Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold212
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: 1080337
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 5 of 10
Found at i:561933 original size:10 final size:10
Alignment explanation
Indices: 561909--561939 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
561899 AAATATAATT
561909 TATATAAAAA
1 TATATAAAAA
561919 T-TATAAAAA
1 TATATAAAAA
561928 TATATAAAAA
1 TATATAAAAA
561938 TA
1 TA
561940 ATTTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TATATAAAAA
Found at i:562246 original size:13 final size:13
Alignment explanation
Indices: 562230--562297 Score: 57
Period size: 13 Copynumber: 5.0 Consensus size: 13
562220 ATTATTAAAT
562230 ATGATATAATATA
1 ATGATATAATATA
562243 ATGATATAA-ATAA
1 ATGATATAATAT-A
* *
562256 ATAATAAAAATATA
1 ATGAT-ATAATATA
* *
562270 ATAAAATAATATAAA
1 ATGATATAATAT--A
562285 ATGATATAATATA
1 ATGATATAATATA
562298 TAAATATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
12 2 0.05
13 21 0.48
14 8 0.18
15 13 0.30
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATGATATAATATA
Found at i:562268 original size:19 final size:20
Alignment explanation
Indices: 562235--562300 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 20
562225 TAAATATGAT
*
562235 ATAATATAATGATATAAATAA
1 ATAATATAA-AATATAAATAA
562256 ATAATA-AAAATAT-AATAAA
1 ATAATATAAAATATAAAT-AA
*
562275 ATAATATAAAATGATATAATAT
1 ATAATATAAAAT-ATA-AATAA
562297 ATAA
1 ATAA
562301 ATATTTAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 3 0.08
19 12 0.32
20 7 0.18
21 8 0.21
22 5 0.13
23 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAATATAAAATATAAATAA
Found at i:562278 original size:23 final size:23
Alignment explanation
Indices: 562248--562303 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
562238 ATATAATGAT
562248 ATAAATAAATAATAAAA-ATATA
1 ATAAATAAATAATAAAAGATATA
562270 ATAAA-ATAAT-ATAAAATGATATA
1 ATAAATA-AATAATAAAA-GATATA
*
562293 ATATATAAATA
1 ATAAATAAATA
562304 TTTAAGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
21 7 0.25
22 8 0.29
23 12 0.43
24 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
ATAAATAAATAATAAAAGATATA
Found at i:562798 original size:27 final size:28
Alignment explanation
Indices: 562767--562820 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
562757 TTATCGTTAA
*
562767 TAAATTTTATAAAAATA-AATTTTTATT
1 TAAATATTATAAAAATATAATTTTTATT
*
562794 TAAATATTATAAAAATATGATTTTTAT
1 TAAATATTATAAAAATATAATTTTTAT
562821 AAGATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (28 bp):
TAAATATTATAAAAATATAATTTTTATT
Found at i:563135 original size:21 final size:21
Alignment explanation
Indices: 563111--563166 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
563101 ACAAATATTC
563111 TTATAAAAATATATAATTATA
1 TTATAAAAATATATAATTATA
*
563132 TTAT-AAAATATA-AATTTTA
1 TTATAAAAATATATAATTATA
563151 -TATAACAAATTATATA
1 TTATAA-AAA-TATATA
563167 GGTAGAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 7 0.23
20 11 0.37
21 8 0.27
22 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATAAAAATATATAATTATA
Found at i:563154 original size:18 final size:19
Alignment explanation
Indices: 563111--563155 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
563101 ACAAATATTC
563111 TTATA-AAAATATATAATT
1 TTATATAAAATATATAATT
*
563129 ATATTATAAAATATA-AATT
1 TTA-TATAAAATATATAATT
563148 TTATATAA
1 TTATATAA
563156 CAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
19 8 0.35
20 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTATATAAAATATATAATT
Found at i:563532 original size:29 final size:29
Alignment explanation
Indices: 563475--563530 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
563465 TAAAATTATC
**
563475 ATATTAATTATATCTATTATATTATTTTA
1 ATATTAATTATAAATATTATATTATTTTA
*
563504 ATATTTATTATAAATATTATA-TATTTT
1 ATATTAATTATAAATATTATATTATTTT
563531 TATTGTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
ATATTAATTATAAATATTATATTATTTTA
Found at i:565416 original size:7 final size:7
Alignment explanation
Indices: 565404--565432 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
565394 TTGGTTCTTC
565404 TTCTTTT
1 TTCTTTT
565411 TTCTTTT
1 TTCTTTT
565418 TTC-TTT
1 TTCTTTT
565424 TTCTTTT
1 TTCTTTT
565431 TT
1 TT
565433 GGTGACATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTCTTTT
Found at i:565424 original size:13 final size:13
Alignment explanation
Indices: 565408--565432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
565398 TTCTTCTTCT
565408 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
565421 TTTTTCTTTTTT
1 TTTTTCTTTTTT
565433 GGTGACATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:565875 original size:25 final size:24
Alignment explanation
Indices: 565838--565891 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
565828 ATATTAAATA
565838 TTTAAATA-CTTTTAAATCATATTT
1 TTTAAATATCTTTTAAATCA-ATTT
* *
565862 TTTATAATATTTTTTAAATTAATTT
1 TTTA-AATATCTTTTAAATCAATTT
565887 TTTAA
1 TTTAA
565892 CTTAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 12 0.46
26 9 0.35
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTAAATATCTTTTAAATCAATTT
Found at i:565886 original size:13 final size:13
Alignment explanation
Indices: 565847--565896 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
565837 ATTTAAATAC
*
565847 TTTTAAATCATATT
1 TTTTAAATTA-ATT
565861 TTTTATAA-T-ATT
1 TTTTA-AATTAATT
565873 TTTTAAATTAATT
1 TTTTAAATTAATT
*
565886 TTTTAACTTAA
1 TTTTAAATTAA
565897 ATTTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 13 0.42
14 5 0.16
15 2 0.06
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATTAATT
Found at i:566298 original size:10 final size:10
Alignment explanation
Indices: 566283--566307 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
566273 CTATTCGTTT
566283 ATAAATATAA
1 ATAAATATAA
566293 ATAAATATAA
1 ATAAATATAA
566303 ATAAA
1 ATAAA
566308 ACTTTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAATATAA
Found at i:572570 original size:15 final size:15
Alignment explanation
Indices: 572546--572575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
572536 TTTTTTATAA
*
572546 TTATTTAAAATTATT
1 TTATTAAAAATTATT
572561 TTATTAAAAATTATT
1 TTATTAAAAATTATT
572576 AAAAGACGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTAAAAATTATT
Found at i:574761 original size:2 final size:2
Alignment explanation
Indices: 574756--574782 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
574746 ATATTTTTTA
574756 AT 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 A
574783 ATTTGCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:575163 original size:3 final size:3
Alignment explanation
Indices: 575155--575192 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
575145 TTATGTGTTG
575155 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
575193 GCTTGACTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:575386 original size:3 final size:3
Alignment explanation
Indices: 575378--575402 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
575368 AAGTTTTGAC
575378 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
575403 ACTTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:575813 original size:2 final size:2
Alignment explanation
Indices: 575806--575841 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
575796 TTGTAACTTA
575806 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
