Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 34 of 235
Found at i:11020506 original size:23 final size:23
Alignment explanation
Indices: 11020452--11020571 Score: 204
Period size: 23 Copynumber: 5.1 Consensus size: 23
11020442 CCTAGCCTCT
*
11020452 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11020475 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
11020499 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11020522 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
11020546 TTTAATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11020569 TTT
1 TTT
11020572 TTCACTTCCT
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
23 48 0.52
24 45 0.48
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:11020521 original size:47 final size:47
Alignment explanation
Indices: 11020452--11020572 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
11020442 CCTAGCCTCT
*
11020452 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
11020499 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
11020546 TTTAATAACTAGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
11020573 TCACTTCCTC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:11020668 original size:20 final size:20
Alignment explanation
Indices: 11020618--11020668 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
11020608 GCATTTATGA
11020618 ATACA-ACG-TGTGCATATC
1 ATACATACGATGTGCATATC
11020636 ATACATATC-ATGTGCATATC
1 ATACATA-CGATGTGCATATC
11020656 ATACATACGATGT
1 ATACATACGATGT
11020669 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 22 0.76
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (20 bp):
ATACATACGATGTGCATATC
Found at i:11020737 original size:25 final size:25
Alignment explanation
Indices: 11020705--11020752 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11020695 ATACATAAAC
* * *
11020705 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAAAGGTCATTTTTA
11020730 CCTAGGGGCAAAAAGGTCATTTT
1 CCTAGGGGCAAAAAGGTCATTTT
11020753 CACGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTTA
Found at i:11028307 original size:31 final size:31
Alignment explanation
Indices: 11028272--11028335 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
11028262 CCTTTTCATA
*
11028272 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
** *
11028303 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATATTTCATAACACTAGGCCAAAGCCT
11028334 TT
1 TT
11028336 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCAAAGCCT
Found at i:11028580 original size:24 final size:24
Alignment explanation
Indices: 11028529--11028670 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
11028519 GCTTTATCAT
*
11028529 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
11028554 ATAACTGGGACAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11028578 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
11028601 ATAACTGAGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
11028625 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
11028648 ATAACCGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
11028671 TCACTTCCTC
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
23 44 0.42
24 50 0.47
25 12 0.11
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:11028604 original size:23 final size:23
Alignment explanation
Indices: 11028550--11028669 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
11028540 CCTAGCCTCT
* *
11028550 TTTAATAACTGGGACAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11028573 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
11028597 TTTAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11028620 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
11028644 TTTAATAACCGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
11028667 TTT
1 TTT
11028670 TTCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 47 0.52
24 43 0.48
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:11028604 original size:47 final size:46
Alignment explanation
Indices: 11028550--11028670 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 46
11028540 CCTAGCCTCT
*
11028550 TTTAATAACTGGGACAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGG-CATAAGCCCTTTTAATAACTGGGGCATAAGCCC
11028597 TTTAATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTG-GGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
11028644 TTTAATAACCGGGGCATAAGCCCTTTT
1 TTTAATAA-CTGGGCATAAGCCCTTTT
11028671 TCACTTCCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
47 66 0.94
48 4 0.06
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (46 bp):
TTTAATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:11028747 original size:20 final size:20
Alignment explanation
Indices: 11028722--11028786 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
11028712 ATGAATACAG
11028722 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
11028742 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
11028762 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
11028782 CATGT
1 CATGT
11028787 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:11028753 original size:11 final size:11
Alignment explanation
Indices: 11028722--11028775 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
11028712 ATGAATACAG
11028722 CATGTGCATAT
1 CATGTGCATAT
*
11028733 CA--TACATAT
1 CATGTGCATAT
11028742 CATGTGCATAT
1 CATGTGCATAT
* *
11028753 CA--TACATGT
1 CATGTGCATAT
11028762 CATGTGCATAT
1 CATGTGCATAT
11028773 CAT
1 CAT
11028776 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:11034507 original size:18 final size:19
Alignment explanation
Indices: 11034479--11034514 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11034469 TAATTCGCTG
*
11034479 CACATAAAACAAACACAAA
1 CACATAAAACAAAAACAAA
11034498 CACA-AAAACAAAAACAA
1 CACATAAAACAAAAACAA
11034515 CCAAACACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.72, C:0.25, G:0.00, T:0.03
Consensus pattern (19 bp):
CACATAAAACAAAAACAAA
Found at i:11035681 original size:5 final size:5
Alignment explanation
Indices: 11035671--11035702 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11035661 TTGTGTGTTC
11035671 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
11035703 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:11035685 original size:9 final size:9
Alignment explanation
Indices: 11035671--11035701 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11035661 TTGTGTGTTC
11035671 TTTATTTTA
1 TTTATTTTA
11035680 TTTATTTTA
1 TTTATTTTA
11035689 TTTTATTTTA
1 -TTTATTTTA
11035699 TTT
1 TTT
11035702 TTCACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11040107 original size:5 final size:5
Alignment explanation
Indices: 11040097--11040128 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
11040087 TTGTGTGTTC
11040097 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
11040129 TCACAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:11040111 original size:9 final size:9
Alignment explanation
Indices: 11040097--11040127 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
11040087 TTGTGTGTTC
11040097 TTTATTTTA
1 TTTATTTTA
11040106 TTTATTTTA
1 TTTATTTTA
11040115 TTTTATTTTA
1 -TTTATTTTA
11040125 TTT
1 TTT
11040128 TTCACAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:11044016 original size:12 final size:12
Alignment explanation
Indices: 11043999--11044025 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11043989 ACAAGTTTGG
11043999 CACGGCCTAGCA
1 CACGGCCTAGCA
11044011 CACGGCCTAGCA
1 CACGGCCTAGCA
11044023 CAC
1 CAC
11044026 ATGCGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.44, G:0.22, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:11046535 original size:17 final size:17
Alignment explanation
Indices: 11046503--11046536 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11046493 AGATTATAAT
*
11046503 ACAACAATTTGAATATA
1 ACAACAATTAGAATATA
*
11046520 ACAACAATTAGCATATA
1 ACAACAATTAGAATATA
11046537 TTAGCTAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (17 bp):
ACAACAATTAGAATATA
Found at i:11047365 original size:29 final size:28
Alignment explanation
Indices: 11047332--11047387 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
11047322 TTTTTCATTT
* *
11047332 ATTTCATATTTTAACCCCTAAATTTACAC
1 ATTTCACAATTTAACCCCT-AATTTACAC
*
11047361 ATTTCACAATTTAGCCCCTAATTTACA
1 ATTTCACAATTTAACCCCTAATTTACA
11047388 TTTTTACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (28 bp):
ATTTCACAATTTAACCCCTAATTTACAC
Found at i:11053667 original size:78 final size:78
Alignment explanation
Indices: 11053527--11053735 Score: 267
Period size: 78 Copynumber: 2.7 Consensus size: 78
11053517 ACACATGAAA
* * * * *
11053527 GTCAGATCTGCTATGTTTTTGACCTGCTCTCTGTCTAATACAGAGATGCCAAATTATTTTGGATC
