Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 126 of 175
Found at i:39417616 original size:13 final size:13
Alignment explanation
Indices: 39417598--39417624 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39417588 TGGATGAGTT
39417598 TTTGGTTAATGCA
1 TTTGGTTAATGCA
39417611 TTTGGTTAATGCA
1 TTTGGTTAATGCA
39417624 T
1 T
39417625 AGTTGTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TTTGGTTAATGCA
Found at i:39419489 original size:28 final size:28
Alignment explanation
Indices: 39419452--39419508 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
39419442 ACGTTTTCCC
39419452 AATTTCAATTTT-ATATTTTCAATATTCA
1 AATTTCAATTTTCA-ATTTTCAATATTCA
* * *
39419480 AATTTTAATTTTCAGTTTTCAATTTTCA
1 AATTTCAATTTTCAATTTTCAATATTCA
39419508 A
1 A
39419509 TCCTCATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (28 bp):
AATTTCAATTTTCAATTTTCAATATTCA
Found at i:39419498 original size:7 final size:7
Alignment explanation
Indices: 39419454--39419509 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
39419444 GTTTTCCCAA
39419454 TTTCAAT
1 TTTCAAT
39419461 TTT-ATAT
1 TTTCA-AT
39419468 TTTCAAT
1 TTTCAAT
*
39419475 ATTCAAAT
1 TTTC-AAT
39419483 TTT-AAT
1 TTTCAAT
*
39419489 TTTCAGT
1 TTTCAAT
39419496 TTTCAAT
1 TTTCAAT
39419503 TTTCAAT
1 TTTCAAT
39419510 CCTCATTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 7 0.17
7 28 0.68
8 6 0.15
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (7 bp):
TTTCAAT
Found at i:39420876 original size:15 final size:16
Alignment explanation
Indices: 39420856--39420896 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
39420846 TATTTTGTTT
39420856 TAAATTAATTTT-AAA
1 TAAATTAATTTTCAAA
*
39420871 TAAATTAAATTTTCAAT
1 TAAATT-AATTTTCAAA
39420888 TAAA-TAATT
1 TAAATTAATT
39420897 CTCTCAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 7 0.30
17 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATTAATTTTCAAA
Found at i:39427982 original size:40 final size:40
Alignment explanation
Indices: 39427922--39427998 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
39427912 AATAGGAATG
* *
39427922 AAATGAAAGATGTCGCACAGTTGTTAGTACCCTGTAGCAA
1 AAATAAAAGATATCGCACAGTTGTTAGTACCCTGTAGCAA
39427962 AAATAAAAGATATCGCACAGTTGTTAGTACCCTGTAG
1 AAATAAAAGATATCGCACAGTTGTTAGTACCCTGTAG
39427999 TAGAATGGTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (40 bp):
AAATAAAAGATATCGCACAGTTGTTAGTACCCTGTAGCAA
Found at i:39440129 original size:16 final size:17
Alignment explanation
Indices: 39440070--39440128 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
39440060 TAAAAGAAAT
39440070 AAAGAAAGACAAAAGCA-
1 AAAGAAAGACAAAAG-AG
*
39440087 AAACAAA-ACAAAA-AG
1 AAAGAAAGACAAAAGAG
39440102 AAAGAAAAAGA-AAAAGAG
1 AAAG--AAAGACAAAAGAG
39440120 AAAGAAAGA
1 AAAGAAAGA
39440129 AGAACCTACG
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
14 1 0.03
15 3 0.09
16 11 0.31
17 13 0.37
18 7 0.20
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAGAAAGACAAAAGAG
Found at i:39446472 original size:17 final size:15
Alignment explanation
Indices: 39446435--39446485 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
39446425 GATTTTCTCT
39446435 ATTTTTTAA-A-ATA
1 ATTTTTTAATATATA
*
39446448 ATTTTTTTATTATTATGA
1 A-TTTTTTAATA-TAT-A
39446466 ATTTTTTAATATATA
1 ATTTTTTAATATATA
39446481 ATTTT
1 ATTTT
39446486 GATCAAATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 1 0.03
14 7 0.23
15 7 0.23
16 3 0.10
17 11 0.35
18 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
ATTTTTTAATATATA
Found at i:39448125 original size:30 final size:30
Alignment explanation
Indices: 39448056--39448128 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
39448046 TGGTAAGTAT
* *
39448056 TGTTCTGGAAGAAATAAATTTGACAAGATG
1 TGTTCTGAAAAAAATAAATTTGACAAGATG
* * * **
39448086 AGATATGAAAAAAATAAATTTGACGTGATG
1 TGTTCTGAAAAAAATAAATTTGACAAGATG
39448116 TGTTCTGAAAAAA
1 TGTTCTGAAAAAA
39448129 TTATTTTGAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (30 bp):
TGTTCTGAAAAAAATAAATTTGACAAGATG
Found at i:39448521 original size:156 final size:155
Alignment explanation
Indices: 39448182--39448521 Score: 430
Period size: 156 Copynumber: 2.2 Consensus size: 155
39448172 TAATTGTATA
* *
39448182 GAAAAAGCTT-CCAGCTGGATGGTTTTTTTGTACTATTGATTCTGAAAAATAATTTTGAGAAGCG
1 GAAAAAG-TTCCCAGCTGGATGCTTTTTTTGTACTATTGATTCTGAAAAATAATTTTGAGAAGAG
* ** * * **
39448246 GGTTTTGAAAATTTATCCCGAGATTCTTGGGAAATCTAATAGTTGGGGTTGAAAAGTGCTTCAAG
65 GGTTTTCAAAAAATATCCCGAGATTCATGGGAAATCTAATAGTTGGGGATGAAAAACGCTTCAAG
* * *
39448311 TAGGATGCACTGTTAGCAAAAATACT
130 CAGGATACACTGTCAGCAAAAATACT
* * * * * * *
39448337 AAAAAAGCTCCTAGCTAGATACTTTTTTTGTACTATTGGTTCTGAAAAAATAATTTTGAGAAGAT
1 GAAAAAGTTCCCAGCTGGATGCTTTTTTTGTACTATTGATTCTG-AAAAATAATTTTGAGAAGAG
* * *
39448402 GGTTTTCAAAAAATATCCTGGGATTCATGGGAAATCTGATAGTTGGGGATGAAAAACGCTTCAAG
65 GGTTTTCAAAAAATATCCCGAGATTCATGGGAAATCTAATAGTTGGGGATGAAAAACGCTTCAAG
*
39448467 CAGGATACACTGTCAGCAAAAGTACT
130 CAGGATACACTGTCAGCAAAAATACT
* *
39448493 GAAAAAGTTCCCAGTTGGATGCTCTTTTT
1 GAAAAAGTTCCCAGCTGGATGCTTTTTTT
39448522 AGTAGTGCTG
Statistics
Matches: 153, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
154 1 0.01
155 35 0.23
156 117 0.76
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (155 bp):
GAAAAAGTTCCCAGCTGGATGCTTTTTTTGTACTATTGATTCTGAAAAATAATTTTGAGAAGAGG
GTTTTCAAAAAATATCCCGAGATTCATGGGAAATCTAATAGTTGGGGATGAAAAACGCTTCAAGC
AGGATACACTGTCAGCAAAAATACT
Found at i:39451587 original size:59 final size:59
Alignment explanation
Indices: 39451517--39451742 Score: 337
Period size: 59 Copynumber: 3.8 Consensus size: 59
39451507 TAATTCCTAA
* * *
39451517 TTTATTAAATGAAACAATGA-AAAAATAATTTGCACAAACATATTCTAAAGAACTTCTAT
1 TTTATTAAATGAAACAAT-ATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTCTAT
* * * *
39451576 TTTATTGAATGAAACAATATAAAAATATTTTGTACAAAAATATTCAAAAGAACTTTTGT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTCTAT
* *
39451635 TTTATTAAAAGAAATAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTCTAT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTCTAT
* *
39451694 TTTATTAAATAAAACAATATAAAAATAATTTGTACAAATATATTCAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
39451743 ATAAATCAAT
Statistics
Matches: 149, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
58 1 0.01
59 148 0.99
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAACTTCTAT
Found at i:39453676 original size:12 final size:13
Alignment explanation
Indices: 39453658--39453687 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
39453648 ATCTACTGAC
39453658 TATTATAAAAAAA
1 TATTATAAAAAAA
39453671 -ATTATAAAAAAA
1 TATTATAAAAAAA
39453683 TATTA
1 TATTA
39453688 ATTAAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TATTATAAAAAAA
Found at i:39455561 original size:5 final size:5
Alignment explanation
Indices: 39455551--39455577 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
39455541 AGCTACAATC
39455551 ATTAG ATTAG ATTAG ATTAG ATTAG AT
1 ATTAG ATTAG ATTAG ATTAG ATTAG AT
39455578 GTTTATCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTAG
Found at i:39456381 original size:34 final size:34
Alignment explanation
Indices: 39456305--39456381 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
39456295 GGAAATTGTT
* * * *
39456305 GCATTTGTTTTGATATTGTTCTTGAATTGTTCTG
1 GCATTTGTTTTGATAGTCTGCTGGAATTGTTCTG
* *
39456339 GCAGTTGTTTTGATAGTCTGCTGGAAATTGTTCTT
1 GCATTTGTTTTGATAGTCTGCTGG-AATTGTTCTG
39456374 G-ATTTGTT
1 GCATTTGTT
39456382 AGTCAGTAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
34 25 0.71
35 10 0.29
ACGTcount: A:0.16, C:0.09, G:0.23, T:0.52
Consensus pattern (34 bp):
GCATTTGTTTTGATAGTCTGCTGGAATTGTTCTG
Found at i:39456410 original size:107 final size:107
Alignment explanation
Indices: 39456224--39456509 Score: 464
Period size: 107 Copynumber: 2.7 Consensus size: 107
39456214 TTTTATTGGT
* * * *
39456224 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGAAAAATGTTATTGATTTGTTAGTGAGTAGAAGAT
1 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAAGAT
*
39456289 GAAACTGGAAATTGTTGCATTTGTTTTGATATTGTTCTTGAA
66 GAAACTGAAAATTGTTGCATTTGTTTTGATATTGTTCTTGAA
* *
39456331 TTGTTCTGGCAGTTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAAGAT
1 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAAGAT
* *
39456396 AAAACTGAAAATTGTTGCATTTGTTTTGATATTGTTCTTGAT
66 GAAACTGAAAATTGTTGCATTTGTTTTGATATTGTTCTTGAA
* * *
39456438 TTGTTCTGGAAATTGTTTTGATTGTCTACTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAATAT
1 TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAAGAT
39456503 GAAACTG
66 GAAACTG
39456510 GAACTTGATT
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
107 164 1.00
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.45
Consensus pattern (107 bp):
TTGTTCTGGAAATTGTTTTGATAGTCTGCTGGAAATTGTTCTTGATTTGTTAGTCAGTAGAAGAT
GAAACTGAAAATTGTTGCATTTGTTTTGATATTGTTCTTGAA
Found at i:39456469 original size:23 final size:22
Alignment explanation
Indices: 39456426--39456484 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
39456416 TTGTTTTGAT
39456426 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGA-TTGTTCTGGAA
39456449 ATTGTT-TTGATTGTCTACTGGAA
1 ATTGTTCTTGATTGT-T-CTGGAA
39456472 ATTGTTCTTGATT
1 ATTGTTCTTGATT
39456485 TGTTAGTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 18 0.55
24 6 0.18
ACGTcount: A:0.19, C:0.08, G:0.20, T:0.53
Consensus pattern (22 bp):
