Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 96 of 129
Found at i:15890712 original size:23 final size:23
Alignment explanation
Indices: 15890653--15890827 Score: 99
Period size: 23 Copynumber: 7.4 Consensus size: 23
15890643 AATATTATAT
*
15890653 TAATAAATAATATTATACAAATAA-A
1 TAAT-AAT-ATATTA-ATAAATAATA
15890678 TAAT-ATACTATTAATAAATAATA
1 TAATAATA-TATTAATAAATAATA
* *
15890701 TTATAATATATTAATAAACAATA
1 TAATAATATATTAATAAATAATA
* * * * *
15890724 TTATATTA-ATAAATCATATATTAA
1 TAATAATATATTAAT-AAATAAT-A
* *
15890748 TAAATAATATAGTAATAAATATTA
1 T-AATAATATATTAATAAATAATA
* * * *
15890772 TTAAT-TTAAATTATTAAATATTA
1 -TAATAATATATTAATAAATAATA
*
15890795 TAATAATATATTAATATATTAATA
1 TAATAATATATTAATA-AATAATA
15890819 -AATAATATA
1 TAATAATATA
15890828 AAGAATAATA
Statistics
Matches: 118, Mismatches: 22, Indels: 22
0.73 0.14 0.14
Matches are distributed among these distances:
22 17 0.14
23 67 0.57
24 14 0.12
25 16 0.14
26 4 0.03
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (23 bp):
TAATAATATATTAATAAATAATA
Found at i:15890724 original size:59 final size:56
Alignment explanation
Indices: 15890648--15890757 Score: 157
Period size: 59 Copynumber: 1.9 Consensus size: 56
15890638 TAAATAATAT
* *
15890648 TATATTAATAAATAATATTATACAAATAAATAATATACTATTAATAAATAATATTATAA
1 TATATTAATAAACAATATTATACAAATAAAT--CATA-TATTAATAAATAATATTATAA
**
15890707 TATATTAATAAACAATATTATATTAATAAATCATATATTAATAAATAATAT
1 TATATTAATAAACAATATTATACAAATAAATCATATATTAATAAATAATAT
15890758 AGTAATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
56 16 0.34
57 3 0.06
59 28 0.60
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (56 bp):
TATATTAATAAACAATATTATACAAATAAATCATATATTAATAAATAATATTATAA
Found at i:15890827 original size:15 final size:15
Alignment explanation
Indices: 15890643--15890827 Score: 104
Period size: 15 Copynumber: 12.6 Consensus size: 15
15890633 ATTTATAAAT
*
15890643 AATATTATATTAATA
1 AATAATATATTAATA
*
15890658 AATAATATTATACAAATA
1 AATAATA-TAT--TAATA
* *
15890676 AATAATATACT-ATT
1 AATAATATATTAATA
*
15890690 AATAA-ATAAT-AT-
1 AATAATATATTAATA
*
15890702 TATAATATATTAATAAA
1 AATAATATATTAAT--A
*
15890719 CAATATTATATTAATA
1 -AATAATATATTAATA
*
15890735 AATCATATATTAATA
1 AATAATATATTAATA
*
15890750 AATAATATAGTAATA
1 AATAATATATTAATA
15890765 AAT-AT-TATTAAT-
1 AATAATATATTAATA
* *
15890777 --T--TAAATTATTA
1 AATAATATATTAATA
* *
15890788 AATATTATAATAATA
1 AATAATATATTAATA
*
15890803 TATTAATATATTAATA
1 -AATAATATATTAATA
15890819 AATAATATA
1 AATAATATA
15890828 AAGAATAATA
Statistics
Matches: 130, Mismatches: 24, Indels: 32
0.70 0.13 0.17
Matches are distributed among these distances:
9 1 0.01
10 6 0.05
12 4 0.03
13 17 0.13
14 11 0.08
15 50 0.38
16 16 0.12
17 2 0.02
18 23 0.18
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (15 bp):
AATAATATATTAATA
Found at i:15890957 original size:26 final size:24
Alignment explanation
Indices: 15890920--15890969 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
15890910 ATTTTTTAAT
* *
15890920 ATTCATAATTTTACTAATATATAA
1 ATTCATAATTTTAATAATAAATAA
15890944 ATTCAATATATTTTAATAATAAATAA
1 ATTC-ATA-ATTTTAATAATAAATAA
15890970 TCTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 3 0.14
26 15 0.68
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTCATAATTTTAATAATAAATAA
Found at i:15892542 original size:21 final size:21
Alignment explanation
Indices: 15892512--15892551 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
15892502 TTTTTCATTA
15892512 ATTTATTCAAATAACAAAAAAT
1 ATTTATTCAAATAA-AAAAAAT
*
15892534 ATTT-TTCAATTAAAAAAA
1 ATTTATTCAAATAAAAAAA
15892552 TATAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 8 0.47
22 4 0.24
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTTATTCAAATAAAAAAAAT
Found at i:15892584 original size:15 final size:14
Alignment explanation
Indices: 15892558--15892591 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
15892548 AAAATATAAA
*
15892558 TATTTTTCAAAAAT
1 TATTTTTTAAAAAT
15892572 TATTTTTTAAAAAT
1 TATTTTTTAAAAAT
15892586 TATTTT
1 TATTTT
15892592 CTGTGAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTTTTTAAAAAT
Found at i:15892815 original size:2 final size:2
Alignment explanation
Indices: 15892810--15892835 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15892800 CTCTCTCACA
15892810 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
15892836 TCATTTACGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15893351 original size:12 final size:12
Alignment explanation
Indices: 15893334--15893358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15893324 TAACAACTTC
15893334 ATATAAATATAT
1 ATATAAATATAT
15893346 ATATAAATATAT
1 ATATAAATATAT
15893358 A
1 A
15893359 AATCTACCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:15893778 original size:23 final size:20
Alignment explanation
Indices: 15893739--15893779 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
15893729 CCTTTAGAGA
15893739 ATTTAAAATTATTAAATTTC
1 ATTTAAAATTATTAAATTTC
15893759 ATTTAATAATTTATTTAAATT
1 ATTTAA-AA-TTA-TTAAATT
15893780 GATGTAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 3 0.17
23 7 0.39
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTAAAATTATTAAATTTC
Found at i:15895290 original size:17 final size:20
Alignment explanation
Indices: 15895253--15895292 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
15895243 AATTATAATA
15895253 AAATATTTAATATAATATTT
1 AAATATTTAATATAATATTT
15895273 AAAT-TTTAATA-AAT-TTT
1 AAATATTTAATATAATATTT
15895290 AAA
1 AAA
15895293 AAATATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 3 0.15
19 7 0.35
20 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATTTAATATAATATTT
Found at i:15895415 original size:15 final size:15
Alignment explanation
Indices: 15895377--15895444 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 15
15895367 ATATTAAAAA
15895377 TAAATATTATATTAA-T
1 TAAATATT-T-TTAATT
15895393 TAATATATTTTTAATT
1 TAA-ATATTTTTAATT
*
15895409 TAAATA-TTAT-ATT
1 TAAATATTTTTAATT
*
15895422 AAAAT-TTTTTAAATT
1 TAAATATTTTT-AATT
15895437 TAAATATT
1 TAAATATT
15895445 ATATTAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 10 0.24
14 3 0.07
15 14 0.33
16 10 0.24
17 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAATATTTTTAATT
Found at i:15895417 original size:23 final size:28
Alignment explanation
Indices: 15895377--15895471 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 28
15895367 ATATTAAAAA
*
15895377 TAAATATTATATTAATTAATATATTTTTAATT
1 TAAATATTATATTAA--AAT-T-TTTTAAATT
15895409 TAAATATTATATTAAAATTTTTTAAATT
1 TAAATATTATATTAAAATTTTTTAAATT
*
15895437 TAAATATTATATTAAATATTATATTATAATT
1 TAAATATTATATTAAA-ATT-TTTTA-AATT
15895468 TAAA
1 TAAA
15895472 AACCATTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
28 24 0.41
29 4 0.07
30 7 0.12
31 8 0.14
32 15 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TAAATATTATATTAAAATTTTTTAAATT
Found at i:15895453 original size:12 final size:12
Alignment explanation
Indices: 15895408--15895462 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 12
15895398 TATTTTTAAT
15895408 TTAAATATTATA
1 TTAAATATTATA
* *
15895420 TTAAAATTTTTTAAA
1 TT-AAA--TATTATA
15895435 TTTAAATATTATA
1 -TTAAATATTATA
15895448 TTAAATATTATA
1 TTAAATATTATA
15895460 TTA
1 TTA
15895463 TAATTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 17 0.49
13 8 0.23
15 8 0.23
16 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAATATTATA
Found at i:15897232 original size:11 final size:11
Alignment explanation
Indices: 15897218--15897249 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
15897208 TAATGAAAAA
15897218 ATAAAAAATAT
1 ATAAAAAATAT
15897229 AT-AAAAA-AT
1 ATAAAAAATAT
15897238 ATAAAAAATAT
1 ATAAAAAATAT
15897249 A
1 A
15897250 AAATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.21
10 10 0.53
11 5 0.26
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:15897234 original size:18 final size:18
Alignment explanation
Indices: 15897213--15897252 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
15897203 AAATTTAATG
15897213 AAAAAATA-AAAAATATAT
1 AAAAAATATAAAAA-ATAT
15897231 AAAAAATATAAAAAATAT
1 AAAAAATATAAAAAATAT
15897249 AAAA
1 AAAA
15897253 TTATAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAAATATAAAAAATAT
Found at i:15916759 original size:12 final size:12
Alignment explanation
Indices: 15916742--15916771 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15916732 GTGGTAGAAG
15916742 CGATGATGATGA
1 CGATGATGATGA
15916754 CGATGATGATGA
1 CGATGATGATGA
*
15916766 TGATGA
1 CGATGA
15916772 GAAGGAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (12 bp):
CGATGATGATGA
Found at i:15918511 original size:18 final size:18
Alignment explanation
Indices: 15918490--15918532 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15918480 TCTGGTGAAA
15918490 ATGATGAGGAGTTGTCAG
1 ATGATGAGGAGTTGTCAG
** *
15918508 ATGATGCTGAGTTTTCAG
1 ATGATGAGGAGTTGTCAG
15918526 ATGATGA
1 ATGATGA
15918533 AAAGGAGGCT
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:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (18 bp):
ATGATGAGGAGTTGTCAG
Found at i:15924544 original size:6 final size:6
Alignment explanation
Indices: 15924533--15924561 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
15924523 GAGAGAGCGA
15924533 GGCTTT GGCTTT GGCTTT GGCTTT GGCTT
