Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr1
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: 37323695
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 1370832 characters in sequence are not A, C, G, or T
File 70 of 93
Found at i:27006120 original size:2 final size:2
Alignment explanation
Indices: 27006109--27006171 Score: 94
Period size: 2 Copynumber: 32.5 Consensus size: 2
27006099 TTTAAGAAAG
27006109 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
27006150 AT -T AT AT AT AC AT AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
27006172 AATACATCTC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27011413 original size:2 final size:2
Alignment explanation
Indices: 27011406--27011431 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27011396 GTGTATATCT
27011406 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
27011432 GTTTATTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27016716 original size:64 final size:64
Alignment explanation
Indices: 27016613--27016734 Score: 149
Period size: 64 Copynumber: 1.9 Consensus size: 64
27016603 ATTGAAAATC
* *
27016613 CGTTGGAAAAATTTTTGGCGAGTAAAAACAAACAGGAGACCACCATTTCCAACGAAAAATTTTT
1 CGTTAGAAAAATTTTTGGCGAGTAAAAACAAACAAGAGACCACCATTTCCAACGAAAAATTTTT
* ** * *
27016677 CGTTAGAAAAATTTTTGGGGAG-AACAAA-AACACAAGAGACTGCCATTTTCGACGAAAA
1 CGTTAGAAAAATTTTTGGCGAGTAA-AAACAA-ACAAGAGACCACCATTTCCAACGAAAA
27016735 TTTCAACGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
63 4 0.08
64 45 0.92
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (64 bp):
CGTTAGAAAAATTTTTGGCGAGTAAAAACAAACAAGAGACCACCATTTCCAACGAAAAATTTTT
Found at i:27017954 original size:17 final size:17
Alignment explanation
Indices: 27017934--27017968 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27017924 AAAAAATATA
27017934 TTTTTACT-TTATTATT
1 TTTTTACTATTATTATT
*
27017950 TTTTTGCTATTATTATT
1 TTTTTACTATTATTATT
27017967 TT
1 TT
27017969 CATACTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTTACTATTATTATT
Found at i:27024636 original size:18 final size:20
Alignment explanation
Indices: 27024596--27024668 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
27024586 GAAAAAATGA
*
27024596 AAATGAAAAAAAAAGAAGAG
1 AAATGAAAAAAAGAGAAGAG
*
27024616 AAATGAAAAGAAGA-AAG-G
1 AAATGAAAAAAAGAGAAGAG
* * *
27024634 AAAGGAAAATAAGACAAAGAG
1 AAATGAAAAAAAGA-GAAGAG
*
27024655 AGAATTAAAAAAAG
1 A-AATGAAAAAAAG
27024669 GAAAAAAAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 13 0.31
19 3 0.07
20 15 0.36
21 2 0.05
22 9 0.21
ACGTcount: A:0.70, C:0.01, G:0.22, T:0.07
Consensus pattern (20 bp):
AAATGAAAAAAAGAGAAGAG
Found at i:27025236 original size:15 final size:16
Alignment explanation
Indices: 27025216--27025248 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27025206 CTCATTCATT
*
27025216 AAAATAAA-ATGAAAA
1 AAAATAAAGAAGAAAA
27025231 AAAATAAAGAAGAAAA
1 AAAATAAAGAAGAAAA
27025247 AA
1 AA
27025249 GAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAATAAAGAAGAAAA
Found at i:27036188 original size:21 final size:20
Alignment explanation
Indices: 27036162--27036226 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
27036152 GTTTGTGATA
27036162 TTTGTTTGGTGGTGCTATTTG
1 TTTGTTTGGTGGT-CTATTTG
** * *
27036183 TTTGTTGTATTTGTTTATTTG
1 TTTGTT-TGGTGGTCTATTTG
*
27036204 TTTGTTTGGTGGTACTAGTTG
1 TTTGTTTGGTGGT-CTATTTG
27036225 TT
1 TT
27036227 ATGTGCATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.08, C:0.03, G:0.28, T:0.62
Consensus pattern (20 bp):
TTTGTTTGGTGGTCTATTTG
Found at i:27038302 original size:21 final size:21
Alignment explanation
Indices: 27038277--27038469 Score: 120
Period size: 21 Copynumber: 9.5 Consensus size: 21
27038267 TAAGATAGGA
*
27038277 TAAATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTATT
* *
27038298 TAAATTTAAA-TT-ATCTATC
1 TAAATTTAAATTTAATTTATT
*
27038317 T--ATTGT--ATTT-ATTTGTT
1 TAAATT-TAAATTTAATTTATT
* *
27038334 TAAATTTAAA--TAAGGATTAAT
1 TAAATTTAAATTTAA--TTTATT
*
27038355 TATATTTAAATTTAATTTATT
1 TAAATTTAAATTTAATTTATT
* * *
27038376 TAAATTTAAA-TAAGAATTAAT
1 TAAATTTAAATTTA-ATTTATT
*
27038397 TATATTTAAATTTAATTTATT
1 TAAATTTAAATTTAATTTATT
* * *
27038418 TAAATTTAAA-TAAGAATTAAT
1 TAAATTTAAATTTA-ATTTATT
* *
27038439 TATATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTATT
27038460 TAAATTTAAA
1 TAAATTTAAA
27038470 CATAATATCC
Statistics
Matches: 127, Mismatches: 30, Indels: 30
0.68 0.16 0.16
Matches are distributed among these distances:
16 1 0.01
17 10 0.08
18 3 0.02
19 9 0.07
20 7 0.06
21 90 0.71
22 4 0.03
23 3 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (21 bp):
TAAATTTAAATTTAATTTATT
Found at i:27038378 original size:42 final size:42
Alignment explanation
Indices: 27038323--27038469 Score: 260
Period size: 42 Copynumber: 3.5 Consensus size: 42
27038313 TATCTATTGT
* *
27038323 ATTT-ATTTGTTTAAATTTAAATAAGGATTAATTATATTTAA
1 ATTTAATTTATTTAAATTTAAATAAGAATTAATTATATTTAA
27038364 ATTTAATTTATTTAAATTTAAATAAGAATTAATTATATTTAA
1 ATTTAATTTATTTAAATTTAAATAAGAATTAATTATATTTAA
27038406 ATTTAATTTATTTAAATTTAAATAAGAATTAATTATATTTAA
1 ATTTAATTTATTTAAATTTAAATAAGAATTAATTATATTTAA
*
27038448 ATTTAATTTGTTTAAATTTAAA
1 ATTTAATTTATTTAAATTTAAA
27038470 CATAATATCC
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 4 0.04
42 98 0.96
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (42 bp):
ATTTAATTTATTTAAATTTAAATAAGAATTAATTATATTTAA
Found at i:27039560 original size:47 final size:47
Alignment explanation
Indices: 27039507--27039764 Score: 426
Period size: 47 Copynumber: 5.5 Consensus size: 47
27039497 ATTTTGTATG
*
27039507 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATGATGTAATT
1 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATAATGTAATT
*
27039554 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATACATAATGTAATT
1 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATAATGTAATT
*
27039601 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATACATAATGTAATT
1 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATAATGTAATT
** ** *
27039648 ATTTTACTTATTTGTTAGGTAAAATTTATGGAATGCATGGTGCAATT
1 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATAATGTAATT
*
27039695 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATAGTGTAATT
1 ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATAATGTAATT
*
27039742 ATTTTACTTATTTGTTAAGTAAA
1 ATTTTACTTATTTGTTAGGTAAA
27039765 CTTGTTTGTA
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 198 1.00
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (47 bp):
ATTTTACTTATTTGTTAGGTAAAATTTATAAAATGCATAATGTAATT
Found at i:27040661 original size:21 final size:21
Alignment explanation
Indices: 27040637--27040682 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
27040627 GTTGAACACT
27040637 TAAGGGTTATGTCAACCATGA
1 TAAGGGTTATGTCAACCATGA
27040658 TAAGGGTTATGTCAACCATGA
1 TAAGGGTTATGTCAACCATGA
27040679 TAAG
1 TAAG
27040683 AGAGATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (21 bp):
TAAGGGTTATGTCAACCATGA
Found at i:27045450 original size:15 final size:15
Alignment explanation
Indices: 27045429--27045540 Score: 62
Period size: 15 Copynumber: 7.8 Consensus size: 15
27045419 GATAGGATAA
27045429 ATTTAAATTTAATTT
1 ATTTAAATTTAATTT
*
27045444 GTTTAAATTTTAA-TT
1 ATTTAAA-TTTAATTT
**
27045459 ATTT--A-TCCATTGT
1 ATTTAAATTTAATT-T
27045472 ATTTAAATTTAATTT
1 ATTTAAATTTAATTT
*
27045487 GTTTAAATTTAA---
1 ATTTAAATTTAATTT
*
27045499 A--TAAGAATTAATTAT
1 ATTTAA-ATTTAATT-T
*
27045514 ATTTAAATTTAGTTT
1 ATTTAAATTTAATTT
*
27045529 GTTTAAATTTAA
1 ATTTAAATTTAA
27045541 ACATAATATC
Statistics
Matches: 71, Mismatches: 13, Indels: 26
0.65 0.12 0.24
Matches are distributed among these distances:
10 3 0.04
11 7 0.10
12 1 0.01
13 6 0.08
15 36 0.51
16 15 0.21
17 3 0.04
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.54
Consensus pattern (15 bp):
ATTTAAATTTAATTT
Found at i:27045451 original size:21 final size:21
Alignment explanation
Indices: 27045426--27045541 Score: 85
Period size: 21 Copynumber: 5.5 Consensus size: 21
27045416 TGAGATAGGA
27045426 TAAATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTGTT
* *
27045447 TAAATTTTAA-TT-ATTTATCCAT
1 TAAATTTAAATTTAATTTGT---T
**
27045469 TGTATTTAAATTTAATTTGTT
1 TAAATTTAAATTTAATTTGTT
* * **
27045490 TAAATTTAAA-TAAGAATTAAT
1 TAAATTTAAATTTA-ATTTGTT
* *
27045511 TATATTTAAATTTAGTTTGTT
1 TAAATTTAAATTTAATTTGTT
27045532 TAAATTTAAA
1 TAAATTTAAA
27045542 CATAATATCC
Statistics
Matches: 69, Mismatches: 19, Indels: 14
0.68 0.19 0.14
Matches are distributed among these distances:
19 5 0.07
20 4 0.06
21 43 0.62
22 10 0.14
23 2 0.03
24 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
TAAATTTAAATTTAATTTGTT
Found at i:27045518 original size:42 final size:42
Alignment explanation
Indices: 27045429--27045541 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
27045419 GATAGGATAA
* *** * *
27045429 ATTTAAATTTAATTTGTTTAAATTTTAATTATTTATCCATTGT
1 ATTTAAATTTAATTTGTTTAAA-TTTAAATAAGAATCAATTAT
*
27045472 ATTTAAATTTAATTTGTTTAAATTTAAATAAGAATTAATTAT
1 ATTTAAATTTAATTTGTTTAAATTTAAATAAGAATCAATTAT
*
27045514 ATTTAAATTTAGTTTGTTTAAATTTAAA
1 ATTTAAATTTAATTTGTTTAAATTTAAA
27045542 CATAATATCC
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
42 40 0.65
43 22 0.35
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (42 bp):
ATTTAAATTTAATTTGTTTAAATTTAAATAAGAATCAATTAT
Found at i:27049604 original size:4 final size:4
