTTGATAAATGTAAACTGCCATCATTT-GTGTCAC
182286 TTTTTGT
1 TTTTTGT
182293 ATATGGCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 3 0.07
41 38 0.93
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.51
Consensus pattern (41 bp):
TTTTTGTGTTGATAAATGTAAACTGCCATCATTTGTGTCAC
Found at i:182381 original size:63 final size:62
Alignment explanation
Indices: 182281--182403 Score: 201
Period size: 63 Copynumber: 2.0 Consensus size: 62
182271 CATCTTTAGT
*
182281 GTCATTTTTTGTATATGGCATAGTGACTTAGTCAATATGGTATGGTTGCCAAAACCATATATG
1 GTCATTTTTTGTATATGGCATAATGACTTAGTCAATATGGTATGGTTGCC-AAACCATATATG
* * *
182344 GTCATTTTTTGTATATGGCATAATGGCTTAGTTAATATGGTATTGTTGCCAAACCATATA
1 GTCATTTTTTGTATATGGCATAATGACTTAGTCAATATGGTATGGTTGCCAAACCATATA
182404 CCATGATATA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
62 10 0.18
63 46 0.82
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (62 bp):
GTCATTTTTTGTATATGGCATAATGACTTAGTCAATATGGTATGGTTGCCAAACCATATATG
Found at i:182684 original size:35 final size:35
Alignment explanation
Indices: 182643--182717 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
182633 TCTAAACCCT
182643 AAATTAAAATATTTT-AGAATTTGGAATTTAGAATG
1 AAATTAAAATATTTTGA-AATTTGGAATTTAGAATG
* * *
182678 TAATTAAATTATTTTGAAATTTGGGATTTAGAATG
1 AAATTAAAATATTTTGAAATTTGGAATTTAGAATG
182713 AAATT
1 AAATT
182718 GAGGAATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.43
Consensus pattern (35 bp):
AAATTAAAATATTTTGAAATTTGGAATTTAGAATG
Found at i:188166 original size:88 final size:88
Alignment explanation
Indices: 188017--188192 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
188007 GACGTTAGAC
188017 ATGAAGTTGGGGAACTATCATCAAAGGAAGAAACAAAAAATGAAGAAACTCACGATATTCTCAAT
1 ATGAAGTTGGGGAACTATCATCAAAGGAAGAAACAAAAAATGAAGAAACTCACGATATTCTCAAT
188082 CTTCTCTTAGAAATATAGGTAAT
66 CTTCTCTTAGAAATATAGGTAAT
188105 ATGAAGTTGGGGAACTATCATCAAAGGAAGAAACAAAAAATGAAGAAACTCACGATATTCTCAAT
1 ATGAAGTTGGGGAACTATCATCAAAGGAAGAAACAAAAAATGAAGAAACTCACGATATTCTCAAT
188170 CTTCTCTTAGAAATATAGGTAAT
66 CTTCTCTTAGAAATATAGGTAAT
188193 TATGTTGCAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (88 bp):
ATGAAGTTGGGGAACTATCATCAAAGGAAGAAACAAAAAATGAAGAAACTCACGATATTCTCAAT
CTTCTCTTAGAAATATAGGTAAT
Found at i:189751 original size:44 final size:44
Alignment explanation
Indices: 189675--189776 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 44
189665 TTGTGCACTG
*
189675 TGCATCGATACACTATGAAAGTGTACCTATGCA-TCCTTTGAATA
1 TGCATCGATACACTATGAAAGTGCACCTATGCATTCC-TTGAATA
* * *
189719 TGCATCAATACACTATGAAGGTGCA-CTGATGCATTCCTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCT-ATGCATTCCTTGAATA
189763 TGCATCGATACACT
1 TGCATCGATACACT
189777 CTGCAGTGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
43 2 0.04
44 46 0.90
45 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCTATGCATTCCTTGAATA
Found at i:190298 original size:13 final size:13
Alignment explanation
Indices: 190273--190316 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
190263 AAAATTACAT
190273 ATTGTTATTCAAAC
1 ATTGTT-TTCAAAC
*
190287 ATTGTTTTCAAAA
1 ATTGTTTTCAAAC
**
190300 ATAATTTTCAAAC
1 ATTGTTTTCAAAC
190313 ATTG
1 ATTG
190317 CCCATTAGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (13 bp):
ATTGTTTTCAAAC
Found at i:191926 original size:64 final size:65
Alignment explanation
Indices: 191857--191992 Score: 186
Period size: 65 Copynumber: 2.1 Consensus size: 65
191847 ACGCCCTAAT
* * ** *
191857 TCGAATGCATTTTGTGTACCAATGCACAG-TCATGCATCGATGTACTCCT-GATTTTATTGAAAC
