Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 64 of 199
Found at i:18196085 original size:9 final size:9
Alignment explanation
Indices: 18196072--18196138 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
18196062 TTTGGTTAAA
*
18196072 AATTAACCA
1 AATTAACCG
18196081 AATTAACCG
1 AATTAACCG
*
18196090 AATTACCCG
1 AATTAACCG
18196099 AATTAACCG
1 AATTAACCG
*
18196108 AATTACCCG
1 AATTAACCG
18196117 AATTAACCG
1 AATTAACCG
*
18196126 AATTAACCA
1 AATTAACCG
18196135 AATT
1 AATT
18196139 GAATCACTAC
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:18196917 original size:18 final size:18
Alignment explanation
Indices: 18196894--18196936 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18196884 CGCCAGGTGC
* *
18196894 GTATCCTAGCCCTTATAT
1 GTATCCTAACCATTATAT
18196912 GTATCCTAACCATTATAT
1 GTATCCTAACCATTATAT
*
18196930 GTTTCCT
1 GTATCCT
18196937 TTTTCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:18197385 original size:25 final size:25
Alignment explanation
Indices: 18197351--18197398 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
18197341 AATAAAATAA
*
18197351 AATTTGTTTTTA-ATATTTTAATAGT
1 AATTTATTTTTATAT-TTTTAATAGT
18197376 AATTTATTTTTATATTTTTAATA
1 AATTTATTTTTATATTTTTAATA
18197399 TATTTGTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
AATTTATTTTTATATTTTTAATAGT
Found at i:18197476 original size:25 final size:25
Alignment explanation
Indices: 18197442--18197489 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
18197432 TAATAAAATA
*
18197442 AATTTGTTTTTAATATTT-TAATAGT
1 AATTTATTTTT-ATATTTCTAATAGT
18197467 AATTTATTTTTATATTTCTAATA
1 AATTTATTTTTATATTTCTAATA
18197490 AAATAGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
AATTTATTTTTATATTTCTAATAGT
Found at i:18197531 original size:8 final size:9
Alignment explanation
Indices: 18197515--18197544 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18197505 TGAATAAGGC
18197515 AATATTTTT
1 AATATTTTT
18197524 AATATTTTT
1 AATATTTTT
18197533 -ATATTTTT
1 AATATTTTT
18197541 AATA
1 AATA
18197545 AAATAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
AATATTTTT
Found at i:18200722 original size:16 final size:15
Alignment explanation
Indices: 18200689--18200720 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18200679 CAAAACTGTC
18200689 TTCTCAAAATTATTT
1 TTCTCAAAATTATTT
*
18200704 TTCTCATAATTATTT
1 TTCTCAAAATTATTT
18200719 TT
1 TT
18200721 TCAGGAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.59
Consensus pattern (15 bp):
TTCTCAAAATTATTT
Found at i:18201003 original size:34 final size:33
Alignment explanation
Indices: 18200923--18201051 Score: 123
Period size: 34 Copynumber: 3.8 Consensus size: 33
18200913 CTAAACACAA
* * *
18200923 AATTATTTATAAAAAACTTAAACCATAATTTAATT
1 AATT-TTT-TAAAAACCCTAAACCCTAATTTAATT
* * *
18200958 AATTCTCTTAAAACCCCTAATCCCTAATTTAATT
1 AATT-TTTTAAAAACCCTAAACCCTAATTTAATT
* * * *
18200992 AATTTATTTAAAATCCCAAAAACTTAATTTAATT
1 AATTT-TTTAAAAACCCTAAACCCTAATTTAATT
*
18201026 AATTTTTAAAAAACCCTAAACCCTAA
1 AATTTTTTAAAAACCCTAAACCCTAA
18201052 ACCTACCAAA
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
33 17 0.23
34 52 0.69
35 6 0.08
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (33 bp):
AATTTTTTAAAAACCCTAAACCCTAATTTAATT
Found at i:18203467 original size:2 final size:2
Alignment explanation
Indices: 18203462--18203508 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
18203452 ATATATAAAT
*
18203462 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18203504 AG AG A
1 AG AG A
18203509 AATAGTATAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18211464 original size:11 final size:11
Alignment explanation
Indices: 18211448--18211473 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18211438 ATTTTTTAAA
18211448 TTTTAAAATAC
1 TTTTAAAATAC
18211459 TTTTAAAATAC
1 TTTTAAAATAC
18211470 TTTT
1 TTTT
18211474 TTTTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:18211485 original size:49 final size:50
Alignment explanation
Indices: 18211426--18211537 Score: 140
Period size: 49 Copynumber: 2.3 Consensus size: 50
18211416 AATAAATATA
* **
18211426 TTTAATTTTTAAATTTTTTAA-A-TTTTAAAATACTTTTAAAATACTTTTT
1 TTTATTTTTTAAATTTTAAAATATTTTTAAAATA-TTTTAAAATACTTTTT
*
18211475 TTTATTTTTT-AATTTTAAAATATTTTTAAGATATTTTAAAATACTTTTT
1 TTTATTTTTTAAATTTTAAAATATTTTTAAAATATTTTAAAATACTTTTT
* *
18211524 TTAATTTTTAAAAT
1 TTTATTTTTTAAAT
18211538 AAATTTTTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
48 8 0.15
49 34 0.63
50 12 0.22
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (50 bp):
TTTATTTTTTAAATTTTAAAATATTTTTAAAATATTTTAAAATACTTTTT
Found at i:18211523 original size:39 final size:40
Alignment explanation
Indices: 18211432--18211538 Score: 105
Period size: 39 Copynumber: 2.7 Consensus size: 40
18211422 TATATTTAAT
*
18211432 TTTTAAAT--TTTTTAAATTTTAAAATACTTTTAAAATAC
1 TTTTAAATACTTTTTTAATTTTAAAATACTTTTAAAATAC
*** * *
18211470 TTTTTTTTA-TTTTTTAATTTTAAAATATTTTTAAGATA-
1 TTTTAAATACTTTTTTAATTTTAAAATACTTTTAAAATAC
18211508 TTTTAAAATACTTTTTTTAATTTTTAAAATA
1 TTTT-AAATAC-TTTTTTAA-TTTTAAAATA
18211539 AATTTTTGGT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
38 9 0.16
39 28 0.51
41 8 0.15
42 10 0.18
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (40 bp):
TTTTAAATACTTTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:18211532 original size:21 final size:19
Alignment explanation
Indices: 18211477--18211538 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 19
18211467 TACTTTTTTT
18211477 TATTTTTTAA-TTTTAAAA
1 TATTTTTTAATTTTTAAAA
*
18211495 TATTTTTAAGATATTTTAAAA
1 TATTTTTTA-AT-TTTTAAAA
18211516 TACTTTTTTTAATTTTTAAAA
1 TA--TTTTTTAATTTTTAAAA
18211537 TA
1 TA
18211539 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
18 8 0.22
19 1 0.03
21 20 0.54
22 2 0.05
23 6 0.16
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TATTTTTTAATTTTTAAAA
Found at i:18211544 original size:21 final size:20
Alignment explanation
Indices: 18211478--18211545 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 20
18211468 ACTTTTTTTT
18211478 ATTTTTTAA-TTTTAAAAT-
1 ATTTTTTAATTTTTAAAATA
*
18211496 ATTTTTAAGATATTTTAAAATA
1 ATTTTTTA-AT-TTTTAAAATA
*
18211518 CTTTTTTTAATTTTTAAAATAA
1 -ATTTTTTAATTTTTAAAAT-A
18211540 ATTTTT
1 ATTTTT
18211546 GGTATTTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 7 0.17
19 1 0.03
21 23 0.57
22 3 0.08
23 6 0.15
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
ATTTTTTAATTTTTAAAATA
Found at i:18220765 original size:41 final size:39
Alignment explanation
Indices: 18220693--18220835 Score: 108
Period size: 41 Copynumber: 3.5 Consensus size: 39
18220683 AAAACAGATT
* * * * *
18220693 CACCGGCATTTAGCCTGTTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCA-TTAGCCTGCTAGACATATAGCCTGAAT-AGTA
* *
18220734 CACCGGCACTTAGCCTGCTAGACATATAGCCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGCCTG-AATAGTA
* * *
18220775 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGT-GTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGCCTGAA-TAG-TA
*
18220816 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
18220836 AGCGCTAAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
40 4 0.05
41 77 0.91
42 4 0.05
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (39 bp):
CACCGGCATTAGCCTGCTAGACATATAGCCTGAATAGTA
Found at i:18220850 original size:41 final size:41
Alignment explanation
Indices: 18220734--18220851 Score: 123
Period size: 41 Copynumber: 2.9 Consensus size: 41
18220724 TGATTCAGTA
* *
18220734 CACCGGCACTTAGCCTGCTAGACA-TATAGCCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAATATTT
* * * * * *
18220775 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAATATTT
*
18220816 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAAA
18220852 ATCTCACTTT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.02
41 61 0.97
42 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAATATTT
Found at i:18222441 original size:13 final size:13
Alignment explanation
Indices: 18222423--18222447 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18222413 CAATCAAATG
18222423 CACACAAAATAAA
1 CACACAAAATAAA
18222436 CACACAAAATAA
1 CACACAAAATAA
18222448 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:18236880 original size:21 final size:21
Alignment explanation
Indices: 18236851--18236890 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
18236841 ATAATTATGC
18236851 AAAAAAATTA-AAAATATCGT
1 AAAAAAATTATAAAATATCGT
*
18236871 AAAAACAATTATCAAATATC
1 AAAAA-AATTATAAAATATC
18236891 ATATTTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.25
Consensus pattern (21 bp):
AAAAAAATTATAAAATATCGT
Found at i:18237262 original size:16 final size:16
Alignment explanation
Indices: 18237243--18237273 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18237233 AAATTGTTAT
*
18237243 CTTTTTAATTTAATCC
1 CTTTATAATTTAATCC
18237259 CTTTATAATTTAATC
1 CTTTATAATTTAATC
18237274 ACAATTATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (16 bp):
CTTTATAATTTAATCC
Found at i:18237519 original size:21 final size:21
Alignment explanation
Indices: 18237473--18237521 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
18237463 AATTTTTGCT
*
18237473 TAATTTTAAAAATTAATTTTA
1 TAATTTTAAAAATTAATATTA
18237494 TAATTTTAGAAAA-TAA-ATTA
1 TAATTTTA-AAAATTAATATTA
18237514 TGAATTTT
1 T-AATTTT
18237522 TAGATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (21 bp):
TAATTTTAAAAATTAATATTA
Found at i:18240483 original size:12 final size:13
Alignment explanation
Indices: 18240468--18240582 Score: 55
Period size: 12 Copynumber: 9.0 Consensus size: 13
18240458 AAATTTATTT
18240468 TAAAAA-TTAAAA
1 TAAAAATTTAAAA
18240480 TAAAAATTTAAAA
1 TAAAAATTTAAAA
* *
18240493 -AAAGTATTTTAAA
1 TAAA-AATTTAAAA
* *
18240506 -AATATTTTAAAA
1 TAAAAATTTAAAA
*
18240518 TTAAAAAAATTAAAA
1 -T-AAAAATTTAAAA
* *
18240533 -AAAGTATTT-TAA
1 TAAA-AATTTAAAA
18240545 -AAAAATTTAAAA
1 TAAAAATTTAAAA
*
18240557 -AAAATTTTAAAA
1 TAAAAATTTAAAA
*
18240569 TTAAAAAATTAAAA
1 -TAAAAATTTAAAA
18240583 AAAGTATTTT
Statistics
Matches: 77, Mismatches: 17, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
11 4 0.05
12 36 0.47
13 18 0.23
14 10 0.13
15 9 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
TAAAAATTTAAAA
Found at i:18240495 original size:11 final size:11
Alignment explanation
Indices: 18240469--18240568 Score: 59
Period size: 11 Copynumber: 9.1 Consensus size: 11
18240459 AATTTATTTT
*
18240469 AAAAATTAAAA
1 AAAAATTTAAA
18240480 TAAAAATTTAAA
1 -AAAAATTTAAA
*
18240492 AAAAGTATTTTAA
1 AAAA--ATTTAAA
*
18240505 AAATATTT---
1 AAAAATTTAAA
*
18240513 TAAAA-TT-AA
1 AAAAATTTAAA
18240522 AAAAA-TTAAA
1 AAAAATTTAAA
*
18240532 AAAAGTATTTTAA
1 AAAA--ATTTAAA
18240545 AAAAATTTAAA
1 AAAAATTTAAA
18240556 AAAAATTTTAAA
1 AAAAA-TTTAAA
18240568 A
1 A
18240569 TTAAAAAATT
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
7 2 0.03
8 3 0.04
9 6 0.08
10 6 0.08
11 19 0.27
12 18 0.25
13 17 0.24
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
AAAAATTTAAA
Found at i:18240534 original size:39 final size:39
Alignment explanation
Indices: 18240474--18240624 Score: 142
Period size: 40 Copynumber: 3.6 Consensus size: 39
18240464 ATTTTAAAAA
*
18240474 TTAAAA-TAAAAATTTAAAAAAAGTATTTTAAAAATATT
1 TTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAATATT
*
18240512 TTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAAAATT
1 TTAAAATT-AAAAAATTAAAAAAAGTATTTTAAAAATATT
* *
18240552 TAAAAAAAATTTTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAGTATT
1 T---TAAAA--TT--AA--AAA--ATTAAAAAAAGTATTTTAAAAATATT
*
18240602 TTAAAATTAAAAAATAAAAAAAA
1 TTAAAATTAAAAAATTAAAAAAA
18240625 TAAAAAAATT
Statistics
Matches: 94, Mismatches: 7, Indels: 23
0.76 0.06 0.19
Matches are distributed among these distances:
38 6 0.06
39 10 0.11
40 30 0.32
41 3 0.03
43 6 0.06
45 4 0.04
46 3 0.03
47 4 0.04
48 3 0.03
50 25 0.27
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (39 bp):
TTAAAATTAAAAAATTAAAAAAAGTATTTTAAAAATATT
Found at i:18240547 original size:23 final size:23
Alignment explanation
Indices: 18240518--18240596 Score: 90
Period size: 23 Copynumber: 3.3 Consensus size: 23
18240508 TATTTTAAAA
18240518 TTAAAAAAATTAAAAAAAGTATT
1 TTAAAAAAATTAAAAAAAGTATT
18240541 TTAAAAAAATTTAAAAAAA--ATT
1 TTAAAAAAA-TTAAAAAAAGTATT
18240563 TTAAAATTAAAAAATTAAAAAAAGTATT
1 TT---A--AAAAAATTAAAAAAAGTATT
18240591 TTAAAA
1 TTAAAA
18240597 GTATTTTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
22 5 0.10
23 12 0.25
24 9 0.19
25 2 0.04
26 9 0.19
27 6 0.12
28 5 0.10
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (23 bp):
TTAAAAAAATTAAAAAAAGTATT
Found at i:18240575 original size:50 final size:54
Alignment explanation
Indices: 18240469--18240596 Score: 178
Period size: 50 Copynumber: 2.5 Consensus size: 54
18240459 AATTTATTTT
* * *
18240469 AAAAATTAAAATAAA--AATTTAAAAAAAGTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTAAAA-AAAGTATTTTAAAAAAAGTATTATAAAAAAATTTTAAAATTAA