1 GTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
*
11053592 TGCTTCAAAGAAG
66 TACTTCAAAGAAG
* * * *
11053605 GTC-GAATTTGTTATGTCTTTTATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGAT
1 GTCAG-ATCTGCTATGTCTTTGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGAT
*
11053669 CTACTTCAATGAAG
65 CTACTTCAAAGAAG
* * **
11053683 GTCAGATCTGCTATGTCTTTGATCTGCTCTCCATCGAATATGGAGATGCCAAA
1 GTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCTAATACAGAGATGCCAAA
11053736 CCTGTTTCTT
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
77 1 0.01
78 108 0.98
79 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (78 bp):
GTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATC
TACTTCAAAGAAG
Found at i:11059801 original size:7 final size:7
Alignment explanation
Indices: 11059789--11059877 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
11059779 NNNNNNNNNT
11059789 TAAACCA
1 TAAACCA
*
11059796 TAAACCG
1 TAAACCA
* * *
11059803 CAACCCT
1 TAAACCA
*
11059810 TAAACCC
1 TAAACCA
* *
11059817 TAAATCT
1 TAAACCA
11059824 TAAACCA
1 TAAACCA
*
11059831 TAAACTA
1 TAAACCA
11059838 TAAACCA
1 TAAACCA
* *
11059845 TAACCCC
1 TAAACCA
11059852 TAAACTCA
1 TAAAC-CA
*
11059860 TAATCCA
1 TAAACCA
*
11059867 TAAACCT
1 TAAACCA
11059874 TAAA
1 TAAA
11059878 ATAGTAACTA
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:11059877 original size:22 final size:23
Alignment explanation
Indices: 11059823--11059902 Score: 55
Period size: 22 Copynumber: 3.7 Consensus size: 23
11059813 ACCCTAAATC
*
11059823 TTAAACCATAAACT-A-TAAACCA
1 TTAAACCTTAAACTCAGT-AACCA
* *
11059845 -TAACCCCTAAACTCA-TAATCCA
1 TTAAACCTTAAACTCAGTAA-CCA
* *
11059867 -TAAACCTTAAAAT-AGTAACTA
1 TTAAACCTTAAACTCAGTAACCA
11059888 TTAAACCTTAAACTC
1 TTAAACCTTAAACTC
11059903 TAAATCATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
21 16 0.35
22 30 0.65
ACGTcount: A:0.47, C:0.25, G:0.01, T:0.26
Consensus pattern (23 bp):
TTAAACCTTAAACTCAGTAACCA
Found at i:11060217 original size:19 final size:20
Alignment explanation
Indices: 11060191--11060236 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
11060181 ATAGAATTTT
11060191 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
11060209 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
11060229 AATAAAAT
1 AATTAAAT
11060237 GTTTTTGCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:11060300 original size:41 final size:41
Alignment explanation
Indices: 11060243--11060353 Score: 204
Period size: 41 Copynumber: 2.7 Consensus size: 41
11060233 AAATGTTTTT
11060243 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
11060284 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
**
11060325 GCGGCGCTTTTATAAAAACGCCGCTAAAG
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAG
11060354 CCCCGAAAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.18
Consensus pattern (41 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:11061483 original size:18 final size:18
Alignment explanation
Indices: 11061460--11061502 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11061450 TGCAATTTAG
11061460 AAAGAAT-TTTAAAGGTCA
1 AAAGAATATTTAAAGGT-A
**
11061478 AAAGAATATTTATCGGTA
1 AAAGAATATTTAAAGGTA
11061496 AAAGAAT
1 AAAGAAT
11061503 GAAAGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (18 bp):
AAAGAATATTTAAAGGTA
Found at i:11065302 original size:17 final size:16
Alignment explanation
Indices: 11065251--11065303 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
11065241 TTAAATAACA
11065251 ATTAAAATAAATACGAT
1 ATTAAAATAAATA-GAT
*
11065268 ATTTTAAAA-AAATGGAT
1 A--TTAAAATAAATAGAT
11065285 ATTAAAATAATATAGAT
1 ATTAAAATAA-ATAGAT
11065302 AT
1 AT
11065304 AAAGAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 6 0.20
16 2 0.07
17 12 0.40
18 4 0.13
19 6 0.20
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.34
Consensus pattern (16 bp):
ATTAAAATAAATAGAT
Found at i:11067152 original size:3 final size:3
Alignment explanation
Indices: 11067144--11067200 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
11067134 CTAAAACGCT
* * * *
11067144 TTA TTA TTA TTA TTA TTA CTA TTA CTG TTGCA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT--A TTA TTA TTA TTA TTA
11067191 TTA TTA TTA T
1 TTA TTA TTA T
11067201 ATTTTTCTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 42 0.95
5 2 0.05
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:11067697 original size:16 final size:17
Alignment explanation
Indices: 11067673--11067711 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
11067663 CGTCTTTCTC
*
11067673 ATTATTTTTTTAACGCAT
1 ATTATTTTGTT-ACGCAT
11067691 -TTATTTTGTTACGCAT
1 ATTATTTTGTTACGCAT
11067707 ATTAT
1 ATTAT
11067712 CGTCGTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (17 bp):
ATTATTTTGTTACGCAT
Found at i:11076349 original size:18 final size:18
Alignment explanation
Indices: 11076326--11076360 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11076316 TATTTTGGTT
11076326 ATTTATTTATTT-ATTTTG
1 ATTTATTT-TTTGATTTTG
11076344 ATTTATTTTTTGATTTT
1 ATTTATTTTTTGATTTT
11076361 TTGTGTAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
ATTTATTTTTTGATTTTG
Found at i:11077532 original size:15 final size:15
Alignment explanation
Indices: 11077494--11077549 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 15
11077484 CTTACCTTTG
11077494 TTTATTTATTTATTATA
1 TTTATTTA--TATTATA
11077511 TTTATTTATATTA-A
1 TTTATTTATATTATA
*
11077525 TTTGATTTGATTTTATA
1 TTT-ATTT-ATATTATA
*
11077542 ATTATTTA
1 TTTATTTA
11077550 GACATACCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 4 0.12
15 10 0.29
16 9 0.26
17 11 0.32
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTATTTATATTATA
Found at i:11077755 original size:15 final size:15
Alignment explanation
Indices: 11077735--11077766 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11077725 ACAAAGGGCT
11077735 TTCTATTTGATTAAA
1 TTCTATTTGATTAAA
11077750 TTCTATTTGATTAAA
1 TTCTATTTGATTAAA
11077765 TT
1 TT
11077767 GATACACAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (15 bp):
TTCTATTTGATTAAA
Found at i:11079148 original size:23 final size:22
Alignment explanation
Indices: 11079113--11079163 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
11079103 ATGTCACTTT
11079113 TTAGAA-TAATGCAGCCAAGCCG
1 TTAGAATTAATGCAG-CAAGCCG
* *
11079135 TTAGAATTAATGCAGTAATCCG
1 TTAGAATTAATGCAGCAAGCCG
11079157 TTAGAAT
1 TTAGAAT
11079164 CAAGTAGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 18 0.69
23 8 0.31
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (22 bp):
TTAGAATTAATGCAGCAAGCCG
Found at i:11080990 original size:41 final size:42
Alignment explanation
Indices: 11080877--11081051 Score: 138
Period size: 42 Copynumber: 4.2 Consensus size: 42
11080867 ACACATAGAA
* * * * ****
11080877 TCATACCAATTCCATATCCCAGATATGGTATTACATGGGATC
1 TCATAACAATGCCATATCCCAAATATGGTCTTACACAAAATC
* * * * *
11080919 TCATATCATTTCCTATAGCCCAAATATGGTCTTACAC-AATTC
1 TCATAACAATGCC-ATATCCCAAATATGGTCTTACACAAAATC
* * * *
11080961 TCATATCGATGCCATGTCCCAAACATGGTCTTACACAAAATC
1 TCATAACAATGCCATATCCCAAATATGGTCTTACACAAAATC
* * *
11081003 TCATAACAATGCCATATCTCAGATATGGTCTTACACGTAAA-C
1 TCATAACAATGCCATATCCCAAATATGGTCTTACAC-AAAATC
11081045 TCATAAC
1 TCATAAC
11081052 CCTAATGTCA
Statistics
Matches: 107, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
41 20 0.19
42 65 0.61
43 22 0.21
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (42 bp):
TCATAACAATGCCATATCCCAAATATGGTCTTACACAAAATC
Found at i:11088779 original size:6 final size:6
Alignment explanation
Indices: 11088768--11088805 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
11088758 TATTTATTGA
*
11088768 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
11088806 CAATTTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:11091213 original size:45 final size:45
Alignment explanation
Indices: 11091140--11091283 Score: 130
Period size: 45 Copynumber: 3.2 Consensus size: 45
11091130 GTGAAGTCAG
* * **
11091140 ATCTTATATCCCTGAAGTTGCAACGGAATAGATCAAAGATGACAA
1 ATCTTATCTCCCTGAAGTAGCAGTGGAATAGATCAAAGATGACAA
* * * ** * *
11091185 ACCTTATCTCCCTGAAGTGGCAGTGGAATAGGTTGAAGATTACAG
1 ATCTTATCTCCCTGAAGTAGCAGTGGAATAGATCAAAGATGACAA
* * * *
11091230 GTCTTA-CTTCCCT-AAGTAGTAGTGGAATAGACCAAAGACGACAA
1 ATCTTATC-TCCCTGAAGTAGCAGTGGAATAGATCAAAGATGACAA
11091274 ATCTTATCTC
1 ATCTTATCTC
11091284 TATGTACCGG
Statistics
Matches: 75, Mismatches: 22, Indels: 5
0.74 0.22 0.05
Matches are distributed among these distances:
44 30 0.40
45 45 0.60
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (45 bp):
ATCTTATCTCCCTGAAGTAGCAGTGGAATAGATCAAAGATGACAA
Found at i:11091546 original size:180 final size:181
Alignment explanation
Indices: 11091339--11091726 Score: 539
