Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 100 of 144
Found at i:23416615 original size:21 final size:21
Alignment explanation
Indices: 23416589--23416656 Score: 109
Period size: 21 Copynumber: 3.2 Consensus size: 21
23416579 TTGGTTCAAA
23416589 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
*
23416610 TGGGTTTGGTTTAAATGAATG
1 TGGGTTTGGTTTAAATGAATT
*
23416631 TGGGTTTGGTTTAAATAGGATT
1 TGGGTTTGGTTTAAAT-GAATT
23416653 TGGG
1 TGGG
23416657 CTTAATGGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
21 36 0.84
22 7 0.16
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:23417094 original size:11 final size:11
Alignment explanation
Indices: 23417026--23417100 Score: 53
Period size: 11 Copynumber: 6.5 Consensus size: 11
23417016 AAGTGTGATT
*
23417026 AAAAGAGGAAG
1 AAAAGAGAAAG
* *
23417037 AAAAATAGAAAA
1 -AAAAGAGAAAG
23417049 AAAAGAGAAAG
1 AAAAGAGAAAG
23417060 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
23417072 AATGAGAAAAAG
1 AA-AAGAGAAAG
23417084 AAAAGAGAAAG
1 AAAAGAGAAAG
*
23417095 GAAAGA
1 AAAAGA
23417101 TGAGAGGCTT
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
11 29 0.59
12 16 0.33
13 4 0.08
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:23423594 original size:21 final size:22
Alignment explanation
Indices: 23423570--23423626 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
23423560 ACGGTCAAAG
23423570 TCAACGGTCAGTCAAC-GCCGA
1 TCAACGGTCAGTCAACGGCCGA
* *
23423591 TCAACGGTCGGTCAACGGTCGA
1 TCAACGGTCAGTCAACGGCCGA
*
23423613 TCAAC-GTCTGTCAA
1 TCAACGGTCAGTCAA
23423627 TGGTTTGACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (22 bp):
TCAACGGTCAGTCAACGGCCGA
Found at i:23423611 original size:11 final size:11
Alignment explanation
Indices: 23423569--23423618 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
23423559 AACGGTCAAA
*
23423569 GTCAACGGTCA
1 GTCAACGGTCG
*
23423580 GTCAAC-GCCG
1 GTCAACGGTCG
*
23423590 ATCAACGGTCG
1 GTCAACGGTCG
23423601 GTCAACGGTCG
1 GTCAACGGTCG
*
23423612 ATCAACG
1 GTCAACG
23423619 TCTGTCAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
10 7 0.22
11 25 0.78
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (11 bp):
GTCAACGGTCG
Found at i:23423700 original size:21 final size:21
Alignment explanation
Indices: 23423676--23423743 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
23423666 TTGGTTCAAA
23423676 TGGGTTTGGTTTAAATGAATT
1 TGGGTTTGGTTTAAATGAATT
*
23423697 TGGGTTTGGTTTAAATGAATG
1 TGGGTTTGGTTTAAATGAATT
* *
23423718 TGGGTTTGATTTAAATAGGATT
1 TGGGTTTGGTTTAAAT-GAATT
23423740 TGGG
1 TGGG
23423744 CTTAATGGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 35 0.83
22 7 0.17
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (21 bp):
TGGGTTTGGTTTAAATGAATT
Found at i:23424150 original size:11 final size:11
Alignment explanation
Indices: 23424114--23424189 Score: 55
Period size: 11 Copynumber: 6.5 Consensus size: 11
23424104 AAGTGTGATT
*
23424114 AAAAGAGGAAG
1 AAAAGAGAAAG
*
23424125 AAAAATAGAAAAG
1 -AAAAGAG-AAAG
23424138 AAAAGAGAAAG
1 AAAAGAGAAAG
23424149 AAATA-AGAAATG
1 AAA-AGAGAAA-G
* *
23424161 AATGAGAAAAAG
1 AA-AAGAGAAAG
23424173 AAAAGAGAAAG
1 AAAAGAGAAAG
*
23424184 GAAAGA
1 AAAAGA
23424190 TGAGAGGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
11 24 0.47
12 20 0.39
13 7 0.14
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:23425836 original size:41 final size:41
Alignment explanation
Indices: 23425776--23425946 Score: 231
Period size: 41 Copynumber: 4.2 Consensus size: 41
23425766 AAACGCCGTA
*
23425776 AAAGGT-AGAGCAATAGCGGCGCTTATGGAAAAGCGTCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCGCCGCT
* * * *
23425816 AAAGGTTAGAGCAATAGCGGCGCTTTTTGAAAAGTGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCGCCGCT
* **
23425857 AAAGGTCAGTGCAATAGCGGCGCTTATGGGCAAGCGCCGCT
1 AAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCGCCGCT
23425898 AAAGGTCAGAGCAATAGCGGCGCTTATGTG-AAAGCGCCAG-T
1 AAAGGTCAGAGCAATAGCGGCGCTTATG-GAAAAGCGCC-GCT
23425939 AAAGGTCA
1 AAAGGTCA
23425947 TTTAATTGAT
Statistics
Matches: 115, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
40 6 0.05
41 107 0.93
42 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (41 bp):
AAAGGTCAGAGCAATAGCGGCGCTTATGGAAAAGCGCCGCT
Found at i:23430379 original size:19 final size:18
Alignment explanation
Indices: 23430351--23430412 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 18
23430341 TAAAATAGAG
*
23430351 AAAATTATAAAAATAATAA
1 AAAATCATAAAAAT-ATAA
*
23430370 AAAATCATAAATATATACA
1 AAAATCATAAAAATATA-A
23430389 TAAAA-CATAAAAAATTATAA
1 -AAAATCAT-AAAAA-TATAA
23430409 AAAA
1 AAAA
23430413 AAATTAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.08
19 20 0.56
20 9 0.25
21 4 0.11
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATCATAAAAATATAA
Found at i:23443512 original size:63 final size:63
Alignment explanation
Indices: 23443413--23443536 Score: 230
Period size: 63 Copynumber: 2.0 Consensus size: 63
23443403 CCGCCGTCGT
*
23443413 CGCCACCGCCAGCCTCCTTGCAGCCGAAGGAAAATGTAGTATCAGGAGGACCACCATTGCCTC
1 CGCCACCGCCAGCCTCCTTGCAACCGAAGGAAAATGTAGTATCAGGAGGACCACCATTGCCTC
*
23443476 CGCCACCGCCAGCTTCCTTGCAACCGAAGGAAAATGTAGTATCAGGAGGACCACCATTGCC
1 CGCCACCGCCAGCCTCCTTGCAACCGAAGGAAAATGTAGTATCAGGAGGACCACCATTGCC
23443537 CCCACCCCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.27, C:0.34, G:0.23, T:0.16
Consensus pattern (63 bp):
CGCCACCGCCAGCCTCCTTGCAACCGAAGGAAAATGTAGTATCAGGAGGACCACCATTGCCTC
Found at i:23445949 original size:16 final size:16
Alignment explanation
Indices: 23445925--23445956 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23445915 TTTAAAACCT
*
23445925 AAATTAACTCGACTCA
1 AAATAAACTCGACTCA
23445941 AAATAAACTCGACTCA
1 AAATAAACTCGACTCA
23445957 CTTATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.22
Consensus pattern (16 bp):
AAATAAACTCGACTCA
Found at i:23446342 original size:21 final size:21
Alignment explanation
Indices: 23446299--23446343 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23446289 ATATTACATT
* * **
23446299 AATATTTTTATTTTGAATTAA
1 AATATTTTCATCTTGAAAGAA
23446320 AATATTTTCATCTTGAAAGAA
1 AATATTTTCATCTTGAAAGAA
23446341 AAT
1 AAT
23446344 TAAATTCATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (21 bp):
AATATTTTCATCTTGAAAGAA
Found at i:23453921 original size:20 final size:19
Alignment explanation
Indices: 23453891--23453946 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
23453881 ATCGACTTAA
23453891 TAAATAATTTTAAATTA-AT
1 TAAA-AATTTTAAATTATAT
23453910 TAATTAAATTTTAAAATTATAT
1 TAA--AAATTTT-AAATTATAT
23453932 TAAAAATTTTAAATT
1 TAAAAATTTTAAATT
23453947 GTGACATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.24
20 13 0.39
21 7 0.21
22 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TAAAAATTTTAAATTATAT
Found at i:23459212 original size:21 final size:22
Alignment explanation
Indices: 23459176--23459219 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
23459166 AAAACTCAAT
*
23459176 TTTATTTTTCTTATTATTTTTA
1 TTTATTTATCTTATTATTTTTA
23459198 TTTATTTAT-TTATTATTTTTA
1 TTTATTTATCTTATTATTTTTA
23459219 T
1 T
23459220 GAATATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTATTTATCTTATTATTTTTA
Found at i:23461777 original size:31 final size:31
Alignment explanation
Indices: 23461742--23461801 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
23461732 TGCATTCATG
23461742 CATTCATAAAATTTCGCATCGCATTTTCAAA
1 CATTCATAAAATTTCGCATCGCATTTTCAAA
* *
23461773 CATTCATAAAGTTTTGCATCGCATTTTCA
1 CATTCATAAAATTTCGCATCGCATTTTCA
23461802 TGCATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (31 bp):
CATTCATAAAATTTCGCATCGCATTTTCAAA
Found at i:23463366 original size:17 final size:17
Alignment explanation
Indices: 23463343--23463472 Score: 75
Period size: 17 Copynumber: 8.1 Consensus size: 17
23463333 ATCGGGCCTT
23463343 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
23463361 -TTAAATTTGA-TTTAAA
1 TTTAAATTT-ATTTTAAA
* *
23463377 TTTAGATTTATTTCAAA
1 TTTAAATTTATTTTAAA
23463394 TTTAAATTTA----AAA
1 TTTAAATTTATTTTAAA
*
23463407 -TT-AA---ACTTTAAA
1 TTTAAATTTATTTTAAA
* * *
23463419 TTTGAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
23463436 TCTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
23463453 TTTAAAAATTATTATAAA
1 TTT-AAATTTATTTTAAA
23463471 TT
1 TT
23463473 GAAACCCAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
8 1 0.01
11 2 0.02
12 5 0.06
13 5 0.06
14 2 0.02
16 2 0.02
17 55 0.63
18 15 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:23463379 original size:6 final size:6
Alignment explanation
Indices: 23463343--23463458 Score: 84
Period size: 6 Copynumber: 20.0 Consensus size: 6
23463333 ATCGGGCCTT
* * *
23463343 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-GA TTTAAA TTTAGA TTT--A
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
23463387 TTTCAAA TTTAAA TTTAAA ATTAAA CTTTAAA TTTGAA TTT-AA TTTAAG
1 TTT-AAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA
* *
23463436 TCTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
23463459 AATTATTATA
Statistics
Matches: 86, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
4 4 0.05
5 18 0.21
6 55 0.64
7 9 0.10
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:23463386 original size:12 final size:12
Alignment explanation
Indices: 23463343--23463458 Score: 84
Period size: 11 Copynumber: 10.0 Consensus size: 12
23463333 ATCGGGCCTT
*
23463343 TTTAAATTT-AT
1 TTTAAATTTAAA
23463354 TTTAAGA-TTAAA
1 TTTAA-ATTTAAA
*
23463366 TTT-GATTTAAA
1 TTTAAATTTAAA
*
23463377 TTTAGATTT--A
1 TTTAAATTTAAA
23463387 TTTCAAATTTAAA
1 TTT-AAATTTAAA
*
23463400 TTTAAAATTAAA
1 TTTAAATTTAAA
*
23463412 CTTTAAATTTGAA
1 -TTTAAATTTAAA
*
23463425 TTT-AATTTAAG
1 TTTAAATTTAAA
* *
23463436 TCTAAATTT-AT
1 TTTAAATTTAAA
23463447 TTTAAATTTAAA
1 TTTAAATTTAAA
23463459 AATTATTATA
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
10 5 0.06
11 37 0.45
12 27 0.33
13 14 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:23464329 original size:22 final size:22
Alignment explanation
Indices: 23464274--23464329 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
23464264 AAATACCTAT
23464274 TTAAT-GTATTAAATAGTTTTA
1 TTAATAGTATTAAATAGTTTTA
*
23464295 TTAATAATATTAAATA-TTTTCA
1 TTAATAGTATTAAATAGTTTT-A
*
23464317 TTAATAGTTTTAA
1 TTAATAGTATTAA
23464330 TAAGTTTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.30
22 21 0.70
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TTAATAGTATTAAATAGTTTTA
Found at i:23465366 original size:59 final size:60
Alignment explanation
Indices: 23465269--23465535 Score: 264
Period size: 59 Copynumber: 4.5 Consensus size: 60
23465259 GCTCTCTAGT
* * *
23465269 CCCCAAACTTTCCAAAATTCTATTTTTGACCATGAAACTT-CCAAAAATTATCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTGACCCTAAAACTTACCAAAAATTATCATTTTAC
*
23465328 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT-CCAAAAATTATCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTGACCCTAAAACTTACCAAAAATTATCATTTTAC
* * * * *
23465387 CCCTAAACTTTCAAAAATTCCA-TTTTGACCCT--AATTTCACCCAAAATTACCATTTTAC
1 CCCCAAACTTTCCAAAATTCCATTTTTGACCCTAAAACTT-ACCAAAAATTATCATTTTAC
* * * * * **
23465445 CCTCGAACCTTT-TAAAATCCCATTTTT-ACCC-ATAGTTTCACCAAAAATTA-CTATTTTAC
1 CC-CCAAACTTTCCAAAATTCCATTTTTGACCCTAAAACTT-ACCAAAAATTATC-ATTTTAC
* * *
23465504 CCTCGAACTTTCCAAAATTTCATTTTTGACCC
1 CCCCAAACTTTCCAAAATTCCATTTTTGACCC
23465536 CGATTTCACC
Statistics
Matches: 176, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
56 4 0.02
58 46 0.26
59 122 0.69
60 4 0.02
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.36
Consensus pattern (60 bp):
CCCCAAACTTTCCAAAATTCCATTTTTGACCCTAAAACTTACCAAAAATTATCATTTTAC
Found at i:23465417 original size:29 final size:28
Alignment explanation
Indices: 23465269--23465446 Score: 123