575842 TTAAATTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:576019 original size:7 final size:7
Alignment explanation
Indices: 576007--576090 Score: 64
Period size: 7 Copynumber: 11.7 Consensus size: 7
575997 ATCTAAACAA
576007 AAAATTT
1 AAAATTT
576014 AAAA-TT
1 AAAATTT
576020 AATGAATTT
1 AA--AATTT
*
576029 AAAAATCAT
1 -AAAAT-TT
*
576038 AAATTTT
1 AAAATTT
*
576045 AAATTTT
1 AAAATTT
576052 AAAA-TT
1 AAAATTT
*
576058 CAAATTT
1 AAAATTT
*
576065 TAAATTT
1 AAAATTT
*
576072 TAAATTT
1 AAAATTT
576079 AAAATTT
1 AAAATTT
576086 AAAAT
1 AAAAT
576091 GTAATATAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
6 9 0.14
7 41 0.64
8 9 0.14
9 3 0.05
10 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:576054 original size:14 final size:14
Alignment explanation
Indices: 576037--576090 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
576027 TTAAAAATCA
576037 TAAATTTTAAATTT
1 TAAATTTTAAATTT
* *
576051 TAAAATTCAAATTT
1 TAAATTTTAAATTT
576065 TAAATTTTAAATTT
1 TAAATTTTAAATTT
* *
576079 AAAATTTAAAAT
1 TAAATTTTAAAT
576091 GTAATATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATTTTAAATTT
Found at i:576064 original size:21 final size:21
Alignment explanation
Indices: 576024--576090 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
576014 AAAATTAATG
* *
576024 AATTTAAAAATCATAAATTTTA
1 AATTTTAAAATTA-AAATTTTA
*
576046 AATTTTAAAATTCAAATTTTA
1 AATTTTAAAATTAAAATTTTA
* *
576067 AATTTTAAATTTAAAATTTAA
1 AATTTTAAAATTAAAATTTTA
576088 AAT
1 AAT
576091 GTAATATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 29 0.74
22 10 0.26
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AATTTTAAAATTAAAATTTTA
Found at i:576871 original size:2 final size:2
Alignment explanation
Indices: 576864--576901 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
576854 TTAAATTTGA
576864 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
576902 GTGTGTGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:580100 original size:141 final size:141
Alignment explanation
Indices: 579846--580118 Score: 404
Period size: 141 Copynumber: 1.9 Consensus size: 141
579836 AAACCCACAA
* *
579846 TTACTTCCTTCAAATGCAATGCAAAATTACCTAGGCTAATCAAAGATTATCTACTGTTTAAGCAT
1 TTACTTCCTTCAAATGCAATGCAAAACTACCTAGGCTAATCAAAGATTACCTACTGTTTAAGCAT
* * *
579911 GGAAATTATCTGCCGTCTAGATCATGGAAATCCTCAAAAGAAATGCCAATGAATGAACTTATCTA
66 GGAAATTATCTGCCATCTAAATCATGGAAATCCTCAAAAGAAAGGCCAATGAATGAACTTATCTA
579976 GAAAACTTCAT
131 GAAAACTTCAT
* * * * *
579987 TTACTTTCTTGAAATGCAATGCAAAACTACCTAGGCTGATCAAAGATTACCTAGTGTTTAAGTA-
1 TTACTTCCTTCAAATGCAATGCAAAACTACCTAGGCTAATCAAAGATTACCTACTGTTTAAGCAT
* * * *
580051 GAGAGATTATTTGTCATCTAAATCATGGAAATCCTCAAAGGAAAGGCCAATGAATGAACTTATCT
66 G-GAAATTATCTGCCATCTAAATCATGGAAATCCTCAAAAGAAAGGCCAATGAATGAACTTATCT
580116 AGA
130 AGA
580119 TTCGGAACAT
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
140 1 0.01
141 116 0.99
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (141 bp):
TTACTTCCTTCAAATGCAATGCAAAACTACCTAGGCTAATCAAAGATTACCTACTGTTTAAGCAT
GGAAATTATCTGCCATCTAAATCATGGAAATCCTCAAAAGAAAGGCCAATGAATGAACTTATCTA
GAAAACTTCAT
Found at i:581068 original size:18 final size:19
Alignment explanation
Indices: 581045--581080 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
581035 AGTTCTCTTG
581045 GAAGTTGAC-TTGAAAGCT
1 GAAGTTGACATTGAAAGCT
*
581063 GAAGTTGCCATTGAAAGC
1 GAAGTTGACATTGAAAGC
581081 AGATGCAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (19 bp):
GAAGTTGACATTGAAAGCT
Found at i:581471 original size:23 final size:24
Alignment explanation
Indices: 581427--581471 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
581417 TAATAATTTA
* *
581427 TTTATTTATATTATATTTATATAT
1 TTTATTTATATTATAATCATATAT
581451 TTTA-TTATATTATAATCATAT
1 TTTATTTATATTATAATCATAT
581472 TTAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTATTTATATTATAATCATATAT
Found at i:581501 original size:15 final size:15
Alignment explanation
Indices: 581414--581502 Score: 51
Period size: 15 Copynumber: 5.7 Consensus size: 15
581404 AAATAATTAA
*
581414 ATTTAATAATTTATTT
1 ATTT-ATAATTTATAT
581430 ATTTAT-A-TTATAT
1 ATTTATAATTTATAT
*
581443 -TTATATATTTTATTAT
1 ATT-TATAATTTA-TAT
*
581459 ATTATAATCATATTTAAAAT
1 ATT-T-AT-A-ATTT-ATAT
581479 ATTT-TAATTTATAT
1 ATTTATAATTTATAT
581493 ATTTATAATT
1 ATTTATAATT
581503 ATTTTATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 21
0.69 0.06 0.25
Matches are distributed among these distances:
12 2 0.03
13 8 0.14
14 8 0.14
15 14 0.24
16 8 0.14
17 5 0.09
18 2 0.03
19 2 0.03
20 8 0.14
21 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTATAATTTATAT
Found at i:581511 original size:23 final size:23
Alignment explanation
Indices: 581435--581511 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
581425 TATTTATTTA
*
581435 TATTATATTTATATATTT-T-AT
1 TATTTTATTTATATATTTATAAT
* * *
581456 TATATTA-TAATCATATTTA-AAA
1 TATTTTATTTAT-ATATTTATAAT
581478 TATTTTAATTTATATATTTATAAT
1 TATTTT-ATTTATATATTTATAAT
581502 TATTTTATTT
1 TATTTTATTT
581512 TCTTTTAACA
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
20 3 0.07
21 11 0.26
22 6 0.14
23 12 0.28
24 11 0.26
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTTTATTTATATATTTATAAT
Found at i:581986 original size:12 final size:12
Alignment explanation
Indices: 581971--582010 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
581961 ACATACACAC
*
581971 ACATATACATAT
1 ACATATATATAT
*
581983 ACATATATATGT
1 ACATATATATAT
*
581995 ATATATATATAT
1 ACATATATATAT
582007 ACAT
1 ACAT
582011 CTAGAAAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (12 bp):
ACATATATATAT
Found at i:582512 original size:15 final size:15
Alignment explanation
Indices: 582494--582535 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 15
582484 AATTTTTATA
582494 ATTTAAATTAATTTT
1 ATTTAAATTAATTTT
582509 ATTTAAATT-A--TT
1 ATTTAAATTAATTTT
582521 ATTTAAA-TAATTTT
1 ATTTAAATTAATTTT
582535 A
1 A
582536 ATATATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 1 0.04
12 10 0.42
14 4 0.17
15 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAAATTAATTTT
Found at i:586370 original size:17 final size:16
Alignment explanation
Indices: 586346--586465 Score: 59
Period size: 18 Copynumber: 7.1 Consensus size: 16
586336 ATATTTATAT
586346 TTTA-TAAATAATTTAA
1 TTTATTAAA-AATTTAA
586362 TTTATT-AAAATTTATA
1 TTTATTAAAAATTTA-A
*
586378 TTTATTTAAAATTTTAA
1 TTTA-TTAAAAATTTAA
* *
586395 TTAAAATAAAAATATTAAA
1 TT-TATTAAAAAT-TT-AA
*
586414 TTAATT-AAAATTT-A
1 TTTATTAAAAATTTAA
* *
586428 TATATATAATAAATATAA
1 TTTAT-TAA-AAATTTAA
*
586446 TTATATTATTAAATTTAA
1 TT-TATTA-AAAATTTAA
586464 TT
1 TT
586466 ATAATCTATT
Statistics
Matches: 80, Mismatches: 11, Indels: 24
0.70 0.10 0.21
Matches are distributed among these distances:
14 4 0.05
15 7 0.09
16 14 0.17
17 22 0.28
18 26 0.32
19 7 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTATTAAAAATTTAA
Found at i:586380 original size:16 final size:16
Alignment explanation
Indices: 586338--586391 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 16
586328 CATATATTAT
*
586338 ATTTATATTTTATAAATA
1 ATTTATA-TTTATTAA-A
586356 ATTTA-ATTTATTAAA
1 ATTTATATTTATTAAA
586371 ATTTATATTTATTTAAA
1 ATTTATATTTA-TTAAA
586388 ATTT
1 ATTT
586392 TAATTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
15 6 0.18
16 12 0.36
17 10 0.30
18 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATATTTATTAAA
Found at i:586432 original size:23 final size:23
Alignment explanation