Period size: 180 Copynumber: 2.1 Consensus size: 181
11091329 TTGATGTAGG
* *
11091339 AAGGAAGCAGACTGGGAATTGAAGATTTTATCTCCCTAAAATTACAGCGGAGCAGATCTTCGCAG
1 AAGGAAGCAGACTGGGAATTGAAGATTTTATCTCCCTAAAATTACAGCGAAGCAGATCTTCACAG
* * *
11091404 ATGGCTAATCTTATCTCCATGTATCGGCAATGGGGCAGATTTAAGCCACC-AGCCTTATCTCTTT
66 ATGGCTAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC-CCAAACCTTATCTCTCT
*
11091468 GAGGTAGCAAGAGAGCAGGTTGAAGAGT-AAGTCTTATCTTCCTAAGGTAAC
130 GAGGTAGCAAGAGAGCAGGTTAAAGAGTGAAGTCTTATCTTCCTAAGGTAAC
* * * * * *
11091519 AAGGAAGCAGATTGTGAATTGAAGATTTTATCTCCCTGAAATTGCGGCGAAGTAGATCTTCACAG
1 AAGGAAGCAGACTGGGAATTGAAGATTTTATCTCCCTAAAATTACAGCGAAGCAGATCTTCACAG
* *
11091584 ATGGCTAATCTTATCTCCATGTATCGGCAATGGAGTAGATTTGAGCCCCAAACCTTATCTCTCTG
66 ATGGCTAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAACCTTATCTCTCTG
* * * * * * *
11091649 AGGTAGTAAGAGAGCAGTTTAAATATTGAAGTCTTATCTTCTTGAGGTAGC
131 AGGTAGCAAGAGAGCAGGTTAAAGAGTGAAGTCTTATCTTCCTAAGGTAAC
*
11091700 AAGGAAGCAGACT-GAAGATTGAAGATT
1 AAGGAAGCAGACTGGGA-ATTGAAGATT
11091727 GGAAGAGGCA
Statistics
Matches: 181, Mismatches: 24, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
179 2 0.01
180 137 0.76
181 42 0.23
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (181 bp):
AAGGAAGCAGACTGGGAATTGAAGATTTTATCTCCCTAAAATTACAGCGAAGCAGATCTTCACAG
ATGGCTAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAACCTTATCTCTCTG
AGGTAGCAAGAGAGCAGGTTAAAGAGTGAAGTCTTATCTTCCTAAGGTAAC
Found at i:11091861 original size:148 final size:147
Alignment explanation
Indices: 11091594--11091867 Score: 451
Period size: 148 Copynumber: 1.9 Consensus size: 147
11091584 ATGGCTAATC
* * * *
11091594 TTATCTCCATGTATCGGCAATGGAGTAGATTTGAGCCCCAAACCTTATCTCTCTGAGGTAGTAAG
1 TTATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCCCAAACCTTATCTCTCTGAGGTAGCAAG
* *
11091659 AGAGCAGTTTAAATATTGAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG
66 AGAGCAGTTGAAATATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG
11091724 ATTGGAAGAGGCAAATA
131 ATTGGAAGAGGCAAATA
*
11091741 TTATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCTCAAGACCTTATCTCTCTGAGGTAGCAA
1 TTATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCCCAA-ACCTTATCTCTCTGAGGTAGCAA
*
11091806 GAGAGCAGGTTGAAA-ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
65 GAGAGCA-GTTGAAATATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATT
11091868 ACAGATCTTA
Statistics
Matches: 117, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
147 37 0.32
148 74 0.63
149 6 0.05
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (147 bp):
TTATCTCCATGTACCGGCAATGGAGCAGATTTAAGCCCCAAACCTTATCTCTCTGAGGTAGCAAG
AGAGCAGTTGAAATATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAG
ATTGGAAGAGGCAAATA
Found at i:11092912 original size:15 final size:13
Alignment explanation
Indices: 11092892--11092930 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
11092882 ATATGACAAT
11092892 AATAAAAAGTAAATA
1 AATAAAAA-TAAA-A
11092907 AATAAAAATAAAA
1 AATAAAAATAAAA
*
11092920 AAGAAAAATAA
1 AATAAAAATAA
11092931 TAATGGTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 4 0.17
15 8 0.35
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:11093010 original size:3 final size:3
Alignment explanation
Indices: 11093002--11093056 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
11092992 AAAGAAAAAT
* * * *
11093002 ATA ATA ATA ATA ATA GTA ATA ATGCA ACA GTA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA
11093049 ATA ATA AT
1 ATA ATA AT
11093057 TACGTTTTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 40 0.95
5 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:11096207 original size:14 final size:15
Alignment explanation
Indices: 11096188--11096216 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11096178 CTTTAGAAAA
11096188 TGGACCT-TATTTTT
1 TGGACCTATATTTTT
11096202 TGGACCTATATTTTT
1 TGGACCTATATTTTT
11096217 ATTCAAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.17, C:0.14, G:0.14, T:0.55
Consensus pattern (15 bp):
TGGACCTATATTTTT
Found at i:11103009 original size:17 final size:18
Alignment explanation
Indices: 11102989--11103023 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
11102979 AGTGAACTGC
11102989 AGCAAATTTTC-AACTTA
1 AGCAAATTTTCAAACTTA
11103006 AGCAAATTTTCAAACTTA
1 AGCAAATTTTCAAACTTA
11103024 TGTGAACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.34
Consensus pattern (18 bp):
AGCAAATTTTCAAACTTA
Found at i:11103285 original size:70 final size:71
Alignment explanation
Indices: 11103177--11103374 Score: 183
Period size: 70 Copynumber: 2.8 Consensus size: 71
11103167 GAGGTTGCGC
* * *
11103177 TATTAAACCTACAAGCCTTAAGATTA-TAGTTGAGAGCTTAAGCTCGT-ACTAACTGTTTTAGAG
1 TATTAAACCTACGAGCCTTAAGATTACAAGTTGAGAGCTTAAGCTC-TCACTAACTATTTT-GAG
11103240 G-CCGTAG
64 GTCCGTAG
** * * *
11103247 TATTAAACCTACGAGCCTTAAGATTACAAG-TGTTAGCTTGAGCTCTCGCTAACTATTTTGGGGT
1 TATTAAACCTACGAGCCTTAAGATTACAAGTTGAGAGCTTAAGCTCTCACTAACTATTTTGAGGT
* *
11103311 CTGTGG
66 CCGTAG
* * * * * *
11103317 TATTGAACCTACGAGCCTTAAAATTAC-AGCT-AGGAGCTTGAGTTCTCGCTAACTATTT
1 TATTAAACCTACGAGCCTTAAGATTACAAGTTGA-GAGCTTAAGCTCTCACTAACTATTT
11103375 GGGAGGGACT
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
69 6 0.06
70 100 0.93
71 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (71 bp):
TATTAAACCTACGAGCCTTAAGATTACAAGTTGAGAGCTTAAGCTCTCACTAACTATTTTGAGGT
CCGTAG
Found at i:11104644 original size:17 final size:17
Alignment explanation
Indices: 11104624--11104660 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11104614 TAGATTTAAT
*
11104624 TTTAGCTTTTATTTTTA
1 TTTAGCTTTTATTTATA
*
11104641 TTTATCTTTTATTTATA
1 TTTAGCTTTTATTTATA
11104658 TTT
1 TTT
11104661 TAGAGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTAGCTTTTATTTATA
Found at i:11120918 original size:14 final size:14
Alignment explanation
Indices: 11120899--11120930 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11120889 AGGTCATTTA
11120899 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11120913 GCCCAACCAAACTG
1 GCCCAACCAAACTG
11120927 GCCC
1 GCCC
11120931 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:11125914 original size:42 final size:42
Alignment explanation
Indices: 11125855--11125940 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
11125845 TTTAAAGGGA
11125855 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
1 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
11125897 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
1 TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
11125939 TA
1 TA
11125941 AATATGTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (42 bp):
TACAAAATATAGATACAACATTTCCATTTATATTCTTTCTTT
Found at i:11133708 original size:19 final size:18
Alignment explanation
Indices: 11133668--11133707 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11133658 GAAATATTTA
*
11133668 TTTTGATGTTTTTAGTAT
1 TTTTGATGTTTATAGTAT
11133686 TTTTGATAGTTTATA-TAT
1 TTTTGAT-GTTTATAGTAT
11133704 TTTT
1 TTTT
11133708 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTTTATAGTAT
Found at i:11153435 original size:18 final size:18
Alignment explanation
Indices: 11153412--11153456 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
11153402 GCCAATATGT
* * *
11153412 GGCCCAATACCATTCTTC
1 GGCCCAATACCACTATTA
*
11153430 GGCCCAACACCACTATTA
1 GGCCCAATACCACTATTA
11153448 GGCCCAATA
1 GGCCCAATA
11153457 GTACCATCAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.38, G:0.13, T:0.20
Consensus pattern (18 bp):
GGCCCAATACCACTATTA
Found at i:11153642 original size:18 final size:17
Alignment explanation
Indices: 11153619--11153664 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
11153609 AGCATACCAC
*
11153619 TTTTGACCACAATCATAA
1 TTTTGACCACAA-AATAA
11153637 TTTTGACCAGCAAAATAA
1 TTTTGACCA-CAAAATAA
*
11153655 TTCTGACCAC
1 TTTTGACCAC
11153665 TTCCATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 21 0.84
19 3 0.12
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (17 bp):
TTTTGACCACAAAATAA
Found at i:11153696 original size:21 final size:21
Alignment explanation
Indices: 11153647--11153706 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
11153637 TTTTGACCAG
* *
11153647 CAAAATAATTCTGACCACTTC
1 CAAAATAATTTTGACCATTTC
** *
11153668 CATTATAATTTTGACCATTTT
1 CAAAATAATTTTGACCATTTC
11153689 CAAAATAATTTTGACCAT
1 CAAAATAATTTTGACCAT
11153707 GGTTAGAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (21 bp):
CAAAATAATTTTGACCATTTC
Found at i:11158754 original size:18 final size:18
Alignment explanation
Indices: 11158718--11158774 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
11158708 TTTTATATAT
* *
11158718 ATATATATTAATTAATAAA
1 ATAT-TATTACTTATTAAA
11158737 ATATTATTACTTATTAAA
