Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 35 of 117
Found at i:8839370 original size:18 final size:18
Alignment explanation
Indices: 8839335--8839384 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
8839325 ATTAAAATTA
*
8839335 AATTACAAAAAACAAAATC
1 AATTACAAAAAA-GAAATC
8839354 AATTACAAAAAAGAAATC
1 AATTACAAAAAAGAAATC
8839372 AATTACAAAAAAG
1 AATTACAAAAAAG
8839385 GCAGAAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.68, C:0.12, G:0.04, T:0.16
Consensus pattern (18 bp):
AATTACAAAAAAGAAATC
Found at i:8840465 original size:20 final size:20
Alignment explanation
Indices: 8840428--8840470 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
8840418 GAAAATTGAT
* * *
8840428 CCAAACCGCCCATGAACTAC
1 CCAAACCACACATAAACTAC
*
8840448 CCAAACCACACATAAACTGC
1 CCAAACCACACATAAACTAC
8840468 CCA
1 CCA
8840471 GACTGCATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.44, G:0.07, T:0.09
Consensus pattern (20 bp):
CCAAACCACACATAAACTAC
Found at i:8840546 original size:16 final size:16
Alignment explanation
Indices: 8840523--8840562 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
8840513 GTCTGGTTCA
8840523 ATTTTTTTATTTATTTT
1 ATTTTTTTATTTA-TTT
8840540 ATTTTTTTATTTATTT
1 ATTTTTTTATTTATTT
8840556 ATTTTTT
1 ATTTTTT
8840563 ACTATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (16 bp):
ATTTTTTTATTTATTT
Found at i:8840547 original size:8 final size:8
Alignment explanation
Indices: 8840523--8840562 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
8840513 GTCTGGTTCA
8840523 ATTTTTTT
1 ATTTTTTT
8840531 ATTTATTTT
1 ATTT-TTTT
8840540 ATTTTTTT
1 ATTTTTTT
*
8840548 ATTTATTT
1 ATTTTTTT
8840556 ATTTTTT
1 ATTTTTT
8840563 ACTATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.82
Consensus pattern (8 bp):
ATTTTTTT
Found at i:8840570 original size:17 final size:16
Alignment explanation
Indices: 8840525--8840575 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
8840515 CTGGTTCAAT
8840525 TTTTTTAT-TTATTTTA
1 TTTTTTATATTA-TTTA
8840541 TTTTTT-TATTTATTTA
1 TTTTTTATA-TTATTTA
8840557 TTTTTTACTATTA-TTA
1 TTTTTTA-TATTATTTA
8840573 TTT
1 TTT
8840576 GTTTTATACA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.03
16 22 0.71
17 6 0.19
18 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTATATTATTTA
Found at i:8840570 original size:21 final size:21
Alignment explanation
Indices: 8840528--8840582 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
8840518 GTTCAATTTT
* *
8840528 TTTATTTATTTTATTTTTTTA
1 TTTATTTATTTTATTCTATTA
8840549 TTTATTTATTTT-TTACTATTA
1 TTTATTTATTTTATT-CTATTA
*
8840570 -TTATTTGTTTTAT
1 TTTATTTATTTTAT
8840583 ACATTTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTATTTATTTTATTCTATTA
Found at i:8840573 original size:16 final size:14
Alignment explanation
Indices: 8840527--8840582 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 14
8840517 GGTTCAATTT
8840527 TTTTATTTATT-TTA
1 TTTT-TTTATTATTA
8840541 TTTTTTTATTTATTTA
1 TTTTTTTA-TTA-TTA
8840557 TTTTTTACTATTATTA
1 TTTTTT--TATTATTA
8840573 TTTGTTTTAT
1 TTT-TTTTAT
8840583 ACATTTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.11
14 6 0.17
15 3 0.08
16 15 0.42
17 6 0.17
18 2 0.06
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTTTTATTATTA
Found at i:8840904 original size:17 final size:16
Alignment explanation
Indices: 8840877--8840908 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8840867 ACTAAAAACT
8840877 ATTAATAAAAATAAAA
1 ATTAATAAAAATAAAA
8840893 ATTAACTAAAAATAAA
1 ATTAA-TAAAAATAAA
8840909 TAAAAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
ATTAATAAAAATAAAA
Found at i:8840918 original size:20 final size:21
Alignment explanation
Indices: 8840885--8840925 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
8840875 CTATTAATAA
*
8840885 AAATAAAAATTAACTAAAAAT
1 AAATAAAAATTAACAAAAAAT
8840906 AAATAAAAA-TAACAAAAAAT
1 AAATAAAAATTAACAAAAAAT
8840926 TATGGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAAAATTAACAAAAAAT
Found at i:8841109 original size:18 final size:19
Alignment explanation
Indices: 8841081--8841130 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
8841071 ATTTTCTTTT
8841081 AAAAATAAATAATAA-TTAA
1 AAAAAT-AATAATAATTTAA
*
8841100 AAAACTAATAA-AATTTAA
1 AAAAATAATAATAATTTAA
8841118 AAAAATAA-AATAA
1 AAAAATAATAATAA
8841131 AATGTGTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 4 0.15
18 18 0.67
19 5 0.19
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATAATAATAATTTAA
Found at i:8841124 original size:15 final size:15
Alignment explanation
Indices: 8841079--8841132 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 15
8841069 CTATTTTCTT
8841079 TTAAAAATAAATAATAA
1 TTAAAAA-AAATAA-AA
8841096 TTAAAAAACTAATAAAA
1 TTAAAAAA--AATAAAA
*
8841113 TTTAAAAAAATAAAA
1 TTAAAAAAAATAAAA
8841128 -TAAAA
1 TTAAAA
8841133 TGTGTGCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 4 0.12
15 7 0.21
16 1 0.03
17 16 0.48
18 5 0.15
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
TTAAAAAAAATAAAA
Found at i:8842695 original size:3 final size:3
Alignment explanation
Indices: 8842689--8842719 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8842679 AATTTTTTTT
8842689 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8842720 AAAGAACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8845854 original size:43 final size:44
Alignment explanation
Indices: 8845793--8845880 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
8845783 CATCAAAGAT
*
8845793 AGCCCATTTTTACTTCAC-AAAAAGAAGACATAAGAATTAGAGC
1 AGCCCACTTTTACTTCACAAAAAAGAAGACATAAGAATTAGAGC
*
8845836 AGCCCACTTTTCCTTCACAAAAAAGAAGACATAAGAATTAGAGC
1 AGCCCACTTTTACTTCACAAAAAAGAAGACATAAGAATTAGAGC
8845880 A
1 A
8845881 CTTACGCATC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 16 0.38
44 26 0.62
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (44 bp):
AGCCCACTTTTACTTCACAAAAAAGAAGACATAAGAATTAGAGC
Found at i:8847034 original size:16 final size:17
Alignment explanation
Indices: 8847015--8847050 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8847005 AAATTATTTT
8847015 TATAATAATAATA-TAA
1 TATAATAATAATATTAA
*
8847031 TATAATATTAATATTAA
1 TATAATAATAATATTAA
8847048 TAT
1 TAT
8847051 TAGTCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TATAATAATAATATTAA
Found at i:8847356 original size:29 final size:30
Alignment explanation
Indices: 8847292--8847360 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 30
8847282 AGTCATATAC
*
8847292 TTATATATAT-TCGTATTAATCGTGTCTAT
1 TTATATATATCTCGTATTAATCGTATCTAT
* * *
8847321 TTGTATATATCT-GTATTAATCGTATTTGT
1 TTATATATATCTCGTATTAATCGTATCTAT
8847350 TTATATATATC
1 TTATATATATC
8847361 CGAGTTATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 33 0.97
30 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.54
Consensus pattern (30 bp):
TTATATATATCTCGTATTAATCGTATCTAT
Found at i:8855033 original size:125 final size:125
Alignment explanation
Indices: 8854811--8855041 Score: 338
Period size: 125 Copynumber: 1.8 Consensus size: 125
8854801 CATCGTATAT
* * * * *
8854811 CACTTGAAACACAAGGCAAGCAACTACAGTTTATCCATAAAGTGATACTAGCATACGAGAGGGTG
1 CACTTCAAACACAAGGCAAGCAAATACAATTTATCCATAAAATGATACTAGCATACAAGAGGGTG
*
8854876 AACAGCACACAGCAGACAACTTCTAATCAAAACAACATCTAACAGATGTTAAATAGTACA
66 AACAGCACACAGCAGAAAACTTCTAATCAAAACAACATCTAACAGATGTTAAATAGTACA
* *
8854936 CACTTCAAACACAAGGCGAGCAAATATAATTTATCCATAAAATGATA-TCAGCATACAAGAGGGT
1 CACTTCAAACACAAGGCAAGCAAATACAATTTATCCATAAAATGATACT-AGCATACAAGAGGGT
* ** *
8855000 GATCAGCACGTAGCAGAAAACTTCTGATCAAAACAACATCTA
65 GAACAGCACACAGCAGAAAACTTCTAATCAAAACAACATCTA
8855042 CAGCTAGTTG
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
124 1 0.01
125 92 0.99
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (125 bp):
CACTTCAAACACAAGGCAAGCAAATACAATTTATCCATAAAATGATACTAGCATACAAGAGGGTG
AACAGCACACAGCAGAAAACTTCTAATCAAAACAACATCTAACAGATGTTAAATAGTACA
Found at i:8858841 original size:4 final size:4
Alignment explanation
Indices: 8858832--8858958 Score: 59
Period size: 4 Copynumber: 31.8 Consensus size: 4
8858822 NNNNNNNNNN
* * * * * *
8858832 ATTT ATTT A-TT A-TT A-TT ATGT ATTA ATAT ATGT ATAT CTTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * * * *
8858877 ATTT ATTT ATTT A-TT ATTTT CTTT TTTT ATTT ATTT TTTT CTGTT A-AT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT AT-TT ATTT
8858925 ATTT ATATGT ATTT ATTT A-TT AGTTAT ATTT ATT
1 ATTT AT-T-T ATTT ATTT ATTT A-TT-T ATTT ATT
8858959 ATTATTATTA
Statistics
Matches: 95, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
3 17 0.18
4 64 0.67
5 9 0.09
6 5 0.05
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:8859062 original size:25 final size:24
Alignment explanation
Indices: 8859006--8859068 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
8858996 TGGATTTATC
*
8859006 TTATTTTATTTTTTTAATTATCTG
1 TTATTTTATTTTATTAATTATCTG
*
8859030 TTAATTTTATTTTATTCATGTATCTG
1 TT-ATTTTATTTTATTAAT-TATCTG
8859056 --ATTTT-TTTTATTA
1 TTATTTTATTTTATTA
8859069 TCTGATTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 7 0.21
23 5 0.15
24 2 0.06
25 14 0.41
26 6 0.18
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (24 bp):
