Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 19 of 203
Found at i:6074302 original size:25 final size:25
Alignment explanation
Indices: 6074205--6074461 Score: 110
Period size: 25 Copynumber: 10.9 Consensus size: 25
6074195 TGATATATAT
* *
6074205 TTATGTATTAGGTAAATTATG-AAA
1 TTATGTATTATGTAAGTTATGTAAA
* * *
6074229 GTTCTGTATTATATAAGTTATGTAAG
1 -TTATGTATTATGTAAGTTATGTAAA
* *
6074255 TTATGTATTCTGTAAGCTATGTAAA
1 TTATGTATTATGTAAGTTATGTAAA
* * *
6074280 TTGTGTATTATGTTAGTTGTGT--A
1 TTATGTATTATGTAAGTTATGTAAA
* **
6074303 CTATGTAAGTTATGT-A-TTATGTATG
1 TTATGT-A-TTATGTAAGTTATGTAAA
* *
6074328 TTATGTA-TA-AT-A-TTAAT-TAAG
1 TTATGTATTATGTAAGTT-ATGTAAA
* *
6074349 TTGTGTATTATGTAAGTTGTGT--A
1 TTATGTATTATGTAAGTTATGTAAA
*
6074372 TTATGTAATTTATGTAAGCTATGT--A
1 TTATGT-A-TTATGTAAGTTATGTAAA
6074397 TTATGTATTATGT-A-TTATGTATAA
1 TTATGTATTATGTAAGTTATGTA-AA
*
6074421 TT-T-TA--AT-TAAGTTGTGT--A
1 TTATGTATTATGTAAGTTATGTAAA
*
6074439 TTATGTATTATGTATGTTATGTA
1 TTATGTATTATGTAAGTTATGTA
6074462 CTATGTTAGT
Statistics
Matches: 175, Mismatches: 33, Indels: 49
0.68 0.13 0.19
Matches are distributed among these distances:
18 3 0.02
19 2 0.01
20 5 0.03
21 23 0.13
22 11 0.06
23 31 0.18
24 10 0.06
25 88 0.50
26 2 0.01
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.50
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAA
Found at i:6074376 original size:44 final size:42
Alignment explanation
Indices: 6074312--6074453 Score: 175
Period size: 42 Copynumber: 3.4 Consensus size: 42
6074302 ACTATGTAAG
6074312 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTATTATGTA--TTATGTATAATATTAATTAAGTTGTGTA
* * *
6074356 TTATGTAAGTTGTGTATTATG--TAAT-TT-ATGTAAGCTATGTA
1 TTATGT-A-TTATGTATTATGTATAATATTAAT-TAAGTTGTGTA
*
6074397 TTATGTATTATGTATTATGTATAATTTTAATTAAGTTGTGTA
1 TTATGTATTATGTATTATGTATAATATTAATTAAGTTGTGTA
6074439 TTATGTATTATGTAT
1 TTATGTATTATGTAT
6074454 GTTATGTACT
Statistics
Matches: 85, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
39 11 0.13
40 3 0.04
41 21 0.25
42 30 0.35
43 2 0.02
44 11 0.13
45 1 0.01
46 6 0.07
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (42 bp):
TTATGTATTATGTATTATGTATAATATTAATTAAGTTGTGTA
Found at i:6074378 original size:7 final size:7
Alignment explanation
Indices: 6074352--6074529 Score: 80
Period size: 7 Copynumber: 23.7 Consensus size: 7
6074342 AATTAAGTTG
6074352 TGTATTA
1 TGTATTA
*
6074359 TGTAAGTTG
1 TGT-A-TTA
6074368 TGTATTA
1 TGTATTA
6074375 TGTAATTTA
1 TGT-A-TTA
*
6074384 TGTAAGCTA
1 TGT-A-TTA
6074393 TGTATTA
1 TGTATTA
6074400 TGTATTA
1 TGTATTA
6074407 TGTATTA
1 TGTATTA
*
6074414 TGTATAA
1 TGTATTA
6074421 T-T-TTAA
1 TGTATT-A
*
6074427 T-TAAGTTG
1 TGT-A-TTA
6074435 TGTATTA
1 TGTATTA
6074442 TGTATTA
1 TGTATTA
6074449 TGTATGTTA
1 TGTA--TTA
*
6074458 TGTACTA
1 TGTATTA
6074465 TGTTAGTTA
1 TG-TA-TTA
*
6074474 TGTACTA
1 TGTATTA
6074481 TGTAAGTTA
1 TGT-A-TTA
6074490 TGTA-TA
1 TGTATTA
*
6074496 -ATATTAA
1 TGTATT-A
*
6074503 T-TAAGTTG
1 TGT-A-TTA
6074511 TGTATTA
1 TGTATTA
6074518 TGTATTA
1 TGTATTA
6074525 TGTAT
1 TGTAT
6074530 GTTATGTATA
Statistics
Matches: 134, Mismatches: 16, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
5 3 0.02
6 7 0.05
7 69 0.51
8 15 0.11
9 40 0.30
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.52
Consensus pattern (7 bp):
TGTATTA
Found at i:6074387 original size:16 final size:16
Alignment explanation
Indices: 6074220--6074680 Score: 164
Period size: 16 Copynumber: 28.9 Consensus size: 16
6074210 TATTAGGTAA
* *
6074220 ATTATGAAAGTTCTGT
1 ATTATGTAAGTTATGT
*
6074236 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
*
6074252 AAGTTATGT-A-TTCTGT
1 -A-TTATGTAAGTTATGT
* * *
6074268 AAGCTATGTAAATTGTGT
1 -A-TTATGTAAGTTATGT
* *
6074286 ATTATGTTAGTTGTGT
1 ATTATGTAAGTTATGT
*
6074302 ACTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
6074318 ATTATGTATGTTATGT
1 ATTATGTAAGTTATGT
* *
6074334 ATAATATTAATTAAGTTGTGT
1 AT--TA-T--GTAAGTTATGT
*
6074355 ATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
6074371 ATTATGTAATTTATGT
1 ATTATGTAAGTTATGT
*
6074387 AAGCTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
6074403 ATTATGT-A-TTATGT
1 ATTATGTAAGTTATGT
* * *
6074417 ATAATTTTAA-TTAAG-
1 ATTA-TGTAAGTTATGT
*
6074432 -TTGTGT-A-TTATGT
1 ATTATGTAAGTTATGT
*
6074445 ATTATGTATGTTATGT
1 ATTATGTAAGTTATGT
* *
6074461 ACTATGTTAGTTATGT
1 ATTATGTAAGTTATGT
*
6074477 ACTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
6074493 ATAATAT-TAA-TTAAG-
1 AT--TATGTAAGTTATGT
*
6074508 -TTGTGT-A-TTATGT
1 ATTATGTAAGTTATGT
*
6074521 ATTATGTATGTTATGT
1 ATTATGTAAGTTATGT
* *
6074537 ATAATATTAATTAAGTTGTGT
1 AT--TA-T--GTAAGTTATGT
* *
6074558 ATAATGTAAGTTATGC
1 ATTATGTAAGTTATGT
6074574 A--A-G-AA---ATGT
1 ATTATGTAAGTTATGT
*
6074583 ATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
* * *
6074599 ATAATGTTAGTTATCGA
1 ATTATGTAAGTTAT-GT
6074616 AGTTATGT-A-TTATGT
1 A-TTATGTAAGTTATGT
*
6074631 AAGTTATTTAAGTTATGT
1 -A-TTATGTAAGTTATGT
*
6074649 AAGTTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
* *
6074667 ATAATGTTAGTTAT
1 ATTATGTAAGTTAT
6074681 CAAAGTTATG
Statistics
Matches: 341, Mismatches: 63, Indels: 82
0.70 0.13 0.17
Matches are distributed among these distances:
9 4 0.01
11 1 0.00
12 15 0.04
13 6 0.02
14 28 0.08
15 4 0.01
16 193 0.57
17 14 0.04
18 51 0.15
19 5 0.01
21 20 0.06
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:6074527 original size:44 final size:44
Alignment explanation
Indices: 6074471--6074565 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
6074461 ACTATGTTAG
6074471 TTATGTACTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTACTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
* *
6074515 TTATGTATTATGTATGTTATGTATAATATTAATTAAGTTGTGTA
1 TTATGTACTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
*
6074559 TAATGTA
1 TTATGTA
6074566 AGTTATGCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (44 bp):
TTATGTACTATGTAAGTTATGTATAATATTAATTAAGTTGTGTA
Found at i:6074558 original size:21 final size:21
Alignment explanation
Indices: 6074483--6074562 Score: 90
Period size: 21 Copynumber: 3.7 Consensus size: 21
6074473 ATGTACTATG
6074483 TAAGTTATGTATAATATTAAT
1 TAAGTTATGTATAATATTAAT
* *
6074504 TAAGTTGTGTATTATGTATT-AT
1 TAAGTTATGTA-TA-ATATTAAT
*
6074526 GTATGTTATGTATAATATTAAT
1 -TAAGTTATGTATAATATTAAT
*
6074548 TAAGTTGTGTATAAT
1 TAAGTTATGTATAAT
6074563 GTAAGTTATG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 27 0.56
22 8 0.17
23 13 0.27
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (21 bp):
TAAGTTATGTATAATATTAAT
Found at i:6074598 original size:41 final size:41
Alignment explanation
Indices: 6074548--6074635 Score: 133
Period size: 41 Copynumber: 2.1 Consensus size: 41
6074538 TAATATTAAT
6074548 TAAGTTGTGTATAATGTAAGTTAT-GCAAGAAATGTATTATG
1 TAAGTTGTGTATAATGTAAGTTATCG-AAGAAATGTATTATG
* **
6074589 TAAGTTGTGTATAATGTTAGTTATCGAAGTTATGTATTATG
1 TAAGTTGTGTATAATGTAAGTTATCGAAGAAATGTATTATG
6074630 TAAGTT
1 TAAGTT
6074636 ATTTAAGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (41 bp):
TAAGTTGTGTATAATGTAAGTTATCGAAGAAATGTATTATG
Found at i:6074612 original size:25 final size:25
Alignment explanation
Indices: 6074584--6074667 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
6074574 AAGAAATGTA
* *
6074584 TTATGTAAGTTGTGTATAATGTTAG
1 TTATGTAAGTTATGTATAATGTAAG
*
6074609 TTATCG-AAGTTATGTATTATGTAAG
1 TTAT-GTAAGTTATGTATAATGTAAG
* *
6074634 TTATTTAAGTTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGT-A-TAATGTAAG
*
6074661 TTGTGTA
1 TTATGTA
6074668 TAATGTTAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
25 33 0.67
26 2 0.04
27 14 0.29
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTATAATGTAAG
Found at i:6074645 original size:34 final size:35
Alignment explanation
Indices: 6074607--6074741 Score: 122
Period size: 34 Copynumber: 3.9 Consensus size: 35
6074597 GTATAATGTT
6074607 AGTTATCG-AAGTTATGT-ATTATGTAAGTTATTTA
1 AGTTAT-GTAAGTTATGTGATTATGTAAGTTATTTA
* * *
6074641 AGTTATGTAAGTTATGTAAGTTGTGT-A-TAATGTT-
1 AGTTATGTAAGTTATGTGA-TTATGTAAGTTAT-TTA
** * *
6074675 AGTTATCAAAGTTATG-CACTATGTAAGTTATTTA
1 AGTTATGTAAGTTATGTGATTATGTAAGTTATTTA
6074709 AGTTATGTAAGTT-TGTGGATTATGTAAGTTATT
1 AGTTATGTAAGTTATGT-GATTATGTAAGTTATT
6074742 ATGTTATTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
32 4 0.05
33 7 0.09
34 46 0.57
35 18 0.22
36 5 0.06
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (35 bp):
AGTTATGTAAGTTATGTGATTATGTAAGTTATTTA
Found at i:6074673 original size:25 final size:25
Alignment explanation
Indices: 6074644--6074717 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
6074634 TTATTTAAGT
* *
6074644 TATGTAAGTTATGTAAGTTGTGTA-
1 TATGTAAGTTATCTAAGTTATGTAC
* * *
6074668 TAATGTTAGTTATCAAAGTTATGCAC
1 T-ATGTAAGTTATCTAAGTTATGTAC
*
6074694 TATGTAAGTTATTTAAGTTATGTA
1 TATGTAAGTTATCTAAGTTATGTA
6074718 AGTTTGTGGA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATCTAAGTTATGTAC
Found at i:6074677 original size:68 final size:68
Alignment explanation
Indices: 6074549--6074721 Score: 251
Period size: 68 Copynumber: 2.6 Consensus size: 68
6074539 AATATTAATT
* * ** **
6074549 AAGTTGTGTATAATGTAAGTTATGCAAGAAATGT-A-TTATGTAAGTTGTGTATAATGTTAGTTA
1 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTGTGTATAATGTTAGTTA
*
6074612 TCG
66 TCA
6074615 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTGTGTATAATGTTAGTTA
1 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTGTGTATAATGTTAGTTA
6074680 TCA
66 TCA
* *
6074683 AAGTTATGCACTATGTAAGTTATTTAAGTTATGTAAGTT
1 AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTT
6074722 TGTGGATTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
66 28 0.29
67 1 0.01
68 67 0.70
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (68 bp):
AAGTTATGTATTATGTAAGTTATTTAAGTTATGTAAGTTATGTAAGTTGTGTATAATGTTAGTTA
TCA
Found at i:6074771 original size:20 final size:20
Alignment explanation
Indices: 6074727--6074771 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
6074717 AAGTTTGTGG
* *
6074727 ATTATGTAAGTTATTATGTT
1 ATTATGTAAGTTATCAAGTT
6074747 ATTATGTAAGTTATGCAAGTT
1 ATTATGTAAGTTAT-CAAGTT
6074768 -TTAT
1 ATTAT
6074772 TTATTACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (20 bp):
ATTATGTAAGTTATCAAGTT
Found at i:6075371 original size:18 final size:18
Alignment explanation
Indices: 6075315--6075436 Score: 123
Period size: 18 Copynumber: 6.9 Consensus size: 18
6075305 AGCTAATTTT
6075315 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
* *
6075333 TATAT-A-T-ATATAA-A
1 TATTTAAGTAATGTAATA
6075347 T-TTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
6075364 TATTTAAGTAATGTAAGTTA
1 TATTTAAGTAATGTAA--TA
*
6075384 TAAATTTTAGTAA-GTAATA
1 T--ATTTAAGTAATGTAATA
6075403 TATTTAAGTAATGTAATA
1 TATTTAAGTAATGTAATA