Period size: 30 Copynumber: 6.1 Consensus size: 28
23465259 GCTCTCTAGT
* *
23465269 CCCC-AAACTTTCCAAAATTCTATTTTTGA
1 CCCCTAAACTTTCAAAAATTCCA-TTTT-A
* * *
23465298 -CCATGAAACTTCCAAAAATTATCATTTTA
1 CCCCT-AAACTTTCAAAAATT-CCATTTTA
* *
23465327 CCCCCAAACTTTCCAAAATTCCATTTTTA
1 CCCCTAAACTTTCAAAAATTCCA-TTTTA
* * *
23465356 ACCCTAAAACTTCCAAAAATTATCATTTTA
1 CCCCT-AAACTTTCAAAAATT-CCATTTTA
23465386 CCCCTAAACTTTCAAAAATTCCATTTTGA
1 CCCCTAAACTTTCAAAAATTCCATTTT-A
23465415 -CCCT-AA-TTTCACCCAAAATTACCATTTTA
1 CCCCTAAACTTTCA---AAAATT-CCATTTTA
23465444 CCC
1 CCC
23465447 TCGAACCTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
26 5 0.04
27 2 0.02
28 14 0.12
29 44 0.37
30 50 0.42
31 3 0.03
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (28 bp):
CCCCTAAACTTTCAAAAATTCCATTTTA
Found at i:23465519 original size:30 final size:30
Alignment explanation
Indices: 23465272--23465520 Score: 136
Period size: 29 Copynumber: 8.5 Consensus size: 30
23465262 CTCTAGTCCC
* *
23465272 CAAACTTTCC-AAAATT-CTATTTTTGACCAT
1 CAAACTTTCCAAAAATTACCA-TTTT-ACCCT
* * *
23465302 GAAAC-TTCCAAAAATTATCATTTTACCCC
1 CAAACTTTCCAAAAATTACCATTTTACCCT
23465331 CAAACTTTCC-AAAATT-CCATTTTTAACCCT
1 CAAACTTTCCAAAAATTACCA-TTTT-ACCCT
* *
23465361 AAAAC-TTCCAAAAATTATCATTTTACCC-
1 CAAACTTTCCAAAAATTACCATTTTACCCT
23465389 CTAAACTTT-CAAAAATT-CCATTTTGACCCT
1 C-AAACTTTCCAAAAATTACCATTTT-ACCCT
*
23465419 --AA-TTTCACCCAAAATTACCATTTTACCCT
1 CAAACTTT--CCAAAAATTACCATTTTACCCT
* * *
23465448 CGAACCTTT--TAAAA-TCCCATTTTTA-CC-
1 C-AAACTTTCCAAAAATTACCA-TTTTACCCT
* * *
23465475 CATAGTTTCACCAAAAATTACTATTTTACCCT
1 CAAACTTT--CCAAAAATTACCATTTTACCCT
*
23465507 CGAACTTTCCAAAA
1 CAAACTTTCCAAAA
23465521 TTTCATTTTT
Statistics
Matches: 167, Mismatches: 25, Indels: 54
0.68 0.10 0.22
Matches are distributed among these distances:
26 7 0.04
27 3 0.02
28 14 0.08
29 66 0.40
30 60 0.36
31 8 0.05
32 6 0.04
33 3 0.02
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.35
Consensus pattern (30 bp):
CAAACTTTCCAAAAATTACCATTTTACCCT
Found at i:23465530 original size:29 final size:29
Alignment explanation
Indices: 23465274--23465569 Score: 90
Period size: 29 Copynumber: 10.1 Consensus size: 29
23465264 CTAGTCCCCA
*
23465274 AACTTTCCAAAA-TTCTATTTTTGACCAT-G
1 AACTTTCCAAAATTTC-ATTTTT-ACCCTCG
* *
23465303 AAAC-TTCCAAAAATTATCA-TTTTACCCCCA
1 -AACTTTCC-AAAATT-TCATTTTTACCCTCG
* **
23465333 AACTTTCCAAAATTCCATTTTTAACCCTAA
1 AACTTTCCAAAATTTCATTTTT-ACCCTCG
*
23465363 AAC-TTCCAAAAATTATCA-TTTTACCC-CTA
1 AACTTTCC-AAAATT-TCATTTTTACCCTC-G
* * *
23465392 AACTTTCAAAAATTCCATTTTGACCCT--
1 AACTTTCCAAAATTTCATTTTTACCCTCG
*
23465419 AA-TTTCACCCAAAATTACCA-TTTTACCCTCG
1 AACTTT---CCAAAATT-TCATTTTTACCCTCG
* **
23465450 AACCTTT-TAAAATCCCATTTTTA-CC-C-
1 AA-CTTTCCAAAATTTCATTTTTACCCTCG
* *
23465476 ATAGTTTCACCAAAAATT-ACTATTTTACCCTCG
1 A-ACTTT--CCAAAATTTCA-T-TTTTACCCTCG
23465509 AACTTTCCAAAATTTCATTTTTGACCC-CG
1 AACTTTCCAAAATTTCATTTTT-ACCCTCG
* *
23465538 -A-TTTCACCAAAAATTACATTTTTACCCCCG
1 AACTTT--CC-AAAATTTCATTTTTACCCTCG
23465568 AA
1 AA
23465570 AGTCAAAAAT
Statistics
Matches: 205, Mismatches: 23, Indels: 75
0.68 0.08 0.25
Matches are distributed among these distances:
26 7 0.03
27 7 0.03
28 11 0.05
29 87 0.42
30 72 0.35
31 10 0.05
32 7 0.03
33 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.35
Consensus pattern (29 bp):
AACTTTCCAAAATTTCATTTTTACCCTCG
Found at i:23465543 original size:59 final size:59
Alignment explanation
Indices: 23465269--23465569 Score: 262
Period size: 59 Copynumber: 5.1 Consensus size: 59
23465259 GCTCTCTAGT
* * * *
23465269 CCCCAAACTTTCCAAAATTCTATTTTTGACCATGAAACTT--CCAAAAATTA-TCATTTTAC
1 CCCCGAACTTTCCAAAATTCCATTTTTGACC--CAAATTTCACCAAAAATTACT-ATTTTAC
* * *
23465328 CCCCAAACTTTCCAAAATTCCATTTTTAACCCTAAAACTT--CCAAAAATTA-TCATTTTAC
1 CCCCGAACTTTCCAAAATTCCATTTTTGACCC--AAATTTCACCAAAAATTACT-ATTTTAC
** * * * *
23465387 CCCTAAACTTTCAAAAATTCCA-TTTTGACCCTAATTTCACCCAAAATTACCATTTTAC
1 CCCCGAACTTTCCAAAATTCCATTTTTGACCCAAATTTCACCAAAAATTACTATTTTAC
* * * *
23465445 CCTCGAACCTTT-TAAAATCCCATTTTT-ACCCATAGTTTCACCAAAAATTACTATTTTAC
1 CCCCGAA-CTTTCCAAAATTCCATTTTTGACCCA-AATTTCACCAAAAATTACTATTTTAC
* * **
23465504 CCTCGAACTTTCCAAAATTTCATTTTTGACCCCGATTTCACCAAAAATTAC-ATTTTTAC
1 CCCCGAACTTTCCAAAATTCCATTTTTGACCCAAATTTCACCAAAAATTACTA-TTTTAC
23465563 CCCCGAA
1 CCCCGAA
23465570 AGTCAAAAAT
Statistics
Matches: 205, Mismatches: 26, Indels: 22
0.81 0.10 0.09
Matches are distributed among these distances:
56 4 0.02
58 45 0.22
59 152 0.74
60 4 0.02
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.35
Consensus pattern (59 bp):
CCCCGAACTTTCCAAAATTCCATTTTTGACCCAAATTTCACCAAAAATTACTATTTTAC
Found at i:23465558 original size:30 final size:31
Alignment explanation
Indices: 23465480--23465565 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 31
23465470 TTACCCATAG
23465480 TTTCACCAAAAATTAC-TATTTTACCCTCGAAC
1 TTTCACCAAAAATTACAT-TTTTACCC-CGAAC
*
23465512 TTT--CC-AAAATTTCATTTTTGACCCCG-A-
1 TTTCACCAAAAATTACATTTTT-ACCCCGAAC
23465539 TTTCACCAAAAATTACATTTTTACCCC
1 TTTCACCAAAAATTACATTTTTACCCC
23465566 CGAAAGTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
27 3 0.06
28 1 0.02
29 20 0.43
30 20 0.43
32 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.37
Consensus pattern (31 bp):
TTTCACCAAAAATTACATTTTTACCCCGAAC
Found at i:23465567 original size:30 final size:31
Alignment explanation
Indices: 23465480--23465568 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 31
23465470 TTACCCATAG
*
23465480 TTTCACCAAAAATTAC-TATTTTACCCTCGAAC
1 TTTCACCAAAAATTACAT-TTTTACCCCCG-AC
*
23465512 TTT--CC-AAAATTTCATTTTTGA-CCCCGA-
1 TTTCACCAAAAATTACATTTTT-ACCCCCGAC
23465539 TTTCACCAAAAATTACATTTTTACCCCCGA
1 TTTCACCAAAAATTACATTTTTACCCCCGA
23465569 AAGTCAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
27 3 0.06
28 1 0.02
29 18 0.38
30 23 0.48
32 3 0.06
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.36
Consensus pattern (31 bp):
TTTCACCAAAAATTACATTTTTACCCCCGAC
Found at i:23467528 original size:29 final size:28
Alignment explanation
Indices: 23467496--23467721 Score: 178
Period size: 29 Copynumber: 7.8 Consensus size: 28
23467486 TTTGGATACC
*
23467496 CGGGGGCAAAATGGTAATTTTGGTGAAAT
1 CGGGGGTAAAATGGTAATTTT-GTGAAAT
* *
23467525 CGGGGTTAAAATGG-AATTTTG-GAAGTT
1 CGGGGGTAAAATGGTAATTTTGTGAA-AT
23467552 CGGGGGTAAAATGGTAATTTTTAGTGAAAT
1 CGGGGGTAAAATGGTAA-TTTT-GTGAAAT
* * *
23467582 TGGGGTTAAAGAT-GAAATTTTG-GAAAGTT
1 CGGGGGTAAA-ATGGTAATTTTGTGAAA--T
*
23467611 CAGGGGTAAAATGGTAATTTTTAGTGAAAT
1 CGGGGGTAAAATGGTAA-TTTT-GTGAAAT
* *
23467641 TGGGGTTAAAGATGG-AATTTTG-GAAAGTT
1 CGGGGGTAAA-ATGGTAATTTTGTGAAA--T
23467670 CGGGGGTAAAATGGTAATTTTTGGTGAAAT
1 CGGGGGTAAAATGGTAA-TTTT-GTGAAAT
*
23467700 CGGGGTTAAAAATGG-AATTTTG
1 CGGGGGT-AAAATGGTAATTTTG
23467722 AAAAGTTTTG
Statistics
Matches: 159, Mismatches: 18, Indels: 41
0.73 0.08 0.19
Matches are distributed among these distances:
26 3 0.02
27 23 0.14
28 17 0.11
29 50 0.31
30 40 0.25
31 18 0.11
32 8 0.05
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (28 bp):
CGGGGGTAAAATGGTAATTTTGTGAAAT
Found at i:23467617 original size:30 final size:28
Alignment explanation
Indices: 23467524--23467753 Score: 143
Period size: 29 Copynumber: 7.9 Consensus size: 28
23467514 TTTGGTGAAA
*
23467524 TCGGGGTTAAAATGGAATTTTGG-AAGT
1 TCGGGGTTAAAATGAAATTTTGGAAAGT
* *
23467551 TCGGGGGTAAAATGGTAATTTTTAGTGAAA-T
1 TCGGGGTTAAAAT-G-AAATTTT-G-GAAAGT
23467582 T-GGGGTTAAAGATGAAATTTTGGAAAGT
1 TCGGGGTTAAA-ATGAAATTTTGGAAAGT
*
23467610 TCAGGGG-TAAAATGGTAATTTTTAGTGAAA-T
1 TC-GGGGTTAAAAT-G-AAATTTT-G-GAAAGT
*
23467641 T-GGGGTTAAAGATGGAATTTTGGAAAGT
1 TCGGGGTTAAA-ATGAAATTTTGGAAAGT
* *
23467669 TCGGGGGTAAAATGGTAATTTTTGGTGAAA--
1 TCGGGGTTAAAAT-G-AAATTTT-G-GAAAGT
* *
23467699 TCGGGGTTAAAAATGGAATTTTGAAAAGT
1 TCGGGGTT-AAAATGAAATTTTGGAAAGT
** *
23467728 TTTGGGATAAAATGATAATTTTGGAA
1 TCGGGGTTAAAATGA-AATTTTGGAA
23467754 GTTTTAGGGT
Statistics
Matches: 158, Mismatches: 20, Indels: 48
0.70 0.09 0.21
Matches are distributed among these distances:
27 23 0.15
28 18 0.11
29 53 0.34
30 38 0.24
31 16 0.10
32 10 0.06
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (28 bp):
TCGGGGTTAAAATGAAATTTTGGAAAGT
Found at i:23467622 original size:59 final size:59
Alignment explanation
Indices: 23467461--23467749 Score: 372
Period size: 59 Copynumber: 4.9 Consensus size: 59
23467451 TAAGAAACGA
* * ** * *
23467461 TGAAATCGGGGTTGAAA-ATGAGACTTTTGGATA-CCCGGGGGCAAAATGGTAA-TTTTGG
1 TGAAATCGGGGTT-AAAGATG-GAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTAG
23467519 TGAAATCGGGGTTAAA-ATGGAATTTTGG-AAGTTCGGGGGTAAAATGGTAATTTTTAG
1 TGAAATCGGGGTTAAAGATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTAG
* * *
23467576 TGAAATTGGGGTTAAAGATGAAATTTTGGAAAGTTCAGGGGTAAAATGGTAATTTTTAG
1 TGAAATCGGGGTTAAAGATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTAG
* *
23467635 TGAAATTGGGGTTAAAGATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAGATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTAG
* * ** * *
23467694 TGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTTTGGGATAAAATGATAATTTT
1 TGAAATCGGGGTTAAAGATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTT
23467750 GGAAGTTTTA
Statistics
Matches: 208, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
55 1 0.00
56 24 0.12
57 26 0.12
58 24 0.12
59 133 0.64
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (59 bp):
TGAAATCGGGGTTAAAGATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTAG
Found at i:23468080 original size:162 final size:162
Alignment explanation
Indices: 23467878--23468219 Score: 526
Period size: 162 Copynumber: 2.1 Consensus size: 162
23467868 AGGCATCCAG
* * * * *
23467878 CAGTCAAGGGATTAAATTGTAAATCTTGAAAAAATCTTGGGCCAATTCCGTAATTAAGTAAAAGT
1 CAGTCAAAGGACTAAATTATAAACCTTGAAAAAATCTTGGGCCAATTCCGTAATTAAATAAAAGT
23467943 TGATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAGA-GACTAAATGCATAAATATA-CCAA
66 TGATTTAGGGATTAAATTAAAACAAATTAAAAATGTCA-ATGACTAAATGCATAAATA-AGCCAA
*
23468006 AAAGTGACACGTGGCAGCCCTTGGTGCAGTCAAA
129 AAAGTGACACGTGGCAGCCCTTGGGGCAGTCAAA
* * ** *
23468040 CAGTCAAAGGACTAATTTATAAACCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAATT
1 CAGTCAAAGGACTAAATTATAAACCTTGAAAAAATCTTGGGCCAATTCCGTAATTAAATAAAAGT
23468105 TGATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAATGACTAAATGCATAAATAAGCCAAAA
66 TGATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAATGACTAAATGCATAAATAAGCCAAAA
*
23468170 AGTGACACGTGGCAGCCTTTGGGGCAGTCAAA
131 AGTGACACGTGGCAGCCCTTGGGGCAGTCAAA
* *
23468202 CAATCAAAGGATTAAATT
1 CAGTCAAAGGACTAAATT
23468220 GAAAACTAAT
Statistics
Matches: 163, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
161 2 0.01
162 161 0.99
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (162 bp):
CAGTCAAAGGACTAAATTATAAACCTTGAAAAAATCTTGGGCCAATTCCGTAATTAAATAAAAGT
TGATTTAGGGATTAAATTAAAACAAATTAAAAATGTCAATGACTAAATGCATAAATAAGCCAAAA
AGTGACACGTGGCAGCCCTTGGGGCAGTCAAA
Found at i:23468954 original size:3 final size:3
Alignment explanation
Indices: 23468946--23468986 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
23468936 TATTAAATAT
*
23468946 TTA TTA TTA TTA TTA ATA TTTA TTA TTA GTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA TTA TTA
23468987 AATATTAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 29 0.85
4 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:23468970 original size:16 final size:16
Alignment explanation
Indices: 23468947--23468986 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
23468937 ATTAAATATT
23468947 TATTATTATTA-TTAA
1 TATTATTATTAGTTAA
*
23468962 TATTTATTATTAGTTAT
1 TA-TTATTATTAGTTAA
23468979 TATTATTA
1 TATTATTA
23468987 AATATTAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 15 0.68
17 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTATTATTAGTTAA
Found at i:23468993 original size:13 final size:13