Alignment explanation
Indices: 27049595--27049621 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
27049585 TTTGGACTCT
27049595 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
27049622 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:27049626 original size:2 final size:2
Alignment explanation
Indices: 27049619--27049646 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27049609 ACATACATAC
27049619 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
27049647 GTATGCATGT
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:27049955 original size:15 final size:16
Alignment explanation
Indices: 27049935--27049971 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
27049925 TTTTTTATTT
27049935 AAAATTTTAA-AATCG
1 AAAATTTTAATAATCG
27049950 AAAATTTTAATTAATCG
1 AAAATTTTAA-TAATCG
27049967 AAAAT
1 AAAAT
27049972 GAATCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.50
17 10 0.50
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (16 bp):
AAAATTTTAATAATCG
Found at i:27050646 original size:30 final size:29
Alignment explanation
Indices: 27050603--27050671 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
27050593 AAAAAAAAAA
* *
27050603 AAATTCTTAT-TTTTTA-TTATATTTAATT
1 AAATTTTTATATTTTTATTTATA-TTAAAT
*
27050631 AAATTTTTATATTTTTATTTTTGATTAAAT
1 AAATTTTTATATTTTTATTTAT-ATTAAAT
27050661 AAATTTTTATA
1 AAATTTTTATA
27050672 ATATATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.26
29 6 0.17
30 19 0.54
31 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
AAATTTTTATATTTTTATTTATATTAAAT
Found at i:27057284 original size:9 final size:9
Alignment explanation
Indices: 27057265--27057297 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
27057255 ATTTTTATGA
27057265 ATATCTATTT
1 ATAT-TATTT
27057275 ATATTATTT
1 ATATTATTT
27057284 ATATTATTT
1 ATATTATTT
27057293 ATATT
1 ATATT
27057298 TATATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
ATATTATTT
Found at i:27058140 original size:26 final size:26
Alignment explanation
Indices: 27058111--27058165 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
27058101 TATTCTAAGA
*
27058111 ATAATGTTACTACTAGAAGTGGATGG
1 ATAATGTTACTACTAGAAGTGGATAG
* *
27058137 ATAATTTTACTACTAGCAGTGGATAG
1 ATAATGTTACTACTAGAAGTGGATAG
27058163 ATA
1 ATA
27058166 CCTTAACCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (26 bp):
ATAATGTTACTACTAGAAGTGGATAG
Found at i:27061005 original size:6 final size:6
Alignment explanation
Indices: 27060995--27061178 Score: 242
Period size: 6 Copynumber: 30.7 Consensus size: 6
27060985 TTTGATATCA
* *
27060995 ATATAT GTATAT ATATAT ATATAT ATATAT ATGTAT ATATAT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * *
27061043 ATATAT ATATAT ATATAT ATACAT ATATAT ATATAC ATATAC ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * * *
27061091 ATACAT ATATAT ATATAC ATATAC ATATAT ATACAT ATATAT ATATAC
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
* * * *
27061139 ATATAC ATATAT ATACAT ATACAT ATATAT ACATAT ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
27061179 GAAAATCTCT
Statistics
Matches: 158, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 158 1.00
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:27061010 original size:10 final size:10
Alignment explanation
Indices: 27060995--27061178 Score: 242
Period size: 10 Copynumber: 18.4 Consensus size: 10
27060985 TTTGATATCA
*
27060995 ATATATGTAT
1 ATATATATAT
27061005 ATATATATAT
1 ATATATATAT
27061015 ATATATATAT
1 ATATATATAT
*
27061025 ATGTATATAT
1 ATATATATAT
27061035 ATATATATAT
1 ATATATATAT
27061045 ATATATATAT
1 ATATATATAT
*
27061055 ATATATATAC
1 ATATATATAT
27061065 ATATATATAT
1 ATATATATAT
* *
27061075 ATACATATAC
1 ATATATATAT
*
27061085 ATATATATAC
1 ATATATATAT
27061095 ATATATATAT
1 ATATATATAT
* *
27061105 ATACATATAC
1 ATATATATAT
*
27061115 ATATATATAC
1 ATATATATAT
27061125 ATATATATAT
1 ATATATATAT
* *
27061135 ATACATATAC
1 ATATATATAT
*
27061145 ATATATATAC
1 ATATATATAT
*
27061155 ATATACATAT
1 ATATATATAT
*
27061165 ATATACATAT
1 ATATATATAT
27061175 ATAT
1 ATAT
27061179 GAAAATCTCT
Statistics
Matches: 156, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 156 1.00
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (10 bp):
ATATATATAT
Found at i:27061014 original size:16 final size:16
Alignment explanation
Indices: 27060995--27061178 Score: 242
Period size: 16 Copynumber: 11.5 Consensus size: 16
27060985 TTTGATATCA
*
27060995 ATATATGTATATATAT
1 ATATATATATATATAT
27061011 ATATATATATATATAT
1 ATATATATATATATAT
*
27061027 GTATATATATATATAT
1 ATATATATATATATAT
27061043 ATATATATATATATAT
1 ATATATATATATATAT
*
27061059 ATATACATATATATAT
1 ATATATATATATATAT
* *
27061075 ATACATATACATATAT
1 ATATATATATATATAT
*
27061091 ATACATATATATATAT
1 ATATATATATATATAT
* *
27061107 ACATATACATATATAT
1 ATATATATATATATAT
* *
27061123 ACATATATATATATAC
1 ATATATATATATATAT
* *
27061139 ATATACATATATATAC
1 ATATATATATATATAT
* *
27061155 ATATACATATATATAC
1 ATATATATATATATAT
27061171 ATATATAT
1 ATATATAT
27061179 GAAAATCTCT
Statistics
Matches: 152, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 152 1.00
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (16 bp):
ATATATATATATATAT
Found at i:27061036 original size:30 final size:30
Alignment explanation
Indices: 27060995--27061175 Score: 272
Period size: 30 Copynumber: 6.0 Consensus size: 30
27060985 TTTGATATCA
* * * *
27060995 ATATATGTATATATATATATATATATATAT
1 ATATATATACATATATATATATACATATAC
* * * *
27061025 ATGTATATATATATATATATATATATATAT
1 ATATATATACATATATATATATACATATAC
27061055 ATATATATACATATATATATATACATATAC
1 ATATATATACATATATATATATACATATAC
27061085 ATATATATACATATATATATATACATATAC
1 ATATATATACATATATATATATACATATAC
27061115 ATATATATACATATATATATATACATATAC
1 ATATATATACATATATATATATACATATAC
27061145 ATATATATACATATACATATATATACATATA
1 ATATATATACATAT--ATATATATACATATA
27061176 TATGAAAATC
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
30 128 0.90
32 15 0.10
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.43
Consensus pattern (30 bp):
ATATATATACATATATATATATACATATAC
Found at i:27062857 original size:19 final size:19
Alignment explanation
Indices: 27062833--27062870 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27062823 TTTATTATTC
27062833 CCTCTAAATACTTTCTCTT
1 CCTCTAAATACTTTCTCTT
*
27062852 CCTCTAAATATTTTCTCTT
1 CCTCTAAATACTTTCTCTT
27062871 ATAGTTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (19 bp):
CCTCTAAATACTTTCTCTT
Found at i:27067826 original size:67 final size:67
Alignment explanation
Indices: 27067699--27067883 Score: 221
Period size: 67 Copynumber: 2.8 Consensus size: 67
27067689 TTTTACTAGG
* * * * * * *
27067699 CTTAGCCAAAACCTTTCACAGTGGTCTTT-ACCGGGATCAACCAAAATCTAAAGTGGTTTTTCAA
1 CTTAACCACAACCTTTCACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTGATTTTTCAA
27067763 AAA
65 AAA
* *
27067766 CTTAACCACAACCTTTCACAATGGTTTTTCACGGGCTCAACTAAAACCCAAAGTGATTTTTCAAA
1 CTTAACCACAACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTCAAA
*
27067831 AG
66 AA
* * *
27067833 CTCAACCACAACC-TACAACAATGGTTTTTCACGGAATCAACCAAAACCCAA
1 CTTAACCACAACCTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
27067884 CAACTAACTT
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
66 2 0.02
67 98 0.97
68 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.25
Consensus pattern (67 bp):
CTTAACCACAACCTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTGATTTTTCAAA
AA
Found at i:27067863 original size:35 final size:34
Alignment explanation
Indices: 27067752--27067863 Score: 95
Period size: 35 Copynumber: 3.3 Consensus size: 34
27067742 AAATCTAAAG
* *
27067752 TGGTTTTTCAAAAACTTAACCACAACCTTTC-ACAA
1 TGGTTTTTCAAAAGCTCAACCACAACC--TCAACAA
*** * * *
27067787 TGGTTTTTCACGGGCTCAACTAAAACC-CAA-AG
1 TGGTTTTTCAAAAGCTCAACCACAACCTCAACAA
*
27067819 TGATTTTTCAAAAGCTCAACCACAACCTACAACAA
1 TGGTTTTTCAAAAGCTCAACCACAACCT-CAACAA
27067854 TGGTTTTTCA
1 TGGTTTTTCA
27067864 CGGAATCAAC
Statistics
Matches: 57, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
32 23 0.40
33 1 0.02
34 3 0.05
35 30 0.53
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (34 bp):
TGGTTTTTCAAAAGCTCAACCACAACCTCAACAA
Found at i:27068393 original size:73 final size:71
Alignment explanation
Indices: 27068274--27068506 Score: 220
Period size: 73 Copynumber: 3.2 Consensus size: 71
27068264 ACAGAATGAT
* * * * * *
27068274 CTTAGTTGACTAACTGCGCTTTTAGTCGACTAAGTCGTATCTGTTTTCTG-A-TCTCAGTTTTTG
1 CTTAGTCGACTAACTTC-CTTTTAGTCGATTAAGT-GTTTCTG-TTT-TGAAGTCTAAATTTTTG
*
27068337 ACAGTGAGCA
62 ACAGTAAGCA
*
27068347 CTTAGTCGACTAACTTCCTTCTTAGTCGATTAAGCTGTTTCTGTTTTGAAGTCTAAATTTTTGGC
1 CTTAGTCGACTAACTTCCTT-TTAGTCGATTAAG-TGTTTCTGTTTTGAAGTCTAAATTTTTGAC
*
27068412 AGTAAGCT
64 AGTAAGCA
* * * * *
27068420 TTTAGTCGACTAACTTCCTTTTTAGTCGATTGAGTTGTTTCTATCTTGAAGTCTAGATTTTT-AG
1 CTTAGTCGACTAACTTCC-TTTTAGTCGATTAAG-TGTTTCTGTTTTGAAGTCTAAATTTTTGA-
* *
27068484 CAGTAGGCT
63 CAGTAAGCA
27068493 CTTAGTCGACTAAC
1 CTTAGTCGACTAAC
27068507 CATCCTTCTT
Statistics
Matches: 136, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
71 2 0.01
72 7 0.05
73 124 0.91
74 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (71 bp):
CTTAGTCGACTAACTTCCTTTTAGTCGATTAAGTGTTTCTGTTTTGAAGTCTAAATTTTTGACAG
TAAGCA
Found at i:27072248 original size:18 final size:17
Alignment explanation
Indices: 27072206--27072248 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