1 TCGAATGCATTTTATGTACCAATGCACAGACCATGCATCGATACACTCCTGGATCTT-TTGAAAC
191920 A
65 A
* *
191921 TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATACACTCCTGGCTCTTTTGAAACA
1 TCGAATGCATTTTATGTACCAATGCACAGACCATGCATCGATACACTCCTGGATCTTTTGAAACA
191986 TCGAATG
1 TCGAATG
191993 TAATTAGTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 27 0.43
65 32 0.51
66 4 0.06
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (65 bp):
TCGAATGCATTTTATGTACCAATGCACAGACCATGCATCGATACACTCCTGGATCTTTTGAAACA
Found at i:191986 original size:65 final size:64
Alignment explanation
Indices: 191857--192009 Score: 184
Period size: 65 Copynumber: 2.4 Consensus size: 64
191847 ACGCCCTAAT
* * * ** *
191857 TCGAATGCATTTTGTGTACCAATGCACAGTCATGCATCGATGTACTCCTGATTTTATTGAAACA
1 TCGAATGCATTTTATGTACCGATGCACAGCCATGCATCGATACACTCCTGATCTTATTGAAACA
*
191921 TCGAATGCATTTTATGTACCGATGCACAGACCATGCATCGATACACTCCTGGCTCTT-TTGAAAC
1 TCGAATGCATTTTATGTACCGATGCACAG-CCATGCATCGATACACTCCT-GATCTTATTGAAAC
191985 A
64 A
* *
191986 TCGAATGTA-ATTAGTGTACCGATG
1 TCGAATGCATTTTA-TGTACCGATG
192010 AACTAGGTAT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 30 0.39
65 43 0.56
66 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTATGTACCGATGCACAGCCATGCATCGATACACTCCTGATCTTATTGAAACA
Found at i:192780 original size:2 final size:2
Alignment explanation
Indices: 192773--192839 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
192763 TATTGTACCT
* *
192773 TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA TC TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
192815 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 T
192840 CATCCCTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:193219 original size:81 final size:81
Alignment explanation
Indices: 193000--193604 Score: 886
Period size: 81 Copynumber: 7.6 Consensus size: 81
192990 AACCTATCGT
** * * * *
193000 TTTTACTCAACATTGTTTAACCGTTCATTTAACTAGCATAATTGGCACATTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGCAC
193065 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* *
193081 TTTTACTCAAC-GTATTTAACCGTTCATCTAACTACCATAATTGGCACCTTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGCAC
193145 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* * *
193161 TTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGCAC
193226 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
*
193242 TTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGCAC
*
193307 AGTTAGACCATTATTC
66 AGTTAGGCCATTATTC
* *
193323 TTTTATTCCACGGTA-TTAACCGTTCATCT-ACTA-CATAATTGACACCTTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGCAC
193385 AGTTAGGCCATTATTC
66 AGTTAGGCCATTATTC
* * * * *
193401 TTTTACTCAATGGTATTTAACCGTTGATCTAGCTAGCATAATTGGCACCCTTTCTACCAATTGTA
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACA-CCTTTCTACCAATTGCA
193466 CAGTTAGGCCATTATTC
65 CAGTTAGGCCATTATTC
* * * *
193483 TTTTACTCAATGGTATTTAATCGTTCATCTAATTTGCATAATTGACACCTTTCTACCAATTGC-C
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGCAC
*
193547 AGTTAGGCCATTATTA
66 AGTTAGGCCATTATTC
* * *
193563 TTTCA-TCAAC-TTA-TTAACCGTTCATCT-ACTGGCATAATTGAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGAC
193605 CTGTTCATAA
Statistics
Matches: 482, Mismatches: 37, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
76 13 0.03
77 13 0.03
78 58 0.12
79 20 0.04
80 112 0.23
81 192 0.40
82 74 0.15
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (81 bp):
TTTTACTCAACGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCTTTCTACCAATTGCAC
AGTTAGGCCATTATTC
Found at i:193431 original size:159 final size:161
Alignment explanation
Indices: 193000--193604 Score: 850
Period size: 161 Copynumber: 3.8 Consensus size: 161
192990 AACCTATCGT
** * * * *
193000 TTTTACTCAACATTGTTTAACCGTTCATTTAACTAGCATAATTGGCACATTTCTACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTA-CATAATTGACACCTTTCTACCAATTGCAC
* * *
193065 AGTTAGGCCATTATTCTTTTACTCAA-CGTATTTAACCGTTCATCTAACTACCATAATTGGCACC
65 AGTTAGGCCATTATTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTAGCATAATTGACACC
193129 TTTCTACCAATTGCACAGTTAGGCCATTATTC
130 TTTCTACCAATTGCACAGTTAGGCCATTATTC
* * *
193161 TTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATACCAATTGCAC
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACT-ACATAATTGACACCTTTCTACCAATTGCAC
* *
193226 AGTTAGGCCATTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACC
65 AGTTAGGCCATTATTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTAGCATAATTGACACC
*
193291 TTTCTACCAATTGCACAGTTAGACCATTATTC
130 TTTCTACCAATTGCACAGTTAGGCCATTATTC
* *
193323 TTTTATTCCACGGTA-TTAACCGTTCATCT-ACTACATAATTGACACCTTTCTACCAATTGCACA
1 TTTTACTCAACGGTATTTAACCGTTCATCTAACTACATAATTGACACCTTTCTACCAATTGCACA
* * *
193386 GTTAGGCCATTATTCTTTTACTCAATGGTATTTAACCGTTGATCTAGCTAGCATAATTGGCACCC
66 GTTAGGCCATTATTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTAGCATAATTGACA-CC
*
193451 TTTCTACCAATTGTACAGTTAGGCCATTATTC
130 TTTCTACCAATTGCACAGTTAGGCCATTATTC
* * * *
193483 TTTTACTCAATGGTATTTAATCGTTCATCTAATTTGCATAATTGACACCTTTCTACCAATTGC-C
1 TTTTACTCAACGGTATTTAACCGTTCATCTAA-CTACATAATTGACACCTTTCTACCAATTGCAC
* * *
193547 AGTTAGGCCATTATTATTTCA-TCAACT--TA-TTAACCGTTCATCT-ACTGGCATAATTGAC
65 AGTTAGGCCATTATTCTTTTACTCAA-TGGTATTTAACCGTTCATCTAACTAGCATAATTGAC
193605 CTGTTCATAA
Statistics
Matches: 401, Mismatches: 36, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
158 12 0.03
159 99 0.25
160 49 0.12
161 114 0.28
162 99 0.25
163 28 0.07
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (161 bp):
TTTTACTCAACGGTATTTAACCGTTCATCTAACTACATAATTGACACCTTTCTACCAATTGCACA
GTTAGGCCATTATTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTAGCATAATTGACACCT
TTCTACCAATTGCACAGTTAGGCCATTATTC
Found at i:193783 original size:70 final size:68
Alignment explanation
Indices: 193609--193784 Score: 243
Period size: 66 Copynumber: 2.6 Consensus size: 68
193599 ATTGACCTGT
* *
193609 TCATAAGCACAATTAGGCCTCAAAGGCACTTA-CCTTTCATCTAACTGGCATAAATTACACCTTT
1 TCATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACCTTT
*
193673 ATG
66 ATA
*
193676 TCATAAGCACAATTA-GCATCAAA-GCACTTAGCCTTTCATCTAACTGAC-TAAATGACACCTTT
1 TCATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACCTTT
*
193738 CTCA
66 AT-A
*
193742 TACAATAAGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCAT
1 T-C-ATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCAT
193785 ATACTGCTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
65 21 0.22
66 24 0.25
67 16 0.17
68 12 0.12
69 7 0.07
70 16 0.17
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (68 bp):
TCATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGACATAAATGACACCTTT
ATA
Found at i:193827 original size:66 final size:64
Alignment explanation
Indices: 193609--193829 Score: 216
Period size: 66 Copynumber: 3.3 Consensus size: 64
193599 ATTGACCTGT
*
193609 TCATAAGCACAATTAGGCCTCAAAGGCACTTA-CCTTTCATCTAACTGGCATAAATTACACCTTT
1 TCATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACT-GC-TAAA-T-GACCTTT