*
6075421 TATTTTAGTAA-GTAAT
1 TATTTAAGTAATGTAAT
6075437 GTAAGTAATG
Statistics
Matches: 87, Mismatches: 7, Indels: 21
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.02
14 3 0.03
15 6 0.07
16 6 0.07
17 17 0.20
18 34 0.39
19 3 0.03
20 3 0.03
21 4 0.05
22 9 0.10
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
TATTTAAGTAATGTAATA
Found at i:6075407 original size:39 final size:37
Alignment explanation
Indices: 6075340--6075483 Score: 150
Period size: 39 Copynumber: 3.8 Consensus size: 37
6075330 ATATATATAT
6075340 ATATAAATTTTAAGTAATGTAATATATTTAAGTAATGTA
1 ATATAAATTTT-AGTAA-GTAATATATTTAAGTAATGTA
6075379 AGTTATAAATTTTAGTAAGTAATATATTTAAGTAATGTA
1 A--TATAAATTTTAGTAAGTAATATATTTAAGTAATGTA
* ** *
6075418 ATAT--ATTTTAGTAAGTAATGTAAGTAATGTAATAT-
1 ATATAAATTTTAGTAAGTAATATATTTAA-GTAATGTA
* *
6075453 ATACTTAAATTTTAGTAAGTCATGTATTTAA
1 ATA--TAAATTTTAGTAAGTAATATATTTAA
6075484 CATTCTGTTA
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
35 23 0.25
36 6 0.07
37 4 0.04
39 43 0.47
40 5 0.05
41 10 0.11
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (37 bp):
ATATAAATTTTAGTAAGTAATATATTTAAGTAATGTA
Found at i:6076545 original size:55 final size:55
Alignment explanation
Indices: 6076477--6076583 Score: 205
Period size: 55 Copynumber: 1.9 Consensus size: 55
6076467 CAAAAATTCC
6076477 CAAATTCCAAAACAAACTTGTACAAGCTTGGTGATTGAACTTGGACTCTAAACCT
1 CAAATTCCAAAACAAACTTGTACAAGCTTGGTGATTGAACTTGGACTCTAAACCT
*
6076532 CAAATTCCCAAACAAACTTGTACAAGCTTGGTGATTGAACTTGGACTCTAAA
1 CAAATTCCAAAACAAACTTGTACAAGCTTGGTGATTGAACTTGGACTCTAAA
6076584 TCAAGATACA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (55 bp):
CAAATTCCAAAACAAACTTGTACAAGCTTGGTGATTGAACTTGGACTCTAAACCT
Found at i:6077583 original size:19 final size:19
Alignment explanation
Indices: 6077559--6077599 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
6077549 AACGGCGCCG
6077559 TTTTGTAAATTTTAGTTTT
1 TTTTGTAAATTTTAGTTTT
* * *
6077578 TTTTGTCATTTTTTGTTTT
1 TTTTGTAAATTTTAGTTTT
6077597 TTT
1 TTT
6077600 ATTTCATTTC
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:0.12, C:0.02, G:0.10, T:0.76
Consensus pattern (19 bp):
TTTTGTAAATTTTAGTTTT
Found at i:6078293 original size:16 final size:16
Alignment explanation
Indices: 6078272--6078302 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6078262 TAAACCCTAA
6078272 CCCCTTACCCCTAAAT
1 CCCCTTACCCCTAAAT
6078288 CCCCTTACCCCTAAA
1 CCCCTTACCCCTAAA
6078303 GTATAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.23
Consensus pattern (16 bp):
CCCCTTACCCCTAAAT
Found at i:6078318 original size:21 final size:20
Alignment explanation
Indices: 6078289--6078344 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
6078279 CCCCTAAATC
* *
6078289 CCCTTACCCCTAAAGTATAAA
1 CCCTAACCCCTAAAGCAT-AA
*
6078310 CCCTAACCCTTAAAGCATAA
1 CCCTAACCCCTAAAGCATAA
6078330 CACCTAACCCCTAAA
1 C-CCTAACCCCTAAA
6078345 CCTTAAATCC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.39, C:0.38, G:0.04, T:0.20
Consensus pattern (20 bp):
CCCTAACCCCTAAAGCATAA
Found at i:6078714 original size:73 final size:73
Alignment explanation
Indices: 6078591--6078773 Score: 226
Period size: 73 Copynumber: 2.5 Consensus size: 73
6078581 AATCCTTGAG
* *
6078591 CATTACCGGCGCTTTC-CGAAAAACGCCGCTAAATCCCCGAAAGCTAAGAAAACGGCATCGTTGG
1 CATTAGCGGCGCTTTCTC-AGAAACGCCGCTAAATCCCCGAAAGCTAAGAAAACGGCATCGTTGG
6078655 GCTTAGGTT
65 GCTTAGGTT
* * * * * *
6078664 CATTAGCGGCG-TTTTTTAGAAACGCCACTAAATCCCGGAAAAGCTCAGAAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCCG-AAAGCTAAGAAAACGGCATCGTTGG
6078728 GCTTAGGTT
65 GCTTAGGTT
** * *
6078737 TTTTTGCGGCGCTTTCTCCGAAACGCCGCTAAATCCC
1 CATTAGCGGCGCTTTCTCAGAAACGCCGCTAAATCCC
6078774 TGAGCATTTG
Statistics
Matches: 92, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
72 21 0.23
73 50 0.54
74 21 0.23
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (73 bp):
CATTAGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCCGAAAGCTAAGAAAACGGCATCGTTGGG
CTTAGGTT
Found at i:6079013 original size:41 final size:41
Alignment explanation
Indices: 6078968--6079046 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
6078958 CTTATGTTTT
* *
6078968 TTTGCGGCGCTTTCTCAGAAACGTCGCTAAATCCCTGAGCA
1 TTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCA
*
6079009 TTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGA
1 TTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGA
6079047 AAGCTCAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (41 bp):
TTTGCGGCGCTTTCTCAAAAACGCCGCTAAATCCCTGAGCA
Found at i:6079030 original size:114 final size:114
Alignment explanation
Indices: 6078664--6079454 Score: 962
Period size: 114 Copynumber: 6.9 Consensus size: 114
6078654 GGCTTAGGTT
* * * *
6078664 CATTAGCGGCG-TTTTTTAGAAACGCCACTAAATCCCGGAAAAGCTCAGAAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCG-AAAGCTCAGAAAACGGCGTCGTTGG
*
6078728 GCTTAGGTTTTTTTGCGGCGCTTTCTCCGAAACGCCGCTAAATCCCTGAG
65 GCTTAGGTTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCTGAG
* * * *
6078778 CATTTGCGGCGCTTTCTTAAAAACGCCGCAAAATCCCCGAAAGCTCAGAAAATGGCATCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* * *
6078843 CTAAGGTTTTTTTTGCGGCGCTTTCTCA-AAAGCGCCGCGAAATCCCTAAG
66 CTTAGG-TTTTTTTGCGGCGCTTTCTCAGAAA-CGCCGCTAAATCCCTGAG
* *** * *
6078893 CATTAGCGGAGCTTTCCCGAAAACGCCGCTAAATCCCCGAAAGCTCGGTAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* *
6078958 CTTATGTTTTTTTGCGGCGCTTTCTCAGAAACGTCGCTAAATCCCTGAG
66 CTTAGGTTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCTGAG
* *
6079007 CATTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* * *
6079072 CTAAGGTTTTTTTGCGGTGCTTTCTCA-AAAGCGCCGCGAAATCCCTGAG
66 CTTAGGTTTTTTTGCGGCGCTTTCTCAGAAA-CGCCGCTAAATCCCTGAG
* *** * * * * * *
6079121 CACTAGCGGCGCTTTCCCGAAAACGCTGCTAAATCCCCAAAATCTCGGTAAACGACGTCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* * * *
6079186 CTTAGG-TTTTTTGCAGCGCTTTCT-GGTAAACGCCGCTAAAGCCCTAAG
66 CTTAGGTTTTTTTGCGGCGCTTTCTCAG-AAACGCCGCTAAATCCCTGAG
* * * * * *
6079234 CATTAGCGGCGATTACTTAAAAACTCCACTAAATCCCCGAAAGCTTAGAAAACGGCGTCATTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* * * *
6079299 CTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAG
66 CTTAGGTTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCTGAG
* * * * * * *
6079348 CATTAGCGGCGCTTACCTAAAACCGTCACTAAATCCCCGAAAGCTCAGAAAGCAGCGTCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* * * *
6079413 CTTAGGTTTTTTTGTGGCGCGTTCTCAAAAATGCCGCTAAAT
66 CTTAGGTTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAAT
6079455 TTCTGAAAGC
Statistics
Matches: 572, Mismatches: 96, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
113 89 0.16
114 363 0.63
115 120 0.21
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (114 bp):
CATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
CTTAGGTTTTTTTGCGGCGCTTTCTCAGAAACGCCGCTAAATCCCTGAG
Found at i:6079347 original size:227 final size:227
Alignment explanation
Indices: 6078691--6079454 Score: 1007
Period size: 227 Copynumber: 3.3 Consensus size: 227
6078681 AGAAACGCCA
* * * * *
6078691 CTAAATCCCGGAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCC
1 CTAAATCCCCG-AAAGCTCGGTAAACGACGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTCA
*
6078756 GAAACGCCGCTAAATCCCTGAGCATTTGCGGCGCTTTCTTAAAAACGCCGCAAAATCCCCGAAAG
64 GAAACGCCGCTAAATCCCTGAGCATTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAG
* *
6078821 CTCAGAAAATGGCATCGTTGGGCTAAGGTTTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCGAAAT
129 CTCAGAAAACGGCGTCGTTGGGCTAAGG-TTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCGAAAT
* * *
6078886 CCCTAAGCATTAGCGGAGCTTTCCCGAAAACGCCG
193 CCCTGAGCATTAGCGGCGCTTTCCCGAAAACGCTG
* *
6078921 CTAAATCCCCGAAAGCTCGGTAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTCTCAG
1 CTAAATCCCCGAAAGCTCGGTAAACGACGTCGTTGGGCTTA-GGTTTTTTGCGGCGCTTTCTCAG
* *
6078986 AAACGTCGCTAAATCCCTGAGCATTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGC
65 AAACGCCGCTAAATCCCTGAGCATTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGC
*
6079051 TCAGAAAACGGCGTCGTTGGGCTAAGGTTTTTTTGCGGTGCTTTCTCAAAAGCGCCGCGAAATCC
130 TCAGAAAACGGCGTCGTTGGGCTAAGGTTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCGAAATCC
*
6079116 CTGAGCACTAGCGGCGCTTTCCCGAAAACGCTG
195 CTGAGCATTAGCGGCGCTTTCCCGAAAACGCTG
* * * *
6079149 CTAAATCCCCAAAATCTCGGTAAACGACGTCGTTGGGCTTAGGTTTTTTGCAGCGCTTTCT-GGT
1 CTAAATCCCCGAAAGCTCGGTAAACGACGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAG-
* * * * * * *
6079213 AAACGCCGCTAAAGCCCTAAGCATTAGCGGCGATTACTTAAAAACTCCACTAAATCCCCGAAAGC
65 AAACGCCGCTAAATCCCTGAGCATTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGC
* * * * * * * *
6079278 TTAGAAAACGGCGTCATTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGCC
130 TCAGAAAACGGCGTCGTTGGGCTAAGGTTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCGAAATCC
* * *
6079343 CTGAGCATTAGCGGCGC-TTACCTAAAAC-CGTCA
195 CTGAGCATTAGCGGCGCTTTCCCGAAAACGC-T-G
* * *
6079376 CTAAATCCCCGAAAGCTCAG-AAA-GCAGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCGTTCTC
1 CTAAATCCCCGAAAGCTCGGTAAACG-A-CGTCGTTGGGCTTAGG-TTTTTTGCGGCGCTTTCTC
* *
6079439 AAAAATGCCGCTAAAT
63 AGAAACGCCGCTAAAT
6079455 TTCTGAAAGC
Statistics
Matches: 473, Mismatches: 53, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
225 2 0.00
226 15 0.03
227 179 0.38
228 131 0.28
229 135 0.29
230 11 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (227 bp):
CTAAATCCCCGAAAGCTCGGTAAACGACGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCTCAGA
AACGCCGCTAAATCCCTGAGCATTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCT
CAGAAAACGGCGTCGTTGGGCTAAGGTTTTTTTGCGGCGCTTTCTCAAAAGCGCCGCGAAATCCC
TGAGCATTAGCGGCGCTTTCCCGAAAACGCTG
Found at i:6079359 original size:341 final size:341
Alignment explanation
Indices: 6078664--6079442 Score: 988
Period size: 341 Copynumber: 2.3 Consensus size: 341
6078654 GGCTTAGGTT
* * *
6078664 CATTAGCGGCG-TTTTTTAGAAACGCCACTAAATCCCGGAAAAGCTCAGAAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCACTAAATCCCCG-AAAGCTCAGAAAACGGCGTCGTTGG
* * * *
6078728 GCTTAGGTTTTTTTGCGGCGCTTTCTCCGAAACGCCGCTAAATCCCTGAGCATTTGCGGCGCTTT
65 GCTTAGGTTTTTTTGCGGCGCTTTCT-CAAAACGCCGCGAAATCCCTGAGCACTAGCGGCGCTTT
** * * *
6078793 CTTAAAAACGCCGCAAAATCCCCGAAAGCTCAGAAAATGGCATCGTTGGGCTAAGGTTTTTTTTG
129 CCCAAAAACGCCGCAAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGCTAAGG-TTTTTTTG
* * * * * *
6078858 CGGCGCTTTCTCAAAAGCGCCGCGAAATCCCTAAGCATTAGCGGAGCTTTCCCGAAAACGCCGCT
193 CAGCGCTTTCTCAAAAGCGCCGCGAAAGCCCTAAGCATTAGCGGAGATTACCCAAAAACGCCACT
* * * * * * *
6078923 AAATCCCCGAAAGCTCGGTAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTCTCAGAA
258 AAATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAA
* *
6078988 ACGTCGCTAAATCCCTGAG