TTATTTTATTTTATTAATTATCTG
Found at i:8859572 original size:20 final size:20
Alignment explanation
Indices: 8859547--8859588 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
8859537 GTGAACTTCC
*
8859547 GATGAAATTTTTCAGATTCT
1 GATGAAATTTTTCAGAATCT
*
8859567 GATGAAATTTTTTAGAATCT
1 GATGAAATTTTTCAGAATCT
8859587 GA
1 GA
8859589 CGAACATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (20 bp):
GATGAAATTTTTCAGAATCT
Found at i:8859953 original size:21 final size:20
Alignment explanation
Indices: 8859925--8859976 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
8859915 TTTTTTTGGA
*
8859925 ATTTTTTTATTTATTTGTTT
1 ATTTTTTTATTTATTTATTT
8859945 ATTTGTTTTATTTATTTATTT
1 ATTT-TTTTATTTATTTATTT
*
8859966 ATTTATTTATT
1 ATTTTTTTATT
8859977 AGATTAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.34
21 19 0.66
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (20 bp):
ATTTTTTTATTTATTTATTT
Found at i:8859992 original size:4 final size:4
Alignment explanation
Indices: 8859925--8859976 Score: 68
Period size: 4 Copynumber: 12.8 Consensus size: 4
8859915 TTTTTTTGGA
* * *
8859925 ATTT TTTT ATTT ATTT GTTT ATTT GTTTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATTT
8859974 ATT
1 ATT
8859977 AGATTAGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
4 38 0.93
5 3 0.07
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (4 bp):
ATTT
Found at i:8860015 original size:5 final size:5
Alignment explanation
Indices: 8859998--8860085 Score: 65
Period size: 5 Copynumber: 16.8 Consensus size: 5
8859988 ATTTAAAATT
* *
8859998 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- CTTTA TTTT-
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTTA
*
8860045 TTTTA TCTTTA -TTTA TTTTCA CTTTTA TTTTG TTTTA TTTT
1 TTTTA T-TTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTT
8860086 CTTTAAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
4 11 0.16
5 28 0.41
6 25 0.37
7 4 0.06
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:8860085 original size:15 final size:14
Alignment explanation
Indices: 8859996--8860085 Score: 58
Period size: 16 Copynumber: 5.8 Consensus size: 14
8859986 TTATTTAAAA
8859996 TTTTTTATCTTTATTT
1 TTTTTTAT-TTTA-TT
8860012 TATTTTTATTTT-TGT
1 T-TTTTTATTTTAT-T
8860027 TTTACTTT-TCTTTATT
1 TTT--TTTAT-TTTATT
8860043 TTTTTTATCTTTATT
1 TTTTTTAT-TTTATT
*
8860058 TATTTTCACTTTTATT
1 T-TTTTTA-TTTTATT
8860074 TTGTTTTATTTT
1 TT-TTTTATTTT
8860086 CTTTAAATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 21
0.73 0.02 0.25
Matches are distributed among these distances:
14 6 0.10
15 17 0.27
16 30 0.48
17 9 0.15
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTTATTTTATT
Found at i:8860173 original size:58 final size:58
Alignment explanation
Indices: 8860099--8860465 Score: 398
Period size: 58 Copynumber: 6.2 Consensus size: 58
8860089 TAAATAAAAA
*
8860099 TCAAAAAAATATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATT
1 TCAAAAAAAGA-TTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
* *
8860157 TCAAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATCAAAATTT
1 TCAAAAAAA-GATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAA-TT
* * * * *
8860217 TCAAAAAAATATTTTTTTAGGAAAAGTTTAAAGTATCAATTTTTCTT-AAAATTAAAATT
1 TCAAAAAAAGA--TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
* * * *
8860276 TCAAAAAAAGGTTTTGATGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAGTT
1 TCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
* * * * *
8860334 TCTAAAAAACATCTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTTT
1 TCAAAAAAAGAT-TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAA---ATT
* * * * *
8860396 TCAAAAAAAATATTTTTGACGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTT
1 TC-AAAAAAAGA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
8860456 TCCAAAAAAA
1 T-CAAAAAAA
8860466 ATATATATAT
Statistics
Matches: 265, Mismatches: 30, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
57 30 0.11
58 65 0.25
59 57 0.22
60 30 0.11
61 31 0.12
62 4 0.02
63 47 0.18
64 1 0.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (58 bp):
TCAAAAAAAGATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATCAAAATT
Found at i:8860228 original size:118 final size:118
Alignment explanation
Indices: 8860099--8860507 Score: 468
Period size: 118 Copynumber: 3.4 Consensus size: 118
8860089 TAAATAAAAA
8860099 TCAAAAAAATATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAA
1 TCAAAAAAATATTTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAA
* *
8860163 AAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTAAAAATCAAAATTT
66 AAA-GGTTTTGACGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTT
** * * *
8860217 TCAAAAAAATATTTTTTTAGGAAAAGTTTAAAGTATCAATTTTTCTTAAAATTAAAATTTCAAAA
1 TCAAAAAAATATTTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAA
* * *
8860282 AAAGGTTTTGATGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATC-AAAGTT
66 AAAGGTTTTGACGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTT
* * * * * *
8860334 TCTAAAAAACATCTTT-GAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTTTTC
1 TCAAAAAAATATTTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA---ATTTC
** *
8860398 AAAAAAAATATTTTTGACGAAAAGTTGAAAGTATCAATTTT-TCTTGAAAATCAAAGTTT
62 -AAAAAAA-GGTTTTGACGAAAAGTTGAAAGTATCAATTTTCT-TTGAAAATCAAAATTT
*
8860457 CCAAAAAAAATATATATATTTTTGG-GGAAAAGTTGAAAGTATCAATTTTCC
1 TC----AAAA-A-A-ATATTTTTGGAGGAAAAGTTGAAAGTATCAATTTTCC
8860508 CTACACAAGA
Statistics
Matches: 244, Mismatches: 30, Indels: 22
0.82 0.10 0.07
Matches are distributed among these distances:
116 30 0.12
117 21 0.09
118 57 0.23
119 45 0.18
120 4 0.02
121 7 0.03
122 38 0.16
123 5 0.02
127 3 0.01
128 1 0.00
129 1 0.00
130 31 0.13
131 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.36
Consensus pattern (118 bp):
TCAAAAAAATATTTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAA
AAAGGTTTTGACGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTT
Found at i:8862468 original size:20 final size:20
Alignment explanation
Indices: 8862431--8862473 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
8862421 GAAAATTGAT
* * *
8862431 CCAAACCGCCCATGAACTAC
1 CCAAACCACACATAAACTAC
*
8862451 CCAAACCACACATAAACTGC
1 CCAAACCACACATAAACTAC
8862471 CCA
1 CCA
8862474 GACTACATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.44, G:0.07, T:0.09
Consensus pattern (20 bp):
CCAAACCACACATAAACTAC
Found at i:8862546 original size:8 final size:8
Alignment explanation
Indices: 8862535--8862569 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
8862525 AATTTTTTTA
8862535 TTTTATTT
1 TTTTATTT
8862543 TTTTATTT
1 TTTTATTT
8862551 TTTTATTT
1 TTTTATTT
*
8862559 ATTTATTT
1 TTTTATTT
8862567 TTT
1 TTT
8862570 ACTATTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTATTT
Found at i:8862580 original size:24 final size:25
Alignment explanation
Indices: 8862531--8862589 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
8862521 GTTCAATTTT
* *
8862531 TTTATTTTATTTTTTTATTTTTTTA
1 TTTATTTTATTTTTTTATATTATTA
8862556 TTTA-TTTA-TTTTTTACTATTATTA
1 TTTATTTTATTTTTTTA-TATTATTA
*
8862580 TTTGTTTTAT
1 TTTATTTTAT
8862590 ACATTTGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 7 0.25
24 13 0.46
25 8 0.29
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTATTTTATTTTTTTATATTATTA
Found at i:8862911 original size:17 final size:16
Alignment explanation
Indices: 8862884--8862915 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
8862874 ACTAAAAACT
8862884 ATTAATAAAAATAAAA
1 ATTAATAAAAATAAAA
8862900 ATTAACTAAAAATAAA
1 ATTAA-TAAAAATAAA
8862916 TAAAAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
ATTAATAAAAATAAAA
Found at i:8862925 original size:20 final size:21
Alignment explanation
Indices: 8862892--8862932 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
8862882 CTATTAATAA
*
8862892 AAATAAAAATTAACTAAAAAT
1 AAATAAAAATTAACAAAAAAT
8862913 AAATAAAAA-TAACAAAAAAT
1 AAATAAAAATTAACAAAAAAT
8862933 TATGGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATAAAAATTAACAAAAAAT
Found at i:8863112 original size:19 final size:19
Alignment explanation
Indices: 8863090--8863142 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
8863080 ATTTTCTTTT
8863090 AAAAATAAATAATAA-TTAA
1 AAAAATAAATAA-AATTTAA
* *
8863109 AAAACT-AATAAAATTTTA
1 AAAAATAAATAAAATTTAA
8863127 AAAAATAAAATAAAAT
1 AAAAAT-AAATAAAAT
8863143 GTGTGCATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 13 0.46
19 5 0.18
20 8 0.29
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAAAATAAATAAAATTTAA
Found at i:8864719 original size:3 final size:3
Alignment explanation
Indices: 8864711--8864745 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8864701 TGAAATGCAA
8864711 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8864746 CAATATTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8867877 original size:43 final size:44
Alignment explanation
Indices: 8867816--8867903 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
8867806 CATCAAAGAT
*
8867816 AGCCCATTTTTACTTCAC-AAAAAGAAGACATAAGAATTAGAGC