ATTGTTCTTGATTGTTCTGGAA
Found at i:39457704 original size:37 final size:37
Alignment explanation
Indices: 39457661--39457749 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
39457651 ATCATAAATA
*
39457661 AATAAACTAATCAATGTTCAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
39457698 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
39457735 AATGAACTAATCAAT
1 AATAAACTAATCAAT
39457750 ATATTTATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:39458001 original size:33 final size:33
Alignment explanation
Indices: 39457964--39458029 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
39457954 AATCTAAAAA
39457964 ATACCAACAATTAATTTTAGGTCAATTACACAT
1 ATACCAACAATTAATTTTAGGTCAATTACACAT
*
39457997 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTACACAT
39458030 GCTTTATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (33 bp):
ATACCAACAATTAATTTTAGGTCAATTACACAT
Found at i:39459014 original size:24 final size:24
Alignment explanation
Indices: 39458982--39459036 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
39458972 GGGAAGGTTC
39458982 AGTTGCCGATGGACGGGTTCTTCG
1 AGTTGCCGATGGACGGGTTCTTCG
39459006 AGTTGCCGATGGACGGGTTCTTCG
1 AGTTGCCGATGGACGGGTTCTTCG
*
39459030 AGATGCC
1 AGTTGCC
39459037 ATTAGTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.15, C:0.22, G:0.36, T:0.27
Consensus pattern (24 bp):
AGTTGCCGATGGACGGGTTCTTCG
Found at i:39461047 original size:17 final size:15
Alignment explanation
Indices: 39461020--39461058 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
39461010 ATATAAGAAC
*
39461020 ATTTTATTATTAAATT
1 ATTTTAATATT-AATT
39461036 ATATTTAATATTAATT
1 AT-TTTAATATTAATT
39461052 ATTTTAA
1 ATTTTAA
39461059 ATTGTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 8 0.38
17 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTTAATATTAATT
Found at i:39461188 original size:47 final size:45
Alignment explanation
Indices: 39461047--39461199 Score: 125
Period size: 47 Copynumber: 3.3 Consensus size: 45
39461037 TATTTAATAT
* * *
39461047 TAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAC
1 TAATTATTTTAAATTATA-AAATTCATATAAGAAATTTTATTAT-AA
* * * ** *
39461094 GAATT-TTATGAAATTAT-ATATT-AT-TATTAAATTATATTTAATAA
1 TAATTATT-TTAAATTATAAAATTCATATAAGAAATTTTA-TT-ATAA
*
39461138 TAATTATTTTAAATTATACAAATTCATATAAGAAATTTTATTAGTGA
1 TAATTATTTTAAATTATA-AAATTCATATAAGAAATTTTATTA-TAA
39461185 TAATTATTTTAAATT
1 TAATTATTTTAAATT
39461200 TTATTAAATC
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
43 8 0.10
44 17 0.21
45 8 0.10
46 7 0.09
47 32 0.40
48 9 0.11
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTATAAAATTCATATAAGAAATTTTATTATAA
Found at i:39461272 original size:59 final size:57
Alignment explanation
Indices: 39461207--39461395 Score: 157
Period size: 59 Copynumber: 3.2 Consensus size: 57
39461197 ATTTTATTAA
39461207 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATA-TAATTATTT-AAATTATATTTTATAGT
* * ** * * * * * * * *
39461266 ATCATATATTATGATTTTAGTAAATTCATATAAAAATT-TTGATTATTAAGAATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-AT-ATAATTATTTA-AATT-A-TATTTTA-TAGT
*
39461327 ATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAAT-ATAATTAT-TTAAATTATATTTTATAGT
39461386 ATCATATATT
1 ATCATATATT
39461396 ATGATTTGAG
Statistics
Matches: 95, Mismatches: 26, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
58 3 0.03
59 41 0.43
60 16 0.17
61 31 0.33
62 4 0.04
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATAATTATTTAAATTATATTTTATAGT
Found at i:39461327 original size:120 final size:120
Alignment explanation
Indices: 39461196--39461493 Score: 499
Period size: 120 Copynumber: 2.5 Consensus size: 120
39461186 AATTATTTTA
* *
39461196 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
* *
39461260 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAAAATTTTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTGATTATTAAG
39461316 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
39461381 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTGATTATTAAG
* * *
39461436 AATTTTATTAAATTACATATTTTAATTATAATATATTTAATAATATTTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
39461494 ATGATTAAAT
Statistics
Matches: 168, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 160 0.95
121 8 0.05
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTGATTATTAAG
Found at i:39461345 original size:18 final size:17
Alignment explanation
Indices: 39461317--39461351 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39461307 ATTATTAAGA
*
39461317 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
39461334 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
39461352 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:39465933 original size:60 final size:60
Alignment explanation
Indices: 39465854--39465986 Score: 194
Period size: 60 Copynumber: 2.2 Consensus size: 60
39465844 GTTTCTTGGG
* *
39465854 CAGAATAATAGGCAACATTTTGGGCCGAATACAGGCCAGTCTCTTGGGCTTGTTAGTGGA
1 CAGAATAATGGGCAACATTTTGGGCCGAATACAGGCCAGTCTCTTAGGCTTGTTAGTGGA
* ** * * *
39465914 CAGAATAATGGGCAGCATTTTGGGCCGAATGTAGGTCAGTCTCTTAGGTTTGTTAGTGGG
1 CAGAATAATGGGCAACATTTTGGGCCGAATACAGGCCAGTCTCTTAGGCTTGTTAGTGGA
39465974 CAGAATAATGGGC
1 CAGAATAATGGGC
39465987 CGAATAGTGG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.28
Consensus pattern (60 bp):
CAGAATAATGGGCAACATTTTGGGCCGAATACAGGCCAGTCTCTTAGGCTTGTTAGTGGA
Found at i:39470287 original size:7 final size:8
Alignment explanation
Indices: 39470266--39470295 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
39470256 TTAAATTCAG
39470266 TTAAAAAA
1 TTAAAAAA
39470274 TTAAAAAA
1 TTAAAAAA
39470282 TTAAAAAA
1 TTAAAAAA
*
39470290 ATAAAA
1 TTAAAA
39470296 CATAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
TTAAAAAA
Found at i:39473376 original size:22 final size:21
Alignment explanation
Indices: 39473351--39473399 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
39473341 AAAACATTTA
39473351 AAATATAATTTTATTAAACAAT
1 AAATATAATTTT-TTAAACAAT
* *
39473373 AAATGA-CATTTTTTAAACGAT
1 AAAT-ATAATTTTTTAAACAAT
39473394 AAATAT
1 AAATAT
39473400 TGAATCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 9 0.39
23 1 0.04
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (21 bp):
AAATATAATTTTTTAAACAAT
Found at i:39474594 original size:29 final size:29
Alignment explanation
Indices: 39474544--39474600 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
39474534 AACCCTGTGA
* *
39474544 CAAGTGGTATCAGAGCTGTTGGTTTGAAC
1 CAAGTGATATCAGAGCTATTGGTTTGAAC
* *
39474573 CAAGTGATATCCGAGTTATTGGTTTGAA
1 CAAGTGATATCAGAGCTATTGGTTTGAA
39474601 GGCACGTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (29 bp):
CAAGTGATATCAGAGCTATTGGTTTGAAC
Found at i:39482684 original size:18 final size:18
Alignment explanation
Indices: 39482643--39482708 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 18
39482633 AAACAATAAA
*
39482643 TTTTATAATTTTTTAGTA-
1 TTTTATAA-TTTTTAATAT
*
39482661 TGTTATAATTTTTAATAT
1 TTTTATAATTTTTAATAT
* *
39482679 TTTTATAATCATTTACTAT
1 TTTTATAAT-TTTTAATAT
39482698 TTTTAATAATT
1 TTTT-ATAATT
39482709 AATTTTACAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
17 8 0.21
18 15 0.38
19 11 0.28
20 5 0.13
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTTATAATTTTTAATAT
Found at i:39483108 original size:7 final size:7
Alignment explanation
Indices: 39483096--39483121 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
39483086 AAAATATTTT
39483096 AAAAATA
1 AAAAATA
39483103 AAAAATA
1 AAAAATA
39483110 AAAAATA
1 AAAAATA
39483117 AAAAA
1 AAAAA
39483122 AATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:39483157 original size:6 final size:7
Alignment explanation
Indices: 39483138--39483179 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
39483128 TTTAAAGTAT
39483138 TTAAAAA
1 TTAAAAA
39483145 TTAAAAA
1 TTAAAAA
39483152 TTAAAAA
1 TTAAAAA
*
39483159 ATAAAAA
1 TTAAAAA
*
39483166 ATAAAAA
1 TTAAAAA
39483173 -TAAAAA
1 TTAAAAA
39483179 T
1 T
39483180 AAATATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
TTAAAAA
Found at i:39483157 original size:14 final size:13
Alignment explanation
Indices: 39483138--39483179 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
39483128 TTTAAAGTAT
39483138 TTAAAAATTAAAAA
1 TTAAAAA-TAAAAA
39483152 TTAAAAAATAAAAA
1 TT-AAAAATAAAAA
*
39483166 ATAAAAATAAAAA
1 TTAAAAATAAAAA
39483179 T
1 T
39483180 AAATATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 11 0.44
14 9 0.36
15 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TTAAAAATAAAAA
Found at i:39483711 original size:20 final size:20
Alignment explanation
Indices: 39483688--39483731 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
39483678 AATTTTTTAT
*
39483688 TTTTAAAATTTTAAAATATA
1 TTTTAAAATTTTAAAATAAA
** *
39483708 TTTTTTATTTTTAAAATAAA
1 TTTTAAAATTTTAAAATAAA
39483728 TTTT
1 TTTT
39483732 TAGTGTTCAT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAAAATTTTAAAATAAA
Found at i:39483731 original size:19 final size:20
Alignment explanation
Indices: 39483696--39483733 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39483686 ATTTTTAAAA
*
39483696 TTTTAAAATATATTTTTTAT
1 TTTTAAAATATAATTTTTAT
39483716 TTTTAAAATA-AATTTTTA
1 TTTTAAAATATAATTTTTA
39483734 GTGTTCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAAATATAATTTTTAT
Found at i:39488662 original size:17 final size:16