27072196 TCAAAAGTTT
27072206 GAAAAATGAAACTTCAA
1 GAAAAATGAAACTTCAA
* *
27072223 GTAGAAATGCATACTTCAA
1 G-AAAAATG-AAACTTCAA
27072242 GAAAAAT
1 GAAAAAT
27072249 TCTGTCAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 11 0.52
19 9 0.43
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (17 bp):
GAAAAATGAAACTTCAA
Found at i:27085987 original size:2 final size:2
Alignment explanation
Indices: 27085980--27086017 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
27085970 TTCATGCTTA
27085980 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27086018 TTCAAAATAT
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):
AT
Found at i:27092577 original size:30 final size:30
Alignment explanation
Indices: 27092541--27092608 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
27092531 CTCATCCTTG
* * *
27092541 TCATCATCCTCATTTGAATCATAGCAAATC
1 TCATCATCCTCATCTGAATCACAGAAAATC
*
27092571 TCATCATCCTCATCTGCATCACAGAAAATC
1 TCATCATCCTCATCTGAATCACAGAAAATC
27092601 TCATCATC
1 TCATCATC
27092609 TTCTTCTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.31, G:0.06, T:0.31
Consensus pattern (30 bp):
TCATCATCCTCATCTGAATCACAGAAAATC
Found at i:27096561 original size:40 final size:39
Alignment explanation
Indices: 27096506--27096606 Score: 114
Period size: 38 Copynumber: 2.6 Consensus size: 39
27096496 CCTAACTCAT
* * *
27096506 GTGCATCTCCCCACATCGTGCACTTAGCCGAAGTCATCGC
1 GTGCATCACCCCACATCGTGCAC-TAACCGAAGCCATCGC
** * *
27096546 GTGCATCACCCCACATCGTGCA-TAATTGATGCCATCGT
1 GTGCATCACCCCACATCGTGCACTAACCGAAGCCATCGC
*
27096584 GTGCATCCCCCCACATCGTGCAC
1 GTGCATCACCCCACATCGTGCAC
27096607 ACGTGCAATA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
38 31 0.60
40 21 0.40
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (39 bp):
GTGCATCACCCCACATCGTGCACTAACCGAAGCCATCGC
Found at i:27097526 original size:20 final size:20
Alignment explanation
Indices: 27097501--27097542 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
27097491 GGAAAAAGAA
* *
27097501 GAAGAAGTTGCTGGAGAAAT
1 GAAGAAGCTGCTGGAAAAAT
27097521 GAAGAAGCTGCTGGAAAAAT
1 GAAGAAGCTGCTGGAAAAAT
27097541 GA
1 GA
27097543 GATCTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.33, T:0.17
Consensus pattern (20 bp):
GAAGAAGCTGCTGGAAAAAT
Found at i:27100150 original size:21 final size:21
Alignment explanation
Indices: 27100111--27100150 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27100101 TTTTGTTAAG
* *
27100111 GGAGAAAAGAAGAAGAAAAGA
1 GGAGAAAAGAAAAAAAAAAGA
*
27100132 GGAGAATAGAAAAAAAAAA
1 GGAGAAAAGAAAAAAAAAA
27100151 AGAAAAGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (21 bp):
GGAGAAAAGAAAAAAAAAAGA
Found at i:27101626 original size:45 final size:45
Alignment explanation
Indices: 27101566--27101659 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
27101556 AATATTTAAA
*
27101566 TATTATTTAACTATAATAAATATTATAAAGAATATTACTTAATAT
1 TATTATTTAACTATAATAAATATAATAAAGAATATTACTTAATAT
* * *
27101611 TATTATTTGAA-TATAATAAATGTAATAAAGAATATTATTTAGTAT
1 TATTATTT-AACTATAATAAATATAATAAAGAATATTACTTAATAT
27101656 TATT
1 TATT
27101660 TAAATTTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
45 42 0.95
46 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (45 bp):
TATTATTTAACTATAATAAATATAATAAAGAATATTACTTAATAT
Found at i:27105365 original size:14 final size:14
Alignment explanation
Indices: 27105346--27105386 Score: 66
Period size: 13 Copynumber: 3.0 Consensus size: 14
27105336 TCAAAGTCGA
27105346 GAAAGAAAAACAAT
1 GAAAGAAAAACAAT
*
27105360 GAAAGAAAAA-AAA
1 GAAAGAAAAACAAT
27105373 GAAAGAAAAACAAT
1 GAAAGAAAAACAAT
27105387 AATTCAGGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.76, C:0.05, G:0.15, T:0.05
Consensus pattern (14 bp):
GAAAGAAAAACAAT
Found at i:27106309 original size:16 final size:16
Alignment explanation
Indices: 27106290--27106321 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27106280 CAAAAGTTAT
27106290 ATTTCTCAAATTTTTA
1 ATTTCTCAAATTTTTA
27106306 ATTTCTCAAATTTTTA
1 ATTTCTCAAATTTTTA
27106322 TATCATTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTCTCAAATTTTTA
Found at i:27112015 original size:2 final size:2
Alignment explanation
Indices: 27112008--27112040 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27111998 GACGATATCT
27112008 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
27112041 CTCATCTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27112198 original size:2 final size:2
Alignment explanation
Indices: 27112191--27112226 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
27112181 CCGGACAACA
*
27112191 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27112227 GTTGCCACCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:27135197 original size:12 final size:12
Alignment explanation
Indices: 27135180--27135204 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27135170 TTATCTCAGT
27135180 TCTCTAATGAAA
1 TCTCTAATGAAA
27135192 TCTCTAATGAAA
1 TCTCTAATGAAA
27135204 T
1 T
27135205 GCTTTTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TCTCTAATGAAA
Found at i:27136435 original size:17 final size:16
Alignment explanation
Indices: 27136404--27136438 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
27136394 TCAATTACTC
*
27136404 TATATTTCTGCATATA
1 TATATTTCTGAATATA
27136420 TATATATTCTGAATATA
1 TATAT-TTCTGAATATA
27136437 TA
1 TA
27136439 ATGTCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (16 bp):
TATATTTCTGAATATA
Found at i:27138536 original size:16 final size:16
Alignment explanation
Indices: 27138515--27138554 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
27138505 TTATAAAGAA
*
27138515 ATTTTGTTGGTTGTTG
1 ATTTTGTTAGTTGTTG
* *
27138531 ATTTTGGTATTTGTTG
1 ATTTTGTTAGTTGTTG
27138547 ATTTTGTT
1 ATTTTGTT
27138555 CATAGGCTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.25, T:0.65
Consensus pattern (16 bp):
ATTTTGTTAGTTGTTG
Found at i:27140342 original size:61 final size:61
Alignment explanation
Indices: 27140243--27140358 Score: 214
Period size: 61 Copynumber: 1.9 Consensus size: 61
27140233 TTGGTTTTAA
* *
27140243 TATTAGAGAAGCAGTAAGCTATAGAAAACTCACTAGTTTTACATAATTAATAGCACCCTTT
1 TATTAGAGAAGCAATAAGCTATAGAAAACTCACAAGTTTTACATAATTAATAGCACCCTTT
27140304 TATTAGAGAAGCAATAAGCTATAGAAAACTCACAAGTTTTACATAATTAATAGCA
1 TATTAGAGAAGCAATAAGCTATAGAAAACTCACAAGTTTTACATAATTAATAGCA
27140359 TTACTTTGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (61 bp):
TATTAGAGAAGCAATAAGCTATAGAAAACTCACAAGTTTTACATAATTAATAGCACCCTTT
Found at i:27145262 original size:2 final size:2
Alignment explanation
Indices: 27145255--27145283 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27145245 TTCACACTTT
27145255 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
27145284 TCATACACAT
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:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:27149631 original size:30 final size:30
Alignment explanation
Indices: 27149529--27149632 Score: 93
Period size: 30 Copynumber: 3.3 Consensus size: 30
27149519 CCTTAGCTTG
* *
27149529 TGAAAATGTAGAGAGGTTGTGCTTACTCCT
1 TGAAAAGGTAGAGAGGTTATGCTTACTCCT
* * *
27149559 TGAAAAGGCAGTATTGATAGGTTATACCTTAGC-CCA
1 TGAAAA-G--GTA--GAGAGGTTAT-GCTTA-CTCCT
27149595 TGAAAAGGTAGAGAGGTTATGCTTACTCCT
1 TGAAAAGGTAGAGAGGTTATGCTTACTCCT
27149625 TGAAAAGG
1 TGAAAAGG
27149633 CATTGTAAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
29 1 0.02
30 20 0.34
31 9 0.16
33 6 0.10
35 9 0.16
36 12 0.21
37 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAAAAGGTAGAGAGGTTATGCTTACTCCT
Found at i:27149663 original size:34 final size:34
Alignment explanation
Indices: 27149625--27149740 Score: 108
Period size: 34 Copynumber: 3.4 Consensus size: 34
27149615 GCTTACTCCT
*
27149625 TGAAAAGGCATTGTAAAGTTTGTGCTTGATCTTG
1 TGAAAAGGCATTGTAAAGATTGTGCTTGATCTTG
* * * *
27149659 TGAAAAGGCATTGTAAGGGTTGTGCTTGCTTCCT-
1 TGAAAAGGCATTGTAAAGATTGTGCTTG-ATCTTG
* * * * *
27149693 TGCAAAGGCATTGTATACATTGTGCTTGACCTCG
1 TGAAAAGGCATTGTAAAGATTGTGCTTGATCTTG
**
27149727 AAAAAAGGCATTGT
1 TGAAAAGGCATTGT
27149741 TGTAAAGGTT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
33 1 0.02
34 60 0.94
35 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (34 bp):
TGAAAAGGCATTGTAAAGATTGTGCTTGATCTTG
Found at i:27154812 original size:196 final size:194
Alignment explanation
Indices: 27154457--27154839 Score: 527
Period size: 196 Copynumber: 2.0 Consensus size: 194
27154447 AAAAACTTAG
* * *
27154457 CACTTATGGCGCCATAAATCAAGACACGTGCTAAGTGTCAGTGGGATGAATCTTTATCAGAGGGC
1 CACTTATGGCACCATAAATCAAGACACGTGCTAAGTGTCAGTCGGATGAATCTTCATCAGAGGGC
* * *
27154522 TTTCATAGATTTGGGAAAAACTTCAATAATTAGGCTTAAAAGCGAAGGTACTTGGATTTATTCTC
66 TTTCATAGATTTGGGAAAAACTTCAATAA-TAGGCTCAAAAGCAAAGGTACTTAGATTTATTCTC
* * * * ** *
27154587 TACACCCAAAGTTTACCCTAGCAAACCCATATATTTTTAACTGTTTGAGACCCTAAGGTTCTCAA
130 CACACCCAAAGTCTACCCTAGCAAACCCATAGATTTTCAACTCCTTAAGACCCTAAGGTTCTCAA
* *
27154652 CACTTATGGCACCATGAATCAAGACACGTGCTAAGTGTCAGTCGGATGAATCTTCATTAGAGGAG
1 CACTTATGGCACCATAAATCAAGACACGTGCTAAGTGTCAGTCGGATGAATCTTCATCAGAGG-G
*
27154717 CTTTCATAGATTTGGGAAAAACTTTGGCAATCA-AGG-TCAAAAGCAAAGGTACTTAGATTTATT
65 CTTTCATAGATTTGGGAAAAAC-TT--CAATAATAGGCTCAAAAGCAAAGGTACTTAGATTTATT
* * **
27154780 CTCCACACTCAAAGTCTACCTTAGTGAACCCATAGATTTTCAACTCCTTAAGACCCTAAG
127 CTCCACACCCAAAGTCTACCCTAGCAAACCCATAGATTTTCAACTCCTTAAGACCCTAAG
27154840 TTTCCCCTAT
Statistics