1 AGCCCACTTTTACTTCACAAAAAAGAAGACATAAGAATTAGAGC
*
8867859 AGCCCACTTTTCCTTCACAAAAAAGAAGACATAAGAATTAGAGC
1 AGCCCACTTTTACTTCACAAAAAAGAAGACATAAGAATTAGAGC
8867903 A
1 A
8867904 CTTACGCATC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 16 0.38
44 26 0.62
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.22
Consensus pattern (44 bp):
AGCCCACTTTTACTTCACAAAAAAGAAGACATAAGAATTAGAGC
Found at i:8869063 original size:17 final size:17
Alignment explanation
Indices: 8869043--8869079 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8869033 AATTATTTTT
8869043 TATAATAATAATATAAA
1 TATAATAATAATATAAA
* *
8869060 TATAATATTAATATTAA
1 TATAATAATAATATAAA
8869077 TAT
1 TAT
8869080 TAGTCTTATA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAATAATAATATAAA
Found at i:8869393 original size:29 final size:30
Alignment explanation
Indices: 8869325--8869393 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 30
8869315 AGTCATATAC
8869325 TTATATATAT-TCGTATTAATCGTGTCTAT
1 TTATATATATCTCGTATTAATCGTGTCTAT
* * *
8869354 TTGTATATATCT-GTATTAATCGTGTTTGT
1 TTATATATATCTCGTATTAATCGTGTCTAT
8869383 TTATATATATC
1 TTATATATATC
8869394 CGAGTTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 34 0.97
30 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.54
Consensus pattern (30 bp):
TTATATATATCTCGTATTAATCGTGTCTAT
Found at i:8877060 original size:125 final size:125
Alignment explanation
Indices: 8876838--8877068 Score: 336
Period size: 125 Copynumber: 1.8 Consensus size: 125
8876828 CATCGTATAT
* * * * * *
8876838 CACTTGAAACACAAGGCAAGCAACTACAGTTTATCCATAAAGTGATACTAGCATACGAGAGGGTG
1 CACTTCAAACACAAGGCAAGCAAATACAATTTATCCATAAAATGATACCAGCATACAAGAGGGTG
*
8876903 AACAGCACACAGCAGACAACTTCTAATCAAAACAACATCTAACAGATGTTAAATAGTACA
66 AACAGCACACAGCAGAAAACTTCTAATCAAAACAACATCTAACAGATGTTAAATAGTACA
* *
8876963 CACTTCAAACACAAGGCGAGCAAATATAATTTATCCATAAAATGATACCAGCATACAAGAGGGTG
1 CACTTCAAACACAAGGCAAGCAAATACAATTTATCCATAAAATGATACCAGCATACAAGAGGGTG
* *** *
8877028 ATCAGCATGTAGCAGAAAACTTCTGATCAAAACAACATCTA
66 AACAGCACACAGCAGAAAACTTCTAATCAAAACAACATCTA
8877069 CAGCTAGTTG
Statistics
Matches: 92, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
125 92 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.20
Consensus pattern (125 bp):
CACTTCAAACACAAGGCAAGCAAATACAATTTATCCATAAAATGATACCAGCATACAAGAGGGTG
AACAGCACACAGCAGAAAACTTCTAATCAAAACAACATCTAACAGATGTTAAATAGTACA
Found at i:8894398 original size:23 final size:22
Alignment explanation
Indices: 8894353--8894394 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8894343 TTTTTTTTTT
*
8894353 TATATTCCTTTATTTATTATAA
1 TATATTCCTTTAGTTATTATAA
8894375 TATATTCCCTTTAGTT-TTAT
1 TATATT-CCTTTAGTTATTAT
8894395 TAATTCATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.26, C:0.12, G:0.02, T:0.60
Consensus pattern (22 bp):
TATATTCCTTTAGTTATTATAA
Found at i:8897677 original size:15 final size:15
Alignment explanation
Indices: 8897657--8897706 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
8897647 TGGTAAATAG
8897657 AAAAATTAAAAGATA
1 AAAAATTAAAAGATA
*
8897672 AAAAATTAAAAGAAA
1 AAAAATTAAAAGATA
***
8897687 AAAAAAGGAAAGATA
1 AAAAATTAAAAGATA
8897702 AAAAA
1 AAAAA
8897707 AAAAATTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (15 bp):
AAAAATTAAAAGATA
Found at i:8897707 original size:15 final size:15
Alignment explanation
Indices: 8897664--8897711 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
8897654 TAGAAAAATT
**
8897664 AAAAGATAAAAAATT
1 AAAAGATAAAAAAAG
*
8897679 AAAAGAAAAAAAAAG
1 AAAAGATAAAAAAAG
*
8897694 GAAAGATAAAAAAA-
1 AAAAGATAAAAAAAG
8897708 AAAA
1 AAAA
8897712 TTTCATTGGT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.08
Consensus pattern (15 bp):
AAAAGATAAAAAAAG
Found at i:8898766 original size:24 final size:24
Alignment explanation
Indices: 8898684--8898766 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
8898674 TATTAAAATA
*
8898684 TTTATATTAATATGTTTAAATTTATT
1 TTTATATTAATAT-TTTTAATTTA-T
* * **
8898710 TTTAAATTAAAATAATT-ATTTAT
1 TTTATATTAATATTTTTAATTTAT
* *
8898733 TGTTACATTAATATTTTTAATGTAT
1 T-TTATATTAATATTTTTAATTTAT
8898758 TTTATATTA
1 TTTATATTA
8898767 TTTATTAATA
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
23 2 0.05
24 24 0.55
25 7 0.16
26 11 0.25
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTATATTAATATTTTTAATTTAT
Found at i:8901690 original size:20 final size:21
Alignment explanation
Indices: 8901662--8901701 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8901652 CTTTGATAAA
8901662 AAATAAAAA-TAAAAAAAATT
1 AAATAAAAACTAAAAAAAATT
*
8901682 AAATCAAAACCTAAAAAAAA
1 AAAT-AAAAACTAAAAAAAA
8901702 ATTTGTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (21 bp):
AAATAAAAACTAAAAAAAATT
Found at i:8902477 original size:16 final size:16
Alignment explanation
Indices: 8902452--8902482 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8902442 TTTTAGATTT
8902452 ACAAGAACTCATATTC
1 ACAAGAACTCATATTC
*
8902468 ACAAGGACTCATATT
1 ACAAGAACTCATATT
8902483 TGTAAAATTT
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:0.23, G:0.10, T:0.26
Consensus pattern (16 bp):
ACAAGAACTCATATTC
Found at i:8902511 original size:18 final size:18
Alignment explanation
Indices: 8902488--8902526 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
8902478 ATATTTGTAA
*
8902488 AATTTTCATACTCGCAAG
1 AATTTTCATACTCACAAG
*
8902506 AATTTTCATATTCACAAG
1 AATTTTCATACTCACAAG
8902524 AAT
1 AAT
8902527 AGAATATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (18 bp):
AATTTTCATACTCACAAG
Found at i:8902569 original size:16 final size:16
Alignment explanation
Indices: 8902541--8902581 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
8902531 TATTTGAATT
8902541 TCAGATTCACAAGAAC
1 TCAGATTCACAAGAAC
* *
8902557 TCATATTCGCAAGAAC
1 TCAGATTCACAAGAAC
8902573 TCAGATTCA
1 TCAGATTCA
8902582 TAAAAATTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (16 bp):
TCAGATTCACAAGAAC
Found at i:8902843 original size:22 final size:22
Alignment explanation
Indices: 8902806--8902921 Score: 60
Period size: 22 Copynumber: 5.2 Consensus size: 22
8902796 TTCATATTTG
8902806 AAAAA-TTC-AAGAATTCACATC
1 AAAAATTTCAAAG-ATTCACATC
* *
8902827 AAAAATTTCAAAGATTCATACC
1 AAAAATTTCAAAGATTCACATC
* * **
8902849 CAAAAGTT-AAAGATTTTTCATTC
1 AAAAATTTCAAAGA-TTCACA-TC
* **
8902872 GAAAAACTT-AGGGATTCACATC
1 -AAAAATTTCAAAGATTCACATC
* *
8902894 AAACATTTCAAAGATTCTCATTC
1 AAAAATTTCAAAGATTCACA-TC
8902917 AAAAA
1 AAAAA
8902922 ACTTTATGAT
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
21 16 0.24
22 29 0.43
23 14 0.21
24 9 0.13
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (22 bp):
AAAAATTTCAAAGATTCACATC
Found at i:8902916 original size:45 final size:46
Alignment explanation
Indices: 8902848--8903166 Score: 155
Period size: 46 Copynumber: 6.9 Consensus size: 46
8902838 AGATTCATAC
* * *
8902848 CCAAAAGTT-AAAGATTTTTCATTCGAAAAAC-TTAGGGA-TTCACAT
1 CCAAAATTTCAAAGA-TTCTCATTCAAAAAACTTTA-GGATTTCACAT
*
8902893 -CAAACATTTCAAAGATTCTCATTCAAAAAACTTTATGATTTCACAT
1 CCAAA-ATTTCAAAGATTCTCATTCAAAAAACTTTAGGATTTCACAT
* * * **
8902939 CCAAAATTTTAAATATTCTCATTCAAAAAA-TTTAAGGGTTTTGC-T
1 CCAAAATTTCAAAGATTCTCATTCAAAAAACTTT-AGGATTTCACAT
* * *
8902984 CTCAAAATTTAAAAGATTCGCATTCAATAAACTTTAAACTTTAGAGATTT-ATGAT
1 C-CAAAATTTCAAAGATTCTCATTC---AAA----AAACTTTAG-GATTTCA-CAT
* ** * **
8903039 -CAAAATTTTAAAGATTCTCATTTGAAAAATTTTAAGG-TTTTGCAT
1 CCAAAATTTCAAAGATTCTCATTCAAAAAACTTT-AGGATTTCACAT
* * *
8903084 CCCAAATTTCAAAGA---T-ATTCGATAAACTTTAGAGA-TTCACAAT
1 CCAAAATTTCAAAGATTCTCATTCAAAAAACTTTAG-GATTTCAC-AT
* * *
8903127 -CAAAATTTCAAAGATTTTTATTCAAAAAATTTTAGTGATT
1 CCAAAATTTCAAAGATTCTCATTCAAAAAACTTTAG-GATT
8903167 ATACCTAAAG
Statistics
Matches: 210, Mismatches: 35, Indels: 56
0.70 0.12 0.19
Matches are distributed among these distances:
41 2 0.01
42 28 0.13
43 3 0.01
44 4 0.02
45 30 0.14
46 98 0.47
47 7 0.03
49 3 0.01
50 2 0.01
53 25 0.12
54 7 0.03
55 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (46 bp):
CCAAAATTTCAAAGATTCTCATTCAAAAAACTTTAGGATTTCACAT
Found at i:8902971 original size:24 final size:24
Alignment explanation
Indices: 8902898--8902971 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
8902888 CACATCAAAC
* *
8902898 ATTTCAAAGATTCTCATTCAAAAA
1 ATTTTAAATATTCTCATTCAAAAA
* * * *
8902922 ACTTTATGAT-TTCACA-TC-CAAA
1 ATTTTA-AATATTCTCATTCAAAAA
8902944 ATTTTAAATATTCTCATTCAAAAA
1 ATTTTAAATATTCTCATTCAAAAA
8902968 ATTT
1 ATTT
8902972 AAGGGTTTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
21 2 0.06
22 13 0.36
23 4 0.11
24 16 0.44
25 1 0.03
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.39
Consensus pattern (24 bp):
ATTTTAAATATTCTCATTCAAAAA
Found at i:8902972 original size:23 final size:23
Alignment explanation
Indices: 8902898--8902973 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
8902888 CACATCAAAC
*
8902898 ATTTCAAAGATTCTCATTCAAAAA
1 ATTT-AAATATTCTCATTCAAAAA
* * *
8902922 ACTTTATGAT-TTCACA-TCCAAAA
1 A-TTTA-AATATTCTCATTCAAAAA
*
8902945 TTTTAAATATTCTCATTCAAAAA
1 ATTTAAATATTCTCATTCAAAAA
8902968 ATTTAA
1 ATTTAA
8902974 GGGTTTTGCT
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
21 2 0.05