323 ACGCCGCTAAAGCCCTGAG
* * *
6079007 CATTTGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAACGGCGTCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* *
6079072 CTAAGGTTTTTTTGCGGTGCTTTCTCAAAAGCGCCGCGAAATCCCTGAGCACTAGCGGCGCTTTC
66 CTTAGGTTTTTTTGCGGCGCTTTCTCAAAA-CGCCGCGAAATCCCTGAGCACTAGCGGCGCTTTC
* * * * * * * *
6079137 CCGAAAACGCTGCTAAATCCCCAAAATCTCGGTAAACGACGTCGTTGGGCTTAGG-TTTTTTGCA
130 CCAAAAACGCCGCAAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGCTAAGGTTTTTTTGCA
** * * ** *
6079201 GCGCTTTCTGGTAAA-CGCCGCTAAAGCCCTAAGCATTAGCGGCGATTACTTAAAAACTCCACTA
195 GCGCTTTCT-CAAAAGCGCCGCGAAAGCCCTAAGCATTAGCGGAGATTACCCAAAAACGCCACTA
*
6079265 AATCCCCGAAAGCTTAGAAAACGGCGTCATTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAA
259 AATCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAA
6079330 CGCCGCTAAAGCCCTGAG
324 CGCCGCTAAAGCCCTGAG
* * * * * *
6079348 CATTAGCGGCGCTTACCTAAAACCGTCACTAAATCCCCGAAAGCTCAGAAAGCAGCGTCGTTGGG
1 CATTAGCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
* *
6079413 CTTAGGTTTTTTTGTGGCGCGTTCTCAAAA
66 CTTAGGTTTTTTTGCGGCGCTTTCTCAAAA
6079443 ATGCCGCTAA
Statistics
Matches: 373, Mismatches: 60, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
341 211 0.57
342 7 0.02
343 132 0.35
344 23 0.06
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (341 bp):
CATTAGCGGCGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGG
CTTAGGTTTTTTTGCGGCGCTTTCTCAAAACGCCGCGAAATCCCTGAGCACTAGCGGCGCTTTCC
CAAAAACGCCGCAAAATCCCCAAAAGCTCAGAAAACGACATCGTTGGGCTAAGGTTTTTTTGCAG
CGCTTTCTCAAAAGCGCCGCGAAAGCCCTAAGCATTAGCGGAGATTACCCAAAAACGCCACTAAA
TCCCCGAAAGCTCAGAAAACGGCGTCATTGGGCTTAGGTATTTTTGCGGCGCTTTCCCAAAAACG
CCGCTAAAGCCCTGAG
Found at i:6079482 original size:73 final size:72
Alignment explanation
Indices: 6079386--6079524 Score: 179
Period size: 73 Copynumber: 1.9 Consensus size: 72
6079376 CTAAATCCCC
* * * *
6079386 GAAAGCTCAGAAAGCAGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGCGTTCTCAAAAATGCCGCT
1 GAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGG-TATTTTGCGGCGCGTTCTCAAAAACGCCGCT
6079451 AAATTTCT
65 AAATTTCT
* * * * **
6079459 GAAAGCTCGGAAAACGGTGTCGTTGGGCTTAGGTATTTTGCGGCGCTTTCTGGAAAACGCCGCTA
1 GAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTATTTTGCGGCGCGTTCTCAAAAACGCCGCTA
6079524 A
66 A
6079525 TGCTTATTTT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
72 27 0.48
73 29 0.52
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (72 bp):
GAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTATTTTGCGGCGCGTTCTCAAAAACGCCGCTA
AATTTCT
Found at i:6084289 original size:19 final size:19
Alignment explanation
Indices: 6084250--6084315 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
6084240 ATTACAAAAT
6084250 AATTCAAAATAAATTT-T-AA
1 AATTCAAAAT--ATTTATAAA
6084269 AATTCAAAATATTTATAAA
1 AATTCAAAATATTTATAAA
* *
6084288 AATTTTAAAATA-TTACAAA
1 AA-TTCAAAATATTTATAAA
*
6084307 AATTTAAAA
1 AATTCAAAA
6084316 AATCTAAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.10
18 8 0.19
19 22 0.52
20 8 0.19
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTCAAAATATTTATAAA
Found at i:6084316 original size:9 final size:9
Alignment explanation
Indices: 6084267--6084335 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
6084257 AATAAATTTT
*
6084267 AAAATTCAA
1 AAAATTTAA
*
6084276 AATATTTATA
1 AAAATTTA-A
*
6084286 AAAATTT-T
1 AAAATTTAA
6084294 AAAATATTACA
1 AAAAT-TTA-A
6084305 AAAATTTAA
1 AAAATTTAA
*
6084314 AAAATCTAA
1 AAAATTTAA
* *
6084323 AGAATATAA
1 AAAATTTAA
6084332 AAAA
1 AAAA
6084336 GAATCTAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
8 5 0.11
9 27 0.57
10 10 0.21
11 5 0.11
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAATTTAA
Found at i:6084318 original size:20 final size:20
Alignment explanation
Indices: 6084274--6084316 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
6084264 TTTAAAATTC
* *
6084274 AAAATATTTATAAAAATTTT
1 AAAATATTTACAAAAATTTA
6084294 AAAATA-TTACAAAAATTTA
1 AAAATATTTACAAAAATTTA
6084313 AAAA
1 AAAA
6084317 ATCTAAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATATTTACAAAAATTTA
Found at i:6084481 original size:21 final size:21
Alignment explanation
Indices: 6084455--6084494 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6084445 ATATGGTTTC
6084455 AAATTT-ATACATTGTAACATG
1 AAATTTGA-ACATTGTAACATG
*
6084476 AAATTTGAATATTGTAACA
1 AAATTTGAACATTGTAACA
6084495 AAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (21 bp):
AAATTTGAACATTGTAACATG
Found at i:6087672 original size:41 final size:40
Alignment explanation
Indices: 6087627--6087709 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 40
6087617 AAGAAAATGA
*
6087627 ATAAAAG-TATAAAAATGTAGAAGATATATACGTGTATATAC
1 ATAAAAGTTATAAAAATGT-GAA-ATATATACGTCTATATAC
* * *
6087668 AT-AAAGTTATGAAAATGTGAAATATGTATGTCTATATAC
1 ATAAAAGTTATAAAAATGTGAAATATATACGTCTATATAC
6087707 ATA
1 ATA
6087710 TAATAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
39 17 0.47
40 7 0.19
41 12 0.33
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.33
Consensus pattern (40 bp):
ATAAAAGTTATAAAAATGTGAAATATATACGTCTATATAC
Found at i:6087741 original size:14 final size:14
Alignment explanation
Indices: 6087722--6087764 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
6087712 ATAAAATTAT
6087722 TAAATATATATATA
1 TAAATATATATATA
*
6087736 TAAATATATATATG
1 TAAATATATATATA
*
6087750 TAAGTATATATATA
1 TAAATATATATATA
6087764 T
1 T
6087765 TTACAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:6088745 original size:10 final size:10
Alignment explanation
Indices: 6088732--6088763 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
6088722 AAAAAGAAAA
6088732 AAATAAATAT
1 AAATAAATAT
6088742 AAATAAATA-
1 AAATAAATAT
6088751 AAATAAA-AT
1 AAATAAATAT
6088760 AAAT
1 AAAT
6088764 GAATGAACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.05
9 11 0.52
10 9 0.43
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (10 bp):
AAATAAATAT
Found at i:6088751 original size:14 final size:14
Alignment explanation
Indices: 6088723--6088763 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6088713 ATATTTGTAA
*
6088723 AAAAGAAAA-AAAT
1 AAAATAAAATAAAT
6088736 -AAATATAAATAAAT
1 AAAATA-AAATAAAT
6088750 AAAATAAAATAAAT
1 AAAATAAAATAAAT
6088764 GAATGAACCG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.17
13 3 0.12
14 12 0.50
15 5 0.21
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:6089661 original size:41 final size:41
Alignment explanation
Indices: 6089600--6089973 Score: 304
Period size: 41 Copynumber: 8.8 Consensus size: 41
6089590 ATTAGTTCCT
*
6089600 TTTG-TCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGA
1 TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGA
* * * *
6089640 TGTGATCTGCTCTACTGCAACTTCAGAGAGATAATATCTTGTGGT
1 TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGA-C---TGGA
* * * *
6089685 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGA
1 TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGA
* * **
6089726 TGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGTT
1 TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGA-C-TGGA
* * * * * *
6089769 TTTAATCCGCTCTACTGCAACTTTA-AGGAGATAAGATTGGTTTCT
1 TTTGATCTGCTCCACTGCAACTTCAGA-GAGATAAGACTGG----A
* *
6089814 TTTG-TCTGTTCCACTGCAACTTCAGGGAGATAAGACTGGA
1 TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGA
* * *
6089854 TATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGA
1 TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGA-CTGGA
* * * *
6089896 TTTTAATCTGCTCCACTGCAACTTCAGAGAGATAAAATTTATGGT
1 -TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGA---CTGGA
* * *
6089941 TTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 TTTGATCTGCTCCACTGCAACTTCAGAGAGATA
6089974 GGATTAGTTT
Statistics
Matches: 267, Mismatches: 49, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
40 6 0.02
41 92 0.34
42 6 0.02
43 64 0.24
44 59 0.22
45 40 0.15
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (41 bp):
TTTGATCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGA
Found at i:6089928 original size:128 final size:127
Alignment explanation
Indices: 6089604--6089973 Score: 462
Period size: 128 Copynumber: 2.9 Consensus size: 127
6089594 GTTCCTTTTG
* * * * *
6089604 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-TGTGATCTGCTCTACTGCAACTTCAGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCTGCTCTACTGCAACTTCAGA
* ** * * *
6089667 GAGATAATATCTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTGGATGTGA
66 GAGATAA-A-ATTGTATTTTTTATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGA
* * *
6089731 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGTTTTTAATCCGCTCTACTGCAACTTTA-A
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCTGCTCTACTGCAACTTCAGA
* * * *
6089795 GGAGATAAGATTGGT-TTCTTTTGTCTGTTCCACTGCAACTTCAGGGAGATAAGACTGGATATGA
66 -GAGATAAAATT-GTATT-TTTTATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGA
*
6089859 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCTGCTCCACTGCAACTTCAGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCTGCTCTACTGCAACTTCAGA
*
6089924 GAGATAAAATT-TATGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATA
66 GAGATAAAATTGTAT--TTTTTATCCGCTCCACTGCAACTTCAGGGAGATA
6089974 GGATTAGTTT
Statistics
Matches: 208, Mismatches: 26, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
126 1 0.00
127 33 0.16
128 144 0.69
129 30 0.14
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (127 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTTGATTTTAATCTGCTCTACTGCAACTTCAGA
GAGATAAAATTGTATTTTTTATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATATGA
Found at i:6090265 original size:50 final size:50
Alignment explanation
Indices: 6089998--6090365 Score: 171
Period size: 50 Copynumber: 7.3 Consensus size: 50
6089988 TCGTCTATTA
* * * * *
6089998 ACTGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTTC
1 ACTGCACTGCCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
* * * * ** * ** **
6090048 ACTACACCGCCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAA
1 ACTGCACTGCCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
* * * * *** **
6090098 ATTACAATGTC-GAGGAAGCAAGATTCATTGTTATAGCTTTAATCTGCTCC
1 ACTGCACTGCCAG-GGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
* * * * * * ** **
6090148 ACTGCACCGCCAGGGAAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTAA
1 ACTGCACTGCCAGGG-AAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
* * * * * * *
6090199 ATTGAAATGTCGGGGAAGCAATATTTGCCGTCGTAGCTTTAATCTGCTCC
1 ACTGCACTGCCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
* * * * * ** **
6090249 ACTGCACTGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTA
1 ACTGCACTGCCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
* * * * * * *
6090299 ATTGCAATACCGGGGAAGCAAAATTCACCGTCATAGCTTTAATCTGCTCC
1 ACTGCACTGCCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
**
6090349 ACTGCACCACCAGGGAA
1 ACTGCACTGCCAGGGAA
6090366 AGTAACTTCA
Statistics
Matches: 218, Mismatches: 97, Indels: 6
0.68 0.30 0.02
Matches are distributed among these distances:
49 1 0.00
50 184 0.84
51 33 0.15
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
ACTGCACTGCCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCC
Found at i:6090289 original size:201 final size:201
Alignment explanation
Indices: 6090003--6090370 Score: 556
Period size: 201 Copynumber: 1.8 Consensus size: 201
6089993 TATTAACTGC
* *
6090003 AATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTTCACTACACCGCCAGGGAAGTA
1 AATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTACACCGCCAGGGAAGTA
** * ** *
6090068 AGATTCGCCGTTGCGGCTTCAATCTTTTAAATTACAATGTCGAGGAAGCAAGATTCATTGTTATA
66 AGATTCGCCGTTGCGGCTTCAATCTTTTAAATTACAATACCGAGGAAGCAAAATTCACCGTCATA
*
6090133 GCTTTAATCTGCTCCACTGCACCGCCAGGGAAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTA
131 GCTTTAATCTGCTCCACTGCACCACCAGGGAAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTA
6090198 AATTGA
196 AATTGA
* * * * * *
6090204 AATGTCGGGGAAGCAATATTTGCCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTA
1 AATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTACACCGCCAGGGAAGTA
* * * * *
6090269 AGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATACCGGGGAAGCAAAATTCACCGTCATA
66 AGATTCGCCGTTGCGGCTTCAATCTTTTAAATTACAATACCGAGGAAGCAAAATTCACCGTCATA
6090334 GCTTTAATCTGCTCCACTGCACCACCAGGGAAAGTAA
131 GCTTTAATCTGCTCCACTGCACCACCAGGGAAAGTAA
6090371 CTTCATTGAT
Statistics
Matches: 147, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
201 147 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (201 bp):
AATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTACACCGCCAGGGAAGTA
AGATTCGCCGTTGCGGCTTCAATCTTTTAAATTACAATACCGAGGAAGCAAAATTCACCGTCATA
GCTTTAATCTGCTCCACTGCACCACCAGGGAAAGTAAGATTTGCCGTTGTGGCTTCAATCTTTTA
AATTGA
Found at i:6090330 original size:100 final size:101
Alignment explanation
Indices: 6090000--6090370 Score: 494
Period size: 100 Copynumber: 3.7 Consensus size: 101
6089990 GTCTATTAAC
* * * * * * *
6090000 TGCAATGTCAGGGAAACAAGATTCGCCGTCGTAGCTTTAATCTGTTTCACTACACCGCCAGGG-A
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAA
*
6090064 AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
66 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * ** *
6090100 TACAATGTCGAGGAAGCAAGATTCATTGTTATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAA
*
6090165 AGTAAGATTTGCCGTTGTGGCTTCAATCTTTTAAAT
66 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * ** * *
6090201 TGAAATGTCGGGGAAGCAATATTTGCCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGG-A
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAA
* *
6090265 AGTAAGATTCGTCGTTGTGGCTTCAATCTTTTTAAT
66 AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** * *
6090301 TGCAATACCGGGGAAGCAAAATTCACCGTCATAGCTTTAATCTGCTCCACTGCACCACCAGGGAA
1 TGCAATGTCGGGGAAGCAAGATTCACCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAA
6090366 AGTAA
66 AGTAA
6090371 CTTCATTGAT
Statistics
Matches: 232, Mismatches: 37, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
100 139 0.60
101 93 0.40
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (101 bp):
TGCAATGTCGGGGAAGCAAGATTCACCGTCATAGCTTTAATCTGCTCCACTGCACCGCCAGGGAA
AGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
Found at i:6090677 original size:24 final size:24
Alignment explanation
Indices: 6090645--6090695 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
6090635 CGGATTGCCC
*
6090645 CCATTGTAATCTTCAAA-GTTCAAT
1 CCATTGTAATCTT-AAAGGTTAAAT
6090669 CCATTGTAATCTTAAAGGTTAAAT
1 CCATTGTAATCTTAAAGGTTAAAT
6090693 CCA
1 CCA
6090696 CGATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (24 bp):
CCATTGTAATCTTAAAGGTTAAAT
Found at i:6091597 original size:16 final size:16
Alignment explanation
Indices: 6091576--6091623 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
6091566 CCTTGGCCTC
6091576 TCCTTTTTCTTTTTCT
1 TCCTTTTTCTTTTTCT
6091592 TCCTTTTT-TCTTTTCT
1 TCCTTTTTCT-TTTTCT
*
6091608 TTC-TTTTCTTTTTCT
1 TCCTTTTTCTTTTTCT
6091623 T
1 T
6091624 TTCTTCCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TCCTTTTTCTTTTTCT
Found at i:6091612 original size:20 final size:19
Alignment explanation
Indices: 6091587--6091639 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
6091577 CCTTTTTCTT
6091587 TTTCTTCCTTTTTTCTTTTC
1 TTTCTT-CTTTTTTCTTTTC
*
6091607 TTTCTTTTCTTTTTCTTTTC
1 TTTCTTCT-TTTTTCTTTTC
*
6091627 TTCCTTCTTTTTT
1 TTTCTTCTTTTTT
6091640 TTGAACATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTCTTCTTTTTTCTTTTC
Found at i:6091626 original size:16 final size:16
Alignment explanation
Indices: 6091580--6091638 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
6091570 GGCCTCTCCT
6091580 TTTTCTTTTTCTTCCTT-
1 TTTTCTTTTTCTT--TTC
6091597 TTTTC-TTTTC-TTTC
1 TTTTCTTTTTCTTTTC
6091611 TTTTCTTTTTCTTTTC
1 TTTTCTTTTTCTTTTC
6091627 TTCCTTCTTTTT
1 TT--TTCTTTTT
6091639 TTTGAACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.05
14 5 0.14
15 6 0.16
16 11 0.30
17 5 0.14
18 8 0.22
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTC
Found at i:6091640 original size:20 final size:19
Alignment explanation
Indices: 6091579--6091640 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
6091569 TGGCCTCTCC
*
6091579 TTTTTC-TTT-TTCTTCCT
1 TTTTTCTTTTCTTCTTCTT
6091596 TTTTTCTTTTCTTTCTT-TT
1 TTTTTCTTTTC-TTCTTCTT
6091615 CTTTTTCTTTTCTTCCTTCTT
1 -TTTTTCTTTTCTT-CTTCTT
6091636 TTTTT
1 TTTTT
6091641 TGAACATTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 6 0.16
18 3 0.08
19 3 0.08
20 24 0.63
21 2 0.05
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTTTCTTCTTCTT
Found at i:6096151 original size:2 final size:2
Alignment explanation
Indices: 6096144--6096185 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
6096134 AAATTATTAA
* *
6096144 AT AT AT AT AT AA AT AT AT AT AT AT AT AT GT A- AGT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
6096186 TTACAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 32 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6096378 original size:6 final size:6
Alignment explanation
Indices: 6096355--6096389 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6096345 TAGTAAATAC
* *
6096355 AATAAT AATGAC AATAAT AATAAT AATAAT AATAA
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAA
6096390 AACTAATTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (6 bp):
AATAAT
Found at i:6096396 original size:9 final size:9
Alignment explanation
Indices: 6096355--6096389 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6096345 TAGTAAATAC
6096355 AATAATAAT
1 AATAATAAT
* *
6096364 GACAATAAT
1 AATAATAAT
6096373 AATAATAAT
1 AATAATAAT
6096382 AATAATAA
1 AATAATAA
6096390 AACTAATTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (9 bp):
AATAATAAT
Found at i:6097477 original size:14 final size:14
Alignment explanation
Indices: 6097458--6097485 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6097448 AAACGGGTCG
6097458 GGTCGGGCTTGGAC
1 GGTCGGGCTTGGAC
6097472 GGTCGGGCTTGGAC
1 GGTCGGGCTTGGAC
6097486 CGTGAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.21, G:0.50, T:0.21
Consensus pattern (14 bp):
GGTCGGGCTTGGAC
Found at i:6098670 original size:48 final size:50
Alignment explanation
Indices: 6098618--6098736 Score: 152
Period size: 48 Copynumber: 2.4 Consensus size: 50
6098608 GGGTTTAGGA
* * *
6098618 GGAAGTAAAAGTTTGGGGAAGCAAAAGGAGAAAAGTTTGGGA-AT-TTGG
1 GGAAGTAAAAATTTTGGGAAGCAAAAGGAAAAAAGTTTGGGAGATATTGG
* * *
6098666 GGAAGTAAAAATTTTGGGAAGTAAAAGGAAAAAAGTTTTGGAGGTATTGG
1 GGAAGTAAAAATTTTGGGAAGCAAAAGGAAAAAAGTTTGGGAGATATTGG
*
6098716 GGAAGGTAAAATTTTTGGGAA
1 GGAA-GTAAAAATTTTGGGAA
6098737 AAAGTAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
48 37 0.61
49 1 0.02
50 8 0.13
51 15 0.25
ACGTcount: A:0.40, C:0.01, G:0.34, T:0.24
Consensus pattern (50 bp):
GGAAGTAAAAATTTTGGGAAGCAAAAGGAAAAAAGTTTGGGAGATATTGG
Found at i:6098684 original size:16 final size:16
Alignment explanation
Indices: 6098659--6098691 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6098649 AAAGTTTGGG
6098659 AATTTGGGGAAGTAAA
1 AATTTGGGGAAGTAAA
*
6098675 AATTTTGGGAAGTAAA
1 AATTTGGGGAAGTAAA
6098691 A
1 A
6098692 GGAAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.27
Consensus pattern (16 bp):
AATTTGGGGAAGTAAA
Found at i:6098740 original size:48 final size:47
Alignment explanation
Indices: 6098618--6098752 Score: 139
Period size: 48 Copynumber: 2.8 Consensus size: 47
6098608 GGGTTTAGGA
* * *
6098618 GGAAGTAAAAGTTTGGGGAAGCAAAAGGAGAAAAGTTTGGGAATTTGG
1 GGAAGTAAAAATTTTGGGAAG-AAAAGGAAAAAAGTTTGGGAATTTGG
* *
6098666 GGAAGTAAAAATTTTGGGAAGTAAAAGGAAAAAAGTTTTGGAGGTATTGG
1 GGAAGTAAAAATTTTGGGAAG-AAAAGGAAAAAAGTTTGGGA-AT-TTGG
* * *
6098716 GGAAGGTAAAATTTTTGGG-A-AAAAGTAAAAAGGTTTG
1 GGAA-GTAAAAATTTTGGGAAGAAAAGGAAAAAAGTTTG
6098753 ATATTTAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 51 0.69
49 1 0.01
50 9 0.12
51 13 0.18
ACGTcount: A:0.41, C:0.01, G:0.33, T:0.24
Consensus pattern (47 bp):
GGAAGTAAAAATTTTGGGAAGAAAAGGAAAAAAGTTTGGGAATTTGG
Found at i:6099350 original size:19 final size:19
Alignment explanation
Indices: 6099328--6099370 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6099318 TTACAAAAAT
6099328 TATAATTTTTCAT-ATTTTC
1 TATAATTTTT-ATAATTTTC
*
6099347 TATAATTTTTATAATTTTT
1 TATAATTTTTATAATTTTC
6099366 TATAA
1 TATAA
6099371 AACAAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TATAATTTTTATAATTTTC
Found at i:6099359 original size:9 final size:9
Alignment explanation
Indices: 6099327--6099370 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 9
6099317 TTTACAAAAA
6099327 TTATAATTT
1 TTATAATTT
6099336 TTCAT-ATTT
1 TT-ATAATTT
6099345 TCTATAATTT
1 T-TATAATTT
6099355 TTATAATTTT
1 TTATAA-TTT
6099365 TTATAA
1 TTATAA
6099371 AACAAAATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 14 0.45
10 17 0.55
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (9 bp):
TTATAATTT
Found at i:6099365 original size:10 final size:10
Alignment explanation
Indices: 6099327--6099370 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
6099317 TTTACAAAAA
6099327 TTATAATTTT
1 TTATAATTTT
*
6099337 TCAT-ATTTT
1 TTATAATTTT
*
6099346 CTATAA-TTT
1 TTATAATTTT
6099355 TTATAATTTT
1 TTATAATTTT
6099365 TTATAA
1 TTATAA
6099371 AACAAAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATAATTTT
Found at i:6099694 original size:20 final size:19
Alignment explanation
Indices: 6099665--6099733 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