1 GGCTTT GGCTTT GGCTTT GGCTTT GGCTT
15924562 CAGGGCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.48
Consensus pattern (6 bp):
GGCTTT
Found at i:15925629 original size:1 final size:1
Alignment explanation
Indices: 15925623--15925650 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
15925613 TCTCTTATGT
15925623 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
15925651 TCATCTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:15927495 original size:2 final size:2
Alignment explanation
Indices: 15927488--15927513 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15927478 GAATTGTTAG
15927488 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
15927514 CAAAGTGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15928285 original size:9 final size:9
Alignment explanation
Indices: 15928271--15928315 Score: 90
Period size: 9 Copynumber: 5.0 Consensus size: 9
15928261 AGCTGGAATA
15928271 TTGAAGGCG
1 TTGAAGGCG
15928280 TTGAAGGCG
1 TTGAAGGCG
15928289 TTGAAGGCG
1 TTGAAGGCG
15928298 TTGAAGGCG
1 TTGAAGGCG
15928307 TTGAAGGCG
1 TTGAAGGCG
15928316 CCTGAAGCAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.22, C:0.11, G:0.44, T:0.22
Consensus pattern (9 bp):
TTGAAGGCG
Found at i:15929775 original size:2 final size:2
Alignment explanation
Indices: 15929768--15929842 Score: 96
Period size: 2 Copynumber: 37.5 Consensus size: 2
15929758 ATTGACATAC
* * * *
15929768 AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AC AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
15929810 AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15929843 AACACACTAG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:15934815 original size:92 final size:96
Alignment explanation
Indices: 15934681--15934862 Score: 318
Period size: 92 Copynumber: 1.9 Consensus size: 96
15934671 TTATATATAA
15934681 AAAAAACAATATTAAACCCATTTATTCTTCTATCATCTTTGTCAAATACTCACAT-AAAAA-AAA
1 AAAAAACAATATTAAACCCATTTATTCTTCTATCATCTTTGTCAAATACTCACATAAAAAAGAAA
15934744 -ATTTTTATTGAAGCAAATTTGCTTATAACG
66 GATTTTTATTGAAGCAAATTTGCTTATAACG
15934774 AAAAAACAAT-TTAAACCCATTTATTCTTCTATCATCTTTGTCAAATACTCACATAAAAAAGAAA
1 AAAAAACAATATTAAACCCATTTATTCTTCTATCATCTTTGTCAAATACTCACATAAAAAAGAAA
* *
15934838 GATTTTTGTTGAAGTAAATTTGCTT
66 GATTTTTATTGAAGCAAATTTGCTT
15934863 GTCATTTTAT
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
92 44 0.52
93 15 0.18
94 3 0.04
95 22 0.26
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (96 bp):
AAAAAACAATATTAAACCCATTTATTCTTCTATCATCTTTGTCAAATACTCACATAAAAAAGAAA
GATTTTTATTGAAGCAAATTTGCTTATAACG
Found at i:15939607 original size:15 final size:15
Alignment explanation
Indices: 15939587--15939629 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
15939577 AATATAGGTT
*
15939587 TTTAAAACATAAAAA
1 TTTAAAACTTAAAAA
*
15939602 TTTAAAA-TTTAAAA
1 TTTAAAACTTAAAAA
15939616 TTTAAAACTTAAAA
1 TTTAAAACTTAAAA
15939630 TCTAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (15 bp):
TTTAAAACTTAAAAA
Found at i:15939608 original size:7 final size:7
Alignment explanation
Indices: 15939598--15939637 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
15939588 TTAAAACATA
15939598 AAAATTT
1 AAAATTT
15939605 AAAATTT
1 AAAATTT
15939612 AAAATTT
1 AAAATTT
*
15939619 AAAACTT
1 AAAATTT
*
15939626 AAAATCT
1 AAAATTT
15939633 AAAAT
1 AAAAT
15939638 AAATGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (7 bp):
AAAATTT
Found at i:15942040 original size:30 final size:30
Alignment explanation
Indices: 15942006--15942073 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
15941996 GTCTTCAATC
15942006 TTTAATTTACAT-TCAAATAAATCTTT-AACT
1 TTTAATTTACATCT-AAATAAAT-TTTAAACT
**
15942036 TTTAATTTGTATCTAAATAAATTTTAAACT
1 TTTAATTTACATCTAAATAAATTTTAAACT
15942066 TTTAATTT
1 TTTAATTT
15942074 TTACCTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 3 0.09
30 30 0.88
31 1 0.03
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTAATTTACATCTAAATAAATTTTAAACT
Found at i:15942082 original size:30 final size:30
Alignment explanation
Indices: 15942020--15942086 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
15942010 ATTTACATTC
*
15942020 AAATAAATCTTTAACTTTTAATTTGTATCT
1 AAATAAATCTTTAACTTTTAATTTGTACCT
*
15942050 AAATAAAT-TTTAAACTTTTAATTTTTACCT
1 AAATAAATCTTT-AACTTTTAATTTGTACCT
15942080 AAATAAA
1 AAATAAA
15942087 CTTCTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 31 0.91
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (30 bp):
AAATAAATCTTTAACTTTTAATTTGTACCT
Found at i:15943344 original size:13 final size:13
Alignment explanation
Indices: 15943326--15943370 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
15943316 TTATTTGAAA
15943326 TAATTTTCTTTAT
1 TAATTTTCTTTAT
15943339 TAATTTTCTTTAT
1 TAATTTTCTTTAT
15943352 TAA-TTTCTTTTAT
1 TAATTTTC-TTTAT
15943365 T-ATTTT
1 TAATTTT
15943371 TTCTTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.17
13 25 0.83
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (13 bp):
TAATTTTCTTTAT
Found at i:15943454 original size:3 final size:3
Alignment explanation
Indices: 15943448--15943476 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
15943438 TTTAATAATT
15943448 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15943477 TAAATAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15947085 original size:29 final size:29
Alignment explanation
Indices: 15947042--15947110 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
15947032 GCTAAATTAG
* * *
15947042 CTTAAAATATGAGTGTCAGCTAATGTGGA
1 CTTAAAATCTTAGTGCCAGCTAATGTGGA
*
15947071 CTTAAAATCTTAGTGCCAGCTAATTTGGA
1 CTTAAAATCTTAGTGCCAGCTAATGTGGA
15947100 CTT-AAATCTTA
1 CTTAAAATCTTA
15947111 TCGATACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 8 0.22
29 28 0.78
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (29 bp):
CTTAAAATCTTAGTGCCAGCTAATGTGGA
Found at i:15947128 original size:31 final size:29
Alignment explanation
Indices: 15947061--15947129 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
15947051 TGAGTGTCAG
* * *
15947061 CTAATGTGGACTTAAAATCTTAGTGCCAG
1 CTAATTTGGACTTAAAATCTTAGTACCAA
15947090 CTAATTTGGACTT-AAATCTTATCGATACCAA
1 CTAATTTGGACTTAAAATCTTA--G-TACCAA
15947121 CTAATTTGG
1 CTAATTTGG
15947130 GTTTAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.24
29 12 0.35
30 1 0.03
31 13 0.38
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (29 bp):
CTAATTTGGACTTAAAATCTTAGTACCAA
Found at i:15947364 original size:14 final size:15
Alignment explanation
Indices: 15947328--15947379 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 15
15947318 AACAAACTCT
15947328 TTTCTTTTTCTTTTA
1 TTTCTTTTTCTTTTA
**
15947343 TTGATTTTT-TTTTA
1 TTTCTTTTTCTTTTA
15947357 TTTCTTTTTCTTTT-
1 TTTCTTTTTCTTTTA
*
15947371 TTCCTTTTT
1 TTTCTTTTT
15947380 GTTTGTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 20 0.65
15 11 0.35
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.81
Consensus pattern (15 bp):
TTTCTTTTTCTTTTA
Found at i:15949282 original size:8 final size:9
Alignment explanation
Indices: 15949259--15949293 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
15949249 TAAGAAACAT
*
15949259 GATTTTTTT
1 GATTTTTTG
*
15949268 CATTTTTTG
1 GATTTTTTG
15949277 GATTTTTTG
1 GATTTTTTG
15949286 GATTTTTT
1 GATTTTTT
15949294 TTGAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.11, C:0.03, G:0.14, T:0.71
Consensus pattern (9 bp):
GATTTTTTG
Found at i:15951909 original size:20 final size:20
Alignment explanation
Indices: 15951871--15951911 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15951861 TCTACTGCTT
*
15951871 GTGTTGAATATGCATGTACA
1 GTGTTGAAGATGCATGTACA
15951891 GTGTATGAAGATGCA-GTACA
1 GTGT-TGAAGATGCATGTACA
15951911 G
1 G
15951912 AGAGATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (20 bp):
GTGTTGAAGATGCATGTACA
Found at i:15953164 original size:4 final size:4
Alignment explanation
Indices: 15953155--15953181 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15953145 GTGAGCTCCC
15953155 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
15953182 TCAGCTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:15953252 original size:2 final size:2
Alignment explanation
Indices: 15953245--15953284 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15953235 GCCTTCTTCA
15953245 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
15953285 TTCTGTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15955246 original size:17 final size:16
Alignment explanation
Indices: 15955224--15955257 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15955214 TTTATTAAAT
*
15955224 ATAAAACACAAATATAA
1 ATAAAACA-AAAAATAA
15955241 ATAAAACAAAAAATAA
1 ATAAAACAAAAAATAA
15955257 A
1 A
15955258 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
ATAAAACAAAAAATAA
Found at i:15955259 original size:13 final size:13
Alignment explanation
Indices: 15955233--15955273 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
15955223 TATAAAACAC
*
15955233 AAATATAAATAAA
1 AAATAAAAATAAA
*
15955246 ACA-AAAAATAAA
1 AAATAAAAATAAA
15955258 AAATAAAAATAAA
1 AAATAAAAATAAA
15955271 AAA
1 AAA
15955274 ATTACCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (13 bp):
AAATAAAAATAAA
Found at i:15962583 original size:21 final size:21
Alignment explanation
Indices: 15962559--15962598 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
