Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold88
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: 1260485
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 4 of 8
Found at i:426091 original size:15 final size:16
Alignment explanation
Indices: 426057--426102 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
426047 AAAATTTATA
* *
426057 TAAATATATAATATTT
1 TAAATATATAAAAATT
426073 TAAATAT-TAAAAATT
1 TAAATATATAAAAATT
426088 TAAATAATATAAAAA
1 TAAAT-ATATAAAAA
426103 ATACTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 11 0.42
16 9 0.35
17 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATATATAAAAATT
Found at i:426635 original size:20 final size:21
Alignment explanation
Indices: 426593--426635 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
426583 CAAATAATTT
*
426593 ATTTTATAAATTTAAACTTTA
1 ATTTTATAAATTTAAACTATA
* *
426614 ATTTTATTATTTTAAA-TATA
1 ATTTTATAAATTTAAACTATA
426634 AT
1 AT
426636 ACAAACATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTATAAATTTAAACTATA
Found at i:426688 original size:18 final size:19
Alignment explanation
Indices: 426662--426713 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
426652 AATAATTTAT
426662 AAATAATATA-ATAAATAA
1 AAATAATATATATAAATAA
* *
426680 AAATTATATATTTAAATAA
1 AAATAATATATATAAATAA
*
426699 AATTAATATGATATA
1 AAATAATAT-ATATA
426714 TTTAATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 9 0.33
19 14 0.52
20 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAATAATATATATAAATAA
Found at i:426707 original size:19 final size:19
Alignment explanation
Indices: 426647--426707 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
426637 CAAACATAAC
426647 AAATTAATA-ATTT--AT-
1 AAATTAATATATTTAAATA
*
426662 AAA-TAATATA-ATAAATAA
1 AAATTAATATATTTAAAT-A
426680 AAATT-ATATATTTAAATA
1 AAATTAATATATTTAAATA
426698 AAATTAATAT
1 AAATTAATAT
426708 GATATATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 6 0.17
15 4 0.11
16 2 0.06
18 14 0.39
19 10 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTAATATATTTAAATA
Found at i:426734 original size:10 final size:9
Alignment explanation
Indices: 426709--426771 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
426699 AATTAATATG
426709 ATATATTTA
1 ATATATTTA
426718 ATATATTTA
1 ATATATTTA
*
426727 TTTATATTTA
1 -ATATATTTA
*
426737 AAAT-TTTA
1 ATATATTTA
*
426745 TTATATTTA
1 ATATATTTA
*
426754 ATAATTTTTA
1 AT-ATATTTA
*
426764 TTATATTT
1 ATATATTT
426772 GTAATATATA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
8 6 0.14
9 21 0.50
10 15 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
ATATATTTA
Found at i:426734 original size:19 final size:19
Alignment explanation
Indices: 426710--426771 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
426700 ATTAATATGA
426710 TATATTTAATATATTTATT
1 TATATTTAATATATTTATT
*
426729 TATATTTAAAAT-TTTA-T
1 TATATTTAATATATTTATT
*
426746 TATATTTAATA-ATTTTTAT
1 TATATTTAATATATTTAT-T
426765 TATATTT
1 TATATTT
426772 GTAATATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 14 0.38
18 4 0.11
19 19 0.51
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATTTAATATATTTATT
Found at i:427188 original size:23 final size:24
Alignment explanation
Indices: 427150--427207 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
427140 TCAATGTTAT
* *
427150 ATATTTT-TAAAATAAAAT-TTAA
1 ATATTTTAAAAAATAAAATATGAA
427172 ATATTTTAAAAAATAAAATATGAA
1 ATATTTTAAAAAATAAAATATGAA
427196 ATATTTTAAAAA
1 ATATTTTAAAAA