6099655 CTTAGATGAC
*
6099665 AATTATTTATAA-CTTGTAAT
1 AATT-TTTATAATCTTAT-AT
6099685 AATTTATTATAATCTTATAT
1 AATTT-TTATAATCTTATAT
*
6099705 AATTTTTATAAT-TT-TTT
1 AATTTTTATAATCTTATAT
*
6099722 TATTTTTATAAT
1 AATTTTTATAAT
6099734 TATTTAAGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 13 0.30
18 2 0.05
19 8 0.18
20 17 0.39
21 4 0.09
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
AATTTTTATAATCTTATAT
Found at i:6099716 original size:9 final size:9
Alignment explanation
Indices: 6099683--6099739 Score: 62
Period size: 9 Copynumber: 6.1 Consensus size: 9
6099673 ATAACTTGTA
6099683 ATAATTTATT
1 ATAATTT-TT
*
6099693 ATAATCTTAT
1 ATAAT-TTTT
6099703 ATAATTTTT
1 ATAATTTTT
6099712 ATAATTTTT
1 ATAATTTTT
*
6099721 -TTATTTTT
1 ATAATTTTT
6099729 ATAATTATTT
1 ATAATT-TTT
6099739 A
1 A
6099740 AGGGTTATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
8 7 0.17
9 16 0.40
10 15 0.38
11 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
ATAATTTTT
Found at i:6107229 original size:5 final size:6
Alignment explanation
Indices: 6107174--6107234 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
6107164 ACCAATTTAG
* * * *
6107174 TTTATC TTTATT TTT-TT CTT-TT TTTATT TCTATT TGTAGTGT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT
6107222 TTTATT TTTATT T
1 TTTATT TTTATT T
6107235 GAATTCCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
5 8 0.17
6 32 0.70
7 2 0.04
8 4 0.09
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:6107267 original size:3 final size:3
Alignment explanation
Indices: 6107259--6107295 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
6107249 TTTTTAATCC
*
6107259 TAT TAT TAT TAT TCT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6107296 TCTTCTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:6107516 original size:18 final size:21
Alignment explanation
Indices: 6107495--6107539 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 21
6107485 ATGTTTTAAA
6107495 TTTATC-ATATATTAT-T-TT
1 TTTATCTATATATTATATATT
*
6107513 TTTA-CTATCTATTATATATT
1 TTTATCTATATATTATATATT
6107533 TTTATCT
1 TTTATCT
6107540 TCAAACTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 12 0.55
19 1 0.05
20 6 0.27
21 2 0.09
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTATCTATATATTATATATT
Found at i:6109464 original size:17 final size:17
Alignment explanation
Indices: 6109444--6109492 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
6109434 AATAACTAAG
*
6109444 ATAAATAAAATAGAATA
1 ATAAATAAAATAGAACA
6109461 ATAAATCAAATATTAGAACA
1 ATAAAT-AAA-A-TAGAACA
*
6109481 ATAAAAAAAATA
1 ATAAATAAAATA
6109493 AATGGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 8 0.30
18 4 0.15
19 4 0.15
20 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.22
Consensus pattern (17 bp):
ATAAATAAAATAGAACA
Found at i:6112795 original size:63 final size:63
Alignment explanation
Indices: 6112696--6112887 Score: 303
Period size: 63 Copynumber: 3.0 Consensus size: 63
6112686 CAACCTGATT
* * *
6112696 TATAACTTAAATTTCGTAATTCAAACTCTATTAAGATGTGCCCCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
*
6112759 TATAACTTAAATTTGGTAATTCAAACCCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
* * * * *
6112822 TATGACTTACATTTGATAATTCAAACTCTATTAAGATGCGCTTCATTCCGGATGTGATAAGAA
1 TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
6112885 TAT
1 TAT
6112888 CTTCGTGTGA
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 119 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (63 bp):
TATAACTTAAATTTGGTAATTCAAACTCTATTAAGATGCGCCTCATTCCTGATGTGATAAGAA
Found at i:6120314 original size:31 final size:34
Alignment explanation
Indices: 6120279--6120356 Score: 99
Period size: 31 Copynumber: 2.4 Consensus size: 34
6120269 TACACTCTAA
* * *
6120279 ATTTTTGAAAATTCTCATTATAGTT-TTT-A-AT
1 ATTTTTGAAAATTCTAATTAAACTTATTTAAGAT
*
6120310 ATTTTTGAAAATTTTAATTAAACTTATTTAAGAT
1 ATTTTTGAAAATTCTAATTAAACTTATTTAAGAT
6120344 ATTTTTGAAAATT
1 ATTTTTGAAAATT
6120357 TTTAAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 21 0.52
32 3 0.08
33 1 0.03
34 15 0.38
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (34 bp):
ATTTTTGAAAATTCTAATTAAACTTATTTAAGAT
Found at i:6120666 original size:21 final size:23
Alignment explanation
Indices: 6120640--6120681 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
6120630 TTCAACTTTA
6120640 TCATTTT-ATTT-AAATAAGCCC
1 TCATTTTCATTTAAAATAAGCCC
*
6120661 TCATTTTCCTTTAAAATAAGC
1 TCATTTTCATTTAAAATAAGC
6120682 ACTTAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 3 0.17
23 8 0.44
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (23 bp):
TCATTTTCATTTAAAATAAGCCC
Found at i:6128579 original size:227 final size:227
Alignment explanation
Indices: 6128184--6128640 Score: 887
Period size: 227 Copynumber: 2.0 Consensus size: 227
6128174 ATTCACCTTT
6128184 AAACTTTCATGCTCATCCAGCACATGCACAGTCAAGTTCTCCATTTGATCAAATATCCAGAGTTC
1 AAACTTTCATGCTCATCCAGCACATGCACAGTCAAGTTCTCCATTTGATCAAATATCCAGAGTTC
*
6128249 AATTCATTAAAAATATCTGGAGACATACAGCAACATACCATCCAGCAATACAGAATTCTTAGCCG
66 AATTCATTAAAAATATCTGAAGACATACAGCAACATACCATCCAGCAATACAGAATTCTTAGCCG
*
6128314 AAAAAGAAAAAAACTCGAAAATAACAGCTTGCAAACTATCCAACCGCAGTACGCATACAAACATA
131 AAAAAGAAAAAAACTCGAAAATAACAGCTTGCAAACTATCCAACCGCAGTACGCATACAAACAGA
6128379 TGATACAGAACGGTTTCCAAAGAACAGTTTCC
196 TGATACAGAACGGTTTCCAAAGAACAGTTTCC
6128411 AAACTTTCATGCTCATCCAGCACATGCACAGTCAAGTTCTCCATTTGATCAAATATCCAGAGTTC
1 AAACTTTCATGCTCATCCAGCACATGCACAGTCAAGTTCTCCATTTGATCAAATATCCAGAGTTC
*
6128476 AATTCATTAAAAATATCTGAAGACATACAGCAACATACCATCCAGCAATACAGAATTCTTAGGCG
66 AATTCATTAAAAATATCTGAAGACATACAGCAACATACCATCCAGCAATACAGAATTCTTAGCCG
6128541 AAAAAGAAAAAAACTCGAAAATAACAGCTTGCAAACTATCCAACCGCAGTACGCATACAAACAGA
131 AAAAAGAAAAAAACTCGAAAATAACAGCTTGCAAACTATCCAACCGCAGTACGCATACAAACAGA
6128606 TGATACAGAACGGTTTCCAAAGAACAGTTTCC
196 TGATACAGAACGGTTTCCAAAGAACAGTTTCC
6128638 AAA
1 AAA
6128641 AGCTTAATTC
Statistics
Matches: 227, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 227 1.00
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (227 bp):
AAACTTTCATGCTCATCCAGCACATGCACAGTCAAGTTCTCCATTTGATCAAATATCCAGAGTTC
AATTCATTAAAAATATCTGAAGACATACAGCAACATACCATCCAGCAATACAGAATTCTTAGCCG
AAAAAGAAAAAAACTCGAAAATAACAGCTTGCAAACTATCCAACCGCAGTACGCATACAAACAGA
TGATACAGAACGGTTTCCAAAGAACAGTTTCC
Found at i:6129832 original size:20 final size:20
Alignment explanation
Indices: 6129794--6129832 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6129784 CAGCCTTTAT
*
6129794 TTCATTAGTGAAAGTAGAAG
1 TTCATTAGTGAAAGAAGAAG
* *
6129814 TTCATTAGTTACAGAAGAA
1 TTCATTAGTGAAAGAAGAA
6129833 CTCCATGGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.31
Consensus pattern (20 bp):
TTCATTAGTGAAAGAAGAAG
Found at i:6138033 original size:23 final size:23
Alignment explanation
Indices: 6138002--6138047 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
6137992 CATTTTTCTG
*
6138002 TAGATTGTATCAGACACAAGTGC
1 TAGAATGTATCAGACACAAGTGC
6138025 TAGAATGTATCAGACACAAGTGC
1 TAGAATGTATCAGACACAAGTGC
6138048 ACACAAGCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (23 bp):
TAGAATGTATCAGACACAAGTGC
Found at i:6145040 original size:21 final size:21
Alignment explanation
Indices: 6145010--6145051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6145000 CAAATTTAAT
* **
6145010 TTTTACTTATTTTTTTATGTA
1 TTTTAATTATTTAGTTATGTA
6145031 TTTTAATTATTTAGTTATGTA
1 TTTTAATTATTTAGTTATGTA
6145052 ATTAAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (21 bp):
TTTTAATTATTTAGTTATGTA
Found at i:6146818 original size:7 final size:7
Alignment explanation
Indices: 6146806--6146831 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6146796 AGGCCTTACG
6146806 GTTTATT
1 GTTTATT
6146813 GTTTATT
1 GTTTATT
6146820 GTTTATT
1 GTTTATT
6146827 GTTTA
1 GTTTA
6146832 AAGGTTGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (7 bp):
GTTTATT
Found at i:6146889 original size:14 final size:14
Alignment explanation
Indices: 6146867--6146898 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6146857 TTATATATGT
*
6146867 TTTATGATTTAGGG
1 TTTAGGATTTAGGG
6146881 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
6146895 TTTA
1 TTTA
6146899 TATATGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:6147228 original size:21 final size:21
Alignment explanation
Indices: 6147198--6147245 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
6147188 TCTAGGTTAA
6147198 TTTAGGGTTAAGGGTTAAGGG
1 TTTAGGGTTAAGGGTTAAGGG
* *
6147219 TTTAGTGTTAAGGGTTTAGGG
1 TTTAGGGTTAAGGGTTAAGGG
6147240 TTTAGG
1 TTTAGG
6147246 ATTTAATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
TTTAGGGTTAAGGGTTAAGGG
Found at i:6147242 original size:7 final size:7
Alignment explanation
Indices: 6147198--6147250 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
6147188 TCTAGGTTAA
6147198 TTTAGGG
1 TTTAGGG
*
6147205 TTAAGGG
1 TTTAGGG
*
6147212 TTAAGGG
1 TTTAGGG
*
6147219 TTTAGTG
1 TTTAGGG
*
6147226 TTAAGGG
1 TTTAGGG
6147233 TTTAGGG
1 TTTAGGG
*
6147240 TTTAGGA
1 TTTAGGG
6147247 TTTA
1 TTTA
6147251 ATGTCTAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.42
Consensus pattern (7 bp):
TTTAGGG
Found at i:6147767 original size:127 final size:125
Alignment explanation
Indices: 6147624--6148028 Score: 303
Period size: 127 Copynumber: 3.2 Consensus size: 125
6147614 GGCCACAGGA
*
6147624 ATTTGAATTTTAGTGGCGTTTTTATGAAAAATGCCACAGAAGGTATGCAATAGTGGCATTTTTAT
1 ATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAGAAGGTATGCAATAGTGGCATTTTTAT
6147689 AGAAACACTGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCGTTTTCTTAAATG
66 AGAAACACTGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCGTTTTCTTAAATG
** * ** * *
6147749 ATTTGAACTCTTTAGTGGCGTTTTTATTTAAAACGCCACA-AA-CTATAAGCTTTAGCGGCGTTT
1 ATTTGAA-T-TTTAGTGGCGTTTTTATGAAAAACGCCACAGAAGGTAT--GCAATAGTGGCATTT
* * * *** * * * *
6147812 AGTAT-GAAA-A-TGC-CA--CA-AATGTGTATTACAAAATGTTC-AGAACGTCGCCG-TTTCGT
62 -TTATAGAAACACTGCAAATCCATAA-ATGT-TT---GTGTGTACGAAAACGGCGTCGTTTTC-T
* *
6147868 TACAGG
120 TAAATG
* * * *
6147874 AATTTGAATTTTAGTGGCCTTTTT-TGGAAAACGCCACAGAAGGTATGCAATCGTGGCGTTTTTT
1 -ATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAGAAGGTATGCAATAGTGGC---ATTT
* * * * *
6147938 TTATAGAAACGCCGCAAATCTATAAATGTTTGTGTGTATGAAAACGGCGTCATTTTCTTAAATG
62 TTATAGAAACACTGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCGTTTTCTTAAATG
*
6148002 ATTTGAACTCTTTAGTGGCGTGTTTAT
1 ATTTGAA-T-TTTAGTGGCGTTTTTAT
6148029 TTAAAACGTC
Statistics
Matches: 203, Mismatches: 48, Indels: 53
0.67 0.16 0.17
Matches are distributed among these distances:
121 2 0.01
122 5 0.02
123 21 0.10
124 21 0.10
125 34 0.17
126 22 0.11
127 52 0.26
128 19 0.09
129 18 0.09
130 3 0.01
131 4 0.02