15962549 AGGGATTTGC
15962559 ATGTGAACACAATATTCTGTA
1 ATGTGAACACAATATTCTGTA
*
15962580 ATGTGAACACAATCTTCTG
1 ATGTGAACACAATATTCTG
15962599 CCCATTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (21 bp):
ATGTGAACACAATATTCTGTA
Found at i:15968868 original size:19 final size:19
Alignment explanation
Indices: 15968838--15968884 Score: 69
Period size: 18 Copynumber: 2.5 Consensus size: 19
15968828 GTGCCTTGAC
15968838 AGAAAAAGAGAAGAAAAAAA
1 AGAAAAAGAGAA-AAAAAAA
*
15968858 GGAAAAA-AGAAAAAAAAA
1 AGAAAAAGAGAAAAAAAAA
15968876 AGAAAAAGA
1 AGAAAAAGA
15968885 AAGTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.54
19 5 0.21
20 6 0.25
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAGAAAAAAAAA
Found at i:15969538 original size:10 final size:10
Alignment explanation
Indices: 15969523--15969558 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
15969513 AGGGACGTGC
15969523 AAAAAAAAGG
1 AAAAAAAAGG
*
15969533 AAAAAAAAAG
1 AAAAAAAAGG
15969543 AAAAAAAAGG
1 AAAAAAAAGG
15969553 AAAAAA
1 AAAAAA
15969559 GAAAAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:15969539 original size:11 final size:11
Alignment explanation
Indices: 15969523--15969558 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
15969513 AGGGACGTGC
15969523 AAAAAAAAGGA
1 AAAAAAAAGGA
15969534 AAAAAAAA-G-
1 AAAAAAAAGGA
15969543 AAAAAAAAGGA
1 AAAAAAAAGGA
15969554 AAAAA
1 AAAAA
15969559 GAAAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 8 0.35
10 2 0.09
11 13 0.57
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGGA
Found at i:15969546 original size:17 final size:17
Alignment explanation
Indices: 15969526--15969589 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 17
15969516 GACGTGCAAA
15969526 AAAAAGGAAAAAAAAAG
1 AAAAAGGAAAAAAAAAG
*
15969543 AAAAAAAAGGAAAAAAGAA-
1 ---AAAAAGGAAAAAAAAAG
* * *
15969562 AAAAATGAAAAGAAATG
1 AAAAAGGAAAAAAAAAG
15969579 AAAAAGGAAAA
1 AAAAAGGAAAA
15969590 GAAATTTGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
16 12 0.32
17 10 0.27
20 15 0.41
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAAGGAAAAAAAAAG
Found at i:15969563 original size:26 final size:26
Alignment explanation
Indices: 15969525--15969589 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
15969515 GGACGTGCAA
15969525 AAAAAAGGAAAAAAAAAGAAAAAAAAGG
1 AAAAAA-G-AAAAAAAAGAAAAAAAAGG
* * *
15969553 AAAAAAGAAAAAAATGAAAAGAAATG
1 AAAAAAGAAAAAAAAGAAAAAAAAGG
*
15969579 AAAAAGGAAAA
1 AAAAAAGAAAA
15969590 GAAATTTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 26 0.79
27 1 0.03
28 6 0.18
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAGAAAAAAAAGG
Found at i:15969566 original size:10 final size:10
Alignment explanation
Indices: 15969523--15969576 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
15969513 AGGGACGTGC
*
15969523 AAAAAAAAGG
1 AAAAAAAAAG
15969533 AAAAAAAAAG
1 AAAAAAAAAG
*
15969543 AAAAAAAAGG
1 AAAAAAAAAG
15969553 AAAAAAGAAA-
1 AAAAAA-AAAG
*
15969563 AAAATGAAAAG
1 AAAA-AAAAAG
15969574 AAA
1 AAA
15969577 TGAAAAAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 31 0.84
11 6 0.16
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:15969577 original size:10 final size:9
Alignment explanation
Indices: 15969524--15969583 Score: 59
Period size: 9 Copynumber: 6.6 Consensus size: 9
15969514 GGGACGTGCA
*
15969524 AAAAAAAGG
1 AAAAAAATG
*
15969533 AAAAAAAAAG
1 -AAAAAAATG
*
15969543 AAAAAAAAG
1 AAAAAAATG
*
15969552 GAAAAAA-G
1 AAAAAAATG
15969560 AAAAAAATG
1 AAAAAAATG
15969569 AAAAGAAATG
1 AAAA-AAATG
15969579 AAAAA
1 AAAAA
15969584 GGAAAAGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
8 7 0.16
9 21 0.47
10 17 0.38
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAAAATG
Found at i:15969594 original size:17 final size:15
Alignment explanation
Indices: 15969538--15969593 Score: 67
Period size: 17 Copynumber: 3.5 Consensus size: 15
15969528 AAAGGAAAAA
15969538 AAAAGAAAAAAAAGG
1 AAAAGAAAAAAAAGG
* *
15969553 AAAAAAGAAAAAAATG
1 AAAAGA-AAAAAAAGG
15969569 AAAAGAAATGAAAAAGG
1 AAAAGAAA--AAAAAGG
15969586 AAAAGAAA
1 AAAAGAAA
15969594 TTTGATTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.21
16 13 0.38
17 14 0.41
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (15 bp):
AAAAGAAAAAAAAGG
Found at i:15970133 original size:10 final size:10
Alignment explanation
Indices: 15970120--15970155 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
15970110 AAAATGAAGG
15970120 AAAAAAATGC
1 AAAAAAATGC
*
15970130 AAAAAAATGT
1 AAAAAAATGC
15970140 AAAAAAATGC
1 AAAAAAATGC
15970150 AAAAAA
1 AAAAAA
15970156 TAAAAAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.75, C:0.06, G:0.08, T:0.11
Consensus pattern (10 bp):
AAAAAAATGC
Found at i:15970135 original size:9 final size:9
Alignment explanation
Indices: 15970119--15970174 Score: 62
Period size: 10 Copynumber: 6.2 Consensus size: 9
15970109 GAAAATGAAG
15970119 GAAAAAAAT
1 GAAAAAAAT
15970128 GCAAAAAAAT
1 G-AAAAAAAT
15970138 GTAAAAAAAT
1 G-AAAAAAAT
*
15970148 GCAAAAAAT
1 GAAAAAAAT
*
15970157 --AAAAAAG
1 GAAAAAAAT
15970164 GAAAAAAAT
1 GAAAAAAAT
15970173 GA
1 GA
15970175 TGAATGAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 6 0.15
9 16 0.40
10 18 0.45
ACGTcount: A:0.73, C:0.04, G:0.12, T:0.11
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:15972379 original size:29 final size:29
Alignment explanation
Indices: 15972347--15972420 Score: 148
Period size: 29 Copynumber: 2.6 Consensus size: 29
15972337 AGGGTTAGGT
15972347 TAAGGGTTTAGGGTTTGAATGGTAGTTTA
1 TAAGGGTTTAGGGTTTGAATGGTAGTTTA
15972376 TAAGGGTTTAGGGTTTGAATGGTAGTTTA
1 TAAGGGTTTAGGGTTTGAATGGTAGTTTA
15972405 TAAGGGTTTAGGGTTT
1 TAAGGGTTTAGGGTTT
15972421 AGGGTTTAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (29 bp):
TAAGGGTTTAGGGTTTGAATGGTAGTTTA
Found at i:15972389 original size:36 final size:33
Alignment explanation
Indices: 15972342--15972427 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 33
15972332 GGGTTAGGGT
15972342 TAGGTTAAGGGTTTAGGGTTTGAATGGTAGTTTA
1 TAGGTT-AGGGTTTAGGGTTTGAATGGTAGTTTA
15972376 TA----AGGGTTTAGGGTTTGAATGGTAGTTTA
1 TAGGTTAGGGTTTAGGGTTTGAATGGTAGTTTA
15972405 TAAGGGTTTAGGGTTTAGGGTTT
1 T-A-GG-TTAGGGTTTAGGGTTT
15972428 AGGGTTTAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
29 28 0.62
30 1 0.02
34 2 0.04
36 14 0.31
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (33 bp):
TAGGTTAGGGTTTAGGGTTTGAATGGTAGTTTA
Found at i:15972419 original size:7 final size:7
Alignment explanation
Indices: 15972407--15972437 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
15972397 GTAGTTTATA
15972407 AGGGTTT
1 AGGGTTT
15972414 AGGGTTT
1 AGGGTTT
15972421 AGGGTTT
1 AGGGTTT
15972428 AGGGTTT
1 AGGGTTT
15972435 AGG
1 AGG
15972438 TTTGGAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (7 bp):
AGGGTTT
Found at i:15972496 original size:13 final size:13
Alignment explanation
Indices: 15972478--15972503 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15972468 AATACATGTG
15972478 ACAAAAATAAAAA
1 ACAAAAATAAAAA
15972491 ACAAAAATAAAAA
1 ACAAAAATAAAAA
15972504 TGTAAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.08
Consensus pattern (13 bp):
ACAAAAATAAAAA
Found at i:15975194 original size:12 final size:13
Alignment explanation
Indices: 15975168--15975197 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
15975158 GAAAGAGTTT
15975168 AAAGAAAGAGAAA
1 AAAGAAAGAGAAA
15975181 AAAGAAAG-GAAA
1 AAAGAAAGAGAAA
15975193 AAAGA
1 AAAGA
15975198 GACAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAGAAA
Found at i:15975478 original size:31 final size:31
Alignment explanation
Indices: 15975400--15975513 Score: 102
Period size: 31 Copynumber: 3.7 Consensus size: 31
15975390 TTTGAAAGAA
* * * * *
15975400 ATGAGACTTAAAGCTAATTTAGTTGACATTG
1 ATGAGATTTAAACCTAGTTTAGTTGGCACTG
* * *
15975431 ATCAGATTTAAGCCTAGTATAGTTGGCACTG
1 ATGAGATTTAAACCTAGTTTAGTTGGCACTG
* ** *
15975462 ATGAGAATTAAACCTAGTTTAACTGGCACCG
1 ATGAGATTTAAACCTAGTTTAGTTGGCACTG
* *
15975493 ATGAGATTTAAGCCTACTTTA
1 ATGAGATTTAAACCTAGTTTA
15975514 ACTAGTTTCC
Statistics
Matches: 65, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (31 bp):
ATGAGATTTAAACCTAGTTTAGTTGGCACTG
Found at i:15975514 original size:31 final size:31
Alignment explanation
Indices: 15975434--15975516 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
15975424 GACATTGATC
* ** *
15975434 AGATTTAAGCCTAGTATAGTTGGCACTGATG
1 AGATTTAAGCCTAGTTTAACTGGCACCGATG
* *
15975465 AGAATTAAACCTAGTTTAACTGGCACCGATG
1 AGATTTAAGCCTAGTTTAACTGGCACCGATG
*
15975496 AGATTTAAGCCTACTTTAACT
1 AGATTTAAGCCTAGTTTAACT
15975517 AGTTTCCATA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (31 bp):
AGATTTAAGCCTAGTTTAACTGGCACCGATG
Found at i:15975558 original size:51 final size:51
Alignment explanation
Indices: 15975493--15975589 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 51
15975483 ACTGGCACCG
* * *
15975493 ATGAGATTTAAGCCTACTTTAACTAGTTTCCATATAAGAATTTAAGCACTA
1 ATGAGAATTAAGCCTACTTTAACTAGTTCCCAAATAAGAATTTAAGCACTA
* *
15975544 ATGAGAATTAAGCCTAGTTTAGCTAGTTCCCAAATAAGAATTTAAG
1 ATGAGAATTAAGCCTACTTTAACTAGTTCCCAAATAAGAATTTAAG
15975590 TCGAGTTTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (51 bp):
ATGAGAATTAAGCCTACTTTAACTAGTTCCCAAATAAGAATTTAAGCACTA
Found at i:15975649 original size:31 final size:31
Alignment explanation