Indices: 586391--586466 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
586381 ATTTAAAATT
** *
586391 TTAATTAAAATAAAAATATTAAA
1 TTAATTAAAATTTATATATTAAA
586414 TTAATTAAAATTTATATA-TATAA
1 TTAATTAAAATTTATATATTA-AA
* *
586437 -TAAATATAA-TTATATTATTAAA
1 TTAATTAAAATTTATA-TATTAAA
586459 TTTAATTA
1 -TTAATTA
586467 TAATCTATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
21 5 0.12
22 13 0.31
23 19 0.45
24 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAATTAAAATTTATATATTAAA
Found at i:586457 original size:36 final size:35
Alignment explanation
Indices: 586368--586470 Score: 92
Period size: 35 Copynumber: 3.0 Consensus size: 35
586358 TTAATTTATT
*
586368 AAAAT-TTATATTTATTTAAAATTT-TA-ATTAAAATA
1 AAAATATTATA-TTA-TTAAAATTTATATA-TATAATA
*
586403 AAAATATTAAATTAATTAAAATTTATATATATAATA
1 AAAATATTATATT-ATTAAAATTTATATATATAATA
*
586439 AATATAATTATATTATT-AAATTTA-AT-TATAAT
1 AAAAT-ATTATATTATTAAAATTTATATATATAAT
586471 CTATTAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
33 6 0.10
34 2 0.03
35 23 0.39
36 20 0.34
37 8 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (35 bp):
AAAATATTATATTATTAAAATTTATATATATAATA
Found at i:586458 original size:18 final size:20
Alignment explanation
Indices: 586437--586478 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
586427 ATATATATAA
586437 TAAATATAATTAT-AT-TAT
1 TAAATATAATTATAATCTAT
*
586455 TAAATTTAATTATAATCTAT
1 TAAATATAATTATAATCTAT
586475 TAAA
1 TAAA
586479 ATATTAACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 2 0.10
20 7 0.33
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATATAATTATAATCTAT
Found at i:586604 original size:15 final size:17
Alignment explanation
Indices: 586562--586630 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 17
586552 AATATCATAG
586562 ATTTATATAATTTTAATAT
1 ATTTATAT-ATTTT-ATAT
586581 ATTTA-ATATTTT-TAT
1 ATTTATATATTTTATAT
586596 -TTTATATA-TTT-TA-
1 ATTTATATATTTTATAT
586609 A-TTAT-T-TTTTATAT
1 ATTTATATATTTTATAT
586623 ATTTATAT
1 ATTTATAT
586631 TAGATTGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
12 4 0.09
13 6 0.14
14 10 0.23
15 10 0.23
16 1 0.02
17 5 0.12
18 2 0.05
19 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTATATATTTTATAT
Found at i:586608 original size:23 final size:24
Alignment explanation
Indices: 586571--586617 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
586561 GATTTATATA
586571 ATTTTAATATATTTAA-TATTTTT
1 ATTTTAATATATTTAATTATTTTT
586594 ATTTT-ATATATTTTAATTATTTTT
1 ATTTTAATATA-TTTAATTATTTTT
586618 TATATATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 10 0.45
24 7 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTAATATATTTAATTATTTTT
Found at i:586618 original size:20 final size:21
Alignment explanation
Indices: 586572--586632 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
586562 ATTTATATAA
* *
586572 TTTTAATATATTTAATATTTT
1 TTTTTATATATTTAATATTAT
*
586593 TATTTTATATATTTTA-ATTAT
1 T-TTTTATATATTTAATATTAT
586614 TTTTTATATATTT-ATATTA
1 TTTTTATATATTTAATATTA
586633 GATTGATTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 16 0.46
21 6 0.17
22 12 0.34
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTATATATTTAATATTAT
Found at i:586628 original size:33 final size:33
Alignment explanation
Indices: 586563--586628 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
586553 ATATCATAGA
*
586563 TTTATATAATTTTAATATATTTAATATTTTTAT
1 TTTATATAATTTTAATATATTTAATATATTTAT
* *
586596 TTTATAT-ATTTTAATTATTTTTTATATATTTAT
1 TTTATATAATTTTAA-TATATTTAATATATTTAT
586629 ATTAGATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 7 0.24
33 22 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (33 bp):
TTTATATAATTTTAATATATTTAATATATTTAT
Found at i:588807 original size:18 final size:18
Alignment explanation
Indices: 588770--588810 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
588760 AACCAATAAA
*
588770 ATTTTTAATAATTTATTT
1 ATTTTTAATAATTGATTT
588788 ATTTTTAATAATATGA-TT
1 ATTTTTAATAAT-TGATTT
588806 ATTTT
1 ATTTT
588811 AAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTTAATAATTGATTT
Found at i:589124 original size:13 final size:14
Alignment explanation
Indices: 589087--589135 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
589077 CTAAATTTAT
589087 TTATTATTTAAATA
1 TTATTATTTAAATA
589101 TTATTATTTAAAT-
1 TTATTATTTAAATA
589114 TT-TTAATTTAAATA
1 TTATT-ATTTAAATA
*
589128 TTAATATT
1 TTATTATT
589136 CATTGAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 2 0.06
13 10 0.32
14 18 0.58
15 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTATTTAAATA
Found at i:595735 original size:2 final size:2
Alignment explanation
Indices: 595728--595798 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
595718 ATCCTCTTAC
595728 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
595770 AT AT 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 A
595799 ACACATACTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:595993 original size:27 final size:27
Alignment explanation
Indices: 595963--596014 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
595953 TATAATTATA
*
595963 TTTAA-AAATTTATATATTTATATTAAT
1 TTTAATAAATTAATA-ATTTATATTAAT
*
595990 TTTAATACATTAATAATTTATATTA
1 TTTAATAAATTAATAATTTATATTA
596015 TACAAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTAATAAATTAATAATTTATATTAAT
Found at i:596343 original size:17 final size:17
Alignment explanation
Indices: 596303--596349 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
596293 GTTACTAAAT
596303 TTTAAAAATAAAATTGA
1 TTTAAAAATAAAATTGA
* *
596320 ATAAAAAATAAAATCT-A
1 TTTAAAAATAAAAT-TGA
596337 TTTAAAAAATAAA
1 TTT-AAAAATAAA
596350 TTAAATCTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TTTAAAAATAAAATTGA
Found at i:596977 original size:16 final size:16
Alignment explanation
Indices: 596953--596986 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
596943 GTATTTTCAA
* *
596953 ATATGAATATAAAGAT
1 ATATAAATATAAAAAT
596969 ATATAAATATAAAAAT
1 ATATAAATATAAAAAT
596985 AT
1 AT
596987 CGCTCTCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
ATATAAATATAAAAAT
Found at i:603287 original size:15 final size:16
Alignment explanation
Indices: 603267--603296 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
603257 TTGTTTATAA
603267 TTATATA-ATTAAAAT
1 TTATATATATTAAAAT
603282 TTATATATATTAAAA
1 TTATATATATTAAAA
603297 AATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTATATATATTAAAAT
Found at i:604029 original size:2 final size:2
Alignment explanation
Indices: 604022--604053 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
604012 TGTCGCATAG
604022 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
604054 TCTGCTTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:604987 original size:20 final size:21
Alignment explanation
Indices: 604938--604994 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
604928 AATTAAAATT
604938 TATAA-TTAAATTTATATAAAAA
1 TATAATTTAAA-TTA-ATAAAAA
* *
604960 TATTATTTTAATTAATAAAAA
1 TATAATTTAAATTAATAAAAA
604981 -ATAATTTAAATTAA
1 TATAATTTAAATTAA
604995 CTTAAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 12 0.40
21 7 0.23
22 7 0.23
23 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TATAATTTAAATTAATAAAAA
Found at i:604999 original size:5 final size:5
Alignment explanation
Indices: 604986--605051 Score: 57
Period size: 5 Copynumber: 13.6 Consensus size: 5
604976 AAAAAATAAT
* * * *