427208 TATTCAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 7 0.22
23 10 0.31
24 15 0.47
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATTTTAAAAAATAAAATATGAA
Found at i:427208 original size:23 final size:22
Alignment explanation
Indices: 427150--427209 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
427140 TCAATGTTAT
* *
427150 ATATTTTTAAAATAAAATTTAA
1 ATATTTTAAAAATAAAATTGAA
427172 ATATTTTAAAAAATAAAATATGAA
1 ATATTTT-AAAAATAAAAT-TGAA
427196 ATATTTTAAAAATA
1 ATATTTTAAAAATA
427210 TTCAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 7 0.21
23 17 0.50
24 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
ATATTTTAAAAATAAAATTGAA
Found at i:427647 original size:15 final size:15
Alignment explanation
Indices: 427629--427668 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 15
427619 TAATAATTTT
427629 AATTTATATAAATAA
1 AATTTATATAAATAA
*
427644 AA-TT-T-TAAATAT
1 AATTTATATAAATAA
427656 AATTTATATAAAT
1 AATTTATATAAAT
427669 TTAAATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
12 8 0.38
13 3 0.14
14 3 0.14
15 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTATATAAATAA
Found at i:427779 original size:21 final size:20
Alignment explanation
Indices: 427744--427782 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
427734 AATAAAAATT
427744 ATTAAATTGATTTTAATTAA
1 ATTAAATTGATTTTAATTAA
*
427764 ATTAAATTTTATTTTAATT
1 ATTAAA-TTGATTTTAATT
427783 TTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTAAATTGATTTTAATTAA
Found at i:429769 original size:2 final size:2
Alignment explanation
Indices: 429764--429790 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
429754 TATATATATA
429764 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
429791 CTGTATTCTT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:444566 original size:2 final size:2
Alignment explanation
Indices: 444559--444594 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
444549 CTTTATTAAT
444559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
444595 ATTGGAAAGA
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):
TA
Found at i:445482 original size:21 final size:21
Alignment explanation
Indices: 445458--445497 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
445448 TTTTATTATT
445458 ATAAAT-TACATATAAAATTAA
1 ATAAATATACATA-AAAATTAA
*
445479 ATAAATATTCATAAAAATT
1 ATAAATATACATAAAAATT
445498 GATTCAATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAATATACATAAAAATTAA
Found at i:446626 original size:15 final size:16
Alignment explanation
Indices: 446588--446627 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
446578 TTAAATTTTA
446588 TAAAAAAATATTAAAT
1 TAAAAAAATATTAAAT
**
446604 TATTAAAA-ATTAAAT
1 TAAAAAAATATTAAAT
446619 TAAAAAAAT
1 TAAAAAAAT
446628 TTGAAAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAAAATATTAAAT
Found at i:446926 original size:2 final size:2
Alignment explanation
Indices: 446919--446947 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
446909 TAAGTTTAAA
446919 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
446948 GTTAATATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:447106 original size:16 final size:16
Alignment explanation
Indices: 447085--447124 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
447075 TAATTCGATT
447085 TTAAATTATTTTAATC
1 TTAAATTATTTTAATC
* *
447101 TTAAATTATTTTGATT
1 TTAAATTATTTTAATC
447117 TTAAATTA
1 TTAAATTA
447125 ATAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (16 bp):