Indices: 15975614--15975793 Score: 132
Period size: 31 Copynumber: 5.8 Consensus size: 31
15975604 CATTGAGGAC
* * * *
15975614 AATTAAACCGAGTTTAGCCGTCACCGATGAG
1 AATTAAACCCAATTTAGCTGGCACCGATGAG
* * * * * *
15975645 AATTAAGCCC-ATTTAGCTAGTATCGAGGAT
1 AATTAAACCCAATTTAGCTGGCACCGATGAG
* * *
15975675 AATTAAGCCTAGTTTAGCTGGCACCGATGAAG
1 AATTAAACCCAATTTAGCTGGCACCGATG-AG
* ** *
15975707 ATTTAAACCCAATTTAGCTGAAATCGATGATG
1 AATTAAACCCAATTTAGCTGGCACCGATGA-G
*
15975739 -ATTAAGCCCAATTTAGCTGGCACCGATGAG
1 AATTAAACCCAATTTAGCTGGCACCGATGAG
**
15975769 AATTAAA-TGAAGTTTAGCTGGCACC
1 AATTAAACCCAA-TTTAGCTGGCACC
15975794 CAAATAAGAT
Statistics
Matches: 112, Mismatches: 32, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
30 24 0.21
31 64 0.57
32 24 0.21
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (31 bp):
AATTAAACCCAATTTAGCTGGCACCGATGAG
Found at i:15975743 original size:63 final size:61
Alignment explanation
Indices: 15975595--15975775 Score: 202
Period size: 63 Copynumber: 2.9 Consensus size: 61
15975585 TTAAGTCGAG
* * * * * * * *
15975595 TTTAGCTAGCATTGAGGACAATTAAACCGAGTTTAGCCGTCACCGATGAGAATTAAGCCCA
1 TTTAGCTAGAATCGAGGATAATTAAGCCCAGTTTAGCTGGCACCGATGAGAATTAAACCCA
* * *
15975656 TTTAGCTAGTATCGAGGATAATTAAGCCTAGTTTAGCTGGCACCGATGAAGATTTAAACCCAA
1 TTTAGCTAGAATCGAGGATAATTAAGCCCAGTTTAGCTGGCACCGATG-AGAATTAAACCC-A
* * *
15975719 TTTAGCT-GAAATCGATGATGATTAAGCCCAATTTAGCTGGCACCGATGAGAATTAAA
1 TTTAGCTAG-AATCGAGGATAATTAAGCCCAGTTTAGCTGGCACCGATGAGAATTAAA
15975776 TGAAGTTTAG
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
61 41 0.40
62 19 0.19
63 42 0.41
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (61 bp):
TTTAGCTAGAATCGAGGATAATTAAGCCCAGTTTAGCTGGCACCGATGAGAATTAAACCCA
Found at i:15976428 original size:46 final size:46
Alignment explanation
Indices: 15976348--15976459 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 46
15976338 CCTAAAGAAG
* * *
15976348 CTTTTAAATTTA-TTTTGAAAGTTGTTAAGTCTTTACTGAAAAAAA
1 CTTTTAAATTTATTTTTAAAAGTTATTAAGCCTTTACTGAAAAAAA
* * * * * *
15976393 CTTTAAAATTTATTTTTAAAAGTTATTGAGCCTTTATTTAAAAGAG
1 CTTTTAAATTTATTTTTAAAAGTTATTAAGCCTTTACTGAAAAAAA
*
15976439 CTTTTAAATTTATTTTCAAAA
1 CTTTTAAATTTATTTTTAAAA
15976460 ATTGTTGATT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
45 11 0.20
46 44 0.80
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (46 bp):
CTTTTAAATTTATTTTTAAAAGTTATTAAGCCTTTACTGAAAAAAA
Found at i:15976590 original size:18 final size:17
Alignment explanation
Indices: 15976561--15976604 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
15976551 AAAAAATTTC
* *
15976561 AAAAAAAGACAATAAATT
1 AAAAAAA-ACAACAAAAT
15976579 AATAAAAAACAACAAAAT
1 AA-AAAAAACAACAAAAT
15976597 AAAAAAAA
1 AAAAAAAA
15976605 TCCAAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 6 0.26
18 12 0.52
19 5 0.22
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.11
Consensus pattern (17 bp):
AAAAAAAACAACAAAAT
Found at i:15977292 original size:21 final size:21
Alignment explanation
Indices: 15977268--15977312 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
15977258 TTTGGCTCTA
15977268 CCAGCACCTA-CGACCCAGCAC
1 CCAGCACCTAGC-ACCCAGCAC
*
15977289 CCAGCACCTAGCACCTAGCAC
1 CCAGCACCTAGCACCCAGCAC
15977310 CCA
1 CCA
15977313 CTACCATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.51, G:0.13, T:0.07
Consensus pattern (21 bp):
CCAGCACCTAGCACCCAGCAC
Found at i:15977301 original size:14 final size:14
Alignment explanation
Indices: 15977270--15977312 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
15977260 TGGCTCTACC
15977270 AGCACCTA-CGACCC
1 AGCACCTAGC-ACCC
* *
15977284 AGCACCCAGCACCT
1 AGCACCTAGCACCC
15977298 AGCACCTAGCACCC
1 AGCACCTAGCACCC
15977312 A
1 A
15977313 CTACCATTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 23 0.96
15 1 0.04
ACGTcount: A:0.30, C:0.49, G:0.14, T:0.07
Consensus pattern (14 bp):
AGCACCTAGCACCC
Found at i:15978833 original size:3 final size:3
Alignment explanation
Indices: 15978827--15978894 Score: 81
Period size: 3 Copynumber: 23.7 Consensus size: 3
15978817 CCTTTAAAAA
**
15978827 AAT AAT AAT AA- AA- AAT AAT CAAT AA- AAT -AT TTT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
15978869 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15978895 GATTAAATAC
Statistics
Matches: 58, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
2 8 0.14
3 47 0.81
4 3 0.05
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:15980413 original size:17 final size:17
Alignment explanation
Indices: 15980391--15980423 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15980381 TATATTATTT
15980391 ATAAAA-AAAATTAAAAA
1 ATAAAATAAAA-TAAAAA
15980408 ATAAAATAAAATAAAA
1 ATAAAATAAAATAAAA
15980424 TAAATTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
ATAAAATAAAATAAAAA
Found at i:15980839 original size:27 final size:27
Alignment explanation
Indices: 15980790--15980841 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15980780 CATTGCATAG
** *
15980790 AATATATACTTAATTTTTTTAATAATA
1 AATATATACTTAATTAATATAATAATA
*
15980817 AATATATGCTTAATTAATATAATAA
1 AATATATACTTAATTAATATAATAA
15980842 ATATCAATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (27 bp):
AATATATACTTAATTAATATAATAATA
Found at i:15983036 original size:10 final size:9
Alignment explanation
Indices: 15983005--15983054 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 9
15982995 CTCTTTTTAT
15983005 TTCTCTTTC
1 TTCTCTTTC
*
15983014 TT-TCTTTA
1 TTCTCTTTC
*
15983022 TTCT-TTCC
1 TTCTCTTTC
15983030 TTCTCTTTC
1 TTCTCTTTC
*
15983039 TTC-CTTTA
1 TTCTCTTTC
15983047 TTCTCTTT
1 TTCTCTTT
15983055 TTTTTTTTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
8 20 0.61
9 13 0.39
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.68
Consensus pattern (9 bp):
TTCTCTTTC
Found at i:15983036 original size:21 final size:20
Alignment explanation
Indices: 15982996--15983062 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
15982986 CAAACTTTTC
15982996 TCTTTTTATTTCTCTTTCTT
1 TCTTTTTATTTCTCTTTCTT
*
15983016 TCTTTATTCTTTC-CTTCTCTT
1 TCTTT-TTATTTCTCTT-TCTT
15983037 TCTTCCTTTA-TTCTCTTT-TT
1 TCTT--TTTATTTCTCTTTCTT
15983057 T-TTTTT
1 TCTTTTT
15983063 CCATTTTTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
17 3 0.08
19 2 0.05
20 11 0.28
21 18 0.45
22 5 0.12
23 1 0.03
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (20 bp):
TCTTTTTATTTCTCTTTCTT
Found at i:15984611 original size:7 final size:7
Alignment explanation
Indices: 15984599--15984623 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15984589 ATAAAGATTA
15984599 TTTTAAT
1 TTTTAAT
15984606 TTTTAAT
1 TTTTAAT
15984613 TTTTAAT
1 TTTTAAT
15984620 TTTT
1 TTTT
15984624 TTAATTGTGA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:15985033 original size:29 final size:29
Alignment explanation
Indices: 15985001--15985100 Score: 96
Period size: 29 Copynumber: 3.5 Consensus size: 29
15984991 TGTTTTTATA
*
15985001 TATATATTCGTGTTAGTTGTGTCTATTCG
1 TATATATTCGTGTTAGTCGTGTCTATTCG
* **
15985030 TATATATTTGTGTTAGTCGTGTCTATTAA
1 TATATATTCGTGTTAGTCGTGTCTATTCG
* * * * *
15985059 TGTATA-TCTGCGTTAGTCGTTTATATTTG
1 TATATATTC-GTGTTAGTCGTGTCTATTCG
15985088 TAT-TATTCGTGTT
1 TATATATTCGTGTT
15985101 TATTCATGTC
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
28 7 0.12
29 49 0.88
ACGTcount: A:0.19, C:0.09, G:0.19, T:0.53
Consensus pattern (29 bp):
TATATATTCGTGTTAGTCGTGTCTATTCG
Found at i:15985439 original size:19 final size:20
Alignment explanation
Indices: 15985396--15985432 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15985386 ATTTAACTTC
*
15985396 AAAATTAGATTGAGGGTTCA
1 AAAATTAAATTGAGGGTTCA
15985416 AAAATTAAATTG-GGGTT
1 AAAATTAAATTGAGGGTT
15985433 TAGAAATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.32
Consensus pattern (20 bp):
AAAATTAAATTGAGGGTTCA
Found at i:15986097 original size:97 final size:97
Alignment explanation
Indices: 15985922--15986304 Score: 246
Period size: 97 Copynumber: 4.0 Consensus size: 97
15985912 ATCTTATCTT
* * * *
15985922 AAAAGCTCTTTTAAACAAAAGCTCAATGACTTTAAAATTTCATCTGGAAAAACTATTTTAAACAA
1 AAAAGCTATTTTAAACAAAAGCTCAACGACTTTAAAATCTCATCTGGAAAAACTACTTTAAACAA
* * *
15985987 AGATTTAATAACTTAAAAAATCTCATCTTGGG
66 AGACTAAACAACTTAAAAAATCTCATCTTGGG
** * * *
15986019 AAAAGCTATTTTAAACAAAAGCTTGACGATTTTAAAATCTCATC-GTGACAAACTCCTTTAAACA
1 AAAAGCTATTTTAAACAAAAGCTCAACGACTTTAAAATCTCATCTG-GAAAAACTACTTTAAACA
* * * *
15986083 AAGGCTAAACAACTT-TAAAAT-T-ATCCT--A
65 AAGACTAAACAACTTAAAAAATCTCATCTTGGG
** ** * * * * *
15986111 AAAAAATCCTTTAAACAAAGGCTCAACAATTTTTAAAATCTCACCCTGGGAAAAGA-TCCTTTAA
1 AAAAGCTATTTTAAACAAAAGCTCAACGA-CTTTAAAATCTCA-TCT-GGAAAA-ACTACTTTAA
* * ** * *
15986175 ATAAAGGCTTGACAACTT-TAAAATCTCATATTGGG
62 ACAAAGACTAAACAACTTAAAAAATCTCATCTTGGG
* * * * * * *
15986210 AAAAGTTCTTTTAAAC-AAAGACTCAATGACTTAAAAATCTCATCCT-GAAAAGCTCCTTTAAAT
1 AAAAGCTATTTTAAACAAAAG-CTCAACGACTTTAAAATCTCAT-CTGGAAAAACTACTTTAAAC
** * * *
15986273 AAAGACTCGACAACTTTAAAATTCGCATCTTG
64 AAAGACTAAACAACTTAAAAAATCTCATCTTG
15986305 AAAAAGGTTT
Statistics
Matches: 224, Mismatches: 48, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
92 21 0.09
93 13 0.06
94 5 0.02
95 34 0.15
96 38 0.17
97 78 0.35
98 16 0.07
99 19 0.08
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (97 bp):
AAAAGCTATTTTAAACAAAAGCTCAACGACTTTAAAATCTCATCTGGAAAAACTACTTTAAACAA