1 ATATTATTACTTATTAAA
*
11158755 ATATTATAACTTAATTAAA
1 ATATTATTACTT-ATTAAA
11158774 A
1 A
11158775 AAATCATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 23 0.68
19 11 0.32
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATTATTACTTATTAAA
Found at i:11172685 original size:103 final size:104
Alignment explanation
Indices: 11172506--11172770 Score: 424
Period size: 103 Copynumber: 2.6 Consensus size: 104
11172496 AACCGTTATT
* * * *
11172506 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
11172571 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
*
11172609 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
11172674 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
11172713 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
11172771 TTATGTACAA
Statistics
Matches: 149, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:11173132 original size:30 final size:29
Alignment explanation
Indices: 11173098--11173162 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11173088 TAATCCACCA
11173098 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
11173128 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
11173158 CCCAA
1 CCCAA
11173163 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:11173136 original size:31 final size:30
Alignment explanation
Indices: 11173105--11173162 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11173095 CCACCCAACT
11173105 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
11173135 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
11173163 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:11180224 original size:104 final size:104
Alignment explanation
Indices: 11180102--11180325 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
11180092 AATGGATATC
11180102 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
11180167 GGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
11180206 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
11180271 GGATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
11180310 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
11180326 TTTATATACA
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:11180687 original size:29 final size:29
Alignment explanation
Indices: 11180654--11180717 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11180644 TAATCCACCA
11180654 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11180683 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11180713 CCCAA
1 CCCAA
11180718 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11180691 original size:30 final size:30
Alignment explanation
Indices: 11180661--11180717 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11180651 CCACCCAACT
11180661 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11180690 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11180718 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11182440 original size:43 final size:42
Alignment explanation
Indices: 11182355--11182474 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
11182345 AGGGTTACTA
* *
11182355 AGATTACGTGTCAGACCATATCTGGGATATGGCATCAATATG
1 AGATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * * *
11182397 AGACTT-TGTGTAAGACCATAGCTGGGCTATTGGCATCGATATG
1 AGA-TTCCGTGTAAGACCATATCTGGGATA-TGGCATCAATATG
*
11182440 AGATTCCATGTAAGACCATATCTGGGATATGGCAT
1 AGATTCCGTGTAAGACCATATCTGGGATATGGCAT
11182475 TGGTATGGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
AGATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:11185341 original size:20 final size:21
Alignment explanation
Indices: 11185294--11185344 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
11185284 AATATGCCAT
*
11185294 AAAGGCTAACATAATATCACA
1 AAAGGCTAACATAATACCACA
*
11185315 AAAGGCTAACATAATGCCAC-
1 AAAGGCTAACATAATACCACA
*
11185335 CAAGGCTAAC
1 AAAGGCTAAC
11185345 TGAATGCTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.47, C:0.24, G:0.14, T:0.16
Consensus pattern (21 bp):
AAAGGCTAACATAATACCACA
Found at i:11189775 original size:19 final size:20
Alignment explanation
Indices: 11189720--11189780 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
11189710 AATTTTAAAA
* *
11189720 AATAAAAATCAATAAAA-GTT
1 AATAAAAAT-TATAAAATATT
* *
11189740 AATAAAAATTATTAAATTTT
1 AATAAAAATTATAAAATATT
11189760 AATAAAAATT-TAAAATATT
1 AATAAAAATTATAAAATATT
11189779 AA
1 AA
11189781 AAATTTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (20 bp):
AATAAAAATTATAAAATATT
Found at i:11190351 original size:88 final size:86
Alignment explanation
Indices: 11190206--11190456 Score: 292
Period size: 88 Copynumber: 2.8 Consensus size: 86
11190196 TAGGAGTGGT
*
11190206 TCAAATACCCAATTGAGTGCAAAAAAAAAAGCACGGGCTTAATTGCTTTTTTGAAAAAGTTTAAG
1 TCAAATACCCAATTGAGTG--AAAAAAAAAGCA-GGGCTTAATTGCTTTTTTAAAAAAGTTTAAG
* *
11190271 GG-CATTTTTTATGCATTTTGAAAA-T
63 GGTC--TTTTTATGCATTGT-AAAAGG
* * *
11190296 TTAAATACCCAATTGAGTGAAAAAAAAAGCAGGGACTTACTTGCTTTTTTAAAAAAGTTTGAGGG
1 TCAAATACCCAATTGAGTGAAAAAAAAAGCAGGG-CTTAATTGCTTTTTTAAAAAAGTTTAAGGG
11190361 TCTTTTTATGCATTGTAAAAGG
65 TCTTTTTATGCATTGTAAAAGG
* ** *
11190383 TCAAATACCCAAGTGAGT-AAAAAAAGAAATAGGGGCTTAATTGCTTTTTTTAAAAAAGTTTAAA
1 TCAAATACCCAATTGAGTGAAAAAAA-AAGCA-GGGCTTAATTGC-TTTTTTAAAAAAGTTTAAG
*
11190447 AGTCTTTTTA
63 GGTCTTTTTA
11190457 CACTCTTAAG
Statistics
Matches: 141, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
86 11 0.08
87 43 0.30
88 68 0.48
89 1 0.01
90 18 0.13
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (86 bp):
TCAAATACCCAATTGAGTGAAAAAAAAAGCAGGGCTTAATTGCTTTTTTAAAAAAGTTTAAGGGT
CTTTTTATGCATTGTAAAAGG
Found at i:11191750 original size:35 final size:35
Alignment explanation
Indices: 11191704--11191782 Score: 140
Period size: 35 Copynumber: 2.3 Consensus size: 35
11191694 TTTGCCCAAG
11191704 CCCGGCCCAAAATAAAATTACAGAGCCCGGCCCGA
1 CCCGGCCCAAAATAAAATTACAGAGCCCGGCCCGA
* *
11191739 CCCGGCCCAAAATAAAATTACGGAGCCCGGCCCGG
1 CCCGGCCCAAAATAAAATTACAGAGCCCGGCCCGA
11191774 CCCGGCCCA
1 CCCGGCCCA
11191783 TATTAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.29, C:0.41, G:0.23, T:0.08
Consensus pattern (35 bp):
CCCGGCCCAAAATAAAATTACAGAGCCCGGCCCGA
Found at i:11191846 original size:26 final size:24
Alignment explanation
Indices: 11191816--11191865 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
11191806 AAATAAAAAA
*
11191816 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
11191842 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
11191866 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:11191885 original size:21 final size:21
Alignment explanation
Indices: 11191836--11191894 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
11191826 ATAATAAATC
*
11191836 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
11191856 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
11191878 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
11191895 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:11198718 original size:132 final size:131
Alignment explanation
Indices: 11198468--11198856 Score: 442
Period size: 132 Copynumber: 3.0 Consensus size: 131
11198458 ATTATTCGTT
* * * *
11198468 TAAAAAT-TCTTTAAAACGAAGGTGACATTTGATATTTGGCAATTCACGAAATCGTGCCCTAACG
1 TAAAAATCT-TTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACG
* * ** * *
11198532 TGCTAGGTTGCAATTTCTCGTTTGCTCAAAATAATTTAATATCCTTTCAAAATTTCACTCATGTC
65 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCTTT-AGAATTTCACTCATGTC
11198597 TTC
129 TTC
* *
11198600 TAAAAATCTTTTAAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
1 TAAAAATCTTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
* * * * * *
11198665 GTTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTTATTTTT
66 GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGAT-CCTTTAGAATTTCACTCATGTCT
11198730 TC
130 TC
* * * * * * * *
11198732 TAAAACTC-TTCAAAACAAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCTTATCGT
1 TAAAAATCTTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
* * * *
11198796 GCTGGATTGCGATTTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCAT
66 GCTGGGTTGCAATTTCTC-GTTTGTTCAAAATAATCGAAGA-TCCTTTAGAATTTCACTCAT
11198857 ACTTTCTAAA
Statistics
Matches: 217, Mismatches: 36, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
130 1 0.00
131 96 0.44
132 114 0.53
133 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (131 bp):
TAAAAATCTTTTAAAACGAAGGTGATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACGT
GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCTTTAGAATTTCACTCATGTCTT
C
Found at i:11198819 original size:131 final size:132
Alignment explanation
Indices: 11198498--11198856 Score: 404
Period size: 131 Copynumber: 2.7 Consensus size: 132