22 9 0.23
23 17 0.44
24 7 0.18
25 4 0.10
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (23 bp):
ATTTAAATATTCTCATTCAAAAA
Found at i:8904742 original size:13 final size:13
Alignment explanation
Indices: 8904685--8904743 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
8904675 CATTTTCATC
8904685 TTTTTTTC-CTTT
1 TTTTTTTCTCTTT
* *
8904697 TTAGTTTTCT-TTCA
1 TT-TTTTTCTCTT-T
8904711 TTTTTTTCTCTTT
1 TTTTTTTCTCTTT
8904724 TTTTTTTCT-TATT
1 TTTTTTTCTCT-TT
8904737 TTTTTTT
1 TTTTTTT
8904744 TTTTATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
12 3 0.08
13 31 0.82
14 4 0.11
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTTTTCTCTTT
Found at i:8904743 original size:26 final size:26
Alignment explanation
Indices: 8904685--8904741 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
8904675 CATTTTCATC
8904685 TTTTTTTCCTTTTTAGTTTTCTTTCA
1 TTTTTTTCCTTTTTAGTTTTCTTTCA
*
8904711 TTTTTTTCTCTTTTT-TTTTTC-TT-A
1 TTTTTTTC-CTTTTTAGTTTTCTTTCA
8904735 TTTTTTT
1 TTTTTTT
8904742 TTTTTTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.28
25 2 0.07
26 13 0.45
27 6 0.21
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (26 bp):
TTTTTTTCCTTTTTAGTTTTCTTTCA
Found at i:8904749 original size:14 final size:14
Alignment explanation
Indices: 8904711--8904749 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
8904701 TTTTCTTTCA
* *
8904711 TTTTTTTCTCTTTT
1 TTTTTTTTTATTTT
*
8904725 TTTTTTCTTATTTT
1 TTTTTTTTTATTTT
8904739 TTTTTTTTTAT
1 TTTTTTTTTAT
8904750 GTTTCCACAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTTTATTTT
Found at i:8905119 original size:10 final size:9
Alignment explanation
Indices: 8905093--8905118 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8905083 GTTACAATCA
8905093 ATTTTTTTC
1 ATTTTTTTC
8905102 ATTTTTTTC
1 ATTTTTTTC
8905111 ATTTTTTT
1 ATTTTTTT
8905119 TTTTTTGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:8910042 original size:22 final size:23
Alignment explanation
Indices: 8910003--8910045 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
8909993 TTATAATTTT
* *
8910003 ATAGATTTTTTAATATTTAATAA
1 ATAGATTTTATAAGATTTAATAA
8910026 ATAG-TTTTATAAGATTTAAT
1 ATAGATTTTATAAGATTTAAT
8910046 TTTTTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
ATAGATTTTATAAGATTTAATAA
Found at i:8910491 original size:15 final size:16
Alignment explanation
Indices: 8910445--8910491 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
8910435 TTATTTTTTC
8910445 TTTTTTCTTTTATCATTT
1 TTTTTTCTTTT-TCA-TT
8910463 TTTGTTTACTTTTTC-TT
1 TTT-TTT-CTTTTTCATT
8910480 TTTTTTCTTTTT
1 TTTTTTCTTTTT
8910492 AAATATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 6 0.22
16 3 0.11
17 5 0.19
18 3 0.11
19 5 0.19
20 5 0.19
ACGTcount: A:0.06, C:0.11, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTCTTTTTCATT
Found at i:8910851 original size:26 final size:27
Alignment explanation
Indices: 8910816--8910871 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
8910806 TAAATTTTTT
8910816 AATAAGAT-AATTTTTAACAAAAAAATC
1 AATAAGATAAATTTTT-ACAAAAAAATC
**
8910843 AATAA-ATAAATTTTTTTAAAAAAATC
1 AATAAGATAAATTTTTACAAAAAAATC
8910869 AAT
1 AAT
8910872 GAAGGTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (27 bp):
AATAAGATAAATTTTTACAAAAAAATC
Found at i:8911997 original size:18 final size:18
Alignment explanation
Indices: 8911958--8911997 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8911948 TTTATACGGT
*
8911958 TTTTTTCTTTTTTTCTCT
1 TTTTTTCTTTTTTTCTCA
* *
8911976 TTTTTTGTTTTTTTTTCA
1 TTTTTTCTTTTTTTCTCA
8911994 TTTT
1 TTTT
8911998 CTAATTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.10, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTTTCTTTTTTTCTCA
Found at i:8912118 original size:18 final size:19
Alignment explanation
Indices: 8912095--8912134 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
8912085 TGTGATTCCC
8912095 ATTTATTTTTAA-TTTTTA
1 ATTTATTTTTAATTTTTTA
8912113 ATTTATTTTTAATTTTTTA
1 ATTTATTTTTAATTTTTTA
8912132 ATT
1 ATT
8912135 AGATAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTATTTTTAATTTTTTA
Found at i:8913028 original size:29 final size:27
Alignment explanation
Indices: 8912987--8913046 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
8912977 AAAATATATT
*
8912987 ATATTAATTAATAAATTTATAATTTAA
1 ATATTAATTAATAAATTTAAAATTTAA
** *
8913014 ATATTATATTAAATATTTTTAAAATTTAT
1 ATATTA-ATT-AATAAATTTAAAATTTAA
8913043 ATAT
1 ATAT
8913047 CACATTGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
28 3 0.11
29 18 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATATTAATTAATAAATTTAAAATTTAA
Found at i:8926977 original size:22 final size:21
Alignment explanation
Indices: 8926909--8927005 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 21
8926899 AATTCAGAAC
* *
8926909 TGAAATTCAAAAGTTCGCAAC
1 TGAAATTCAAAAGTTTGCAAT
* *
8926930 TGAAAATTTAAATA-TTTGTAATT
1 TG-AAATTCAAA-AGTTTGCAA-T
*
8926953 TGAAATTCAAGAA-TTTTCAACT
1 TGAAATTCAA-AAGTTTGCAA-T
*
8926975 TGAAGTTCAAAAGTTTGCAAT
1 TGAAATTCAAAAGTTTGCAAT
8926996 T-AAATTCAAA
1 TGAAATTCAAA
8927006 GATTCTCACT
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
20 8 0.13
21 6 0.10
22 42 0.70
23 4 0.07
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.35
Consensus pattern (21 bp):
TGAAATTCAAAAGTTTGCAAT
Found at i:8927109 original size:17 final size:19
Alignment explanation
Indices: 8927082--8927176 Score: 108
Period size: 18 Copynumber: 5.2 Consensus size: 19
8927072 AATAAATTGA
*
8927082 ATTCAAAGATTTACAAAAG
1 ATTCAAAGATTTGCAAAAG
***
8927101 -TTC-AAGATTAAAAAAAG
1 ATTCAAAGATTTGCAAAAG
*
8927118 ATTCAAAAATTTGCAAAAG
1 ATTCAAAGATTTGCAAAAG
*
8927137 ATTCAAA-ATTTGTAAAA-
1 ATTCAAAGATTTGCAAAAG
8927154 ATTCAAAGATTTGCAAAAG
1 ATTCAAAGATTTGCAAAAG
8927173 ATTC
1 ATTC
8927177 GTAAGGATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
17 19 0.30
18 24 0.38
19 21 0.33
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (19 bp):
ATTCAAAGATTTGCAAAAG
Found at i:8927122 original size:18 final size:18
Alignment explanation
Indices: 8927082--8927123 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
8927072 AATAAATTGA
* *
8927082 ATTCAAAGATTTACAAAAG
1 ATTC-AAGATTAAAAAAAG
8927101 -TTCAAGATTAAAAAAAG
1 ATTCAAGATTAAAAAAAG
8927118 ATTCAA
1 ATTCAA
8927124 AAATTTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (18 bp):
ATTCAAGATTAAAAAAAG
Found at i:8927135 original size:36 final size:36
Alignment explanation
Indices: 8927081--8927176 Score: 122
Period size: 36 Copynumber: 2.7 Consensus size: 36
8927071 AAATAAATTG
* *
8927081 AATTCAAAGATTTACAAAAG-TTCAAGATTAAAAAA
1 AATTCAAAGATTTGCAAAAGATTCAAAATTAAAAAA
* ***
8927116 AGATTCAAAAATTTGCAAAAGATTCAAAATTTGTAAA
1 A-ATTCAAAGATTTGCAAAAGATTCAAAATTAAAAAA
8927153 AATTCAAAGATTTGCAAAAGATTC
1 AATTCAAAGATTTGCAAAAGATTC
8927177 GTAAGGATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.02
36 39 0.75
37 12 0.23
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.28
Consensus pattern (36 bp):
AATTCAAAGATTTGCAAAAGATTCAAAATTAAAAAA
Found at i:8927335 original size:45 final size:43
Alignment explanation
Indices: 8927169--8927421 Score: 165
Period size: 43 Copynumber: 5.7 Consensus size: 43
8927159 AAGATTTGCA
*
8927169 AAAGATTCGTAAG-GATTTAAAGATTCAAAAAAATTTAAGATTC
1 AAAGATTCGTAAGTGA-TTAAAGATTCACAAAAATTTAAGATTC
* * * * ** *
8927212 AAATATTTGCAAGTGATTCAAGATTCGTAAAGATTTCAAAGAGATTC
1 AAAGATTCGTAAGTGATTAAAGATTCACAAAAATTT---A-AGATTC
* ** **
8927259 AAA-ATT-TTCAA-AAATTCAAAGATTCGTAAAAATTTAAGATTC
1 AAAGATTCGT-AAGTGATT-AAAGATTCACAAAAATTTAAGATTC
8927301 AAAGATTCGTAAGTGATTTAAAAGATTCACAAAAATTTAAGATTC
1 AAAGATTCGTAAGTGA-TT-AAAGATTCACAAAAATTTAAGATTC
* * * * *
8927346 AAAGATTTGGAAGTGATTCAAGATTCACAAAGATTTCAAAGAGATTT
1 AAAGATTCGTAAGTGATTAAAGATTCACAAAAATTT---A-AGATTC
* *
8927393 AAAAATTTGTAAG-GATTCAAAGATTCACA
1 AAAGATTCGTAAGTGATT-AAAGATTCACA
8927422 TTCGAAAATC
Statistics
Matches: 167, Mismatches: 27, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
42 9 0.05
43 48 0.29
44 6 0.04
45 42 0.25
46 27 0.16
47 35 0.21
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (43 bp):
AAAGATTCGTAAGTGATTAAAGATTCACAAAAATTTAAGATTC
Found at i:8927348 original size:134 final size:136
Alignment explanation
Indices: 8927116--8927418 Score: 411
Period size: 134 Copynumber: 2.2 Consensus size: 136
8927106 GATTAAAAAA
* *
8927116 AGATTCAAAAATTTGCAAAAGATTCAAA-ATTTGTAAAAATTCAAAGATTTGCAAAAGATTCGTA
1 AGATTC-AAAATTTTCAAAA-ATTCAAAGATTCGTAAAAATTCAAAGATTTGCAAAAGATTCGTA
* **
8927180 AGGATTTAAAGATTCAAAAAAATTTAAGATTCAAATATTTGCAAGTGATTCAAGATTCGTAAAGA
64 AGGATTTAAAGATTCAAAAAAATTTAAGATTCAAAGATTTGCAAGTGATTCAAGATTCACAAAGA
8927245 TTTCAAAG
129 TTTCAAAG
*
8927253 AGATTCAAAATTTTCAAAAATTCAAAGATTCGTAAAAATT-TAAGA-TT-C-AAAGATTCGTAAG
1 AGATTCAAAATTTTCAAAAATTCAAAGATTCGTAAAAATTCAAAGATTTGCAAAAGATTCGTAAG
* *
8927314 TGATTTAAAAGATTCACAAAAATTTAAGATTCAAAGATTTGGAAGTGATTCAAGATTCACAAAGA
66 -GATTT-AAAGATTCAAAAAAATTTAAGATTCAAAGATTTGCAAGTGATTCAAGATTCACAAAGA
8927379 TTTCAAAG
129 TTTCAAAG
* **
8927387 AGATTTAAAAATTTGT-AAGGATTCAAAGATTC
1 AGA-TTCAAAATTT-TCAAAAATTCAAAGATTC
8927419 ACATTCGAAA
Statistics
Matches: 150, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