AGACTAAACAACTTAAAAAATCTCATCTTGGG
Found at i:15986139 original size:45 final size:48
Alignment explanation
Indices: 15986049--15986202 Score: 154
Period size: 45 Copynumber: 3.2 Consensus size: 48
15986039 GCTTGACGAT
* * * *
15986049 TTTAAAATCTCATCGTG-ACAAACTCCTTTAAACAAAGGCTAAACAAC
1 TTTAAAATCTCACCCTGAAAAAAATCCTTTAAACAAAGGCTAAACAAC
* * *
15986096 TTTAAAAT-T-ATCCT-AAAAAAATCCTTTAAACAAAGGCTCAACAATT
1 TTTAAAATCTCACCCTGAAAAAAATCCTTTAAACAAAGGCTAAACAA-C
* * * **
15986142 TTTAAAATCTCACCCTGGGAAAAGATCCTTTAAATAAAGGCTTGACAAC
1 TTTAAAATCTCACCCT-GAAAAAAATCCTTTAAACAAAGGCTAAACAAC
15986191 TTTAAAATCTCA
1 TTTAAAATCTCA
15986203 TATTGGGAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
45 30 0.34
46 9 0.10
47 9 0.10
48 4 0.04
49 12 0.13
50 25 0.28
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (48 bp):
TTTAAAATCTCACCCTGAAAAAAATCCTTTAAACAAAGGCTAAACAAC
Found at i:15986210 original size:49 final size:49
Alignment explanation
Indices: 15985922--15986294 Score: 255
Period size: 47 Copynumber: 7.8 Consensus size: 49
15985912 ATCTTATCTT
* * ** *
15985922 AAAAGCTCTTTTAAACAAAAGCTCAATGACTTTAAAATTTCAT-CT-GG
1 AAAAGCTCCTTTAAACAAAGGCTCAACAACTTTAAAATCTCATCCTGGG
* ** ** * * * *
15985969 AAAAACTATTTTAAACAAAGATTTAATAACTTAAAAAATCTCATCTTGGG
1 AAAAGCTCCTTTAAACAAAGGCTCAACAACTT-TAAAATCTCATCCTGGG
** * ** * * *
15986019 AAAAGCTATTTTAAACAAAAGCTTGACGATTTTAAAATCTCAT-C-GTG
1 AAAAGCTCCTTTAAACAAAGGCTCAACAACTTTAAAATCTCATCCTGGG
* *
15986066 ACAAA-CTCCTTTAAACAAAGGCTAAACAACTTTAAAAT-T-ATCCT--A
1 A-AAAGCTCCTTTAAACAAAGGCTCAACAACTTTAAAATCTCATCCTGGG
** * *
15986111 AAAAAATCCTTTAAACAAAGGCTCAACAATTTTTAAAATCTCACCCTGGG
1 AAAAGCTCCTTTAAACAAAGGCTCAACAA-CTTTAAAATCTCATCCTGGG
* * ** **
15986161 AAAAGATCCTTTAAATAAAGGCTTGACAACTTTAAAATCTCATATTGGG
1 AAAAGCTCCTTTAAACAAAGGCTCAACAACTTTAAAATCTCATCCTGGG
* * * ** *
15986210 AAAAGTTCTTTTAAACAAAGACTCAATGACTTAAAAATCTCATCCT--G
1 AAAAGCTCCTTTAAACAAAGGCTCAACAACTTTAAAATCTCATCCTGGG
* * *
15986257 AAAAGCTCCTTTAAATAAAGACTCGACAACTTTAAAAT
1 AAAAGCTCCTTTAAACAAAGGCTCAACAACTTTAAAAT
15986295 TCGCATCTTG
Statistics
Matches: 254, Mismatches: 60, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
44 3 0.01
45 25 0.10
46 10 0.04
47 87 0.34
48 16 0.06
49 62 0.24
50 51 0.20
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.29
Consensus pattern (49 bp):
AAAAGCTCCTTTAAACAAAGGCTCAACAACTTTAAAATCTCATCCTGGG
Found at i:15997212 original size:21 final size:21
Alignment explanation
Indices: 15997188--15997229 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15997178 TTTAGATTCA
**
15997188 CTCTGTAATGTATTTTCATCT
1 CTCTGTAATACATTTTCATCT
*
15997209 CTCTGTACTACATTTTCATCT
1 CTCTGTAATACATTTTCATCT
15997230 ACTATACATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.24, G:0.07, T:0.50
Consensus pattern (21 bp):
CTCTGTAATACATTTTCATCT
Found at i:15998062 original size:19 final size:19
Alignment explanation
Indices: 15998011--15998063 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 19
15998001 TTTAATTGGA
*
15998011 ATTTTCTTTGTT-AATTTT
1 ATTTTCTTAGTTCAATTTT
15998029 -TTTTC--AGTTTC-ATTTT
1 ATTTTCTTAG-TTCAATTTT
15998045 ATTTTCTTAGTTCAATTTT
1 ATTTTCTTAGTTCAATTTT
15998064 TTATGATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 11
0.70 0.03 0.28
Matches are distributed among these distances:
15 1 0.04
16 7 0.25
17 10 0.36
18 3 0.11
19 7 0.25
ACGTcount: A:0.17, C:0.09, G:0.06, T:0.68
Consensus pattern (19 bp):
ATTTTCTTAGTTCAATTTT
Found at i:16002600 original size:3 final size:3
Alignment explanation
Indices: 16002594--16002621 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16002584 ATAATAATAA
16002594 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
16002622 TTTAATTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:16003301 original size:16 final size:18
Alignment explanation
Indices: 16003267--16003309 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
16003257 TTTCAAACTC
16003267 TTTTTCTCTCTCTTATTT
1 TTTTTCTCTCTCTTATTT
*
16003285 TTTTTCT-TTTCTT-TTT
1 TTTTTCTCTCTCTTATTT
16003301 TTTTTCTCT
1 TTTTTCTCT
16003310 TTATTCCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 6 0.26
18 7 0.30
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTCTCTCTTATTT
Found at i:16003310 original size:18 final size:18
Alignment explanation
Indices: 16003267--16003311 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
16003257 TTTCAAACTC
*
16003267 TTTTTCTC-TCTCTTATT
1 TTTTTCTCTTTTCTTATT
*
16003284 TTTTT-TCTTTTCTTTTT
1 TTTTTCTCTTTTCTTATT
16003301 TTTTTCTCTTT
1 TTTTTCTCTTT
16003312 ATTCCTCTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 17 0.71
18 5 0.21
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCTCTTTTCTTATT
Found at i:16003478 original size:19 final size:21
Alignment explanation
Indices: 16003454--16003492 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16003444 GAAAACTCTC
16003454 ATTCTT-ATCTT-TTTTTTTT
1 ATTCTTCATCTTATTTTTTTT
*
16003473 ATTCTTCTTCTTATTTTTTT
1 ATTCTTCATCTTATTTTTTT
16003493 CCTTGTTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (21 bp):
ATTCTTCATCTTATTTTTTTT
Found at i:16005410 original size:7 final size:7
Alignment explanation
Indices: 16005400--16005508 Score: 53
Period size: 7 Copynumber: 14.9 Consensus size: 7
16005390 TATATTTTAA
16005400 ATTTTTT
1 ATTTTTT
16005407 A-TTTTT
1 ATTTTTT
16005413 ATTTTATT
1 ATTTT-TT
**
16005421 ATTCATTAA
1 ATT--TTTT
16005430 ATTTTTTT
1 A-TTTTTT
16005438 ATTTTTT
1 ATTTTTT
16005445 -TGTTTTCT
1 AT-TTTT-T
*
16005453 AATTTTTA
1 -ATTTTTT
16005461 ATTTTTTT
1 A-TTTTTT
*
16005469 AGTTTTT
1 ATTTTTT
*
16005476 AGTTTTT
1 ATTTTTT
*
16005483 AGTTTTT
1 ATTTTTT
*
16005490 -TTTTTA
1 ATTTTTT
*
16005496 ATTTTTA
1 ATTTTTT
16005503 ATTTTT
1 ATTTTT
16005509 GTTATTTGGT
Statistics
Matches: 82, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
6 11 0.13
7 46 0.56
8 15 0.18
9 5 0.06
10 5 0.06
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (7 bp):
ATTTTTT
Found at i:16005412 original size:8 final size:8
Alignment explanation
Indices: 16005408--16005547 Score: 52
Period size: 8 Copynumber: 17.0 Consensus size: 8
16005398 AAATTTTTTA
16005408 TTTTTATT
1 TTTTTATT
*
16005416 TTATTATT
1 TTTTTATT
** *
16005424 CATTAAATT
1 TTTTTA-TT
16005433 TTTTTATT
1 TTTTTATT
*
16005441 TTTTT-GT
1 TTTTTATT
* *
16005448 TTTCTAAT
1 TTTTTATT
*
16005456 TTTTAATT
1 TTTTTATT
*
16005464 TTTTTA-G
1 TTTTTATT
16005471 TTTTTAGTT
1 TTTTTA-TT
*
16005480 TTTAGTTTTT
1 TTT--TTATT
*
16005490 TTTTTAAT
1 TTTTTATT
*
16005498 TTTTAATT
1 TTTTTATT
16005506 TTTGTTATT
1 TTT-TTATT
16005515 TGGTTTT-TT
1 T--TTTTATT
* * *
16005524 GTTTTCTA
1 TTTTTATT
*
16005532 ATTTTATT
1 TTTTTATT
16005540 TTTTTATT
1 TTTTTATT
16005548 AGATAAATTT
Statistics
Matches: 93, Mismatches: 29, Indels: 20
0.65 0.20 0.14
Matches are distributed among these distances:
7 15 0.16
8 52 0.56
9 15 0.16
10 7 0.08
11 4 0.04
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (8 bp):
TTTTTATT
Found at i:16005464 original size:31 final size:30
Alignment explanation
Indices: 16005394--16005489 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
16005384 AAAATATATA
* *
16005394 TTTTAAATTTTTTA-TTTTTA-TTTTATTAT
1 TTTTAATTTTTTTAGTTTTTAGTTTT-TAAT
* * *
16005423 TCATTAAATTTTTTTATTTTTTTGTTTTCTAAT
1 T--TTTAATTTTTTTAGTTTTTAGTTTT-TAAT
*
16005456 TTTTAATTTTTTTAGTTTTTAGTTTTTAGT
1 TTTTAATTTTTTTAGTTTTTAGTTTTTAAT
16005486 TTTT
1 TTTT
16005490 TTTTTAATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
29 1 0.02
30 7 0.13
31 33 0.61
32 5 0.09
33 8 0.15
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (30 bp):
TTTTAATTTTTTTAGTTTTTAGTTTTTAAT
Found at i:16005483 original size:14 final size:14
Alignment explanation
Indices: 16005464--16005528 Score: 64
Period size: 14 Copynumber: 4.8 Consensus size: 14
16005454 ATTTTTAATT
16005464 TTTTTAGTTTTTAG
1 TTTTTAGTTTTTAG
16005478 TTTTTAGTTTTT--
1 TTTTTAGTTTTTAG
* *
16005490 TTTTTAATTTTTAA
1 TTTTTAGTTTTTAG
*
16005504 TTTTT-GTTATTTGG
1 TTTTTAGTT-TTTAG
*
16005518 TTTTTTGTTTT
1 TTTTTAGTTTT
16005529 CTAATTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 11 0.26
13 2 0.05
14 27 0.63
15 3 0.07
ACGTcount: A:0.12, C:0.00, G:0.11, T:0.77
Consensus pattern (14 bp):
TTTTTAGTTTTTAG
Found at i:16005502 original size:33 final size:34
Alignment explanation
Indices: 16005455--16005528 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 34
16005445 TGTTTTCTAA
*
16005455 TTTTTAATTTTTTTAGTTTTTAGTT-TTTAGTTTTT
1 TTTTTAA-TTTTTTAATTTTT-GTTATTTAGTTTTT
*
16005490 TTTTTAA-TTTTTAATTTTTGTTATTTGGTTTTT
1 TTTTTAATTTTTTAATTTTTGTTATTTAGTTTTT
16005523 TGTTTT
1 T-TTTT
16005529 CTAATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 3 0.09
33 21 0.60
34 4 0.11
35 7 0.20
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (34 bp):
TTTTTAATTTTTTAATTTTTGTTATTTAGTTTTT
Found at i:16005537 original size:42 final size:40
Alignment explanation
Indices: 16005452--16005543 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 40
16005442 TTTTGTTTTC
*
16005452 TAATTTTTAATTTTTTTAGTTTTTAGTTTTTAGTTTTTTTTT
1 TAATTTTTAATTTTTTTA--TTTTAGTTTTTAGTTTTTATTT
* *
16005494 TAATTTTTAATTTTTGTTA-TTTGGTTTTTTGTTTTCTAATTT
1 TAATTTTTAATTTTT-TTATTTTAGTTTTTAGTTTT-T-ATTT
*
16005536 TATTTTTT
1 TAATTTTT
16005544 TATTAGATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
40 14 0.33
41 1 0.02
42 25 0.58
43 3 0.07
ACGTcount: A:0.16, C:0.01, G:0.08, T:0.75