Alignment explanation
Indices: 39488645--39488674 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39488635 ATTTTTGAAT
39488645 TATTTTTATTTTATAA
1 TATTTTTATTTTATAA
39488661 T-TTTTTATTTTATA
1 TATTTTTATTTTATA
39488675 TAATTGATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 13 0.93
16 1 0.07
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTATTTTATAA
Found at i:39488812 original size:39 final size:42
Alignment explanation
Indices: 39488768--39488854 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 42
39488758 TTCATGTGTT
* *
39488768 TATAATTTTTTG-TT-CTATATATTAT-AATTTTTTTAATTTA
1 TATAATTTTTTGATTGATATATATT-TGAATTTTTATAATTTA
*
39488808 -ATAATTTTTTGATTGATATATATTTGAATTTTTATATTTTA
1 TATAATTTTTTGATTGATATATATTTGAATTTTTATAATTTA
39488849 TATAAT
1 TATAAT
39488855 GTATATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
39 11 0.28
40 3 0.08
41 21 0.52
42 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (42 bp):
TATAATTTTTTGATTGATATATATTTGAATTTTTATAATTTA
Found at i:39488847 original size:32 final size:30
Alignment explanation
Indices: 39488824--39488911 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 30
39488814 TTTTGATTGA
39488824 TATATATT-TGAATTTTTATATTTTATATAATG
1 TATATATTAT-AATTTTT-TATTTT-TATAATG
*
39488856 TATATATTATAATTTTTTATTTTTGAATTATG
1 TATATATTATAATTTTTTATTTTT--ATAATG
*
39488888 TAT-TA-TATATTTTATTTATTTTTA
1 TATATATTATAATTT-TTTATTTTTA
39488912 ATAGATGTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
29 1 0.02
30 8 0.16
31 17 0.34
32 23 0.46
33 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (30 bp):
TATATATTATAATTTTTTATTTTTATAATG
Found at i:39489126 original size:22 final size:22
Alignment explanation
Indices: 39489101--39489151 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
39489091 TTATTATAAA
39489101 TATATTTC-ATAAATAAAAATTT
1 TATATTTCTATAAA-AAAAATTT
**
39489123 TATAAATCTATAAAAAAAATTT
1 TATATTTCTATAAAAAAAATTT
*
39489145 CATATTT
1 TATATTT
39489152 TATCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (22 bp):
TATATTTCTATAAAAAAAATTT
Found at i:39492080 original size:20 final size:20
Alignment explanation
Indices: 39492055--39492094 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
39492045 GCCTGTTACC
39492055 CAAAAGCTATTCCCGTTTCT
1 CAAAAGCTATTCCCGTTTCT
39492075 CAAAAGCTATTCCCGTTTCT
1 CAAAAGCTATTCCCGTTTCT
39492095 TTCTTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (20 bp):
CAAAAGCTATTCCCGTTTCT
Found at i:39498605 original size:2 final size:2
Alignment explanation
Indices: 39498598--39498632 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
39498588 TGATGTCAAA
39498598 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
39498633 AAATAGGATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:39500320 original size:21 final size:21
Alignment explanation
Indices: 39500265--39500320 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
39500255 TTCTCACATC
*
39500265 AATTTAATATTAAAGAATAAT
1 AATTTAATATAAAAGAATAAT
**
39500286 -ATTTTCTATCAAAAGAATAAT
1 AATTTAATAT-AAAAGAATAAT
39500307 AATTTAATATAAAA
1 AATTTAATATAAAA
39500321 TATTATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 7 0.25
21 14 0.50
22 7 0.25
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
AATTTAATATAAAAGAATAAT
Found at i:39500348 original size:23 final size:22
Alignment explanation
Indices: 39500322--39500377 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
39500312 AATATAAAAT
*
39500322 ATTATTTTAATATTTTATATTAA
1 ATTATATTAA-ATTTTATATTAA
*
39500345 ATTATATTAAATTTTTTATT--
1 ATTATATTAAATTTTATATTAA
*
39500365 TTTATATTAAATT
1 ATTATATTAAATT
39500378 ATTTTAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.40
22 9 0.30
23 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTATATTAAATTTTATATTAA
Found at i:39500351 original size:10 final size:10
Alignment explanation
Indices: 39500336--39500394 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
39500326 TTTTAATATT
39500336 TTATATTAAA
1 TTATATTAAA
39500346 TTATATTAAA
1 TTATATTAAA
* **
39500356 TT-TTTTATTT
1 TTATATTA-AA
39500366 TTATATTAAA
1 TTATATTAAA
*
39500376 TTATTTTAAA
1 TTATATTAAA
*
39500386 ATAT-TTAAA
1 TTATATTAAA
39500395 ATATTTTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
9 9 0.23
10 26 0.67
11 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTATATTAAA
Found at i:39500402 original size:40 final size:40
Alignment explanation
Indices: 39500336--39500412 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
39500326 TTTTAATATT
* *
39500336 TTATATTAAATTATATTAAATTTTTTATTTTTATATTAAA
1 TTATATTAAAATATATTAAATATTTTATTTTTATATTAAA
*
39500376 TTATTTTAAAATAT-TTAAAATATTTTATTTTTATATT
1 TTATATTAAAATATATT-AAATATTTTATTTTTATATT
39500413 TTCTGAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (40 bp):
TTATATTAAAATATATTAAATATTTTATTTTTATATTAAA
Found at i:39501018 original size:69 final size:68
Alignment explanation
Indices: 39500906--39501080 Score: 201
Period size: 69 Copynumber: 2.5 Consensus size: 68
39500896 ATCATCCTGA
* * *
39500906 AATTACATACAAAAAGTTATAATACTCCACCACCACACCCATTTAAACATTCAAAAAGT-AGCAA
1 AATTACATACAAAAAGTTATATTA-TCCACCACCACACACATTTAAACATACAAAAAGTGA-CAA
39500970 C-CTAC
64 CGCT-C
* * * * *
39500975 AATTACATACAAAAAGTTATATTAGTTCACCACCACATACATTTACACATAGACAAAGTGACAAC
1 AATTACATACAAAAAGTTATATTA-TCCACCACCACACACATTTAAACATACAAAAAGTGACAAC
39501040 GCTC
65 GCTC
* *
39501044 TATGACATACAAAAAGTTATATTCATCCACCACCACA
1 AATTACATACAAAAAGTTATATT-ATCCACCACCACA
39501081 ATCACATCTT
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
69 87 0.96
70 4 0.04
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (68 bp):
AATTACATACAAAAAGTTATATTATCCACCACCACACACATTTAAACATACAAAAAGTGACAACG
CTC
Found at i:39506635 original size:25 final size:25
Alignment explanation
Indices: 39506563--39506664 Score: 88
Period size: 25 Copynumber: 4.2 Consensus size: 25
39506553 AAGTTCAAGC
**
39506563 GAGCCA-T-ATCGGGAAGCTCCGGA
1 GAGCCATTAATCGGGAAGCTCCAAA
**
39506586 GAG-CATTAATCAAGAAGCTCACAAA
1 GAGCCATTAATCGGGAAGCTC-CAAA
*
39506611 GAGCCTTTAATCGGGAAGCTCCAAA
1 GAGCCATTAATCGGGAAGCTCCAAA
*
39506636 GAGCCA-TATATCGAGAAGCT-CATAA
1 GAGCCATTA-ATCGGGAAGCTCCA-AA
39506661 GAGC
1 GAGC
39506665 TGCGATGTGT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.03
23 4 0.06
24 14 0.22
25 30 0.47
26 14 0.22
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (25 bp):
GAGCCATTAATCGGGAAGCTCCAAA
Found at i:39509261 original size:24 final size:23
Alignment explanation
Indices: 39509182--39509268 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
39509172 TTAGTGTTCA
**
39509182 TGAACATGTTCATTTAAC-TTAAT
1 TGAACATGTTCA-CGAACATTAAT
*
39509205 TGAACATGTTCACGAACATTAAA
1 TGAACATGTTCACGAACATTAAT
* * *
39509228 TGAACTTGTTCATGGACATATAAT
1 TGAACATGTTCACGAACAT-TAAT
39509252 TGAACATGTTCACGAAC
1 TGAACATGTTCACGAAC
39509269 CTTGTTAATA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 32 0.62
24 17 0.33
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCACGAACATTAAT
Found at i:39515328 original size:25 final size:25
Alignment explanation
Indices: 39515291--39515341 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
39515281 ACAGTAAACA
* * *
39515291 CGAATTATGTAGAAAGCCTTTGTGG
1 CGAATTATCTAGAAAACCCTTGTGG
*
39515316 CGAATTCTCTAGAAAACCCTTGTGG
1 CGAATTATCTAGAAAACCCTTGTGG
39515341 C
1 C
39515342 ACACTCGCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
CGAATTATCTAGAAAACCCTTGTGG
Found at i:39516599 original size:41 final size:41
Alignment explanation
Indices: 39516542--39516620 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
39516532 TATAGACATT
** * *
39516542 ACCTTTAGCGGTGCTTTCCCCACAAATGCTGCTAAAGAACA
1 ACCTTTAGCGACGCTTTCCCCAAAAACGCTGCTAAAGAACA
39516583 ACCTTTAGCGACGCTTTCCCCAAAAACGCTGCTAAAGA
1 ACCTTTAGCGACGCTTTCCCCAAAAACGCTGCTAAAGA
39516621 CCATATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (41 bp):
ACCTTTAGCGACGCTTTCCCCAAAAACGCTGCTAAAGAACA
Found at i:39521322 original size:20 final size:20
Alignment explanation
Indices: 39521297--39521335 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
39521287 TGGAGCATGA
*
39521297 ATATTGATACCTTAGGAAAT
1 ATATTGATACCTTAAGAAAT
39521317 ATATTGATACCTTAAGAAA
1 ATATTGATACCTTAAGAAA
39521336 AGTATCGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (20 bp):
ATATTGATACCTTAAGAAAT
Found at i:39522696 original size:21 final size:20
Alignment explanation
Indices: 39522671--39522721 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
39522661 TTTTTCCTAA
* *
39522671 GATGTGAATTGGATTGAATT
1 GATGTAAATTGGATTAAATT
*
39522691 GAATGTAAATTGTATTAAATT
1 G-ATGTAAATTGGATTAAATT
*
39522712 GATGTTAATT
1 GATGTAAATT
39522722 CATTCGTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (20 bp):
GATGTAAATTGGATTAAATT
Found at i:39523254 original size:24 final size:24
Alignment explanation
Indices: 39523153--39523305 Score: 105
Period size: 24 Copynumber: 6.2 Consensus size: 24
39523143 ACACACCGTA
*
39523153 GCTCTTAT-GAGCGTCCCGATATATG
1 GCTCTT-TGGAGCTTCCCGATA-ATG
* * *
39523178 GCTCTTCGTGAGCTTCCCAATTAAAG
1 GCTCTTTG-GAGCTTCCCGA-TAATG
** *
39523204 GCTCTTTGTGAGCTTTTCGTTAATG
1 GCTCTTTG-GAGCTTCCCGATAATG
*
39523229 GCTCTTTGGAGCTTCCCGATATTG
1 GCTCTTTGGAGCTTCCCGATAATG
*
39523253 GCT-TGTAT-GAGCTTCCCGTTAATG
1 GCTCT-T-TGGAGCTTCCCGATAATG
** *
39523277 GCTCTCCGGAGCTTCCCGTTACATG
1 GCTCTTTGGAGCTTCCCGATA-ATG
39523302 GCTC
1 GCTC