604986 TTAAA TTAAC TTAAA TTAAA --AAA TAAAA TTTAAT TTAAT TTAAA TTAAA
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA -TTAAA TTAAA TTAAA TTAAA
*
605035 TTAAA TT-TA TTAAA TTA
1 TTAAA TTAAA TTAAA TTA
605052 TATAATCTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
3 3 0.06
4 3 0.06
5 41 0.82
6 3 0.06
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (5 bp):
TTAAA
Found at i:605012 original size:34 final size:34
Alignment explanation
Indices: 604973--605039 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
604963 TATTTTAATT
*
604973 AATAAAAAATAATTTAAATTAACTTAAATTAAAA
1 AATAAAAAATAATTTAAATTAAATTAAATTAAAA
** *
605007 AATAAAATTTAATTTAATTTAAATTAAATTAAA
1 AATAAAAAATAATTTAAATTAAATTAAATTAAA
605040 TTTATTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (34 bp):
AATAAAAAATAATTTAAATTAAATTAAATTAAAA
Found at i:605671 original size:25 final size:28
Alignment explanation
Indices: 605643--605696 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
605633 ATAAATATAA
*
605643 TTTAAT-AA-TTTAATATTAA-TATTAT
1 TTTAATAAATTTTAATAATAATTATTAT
605668 TTTAATAAATTTTAATAATAATTATTAT
1 TTTAATAAATTTTAATAATAATTATTAT
605696 T
1 T
605697 ATATATAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 2 0.08
27 10 0.40
28 7 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTAATAAATTTTAATAATAATTATTAT
Found at i:607203 original size:22 final size:22
Alignment explanation
Indices: 607168--607209 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
607158 ATTTTTTATT
607168 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
607190 TAAATATTAA-TATAAAAATA
1 TAAAT-TTAATTATAAAAATA
607210 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:607246 original size:25 final size:25
Alignment explanation
Indices: 607183--607267 Score: 64
Period size: 25 Copynumber: 3.2 Consensus size: 25
607173 TTAATTATAA
* *
607183 AAATATATAAATATTAATATAA-AAAT
1 AAAT-TATAAATTTTTAT-TAATAAAT
* **
607209 AAATTTTTTATTTTTATTAATAAAT
1 AAATTATAAATTTTTATTAATAAAT
607234 AAATTATAAATTTTAATATTTAATCAAAT
1 AAATTATAAATTTT--TA-TTAAT-AAAT
607263 AAATT
1 AAATT
607268 CAATTTAAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
24 3 0.07
25 23 0.50
26 4 0.09
27 2 0.04
28 5 0.11
29 9 0.20
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (25 bp):
AAATTATAAATTTTTATTAATAAAT
Found at i:607424 original size:33 final size:33
Alignment explanation
Indices: 607382--607448 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
607372 AGAAGCCTTT
607382 AGTGCTCATTTATTAAGAGAAGACTATGTATTG
1 AGTGCTCATTTATTAAGAGAAGACTATGTATTG
607415 AGTGCTCATTTATTAAGAGAAGACTATGTATTG
1 AGTGCTCATTTATTAAGAGAAGACTATGTATTG
607448 A
1 A
607449 ACATGGAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (33 bp):
AGTGCTCATTTATTAAGAGAAGACTATGTATTG
Found at i:607994 original size:26 final size:25
Alignment explanation
Indices: 607950--608015 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
607940 TAATATTTAT
607950 ATTTTTATAAATTTAAAAATAATATA
1 ATTTTTATAAATTTAAAAA-AATATA
*
607976 ATTTTTA-AAATTTTTAAAAAATA-A
1 ATTTTTATAAA-TTTAAAAAAATATA
*
608000 ATATATT-TAAATTTAA
1 AT-TTTTATAAATTTAA
608016 TTCCGGTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
24 7 0.21
25 13 0.38
26 14 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTTTTATAAATTTAAAAAAATATA
Found at i:610118 original size:31 final size:31
Alignment explanation
Indices: 610052--610118 Score: 73
Period size: 31 Copynumber: 2.2 Consensus size: 31
610042 ATAAATATAA
* * *
610052 AAATATAATTTTATATATATATAAAAAATTT
1 AAATATAATTTTATAAATACATAAAAAATTC
* *
610083 AAATATATTTTTATCAAATACAT-AATAATTC
1 AAATATAATTTTAT-AAATACATAAAAAATTC
610114 AAATA
1 AAATA
610119 ACATAGATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (31 bp):
AAATATAATTTTATAAATACATAAAAAATTC
Found at i:610704 original size:15 final size:14
Alignment explanation
Indices: 610662--610713 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
610652 TTAACATATT
610662 TTATATAAATTTTA
1 TTATATAAATTTTA
*
610676 ATATATTAATAATTTATA
1 TTATA-T-A-AATTT-TA
610694 TTATATAAATTTTA
1 TTATATAAATTTTA
*
610708 TAATAT
1 TTATAT
610714 TATTATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 11 0.35
15 6 0.19
16 2 0.06
17 6 0.19
18 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATATAAATTTTA
Found at i:610707 original size:16 final size:16
Alignment explanation
Indices: 610662--610709 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
610652 TTAACATATT
610662 TTATATAAATTTTA-A
1 TTATATAAATTTTATA
*
610677 -TATATTAATAATTTATA
1 TTATA-TAA-ATTTTATA
610694 TTATATAAATTTTATA
1 TTATATAAATTTTATA
610710 ATATTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 4 0.15
15 3 0.11
16 12 0.44
17 4 0.15
18 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATATAAATTTTATA
Found at i:610720 original size:22 final size:20
Alignment explanation
Indices: 610657--610759 Score: 75
Period size: 19 Copynumber: 5.5 Consensus size: 20
610647 TATATTTAAC
*
610657 ATATT-TTATATAAATTTTA
1 ATATTATTATATAATTTTTA
610676 ATA-TATTA-ATAA--TTT-
1 ATATTATTATATAATTTTTA
610691 ATATTA-TATA-AATTTTATA
1 ATATTATTATATAATTTT-TA
*
610710 ATATTATTATATTATTTTTA
1 ATATTATTATATAATTTTTA
610730 ATA-TATT-T-TAATTATATCTA
1 ATATTATTATATAATT-T-T-TA
610750 ATATTATTAT
1 ATATTATTAT
610760 GCGTATTTCA
Statistics
Matches: 68, Mismatches: 2, Indels: 25
0.72 0.02 0.26
Matches are distributed among these distances:
15 7 0.10
16 6 0.09
17 6 0.09
18 8 0.12
19 17 0.25
20 14 0.21
21 9 0.13
22 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATTATTATATAATTTTTA
Found at i:610731 original size:20 final size:20
Alignment explanation
Indices: 610692--610759 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
610682 TAATAATTTA
*
610692 TATTATATAAATTTTATAATAT
1 TATTATAT-TATTTT-TAATAT
610714 TATTATATTATTTTTAATA-
1 TATTATATTATTTTTAATAT
* * *
610733 TATTTTAATTATATCTAATAT
1 TATTAT-ATTATTTTTAATAT
610754 TATTAT
1 TATTAT
610760 GCGTATTTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.13
20 16 0.41
21 10 0.26
22 8 0.21
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTATATTATTTTTAATAT
Found at i:611524 original size:37 final size:32
Alignment explanation
Indices: 611483--611562 Score: 74
Period size: 32 Copynumber: 2.4 Consensus size: 32
611473 AATATTTTTA
*
611483 TTTAAATTTAATTATAAAAATATTAATATTAAATAAT
1 TTTAAATTTAATT-TAAAAA-A-TAA-AATAAAT-AT
*
611520 TTT-AATATT-ATTTAAAAAATAAAATAAATTT
1 TTTAAAT-TTAATTTAAAAAATAAAATAAATAT
611551 TTTAAATTTAAT
1 TTTAAATTTAAT
611563 AAATCCAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
31 6 0.16
32 11 0.29
33 3 0.08
34 1 0.03
35 6 0.16
36 6 0.16
37 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (32 bp):
TTTAAATTTAATTTAAAAAATAAAATAAATAT
Found at i:611808 original size:27 final size:27
Alignment explanation
Indices: 611770--611825 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
611760 TTAAAAGTTG
611770 TCGTGACAGCAGCACAGGATTTTGCGC
1 TCGTGACAGCAGCACAGGATTTTGCGC
* *
611797 TCGTGACCGCAGCACATGATTTTGCGC
1 TCGTGACAGCAGCACAGGATTTTGCGC
611824 TC
1 TC
611826 AAAGTCAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.25
Consensus pattern (27 bp):
TCGTGACAGCAGCACAGGATTTTGCGC
Found at i:612109 original size:12 final size:12
Alignment explanation
Indices: 612092--612116 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
612082 TTCACTATTA
612092 TATATATATAAT
1 TATATATATAAT
612104 TATATATATAAT
1 TATATATATAAT
612116 T
1 T
612117 TTATTTAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATATATAAT
Found at i:612183 original size:14 final size:16
Alignment explanation
Indices: 612163--612204 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
612153 TATAATTTTA
612163 ATAATTTTTAAT-TAT
1 ATAATTTTTAATATAT
*
612178 -TAATTTTTTATATAT
1 ATAATTTTTAATATAT
*
612193 ATAAGTTTTAAT
1 ATAATTTTTAAT
612205 CTTTTTCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
16 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATAATTTTTAATATAT
Found at i:612196 original size:39 final size:40
Alignment explanation
Indices: 612103--612204 Score: 109
Period size: 41 Copynumber: 2.5 Consensus size: 40
612093 ATATATATAA
*
612103 TTATATATATAATTTTATTTAAATTTTATTAATTTAATTTT
1 TTATATATATAATTTTA-ATAAATTTTATTAATTTAATTTT
* * *
612144 TAACATAACTATAATTTTAATAATTTTTAATT-A-TTAATTTT
1 TTATAT-A-TATAATTTTAATAAATTTT-ATTAATTTAATTTT
612185 TTATATATATAAGTTTTAAT
1 TTATATATATAA-TTTTAAT
612205 CTTTTTCCTT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
39 5 0.10
40 8 0.16
41 16 0.31
42 9 0.18
43 13 0.25
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (40 bp):
TTATATATATAATTTTAATAAATTTTATTAATTTAATTTT
Found at i:612281 original size:18 final size:18
Alignment explanation
Indices: 612258--612317 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 18
612248 ATAATTATTT
612258 TTAATTATTATATATATA
1 TTAATTATTATATATATA
*
612276 TTAA-T-TTAAATATATA
1 TTAATTATTATATATATA
*
612292 TT--TTATTAT-TA-ATT
1 TTAATTATTATATATATA
612306 TTAATTTATTAT
1 TTAA-TTATTAT
612318 TACACTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
14 4 0.12
15 3 0.09
16 15 0.44
17 8 0.24
18 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAATTATTATATATATA
Found at i:612664 original size:19 final size:19
Alignment explanation
Indices: 612642--612701 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
612632 AAATTATTTA
*
612642 AATAATATTTATTTTAAAT
1 AATAATATTTATATTAAAT
* * *
612661 AATAACATATAAATT-AA-
1 AATAATATTTATATTAAAT
*
612678 AAT-ATATTTATGTTAAAT
1 AATAATATTTATATTAAAT
612696 AATAAT
1 AATAAT
612702 TAAAAATTAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 7 0.23
17 5 0.17
18 5 0.17
19 13 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATAATATTTATATTAAAT
Found at i:613890 original size:26 final size:26
Alignment explanation
Indices: 613835--613895 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
613825 GGATCAATTT
*
613835 AATTAATCTTATAAATTAATATAATTA
1 AATTAAT-TTATAAATTAATATAATCA
* *
613862 AATTAATTTTTAATTTAA-ATAAATCA
1 AATTAATTTATAAATTAATAT-AATCA
*
613888 AATAAATT
1 AATTAATT
613896 AAATTGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAATTTATAAATTAATATAATCA
Found at i:614066 original size:5 final size:5
Alignment explanation
Indices: 614056--614085 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
614046 ATAATAATAA
614056 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
614086 TTTAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:614155 original size:29 final size:30
Alignment explanation
Indices: 614110--614171 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
614100 TTGTACTTTA
* *
614110 ATATATTATTAAATATAAA-ATATTTAATT
1 ATATATTATTAAATATAAATATATGTAAAT
**
614139 ATATATTATTATTTATAAATATATGTAAAT
1 ATATATTATTAAATATAAATATATGTAAAT
614169 ATA
1 ATA
614172 ATATGGCGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (30 bp):
ATATATTATTAAATATAAATATATGTAAAT
Found at i:614227 original size:38 final size:39
Alignment explanation
Indices: 614141--614227 Score: 92
Period size: 38 Copynumber: 2.3 Consensus size: 39
614131 ATTTAATTAT
* *
614141 ATATTATTATTTATAAATATATGTAAATATAATATGGCGA
1 ATATT-TTATTTATAAATATATGTAAATATAATATGCCAA
*
614181 A-ATCTTATTTATAAATATAT-TAAA-ATAAATAT-CCTAA
1 ATATTTTATTTATAAATATATGTAAATAT-AATATGCC-AA
614218 ATATTTTATT
1 ATATTTTATT
614228 GAATTATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
36 3 0.08
37 11 0.28
38 23 0.57
39 2 0.05
40 1 0.03
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.45
Consensus pattern (39 bp):
ATATTTTATTTATAAATATATGTAAATATAATATGCCAA
Found at i:614611 original size:22 final size:22
Alignment explanation
Indices: 614586--614627 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
614576 ATAAAAAAAT
614586 TATTTTTAT-ATTAATAATTATA
1 TATTTTTATAATTAA-AATTATA
614608 TATTTTTATAATTAAAATTA
1 TATTTTTATAATTAAAATTA
614628 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTTATAATTAAAATTATA
Found at i:614671 original size:21 final size:20
Alignment explanation
Indices: 614615--614672 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
614605 ATATATTTTT
614615 ATAA-TTAAAATTAAATAAAA
1 ATAATTTAAAA-TAAATAAAA
*
614635 ATATTATTT-AATTAAATAAATA
1 ATA--ATTTAAAATAAATAAA-A
614657 ATAATTTAAAATAAAT
1 ATAATTTAAAATAAAT
614673 CAAGCCAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 7 0.23
23 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAATTTAAAATAAATAAAA
Found at i:615017 original size:30 final size:29
Alignment explanation
Indices: 614982--615097 Score: 105
Period size: 28 Copynumber: 3.9 Consensus size: 29
614972 GACAACCAAA
614982 AAAAAATATATAATATAAAATATAATATT
1 AAAAAATATATAATATAAAATATAATATT
*
615011 AAAAAA-AT-TAATATAAATATATAAAAATAT
1 AAAAAATATATAATATAAA-ATAT-AATAT-T
* *
615041 AAAAATTTATATAATATAAATTATTAATA-T
1 AAAAA-ATATATAATATAAAATA-TAATATT
*
615071 -ATAAATATATAATATATTAAATATAAT
1 AAAAAATATATAATATA--AAATATAAT
615098 TATATTATAT
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
27 9 0.13
28 17 0.24
29 17 0.24
30 11 0.15
32 7 0.10
33 10 0.14
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAAAATATATAATATAAAATATAATATT
Found at i:615034 original size:8 final size:8
Alignment explanation
Indices: 615021--615119 Score: 80
Period size: 8 Copynumber: 12.8 Consensus size: 8
615011 AAAAAAATTA
615021 ATATAAAT
1 ATATAAAT
*
615029 ATATAAAA
1 ATATAAAT
*
615037 ATATAAAA
1 ATATAAAT
* *
615045 ATTTATAT
1 ATATAAAT
615053 AATATAAAT
1 -ATATAAAT
*
615062 -TATTAAT
1 ATATAAAT
615069 ATATAAAT
1 ATATAAAT
615077 ATAT-AAT
1 ATATAAAT
*
615084 ATATTAA-
1 ATATAAAT
*
615091 ATATAATT
1 ATATAAAT
*
615099 ATAT-TAT
1 ATATAAAT
*
615106 ATAAAAAT
1 ATATAAAT
615114 ATATAA
1 ATATAA
615120 GTAATTTACA
Statistics
Matches: 71, Mismatches: 15, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
7 22 0.31
8 43 0.61
9 6 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:615072 original size:15 final size:16
Alignment explanation
Indices: 615021--615092 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 16
615011 AAAAAAATTA
*
615021 ATATAAATATATAAAAAT
1 ATATAAAT-TAT-ATAAT
*
615039 ATAAAAATT-TAT-AT
1 ATATAAATTATATAAT
615053 AATATAAATTAT-TAAT
1 -ATATAAATTATATAAT
615069 ATATAAA-TATATAAT
1 ATATAAATTATATAAT
615084 ATATTAAAT
1 ATA-TAAAT
615093 ATAATTATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
14 5 0.11
15 24 0.53
16 8 0.18
17 1 0.02
18 7 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAAATTATATAAT
Found at i:615101 original size:15 final size:16
Alignment explanation
Indices: 615048--615117 Score: 62
Period size: 15 Copynumber: 4.8 Consensus size: 16
615038 TATAAAAATT
*
615048 TATATAATATA--AAT
1 TATATAATATATTAAA
615062 TAT-TAATATA-TAAA
1 TATATAATATATTAAA
615076 TATATAATATATTAAA
1 TATATAATATATTAAA
* *
615092 TATA-ATTATATTATA
1 TATATAATATATTAAA
*
615107 TA-AAAATATAT
1 TATATAATATAT
615118 AAGTAATTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 7 0.15
14 9 0.19
15 24 0.50
16 8 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATAATATATTAAA
Found at i:615342 original size:23 final size:22
Alignment explanation
Indices: 615301--615344 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
615291 TAAATATGAT
* *
615301 TTATTTAAATTATTTAAATTTA
1 TTATTTAAATTAATAAAATTTA
615323 TTATTTATAATTAATAAAATTT
1 TTATTTA-AATTAATAAAATTT
615345 TTAAATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTTAAATTAATAAAATTTA
Found at i:615375 original size:23 final size:23
Alignment explanation
Indices: 615343--615386 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
615333 TTAATAAAAT
615343 TTTTAAATATTATTAT-ATTAATA
1 TTTTAAATATT-TTATAATTAATA
*
615366 TTTTATATATTTTATAATTAA
1 TTTTAAATATTTTATAATTAA
615387 AATTAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTAAATATTTTATAATTAATA
Found at i:617622 original size:18 final size:19
Alignment explanation
Indices: 617601--617636 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
617591 ATAGTATTTT
*
617601 TTAAATATTTTT-TATTAA
1 TTAAAAATTTTTATATTAA
617619 TTAAAAATTTTTATATTA
1 TTAAAAATTTTTATATTA
617637 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAAAATTTTTATATTAA
Found at i:617642 original size:18 final size:18
Alignment explanation
Indices: 617607--617644 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
617597 TTTTTTAAAT
*
617607 ATTTTTTATTAATTAAAA
1 ATTTTTTATTAATAAAAA
617625 ATTTTTATATT-ATAAAAA
1 ATTTTT-TATTAATAAAAA
617643 AT
1 AT
617645 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTTATTAATAAAAA
Found at i:618098 original size:4 final size:4
Alignment explanation
Indices: 618091--618122 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
618081 TATATATATA
*
618091 TATG TATG TATG TATG TATG TATG TTTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG
618123 ATACGGTAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:619885 original size:33 final size:33
Alignment explanation
Indices: 619843--619911 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
619833 GTTTATAAAT
* *
619843 GTCGTTAAATGTTCGGCGACGTTTGCCTAAAAC
1 GTCGCTAAATGTTCAGCGACGTTTGCCTAAAAC
* *
619876 GTCGCTAAATGTTTAGCGATGTTTGCCTAAAAC
1 GTCGCTAAATGTTCAGCGACGTTTGCCTAAAAC
619909 GTC
1 GTC
619912 ACTGAAAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (33 bp):
GTCGCTAAATGTTCAGCGACGTTTGCCTAAAAC
Found at i:620209 original size:23 final size:23
Alignment explanation
Indices: 620156--620220 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
620146 TAAAATTATA
*
620156 AAATATTATAAATTATTTATATT
1 AAATTTTATAAATTATTTATATT
*
620179 -AATATTTATATATT-TTTATAATT
1 AAAT-TTTATAAATTATTTAT-ATT
*
620202 AAATTTTAAAAATATATTT
1 AAATTTTATAAAT-TATTT
620221 TTTATTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
22 8 0.24
23 18 0.55
24 4 0.12
25 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AAATTTTATAAATTATTTATATT
Found at i:620244 original size:27 final size:28
Alignment explanation
Indices: 620178--620245 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
620168 TTATTTATAT
620178 TAAT-ATTTATATATTTTTATAATTAAA
1 TAATAATTTATATATTTTTATAATTAAA
** ** *
620205 TTTTAA-AAATATATTTTTTATTATTAAA
1 TAATAATTTATATA-TTTTTATAATTAAA
620233 TAATAATTTATAT
1 TAATAATTTATAT
620246 CAAATTAAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
27 7 0.24
28 18 0.62
29 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TAATAATTTATATATTTTTATAATTAAA
Found at i:621380 original size:15 final size:17
Alignment explanation
Indices: 621352--621388 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
621342 TATTTATATT
621352 TAAATATATATTAAATA
1 TAAATATATATTAAATA
621369 TAAATAT-T-TTAAATA
1 TAAATATATATTAAATA
621384 -AAATA
1 TAAATA
621389 AAAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 7 0.35
16 1 0.05
17 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATATTAAATA
Found at i:621478 original size:27 final size:27
Alignment explanation
Indices: 621435--621562 Score: 82
Period size: 27 Copynumber: 4.4 Consensus size: 27
621425 GATTAAATAA
621435 AATA-AAAAATA-ATTAAAATATTATAT
1 AATATAAAAATATA-TAAAATATTATAT
621461 AATATAAAAATATATAAAATAAAATTTATAT
1 AATATAAAAATATATAAAAT---A-TTATAT
*
621492 AATATTAATTATTAATATATTAAAT-TTATAT
1 AATA-TAA--A--AATATATAAAATATTATAT
* * * *
621523 ATATATATAAATATTTTAAATATTATAA
1 A-ATATAAAAATATATAAAATATTATAT
*
621551 AATATATAAATA
1 AATATAAAAATA
621563 AAAGTTGAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 25
0.75 0.04 0.22
Matches are distributed among these distances:
26 4 0.05
27 35 0.41
28 7 0.08
29 1 0.01
30 1 0.01
31 19 0.22
32 6 0.07
34 1 0.01
36 11 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AATATAAAAATATATAAAATATTATAT
Found at i:621493 original size:31 final size:32
Alignment explanation
Indices: 621448--621537 Score: 105
Period size: 31 Copynumber: 2.8 Consensus size: 32
621438 AAAAAATAAT
*
621448 TAAAATATTATATAATATAAAAATATATAA-A-A
1 TAAAAT-TTATATAATATATAAATAT-TAATATA
*
621480 TAAAATTTATATAATAT-TAATTATTAATATA
1 TAAAATTTATATAATATATAAATATTAATATA
*
621511 TTAAATTTATATATATATATAAATATT
1 TAAAATTTATATA-ATATATAAATATT
621538 TTAAATATTA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
29 3 0.06
30 6 0.12
31 24 0.48
32 10 0.20
33 7 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
TAAAATTTATATAATATATAAATATTAATATA
Found at i:621501 original size:15 final size:15
Alignment explanation
Indices: 621450--621529 Score: 56
Period size: 16 Copynumber: 5.1 Consensus size: 15
621440 AAAATAATTA
621450 AAATATTATATAATAT
1 AAAT-TTATATAATAT
** *
621466 AAAAATATATAAAAT
1 AAATTTATATAATAT
621481 AAAATTTATATAATAT
1 -AAATTTATATAATAT
*
621497 TAA-TTAT-TAATATATT
1 AAATTTATAT-A-ATA-T
621513 AAATTTATATATATAT
1 AAATTTATATA-ATAT
621529 A
1 A
621530 TAAATATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
13 1 0.02
14 5 0.10
15 14 0.28
16 20 0.40
17 9 0.18
18 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTATATAATAT
Found at i:621544 original size:9 final size:9
Alignment explanation
Indices: 621441--621562 Score: 57
Period size: 9 Copynumber: 13.6 Consensus size: 9
621431 ATAAAATAAA
621441 AAATAATTA-
1 AAAT-ATTAT
621450 AAATATTAT
1 AAATATTAT
*
621459 ATAATA-TAA
1 A-AATATTAT
621468 AAATA-TAT
1 AAATATTAT
621476 AAA-A-TA-
1 AAATATTAT
621482 AAAT-TTAT
1 AAATATTAT
621490 ATAATATTAATT
1 A-AATATT-A-T
621502 ATTAATA-TATT
1 A--AATATTA-T
621513 AAAT-TTAT
1 AAATATTAT
*
621521 ATATATATAT
1 AAATAT-TAT
*
621531 AAATATTTT
1 AAATATTAT
621540 AAATATTAT
1 AAATATTAT
621549 AAA-ATATAT
1 AAATAT-TAT
621558 AAATA
1 AAATA
621563 AAAGTTGAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 29
0.72 0.05 0.23
Matches are distributed among these distances:
6 3 0.03
7 5 0.05
8 20 0.22
9 36 0.39
10 15 0.16
11 5 0.05
12 3 0.03
13 5 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
AAATATTAT
Found at i:621545 original size:36 final size:35
Alignment explanation
Indices: 621441--621562 Score: 93
Period size: 31 Copynumber: 3.7 Consensus size: 35
621431 ATAAAATAAA
* *
621441 AAATA-ATTAAAATATTATATAATATAAAAATA-TAT
1 AAATATATT-AAAT-TTATATAATATATAAATATTTT
*
621476 AAA-ATA--AAATTTATATAATAT-T-AAT-TATT
1 AAATATATTAAATTTATATAATATATAAATATTTT
621505 -AATATATTAAATTTATATATATATATAAATATTTT
1 AAATATATTAAATTTATATA-ATATATAAATATTTT
* *
621540 AAATATTATAAAATATATA-AATA
1 AAATA-TATTAAATTTATATAATA
621563 AAAGTTGAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
28 2 0.03
29 7 0.10
31 22 0.31
32 8 0.11
33 1 0.01
34 4 0.06
35 10 0.14
36 5 0.07
37 11 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (35 bp):