*
193673 ATG
62 CTG
*
193676 TCATAAGCACAATTA-GCATCAAA-GCACTTAGCCTTTCATCTAACTGACTAAATGACACCTTTC
1 TCATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTG-CTAAATG--ACCTTTC
*
193739 TCA
63 T-G
* * **
193742 TACAATAAGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATAT-ACTGCTTTCAGCTGACCTT
1 T-C-ATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGC--T-AAATGACCTT
193806 TCTG
61 TCTG
*
193810 TCATAAGCACAGTTAGGCCT
1 TCATAAGCACAATTAGGCCT
193830 ATTAATCTTT
Statistics
Matches: 132, Mismatches: 10, Indels: 25
0.79 0.06 0.15
Matches are distributed among these distances:
64 1 0.01
65 19 0.14
66 41 0.31
67 17 0.13
68 14 0.11
69 19 0.14
70 18 0.14
71 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (64 bp):
TCATAAGCACAATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGCTAAATGACCTTTCTG
Found at i:194128 original size:51 final size:52
Alignment explanation
Indices: 194045--194167 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 52
194035 CCATACGAAC
* * * *
194045 ATTCAAACACTTGGTATGAATTTCTTAGTTTGCACACATAGTGCCCATACAGA
1 ATTCATACACTTAGCATG-ATTTCTTAGTTTGCACACAAAGTGCCCATACAGA
*
194098 A-TC-TACACTTAGCATGATTTCCTTATTTTGCACACAAAGTGCCCATACAGA
1 ATTCATACACTTAGCATGATTT-CTTAGTTTGCACACAAAGTGCCCATACAGA
*
194149 ATTCATACACTTAGTATGA
1 ATTCATACACTTAGCATGA
194168 ATCTTACATT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
50 4 0.07
51 39 0.64
52 4 0.07
53 14 0.23
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.33
Consensus pattern (52 bp):
ATTCATACACTTAGCATGATTTCTTAGTTTGCACACAAAGTGCCCATACAGA
Found at i:194929 original size:20 final size:20
Alignment explanation
Indices: 194906--194977 Score: 135
Period size: 20 Copynumber: 3.6 Consensus size: 20
194896 CCCTTATCAT
194906 GGTATCGATACTACCTCTTC
1 GGTATCGATACTACCTCTTC
*
194926 GGTATTGATACTACCTCTTC
1 GGTATCGATACTACCTCTTC
194946 GGTATCGATACTACCTCTTC
1 GGTATCGATACTACCTCTTC
194966 GGTATCGATACT
1 GGTATCGATACT
194978 GATTCAATCA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.36
Consensus pattern (20 bp):
GGTATCGATACTACCTCTTC
Found at i:196695 original size:3 final size:3
Alignment explanation
Indices: 196687--196722 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
196677 TCCATCTACA
196687 AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA
196723 AACCACATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:200316 original size:19 final size:18
Alignment explanation
Indices: 200288--200324 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
200278 TATATCTCTC
200288 ATTTCATCTTTTTCCCTTT
1 ATTTCATC-TTTTCCCTTT
*
200307 ATTTCTTCTTTTCCCTTT
1 ATTTCATCTTTTCCCTTT
200325 CTTCACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTCATCTTTTCCCTTT
Found at i:200881 original size:20 final size:20
Alignment explanation
Indices: 200856--200948 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 20
200846 CTTTAAGGAG
*
200856 AAGTATCGATACTCTTGCCA
1 AAGTATCGATACTCTTACCA
* *
200876 AAGTATTGATACTCTTAACA
1 AAGTATCGATACTCTTACCA
* * * *
200896 AAATATGGAAACTTTTACCA
1 AAGTATCGATACTCTTACCA
* * * *
200916 AATTATGGATACTCTTGCCC
1 AAGTATCGATACTCTTACCA
*
200936 TAGTATCGATACT
1 AAGTATCGATACT
200949 GAGGGTAACA
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.33
Consensus pattern (20 bp):
AAGTATCGATACTCTTACCA
Found at i:202613 original size:49 final size:49
Alignment explanation
Indices: 202556--202684 Score: 195
Period size: 49 Copynumber: 2.6 Consensus size: 49
202546 GAGTGTCACC
* * * **
202556 TTTTATGCCGAAATGCACCGTTATACATTTAACTTTCATTAGTGGTACA