39523306 ACATGAACTT
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
23 1 0.01
24 46 0.45
25 27 0.26
26 26 0.25
27 2 0.02
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (24 bp):
GCTCTTTGGAGCTTCCCGATAATG
Found at i:39523273 original size:48 final size:50
Alignment explanation
Indices: 39523153--39523294 Score: 146
Period size: 48 Copynumber: 2.9 Consensus size: 50
39523143 ACACACCGTA
* * *
39523153 GCTCT-TATGAGCGTCCCGATATATGGCTCTTCGTGAGCTTCCCAATTAAAG
1 GCTCTGTATGAGCTTCCCGTTA-ATGGCTCTTCG-GAGCTTCCCGATTAAAG
* * ** * **
39523204 GCTCTTTGTGAGCTTTTCGTTAATGGCTCTTTGGAGCTTCCCGA-TATTG
1 GCTCTGTATGAGCTTCCCGTTAATGGCTCTTCGGAGCTTCCCGATTAAAG
*
39523253 GCT-TGTATGAGCTTCCCGTTAATGGCTCTCCGGAGCTTCCCG
1 GCTCTGTATGAGCTTCCCGTTAATGGCTCTTCGGAGCTTCCCG
39523295 TTACATGGCT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
48 33 0.44
49 6 0.08
50 10 0.13
51 15 0.20
52 11 0.15
ACGTcount: A:0.15, C:0.25, G:0.24, T:0.35
Consensus pattern (50 bp):
GCTCTGTATGAGCTTCCCGTTAATGGCTCTTCGGAGCTTCCCGATTAAAG
Found at i:39525741 original size:17 final size:18
Alignment explanation
Indices: 39525707--39525741 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39525697 AAATAAAATA
*
39525707 TTTAGAAATTTAATTATT
1 TTTACAAATTTAATTATT
39525725 TTTACAAATTT-ATTATT
1 TTTACAAATTTAATTATT
39525742 GAAGATGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTACAAATTTAATTATT
Found at i:39528907 original size:2 final size:2
Alignment explanation
Indices: 39528900--39528933 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
39528890 ACATGCACTC
*
39528900 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39528934 GAATGCATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39530513 original size:3 final size:3
Alignment explanation
Indices: 39530507--39530590 Score: 141
Period size: 3 Copynumber: 28.0 Consensus size: 3
39530497 CCCTTAACAG
39530507 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * *
39530555 AGA AGA AGA AGA AGT AGA AGA AGA AAA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
39530591 GACTATAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:39537087 original size:3 final size:3
Alignment explanation
Indices: 39537077--39537117 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
39537067 TTTTTTTCAG
* *
39537077 TCT T-T TCT TCT TCT TCT TCT TCT TCT TCT TAT TCT TTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
39537118 CTGTTAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:39537224 original size:20 final size:20
Alignment explanation
Indices: 39537199--39537238 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39537189 CAACGTGGCA
*
39537199 AGTTAACTGGCTACATCAGC
1 AGTTAACTGGCCACATCAGC
*
39537219 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
39537239 GGTCTCGTTA
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:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:39537338 original size:30 final size:31
Alignment explanation
Indices: 39537271--39537341 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
39537261 AAATTGTTAA
* *
39537271 TTAGTGACTGTTTTGTCACTTTTTTATAACG
1 TTAGTGACTGTTTTGTCACTTTTTCATAAAG
* *
39537302 TTAGTGATTGTTTTGTTA-TTTTTCA-AAAG
1 TTAGTGACTGTTTTGTCACTTTTTCATAAAG
39537331 TTGAGTGACTG
1 TT-AGTGACTG
39537342 AAATGAAACC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 5 0.15
30 13 0.38
31 16 0.47
ACGTcount: A:0.21, C:0.08, G:0.20, T:0.51
Consensus pattern (31 bp):
TTAGTGACTGTTTTGTCACTTTTTCATAAAG
Found at i:39538174 original size:18 final size:18
Alignment explanation
Indices: 39538143--39538177 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39538133 TTGTTTATAA
39538143 TTTAAAAAAATTAATTAT
1 TTTAAAAAAATTAATTAT
* *
39538161 TTTAAGAAATTTAATTA
1 TTTAAAAAAATTAATTA
39538178 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTAAAAAAATTAATTAT
Found at i:39539328 original size:17 final size:16
Alignment explanation
Indices: 39539283--39539328 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 16
39539273 CATTATAAAA
39539283 ATTAAAATACAAAT-T
1 ATTAAAATACAAATAT
*
39539298 -TTCAAATA-AAATAT
1 ATTAAAATACAAATAT
39539312 ATTAACAATACAAATAT
1 ATTAA-AATACAAATAT
39539329 TAGACTCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 3 0.12
16 4 0.16
17 6 0.24
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAAATACAAATAT
Found at i:39539330 original size:15 final size:14
Alignment explanation
Indices: 39539283--39539330 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
39539273 CATTATAAAA
39539283 ATTAAAATACAAAT
1 ATTAAAATACAAAT
* * *
39539297 TTTCAAATAAAATAT
1 ATTAAAATACAA-AT
39539312 ATTAACAATACAAAT
1 ATTAA-AATACAAAT
39539327 ATTA
1 ATTA
39539331 GACTCTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
14 9 0.35
15 11 0.42
16 6 0.23
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTAAAATACAAAT
Found at i:39546679 original size:27 final size:28
Alignment explanation
Indices: 39546608--39546681 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
39546598 AGAGTTTGCC
* *
39546608 ACAAAGGCTTCCCTTTTTAATAGATCGCT
1 ACAAAGGCTT-ACTTTTTAATAAATCGCT
* *
39546637 ACAAAAGGCTTTCTTTTT-ATAAATCGTT
1 AC-AAAGGCTTACTTTTTAATAAATCGCT
39546665 ACAAAGGCTTACTTTTT
1 ACAAAGGCTTACTTTTT
39546682 TGGTGTGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 14 0.35
28 10 0.25
29 8 0.20
30 8 0.20
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (28 bp):
ACAAAGGCTTACTTTTTAATAAATCGCT
Found at i:39546682 original size:28 final size:28
Alignment explanation
Indices: 39546608--39546682 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
39546598 AGAGTTTGCC
* * *
39546608 ACAAAGGCTTCCCTTTTTAATAGATCGCT
1 ACAAAGGCTT-ACTTTTTTATAAATCGCT
* *
39546637 ACAAAAGGCTTTC-TTTTTATAAATCGTT
1 AC-AAAGGCTTACTTTTTTATAAATCGCT
39546665 ACAAAGGCTTACTTTTTT
1 ACAAAGGCTTACTTTTTT
39546683 GGTGTGTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 9 0.23
28 19 0.49
29 3 0.08
30 8 0.21
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (28 bp):
ACAAAGGCTTACTTTTTTATAAATCGCT
Found at i:39550366 original size:41 final size:41
Alignment explanation
Indices: 39550319--39550483 Score: 201
Period size: 41 Copynumber: 4.0 Consensus size: 41
39550309 ATGCTATCAT
39550319 ATATCGATGCCAATAG-CCAG-CTATGATCTTACACGAATCTC
1 ATATCGATGCCAAT-GTCCAGAC-ATGATCTTACACGAATCTC
*
39550360 ATATCGATGCCAATGTCCAGACATGGTCTTACACGAATCTC
1 ATATCGATGCCAATGTCCAGACATGATCTTACACGAATCTC
* * *
39550401 ATATTGATGCCAATGTCCCAGACAT-AGTCTTACATGAATCAC
1 ATATCGATGCCAATGT-CCAGACATGA-TCTTACACGAATCTC
* *
39550443 ATAACGATGCCAATGTTCCAGACATGGTCTTACACGTAATC
1 ATATCGATGCCAATG-TCCAGACATGATCTTACACG-AATC
39550484 ATATCACAGT
Statistics
Matches: 108, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.01
41 51 0.47
42 51 0.47
43 5 0.05
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (41 bp):
ATATCGATGCCAATGTCCAGACATGATCTTACACGAATCTC
Found at i:39550440 original size:42 final size:41
Alignment explanation
Indices: 39550293--39550483 Score: 217
Period size: 42 Copynumber: 4.6 Consensus size: 41
39550283 ATGTCATATC
* * *
39550293 CCAGATATGGTCTTACATGCTATCAT-ATATCGATGCCAATAG-
1 CCAGACATGGTCTTACACG-AATC-TCATATCGATGCCAAT-GT
*
39550335 CCAG-CTATGATCTTACACGAATCTCATATCGATGCCAATGT
1 CCAGAC-ATGGTCTTACACGAATCTCATATCGATGCCAATGT
*
39550376 CCAGACATGGTCTTACACGAATCTCATATTGATGCCAATGT
1 CCAGACATGGTCTTACACGAATCTCATATCGATGCCAATGT
* * * *
39550417 CCCAGACATAGTCTTACATGAATCACATAACGATGCCAATGTT
1 -CCAGACATGGTCTTACACGAATCTCATATCGATGCCAATG-T
39550460 CCAGACATGGTCTTACACGTAATC
1 CCAGACATGGTCTTACACG-AATC
39550484 ATATCACAGT
Statistics
Matches: 129, Mismatches: 13, Indels: 13
0.83 0.08 0.08
Matches are distributed among these distances:
40 2 0.02
41 54 0.42
42 68 0.53
43 5 0.04
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (41 bp):
CCAGACATGGTCTTACACGAATCTCATATCGATGCCAATGT
Found at i:39553480 original size:72 final size:72
Alignment explanation
Indices: 39553297--39553520 Score: 286
Period size: 76 Copynumber: 3.0 Consensus size: 72
39553287 AAAACAATTT
* * * * * **
39553297 TTTTTGCATTTTTGGGTAAATTGTAAATAAGTTTATTATTGATTTAAAAATGCAATATGATACAA
1 TTTTT-CATTTTT-TGTAAATTGTAAATAAGTATATTATTAATGTAAAAATACAATACAATACAA
* *
39553362 TAAAAATAAA
64 TACAAA-CAA
* *
39553372 TTTTTTTATTTTTTTCGTAAATTGTAAATAAGTATATTATTAATGTAAAAATACAATACAACACA
1 -TTTTTCA-TTTTTT-GTAAATTGTAAATAAGTATATTATTAATGTAAAAATACAATACAATACA
39553437 ATACAAACAA
63 ATACAAACAA
39553447 TTTTTCATTTTTTGTAAATTGTAAATAAGTATATTATTAATGTAAAAATACAATACAATACAATA
1 TTTTTCATTTTTTGTAAATTGTAAATAAGTATATTATTAATGTAAAAATACAATACAATACAATA
39553512 CAATACAA
66 CAA-ACAA
39553520 T
1 T
39553521 ACAATACAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
72 54 0.41
73 11 0.08
74 6 0.05
75 3 0.02
76 58 0.44
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (72 bp):
TTTTTCATTTTTTGTAAATTGTAAATAAGTATATTATTAATGTAAAAATACAATACAATACAATA
CAAACAA
Found at i:39553503 original size:5 final size:5
Alignment explanation
Indices: 39553493--39553545 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
39553483 TTAATGTAAA
39553493 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
39553543 AAT
1 AAT
39553546 TTTTTTATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAC
Found at i:39554321 original size:167 final size:166
Alignment explanation
Indices: 39554040--39554368 Score: 604
Period size: 167 Copynumber: 2.0 Consensus size: 166
39554030 TAGTAAAAGC
* *