132 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (125 bp):
ATTTGAATTTTAGTGGCGTTTTTATGAAAAACGCCACAGAAGGTATGCAATAGTGGCATTTTTAT
AGAAACACTGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCGTTTTCTTAAATG
Found at i:6148053 original size:253 final size:251
Alignment explanation
Indices: 6147618--6148121 Score: 839
Period size: 253 Copynumber: 2.0 Consensus size: 251
6147608 CCGTTTGGCC
* *
6147618 ACAGGAATTTGAATTTTAGTGGCGTTTTTATGAAAAATGCCACAGAAGGTATGCAATAGTGGCAT
1 ACAGGAATTTGAATTTTAGTGGCCTTTTTATGAAAAACGCCACAGAAGGTATGCAATAGTGGCAT
* *
6147683 TTTTATAGAAACACTGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCGTTTTCTTAAAT
66 TTTTATAGAAACACCGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCATTTTCTTAAAT
*
6147748 GATTTGAACTCTTTAGTGGCGTTTTTATTTAAAACGCCACAAACTATAAGCTTTAGCGGCGTTTA
131 GATTTGAACTCTTTAGTGGCGTGTTTATTTAAAACGCCACAAACTATAAGCTTTAGCGGCGTTTA
*
6147813 GTATGAAAATGCCACAAATGTGTATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
196 GTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
* *
6147869 ACAGGAATTTGAATTTTAGTGGCCTTTTT-TGGAAAACGCCACAGAAGGTATGCAATCGTGGCGT
1 ACAGGAATTTGAATTTTAGTGGCCTTTTTATGAAAAACGCCACAGAAGGTATGCAATAGTGGC--
* * * *
6147933 TTTTTTTATAGAAACGCCGCAAATCTATAAATGTTTGTGTGTATGAAAACGGCGTCATTTTCTTA
64 -ATTTTTATAGAAACACCGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCATTTTCTTA
* * *
6147998 AATGATTTGAACTCTTTAGTGGCGTGTTTATTTAAAACGTCGCAAACTGTAAGCTTTAGCGGCGT
128 AATGATTTGAACTCTTTAGTGGCGTGTTTATTTAAAACGCCACAAACTATAAGCTTTAGCGGCGT
6148063 TTAGTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
193 TTAGTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
6148122 TGAGGAACAG
Statistics
Matches: 235, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
250 30 0.13
251 28 0.12
253 177 0.75
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (251 bp):
ACAGGAATTTGAATTTTAGTGGCCTTTTTATGAAAAACGCCACAGAAGGTATGCAATAGTGGCAT
TTTTATAGAAACACCGCAAATCCATAAATGTTTGTGTGTACGAAAACGGCGTCATTTTCTTAAAT
GATTTGAACTCTTTAGTGGCGTGTTTATTTAAAACGCCACAAACTATAAGCTTTAGCGGCGTTTA
GTATGAAAACGCCACAAATGTGTATTACAAAATGTTCAGAACGTCGCCGTTTCGTT
Found at i:6149268 original size:13 final size:13
Alignment explanation
Indices: 6149250--6149287 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
6149240 GAAGTTCTGC
6149250 TTAATGTTGTTGG
1 TTAATGTTGTTGG
*
6149263 TTAATGTTAG-GGG
1 TTAATGTT-GTTGG
6149276 TTAATGTTGTTG
1 TTAATGTTGTTG
6149288 CAAGTTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (13 bp):
TTAATGTTGTTGG
Found at i:6149934 original size:18 final size:18
Alignment explanation
Indices: 6149911--6149955 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
6149901 AAACAATTTT
6149911 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
6149929 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
*
6149947 TAACTTATA
1 TAAATTATA
6149956 AATATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATATAACTTACA
Found at i:6149940 original size:9 final size:9
Alignment explanation
Indices: 6149915--6149955 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
6149905 AATTTTTAAA
6149915 TTATATAAC
1 TTATATAAC
* *
6149924 TTACATAAA
1 TTATATAAC
6149933 TTATATAAC
1 TTATATAAC
*
6149942 TTACATAAC
1 TTATATAAC
6149951 TTATA
1 TTATA
6149956 AATATTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (9 bp):
TTATATAAC
Found at i:6149997 original size:17 final size:18
Alignment explanation
Indices: 6149977--6150010 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6149967 ACATTTTTAA
6149977 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
6149994 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
6150011 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:6150144 original size:9 final size:9
Alignment explanation
Indices: 6150125--6150396 Score: 209
Period size: 9 Copynumber: 30.0 Consensus size: 9
6150115 CTTATATATA
*
6150125 AACTTGCAT
1 AACTTACAT
*
6150134 AACTTATAT
1 AACTTACAT
*
6150143 AAATTACAT
1 AACTTACAT
6150152 AACTTACAT
1 AACTTACAT
6150161 AA--TACAT
1 AACTTACAT
*
6150168 AACCTT-CCT
1 AA-CTTACAT
6150177 AACTTACAT
1 AACTTACAT
* *
6150186 TATTTACAT
1 AACTTACAT
6150195 AA--TACAT
1 AACTTACAT
6150202 AACTTAGTACAT
1 AAC-T--TACAT
6150214 AACTTACAT
1 AACTTACAT
* *
6150223 AATTTTTTCTAAAT
1 AA----CT-TACAT
*
6150237 AGCTTACAT
1 AACTTACAT
* *
6150246 AAATTAAAT
1 AACTTACAT
6150255 AACTTACAT
1 AACTTACAT
6150264 AACTTACAT
1 AACTTACAT
* *
6150273 AAATTAAAT
1 AACTTACAT
*
6150282 AACTTAAAT
1 AACTTACAT
6150291 AACTTACAT
1 AACTTACAT
*
6150300 AACTTAAAT
1 AACTTACAT
6150309 AACTTACAT
1 AACTTACAT
6150318 AAC--ACAT
1 AACTTACAT
*
6150325 AACCTT-CCT
1 AA-CTTACAT
6150334 AACTTACAT
1 AACTTACAT
6150343 AACTTACAT
1 AACTTACAT
* *
6150352 AAATTAAAT
1 AACTTACAT
6150361 AACTTACAT
1 AACTTACAT
6150370 AACTTACAT
1 AACTTACAT
* *
6150379 AAATTAAAT
1 AACTTACAT
*
6150388 AATTTACAT
1 AACTTACAT
6150397 GCGTGTTGAC
Statistics
Matches: 209, Mismatches: 36, Indels: 36
0.74 0.13 0.13
Matches are distributed among these distances:
7 20 0.10
8 7 0.03
9 165 0.79
10 2 0.01
11 1 0.00
12 8 0.04
13 1 0.00
14 5 0.02
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:6150155 original size:27 final size:27
Alignment explanation
Indices: 6150126--6150396 Score: 233
Period size: 27 Copynumber: 10.3 Consensus size: 27
6150116 TTATATATAA
* * *
6150126 ACTTGCATAACTTATATAAATTACATA
1 ACTTACATAACTTACATAAATTAAATA
* **
6150153 ACTTACATAA--TACATAACCTT-CCTA
1 ACTTACATAACTTACATAA-ATTAAATA
* * *
6150178 ACTTACATTATTTACAT-AA-TACATA
1 ACTTACATAACTTACATAAATTAAATA
* *
6150203 ACTTAGTACATAACTTACAT-AATT--TTT
1 AC-T--TACATAACTTACATAAATTAAATA
* * *
6150230 TC-TAAATAGCTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
6150256 ACTTACATAACTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
* *
6150283 ACTTAAATAACTTACATAACTTAAATA
1 ACTTACATAACTTACATAAATTAAATA
* **
6150310 ACTTACATAAC--ACATAACCTT-CCTA
1 ACTTACATAACTTACATAA-ATTAAATA
6150335 ACTTACATAACTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
6150362 ACTTACATAACTTACATAAATTAAATA
1 ACTTACATAACTTACATAAATTAAATA
*
6150389 ATTTACAT
1 ACTTACAT
6150397 GCGTGTTGAC
Statistics
Matches: 200, Mismatches: 28, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
23 12 0.06
24 5 0.03
25 42 0.21
26 11 0.05
27 115 0.57
28 14 0.07
29 1 0.00
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.35
Consensus pattern (27 bp):
ACTTACATAACTTACATAAATTAAATA
Found at i:6153244 original size:179 final size:177
Alignment explanation
Indices: 6152946--6153290 Score: 546
Period size: 179 Copynumber: 1.9 Consensus size: 177
6152936 AGTTGGGATG
*
6152946 TGAAAGTTTCATATTTGAGAAAAAAAATACAAGGGGTAATAAATAATTATGTATAAGTCCATAGG
1 TGAAAGTTTCATATTTGAGAAAAAAAATACAAGAGGTAATAAATAATTATGTATAAGTCCATAGG
* * * *
6153011 AGGGGTCCACTTACATAATGTAAAAACTAATTAAATTTATTAGTAAAATTGTATTTGTCATGTAT
66 AGGGCTCCACTTACATAATGTAAAAACTAATTAAATTTATCAATAAAATTGTATTTGTCATGCAT
** * *
6153076 ATAAATTTTTTAACTGGTCAAATATCTCTATTATATCTATCTAAACA
131 ATAAATTTTAGAACTGATCAAATATCTCTATCATATCTATCTAAACA
** *
6153123 TGAAAGTTTCATATTTGAGAAAAAAAAATTACTTGATGTAATAAATAATTATGTATAAGTCCATA
1 TGAAAGTTTCATATTTGAG-AAAAAAAA-TACAAGAGGTAATAAATAATTATGTATAAGTCCATA
* *
6153188 GGAGGGCTCCACTTACATAATGTAAAAACTAATTGAATTTATCAATATAATTGTATTTGTCATGC
64 GGAGGGCTCCACTTACATAATGTAAAAACTAATTAAATTTATCAATAAAATTGTATTTGTCATGC
6153253 ATATAAATTTTAGAACTGATCAAATATCTCTATCATAT
129 ATATAAATTTTAGAACTGATCAAATATCTCTATCATAT
6153291 TGAATACCCT
Statistics
Matches: 152, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
177 19 0.12
178 8 0.05
179 125 0.82
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (177 bp):
TGAAAGTTTCATATTTGAGAAAAAAAATACAAGAGGTAATAAATAATTATGTATAAGTCCATAGG
AGGGCTCCACTTACATAATGTAAAAACTAATTAAATTTATCAATAAAATTGTATTTGTCATGCAT
ATAAATTTTAGAACTGATCAAATATCTCTATCATATCTATCTAAACA
Found at i:6167932 original size:14 final size:14
Alignment explanation
Indices: 6167913--6167940 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6167903 TTAATTTATA
6167913 TGTGTGAAAATTTT
1 TGTGTGAAAATTTT
6167927 TGTGTGAAAATTTT
1 TGTGTGAAAATTTT
6167941 ATCGTTTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (14 bp):
TGTGTGAAAATTTT
Found at i:6168729 original size:43 final size:43
Alignment explanation
Indices: 6168570--6168741 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 43
6168560 CATAGGATTC
* *
6168570 CGATATGAG-TTATCGTGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATTAGATTA-CGTGTAAGACCACGTCTGGAACAG-TGGCAT
* * *
6168613 CGAT-TTGAGATTTACGTGTAAGACCATGTTTGGAACATTGGCAT
1 CGATATT-AGA-TTACGTGTAAGACCACGTCTGGAACAGTGGCAT
*
6168657 C-ATA-TACGATTTCGTGTAAGACC-CTGTCTGGAACAGTGGCAT
1 CGATATTA-GATTACGTGTAAGACCAC-GTCTGGAACAGTGGCAT
* * * *
6168699 CGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 CGATATTAGATTACGTGTAAGACCACGTCTGGAACAGTGGCAT
6168742 TGTAAGAGAT
Statistics
Matches: 105, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 31 0.30
43 43 0.41
44 28 0.27
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATTAGATTACGTGTAAGACCACGTCTGGAACAGTGGCAT
Found at i:6187307 original size:26 final size:26
Alignment explanation
Indices: 6187269--6187335 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
6187259 AATAAAAATT
6187269 TAAAATATATTAAAAAG-ATAATTTTTAA
1 TAAAA-AT-TTAAAAAGCA-AATTTTTAA
* **
6187297 TAAAAATTTAAAATGCACCTTTTTAA
1 TAAAAATTTAAAAAGCAAATTTTTAA
6187323 TAAAAATTTAAAA
1 TAAAAATTTAAAA
6187336 TTAAAATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 27 0.77
27 3 0.09
28 5 0.14
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.37
Consensus pattern (26 bp):
TAAAAATTTAAAAAGCAAATTTTTAA
Found at i:6188140 original size:7 final size:7
Alignment explanation
Indices: 6188128--6188186 Score: 73
Period size: 7 Copynumber: 7.7 Consensus size: 7
6188118 TATTTTAATT
6188128 AAAAATA
1 AAAAATA
6188135 AAAAATA
1 AAAAATA
6188142 AAAAATA
1 AAAAATA
6188149 AAAAATA
1 AAAAATA
6188156 AATATAATTTA
1 AA-A-AA--TA
6188167 AAAAATAA
1 AAAAAT-A
6188175 AAAAATA
1 AAAAATA
6188182 AAAAA
1 AAAAA
6188187 AATTATAGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
7 30 0.64
8 8 0.17
9 4 0.09
10 1 0.02
11 4 0.09
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAAATA
Found at i:6188190 original size:26 final size:26
Alignment explanation
Indices: 6188139--6188199 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
6188129 AAAATAAAAA
* *
6188139 ATAAAAAATAAAAAATAAATATAATT
1 ATAAAAAATAAAAAATAAAAAAAATT
6188165 -TAAAAAATAAAAAAATAAAAAAAATT
1 ATAAAAAAT-AAAAAATAAAAAAAATT
6188191 ATAGAAAAA
1 ATA-AAAAA
6188200 AACTCTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 8 0.27
26 15 0.50
27 2 0.07
28 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (26 bp):
ATAAAAAATAAAAAATAAAAAAAATT
Found at i:6188241 original size:42 final size:41
Alignment explanation