Alignment explanation
Indices: 23468950--23468993 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
23468940 AAATATTTAT
23468950 TATTATTATT-AA
1 TATTATTATTAAA
**
23468962 TATTTATTATTAGT
1 TA-TTATTATTAAA
23468976 TATTATTATTAAA
1 TATTATTATTAAA
23468989 TATTA
1 TATTA
23468994 ATGGATATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 2 0.08
13 22 0.85
14 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:23469804 original size:17 final size:17
Alignment explanation
Indices: 23469784--23469848 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
23469774 TTAATATTAT
* *
23469784 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
23469801 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
23469818 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
23469832 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
23469849 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:23469811 original size:11 final size:11
Alignment explanation
Indices: 23469797--23469867 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
23469787 AAATTAAGTT
23469797 TAAATTTAAAA
1 TAAATTTAAAA
23469808 TAAATTT-AAA
1 TAAATTTAAAA
* *
23469818 T-AA-GTAAATT
1 TAAATTTAAA-A
*
23469828 TAAATTTAAGA
1 TAAATTTAAAA
23469839 TAAATTTAAAAA
1 TAAATTT-AAAA
*
23469851 TGAATTTAAAA
1 TAAATTTAAAA
*
23469862 TTAATT
1 TAAATT
23469868 CAAACTTTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:23469833 original size:31 final size:29
Alignment explanation
Indices: 23469795--23469865 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
23469785 TTAAATTAAG
23469795 TTTAAATTTAAAATAAATTTAAATAAGTAAA
1 TTTAAATTTAAAATAAATTTAAA-AA-TAAA
* *
23469826 TTTAAATTTAAGATAAATTTAAAAATGAA
1 TTTAAATTTAAAATAAATTTAAAAATAAA
*
23469855 TTTAAAATTAA
1 TTTAAATTTAA
23469866 TTCAAACTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTAAATTTAAAATAAATTTAAAAATAAA
Found at i:23470281 original size:76 final size:76
Alignment explanation
Indices: 23470153--23470962 Score: 1181
Period size: 76 Copynumber: 10.8 Consensus size: 76
23470143 TGCTCTTCAG
* * * * *
23470153 AGAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTTAGGAGGATAGGAAATGATTTTGCTCT
1 AGAGATAAAGAC-TTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCT
23470218 TACTTCAATTTC
65 TACTTCAATTTC
* * ** *
23470230 GGAGATAAAGACTTGTTATCCAACTCTACTTCAGCTTCAAGCGGATAGGAAATGA-CGTTGCTCT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TTGCTCT
23470294 TACTTCAATTTC
65 TACTTCAATTTC
* *
23470306 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTTTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
23470371 ACTTCAATTTC
66 ACTTCAATTTC
* *
23470382 AGAGATAAAGACTTGATATCCAACTTTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
23470447 ACTTCAATTTC
66 ACTTCAATTTC
* * * *
23470458 GGAGAAAAAGGCTTGATACCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
*
23470523 ACTTCATTTTC
66 ACTTCAATTTC
* * *
23470534 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGGAATGATCTTGCTCTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
*
23470599 ACTTCATTTTC
66 ACTTCAATTTC
* * *
23470610 AGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGCTCTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
23470675 ACTTCAATTTC
66 ACTTCAATTTC
* *
23470686 AGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
23470751 ACTTCAATTTC
66 ACTTCAATTTC
* *
23470762 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
*
23470827 ACTTCAATGTC
66 ACTTCAATTTC
* * *
23470838 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT--G--ACG---TTGCTCTT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
23470895 ACTTC-ATTTC
66 ACTTCAATTTC
** * * *
23470905 AGAGATAAAGAGGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAAAGATCT
1 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCT
23470963 GGCTGTGGTC
Statistics
Matches: 676, Mismatches: 47, Indels: 22
0.91 0.06 0.03
Matches are distributed among these distances:
67 24 0.04
68 36 0.05
70 1 0.00
71 2 0.00
72 2 0.00
73 1 0.00
75 25 0.04
76 573 0.85
77 12 0.02
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
ACTTCAATTTC
Found at i:23470871 original size:37 final size:37
Alignment explanation
Indices: 23470294--23470943 Score: 176
Period size: 38 Copynumber: 17.4 Consensus size: 37
23470284 ACGTTGCTCT
* *
23470294 TACTTCAATTTCAGAGATAAAGACTTGATATCCAACTC
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTC
* * * * *
23470332 TACTTCAATTTCAAGAGGATAGGAA-AAGAT-CT-TGC-TTT
1 TACTTCAATTTC-AGA-GATA--AAGACG-TGTTATCCACTC
* * *
23470370 TACTTCAATTTCAGAGATAAAGACTTGATATCCAACTT
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTC
* * * *
23470408 TACTTCAATTTCAAGAGGATAGGAA-AAGAT-CT-TGCTCT-
1 TACTTCAATTTC-AGA-GATA--AAGACG-TGTTATCCACTC
* * * * * *
23470446 TACTTCAATTTCGGAGAAAAAGGCTTGATACCCAACTC
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTC
* ** **
23470484 TACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTGCTC
1 TACTTCAATTTC-AGA-GATAAAGACGTGTTATC-CACTC
* * * *
23470521 TTACTTCATTTTCAGAGATAAAGACTTGATATCCAGCTT
1 -TACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTC
** * **
23470560 TACTTCAATTTCAAGAGGATAGGGA-ATG--ATCTTGCTC
1 TACTTCAATTTC-AGA-GATAAAGACGTGTTATC-CACTC
* * * *
23470597 TTACTTCATTTTCAGAGATAAAGACTTGATATCCAGCTT
1 -TACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTC
* * *
23470636 TACTTCAATTTCAAGAGGATAGGAA-ATGATG-T-TGCTCT-
1 TACTTCAATTTC-AGA-GATA--AAGACG-TGTTATCCACTC
* *
23470674 TACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTT
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTC
* ** **
23470712 TACTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTGCTC
1 TACTTCAATTTC-AGA-GATAAAGACGTGTTATC-CACTC
*
23470749 TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTC
1 -TACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTC
* * * *
23470788 TACTTCAATTTCAAGAGGATAGGAA-AAGAT-CT-TGCTCT-
1 TACTTCAATTTC-AGA-GATA--AAGACG-TGTTATCCACTC
*
23470826 TACTTCAATGTCAGAGATAAAGACGTGTTATCCACTC
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
** * * *
23470863 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT-
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
*
23470894 TACTTC-ATTTCAGAGATAAAGAGGTGTTATCCAACTC
1 TACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTC
23470931 TACTTCAATTTCA
1 TACTTCAATTTCA
23470944 AGCGGATAGG
Statistics
Matches: 444, Mismatches: 97, Indels: 142
0.65 0.14 0.21
Matches are distributed among these distances:
30 6 0.01
31 12 0.03
32 4 0.01
33 2 0.00
34 15 0.03
35 10 0.02
36 45 0.10
37 69 0.16
38 172 0.39
39 53 0.12
40 35 0.08
41 8 0.02
42 13 0.03
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (37 bp):
TACTTCAATTTCAGAGATAAAGACGTGTTATCCACTC
Found at i:23470935 original size:68 final size:68
Alignment explanation
Indices: 23470819--23470950 Score: 221
Period size: 68 Copynumber: 1.9 Consensus size: 68
23470809 GGAAAAGATC
23470819 TTGCTCTTACTTCAATGTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
1 TTGCTCTTACTTCAATGTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
23470884 ACG
66 ACG
* * *
23470887 TTGCTCTTACTTC-ATTTCAGAGATAAAGAGGTGTTATCCAACTCTACTTCAATTTCAAGCGGAT
1 TTGCTCTTACTTCAATGTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGAT
23470951 AGGAAAAGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 24 0.40
68 36 0.60
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (68 bp):
TTGCTCTTACTTCAATGTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGGATG
ACG
Found at i:23483186 original size:59 final size:59
Alignment explanation
Indices: 23483043--23483391 Score: 479
Period size: 59 Copynumber: 5.9 Consensus size: 59
23483033 AGAAACGATA
* * ** *
23483043 AAATCGGGGTTAAAAATGGGACTTTTGGATA-CCCGAGGGCAAAATGGTAA-TTTTGGTG
1 AAATCGGGGTTAAAAAT-GGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTG
* * * * *
23483101 AAATTGGGGTTAAAAATAGAATTTTTG-AGGCTTCGAGGGTAAAATGGTAATTTTTGATG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGTAAAATGGTAATTTTTGGTG
* *
23483160 AAATCGGGCTTAAAAAATGGAATTTTGGAAAGTTCGAGGGTGAAATGGTAATTTTTGGTG
1 AAATCGGGGTT-AAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTG
* * *
23483220 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAGTGGTAATTTTTGATG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTG
*
23483279 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGTG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTG
* * *
23483338 AAATCAGGGTTAAAAATGGAATTTTGGAAAGTTAGGGGGTAAAATGGTAATTTT
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTT
23483392 GGAAGTTTCG
Statistics
Matches: 260, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
57 7 0.03
58 32 0.12
59 169 0.65
60 50 0.19
61 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.32
Consensus pattern (59 bp):
AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTG
Found at i:23483380 original size:29 final size:29
Alignment explanation
Indices: 23483173--23483395 Score: 196
Period size: 29 Copynumber: 7.6 Consensus size: 29
23483163 TCGGGCTTAA
*
23483173 AAAATGG-AATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTGGAAAGTTCGGGGGT
* *
23483201 GAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCGGGGGT
23483231 AAAAATGG-AATTTTGGAAAGTTCGGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* *
23483260 AAAGTGGTAATTTTTGATGAAA--TCGGGGTT
1 AAAATGGTAA-TTTTG--GAAAGTTCGGGGGT
23483290 AAAAATGG-AATTTTGGAAAGTTCGGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* *
23483319 AAAATGGTAATTTTTGGTGAAA--TCAGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCGGGGGT
*
23483349 AAAAATGG-AATTTTGGAAAGTTAGGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
23483378 AAAATGGTAATTTTGGAA
1 AAAATGGTAATTTTGGAA
23483396 GTTTCGAGGT
Statistics
Matches: 159, Mismatches: 14, Indels: 43
0.74 0.06 0.20
Matches are distributed among these distances:
27 12 0.08
28 28 0.18
29 48 0.30
30 38 0.24
31 21 0.13
32 12 0.08
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTCGGGGGT
Found at i:23483713 original size:162 final size:161
Alignment explanation
Indices: 23483491--23483861 Score: 546
Period size: 162 Copynumber: 2.3 Consensus size: 161
23483481 CAAAGGGTGG
** * * * * * *
23483491 GTGACACGTGGCAGCCCCACAGGC-ATCCAGCAGTCAAGGGATTAAATTGTAAATCTTGAAAAAA
1 GTGACACGTGGCAGCCCC-TGGGCAATCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAAAA
*
23483555 TCTTGGGCCAATTTCATAATTAAGTAAAAGTTGATTTAGGGATTAAATTAAAACAAATTAAAAAT
65 TCTTGGGCCAATTTCATAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATTAAAAAT
23483620 GTCAGAGACTAAATGCATAAATAAGCCAAAAA
130 GTCAGAGACTAAATGCATAAATAAGCCAAAAA
* *
23483652 GTGACACGTGGCAGCCCCTGGTGCAATCAAACAGTCAAAGGACTAATTTATAAACCTTGAAAAAT
1 GTGACACGTGGCAGCCCCTGG-GCAATCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAAAA
* ** *
23483717 TCTTGGGCTAATTTTGTAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAATAAATTAAAAAT
65 TCTTGGGCCAATTTCATAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATTAAAAAT
23483782 GTCAGAGACTAAATGCATAAATAAGCCAAAAA
130 GTCAGAGACTAAATGCATAAATAAGCCAAAAA
* * *
23483814 GTGACACGTGGCAGCCTCTGGGGCAGTCAAACAGTCAAAGGATTAAAT
1 GTGACACGTGGCAGCCCCT-GGGCAATCAAACAGTCAAAGGACTAAAT
23483862 AGAAAACTAA
Statistics
Matches: 188, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
160 1 0.01
161 20 0.11
162 165 0.88
163 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (161 bp):
GTGACACGTGGCAGCCCCTGGGCAATCAAACAGTCAAAGGACTAAATTATAAACCTTGAAAAAAT
CTTGGGCCAATTTCATAATTAAATAAAAGTTGATTTAGGGATTAAATTAAAACAAATTAAAAATG
TCAGAGACTAAATGCATAAATAAGCCAAAAA
Found at i:23484595 original size:3 final size:3
Alignment explanation
Indices: 23484589--23484638 Score: 82
Period size: 3 Copynumber: 16.0 Consensus size: 3
23484579 TATTAAATAT
23484589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA GTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA
23484636 TTA
1 TTA
23484639 AATATTAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23485191 original size:27 final size:26
Alignment explanation
Indices: 23485139--23485191 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
23485129 AGGTTCCGCA
* * *
23485139 GTGGCAGTAGCAGTTGGAAGCCGGTG
1 GTGGCAGGAGCAGTTGCAAGCAGGTG
*
23485165 GTGGCAGGAGCAAGTTGCAAGGAGGTG
1 GTGGCAGGAGC-AGTTGCAAGCAGGTG
23485192 ACCTCGGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.23, C:0.13, G:0.47, T:0.17
Consensus pattern (26 bp):
GTGGCAGGAGCAGTTGCAAGCAGGTG
Found at i:23485431 original size:17 final size:17
Alignment explanation
Indices: 23485411--23485475 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
23485401 TTAATATTAT
* *
23485411 TTTAAATTAAGTTTAAA
1 TTTAAAATAAATTTAAA
23485428 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
23485445 --T-AAGTAAATTTAAA
1 TTTAAAATAAATTTAAA
*
23485459 TTTAAGATAAATTTAAA
1 TTTAAAATAAATTTAAA
23485476 AATGAATTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.30
15 1 0.03
16 1 0.03
17 26 0.65
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:23485438 original size:11 final size:11
Alignment explanation
Indices: 23485424--23485487 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
23485414 AAATTAAGTT
23485424 TAAATTTAAAA
1 TAAATTTAAAA
23485435 TAAATTT-AAA
1 TAAATTTAAAA
* *
23485445 T-AA-GTAAATT
1 TAAATTTAAA-A
*
23485455 TAAATTTAAGA
1 TAAATTTAAAA
23485466 TAAATTTAAAAA
1 TAAATTT-AAAA
*
23485478 TGAATTTAAA
1 TAAATTTAAA
23485488 CTTAATTCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
8 1 0.02
9 4 0.10
10 5 0.12
11 19 0.46
12 12 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:23485460 original size:31 final size:29
Alignment explanation
Indices: 23485422--23485492 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
23485412 TTAAATTAAG
23485422 TTTAAATTTAAAATAAATTTAAATAAGTAAA
1 TTTAAATTTAAAATAAATTTAAA-AA-TAAA
* *
23485453 TTTAAATTTAAGATAAATTTAAAAATGAA
1 TTTAAATTTAAAATAAATTTAAAAATAAA
*
23485482 TTTAAACTTAA
1 TTTAAATTTAA
23485493 TTCAAACTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTAAATTTAAAATAAATTTAAAAATAAA
Found at i:23489633 original size:138 final size:139
Alignment explanation
Indices: 23489271--23489683 Score: 648
Period size: 141 Copynumber: 3.0 Consensus size: 139
23489261 TATGAAATAG
*
23489271 CAGCAGGTCGACCATACCATCATCCTATTAGAGTTATGTAGAATGCAATGCTTTTAAGTATTAAC
1 CAGCAGGTCGACCATACCATCAGCCTATTAGAGTTATGTAGAATGCAATGCTTTTAAGTATTAAC
*
23489336 CACACTACGATTGCAAGTTTCTGTAAACTAGTCAAGTTTTAGTTTCAATTTATGCTTTTTTTGTA
66 CACACTACGATTGCAAGTTTCTGTAAACTAGTCAAGTTTTAGTTTCGATTTATGC--TTTTTGTA
*
23489401 GTTCATAGCAA
129 GTTCATAACAA
*
23489412 TAGCAGGTCGACCATACCATCAGCCTATTAGAGTTATGTAGAATGCAATGCTTTTAAGTATTAAC
1 CAGCAGGTCGACCATACCATCAGCCTATTAGAGTTATGTAGAATGCAATGCTTTTAAGTATTAAC
* * * *
23489477 CACACTACAATTGCAAGTTTCCGCAAACTAGTCAAGTTTTAGTTTTGATTTATGCTTTTTGTAGT
66 CACACTACGATTGCAAGTTTCTGTAAACTAGTCAAGTTTTAGTTTCGATTTATGCTTTTTGTAGT
23489542 TCATAACAA
131 TCATAACAA
* * * * *
23489551 CAGCAGGTCAACCATACCATCAGCGTA-TAGGGTTGTGTAGAATGCAATGCTTATAAGTATTAAC
1 CAGCAGGTCGACCATACCATCAGCCTATTAGAGTTATGTAGAATGCAATGCTTTTAAGTATTAAC
* * * *
23489615 CACACTACGATTGCAAGTTTCTGTAAACTAGTCACGTCTTAGTTCCGATTTATGCTTTTTGTAGG
66 CACACTACGATTGCAAGTTTCTGTAAACTAGTCAAGTTTTAGTTTCGATTTATGCTTTTTGTAGT
23489680 TCAT
131 TCAT
23489684 TCGATGAAGA
Statistics
Matches: 250, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
138 95 0.38
139 42 0.17
141 113 0.45
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (139 bp):
CAGCAGGTCGACCATACCATCAGCCTATTAGAGTTATGTAGAATGCAATGCTTTTAAGTATTAAC
CACACTACGATTGCAAGTTTCTGTAAACTAGTCAAGTTTTAGTTTCGATTTATGCTTTTTGTAGT
TCATAACAA
Found at i:23495822 original size:20 final size:20
Alignment explanation
Indices: 23495797--23495839 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
23495787 TTAATATGTT
23495797 AATATTTT-AATTATAATTTA
1 AATATTTTCAATTAT-ATTTA
*
23495817 AATATTTTCTATTATATTTA
1 AATATTTTCAATTATATTTA
23495837 AAT
1 AAT
23495840 CGATAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
AATATTTTCAATTATATTTA
Found at i:23496543 original size:23 final size:23
Alignment explanation
Indices: 23496499--23496543 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
23496489 TCAGAAGGCG
*
23496499 TAATATTAAATTTATTTCTTATT
1 TAATATTAAAATTATTTCTTATT
* *
23496522 TAATATTAAAATTCTTTTTTAT
1 TAATATTAAAATTATTTCTTAT
23496544 ATCTTTTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATATTAAAATTATTTCTTATT
Found at i:23496780 original size:15 final size:16
Alignment explanation
Indices: 23496755--23496787 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23496745 TTTTATGAAC
*
23496755 TTTTTATAATTTTTTA
1 TTTTTATAATTATTTA
23496771 TTTTTA-AATTATTTA
1 TTTTTATAATTATTTA
23496786 TT
1 TT
23496788 AATATGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTATAATTATTTA
Found at i:23504937 original size:20 final size:20
Alignment explanation
Indices: 23504908--23504947 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23504898 TCCATGACTT
*
23504908 TCATTATTAAGTTTAATTAA
1 TCATTATTAACTTTAATTAA
*
23504928 TCATTTTTAACTTTAATTAA
1 TCATTATTAACTTTAATTAA
23504948 ACCTATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
TCATTATTAACTTTAATTAA
Found at i:23504956 original size:20 final size:20
Alignment explanation
Indices: 23504914--23504957 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
23504904 ACTTTCATTA
* * *
23504914 TTAAGTTTAATTAATCATTT
1 TTAACTTTAATTAAACATAT
*
23504934 TTAACTTTAATTAAACCTAT
1 TTAACTTTAATTAAACATAT
23504954 TTAA
1 TTAA
23504958 AATTAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAACTTTAATTAAACATAT
Found at i:23506876 original size:25 final size:23
Alignment explanation
Indices: 23506819--23506979 Score: 166
Period size: 23 Copynumber: 6.9 Consensus size: 23
23506809 TTACCATTCA
*
23506819 GCACTGTGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCTTACTGTTTC
23506842 GCACTTTGTGTGCTTACTGTTTC
1 GCACTTTGTGTGCTTACTGTTTC
*
23506865 GCACTTTGTGTGCCTACTGTTTC
1 GCACTTTGTGTGCTTACTGTTTC
* *
23506888 GCACTTCGTGTGCCTACTGATTT-
1 GCACTTTGTGTGCTTACTG-TTTC
* * * * *
23506911 GCGCTATGTGCGCCTACTGATT-
1 GCACTTTGTGTGCTTACTGTTTC
*
23506933 GCACTGTGTGTGCTTACTGTTTCCCC
1 GCACTTTGTGTGCTTACTGTTT---C
23506959 AGCAC-TTGTGTGCTTACTGTT
1 -GCACTTTGTGTGCTTACTGTT
23506980 AAGTACTTCG
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.16
23 77 0.65
24 3 0.03
26 15 0.13
27 4 0.03
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.41
Consensus pattern (23 bp):
GCACTTTGTGTGCTTACTGTTTC
Found at i:23509654 original size:227 final size:227
Alignment explanation
Indices: 23509259--23509713 Score: 910
Period size: 227 Copynumber: 2.0 Consensus size: 227
23509249 GTAAAAATGA
23509259 TAAAAGTATAGATGTTTAATTAGAAGGACCAAATGAATAAATTAACCAAGGGAGTATTAATTAGT
1 TAAAAGTATAGATGTTTAATTAGAAGGACCAAATGAATAAATTAACCAAGGGAGTATTAATTAGT
23509324 GGATTGGTATGGTTTATATTAAGTATAAATAGATTTAATTAAGGTTAAAAAATGGTTAATTAAAG
66 GGATTGGTATGGTTTATATTAAGTATAAATAGATTTAATTAAGGTTAAAAAATGGTTAATTAAAG
23509389 CTTAATGATGAAATCCTTAATATTTACAAAATTGCCATTGATTATATATATGAATTAAAATAGAA
131 CTTAATGATGAAATCCTTAATATTTACAAAATTGCCATTGATTATATATATGAATTAAAATAGAA
23509454 AAAAGGAAGAAATTCCTTATTTCCTCATCTTC
196 AAAAGGAAGAAATTCCTTATTTCCTCATCTTC
23509486 TAAAAGTATAGATGTTTAATTAGAAGGACCAAATGAATAAATTAACCAAGGGAGTATTAATTAGT
1 TAAAAGTATAGATGTTTAATTAGAAGGACCAAATGAATAAATTAACCAAGGGAGTATTAATTAGT
23509551 GGATTGGTATGGTTTATATTAAGTATAAATAGATTTAATTAAGGTTAAAAAATGGTTAATTAAAG
66 GGATTGGTATGGTTTATATTAAGTATAAATAGATTTAATTAAGGTTAAAAAATGGTTAATTAAAG
23509616 CTTAATGATGAAATCCTTAATATTTACAAAATTGCCATTGATTATATATATGAATTAAAATAGAA
131 CTTAATGATGAAATCCTTAATATTTACAAAATTGCCATTGATTATATATATGAATTAAAATAGAA
23509681 AAAAGGAAGAAATTCCTTATTTCCTCATCTTC
196 AAAAGGAAGAAATTCCTTATTTCCTCATCTTC
23509713 T
1 T
23509714 CCATGGAAAG
Statistics
Matches: 228, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 228 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (227 bp):
TAAAAGTATAGATGTTTAATTAGAAGGACCAAATGAATAAATTAACCAAGGGAGTATTAATTAGT
GGATTGGTATGGTTTATATTAAGTATAAATAGATTTAATTAAGGTTAAAAAATGGTTAATTAAAG
CTTAATGATGAAATCCTTAATATTTACAAAATTGCCATTGATTATATATATGAATTAAAATAGAA
AAAAGGAAGAAATTCCTTATTTCCTCATCTTC
Found at i:23510623 original size:81 final size:81
Alignment explanation
Indices: 23510484--23510632 Score: 212
Period size: 81 Copynumber: 1.8 Consensus size: 81
23510474 TCCAGTGACT
* * * ** *
23510484 AAGTGTCATCTTGAGTAAATGAATCTTTTACGGATTAAAGGTCCGATGACTAAGTGTCATCGTGA
1 AAGTGTCATCGTGAGTAAATGAATCTATGACAAATTAAAGGTCCGATGACTAAATGTCATCGTGA
23510549 GTAAATGAATCCTTCA
66 GTAAATGAATCCTTCA
23510565 AAGTGTCATCGTGAGTAAATGAAT-TCATGACAAATTAAAGGTCCGATGAC-AATATGTCATCGT
1 AAGTGTCATCGTGAGTAAATGAATCT-ATGACAAATTAAAGGTCCGATGACTAA-ATGTCATCGT
23510628 GAGTA
64 GAGTA
23510633 TCAAATGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
80 3 0.05
81 57 0.95
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (81 bp):
AAGTGTCATCGTGAGTAAATGAATCTATGACAAATTAAAGGTCCGATGACTAAATGTCATCGTGA
GTAAATGAATCCTTCA
Found at i:23513048 original size:21 final size:21
Alignment explanation
Indices: 23513024--23513073 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
23513014 AATAAAGCAA
*
23513024 AAAAAAAAAAGATTGTTTTGG
1 AAAAAAAAAAGATGGTTTTGG
*
23513045 AAAAAAGAAAGATGGTTTTGG
1 AAAAAAAAAAGATGGTTTTGG
*
23513066 AAATAAAA
1 AAAAAAAA
23513074 TTTAAAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.20, T:0.24
Consensus pattern (21 bp):
AAAAAAAAAAGATGGTTTTGG
Found at i:23513648 original size:20 final size:22
Alignment explanation
Indices: 23513625--23513670 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
23513615 TTGGTTGAGG
23513625 AAAACAATTT-C-AGTCAACGT
1 AAAACAATTTACAAGTCAACGT
* *
23513645 AAAACATTTTACAAGTCAACTT
1 AAAACAATTTACAAGTCAACGT
23513667 AAAA
1 AAAA
23513671 AGGGAGCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 1 0.05
22 12 0.55
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (22 bp):
AAAACAATTTACAAGTCAACGT
Found at i:23513853 original size:65 final size:65
Alignment explanation
Indices: 23513770--23513976 Score: 308
Period size: 65 Copynumber: 3.2 Consensus size: 65
23513760 CTTCTTCTTT
* *
23513770 TTTTCATCTTCTTCGATTCTTTCTTTTGAGAAACAAAAACTCTAGAGATCTTTAGAGAAATAAT-
1 TTTTCTTCTTCTTCGATTCTTTCTTTTGAGAAACAAAAACTCTAGAGATTTTTAGAGAAATAATC
* * *
23513834 TGTTTCTTCTTCTTTGATTCTCTCTTTTGAAAAACAAAAAACTCTAGAGATTTTTAGAGAAATAA
1 T-TTTCTTCTTCTTCGATTCTTTCTTTTGAGAAAC-AAAAACTCTAGAGATTTTTAGAGAAATAA
23513899 TC
64 TC
* * *
23513901 TCTTATTCTTCTTCGATTCCTTCTTTTGAGAAACAAAAACTCTAGAGATTTTTAGAGAAATAATC
1 TTTTCTTCTTCTTCGATTCTTTCTTTTGAGAAACAAAAACTCTAGAGATTTTTAGAGAAATAATC
*
23513966 TCTTCTTCTTC
1 TTTTCTTCTTC
23513977 AATATTGTCC
Statistics
Matches: 128, Mismatches: 12, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
64 1 0.01
65 70 0.55
66 56 0.44
67 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (65 bp):
TTTTCTTCTTCTTCGATTCTTTCTTTTGAGAAACAAAAACTCTAGAGATTTTTAGAGAAATAATC
Found at i:23516678 original size:21 final size:21
Alignment explanation
Indices: 23516639--23516687 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
23516629 CATCCAAACA
23516639 CTAGAAAA-T-ATTAATTTTT
1 CTAGAAAATTAATTAATTTTT
*
23516658 CTAGAAAATTAATTCATTTTT
1 CTAGAAAATTAATTAATTTTT
23516679 C-A-AAAATTA
1 CTAGAAAATTA
23516688 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 15 0.56
20 2 0.07
21 10 0.37
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (21 bp):
CTAGAAAATTAATTAATTTTT
Found at i:23517198 original size:31 final size:31
Alignment explanation
Indices: 23517119--23517178 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
23517109 GTCTAATGAA
23517119 TTAAATAAAAA-TTTTAAATAATTCAATAAC
1 TTAAATAAAAACTTTTAAATAATTCAATAAC
*
23517149 TTAAATAAAAACTTTTAAATAATTTAATAA
1 TTAAATAAAAACTTTTAAATAATTCAATAA