Matches: 164, Mismatches: 20, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
195 58 0.35
196 96 0.59
197 5 0.03
199 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (194 bp):
CACTTATGGCACCATAAATCAAGACACGTGCTAAGTGTCAGTCGGATGAATCTTCATCAGAGGGC
TTTCATAGATTTGGGAAAAACTTCAATAATAGGCTCAAAAGCAAAGGTACTTAGATTTATTCTCC
ACACCCAAAGTCTACCCTAGCAAACCCATAGATTTTCAACTCCTTAAGACCCTAAGGTTCTCAA
Found at i:27156387 original size:20 final size:20
Alignment explanation
Indices: 27156339--27156387 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
27156329 AATTGATTGT
27156339 ATATGCTTTGAAAGTAAATG
1 ATATGCTTTGAAAGTAAATG
* *
27156359 ATAATGCTTTTAAATTTAAA-G
1 AT-ATGCTTTGAAA-GTAAATG
27156380 ATATGCTT
1 ATATGCTT
27156388 CTAAGTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 13 0.52
22 4 0.16
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (20 bp):
ATATGCTTTGAAAGTAAATG
Found at i:27158725 original size:18 final size:19
Alignment explanation
Indices: 27158702--27158743 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
27158692 ACAGAAAACA
27158702 AAGAC-AACTTAGTCGACT
1 AAGACAAACTTAGTCGACT
*
27158720 AAGACATAAGTTAGTCGACT
1 AAGACA-AACTTAGTCGACT
27158740 AAGA
1 AAGA
27158744 GCATTCTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
20 16 0.76
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (19 bp):
AAGACAAACTTAGTCGACT
Found at i:27161497 original size:22 final size:22
Alignment explanation
Indices: 27161472--27161520 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
27161462 AAAAGGACTA
27161472 GTCATAGTTAGTATTAGGAGTG
1 GTCATAGTTAGTATTAGGAGTG
27161494 GTCATAGTTAGTATTAGGAGTG
1 GTCATAGTTAGTATTAGGAGTG
*
27161516 ATCAT
1 GTCAT
27161521 GGTAGTGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.37
Consensus pattern (22 bp):
GTCATAGTTAGTATTAGGAGTG
Found at i:27166713 original size:17 final size:17
Alignment explanation
Indices: 27166688--27166723 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27166678 AAGTTAAATA
27166688 AGCACACACTAAGGGGG
1 AGCACACACTAAGGGGG
* *
27166705 AGCATACACTTAGGGGG
1 AGCACACACTAAGGGGG
27166722 AG
1 AG
27166724 AAATCCCCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.36, T:0.11
Consensus pattern (17 bp):
AGCACACACTAAGGGGG
Found at i:27169239 original size:34 final size:33
Alignment explanation
Indices: 27169156--27169249 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 33
27169146 AGAGAAGTTA
*
27169156 TGCTTGCTCCTTGAAAAGGCATTGTAAGGGTTG
1 TGCTTGCTCCTTGAAAAGGCATTGTAAAGGTTG
* * * *
27169189 TGTTTACTCCCGTGAAAAGGCATTGTAAAGTTTG
1 TGCTTGCT-CCTTGAAAAGGCATTGTAAAGGTTG
* *
27169223 TGCTTGCTCTTATGAAAAGACATTGTA
1 TGCTTGCTCCT-TGAAAAGGCATTGTA
27169250 TGGATTATGC
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 7 0.14
34 42 0.86
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (33 bp):
TGCTTGCTCCTTGAAAAGGCATTGTAAAGGTTG
Found at i:27177473 original size:2 final size:2
Alignment explanation
Indices: 27177466--27177504 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
27177456 ATCCCTCATA
27177466 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
27177505 CACACACACA
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:27177509 original size:2 final size:2
Alignment explanation
Indices: 27177504--27177534 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27177494 ATATATATAT
27177504 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
27177535 TACTACTACT
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:27177560 original size:2 final size:2
Alignment explanation
Indices: 27177553--27177589 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27177543 CTACTNNNNN
27177553 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 A
27177590 CATACACACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27177598 original size:2 final size:2
Alignment explanation
Indices: 27177593--27177624 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27177583 ATATATACAT
27177593 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
27177625 GTATCATTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:27179096 original size:24 final size:24
Alignment explanation
Indices: 27179059--27179143 Score: 125
Period size: 24 Copynumber: 3.5 Consensus size: 24
27179049 GGTCTATGTC
*
27179059 CCTTAGCATATTTTGAACCACATG
1 CCTTAGCATGTTTTGAACCACATG
*
27179083 CCTTAGGATGTTTTGAACCACATG
1 CCTTAGCATGTTTTGAACCACATG
* **
27179107 CGTTAGCATGTTTTGAAGTACATG
1 CCTTAGCATGTTTTGAACCACATG
27179131 CCTTAGCATGTTT
1 CCTTAGCATGTTT
27179144 GGAAATTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (24 bp):
CCTTAGCATGTTTTGAACCACATG
Found at i:27180297 original size:23 final size:23
Alignment explanation
Indices: 27180271--27180323 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
27180261 TTGGTTTGAG
27180271 ACTTGCTTGGGCTAAGCGGGCTT
1 ACTTGCTTGGGCTAAGCGGGCTT
* * *
27180294 ACTTACTTGGGTTAAGTGGGCTT
1 ACTTGCTTGGGCTAAGCGGGCTT
27180317 ACTTGCT
1 ACTTGCT
27180324 AAACCCATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.15, C:0.19, G:0.30, T:0.36
Consensus pattern (23 bp):
ACTTGCTTGGGCTAAGCGGGCTT
Found at i:27187501 original size:19 final size:19
Alignment explanation
Indices: 27187468--27187505 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27187458 GAAAGTTTAC
27187468 TAATGAATTAAAACTTCTAA
1 TAATGAATTAAAAC-TCTAA
*
27187488 TAATG-ATTAGAACTCTAA
1 TAATGAATTAAAACTCTAA
27187506 AATTAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 7 0.41
20 5 0.29
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (19 bp):
TAATGAATTAAAACTCTAA
Found at i:27187741 original size:18 final size:18
Alignment explanation
Indices: 27187705--27187739 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27187695 TTTAAATGAT
27187705 TTAGGATAGATTCTTAAA
1 TTAGGATAGATTCTTAAA
*
27187723 TTAGGA-AGTTTCTTAAA
1 TTAGGATAGATTCTTAAA
27187740 ATGGTTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (18 bp):
TTAGGATAGATTCTTAAA
Found at i:27188448 original size:19 final size:19
Alignment explanation
Indices: 27188408--27188448 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27188398 GTAAAACAGC
**
27188408 ATGTGATAGATTAAATTTT
1 ATGTGATAGATTAAATGCT
*
27188427 ATGTGATATATTAAATGCT
1 ATGTGATAGATTAAATGCT
27188446 ATG
1 ATG
27188449 CATGCTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (19 bp):
ATGTGATAGATTAAATGCT
Found at i:27192316 original size:17 final size:16
Alignment explanation
Indices: 27192296--27192327 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
27192286 AGTTAATTTG
27192296 ATTAATTATAAATTTAA
1 ATTAATT-TAAATTTAA
27192313 ATTAATTTAAATTTA
1 ATTAATTTAAATTTA
27192328 TCTAATCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATTTAAATTTAA
Found at i:27192512 original size:66 final size:66
Alignment explanation
Indices: 27192438--27192579 Score: 178
Period size: 66 Copynumber: 2.2 Consensus size: 66
27192428 GGTGATTAAG
* * * * *
27192438 TTGGACTTAATCAAATTAGAAGTTATAAGCTTCTCAAGGACTTAATTAAATTGCTTAATTAAGTT
1 TTGGACTTAATCAAATAAGAACTTATAAACTTCTCAAGGAATTAATTAAATTACTTAATTAAGTT
27192503 A
66 A
** * * *
27192504 TTGGACTTAATTGAATAAGAACTTATAAACTTTTGAAGGAATTAATTAAATTATTTAATTAAGTT
1 TTGGACTTAATCAAATAAGAACTTATAAACTTCTCAAGGAATTAATTAAATTACTTAATTAAGTT
*
27192569 G
66 A
27192570 TTGGA-TTAAT
1 TTGGACTTAAT
27192580 TTACAATTAC
Statistics
Matches: 65, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
65 5 0.08
66 60 0.92
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (66 bp):
TTGGACTTAATCAAATAAGAACTTATAAACTTCTCAAGGAATTAATTAAATTACTTAATTAAGTT
A
Found at i:27193879 original size:23 final size:21
Alignment explanation
Indices: 27193836--27193881 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
27193826 ATAAAAAAGA
* *
27193836 TTAAAATATTTTTTTATTAAT
1 TTAAAAAATTTTATTATTAAT
27193857 TTAAAAAATTATTATTATATAAT
1 TTAAAAAATT-TTATTAT-TAAT
27193880 TT
1 TT
27193882 CTTTTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAAAAAATTTTATTATTAAT
Found at i:27195258 original size:27 final size:29
Alignment explanation
Indices: 27195224--27195290 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 29
27195214 TAACATTTAT
**
27195224 TATT-AAAATTTATTAT-TTATAATCAAA
1 TATTCAAAATTTAGAATGTTATAATCAAA
* *
27195251 T-TTCAAAA-ATAGAATGTTATAATCAAT
1 TATTCAAAATTTAGAATGTTATAATCAAA
27195278 TATTCAAAATTTA
1 TATTCAAAATTTA
27195291 CCTAAACTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 6 0.19
27 16 0.52
28 7 0.23
29 2 0.06
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (29 bp):
TATTCAAAATTTAGAATGTTATAATCAAA
Found at i:27198311 original size:2 final size:2
Alignment explanation
Indices: 27198306--27198350 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
27198296 TGTGCGTGTG
27198306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27198348 TA T
1 TA T
27198351 GGCCTACCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:27198435 original size:2 final size:2
Alignment explanation
Indices: 27198423--27198469 Score: 85
Period size: 2 Copynumber: 23.0 Consensus size: 2
27198413 TCAATGGTAN
27198423 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27198466 TA TA
1 TA TA
27198470 GGCTTGAACG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 42 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27214080 original size:79 final size:80
Alignment explanation
Indices: 27213930--27214082 Score: 186
Period size: 79 Copynumber: 1.9 Consensus size: 80