TTAAATTATTTTAATC
Found at i:447311 original size:17 final size:16
Alignment explanation
Indices: 447245--447311 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
447235 ATTATATAAG
* **
447245 TTATTTTGAATTTCGA
1 TTATTTTAAATTTAAA
*
447261 TTATTTTAAATTTAGA
1 TTATTTTAAATTTAAA
* *
447277 TCATTTTAAATTTGAA
1 TTATTTTAAATTTAAA
447293 TTATTTTTAAATTTAAA
1 TTA-TTTTAAATTTAAA
447310 TT
1 TT
447312 GATTATTCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
16 29 0.67
17 14 0.33
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (16 bp):
TTATTTTAAATTTAAA
Found at i:447325 original size:21 final size:23
Alignment explanation
Indices: 447281--447326 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
447271 TTTAGATCAT
* *
447281 TTTAAATTTGAATTATTTTTAAA
1 TTTAAATTTGAATTATTCTCAAA
447304 TTTAAA-TTG-ATTATTCTCAAA
1 TTTAAATTTGAATTATTCTCAAA
447325 TT
1 TT
447327 ATTAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 3 0.14
23 6 0.29
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TTTAAATTTGAATTATTCTCAAA
Found at i:452498 original size:23 final size:23
Alignment explanation
Indices: 452472--452532 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
452462 TAAAAATATA
* **
452472 TTTATATATTATATTTTTATAAT
1 TTTAAATATTATATTCATATAAT
452495 TTTAAATATTATATTCATATAATTAT
1 TTTAAATATTATATTCATAT-A--AT
452521 TTTAAATATTAT
1 TTTAAATATTAT
452533 CATCTTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 17 0.53
24 1 0.03
26 14 0.44
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTAAATATTATATTCATATAAT
Found at i:452500 original size:35 final size:35
Alignment explanation
Indices: 452401--452520 Score: 86
Period size: 35 Copynumber: 3.4 Consensus size: 35
452391 TATCGTAAAC
*
452401 ATTTATATATTTTATATTTATATTAATTTTAATAAAT-T
1 ATTTATATA--TTATATTTTTA-TAATTTTAA-AAATAT
* * * * *
452439 A-ATA-AT-TTATATTATAAAAATATTAAAAATAT
1 ATTTATATATTATATTTTTATAATTTTAAAAATAT
*
452471 ATTTATATATTATATTTTTATAATTTTAAATATTAT
1 ATTTATATATTATATTTTTATAATTTTAAA-AATAT
*
452507 ATTCATATAATTAT
1 ATTTATAT-ATTAT
452521 TTTAAATATT
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
31 4 0.06
32 9 0.14
33 10 0.16
34 2 0.03
35 17 0.27
36 13 0.21
37 7 0.11
38 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (35 bp):
ATTTATATATTATATTTTTATAATTTTAAAAATAT
Found at i:453048 original size:7 final size:7
Alignment explanation
Indices: 453036--453069 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
453026 TTAAATCAAC
453036 ATTTAAA
1 ATTTAAA
453043 ATTTAAA
1 ATTTAAA
453050 ATTTAAA
1 ATTTAAA
453057 ATTTAAA
1 ATTTAAA
453064 ATTTAA
1 ATTTAA
453070 TTTAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAA
Found at i:454880 original size:13 final size:13
Alignment explanation
Indices: 454862--454886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
454852 ATATATTTAA
454862 ATATAATTATATT
1 ATATAATTATATT
454875 ATATAATTATAT
1 ATATAATTATAT
454887 ATACATTGTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATAATTATATT
Found at i:455193 original size:13 final size:13
Alignment explanation
Indices: 455175--455199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
455165 CATAAATAAA
455175 ATAAATTTAAATG
1 ATAAATTTAAATG
455188 ATAAATTTAAAT
1 ATAAATTTAAAT
455200 AACTGATATT
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
ATAAATTTAAATG
Found at i:455676 original size:67 final size:68
Alignment explanation
Indices: 455593--455723 Score: 228
Period size: 67 Copynumber: 1.9 Consensus size: 68