AAATATATTAAATTTATATAATATATAAATATTTT
Found at i:621946 original size:37 final size:37
Alignment explanation
Indices: 621902--621974 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
621892 TACATCAATC
*
621902 TCGTAAAAT-TATTAATTTTTGATTGAATCAATTAAAT
1 TCGTAAAATCT-TTAATTTTTGATTGAACCAATTAAAT
* * *
621939 TCGTAAAATCTTTGATTTTTTATTGAGCCAATTAAA
1 TCGTAAAATCTTTAATTTTTGATTGAACCAATTAAA
621975 GTGCTGCAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.97
38 1 0.03
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (37 bp):
TCGTAAAATCTTTAATTTTTGATTGAACCAATTAAAT
Found at i:622073 original size:21 final size:21
Alignment explanation
Indices: 622047--622086 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
622037 ATTAAAAACA
622047 TATTATTAATCATG-ATATATT
1 TATTA-TAATCATGAATATATT
*
622068 TATTATAATTATGAATATA
1 TATTATAATCATGAATATA
622087 ATAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (21 bp):
TATTATAATCATGAATATATT
Found at i:623886 original size:17 final size:15
Alignment explanation
Indices: 623846--623877 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
623836 TTTAAAAATA
*
623846 ATTAAATATATTTTT
1 ATTAAATATATATTT
623861 ATTAAATATATATTT
1 ATTAAATATATATTT
623876 AT
1 AT
623878 ATATAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTAAATATATATTT
Found at i:625761 original size:18 final size:16
Alignment explanation
Indices: 625712--625779 Score: 52
Period size: 16 Copynumber: 4.2 Consensus size: 16
625702 AATATATTTT
625712 TAAAATT-TATATAATA
1 TAAAATTATATA-AATA
625728 T-AAATTAT-TAATATA
1 TAAAATTATATAA-ATA
625743 TTAAAATTAATATAAATA
1 -TAAAATT-ATATAAATA
** *
625761 TAAAAAAATTTAAATA
1 TAAAATTATATAAATA
625777 TAA
1 TAA
625780 TTATTACGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
14 1 0.02
15 10 0.23
16 14 0.33
17 10 0.23
18 5 0.12
19 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAATTATATAAATA
Found at i:626328 original size:21 final size:19
Alignment explanation
Indices: 626292--626362 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 19
626282 ATTAATAATT
626292 TTTATATATTTATATTAAA
1 TTTATATATTTATATTAAA
*
626311 TTTATATTATTTTTTATTAACTTA
1 TTTATA-TA-TTTATATTAA---A
**
626335 TTTATATATTTATATTGTA
1 TTTATATATTTATATTAAA
626354 TTTATATAT
1 TTTATATAT
626363 ATTCTTATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 16 0.37
20 2 0.05
21 9 0.21
22 7 0.16
23 2 0.05
24 7 0.16
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTATATATTTATATTAAA
Found at i:626363 original size:21 final size:20
Alignment explanation
Indices: 626287--626365 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 20
626277 AATAAATTAA
*
626287 TAATTTTTATATATTTATAT
1 TAATTTATATATATTTATAT
*
626307 TAAATTTATAT-TATTTTTTAT
1 T-AATTTATATATA-TTTATAT
*
626328 TAACTTATTTATATATTTATAT
1 TAA-TT-TATATATATTTATAT
*
626350 TGTATTTATATATATT
1 T-AATTTATATATATT
626366 CTTATGTCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
20 5 0.11
21 26 0.55
22 13 0.28
23 3 0.06
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (20 bp):
TAATTTATATATATTTATAT
Found at i:626538 original size:32 final size:33
Alignment explanation
Indices: 626475--626540 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 33
626465 GATATTCATA
* *
626475 TTATATTTTTTATATTATATGATATTTTAAATTT
1 TTATATTTTATATATTATAT-ATATTCTAAATTT
626509 TTATATTTTATA-ATTATAT-TATGTCTAAATTT
1 TTATATTTTATATATTATATATAT-TCTAAATTT
626541 ATTAATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 3 0.10
32 8 0.28
33 7 0.24
34 11 0.38
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (33 bp):
TTATATTTTATATATTATATATATTCTAAATTT
Found at i:626787 original size:20 final size:21
Alignment explanation
Indices: 626741--626788 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
626731 TTTTTTGAAA
*
626741 AAAAAAATTAGATAAATTCTT
1 AAAAAAATTAAATAAATTCTT
** *
626762 TTAAAAA-TAAATAATTTCTT
1 AAAAAAATTAAATAAATTCTT
626782 AAAAAAA
1 AAAAAAA
626789 ATTAGAGGAC
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAAATTAAATAAATTCTT
Found at i:627476 original size:22 final size:22
Alignment explanation
Indices: 627451--627493 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
627441 TTATACTTAA
627451 ATAAAAATATACTTAAATTTAT
1 ATAAAAATATACTTAAATTTAT
*
627473 ATAAAAATATACTTAAGTTTA
1 ATAAAAATATACTTAAATTTA
627494 AATATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAAAATATACTTAAATTTAT
Found at i:627603 original size:15 final size:16
Alignment explanation
Indices: 627582--627624 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
627572 CAATACATTA
*
627582 AATATAAATCTAATAT
1 AATATAAATATAATAT
627598 -ATAT-AATATAATAT
1 AATATAAATATAATAT
627612 AATATAATATATA
1 AATATAA-ATATA
627625 TTAGATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 1 0.04
17 5 0.22
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AATATAAATATAATAT
Found at i:627608 original size:5 final size:5
Alignment explanation
Indices: 627582--627622 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
627572 CAATACATTA
*
627582 AATAT AAATCT AATAT -ATAT AATAT AATAT AATAT AATAT A
1 AATAT -AATAT AATAT AATAT AATAT AATAT AATAT AATAT A
627623 TATTAGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
4 4 0.12
5 24 0.75
6 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:627970 original size:30 final size:29
Alignment explanation
Indices: 627936--627992 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
627926 GTATCAAAAT
* * *
627936 TTATATAATTATAAAATATTTTAAATATTA
1 TTATAAAATAATAAAAT-TCTTAAATATTA
627966 TTATAAAATAATAAAATTCTTAAATAT
1 TTATAAAATAATAAAATTCTTAAATAT
627993 GATAAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
TTATAAAATAATAAAATTCTTAAATATTA
Found at i:629901 original size:29 final size:28
Alignment explanation
Indices: 629853--629922 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 28
629843 TATCGTATTT
*
629853 ATATTAAT-TTTTTAT-TATATTTTAAA
1 ATATTAATATTTATATATATATTTTAAA
629879 ATATTATATATTTATATATATATTTTAAA
1 ATATTA-ATATTTATATATATATTTTAAA
629908 ATATTAATAATTTAT
1 ATATTAAT-ATTTAT
629923 TTTACATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
26 6 0.15
27 2 0.05
28 8 0.21
29 23 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATATTAATATTTATATATATATTTTAAA
Found at i:629911 original size:22 final size:21
Alignment explanation
Indices: 629886--629926 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
629876 AAAATATTAT
*
629886 ATATTTATATATATATTTTAAA
1 ATATTAATA-ATATATTTTAAA
*
629908 ATATTAATAATTTATTTTA
1 ATATTAATAATATATTTTA
629927 CATAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTAATAATATATTTTAAA
Found at i:629964 original size:29 final size:28
Alignment explanation
Indices: 629863--629964 Score: 82
Period size: 29 Copynumber: 3.5 Consensus size: 28
629853 ATATTAATTT
*
629863 TTTAT-TATATTTTAAAA-TATTATATA
1 TTTATATATATTTTAAAATTTTTATATA
* *
629889 TTTATATATATATTTTAAAATATTAATAATTTA
1 -TT-TATATATATTTTAAAAT-TT--TTATATA
* *
629922 TTTTACATAAATTTTAAAATTTTTATATA
1 -TTTATATATATTTTAAAATTTTTATATA
629951 TTTATATGATATTT
1 TTTATAT-ATATTT
629965 AAATTAATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
27 2 0.03
28 9 0.15
29 22 0.37
31 3 0.05
32 15 0.25
33 8 0.14
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTATATATATTTTAAAATTTTTATATA
Found at i:629984 original size:20 final size:17
Alignment explanation
Indices: 629959--630003 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 17
629949 TATTTATATG