1 TTTTATGCCGAAATGCACCGTTATGCATTTAAATTTCATTAATGACACA
*
202605 TTTTATGCCGAAATGCACCGTTATGCATTTAAATTTCATTAATGACACC
1 TTTTATGCCGAAATGCACCGTTATGCATTTAAATTTCATTAATGACACA
*
202654 TTTTATGCCGAAATGCACTGTTATGCATTTA
1 TTTTATGCCGAAATGCACCGTTATGCATTTA
202685 TTTTAGCACC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (49 bp):
TTTTATGCCGAAATGCACCGTTATGCATTTAAATTTCATTAATGACACA
Found at i:204637 original size:89 final size:89
Alignment explanation
Indices: 204535--204712 Score: 322
Period size: 89 Copynumber: 2.0 Consensus size: 89
204525 CTTTTTTCGA
204535 TCGGAGGCTATCTTTAGATTATATTGGAAAACTATCACTTTCTCTTCCATTTCTTTAACC-AATT
1 TCGGAGGCTATCTTTAGATTATATTGGAAAACTATCACTTTCTCTTCCATTTCTTTAACCAAATT
204599 ATGGGCCAACTAGGTCTCAATCTTT
66 -TGGGCCAACTAGGTCTCAATCTTT
*
204624 TCGGAGGCTATCTTTAGATTATCTTGGAAAACTATCACTTTCTCTTCCATTTCTTTAACCAAATT
1 TCGGAGGCTATCTTTAGATTATATTGGAAAACTATCACTTTCTCTTCCATTTCTTTAACCAAATT
*
204689 TGGGCCAACTAGGTCTCGATCTTT
66 TGGGCCAACTAGGTCTCAATCTTT
204713 GAGTTCAAAC
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
89 82 0.95
90 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (89 bp):
TCGGAGGCTATCTTTAGATTATATTGGAAAACTATCACTTTCTCTTCCATTTCTTTAACCAAATT
TGGGCCAACTAGGTCTCAATCTTT
Found at i:219496 original size:21 final size:21
Alignment explanation
Indices: 219470--219515 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
219460 CCTGAAAGAG
**
219470 AAGCCCCTAATTTGTAAACTC
1 AAGCCCCTAATTTACAAACTC
219491 AAGCCCCTAATTTACAAACTC
1 AAGCCCCTAATTTACAAACTC
219512 AAGC
1 AAGC
219516 AAATATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.24
Consensus pattern (21 bp):
AAGCCCCTAATTTACAAACTC
Found at i:225860 original size:32 final size:32
Alignment explanation
Indices: 225787--225867 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
225777 GTCAAGTTTG
* * *
225787 CATTTAGATAATGCACAACAGAGTCAGTGTTG
1 CATTAAGATAATGCACAACAAAGTCAGTGTTA
* * * *
225819 TAGTCAGATAATGCACAACAAAGTCAGTTTTA
1 CATTAAGATAATGCACAACAAAGTCAGTGTTA
225851 CATTAAGATAATGCACA
1 CATTAAGATAATGCACA
225868 TGAATGTCAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (32 bp):
CATTAAGATAATGCACAACAAAGTCAGTGTTA
Found at i:228346 original size:19 final size:19
Alignment explanation
Indices: 228322--228377 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
228312 CTGCTGGAAA
* *
228322 ACCGGTTTGACCAGTTTTG
1 ACCGGTTTGACCAGTCTGG
*
228341 ACCGGTTTGACCGGTCTGG
1 ACCGGTTTGACCAGTCTGG
*
228360 ACCGGTTTGACCGGTCTG
1 ACCGGTTTGACCAGTCTG
228378 ACCCGACCCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.12, C:0.25, G:0.32, T:0.30
Consensus pattern (19 bp):
ACCGGTTTGACCAGTCTGG
Found at i:228396 original size:9 final size:9
Alignment explanation
Indices: 228322--228380 Score: 73
Period size: 9 Copynumber: 6.3 Consensus size: 9
228312 CTGCTGGAAA
228322 ACCGGTTTG
1 ACCGGTTTG
*
228331 ACCAGTTTTG
1 ACC-GGTTTG
228341 ACCGGTTTG
1 ACCGGTTTG
*
228350 ACCGGTCTGG
1 ACCGGT-TTG
228360 ACCGGTTTG
1 ACCGGTTTG
*
228369 ACCGGTCTG
1 ACCGGTTTG
228378 ACC
1 ACC
228381 CGACCCGTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
9 27 0.63
10 16 0.37
ACGTcount: A:0.14, C:0.27, G:0.31, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:228411 original size:17 final size:16
Alignment explanation
Indices: 228376--228420 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 16
228366 TTGACCGGTC
228376 TGACCCGACCCG--TT
1 TGACCCGACCCGACTT
228390 TGACCCGACCCGACTGT
1 TGACCCGACCCGACT-T
228407 TGACCCGACCCGAC
1 TGACCCGACCCGAC