23517179 TTATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 11 0.39
31 17 0.61
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAACTTTTAAATAATTCAATAAC
Found at i:23522074 original size:22 final size:22
Alignment explanation
Indices: 23522049--23522092 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23522039 CTAGAATCCA
23522049 TTACCTCTGAAAATGGTACATT
1 TTACCTCTGAAAATGGTACATT
23522071 TTACCTCTGAAAATGGTACATT
1 TTACCTCTGAAAATGGTACATT
23522093 CACGGAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (22 bp):
TTACCTCTGAAAATGGTACATT
Found at i:23524623 original size:23 final size:23
Alignment explanation
Indices: 23524597--23524641 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
23524587 AATTTTGAAT
**
23524597 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
23524620 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
23524642 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:23524913 original size:57 final size:58
Alignment explanation
Indices: 23524850--23524968 Score: 213
Period size: 57 Copynumber: 2.1 Consensus size: 58
23524840 ATCAATCAAA
*
23524850 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTAAA-AACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
*
23524907 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
23524965 AAAC
1 AAAC
23524969 AACTCCTTTT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 46 0.78
58 13 0.22
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:23525509 original size:19 final size:20
Alignment explanation
Indices: 23525487--23525531 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
23525477 TCTTGTTGTG
23525487 TTATTATTG-TTACTTGAGC
1 TTATTATTGTTTACTTGAGC
23525506 TTA-TATTGTTTACTTGAGC
1 TTATTATTGTTTACTTGAGC
23525525 TT-TTATT
1 TTATTATT
23525532 TTTTTTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.58
Consensus pattern (20 bp):
TTATTATTGTTTACTTGAGC
Found at i:23525538 original size:21 final size:19
Alignment explanation
Indices: 23525496--23525538 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
23525486 GTTATTATTG
* *
23525496 TTACTTGAGCTTATATTGT
1 TTACTTGAGCTTATTTTTT
23525515 TTACTTGAGCTTTTATTTTTT
1 TTACTTGAGC--TTATTTTTT
23525536 TTA
1 TTA
23525539 TTCTAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.19, C:0.09, G:0.12, T:0.60
Consensus pattern (19 bp):
TTACTTGAGCTTATTTTTT
Found at i:23529350 original size:16 final size:17
Alignment explanation
Indices: 23529331--23529363 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23529321 TCCTGCAAAT
23529331 TTTTA-CATATTTTTTA
1 TTTTATCATATTTTTTA
23529347 TTTTATCATATTTTTTA
1 TTTTATCATATTTTTTA
23529364 CACTTTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTTATCATATTTTTTA
Found at i:23535835 original size:31 final size:31
Alignment explanation
Indices: 23535797--23535864 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
23535787 CTTGATATTT
23535797 GAAATGTTTGAATTGAAAATCTTAGATTCTA
1 GAAATGTTTGAATTGAAAATCTTAGATTCTA
*
23535828 GAAATGTTTGAATTGAACATCTTAGATTCTA
1 GAAATGTTTGAATTGAAAATCTTAGATTCTA
23535859 GAAATG
1 GAAATG
23535865 AGTTTAAGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.37
Consensus pattern (31 bp):
GAAATGTTTGAATTGAAAATCTTAGATTCTA
Found at i:23536313 original size:20 final size:20
Alignment explanation
Indices: 23536290--23536327 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23536280 TTTTTTTCTA
23536290 ATTTTTAATAAAATTTAAAT
1 ATTTTTAATAAAATTTAAAT
*
23536310 ATTTTTATTAAAATTTAA
1 ATTTTTAATAAAATTTAA
23536328 CAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTTTAATAAAATTTAAAT
Found at i:23536335 original size:20 final size:20
Alignment explanation
Indices: 23536292--23536337 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
23536282 TTTTTCTAAT
* *
23536292 TTTTAATAAAATTTAAATAT
1 TTTTATTAAAATTTAAATAA
23536312 TTTTATTAAAATTTAACA-AA
1 TTTTATTAAAATTTAA-ATAA
23536332 TTTTAT
1 TTTTAT
23536338 AACTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTATTAAAATTTAAATAA
Found at i:23540615 original size:16 final size:16
Alignment explanation
Indices: 23540594--23540624 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23540584 CACTTATAAA
23540594 TTAAACCCAAATATTT
1 TTAAACCCAAATATTT
*
23540610 TTAAACTCAAATATT
1 TTAAACCCAAATATT
23540625 CCTAAATAAC
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:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAACCCAAATATTT
Found at i:23543906 original size:29 final size:30
Alignment explanation
Indices: 23543848--23543906 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
23543838 GAATTGAATC
* *
23543848 AAATCGAAATTTTATATATAAACTTGCACA
1 AAATCGAAAATTTATATATAAACTTACACA
*
23543878 AAATC-AAAATTTATGTATACAA-TTACACA
1 AAATCGAAAATTTATATATA-AACTTACACA
23543907 TTAAACCGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AAATCGAAAATTTATATATAAACTTACACA
Found at i:23548153 original size:19 final size:20
Alignment explanation
Indices: 23548129--23548166 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23548119 TTTAACAAAA
*
23548129 ATATTTTGGTTT-TTTCATT
1 ATATTTTGATTTATTTCATT
23548148 ATATTTTGATTTATTTCAT
1 ATATTTTGATTTATTTCAT
23548167 GTTAAGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.66
Consensus pattern (20 bp):
ATATTTTGATTTATTTCATT
Found at i:23550439 original size:2 final size:2
Alignment explanation
Indices: 23550432--23550467 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23550422 TTTGAAGGTG
23550432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23550468 TATTCATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23551818 original size:65 final size:65
Alignment explanation
Indices: 23551707--23551836 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 65
23551697 ATCCATGTAC
* * * *
23551707 GAGAGCGTTAACGAATTTGAAACCATCAATGGTGAGGAAGAGTAAGTCATGAAGTGATATAATGG
1 GAGAGCGGTAACGAATTTGAAACCATCAATGGGGAGGAAAAATAAGTCATGAAGTGATATAATGG
*
23551772 GAGAGCGGTAATGAATTTGAAACCATTC-ATGGGGAGGAAAAATAAGTCATGAAGTGATATAATG
1 GAGAGCGGTAACGAATTTGAAACCA-TCAATGGGGAGGAAAAATAAGTCATGAAGTGATATAATG
23551836 G
65 G
23551837 AAGCGAGCTC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 57 0.97
66 2 0.03
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.23
Consensus pattern (65 bp):
GAGAGCGGTAACGAATTTGAAACCATCAATGGGGAGGAAAAATAAGTCATGAAGTGATATAATGG
Found at i:23552541 original size:15 final size:16
Alignment explanation
Indices: 23552511--23552541 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23552501 GGCATTATCA
23552511 TATTTGCCTGCAGCTT
1 TATTTGCCTGCAGCTT
23552527 TATTTGCCT-CAGCTT
1 TATTTGCCTGCAGCTT
23552542 CAAGAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (16 bp):
TATTTGCCTGCAGCTT
Found at i:23564933 original size:52 final size:52
Alignment explanation
Indices: 23564819--23565162 Score: 501
Period size: 52 Copynumber: 6.6 Consensus size: 52
23564809 TAAATGCAAA
* * * * * *
23564819 AGGTCCGATAACTCTATGTCATCGTTAGTTTTATGAATCTTTTACGAATT-TCG
1 AGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCTTTTACGGATTAT-G
* *
23564872 AGGTCCGATGACTATGTGTCATCGTGAGTATATAAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* *
23564924 AGGTGCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* * *
23564976 AGGTCTGATGACTATGTGTCATCGTGAGTATGTGAATCATTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
* * * *
23565028 AGGTCTGATGACTATGTGTTATTGTGAGTATATGAATCTTTTACGGATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
*
23565080 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
23565132 AGGTCCGATGACTATGTGTCATCGTGAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
23565163 TAAATGAGAA
Statistics
Matches: 263, Mismatches: 27, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
52 238 0.90
53 25 0.10
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTACGGATTATG
Found at i:23568992 original size:157 final size:154
Alignment explanation
Indices: 23568639--23569053 Score: 582
Period size: 157 Copynumber: 2.7 Consensus size: 154
23568629 TTACAAATTC
* * *
23568639 TCGTCCGTCCTTAGCTTAGTTGGTAGAGC-AGAGGATTGTAGTGAGGTAACTCAACCTAATCCTT
1 TCGTCCGACCTTAGCTCAGTTGGTAGAGCGA-AGGATTGTAGTGAGGTCACTCAACCTAATCCTT
* * * * *
23568703 AGGTCGCTAGATCGAATCCGGCTGGTCAGATTTTATTTTGAGAAAGCTCTTTTATTTTGATATAT
65 AGGTCGCTGGTTCGAATCCGGCAGGTCGGATTTT-TTTTGAGAAAGCTCTTTCATTTTGATATAT
*
23568768 ATGCACAAAACCTTCGATTGTAAACA
129 ATACACAAAACCTTCGATTGTAAACA
** *
23568794 TCGTCTAACCTTAGCTCAGTTAGTAGAGCGAAGGATTGTAGTGAGGTCACTCAACCTAATCCTTA
1 TCGTCCGACCTTAGCTCAGTTGGTAGAGCGAAGGATTGTAGTGAGGTCACTCAACCTAATCCTTA
23568859 GGTCGCTGGTTCGAATCCGGCAGGTCGGATTTTTTTTGAGAAAGCTCTTTCA-TTTGATATATAT
66 GGTCGCTGGTTCGAATCCGGCAGGTCGGATTTTTTTTGAGAAAGCTCTTTCATTTTG--ATATAT
23568923 ATACACAGAAAACCTTCGATTGTAAACA
129 ATACAC--AAAACCTTCGATTGTAAACA
* ** *
23568951 TCGTCCGACCTTAGCTCAGTTGGTAGAGCGAAGGACTGTAGTGAGGTCACTCAAAGTAATTCTTA
1 TCGTCCGACCTTAGCTCAGTTGGTAGAGCGAAGGATTGTAGTGAGGTCACTCAACCTAATCCTTA
* * *
23569016 GGTCGCTGGTTTGAATTCGACAGGTCGGATTTATTTTT
66 GGTCGCTGGTTCGAATCCGGCAGGTCGGATTT-TTTTT
23569054 TCCATGAGTA
Statistics
Matches: 232, Mismatches: 22, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
153 4 0.02
154 18 0.08
155 97 0.42
156 1 0.00
157 107 0.46
158 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (154 bp):
TCGTCCGACCTTAGCTCAGTTGGTAGAGCGAAGGATTGTAGTGAGGTCACTCAACCTAATCCTTA
GGTCGCTGGTTCGAATCCGGCAGGTCGGATTTTTTTTGAGAAAGCTCTTTCATTTTGATATATAT
ACACAAAACCTTCGATTGTAAACA
Found at i:23569443 original size:20 final size:21
Alignment explanation
Indices: 23569410--23569453 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
23569400 TGAACTTAAA
23569410 TTTTAATGATTTTTTTTGGAT
1 TTTTAATGATTTTTTTTGGAT
23569431 TTTTAATGA-TTTTTTTGGAT
1 TTTTAATGATTTTTTTTGGAT
23569451 TTT
1 TTT
23569454 AAAGTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (21 bp):
TTTTAATGATTTTTTTTGGAT
Found at i:23570930 original size:24 final size:24
Alignment explanation
Indices: 23570902--23570958 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
23570892 TAGACTAATA
*
23570902 AGAGTTTGACTCAAACAAATAAAT
1 AGAGTTTAACTCAAACAAATAAAT
* * *
23570926 AGAGTTTAATTGAAACAATTAAAT
1 AGAGTTTAACTCAAACAAATAAAT
23570950 AGAGTTTAA
1 AGAGTTTAA
23570959 TTGAAAGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.30
Consensus pattern (24 bp):
AGAGTTTAACTCAAACAAATAAAT
Found at i:23570959 original size:24 final size:24
Alignment explanation
Indices: 23570914--23570964 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
23570904 AGTTTGACTC
23570914 AAACAAATAAATAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
*
23570938 AAACAATTAAATAGAGTTTAATTG
1 AAACAAATAAATAGAGTTTAATTG
23570962 AAA
1 AAA
23570965 GATTATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (24 bp):
AAACAAATAAATAGAGTTTAATTG
Found at i:23587753 original size:41 final size:41
Alignment explanation
Indices: 23587696--23587792 Score: 167
Period size: 41 Copynumber: 2.4 Consensus size: 41
23587686 TAATTTTATT
*
23587696 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCTCC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
23587737 TTAACAAGAATTCTAGTTACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
23587778 TTGACAAGAATTCTA
1 TTAACAAGAATTCTA
23587793 TACGAACAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:23587803 original size:17 final size:17
Alignment explanation
Indices: 23587781--23587819 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
23587771 CTCCACCTTG
*
23587781 ACAAGAATTCT-ATACGA
1 ACAAGAACTCTCA-ACGA
23587798 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
23587815 ACAAG
1 ACAAG
23587820 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.49, C:0.23, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:23606402 original size:14 final size:14
Alignment explanation
Indices: 23606372--23606421 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