18240522 AAAAATTAAAAAAAGTATTTTAAAAAAA-T-TTA-AAAAAAATTTTAAAATT-A
1 AAAAATTAAAAAAAGTATTTTAAAAAAAGTATTATAAAAAAATTTTAAAATTAA
18240572 AAAAATTAAAAAAAGTATTTTAAAA
1 AAAAATTAAAAAAAGTATTTTAAAA
18240597 GTATTTTAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
50 26 0.37
51 16 0.23
52 5 0.07
53 12 0.17
54 11 0.16
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (54 bp):
AAAAATTAAAAAAAGTATTTTAAAAAAAGTATTATAAAAAAATTTTAAAATTAA
Found at i:18240596 original size:11 final size:11
Alignment explanation
Indices: 18240582--18240607 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18240572 AAAAATTAAA
18240582 AAAAGTATTTT
1 AAAAGTATTTT
18240593 AAAAGTATTTT
1 AAAAGTATTTT
18240604 AAAA
1 AAAA
18240608 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:18240605 original size:51 final size:52
Alignment explanation
Indices: 18240492--18240607 Score: 184
Period size: 50 Copynumber: 2.3 Consensus size: 52
18240482 AAAATTTAAA
*
18240492 AAAAGTATTTT-AAAAATATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
1 AAAAGTATTTTAAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
* *
18240543 AAAA-AAATTTAAAAAAAATTTTAAAATT-AAAAAATTAAAAAAAGTATTTT
1 AAAAGTATTTTAAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
18240593 AAAAGTATTTTAAAA
1 AAAAGTATTTTAAAA
18240608 TTAAAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 30 0.52
51 28 0.48
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (52 bp):
AAAAGTATTTTAAAAAAAATTTTAAAATTAAAAAAATTAAAAAAAGTATTTT
Found at i:18241208 original size:9 final size:9
Alignment explanation
Indices: 18241194--18241367 Score: 52
Period size: 10 Copynumber: 18.7 Consensus size: 9
18241184 ATAAATTTTA
18241194 ATAAAAAAT
1 ATAAAAAAT
18241203 AT-AAAAAT
1 ATAAAAAAT
* *
18241211 ATTTAAAATT
1 A-TAAAAAAT
*
18241221 ATAAAAACT
1 ATAAAAAAT
18241230 AT-AAAAAT
1 ATAAAAAAT
*
18241238 CTTAAAAAATT
1 -ATAAAAAA-T
*
18241249 ATAAAAATT
1 ATAAAAAAT
* *
18241258 GT-AAAATT
1 ATAAAAAAT
*
18241266 TTATAAAAAT
1 ATA-AAAAAT
*
18241276 A-AAAGAAT
1 ATAAAAAAT
**
18241284 ATAAAAGGT
1 ATAAAAAAT
*
18241293 AT-AGAAAT
1 ATAAAAAAT
*
18241301 ATAGAAAAAA
1 ATA-AAAAAT
*
18241311 ATTATAAAATT
1 A-TA-AAAAAT
* * *
18241322 TTATAAAGT
1 ATAAAAAAT
18241331 CATAAGAAAATT
1 -ATAA-AAAA-T
18241343 ATAAAAAAT
1 ATAAAAAAT
*
18241352 GTAAAGAAAT
1 ATAAA-AAAT
18241362 ATAAAA
1 ATAAAA
18241368 TTCATAAAAA
Statistics
Matches: 119, Mismatches: 31, Indels: 30
0.66 0.17 0.17
Matches are distributed among these distances:
8 30 0.25
9 31 0.26
10 43 0.36
11 14 0.12
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:18241232 original size:27 final size:28
Alignment explanation
Indices: 18241194--18241289 Score: 92
Period size: 27 Copynumber: 3.5 Consensus size: 28
18241184 ATAAATTTTA
*
18241194 ATAAAAAATATAAAAATATT-TAAAATT
1 ATAAAAAATATAAAAATATTAAAAAATT
* *
18241221 ATAAAAACTATAAAAATCTTAAAAAATT
1 ATAAAAAATATAAAAATATTAAAAAATT
* * *
18241249 ATAAAAATTGT-AAAATTTTATAAAAA-T
1 ATAAAAAATATAAAAATATTA-AAAAATT
*
18241276 A-AAAGAATATAAAA
1 ATAAAAAATATAAAA
18241290 GGTATAGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 6 0.11
27 31 0.54
28 20 0.35
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
ATAAAAAATATAAAAATATTAAAAAATT
Found at i:18241262 original size:19 final size:19
Alignment explanation
Indices: 18241194--18241391 Score: 92
Period size: 19 Copynumber: 10.6 Consensus size: 19
18241184 ATAAATTTTA
*
18241194 ATAAAAAATATAAAAATATT
1 ATAAAAATTATAAAAA-ATT
*
18241214 -T-AAAATTAT-AAAAACT
1 ATAAAAATTATAAAAAATT
18241230 ATAAAAATCT-TAAAAAATT
1 ATAAAAAT-TATAAAAAATT
* **
18241249 ATAAAAATTGTAAAATTTT
1 ATAAAAATTATAAAAAATT
*
18241268 ATAAAAA-TA-AAAGAA-T
1 ATAAAAATTATAAAAAATT
** * *
18241284 ATAAAAGGTATAGAAATATAG
1 ATAAAAATTATA-AAAAAT-T
* **
18241305 AAAAAAATTATAAAATTTT
1 ATAAAAATTATAAAAAATT
* *
18241324 AT-AAAGTCATAAGAAAATT
1 ATAAAAATTATAA-AAAATT
* *
18241343 ATAAAAAATGTAAAGAAA-T
1 ATAAAAATTATAAA-AAATT
*
18241362 AT-AAAATTCATAAAAATTT
1 ATAAAAATT-ATAAAAAATT
*
18241381 ATAAAATTTAT
1 ATAAAAATTAT
18241392 CGTATTAAAA
Statistics
Matches: 131, Mismatches: 31, Indels: 33
0.67 0.16 0.17
Matches are distributed among these distances:
16 9 0.07
17 10 0.08
18 31 0.24
19 53 0.40
20 19 0.15
21 9 0.07
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAAATT
Found at i:18241594 original size:19 final size:19
Alignment explanation
Indices: 18241572--18241646 Score: 82
Period size: 19 Copynumber: 4.0 Consensus size: 19
18241562 TTTTTGATGC
18241572 TTTTTATAATTTTTATAAA
1 TTTTTATAATTTTTATAAA
* * *
18241591 -TTTTACAAAATTTTATAAT
1 TTTTTA-TAATTTTTATAAA
* *
18241610 TTTTTACAATTTTTATAAT
1 TTTTTATAATTTTTATAAA
18241629 TTTTTATAATTTTT-TAAA
1 TTTTTATAATTTTTATAAA
18241647 ATAATTTTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
18 8 0.17
19 34 0.72
20 5 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAA
Found at i:18241644 original size:10 final size:9
Alignment explanation
Indices: 18241572--18241642 Score: 79
Period size: 9 Copynumber: 7.6 Consensus size: 9
18241562 TTTTTGATGC
18241572 TTTTTATAA
1 TTTTTATAA
18241581 TTTTTATAA
1 TTTTTATAA
* *
18241590 ATTTTACAAA
1 TTTTTA-TAA
*
18241600 ATTTTATAA
1 TTTTTATAA
*
18241609 TTTTTTACAA
1 -TTTTTATAA
18241619 TTTTTATAA
1 TTTTTATAA
18241628 TTTTTTATAA
1 -TTTTTATAA
18241638 TTTTT
1 TTTTT
18241643 TAAAATAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
9 29 0.55
10 24 0.45
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:18241652 original size:13 final size:13
Alignment explanation
Indices: 18241634--18241668 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
18241624 ATAATTTTTT
18241634 ATAATTTTTTAAA
1 ATAATTTTTTAAA
18241647 ATAATTTTTTAAA
1 ATAATTTTTTAAA
18241660 ATAATTTTT
1 ATAATTTTT
18241669 ATTGATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATAATTTTTTAAA
Found at i:18241924 original size:90 final size:90
Alignment explanation
Indices: 18241795--18242044 Score: 316
Period size: 90 Copynumber: 2.8 Consensus size: 90
18241785 TGGTTAAAGA
* * **
18241795 GTCTTTTTGATGCATTTT-ATAGTTCAAGTACCTAATTGAGTG-AAAAAAAGATTAAGGGCTTAA
1 GTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGAAGAAGGGCTTAA
* *
18241858 TTGATTTTTTTTGAAAAAGTTTGAGG
66 TTG-CTTTTTTTGAAAAAGTTTGAAG
* * * *
18241884 GTCTTTTTAATGCATTTTGAAAATTCAAGTACCCAATTGAGTGCAAAAAAAAAAGAGGGGCTTAA
1 GTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGAAGAAGGGCTTAA
18241949 TTGCTTTTTTTGAAAAAGTTTGAAG
66 TTGCTTTTTTTGAAAAAGTTTGAAG
* * * *
18241974 GCCTTTTTGATGTATTTTGAAAGTTTAAGTACCCAATTAAGTGCAAAAAAAG--G-A--GCTTAA
1 GTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGAAGAAGGGCTTAA
18242034 TTGCTTTTTTT
66 TTGCTTTTTTT
18242045 TTTAAGTTTG
Statistics
Matches: 141, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
85 17 0.12
88 1 0.01
89 17 0.12
90 86 0.61
91 20 0.14
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (90 bp):
GTCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAGAAGAAGGGCTTAA
TTGCTTTTTTTGAAAAAGTTTGAAG
Found at i:18246283 original size:29 final size:31
Alignment explanation
Indices: 18246215--18246288 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 31
18246205 ATTGGAAAAA
* *
18246215 TTCTACTTTGGCCCTCATTCTTTGCTTCTTTC
1 TTCTA-TTTGGCCCTAATTCTTTCCTTCTTTC
*
18246247 TT-TAATTTGGCCC-AATTGTTTCCTT-TTTC
1 TTCT-ATTTGGCCCTAATTCTTTCCTTCTTTC
*
18246276 TTCTATTTAGCCC
1 TTCTATTTGGCCC
18246289 CAAATTGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
29 14 0.39
30 10 0.28
31 9 0.25
32 3 0.08
ACGTcount: A:0.11, C:0.27, G:0.09, T:0.53
Consensus pattern (31 bp):
TTCTATTTGGCCCTAATTCTTTCCTTCTTTC
Found at i:18247180 original size:17 final size:18
Alignment explanation
Indices: 18247158--18247199 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18247148 AGCAGCCCAT
*
18247158 ACATTTCACA-AATTTAC
1 ACATTTAACACAATTTAC
*
18247175 ACATTTAACACAATTTTC
1 ACATTTAACACAATTTAC
18247193 ACATTTA
1 ACATTTA
18247200 TCAATTTAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (18 bp):
ACATTTAACACAATTTAC
Found at i:18255892 original size:49 final size:49
Alignment explanation
Indices: 18255820--18255931 Score: 215
Period size: 49 Copynumber: 2.3 Consensus size: 49
18255810 CTTAAACGCC
*
18255820 ATGTCTTGAGACTTGCCTCTCATGAAACAAACTTTAACTATTTCTTCGA
1 ATGTCTTGAGACTTGCCTCTCATGAAACAAACTTTAACTATTCCTTCGA
18255869 ATGTCTTGAGACTTGCCTCTCATGAAACAAACTTTAACTATTCCTTCGA
1 ATGTCTTGAGACTTGCCTCTCATGAAACAAACTTTAACTATTCCTTCGA
18255918 ATGTCTTGAGACTT
1 ATGTCTTGAGACTT
18255932 ACATATAGAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 62 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (49 bp):
ATGTCTTGAGACTTGCCTCTCATGAAACAAACTTTAACTATTCCTTCGA
Found at i:18259524 original size:22 final size:21
Alignment explanation
Indices: 18259490--18259550 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
18259480 TAAATGAAAA
18259490 AAATATAAAAATATAAA-ATTTT
1 AAATA-AAAAATATAAATA-TTT
18259512 AAATAAAAGAATATAAATATTT
1 AAATAAAA-AATATAAATATTT
* *
18259534 AAA-AAAAATTAAAAATA
1 AAATAAAAAATATAAATA
18259551 ATATTGACTG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 8 0.23
21 7 0.20
22 19 0.54
23 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATAAAAAATATAAATATTT
Found at i:18259526 original size:30 final size:31
Alignment explanation
Indices: 18259480--18259537 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
18259470 ATAATTTTAA
18259480 TAAATGAAAAAAATATAAAAATATAAAATTT
1 TAAATGAAAAAAATATAAAAATATAAAATTT
* * *
18259511 TAAAT-AAAAGAATATAAATATTTAAAA
1 TAAATGAAAAAAATATAAAAATATAAAA
18259538 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (31 bp):
TAAATGAAAAAAATATAAAAATATAAAATTT
Found at i:18262289 original size:5 final size:5
Alignment explanation
Indices: 18262279--18262303 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18262269 GACATTATTT
18262279 ATTAA ATTAA ATTAA ATTAA ATTAA
1 ATTAA ATTAA ATTAA ATTAA ATTAA
18262304 TTTTTCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:18262922 original size:31 final size:31
Alignment explanation
Indices: 18262887--18262945 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
18262877 TCTTATTTTA
18262887 TCTCATAGTAACCATTACATCTTCCTTCGTG
1 TCTCATAGTAACCATTACATCTTCCTTCGTG
18262918 TCTCATAGTAACCATTACATCTTCCTTC
1 TCTCATAGTAACCATTACATCTTCCTTC
18262946 ATGAAAAGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.24, C:0.31, G:0.07, T:0.39
Consensus pattern (31 bp):
TCTCATAGTAACCATTACATCTTCCTTCGTG
Found at i:18263409 original size:20 final size:21
Alignment explanation
Indices: 18263367--18263409 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
18263357 TTCAATTTTC
**
18263367 ACAAAAAGTATCGATATCTTT
1 ACAAAAAGTATCGATATAATT
18263388 ACAAAAAGTATCGATA-AATT
1 ACAAAAAGTATCGATATAATT
18263408 AC
1 AC
18263410 CTTAGGTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (21 bp):
ACAAAAAGTATCGATATAATT
Found at i:18269522 original size:19 final size:19
Alignment explanation
Indices: 18269500--18269536 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18269490 TTTCTACTTT
18269500 GATCATTGGTTTTTTATTG
1 GATCATTGGTTTTTTATTG
18269519 GATCATTGGTTTTTTATT
1 GATCATTGGTTTTTTATT
18269537 TATGCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.05, G:0.19, T:0.59
Consensus pattern (19 bp):
GATCATTGGTTTTTTATTG
Found at i:18273817 original size:17 final size:17
Alignment explanation
Indices: 18273795--18273829 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
18273785 CTTGAACGTG
18273795 AATCCATTATTTATTCA
1 AATCCATTATTTATTCA
* *
18273812 AATCCATTGTTTGTTCA
1 AATCCATTATTTATTCA
18273829 A
1 A
18273830 CGGTTACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (17 bp):
AATCCATTATTTATTCA
Found at i:18278219 original size:17 final size:19
Alignment explanation
Indices: 18278197--18278234 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
18278187 ATAAACTTAA
18278197 AATTGTATTA-T-ATTTGT
1 AATTGTATTAGTAATTTGT
*
18278214 AATTGTGTTAGTAATTTGT
1 AATTGTATTAGTAATTTGT
18278233 AA
1 AA
18278235 AAATTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 1 0.06
19 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (19 bp):
AATTGTATTAGTAATTTGT
Found at i:18279865 original size:23 final size:22
Alignment explanation
Indices: 18279838--18279889 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
18279828 ACAAATTTTG
*
18279838 AAAATAAAATTCATAAATATTAA
1 AAAATAAAATCCATAAAT-TTAA
* * *
18279861 TAAATATAATCCATTAATTTAA
1 AAAATAAAATCCATAAATTTAA
18279883 AAAATAA
1 AAAATAA
18279890 TCCAAAACAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATAAAATCCATAAATTTAA
Found at i:18280641 original size:21 final size:20
Alignment explanation
Indices: 18280583--18280641 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
18280573 ATTTTTAATA
18280583 CTAATAGGTTATTTTGGCAT
1 CTAATAGGTTATTTTGGCAT
* * *
18280603 -AAGATAGGATATAATTGGCAT
1 CTA-ATAGGTTAT-TTTGGCAT
18280624 GCTAATAGGTTATTTTGG