228421 CCGACCGTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 12 0.43
16 1 0.04
17 15 0.54
ACGTcount: A:0.18, C:0.44, G:0.22, T:0.16
Consensus pattern (16 bp):
TGACCCGACCCGACTT
Found at i:228419 original size:22 final size:22
Alignment explanation
Indices: 228391--228457 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
228381 CGACCCGTTT
*
228391 GACCCGACCCGACTGTTGACCC
1 GACCCGACCCGACCGTTGACCC
228413 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
228435 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
228458 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 30 0.73
24 11 0.27
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:228433 original size:17 final size:17
Alignment explanation
Indices: 228413--228450 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
228403 CTGTTGACCC
228413 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
228430 GACCCGACCCGACCGTT
1 GACCCGACCCGACCGTT
228447 GACC
1 GACC
228451 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.11
Consensus pattern (17 bp):
GACCCGACCCGACCGTT
Found at i:228450 original size:7 final size:7
Alignment explanation
Indices: 228440--228470 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
228430 GACCCGACCC
228440 GACCGTT
1 GACCGTT
228447 GACCGTT
1 GACCGTT
228454 GACCGTT
1 GACCGTT
228461 GACCGTT
1 GACCGTT
228468 GAC
1 GAC
228471 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:235711 original size:17 final size:17
Alignment explanation
Indices: 235689--235748 Score: 66
Period size: 17 Copynumber: 3.2 Consensus size: 17
235679 TTGACCGGTC
235689 TGACCCGACCCGACTGT
1 TGACCCGACCCGACTGT
235706 TGACCCGACCCGACCTGACCGT
1 TGACCCGACCCGA-CT----GT
*
235728 TGACCCGACCCGACCGT
1 TGACCCGACCCGACTGT
235745 TGAC
1 TGAC
235749 TGTTGACCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
17 19 0.51
18 2 0.05
21 1 0.03
22 15 0.41
ACGTcount: A:0.18, C:0.43, G:0.23, T:0.15
Consensus pattern (17 bp):
TGACCCGACCCGACTGT
Found at i:235715 original size:22 final size:22
Alignment explanation
Indices: 235690--235756 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
235680 TGACCGGTCT
*
235690 GACCCGACCCGACTGTTGACCC
1 GACCCGACCTGACTGTTGACCC
*
235712 GACCCGACCTGACCGTTGACCC
1 GACCCGACCTGACTGTTGACCC
235734 GACCCGACCGTTGACTGTTGACC
1 GACCCGACC--TGACTGTTGACC
235757 GTTGACCGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 29 0.73
24 11 0.28
ACGTcount: A:0.18, C:0.42, G:0.24, T:0.16
Consensus pattern (22 bp):
GACCCGACCTGACTGTTGACCC
Found at i:235755 original size:7 final size:7
Alignment explanation
Indices: 235739--235769 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
235729 GACCCGACCC
235739 GACCGTT
1 GACCGTT
*
235746 GACTGTT
1 GACCGTT
235753 GACCGTT
1 GACCGTT
235760 GACCGTT
1 GACCGTT
235767 GAC
1 GAC
235770 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.16, C:0.26, G:0.29, T:0.29
Consensus pattern (7 bp):
GACCGTT
Found at i:244718 original size:2 final size:2
Alignment explanation
Indices: 244713--244748 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
244703 ATTAAAGTTA
244713 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
244749 TTAAATTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:248660 original size:35 final size:35
Alignment explanation
Indices: 248610--248682 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
248600 AGAAATGTAC
*
248610 ATTTGCAAAACGTAAATTGTCTTACAAACATATAA
1 ATTTGCAAAACGTAAATTGTATTACAAACATATAA
* *
248645 ATTTGCAAAATGTAAATTGTATTACAAACCTATAA