455583 CCATTGCCAA
* *
455593 CTCTGCCATGACTTTGAAGCTCATCCCTTCAACTTGAAGGCCAAAAGGCTTTTTC-TTCTTTTTC
1 CTCTGCCATGACTTTGAAACTCATCCCTTCAACTTGAAGGCCAAAAGGCTTTATCTTTCTTTTTC
455657 TCC
66 TCC
*
455660 CTCTGCCATGACTTTGAAACTCATCCCTTCAATTTGAAGGCCAAAAGGCTTTATCTTTCTTTTT
1 CTCTGCCATGACTTTGAAACTCATCCCTTCAACTTGAAGGCCAAAAGGCTTTATCTTTCTTTTT
455724 TTTTTCTCCC
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
67 52 0.87
68 8 0.13
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.38
Consensus pattern (68 bp):
CTCTGCCATGACTTTGAAACTCATCCCTTCAACTTGAAGGCCAAAAGGCTTTATCTTTCTTTTTC
TCC
Found at i:458062 original size:17 final size:18
Alignment explanation
Indices: 458037--458081 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
458027 GATTATTTAA
458037 TTATGATTTTAAT-TTTTT
1 TTAT-ATTTTAATATTTTT
458055 TTATA-TTTAATATTTTT
1 TTATATTTTAATATTTTT
458072 TTA-ATTTTAA
1 TTATATTTTAA
458082 AAAGATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTATATTTTAATATTTTT
Found at i:458065 original size:16 final size:16
Alignment explanation
Indices: 458044--458078 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
458034 TAATTATGAT
458044 TTTAAT-TTTTTTTATA
1 TTTAATATTTTTTTA-A
458060 TTTAATATTTTTTTAA
1 TTTAATATTTTTTTAA
458076 TTT
1 TTT
458079 TAAAAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTAATATTTTTTTAA
Found at i:459717 original size:9 final size:9
Alignment explanation
Indices: 459705--459760 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
459695 TAATATCATT
459705 AATTAAAAA
1 AATTAAAAA
**
459714 AATTAAATT
1 AATTAAAAA
459723 AATTAAAAA
1 AATTAAAAA
459732 AATTAAATTAA
1 AATTAAA--AA
459743 AATTAATAATA
1 AATTAA-AA-A
459754 AATTAAA
1 AATTAAA
459761 TTATTTATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 21 0.54
10 2 0.05
11 15 0.38
12 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AATTAAAAA
Found at i:459723 original size:5 final size:5
Alignment explanation
Indices: 459713--459763 Score: 52
Period size: 5 Copynumber: 10.2 Consensus size: 5
459703 TTAATTAAAA
* *
459713 AAATT AAATT -AATT AAA-A AAATT AAATT AAAATT AATAAT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT -AAATT AA-ATT AAATT AAATT
459763 A
1 A
459764 TTTATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 7 0.18
5 22 0.58
6 9 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AAATT
Found at i:459725 original size:18 final size:18
Alignment explanation
Indices: 459702--459763 Score: 88
Period size: 18 Copynumber: 3.2 Consensus size: 18
459692 TAATAATATC
459702 ATTAATTAAAAAAATTAA
1 ATTAATTAAAAAAATTAA
459720 ATTAATTAAAAAAATTAA
1 ATTAATTAAAAAAATTAA
459738 ATTAAAATTAATAATAAATTAA
1 ATT--AATTAA-AA-AAATTAA
459760 ATTA
1 ATTA
459764 TTTATGATTC
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
18 21 0.52
20 7 0.17
21 2 0.05
22 10 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
ATTAATTAAAAAAATTAA
Found at i:460124 original size:20 final size:22
Alignment explanation
Indices: 460082--460128 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
460072 TTATAATTAT
460082 AATTAT-T-ATATTTTAAAATA
1 AATTATATAATATTTTAAAATA
460102 AATTATATAATATTTT-AAA-A
1 AATTATATAATATTTTAAAATA
460122 AATTATA
1 AATTATA
460129 ATTATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.56
21 4 0.16
22 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTATATAATATTTTAAAATA
Found at i:467483 original size:20 final size:21
Alignment explanation
Indices: 467454--467493 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