1 -CTAATAGGTTATTTTGG
18280642 GCACTGTACA
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
19 1 0.03
20 8 0.28
21 11 0.38
22 8 0.28
23 1 0.03
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.39
Consensus pattern (20 bp):
CTAATAGGTTATTTTGGCAT
Found at i:18282844 original size:22 final size:22
Alignment explanation
Indices: 18282819--18282860 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18282809 GCTGTGTGAT
18282819 AGAGCATGGACCATGTGGCTCC
1 AGAGCATGGACCATGTGGCTCC
*
18282841 AGAGCATGGACCGTGTGGCT
1 AGAGCATGGACCATGTGGCT
18282861 ATCCTACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.24, G:0.36, T:0.19
Consensus pattern (22 bp):
AGAGCATGGACCATGTGGCTCC
Found at i:18286215 original size:15 final size:15
Alignment explanation
Indices: 18286195--18286227 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18286185 ATAAAAATTT
18286195 AATTATATACTGGTG
1 AATTATATACTGGTG
*
18286210 AATTATATATTGGTG
1 AATTATATACTGGTG
18286225 AAT
1 AAT
18286228 ATAAGACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.42
Consensus pattern (15 bp):
AATTATATACTGGTG
Found at i:18290793 original size:31 final size:32
Alignment explanation
Indices: 18290731--18290793 Score: 83
Period size: 35 Copynumber: 1.9 Consensus size: 32
18290721 AACTCTTTTT
18290731 TCTTTTTGGTTACATGAACCAATTAATTAACTCTC
1 TCTTTTTGGTTACATGAACC-A--AATTAACTCTC
*
18290766 TCTTTTTTGTTACATGAACC-AATTAACT
1 TCTTTTTGGTTACATGAACCAAATTAACT
18290794 TTGATTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 8 0.30
35 19 0.70
ACGTcount: A:0.29, C:0.19, G:0.08, T:0.44
Consensus pattern (32 bp):
TCTTTTTGGTTACATGAACCAAATTAACTCTC
Found at i:18290912 original size:27 final size:27
Alignment explanation
Indices: 18290865--18290928 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
18290855 AAATATTCTC
18290865 TAAATTAAT-AAATATTAATTTATCAA
1 TAAATTAATAAAATATTAATTTATCAA
* *
18290891 TAAATTAATAAAATATTCATTTATCGA
1 TAAATTAATAAAATATTAATTTATCAA
*
18290918 TAAACTAATAA
1 TAAATTAATAA
18290929 TCTCGATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.26
27 25 0.74
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCAA
Found at i:18290936 original size:17 final size:17
Alignment explanation
Indices: 18290914--18290946 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18290904 TATTCATTTA
*
18290914 TCGATAAACTAATAATC
1 TCGATAAAATAATAATC
18290931 TCGATAAAATAATAAT
1 TCGATAAAATAATAAT
18290947 TTTTCGGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (17 bp):
TCGATAAAATAATAATC
Found at i:18294552 original size:152 final size:152
Alignment explanation
Indices: 18294276--18294571 Score: 556
Period size: 152 Copynumber: 1.9 Consensus size: 152
18294266 GTAGTTTTGA
*
18294276 TAAGTTCGTAGACTTGAACTTAACTTTTCTATTAATTATTTAATTAATCGATGTTATTTTAATAC
1 TAAGTTCGTAGACTTGAACTTAACTTTTCTATTAATTATTTAATTAATCAATGTTATTTTAATAC
*
18294341 TTGAAATACAATTTTATGTGTATTATCGAATAAAGATGTTAAGTGATGAATGAGGAAATCGTGGA
66 TTGAAATAAAATTTTATGTGTATTATCGAATAAAGATGTTAAGTGATGAATGAGGAAATCGTGGA
18294406 AGTAAATAAATACAATTTTCGG
131 AGTAAATAAATACAATTTTCGG
18294428 TAAGTTCGTAGACTTGAACTTAACTTTTCTATTAATTATTTAATTAATCAATGTTATTTTAATAC
1 TAAGTTCGTAGACTTGAACTTAACTTTTCTATTAATTATTTAATTAATCAATGTTATTTTAATAC
*
18294493 TTGAAATAAAATTTTATGTGTATTATCGAATAAAGATGTTGAGTGATGAATGAGGAAATCGTGGA
66 TTGAAATAAAATTTTATGTGTATTATCGAATAAAGATGTTAAGTGATGAATGAGGAAATCGTGGA
*
18294558 AGTAAATAATTACA
131 AGTAAATAAATACA
18294572 CAAATGTCGG
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 140 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (152 bp):
TAAGTTCGTAGACTTGAACTTAACTTTTCTATTAATTATTTAATTAATCAATGTTATTTTAATAC
TTGAAATAAAATTTTATGTGTATTATCGAATAAAGATGTTAAGTGATGAATGAGGAAATCGTGGA
AGTAAATAAATACAATTTTCGG
Found at i:18294781 original size:69 final size:69
Alignment explanation
Indices: 18294569--18294786 Score: 177
Period size: 69 Copynumber: 3.1 Consensus size: 69
18294559 GTAAATAATT
*
18294569 ACACAAATGTCGGTATAACCGACTAGCGATGGGCGCAAACATTGTTGGTTTATCCAACTAGAGCT
1 ACACAAATGTCGGTATAACCGACTAGTGATGGGCGCAAACATTGTTGGTTTATCCAACTAGAGCT
*
18294634 GAGC
66 GGGC
* * * * * * * ** * * **
18294638 TCACTATTGATTTTGTCGGTTTATCCGACTAGTGCTGGGTGC-AACTTTTGTCAGCTTGTCTGAC
1 ACAC-A---A--ATGTCGGTATAACCGACTAGTGATGGGCGCAAAC-ATTGTTGGTTTATCCAAC
*
18294702 TAGTGCTGGGC
59 TAGAGCTGGGC
* * * *
18294713 ACACAAACGTCGGTATAACCGACTAGTGTTGGGCGCAAACATCGTTGGTTTATCCAACTAGAGAT
1 ACACAAATGTCGGTATAACCGACTAGTGATGGGCGCAAACATTGTTGGTTTATCCAACTAGAGCT
18294778 GGGC
66 GGGC
*
18294782 TCACA
1 ACACA
18294787 TCTAATATCG
Statistics
Matches: 107, Mismatches: 34, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
69 50 0.47
70 4 0.04
71 1 0.01
73 1 0.01
74 4 0.04
75 47 0.44
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (69 bp):
ACACAAATGTCGGTATAACCGACTAGTGATGGGCGCAAACATTGTTGGTTTATCCAACTAGAGCT
GGGC
Found at i:18300006 original size:6 final size:6
Alignment explanation
Indices: 18299995--18300020 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
18299985 TAGCCACATG
18299995 CATCTA CATCTA CATCTA CATCTA CA
1 CATCTA CATCTA CATCTA CATCTA CA
18300021 CAAAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (6 bp):
CATCTA
Found at i:18301479 original size:17 final size:18
Alignment explanation
Indices: 18301449--18301485 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
18301439 AAATTAAATT
*
18301449 TAATATTAATTTTTTAAA
1 TAATATTAATTTTTGAAA
18301467 TAATATT-ATTTTTGAAA
1 TAATATTAATTTTTGAAA
18301484 TA
1 TA
18301486 GTTGATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TAATATTAATTTTTGAAA
Found at i:18307147 original size:42 final size:42
Alignment explanation
Indices: 18307087--18307195 Score: 191
Period size: 42 Copynumber: 2.6 Consensus size: 42
18307077 ATGGCCTAAC
* * *
18307087 ACACGGCCTAGCACACAGGCATGTGGGGCTATTTCGAAAGTT
1 ACACGACCTAGTATACAGGCATGTGGGGCTATTTCGAAAGTT
18307129 ACACGACCTAGTATACAGGCATGTGGGGCTATTTCGAAAGTT
1 ACACGACCTAGTATACAGGCATGTGGGGCTATTTCGAAAGTT
18307171 ACACGACCTAGTATACAGGCATGTG
1 ACACGACCTAGTATACAGGCATGTG
18307196 ACACGGTCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (42 bp):
ACACGACCTAGTATACAGGCATGTGGGGCTATTTCGAAAGTT
Found at i:18310246 original size:42 final size:43
Alignment explanation
Indices: 18310144--18310301 Score: 130
Period size: 43 Copynumber: 3.7 Consensus size: 43
18310134 AGCTCGTACA
* * **
18310144 ATGCCAACGTCCCAAAC-GTGGTCTTACATGTAATCAAATAACG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACATAATCAAATAACG
* * *
18310187 ATGCCACTGTCCCAGACAGGGTCTTACACATAATCATAT-ATG
1 ATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATAACG
* * *
18310229 ATGCCAATGTCCTAGACATGGTCTTACACGTAAATCTCAAAT--CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAT-AA--TCAAATAACG
18310273 ATGCC-ATCGTCCCAGAC-GTGGTCTTACAC
1 ATGCCAAT-GTCCCAGACAG-GGTCTTACAC
18310302 GAAATCACAT
Statistics
Matches: 94, Mismatches: 15, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
42 29 0.31
43 35 0.37
44 25 0.27
45 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACATAATCAAATAACG
Found at i:18321121 original size:210 final size:204
Alignment explanation
Indices: 18320761--18321174 Score: 677
Period size: 210 Copynumber: 2.0 Consensus size: 204
18320751 CCCTTTGATG
*
18320761 ATCTCGAGAGATATAAGATGATTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATA
1 ATCTCGAGAGATATAAGATGATTGGGAAACTAAACTATCTTACAGTGACTGGTCCAAACATTATA
* * * *
18320826 TTTGCAGTGAGTATTGTCAGCTTATTCATGTCTGCACTTATAGTTAGACATTGGGTTATTGTTGA
66 TTTGCAGTGAGTATTGTCAGCTTATTCACGTCTGCACCTACAGTTAAACATTGGGTTATTGTTGA
* *
18320891 ACAAATTCTATGTTACTTAAAAGGAGCTTTAGGATTGGGAATATCATACAACAAACAATCATAGG
131 ACAAATTCTATGTTACTTAAAAAGAGCTTTAGGATTGGGAATATCAT---ACAAA-AATCATAGA
*
18320956 AATAGTCATTCCA
192 AATACTCATTCCA
*
18320969 ATCTCGAGAGATATAAGATGAAAGTTGGGAAATTAAACTATCTTACAG-GACTGGTCCAAACATT
1 ATCTCGAGAGATATAAGATG--A-TTGGGAAACTAAACTATCTTACAGTGACTGGTCCAAACATT
18321033 ATATTTGCAGTGAGTATTGTCAGCTTATTCACGTCTGCACCTACAGTTAAACATTGGGTTATTGT
63 ATATTTGCAGTGAGTATTGTCAGCTTATTCACGTCTGCACCTACAGTTAAACATTGGGTTATTGT
18321098 TGAACAAATTCTATGTTACTTAAAAAGAGCTTTAGGATTGGGAATATCATACAAAAATCATAGAA
128 TGAACAAATTCTATGTTACTTAAAAAGAGCTTTAGGATTGGGAATATCATACAAAAATCATAGAA
18321163 ATACTCATTCCA
193 ATACTCATTCCA
18321175 CCTACAGTTA
Statistics
Matches: 194, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
206 20 0.10
207 5 0.03
208 20 0.10
210 127 0.65
211 22 0.11
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (204 bp):
ATCTCGAGAGATATAAGATGATTGGGAAACTAAACTATCTTACAGTGACTGGTCCAAACATTATA
TTTGCAGTGAGTATTGTCAGCTTATTCACGTCTGCACCTACAGTTAAACATTGGGTTATTGTTGA
ACAAATTCTATGTTACTTAAAAAGAGCTTTAGGATTGGGAATATCATACAAAAATCATAGAAATA
CTCATTCCA
Found at i:18321249 original size:103 final size:103
Alignment explanation
Indices: 18321070--18321262 Score: 296
Period size: 103 Copynumber: 1.9 Consensus size: 103
18321060 TTCACGTCTG
** **
18321070 CACCTACAGTTAAACATTGGGTTATTGTTGAACAAATTCTATGTTACTTAAAAAGAGCTTTAGGA
1 CACCTACAGTTAAACATTGGGCGATTGTTGAACAAATTCTATGTTACCCAAAAAGAGCTTTAGGA
*
18321135 TTGGGAATATCATACAAAAATCATAGAAATACTCATTC
66 CTGGGAATATCATACAAAAATCATAGAAATACTCATTC
* * * *
18321173 CACCTACAGTTAAACATTGGGCGATTGTTGAATAGATTCTATGTTACCCAAAAGGAGCTTTAGGG
1 CACCTACAGTTAAACATTGGGCGATTGTTGAACAAATTCTATGTTACCCAAAAAGAGCTTTAGGA
*
18321238 CTGGGAATATCATACAACAATCATA
66 CTGGGAATATCATACAAAAATCATA
18321263 TGACTAATCG
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 80 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (103 bp):
CACCTACAGTTAAACATTGGGCGATTGTTGAACAAATTCTATGTTACCCAAAAAGAGCTTTAGGA
CTGGGAATATCATACAAAAATCATAGAAATACTCATTC
Found at i:18322395 original size:3 final size:3
Alignment explanation
Indices: 18322387--18322423 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
18322377 AGTAGAAAAG
18322387 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC T
18322424 TCACAGATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:18327534 original size:20 final size:20
Alignment explanation
Indices: 18327509--18327549 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
18327499 TAAGAATGGA
18327509 ATATGGAAGTAATAGATAGT
1 ATATGGAAGTAATAGATAGT
18327529 ATATGGAAGTAATAGATAGT
1 ATATGGAAGTAATAGATAGT
18327549 A
1 A
18327550 CATAGTTTCG
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:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
ATATGGAAGTAATAGATAGT
Found at i:18332171 original size:11 final size:12
Alignment explanation
Indices: 18332155--18332184 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18332145 AGAATCAGAT
*
18332155 AAAAAAATACAA
1 AAAAAAATAAAA
18332167 AAAAAAATAAAA
1 AAAAAAATAAAA
18332179 AAAAAA
1 AAAAAA
18332185 TTTTGGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAATAAAA
Found at i:18332185 original size:11 final size:12
Alignment explanation
Indices: 18332155--18332185 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
18332145 AGAATCAGAT
18332155 AAAAAAATACAA
1 AAAAAAATACAA
18332167 AAAAAAATA-AA
1 AAAAAAATACAA
18332178 AAAAAAAT
1 AAAAAAAT
18332186 TTTGGGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (12 bp):
AAAAAAATACAA
Found at i:18332187 original size:111 final size:111
Alignment explanation
Indices: 18332057--18332468 Score: 632
Period size: 111 Copynumber: 3.7 Consensus size: 111
18332047 TACGAAAAAG
* *
18332057 AAAAAACAAAAAAAAAA-TTTGGGTGCTGGCCTCTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
*
18332121 AAAAATTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACAAA
66 AAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATAC-AA
*
18332168 AAAAAATAAAAAAAAAATTTTGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
* *
18332233 GAAAAAAATTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATAC-G
66 -AAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACAA
* *
18332279 AAAAAATTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACACAGTACAAA
1 AAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC--A
18332344 GAAAACAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACAA
64 -AAAA-AAAATTTA-TTTTTTTTCGTGTCAGAATCAGATAAAAAAATACAA
* *
18332395 AAAAAATAAATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTA-A
1 AAAAAATAAA-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA-GTACA
18332459 AAAAAAAATT
64 AAAAAAAATT
18332469 CGTGTCAGAG
Statistics
Matches: 276, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
111 75 0.27
112 45 0.16
113 51 0.18
114 13 0.05
115 35 0.13
116 9 0.03
117 46 0.17
118 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (111 bp):
AAAAAATAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
AAAAAATTTATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACAA
Found at i:18332399 original size:11 final size:12
Alignment explanation
Indices: 18332381--18332413 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
18332371 TCAGAATCAG
*
18332381 ATAAAAAAATAC
1 ATAAAAAAATAA
18332393 A-AAAAAAATAA
1 ATAAAAAAATAA
18332404 ATAAAAAAAT
1 ATAAAAAAAT