11198488 GGTGACATTT
* *
11198498 GATATTTGGCAATTCACGAAATCGTGCCCTAACGTGCTAGG-TTGCAATTTCTCGTTTG-CTCAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCT-GGATTGCAATTTCTCGTTTGTC-CAA
** * * * * *
11198561 AATAATTTAATAT-CCTTTCAAAATTTCACTCATGTCTTCTAAAAATCTTTTAAAACGAAGGCGA
64 AATAATCGAAGATCCCTTT-AGAATTTCACTCATGTCTTCTAAAAATCTTTCAAAACAAAGGCAA
*
11198625 TGTTC
128 TATTC
* * *
11198630 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGATTGCAATTTCTCGTTTGTCCAAAA
* * * * * * *
11198695 TAATCGAAGGTCCCTTTTGAATTTCACTTATTTTTTCTAAAACTC-TTCAAAACAAAGGTAATAT
66 TAATCGAAGATCCCTTTAGAATTTCACTCATGTCTTCTAAAAATCTTTCAAAACAAAGGCAATAT
11198759 TC
131 TC
* * * * *
11198761 GATGTTTGGCAATTCGGGGAATCGTGCCTTATCGTGCTGGATTGCGATTTC-CTGTTTGTCCAAA
1 GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGATTGCAATTTCTC-GTTTGTCCAAA
* *
11198825 ATGATCGAAGATTCCTTTAGAATTTCACTCAT
65 ATAATCGAAGATCCCTTTAGAATTTCACTCAT
11198857 ACTTTCTAAA
Statistics
Matches: 191, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
130 1 0.01
131 99 0.52
132 86 0.45
133 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (132 bp):
GATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGCTGGATTGCAATTTCTCGTTTGTCCAAAA
TAATCGAAGATCCCTTTAGAATTTCACTCATGTCTTCTAAAAATCTTTCAAAACAAAGGCAATAT
TC
Found at i:11201719 original size:21 final size:20
Alignment explanation
Indices: 11201693--11201731 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
11201683 TGTATTTTTT
11201693 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
11201714 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
11201732 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:11202857 original size:16 final size:16
Alignment explanation
Indices: 11202836--11202866 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11202826 GATATTTTAA
11202836 TATATTATATTAATAT
1 TATATTATATTAATAT
*
11202852 TATATTATGTTAATA
1 TATATTATATTAATA
11202867 AAATAATAAA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:11202963 original size:12 final size:12
Alignment explanation
Indices: 11202946--11202976 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
11202936 GAAGCAGGGG
11202946 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
11202958 AGAAAAAGGGAA
1 AGAAAAAGAGAA
11202970 AGAAAAA
1 AGAAAAA
11202977 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:11206839 original size:6 final size:6
Alignment explanation
Indices: 11206828--11206853 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11206818 CTTAAATTAT
11206828 TTTTAA TTTTAA TTTTAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTTAA TT
11206854 GAAAACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:11209589 original size:26 final size:26
Alignment explanation
Indices: 11209560--11209719 Score: 284
Period size: 26 Copynumber: 6.2 Consensus size: 26
11209550 TTAAATGCCC
**
11209560 ATCATGGAACATTTACCTAAATCATT
1 ATCATGGAACATTTACCTAACCCATT
11209586 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11209612 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11209638 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
11209664 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
11209690 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
11209716 ATCA
1 ATCA
11209720 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:11210723 original size:10 final size:10
Alignment explanation
Indices: 11210710--11210823 Score: 82
Period size: 10 Copynumber: 12.0 Consensus size: 10
11210700 ATAAAACTAC
11210710 TTAAAAATTA
1 TTAAAAATTA
11210720 TTAAAAATTA
1 TTAAAAATTA
11210730 TTAAAAA-TA
1 TTAAAAATTA
*
11210739 TAAATAAGATTA
1 TTAA-AA-ATTA
11210751 TT-AAAA-TA
1 TTAAAAATTA
* *
11210759 TAAAAAATCA
1 TTAAAAATTA
11210769 -TAAAAA-TA
1 TTAAAAATTA
* *
11210777 -TAAATATCA
1 TTAAAAATTA
*
11210786 TTAAAAAGTA
1 TTAAAAATTA
11210796 -T-AAAATTA
1 TTAAAAATTA
*
11210804 TTAAAAATCA
1 TTAAAAATTA
*
11210814 TAAAAAATTA
1 TTAAAAATTA
11210824 CAAAAAAAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
8 15 0.19
9 18 0.22
10 42 0.52
11 2 0.03
12 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:11210750 original size:18 final size:16
Alignment explanation
Indices: 11210710--11210828 Score: 76
Period size: 18 Copynumber: 6.4 Consensus size: 16
11210700 ATAAAACTAC
11210710 TTAAAAATTATTAAAAATTA
1 TTAAAAA-TA-TAAAAA--A
11210730 TTAAAAATATAAATAAGA
1 TTAAAAATATAAA-AA-A
11210748 TTATTAAAATATAAAAAA
1 TTA--AAAATATAAAAAA
*
11210766 TCATAAAAATATAAATATCA
1 T--TAAAAATATAAA-A-AA
*
11210786 TTAAAAAGTATAAAATTA
1 TTAAAAA-TATAAAA-AA
11210804 TTAAAAATCATAAAAAA
1 TTAAAAAT-ATAAAAAA
11210821 TTACAAAA
1 TTA-AAAA
11210829 AAAATTATAA
Statistics
Matches: 85, Mismatches: 4, Indels: 22
0.77 0.04 0.20
Matches are distributed among these distances:
17 5 0.06
18 46 0.54
19 13 0.15
20 21 0.25
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (16 bp):
TTAAAAATATAAAAAA
Found at i:11210763 original size:38 final size:37
Alignment explanation
Indices: 11210710--11210817 Score: 114
Period size: 38 Copynumber: 2.9 Consensus size: 37
11210700 ATAAAACTAC
* *
11210710 TTAAAAATTATTAAAAATTATTAAAAATATAAATAAGA
1 TTAAAAAGTA-TAAAAATTATTAAAAATATAAATAACA
* *
11210748 TTATTAAAA-TATAAAAAATCA-TAAAAATATAAATATCA
1 TTA--AAAAGTAT-AAAAATTATTAAAAATATAAATAACA
11210786 TTAAAAAGTAT-AAAATTATTAAAAATCATAAA
1 TTAAAAAGTATAAAAATTATTAAAAAT-ATAAA
11210818 AAATTACAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
35 6 0.10
36 11 0.18
37 8 0.13
38 22 0.37
39 9 0.15
40 4 0.07
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (37 bp):
TTAAAAAGTATAAAAATTATTAAAAATATAAATAACA
Found at i:11210817 original size:9 final size:9
Alignment explanation
Indices: 11210761--11210819 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
11210751 TTAAAATATA
11210761 AAAAATCAT
1 AAAAATCAT
11210770 AAAAAT-AT
1 AAAAATCAT
*
11210778 AAATATCATT
1 AAAAATCA-T
11210788 AAAAAGT-AT
1 AAAAA-TCAT
*
11210797 -AAAATTATT
1 AAAAATCA-T
11210806 AAAAATCAT
1 AAAAATCAT
11210815 AAAAA
1 AAAAA
11210820 ATTACAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
7 1 0.02
8 12 0.29
9 15 0.37
10 12 0.29
11 1 0.02
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATCAT
Found at i:11211247 original size:18 final size:16
Alignment explanation
Indices: 11211220--11211264 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
11211210 AAATTACCTT
11211220 TTTATA-ATATTTTACA
1 TTTATATATATTTTA-A
11211236 TTATATATATATTTTAA
1 TT-TATATATATTTTAA
11211253 TTTATATA-ATTT
1 TTTATATATATTT
11211265 AAATATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.15
16 8 0.30
17 7 0.26
18 8 0.30
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATATATATTTTAA
Found at i:11215325 original size:25 final size:25
Alignment explanation
Indices: 11215297--11215375 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
11215287 ATCAATTTGT
11215297 AGCTCGTGAGAGCTTACCGATTCTC
1 AGCTCGTGAGAGCTTACCGATTCTC
*
11215322 AGCTCGT-ATGAGCTTACCGATT-TGT
1 AGCTCGTGA-GAGCTTACCGATTCT-C
* * *
11215347 AGCTCGTGAGAGCATACCAATTCAC
1 AGCTCGTGAGAGCTTACCGATTCTC
11215372 AGCT
1 AGCT
11215376 TGTATGAGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
24 2 0.04
25 42 0.93
26 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
AGCTCGTGAGAGCTTACCGATTCTC
Found at i:11215345 original size:50 final size:50
Alignment explanation
Indices: 11215275--11215384 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
11215265 ATGCCATAGA
* * * * *
11215275 TCGTATGAGATTATCAATTTGTAGCTCGTGAGAGCTTACCGATTCTCAGC
1 TCGTATGAGCTTACCAATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
*
11215325 TCGTATGAGCTTACCGATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
1 TCGTATGAGCTTACCAATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
*
11215375 TTGTATGAGC
1 TCGTATGAGC
11215385 ATACATGTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (50 bp):
TCGTATGAGCTTACCAATTTGTAGCTCGTGAGAGCATACCAATTCACAGC
Found at i:11220508 original size:40 final size:40
Alignment explanation
Indices: 11220453--11220554 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
11220443 NNNNNNNNNN
* *
11220453 GCACAAATGCCTTCGGGACTTAGCCCGGAATTATTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAATAACTA
* *
11220493 GCACAAATGCCTTCGGGACTTAGGCCGGAATTAATCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGAATTAATAACTA
* *
11220533 GCACAAATGTCTTTGGGACTTA
1 GCACAAATGCCTTCGGGACTTA
11220555 ACCCCGTTAG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGAATTAATAACTA
Found at i:11222826 original size:26 final size:25
Alignment explanation
Indices: 11222797--11222870 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 25
11222787 AATTTTCTTG
11222797 AAATTTTGTTGGAGGTAAAATTGTCA-
1 AAATTTT-TT-GAGGTAAAATTGTCAC
* *
11222823 AAATTTTATCGAGGGTAAAATCGTCAC