39554040 ACGAGAAAAATATGAAACATATTGATCGGGAAGTGGTGCACCCATCAGTATAGTATTTGGGGTTG
1 ACGAGAAAAATATAAAACATATTGATCGGGAAGTGGTGCACCCATCAGTATAGTATTTGGGGTCG
*
39554105 GAGTTAATGATGATGAACTTGACGTATGTACTCCCGATCGCGACCTCATCTGGGGTCATGTTGGG
66 GAGTTAATGATGATAAACTTGACGTATGTACTCCCGATCGCGACCTCATCTGGGGTCATGTTGGG
*
39554170 CTTCTACAATGAATTTTTCTACTCCTTTCCTCTTCT
131 CTTCTACAATGAATTTTTATACTCCTTTCCTCTTCT
*
39554206 ACGAGAAAAAATATAAAACATATTGATCGGGAAGTGGTGCACCCATCGGTATAGTATTTGGGGTC
1 ACGAG-AAAAATATAAAACATATTGATCGGGAAGTGGTGCACCCATCAGTATAGTATTTGGGGTC
39554271 GGAGTTAATGATGATAAACTTGACGTATGTACTCCCGATCGCGACCTCATCTGGGGTCATGTTGG
65 GGAGTTAATGATGATAAACTTGACGTATGTACTCCCGATCGCGACCTCATCTGGGGTCATGTTGG
39554336 GCTTCTACAATGAATTTTTATACTCCTTTCCTC
130 GCTTCTACAATGAATTTTTATACTCCTTTCCTC
39554369 CTCTGGCAGT
Statistics
Matches: 157, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
166 5 0.03
167 152 0.97
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (166 bp):
ACGAGAAAAATATAAAACATATTGATCGGGAAGTGGTGCACCCATCAGTATAGTATTTGGGGTCG
GAGTTAATGATGATAAACTTGACGTATGTACTCCCGATCGCGACCTCATCTGGGGTCATGTTGGG
CTTCTACAATGAATTTTTATACTCCTTTCCTCTTCT
Found at i:39557028 original size:18 final size:18
Alignment explanation
Indices: 39556992--39557028 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
39556982 TGTCAAAATC
*
39556992 ATAATAGTAATAGTTATA
1 ATAATAGTAATAGTAATA
*
39557010 ATAATAGTAATGGTAATA
1 ATAATAGTAATAGTAATA
39557028 A
1 A
39557029 CAAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (18 bp):
ATAATAGTAATAGTAATA
Found at i:39558426 original size:14 final size:14
Alignment explanation
Indices: 39558388--39558429 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
39558378 TCCTGATTGG
*
39558388 TTTATTGATTTACT
1 TTTATTGATTTATT
**
39558402 TCAATTG-TTTATT
1 TTTATTGATTTATT
39558415 TTTATTGATTTATT
1 TTTATTGATTTATT
39558429 T
1 T
39558430 ATTTTTATCT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTATTGATTTATT
Found at i:39559705 original size:35 final size:36
Alignment explanation
Indices: 39559666--39559737 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
39559656 TCTAGGATCA
* *
39559666 CATATCTCT-GATGATCACCTTCCATAATTGCCAAG
1 CATATCTCTGGAAGATCACCTTCCATAATTACCAAG
* * *
39559701 CATATCTTTGGAAGATCACTTTCCATATTTACCAAG
1 CATATCTCTGGAAGATCACCTTCCATAATTACCAAG
39559737 C
1 C
39559738 TCCGGAGATG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 8 0.26
36 23 0.74
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (36 bp):
CATATCTCTGGAAGATCACCTTCCATAATTACCAAG
Found at i:39564804 original size:36 final size:35
Alignment explanation
Indices: 39564756--39564825 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
39564746 CTAGGATCAT
*
39564756 ATATATTTGAAGATCACCTTCCATATTTGCCAAGC
1 ATATATTTGAAGATCACCTTCCATATTTACCAAGC
* *
39564791 ATATCTTTGGAAGATCACTTTCCATATTTACCAAG
1 ATATATTT-GAAGATCACCTTCCATATTTACCAAG
39564826 TTCTGGAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (35 bp):
ATATATTTGAAGATCACCTTCCATATTTACCAAGC
Found at i:39568465 original size:27 final size:27
Alignment explanation
Indices: 39568411--39568465 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
39568401 AGATTATTTT
* *
39568411 ATTTTTATCATCCTGACAGACCATCCC
1 ATTTTCATCATCCTGACAGACCACCCC
*
39568438 ATTTTCATCATCCT-AGCAGACTACCCC
1 ATTTTCATCATCCTGA-CAGACCACCCC
39568465 A
1 A
39568466 CATTTAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.27, C:0.35, G:0.07, T:0.31
Consensus pattern (27 bp):
ATTTTCATCATCCTGACAGACCACCCC
Found at i:39568515 original size:27 final size:27
Alignment explanation
Indices: 39568485--39568552 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
39568475 TCCTGGAAGG
*
39568485 CTACCCCGTTTTTATTC-TCCCGGTGGA
1 CTACCCCATTTTTA-TCGTCCCGGTGGA
*
39568512 CTACCCCATTTTTATCGTCCTGGTGGA
1 CTACCCCATTTTTATCGTCCCGGTGGA
*
39568539 CTACCCCACTTTTA
1 CTACCCCATTTTTA
39568553 ATGTCTCGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.15, C:0.34, G:0.15, T:0.37
Consensus pattern (27 bp):
CTACCCCATTTTTATCGTCCCGGTGGA
Found at i:39571378 original size:51 final size:51
Alignment explanation
Indices: 39571298--39571445 Score: 146
Period size: 50 Copynumber: 2.9 Consensus size: 51
39571288 AAATGCATGG
* * * *
39571298 TTTAAGATGCAAAC-TAAATGAACAAATGAGTTA-ATTAATGCATGACTTA-AA
1 TTTATGATGCAAACTTAACT-AACATA-GAGTTACATTAATGCATGA-TAATAA
*
39571349 TTTAATGATGCAAACTTCAACTAACATGAGAGTTACATAAAT-CATG-TAATAA
1 TTT-ATGATGCAAACTT-AACTAACAT-AGAGTTACATTAATGCATGATAATAA
39571401 TTTATGATGCAAACTTAACTAACATGAGAGTTACA-TAATGCATGA
1 TTTATGATGCAAACTTAACTAACAT-AGAGTTACATTAATGCATGA
39571446 ATTTATTTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
49 3 0.04
50 23 0.28
51 18 0.22
52 15 0.18
53 15 0.18
54 9 0.11
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (51 bp):
TTTATGATGCAAACTTAACTAACATAGAGTTACATTAATGCATGATAATAA
Found at i:39571454 original size:50 final size:51
Alignment explanation
Indices: 39571325--39571461 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 51
39571315 ATGAACAAAT
*
39571325 GAGTTA-ATTAATGCATGACTTAAATTTAATGATGCAAACTTCAACTAACATGA
1 GAGTTACA-TAATGCATGAATT-AATTT-ATGATGCAAACTTCAACTAACATGA
39571378 GAGTTACATAAAT-CATGTAA-TAATTTATGATGCAAACTT-AACTAACATGA
1 GAGTTACAT-AATGCATG-AATTAATTTATGATGCAAACTTCAACTAACATGA
*
39571428 GAGTTACATAATGCATGAATTTATTTA--ATGCAAA
1 GAGTTACATAATGCATGAATTAATTTATGATGCAAA
39571462 ACACATAATT
Statistics
Matches: 77, Mismatches: 2, Indels: 15
0.82 0.02 0.16
Matches are distributed among these distances:
48 7 0.09
49 5 0.06
50 30 0.39
51 13 0.17
52 5 0.06
53 12 0.16
54 5 0.06
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (51 bp):
GAGTTACATAATGCATGAATTAATTTATGATGCAAACTTCAACTAACATGA
Found at i:39575134 original size:23 final size:23
Alignment explanation
Indices: 39575108--39575173 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
39575098 ATGCCATAGA
39575108 ATCTTTTAGCTATGGTCTTACCC
1 ATCTTTTAGCTATGGTCTTACCC
* * *
39575131 ATC-TTTATC-ATGATGTCATA-GC
1 ATCTTTTAGCTATG--GTCTTACCC
39575153 ATCTTTTAGCTATGGTCTTAC
1 ATCTTTTAGCTATGGTCTTAC
39575174 ACATTTCTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
21 3 0.09
22 14 0.42
23 13 0.39
24 3 0.09
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (23 bp):
ATCTTTTAGCTATGGTCTTACCC
Found at i:39575159 original size:45 final size:46
Alignment explanation
Indices: 39575002--39575182 Score: 204
Period size: 46 Copynumber: 4.0 Consensus size: 46
39574992 CGTGATTTTA
* * *
39575002 CATGATGCTATAGCACCTTTCAACTATGGTCTTACTCATATTCTAC
1 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATATTCTAT
* *
39575048 CATGATGCCATAGCATCTTTCAACTACGGTCTTACTCATTTTCTAT
1 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATATTCTAT
* * * * * * *
39575094 TATTATGCCATAGAATCTTTTAGCTATGGTCTTACCCATCTT-TAT
1 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATATTCTAT
* * * *
39575139 CATGATGTCATAGCATCTTTTAGCTATGGTCTTACACAT-TTCTA
1 CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATATTCTA
39575183 GACGTATAGC
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
44 2 0.02
45 39 0.34
46 75 0.65
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (46 bp):
CATGATGCCATAGCATCTTTCAACTATGGTCTTACTCATATTCTAT
Found at i:39579840 original size:14 final size:15
Alignment explanation
Indices: 39579821--39579849 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39579811 AATATTTATT
39579821 AACATTATAT-ATAA
1 AACATTATATGATAA
39579835 AACATTATATGATAA
1 AACATTATATGATAA
39579850 TTTAGTCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
AACATTATATGATAA
Found at i:39580500 original size:112 final size:112
Alignment explanation
Indices: 39580361--39580589 Score: 424
Period size: 112 Copynumber: 2.0 Consensus size: 112
39580351 TTACGAATTG
*
39580361 ACCCTCGGGCTAGCTAAATTAAGGTAAAACGAACTCAA-AAGCATAAAAAATACTAAAAACGCGG
1 ACCCTCGGGCTAGCTAAATTAAGGTAAAACAAACTCAATAA-CATAAAAAATACTAAAAACGCGG
*
39580425 CAACATTACGTACCATGCATACAAGACAAAGCGTTGTCGAAACTTCAC
65 CAACATTACGTACCATGCATACAAGACAAAGCGTTGCCGAAACTTCAC
39580473 ACCCTCGGGCTAGCTAAATTAAGGTAAAACAAACTCAATAACATAAAAAATACTAAAAACGCGGC
1 ACCCTCGGGCTAGCTAAATTAAGGTAAAACAAACTCAATAACATAAAAAATACTAAAAACGCGGC
39580538 AACATTACGTACCATGCATACAAGACAAAGCGTTGCCGAAACTTCAC
66 AACATTACGTACCATGCATACAAGACAAAGCGTTGCCGAAACTTCAC
39580585 ACCCT
1 ACCCT
39580590 TAGCTATGGA
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
112 112 0.98
113 2 0.02
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (112 bp):
ACCCTCGGGCTAGCTAAATTAAGGTAAAACAAACTCAATAACATAAAAAATACTAAAAACGCGGC
AACATTACGTACCATGCATACAAGACAAAGCGTTGCCGAAACTTCAC
Found at i:39585689 original size:45 final size:46
Alignment explanation
Indices: 39585584--39585703 Score: 172
Period size: 45 Copynumber: 2.7 Consensus size: 46
39585574 TGCCATGGTG
39585584 TCTTTCAGCTATGGTCTAACTCATCTTCTATCATGATGCCATAACA
1 TCTTTCAGCTATGGTCTAACTCATCTTCTATCATGATGCCATAACA
* ** * * *
39585630 TCTTTTAGAAATGGTCTTACTCATCTT-TATTATGATGCCATACCA
1 TCTTTCAGCTATGGTCTAACTCATCTTCTATCATGATGCCATAACA
39585675 TCTTTCAGCTATGGTCTAACTCAT-TTCTA
1 TCTTTCAGCTATGGTCTAACTCATCTTCTA
39585704 GGCGTATAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.03
45 38 0.60
46 23 0.37
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (46 bp):
TCTTTCAGCTATGGTCTAACTCATCTTCTATCATGATGCCATAACA
Found at i:39589355 original size:27 final size:27
Alignment explanation
Indices: 39589325--39589384 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