Indices: 6188128--6188241 Score: 108
Period size: 42 Copynumber: 2.8 Consensus size: 41
6188118 TATTTTAATT
* *
6188128 AAAAAT-AAAAAAT-AAAAAATAAAAAATAAATATAATTTA
1 AAAAATAAAAAAATAAAAAAATAAAAAAAAAAAATAATTTA
* * * *
6188167 AAAAATAAAAAAATAAAAAAAATTATAGAAAAAAACT-CTTTA
1 AAAAATAAAAAAAT-AAAAAAA-TAAAAAAAAAAAATAATTTA
** *
6188209 AAATTTAAAAAAATAAAAAAATAAAAACAAAAA
1 AAAAATAAAAAAATAAAAAAATAAAAAAAAAAA
6188242 TTCCAAAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
39 6 0.10
40 16 0.27
41 7 0.12
42 22 0.37
43 9 0.15
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (41 bp):
AAAAATAAAAAAATAAAAAAATAAAAAAAAAAAATAATTTA
Found at i:6188417 original size:77 final size:77
Alignment explanation
Indices: 6188280--6188426 Score: 188
Period size: 77 Copynumber: 1.9 Consensus size: 77
6188270 TAATTTGAAC
* * ** * *
6188280 TAGACTGATTGGATCAAGAACCAGCTGGGGTATTAGTTTGGTGAGAGGGAGAAAACTGATTGACC
1 TAGACTGATTGGATCAAGAACCAGCTAGGGTATCAGTTCAGTGAGAGGGAAAAAACTGATTAACC
6188345 CATGATCCGATA
66 CATGATCCGATA
* * * *
6188357 TAGACTGGTTGGAAT-AAGAACCAGCTAGGGTATCGGTTCAGTGAGAGGTAAAAAATTGATTAAC
1 TAGACTGATTGG-ATCAAGAACCAGCTAGGGTATCAGTTCAGTGAGAGGGAAAAAACTGATTAAC
6188421 CCATGA
65 CCATGA
6188427 ATCGGTACGG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
77 57 0.97
78 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (77 bp):
TAGACTGATTGGATCAAGAACCAGCTAGGGTATCAGTTCAGTGAGAGGGAAAAAACTGATTAACC
CATGATCCGATA
Found at i:6194905 original size:40 final size:39
Alignment explanation
Indices: 6194850--6194928 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 39
6194840 TTGCACTTTT
6194850 GTCTTCGCTTTTTTGATCTTTTGTGTCGAGTGGTTCGAG
1 GTCTTCGCTTTTTTGATCTTTTGTGTCGAGTGGTTCGAG
6194889 NGTCTTCGCTTTTTTGATCTTTTGTGTCGAGTGGTTCGAG
1 -GTCTTCGCTTTTTTGATCTTTTGTGTCGAGTGGTTCGAG
6194929 CAACGGTGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.08, C:0.15, G:0.28, T:0.48
Consensus pattern (39 bp):
GTCTTCGCTTTTTTGATCTTTTGTGTCGAGTGGTTCGAG
Found at i:6212594 original size:98 final size:98
Alignment explanation
Indices: 6212425--6213097 Score: 1033
Period size: 98 Copynumber: 6.9 Consensus size: 98
6212415 AATCATAGTC
6212425 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
1 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
*
6212490 AAGCTACAACAGTGAATCTCACTTCCCCGACAT
66 AAGCTACAACAGCGAATCTCACTTCCCCGACAT
* * *
6212523 TGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGACGTAGCGGAGCAGATTG
1 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
* *
6212588 AAGCTACAACAGCGAATCTCACTTCCCTGATAT
66 AAGCTACAACAGCGAATCTCACTTCCCCGACAT
* *
6212621 TGCAATTTAAAAGATCGAAGCCACAGCGGCGAATCTTACTTCTGGCGATACAGCGGAGCAGATTG
1 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
* *
6212686 AAGCTACAACAGCGAATATCACTTCCCTGACAT
66 AAGCTACAACAGCGAATCTCACTTCCCCGACAT
* * * **
6212719 TGCAATTTAAAAGATCGAAGCCACAGCGGTGAATCTTACTTGTGGCGATATAGCGGAGCAGATTG
1 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
6212784 AAGCTACAACAGCGAATCTCACTTCCCCGACAT
66 AAGCTACAACAGCGAATCTCACTTCCCCGACAT
* * *
6212817 TGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTACTTTTGGCGATGCAGTGGAGCAGATTG
1 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
* *
6212882 AAGCTACAACAGTGAATCTCACTTCCCTGACAT
66 AAGCTACAACAGCGAATCTCACTTCCCCGACAT
* * * * *
6212915 TGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTTTGGCGATGCAGTGGAACAGATTG
1 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
* * *
6212980 AAGTTACAACGGCGAACCTCACTTCCCCGACAT
66 AAGCTACAACAGCGAATCTCACTTCCCCGACAT
* * *
6213013 TGCAATTTAAAAGATCGAAGCCACAACGGCAAATCTTACTTCCAGGCGATGCAGCGGAACAGATT
1 TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTT-CTGGCGATGCAGCGGAGCAGATT
*
6213078 GAAGCCT-CAACGGCGAATCT
65 GAAG-CTACAACAGCGAATCT
6213098 TTTCCTCGGC
Statistics
Matches: 535, Mismatches: 38, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
98 498 0.93
99 36 0.07
100 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (98 bp):
TGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCTGGCGATGCAGCGGAGCAGATTG
AAGCTACAACAGCGAATCTCACTTCCCCGACAT
Found at i:6214477 original size:3 final size:3
Alignment explanation
Indices: 6214469--6214578 Score: 220
Period size: 3 Copynumber: 36.7 Consensus size: 3
6214459 GAATTAGTCC
6214469 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6214517 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6214565 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
6214579 NNNNNNNNNN
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 107 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6214800 original size:22 final size:23
Alignment explanation
Indices: 6214747--6214800 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
6214737 AAATATACTT
*
6214747 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
6214770 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
6214792 TATATATAT
1 TATATATAT
6214801 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:6216765 original size:36 final size:36
Alignment explanation
Indices: 6216718--6216790 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
6216708 TAATTGCTGT
6216718 TGCTGATGACTGGAACCGTGACGGAGCTATGACAGC
1 TGCTGATGACTGGAACCGTGACGGAGCTATGACAGC
6216754 TGCTGATGACTGGAACCGTGACGGAGCTATGACAGC
1 TGCTGATGACTGGAACCGTGACGGAGCTATGACAGC
6216790 T
1 T
6216791 CCCATGATCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.21
Consensus pattern (36 bp):
TGCTGATGACTGGAACCGTGACGGAGCTATGACAGC
Found at i:6216881 original size:28 final size:29
Alignment explanation
Indices: 6216820--6216881 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
6216810 AAATTTTAGA
6216820 GGAAAAAAAGGGAGAAAAGAGATTTTTTT
1 GGAAAAAAAGGGAGAAAAGAGATTTTTTT
* *
6216849 -TAAAACAAAGGG-GAAATGA-ATTTTTTT
1 GGAAAA-AAAGGGAGAAAAGAGATTTTTTT
6216876 GGAAAA
1 GGAAAA
6216882 TTTTAACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 8 0.29
28 14 0.50
29 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (29 bp):
GGAAAAAAAGGGAGAAAAGAGATTTTTTT
Found at i:6231912 original size:9 final size:9
Alignment explanation
Indices: 6231898--6231934 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
6231888 TATAGTTTGA
6231898 TATTCGAAT
1 TATTCGAAT
6231907 TATTCGAAT
1 TATTCGAAT
*
6231916 TATTCGAGT
1 TATTCGAAT
6231925 TATTCGAAT
1 TATTCGAAT
6231934 T
1 T
6231935 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:6235535 original size:21 final size:24
Alignment explanation
Indices: 6235497--6235545 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
6235487 ATTTCTTTGG
6235497 TTTTTTTAATACATCATATCTA-AA
1 TTTTTTTAATA-ATCATATCTATAA
*
6235521 TTTTTTTAAT-A-CATATTTATAA
1 TTTTTTTAATAATCATATCTATAA
6235543 TTT
1 TTT
6235546 GATCAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 7 0.30
22 6 0.26
24 10 0.43
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTTTAATAATCATATCTATAA
Found at i:6239245 original size:19 final size:19
Alignment explanation
Indices: 6239213--6239260 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6239203 ATTTGAAATT
* *
6239213 AAAAATATATAAAATATATA
1 AAAAATAGA-AAAATATAAA
*
6239233 AATAATAGAAAAATATAAA
1 AAAAATAGAAAAATATAAA
6239252 AAAAATAGA
1 AAAAATAGA
6239261 TGAAGAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAAATAGAAAAATATAAA
Found at i:6246907 original size:17 final size:17
Alignment explanation
Indices: 6246885--6246926 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
6246875 GAATTTTGGG
*
6246885 CCCACACGCCTGTGTGC
1 CCCACACGCCTATGTGC
6246902 CCCACACGCCTATGTGC
1 CCCACACGCCTATGTGC
6246919 CCCACACG
1 CCCACACG
6246927 ACCCAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.50, G:0.19, T:0.14
Consensus pattern (17 bp):
CCCACACGCCTATGTGC
Found at i:6246943 original size:20 final size:20
Alignment explanation
Indices: 6246918--6246958 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
6246908 CGCCTATGTG
6246918 CCCCACACGACCCAAATTAC
1 CCCCACACGACCCAAATTAC
6246938 CCCCACACGACCCAAATTAC
1 CCCCACACGACCCAAATTAC
6246958 C
1 C
6246959 TTACCTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.51, G:0.05, T:0.10
Consensus pattern (20 bp):
CCCCACACGACCCAAATTAC
Found at i:6247020 original size:28 final size:28
Alignment explanation
Indices: 6246962--6247020 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
6246952 AATTACCTTA
*
6246962 CCTGTATGGCCCACACGACCCACACATG
1 CCTGTATGGCCCACACGACCCACAAATG
* * *
6246990 CCTGTGTGGTCCACACGGCCCA-AAATAG
1 CCTGTATGGCCCACACGACCCACAAAT-G
6247018 CCT
1 CCT
6247021 AGACCGTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 3 0.12
28 23 0.88
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.17
Consensus pattern (28 bp):
CCTGTATGGCCCACACGACCCACAAATG
Found at i:6247333 original size:30 final size:30
Alignment explanation
Indices: 6247293--6247394 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
6247283 AAAAAAATAA
* *
6247293 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
6247323 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
6247353 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
6247383 AAATTTCATTTT
1 AAATTTCATTTT
6247395 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 4 0.06
30 58 0.94
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:6247974 original size:17 final size:18
Alignment explanation
Indices: 6247954--6248000 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
6247944 GAGGTTTTTG
*
6247954 AAAAAACAAAGC-AGCAA
1 AAAAAACAAAACAAGCAA
6247971 AAAAAACAAAACAAAGCAA
1 AAAAAACAAAAC-AAGCAA
*
6247990 AAAAAATAAAA
1 AAAAAACAAAA
6248001 TGACGGCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.79, C:0.13, G:0.06, T:0.02
Consensus pattern (18 bp):
AAAAAACAAAACAAGCAA
Found at i:6247984 original size:22 final size:20
Alignment explanation
Indices: 6247956--6247995 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
6247946 GGTTTTTGAA
6247956 AAAACAAAGCAGCAAAAAAAAC
1 AAAACAAAGCA--AAAAAAAAC
6247978 AAAACAAAGCAAAAAAAA
1 AAAACAAAGCAAAAAAAA
6247996 TAAAATGACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.78, C:0.15, G:0.07, T:0.00
Consensus pattern (20 bp):
AAAACAAAGCAAAAAAAAAC
Found at i:6248022 original size:117 final size:116
Alignment explanation
Indices: 6247885--6248117 Score: 457
Period size: 117 Copynumber: 2.0 Consensus size: 116
6247875 TGAAGGAGGC
6247885 GACGGCTTGGGGCTAAGGTGCGGCAGTGAAGAAGAAAGGAAAAAGAAAAAGGAAAGAAAGAGGTT
1 GACGGCTTGGGGCTAAGGTGCGGCAGTGAAGAAGAAAGGAAAAAGAAAAAGGAAAGAAAGAGGTT
6247950 TTTGAAAAAACAAAGCAGCAAAAAAAACAAAACAAAGCAAAAAAAATAAAAT
66 TTTG-AAAAACAAAGCAGCAAAAAAAACAAAACAAAGCAAAAAAAATAAAAT
6248002 GACGGCTTGGGGCTAAGGTGCGGCAGTGAAGAAGAAAGGAAAAAGAAAAAGGAAAGAAAGAGGTT
1 GACGGCTTGGGGCTAAGGTGCGGCAGTGAAGAAGAAAGGAAAAAGAAAAAGGAAAGAAAGAGGTT
6248067 TTTGAAAAACAAAGCAGCAAAAAAAACAAAACAAAGCAAAAAAAATAAAAT