1 AAATTTT-TTGA-GGTAAAATTGTCAC
11222850 AAATTTATTTGA-GTAAAATTG
1 AAATTT-TTTGAGGTAAAATTG
11222871 GGATGAAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
25 10 0.25
26 20 0.50
27 9 0.22
28 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (25 bp):
AAATTTTTTGAGGTAAAATTGTCAC
Found at i:11231826 original size:42 final size:42
Alignment explanation
Indices: 11231772--11231851 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
11231762 TGTTCATCCA
*
11231772 AAATGTTGATGCTTTTAAACACGAGCTTAAACTATTCAACCT
1 AAATGTTGATGCTCTTAAACACGAGCTTAAACTATTCAACCT
** * *
11231814 AAATGATT-ATGCTCTTAAGTATGAGCTTAAACTGTTCA
1 AAATG-TTGATGCTCTTAAACACGAGCTTAAACTATTCA
11231852 TCCAAAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.94
43 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (42 bp):
AAATGTTGATGCTCTTAAACACGAGCTTAAACTATTCAACCT
Found at i:11236211 original size:15 final size:15
Alignment explanation
Indices: 11236193--11236221 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11236183 TGTTGGCTTT
11236193 ACAAATGCAACACCG
1 ACAAATGCAACACCG
11236208 ACAAATGCAACACC
1 ACAAATGCAACACC
11236222 AGGAGGAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.34, G:0.10, T:0.07
Consensus pattern (15 bp):
ACAAATGCAACACCG
Found at i:11240080 original size:9 final size:9
Alignment explanation
Indices: 11240066--11240105 Score: 80
Period size: 9 Copynumber: 4.4 Consensus size: 9
11240056 AGTATACAAG
11240066 ATAACAATA
1 ATAACAATA
11240075 ATAACAATA
1 ATAACAATA
11240084 ATAACAATA
1 ATAACAATA
11240093 ATAACAATA
1 ATAACAATA
11240102 ATAA
1 ATAA
11240106 TCATACGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (9 bp):
ATAACAATA
Found at i:11242882 original size:287 final size:289
Alignment explanation
Indices: 11242306--11242883 Score: 917
Period size: 287 Copynumber: 2.0 Consensus size: 289
11242296 AAGCCAGGCC
* * * *
11242306 CAAGACAGGTTTTTACCTACCAAATTAGCATTATCAATGGATAATAATGTCTTTTGGTCTAAAAA
1 CAAGACAGGTTTTTACCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTAAAAA
*
11242371 CAACTCTATTACTATTTCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
66 CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
* * *
11242436 ATATATATATATCGATGACATCTTTTTATATAGTTTAAATGAACAAGCCAATATTGCTCTTCTGA
131 ATATATATATATCGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATCGCTCTTCTGA
* ** *
11242501 ATTAGTTCAAGTAATTGGTCATTCAATATGGAAATATGCTATTAGAAAGAAAGATACAAACCTAC
196 ATTAGTTCAAGTAATTGGTCATTCAATATAGAAATATGCTACCAGAAAGAAAGATACAAACCAAC
*
11242566 AAATTTGAGATAGAATTCTTGGGGATGAA
261 AAATTTGAAATAGAATTCTTGGGGATGAA
* **
11242595 CAAGACAGGTTTTTGCCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTGGAAA
1 CAAGACAGGTTTTTACCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTAAAAA
* *
11242660 CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCTATCATGGATAATGCATTG
66 CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
* *
11242725 ATATATATAT-T-GATGACGTCTTTCTATATAGTTCAAATGAATAAGCCAATATCGCTCTTCTGA
131 ATATATATATATCGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATCGCTCTTCTGA
* * * * *
11242788 ATTAGTTTAAGTAGTTGGTCATTCAATATAGAATTATGTTGCCAGAAAGAAAGATACAAACCAAC
196 ATTAGTTCAAGTAATTGGTCATTCAATATAGAAATATGCTACCAGAAAGAAAGATACAAACCAAC
11242853 AAATTTGAAATAGAATTCTTGGGGATGAA
261 AAATTTGAAATAGAATTCTTGGGGATGAA
11242882 CA
1 CA
11242884 TTAGAGAAAG
Statistics
Matches: 264, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
287 133 0.50
288 1 0.00
289 130 0.49
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (289 bp):
CAAGACAGGTTTTTACCTACCAAATCAACATTACCAATGGATAATAATGTATTTTGGTCTAAAAA
CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGAATAATGCATTG
ATATATATATATCGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATCGCTCTTCTGA
ATTAGTTCAAGTAATTGGTCATTCAATATAGAAATATGCTACCAGAAAGAAAGATACAAACCAAC
AAATTTGAAATAGAATTCTTGGGGATGAA
Found at i:11243636 original size:35 final size:35
Alignment explanation
Indices: 11243597--11243667 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
11243587 TCTAGAATCA
*
11243597 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* * *
11243632 CATATCTTTGAAGATCACTTTCTATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
11243667 C
1 C
11243668 TCCAAAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:11258217 original size:14 final size:16
Alignment explanation
Indices: 11258198--11258230 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
11258188 ACTCAATCAA
11258198 TTTAAAAT-TT-ATTT
1 TTTAAAATATTAATTT
11258212 TTTAAAATATTAATTT
1 TTTAAAATATTAATTT
11258228 TTT
1 TTT
11258231 TAATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAAAATATTAATTT
Found at i:11258685 original size:18 final size:18
Alignment explanation
Indices: 11258662--11258704 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11258652 CTCCAACAGT
*
11258662 AAAAAAAATTGAAAAAGA
1 AAAAAAAACTGAAAAAGA
* *
11258680 AAAAAATACTGAAAACGA
1 AAAAAAAACTGAAAAAGA
11258698 AAAAAAA
1 AAAAAAA
11258705 TTAAAAATGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAAAAAACTGAAAAAGA
Found at i:11258854 original size:3 final size:3
Alignment explanation
Indices: 11258846--11258894 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
11258836 TTCAGGAACA
* *
11258846 AAG AAG AAG AAG GA- AAG AAG -AG AAG AAG GA- AAG AAG -AG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11258890 AAG AA
1 AAG AA
11258895 AGAAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.16
3 32 0.84
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11258871 original size:16 final size:16
Alignment explanation
Indices: 11258850--11258889 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
11258840 GGAACAAAGA
11258850 AGAAGAAGGAAAGAAG
1 AGAAGAAGGAAAGAAG
11258866 AGAAGAAGGAAAGAAG
1 AGAAGAAGGAAAGAAG
11258882 AGAAGAAG
1 AGAAGAAG
11258890 AAGAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
AGAAGAAGGAAAGAAG
Found at i:11258887 original size:8 final size:8
Alignment explanation
Indices: 11258850--11258890 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
11258840 GGAACAAAGA
11258850 AGAAGAAG
1 AGAAGAAG
11258858 -GAAAGAAG
1 AG-AAGAAG
11258866 AGAAGAAG
1 AGAAGAAG
11258874 -GAAAGAAG
1 AG-AAGAAG
11258882 AGAAGAAG
1 AGAAGAAG
11258890 A
1 A
11258891 AGAAAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
7 2 0.07
8 25 0.86
9 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (8 bp):
AGAAGAAG
Found at i:11259633 original size:131 final size:128
Alignment explanation
Indices: 11259498--11260364 Score: 304
Period size: 144 Copynumber: 6.1 Consensus size: 128
11259488 TATAAAAAAA
* * * *
11259498 TAAAATAT-GAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAAAAATACGAACAAGGTG
1 TAAAATATACAAAATAATATATTTTAAAAAAT--AAT---AAAAGAAAAAAATACGAACAAAGTG
* * *
11259562 CCAAAGTCA-GGTTATGTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAAAGATTTT
61 CCAAAATCAGGGTTATGTATTAAA-AAATATAAAAAACACTTAAATAATACATTTGAAACATTTT
*
11259625 ATGC
125 ATAC
* * * *
11259629 TAAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATATGAATAAAGTGC
1 TAAAAT---ATA-CAAAATAATATATTTTAAAAAATAATAAAAGAAAAAAATACGAACAAAGTGC
* * *
11259694 TAAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTTTGT
62 CAAAATCAGGGTTATGTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTTTAT
11259759 AC
127 AC
* * *
11259761 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATATGAAAATAAA
1 T--AA-AATAT------ACAAAAT-----AAT-ATAT-TTTAAAA----AATA-AT-AAAAGAAA
* * ** * * * *
11259826 AAAATTACGAAGAAACTATCAAAATCAGGGTTATTTAGTAAATTAATATAAAGAAACACTTAAGT
44 AAAA-TACGAACAAAGTGCCAAAATCAGGGTTATGTATTAAA-AAATATAAA-AAACACTTAAAT
** *
11259891 AATACATTTGAAATTTTTTTTGCTAAAATAATA
106 AATACATTTGAAA---CATTT--T---AT-A-C
* * * *
11259924 TAAAAATAAAATACGAAAATAATATA-TTTAAAAAAAAATATACGAAAAAAATACGAATAAAGTG
1 T-AAAAT---ATAC-AAAATAATATATTTTAAAAAATAATAAAAGAAAAAAATACGAACAAAGTG
* * *
11259988 CTAAAATCAGGGTTATTTATTGAAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTA
61 CCAAAATCAGGGTTATGTATT--AAAAAATATAAAAAACACTTAAATAATACATTTGAAACA-T-
*
11260053 TGTACTAAAATAATA
122 T-T--T---AT-A-C
* * * * * *
11260068 TGAAGAAATAAAATATGAAAATAATATATTTTAAAAAATAAGATACGAAAAAAATACAAAGAAAG
1 T--A-AAAT---ATAC-AAAATAATATATTTTAAAAAATAATAAAAGAAAAAAATACGAACAAAG
* * * *
11260133 TGTCAAAATCAGGGTTATTTATTAAAATAGTATAAAAAACACTTACATAATATACATAATACGTT
59 TGCCAAAATCAGGGTTATGTATTAAAA-AATAT-AAAAA-AC--AC-T--TA-A-ATAATACATT
* *
11260198 TGAAACATTTTTTGC
114 TGAAACATTTTATAC
* ** *
11260213 TAAAATAATATAAAAAAATAAAATACAAAAATAATATATTTTAAAA-AATAATATACAAAAAAAT
1 T--AA-AATAT-ACAAAAT--AAT------AT-AT-T-TTAAAAAATAATAA-A-AGAAAAAAAT
* * *
11260277 ACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATTAAAAAACACTTAAATAATACAT
49 ACGAACAAAGTGCCAAAATCAGGGTTATGTATTAAAAAATA-TAAAAAACACTTAAATAATACAT
* *
11260342 TTGAAACATTATGTAC