132 13 0.09
133 6 0.04
134 66 0.44
135 34 0.23
136 25 0.17
137 6 0.04
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (136 bp):
AGATTCAAAATTTTCAAAAATTCAAAGATTCGTAAAAATTCAAAGATTTGCAAAAGATTCGTAAG
GATTTAAAGATTCAAAAAAATTTAAGATTCAAAGATTTGCAAGTGATTCAAGATTCACAAAGATT
TCAAAG
Found at i:8927440 original size:23 final size:23
Alignment explanation
Indices: 8927413--8927620 Score: 107
Period size: 22 Copynumber: 9.4 Consensus size: 23
8927403 AAGGATTCAA
*
8927413 AGATTCACATTCGAAAATCTTAT
1 AGATTCACATTCGAAAATCTTAG
* * * *
8927436 AGATTCACA-TCTAAGAT-TCAA
1 AGATTCACATTCGAAAATCTTAG
* * *
8927457 ATATTCACATTTGAAAATCTAAG
1 AGATTCACATTCGAAAATCTTAG
* *
8927480 AGATTCACA-TCCAAAAT-TCA-
1 AGATTCACATTCGAAAATCTTAG
* ** *
8927500 AAAGTTTTCATTTGAAAATCTTAG
1 AGA-TTCACATTCGAAAATCTTAG
* *
8927524 AGATTCACA-TCTAAAA--TTCG
1 AGATTCACATTCGAAAATCTTAG
8927544 AAGATTCACATTCGAAAATCTTAG
1 -AGATTCACATTCGAAAATCTTAG
* * * *
8927568 AAATTCACA-TCCAAAAT-TCAA
1 AGATTCACATTCGAAAATCTTAG
*
8927589 ATG-TTCACATT-TAAAATCTTAG
1 A-GATTCACATTCGAAAATCTTAG
*
8927611 ATATTCACAT
1 AGATTCACAT
8927621 CCAAAATTCA
Statistics
Matches: 134, Mismatches: 37, Indels: 29
0.67 0.19 0.14
Matches are distributed among these distances:
20 5 0.04
21 39 0.29
22 52 0.39
23 33 0.25
24 5 0.04
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (23 bp):
AGATTCACATTCGAAAATCTTAG
Found at i:8927463 original size:44 final size:44
Alignment explanation
Indices: 8927407--8927662 Score: 320
Period size: 44 Copynumber: 5.8 Consensus size: 44
8927397 ATTTGTAAGG
* * * *
8927407 ATTCAAAGATTCACATTCGAAAATCTTATAGATTCACATCTAAG
1 ATTCAAAGATTCACATTTGAAAATCTTAGAGATTCACATCCAAA
* *
8927451 ATTCAAATATTCACATTTGAAAATCTAAGAGATTCACATCCAAA
1 ATTCAAAGATTCACATTTGAAAATCTTAGAGATTCACATCCAAA
** *
8927495 ATTCAAA-AGTTTTCATTTGAAAATCTTAGAGATTCACATCTAAA
1 ATTCAAAGA-TTCACATTTGAAAATCTTAGAGATTCACATCCAAA
* * *
8927539 ATTCGAAGATTCACATTCGAAAATCTTAGAAATTCACATCCAAA
1 ATTCAAAGATTCACATTTGAAAATCTTAGAGATTCACATCCAAA
*
8927583 ATTCAAATG-TTCACATTT-AAAATCTTAGATATTCACATCCAAA
1 ATTCAAA-GATTCACATTTGAAAATCTTAGAGATTCACATCCAAA
* * * *
8927626 ATTCAAAGGTTCTCATTTGAAAATTTTAGATATTCAC
1 ATTCAAAGATTCACATTTGAAAATCTTAGAGATTCAC
8927663 GTCAAAGATT
Statistics
Matches: 186, Mismatches: 21, Indels: 10
0.86 0.10 0.05
Matches are distributed among these distances:
42 1 0.01
43 40 0.22
44 143 0.77
45 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (44 bp):
ATTCAAAGATTCACATTTGAAAATCTTAGAGATTCACATCCAAA
Found at i:8927548 original size:21 final size:21
Alignment explanation
Indices: 8927524--8927605 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
8927514 AAAATCTTAG
8927524 AGATTCACATCTAAAATTCGA
1 AGATTCACATCTAAAATTCGA
* *
8927545 AGATTCACATTCGAAAATCTTAGA
1 AGATTCACA-TCTAAAA--TTCGA
* *
8927569 A-ATTCACATCCAAAATTCAA
1 AGATTCACATCTAAAATTCGA
*
8927589 ATG-TTCACATTTAAAAT
1 A-GATTCACATCTAAAAT
8927606 CTTAGATATT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
20 4 0.08
21 21 0.43
22 12 0.24
23 7 0.14
24 5 0.10
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.30
Consensus pattern (21 bp):
AGATTCACATCTAAAATTCGA
Found at i:8927674 original size:131 final size:133
Alignment explanation
Indices: 8927406--8927674 Score: 400
Period size: 131 Copynumber: 2.0 Consensus size: 133
8927396 AATTTGTAAG
* * * * *
8927406 GATTCAAAGATTCACATTCGAAAATCTTATAGATTCACATCTAAGATTCAAATATTCACATTTGA
1 GATTCGAAGATTCACATTCGAAAATCTTAGAAATTCACATCCAAAATTCAAATATTCACATTTGA
*
8927471 AAATCTAAGAGATTCACATCCAAAATTCAAAAGTTTTCATTTGAAAATCTTAGAGATTCACATCT
66 AAATCTAAGAGATTCACATCCAAAATTCAAAAGTTCTCATTTGAAAATCTTAGAGATTCACATCT
8927536 AAA
131 AAA
*
8927539 -ATTCGAAGATTCACATTCGAAAATCTTAGAAATTCACATCCAAAATTCAAATGTTCACATTT-A
1 GATTCGAAGATTCACATTCGAAAATCTTAGAAATTCACATCCAAAATTCAAATATTCACATTTGA
* * * * * *
8927602 AAATCTTAGATATTCACATCCAAAATTCAAAGGTTCTCATTTGAAAATTTTAGATATTCACGTC-
66 AAATCTAAGAGATTCACATCCAAAATTCAAAAGTTCTCATTTGAAAATCTTAGAGATTCACATCT
8927666 AAA
131 AAA
8927669 GATTCG
1 GATTCG
8927675 CATTTAAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
130 3 0.02
131 63 0.52
132 56 0.46
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (133 bp):
GATTCGAAGATTCACATTCGAAAATCTTAGAAATTCACATCCAAAATTCAAATATTCACATTTGA
AAATCTAAGAGATTCACATCCAAAATTCAAAAGTTCTCATTTGAAAATCTTAGAGATTCACATCT
AAA
Found at i:8928429 original size:15 final size:15
Alignment explanation
Indices: 8928409--8928489 Score: 71
Period size: 15 Copynumber: 5.7 Consensus size: 15
8928399 AACAAATTAC
*
8928409 ATGAATGTAATGTTT
1 ATGAATGCAATGTTT
8928424 ATGAATGCAATG--T
1 ATGAATGCAATGTTT
*
8928437 ATGAAAGCAATGTTT
1 ATGAATGCAATGTTT
* **
8928452 ATGAATGTAA-G-AC
1 ATGAATGCAATGTTT
*
8928465 ATGAATGCAATGTTA
1 ATGAATGCAATGTTT
*
8928480 ATAAATGCAA
1 ATGAATGCAA
8928490 CTCTAATTGT
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
13 21 0.40
14 2 0.04
15 29 0.56
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (15 bp):
ATGAATGCAATGTTT
Found at i:8928449 original size:28 final size:28
Alignment explanation
Indices: 8928407--8928489 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
8928397 AAAACAAATT
* *
8928407 ACATGAATGTAATGTTTATGAATGCAATG
1 ACATGAAAGCAATGTTTATGAATGCAA-G
* *
8928436 -TATGAAAGCAATGTTTATGAATGTAAG
1 ACATGAAAGCAATGTTTATGAATGCAAG
* * *
8928463 ACATGAATGCAATGTTAATAAATGCAA
1 ACATGAAAGCAATGTTTATGAATGCAA
8928490 CTCTAATTGT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.02
28 43 0.98
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.31
Consensus pattern (28 bp):
ACATGAAAGCAATGTTTATGAATGCAAG
Found at i:8932450 original size:26 final size:28
Alignment explanation
Indices: 8932421--8932476 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
8932411 GAATGAATGC
8932421 ATATGTTAATGATG-T-ATTAAAATACA
1 ATATGTTAATGATGCTAATTAAAATACA
*
8932447 ATATGTTAGTGATGCTAGATTAAAATACA
1 ATATGTTAATGATGCTA-ATTAAAATACA
8932476 A
1 A
8932477 CACACAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.50
27 1 0.04
29 12 0.46
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (28 bp):
ATATGTTAATGATGCTAATTAAAATACA
Found at i:8935721 original size:27 final size:25
Alignment explanation
Indices: 8935691--8935756 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 25
8935681 TTTAATAATA
*
8935691 AATACTAATATTATTTAAATAACTTTT
1 AATAATAATATTATTTAAAT-A-TTTT
* * *
8935718 AATAATAAAAATATTTTAATATTTT
1 AATAATAATATTATTTAAATATTTT
*
8935743 AATATTAAATATTA
1 AATAAT-AATATTA
8935757 GTATTTTATA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 9 0.29
26 6 0.19
27 16 0.52
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (25 bp):
AATAATAATATTATTTAAATATTTT
Found at i:8935924 original size:18 final size:17
Alignment explanation
Indices: 8935901--8935936 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
8935891 TATTATTAAA
8935901 AATTATTTAATAATCTTT
1 AATTATTTAATAAT-TTT
8935919 AATTATTTAATAATTTT
1 AATTATTTAATAATTTT
8935936 A
1 A
8935937 TAAATGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTAATAATTTT
Found at i:8936651 original size:30 final size:31
Alignment explanation
Indices: 8936609--8936683 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 31
8936599 ACTCATACTT
*
8936609 AATTTGAAAATTTA-TCATTGTACTTACACGAA
1 AATTTG-AAATTTAGTCATTATACTTACAC-AA
* * *
8936641 AA-TTGAAATTTAGTCTTTATATTTGCACAA
1 AATTTGAAATTTAGTCATTATACTTACACAA
8936671 AATTTGAAATTTA
1 AATTTGAAATTTA
8936684 AACTCTCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 11 0.30
31 24 0.65
32 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (31 bp):
AATTTGAAATTTAGTCATTATACTTACACAA
Found at i:8936822 original size:40 final size:39
Alignment explanation
Indices: 8936777--8936857 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 39
8936767 TATTAGTTTT
8936777 TATTATATATAATTAATTATTAAT-AATATC-ATATTAATAA
1 TATTAT-TATAATTAA-TATTAATCAAT-TCAATATTAATAA
* *
8936817 TATTATTATCATTTATATTAATCAATTCTAATATTAATAA
1 TATTATTATAATTAATATTAATCAATTC-AATATTAATAA
8936857 T
1 T
8936858 TTAAATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
38 9 0.25
39 10 0.28
40 17 0.47
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (39 bp):
TATTATTATAATTAATATTAATCAATTCAATATTAATAA
Found at i:8936852 original size:16 final size:14
Alignment explanation
Indices: 8936785--8936868 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 14
8936775 TTTATTATAT
8936785 ATAA-TTAATTATTA
1 ATAATTTAA-TATTA
* *
8936799 ATAATATCATATTA
1 ATAATTTAATATTA
*
8936813 ATAA--TATTATT-
1 ATAATTTAATATTA
*
8936824 ATCATTT-ATATTA
1 ATAATTTAATATTA
8936837 ATCAATTCTAATATTA
1 AT-AATT-TAATATTA
8936853 ATAATTTAA-ATTA
1 ATAATTTAATATTA
8936866 ATA
1 ATA
8936869 TATCAAAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
11 3 0.05
12 9 0.16
13 10 0.18
14 19 0.34
15 7 0.12
16 8 0.14
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATTTAATATTA
Found at i:8941080 original size:83 final size:83
Alignment explanation
Indices: 8940993--8941160 Score: 309
Period size: 83 Copynumber: 2.0 Consensus size: 83
8940983 AATATTTTTT
8940993 TTGTTGCTAAATTTTTTTCATTACAAAAAAATATAGTTGCTAAAAAAATATTTTGTAACAACAAA
1 TTGTTGCTAAATTTTTTTCATTACAAAAAAATATAGTTGCTAAAAAAATATTTTGTAACAACAAA