Consensus pattern (40 bp):
TAATTTTTAATTTTTTTATTTTAGTTTTTAGTTTTTATTT
Found at i:16006358 original size:14 final size:15
Alignment explanation
Indices: 16006339--16006382 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
16006329 ACATAATAAA
16006339 GAAAAATA-AAAAAG
1 GAAAAATACAAAAAG
*
16006353 GAAAAATACAAAAATA
1 GAAAAATACAAAAA-G
*
16006369 TAAAAATACAAAAA
1 GAAAAATACAAAAA
16006383 AAATTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 13 0.50
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.11
Consensus pattern (15 bp):
GAAAAATACAAAAAG
Found at i:16007030 original size:16 final size:16
Alignment explanation
Indices: 16006992--16007023 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16006982 ATTTGTTTTC
16006992 CATTTATGTTATTTAT
1 CATTTATGTTATTTAT
16007008 CATTTATGTTATTTAT
1 CATTTATGTTATTTAT
16007024 TTGTTATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
CATTTATGTTATTTAT
Found at i:16010442 original size:25 final size:25
Alignment explanation
Indices: 16010412--16010461 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
16010402 TCTCTTTCTT
16010412 AAATCCCATTCTCCTTTCTTCTTTC
1 AAATCCCATTCTCCTTTCTTCTTTC
*
16010437 AAATCCCATTCTCTTTTCTTCTTTC
1 AAATCCCATTCTCCTTTCTTCTTTC
16010462 TTTCACTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATCCCATTCTCCTTTCTTCTTTC
Found at i:16016938 original size:17 final size:18
Alignment explanation
Indices: 16016918--16016957 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
16016908 GGATTTTATG
16016918 AAAATT-ATTTTT-TTCTA
1 AAAATTAATTTTTATT-TA
16016935 AAAATTAATTTTTATTTA
1 AAAATTAATTTTTATTTA
16016953 AAAAT
1 AAAAT
16016958 CATAAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AAAATTAATTTTTATTTA
Found at i:16020556 original size:15 final size:16
Alignment explanation
Indices: 16020523--16020557 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16020513 TTTAAGGATA
*
16020523 TTTTTGAAATTTAATT
1 TTTTTGAAATTGAATT
*
16020539 TTTTTGAGATTGAATT
1 TTTTTGAAATTGAATT
16020555 TTT
1 TTT
16020558 GTAAAACTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (16 bp):
TTTTTGAAATTGAATT
Found at i:16023157 original size:52 final size:52
Alignment explanation
Indices: 16023089--16023193 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
16023079 TATAACTATA
*
16023089 CAAACTTACCTATTAAGAATCTCTCTTCTCTTAGAATTCTTCTTATACAAGT
1 CAAACTTACCTATTAAGAATCTCTCTTCTCTTAAAATTCTTCTTATACAAGT
* * * * * *
16023141 CAAACTTGCCTATTAAGAATCTTTTTTCTTTTAAAATTTTTCTTCTACAAGT
1 CAAACTTACCTATTAAGAATCTCTCTTCTCTTAAAATTCTTCTTATACAAGT
16023193 C
1 C
16023194 TTCTTGTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.44
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTCTCTTCTCTTAAAATTCTTCTTATACAAGT
Found at i:16024131 original size:936 final size:924
Alignment explanation
Indices: 16021626--16024195 Score: 2986
Period size: 927 Copynumber: 2.8 Consensus size: 924
16021616 GAAGAAAAAG
* * * * *
16021626 TGTTAGGCCAAAAGCCCCAATCTAATTCACGTCAACGGAAGCATAATCAAATAATGAGTCAAACA
1 TGTTAGGCCAAAA-ACCTAATCTAATTCATGTCAACGGAAGCATAATCAAACAATGAATCAAACA
* ** * *
16021691 CACAAGAGATAATAATTTAACGTGGTTCGTCTAA-CCGACTTACGTCCACATATGAGAAACAAGA
65 CACAAGAGATAATAATTTAACGTGGTTCGTC-AATTCGAC-TACGTCCACGGATGAAAAATAAGA
*
16021755 TCTACTAATTGTAGGAAAATTACAAACATACAATCAAATCATCAACC-TCACTTAATAATCAATA
128 TCTACTAATTGTA-GAAAATTACAAACATACAATCAAATCATCAACCAT-ACTTAACAATCAATA
* ** * * * *
16021819 CTCATAAGATTCTCTCAATTTTTTCTAATCTTATGGAGTATTCTCAATTCAAACAAACACATCTT
191 TTCATAAGACCCTCTCAATTTTTTTTAATCTTATGAAGTATTCTCAATCCAAACAAACACATCTC
* * *
16021884 ATGTATATACTTTTAACACAAATAAACACATACCCATATATACCTATTCATCATACTTATATAAA
256 ATGTGTATA-TTTTAACACAAACAAACACATACCCATATATACCTATTCATCATACCTATATAAA
* * * * * *
16021949 TCATTTTAATCTCTTTTAGTCCATTCTCATGCACTATACCTATATGGACCCTCTCAGTCTCTTTT
320 CCCTCTTAATCTCTTCTAGTCCATTCTTA-GCAC-ATA-CTATATGGACCCTTTCAGTCTCTTTT
* * *
16022014 AG-TCTATTCACAAATATTCAAAAAATACAC-CCATAAAACGTAAATCTTTAGTAATCTTATAGG
382 AGTTC-ACTCACAAATATT-AAAACATACACACCATAAAACGTAAATCTTTAGTAGTCTTATAGG
* * * * *
16022077 GTGTCTATCCCATAAAATATTACAACTCTTTTATATCTTTTTCTCATACCTAATCCTACAGAGAG
445 GTGTCTATCCTATAAAATCTTACAACTCTCTTATATCTTTTTCTCATACCTAACCCTACAGAGAT
* * * *
16022142 TTCTCTTATTTATAACTATACAAACTTGCTTATTAAGAAT-TGCTTTTCTATTAGAATTCTTCTT
510 TTCACTTATTTATAACTATACAAACTTGCCTATTAAGAATCT-C-TCTCTCTTAGAATTCTTCTT
* * * * * *
16022206 ATGCAAGTCAAACTTGCCTATCAAGAATATATTTTCTCTTAGAATTCTTTTTCTGTAAGTTTTCT
573 ATGCAAGTCAAACTTGCCTATTAAGAATCTTTTTTCTCTTTGAATTCTTTTTCTGCAAGTCTTCT
*
16022271 TGTTTATTAAGCAATATTTGACCAATCTCAAACAAATCTCTTATGAGATTTGAGTCATTATTCAT
638 TGTTTATTAAGCAATATTTGACCAATCTCAAACAAATTTCTTATGAGATTTGAGTCATTATTCAT
* * *
16022336 AATAATCTTTACCTCAACTCAAATTTCATCAAATCATCTGTCTTTATGCTAATCATACTTGGTTT
703 AATAATCTTTACCTCAACTCAAATTTCATCAAATCATCTATCTTCATGCTAATCATACTTGGCTT
* * * * *
16022401 CACTTGCAATGAAAGTCTCACAATCATTTTCTCTTGTGTCTTCACATTTCATGCAAATCGATCCT
768 CACTTACAATGAAAATCTCACAATCATCTTCTCTTGTGTCTTCACACTTCACGCAAATCGATCCT
* * *
16022466 CAATCCTCAAAACTTTAACTTGAACTTTTCTCTTGAATCGAGCTTTTTTGGACTTACCTCTTCTC
833 CAATCCTCAAAACTTGAACTTAAACTTTTCTCTTGAATCGAGCTTTTCTGGACTTACCTCTTCTC
*
16022531 ATATCTTAAACCATGCCTAATACCATT
898 ATATCTTAAACCATGCCTAATACCACT
* *
16022558 TGTTAGGCCAAAAACCTCAATCTAATTCATGTTAGCGGAAGCATAATCAAACAATGAATCAAACA
1 TGTTAGGCCAAAAACCT-AATCTAATTCATGTCAACGGAAGCATAATCAAACAATGAATCAAACA
* *
16022623 CATAAGAGATAATAATTTAACGT-GTTCGATCTAATT-GACCTACATCCACGGAT-AAGAAATAA
65 CACAAGAGATAATAATTTAACGTGGTTCG-TC-AATTCGA-CTACGTCCACGGATGAA-AAATAA
* ***
16022685 GAT-TCACTAATTGTAGAAAATTACAAACATATAATCAAATCAT-TGTCAT--TTAACAATCAAT
126 GATCT-ACTAATTGTAGAAAATTACAAACATACAATCAAATCATCAACCATACTTAACAATCAAT
* * * * * * * *
16022746 ACTT-ATAAGACCCTCTCAATCTCTTTTAGTCCTAT-AGAGTATTCTTAACCCAAATAAACACGT
190 A-TTCATAAGACCCTCTCAATTTTTTTTAATCTTATGA-AGTATTCTCAATCCAAACAAACACAT
* *
16022809 CTCATGTGTATTTTTTTAACGCAAACAAACACATACCCATATATACCTATTCATCATACCTATAT
253 CTCATGTGTA-TATTTTAACACAAACAAACACATACCCATATATACCTATTCATCATACCTATAT
* * * * *
16022874 AAACCCTCTTAATCTCCTCTAATCCACTTATATA-CACATACTTATATGGACTCTTTTAGTCTCT
317 AAACCCTCTTAATCTCTTCTAGTCCA-TTCT-TAGCACATAC-TATATGGACCCTTTCAGTCTCT
* * * **
16022938 TTTAGTTCACTCACAAACATTCAAACATACACACCCATAAGACGTAAATCTCCAGTAGTCTTATA
379 TTTAGTTCACTCACAAATATTAAAACATACACA-CCATAAAACGTAAATCTTTAGTAGTCTTATA
* * * * ** *
16023003 GGGTGTCAAT-CTCATAAAATCCTACAACT-TCTTATATATATTTT-TCATACCTAACCTTTTAA
443 GGGTGTCTATCCT-ATAAAATCTTACAACTCTCTTATATCT-TTTTCTCATACCTAACCCTACAG
* * *
16023065 AGATTTTATTTATTTATAACTATACAAACTTACCTATTAAGAATCTCTCTTCTCTTAGAATTCTT
506 AGATTTCACTTATTTATAACTATACAAACTTGCCTATTAAGAATCTCTC-TCTCTTAGAATTCTT
* * *
16023130 CTTATACAAGTCAAACTTGCCTATTAAGAATCTTTTTTCT-TTTAAAATT-TTTCTTCTACAAGT
570 CTTATGCAAGTCAAACTTGCCTATTAAGAATCTTTTTTCTCTTT-GAATTCTTT-TTCTGCAAGT
* * * * *
16023193 CTTCTTGTTTATCAAGCAATATTT-AGCTAATCCCAAATAAATTTCTTATGGGATTTGAGTCATT
633 CTTCTTGTTTATTAAGCAATATTTGA-CCAATCTCAAACAAATTTCTTATGAGATTTGAGTCATT
* ** ** * * * *
16023257 ATTCTTAATAATCTCTT-TTTTGACTCAAATTTTATCAAATCATTTATCTTCATG-TTATACATG
697 ATTCATAATAATCT-TTACCTCAACTCAAATTTCATCAAATCATCTATCTTCATGCTAAT-CATA
* * * *
16023320 CTTGGCTTCACTTACAATGAAAATCTTACAATCATCTTCTCTTATGTGTCTTTACGCTTCACGTA
760 CTTGGCTTCACTTACAATGAAAATCTCACAATCATCTTCTC-T-TGTGTCTTCACACTTCACGCA
* * *
16023385 AATTGATCCTCAATCTTTAAAACTTGAACTTAAACTTTTCTCTTGAATCGAGCTTTTCTGGACTT
823 AATCGATCCTCAATCCTCAAAACTTGAACTTAAACTTTTCTCTTGAATCGAGCTTTTCTGGACTT
* * *
16023450 ACCTCTTCTCATATCTT-GACCTATGCTCTGATATCACT
888 ACCTCTTCTCATATCTTAAACC-ATGC-CTAATACCACT
* * *
16023488 TGTTAAGCCAAAAACTCTAATCTAATTCATGTCAACAGAAGCATAATCAAACAATGAATCAAGCA
1 TGTTAGGCCAAAAAC-CTAATCTAATTCATGTCAACGGAAGCATAATCAAACAATGAATCAAACA
* * ** * * * *
16023553 AACAAGAGATAACAATTTAATATGGTTTAGTCCATTCGATCTATGTCTACGGATGAAAAATAAGA
65 CACAAGAGATAATAATTTAACGTGG-TTCGTCAATTCGA-CTACGTCCACGGATGAAAAATAAGA
* * * *
16023618 TCTACTAAGTGTAGAGAATTACAAATATACAATCAAATCATCAACCATACTTAACAATTAATATT
128 TCTACTAATTGTAGAAAATTACAAACATACAATCAAATCATCAACCATACTTAACAATCAATATT
* *
16023683 CATCAGACCCTCTCAATTTTTTTTAATCTTATGAAGTATTCTCAATCCAAGCAAACACATCTCAT
193 CATAAGACCCTCTCAATTTTTTTTAATCTTATGAAGTATTCTCAATCCAAACAAACACATCTCAT
* * * ** * * *
16023748 GTGCACCATTTTAACATAAACAAACACATACCTC-TATATACCCGTTTATCATACCTATGTGAAC
258 GTGTA-TATTTTAACACAAACAAACACATACC-CATATATACCTATTCATCATACCTATATAAAC
* * *
16023812 CCTCTCAATCTCTTCTAGTCCATTCTTAGGCATCATATCTATGTGGACCCTTTCAATCTGC-TTT
321 CCTCTTAATCTCTTCTAGTCCATTCTTA-GCA-CATA-CTATATGGACCCTTTCAGTCT-CTTTT
* * * *
16023876 AGTTCACTCATAAATATTTAAACATACACACTCATAAAATGTAAATTTTTAGTAGTCTTAT-GGA
382 AGTTCACTCACAAATATTAAAACATACACAC-CATAAAACGTAAATCTTTAGTAGTCTTATAGG-
* *
16023940 ATGTCTATCCTATAAAATCTTACAACTCTCTTATATCTTTTTCTCATACTTAACCCTACAGAGAT
445 GTGTCTATCCTATAAAATCTTACAACTCTCTTATATCTTTTTCTCATACCTAACCCTACAGAGAT
16024005 TTCACTTATTTATAACTATACAAACTTGCCTATTAAGAATCTCTCTCATCTTAGAATTCTTCTTA
510 TTCACTTATTTATAACTATACAAACTTGCCTATTAAGAATCTCTCTC-TCTTAGAATTCTTCTTA
* * * *
16024070 TGTAAGTCAAACTTGGCTATTATA-AATCTTTTTTCTCTTTGAATTCTTTTTTTGCAAGTCTTTT
574 TGCAAGTCAAACTTGCCTATTA-AGAATCTTTTTTCTCTTTGAATTCTTTTTCTGCAAGTCTTCT
* * *
16024134 TGTCTATTAAGCAATATATGACCAATCTC-AAGAAATCTT-TTATGAGATTTGAGTCATTATTC
638 TGTTTATTAAGCAATATTTGACCAATCTCAAACAAAT-TTCTTATGAGATTTGAGTCATTATTC
16024196 GTAACAATAA
Statistics
Matches: 1371, Mismatches: 210, Indels: 111
0.81 0.12 0.07