113 TTGAAACATTTTATAC
11260358 TAAAATA
1 TAAAATA
11260365 ATATAAAGAA
Statistics
Matches: 575, Mismatches: 81, Indels: 149
0.71 0.10 0.19
Matches are distributed among these distances:
131 43 0.07
132 44 0.08
134 7 0.01
135 3 0.01
136 21 0.04
137 5 0.01
138 1 0.00
142 15 0.03
143 8 0.01
144 74 0.13
145 51 0.09
146 32 0.06
147 64 0.11
148 5 0.01
149 3 0.01
150 16 0.03
151 39 0.07
152 15 0.03
153 45 0.08
154 47 0.08
155 16 0.03
156 3 0.01
158 2 0.00
159 5 0.01
161 4 0.01
162 4 0.01
163 1 0.00
164 2 0.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.30
Consensus pattern (128 bp):
TAAAATATACAAAATAATATATTTTAAAAAATAATAAAAGAAAAAAATACGAACAAAGTGCCAAA
ATCAGGGTTATGTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTTTATAC
Found at i:11260232 original size:13 final size:14
Alignment explanation
Indices: 11260214--11260274 Score: 56
Period size: 13 Copynumber: 4.3 Consensus size: 14
11260204 ATTTTTTGCT
11260214 AAAATAATATA-AA
1 AAAATAATATATAA
11260227 AAAATAA-A-ATACA
1 AAAATAATATATA-A
11260240 AAAATAATATATTTTAA
1 AAAATAATATA---TAA
*
11260257 AAAATAATATACAA
1 AAAATAATATATAA
11260271 AAAA
1 AAAA
11260275 ATACGAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
11 1 0.03
12 2 0.05
13 15 0.38
14 7 0.17
15 1 0.03
17 12 0.30
18 2 0.05
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATAATATATAA
Found at i:11267845 original size:26 final size:25
Alignment explanation
Indices: 11267799--11267864 Score: 91
Period size: 26 Copynumber: 2.7 Consensus size: 25
11267789 AATAATAATA
*
11267799 ACTAACAATAAT--TATGGTTTTTT
1 ACTAACAATAATAATAAGGTTTTTT
11267822 ACTAACAATAATAATAAGGATTTTTT
1 ACTAACAATAATAATAAGG-TTTTTT
*
11267848 ACTAACAATATTAATAA
1 ACTAACAATAATAATAA
11267865 CTAACAACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 12 0.32
25 4 0.11
26 22 0.58
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (25 bp):
ACTAACAATAATAATAAGGTTTTTT
Found at i:11267970 original size:8 final size:8
Alignment explanation
Indices: 11267957--11267986 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
11267947 AATTTATACC
11267957 TTCTTTTT
1 TTCTTTTT
11267965 TTCTTTTCT
1 TTCTTTT-T
11267974 TTCTTTTT
1 TTCTTTTT
11267982 TTCTT
1 TTCTT
11267987 CTCCTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TTCTTTTT
Found at i:11268005 original size:16 final size:14
Alignment explanation
Indices: 11267968--11268038 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 14
11267958 TCTTTTTTTC
11267968 TTTTCTT-T-CTTT
1 TTTTCTTCTCCTTT
11267980 TTTTCTTCTCCTTT
1 TTTTCTTCTCCTTT
11267994 TTCTTCCTTCT-CTTCT
1 TT-TT-CTTCTCCTT-T
*
11268010 CCTTTCTT-TCCCTTT
1 -TTTTCTTCT-CCTTT
11268025 ATTTTCTTCTCCTT
1 -TTTTCTTCTCCTT
11268039 ACCGCTGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
12 7 0.15
13 1 0.02
14 7 0.15
15 19 0.40
16 12 0.26
17 1 0.02
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTCTTCTCCTTT
Found at i:11268023 original size:21 final size:21
Alignment explanation
Indices: 11267983--11268023 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11267973 TTTCTTTTTT
*
11267983 TCTTCTCCTTTTTCTTCCTTC
1 TCTTCTCCTTTTTCTCCCTTC
11268004 TCTTCTCCTTTCTT-TCCCTT
1 TCTTCTCCTTT-TTCTCCCTT
11268024 TATTTTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTTCTCCTTTTTCTCCCTTC
Found at i:11268174 original size:20 final size:19
Alignment explanation
Indices: 11268149--11268195 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
11268139 ACATGACCCA
11268149 TTTTTTTTTCATTTTCAGT
1 TTTTTTTTTCATTTTCAGT
*
11268168 GTTTTTTTTTCTTTTTCAGT
1 -TTTTTTTTTCATTTTCAGT
11268188 TTTTTTTT
1 TTTTTTTT
11268196 ACTGTTGGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (19 bp):
TTTTTTTTTCATTTTCAGT
Found at i:11279183 original size:16 final size:18
Alignment explanation
Indices: 11279156--11279188 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11279146 TAGAATTGGG
11279156 TTGAGAAAATTA-TTTAA
1 TTGAGAAAATTAGTTTAA
11279173 TTGAG-AAATTAGTTTA
1 TTGAGAAAATTAGTTTA
11279189 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAGTTTAA
Found at i:11279989 original size:17 final size:16
Alignment explanation
Indices: 11279964--11280004 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
11279954 TTTTGATAAG
11279964 ATATGATTTTTTTATT
1 ATATGATTTTTTTATT
11279980 ATATGCATTTTTTTATT
1 ATATG-ATTTTTTTATT
11279997 ATAT-ATTT
1 ATATGATTT
11280005 GAATGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.17
16 5 0.21
17 15 0.62
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.66
Consensus pattern (16 bp):
ATATGATTTTTTTATT
Found at i:11280473 original size:21 final size:21
Alignment explanation
Indices: 11280448--11280489 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11280438 TTTGGTGATT
11280448 TTCAAGTCTTTTGGATTTTGG
1 TTCAAGTCTTTTGGATTTTGG
11280469 TTCAAGTCTTTTGGATTTTGG
1 TTCAAGTCTTTTGGATTTTGG
11280490 GAAATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (21 bp):
TTCAAGTCTTTTGGATTTTGG
Found at i:11284357 original size:39 final size:39
Alignment explanation
Indices: 11284291--11284490 Score: 267
Period size: 39 Copynumber: 5.2 Consensus size: 39
11284281 AAATAGAAAT
* *
11284291 CCGGTGATTATTCGGGCT-TCTGCCTAGCAAGCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* * * *
11284329 CTGGTGATTAATCAGGCTATGTGCCTAGCAGTCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
*
11284368 CCGGTGATTATTCGGGCTATATGCCTAGCAGGCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
** *
11284407 CCAATGATTATTCGGGCTATGTGCCTAGTAGGCTTTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
* ** *
11284446 CCGGTGCTTATTCGGTTTATGTGCCTAGCAGGCTGTGTG
1 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
11284485 CCGGTG
1 CCGGTG
11284491 TATTGAAAAC
Statistics
Matches: 139, Mismatches: 22, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
38 15 0.11
39 124 0.89
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.34
Consensus pattern (39 bp):
CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTG
Found at i:11312907 original size:43 final size:43
Alignment explanation
Indices: 11312855--11312980 Score: 166
Period size: 43 Copynumber: 3.0 Consensus size: 43
11312845 CCACGTTGCT
11312855 TTTTTTTGTCTGAACTTGGATGTTGCTTTCCCAAGTTGCTTTC
1 TTTTTTTGTCTGAACTTGGATGTTGCTTTCCCAAGTTGCTTTC
* * *
11312898 TTTTTTTGTCTGATCTTGAATGTTGTTTTCCCAAGTTGC-TTC
1 TTTTTTTGTCTGAACTTGGATGTTGCTTTCCCAAGTTGCTTTC
* * * *
11312940 TTTTTTTGTCT-AGACATAGATGTTGCCTTCCCACGTTGCTT
1 TTTTTTTGTCTGA-ACTTGGATGTTGCTTTCCCAAGTTGCTT
11312981 GATATTTTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 33 0.46
43 37 0.52
ACGTcount: A:0.13, C:0.19, G:0.17, T:0.51
Consensus pattern (43 bp):
TTTTTTTGTCTGAACTTGGATGTTGCTTTCCCAAGTTGCTTTC
Found at i:11318060 original size:32 final size:33
Alignment explanation
Indices: 11317981--11318060 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
11317971 CTGATTTCCA
* *
11317981 TCTAACTAGCTTATATTTTCTATTTTTTCTTTT
1 TCTAACTAGCTTATATTTTCTATTTTATCATTT
* *
11318014 TATAAATAGCTTATATTTTTCT-TTTTAT-ATTT
1 TCTAACTAGCTTATA-TTTTCTATTTTATCATTT
*
11318046 TCTAACTAGTTTATA
1 TCTAACTAGCTTATA
11318061 CTTAGCTTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 15 0.38
33 18 0.46
34 6 0.15
ACGTcount: A:0.25, C:0.11, G:0.04, T:0.60
Consensus pattern (33 bp):
TCTAACTAGCTTATATTTTCTATTTTATCATTT
Found at i:11319698 original size:24 final size:24
Alignment explanation
Indices: 11319667--11319715 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
11319657 CCACTAAGGG
* * *
11319667 ACTACTGAAATTTAATAACTTCGT
1 ACTACTGAAACTTAAAAACCTCGT
11319691 ACTACTGAAACTTAAAAACCTCGT
1 ACTACTGAAACTTAAAAACCTCGT
11319715 A
1 A
11319716 TTATCTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (24 bp):
ACTACTGAAACTTAAAAACCTCGT
Found at i:11319942 original size:12 final size:12
Alignment explanation
Indices: 11319925--11319950 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11319915 CCCTACTTCA
11319925 TCCAACTTTGGC
1 TCCAACTTTGGC
11319937 TCCAACTTTGGC
1 TCCAACTTTGGC
11319949 TC
1 TC
11319951 TCTGCTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.15, T:0.35
Consensus pattern (12 bp):
TCCAACTTTGGC
Found at i:11320849 original size:42 final size:42
Alignment explanation
Indices: 11320784--11320871 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
11320774 ATCTTCACCT
* *
11320784 AAGAACTTAAATGCATTCATATGCTAGGAAAATAGAGAAATG
1 AAGAACATAAATGCATTCATATGCTAGGAAAATAGAAAAATG
* ** * * *
11320826 AAGAACATAAATGCGTTTGTATGCTTGGGATATAGAAAAATG
1 AAGAACATAAATGCATTCATATGCTAGGAAAATAGAAAAATG
11320868 AAGA
1 AAGA
11320872 GATTTGATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.25
Consensus pattern (42 bp):
AAGAACATAAATGCATTCATATGCTAGGAAAATAGAAAAATG
Found at i:11327728 original size:12 final size:12
Alignment explanation