27213920 TTTGCACTAA
* * *
27213930 TAAATATTTACCTATTGGTTATCCAATTTATCCTTAAATAAATCAAGATAATTTAAAAGTAATAT
1 TAAATATTTACCTATTGGTCATCCAATTTATCCTTAAATAAATCAAAATAATTTAAAAGTAAAAT
**
27213995 TTAAATTTGATCAAT
66 CAAAATTTGATCAAT
* * * *
27214010 TAAA-ATTTATCTGTTGGTCATCTAATTTAT-CTCTAAATAAATCAAAATAATTT-AGAGATAAA
1 TAAATATTTACCTATTGGTCATCCAATTTATCCT-TAAATAAATCAAAATAATTTAAAAG-TAAA
27214072 ATCAAAATTTG
64 ATCAAAATTTG
27214083 GTCATCCATT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
78 5 0.08
79 53 0.85
80 4 0.06
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (80 bp):
TAAATATTTACCTATTGGTCATCCAATTTATCCTTAAATAAATCAAAATAATTTAAAAGTAAAAT
CAAAATTTGATCAAT
Found at i:27215912 original size:13 final size:13
Alignment explanation
Indices: 27215894--27215924 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
27215884 TCACTCTTAA
27215894 CAATGGAAGAAGT
1 CAATGGAAGAAGT
27215907 CAATGGAAGAAGT
1 CAATGGAAGAAGT
27215920 CAATG
1 CAATG
27215925 TCAATACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.29, T:0.16
Consensus pattern (13 bp):
CAATGGAAGAAGT
Found at i:27225223 original size:41 final size:41
Alignment explanation
Indices: 27225166--27225243 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
27225156 ATAAATCTTG
27225166 AAAGCAAAGTTCAAAGTTCAATG-TCAAGTCACAAGACTTTT
1 AAAGCAAAGTTCAAAGTTCAA-GATCAAGTCACAAGACTTTT
*
27225207 AAAGCGAAA-TTCAAAGTTCAAGATCAAGTCATAAGAC
1 AAAGC-AAAGTTCAAAGTTCAAGATCAAGTCACAAGAC
27225244 CTTTGAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
40 1 0.03
41 30 0.88
42 3 0.09
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (41 bp):
AAAGCAAAGTTCAAAGTTCAAGATCAAGTCACAAGACTTTT
Found at i:27225389 original size:42 final size:42
Alignment explanation
Indices: 27225284--27225450 Score: 266
Period size: 42 Copynumber: 4.0 Consensus size: 42
27225274 ATTGAGACCT
* * *
27225284 TTGAAGCAAAGTTCGAAGTTCAAGATCAAG-TGGCAAAACCC
1 TTGAAGCAAAGTTTGAAGTTTAAGATCAAGTTGTCAAAACCC
*
27225325 TTAAAGC-AAGTTTGAAGTTTAAGATCAAGTTGTCAAAACCC
1 TTGAAGCAAAGTTTGAAGTTTAAGATCAAGTTGTCAAAACCC
27225366 TTGAAGCAAAGTTTGAAGTTTAAGATCAAGTTGTCAAAACCC
1 TTGAAGCAAAGTTTGAAGTTTAAGATCAAGTTGTCAAAACCC
**
27225408 TTGAAGCAAAGTTTGAAGTTTAAGATCAAGTCATCAAAACCC
1 TTGAAGCAAAGTTTGAAGTTTAAGATCAAGTTGTCAAAACCC
27225450 T
1 T
27225451 CGAAATGAAG
Statistics
Matches: 117, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 20 0.17
41 22 0.19
42 75 0.64
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (42 bp):
TTGAAGCAAAGTTTGAAGTTTAAGATCAAGTTGTCAAAACCC
Found at i:27225520 original size:50 final size:50
Alignment explanation
Indices: 27225466--27225575 Score: 123
Period size: 50 Copynumber: 2.2 Consensus size: 50
27225456 TGAAGTCTCT
* * * **
27225466 AAATTGCTCATTTAAGATCAAGTTGTTAAGACCATTGAAGC-AAAGTGTCC
1 AAATTGCTCATTCAAGATCAAGTTATCAAGACCATTGAAGCGAAA-CCTCC
** * *
27225516 AAATTTTTCATTCAAGATTAAGTTATCAAGACCCTTGAAGCGAAACCTCC
1 AAATTGCTCATTCAAGATCAAGTTATCAAGACCATTGAAGCGAAACCTCC
27225566 AAATTGCTCA
1 AAATTGCTCA
27225576 AGATCAAATC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
50 45 0.94
51 3 0.06
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (50 bp):
AAATTGCTCATTCAAGATCAAGTTATCAAGACCATTGAAGCGAAACCTCC
Found at i:27230950 original size:72 final size:73
Alignment explanation
Indices: 27230767--27230968 Score: 214
Period size: 72 Copynumber: 2.8 Consensus size: 73
27230757 GTACTCTGGT
* * *
27230767 TCAAATTACAGACAAAGAGC-TCTTAGTCGACTAACT-TTCTTCTTGGTTGACTAAGTTTGGTTT
1 TCAAATTA-TGACAGAGAGCAT-TTAGTCGACTAACTCAT-TTCTTGGTTGACTAAG-TTGGTTT
**
27230830 TGTCTTCTGGTC
62 TGTCTTCAAGTC
* * *
27230842 TCAAATTATGGCAGAGAGCATTTAATCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTTTGTC
1 TCAAATTATGACAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTTGACTAAGTTGGTTTTGTC
*
27230907 TTGAAGTC
66 TTCAAGTC
* * * *
27230915 -CAGATTTTGACAGAGAGCATTTAGTGGACTAACTCACATT-TTGGTTGACTAAGT
1 TCAAATTATGACAGAGAGCATTTAGTCGACTAACTCA-TTTCTTGGTTGACTAAGT
27230969 CGATTCTGTT
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
72 44 0.41
73 18 0.17
74 36 0.33
75 10 0.09
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (73 bp):
TCAAATTATGACAGAGAGCATTTAGTCGACTAACTCATTTCTTGGTTGACTAAGTTGGTTTTGTC
TTCAAGTC
Found at i:27233188 original size:20 final size:21
Alignment explanation
Indices: 27233152--27233191 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
27233142 AAAAACTAAT
*
27233152 AAATAACAATCAAATTAAAAG
1 AAATAACAATAAAATTAAAAG
27233173 AAATAAC-ATAAAATTAAAA
1 AAATAACAATAAAATTAAAA
27233192 TAACTCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAACAATAAAATTAAAAG
Found at i:27234982 original size:21 final size:22
Alignment explanation
Indices: 27234945--27234991 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
27234935 AATTATAAAC
27234945 TTTATATTATGTAAAAATCTT-T
1 TTTATATTATGTAAAAAT-TTAT
*
27234967 TTTATATT-TTTAAAAATTTAT
1 TTTATATTATGTAAAAATTTAT
27234988 TTTA
1 TTTA
27234992 AATAGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTATATTATGTAAAAATTTAT
Found at i:27241484 original size:861 final size:845
Alignment explanation
Indices: 27239669--27241342 Score: 2037
Period size: 861 Copynumber: 2.0 Consensus size: 845
27239659 CTTAGGTTCC
* * * * *
27239669 TAAATCAATTTAATTGGTAATCAGGCAATTAAAAGTATTAAAAACAAATTGGAATAAACAATTCA
1 TAAATCAATTTAATTGGTGATCAAGCAAGTAAAAGCATTAAGAAC-AATTGG-AT-----ATTCA
* * * * *
27239734 ATTCCCAT-TGAAGATAAGTAAAAAAGATATTAACAATTTAGATTACATGTGAGTTCAATTGCAA
59 A-T-CCATGT-AAGAAAAGGAACAAAGAAATTAAAAATTTAGATTACATGTGAGTTCAATTGCAA
* * *
27239798 TCTTAGAAAAAGAAAATTAGCTATTCATGATTGCAAAAACAAATAACATTGTATAAAATTAAACC
121 TCCTAGAAAAAGAAAATTAGCTACTCATGATTGCAAAAACAAACAACATTGTATAAAATTAAACC
*
27239863 ATCGAGAGTAACAAGAAAAATAAAAGCCAAGGAAGAAAACAAAACAAATATTTGCCCCCTTGATC
186 ATCGAGAATAACAAGAAAAATAAAAGCCAAGGAAGAAAACAAAACAAATATTTGCCCCCTTGATC
* * *
27239928 TCTAAATTTCAGCCTCAACTTCTAGCTTCTTGAATCTTCAAAAAGTTGTCTCTCCTAATATTCTT
251 TCCAAATTTCAGCCTCAACTTCTAACTTCTTGAATCTCCAAAAAGTTGTCTCTCCTAATATTCTT
*
27239993 AAAAATATCCTATTTATATTAATAAACTTAACCTAAAGTTCCCAAGTTGACCTATGATTTAATTG
316 AAAAATATCCTATTTATACTAATAAACTTAACCTAAAGTTCCCAAGTTGACCTATGATTTAATTG
*
27240058 GGCTTAAAAGTGTAATGAGAGGCCTAAAAAATCAATTGTCAATCTTTACAAATTTCCATTCCCAG
381 GGCTTAAAAGTGTAATGAGAGGCCTAAAAAATAAATTGTCAATCTTTACAAATTTCCATTCCCAG
* ** * * *
27240123 CACAATGTATTCAGCCATTTTTTGACATGATTTTCTCTATATTTGATGCAGAACTGGATAAAGTG
446 AACAATACATTCAGCCATTTTCTGACATGATTTTCTCTATATTTAAAGCAGAACTGGATAAAGTG
* * **
27240188 ATCTTCATGAAGTTGTAGCTCTGTCTCGTAGCTTTCCAATGGTCCAAGAATTGCATTATTTGGAG
511 ATCTTCATGAAGTTGTAGCTCTATCTCGTAGCTTTCCAATGGTCAAAGAATTGCATTATTTAAAG
* * * * *
27240253 TTTTGTAGCCCAATCTATCGCCAAAACACTGCAGCATATACAAATAGACTTCCGGGTCTTTCAAC
576 TTCTCTAGCCCAATCTATCGCCAAAAAACTACAGCATATACAAATAGACTTCCAGGTCTTTCAAC
*
27240318 ACCTTACTTTCCAAAATTAAGCCCAATCTCTTTTAATCCTACGAAAAATATAAAAACTAATGAAT
641 ACCTTACTTTCCAAAATTAAGCCCAATCTCTTTTAATCCTACGAAAAATATAAAAACTAATAAAT
* * *** ** **
27240383 AACAATCAAATTAAAAGAAATAACTAATTTGGCTATATATGGCTTATAGGTATATCCCTATCCTA
706 AACAATCAAATTAAAAGAAATAAATAAATTGAAAATATATCACTTATA-G-ATATAACTAT-CTA
* * ** ** * * * ** *
27240448 TATGCAAATCAACTAATATTATCATATGTTATCCCAATTGTAATCTACACTAAACTTCCTTTCTC
768 TA--CAAAACAACTAATATAAGAATAAATTAT--CAATTGAAATCTACACTAAAATTCCATAATA
* * * *
27240513 AAGTTTGCTTAGCTTTC
829 AAATTGGCTTAACTTTA
* *
27240530 TAAATCCATTTAATTGGTGATCAAGCAATTAAAAGCATTAAGAACAAATTGGAATAAACAATTCA
1 TAAATCAATTTAATTGGTGATCAAGCAAGTAAAAGCATTAAGAAC-AATTGG-AT-----ATTCA
* * * *
27240595 ATTCCCATTTAAGATAAGTAAGAAAGAAATTAAAAATTTAGATTACATGTGAGTTCAATTGCAAT
59 A-T-CCATGTAAGAAAAGGAACAAAGAAATTAAAAATTTAGATTACATGTGAGTTCAATTGCAAT
* *
27240660 CCTAGAAAATGAAAATTAGCTACTCATGATTGCAAAAACAAACAACATTGTATAAAATTCAACCA
122 CCTAGAAAAAGAAAATTAGCTACTCATGATTGCAAAAACAAACAACATTGTATAAAATTAAACCA
* * **
27240725 TTGAGAATAACAAGAAAAATAAAAGCCAAGGAAGAAAACAAAATAAATATTTGCTGCCTTGATCT
187 TCGAGAATAACAAGAAAAATAAAAGCCAAGGAAGAAAACAAAACAAATATTTGCCCCCTTGATCT
* * * * *
27240790 CCAAGTTTTAGCCTTAACTTCTAACTTCTTGAATCTCCAAAAGGTTGTCTCTCCTAATGTTCTTA
252 CCAAATTTCAGCCTCAACTTCTAACTTCTTGAATCTCCAAAAAGTTGTCTCTCCTAATATTCTTA
* * * *
27240855 AAAATATCCTATTTATACTAATAAACTTAACCTACAGTTTCTAAGTTGACCTATGGTTTAATTGG
317 AAAATATCCTATTTATACTAATAAACTTAACCTAAAGTTCCCAAGTTGACCTATGATTTAATTGG
* *
27240920 GCTTAAAAGTGTAATGAGAGGCCTAAAAAATAAATTGTCAGTCTTTACAAATTTTCATTCCCTA-
382 GCTTAAAAGTGTAATGAGAGGCCTAAAAAATAAATTGTCAATCTTTACAAATTTCCATTCCC-AG
* * *
27240984 AACAATACA-TCTATCCATTTTCTGACATGATTTTCTCTAT-TTTCAAAGTAGAACTGGGTAAAG
446 AACAATACATTC-AGCCATTTTCTGACATGATTTTCTCTATATTT-AAAGCAGAACTGGATAAAG
* * *
27241047 TGATCTTCATGAAAGTTGTAGCTCTATCTCTTAGCTTTCCAATGGTCAAAGAATTTCATTGTTTA
509 TGATCTTCATG-AAGTTGTAGCTCTATCTCGTAGCTTTCCAATGGTCAAAGAATTGCATTATTTA
* * * *
27241112 AAGTTCTCTAGCCCAAGT-TAT-GACCAAAAAAGTACAGCATTTGCAAATAGACTTCTAGGTCTT
573 AAGTTCTCTAGCCCAA-TCTATCG-CCAAAAAACTACAGCATATACAAATAGACTTCCAGGTCTT
* *
27241175 TCAACACCTTACTTTCCAAAATTAAGCCTAATCTCTTTTAATCCTACGAAAAATATAAAATCTAA
636 TCAACACCTTACTTTCCAAAATTAAGCCCAATCTCTTTTAATCCTACGAAAAATATAAAAACTAA
*
27241240 TAAATGACAATCAAATTAAAAGAAATAATATAAAATT-AAAATA-ACTCACTTAATA-ATA-AAC
701 TAAATAACAATCAAATTAAAAGAAATAA-AT-AAATTGAAAATATA-TCACTT-ATAGATATAAC
27241301 TAAT-TATA-AAAACAACTAA-A-AAGAAGTAAATTAT-AATTGAAA
762 T-ATCTATACAAAACAACTAATATAAGAA-TAAATTATCAATTGAAA
27241343 ATTGAGGACT
Statistics
Matches: 721, Mismatches: 79, Indels: 35
0.86 0.09 0.04
Matches are distributed among these distances:
852 7 0.01
854 2 0.00
855 7 0.01
856 10 0.01
859 4 0.01
860 7 0.01
861 480 0.67
862 188 0.26
863 9 0.01
864 7 0.01
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.32
Consensus pattern (845 bp):
TAAATCAATTTAATTGGTGATCAAGCAAGTAAAAGCATTAAGAACAATTGGATATTCAATCCATG
TAAGAAAAGGAACAAAGAAATTAAAAATTTAGATTACATGTGAGTTCAATTGCAATCCTAGAAAA
AGAAAATTAGCTACTCATGATTGCAAAAACAAACAACATTGTATAAAATTAAACCATCGAGAATA
ACAAGAAAAATAAAAGCCAAGGAAGAAAACAAAACAAATATTTGCCCCCTTGATCTCCAAATTTC
AGCCTCAACTTCTAACTTCTTGAATCTCCAAAAAGTTGTCTCTCCTAATATTCTTAAAAATATCC
TATTTATACTAATAAACTTAACCTAAAGTTCCCAAGTTGACCTATGATTTAATTGGGCTTAAAAG
TGTAATGAGAGGCCTAAAAAATAAATTGTCAATCTTTACAAATTTCCATTCCCAGAACAATACAT
TCAGCCATTTTCTGACATGATTTTCTCTATATTTAAAGCAGAACTGGATAAAGTGATCTTCATGA
AGTTGTAGCTCTATCTCGTAGCTTTCCAATGGTCAAAGAATTGCATTATTTAAAGTTCTCTAGCC
CAATCTATCGCCAAAAAACTACAGCATATACAAATAGACTTCCAGGTCTTTCAACACCTTACTTT
CCAAAATTAAGCCCAATCTCTTTTAATCCTACGAAAAATATAAAAACTAATAAATAACAATCAAA
TTAAAAGAAATAAATAAATTGAAAATATATCACTTATAGATATAACTATCTATACAAAACAACTA
ATATAAGAATAAATTATCAATTGAAATCTACACTAAAATTCCATAATAAAATTGGCTTAACTTTA
Found at i:27243811 original size:20 final size:20
Alignment explanation
Indices: 27243766--27243803 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
27243756 TTTTGGCCCC
27243766 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
27243786 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
27243804 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:27255822 original size:41 final size:41
Alignment explanation
Indices: 27255756--27255904 Score: 174
Period size: 41 Copynumber: 3.6 Consensus size: 41
27255746 GATAGCATTG
* * * * *
27255756 TATGGATTGCATGCCCCTAACATGTTTTGTACTATTTTCAA
1 TATGGGTTACATGCCTCTAGCATGTTTTGTACTATTATCAA
* * *
27255797 TATGAGTTACATGCCTTTAGCATGTTCTGTACTATTATCAA
1 TATGGGTTACATGCCTCTAGCATGTTTTGTACTATTATCAA
* * * *
27255838 CATGGGTTACATGTCTCTAGCATGTTTTGTACTACTATCGA
1 TATGGGTTACATGCCTCTAGCATGTTTTGTACTATTATCAA
27255879 TATGGGTTACATG-CTCCTAGCATGTT
1 TATGGGTTACATGCCT-CTAGCATGTT
27255905 CTATTTACAT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 2 0.02
41 89 0.98
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.40
Consensus pattern (41 bp):
TATGGGTTACATGCCTCTAGCATGTTTTGTACTATTATCAA
Found at i:27256568 original size:166 final size:164
Alignment explanation
Indices: 27256286--27256614 Score: 568
Period size: 166 Copynumber: 2.0 Consensus size: 164
27256276 AGGCATTCTG
27256286 TGTACCAAGCATCGATACCTTGCGTATAAGTGAAATACCCCATACTTTGATATATGATAAATAAA
1 TGTACCAAGCATCGATACCTTGCGTATAAGTGAAATACCCCATACTTTGATATATGATAAATAAA
* *
27256351 ATTGATCGAATGCATATGGAGGTCAATTAAAATGTTTAAAAGTGCTAAAAGACGAAAGGAGTAGT
66 ATTGATCGAATGCAAATGGAGGTCAATTAAAATGTTTAAAAGTGATAAAAGACGAAAGGAGTAGT
*
27256416 TTAAGATAAACTATTCCGCAAGTGAAAAAATAAT
131 TTAAGATAAAATATTCCGCAAGTGAAAAAATAAT
27256450 NTGTACCAAGCATCGATACCTTGCGTATAAGTGAAATACCCCATACTTTGATATAGTGATAAATA
1 -TGTACCAAGCATCGATACCTTGCGTATAAGTGAAATACCCCATACTTTGATATA-TGATAAATA
* * *
27256515 AAGTTGATCGAATGCAAATTGAGGTCAATTAAAATGTTTAAAAGTGATAAAAGACGAAATGAGTA
64 AAATTGATCGAATGCAAATGGAGGTCAATTAAAATGTTTAAAAGTGATAAAAGACGAAAGGAGTA
* *
27256580 GTTTAGGATAAAATATTCCGCAAGTGAGAAAATAA
129 GTTTAAGATAAAATATTCCGCAAGTGAAAAAATAA
27256615 CAATAAAATA
Statistics
Matches: 155, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
165 54 0.35
166 101 0.65
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.27
Consensus pattern (164 bp):
TGTACCAAGCATCGATACCTTGCGTATAAGTGAAATACCCCATACTTTGATATATGATAAATAAA
ATTGATCGAATGCAAATGGAGGTCAATTAAAATGTTTAAAAGTGATAAAAGACGAAAGGAGTAGT
TTAAGATAAAATATTCCGCAAGTGAAAAAATAAT
Found at i:27270484 original size:160 final size:161
Alignment explanation
Indices: 27270161--27270484 Score: 517
Period size: 160 Copynumber: 2.0 Consensus size: 161
27270151 ATAATATATC
* * *
27270161 ATTAGAAAGCAAATTAAAAATGGAACATATCTATTGCAAATTTATACATAATGAATCATACATTG
1 ATTAGAAAGCAAATTAAAAATGGAACATATCTATTACAAATTTATACATAATAAATCATACACTG
*
27270226 GTAATTTAAATTAAACAAAATTATGACCAAAACATGCTTTCAAATATACAAAAATTGGAAGAATA
66 GTAATTTAAATTAAACAAAATTATGACCAAAACATGCTTTCAAATATACAAAAATTGGAAGAACA
* * *
27270291 AAAGGAAGCCAAAACCTGCTTTAATATCACT
131 AAAGCAAGCCAAAACCTACTTTAATACCACT
* * *
27270322 ATTAGGAAGCAAA-TAAGAAATGGAACATATCTATTACAGATTTATACATAATAAATCATATACT
1 ATTAGAAAGCAAATTAA-AAATGGAACATATCTATTACAAATTTATACATAATAAATCATACACT
*
27270386 GGTAATTTAAATTAAAC-AAATTATGACCAAAACATGCTTTCAAATATACACAAATTGGAAGAAC
65 GGTAATTTAAATTAAACAAAATTATGACCAAAACATGCTTTCAAATATACAAAAATTGGAAGAAC
*
27270450 GAAAGCAAGCCAAAACCTACTTTAATACCACT
130 AAAAGCAAGCCAAAACCTACTTTAATACCACT
27270482 ATT
1 ATT
27270485 GGGAGGTGGG
Statistics
Matches: 150, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
160 79 0.53
161 71 0.47
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.27
Consensus pattern (161 bp):
ATTAGAAAGCAAATTAAAAATGGAACATATCTATTACAAATTTATACATAATAAATCATACACTG
GTAATTTAAATTAAACAAAATTATGACCAAAACATGCTTTCAAATATACAAAAATTGGAAGAACA
AAAGCAAGCCAAAACCTACTTTAATACCACT
Found at i:27270694 original size:180 final size:179
Alignment explanation
Indices: 27270372--27270715 Score: 528
Period size: 180 Copynumber: 1.9 Consensus size: 179
27270362 TTTATACATA
27270372 ATAAATCATATACTGGTAATTTAAATTAAACAAATTATGACCAAAACATGCTTTCAAATATACAC
1 ATAAATCATATACTGGTAATTTAAATTAAACAAATTATGACCAAAACATGCTTTCAAATATACAC
* * ** * * *
27270437 AAATTGGAAGAACGAAAGCAAGCCAAAACCTACTTTAATACCACTATTGGGAGGTGGGTTTACCT
66 AAATTAGAAGAACGAAAGCAAGCCAAAACCTACTTTAACACCACTATTGCAAGATAGGCTTACCT
* *
27270502 ATTCAGATGAATATTCCACTCTCTTTCTGATCGAAAAAAAGTTTGCCTT
131 ATTCAAATGAATATTCCACTCCCTTTCTGATCGAAAAAAAGTTTGCCTT
27270551 ATAAATCATATACTGGTAATTTAAATTAAACAAAATTATGACCAAAACATGCTTTCAAATATACA
1 ATAAATCATATACTGGTAATTTAAATTAAAC-AAATTATGACCAAAACATGCTTTCAAATATACA
* * * * *
27270616 CAAATTAGAGGAATGAAAGCAAGCTAAAACTTGCTTTAACACCACTGA-TGCAAGATAGGCTTAC
65 CAAATTAGAAGAACGAAAGCAAGCCAAAACCTACTTTAACACCACT-ATTGCAAGATAGGCTTAC
*
27270680 CTTTTCAAATGAATATTCCACTCCCTTTCTGATCGA
129 CTATTCAAATGAATATTCCACTCCCTTTCTGATCGA
27270716 GAATAGCTTG
Statistics
Matches: 148, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
179 31 0.21
180 116 0.78
181 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (179 bp):
ATAAATCATATACTGGTAATTTAAATTAAACAAATTATGACCAAAACATGCTTTCAAATATACAC
AAATTAGAAGAACGAAAGCAAGCCAAAACCTACTTTAACACCACTATTGCAAGATAGGCTTACCT
ATTCAAATGAATATTCCACTCCCTTTCTGATCGAAAAAAAGTTTGCCTT
Found at i:27271055 original size:42 final size:43
Alignment explanation
Indices: 27270992--27271109 Score: 123
Period size: 48 Copynumber: 2.6 Consensus size: 43
27270982 GGATATTATT
* *
27270992 TTTAAATTTTAAAAAACTAAATTTAAATGTA-AT-TAATCCTTA
1 TTTAAA-TTTAAAAAATTAAATTTAAATATAGATATAATCCTTA
*
27271034 TTTAAATTTAAATAAATTAAATTTAAATATATGGATAGATAATTCTTA
1 TTTAAATTTAAA-AAATTAAATTTAAATATA--GAT--ATAATCCTTA
*
27271082 CTTAAATTTAAACAAATTAAATTTAAAT
1 TTTAAATTTAAA-AAATTAAATTTAAAT
27271110 TTCTATCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
41 6 0.09
42 22 0.34
45 2 0.03
48 34 0.53
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (43 bp):
TTTAAATTTAAAAAATTAAATTTAAATATAGATATAATCCTTA
Found at i:27271061 original size:48 final size:50
Alignment explanation
Indices: 27271009--27271111 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 50
27270999 TTTAAAAAAC
* *
27271009 TAAATTTAAAT-G-TA-ATTAATCCTTATTTAAATTTAAATAAATTAAATT
1 TAAATTTAAATGGATAGA-TAATCCTTACTTAAATTTAAACAAATTAAATT
* *
27271057 TAAA--TATATGGATAGATAATTCTTACTTAAATTTAAACAAATTAAATT
1 TAAATTTAAATGGATAGATAATCCTTACTTAAATTTAAACAAATTAAATT
27271105 TAAATTT
1 TAAATTT
27271112 CTATCATGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
46 4 0.09
47 1 0.02
48 39 0.85
49 1 0.02
50 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (50 bp):
TAAATTTAAATGGATAGATAATCCTTACTTAAATTTAAACAAATTAAATT
Found at i:27277919 original size:21 final size:20
Alignment explanation
Indices: 27277887--27277930 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
27277877 TAACTCTTCT
27277887 TAAAGTAAATTAAACCAAAA
1 TAAAGTAAATTAAACCAAAA
*
27277907 TAAAGTAAAATTAAACTAAAA
1 TAAAGT-AAATTAAACCAAAA
27277928 TAA
1 TAA
27277931 CTTAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (20 bp):
TAAAGTAAATTAAACCAAAA
Found at i:27279476 original size:2 final size:2
Alignment explanation
Indices: 27279469--27279501 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
27279459 ATAAAACTTA
*
27279469 AT AT AT AT AT AT AT AT AT AT AC AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27279502 GATTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:27306810 original size:24 final size:24
Alignment explanation
Indices: 27306778--27306885 Score: 121
Period size: 24 Copynumber: 4.5 Consensus size: 24
27306768 GAAAAGGAGG
27306778 AAGAGGGGAAGATCAGCTGAGAGA
1 AAGAGGGGAAGATCAGCTGAGAGA
27306802 AAGAGGGGAAGATCAGCTGAGAGA
1 AAGAGGGGAAGATCAGCTGAGAGA
* * *
27306826 AAGAGGGGAAAATCGGCTAAGAGA
1 AAGAGGGGAAGATCAGCTGAGAGA
** * *
27306850 AA-AAAGGATCGATC-GACTTAGAGA
1 AAGAGGGGA-AGATCAG-CTGAGAGA
27306874 AAGAGGGGAAGA
1 AAGAGGGGAAGA
27306886 GGGGAAGAGG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 5 0.07
24 61 0.87
25 4 0.06
ACGTcount: A:0.44, C:0.08, G:0.38, T:0.09
Consensus pattern (24 bp):
AAGAGGGGAAGATCAGCTGAGAGA
Found at i:27306887 original size:8 final size:8
Alignment explanation
Indices: 27306874--27306901 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
27306864 GACTTAGAGA
27306874 AAGAGGGG