39589315 ACATGTTACT
* * *
39589325 GTCCCAATTGTCTACCGCGTGTTTAGC
1 GTCCCAATGGACTACCCCGTGTTTAGC
* *
39589352 GTCCCAGTGGACTACCCCGTGTTTAGT
1 GTCCCAATGGACTACCCCGTGTTTAGC
39589379 GTCCCA
1 GTCCCA
39589385 GCGGACTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.30
Consensus pattern (27 bp):
GTCCCAATGGACTACCCCGTGTTTAGC
Found at i:39589385 original size:27 final size:27
Alignment explanation
Indices: 39589336--39589410 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
39589326 TCCCAATTGT
* * *
39589336 CTACCGCGTGTTTAGCGTCCCAGTGGA
1 CTACCCCGTGTTTAGTGTCCCAGCGGA
39589363 CTACCCCGTGTTTAGTGTCCCAGCGGA
1 CTACCCCGTGTTTAGTGTCCCAGCGGA
** * *
39589390 CTATTCCATCTTTAGTGTCCC
1 CTACCCCGTGTTTAGTGTCCC
39589411 GATGAACTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.15, C:0.32, G:0.23, T:0.31
Consensus pattern (27 bp):
CTACCCCGTGTTTAGTGTCCCAGCGGA
Found at i:39589562 original size:46 final size:45
Alignment explanation
Indices: 39589495--39589664 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 45
39589485 TCATGGATAC
* * *
39589495 CATAACGTCTTTCAACAATGGTCTTACTCATTTTCTACCATGATG
1 CATAACATCTTTCAACTATGGTCTTACTCATTTTCTATCATGATG
* * *
39589540 TCATAACATCTTTCAGCTATGGTATTACTCATTTTCTATTATGATG
1 -CATAACATCTTTCAACTATGGTCTTACTCATTTTCTATCATGATG
* * *
39589586 CAATAACATCTTTTAACTATGTTCTTACTCATCTT-TATCATGATG
1 C-ATAACATCTTTCAACTATGGTCTTACTCATTTTCTATCATGATG
* * *
39589631 CCATAGCATTTTTCAGCTATGGTCTTACTCATTT
1 -CATAACATCTTTCAACTATGGTCTTACTCATTT
39589665 CTAGGCGTAT
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
45 36 0.35
46 68 0.65
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (45 bp):
CATAACATCTTTCAACTATGGTCTTACTCATTTTCTATCATGATG
Found at i:39589653 original size:91 final size:92
Alignment explanation
Indices: 39589496--39589664 Score: 241
Period size: 91 Copynumber: 1.8 Consensus size: 92
39589486 CATGGATACC
* * *
39589496 ATAACGTCTTTCAACAATGGTCTTACTCATTTTCTACCATGATGTCATAACATCTTTCAGCTATG
1 ATAACATCTTTCAACAATGGTCTTACTCATCTTCTACCATGATGCCATAACATCTTTCAGCTATG
39589561 GTATTACTCATTTTCTATTATGATGCA
66 GTATTACTCATTTTCTATTATGATGCA
* * * * * *
39589588 ATAACATCTTTTAACTATGTTCTTACTCATCTT-TATCATGATGCCATAGCATTTTTCAGCTATG
1 ATAACATCTTTCAACAATGGTCTTACTCATCTTCTACCATGATGCCATAACATCTTTCAGCTATG
*
39589652 GTCTTACTCATTT
66 GTATTACTCATTT
39589665 CTAGGCGTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
91 39 0.58
92 28 0.42
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (92 bp):
ATAACATCTTTCAACAATGGTCTTACTCATCTTCTACCATGATGCCATAACATCTTTCAGCTATG
GTATTACTCATTTTCTATTATGATGCA
Found at i:39593963 original size:28 final size:28
Alignment explanation
Indices: 39593931--39593990 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
39593921 TTTGAACACA
39593931 TATTCTCTTTTTAAATTGTAATATATCT
1 TATTCTCTTTTTAAATTGTAATATATCT
39593959 TATTCTCTTTTTAAATTGTAATATATCT
1 TATTCTCTTTTTAAATTGTAATATATCT
39593987 TATT
1 TATT
39593991 AGTATACTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.58
Consensus pattern (28 bp):
TATTCTCTTTTTAAATTGTAATATATCT
Found at i:39596666 original size:109 final size:109
Alignment explanation
Indices: 39596499--39596901 Score: 675
Period size: 109 Copynumber: 3.7 Consensus size: 109
39596489 GTCAATCGAG
* * *
39596499 AAATCGAAACCCAGCACATTAGGGCATG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
39596563 TTGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
39596607 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCATATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
39596672 TTGAAATTTTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAA--TTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
39596718 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACTCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
39596783 TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
39596827 AAATCGACACCCAGTACCTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTA-T
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
39596891 TTGAAATTTTT
66 TTGAAATTTTT
39596902 TTTCGTTTTT
Statistics
Matches: 277, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
108 37 0.13
109 137 0.49
111 103 0.37
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:39596904 original size:220 final size:219
Alignment explanation
Indices: 39596499--39596903 Score: 695
Period size: 220 Copynumber: 1.8 Consensus size: 219
39596489 GTCAATCGAG
*
39596499 AAATCGAAACCCAGCACATTAGGGCATGTTCCTCGAATTTCCAAACGCAAAACATTGCCTTATTT
1 AAATCGAAACCCAGCACATTAGGGCATGTTCCTCAAATTTCCAAACGCAAAACATTGCCTTATTT
* * *
39596564 TGAAATTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAG
66 TAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
*
39596629 GGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTTTAAAAGGATA
131 GGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTTTAAAAGGATA
39596694 TTAAGCCATTTGGTTGAACGAGAA
196 TTAAGCCATTTGGTTGAACGAGAA
* * * *
39596718 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACTCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACATTAGGGCATG-TTCCTCAAATTTCCAAACGCAAAACATTGCCTTATT
*
39596783 TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTA
65 TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTA
*
39596848 GGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTGAAATTTTTTT
130 GGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTTT
39596904 TCGTTTTTGA
Statistics
Matches: 174, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
219 40 0.23
220 134 0.77
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (219 bp):
AAATCGAAACCCAGCACATTAGGGCATGTTCCTCAAATTTCCAAACGCAAAACATTGCCTTATTT
TAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAG
GGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCATATTTTGAAATTTTTTTAAAAGGATA
TTAAGCCATTTGGTTGAACGAGAA
Found at i:39597044 original size:18 final size:17
Alignment explanation
Indices: 39597013--39597051 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
39597003 ATATATAATG
*
39597013 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
39597030 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
39597048 AAAA
1 AAAA
39597052 AATTAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:39597395 original size:3 final size:3
Alignment explanation
Indices: 39597387--39597412 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
39597377 AATAAGTAGG
39597387 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
39597413 CTAGAATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:39598903 original size:50 final size:50
Alignment explanation
Indices: 39598836--39599359 Score: 408
Period size: 50 Copynumber: 10.5 Consensus size: 50
39598826 TAGGAAAAGC
* * * *
39598836 AAGATTCACCATCGTAGCTTCAATTTGTTCCACTGCATCGCTAGGGAGGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGT
* * ** *
39598886 AAGATTCGCTGTTGTAGCTTCAATCTATTTGACTGCAAT-G-TCGGGGAAGG-
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGC-ATCGCT-AGGG-AGGT
** *
39598936 AAGATTCGTCGTTGTAACTTCAATCTATTCCACTGCATCGCTAGGGAGGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGT
* * ** *
39598986 GAGATTCACTGTTGTAGCTTCAATCTATTTGACTGCAAT-G-TCGGGGAAGG-
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGC-ATCGCT-AGGG-AGGT
* *
39599036 AAGATTCACCGTTGTAGCTTGAATCTATTCCACTGCATCGCCAGGGAGGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGT
* * * *
39599086 GAGATTCACTGTTGTAGCTTCAATCTATTCCATTGCATCGCCAGGGAGGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGT
* ** * * ** *
39599136 GAGATTTGCCATTGTGGCTTCAATCTATTTGACTGCAAT-G-TCGGGGAAGG-
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGC-ATCGCT-AGGG-AGGT
* * *
39599186 AAGACTCACCGTTGTAGCTTCAATCTATTCCGCTGCATCGCCT-GGGAAGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCG-CTAGGGAGGT
* * ** * * * *
39599236 AAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAAT-GTTGGGGAAGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGC-ATCGCTAGGGAGGT
* * * *
39599286 GAGATTCACCGTCGTAGCTTCAATCTATTCCGCTGCATCGCCT-GGGAAGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCG-CTAGGGAGGT
* *
39599336 AAGATTCGCCATTGT-GACTTCAAT
1 AAGATTCACCGTTGTAG-CTTCAAT
39599360 ATTTTAAATT
Statistics
Matches: 375, Mismatches: 75, Indels: 48
0.75 0.15 0.10
Matches are distributed among these distances:
49 20 0.05
50 335 0.89
51 19 0.05
52 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (50 bp):
AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGT
Found at i:39599141 original size:100 final size:100
Alignment explanation
Indices: 39598836--39599359 Score: 472
Period size: 100 Copynumber: 5.2 Consensus size: 100
39598826 TAGGAAAAGC
* * * * * *
39598836 AAGATTCACCATCGTAGCTTCAATTTGTTCCACTGCATCGCTAGGGAGGTAAGATTCGCTGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGTGAGATTCACTGTTGT
** *
39598901 AGCTTCAATCTATTTGACTGCAAT-GTCGGGGAAGG-
66 AGCTTCAATCTATTCCACTGC-ATCGCCGGGG-AGGT
** *
39598936 AAGATTCGTCGTTGTAACTTCAATCTATTCCACTGCATCGCTAGGGAGGTGAGATTCACTGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGTGAGATTCACTGTTGT
** *
39599001 AGCTTCAATCTATTTGACTGCAAT-GTCGGGGAAGG-
66 AGCTTCAATCTATTCCACTGC-ATCGCCGGGG-AGGT
* *
39599036 AAGATTCACCGTTGTAGCTTGAATCTATTCCACTGCATCGCCAGGGAGGTGAGATTCACTGTTGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGTGAGATTCACTGTTGT
* *
39599101 AGCTTCAATCTATTCCATTGCATCGCCAGGGAGGT
66 AGCTTCAATCTATTCCACTGCATCGCCGGGGAGGT
* ** * * ** * * * *