66 TTTGAAAAACAAAGCAGCAAAAAAAACAAAACAAAGCAAAAAAAATAAAAT
6248118 AGAAGCAGGC
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
116 47 0.41
117 69 0.59
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.10
Consensus pattern (116 bp):
GACGGCTTGGGGCTAAGGTGCGGCAGTGAAGAAGAAAGGAAAAAGAAAAAGGAAAGAAAGAGGTT
TTTGAAAAACAAAGCAGCAAAAAAAACAAAACAAAGCAAAAAAAATAAAAT
Found at i:6248091 original size:17 final size:18
Alignment explanation
Indices: 6248071--6248116 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
6248061 GAGGTTTTTG
*
6248071 AAAAACAAAGC-AGCAAA
1 AAAAACAAAACAAGCAAA
6248088 AAAAACAAAACAAAGCAAA
1 AAAAACAAAAC-AAGCAAA
*
6248107 AAAAATAAAA
1 AAAAACAAAA
6248117 TAGAAGCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
19 15 0.60
ACGTcount: A:0.78, C:0.13, G:0.07, T:0.02
Consensus pattern (18 bp):
AAAAACAAAACAAGCAAA
Found at i:6248100 original size:22 final size:20
Alignment explanation
Indices: 6248072--6248111 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
6248062 AGGTTTTTGA
6248072 AAAACAAAGCAGCAAAAAAAAC
1 AAAACAAAGCA--AAAAAAAAC
6248094 AAAACAAAGCAAAAAAAA
1 AAAACAAAGCAAAAAAAA
6248112 TAAAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.78, C:0.15, G:0.07, T:0.00
Consensus pattern (20 bp):
AAAACAAAGCAAAAAAAAAC
Found at i:6248443 original size:15 final size:16
Alignment explanation
Indices: 6248425--6248454 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6248415 TAATTTAGTT
6248425 TTATTT-ATTTAAATA
1 TTATTTCATTTAAATA
6248440 TTATTTCATTTAAAT
1 TTATTTCATTTAAAT
6248455 TTAACTAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATTTCATTTAAATA
Found at i:6254548 original size:20 final size:20
Alignment explanation
Indices: 6254523--6254586 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
6254513 CTCTACTTCA
6254523 AGCTCATTCAGCTCAACTTT
1 AGCTCATTCAGCTCAACTTT
* *** *
6254543 AGCTCATTGAGCTTGTCCTT
1 AGCTCATTCAGCTCAACTTT
* *
6254563 AGCTTATTCAGCTCAACTTC
1 AGCTCATTCAGCTCAACTTT
6254583 AGCT
1 AGCT
6254587 TATCTTAACT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.28, G:0.14, T:0.36
Consensus pattern (20 bp):
AGCTCATTCAGCTCAACTTT
Found at i:6264498 original size:21 final size:19
Alignment explanation
Indices: 6264474--6264525 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
6264464 TTTTTTGTGG
6264474 AATCAAAGTTTTCTTTAAAAA
1 AATCAAAGTTTTCTTT--AAA
* *
6264495 AATCACTA-CTTTCTTTAAA
1 AATCA-AAGTTTTCTTTAAA
6264514 AATCAAAGTTTT
1 AATCAAAGTTTT
6264526 ATTTCGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.44
21 12 0.48
22 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.04, T:0.40
Consensus pattern (19 bp):
AATCAAAGTTTTCTTTAAA
Found at i:6264755 original size:147 final size:146
Alignment explanation
Indices: 6264513--6264792 Score: 406
Period size: 147 Copynumber: 1.9 Consensus size: 146
6264503 CTTTCTTTAA
* * *
6264513 AAATCAAAGTTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAAAAATTTAAATTT
1 AAATCAAAGTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAAATTTAAATAT
*
6264578 TTCCTTAAAAATGACTAAAAAACATATTTTTA-TTTCAACAATCTAAACTTTCTCTTTTTTTAAA
66 TTCCTTAAAAATGACTAAAAAACATATTTTTATTTTCAA-AATCTAAACTTTCCCTTTTTTTAAA
6264642 AAAATATTATTTTTTTT
130 AAAATATTATTTTTTTT
* *
6264659 AAATCAAAGCTTTTATTTCGAAATAGTTAAAAAAAATCATAACTTTGTTTT-AAAATTTTAAA-A
1 AAATCAAAG-TTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAAATTTAAATA
** *
6264722 TTTCCTTTGAAATGACTAAAAAA-ATATTTTTTTTATTTTTAAAATCTAAACTTTCCCTTTTTTT
65 TTTCCTTAAAAATGACTAAAAAACATA---TTTTTATTTTCAAAATCTAAACTTTCCCTTTTTTT
6264786 AAAAAAA
127 AAAAAAA
6264793 ATTCTCAAGA
Statistics
Matches: 120, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
144 3 0.03
145 21 0.17
146 19 0.16
147 72 0.60
148 5 0.04
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.44
Consensus pattern (146 bp):
AAATCAAAGTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTTAAAAAATTTAAATAT
TTCCTTAAAAATGACTAAAAAACATATTTTTATTTTCAAAATCTAAACTTTCCCTTTTTTTAAAA
AAATATTATTTTTTTT
Found at i:6265124 original size:3 final size:3
Alignment explanation
Indices: 6265118--6265165 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
6265108 GTAAAAAAAG
* * * *
6265118 ATA ATA ATA ATA TTTA ATA ATA ATA GTA ATG ATA ATG ATA ATA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6265164 AT
1 AT
6265166 TTGAGCCCTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
3 34 0.94
4 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:6274738 original size:66 final size:66
Alignment explanation
Indices: 6274656--6274785 Score: 242
Period size: 66 Copynumber: 2.0 Consensus size: 66
6274646 GTCTAGATCC
*
6274656 GGGTTTTCGCATCAGTTGGTATCAGTTTCAAGCCATTCAGTGTTATTTTTTAAGCTAAAAAAAAA
1 GGGTTTTCGCATCAGTTGGTATCAGTTTCAAGCCATTCAGTGTTATTTTTGAAGCTAAAAAAAAA
6274721 G
66 G
*
6274722 GGGTTTTCGCATCAGTTGGTATCAGTTTCAGGCCATTCAGTGTTATTTTTGAAGCTAAAAAAAA
1 GGGTTTTCGCATCAGTTGGTATCAGTTTCAAGCCATTCAGTGTTATTTTTGAAGCTAAAAAAAA
6274786 GTTGCCTACC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (66 bp):
GGGTTTTCGCATCAGTTGGTATCAGTTTCAAGCCATTCAGTGTTATTTTTGAAGCTAAAAAAAAA
G
Found at i:6296794 original size:100 final size:100
Alignment explanation
Indices: 6296621--6296812 Score: 375
Period size: 100 Copynumber: 1.9 Consensus size: 100
6296611 CAAAGCTTAC
6296621 CAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGTACTTACCTTTTCC
1 CAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGTACTTACCTTTTCC
*
6296686 GCTGTCCAAAATTGACTCGGTAAAGTCCCACTCTT
66 GCTGTCCAAAATCGACTCGGTAAAGTCCCACTCTT
6296721 CAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGTACTTACCTTTTCC
1 CAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGTACTTACCTTTTCC
6296786 GCTGTCCAAAATCGACTCGGTAAAGTC
66 GCTGTCCAAAATCGACTCGGTAAAGTC
6296813 GCACCCTTAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.26
Consensus pattern (100 bp):
CAAGCTCAACTCCAAATATAAACATAGCGCCTATTAGCCATGAACTCAAGGTACTTACCTTTTCC
GCTGTCCAAAATCGACTCGGTAAAGTCCCACTCTT
Found at i:6296947 original size:29 final size:29
Alignment explanation
Indices: 6296884--6296951 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
6296874 TAATCAACCG
6296884 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
6296913 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
6296942 CGCACACTTA
1 CGCACACTTA
6296952 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:6297063 original size:174 final size:174
Alignment explanation
Indices: 6296773--6297100 Score: 638
Period size: 174 Copynumber: 1.9 Consensus size: 174
6296763 AACTCAAGGT
6296773 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
6296838 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
6296903 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
6296947 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
6297012 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
6297077 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
6297101 TGTACAATTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
174 152 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:6297092 original size:29 final size:30
Alignment explanation
Indices: 6297053--6297131 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
6297043 CTTAATAATC
6297053 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
6297083 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
6297112 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
6297132 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:6305350 original size:17 final size:17
Alignment explanation
Indices: 6305325--6305378 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
6305315 TCTCTTTTCA
*
6305325 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
* * *
6305342 TTCTTTTTTTATCATTT
1 TTCTTTTTTTTTGAATT
* *
6305359 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
6305376 TTC
1 TTC
6305379 GCTCTTTTCT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.74
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:6307755 original size:13 final size:13
Alignment explanation
Indices: 6307737--6307775 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
6307727 AAACCGTATG
6307737 CAATTTTTTTTTT
1 CAATTTTTTTTTT
6307750 CAA-TTTTTTTTT
1 CAATTTTTTTTTT
6307762 CGAACTTTTTTTTT
1 C-AA-TTTTTTTTT
6307776 ACGCACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.43
13 5 0.22
15 8 0.35
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:6307758 original size:12 final size:14
Alignment explanation
Indices: 6307741--6307775 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
6307731 CGTATGCAAT
6307741 TTTTTTTTTC-AA-
1 TTTTTTTTTCGAAC
6307753 TTTTTTTTTCGAAC
1 TTTTTTTTTCGAAC
6307767 TTTTTTTTT
1 TTTTTTTTT
6307776 ACGCACCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.11, C:0.09, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTTTTTTCGAAC
Found at i:6308092 original size:24 final size:23
Alignment explanation
Indices: 6308038--6308115 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
6308028 GGATAATTAA
**
6308038 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
6308061 GCTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
6308085 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
6308106 GAAATAGTAT
1 GAAATGGTAT
6308116 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:6308100 original size:21 final size:21
Alignment explanation
Indices: 6308074--6308135 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
6308064 TTGGTATTTG
6308074 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
6308095 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
6308116 GGTATTTGGTACGAATTGGT
1 GG-AATTGGTACGAAATGGT
6308136 TATGATTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 21 0.62
22 13 0.38
ACGTcount: A:0.31, C:0.03, G:0.32, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:6312369 original size:17 final size:17
Alignment explanation
Indices: 6312344--6312397 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
6312334 TCTCTTTTCA
*
6312344 TTCTCTTTTTTTGAATT
1 TTCTTTTTTTTTGAATT
* * *
6312361 TTCTTTTTTTATCATTT
1 TTCTTTTTTTTTGAATT
* *
6312378 TTCTTTTCTTTTGTATT
1 TTCTTTTTTTTTGAATT
6312395 TTC
1 TTC
6312398 GCTCTTTTCT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.74
Consensus pattern (17 bp):
TTCTTTTTTTTTGAATT
Found at i:6314629 original size:13 final size:13
Alignment explanation
Indices: 6314611--6314649 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 13
6314601 AAACCGTATG
6314611 CAATTTTTTTTTT
1 CAATTTTTTTTTT
6314624 CAA-TTTTTTTTT
1 CAATTTTTTTTTT
6314636 CGAACTTTTTTTTT
1 C-AA-TTTTTTTTT
6314650 ACGCACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.43
13 5 0.22
15 8 0.35
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (13 bp):
CAATTTTTTTTTT
Done.