Matches are distributed among these distances:
926 20 0.01
927 297 0.22
928 200 0.15
929 101 0.07
930 88 0.06
931 98 0.07
932 123 0.09
933 6 0.00
934 139 0.10
935 131 0.10
936 160 0.12
937 8 0.01
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (924 bp):
TGTTAGGCCAAAAACCTAATCTAATTCATGTCAACGGAAGCATAATCAAACAATGAATCAAACAC
ACAAGAGATAATAATTTAACGTGGTTCGTCAATTCGACTACGTCCACGGATGAAAAATAAGATCT
ACTAATTGTAGAAAATTACAAACATACAATCAAATCATCAACCATACTTAACAATCAATATTCAT
AAGACCCTCTCAATTTTTTTTAATCTTATGAAGTATTCTCAATCCAAACAAACACATCTCATGTG
TATATTTTAACACAAACAAACACATACCCATATATACCTATTCATCATACCTATATAAACCCTCT
TAATCTCTTCTAGTCCATTCTTAGCACATACTATATGGACCCTTTCAGTCTCTTTTAGTTCACTC
ACAAATATTAAAACATACACACCATAAAACGTAAATCTTTAGTAGTCTTATAGGGTGTCTATCCT
ATAAAATCTTACAACTCTCTTATATCTTTTTCTCATACCTAACCCTACAGAGATTTCACTTATTT
ATAACTATACAAACTTGCCTATTAAGAATCTCTCTCTCTTAGAATTCTTCTTATGCAAGTCAAAC
TTGCCTATTAAGAATCTTTTTTCTCTTTGAATTCTTTTTCTGCAAGTCTTCTTGTTTATTAAGCA
ATATTTGACCAATCTCAAACAAATTTCTTATGAGATTTGAGTCATTATTCATAATAATCTTTACC
TCAACTCAAATTTCATCAAATCATCTATCTTCATGCTAATCATACTTGGCTTCACTTACAATGAA
AATCTCACAATCATCTTCTCTTGTGTCTTCACACTTCACGCAAATCGATCCTCAATCCTCAAAAC
TTGAACTTAAACTTTTCTCTTGAATCGAGCTTTTCTGGACTTACCTCTTCTCATATCTTAAACCA
TGCCTAATACCACT
Found at i:16034353 original size:4 final size:4
Alignment explanation
Indices: 16034344--16034395 Score: 61
Period size: 4 Copynumber: 13.2 Consensus size: 4
16034334 ATTTTTCTCC
* * * *
16034344 TATT TATT TATT TATT TATT T-TA TGTT TAGT TATT TATT TATC TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
16034391 TATT T
1 TATT T
16034396 GTTTTCCATC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 2 0.05
4 38 0.95
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:16034364 original size:27 final size:27
Alignment explanation
Indices: 16034328--16034391 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
16034318 TTTTGGTATT
*
16034328 TTTA-TTATTTT-TCTCCTATTTATTTA
1 TTTATTTATTTTATCT-CTAGTTATTTA
* *
16034354 TTTATTTATTTTATGTTTAGTTATTTA
1 TTTATTTATTTTATCTCTAGTTATTTA
*
16034381 TTTATCTATTT
1 TTTATTTATTT
16034392 ATTTGTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 4 0.12
27 26 0.81
28 2 0.06
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.70
Consensus pattern (27 bp):
TTTATTTATTTTATCTCTAGTTATTTA
Found at i:16034430 original size:15 final size:15
Alignment explanation
Indices: 16034374--16034443 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
16034364 TTATGTTTAG
*
16034374 TTATTTATTTATCTAT
1 TTATTTATTTGTC-AT
*
16034390 TTATTTGTTT-TCCAT
1 TTATTTATTTGT-CAT
*
16034405 CTATGTTATTTGTCAT
1 TTAT-TTATTTGTCAT
*
16034421 TTATTTATTTGTTAT
1 TTATTTATTTGTCAT
*
16034436 TCATTTAT
1 TTATTTAT
16034444 CTATAAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
15 23 0.51
16 21 0.47
17 1 0.02
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATTTATTTGTCAT
Found at i:16034490 original size:19 final size:18
Alignment explanation
Indices: 16034454--16034489 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16034444 CTATAAATAT
16034454 TTTTAAAAAAAGTAAAAA
1 TTTTAAAAAAAGTAAAAA
16034472 TTTTAAATAAAA-TAAAAA
1 TTTTAAA-AAAAGTAAAAA
16034490 AACCTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
TTTTAAAAAAAGTAAAAA
Found at i:16041962 original size:31 final size:32
Alignment explanation
Indices: 16041900--16041961 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
16041890 TTATTAGAGA
*
16041900 GATCATTTGTATTTTTTACAAATTTTAAAAAG
1 GATCATTCGTATTTTTTACAAATTTTAAAAAG
*
16041932 GATCATTCGTATTTTTTACAATTTTTAAAA
1 GATCATTCGTATTTTTTACAAATTTTAAAA
16041962 GTTGAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (32 bp):
GATCATTCGTATTTTTTACAAATTTTAAAAAG
Found at i:16043966 original size:15 final size:17
Alignment explanation
Indices: 16043924--16043956 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
16043914 GATAAAATAA
16043924 AATAAAATTATATTAGG
1 AATAAAATTATATTAGG
16043941 AATAAAATTATATTAG
1 AATAAAATTATATTAG
16043957 ATAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AATAAAATTATATTAGG
Found at i:16049668 original size:3 final size:3
Alignment explanation
Indices: 16049662--16049692 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
16049652 CATAAAAAAA
16049662 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16049693 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:16050293 original size:24 final size:21
Alignment explanation
Indices: 16050246--16050305 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 21
16050236 TGGCATTTTG
16050246 TTTCTTTCTCTTT-TTTTTTCC
1 TTTCTTTCT-TTTCTTTTTTCC
16050267 TTTCTTTCTTTTCTTTCATTTCTC
1 TTTCTTTCTTTTCTTT--TTTC-C
16050291 TTTACTTT-TTTTCTT
1 TTT-CTTTCTTTTCTT
16050306 CTGGTTTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.09
21 12 0.35
23 4 0.12
24 11 0.32
25 4 0.12
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTTCTTTTCTTTTTTCC
Found at i:16050397 original size:12 final size:13
Alignment explanation
Indices: 16050380--16050412 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16050370 CCTTATCCGC
*
16050380 TCTTTTTTTTC-T
1 TCTTTTTTTCCTT
16050392 TCTTTTTTTCCTT
1 TCTTTTTTTCCTT
16050405 TCTTTTTT
1 TCTTTTTT
16050413 AAGCCGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TCTTTTTTTCCTT
Found at i:16052185 original size:18 final size:17
Alignment explanation
Indices: 16052147--16052194 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
16052137 AGTTTTTTTT
*
16052147 TTTTGTTTTGTTTTGGA
1 TTTTGTTTTGTTATGGA
*
16052164 TTTTGTTTTGGTTATGGG
1 TTTTGTTTT-GTTATGGA
*
16052182 TTTT-TTTTTTTAT
1 TTTTGTTTTGTTAT
16052195 CTTGATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 13 0.48
18 10 0.37
ACGTcount: A:0.06, C:0.00, G:0.21, T:0.73
Consensus pattern (17 bp):
TTTTGTTTTGTTATGGA
Found at i:16052599 original size:22 final size:22
Alignment explanation
Indices: 16052569--16052611 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16052559 AAATATTTTG
*
16052569 CTCAAAGGTCTTACAGATTATA
1 CTCAAAGGTCGTACAGATTATA
* *
16052591 CTCAGAGGTCGTAGAGATTAT
1 CTCAAAGGTCGTACAGATTAT
16052612 GCCCATAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (22 bp):
CTCAAAGGTCGTACAGATTATA
Found at i:16052725 original size:126 final size:125
Alignment explanation
Indices: 16052471--16052726 Score: 309
Period size: 125 Copynumber: 2.0 Consensus size: 125
16052461 TTCTGCCCAA
* * * * * * ** *
16052471 AGGTCTTAGAGATTATGACTAAAGGCCTTACAAATCTCGATATTTTTTAATGCTTCTCGTATCAG
1 AGGTCGTAGAGATTATGACCAAAGGCCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCAA
* * *
16052536 AGGCATAAAACTTTAAAAATTTAAAATATTTTGCTCAAAGGTCTTACAGATTATACTCAG
66 AGGCATAAAACTTTAAAAATTTAAAATAGTTTGCCCAAAAGTCTTACAGATTATACTCAG
* *
16052596 AGGTCGTAGAGATTATGCCCATAA-GTCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCA
1 AGGTCGTAGAGATTATGACCA-AAGGCCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCA
* * * *
16052660 AAGGCATTGAAACTTTAAAAATTTAAAATGGTTTGCCCAAAAGTTTTGA-AGATTATGCTCAG
65 AAGGCA-TAAAACTTTAAAAATTTAAAATAGTTTGCCCAAAAGTCTT-ACAGATTATACTCAG
16052722 AGGTC
1 AGGTC
16052727 TTATAAATCT
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
125 56 0.51
126 53 0.48
127 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (125 bp):
AGGTCGTAGAGATTATGACCAAAGGCCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCAA
AGGCATAAAACTTTAAAAATTTAAAATAGTTTGCCCAAAAGTCTTACAGATTATACTCAG
Found at i:16052799 original size:104 final size:104
Alignment explanation
Indices: 16052605--16052804 Score: 274
Period size: 104 Copynumber: 1.9 Consensus size: 104
16052595 GAGGTCGTAG
*
16052605 AGATTATGCCCATAAGTCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCAAAGGCATTGA
1 AGATTATGCCCAGAAGTCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCAAAGGCATTGA
* *
16052670 AACTTTAAAAATTTAAAATGGTTTGCCCAAAAGTTTTGA
66 AACTTTAAAAATATAAAACGGTTTGCCCAAAAGTTTTGA
* * * * * ** * *
16052709 AGATTATGCTCAGAGGTCTTATAAATCTTGATATCTTTGAATGCTTCTCGTATTAGAGGCATTGA
1 AGATTATGCCCAGAAGTCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCAAAGGCATTGA
* *
16052774 AACTTTAAAAATATAAAACGTTTTGCTCAAA
66 AACTTTAAAAATATAAAACGGTTTGCCCAAA
16052805 GATCTTATAG
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 82 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (104 bp):
AGATTATGCCCAGAAGTCTTAAAAATCTCGACATCTTTGAATGCTTCAAGTATCAAAGGCATTGA
AACTTTAAAAATATAAAACGGTTTGCCCAAAAGTTTTGA
Found at i:16052875 original size:230 final size:231
Alignment explanation
Indices: 16052364--16052919 Score: 707
Period size: 229 Copynumber: 2.4 Consensus size: 231
16052354 GAATCCTATC
* **
16052364 CAGAGGATTTAGAGATTATGCTTGGAGGTCTTACAAATCTTAACATCTTTGAATGC-TCATCA-T
1 CAGAGGTTTTAGAGATTATGCTTGGAGGTCTTACAAATCTCGACATCTTTGAATGCTTCAT-AGT
* *
16052427 ATCAAAGGCATTGAAACTTTAAAATTTTAAAAT-GTTCTGCCCAAAGGTCTTAGAGATTATGACT
65 ATCAAAGGCATTGAAACTTTAAAAATTTAAAATGGTTCTGCCCAAAAGTCTTAGAGATTATGACT
* *
16052491 AAAGGCCTTACAAATCTCGATATTTTTTAATGCTTCTCGTATCAGAGGCATAAAACTTTAAAAAT
130 AAAGGCCTTACAAATCTCGATATCTTTGAATGCTTCTCGTATCAGAGGCATAAAACTTTAAAAAT
* * *
16052556 TTAAAATATTTTGCTCAAAGGTCTTACAGATTATACT
195 ATAAAACATTTTGCTCAAAGATCTTACAGATTATACT
** **** * *
16052593 CAGAGGTCGTAGAGATTATGCCCATAAGTCTTAAAAATCTCGACATCTTTGAATGCTTCA-AGTA
1 CAGAGGTTTTAGAGATTATGCTTGGAGGTCTTACAAATCTCGACATCTTTGAATGCTTCATAGTA
*
16052657 TCAAAGGCATTGAAACTTTAAAAATTTAAAATGGTT-TGCCCAAAAGT-TTTGAAGATTATG-CT