467444 TATTAATAAT
*
467454 TTTTTATATTATATTTATTTA
1 TTTTTATATTATAATTATTTA
*
467475 TTTTT-TATTTTAATTATTT
1 TTTTTATATTATAATTATTT
467494 TTTAATGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTATATTATAATTATTTA
Found at i:467495 original size:17 final size:17
Alignment explanation
Indices: 467462--467497 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
467452 ATTTTTTATA
*
467462 TTATATTTATTTATTTT
1 TTATATTTAATTATTTT
467479 TTAT-TTTAATTATTTT
1 TTATATTTAATTATTTT
467495 TTA
1 TTA
467498 ATGTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATATTTAATTATTTT
Found at i:468749 original size:20 final size:19
Alignment explanation
Indices: 468705--468749 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
468695 TATATATTCG
*
468705 TGTTTAAAATTTTTTAATA
1 TGTTTAAAATTTTATAATA
* *
468724 TATTTAATAATTTTATATTA
1 TGTTTAA-AATTTTATAATA
468744 TGTTTA
1 TGTTTA
468750 TATTTACAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TGTTTAAAATTTTATAATA
Found at i:472100 original size:19 final size:18
Alignment explanation
Indices: 472057--472103 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
472047 ATCGATCAAA
*
472057 AAAAATTA-ATTTATCTT
1 AAAAATTAGATTTATATT
472074 AATCAAATTAGATTTATAATT
1 AA--AAATTAGATTTAT-ATT
472095 AAAAATTAG
1 AAAAATTAG
472104 TGAGTGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
19 13 0.52
20 6 0.24
21 4 0.16
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
AAAAATTAGATTTATATT
Found at i:476004 original size:14 final size:14
Alignment explanation
Indices: 475974--476003 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
475964 TCCAAGTTAG
475974 TTTCTTTCTTTCTT
1 TTTCTTTCTTTCTT
475988 TTTCTTTCTTT-TT
1 TTTCTTTCTTTCTT
476001 TTT
1 TTT
476004 TTTTTTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTCTTTCTT
Found at i:476008 original size:18 final size:18
Alignment explanation
Indices: 475974--476006 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
475964 TCCAAGTTAG
475974 TTTCTTTCTTTCTTTTTC
1 TTTCTTTCTTTCTTTTTC
475992 TTTCTTT-TTT-TTTTT
1 TTTCTTTCTTTCTTTTT
476007 TTTTGGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTCTTTCTTTCTTTTTC
Found at i:484910 original size:13 final size:13
Alignment explanation
Indices: 484873--484914 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
484863 TTTAATATTT
484873 AAAAT-AATTTAAA
1 AAAATAAATTT-AA
484886 AAATATTAAATTTAA
1 AAA-A-TAAATTTAA
484901 AAAATAAATTTAA
1 AAAATAAATTTAA
484914 A
1 A
484915 TATAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 13 0.50
14 2 0.08
15 6 0.23
16 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATAAATTTAA
Found at i:484913 original size:19 final size:18
Alignment explanation
Indices: 484878--484927 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
484868 TATTTAAAAT
484878 AATTTAAAAAAT--ATTA
1 AATTTAAAAAATAAATTA
484894 AATTTAAAAAATAAATTTA
1 AATTTAAAAAATAAA-TTA
* *
484913 AATATAAAAATTAAA
1 AATTTAAAAAATAAA
484928 ATTCATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 12 0.41
18 1 0.03
19 16 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTTAAAAAATAAATTA
Found at i:485138 original size:35 final size:33
Alignment explanation
Indices: 485097--485168 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 33
485087 CGTAAATATT
* * *
485097 AAAAATATTTAATTATATATATTTTAAATTTAATA
1 AAAAATATTAAATTAT-TAAATATTAAATTT-ATA
485132 AAAAATATTAAATTATTAAATATTAAATTTATA
1 AAAAATATTAAATTATTAAATATTAAATTTATA
485165 AAAA