*
8941058 TAGCGTTGCATAAACTTA
66 TAGCATTGCATAAACTTA
*
8941076 TTGTTGCTAAATTTTTTTCATTACAAAAAAATGTAGTTGCTAAAAAAATATTTTGTAACAACAAA
1 TTGTTGCTAAATTTTTTTCATTACAAAAAAATATAGTTGCTAAAAAAATATTTTGTAACAACAAA
*
8941141 TAGCATTGTATAAACTTA
66 TAGCATTGCATAAACTTA
8941159 TT
1 TT
8941161 TTAGAAACCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.39
Consensus pattern (83 bp):
TTGTTGCTAAATTTTTTTCATTACAAAAAAATATAGTTGCTAAAAAAATATTTTGTAACAACAAA
TAGCATTGCATAAACTTA
Found at i:8943150 original size:18 final size:19
Alignment explanation
Indices: 8943110--8943155 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
8943100 TGTTTTTTTT
8943110 TCAAAA-AAAGTCAAAAAG
1 TCAAAACAAAGTCAAAAAG
8943128 T-AAAACAAAGTC-AAAAG
1 TCAAAACAAAGTCAAAAAG
8943145 TCAAAAACAAA
1 TC-AAAACAAA
8943156 AAATAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 8 0.32
ACGTcount: A:0.67, C:0.13, G:0.09, T:0.11
Consensus pattern (19 bp):
TCAAAACAAAGTCAAAAAG
Found at i:8943175 original size:24 final size:24
Alignment explanation
Indices: 8943148--8943200 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8943138 TCAAAAGTCA
8943148 AAAACAAAAAATAAAAAAGA-AAGG
1 AAAACAAAAAA-AAAAAAGAGAAGG
** *
8943172 AAAATTAAAAAAAAAAAGAGAGGG
1 AAAACAAAAAAAAAAAAGAGAAGG
8943196 AAAAC
1 AAAAC
8943201 GTCTTTGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.06
Consensus pattern (24 bp):
AAAACAAAAAAAAAAAAGAGAAGG
Found at i:8943186 original size:23 final size:25
Alignment explanation
Indices: 8943154--8943199 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
8943144 GTCAAAAACA
8943154 AAAAATAAAAAAGA-AAGGAAAATT
1 AAAAATAAAAAAGAGAAGGAAAATT
*
8943178 AAAAA-AAAAAAGAGAGGGAAAA
1 AAAAATAAAAAAGAGAAGGAAAA
8943200 CGTCTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (25 bp):
AAAAATAAAAAAGAGAAGGAAAATT
Found at i:8943339 original size:14 final size:15
Alignment explanation
Indices: 8943302--8943340 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
8943292 GAAAGTTACA
8943302 TGAAATCAAATCACC
1 TGAAATCAAATCACC
*
8943317 TAAAAATCAAATC-CC
1 T-GAAATCAAATCACC
8943332 TGAAATCAA
1 TGAAATCAA
8943341 TCAATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.51, C:0.23, G:0.05, T:0.21
Consensus pattern (15 bp):
TGAAATCAAATCACC
Found at i:8944936 original size:336 final size:333
Alignment explanation
Indices: 8944326--8944976 Score: 979
Period size: 336 Copynumber: 1.9 Consensus size: 333
8944316 TTTTTTTTTG
* * * *
8944326 TATTTATTTTTATCCTATTTATTTCAATTGATTTTTTTTCCAAAAAGTAAAAAATGTTTTTTTTT
1 TATTTATTTCTATACTATTTATTTCAATTGATTTTTTTTCCAAAAAGTAAAAAATATTTTTTTTA
*** * ** *
8944391 TTTAATTTATGAGTGCTATTAAACTATTAGAGAACTTTTTATGGATTTAAATTTAAAAAAATTAT
66 AGAAATTCATGAGTGCTACCAAACTATTAGAGAACTTTTCATGGATTTAAATTTAAAAAAATTAT
8944456 GAATTTTATCAAATTAGTAAAGAATTTCATAATTCAATTTTAGTAAAAAATAAAATAAAATATTT
131 GAATTTTATCAAATTAGTAAAGAATTTCATAATTCAATTTTAGTAAAAAATAAAATAAAATATTT
* **
8944521 TGTTTTACTCTTATCAAACTATTGGAGGATTTAAATTTTGAATTAAGTCTTACTAAACTATTGGA
196 TATTTTACTCTTATCAAACTATTAAAGGATTTAAATTTTGAATTAAGTCTTACTAAACTATTGGA
8944586 AAACTTAATGAATTTTCTTGAAAAAATATTTCTTTAAAATCCTACCAACATATTGTAGGATAATT
261 AAACTTAATGAATTTTCTTGAAAAAATATTTCTTTAAAATCCTACCAACATATTGTAGGATAATT
8944651 ATTTATTT
326 ATTTATTT
*
8944659 TATTTATTTCTATACTATTTATTTCGATTGATTTTTTTCTACCAAAAA-TAAAAAATATTTTTTT
1 TATTTATTTCTATACTATTTATTTCAATTGATTTTTTT-T-CCAAAAAGTAAAAAATATTTTTTT
* *
8944723 TAAAGAAATTCATGAGTTCTACCAAATTATT-GAAGAACTTTTCATGGATTTAAATTTTTAAAAA
64 T-AAGAAATTCATGAGTGCTACCAAACTATTAG-AGAACTTTTCATGGATTTAAA--TTTAAAAA
*
8944787 AA-TATGAATTTTATCAAATTATTAGAA-AATTTCATAATTCAATTTTAGTAAAAAATAAAATAA
125 AATTATGAATTTTATCAAATTAGTA-AAGAATTTCATAATTCAATTTTAGTAAAAAATAAAATAA
* * * *
8944850 AATATTTTATTTTATTCTTA-CTAAACTATTAAATGATTTAAATTTTGAATTAAGTTTTACTAAG
189 AATATTTTATTTTACTCTTATC-AAACTATTAAAGGATTTAAATTTTGAATTAAGTCTTACTAAA
* *
8944914 CTATTGGAAGACTTAATGAATTTTCTTGAAAAAATATTTCTTTAAAATCCTATCAACATATTG
253 CTATTGGAAAACTTAATGAATTTTCTTGAAAAAATATTTCTTTAAAATCCTACCAACATATTG
8944977 CGAAATAATT
Statistics
Matches: 286, Mismatches: 24, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
333 35 0.12
334 18 0.06
335 48 0.17
336 173 0.60
337 12 0.04
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (333 bp):
TATTTATTTCTATACTATTTATTTCAATTGATTTTTTTTCCAAAAAGTAAAAAATATTTTTTTTA
AGAAATTCATGAGTGCTACCAAACTATTAGAGAACTTTTCATGGATTTAAATTTAAAAAAATTAT
GAATTTTATCAAATTAGTAAAGAATTTCATAATTCAATTTTAGTAAAAAATAAAATAAAATATTT
TATTTTACTCTTATCAAACTATTAAAGGATTTAAATTTTGAATTAAGTCTTACTAAACTATTGGA
AAACTTAATGAATTTTCTTGAAAAAATATTTCTTTAAAATCCTACCAACATATTGTAGGATAATT
ATTTATTT
Found at i:8947481 original size:9 final size:9
Alignment explanation
Indices: 8947467--8947495 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
8947457 TGTCGCAATT
8947467 AAAAATTAA
1 AAAAATTAA
8947476 AAAAATTAA
1 AAAAATTAA
8947485 AAAAATTAA
1 AAAAATTAA
8947494 AA
1 AA
8947496 TTTAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:8948509 original size:64 final size:64
Alignment explanation
Indices: 8948408--8948543 Score: 263
Period size: 64 Copynumber: 2.1 Consensus size: 64
8948398 ACTCATCCAA
8948408 AAAGAAAAGAATTATTTAATTCAATAAAATGGGAAGTAGAAACAAAGAAAAAGCCATTTTTTTT
1 AAAGAAAAGAATTATTTAATTCAATAAAATGGGAAGTAGAAACAAAGAAAAAGCCATTTTTTTT
8948472 AAAGAAAAGAATTATTTAATTCAATAAAATGGGAAGTAGAAACAAAGAAAAAGCCATTTTTTTT
1 AAAGAAAAGAATTATTTAATTCAATAAAATGGGAAGTAGAAACAAAGAAAAAGCCATTTTTTTT
*
8948536 AAAAAAAA
1 AAAGAAAA
8948544 TGGAAATTAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 71 1.00
ACGTcount: A:0.54, C:0.06, G:0.13, T:0.26
Consensus pattern (64 bp):
AAAGAAAAGAATTATTTAATTCAATAAAATGGGAAGTAGAAACAAAGAAAAAGCCATTTTTTTT
Found at i:8949732 original size:1 final size:1
Alignment explanation
Indices: 8949726--8949756 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
8949716 TATTAGGGTG
8949726 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8949757 CAGGTCGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8949882 original size:18 final size:17
Alignment explanation
Indices: 8949839--8949896 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
8949829 AAATTTTTGA
*
8949839 AATTTTGGAAAAAGTAT
1 AATTTTTGAAAAAGTAT
*
8949856 AATTTTTGAAAAATTAT
1 AATTTTTGAAAAAGTAT
*
8949873 GATTTCTTGACAAAA--AT
1 AATTT-TTGA-AAAAGTAT
8949890 AATTTTT
1 AATTTTT
8949897 CATGACATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 2 0.06
17 25 0.71
18 4 0.11
19 4 0.11
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (17 bp):
AATTTTTGAAAAAGTAT
Found at i:8949889 original size:20 final size:19
Alignment explanation
Indices: 8949864--8949912 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
8949854 ATAATTTTTG
*
8949864 AAAAATTATGATTTCTTGAC
1 AAAAATTAT-ATTTCATGAC
* *
8949884 AAAAATAATTTTTCATGAC
1 AAAAATTATATTTCATGAC
8949903 ATAAAATTAT
1 A-AAAATTAT
8949913 TAGATTTATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (19 bp):
AAAAATTATATTTCATGAC
Found at i:8957950 original size:70 final size:71
Alignment explanation
Indices: 8957862--8957999 Score: 224
Period size: 70 Copynumber: 2.0 Consensus size: 71
8957852 TGGACCTTGA
* * *
8957862 CCACTTGCCTATAAGGTACTTATACAGGGTTAGTATTGGTTAACTATAAAAAA-AATGTAACCAA
1 CCACTTGCCTATAAGGTACTCATACAGGGTTACTATTGGTTAACTATAAAAAAGAACGTAACCAA
8957926 TCTCGG
66 TCTCGG
* *
8957932 CCACTTGCTTATAAGGTACTCATACAGGGTTACTATTGGTTAACTATAAAAAAGGACGTAACCAA
1 CCACTTGCCTATAAGGTACTCATACAGGGTTACTATTGGTTAACTATAAAAAAGAACGTAACCAA
8957997 TCT
66 TCT
8958000 GGTGAGAAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 50 0.81
71 12 0.19
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (71 bp):
CCACTTGCCTATAAGGTACTCATACAGGGTTACTATTGGTTAACTATAAAAAAGAACGTAACCAA
TCTCGG
Found at i:8959494 original size:96 final size:96
Alignment explanation
Indices: 8959394--8959577 Score: 305
Period size: 96 Copynumber: 1.9 Consensus size: 96
8959384 ATTAGTAATT
* *
8959394 TAAAAAAATCAGTTGATAAAAGTTTGTAGAGTGTTTCAACTAAGGTCATTACAAAAACCTGACCT
1 TAAAAAAATCAATTGACAAAAGTTTGTAGAGTGTTTCAACTAAGGTCATTACAAAAACCTGACCT
*
8959459 TATACTGACAAAAAATATAAAAAATATGATA
66 CATACTGACAAAAAATATAAAAAATATGATA
* * * *
8959490 TAAAAAATTTAATTGACAGAAGTTTGTAGAGTGTTTCAACTAAGGTCATTACAAAAACTTGACCT
1 TAAAAAAATCAATTGACAAAAGTTTGTAGAGTGTTTCAACTAAGGTCATTACAAAAACCTGACCT
8959555 CATACTGACAAAAAATATAAAAA
66 CATACTGACAAAAAATATAAAAA
8959578 TAAACAAAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 81 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (96 bp):
TAAAAAAATCAATTGACAAAAGTTTGTAGAGTGTTTCAACTAAGGTCATTACAAAAACCTGACCT
CATACTGACAAAAAATATAAAAAATATGATA
Found at i:8967311 original size:235 final size:235
Alignment explanation
Indices: 8966871--8967338 Score: 636
Period size: 235 Copynumber: 2.0 Consensus size: 235
8966861 GAAATGCTTG
*
8966871 TGCAAGGAAAGGGTAGTCTTGAAGAAGGGGCTTAGATGGCGAGTGGGGACTGGGTGAACAGATTA
1 TGCAAGGAAAGGGTAGTCTTGAAGAAGGGGCTTAGATGGCAAGTGGGGACTGGGTGAACAGATTA
* *
8966936 GAGTTTTTATGGACCCGTGGATATAAACATAAGCTCTTTTGTGTTGGGAATAATAACTCAAATCT
66 GAGTTTTTATGGACCCGTGGATACAAACATAAGCTCTTTTGTGTTGGGAATAATAACTCAAATCC
* * * *
8967001 CATAAGAGATTTATTTGAGATTGACCAGATATTATTTGATGGATAAGAAAACTTACAGAAAAAAA