1 ATTTGCAAAACGTAAATTGTATTACAAACATATAA
248680 ATT
1 ATT
248683 CTGTTATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.34
Consensus pattern (35 bp):
ATTTGCAAAACGTAAATTGTATTACAAACATATAA
Found at i:248861 original size:45 final size:45
Alignment explanation
Indices: 248780--248877 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
248770 AAAGTGGTTC
* * * *
248780 AAACACAAAGATGATTGAAATCACAAGCTTATATAAAACGAGTTT
1 AAACATAACGATGATTAAAATCACAAGCTTACATAAAACGAGTTT
* *
248825 GAACATAACGATGATTAAAATCACAAG-TTCACATAAAATGAGTTT
1 AAACATAACGATGATTAAAATCACAAGCTT-ACATAAAACGAGTTT
248870 AAACATAA
1 AAACATAA
248878 AATTACAGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.04
45 43 0.96
ACGTcount: A:0.50, C:0.13, G:0.12, T:0.24
Consensus pattern (45 bp):
AAACATAACGATGATTAAAATCACAAGCTTACATAAAACGAGTTT
Found at i:248993 original size:2 final size:2
Alignment explanation
Indices: 248986--249045 Score: 113
Period size: 2 Copynumber: 30.5 Consensus size: 2
248976 ACTAATAGAA
248986 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
249027 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
249046 GTAAAACTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 56 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:250148 original size:15 final size:15
Alignment explanation
Indices: 250128--250158 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
250118 GATCTACTTT
250128 TGTAAAGACCAAGAG
1 TGTAAAGACCAAGAG
250143 TGTAAAGACCAAGAG
1 TGTAAAGACCAAGAG
250158 T
1 T
250159 TATCTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.26, T:0.16
Consensus pattern (15 bp):
TGTAAAGACCAAGAG
Found at i:269546 original size:58 final size:58
Alignment explanation
Indices: 269472--270080 Score: 984
Period size: 58 Copynumber: 10.5 Consensus size: 58
269462 GCCCTTACCA
*
269472 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACAAAACGCCCTATATGG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
* * * * *
269530 AAATTCATACACTTAGTATGATTCCTTAATATTTTAGCGTACGAAACACCCTAAATGT
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
* *
269588 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAAAGTCCTATATGG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
*
269646 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGGAACGCCCTATATGG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
* * * *
269704 AAATTCATACACTTAGTATGATTTCTTACCATTTTAGCATACGGAATGCCCTATATGG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
* *
269762 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCATATGAAACGCCCTATATGG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
* * *
269820 AAATTCATACACTTAGTATGATTTATTAACATTTTAGAGTACGAAACGCCCTATATGA
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
* * * *
269878 AAATTCATACACTTAATATGATTTCTTAACATTTTAGCGTATGAAATGCCCTATATGA
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
* * *
269936 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGGGTATGAAACGCCCTATACGG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
*
269994 AAATTCATACAGTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
1 AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
270052 AAATTCATACACTTAGTATGATTTCTTAA
1 AAATTCATACACTTAGTATGATTTCTTAA
270081 TTTTGCACAC
Statistics
Matches: 508, Mismatches: 43, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 508 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (58 bp):
AAATTCATACACTTAGTATGATTTCTTAACATTTTAGCGTACGAAACGCCCTATATGG
Done.