1 AAAA
485169 TTAAAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 7 0.21
34 12 0.35
35 15 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AAAAATATTAAATTATTAAATATTAAATTTATA
Found at i:485154 original size:15 final size:15
Alignment explanation
Indices: 485134--485173 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
485124 ATTTAATAAA
485134 AAATATTAAA-TTATT
1 AAATATTAAATTTA-T
485149 AAATATTAAATTTAT
1 AAATATTAAATTTAT
*
485164 AAAAATTAAA
1 AAATATTAAA
485174 AAATAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATTAAATTTAT
Found at i:485158 original size:34 final size:34
Alignment explanation
Indices: 485097--485187 Score: 103
Period size: 34 Copynumber: 2.7 Consensus size: 34
485087 CGTAAATATT
* * *
485097 AAAAATATTTAATTATATATATTTTAAATTTAATA
1 AAAAATATTAAATTATATAAATATTAAATTT-ATA
485132 AAAAATATTAAATTAT-TAAATATTAAATTTATA
1 AAAAATATTAAATTATATAAATATTAAATTTATA
* ** *
485165 AAAATTAAAAAATAATATAAATA
1 AAAAATATTAAATTATATAAATA
485188 AATTTAAACG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
33 15 0.31
34 18 0.38
35 15 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
AAAAATATTAAATTATATAAATATTAAATTTATA
Found at i:489204 original size:22 final size:23
Alignment explanation
Indices: 489179--489224 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
489169 TTATTTGTTA
489179 AAAT-TTAATTATAAAAAT-ATAT
1 AAATATTAA-TATAAAAATAATAT
489201 AAATATTAATATAAAAATAATAT
1 AAATATTAATATAAAAATAATAT
489224 A
1 A
489225 TTTTACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATATTAATATAAAAATAATAT
Found at i:490774 original size:21 final size:19
Alignment explanation
Indices: 490748--490793 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
490738 TTATATAGAT
*
490748 TTAATTTTATATTGAATTTA
1 TTAATTATATATT-AATTTA
490768 TCTAATTATATATTAATTTA
1 T-TAATTATATATTAATTTA
490788 TTAATT
1 TTAATT
490794 GATTTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 5 0.21
20 8 0.33
21 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TTAATTATATATTAATTTA
Found at i:493286 original size:31 final size:33
Alignment explanation
Indices: 493248--493315 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 33
493238 TATAAATATA
* *
493248 ATATAAAT-TATTAAATGTATCAAA-ATTTTAT
1 ATATAAATATAATAAATGTATCAAACATATTAT
* *
493279 ATATAAATATAATATATGTATTAAACATATTAT
1 ATATAAATATAATAAATGTATCAAACATATTAT
493312 ATAT
1 ATAT
493316 TTTAATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 8 0.26
32 13 0.42
33 10 0.32
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (33 bp):
ATATAAATATAATAAATGTATCAAACATATTAT
Found at i:493313 original size:5 final size:5
Alignment explanation
Indices: 493305--493367 Score: 53
Period size: 5 Copynumber: 13.2 Consensus size: 5
493295 TGTATTAAAC
* * *
493305 ATATT ATA-T ATTTT A-ATT ATATT AAAAT ATATT ATATT -TATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
*
493352 ATTTTT ATATT A-ATT A
1 A-TATT ATATT ATATT A
493368 AATATATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
4 14 0.30
5 28 0.61
6 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:493318 original size:42 final size:42
Alignment explanation
Indices: 493237--493347 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 42
493227 AATTATATAA
**
493237 ATATAAATATAATATAAATTATTAAATGTATCAAAATTTT-A-T
1 ATATAAATATAATAT--ATTATTAAACATATCAAAATTTTAATT
* *
493279 ATATAAATATAATATATGTATTAAACATATTATATATTTTAATT
1 ATATAAATATAATATAT-TATTAAACATATCA-AAATTTTAATT
*
493323 ATATTAAAATATATTATATTTATTA