629959 ATATTTAAATTAATATTTTT
1 ATATTTAAA-T-A-ATTTTT
629979 ATATTTTAAATAATTTTT
1 ATA-TTTAAATAATTTTT
629997 ATATTTA
1 ATATTTA
630004 CTTATTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.17
18 9 0.38
19 1 0.04
20 4 0.17
21 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATATTTAAATAATTTTT
Found at i:629984 original size:60 final size:61
Alignment explanation
Indices: 629871--629997 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 61
629861 TTTTTATTAT
* * *
629871 ATTTTAAAATATTATATATTTATATATATATTTTAAAATATTAATAATTTATTTTACATAA
1 ATTTTAAAATATTATATATTTATATAGATATTTTAAAATAATAATAATTTATTTTAAATAA
* * **
629932 ATTTTAAAATTTTTATATATTTATAT-GATA-TTTAAATTAAT-ATTTTTATATTTTAAATAA
1 ATTTTAAAA-TATTATATATTTATATAGATATTTTAAAATAATAATAATT-TATTTTAAATAA
*
629992 TTTTTA
1 ATTTTA
629998 TATTTACTTA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.07
60 25 0.45
61 12 0.21
62 15 0.27
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (61 bp):
ATTTTAAAATATTATATATTTATATAGATATTTTAAAATAATAATAATTTATTTTAAATAA
Found at i:630141 original size:15 final size:15
Alignment explanation
Indices: 630121--630150 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
630111 AACTGACAAA
630121 TATTATAATAATAAT
1 TATTATAATAATAAT
630136 TATTATAATAATAAT
1 TATTATAATAATAAT
630151 AATACACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTATAATAATAAT
Found at i:630551 original size:17 final size:19
Alignment explanation
Indices: 630514--630549 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
630504 TTAATAATTC
*
630514 ATATATTTTTATTATATTT
1 ATATATTTTTATAATATTT
630533 ATATA-TTTTATAATATT
1 ATATATTTTTATAATATT
630550 ATGATTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATATTTTTATAATATTT
Found at i:630584 original size:15 final size:15
Alignment explanation
Indices: 630525--630585 Score: 63
Period size: 15 Copynumber: 4.0 Consensus size: 15
630515 TATATTTTTA
630525 TTATATTTATATATT
1 TTATATTTATATATT
*
630540 TTATA-ATAT-TATGAT
1 TTATATTTATATAT--T
*
630555 TCATATTTAATATATT
1 TTATATTT-ATATATT
630571 TTATATTTATATATT
1 TTATATTTATATATT
630586 AATTTTGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 3 0.08
14 3 0.08
15 17 0.46
16 9 0.24
17 2 0.05
18 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATATTTATATATT
Found at i:631091 original size:21 final size:21
Alignment explanation
Indices: 631060--631119 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
631050 GTTTATTTTT
*
631060 TTTAAGAAAATATAAAATAAAA
1 TTTAA-AAAATATAAAACAAAA
*
631082 TTTAAAAAATAAAAAACAAAA
1 TTTAAAAAATATAAAACAAAA
* *
631103 TATAAATAATATAAAAC
1 TTTAAAAAATATAAAAC
631120 GTCAATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
21 28 0.85
22 5 0.15
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (21 bp):
TTTAAAAAATATAAAACAAAA
Found at i:633305 original size:15 final size:15
Alignment explanation
Indices: 633287--633380 Score: 54
Period size: 15 Copynumber: 6.6 Consensus size: 15
633277 TTTTATTGTT
633287 TATTATATTATAAAA
1 TATTATATTATAAAA
**
633302 TATTATATT-T-TTA
1 TATTATATTATAAAA
* *
633315 TATTTTA-TATTAAA
1 TATTATATTATAAAA
* *
633329 T-TTAAATAATAAAA
1 TATTATATTATAAAA
* * **
633343 T-TTATTTTATTATT
1 TATTATATTATAAAA
*
633357 TATTATATTATGAAA
1 TATTATATTATAAAA
633372 TATTATATT
1 TATTATATT
633381 TTTATATTTT
Statistics
Matches: 56, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
12 1 0.02
13 11 0.20
14 17 0.30
15 27 0.48
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (15 bp):
TATTATATTATAAAA
Found at i:633349 original size:38 final size:37
Alignment explanation
Indices: 633296--633421 Score: 140
Period size: 36 Copynumber: 3.5 Consensus size: 37
633286 TTATTATATT
633296 ATAAAATATTATATTTTTATATTTTATATTAAATTTAA
1 ATAAAATATT-TATTTTTATATTTTATATTAAATTTAA
* * *
633334 ATAATAAAATTTA-TTTTAT-TATT-TATTATA-TT--
1 ATAA-AATATTTATTTTTATATTTTATATTAAATTTAA
*
633366 ATGAAATATTATATTTTTATATTTTATATTAAATTTAA
1 ATAAAATATT-TATTTTTATATTTTATATTAAATTTAA
633404 ATAAAATA-TTATTTTTAT
1 ATAAAATATTTATTTTTAT
633422 TATTAAATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
31 5 0.07
32 5 0.07
33 6 0.08
34 5 0.07
35 12 0.17
36 14 0.19
37 7 0.10
38 13 0.18
39 5 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (37 bp):
ATAAAATATTTATTTTTATATTTTATATTAAATTTAA
Found at i:633350 original size:70 final size:70
Alignment explanation
Indices: 633269--633425 Score: 264
Period size: 70 Copynumber: 2.3 Consensus size: 70
633259 AATCATTTTA
*
633269 AAAATTTATTTTATTGTTTATTATATTATAAAATATTATATTTTTATATTTTATATTAAATTTAA
1 AAAATTTATTTTATTATTTATTATATTATAAAATATTATATTTTTATATTTTATATTAAATTTAA
633334 ATAAT
66 ATAAT
*
633339 AAAATTTATTTTATTATTTATTATATTATGAAATATTATATTTTTATATTTTATATTAAATTTAA
1 AAAATTTATTTTATTATTTATTATATTATAAAATATTATATTTTTATATTTTATATTAAATTTAA
633404 ATAA-
66 ATAAT
*
633408 AATA-TTATTTTTATTATT
1 AAAATTTA-TTTTATTATT
633426 AAATAATAAT
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
68 3 0.04
69 13 0.16
70 67 0.81
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (70 bp):
AAAATTTATTTTATTATTTATTATATTATAAAATATTATATTTTTATATTTTATATTAAATTTAA
ATAAT
Found at i:634783 original size:5 final size:5
Alignment explanation
Indices: 634773--634802 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
634763 ACTTTATGAG
634773 AATAA AATAA AATTAA AATAA AATAA AATA
1 AATAA AATAA AA-TAA AATAA AATAA AATA
634803 GTTAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:634791 original size:11 final size:10
Alignment explanation
Indices: 634773--634802 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
634763 ACTTTATGAG
634773 AATAAAATAA
1 AATAAAATAA
634783 AATTAAAATAA
1 AA-TAAAATAA
634794 AATAAAATA
1 AATAAAATA
634803 GTTAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (10 bp):
AATAAAATAA
Found at i:635394 original size:10 final size:11
Alignment explanation
Indices: 635372--635396 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
635362 AAATAAATAT
635372 AATTTTAAAAA
1 AATTTTAAAAA
635383 AATTTTAAAAA
1 AATTTTAAAAA
635394 AAT
1 AAT
635397 AAAATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTTTAAAAA
Found at i:635422 original size:17 final size:17
Alignment explanation
Indices: 635396--635435 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
635386 TTTAAAAAAA
635396 TAAA-ATATATTTATAT
1 TAAATATATATTTATAT
635412 TAAATATATATTTATAT
1 TAAATATATATTTATAT
*
635429 TTAATAT
1 TAAATAT
635436 GAGATGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATATATATTTATAT
Found at i:636557 original size:13 final size:12
Alignment explanation
Indices: 636525--636556 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
636515 TGTAAGATAA
636525 TTTTTT-AAA-T
1 TTTTTTAAAATT
636535 TTTTTTAAAATT
1 TTTTTTAAAATT
636547 TTTTTTAAAA
1 TTTTTTAAAA
636557 AAATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 6 0.30
11 3 0.15
12 11 0.55
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTTTAAAATT
Found at i:636612 original size:13 final size:13
Alignment explanation
Indices: 636566--636626 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
636556 AAAATTATAT
636566 TTAAATAT--ATA
1 TTAAATATAAATA
636577 TTAAATATAAATA
1 TTAAATATAAATA
*
636590 TAAAATATAAATAA
1 TTAAATATAAAT-A
*
636604 TTAAA-ATAAGTA
1 TTAAATATAAATA
*
636616 TCAAATCATAA
1 TTAAAT-ATAA
636627 GATAAATAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
11 8 0.20
12 5 0.12
13 19 0.46
14 9 0.22
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (13 bp):
TTAAATATAAATA
Done.