18332414 TTTGGGTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (12 bp):
ATAAAAAAATAA
Found at i:18333460 original size:111 final size:107
Alignment explanation
Indices: 18333297--18333505 Score: 346
Period size: 111 Copynumber: 1.9 Consensus size: 107
18333287 AAAAAAAATC
18333297 TATCTGATTCTGACACGAAAAAAAAAAATTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACA
1 TATCTGATTCTGACACGAAAAAAAAAAATTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACA
* *
18333362 GGCCAGCACCCAAATTTTTTTTTTATTTTTTTCGTATTTTTT
66 GGCCAGCACCAAAAATTTTTTTTTATTTTTTTCGTATTTTTT
*
18333404 TATCTGATTCTGACACGAAAAAAAAATTAATTTTTTTTTGTACTGTGTACTGGGTGCCGGCCATT
1 TATCTGATTCTGACACGAAAAAAAAA--AA--TTTCTTTGTACTGTGTACTGGGTGCCGGCCATT
*
18333469 GACAGGCCAGCACCAAAAATTTTTTTTTGTTTTTTTC
62 GACAGGCCAGCACCAAAAATTTTTTTTTATTTTTTTC
18333506 TTTTTCGTAC
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
107 26 0.28
109 2 0.02
111 66 0.70
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (107 bp):
TATCTGATTCTGACACGAAAAAAAAAAATTTCTTTGTACTGTGTACTGGGTGCCGGCCATTGACA
GGCCAGCACCAAAAATTTTTTTTTATTTTTTTCGTATTTTTT
Found at i:18336815 original size:25 final size:25
Alignment explanation
Indices: 18336781--18336878 Score: 108
Period size: 25 Copynumber: 4.0 Consensus size: 25
18336771 CAAAGCTCAT
*
18336781 ATGAGCTTCCCGTTATACAACTCGC
1 ATGAGCTTCCCGTTATACAGCTCGC
* ** *
18336806 ATGAGCTTCCCATTATTTAGCTCAC
1 ATGAGCTTCCCGTTATACAGCTCGC
* * *
18336831 ATGAGCTTCTCGTTATTCAGCTCGG
1 ATGAGCTTCCCGTTATACAGCTCGC
*
18336856 AAGAGCTTCCCGTT-TACAGCTCG
1 ATGAGCTTCCCGTTATACAGCTCG
18336879 TATAAGCATA
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
24 8 0.13
25 52 0.87
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAGCTCGC
Found at i:18338509 original size:37 final size:37
Alignment explanation
Indices: 18338467--18338541 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
18338457 TTCTTGTCAC
*
18338467 TATATATTTTGGAATTAAAAAATATATTAAATATAAAAA
1 TATA-ATTTTGGAA-TAAAAAATATATTAAAAATAAAAA
** * *
18338506 TATAATTTTTTAATAAAAATTATTTTAAAAATAAAA
1 TATAATTTTGGAATAAAAAATATATTAAAAATAAAA
18338542 TGTGAAATTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 20 0.65
38 7 0.23
39 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (37 bp):
TATAATTTTGGAATAAAAAATATATTAAAAATAAAAA
Found at i:18339539 original size:21 final size:20
Alignment explanation
Indices: 18339513--18339565 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
18339503 AGCGGTGGCG
* *
18339513 GTGAGATTAGTTACTGTAGC
1 GTGAGATTAGATACTGTAAC
*
18339533 AGTGAGATTGGATACTGTAAC
1 -GTGAGATTAGATACTGTAAC
18339554 GATGAGATTAGA
1 G-TGAGATTAGA
18339566 AACAATAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (20 bp):
GTGAGATTAGATACTGTAAC
Found at i:18339771 original size:30 final size:30
Alignment explanation
Indices: 18339734--18339889 Score: 233
Period size: 30 Copynumber: 5.2 Consensus size: 30
18339724 ATTCATTTAA
*
18339734 TAAAATACACTACATATATTTTTTTATTTC
1 TAAAATACACTACATATATTTTTTTATTTT
*
18339764 TAGAATACACTACATATA-TTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
* *
18339793 GAAAATACAATACATATATTTTTTTTATTTT
1 TAAAATACACTACATATA-TTTTTTTATTTT
*
18339824 TAAAATACACTACATGTATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
* *
18339854 TAAAATCCATTACATATATTTTTTTATTTT
1 TAAAATACACTACATATATTTTTTTATTTT
18339884 TAAAAT
1 TAAAAT
18339890 TTTAAATACA
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.22
30 62 0.55
31 26 0.23
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.52
Consensus pattern (30 bp):
TAAAATACACTACATATATTTTTTTATTTT
Found at i:18339967 original size:36 final size:35
Alignment explanation
Indices: 18339926--18340041 Score: 110
Period size: 36 Copynumber: 3.1 Consensus size: 35
18339916 CCTCTTCCAT
*
18339926 CATTCCCCTCTTCCACCGTATCCTTCTCCCATTTCC
1 CATTCCCCTCTTCCACCGT-TCCTCCTCCCATTTCC
* *
18339962 CATTCCCATTTCCCATTCCACCGTGCCCTCCTCCCATTT-C
1 CATTCCC----CTC-TTCCACCGT-TCCTCCTCCCATTTCC
18340002 CATCTCCCCTCTTCCACCGTTCCCTCCTCCCA-TTCC
1 CAT-TCCCCTCTTCCACCGTT-CCTCCTCCCATTTCC
18340038 CATT
1 CATT
18340042 TCCCATTATC
Statistics
Matches: 66, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
35 3 0.05
36 30 0.45
37 2 0.03
40 6 0.09
41 25 0.38
ACGTcount: A:0.11, C:0.52, G:0.03, T:0.34
Consensus pattern (35 bp):
CATTCCCCTCTTCCACCGTTCCTCCTCCCATTTCC
Found at i:18339968 original size:13 final size:13
Alignment explanation
Indices: 18339952--18339980 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
18339942 CGTATCCTTC
18339952 TCCCATTTCCCAT
1 TCCCATTTCCCAT
18339965 TCCCATTTCCCAT
1 TCCCATTTCCCAT
18339978 TCC
1 TCC
18339981 ACCGTGCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.48, G:0.00, T:0.38
Consensus pattern (13 bp):
TCCCATTTCCCAT
Found at i:18339998 original size:21 final size:20
Alignment explanation
Indices: 18339972--18340037 Score: 54
Period size: 21 Copynumber: 3.5 Consensus size: 20
18339962 CATTCCCATT
18339972 TCCCATTCCACCGTGCCCTCC
1 TCCCATTCCACCGT-CCCTCC
*
18339993 TCCCATTTCCATC-T-CC-CC
1 TCCCA-TTCCACCGTCCCTCC
18340011 T--C-TTCCACCGTTCCCTCC
1 TCCCATTCCACCG-TCCCTCC
18340029 TCCCATTCC
1 TCCCATTCC
18340038 CATTTCCCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
14 6 0.17
16 2 0.06
17 2 0.06
18 6 0.17
19 2 0.06
20 1 0.03
21 10 0.29
22 6 0.17
ACGTcount: A:0.09, C:0.56, G:0.05, T:0.30
Consensus pattern (20 bp):
TCCCATTCCACCGTCCCTCC
Found at i:18345942 original size:98 final size:98
Alignment explanation
Indices: 18345768--18345964 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
18345758 ATACAATAAA
**
18345768 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCATGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
18345833 CCTCTAGAATCCCAAACTCGGAATATTTCTTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
18345866 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
18345931 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
18345964 A
1 A
18345965 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:18346718 original size:4 final size:4
Alignment explanation
Indices: 18346709--18346736 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
18346699 TATTTTTACT
18346709 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
18346737 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:18347641 original size:23 final size:22
Alignment explanation
Indices: 18347600--18347642 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18347590 ATATATATAT
18347600 GAAAATATTCATTTAAAAAAAG
1 GAAAATATTCATTTAAAAAAAG
* *
18347622 GAAAATATTCGTTTTAAAAAA
1 GAAAATATTCATTTAAAAAAA
18347643 TATATATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (22 bp):
GAAAATATTCATTTAAAAAAAG
Found at i:18348171 original size:19 final size:19
Alignment explanation
Indices: 18348144--18348183 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
18348134 TCTTTTTTTT
*
18348144 TCATCTCTAAGATTGCATA
1 TCATATCTAAGATTGCATA
18348163 TCATATCTAAGATTGCATA
1 TCATATCTAAGATTGCATA
18348182 TC
1 TC
18348184 CTCAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (19 bp):
TCATATCTAAGATTGCATA
Found at i:18348499 original size:44 final size:43
Alignment explanation
Indices: 18348397--18348901 Score: 292
Period size: 44 Copynumber: 11.6 Consensus size: 43
18348387 CTTCAATCTA
18348397 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
*
18348442 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTCCTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTCTG
* * * *
18348486 CTCCTCTGCAACTTCAGCGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * * * *
18348527 CT-CTCTACAACTTCAGAGAGATAAGATCTGTG-ATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATCTTAGTCTG
* * * *
18348570 CTCTACTGCAACTTCAGGGAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCATCTTAGTCTG
* *
18348614 ATCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT-AGTCTG
* *
18348659 C-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTTAGTCTTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTAGTC-TG
* * *
18348704 -TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTTAGTCTG
* * * ** * * * *
18348744 CT-CTCTGTAACTTTAGATAGATAAGA-TCTGTAATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTAGTCTG
* * *
18348787 CTCCACTGCAACTTCAGGGAGATAGGA-TTGTCAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TTAGTCTG
* * * *
18348831 CTCCACTGCAACTTCAGGAAGATAAGATTTGCCATTTTCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTAG-TCTG
* **
18348876 CTCCACTACTGCTT-AGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
18348902 TCTACAATCT
Statistics
Matches: 361, Mismatches: 66, Indels: 67
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.00
40 43 0.12
41 12 0.03
42 10 0.03
43 22 0.06
44 184 0.51
45 89 0.25
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTAGTCTG
Found at i:18348730 original size:217 final size:217
Alignment explanation
Indices: 18348398--18348865 Score: 776
Period size: 217 Copynumber: 2.2 Consensus size: 217
18348388 TTCAATCTAC
*
18348398 TCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
* * *
18348463 ATAAGACTTGCTTCCTTAGTCTGCTCCTCTGCAACTTCAGCGAGATAAGACTAGATGCGATCTGC
66 ATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGCGAGATAAGACTAGATGCGATCTGC
* *
18348528 TCTCTACAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAACTTCAGGGAGAT
131 TCTCTACAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
18348593 AGGATTATCGGCTTTAATCTGA
196 AGGATTATCAGCTTTAATCTGA
*
18348615 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTTCAGGAGG
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
*
18348680 ATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACTAGATGCGATCTG
66 ATAAGACTTGCTTACTTAGTC-TGCTCCACCGCAACTTCAGCGAGATAAGACTAGATGCGATCTG
** * *
18348744 CTCTCTGTAACTTTAGATAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
130 CTCTCTACAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
* *
18348809 TAGGATTGTCAGCTTTAATCTGC
195 TAGGATTATCAGCTTTAATCTGA
*
18348832 TCCACTGCAACTTCAGGAAGATAAGATTTGCCAT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGCCAT
18348866 TTTCGATCTG
Statistics
Matches: 234, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 232 0.99
218 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (217 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGG
ATAAGACTTGCTTACTTAGTCTGCTCCACCGCAACTTCAGCGAGATAAGACTAGATGCGATCTGC
TCTCTACAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
AGGATTATCAGCTTTAATCTGA
Found at i:18348937 original size:132 final size:132
Alignment explanation
Indices: 18348849--18349574 Score: 1245
Period size: 132 Copynumber: 5.5 Consensus size: 132
18348839 CAACTTCAGG
* * *
18348849 AAGATAAGATTTGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* *
18348914 AACCTACTCCGCTGCTGCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
18348979 GA
131 GA
* *
18348981 AAGATAAGATTCGTCGTCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
*
18349046 AACCTTCTCCCCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
18349111 GA
131 GA
* * * *
18349113 AATATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAATTTTT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* *
18349178 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGACTTGGTGGCTTAAATCTGCTTCCCATTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
18349243 GA
131 GA
*
18349245 AAGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
*
18349310 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTA
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
18349375 GA
131 GA
* *
18349377 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTT
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
*
18349442 AACCTTCTCCGCTGCTGCTCAGGGAGACGAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
66 AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
18349507 GA
131 GA
* * * *
18349509 AAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTACAATTTTC
1 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
18349574 A
66 A
18349575 CTGATATGTT
Statistics
Matches: 560, Mismatches: 34, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 560 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (132 bp):
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
AACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTG
GA
Found at i:18349030 original size:44 final size:44
Alignment explanation
Indices: 18348802--18349430 Score: 185
Period size: 44 Copynumber: 14.3 Consensus size: 44
18348792 CTGCAACTTC
* * * **
18348802 AGGGAGATAGGATT-GTCAG-CTTTAATCTGCTCCACTGCAACTT
1 AGGGAGATAAGATTCGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
18348845 CAGGAAGATAAGATTTGCCATTTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
18348890 AGGGAGATAAGA-TC-TACAATCTTCAACCTACTCCGCTGCTGCTC
1 AGGGAGATAAGATTCGT-C-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