23606362 CGAGGTTTTC
23606372 GGTTCAA-GTTT--
1 GGTTCAAGGTTTAG
23606383 GGTTCAAGGTTTAG
1 GGTTCAAGGTTTAG
*
23606397 GGTTCAAGGTTCAG
1 GGTTCAAGGTTTAG
* *
23606411 GATTCTAGGTT
1 GGTTCAAGGTT
23606422 CATGATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 7 0.21
12 4 0.12
14 22 0.67
ACGTcount: A:0.20, C:0.10, G:0.32, T:0.38
Consensus pattern (14 bp):
GGTTCAAGGTTTAG
Found at i:23606422 original size:14 final size:14
Alignment explanation
Indices: 23606385--23606428 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
23606375 TCAAGTTTGG
* *
23606385 TTCAAGGTTTAGGG
1 TTCAAGGTTCAGGA
23606399 TTCAAGGTTCAGGA
1 TTCAAGGTTCAGGA
* *
23606413 TTCTAGGTTCATGA
1 TTCAAGGTTCAGGA
23606427 TT
1 TT
23606429 AAAACATTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.23, C:0.11, G:0.27, T:0.39
Consensus pattern (14 bp):
TTCAAGGTTCAGGA
Found at i:23612227 original size:2 final size:2
Alignment explanation
Indices: 23612220--23612258 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
23612210 ATTTTAAATT
23612220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23612259 TAATTTGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23612869 original size:28 final size:28
Alignment explanation
Indices: 23612813--23612871 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
23612803 TTTGGATTTG
** *
23612813 GAATTTAAAGTTTAGGGTTCGGAGTTAT
1 GAATTTAAAGTTTAGAATTCGGAGCTAT
23612841 GAATTTAAAGTTTAGAATTAC-GAGCTAT
1 GAATTTAAAGTTTAGAATT-CGGAGCTAT
23612869 GAA
1 GAA
23612872 CTTGAGGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.36
Consensus pattern (28 bp):
GAATTTAAAGTTTAGAATTCGGAGCTAT
Found at i:23616622 original size:27 final size:27
Alignment explanation
Indices: 23616569--23616645 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
23616559 TTGGGTTCAA
* * * *
23616569 GATTCAAAATTCAAGGTTCAAATTTTG
1 GATTCAAAATTTAAGGTTTAGAGTTTG
*
23616596 GATTCAAAATTTAAGGTTTAGGGTTTG
1 GATTCAAAATTTAAGGTTTAGAGTTTG
* *
23616623 AAGTT-ACGAATTTAAGGTTTAGA
1 GA-TTCA-AAATTTAAGGTTTAGA
23616646 AATACAAGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (27 bp):
GATTCAAAATTTAAGGTTTAGAGTTTG
Found at i:23618708 original size:17 final size:17
Alignment explanation
Indices: 23618670--23618761 Score: 96
Period size: 17 Copynumber: 5.5 Consensus size: 17
23618660 ATTTTTAAAA
* *
23618670 TTTAAATCTAAATTTA-
1 TTTAAATTTGAATTTAT
*
23618686 TTTAAATTTGAATTTAC
1 TTTAAATTTGAATTTAT
*
23618703 TTTAAATTTGAACTTAT
1 TTTAAATTTGAATTTAT
* * * *
23618720 TTTGAGTTTGGATTTAA
1 TTTAAATTTGAATTTAT
*
23618737 TTTAAATTTAAATTTAT
1 TTTAAATTTGAATTTAT
23618754 TTTAAATT
1 TTTAAATT
23618762 AAATTTAAAG
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
16 14 0.23
17 47 0.77
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (17 bp):
TTTAAATTTGAATTTAT
Found at i:23618757 original size:22 final size:23
Alignment explanation
Indices: 23618732--23618775 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
23618722 TGAGTTTGGA
*
23618732 TTTAATTTAAATTTAAA-TTTAT
1 TTTAAATTAAATTTAAAGTTTAT
23618754 TTTAAATTAAATTTAAAGTTTA
1 TTTAAATTAAATTTAAAGTTTA
23618776 AAAGTCCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTAAATTAAATTTAAAGTTTAT
Found at i:23618777 original size:7 final size:6
Alignment explanation
Indices: 23618667--23618777 Score: 65
Period size: 6 Copynumber: 19.5 Consensus size: 6
23618657 CCCATTTTTA
* * *
23618667 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * * ** *
23618712 GAACTT -ATTTT GAGTTT GGATTT -AATTT AAATTT AAATTT -ATTTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
23618757 AAA-TT AAATTT AAAGTTT AAA
1 AAATTT AAATTT AAA-TTT AAA
23618778 AGTCCAAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
4 4 0.05
5 20 0.24
6 52 0.63
7 6 0.07
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:23619419 original size:15 final size:17
Alignment explanation
Indices: 23619389--23619423 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
23619379 TGAAACGTTG
23619389 ATTATATATATATATTT
1 ATTATATATATATATTT
23619406 ATTATAT-TAT-TATTT
1 ATTATATATATATATTT
23619421 ATT
1 ATT
23619424 GTTTTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 3 0.17
17 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTATATATATATATTT
Found at i:23620581 original size:30 final size:31
Alignment explanation
Indices: 23620547--23620951 Score: 231
Period size: 29 Copynumber: 13.8 Consensus size: 31
23620537 AAGGTCCCTG
*
23620547 AACTTTCCAAAAATTACC-TTTTGACCCTCA
1 AACTTTCCAAAAATTACCATTTTAACCCTCA
*
23620577 AAC-TTCCTGAAAATTA-CATTTTAACCC-CTA
1 AACTTTCC-AAAAATTACCATTTTAACCCTC-A
* * * **
23620607 AACTTTTCAAAACTTA-AATTTTAACCCTTG
1 AACTTTCCAAAAATTACCATTTTAACCCTCA
*
23620637 AACTTTCC-AAAATT-CCATTTTGACCC-CA
1 AACTTTCCAAAAATTACCATTTTAACCCTCA
*
23620665 AACTTTCC-AAAATT-CTATTTTTAACCCT-A
1 AACTTTCCAAAAATTACCA-TTTTAACCCTCA
* *
23620694 AACCTTCCAAAAATTACCATTTT-ACCCTCG
1 AACTTTCCAAAAATTACCATTTTAACCCTCA
* *
23620724 AA-TGTCTAAAAATT-CCATTTTTAACCC-CA
1 AACTTTCCAAAAATTACCA-TTTTAACCCTCA
*
23620753 AACCTTT-CAAAAATTACCATTTT-ACCCTCG
1 AA-CTTTCCAAAAATTACCATTTTAACCCTCA
* * * *
23620783 AA-TGTCTAAAAATT-CCATTTTTGACCCT-G
1 AACTTTCCAAAAATTACCA-TTTTAACCCTCA
* * *
23620812 AACCTTCCAAAAATTACCATTTT-ACCCCCG
1 AACTTTCCAAAAATTACCATTTTAACCCTCA
* * *
23620842 AA-TATCTAAAAATT-CCATTTTTAA-CCT-G
1 AACTTTCCAAAAATTACCA-TTTTAACCCTCA
* * *
23620870 AACTTTCCAAAAGTTACCATTTT-ACCGTCG
1 AACTTTCCAAAAATTACCATTTTAACCCTCA
* * * *
23620900 AA-TGTCTAAAAATT-CCATTTTTGACCC-CT
1 AACTTTCCAAAAATTACCA-TTTTAACCCTCA
* *
23620929 AACCTTCC-AAAATTACAATTTTA
1 AACTTTCCAAAAATTACCATTTTA
23620952 CCCCCGAGCA
Statistics
Matches: 292, Mismatches: 50, Indels: 67
0.71 0.12 0.16
Matches are distributed among these distances:
28 34 0.12
29 135 0.46
30 110 0.38
31 13 0.04
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (31 bp):
AACTTTCCAAAAATTACCATTTTAACCCTCA
Found at i:23620744 original size:59 final size:59
Alignment explanation
Indices: 23620673--23620954 Score: 417
Period size: 59 Copynumber: 4.8 Consensus size: 59
23620663 CAAACTTTCC
*
23620673 AAAATTCTATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
1 AAAATTCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
* *
23620732 AAAATTCCATTTTTAACCCCAAACCTTTCAAAAATTACCATTTTACCCTCGAATGTCTA
1 AAAATTCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
* * * *
23620791 AAAATTCCATTTTTGACCCTGAACCTTCCAAAAATTACCATTTTACCCCCGAATATCTA
1 AAAATTCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
* * * *
23620850 AAAATTCCATTTTTAA-CCTGAACTTTCCAAAAGTTACCATTTTACCGTCGAATGTCTA
1 AAAATTCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
* *
23620908 AAAATTCCATTTTTGACCCCT-AACCTTCC-AAAATTACAATTTTACCC
1 AAAATTCCATTTTT-AACCCTAAACCTTCCAAAAATTACCATTTTACCC
23620955 CCGAGCATCC
Statistics
Matches: 201, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
58 66 0.33
59 132 0.66
60 3 0.01
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCTAAACCTTCCAAAAATTACCATTTTACCCTCGAATGTCTA
Found at i:23622000 original size:36 final size:36
Alignment explanation
Indices: 23621937--23622018 Score: 128
Period size: 36 Copynumber: 2.3 Consensus size: 36
23621927 TCACACCAAA
* * *
23621937 TAAAAGATTGGTGGCGACTCTTATTTTTTTCAATTT
1 TAAAATATTGATGGCAACTCTTATTTTTTTCAATTT
*
23621973 TAAATTATTGATGGCAACTCTTATTTTTTTCAATTT
1 TAAAATATTGATGGCAACTCTTATTTTTTTCAATTT
23622009 TAAAATATTG
1 TAAAATATTG
23622019 TTCGAGACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (36 bp):
TAAAATATTGATGGCAACTCTTATTTTTTTCAATTT
Found at i:23625475 original size:16 final size:16
Alignment explanation
Indices: 23625454--23625485 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23625444 AAAACCCAAT
*
23625454 AAAAAAGTAAAAAAAG
1 AAAAAAGAAAAAAAAG
23625470 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
23625486 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:23626372 original size:8 final size:8
Alignment explanation
Indices: 23626349--23626399 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
23626339 TTCAATGAAC
23626349 AAAGAAAA
1 AAAGAAAA
23626357 AATA-AAAA
1 AA-AGAAAA
*
23626365 GAAGAAAA
1 AAAGAAAA
23626373 AAAGAAAA
1 AAAGAAAA
*
23626381 AAGGAAAA
1 AAAGAAAA
23626389 ATAAGGAAAA
1 A-AA-GAAAA
23626399 A
1 A
23626400 TAAAATAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 1 0.03
8 26 0.74
9 2 0.06
10 6 0.17
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (8 bp):
AAAGAAAA
Found at i:23626398 original size:24 final size:22
Alignment explanation
Indices: 23626349--23626427 Score: 68
Period size: 24 Copynumber: 3.4 Consensus size: 22
23626339 TTCAATGAAC
* *
23626349 AAAGAAAAAATAAAAAGAAGAAAA
1 AAAGAAAAAAGAAAAA-AAG-GAA
23626373 AAAGAAAAAAGGAAAAATAAGGAA
1 AAAGAAAAAA-GAAAAA-AAGGAA
* * *
23626397 AAATAAAATAGAGAAAAACGGAA
1 AAAGAAAAAAGA-AAAAAAGGAA
23626420 AAAGAAAA
1 AAAGAAAA
23626428 GGAGAGGTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
23 14 0.30
24 24 0.52
25 8 0.17
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.05
Consensus pattern (22 bp):
AAAGAAAAAAGAAAAAAAGGAA
Found at i:23627576 original size:49 final size:50
Alignment explanation
Indices: 23627523--23628508 Score: 855
Period size: 49 Copynumber: 20.1 Consensus size: 50
23627513 AAAGGTTGAG
* * *
23627523 GCCGCAACGGTGAACCTTGTACCTCAGAAG-CATGAAGGAAAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * * *
23627572 GCCGCAACGACAAATCC-AGTACCAC-GAAGACCTAAAGGGAAAGATTTAA
1 GCCGCAACGGCGAA-CCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * * *
23627621 GCTGCAATGGCGAATCTAGTACCAC-GAAGACATAAAGGGAAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * * *
23627670 GCCGCAACGGCAAATCTAGTACCAC-GAAGACACGAAGGGAAAGGTTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * *
23627719 GTCGCAACGGCGAACCTTGTACCTCAGAAG-CGTGAAGGGAAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * *
23627768 GCCGCAACGGCGAATCC-AGTACCAC-GAAGATATGGAGGGAAAGGTTTAA
1 GCCGCAACGGCGAA-CCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * *
23627817 GTCGTAACGGCGAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * * *
23627866 GCCGCAACGGCGAATCC-AATACCCCA-AAGATATGGAGGGAAAGGTTTAA
1 GCCGCAACGGCGAA-CCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * * * *
23627915 GTCACAACGGGGAACCTTGTACCTCAGAAG-CATGAGGGGAAATATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * * * * * *
23627964 GCCGTAACGACGAATCC-AGTACCACA-AGGAAATAAAAGGAAAGGTTTAA
1 GCCGCAACGGCGAA-CCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
** * *
23628013 GCCGCAACGGCGAATCC-AGTA-C-CATGAAGGTATGGAGGGAAAGGTTTAA
1 GCCGCAACGGCGAA-CCTAGTACCTCA-GAAGACATGAAGGGAAAGATTTAA
* * *
23628062 GTCGCAACGGCAAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * *
23628111 GCCGCAACGGCGAACCTTGTACCTCAAAAG-CATAAAGGGAAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* *
23628160 GTCGCAACGGTGAATCC-AGTA-CT-ACGAAGACATGAAGGGAAAGATTTAA
1 GCCGCAACGGCGAA-CCTAGTACCTCA-GAAGACATGAAGGGAAAGATTTAA
* * * * * *
23628209 GCCGCAATGGTGAATCTAGTACCAC-GAAGATATGAAGGGAAAGGTTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * *
23628258 GTCGCAACAGCGAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * ** *
23628307 GCCGCAACAGCGAATCTAGTACCAC-GAAGACACAAAGGGAAAGGTTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * *
23628356 GTCGCAATGGCGAACCTAGTACCTTAG-AGACATGAAGGGCAAGATTTAA
1 GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * * ** *
23628405 GTCACAACGACGAATCC-AGTACCGCA-AAGACACAAAGGGAAAGGTTTAA
1 GCCGCAACGGCGAA-CCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
* * * *
23628454 GTCGCAATGGCGAACCTTA-TACCTCAGAAG-CGTGAAAGGAAA-ATTTAA
1 GCCGCAACGGCGAACC-TAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
*
23628502 GCTGCAA
1 GCCGCAA
23628509 TGATAAATTT
Statistics
Matches: 754, Mismatches: 150, Indels: 67
0.78 0.15 0.07
Matches are distributed among these distances:
47 3 0.00
48 43 0.06
49 668 0.89
50 38 0.05
51 2 0.00
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.17
Consensus pattern (50 bp):
GCCGCAACGGCGAACCTAGTACCTCAGAAGACATGAAGGGAAAGATTTAA
Found at i:23627736 original size:196 final size:196
Alignment explanation
Indices: 23627523--23628508 Score: 1013
Period size: 196 Copynumber: 5.0 Consensus size: 196
23627513 AAAGGTTGAG
* * *
23627523 GCCGCAACGGTGAACCTTGTACCTCAGAAGCATGAAGGAAAAGATTTAAGCCGCAACGACAAATC
1 GCCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGACGAATC
* * *
23627588 CAGTACCACGAAGACCTAAAGGGAAAGATTTAAGCTGCAATGGCGAATCTAGTACCACGAAGACA
66 CAGTACCACGAAGACATAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACA
* * * * *
23627653 TAAAGGGAAAGATTTAAGCCGCAACGGCAAATCTAGTACCAC-GAAGACACGAAGGGAAAGGTTT
131 TGAAGGGAAAGATTTAAGCCGCAACGGCAAACCTAGTACCTCAGAAG-CATGAAGGGAAAGATTT
23627717 AA
195 AA
* * *
23627719 GTCGCAACGGCGAACCTTGTACCTCAGAAGCGTGAAGGGAAAGATTTAAGCCGCAACGGCGAATC
1 GCCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGACGAATC
* ** * * * * * *
23627784 CAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTCGTAACGGCGAACCTTGTACCTCAGAAG-C
66 CAGTACCACGAAGACATAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCAC-GAAGAC
* * * * * *
23627848 ATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCC-AATACCCCA-AAGATATGGAGGGAAAGGT
130 ATGAAGGGAAAGATTTAAGCCGCAACGGC-AAACCTAGTACCTCAGAAG-CATGAAGGGAAAGAT
23627911 TTAA
193 TTAA
* * * * * *
23627915 GTCACAACGGGGAACCTTGTACCTCAGAAGCATGAGGGGAAATATTTAAGCCGTAACGACGAATC
1 GCCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGACGAATC
* * * * * **
23627980 CAGTACCAC-AAGGAAATAAAAGGAAAGGTTTAAGCCGCAACGGCGAATCCAGTACCATGAAGGT
66 CAGTACCACGAA-GACATAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGAC
* * * *
23628044 ATGGAGGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTT
130 ATGAAGGGAAAGATTTAAGCCGCAACGGCAAACCTAGTACCTCAGAAGCATGAAGGGAAAGATTT
23628109 AA
195 AA
* * * **
23628111 GCCGCAACGGCGAACCTTGTACCTCAAAAGCATAAAGGGAAAGATTTAAGTCGCAACGGTGAATC
1 GCCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGACGAATC
* * * * *
23628176 CAGTACTACGAAGACATGAAGGGAAAGATTTAAGCCGCAATGGTGAATCTAGTACCACGAAGATA
66 CAGTACCACGAAGACATAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACA
* * * * *
23628241 TGAAGGGAAAGGTTTAAGTCGCAACAGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTA
131 TGAAGGGAAAGATTTAAGCCGCAACGGCAAACCTAGTACCTCAGAAGCATGAAGGGAAAGATTTA
23628306 A
196 A
* * * * ** * * * *
23628307 GCCGCAACAGCGAATCTAGTACCAC-GAAGACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAA-
1 GCCGCAACGGCGAACCTTGTACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGACGAAT
* * * * * * * *
23628370 CCTAGTACCTTA-G-AGACATGAAGGGCAAGATTTAAGTCACAACGACGAATCCAGTACCGCAAA
65 CC-AGTACC--ACGAAGACATAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAA
** * * * * * *
23628433 GACACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTA-TACCTCAGAAGCGTGAAAGGAAA-
127 GACATGAAGGGAAAGATTTAAGCCGCAACGGCAAACC-TAGTACCTCAGAAGCATGAAGGGAAAG
23628496 ATTTAA
191 ATTTAA
*
23628502 GCTGCAA
1 GCCGCAA
23628509 TGATAAATTT
Statistics
Matches: 670, Mismatches: 107, Indels: 27
0.83 0.13 0.03
Matches are distributed among these distances:
195 27 0.04
196 628 0.94
197 14 0.02
198 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.26, T:0.17
Consensus pattern (196 bp):
GCCGCAACGGCGAACCTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGACGAATC
CAGTACCACGAAGACATAAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAGTACCACGAAGACA
TGAAGGGAAAGATTTAAGCCGCAACGGCAAACCTAGTACCTCAGAAGCATGAAGGGAAAGATTTA
A
Found at i:23628803 original size:39 final size:39
Alignment explanation
Indices: 23628760--23629173 Score: 225
Period size: 39 Copynumber: 10.7 Consensus size: 39
23628750 GAAAACCCCG
*
23628760 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
* * * ** * **
23628799 ATCTCTTACCCTGAGCTTGAGGCAGAT-TGCAGTCATTTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAATCA
* * * *
23628838 ATCTCTTACCCTGAACTTGGGGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
* * ** * * *
23628877 ATCTCTTA-CCCTAGGTCT-GGGCAGAT-TGCAACCATGCG
1 ATCTCTTACCCCGA-GCCTGGGGCAGATCACCATCAAT-CA
* * * *
23628915 ATCTCTTACCTCAAGCCTGAGGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
* * * ** * *
23628954 ATCTCTTACCTCGAGTCTGGGG-AGATTACGGTCATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
* * *
23628992 ATCTCTTACCTCGAGCCTGAGGCAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
* * *
23629031 ATCTCTTACCCCGAGCTTGGGGTAGATTGCAGCCAT---TCG
1 ATCTCTTACCCCGAGCCTGGGGCAGA-T-CA-CCATCAATCA
* * ** * * * *
23629070 ACCTTTTACCCCGAGCCTGGGGCAGATTGCAATTATTCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
* * * * * **
23629109 ATCTCTTACCTCGAGCTTGAGGCAAATCATCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
* *
23629148 ATCTCTTA-CCCGATCATGGGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
23629174 GGCAATCATT
Statistics
Matches: 275, Mismatches: 86, Indels: 29
0.71 0.22 0.07
Matches are distributed among these distances:
36 3 0.01
37 4 0.01
38 69 0.25
39 186 0.68
40 7 0.03
41 2 0.01
42 4 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCA
Found at i:23628944 original size:77 final size:77
Alignment explanation
Indices: 23628758--23629096 Score: 353
Period size: 77 Copynumber: 4.4 Consensus size: 77
23628748 TTGAAAACCC
* * * ** *
23628758 CGATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCCTGAGCT-TGAGGC
1 CGATCTCTTACCTCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCT-AGGTCTG-GGC
23628822 AGATTGCAGTCATT
64 AGATTGCAGTCATT
* * * *
23628836 TGATCTCTTACCCTGAA-CTTGGGGCAGATCACCATCAACCAATCTCTTACCCTAGGTCTGGGCA
1 CGATCTCTTA-CCTCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCTAGGTCTGGGCA
** *
23628900 GATTGCAACCATG
65 GATTGCAGTCATT
* *
23628913 CGATCTCTTACCTCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTA-CCTCGAGTCTGGGGA
1 CGATCTCTTACCTCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCTAG-GTCTGGGCA
* *
23628977 GATTACGGTCATT
65 GATTGCAGTCATT
* * * *
23628990 CGATCTCTTACCTCGAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCCGAGCT-TGGGGT
1 CGATCTCTTACCTCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTA-CCCTAGGTCT-GGGC
*
23629054 AGATTGCAGCCATT
64 AGATTGCAGTCATT
* * * * *
23629068 CGACCTTTTACCCCGAGCCTGGGGCAGAT
1 CGATCTCTTACCTCAAGCCTGAGGCAGAT
23629097 TGCAATTATT
Statistics
Matches: 220, Mismatches: 34, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
76 9 0.04
77 121 0.55
78 84 0.38
79 6 0.03
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (77 bp):
CGATCTCTTACCTCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCTAGGTCTGGGCAG
ATTGCAGTCATT
Found at i:23629171 original size:155 final size:152
Alignment explanation
Indices: 23628762--23629173 Score: 379
Period size: 155 Copynumber: 2.7 Consensus size: 152
23628752 AAACCCCGAT
* *
23628762 CTCTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACC-CTGAGCTTGAGGCAGAT
1 CTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCAATCTCTTACCTC-GAGCTTGAGGCA-AA
** * *
23628826 TGCAGTCATTTG-ATCTCTTACCCTGAACTTGGGGCAGATCACCATCAACCAATCTCTTACCCTA
64 T-CA-TCATCAGCATCTCTTACCC-GAACATGGGGCAGATCACCATCAACCAATCTCTTACCCGA
* *
23628890 GGTCTGGGCAGATTGCAACCATGCGAT
126 GCTCTGGGCAGATTGCAACCATGCGAC
* * * * * *
23628917 CTCTTACCTCAAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCTCGAG-TCTG-GGGAGAT
1 CTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCAATCTCTTACCTCGAGCT-TGAGGCA-AA
* * * *
23628980 TACGGTCATTC-G-ATCTCTTACCTCGAGCCTGAGGCAGATCACCATCAACCAATCTCTTACCCC
64 T-C-ATCA-TCAGCATCTCTTACC-CGAACATGGGGCAGATCACCATCAACCAATCTCTTA-CCC
* * *
23629043 GAGCT-TGGGGTAGATTGCAGCCATTCGAC
124 GAGCTCT-GGGCAGATTGCAACCATGCGAC
* ** * * * *
23629072 CTTTTACCCCGAGCCTGGGGCAGATTGCAATTATTCGATCTCTTACCTCGAGCTTGAGGCAAATC
1 CTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCAATCTCTTACCTCGAGCTTGAGGCAAATC
*
23629137 ATCATCAGCCAATCTCTTACCCGATCATGGGGCAGAT
66 ATCATCAG-C-ATCTCTTACCCGAACATGGGGCAGAT
23629174 GGCAATCATT
Statistics
Matches: 209, Mismatches: 35, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
152 2 0.01
153 4 0.02
154 57 0.27
155 131 0.63
156 15 0.07
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (152 bp):
CTCTTACCCCGAGCCTGGGGCAGATCACCATCAATCAATCTCTTACCTCGAGCTTGAGGCAAATC
ATCATCAGCATCTCTTACCCGAACATGGGGCAGATCACCATCAACCAATCTCTTACCCGAGCTCT
GGGCAGATTGCAACCATGCGAC
Found at i:23629742 original size:16 final size:16
Alignment explanation
Indices: 23629721--23629761 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
23629711 CATTTTTAAA
23629721 ATTTAAATCTAAATTT
1 ATTTAAATCTAAATTT
* *
23629737 ATTTAAATTTGAATTT
1 ATTTAAATCTAAATTT
23629753 ACTTTAAAT
1 A-TTTAAAT
23629762 TTGAACTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTAAATCTAAATTT
Found at i:23629799 original size:11 final size:11
Alignment explanation
Indices: 23629783--23629834 Score: 68
Period size: 11 Copynumber: 4.5 Consensus size: 11
23629773 TTGAGTTTGG
23629783 ATTTAATTTAA
1 ATTTAATTTAA
23629794 ATTTAAATTTAA
1 ATTT-AATTTAA
*
23629806 ATTTATTTTAA
1 ATTTAATTTAA
*
23629817 ATTAAATTTAA
1 ATTTAATTTAA
23629828 AGTTTAA
1 A-TTTAA
23629835 AAGTCCAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 20 0.57
12 15 0.43
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
ATTTAATTTAA
Found at i:23629805 original size:17 final size:17
Alignment explanation
Indices: 23629720--23629835 Score: 92
Period size: 17 Copynumber: 6.8 Consensus size: 17
23629710 CCATTTTTAA
*
23629720 AATTTAAATCTAAATTT
1 AATTTAAATTTAAATTT
*
23629737 -ATTTAAATTTGAATTT
1 AATTTAAATTTAAATTT
* * *
23629753 ACTTTAAATTTGAACTT
1 AATTTAAATTTAAATTT
* * * **
23629770 ATTTTGAGTTTGGATTT
1 AATTTAAATTTAAATTT
23629787 AATTTAAATTTAAATTT
1 AATTTAAATTTAAATTT
* *
23629804 AAATTT-ATTTTAAATTA
1 -AATTTAAATTTAAATTT
23629821 AATTTAAAGTTTAAA
1 AATTTAAA-TTTAAA
23629836 AGTCCAAATA
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
16 19 0.24
17 48 0.62
18 11 0.14
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (17 bp):
AATTTAAATTTAAATTT
Found at i:23629835 original size:7 final size:6
Alignment explanation
Indices: 23629719--23629835 Score: 77
Period size: 6 Copynumber: 20.5 Consensus size: 6
23629709 CCCATTTTTA
* * *
23629719 AAATTT AAATCT AAATTT --ATTT AAATTT GAATTT -ACTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * * * * **
23629764 GAACTT -ATTTT GAGTTT GGATTT -AATTT AAATTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
23629810 -ATTTT AAA-TT AAATTT AAAGTTT AAA
1 AAATTT AAATTT AAATTT AAA-TTT AAA
23629836 AGTCCAAATA
Statistics
Matches: 88, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
4 4 0.05
5 20 0.23
6 58 0.66
7 6 0.07
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (6 bp):
AAATTT
Found at i:23630474 original size:15 final size:15
Alignment explanation
Indices: 23630454--23630486 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
23630444 TGAAACGTTC
23630454 ATTATA-TATATATTT
1 ATTATATTAT-TATTT
23630469 ATTATATTATTATTT
1 ATTATATTATTATTT
23630484 ATT
1 ATT
23630487 GTTTTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATATTATTATTT
Found at i:23631653 original size:30 final size:30
Alignment explanation
Indices: 23631614--23632146 Score: 118
Period size: 29 Copynumber: 18.2 Consensus size: 30
23631604 GCCTAGAGGT
* *
23631614 CCCTGAACTTTCCAAAAATTACCTTTTGAC
1 CCCTAAACTTTCCAAAAATTACATTTTGAC
* * *
23631644 CCTTAAACTTCCCAAAAATTATATTTTGAC
1 CCCTAAACTTTCCAAAAATTACATTTTGAC
** * * * * *
23631674 CCCTAAACTTTTTATAAATCAAATTCT-AA
1 CCCTAAACTTTCCAAAAATTACATTTTGAC
* * * *
23631703 CCCTCGAAC-TTCTAAAAATTATATTTTAAC
1 CCCT-AAACTTTCCAAAAATTACATTTTGAC
* *
23631733 CCC-GAACCTTCCAAAAATTATCATTTT-A-
1 CCCTAAACTTTCCAAAAATTA-CATTTTGAC
* * * * *
23631761 CCCTCGAA-TGTCTAAAAATTCCATTTTTAAC
1 CCCT-AAACTTTCCAAAAATTACA-TTTTGAC