39599136 GAGATTTGCCATTGTGGCTTCAATCTATTTGACTGCAAT-G-TCGGGGAAGG-AAGACTCACCGT
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGC-ATCGCT-AGGG-AGGTGAGATTCACTGT
* * *
39599198 TGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGT
63 TGTAGCTTCAATCTATTCCACTGCATCGCCGGGGAGGT
* * ** * * * * * *
39599236 AAGATTCACCGTTGTGGCTTCAATCTTTTGAATTGCAAT-GTTGGGGAAGTGAGATTCACCGTCG
1 AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGC-ATCGCTAGGGAGGTGAGATTCACTGTTG
* * *
39599300 TAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGT
65 TAGCTTCAATCTATTCCACTGCATCGCCGGGGAGGT
* *
39599336 AAGATTCGCCATTGT-GACTTCAAT
1 AAGATTCACCGTTGTAG-CTTCAAT
39599360 ATTTTAAATT
Statistics
Matches: 366, Mismatches: 50, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
99 8 0.02
100 352 0.96
101 6 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (100 bp):
AAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCATCGCTAGGGAGGTGAGATTCACTGTTGT
AGCTTCAATCTATTCCACTGCATCGCCGGGGAGGT
Found at i:39599322 original size:150 final size:150
Alignment explanation
Indices: 39598896--39599314 Score: 518
Period size: 150 Copynumber: 2.8 Consensus size: 150
39598886 AAGATTCGCT
** * * * ** *
39598896 GTTGTAGCTTCAATCTATTTGACTGCAAT-GTCGGGGAAGGAAGATTCGTCGTTGTAACTTCAAT
1 GTTGTAGCTTCAATCTATTCCACTGC-ATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAAT
* * * *
39598960 CTATTCCACTGCATCGCTAGGGAGGTGAGATTCACTGTTGTAGCTTCAATCTATTTGACTGCAAT
65 CTATTCAATTGCATCGCCAGGGAGGTGAGATTCACCGTTGTAGCTTCAATCTATTTGACTGCAAT
*
39599025 GTCGGGGAAGGAAGATTCACC
130 GTCGGGGAAGGAAGACTCACC
* * * *
39599046 GTTGTAGCTTGAATCTATTCCACTGCATCGCCAGGGAGGTGAGATTCACTGTTGTAGCTTCAATC
1 GTTGTAGCTTCAATCTATTCCACTGCATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATC
* ** * *
39599111 TATTCCATTGCATCGCCAGGGAGGTGAGATTTGCCATTGTGGCTTCAATCTATTTGACTGCAATG
66 TATTCAATTGCATCGCCAGGGAGGTGAGATTCACCGTTGTAGCTTCAATCTATTTGACTGCAATG
39599176 TCGGGGAAGGAAGACTCACC
131 TCGGGGAAGGAAGACTCACC
* * *
39599196 GTTGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATC
1 GTTGTAGCTTCAATCTATTCCACTGCATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATC
* * *** * *
39599261 TTTTGAATTGCAAT-GTTGGGGAAGTGAGATTCACCGTCGTAGCTTCAATCTATT
66 TATTCAATTGC-ATCGCCAGGGAGGTGAGATTCACCGTTGTAGCTTCAATCTATT
39599315 CCGCTGCATC
Statistics
Matches: 228, Mismatches: 39, Indels: 4
0.84 0.14 0.01
Matches are distributed among these distances:
149 2 0.01
150 224 0.98
151 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (150 bp):
GTTGTAGCTTCAATCTATTCCACTGCATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATC
TATTCAATTGCATCGCCAGGGAGGTGAGATTCACCGTTGTAGCTTCAATCTATTTGACTGCAATG
TCGGGGAAGGAAGACTCACC
Found at i:39599359 original size:150 final size:150
Alignment explanation
Indices: 39598837--39599315 Score: 493
Period size: 150 Copynumber: 3.2 Consensus size: 150
39598827 AGGAAAAGCA
* * * * * *
39598837 AGATTCACCATCGTAGCTTCAATTTGTTCCACTGC-ATCG-CTAGGG-AGGTAAGATTCGCTGTT
1 AGATTCACCATCGTAGCTTCAATCTATTCGACTGCAAT-GTC-GGGGAAGG-AAGATTCACCGTT
* * * * ** *
39598899 GTAGCTTCAATCTATT-TGACTGCAAT-GTCGGGGAAGGAAGATTCGTCGTTGTAACTTCAATCT
63 GTAGCTTCAATCTATTCCG-CTGC-ATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
* * *
39598962 ATTCCACTGCATCGCTAGGGAGGTG
126 ATTCAATTGCATCGCTAGGGAAGTG
** * *
39598987 AGATTCACTGTTGTAGCTTCAATCTATTTGACTGCAATGTCGGGGAAGGAAGATTCACCGTTGTA
1 AGATTCACCATCGTAGCTTCAATCTATTCGACTGCAATGTCGGGGAAGGAAGATTCACCGTTGTA
* * * * * *
39599052 GCTTGAATCTATTCCACTGCATCGCCAGGGAGGTGAGATTCACTGTTGTAGCTTCAATCTATTCC
66 GCTTCAATCTATTCCGCTGCATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCA
* *
39599117 ATTGCATCGCCAGGGAGGTG
131 ATTGCATCGCTAGGGAAGTG
** * * * *
39599137 AGATTTGCCATTGTGGCTTCAATCTATTTGACTGCAATGTCGGGGAAGGAAGACTCACCGTTGTA
1 AGATTCACCATCGTAGCTTCAATCTATTCGACTGCAATGTCGGGGAAGGAAGATTCACCGTTGTA
* * * *
39599202 GCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTGA
66 GCTTCAATCTATTCCGCTGCATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCA
* *
39599267 ATTGCAAT-GTTGGGGAAGTG
131 ATTGC-ATCGCTAGGGAAGTG
*
39599287 AGATTCACCGTCGTAGCTTCAATCTATTC
1 AGATTCACCATCGTAGCTTCAATCTATTC
39599316 CGCTGCATCG
Statistics
Matches: 273, Mismatches: 50, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
149 2 0.01
150 263 0.96
151 8 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (150 bp):
AGATTCACCATCGTAGCTTCAATCTATTCGACTGCAATGTCGGGGAAGGAAGATTCACCGTTGTA
GCTTCAATCTATTCCGCTGCATCGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTCA
ATTGCATCGCTAGGGAAGTG
Found at i:39611374 original size:111 final size:110
Alignment explanation
Indices: 39611144--39611441 Score: 449
Period size: 111 Copynumber: 2.7 Consensus size: 110
39611134 GTCAATCGAG
* * * * *
39611144 AAATCGAAACTCAGCACATTAGGGCATG-TTCCTCGAATTTCCAAACGCAAAACATTGTCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
39611208 TTGAAA-TTTTTAAAAAGATATTTAGCCATTTGGTTGAATGAGAA
66 TTGAAATTTTTTAAAAAGATATTAAGCCACTTGGTTGAACGAGAA
*
39611252 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCATATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
39611317 TTGAAATTTTTTTAAAAGGATATTAAGCCACTTGGTTGAACGAGAA
66 TTGAAA-TTTTTTAAAAAGATATTAAGCCACTTGGTTGAACGAGAA
*
39611363 AAATCGGCACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTA-T
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
39611427 TTGAAAAATTTTTTA
66 TTG--AAATTTTTTA
39611442 GTTTTTGATA
Statistics
Matches: 173, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
108 25 0.14
109 39 0.23
110 4 0.02
111 102 0.59
112 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTTAAAAAGATATTAAGCCACTTGGTTGAACGAGAA
Found at i:39611580 original size:18 final size:17
Alignment explanation
Indices: 39611549--39611587 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
39611539 ATATATAATG
*
39611549 AAAAGAAATCAACAAAT
1 AAAAGAAATAAACAAAT
39611566 AAAAGTAAATAAACAAAT
1 AAAAG-AAATAAACAAAT
39611584 AAAA
1 AAAA
39611588 AATTAAAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAGAAATAAACAAAT
Found at i:39611930 original size:3 final size:3
Alignment explanation
Indices: 39611922--39611974 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
39611912 AATAAGTAGG
39611922 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
39611970 TAA TA
1 TAA TA
39611975 CTAGAATATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:39614705 original size:18 final size:18
Alignment explanation
Indices: 39614678--39614712 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39614668 ATTTTGAGAA
* *
39614678 TTTATTTATTGTTTTGCT
1 TTTATATATTATTTTGCT
39614696 TTTATATATTATTTTGC
1 TTTATATATTATTTTGC
39614713 AGCTATTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.06, G:0.09, T:0.69
Consensus pattern (18 bp):
TTTATATATTATTTTGCT
Found at i:39622296 original size:19 final size:18
Alignment explanation
Indices: 39622248--39622300 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
39622238 AATCGTGTCG
39622248 TTCATTTCCAAAACATTA
1 TTCATTTCCAAAACATTA
* * *
39622266 TTCATTTACAAATCGTTA
1 TTCATTTCCAAAACATTA
39622284 TTCAATTTCC-AAACATT
1 TTC-ATTTCCAAAACATT
39622301 TTTTTATTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.42
Consensus pattern (18 bp):
TTCATTTCCAAAACATTA
Found at i:39628706 original size:19 final size:18
Alignment explanation
Indices: 39628658--39628710 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
39628648 AATCGTGTCT
39628658 TTCATTTCCAAAACATTA
1 TTCATTTCCAAAACATTA
* * *
39628676 TTCATTTACAAATCGTTA
1 TTCATTTCCAAAACATTA
39628694 TTCAATTTCC-AAACATT
1 TTC-ATTTCCAAAACATT
39628711 TTTTTATTGC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.36, C:0.21, G:0.02, T:0.42
Consensus pattern (18 bp):
TTCATTTCCAAAACATTA
Found at i:39629680 original size:17 final size:18
Alignment explanation
Indices: 39629648--39629682 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
39629638 CCATGATGTT
39629648 CGCCCGTGTAGGCCCACA
1 CGCCCGTGTAGGCCCACA
39629666 CGCCCGTGT-GGCCCACA
1 CGCCCGTGTAGGCCCACA
39629683 TGGTCTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.14, C:0.46, G:0.29, T:0.11
Consensus pattern (18 bp):
CGCCCGTGTAGGCCCACA
Found at i:39636550 original size:16 final size:17
Alignment explanation
Indices: 39636516--39636558 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
39636506 TCATAACATT
39636516 AAAAATATATTTAAGTTA
1 AAAAATAT-TTTAAGTTA
*
39636534 AAAAATATTTTTA-TTA
1 AAAAATATTTTAAGTTA
*
39636550 AAATATATT
1 AAAAATATT
39636559 AATAACAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 11 0.48
17 4 0.17
18 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAAATATTTTAAGTTA
Found at i:39639236 original size:17 final size:18
Alignment explanation
Indices: 39639205--39639238 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39639195 AATTTAAATT
*
39639205 TAAAGTATTTTATTTTTG
1 TAAAGTATTTAATTTTTG
39639223 TAAA-TATTTAATTTTT
1 TAAAGTATTTAATTTTT
39639239 TTGTCGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
TAAAGTATTTAATTTTTG
Found at i:39641052 original size:18 final size:18
Alignment explanation
Indices: 39641031--39641095 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
39641021 TTACCTGTAT
*
39641031 CTTCTTCCTCCA-CTGTGC
1 CTTCTTCCT-CATCTGCGC
* *
39641049 CTTCTTTCTCATTTGCGC
1 CTTCTTCCTCATCTGCGC
*
39641067 CTTCTTCCTCATCTACGC
1 CTTCTTCCTCATCTGCGC
39641085 CTTCTTCCTCA
1 CTTCTTCCTCA
39641096 CCTATGCCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