18348934 AGGGAAACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTCGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * *
18348978 -GGAAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTATTGCTT
1 AGG-GAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
18349022 AGGGAGATAAGA-TC-TACAATCTTCAACCTTCTCCCCTGCTGCTC
1 AGGGAGATAAGATTCGT-C-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
18349066 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTCGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * * * *
18349110 -GGAAATATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTT
1 AGG-GAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * *
18349154 AGGGAGATAAGA-TC-TACAATTTTTAACCTTCTCCGCTGCTGCTC
1 AGGGAGATAAGATTCGT-C-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
18349198 AGGGAGACAAGACTTGGT-GGCTTAAATCTGCTTCCCATTA-T-CTT
1 AGGGAGATAAGA-TTCGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* *
18349242 -GGAAAGATAAGATTCG-CTGTCTTCGATCTGCTCCACTACTGCTT
1 AGG-GAGATAAGATTCGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
18349286 AGGGAGATAAGA-TC-TACAATCTTCAACCTTCTCCGCTGCTGCTC
1 AGGGAGATAAGATTCGT-C-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
18349330 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTCGTCGTCTTCAATCTGC-T-CCACTACTGCTT
** * * *
18349374 AGAAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGTTT
1 AGGGAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTT
18349418 AGGGAGATAAGAT
1 AGGGAGATAAGAT
18349431 CTACAATCTT
Statistics
Matches: 402, Mismatches: 134, Indels: 98
0.63 0.21 0.15
Matches are distributed among these distances:
42 23 0.06
43 40 0.10
44 279 0.69
45 37 0.09
46 19 0.05
47 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (44 bp):
AGGGAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTGCTT
Found at i:18350804 original size:13 final size:13
Alignment explanation
Indices: 18350778--18350810 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
18350768 CCTTGGCCTC
18350778 TCCTTTTATTTTT
1 TCCTTTTATTTTT
18350791 T-CTTTTACTTTTT
1 TCCTTTTA-TTTTT
18350804 TCCTTTT
1 TCCTTTT
18350811 TCCTTTCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 7 0.39
14 5 0.28
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (13 bp):
TCCTTTTATTTTT
Found at i:18350810 original size:20 final size:19
Alignment explanation
Indices: 18350787--18350835 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
18350777 CTCCTTTTAT
*
18350787 TTTTTCTTTTACTTTTTTCC
1 TTTTTCTTTT-CCTTTTTCC
*
18350807 TTTTTCCTTTCCTTTTTCC
1 TTTTTCTTTTCCTTTTTCC
18350826 TCTTTT-TTTT
1 T-TTTTCTTTT
18350836 GAAATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTCTTTTCCTTTTTCC
Found at i:18350817 original size:12 final size:12
Alignment explanation
Indices: 18350802--18350826 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18350792 CTTTTACTTT
18350802 TTTCCTTTTTCC
1 TTTCCTTTTTCC
18350814 TTTCCTTTTTCC
1 TTTCCTTTTTCC
18350826 T
1 T
18350827 CTTTTTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTCCTTTTTCC
Found at i:18355094 original size:98 final size:98
Alignment explanation
Indices: 18354920--18355116 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
18354910 ATACAATAAA
*
18354920 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
18354985 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
18355018 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
18355083 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
18355116 A
1 A
18355117 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:18355769 original size:22 final size:22
Alignment explanation
Indices: 18355744--18355785 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18355734 ATATATATAT
18355744 GAAAATATTCATTTAAAAAAAA
1 GAAAATATTCATTTAAAAAAAA
* *
18355766 GAAAATATTCGTTTTAAAAA
1 GAAAATATTCATTTAAAAAA
18355786 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (22 bp):
GAAAATATTCATTTAAAAAAAA
Found at i:18356332 original size:21 final size:19
Alignment explanation
Indices: 18356290--18356369 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
18356280 TCTTTTTTTT
*
18356290 TCATCTCTAAGATTGCATA
1 TCATATCTAAGATTGCATA
*
18356309 TCATAACTAAGATTGCATATA
1 TCATATCTAAGATTGC--ATA
**
18356330 TCATATCTTGGATTGCATA
1 TCATATCTAAGATTGCATA
*
18356349 TCATATTTAAGATTGCATA
1 TCATATCTAAGATTGCATA
18356368 TC
1 TC
18356370 CTCAAAAATT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
19 35 0.69
21 16 0.31
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (19 bp):
TCATATCTAAGATTGCATA
Found at i:18360647 original size:44 final size:44
Alignment explanation
Indices: 18360586--18360690 Score: 147
Period size: 44 Copynumber: 2.4 Consensus size: 44
18360576 TATTTTTGCG
* * *
18360586 TATATATATGTTTATAGTCTAATTTTTAATTTCTTGATATATTA
1 TATATACATATTTATAGTCTAATTTTTAATTTCTTAATATATTA
*
18360630 TATATACATATTTATAGTCTAATTTTTAGTTTCTTAATATATTA
1 TATATACATATTTATAGTCTAATTTTTAATTTCTTAATATATTA
* *
18360674 TACATGCATATTATATA
1 TATATACATATT-TATA
18360691 TTTTTTCGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
44 50 0.93
45 4 0.07
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (44 bp):
TATATACATATTTATAGTCTAATTTTTAATTTCTTAATATATTA
Found at i:18364049 original size:2 final size:2
Alignment explanation
Indices: 18364042--18364140 Score: 189
Period size: 2 Copynumber: 49.5 Consensus size: 2
18364032 TCACAACCAA
*
18364042 AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
18364084 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
18364126 AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
18364141 TACAATTAAA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.51, C:0.48, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:18382384 original size:5 final size:5
Alignment explanation
Indices: 18382374--18382400 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
18382364 TAATTTTAAG
18382374 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
18382401 TTATAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:18382386 original size:15 final size:15
Alignment explanation
Indices: 18382366--18382400 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18382356 GTCGATATTA
18382366 ATTTTAAGTTATTTT
1 ATTTTAAGTTATTTT
**
18382381 ATTTTATTTTATTTT
1 ATTTTAAGTTATTTT
18382396 ATTTT
1 ATTTT
18382401 TTATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTAAGTTATTTT
Found at i:18385897 original size:87 final size:87
Alignment explanation
Indices: 18385784--18385999 Score: 321
Period size: 87 Copynumber: 2.5 Consensus size: 87
18385774 TTTGTCTTTT
* *
18385784 TTTTTCATCATTAAATTTATAG-TTTTCAAGTTGGATAAGTGAAAAAAATGTTGTAGAAAA-CTT
1 TTTTTCATCATTAAACTTA-AGATTTTCAAGTTGGATAAGTGAAAAAAATGTTGTAGAAAATCCT
18385847 TCTTTTAAACTTATTTTCATCTTC
65 T-TTTTAAACTTATTTTCATCTTC
* * * *
18385871 TTTTTCCTCGTTAAACTTAAGATTTTCAAGTTGGATAAGCGAGAAAAATGTTGTAGAAAATCCTT
1 TTTTTCATCATTAAACTTAAGATTTTCAAGTTGGATAAGTGAAAAAAATGTTGTAGAAAATCCTT
18385936 TTTTAAACTTATTTTCATCTTC
66 TTTTAAACTTATTTTCATCTTC
*
18385958 TTTTTCATCATTAAACTTAA-AGTTTTCAAGTTGAATAAGTGA
1 TTTTTCATCATTAAACTTAAGA-TTTTCAAGTTGGATAAGTGA
18386000 TAATTTCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
86 3 0.03
87 110 0.95
88 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (87 bp):
TTTTTCATCATTAAACTTAAGATTTTCAAGTTGGATAAGTGAAAAAAATGTTGTAGAAAATCCTT
TTTTAAACTTATTTTCATCTTC
Found at i:18388625 original size:20 final size:18
Alignment explanation
Indices: 18388600--18388639 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
18388590 AAGTTTTTGG
18388600 TTTCCCATAAAGAAAATTAA
1 TTTCCCAT--AGAAAATTAA
*
18388620 TTTCCCATTGAAAATTAA
1 TTTCCCATAGAAAATTAA
18388638 TT
1 TT
18388640 AAAGTTATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (18 bp):
TTTCCCATAGAAAATTAA
Found at i:18397044 original size:52 final size:52
Alignment explanation
Indices: 18396960--18397088 Score: 195
Period size: 52 Copynumber: 2.4 Consensus size: 52
18396950 GATTTATGTA
* * *
18396960 TATTTGATACATGTAATCTATTTAATAAACCTTGTATGATTAATCTGTTAAGTT
1 TATTTGATA-ATGT-ATTTCTTTCATAAACCTTGTATGATTAATCTGTTAAGTT
18397014 TATTTGATAATGTATTTCTTTCATAAACCTTGTATGATTAATCTGTTAAGTT
1 TATTTGATAATGTATTTCTTTCATAAACCTTGTATGATTAATCTGTTAAGTT
* *
18397066 TATGTGATAATGTAGTTCTTTCA
1 TATTTGATAATGTATTTCTTTCA
18397089 ATCACTGATT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 57 0.81
53 4 0.06
54 9 0.13
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.48
Consensus pattern (52 bp):
TATTTGATAATGTATTTCTTTCATAAACCTTGTATGATTAATCTGTTAAGTT
Found at i:18398448 original size:30 final size:30
Alignment explanation
Indices: 18398400--18398477 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
18398390 ACAATAAACT
* *
18398400 TGGTAAATTTACTCATGAGTATGTTTTATTA
1 TGGTAATTTTA-TTATGAGTATGTTTTATTA
*
18398431 TTGTAGA-TTTATTATGAGTATGTTTTATTA
1 TGGTA-ATTTTATTATGAGTATGTTTTATTA
18398461 TGGTAATTTTATTATGA
1 TGGTAATTTTATTATGA
18398478 CAAAAAACTC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.02
30 32 0.76
31 8 0.19
32 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (30 bp):
TGGTAATTTTATTATGAGTATGTTTTATTA
Found at i:18398472 original size:14 final size:15
Alignment explanation
Indices: 18398423--18398476 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
18398413 CATGAGTATG
*
18398423 TTTTATTATTGTAGA
1 TTTTATTATGGTAGA
18398438 -TTTATTATGAGTATG-
1 TTTTATTATG-GTA-GA
18398453 TTTTATTATGGTA-A
1 TTTTATTATGGTAGA
18398467 TTTTATTATG
1 TTTTATTATG
18398477 ACAAAAAACT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
14 18 0.53
15 6 0.18
16 10 0.29
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (15 bp):
TTTTATTATGGTAGA
Found at i:18400600 original size:17 final size:17
Alignment explanation
Indices: 18400575--18400618 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
18400565 AATTGGATTG
18400575 AAAAA-TAATTTAATTA
1 AAAAATTAATTTAATTA
18400591 AAAAATTAATTTAATTA
1 AAAAATTAATTTAATTA
**
18400608 ATTAATTAATT
1 AAAAATTAATT
18400619 ACTATTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAAATTAATTTAATTA
Found at i:18402393 original size:5 final size:5
Alignment explanation
Indices: 18402383--18402414 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
18402373 AAAAGAAAGA
18402383 AAATC AAATC AAATC AAATC AAATC AAATC AA
1 AAATC AAATC AAATC AAATC AAATC AAATC AA
18402415 GCAGATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:18403886 original size:13 final size:12
Alignment explanation
Indices: 18403862--18403900 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
18403852 TCATGGATTA
18403862 TTGTTT-TTTAT
1 TTGTTTATTTAT
18403873 TTCGTTTATTTAT
1 TT-GTTTATTTAT
18403886 TTGTTTATATTAT
1 TTGTTTAT-TTAT
18403899 TT
1 TT
18403901 TCATGCCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 13 0.52
ACGTcount: A:0.15, C:0.03, G:0.08, T:0.74
Consensus pattern (12 bp):
TTGTTTATTTAT
Found at i:18403931 original size:15 final size:15
Alignment explanation
Indices: 18403908--18403940 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
18403898 TTTTCATGCC
18403908 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
18403923 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
18403938 ATT
1 ATT
18403941 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:18406962 original size:41 final size:41
Alignment explanation
Indices: 18406917--18406995 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
18406907 GGACAAAGTT
18406917 AATAAATGGGAACAGAAATTCCAAGAAATGCAGAGACAGTC
1 AATAAATGGGAACAGAAATTCCAAGAAATGCAGAGACAGTC
18406958 AATAAATGGGAACAGAAATTCCAAGAAATGCAGAGACA
1 AATAAATGGGAACAGAAATTCCAAGAAATGCAGAGACA
18406996 AAACGAGGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.51, C:0.14, G:0.22, T:0.14
Consensus pattern (41 bp):
AATAAATGGGAACAGAAATTCCAAGAAATGCAGAGACAGTC
Found at i:18406986 original size:22 final size:22
Alignment explanation
Indices: 18406920--18406987 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
18406910 CAAAGTTAAT
18406920 AAATGGGAACAGAAATTCCAAG
1 AAATGGGAACAGAAATTCCAAG
* * * * *
18406942 AAAT--GCAGAGACAGT-CAAT
1 AAATGGGAACAGAAATTCCAAG
18406961 AAATGGGAACAGAAATTCCAAG
1 AAATGGGAACAGAAATTCCAAG
18406983 AAATG
1 AAATG
18406988 CAGAGACAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 7 0.21
20 7 0.21
21 7 0.21
22 12 0.36
ACGTcount: A:0.50, C:0.13, G:0.22, T:0.15
Consensus pattern (22 bp):
AAATGGGAACAGAAATTCCAAG
Found at i:18407735 original size:24 final size:24
Alignment explanation
Indices: 18407708--18407753 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18407698 AGAACAGTCC
* *
18407708 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
18407732 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
18407754 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:18415952 original size:44 final size:44
Alignment explanation
Indices: 18415893--18416013 Score: 138
Period size: 44 Copynumber: 2.7 Consensus size: 44
18415883 GATCGCATCT