66 TCAAAGGCATTGAAACTTTAAAAATTTAAAATGGTTCTGCCCAAAAGTCTTAG-AGATTATGACT
* * * * * *
16052719 CAGAGGTCTTATAAATCTTGATATCTTTGAATGCTTCTCGTATTAGAGGCATTGAAACTTTAAAA
130 -AAAGGCCTTACAAATCTCGATATCTTTGAATGCTTCTCGTATCAGAGGCA-TAAAACTTTAAAA
* * **
16052784 ATATAAAACGTTTTGCTCAAAGATCTTATAGATTATGGT
193 ATATAAAACATTTTGCTCAAAGATCTTACAGATTATACT
* * *
16052823 C-GAAGGTTTTAGAGATTATGTTTGGAGGTCTTACAAATCTCGACATCTTTGAATG-TTTATCGT
1 CAG-AGGTTTTAGAGATTATGCTTGGAGGTCTTACAAATCTCGACATCTTTGAATGCTTCATAGT
*
16052886 ATCAAAGGCATTGAAACTTTGAAAATTTAAAATG
65 ATCAAAGGCATTGAAACTTTAAAAATTTAAAATG
16052920 TTTTACCTAG
Statistics
Matches: 278, Mismatches: 41, Indels: 15
0.83 0.12 0.04
Matches are distributed among these distances:
228 6 0.02
229 143 0.51
230 129 0.46
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (231 bp):
CAGAGGTTTTAGAGATTATGCTTGGAGGTCTTACAAATCTCGACATCTTTGAATGCTTCATAGTA
TCAAAGGCATTGAAACTTTAAAAATTTAAAATGGTTCTGCCCAAAAGTCTTAGAGATTATGACTA
AAGGCCTTACAAATCTCGATATCTTTGAATGCTTCTCGTATCAGAGGCATAAAACTTTAAAAATA
TAAAACATTTTGCTCAAAGATCTTACAGATTATACT
Found at i:16053179 original size:23 final size:23
Alignment explanation
Indices: 16052988--16053185 Score: 116
Period size: 23 Copynumber: 8.7 Consensus size: 23
16052978 TATGGATGCT
* * *
16052988 AGCTAGAT-TGGGTTTAATGTGTC
1 AGCTA-ATATGGGCTTAAAGTGCC
16053011 AGCTAA-ACTGGGCTTAAAGTGCC
1 AGCTAATA-TGGGCTTAAAGTGCC
* ** **
16053034 AGCTAATCTTAGCTT-GGGTGCC
1 AGCTAATATGGGCTTAAAGTGCC
* ** * *
16053056 AACTAATATGGATTTAAATTACC
1 AGCTAATATGGGCTTAAAGTGCC
* *
16053079 AACTAATTTGGGCTTAAA-TGCC
1 AGCTAATATGGGCTTAAAGTGCC
* * * * * *
16053101 AGCTAATTTAGGTTTAATGTACT
1 AGCTAATATGGGCTTAAAGTGCC
* * *
16053124 AGCTAATCTGAGCTTAAAGTGCT
1 AGCTAATATGGGCTTAAAGTGCC
*
16053147 AGCTAATATGGGCTTGAAGTGCC
1 AGCTAATATGGGCTTAAAGTGCC
*
16053170 AGCTATTATGGGCTTA
1 AGCTAATATGGGCTTA
16053186 GTTTGATCTG
Statistics
Matches: 130, Mismatches: 40, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
22 32 0.25
23 98 0.75
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (23 bp):
AGCTAATATGGGCTTAAAGTGCC
Found at i:16053519 original size:20 final size:21
Alignment explanation
Indices: 16053494--16053535 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
16053484 ACATGACTGC
16053494 AAATGTCAATG-TGAATGCAA
1 AAATGTCAATGCTGAATGCAA
* *
16053514 AAATGTGAATGCTTAATGCAA
1 AAATGTCAATGCTGAATGCAA
16053535 A
1 A
16053536 TACAAGTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.45, C:0.10, G:0.19, T:0.26
Consensus pattern (21 bp):
AAATGTCAATGCTGAATGCAA
Found at i:16053626 original size:14 final size:14
Alignment explanation
Indices: 16053607--16053635 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16053597 TACTTTTTCT
16053607 ATGATGTAAATGCA
1 ATGATGTAAATGCA
16053621 ATGATGTAAATGCA
1 ATGATGTAAATGCA
16053635 A
1 A
16053636 ATGCCTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (14 bp):
ATGATGTAAATGCA
Found at i:16054560 original size:13 final size:15
Alignment explanation
Indices: 16054542--16054575 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
16054532 AATCAAATAG
16054542 AGAAAAAAATC-A-T
1 AGAAAAAAATCTAGT
16054555 AGAAAAAAATCTAGT
1 AGAAAAAAATCTAGT
16054570 AGAAAA
1 AGAAAA
16054576 CACAGGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 1 0.05
15 7 0.37
ACGTcount: A:0.68, C:0.06, G:0.12, T:0.15
Consensus pattern (15 bp):
AGAAAAAAATCTAGT
Found at i:16055528 original size:17 final size:16
Alignment explanation
Indices: 16055506--16055573 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
16055496 TGAAAGTATC
16055506 AAATTTTTTTAAAAAA
1 AAATTTTTTTAAAAAA
**
16055522 TAAATTTTTTTTTAAAA
1 -AAATTTTTTTAAAAAA
* * *
16055539 AAATGTATTTTAACAAG
1 AAAT-TTTTTTAAAAAA
16055556 AAATTTTTTTAAGAAAA
1 AAATTTTTTTAA-AAAA
16055573 A
1 A
16055574 GTTGAAAGTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
16 11 0.28
17 28 0.72
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.44
Consensus pattern (16 bp):
AAATTTTTTTAAAAAA
Found at i:16055572 original size:80 final size:79
Alignment explanation
Indices: 16055404--16055709 Score: 406
Period size: 79 Copynumber: 3.9 Consensus size: 79
16055394 AAAAAAAAGG
* ** *
16055404 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAGCAAA-ATTTTTTCAAAAAAATGTAT
1 TTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTTTTTTCAAAAAAATGTAT
*
16055468 TTAATAAGAAACGT
66 TTAATAAGAAACAT
* * *
16055482 TTTTAAGAAAAAGTTGAAAGTATCAAATTTT-TTTAAAAAATAAATTTTTTTTTAAAAAAATGTA
1 TTTTAAGAAAAAGTTGAAAGTATC-AATTTTCCTTAGAAAATAAATTTTTTTTCAAAAAAATGTA
* **
16055546 TTTTAACAAGAAATTT
65 -TTTAATAAGAAACAT
* *
16055562 TTTTAAGAAAAAGTTGAAAGTAACAATTTTCCTTAGAAAATAATTTTTTTTTTC-AAAAAATGTA
1 TTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAA-ATTTTTTTTCAAAAAAATGTA
16055626 TTTAATAAGAAACAT
65 TTTAATAAGAAACAT
* *
16055641 TTTTAA-AGAAAAGTTGAAAGTATCAATTTTTCTTAGAAAATAAAATTTTTTTCAAAAAAA-GTA
1 TTTTAAGA-AAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTTTTTTCAAAAAAATGTA
16055704 TTTAAT
65 TTTAAT
16055710 TTCCTTAAAT
Statistics
Matches: 199, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
78 50 0.25
79 86 0.43
80 55 0.28
81 8 0.04
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (79 bp):
TTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAAATAAATTTTTTTTCAAAAAAATGTAT
TTAATAAGAAACAT
Found at i:16055645 original size:159 final size:157
Alignment explanation
Indices: 16055404--16055706 Score: 450
Period size: 159 Copynumber: 1.9 Consensus size: 157
16055394 AAAAAAAAGG
* * *
16055404 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAAGCAAAATTTTTTCAAAAAAATGTATT
1 TTTTAAGAAAAAGTTGAAAGTAACAATTTTCCTTAGAAAACAAAATTTTTTCAAAAAAATGTATT
* *
16055469 TAATAAGAAACGTTTTT-AAGAAAAAGTTGAAAGTATCAAATTTTT-TTAAAAAATAAATTTTTT
66 TAATAAGAAACATTTTTAAAG-AAAAGTTGAAAGTATC-AATTTTTCTTAAAAAATAAAATTTTT
*
16055532 TTTAAAAAAATGTATTTTAACAAGAAATTT
129 TTCAAAAAAA-GTATTTTAACAAGAAATTT
* **
16055562 TTTTAAGAAAAAGTTGAAAGTAACAATTTTCCTTAGAAAATAATTTTTTTTTTC-AAAAAATGTA
1 TTTTAAGAAAAAGTTGAAAGTAACAATTTTCCTTAGAAAACAA--AATTTTTTCAAAAAAATGTA
*
16055626 TTTAATAAGAAACATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAGAAAATAAAATTTTT
64 TTTAATAAGAAACATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTTT
16055691 TTCAAAAAAAGTATTT
129 TTCAAAAAAAGTATTT
16055707 AATTTCCTTA
Statistics
Matches: 131, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
158 52 0.40
159 69 0.53
160 10 0.08
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (157 bp):
TTTTAAGAAAAAGTTGAAAGTAACAATTTTCCTTAGAAAACAAAATTTTTTCAAAAAAATGTATT
TAATAAGAAACATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAATAAAATTTTTTT
CAAAAAAAGTATTTTAACAAGAAATTT
Found at i:16067437 original size:15 final size:16
Alignment explanation
Indices: 16067407--16067439 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16067397 TGAGATTATT
*
16067407 TTATCATATATTTTTA
1 TTATAATATATTTTTA
16067423 TTATAATAT-TTTTTA
1 TTATAATATATTTTTA
16067438 TT
1 TT
16067440 TCATAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATAATATATTTTTA
Found at i:16069925 original size:20 final size:20
Alignment explanation
Indices: 16069893--16069930 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16069883 TTTATCCAAC
*
16069893 AAAAAAATAAATACCAAAAA
1 AAAAAAATAAATAACAAAAA
16069913 AAAAAAAGT-AATAACAAA
1 AAAAAAA-TAAATAACAAA
16069931 GGATGCCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.11
Consensus pattern (20 bp):
AAAAAAATAAATAACAAAAA
Found at i:16071355 original size:14 final size:13
Alignment explanation
Indices: 16071336--16071398 Score: 65
Period size: 14 Copynumber: 4.7 Consensus size: 13
16071326 GCAAGACAAA
16071336 AAAAAAATTAATCT
1 AAAAAAATTAAT-T
16071350 AAAAAATATTAATT
1 AAAAAA-ATTAATT
* *
16071364 AAAAATATAAAATT
1 AAAAAAAT-TAATT
*
16071378 AGAAAAA-TAATT
1 AAAAAAATTAATT
16071390 AAAAAAATT
1 AAAAAAATT
16071399 TAAAACATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
12 10 0.25
13 3 0.08
14 21 0.52
15 6 0.15
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (13 bp):
AAAAAAATTAATT
Found at i:16072240 original size:8 final size:8
Alignment explanation
Indices: 16072227--16072253 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
16072217 ATCAATATAT
16072227 AATTAATA
1 AATTAATA
16072235 AATTAATA
1 AATTAATA
16072243 AATTAATA
1 AATTAATA
16072251 AAT
1 AAT
16072254 ACTACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
AATTAATA
Found at i:16073183 original size:31 final size:32
Alignment explanation
Indices: 16073113--16073188 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
16073103 CATTAAATAT
* *** *
16073113 GATTTCATTTGATAAAATATTAATGCGTGTTT
1 GATTTCATTTGATAAAATATTAACGCGACATG
16073145 GATTTCATTTGATAAAATATTAACGC-ACATG
1 GATTTCATTTGATAAAATATTAACGCGACATG
16073176 GATTTCATTTGAT
1 GATTTCATTTGAT
16073189 TTTATTTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 14 0.36
32 25 0.64
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (32 bp):
GATTTCATTTGATAAAATATTAACGCGACATG
Found at i:16076228 original size:21 final size:21
Alignment explanation
Indices: 16076204--16076248 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
16076194 AAGAACTTAT
16076204 CAAGGTTCACTGTCTCTTTCC
1 CAAGGTTCACTGTCTCTTTCC
16076225 CAAGGTTCACTGTCTCTTTCC
1 CAAGGTTCACTGTCTCTTTCC
16076246 CAA
1 CAA
16076249 CCTCCTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (21 bp):
CAAGGTTCACTGTCTCTTTCC
Done.