* * *
23631792 CCC-GAACCTT-CTAAAATTACCATTTT-AC
1 CCCTAAACTTTCCAAAAATTA-CATTTTGAC
** * * *
23631820 CCCTGGA-TGTCTAAAAATTACATTTTTA-
1 CCCTAAACTTTCCAAAAATTACATTTTGAC
* * *
23631848 ACCTCGAACTTTCC-AAAATT-CTATTTT-AA
1 CCCT-AAACTTTCCAAAAATTAC-ATTTTGAC
* *
23631877 CCTTGAACTTTCCAAAAATTATCATTTT-A-
1 CCCTAAACTTTCCAAAAATTA-CATTTTGAC
* * * * *
23631906 CCCTCGAA-TGTCTAAAAATT-CTATTTTTAA
1 CCCT-AAACTTTCCAAAAATTAC-ATTTTGAC
* *
23631936 CCCTAAACCTTCCAAAATTTACCATTTT-AC
1 CCCTAAACTTTCCAAAAATTA-CATTTTGAC
* * *
23631966 CCTCT-AA-TGTCTAAAAATTCCATTTTCGAC
1 CC-CTAAACTTTCCAAAAATTACATTTT-GAC
* * *
23631996 CCC-GAACCTTCCCAAAATTACCATTTT-A-
1 CCCTAAACTTTCCAAAAATTA-CATTTTGAC
* * * * * *
23632024 CCCTCATA-TATCTAAAAATTCCATTTTTAA
1 CCCT-AAACTTTCCAAAAATTACATTTTGAC
* *
23632054 CCCTGAACTTTCCAAAAGTTACCATTTT-AC
1 CCCTAAACTTTCCAAAAATTA-CATTTTGAC
* * * * * *
23632084 CCTTGAA-TGTCTAAAAATTCCATTTTTAAC
1 CCCTAAACTTTCCAAAAATTACA-TTTTGAC
*
23632114 CCC-AAACCTTCC-AAAATTACCATTTTG-C
1 CCCTAAACTTTCCAAAAATTA-CATTTTGAC
23632142 CCCTA
1 CCCTA
23632147 GTGTCCAAAA
Statistics
Matches: 370, Mismatches: 88, Indels: 91
0.67 0.16 0.17
Matches are distributed among these distances:
27 1 0.00
28 61 0.16
29 151 0.41
30 133 0.36
31 23 0.06
32 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTTCCAAAAATTACATTTTGAC
Found at i:23631660 original size:29 final size:30
Alignment explanation
Indices: 23631614--23631683 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
23631604 GCCTAGAGGT
* *
23631614 CCCTGAACTTTCC-AAAAATTACCTTTTGAC
1 CCCTAAAC-TTCCAAAAAATTACATTTTGAC
* * *
23631644 CCTTAAACTTCCCAAAAATTATATTTTGAC
1 CCCTAAACTTCCAAAAAATTACATTTTGAC
23631674 CCCTAAACTT
1 CCCTAAACTT
23631684 TTTATAAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 4 0.12
30 30 0.88
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (30 bp):
CCCTAAACTTCCAAAAAATTACATTTTGAC
Found at i:23631780 original size:58 final size:58
Alignment explanation
Indices: 23631702--23631913 Score: 213
Period size: 58 Copynumber: 3.7 Consensus size: 58
23631692 TCAAATTCTA
23631702 ACCCTCGAACT-TCTAAAAATTATATTTTAACCCCGAACCTTCCAAAAATTATCATTTT
1 ACCCTCGAACTGTCTAAAAATTATATTTTAACCCCGAACCTTCC-AAAATTATCATTTT
* *
23631760 ACCCTCGAA-TGTCTAAAAATTCCAT-TTTTAACCCCGAACCTTCTAAAATTACCATTTT
1 ACCCTCGAACTGTCTAAAAATT--ATATTTTAACCCCGAACCTTCCAAAATTATCATTTT
* * * * *
23631818 ACCC-CTGGA-TGTCTAAAAATTACATTTTTAACCTCGAACTTTCCAAAATTCT-ATTTT
1 ACCCTC-GAACTGTCTAAAAATTATA-TTTTAACCCCGAACCTTCCAAAATTATCATTTT
* * * *
23631875 AACCTTGAACTTTCCAAAAATTATCATTTT-ACCCTCGAA
1 ACCCTCGAACTGTCTAAAAATTAT-ATTTTAACCC-CGAA
23631914 TGTCTAAAAA
Statistics
Matches: 128, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
56 1 0.01
57 15 0.12
58 91 0.71
59 19 0.15
60 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.35
Consensus pattern (58 bp):
ACCCTCGAACTGTCTAAAAATTATATTTTAACCCCGAACCTTCCAAAATTATCATTTT
Found at i:23631808 original size:29 final size:28
Alignment explanation
Indices: 23631700--23632139 Score: 132
Period size: 29 Copynumber: 15.0 Consensus size: 28
23631690 AATCAAATTC
23631700 TAACCCTCGAACTTCTAAAAATT--ATATTT
1 TAACCC-CGAACTTCT-AAAATTCCAT-TTT
* *
23631729 TAACCCCGAACCTTCCAAAAATTATCA-TTT
1 TAACCCCGAA-CTT-CTAAAATT-CCATTTT
23631759 T-ACCCTCGAA-TGTCTAAAAATTCCATTTT
1 TAACCC-CGAACT-TCT-AAAATTCCATTTT
23631788 TAACCCCGAACCTTCTAAAATTACCA-TTT
1 TAACCCCGAA-CTTCTAAAATT-CCATTTT
* *
23631817 T-ACCCCTGGA-TGTCTAAAAATTACATTTT
1 TAACCCC-GAACT-TCT-AAAATTCCATTTT
* * *
23631846 TAACCTCGAACTTTCCAAAATTCTA-TTT
1 TAACCCCGAAC-TTCTAAAATTCCATTTT
** * *
23631874 TAACCTTGAACTTTCCAAAAATTATCA-TTT
1 TAACCCCGAAC-TT-CTAAAATT-CCATTTT
*
23631904 T-ACCCTCGAA-TGTCTAAAAATTCTATTTT
1 TAACCC-CGAACT-TCT-AAAATTCCATTTT
** *
23631933 TAACCCTAAACCTTCCAAAATTTACCA-TTT
1 TAACCCCGAA-CTTCTAAAA-TT-CCATTTT
*
23631963 T-ACCCTCTAA-TGTCTAAAAATTCCATTTT
1 TAACCC-CGAACT-TCT-AAAATTCCATTTT
** *
23631992 CGACCCCGAACCTTCCCAAAATTACCA-TTT
1 TAACCCCGAA-CTT-CTAAAATT-CCATTTT
23632022 T-ACCCTC-ATA-TATCTAAAAATTCCATTTT
1 TAACCC-CGA-ACT-TCT-AAAATTCCATTTT
* *
23632051 TAACCCTGAACTTTCCAAAAGTTACCA-TTT
1 TAACCCCGAAC-TTCTAAAA-TT-CCATTTT
*
23632081 T-ACCCTTGAA-TGTCTAAAAATTCCATTTT
1 TAACCC-CGAACT-TCT-AAAATTCCATTTT
* *
23632110 TAACCCCAAACCTTCCAAAATTACCATTTT
1 TAACCCCGAA-CTTCTAAAATT-CCATTTT
23632140 GCCCCTAGTG
Statistics
Matches: 315, Mismatches: 37, Indels: 117
0.67 0.08 0.25
Matches are distributed among these distances:
27 1 0.00
28 50 0.16
29 147 0.47
30 101 0.32
31 15 0.05
32 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (28 bp):
TAACCCCGAACTTCTAAAATTCCATTTT
Found at i:23631892 original size:145 final size:146
Alignment explanation
Indices: 23631704--23632023 Score: 439
Period size: 145 Copynumber: 2.2 Consensus size: 146
23631694 AAATTCTAAC
* *
23631704 CCTCGAAC-TTCTAAAAATTATATTTTAACCCCGAACCTTCCAAAAATTATCATTTTACCCTCGA
1 CCTCGAACTTTC-CAAAATTCTATTTTAACCCCGAACCTTCCAAAAATTATCATTTTACCCTCGA
* * *
23631768 ATGTCTAAAAATTCCATTTTTAACCCCGAACCTTCTAAAA-TTACCATTTTACCC-CTGGATGTC
65 ATGTCTAAAAATTCCATTTTTAACCCCAAACCTTCCAAAATTTACCATTTTACCCTCT-AATGTC
*
23631831 TAAAAATTACATTTTTAA
129 TAAAAATTACATTTTCAA
** *
23631849 CCTCGAACTTTCCAAAATTCTATTTTAACCTTGAACTTTCCAAAAATTATCATTTTACCCTCGAA
1 CCTCGAACTTTCCAAAATTCTATTTTAACCCCGAACCTTCCAAAAATTATCATTTTACCCTCGAA
* *
23631914 TGTCTAAAAATTCTATTTTTAACCCTAAACCTTCCAAAATTTACCATTTTACCCTCTAATGTCTA
66 TGTCTAAAAATTCCATTTTTAACCCCAAACCTTCCAAAATTTACCATTTTACCCTCTAATGTCTA
* *
23631979 AAAATTCCATTTTCGA
131 AAAATTACATTTTCAA
* * *
23631995 CCCCGAACCTTCCCAAAATTACCATTTTA
1 CCTCGAA-CTTTCCAAAATT-CTATTTTA
23632024 CCCTCATATA
Statistics
Matches: 154, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
145 91 0.59
146 43 0.28
147 13 0.08
148 7 0.05
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (146 bp):
CCTCGAACTTTCCAAAATTCTATTTTAACCCCGAACCTTCCAAAAATTATCATTTTACCCTCGAA
TGTCTAAAAATTCCATTTTTAACCCCAAACCTTCCAAAATTTACCATTTTACCCTCTAATGTCTA
AAAATTACATTTTCAA
Found at i:23631949 original size:59 final size:59
Alignment explanation
Indices: 23631832--23632139 Score: 365
Period size: 59 Copynumber: 5.3 Consensus size: 59
23631822 CTGGATGTCT
* * * * * *
23631832 AAAAATTA-CATTTTTAACCTCGAACTTTC-CAAAATTCTA-TTTTAACCTTGAACTTTCC
1 AAAAATTACCA-TTTTACCCTCGAA-TGTCTAAAAATTCCATTTTTAACCCTGAACCTTCC
* * *
23631890 AAAAATTATCATTTTACCCTCGAATGTCTAAAAATTCTATTTTTAACCCTAAACCTTCC
1 AAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCATTTTTAACCCTGAACCTTCC
* * ** *
23631949 AAAATTTACCATTTTACCCTCTAATGTCTAAAAATTCCATTTTCGACCCCGAACCTTCC
1 AAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCATTTTTAACCCTGAACCTTCC
* * *
23632008 CAAAATTACCATTTTACCCTC-ATATATCTAAAAATTCCATTTTTAACCCTGAACTTTCC
1 AAAAATTACCATTTTACCCTCGA-ATGTCTAAAAATTCCATTTTTAACCCTGAACCTTCC
* * **
23632067 AAAAGTTACCATTTTACCCTTGAATGTCTAAAAATTCCATTTTTAACCCCAAACCTTCC
1 AAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCATTTTTAACCCTGAACCTTCC
23632126 -AAAATTACCATTTT
1 AAAAATTACCATTTT
23632140 GCCCCTAGTG
Statistics
Matches: 216, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
57 3 0.01
58 43 0.20
59 169 0.78
60 1 0.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCGAATGTCTAAAAATTCCATTTTTAACCCTGAACCTTCC
Found at i:23632836 original size:16 final size:15
Alignment explanation
Indices: 23632798--23632898 Score: 57
Period size: 15 Copynumber: 6.8 Consensus size: 15
23632788 ATTTATCTTA
*
23632798 TTTTTAATTTAATAT
1 TTTTTATTTTAATAT
**
23632813 TTGATATTTTAGATAT
1 TTTTTATTTTA-ATAT
23632829 TTTTTA--TTAATAT
1 TTTTTATTTTAATAT
* *
23632842 GTAATTTAATTTAATAT
1 -T-TTTTATTTTAATAT
** *
23632859 TTGATA-TTTGATA-
1 TTTTTATTTTAATAT
23632872 TTTTTATTTTAATAT
1 TTTTTATTTTAATAT
* *
23632887 TTATTGTTTTAA
1 TTTTTATTTTAA
23632899 AAAATATCAT
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
13 8 0.12
14 16 0.25
15 24 0.38
16 9 0.14
17 7 0.11
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTTATTTTAATAT
Found at i:23632853 original size:46 final size:45
Alignment explanation
Indices: 23632800--23632886 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 45
23632790 TTATCTTATT
23632800 TTTAATTTAATATTTGATATTTTAGATATTTTT-TATTAATATGTAA
1 TTTAATTTAATATTTGATA-TTT-GATATTTTTATATTAATATGTAA
*
23632846 TTTAATTTAATATTTGATATTTGATATTTTTATTTTAATAT
1 TTTAATTTAATATTTGATATTTGATATTTTTATATTAATAT
23632887 TTATTGTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
44 9 0.23
45 11 0.28
46 19 0.49
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (45 bp):
TTTAATTTAATATTTGATATTTGATATTTTTATATTAATATGTAA
Found at i:23632898 original size:15 final size:14
Alignment explanation
Indices: 23632796--23632898 Score: 66
Period size: 14 Copynumber: 7.0 Consensus size: 14
23632786 TAATTTATCT
*
23632796 TATTTTTAATTTAA
1 TATTTTTATTTTAA
*
23632810 TATTTGATATTTTAGA
1 TATTT-TTATTTTA-A
*
23632826 TATTTTT-TATTAA
1 TATTTTTATTTTAA
*
23632839 TATGTAATTTAATTTAA
1 TAT-T--TTTATTTTAA
* *
23632856 TA-TTTGATATTTGA
1 TATTTTTAT-TTTAA
23632870 TATTTTTATTTTAA
1 TATTTTTATTTTAA
*
23632884 TATTTATTGTTTTAA
1 TATTT-TTATTTTAA
23632899 AAAATATCAT
Statistics
Matches: 68, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
13 7 0.10
14 25 0.37
15 21 0.31
16 9 0.13
17 6 0.09
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (14 bp):
TATTTTTATTTTAA
Found at i:23637566 original size:45 final size:45
Alignment explanation
Indices: 23637516--23637603 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
23637506 TTATTTTATT
*
23637516 TTTAATTTAATATTTGATATTTTATATATTTT-TATTAATATTTGA
1 TTTAATTTAATATTTGATATTTGATAT-TTTTATATTAATATTTGA
*
23637561 TTTAATTTAATATTTGATATTTGATATTTTTATTTTAATATTT
1 TTTAATTTAATATTTGATATTTGATATTTTTATATTAATATTT
23637604 ATTGTTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 4 0.10
45 36 0.90
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (45 bp):
TTTAATTTAATATTTGATATTTGATATTTTTATATTAATATTTGA
Found at i:23637570 original size:17 final size:16
Alignment explanation
Indices: 23637520--23637578 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 16
23637510 TTTATTTTTA
23637520 ATTTAATATTTGA--T
1 ATTTAATATTTGATTT
*
23637534 ATTTTATATATT--TTT
1 ATTTAATAT-TTGATTT
23637549 A-TTAATATTTGATTT
1 ATTTAATATTTGATTT
23637564 AATTTAATATTTGAT
1 -ATTTAATATTTGAT
23637579 ATTTGATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
13 2 0.06
14 14 0.39
15 7 0.19
16 1 0.03
17 12 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
ATTTAATATTTGATTT
Found at i:23637613 original size:15 final size:14
Alignment explanation
Indices: 23637512--23637613 Score: 66
Period size: 15 Copynumber: 7.0 Consensus size: 14
23637502 TAATTTATTT
*
23637512 TATTTTTAATTTAA
1 TATTTTTATTTTAA
*
23637526 TATTTGATATTTTATA
1 TATTT-TTATTTTA-A
23637542 TATTTTTA--TTAA
1 TATTTTTATTTTAA
*
23637554 TATTTGATTTAATTTAA
1 TA-TT--TTTATTTTAA
* *
23637571 TA-TTTGATATTTGA
1 TATTTTTAT-TTTAA
23637585 TATTTTTATTTTAA
1 TATTTTTATTTTAA
*
23637599 TATTTATTGTTTTAA
1 TATTT-TTATTTTAA
23637614 AAAATATCAT
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
12 3 0.04
13 8 0.12
14 20 0.29
15 26 0.38
16 6 0.09
17 6 0.09
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (14 bp):
TATTTTTATTTTAA
Found at i:23642353 original size:47 final size:48
Alignment explanation
Indices: 23642250--23642353 Score: 126
Period size: 47 Copynumber: 2.2 Consensus size: 48
23642240 GTAATTTATC
* * *
23642250 TTATTTTTAATTTAATATTTGATATTTTAGATATTTTTTTATTAATAT
1 TTATTTTTAATATAATATTTGATATTTTAGATATTTTTATATTAAAAT
*
23642298 TTA-ATTTAATATAATATTTGATA-TTT-GATATTTTTA-ATTTAAAAT
1 TTATTTTTAATATAATATTTGATATTTTAGATATTTTTATA-TTAAAAT
23642343 TTATTGTTTAA
1 TTATT-TTTAA
23642354 AAAATATCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
44 1 0.02
45 18 0.38
46 3 0.06
47 23 0.48
48 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.61
Consensus pattern (48 bp):
TTATTTTTAATATAATATTTGATATTTTAGATATTTTTATATTAAAAT
Done.