1 AAGAGGGG
27306882 AAGAGGGG
1 AAGAGGGG
27306890 AAGAGGGG
1 AAGAGGGG
27306898 AAGA
1 AAGA
27306902 TTGGAGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (8 bp):
AAGAGGGG
Found at i:27308070 original size:34 final size:34
Alignment explanation
Indices: 27308027--27308094 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
27308017 TGGCCAGTTT
*
27308027 ATGCTTTGTGATTTTTTGCCATTTCATCGACATC
1 ATGCTTTGTGATTTTTCGCCATTTCATCGACATC
*
27308061 ATGCTTTGTGATTTTTCGCCATTTCATTGACATC
1 ATGCTTTGTGATTTTTCGCCATTTCATCGACATC
27308095 CAGCTCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (34 bp):
ATGCTTTGTGATTTTTCGCCATTTCATCGACATC
Found at i:27316180 original size:28 final size:28
Alignment explanation
Indices: 27316121--27316180 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
27316111 TGGGTGGTGT
* * * * *
27316121 AAAATTACAATTTTACCCCTAGGGTGGC
1 AAAATGACAATTTTACCCCTACGCTAGA
*
27316149 AAAATGACTATTTTACCCCTACGCTAGA
1 AAAATGACAATTTTACCCCTACGCTAGA
27316177 AAAA
1 AAAA
27316181 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (28 bp):
AAAATGACAATTTTACCCCTACGCTAGA
Found at i:27327350 original size:16 final size:15
Alignment explanation
Indices: 27327314--27327349 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
27327304 TTCTTATATC
27327314 CTTTTTCATTTTCTA
1 CTTTTTCATTTTCTA
*
27327329 CTTTTTCATTTTCTG
1 CTTTTTCATTTTCTA
27327344 CTTTTT
1 CTTTTT
27327350 TACAAAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.19, G:0.03, T:0.69
Consensus pattern (15 bp):
CTTTTTCATTTTCTA
Found at i:27331295 original size:15 final size:16
Alignment explanation
Indices: 27331277--27331309 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27331267 ATTTTCTGAG
*
27331277 TTCTTTTT-TTATTTC
1 TTCTTTTTCATATTTC
27331292 TTCTTTTTCATATTTC
1 TTCTTTTTCATATTTC
27331308 TT
1 TT
27331310 GATGATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (16 bp):
TTCTTTTTCATATTTC
Found at i:27339240 original size:27 final size:27
Alignment explanation
Indices: 27339210--27339270 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
27339200 ATCTTTTTAT
27339210 TATTCATCCACTCGTT-CTAGTTAAAAG
1 TATTCATCCACT-GTTGCTAGTTAAAAG
* * * *
27339237 TATTTATCCACTTTTGGTGGTTAAAAG
1 TATTCATCCACTGTTGCTAGTTAAAAG
27339264 TATTCAT
1 TATTCAT
27339271 TTATTTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (27 bp):
TATTCATCCACTGTTGCTAGTTAAAAG
Found at i:27339845 original size:27 final size:27
Alignment explanation
Indices: 27339815--27339909 Score: 84
Period size: 28 Copynumber: 3.4 Consensus size: 27
27339805 ACTCCATATA
27339815 GTTAAAAGTATTCATCCACTTTTTGTG
1 GTTAAAAGTATTCATCCACTTTTTGTG
** * *
27339842 GTTAAAAGTATTCATTTA-TTTTTAATAA
1 GTTAAAAGTATTCATCCACTTTTT-GT-G
* * * *
27339870 TTTAAAAATATTCATCCACTTCTAGTG
1 GTTAAAAGTATTCATCCACTTTTTGTG
27339897 TGTTAAAAGTATT
1 -GTTAAAAGTATT
27339910 TGTATTATTA
Statistics
Matches: 50, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
26 5 0.10
27 17 0.34
28 25 0.50
29 3 0.06
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (27 bp):
GTTAAAAGTATTCATCCACTTTTTGTG
Found at i:27357951 original size:18 final size:18
Alignment explanation
Indices: 27357928--27357965 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
27357918 AGGAATGTGC
27357928 AAATGAATGCCAAATGCT
1 AAATGAATGCCAAATGCT
27357946 AAATGAATGCCAAATGCT
1 AAATGAATGCCAAATGCT
27357964 AA
1 AA
27357966 GTAATCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (18 bp):
AAATGAATGCCAAATGCT
Found at i:27358575 original size:16 final size:18
Alignment explanation
Indices: 27358545--27358578 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
27358535 CTCCCTATGG
27358545 TGAAGAGAAGAGCAAAGA
1 TGAAGAGAAGAGCAAAGA
27358563 TGAAGA-AAG-GCAAAGA
1 TGAAGAGAAGAGCAAAGA
27358579 AAGTGGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.56, C:0.06, G:0.32, T:0.06
Consensus pattern (18 bp):
TGAAGAGAAGAGCAAAGA
Found at i:27368949 original size:24 final size:24
Alignment explanation
Indices: 27368922--27368999 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 24
27368912 CTATTAATAA
27368922 ATTTAAATACAACATAATTAATCT
1 ATTTAAATACAACATAATTAATCT
* * ** **
27368946 ATTTAAACATAGTATCAA--AATAA
1 ATTTAAATACAACAT-AATTAATCT
27368969 ATTTAAATACAACATAATTAATCT
1 ATTTAAATACAACATAATTAATCT
27368993 ATTTAAA
1 ATTTAAA
27369000 CATAGCATCA
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 2 0.05
23 14 0.36
24 21 0.54
25 2 0.05
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (24 bp):
ATTTAAATACAACATAATTAATCT
Found at i:27368975 original size:47 final size:47
Alignment explanation
Indices: 27368917--27369014 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
27368907 AAATGCTATT
*
27368917 AATAAATTTAAATACAACATAATTAATCTATTTAAACATAGTATCAA
1 AATAAATTTAAATACAACATAATTAATCTATTTAAACATAGCATCAA
27368964 AATAAATTTAAATACAACATAATTAATCTATTTAAACATAGCATCAA
1 AATAAATTTAAATACAACATAATTAATCTATTTAAACATAGCATCAA
27369011 AATA
1 AATA
27369015 CAACAAAATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (47 bp):
AATAAATTTAAATACAACATAATTAATCTATTTAAACATAGCATCAA
Found at i:27374304 original size:2 final size:2
Alignment explanation
Indices: 27374299--27374397 Score: 141
Period size: 2 Copynumber: 50.0 Consensus size: 2
27374289 TATCATGTTG
27374299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
* *
27374340 NT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27374381 AT AT GAT -T AT AT GAT AT
1 AT AT -AT AT AT AT -AT AT
27374398 GTATTGATAA
Statistics
Matches: 89, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
1 3 0.03
2 82 0.92
3 4 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27374553 original size:55 final size:54
Alignment explanation
Indices: 27374477--27374586 Score: 175
Period size: 55 Copynumber: 2.0 Consensus size: 54
27374467 ATGACAGTGA
27374477 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGGTGG
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGT-GGTGG
* * * *
27374532 TGATTCCAGTTGTGTGCGGTGTGGGAGTGCACATGAGTTGATGACTGGTGGTGG
1 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGTGG
27374586 T
1 T
27374587 CTATATCCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 6 0.12
55 45 0.88
ACGTcount: A:0.15, C:0.14, G:0.42, T:0.29
Consensus pattern (54 bp):
TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGCTGATGACCGGTGGTGG
Found at i:27374570 original size:28 final size:29
Alignment explanation
Indices: 27374488--27374574 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
27374478 GATTCCAGCT
*
27374488 ATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGTGCGGTGTGGGAGTGCACATGAGTTG
** * *
27374517 ATGACCGGTG-GGTG-GTG-A-TTCCAGTTG
1 ATGTGCGGTGTGG-GAGTGCACAT-GAGTTG
27374544 -TGTGCGGTGTGGGAGTGCACATGAGTTG
1 ATGTGCGGTGTGGGAGTGCACATGAGTTG
27374572 ATG
1 ATG
27374575 ACTGGTGGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 14
0.65 0.14 0.22
Matches are distributed among these distances:
26 9 0.21
27 10 0.24
28 11 0.26
29 12 0.29
ACGTcount: A:0.16, C:0.13, G:0.44, T:0.28
Consensus pattern (29 bp):
ATGTGCGGTGTGGGAGTGCACATGAGTTG
Found at i:27374610 original size:36 final size:36
Alignment explanation
Indices: 27374561--27374631 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
27374551 TGTGGGAGTG
*
27374561 CACATGAGTTGATGACTGGTGGTGGTCTATATCCAA
1 CACATGAGCTGATGACTGGTGGTGGTCTATATCCAA
27374597 CACATGAGCTGATGACTGGTGGTGGTCTATATCCA
1 CACATGAGCTGATGACTGGTGGTGGTCTATATCCA
27374632 GCTATGTGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (36 bp):
CACATGAGCTGATGACTGGTGGTGGTCTATATCCAA
Found at i:27386134 original size:21 final size:21
Alignment explanation
Indices: 27386108--27386154 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
27386098 GACTTGTTTT
27386108 ATTATATCAACAATTAATTTC
1 ATTATATCAACAATTAATTTC
27386129 ATTATATCAACAATTAATTTC
1 ATTATATCAACAATTAATTTC
27386150 ATTAT
1 ATTAT
27386155 TCGTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTATATCAACAATTAATTTC
Found at i:27390089 original size:16 final size:17
Alignment explanation
Indices: 27390070--27390102 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
27390060 GTCGGTACTA
27390070 TATTGACAAT-ATATTC
1 TATTGACAATGATATTC
27390086 TATTGACAATGATATTC
1 TATTGACAATGATATTC
27390103 CTTTGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (17 bp):
TATTGACAATGATATTC
Found at i:27391369 original size:73 final size:73
Alignment explanation
Indices: 27391276--27391417 Score: 194
Period size: 73 Copynumber: 1.9 Consensus size: 73
27391266 AGAACCAGTC
* * * *
27391276 ACAATAATAATATCAGCATCATCAAGCCACAATCGTAAAAACCAAAGCATCAAAACAAATACACG
1 ACAATAATAATATCAACATCATCAAACCACAATCGTAAAAACCAAAGCATAAAAACAAATACACA
27391341 ATAAATAA
66 ATAAATAA
* * ** * *
27391349 ACAATAATAATATCAACATCATCAAACCATAATTGTAAAAACTGAATCATAAAAATAAATACACA
1 ACAATAATAATATCAACATCATCAAACCACAATCGTAAAAACCAAAGCATAAAAACAAATACACA
27391414 ATAA
66 ATAA
27391418 CGATCACTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.56, C:0.19, G:0.05, T:0.20
Consensus pattern (73 bp):
ACAATAATAATATCAACATCATCAAACCACAATCGTAAAAACCAAAGCATAAAAACAAATACACA
ATAAATAA
Found at i:27392339 original size:19 final size:19
Alignment explanation
Indices: 27392298--27392347 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
27392288 TCTATCCCCC
* *
27392298 AAATAAAAAA-AAATATAT
1 AAATAAAAAATAAATAAAA
*
27392316 TAATAAAAAATAAATAAAA
1 AAATAAAAAATAAATAAAA
27392335 AAATAAAATAATA
1 AAATAAAA-AATA