131 CATAAGAAATTTATTTGAGATTGACCAAATATTACTTGATGGACAAGAAAACTTACAGAAAAAAA
* * *
8967066 ATTTTAAAAGAAGAGAGATTCTTAAAAGGTAAGTTTGATT
196 ATTCTAAAAGAAAAGAGATTCTTAAAAGGCAAGTTTGATT
8967106 TGCAAGGAAAGGGTAGTCTTGAAGAA-GGGCATTAGATGGCAAGTGGGGACTGGGTGAACAGATT
1 TGCAAGGAAAGGGTAGTCTTGAAGAAGGGGC-TTAGATGGCAAGTGGGGACTGGGTGAACAGATT
* * * * * *
8967170 AGAGTTTTTATGGACTCGTGGATACAGACGTAAGTTAC-TTTGTGTTGGGAATAATGACTTAAAT
65 AGAGTTTTTATGGACCCGTGGATACAAACATAAGCT-CTTTTGTGTTGGGAATAATAACTCAAAT
* *** * ** * *
8967234 CCCATAAGAAATTTATTTGGGATTGGTTAAATATTGCTTGATGGACAA-AAAGACTTGTAGGAGA
129 CCCATAAGAAATTTATTTGAGATTGACCAAATATTACTTGATGGACAAGAAA-ACTTACAGAAAA
* * *
8967298 AGAATTCTAAAAGAAAATAGATTCTTAATAGGCAAGTTTGA
193 AAAATTCTAAAAGAAAAGAGATTCTTAAAAGGCAAGTTTGA
8967339 CTTATAAAAG
Statistics
Matches: 202, Mismatches: 28, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
234 7 0.03
235 194 0.96
236 1 0.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (235 bp):
TGCAAGGAAAGGGTAGTCTTGAAGAAGGGGCTTAGATGGCAAGTGGGGACTGGGTGAACAGATTA
GAGTTTTTATGGACCCGTGGATACAAACATAAGCTCTTTTGTGTTGGGAATAATAACTCAAATCC
CATAAGAAATTTATTTGAGATTGACCAAATATTACTTGATGGACAAGAAAACTTACAGAAAAAAA
ATTCTAAAAGAAAAGAGATTCTTAAAAGGCAAGTTTGATT
Found at i:8967698 original size:167 final size:167
Alignment explanation
Indices: 8967415--8967756 Score: 587
Period size: 167 Copynumber: 2.1 Consensus size: 167
8967405 GTAAAGTCTC
*
8967415 TATAT-GGTTAGGTATGAAAAAAAGTTATAAGAGTATTGTAGGATTTTATAGGATAAACACCCTA
1 TATATGGGTTAGGTAAGAAAAAAAGTTATAAGAGTATTGTAGGATTTTATAGGATAAACACCCTA
* *
8967479 TAGAAGTATTGGAGATTTACATCTTATGGACGTGTATGTTTAAATATTTGAGAGTGGACTAGAAA
66 TAGAAGTACTAGAGATTTACATCTTATGGACGTGTATGTTTAAATATTTGAGAGTGGACTAGAAA
*
8967544 AGACTAAAAGGGTCTACATAGGTATGATGAATGGGTA
131 AGACTAAAAGGATCTACATAGGTATGATGAATGGGTA
* * *
8967581 TATATGGGTTAGGTAAGAAAAAAAGTTATAAGAGTGTTGTAGGGTTTTGTAGGATAAACACCCTA
1 TATATGGGTTAGGTAAGAAAAAAAGTTATAAGAGTATTGTAGGATTTTATAGGATAAACACCCTA
*
8967646 TAGAAGTACTAGAGATTTACATCTTATGGACGTGTATGTTTAAATGTTTGAGAGTGGACTAGAAA
66 TAGAAGTACTAGAGATTTACATCTTATGGACGTGTATGTTTAAATATTTGAGAGTGGACTAGAAA
*
8967711 AGACTAAAAGGATCTATATAGGTATGATGAATGGGTA
131 AGACTAAAAGGATCTACATAGGTATGATGAATGGGTA
*
8967748 CATATGGGT
1 TATATGGGT
8967757 ATATGTTTGT
Statistics
Matches: 165, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
166 5 0.03
167 160 0.97
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (167 bp):
TATATGGGTTAGGTAAGAAAAAAAGTTATAAGAGTATTGTAGGATTTTATAGGATAAACACCCTA
TAGAAGTACTAGAGATTTACATCTTATGGACGTGTATGTTTAAATATTTGAGAGTGGACTAGAAA
AGACTAAAAGGATCTACATAGGTATGATGAATGGGTA
Found at i:8977288 original size:21 final size:20
Alignment explanation
Indices: 8977258--8977302 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
8977248 ATATTATGAA
**
8977258 ATAATATATTTTAATAAATAT
1 ATAATATATTGAAAT-AATAT
*
8977279 ATAATTTATTGAAATAATAT
1 ATAATATATTGAAATAATAT
8977299 ATAA
1 ATAA
8977303 GCATAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAATATATTGAAATAATAT
Found at i:8977293 original size:17 final size:17
Alignment explanation
Indices: 8977240--8977299 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
8977230 TTTTGAAGTT
*
8977240 ATAAAATAATATTATGAA
1 ATAATATAAT-TTATGAA
*
8977258 ATAATATATTTTAAT-AA
1 ATAATATAATTT-ATGAA
8977275 AT-ATATAATTTATTGAA
1 ATAATATAATTTA-TGAA
8977292 ATAATATA
1 ATAATATA
8977300 TAAGCATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 1 0.03
16 9 0.26
17 10 0.29
18 15 0.43
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
ATAATATAATTTATGAA
Found at i:8977309 original size:34 final size:34
Alignment explanation
Indices: 8977245--8977309 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
8977235 AAGTTATAAA
***
8977245 ATAATATTATGAAATAATATATTTTAATAAATAT
1 ATAATATTATGAAATAATATATAAGAATAAATAT
*
8977279 ATAAT-TTATTGAAATAATATATAAGCATAAA
1 ATAATATTA-TGAAATAATATATAAGAATAAA
8977310 AATAAAAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 3 0.12
34 23 0.88
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (34 bp):
ATAATATTATGAAATAATATATAAGAATAAATAT
Found at i:8979047 original size:201 final size:199
Alignment explanation
Indices: 8978695--8979061 Score: 490
Period size: 200 Copynumber: 1.8 Consensus size: 199
8978685 TTTATTTGTG
* * * * *
8978695 TTATTGACTTTGATTTTTTATATTTATTTTCTCTAAAACCATTATTTTTTAAAATTTATTGATCA
1 TTATTGACTTTGATTTCTTATATTCAATTTCTCTAAAACAATTATTTATTAAAATTTATTGATCA
* * * * *
8978760 ACCCTTTAGTTTTGTAATATTTATTTTTTAACTTTTGATTTTCTTGTAACTTATAGTTTTCTATC
66 ACCCTTTAGTTTTATAACATTTATTTTTGAACTTTTAATTTTATTGTAACTTATAGTTTTCTATC
*
8978825 TCTTTTAAACATGAGAGTTATATGAA-TGTCTTTCATGTCTTCATTACATTTTTTTCTCCCTTTC
131 TCTTTTAAAAATGAGAGTTATAT-AAGTGTCTTTCATGTCTTCATTACATTTTTTTCTCCCTTTC
8978889 TTGGA
195 TTGGA
* * * *
8978894 TTATTGTCTTTTGATTTCTTGTATTCAATTTCTTTAAAATAATTATTTATTAAAATTTATTGATC
1 TTATTGAC-TTTGATTTCTTATATTCAATTTCTCTAAAACAATTATTTATTAAAATTTATTGATC
* *
8978959 TAA-CCTTT-GATTTTATAACATTTATACTTTTGAA-TTTTAATTTTATTGTGACTTATGGTTTT
65 -AACCCTTTAG-TTTTATAACATTTAT--TTTTGAACTTTTAATTTTATTGTAACTTATAGTTTT
*
8979021 CTATCTCTTTTAAAAATGAGAGTTATATAAGTTTCTTTCAT
126 CTATCTCTTTTAAAAATGAGAGTTATATAAGTGTCTTTCAT
8979062 ATATCTATTA
Statistics
Matches: 144, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
199 8 0.06
200 68 0.47
201 62 0.43
202 6 0.04
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.54
Consensus pattern (199 bp):
TTATTGACTTTGATTTCTTATATTCAATTTCTCTAAAACAATTATTTATTAAAATTTATTGATCA
ACCCTTTAGTTTTATAACATTTATTTTTGAACTTTTAATTTTATTGTAACTTATAGTTTTCTATC
TCTTTTAAAAATGAGAGTTATATAAGTGTCTTTCATGTCTTCATTACATTTTTTTCTCCCTTTCT
TGGA
Found at i:8981522 original size:3 final size:3
Alignment explanation
Indices: 8981516--8981545 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8981506 CTTGATGATT
*
8981516 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8981546 AATCAACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:8981534 original size:12 final size:12
Alignment explanation
Indices: 8981517--8981555 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8981507 TTGATGATTT
8981517 AATAATAATAAC
1 AATAATAATAAC
*
8981529 AATAATAATAAT
1 AATAATAATAAC
8981541 AATAA-AATCAAC
1 AATAATAAT-AAC
8981553 AAT
1 AAT
8981556 TTTCATGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 21 0.88
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:8985605 original size:16 final size:16
Alignment explanation
Indices: 8985584--8985614 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8985574 AATTAATTTT
8985584 ATGATTATTAACAAAC
1 ATGATTATTAACAAAC
*
8985600 ATGATTATTGACAAA
1 ATGATTATTAACAAA
8985615 TTCATTAATT
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:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (16 bp):
ATGATTATTAACAAAC
Found at i:8987545 original size:2 final size:2
Alignment explanation
Indices: 8987538--8987579 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
8987528 CGGCGAGAGG
8987538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8987580 TTTCCTTTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8992511 original size:29 final size:29
Alignment explanation
Indices: 8992457--8992516 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
8992447 AAATTTTAGT
*
8992457 AAAATATTTAATATGATATTTAAATT-TA
1 AAAATATTTAATATGATAATTAAATTATA
* * *
8992485 AAAATATTTTAATGTTATAATTGAATTATA
1 AAAATA-TTTAATATGATAATTAAATTATA
8992515 AA
1 AA
8992517 TTTATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (29 bp):
AAAATATTTAATATGATAATTAAATTATA
Found at i:8992651 original size:29 final size:29
Alignment explanation
Indices: 8992614--8992673 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
8992604 AATTAATAAA
* *
8992614 TTTATAATTTAAATATCATATAAAATATT
1 TTTAAAATTTAAATATCAAATAAAATATT
* *
8992643 TTTAAAATTTAGATATCAAATTAAATATT
1 TTTAAAATTTAAATATCAAATAAAATATT
8992672 TT
1 TT
8992674 ATTATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTAAAATTTAAATATCAAATAAAATATT
Found at i:8993397 original size:1 final size:1
Alignment explanation
Indices: 8993391--8993415 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
8993381 TAACCCGTTG
8993391 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
8993416 AATTTCTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9001260 original size:37 final size:37
Alignment explanation
Indices: 9001219--9001291 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
9001209 CGTCACACTT
9001219 ACCTCTAACAAAATTCTTATGATTCTTTGCCTAAATG
1 ACCTCTAACAAAATTCTTATGATTCTTTGCCTAAATG
*
9001256 ACCTCTAACAAAATTCTTATGGTTCTTTGCCTAAAT
1 ACCTCTAACAAAATTCTTATGATTCTTTGCCTAAAT
9001292 AATACCCTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (37 bp):
ACCTCTAACAAAATTCTTATGATTCTTTGCCTAAATG
Found at i:9001623 original size:33 final size:33
Alignment explanation
Indices: 9001568--9001637 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
9001558 CAATCGTATC
* *
9001568 TTCATTTTCTACCCATGCTGCCTCAATATCATA
1 TTCATTTCCTACCCATGCTGCCTCAACATCATA
* * *
9001601 TTCATTTCCTACCTC-TGTTGCCTTAACATCATC
1 TTCATTTCCTACC-CATGCTGCCTCAACATCATA
9001634 TTCA
1 TTCA
9001638 ATATCTACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.41
Consensus pattern (33 bp):
TTCATTTCCTACCCATGCTGCCTCAACATCATA