18415893 AGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACT-AAGAAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAATGGAGCAGACTGAAGAAAGCA
* **
18415937 AGTCTTATCCTCCTGAAGTTGCAA-AGAGGCAGACTGAAGATGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAATGGA-GCAGACTGAAGAAAGCA
* * *
18415982 AATCTTATCTCTCTGAAGTTGCAGTGAAGCAG
1 AGTCTTATCTC-CTGAAGTTGCAATGGAGCAG
18416014 GTTAAAGTCG
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
43 2 0.03
44 31 0.48
45 31 0.48
46 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCTGAAGTTGCAATGGAGCAGACTGAAGAAAGCA
Found at i:18416124 original size:167 final size:168
Alignment explanation
Indices: 18415935--18416256 Score: 522
Period size: 167 Copynumber: 1.9 Consensus size: 168
18415925 ACTAAGAAAG
* * *
18415935 CAAGTCTTATCCTCCTGAAGTTGCAAAGAGGCAGACTGAAGATGGCAAATCTTATCTCTCTGAAG
1 CAAGTCTTATCCTCCAGAAGTTGCAAAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAG
* *
18416000 TTGCAGTGAAGCAGGTTAAAGTCGAT-ATCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAA
66 TTGCAGTGAAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
*
18416064 TATT-GAATCTTATCACTCTGAAGTTGCGCAGATCGCAT
131 CATTAG-ATCTTATCACTCTGAAGTTGCGCAGATCGCAT
**
18416102 CAAGTCTTATCCTCCAGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAG
1 CAAGTCTTATCCTCCAGAAGTTGCAAAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAG
*
18416167 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGAAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
* *
18416232 CCTTAGATCTTATCTCTCTGAAGTT
131 CATTAGATCTTATCACTCTGAAGTT
18416257 TCAGAGAGCA
Statistics
Matches: 142, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
167 84 0.59
168 57 0.40
169 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (168 bp):
CAAGTCTTATCCTCCAGAAGTTGCAAAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAG
TTGCAGTGAAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
CATTAGATCTTATCACTCTGAAGTTGCGCAGATCGCAT
Found at i:18416213 original size:44 final size:43
Alignment explanation
Indices: 18416149--18417946 Score: 255
Period size: 44 Copynumber: 41.6 Consensus size: 43
18416139 GAAGATGGCA
* *
18416149 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAGCC-AT
* * * *
18416193 AATCCTATCTTCCTGAAGTTGCAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * * *** *
18416236 AGATCTTATC-TCTCTGAAGTTTCAG-AGAGCAGATCGCA-TC-T
1 A-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * * *
18416277 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-CA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAG-GTTA--AAGCCAT
* * * * * *
18416321 AGTCTTATCCTCCTGAAGTTGCAGAAAGGA--AGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAG--TGGAGCAG-GTTAA-A-GCCAT
18416366 AATCTTAT-TTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGAT
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAGGTTAAAGCC-AT
* * * *
18416410 AATCCTATCTTCCTGAAGTTGCAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * * * *** *
18416453 GGATCTTATC-TCTCTGAAGTTGCAG-AGAGTAGATCGCA-TC-T
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * * ** **
18416494 ATTTTTATC-TCTCTGAAGTTGCAGTGGAGTAGAAT-AAGTAAGT
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCA-T
* * * * *
18416537 AAGTCTTATCCTCCTGAAGTTGCAG-AGAGGCAGACTGAAGATGGCA-
1 AA-TCTTATCTTCCTGAAGTTGCAGTGGA-GCAG-GTTAA-A-GCCAT
* * * * *
18416583 AATCTTATCTCCCTGAAGTTGTAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * * * * **
18416626 GGATTTTATC-TCTTTGAAGTTGCAG-AGAGCAGATTGCAG-CA-
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * * * * * *
18416667 AGTCTTATCCTCCTAAAGTTGCAG-AGAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGA-GCAG-GTTAA-A-GCCAT
* *
18416712 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCAAT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAGCC-AT
* * * ** *
18416756 AATCCTATCTTCCTGAAGTTACAGTGGAG-TGGATTAAAAACTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * * * *** *
18416799 GGATCTTATC-TCTCTAAAGTTGCAG-AGAGCAGATCGCA-TC-T
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * * *
18416840 AGTCTTATC-TCCTTGAGGTTGCAGTGGAGCAGACTAAGTAAG-CA-
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAG-GTTA--AAGCCAT
* * * * * * *
18416884 AGTCTTATCCTCCTAAAGTT--ACTGAGAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTG-GA-GCAG-GTTAA-A-GCCAT
* *
18416929 AATCTTATC-TCCTTGAAGTTGTAGTGGAACAGGTTAAAGCCGAT
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGGTTAAAGCC-AT
* * * *
18416973 AATCCTATCTTCCTGAAGTTGCAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * ** *** *
18417016 GGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAAATCGCA-TC-T
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * * * *
18417057 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGAAAG-CA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAG-GT--TAAAGCCAT
* * * * * * *
18417101 AGTCTTATCCTCCTAAAGTTGCAG-AGAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGA-GCAG-GTTAA-A-GCCAT
* *
18417146 AATCTTATC-TCCTTGAAGTTGCAGTGGAG-TGGATTAAAACCAT
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * **
18417189 GGATCTTATC-T-CTGAAGTTGCAG-AGAGCA-G--ATCG-CAT
1 -AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * * * * *
18417226 CAAGTCTTATCCTCCTAAAGTTGCAG-AGAGGCAGACTGAAGATGGCA-
1 -AA-TCTTATCTTCCTGAAGTTGCAGTGGA-GCAG-GTTAA-A-GCCAT
18417273 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGGTTAAAGCCGAT
1 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGGTTAAAGCC-AT
* * * * *
18417317 AATCCTATCTTCCTGAAGTTGTAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * * *** *
18417360 GGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC-T
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * *
18417401 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-CA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAG-GTTA--AAGCCAT
* * * *
18417445 AGTCTTATCCTT-CTGAAGTTACAG-AGAGGCAGGTTAAAGTCGAT
1 AATCTTAT-CTTCCTGAAGTTGCAGTGGA-GCAGGTTAAAG-CCAT
* ** * * *
18417489 AATCCTATCTTCCCAAAGTTGCAGTGGAG-TGGATTAAAACCTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * * * *** *
18417532 GGATCTTATC-TCTCTGAAGTTACAG-AGAGCAGATCGCA-TC-T
1 -AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
* * * * *
18417573 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAG-CA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAG-GTTA--AAGCCAT
* * * * * *
18417617 AGTCTTATCCTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGCAGTGGA-GCAG-GTTAA-A-GCCAT
*
18417662 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCAAT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAGCC-AT
* * ** *
18417706 AATCCTATCTTCCTGAAGTTGCAGTGGAG-TGGATTAAAATCTT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
* * * * * **
18417749 GGATCTTATCTTTCTGAAGTTACAG-AGAACA-G--ATCG-CATT
1 -AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCA-T
** * * * *
18417789 AAGTCTTATCCACCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCA-
1 AA-TCTTATCTTCCTGAAGTTGCAGTGGA-GCAG-GTTAA-A-GCCAT
* *
18417835 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAGCC-AT
* * * * *
18417879 AATCCTATC-TCTCTAAAGTTACAGTGGAGC-GGATTAAAACCTT
1 AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGG-TTAAAGCCAT
*
18417922 GGATCTTATCTAT-CTGAAGTTGCAG
1 -AATCTTATCT-TCCTGAAGTTGCAG
18417947 AGAGCAGATC
Statistics
Matches: 1272, Mismatches: 312, Indels: 340
0.66 0.16 0.18
Matches are distributed among these distances:
37 4 0.00
38 8 0.01
39 4 0.00
40 168 0.13
41 65 0.05
42 48 0.04
43 120 0.09
44 617 0.49
45 201 0.16
46 25 0.02
47 6 0.00
48 6 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (43 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCAT
Found at i:18416342 original size:217 final size:216
Alignment explanation
Indices: 18416102--18417860 Score: 973
Period size: 217 Copynumber: 8.1 Consensus size: 216
18416092 CAGATCGCAT
* *
18416102 CAAGTCTTATCCTCCAGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
*
18416167 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAG-AGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
*
18416232 CCTTAGATCTTATCTCT-CTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGT
130 CCTTAGATCTTATCTCTCCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGT
18416296 TGCAGTGGAGCAGACTAAGTAAG
195 TGCAGTGGAGCAGACTAAG-AAG
** * *
18416319 CAAGTCTTATCCTCCTGAAGTTGCAGAAAGGAAGACTGAAGATGGCAAATCTTATTTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
*
18416384 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAG-AGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
* * * * * *
18416449 CCTTGGATCTTATCTCT-CTGAAGTTGCAGAGAGTAGATCGCATCTATTTTTATCTCTCTGAAGT
130 CCTTAGATCTTATCTCTCCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGT
* *
18416513 TGCAGTGGAGTAGAATAAGTAAG
195 TGCAGTGGAGCAGACTAAG-AAG
* *
18416536 TAAGTCTTATCCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* * * * * * ** * * **
18416601 TTGTAGTGGAG-TGGATTAAAACC-TTGGATTTTATC-TCTTTGAAGTTGCAG-AGAGCAGATT-
66 TTGCAG-AGAGCAGG-TTAAAGCCGAT-AATCCTATCTTC-CTGAAGTTGCAGTGGAGTGGATTA
** * * * * * * *
18416661 GCAGC-AAG-TCTTATC-CTCCTAAAGTTGCAGAGAGGCAGA-CTGAAGATGGCAAATCTTATCT
127 AAACCTTAGATCTTATCTCTCCTGAAGTTACAGAGA-GCAGATC-G--CAT--CTAGTCTTATCT
* * *
18416722 CCCTGAAGTTGTAGTGGAGCAG-GTTA-AAG
186 CCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * * * * *
18416751 CCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTG--GATTAAAAACTTGG---ATCTTATCTC
1 -C-A-AGTCTTATCCTCCTGAAGTTGCAGT-GAG-GCAGACTGAAGA--TGGCAAATCTTATCTC
* * ** *** * * * **
18416811 TCTAAAGTTGCAGAGAGCA-G--ATCGCATCTAGTCTTATC-TCCTTGAGGTTGCAGTGGAGCAG
59 CCTGAAGTTGCAGAGAGCAGGTTAAAGCCGATAATCCTATCTTCC-TGAAGTTGCAGTGGAGTGG
* * * * * * * *
18416872 ACTAAGTAAGC-AAG-TCTTATC-CTCCTAAAGTTACTGAGAGGCAGA-CTGAAGATGGCAAATC
123 ATTAA--AACCTTAGATCTTATCTCTCCTGAAGTTACAGAGA-GCAGATC-G--CAT--CTAGTC
* * * * *
18416933 TTATCTCCTTGAAGTTGTAGTGGAACAG-GTTA-AAG
180 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * * *
18416968 CCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTG--GA-TTAAAACCTTGG---ATCTTATCT
1 -C-A-AGTCTTATCCTCCTGAAGTTGCAGT-GAG-GCAGACTGAAGA---TGGCAAATCTTATCT
* * *** * * * *
18417027 CTCTGAAGTTGCAGAGAGCA----AATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTA
58 CCCTGAAGTTGCAGAGAGCAGGTTAA-AGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTG
* * * * * * * *
18417088 GACTAAGAAAGC-AAG-TCTTATC-CTCCTAAAGTTGCAGAGAGGCAGA-CTGAAGATGGCAAAT
122 GA-TTA-AAACCTTAGATCTTATCTCTCCTGAAGTTACAGAGA-GCAGATC-G--CAT--CTAGT
* ** * *
18417149 CTTATCTCCTTGAAGTTGCAGTGGAGTGGATTAA-AAC
179 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * * *
18417186 CATGGATCTTAT-CT-CTGAAGTTGCAGAGA-GCAGA-TCG--CAT--CAAGTCTTATC-CTCCT
1 CA-AG-TCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT-GAAGATGGCAAATCTTATCTC-CCT
* * * * * *
18417242 AAAGTTGCAGAGAGGCAGACTGAAGATGGC-A-AATCTTATC-TCCTTGAAGTTGCAGTGGAGCA
62 GAAGTTGCAGAGA-GCAG-GTTAA-A-GCCGATAATCCTATCTTCC-TGAAGTTGCAGTGGAG-T
* * * ** * ** *** * *
18417304 GG-TTAAAGCCGATA-ATCCTATCT-TCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCT
121 GGATTAAAACC-TTAGATCTTATCTCTCCTGAAGTTACAG-AGAGCAGA-TCGCATC-TAG-TCT
* * * * *
18417366 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCAT
181 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG
* * *
18417399 CTAA-TCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAGACT-AAG-TAAGCAAGTCTTATC-CTTC
1 C-AAGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTGAAGAT-GGCAAATCTTATCTC-CC
* * **
18417458 TGAAGTTACAGAGAGGCAGGTTAAAGTCGATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGAT
61 TGAAGTTGCAGAGA-GCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGAT
*
18417523 TAAAACCTTGGATCTTATCTCT-CTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCT
125 TAAAACCTTAGATCTTATCTCTCCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCT
*
18417587 AAAGTTGCAGTGGAGCAGACTAAGTAAG
190 GAAGTTGCAGTGGAGCAGACTAAG-AAG
*
18417615 CAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* *
18417680 TTGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAG-AGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
* * * *
18417745 TCTTGGATCTTATCT-TTCTGAAGTTACAGAGAACAGATCGCAT-TAAGTCTTATC-CACCTGAA
130 CCTTAGATCTTATCTCTCCTGAAGTTACAGAGAGCAGATCGCATCT-AGTCTTATCTC-CCTGAA
* *
18417807 GTTGTAGT-GAGGCAGACTGAAGATGG
193 GTTGCAGTGGA-GCAGACT-AAGA-AG
* *
18417833 CAAATCTTAT-CTCCCTGAAGTTGTAGTG
1 CAAGTCTTATCCT-CCTGAAGTTGCAGTG
18417861 GAGCAGGTTA
Statistics
Matches: 1259, Mismatches: 191, Indels: 183
0.77 0.12 0.11
Matches are distributed among these distances:
210 2 0.00
211 29 0.02
212 26 0.02
213 69 0.05
214 41 0.03
215 56 0.04
216 157 0.12
217 779 0.62
218 92 0.07
219 4 0.00
220 4 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (216 bp):
CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
TTGCAGAGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAAC
CTTAGATCTTATCTCTCCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGACTAAGAAG
Found at i:18416519 original size:84 final size:87
Alignment explanation
Indices: 18416410--18416868 Score: 296
Period size: 84 Copynumber: 5.3 Consensus size: 87
18416400 TAAAGCCGAT
* *
18416410 AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
* *
18416475 CAGAGAGTAGATC-G-CAT-CT
66 CAGAGAGCAGATCTGACATGCA
* * * * * * **
18416494 ATTTTTATCTCTCTGAAGTTGCAGTGGAGTAGAATAAGTAA-GTAAG-TCTTATC-CTCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAA--AACCTTGGATCTTATCTCT-CTGAAG
*
18416556 TTGCAGAGAGGCAGA-CTGAAGATGGCA
63 TTGCAGAGA-GCAGATCTG-ACAT-GCA
* * *
18416583 AATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATTTTATCTCTTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
18416648 CAGAGAGCAGAT-TG-CA-GCA
66 CAGAGAGCAGATCTGACATGCA
* * * * * *
18416667 AGTCTTATC-CTCCTAAAGTTGCAG-AGAG-GCAGACTGAAGA---TGGCAAATCTTATCTCCCT
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGTG--GA-TTAAAACCTTGG---ATCTTATCTCTCT
* * * *
18416726 GAAGTTGTAGTGGAGCAGGT-T-A-AAGCCAA
59 GAAGTTGCAG-AGAGCAGATCTGACATG-C-A
* * * * *
18416755 TAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAAAAACTTGGATCTTATCTCTCTAAAGTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
*
18416820 GCAGAGAGCAGATC-G-CAT-CT
65 GCAGAGAGCAGATCTGACATGCA
* * *
18416840 AGTCTTATCTCCTTGAGGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG
18416869 CAGACTAAGT
Statistics
Matches: 282, Mismatches: 58, Indels: 70
0.69 0.14 0.17
Matches are distributed among these distances:
82 4 0.01
83 6 0.02
84 100 0.35
85 31 0.11
86 13 0.05
87 12 0.04
88 35 0.12
89 72 0.26
90 5 0.02
91 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (87 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
CAGAGAGCAGATCTGACATGCA
Found at i:18416598 original size:45 final size:45
Alignment explanation
Indices: 18416540--18416732 Score: 133
Period size: 45 Copynumber: 4.4 Consensus size: 45
18416530 AGTAAGTAAG
18416540 TCTTATC-CTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
* * * *
18416585 TCTTATCTCCCTGAAGTTGTAGTGGAGTG--GA-TTAAAACCTTGG---A
1 TCTTATCTCCCTGAAGTTGCAG-AGAG-GCAGACTGAAGA---TGGCAAA
* ** * * *
18416629 TTTTATCTCTTTGAAGTTGCAGAGA-GCAGATTG--CA--GCAAG
1 TCTTATCTCCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
*
18416669 TCTTATC-CTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
18416714 TCTTATCTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTG
18416733 TAGTGGAGCA
Statistics
Matches: 109, Mismatches: 20, Indels: 38
0.65 0.12 0.23
Matches are distributed among these distances:
37 1 0.01
39 1 0.01
40 19 0.17
41 8 0.07
42 1 0.01
43 5 0.05
44 24 0.22
45 41 0.38
46 5 0.05
47 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
Found at i:18416679 original size:346 final size:346
Alignment explanation
Indices: 18416317--18416956 Score: 1084
Period size: 346 Copynumber: 1.8 Consensus size: 346
18416307 AGACTAAGTA
* *
18416317 AGCAAGTCTTATCCTCCTGAAGTTGCAGAAAGGAAGACTGAAGATGGCAAATCTTATTTCCCTGA
1 AGCAAGTCTTATCCTCCTAAAGTTGCAGAAAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGA
* *
18416382 AGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAA
66 AGTTGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAA
* * * * *
18416447 AACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCTATTTTTATCT-CTCTGAA
131 AAACTTGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCT-TGAA
* * * *
18416511 GTTGCAGTGGAGTAGAATAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCAGAGAGGCAGACTGAA
195 GTTGCAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGGCAGACTGAA
18416576 GATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATTTTATCTCTTT
260 GATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATTTTATCTCTTT
18416641 GAAGTTGCAGAGAGCAGATTGC
325 GAAGTTGCAGAGAGCAGATTGC
* *
18416663 AGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGA
1 AGCAAGTCTTATCCTCCTAAAGTTGCAGAAAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGA
*
18416728 AGTTGTAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAA
66 AGTTGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAA
*
18416793 AAACTTGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAGG
131 AAACTTGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAG
* *
18416858 TTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACTGAGAGGCAGACTGAAG
196 TTGCAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGGCAGACTGAAG
*
18416923 ATGGCAAATCTTATCTCCTTGAAGTTGTAGTGGA
261 ATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGA
18416957 ACAGGTTAAA
Statistics
Matches: 273, Mismatches: 20, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
346 271 0.99
347 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (346 bp):
AGCAAGTCTTATCCTCCTAAAGTTGCAGAAAGGAAGACTGAAGATGGCAAATCTTATCTCCCTGA
AGTTGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAA
AAACTTGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAG
TTGCAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGGCAGACTGAAG
ATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATTTTATCTCTTTG
AAGTTGCAGAGAGCAGATTGC
Found at i:18416773 original size:129 final size:129
Alignment explanation
Indices: 18416537--18416775 Score: 358
Period size: 129 Copynumber: 1.9 Consensus size: 129
18416527 ATAAGTAAGT
*
18416537 AAGTCTTATCCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
1 AAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
* * * ** *
18416602 TGTAGTGGAGTGGATTAAAACCTTGGATTTTATCTCTTTGAAGTTGCAGAGAGCAGATTGCAGC
66 TGTAGTGGAGAGGATTAAAACCATGAATCCTATCTCTCTGAAGTTGCAGAGAGCAGATTGCAGC
18416666 AAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
1 AAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
*
18416731 TGTAGTGGAGCAGG-TTAAAGCCAAT-AATCCTATCT-TCCTGAAGTT
66 TGTAGTGGAG-AGGATTAAAACC-ATGAATCCTATCTCT-CTGAAGTT
18416776 ACAGTGGAGT
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
128 1 0.01
129 95 0.96
130 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (129 bp):
AAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
TGTAGTGGAGAGGATTAAAACCATGAATCCTATCTCTCTGAAGTTGCAGAGAGCAGATTGCAGC
Found at i:18416874 original size:173 final size:172
Alignment explanation
Indices: 18416321--18416874 Score: 644
Period size: 173 Copynumber: 3.2 Consensus size: 172
18416311 TAAGTAAGCA
* *
18416321 AGTCTTATCCTCC-TGAAGTTGCAGAAAGGA--AGACTGAAGATGGCAAATCTTATTTCCCTGAA
1 AGTCTTAT-CTCCTTGAAGTTGCAG--TGGAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAA
18416383 GTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAA
63 GTTGCAGTGGAGCAGGTTAAAGCC-ATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAA
*
18416448 ACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCGCATCT
127 ACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* * * * * * *
18416494 ATTTTTATCT-CTCTGAAGTTGCAGTGGAGTAGAAT-AAG-TAAGTAAGTCTTATC-CTCCTGAA
1 AGTCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACTGAAGAT-GGCAAATCTTATCTC-CCTGAA
* * * * * * *
18416555 GTTGCAG-AGAGGCAGACTGAAGATGGCA-AATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATT
63 GTTGCAGTGGA-GCAG-GTTAA-A-GCCATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATT
* * * * *
18416618 AAAACCTTGGATTTTATCTCTTTGAAGTTGCAGAGAGCAGATTGCAGCA
124 AAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* *
18416667 AGTCTTATCCTCC-TAAAGTTGCAG-AGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 AGTCTTAT-CTCCTTGAAGTTGCAGTGGA-GCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* *
18416730 TTGTAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAAAA
64 TTGCAGTGGAGCAGGTTAAAGCC-ATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
* *
18416795 ACTTGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
128 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
*
18416840 AGTCTTATCTCCTTGAGGTTGCAGTGGAGCAGACT
1 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT
18416875 AAGTAAGCAA
Statistics
Matches: 311, Mismatches: 49, Indels: 42
0.77 0.12 0.10
Matches are distributed among these distances:
171 10 0.03
172 39 0.13
173 220 0.71
174 35 0.11
175 7 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (172 bp):
AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGGTTAAAGCCATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCT
TGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:18416948 original size:173 final size:173
Alignment explanation
Indices: 18416410--18416956 Score: 639
Period size: 173 Copynumber: 3.2 Consensus size: 173
18416400 TAAAGCCGAT
18416410 AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
* * * * * *
18416475 CAGAGAGTAGATCGCATCTATTTTTATCT-CTCTGAAGTTGCAGTGGAGTAGAATAAGTAAGTAA
66 CAGAGAGCAGATCGCATCTAGTCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* *
18416539 GTCTTATCCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCA
130 GTCTTATCCTCCTGAAGTTACTGAGAGGCAGACTGAAGATGGCA
* * * * *
18416583 AATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATTTTATCTCTTTGAAGTTG
1 AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
* * * * * *
18416648 CAGAGAGCAGATTGCAGCAAGTCTTATCCTCC-TAAAGTTGCAG-AGAGGCAGACTGAAG-ATGG
66 CAGAGAGCAGATCGCATCTAGTCTTAT-CTCCTTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AG
* * * * *
18416710 CAAATCTTAT-CTCCCTGAAGTTGTAGTG-GA-GCAG-GTTAA-A-GCCAA
127 CAAGTCTTATCCT-CCTGAAG-T-TACTGAGAGGCAGACTGAAGATGGC-A
* * *
18416755 TAATCCTATCTTCCTGAAGTTACAGTGGAGTGGATTAAAAACTTGGATCTTATCTCTCTAAAGTT
1 -AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTT
*
18416820 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAGGTTGCAGTGGAGCAGACTAAGTAAGCAA
65 GCAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
*
18416885 GTCTTATCCTCCTAAAGTTACTGAGAGGCAGACTGAAGATGGCA
130 GTCTTATCCTCCTGAAGTTACTGAGAGGCAGACTGAAGATGGCA
* *
18416929 AATCTTATC-TCCTTGAAGTTGTAGTGGA
1 AATCCTATCTTCC-TGAAGTTGCAGTGGA
18416957 ACAGGTTAAA
Statistics
Matches: 306, Mismatches: 48, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
170 4 0.01
171 5 0.02
172 34 0.11
173 226 0.74
174 29 0.09
175 6 0.02
176 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (173 bp):
AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
CAGAGAGCAGATCGCATCTAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
TCTTATCCTCCTGAAGTTACTGAGAGGCAGACTGAAGATGGCA
Found at i:18417167 original size:45 final size:44
Alignment explanation
Indices: 18417059--18417296 Score: 162
Period size: 45 Copynumber: 5.5 Consensus size: 44
18417049 TCGCATCTAG
* * ** *
18417059 TCTTATCTCCCTGAAGTTGCAGTG-GAGTAGACT-AAGAAAGCAAG
1 TCTTATCT-CCTGAAGTTGCAGAGAG-GCAGACTGAAGATGGCAAA
*
18417103 TCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
1 TCTTAT-CTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
* * * *
18417148 TCTTATCTCCTTGAAGTTGCAGTGGAGTG--GATTAAAACCATGG---A
1 TCTTATCTCC-TGAAGTTGCAG-AGAG-GCAGACT-GAA-GATGGCAAA
* *
18417192 TCTTATCT-CTGAAGTTGCAGAGA-GCAGA-TCG--CAT--CAAG
1 TCTTATCTCCTGAAGTTGCAGAGAGGCAGACT-GAAGATGGCAAA
*
18417230 TCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
1 TCTTAT-CTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
18417275 TCTTATCTCCTTGAAGTTGCAG
1 TCTTATCTCC-TGAAGTTGCAG
18417297 TGGAGCAGGT
Statistics
Matches: 153, Mismatches: 19, Indels: 43
0.71 0.09 0.20
Matches are distributed among these distances:
37 3 0.02
38 6 0.04
39 3 0.02
40 15 0.10
41 10 0.07
42 12 0.08
43 3 0.02
44 42 0.27
45 49 0.32
46 5 0.03
47 5 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAA
Found at i:18417174 original size:563 final size:562
Alignment explanation
Indices: 18416030--18417992 Score: 2657
Period size: 563 Copynumber: 3.5 Consensus size: 562
18416020 GTCGATATCC
* ** * * *
18416030 TATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAATATTGAATCTTATCACTCTGAAGTTGC----
1 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAG
*
18416091 -GCAGATCGCATCAAGTCTTATCCTCC-AGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCT
66 AGCAGATCGCATCAAGTCTTATCCTCCTA-AAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
* *
18416154 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTG
130 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTACAGTG
* *
18416219 GAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTTCAGAGAGCAGATCGCATCTAGTCTTA
195 GAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA
* *
18416284 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGAAAG
260 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGAGAG
* * *
18416349 GAAGACTGAAGATGGCAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATC
325 GCAGACTGAAGATGGCAAATCTTATCT-CCTGAAGTTGCAGTGGAACAGGTTAAAGCCGATAATC
18416414 CTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
389 CTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGA
* * * * * * * *
18416479 GAGTAGATCGCATCTATTTTTATCTCTCTGAAGTTGCAGTGGAGTAGAATAAGTAAGTAAGTCTT
454 GAGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGAAAGCAAGTCTT
18416544 ATCCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
519 ATCCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
* * *
18416588 TATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATTTTATCTCTTTGAAGTTGCAGAG
1 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAG
* *
18416653 AGCAGATTGCAGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTT
66 AGCAGATCGCATCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTT
* *
18416718 ATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCAATAATCCTATCTTCCTGAAGTTACAGTGG
131 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTACAGTGG
* *
18416783 AGTGGATTAAAAACTTGGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCTAGTCTTAT
196 AGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTAT
* * * *
18416848 CTCCTTGAGGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTACTGAGAGG
261 CTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGAGAGG
*
18416913 CAGACTGAAGATGGCAAATCTTATCTCCTTGAAGTTGTAGTGGAACAGGTTAAAGCCGATAATCC
326 CAGACTGAAGATGGCAAATCTTATCTCC-TGAAGTTGCAGTGGAACAGGTTAAAGCCGATAATCC
18416978 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAG
390 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAG
18417043 AGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGAAAGCAAGTCTTA
455 AGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGAAAGCAAGTCTTA
*
18417108 TCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
520 TCCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
*
18417151 TATC-TCCTTGAAGTTGCAGTGGAGTGGATTAAAACCATGGATCTTATCTC--TGAAGTTGCAGA
1 TATCTTCC-TGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGA
18417213 GAGCAGATCGCATCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
65 GAGCAGATCGCATCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
* **
18417278 TATCTCCTTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAGTG
130 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTACAGTG
*
18417343 GAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTA
195 GAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTA
*
18417408 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTACAGAGAG
260 TCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGAGAG
** * * * ** ** * * *
18417473 GCAGGTTAAAG-TCG-ATAATCCTATCTTCCCAAAGTTGCAGTGG-AGTGGATTAAAACC-TTGG
325 GCAGACTGAAGATGGCA-AATCTTATC-TCCTGAAGTTGCAGTGGAACAGG-TTAAAGCCGAT-A
* * * ** *** * * * *
18417534 ATCTTATC-TCTCTGAAGTTACAG-AGAGCAGA-TCGCATC-TAG-TCTTATCTCCCTAAAGTTG
386 ATCCTATCTTC-CTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTG
* * * * * * * *
18417594 CAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGA
450 CAG-AGAGCA-AAT-CG-CATCTAGTCTTATCTC-CCTGAAGTTGCAGTGGA-GTAGACT-AAGA
** * * * * * *
18417657 TGGCAAATCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAG-GTTAA-A-GCCAATAATCC
508 AAGCAAGTCTTATCCT-CCTGAAGTTGCAGAGAG-GCAGACTGAAGATGGC-A-AATCT
* *
18417711 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAATCTTGGATCTTATCT-TTCTGAAGTTACAGA
1 TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTT-TGAAGTTGCAGA
* * * * * *
18417775 GAACAGATCGCATTAAGTCTTATCCACCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCT
65 GAGCAGATCGCATCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
* *
18417840 TATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGCCGATAATCCTATC-TCTCTAAAGTTACAGT
130 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTC-CTGAAGTTACAGT
* *
18417904 GGAGCGGATTAAAACCTTGGATCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
194 GGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
*
18417969 ATCTCCCTGAAGTTGCAATGGAGC
259 ATCTCCCTGAAGTTGCAGTGGAGC
18417993 GGATTAGAAC
Statistics
Matches: 1260, Mismatches: 116, Indels: 54
0.88 0.08 0.04
Matches are distributed among these distances:
556 20 0.02
557 7 0.01
558 61 0.05
559 18 0.01
560 129 0.10
561 304 0.24
562 215 0.17
563 505 0.40
564 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (562 bp):
TATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTTTGAAGTTGCAGAG
AGCAGATCGCATCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTT
ATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTACAGTGG
AGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTAT
CTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGAGAGG
CAGACTGAAGATGGCAAATCTTATCTCCTGAAGTTGCAGTGGAACAGGTTAAAGCCGATAATCCT
ATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
GCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGAAAGCAAGTCTTAT
CCTCCTGAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCT
Found at i:18417326 original size:127 final size:129
Alignment explanation
Indices: 18417099--18417337 Score: 396
Period size: 127 Copynumber: 1.9 Consensus size: 129
18417089 ACTAAGAAAG
18417099 CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAG
1 CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAG
* * *
18417164 TTGCAGTGGAGTGGATTAAAACCATGGATCTTATC-T-CTGAAGTTGCAGAGAGCAGATCGCAT
66 TTGCAGTGGAGAGGATTAAAACCATGAATCCTATCTTCCTGAAGTTGCAGAGAGCAGATCGCAT
18417226 CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAG
1 CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAG
*
18417291 TTGCAGTGGAGCAGG-TTAAAGCCGAT-AATCCTATCTTCCTGAAGTTG
66 TTGCAGTGGAG-AGGATTAAAACC-ATGAATCCTATCTTCCTGAAGTTG
18417338 TAGTGGAGTG
Statistics
Matches: 104, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
127 90 0.87
128 5 0.05
129 9 0.09
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (129 bp):
CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAG
TTGCAGTGGAGAGGATTAAAACCATGAATCCTATCTTCCTGAAGTTGCAGAGAGCAGATCGCAT
Found at i:18417521 original size:172 final size:172
Alignment explanation
Indices: 18416958--18417648 Score: 972
Period size: 172 Copynumber: 4.0 Consensus size: 172
18416948 TGTAGTGGAA
18416958 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
1 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
* * * *
18417023 ATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGTA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
*
18417088 GACTAAGAAAGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGG
131 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGG
* * * * *
18417130 CAGACTGAAGATGGC-A-AATCTTATC-TCCTTGAAGTTGCAGTGGAGTGGATTAAAACCATGGA
1 CAG-GTTAA-A-GCCGATAATCCTATCTTCC-TGAAGTTGCAGTGGAGTGGATTAAAACCTTGGA
18417192 TCTTA--TCTCTGAAGTTGCAGAGAGCAGATCGCATC-AAGTCTTATC-CTCCTAAAGTTGCAG-
62 TCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAA-TCTTATCTC-CCTAAAGTTGCAGT
* * * * *
18417252 AGAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCCTTGAAGTTGCAGTG-GAG
125 GGA-GCAGACT-AAGTA-AGCAAGTCTTATCCTCC-TAAAGTTGCAGAGAG-G
*
18417302 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAACCTTGGATCTT
1 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
*
18417367 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
* * *
18417432 GACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTACAGAGAGG
131 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGG
* **
18417474 CAGGTTAAAGTCGATAATCCTATCTTCCCAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
1 CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
* *
18417539 ATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTTGCAGTGGAGCA
66 ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
*
18417604 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGG
131 GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGG
18417646 CAG
1 CAG
18417649 ACTGAAGATG
Statistics
Matches: 459, Mismatches: 38, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
169 2 0.00
170 6 0.01
171 107 0.23
172 226 0.49
173 109 0.24
174 7 0.02
175 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (172 bp):
CAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTT
ATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTAAAGTTGCAGTGGAGCA
GACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGG
Found at i:18417625 original size:344 final size:344
Alignment explanation
Indices: 18416882--18417642 Score: 1151
Period size: 344 Copynumber: 2.2 Consensus size: 344
18416872 ACTAAGTAAG
* * *
18416882 CAAGTCTTATCCTCCTAAAGTTACTGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAG
1 CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATAGCAAATCTTATCTCCTTGAAG
*
18416947 TTGTAGTGGAACAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TTGCAGTGGAACAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
*
18417012 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCTAGTCTTATCTCCCTGAAGTT
131 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCTAATCTTATCTCCCTGAAGTT
* * *
18417077 GCAGTGGAGTAGACTAAGAAAGCAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGAT
196 GCAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGGCAGACTAAAGAT
* * **
18417142 GGCAAATCTTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAACCATGGATCTTATCTCTGAAGT
261 CGCAAATCCTATCTCCTCAAAGTTGCAGTGGAGTGGATTAAAACCATGGATCTTATCTCTGAAGT
*
18417207 TGCAGAGAGCAGATCGCAT
326 TACAGAGAGCAGATCGCAT
*
18417226 CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATGGCAAATCTTATCTCCTTGAAG
1 CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATAGCAAATCTTATCTCCTTGAAG
* *
18417291 TTGCAGTGGAGCAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGTAGTGGAGTGGATTAAAA
66 TTGCAGTGGAACAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
*
18417356 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTT
131 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCTAATCTTATCTCCCTGAAGTT
* * * **
18417421 GCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTTCTGAAGTTACAGAGAGGCAGGTTAAAG-T
196 GCAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGGCAGACTAAAGAT
*
18417485 CG-ATAATCCTATCTTCC-CAAAGTTGCAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTG
261 CGCA-AATCCTATC-TCCTCAAAGTTGCAGTGGAGTGGATTAAAACCATGGATCTTA--TCTCTG
18417548 AAGTTACAGAGAGCAGATCGCAT
322 AAGTTACAGAGAGCAGATCGCAT
* * *
18417571 CTAGTCTTAT-CTCCCTAAAGTTGCAGTG-GAGCAGACT-AAG-TAAGCAAGTCTTATCCTCC-T
1 CAAGTCTTATCCT-CCTAAAGTTGCAGAGAG-GCAGACTGAAGAT-AGCAAATCTTAT-CTCCTT
*
18417631 AAAGTTGCAGTG
62 GAAGTTGCAGTG
18417643 AGGCAGACTG
Statistics
Matches: 383, Mismatches: 26, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
342 1 0.00
343 46 0.12
344 274 0.72
345 62 0.16
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (344 bp):
CAAGTCTTATCCTCCTAAAGTTGCAGAGAGGCAGACTGAAGATAGCAAATCTTATCTCCTTGAAG
TTGCAGTGGAACAGGTTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAA
CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCAAATCGCATCTAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGACTAAGAAAGCAAGTCTTATCCTCCTAAAGTTACAGAGAGGCAGACTAAAGAT
CGCAAATCCTATCTCCTCAAAGTTGCAGTGGAGTGGATTAAAACCATGGATCTTATCTCTGAAGT
TACAGAGAGCAGATCGCAT
Found at i:18417683 original size:45 final size:44
Alignment explanation
Indices: 18417575--18417693 Score: 154
Period size: 45 Copynumber: 2.7 Consensus size: 44
18417565 TCGCATCTAG
*
18417575 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
*
18417619 TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTAAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAA
*
18417664 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAG
18417694 GTTAAAGCCA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
43 3 0.05
44 29 0.44
45 31 0.47
46 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:18417799 original size:173 final size:174
Alignment explanation
Indices: 18417616--18417985 Score: 586
Period size: 173 Copynumber: 2.1 Consensus size: 174
18417606 CTAAGTAAGC
*
18417616 AAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
1 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
* * *
18417681 TGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCT-TCCTGAAGTTGCAGTGGAGTGGATTAAAA
66 TGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTCT-CTAAAGTTACAGTGGAGCGGATTAAAA
* *
18417745 TCTTGGATCTTATCTTTCTGAAGTTACAGAGAACAGATCGCAT-T
130 CCTTGGATCTTATCTATCTGAAGTTACAGAGAACAGATCGCATCT
* *
18417789 AAGTCTTATCCACCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
1 AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
* *
18417854 TGTAGTGGAGCAGGTTAAAGCCGATAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
66 TGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
* *
18417919 CTTGGATCTTATCTATCTGAAGTTGCAGAGAGCAGATCGCATCT
131 CTTGGATCTTATCTATCTGAAGTTACAGAGAACAGATCGCATCT
18417963 -AGTCTTAT-CTCCCTGAAGTTGCA
1 AAGTCTTATCCT-CCTGAAGTTGCA
18417986 ATGGAGCGGA
Statistics
Matches: 180, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
172 1 0.01
173 177 0.98
174 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (174 bp):
AAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGT
TGCAGTGGAGCAGGTTAAAGCCAATAATCCTATCTCTCTAAAGTTACAGTGGAGCGGATTAAAAC
CTTGGATCTTATCTATCTGAAGTTACAGAGAACAGATCGCATCT
Done.