Indices: 11327711--11327743 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11327701 AAAAACTCTC
11327711 AAATTTCTCCCT
1 AAATTTCTCCCT
*
11327723 AAATTTCTCCTT
1 AAATTTCTCCCT
11327735 AAATTTCTC
1 AAATTTCTC
11327744 AAAGCTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (12 bp):
AAATTTCTCCCT
Found at i:11328906 original size:7 final size:7
Alignment explanation
Indices: 11328894--11328918 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11328884 AGTCGTTTCA
11328894 TATTTAG
1 TATTTAG
11328901 TATTTAG
1 TATTTAG
11328908 TATTTAG
1 TATTTAG
11328915 TATT
1 TATT
11328919 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:11329537 original size:18 final size:18
Alignment explanation
Indices: 11329496--11329530 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11329486 ACCAAGTACG
11329496 TATCCTAACCCTTATATA
1 TATCCTAACCCTTATATA
*
11329514 TATCCTAACCTTTATAT
1 TATCCTAACCCTTATAT
11329531 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:11333267 original size:126 final size:126
Alignment explanation
Indices: 11333044--11333560 Score: 505
Period size: 126 Copynumber: 4.1 Consensus size: 126
11333034 GGCCAAACAT
* * * ** * * *
11333044 GAACTATTATAGAAAAAGAGTGTCTATGTGGGAG-CTTTTTCAGT-AATTTTACTGACAGTGCAT
1 GAACTACTATAGAAAAAGAGCGTCCACATGAGAGTTTTTTTCA-TCAATTTTGCTGACAGTGCAT
* * * *
11333107 CCTGCTTGAAGCATTTTTGACACTATTTGTTTAGAAGCGTCTTCTCAAAATTATTTTTT-AC
65 ACTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
* *
11333168 GAACTACTATAGAAAAAGAGCGTCCACAT-AGGAGCTTTTTTTTATCAATTTTGCTCACAGTGCA
1 GAACTACTATAGAAAAAGAGCGTCCACATGA-GAG-TTTTTTTCATCAATTTTGCTGACAGTGCA
* * *
11333232 TACTACTTAAAGCGTTTTTGACACTATTTGTTTAGAAACGTTTTCTCAAAATTATTTTTTCAA
64 TACTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
* * *
11333295 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGTTTTTTTCATCAATTTTGCTGACAGTGCATT
1 GAACTACTATAGAAAAAGAGCGTCCACATGAGAGTTTTTTTCATCAATTTTGCTGACAGTGCATA
*
11333360 CTGCTTGAAGCGTTTTTGACACTATTTGTTCA-AAATCGTCCTT-TCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAA-CGT-CTTCTCAAAATTATTTTTTCAA
* * * * * * * * * * *
11333421 GAATTACTGTA-AAAAAAAGC--CCACAGGGGAGCTTTTTCCAGT-AAATTTGCTAACAATTCAT
1 GAACTACTATAGAAAAAGAGCGTCCACATGAGAGTTTTTTTCA-TCAATTTTGCTGACAGTGCAT
* * * * * * * * * * *
11333482 CCTGTTTGAAACGTTTTTGACACTATTTATTTAGAACCATTTTTTCAAAATTAGTTTGTCAG
65 ACTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
* *
11333544 GAACTATTCTAGAAAAA
1 GAACTACTATAGAAAAA
11333561 AACCAAAAAT
Statistics
Matches: 330, Mismatches: 51, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
122 2 0.01
123 83 0.25
124 35 0.11
125 12 0.04
126 164 0.50
127 33 0.10
128 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGAGCGTCCACATGAGAGTTTTTTTCATCAATTTTGCTGACAGTGCATA
CTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAA
Found at i:11333665 original size:34 final size:33
Alignment explanation
Indices: 11333627--11333732 Score: 126
Period size: 34 Copynumber: 3.2 Consensus size: 33
11333617 TATTATTTAA
*
11333627 AAAAAACCTAAACCCAAATTTAATTAATTTTCTT
1 AAAAAACCTAAACCTAAATTTAATTAATTTT-TT
11333661 AAAAATA-CTAAACCTAAATTTAATTAATTTATTT
1 AAAAA-ACCTAAACCTAAATTTAATTAATTT-TTT
* ** *
11333695 TAAACCCCTAAACCTTAATTTAATT-ATTTTTT
1 AAAAAACCTAAACCTAAATTTAATTAATTTTTT
11333727 AAAAAA
1 AAAAAA
11333733 GAACACTAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
32 6 0.10
33 4 0.07
34 49 0.80
35 2 0.03
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (33 bp):
AAAAAACCTAAACCTAAATTTAATTAATTTTTT
Found at i:11333806 original size:21 final size:21
Alignment explanation
Indices: 11333777--11333826 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
11333767 TAAAACCTAG
*
11333777 AACCTTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
11333798 AACCCTAAATTATTTTAACAA
1 AACCCTAAATTATTTTAACAA
11333819 AACCCTAA
1 AACCCTAA
11333827 CCTAAAAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
AACCCTAAATTATTTTAACAA
Found at i:11333848 original size:15 final size:15
Alignment explanation
Indices: 11333817--11333854 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
11333807 TTATTTTAAC
*
11333817 AAAACCCT-AACCTA
1 AAAACCCTAAACCAA
11333831 AAAACCCTAAACCAA
1 AAAACCCTAAACCAA
11333846 AAAACCCTA
1 AAAACCCTA
11333855 GGGACTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.55, C:0.34, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:11336143 original size:21 final size:21
Alignment explanation
Indices: 11336111--11336179 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
11336101 AATGTTTTAT
*
11336111 AATATATATTTTTAAAATTTTA
1 AATAT-TATTTTTAAAATATTA
11336133 AATATTATTTTT-AAATATTA
1 AATATTATTTTTAAAATATTA
*
11336153 AATA-TATTTTTAATAATATAA
1 AATATTATTTTTAA-AATATTA
11336174 AATATT
1 AATATT
11336180 TAAATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.17
20 12 0.29
21 17 0.40
22 6 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATATTATTTTTAAAATATTA
Found at i:11336146 original size:13 final size:13
Alignment explanation
Indices: 11336128--11336152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11336118 ATTTTTAAAA
11336128 TTTTAAATATTAT
1 TTTTAAATATTAT
11336141 TTTTAAATATTA
1 TTTTAAATATTA
11336153 AATATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:11336178 original size:19 final size:19
Alignment explanation
Indices: 11336108--11336180 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
11336098 TGAAATGTTT
11336108 TATAATATATATTTTTAAAA
1 TATAA-ATATATTTTTAAAA
*
11336128 TTTTAAATATTATTTTT-AAA
1 -TATAAATA-TATTTTTAAAA
11336148 TATTAAATATATTTTTAATAA
1 TA-TAAATATATTTTTAA-AA
11336169 TATAAA-ATATTT
1 TATAAATATATTT
11336181 AAATATTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
19 14 0.30
20 17 0.37
21 15 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAAATATATTTTTAAAA
Found at i:11336185 original size:18 final size:19
Alignment explanation
Indices: 11336130--11336185 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
11336120 TTTTAAAATT
11336130 TTAAATATTATTTTTAAAT-A
1 TTAAATA-TA-TTTTAAATAA
*
11336150 TTAAATATATTTTTAATAA
1 TTAAATATATTTTAAATAA
11336169 TATAAA-ATA-TTTAAATA
1 T-TAAATATATTTTAAATA
11336186 TTTTAAAGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 14 0.44
19 7 0.22
20 11 0.34
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAATATATTTTAAATAA
Found at i:11336238 original size:17 final size:16
Alignment explanation
Indices: 11336202--11336256 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
11336192 AGATATGACC
11336202 TTTAAAATTTATTATTAAT
1 TTTAAAATTT-TTA--AAT
*
11336221 TTTATAATATTTTAAAT
1 TTTAAAAT-TTTTAAAT
*
11336238 TTTAAAATTTTTTAAT
1 TTTAAAATTTTTAAAT
11336254 TTT
1 TTT
11336257 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 10 0.31
17 10 0.31
19 10 0.31
20 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAAATTTTTAAAT
Found at i:11336257 original size:17 final size:16
Alignment explanation
Indices: 11336202--11336256 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
11336192 AGATATGACC
11336202 TTTAAAATTTATTATTAAT
1 TTTAAAA-TT-TT-TTAAT
* *
11336221 TTTATAATATTTTAAAT
1 TTTAAAAT-TTTTTAAT
11336238 TTTAAAATTTTTTAAT
1 TTTAAAATTTTTTAAT
11336254 TTT
1 TTT
11336257 TTTAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 10 0.32
17 11 0.35
18 3 0.10
19 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAAAATTTTTTAAT
Found at i:11336274 original size:17 final size:17
Alignment explanation
Indices: 11336202--11336283 Score: 51
Period size: 19 Copynumber: 4.7 Consensus size: 17
11336192 AGATATGACC
*
11336202 TTTAAAATTTATTATTAAT
1 TTTAAAATATATTATT--T
* * **
11336221 TTTATAATATTTTAAAT
1 TTTAAAATATATTATTT
* *
11336238 TTTAAAATTTTTTAATTTT
1 TTTAAAATATATT-A-TTT
11336257 TTTAAAATATATTA-TT
1 TTTAAAATATATTATTT
11336273 TTT-AAATATAT
1 TTTAAAATATAT
11336284 GAGTGCCAAC
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
15 8 0.16
16 5 0.10
17 12 0.24
18 2 0.04
19 23 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAAAATATATTATTT
Found at i:11336275 original size:19 final size:19
Alignment explanation
Indices: 11336237--11336275 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
11336227 ATATTTTAAA
* *
11336237 TTTTAAAATTTTTTAATTT
1 TTTTAAAATATATTAATTT
11336256 TTTTAAAATATATT-ATTT
1 TTTTAAAATATATTAATTT
11336274 TT
1 TT
11336276 AAATATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAAAATATATTAATTT
Found at i:11337167 original size:17 final size:18
Alignment explanation
Indices: 11337145--11337181 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11337135 AGTCATCTTT
*
11337145 AAAAAT-AATATATTTAA
1 AAAAATAAAAATATTTAA
11337162 AAAAATAAAAATATTTAA
1 AAAAATAAAAATATTTAA
11337180 AA
1 AA
11337182 TATTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATAAAAATATTTAA
Done.