Found at i:9001821 original size:42 final size:42
Alignment explanation
Indices: 9001735--9001824 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
9001725 GTTGGCTCGT
* * *
9001735 CTACATGTTGATTTTTTACCTTTTCATTCCCTACTGCATCAA
1 CTACATGTTGATTTTTTACCCTTTCATTCCATACTACATCAA
* * *
9001777 CTACGTGTTGATTTTTTACCCTTTCATTCCATACTACCTTAA
1 CTACATGTTGATTTTTTACCCTTTCATTCCATACTACATCAA
9001819 CTACAT
1 CTACAT
9001825 CTTTCACTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.27, G:0.07, T:0.44
Consensus pattern (42 bp):
CTACATGTTGATTTTTTACCCTTTCATTCCATACTACATCAA
Found at i:9002374 original size:14 final size:14
Alignment explanation
Indices: 9002355--9002382 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9002345 GTCCTTTAAA
9002355 CTATTATCTAATTT
1 CTATTATCTAATTT
9002369 CTATTATCTAATTT
1 CTATTATCTAATTT
9002383 TTGGAATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (14 bp):
CTATTATCTAATTT
Found at i:9002796 original size:36 final size:36
Alignment explanation
Indices: 9002756--9002829 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
9002746 TAAGAATAAC
*
9002756 AATAGAAAACCCTAATTATAATTTTGACCAATTAAG
1 AATAGAAAACCCTAACTATAATTTTGACCAATTAAG
* *
9002792 AATAGAAAACCCTAACTATTATTTTGAGCAATTAAG
1 AATAGAAAACCCTAACTATAATTTTGACCAATTAAG
9002828 AA
1 AA
9002830 CAAAAGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (36 bp):
AATAGAAAACCCTAACTATAATTTTGACCAATTAAG
Found at i:9002885 original size:42 final size:42
Alignment explanation
Indices: 9002795--9002910 Score: 135
Period size: 42 Copynumber: 2.8 Consensus size: 42
9002785 AATTAAGAAT
* * * *
9002795 AGAAAACCCTAACTATTATTTTGAGCAATTAAGAACAAAAGC
1 AGAAAACCTTAACTATAAATTTGAGTAATTAAGAACAAAAGC
* * *
9002837 AAAAAACCTTAAATATAAATTTGAGTAATTAAGAACAATAG-
1 AGAAAACCTTAACTATAAATTTGAGTAATTAAGAACAAAAGC
* *
9002878 ATGAAAACCTTAACTAGAAATTTAAGTAATTAA
1 A-GAAAACCTTAACTATAAATTTGAGTAATTAA
9002911 AAAAAATAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 61 0.98
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (42 bp):
AGAAAACCTTAACTATAAATTTGAGTAATTAAGAACAAAAGC
Found at i:9002926 original size:42 final size:42
Alignment explanation
Indices: 9002839--9002926 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
9002829 ACAAAAGCAA
* * * *
9002839 AAAACCTTAAATATAAATTTGAGTAATTAAGAACAATAGATG
1 AAAACCTTAAATAGAAATTTAAGTAATTAAAAAAAATAGATG
*
9002881 AAAACCTTAACTAGAAATTTAAGTAATTAAAAAAAATA-ATAG
1 AAAACCTTAAATAGAAATTTAAGTAATTAAAAAAAATAGAT-G
9002923 AAAA
1 AAAA
9002927 TCATAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 2 0.05
42 38 0.95
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (42 bp):
AAAACCTTAAATAGAAATTTAAGTAATTAAAAAAAATAGATG
Found at i:9009821 original size:166 final size:167
Alignment explanation
Indices: 9009640--9009974 Score: 494
Period size: 166 Copynumber: 2.0 Consensus size: 167
9009630 CAATCTTGGC
* * * * ** * *
9009640 TAATATGGGATATGGACCATAATATTTGGATGAAAGTTTTAAACTTTTTTGAAGGGCCAAAGAGG
1 TAATATGGGATATGGACCATAATATTTAGATGAAAGATTTAAACTTTTCTAAAAAGCCAAAAAAG
* * **
9009705 TTTGTTTATAGGGCTAGAGTTTTAAATACATTTTATCTCCCACCTTGAACTCTCTTTCACTTTTT
66 TTTGTTTATAGCGCTAGAGTTTTAAATACAGTTTATCTCCCACCTCAAACTCTCTTTCA-TTTTT
9009770 TTTTAT-T-AGCATACAATTTCATCCTCTGTTAAGCTT
130 TTTTATGTCAGCATACAATTTCATCCTCTGTTAAGCTT
9009806 TAATATGGGATATGGACCATAATATTTAGATGAAAGATTTAAACTTTTCTAAAAAGCCAAAAAAG
1 TAATATGGGATATGGACCATAATATTTAGATGAAAGATTTAAACTTTTCTAAAAAGCCAAAAAAG
* **
9009871 TTTGTTTATAGCGCTTGAGTTTTAAATGTAGTTTATCTCCCACCTCAAACTCTCTTTCATTTTTT
66 TTTGTTTATAGCGCTAGAGTTTTAAATACAGTTTATCTCCCACCTCAAACTCTCTTTCATTTTTT
* *
9009936 TTTCTGTCAGTATACAATTTCATCCTCTGTTAAGCTT
131 TTTATGTCAGCATACAATTTCATCCTCTGTTAAGCTT
9009973 TA
1 TA
9009975 TTCAACTGAT
Statistics
Matches: 150, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
165 10 0.07
166 110 0.73
167 30 0.20
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (167 bp):
TAATATGGGATATGGACCATAATATTTAGATGAAAGATTTAAACTTTTCTAAAAAGCCAAAAAAG
TTTGTTTATAGCGCTAGAGTTTTAAATACAGTTTATCTCCCACCTCAAACTCTCTTTCATTTTTT
TTTATGTCAGCATACAATTTCATCCTCTGTTAAGCTT
Found at i:9014165 original size:31 final size:31
Alignment explanation
Indices: 9014128--9014199 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
9014118 TATTAAGAAG
* *
9014128 AGAATTGAGGAGACCAAGAAGAGAATAGAGCA
1 AGAATTGAGAAGACCAAGAAGAGAACAGAG-A
* *
9014160 A-AATTGATAAGACTAAGAAGAGAACAGAGA
1 AGAATTGAGAAGACCAAGAAGAGAACAGAGA
9014190 AGAATTGAGA
1 AGAATTGAGA
9014200 GGAGAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 2 0.06
31 31 0.91
32 1 0.03
ACGTcount: A:0.53, C:0.07, G:0.28, T:0.12
Consensus pattern (31 bp):
AGAATTGAGAAGACCAAGAAGAGAACAGAGA
Found at i:9016859 original size:19 final size:19
Alignment explanation
Indices: 9016815--9016862 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9016805 TCATAGTGCA
* *
9016815 TTTGATTAGTCAATTGTAT
1 TTTGATTCGTCAATTATAT
*
9016834 TTAGATTCGTCAA-TATATT
1 TTTGATTCGTCAATTATA-T
9016853 TTTGATTCGT
1 TTTGATTCGT
9016863 TAGTTGATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.52
Consensus pattern (19 bp):
TTTGATTCGTCAATTATAT
Found at i:9016992 original size:56 final size:57
Alignment explanation
Indices: 9016903--9017018 Score: 189
Period size: 56 Copynumber: 2.0 Consensus size: 57
9016893 TGCTCAACAG
*
9016903 CAGAGCTAAGATATTTTTTTTAGGAAGGGTCCAAATATATACAGGACGAGTATAAAAT
1 CAGAGCTAAGATA-TTTTTTTAGGAAGGGTCCAAATATATACAGGACGAATATAAAAT
* *
9016961 CAGAGCTAAGATA-TTTTTTAGGAAGGGTCCAAATATATACGGGACGAATATACAAT
1 CAGAGCTAAGATATTTTTTTAGGAAGGGTCCAAATATATACAGGACGAATATAAAAT
9017017 CA
1 CA
9017019 TTTATAGACA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 42 0.76
58 13 0.24
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.28
Consensus pattern (57 bp):
CAGAGCTAAGATATTTTTTTAGGAAGGGTCCAAATATATACAGGACGAATATAAAAT
Found at i:9022240 original size:54 final size:55
Alignment explanation
Indices: 9022180--9022287 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 55
9022170 TGAGTAAATT
* *
9022180 TTTTAATTTGTG-ACTATTTATTTTAAATATTGATATTTGCTT-ACTAATGAGTTA
1 TTTTAATTTGTGTA-TATTTATTTTAAAGATTGATATTTACTTCACTAATGAGTTA
* *
9022234 TTTTAATTTGTGTATATTTATTTTAAAGGTTGATATTTACTTCATTAATGAGTT
1 TTTTAATTTGTGTATATTTATTTTAAAGATTGATATTTACTTCACTAATGAGTT
9022288 GTAATGATCT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
54 37 0.77
55 11 0.23
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.55
Consensus pattern (55 bp):
TTTTAATTTGTGTATATTTATTTTAAAGATTGATATTTACTTCACTAATGAGTTA
Found at i:9023058 original size:30 final size:30
Alignment explanation
Indices: 9022988--9023061 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
9022978 TATACTTTTA
* * *
9022988 TTATATGCAAATAAACTCTTAAACTTTATT
1 TTATATTCAAATAAACTCATAAACTTTAGT
**** *
9023018 TTGCCCTCAAATAAATTCATAAACTTTAGT
1 TTATATTCAAATAAACTCATAAACTTTAGT
9023048 TTATATTCAAATAA
1 TTATATTCAAATAA
9023062 GCTTTTCTCT
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.41
Consensus pattern (30 bp):
TTATATTCAAATAAACTCATAAACTTTAGT
Found at i:9039529 original size:11 final size:11
Alignment explanation
Indices: 9039494--9039541 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
9039484 CTGATATAAT
9039494 TATT-AATATA
1 TATTAAATATA
9039504 TATT-AA-A-A
1 TATTAAATATA
9039512 T-TTAAATATA
1 TATTAAATATA
*
9039522 TATTAAATACA
1 TATTAAATATA
9039533 TATTAAATA
1 TATTAAATA
9039542 GGTATCAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
7 2 0.06
8 4 0.12
9 2 0.06
10 8 0.24
11 17 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:9043812 original size:19 final size:19
Alignment explanation
Indices: 9043788--9043828 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9043778 TATTTCTTTC
*
9043788 ATTAATTTGT-TATTAACAA
1 ATTAATTTATATATTAA-AA
9043807 ATTAATTTATATATTAAAA
1 ATTAATTTATATATTAAAA
9043826 ATT
1 ATT
9043829 TGACCTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAATTTATATATTAAAA
Found at i:9043974 original size:16 final size:16
Alignment explanation
Indices: 9043953--9043994 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
9043943 CCATGTATTG
9043953 TTTGAA-TTGTCTATCA
1 TTTGAATTTG-CTATCA
9043969 TTTGAAATTTGCTATCA
1 TTTG-AATTTGCTATCA
9043986 TTTGAATTT
1 TTTGAATTT
9043995 TTGGTTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.38
17 12 0.50
18 3 0.12
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTGAATTTGCTATCA
Found at i:9045370 original size:13 final size:13
Alignment explanation
Indices: 9045352--9045378 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9045342 TTTTATTGAA
9045352 TTATGTATTTTAT
1 TTATGTATTTTAT
9045365 TTATGTATTTTAT
1 TTATGTATTTTAT
9045378 T
1 T
9045379 ATTTATTAAA
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:0.00, G:0.07, T:0.70
Consensus pattern (13 bp):
TTATGTATTTTAT
Found at i:9045385 original size:12 final size:12
Alignment explanation
Indices: 9045351--9045385 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
9045341 ATTTTATTGA
9045351 ATTATGTATTTT
1 ATTATGTATTTT
9045363 ATTTATGTATTTT
1 A-TTATGTATTTT
*
9045376 ATTATTTATT
1 ATTATGTATT
9045386 AAATTTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (12 bp):
ATTATGTATTTT
Done.