17 2 0.05
18 38 0.95
ACGTcount: A:0.08, C:0.42, G:0.08, T:0.43
Consensus pattern (18 bp):
CTTCTTCCTCATCTGCGC
Found at i:39641104 original size:18 final size:18
Alignment explanation
Indices: 39641064--39641106 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
39641054 TTCTCATTTG
*
39641064 CGCCTTCTTCCTCATCTA
1 CGCCTTCTTCCTCACCTA
39641082 CGCCTTCTTCCTCACCTA
1 CGCCTTCTTCCTCACCTA
*
39641100 TGCCTTC
1 CGCCTTC
39641107 ATTGTCACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.09, C:0.47, G:0.07, T:0.37
Consensus pattern (18 bp):
CGCCTTCTTCCTCACCTA
Found at i:39646502 original size:10 final size:10
Alignment explanation
Indices: 39646474--39646532 Score: 59
Period size: 10 Copynumber: 6.1 Consensus size: 10
39646464 AATCTTATTT
*
39646474 TTTAAAAAAA
1 TTTATAAAAA
* *
39646484 ATTAAAAAAA
1 TTTATAAAAA
39646494 TTTAT-AAAA
1 TTTATAAAAA
*
39646503 TTT-TAAAAC
1 TTTATAAAAA
*
39646512 GTTATAAAAA
1 TTTATAAAAA
39646522 TTTATAAAAA
1 TTTATAAAAA
39646532 T
1 T
39646533 ATTAAATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 1 0.03
9 12 0.30
10 27 0.68
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:39646510 original size:18 final size:20
Alignment explanation
Indices: 39646474--39646532 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
39646464 AATCTTATTT
* * *
39646474 TTTAAAAAAAATTAAAAAAA
1 TTTATAAAAATTTATAAAAA
*
39646494 TTTAT-AAAATTT-TAAAAC
1 TTTATAAAAATTTATAAAAA
*
39646512 GTTATAAAAATTTATAAAAA
1 TTTATAAAAATTTATAAAAA
39646532 T
1 T
39646533 ATTAAATAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 8 0.27
19 13 0.43
20 9 0.30
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TTTATAAAAATTTATAAAAA
Found at i:39647691 original size:19 final size:21
Alignment explanation
Indices: 39647661--39647703 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
39647651 TAACTCTTAC
39647661 TTATTGTAAAAAGTTAAA-TA
1 TTATTGTAAAAAGTTAAATTA
*
39647681 TTATT-TAAAAATTTAAATTA
1 TTATTGTAAAAAGTTAAATTA
39647701 TTA
1 TTA
39647704 ATGATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
TTATTGTAAAAAGTTAAATTA
Found at i:39662194 original size:21 final size:21
Alignment explanation
Indices: 39662170--39662229 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
39662160 TTCTATTAAA
*
39662170 CTCTTATGAGTTTCTGTTCAG
1 CTCTTATGAGCTTCTGTTCAG
39662191 CTCTT-TCGAGCTTCTGTTCAG
1 CTCTTAT-GAGCTTCTGTTCAG
*
39662212 CTCTTATGAACTTCTGTT
1 CTCTTATGAGCTTCTGTT
39662230 GACGATTTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAG
Found at i:39665437 original size:20 final size:20
Alignment explanation
Indices: 39665346--39665437 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
39665336 GTACGAGATT
* *
39665346 TGCACTTCGGTGCCTCTGTA
1 TGCACTTCGGTGCCCCTGTC
* *
39665366 TACACTTCGGTGTCCCTGTC
1 TGCACTTCGGTGCCCCTGTC
* * *
39665386 -ACACTAT-GGTGCCCCTATT
1 TGCACT-TCGGTGCCCCTGTC
* *
39665405 TGTACATT-TGTGCCCCTGTC
1 TGCAC-TTCGGTGCCCCTGTC
39665425 TGCACTTCGGTGC
1 TGCACTTCGGTGC
39665438 TCTTTTTATG
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 16 0.30
20 37 0.69
21 1 0.02
ACGTcount: A:0.12, C:0.32, G:0.22, T:0.35
Consensus pattern (20 bp):
TGCACTTCGGTGCCCCTGTC
Found at i:39684210 original size:10 final size:10
Alignment explanation
Indices: 39684195--39684220 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
39684185 TTCGGTAAGT
39684195 GTTTCTCTTC
1 GTTTCTCTTC
39684205 GTTTCTCTTC
1 GTTTCTCTTC
39684215 GTTTCT
1 GTTTCT
39684221 ATCATAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.12, T:0.62
Consensus pattern (10 bp):
GTTTCTCTTC
Found at i:39690172 original size:26 final size:26
Alignment explanation
Indices: 39690103--39690183 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
39690093 TGGAGGAAGT
* * * *
39690103 ATACTGTTACTAGCAACTTTGTTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
39690129 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
39690155 ATACTATTAC-GGTTAGCTTTGCTGCG
1 ATACTATTACTGG-CAGCTTTGCTGCG
39690181 ATA
1 ATA
39690184 TTGGTGTGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
25 2 0.04
26 47 0.96
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:39700682 original size:22 final size:24
Alignment explanation
Indices: 39700654--39700704 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
39700644 CATCTATTTT
39700654 CATTTATTGT-TTT-TTT-TATGTC
1 CATTTA-TGTATTTATTTATATGTC
39700676 CATTTATGTATTTATTTATATGTC
1 CATTTATGTATTTATTTATATGTC
39700700 CATTT
1 CATTT
39700705 TTATGCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 3 0.12
22 9 0.35
23 3 0.12
24 11 0.42
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.63
Consensus pattern (24 bp):
CATTTATGTATTTATTTATATGTC
Found at i:39700735 original size:16 final size:16
Alignment explanation
Indices: 39700711--39700741 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39700701 ATTTTTATGC
39700711 TTTAGTTATTTATTCA
1 TTTAGTTATTTATTCA
*
39700727 TTTATTTATTTATTC
1 TTTAGTTATTTATTC
39700742 GCTATGATAT
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:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTAGTTATTTATTCA
Found at i:39701058 original size:109 final size:109
Alignment explanation
Indices: 39700867--39701183 Score: 496
Period size: 109 Copynumber: 2.9 Consensus size: 109
39700857 GAGGAAAATT
*
39700867 TTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
39700932 CGATTTTT-TGCATTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCT-CATTCAACCAAATAGCCAAATATCCTTCCAAAAA
*
39700976 TTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * **
39701041 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTCCAAAAA
* * * * *
39701085 TTTCAAAATAAGGCAAAGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCTTAATGTACTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
39701149 CGA-TTTTCTCATTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCT
39701184 CTTGAATTTC
Statistics
Matches: 192, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
107 29 0.15
108 25 0.13
109 137 0.71
110 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTCCAAAAA
Found at i:39704520 original size:16 final size:16
Alignment explanation
Indices: 39704496--39704526 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39704486 ATTTTTATGC
39704496 TTTAGTTATTTATTCA
1 TTTAGTTATTTATTCA
*
39704512 TTTATTTATTTATTC
1 TTTAGTTATTTATTC
39704527 GCTATGATAT
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:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTAGTTATTTATTCA
Found at i:39704842 original size:109 final size:109
Alignment explanation
Indices: 39704651--39704967 Score: 503
Period size: 109 Copynumber: 2.9 Consensus size: 109
39704641 GAGGAAAATT
*
39704651 TTTCAAAATAAGGCAATGTTTTGTGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
39704716 CGATTTTTCGCATTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTCCAAAAA
* *
39704760 TTTCAAAATAAGGTAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * **
39704825 CGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTCCAAAAA
* * * *
39704869 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCTTAATGTACTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
*
39704933 CGA-TTTTCTCATTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCATTCAACCAAATAGCCAAATATCCT
39704968 CTTGAATTTC
Statistics
Matches: 191, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
107 29 0.15
108 25 0.13
109 137 0.72
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCATTCAACCAAATAGCCAAATATCCTTCCAAAAA
Found at i:39707819 original size:13 final size:13
Alignment explanation
Indices: 39707801--39707831 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
39707791 GCATTTTATT
39707801 ATTTAGTTAATTA
1 ATTTAGTTAATTA
39707814 ATTTAGTTAATTA
1 ATTTAGTTAATTA
39707827 ATTTA
1 ATTTA
39707832 TCATCATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:39708318 original size:16 final size:16
Alignment explanation
Indices: 39708294--39708324 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39708284 ATTTTTATGC
39708294 TTTAGTTATTTATTCA
1 TTTAGTTATTTATTCA
*
39708310 TTTATTTATTTATTC
1 TTTAGTTATTTATTC
39708325 GCTATGATAT
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:0.23, C:0.06, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTAGTTATTTATTCA
Found at i:39708641 original size:109 final size:109
Alignment explanation
Indices: 39708450--39708766 Score: 532
Period size: 109 Copynumber: 2.9 Consensus size: 109
39708440 AAGGAAAATT
39708450 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
39708515 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
39708559 TTTCAAAATAAGGCAATGTTTTGCGTTTAGG-AATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
* **
39708623 TCGATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAA
65 TCGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
* * *
39708668 TTTCAAAATAAGGCAATGTTGTGCGTTTGGAAATTTGAG-GAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
39708732 CGA-TTTTCTCATTTAACCAAATAGCCAAATATCCT
66 CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCT
39708767 CTTGAATTTC
Statistics
Matches: 197, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
107 29 0.15
108 29 0.15
109 137 0.70
110 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (109 bp):
TTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTTCTCGTTCAACCAAATAGCCAAATATCCTTCCAAAAA
Done.