27392348 TGATATAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 9 0.35
19 13 0.50
20 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAATAAAAAATAAATAAAA
Found at i:27392346 original size:27 final size:28
Alignment explanation
Indices: 27392304--27392369 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
27392294 CCCCAAATAA
* *
27392304 AAAAAAATATATTAATAAAAAATAAA-T
1 AAAAAAATAAAATAATAAAAAATAAATT
** *
27392331 AAAAAAATAAAATAATATGATATAAATT
1 AAAAAAATAAAATAATAAAAAATAAATT
27392359 AAAAAAA-AAAA
1 AAAAAAATAAAA
27392370 CAGAGAAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 25 0.76
28 8 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.23
Consensus pattern (28 bp):
AAAAAAATAAAATAATAAAAAATAAATT
Found at i:27393105 original size:2 final size:2
Alignment explanation
Indices: 27393098--27393170 Score: 96
Period size: 2 Copynumber: 36.5 Consensus size: 2
27393088 TAAGGAAGAA
27393098 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
27393139 AG TG ACG TA- AG AG AG AT AG AG AG AG AG AG AG A
1 AG AG A-G -AG AG AG AG AG AG AG AG AG AG AG AG A
27393171 AATGAGAGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.03
2 59 0.94
3 1 0.02
4 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.45, T:0.04
Consensus pattern (2 bp):
AG
Found at i:27401063 original size:20 final size:20
Alignment explanation
Indices: 27401038--27401082 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
27401028 TTTCATTAGT
* * *
27401038 AATTTTGTTAGTAATTGATG
1 AATTTTGTCAATAATGGATG
27401058 AATTTTGTCAATAATGGATG
1 AATTTTGTCAATAATGGATG
27401078 AATTT
1 AATTT
27401083 CATCAGTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (20 bp):
AATTTTGTCAATAATGGATG
Found at i:27401092 original size:20 final size:20
Alignment explanation
Indices: 27401047--27401092 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
27401037 TAATTTTGTT
* **
27401047 AGTAATTGATGAATTTTGTC
1 AGTAATGGATGAATTTCATC
*
27401067 AATAATGGATGAATTTCATC
1 AGTAATGGATGAATTTCATC
27401087 AGTAAT
1 AGTAAT
27401093 AACTACAGAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (20 bp):
AGTAATGGATGAATTTCATC
Found at i:27404086 original size:21 final size:21
Alignment explanation
Indices: 27404062--27404134 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
27404052 ATTTTCTATT
*
27404062 TATTGATAGATGCAGTAAATC
1 TATTGATAGATGAAGTAAATC
27404083 TATT-AGTAGATGAAGCT--ATC
1 TATTGA-TAGATGAAG-TAAATC
*
27404103 TATTGATAGA-GAAGCATAATC
1 TATTGATAGATGAAGTA-AATC
*
27404124 TATCGATAGAT
1 TATTGATAGAT
27404135 TGGGTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 13
0.72 0.05 0.22
Matches are distributed among these distances:
19 4 0.10
20 12 0.29
21 25 0.60
22 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TATTGATAGATGAAGTAAATC
Found at i:27412206 original size:117 final size:116
Alignment explanation
Indices: 27412101--27412396 Score: 307
Period size: 117 Copynumber: 2.5 Consensus size: 116
27412091 ATTGAATGCC
* *
27412101 TAATTAATTGAAATAAT-TAA-ATAATTTTACTAAATTTATTAATTTAATTAATTGTTTAATTAC
1 TAATTAATTGAAA-AATATAACAT-ATTATACTAAA-TTATTAATTTAATTAATTGCTTAATTAC
27412164 TAATACATGATTCTTTTTAATTATTTAAATTGTGTAATTAATTCCATTAAACCT
63 TAATACATGATTCTTTTTAATTATTTAAATTGTGTAATTAATTCCATTAAACCT
* * ** * *
27412218 TAATTAATTTAAAAATACTAACATATTATATTCTATTGTTAATTTAATTAATTGCTTAATTAGTA
1 TAATTAATTGAAAAATA-TAACATATTATACTAAATTATTAATTTAATTAATTGCTTAATTACTA
* * * * * * *
27412283 ATAGATGATTCTTTTTAATTA-GTAAATTTATGTAAGTAATTCCCTCATACCT
65 ATACATGATTCTTTTTAATTATTTAAA-TTGTGTAATTAATTCCATTAAACCT
* * ** *
27412335 TAATT-ATTTAAAATAAATAA-ATATTATA-TGTTATTATTAATTTAATTAATTGTTTAATTACT
1 TAATTAATTGAAAA-ATATAACATATTATACT-AAATTATTAATTTAATTAATTGCTTAATTACT
27412397 TATAACACAT
Statistics
Matches: 153, Mismatches: 20, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
114 1 0.01
115 36 0.24
116 18 0.12
117 86 0.56
118 10 0.07
119 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (116 bp):
TAATTAATTGAAAAATATAACATATTATACTAAATTATTAATTTAATTAATTGCTTAATTACTAA
TACATGATTCTTTTTAATTATTTAAATTGTGTAATTAATTCCATTAAACCT
Found at i:27412588 original size:117 final size:117
Alignment explanation
Indices: 27412459--27412760 Score: 392
Period size: 117 Copynumber: 2.6 Consensus size: 117
27412449 AGCACCTTAA
* * *
27412459 TAATCAATTTAAATATTTTTTAAATTAGACAATATTACTAATTTAATTAATTGCTTAATAGCTAA
1 TAATTAATTTAAATATTTTTTAAATTAAACAATATTACTAATTTAATTAATTGCTTAATAACTAA
* ** *
27412524 AACATTTTTTCAATTCAAGTAG-TCCAATTATTTAATTAATTTAATGAAACCT
66 AACAGTTTTTCAATTCAAGTAGTTAAAATT-TTTAATTAATTTAATAAAACCT
* * *
27412576 TAATTAATTTAAATATTTTTAAAATTAAAAAATATTACTAATTTAATTAATTTCTTAATAACTAA
1 TAATTAATTTAAATATTTTTTAAATTAAACAATATTACTAATTTAATTAATTGCTTAATAACTAA
* *
27412641 AATAGTTTTTCAATTCAAGTAGTTAAAATTTTTAATTAATTTAATAAAATCT
66 AACAGTTTTTCAATTCAAGTAGTTAAAATTTTTAATTAATTTAATAAAACCT
* * ** * *
27412693 TAATTAATTTAAATATTTCTTCAATTTTACTAAT-TTAACTAATTTAACTAATTGCTTATTTAAC
1 TAATTAATTTAAATATTTTTTAAATTAAAC-AATATT-ACTAATTTAATTAATTGCTTA-ATAAC
27412757 TAAA
63 TAAA
27412761 TTATTTAGTT
Statistics
Matches: 160, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
117 125 0.78
118 27 0.17
119 8 0.05
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (117 bp):
TAATTAATTTAAATATTTTTTAAATTAAACAATATTACTAATTTAATTAATTGCTTAATAACTAA
AACAGTTTTTCAATTCAAGTAGTTAAAATTTTTAATTAATTTAATAAAACCT
Found at i:27412594 original size:63 final size:61
Alignment explanation
Indices: 27412527--27412718 Score: 159
Period size: 63 Copynumber: 3.2 Consensus size: 61
27412517 TAGCTAAAAC
* *
27412527 ATTTTTTCAATTCAAGTAGTCCAATTATTTAATTAATTTAATGAAACCTTAATTAATTTAAAT
1 ATTTTTTCAATTCAAGTAGT--AATTATTTAATTAATTTAATAAAATCTTAATTAATTTAAAT
** * * ** * *
27412590 ATTTTTAAAATT-AA--A--AAATA-TT-ACTAATTTAATTAATTTCTTAA-TAACTAAAAT
1 ATTTTTTCAATTCAAGTAGTAATTATTTAATTAATTTAA-TAAAATCTTAATTAATTTAAAT
*
27412644 AGTTTTTCAATTCAAGTAGTTAAAATT-TTTAATTAATTTAATAAAATCTTAATTAATTTAAAT
1 ATTTTTTCAATTCAAGTAG-T--AATTATTTAATTAATTTAATAAAATCTTAATTAATTTAAAT
*
27412707 ATTTCTTCAATT
1 ATTTTTTCAATT
27412719 TTACTAATTT
Statistics
Matches: 96, Mismatches: 21, Indels: 24
0.68 0.15 0.17
Matches are distributed among these distances:
54 26 0.27
55 11 0.11
56 4 0.04
57 1 0.01
60 1 0.01
62 16 0.17
63 37 0.39
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (61 bp):
ATTTTTTCAATTCAAGTAGTAATTATTTAATTAATTTAATAAAATCTTAATTAATTTAAAT
Found at i:27412713 original size:20 final size:20
Alignment explanation
Indices: 27412663--27412718 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
27412653 ATTCAAGTAG
27412663 TTAAA-ATTT-TTAATTAAT
1 TTAAATATTTCTTAATTAAT
**
27412681 TT-AATAAAATCTTAATTAAT
1 TTAAAT-ATTTCTTAATTAAT
27412701 TTAAATATTTCTTCAATT
1 TTAAATATTTCTT-AATT
27412719 TTACTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 2 0.07
20 16 0.55
21 7 0.24
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAATATTTCTTAATTAAT
Found at i:27412729 original size:8 final size:9
Alignment explanation
Indices: 27412715--27412745 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27412705 ATATTTCTTC
*
27412715 AATTTTACT
1 AATTTAACT
27412724 AATTTAACT
1 AATTTAACT
27412733 AATTTAACT
1 AATTTAACT
27412742 AATT
1 AATT
27412746 GCTTATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (9 bp):
AATTTAACT
Found at i:27413022 original size:22 final size:22
Alignment explanation
Indices: 27412997--27413044 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
27412987 AAGCACATAC
*
27412997 AATACCAACAAATTACACACAT
1 AATACCAACAAATTACACACAA
* *
27413019 AATACTAACAAATTACATACAA
1 AATACCAACAAATTACACACAA
27413041 AATA
1 AATA
27413045 TCAATTGCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (22 bp):
AATACCAACAAATTACACACAA
Found at i:27421644 original size:20 final size:20
Alignment explanation
Indices: 27421619--27421664 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
27421609 TTTTGACCCC
*
27421619 ATTTGATTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
27421639 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
27421659 ATTTGA
1 ATTTGA
27421665 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.02, G:0.22, T:0.48
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:27426634 original size:15 final size:16
Alignment explanation
Indices: 27426614--27426654 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
27426604 TAGAGATTTT
27426614 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
27426629 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
27426645 G-TTTTAAAGT
1 GATTTTAAAGT
27426655 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:27426655 original size:15 final size:15
Alignment explanation
Indices: 27426610--27426655 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
27426600 AGATTAGAGA
*
27426610 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
27426624 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
27426640 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
27426655 T
1 T
27426656 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:27426715 original size:14 final size:15
Alignment explanation
Indices: 27426690--27426722 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
27426680 TGCGTGGCCC
27426690 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
27426705 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
27426719 AAGT
1 AAGT
27426723 CAGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Done.