1 ATA-T-AAATATAATATA-TTATTA
493348 TATTATTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
40 2 0.04
41 11 0.19
42 21 0.37
43 1 0.02
44 4 0.07
45 1 0.02
46 16 0.28
47 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (42 bp):
ATATAAATATAATATATTATTAAACATATCAAAATTTTAATT
Found at i:493361 original size:20 final size:21
Alignment explanation
Indices: 493309--493377 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 21
493299 TTAAACATAT
493309 TATATATTTTA-ATTATATTAAA
1 TATAT-TTTTATATTA-ATTAAA
* * *
493331 -ATA-TATTATATTTATTATA
1 TATATTTTTATATTAATTAAA
493350 T-TATTTTTATATTAATTAAA
1 TATATTTTTATATTAATTAAA
493370 TATATTTT
1 TATATTTT
493378 GTTTATTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
19 11 0.30
20 17 0.46
21 9 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATTTTTATATTAATTAAA
Found at i:493371 original size:38 final size:37
Alignment explanation
Indices: 493306--493384 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
493296 GTATTAAACA
493306 TATTATATATTTTAATTATATTAAAATATATTATATT
1 TATTATATATTTTAATTATATTAAAATATATTATATT
* *
493343 TATTATATTATTTTTATATTA-ATT-AAATATATTTTGTT
1 TATTATA-TA-TTTTA-ATTATATTAAAATATATTATATT
493381 TATT
1 TATT
493385 TCATAACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 7 0.19
38 18 0.49
39 8 0.22
40 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (37 bp):
TATTATATATTTTAATTATATTAAAATATATTATATT
Found at i:494807 original size:6 final size:6
Alignment explanation
Indices: 494798--494894 Score: 58
Period size: 6 Copynumber: 16.5 Consensus size: 6
494788 AATATTAATT
* * * * * *
494798 ATATAA ATATAA AT-TTA ATAAAA ATTATTA AT-TATA TTATAA TTTTAA
1 ATATAA ATATAA ATATAA ATATAA A-TATAA ATATA-A ATATAA ATATAA
* * * *
494846 ATATAA ATATAA ATATAA ATAT-T ATATTA AT-TAT ATTTAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
494892 ATA
1 ATA
494895 ATATTTTTAT
Statistics
Matches: 69, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
5 12 0.17
6 51 0.74
7 6 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
ATATAA
Found at i:494836 original size:42 final size:42
Alignment explanation
Indices: 494789--494894 Score: 107
Period size: 42 Copynumber: 2.5 Consensus size: 42
494779 TATATTTTTA
*
494789 ATATTAATTATATAAATATAAAT-TTAATAAAAATTATTA-ATT
1 ATATTAATTAT-TAAATATAAATATAAATAAAAA-TATTATATT
*
494831 ATATTATAATT-TTAAATATAAATATAAATATAAATATTATATT
1 ATA-T-TAATTATTAAATATAAATATAAATAAAAATATTATATT
494874 A-ATT-A-TATTTAAATATAAATA
1 ATATTAATTA-TTAAATATAAATA
494895 ATATTTTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
38 1 0.02
39 1 0.02
40 14 0.25
41 1 0.02
42 20 0.36
43 14 0.25
44 5 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (42 bp):
ATATTAATTATTAAATATAAATATAAATAAAAATATTATATT
Found at i:494894 original size:28 final size:28
Alignment explanation
Indices: 494855--494910 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
494845 AATATAAATA
*
494855 TAAATATAAATATTATATTAATTATATT
1 TAAATATAAATAATATATTAATTATATT
* *
494883 TAAATATAAATAATATTTTTATTATATT
1 TAAATATAAATAATATATTAATTATATT
494911 ATTTTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TAAATATAAATAATATATTAATTATATT
Found at i:494937 original size:18 final size:19
Alignment explanation
Indices: 494865--494939 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
494855 TAAATATAAA
*
494865 TATTATATTA-ATTATATT
1 TATTATAATATATTATATT
* * *
494883 TAAATATAA-ATAATATTTT
1 T-ATTATAATATATTATATT
* *
494902 TATTATATTATTTTATATT
1 TATTATAATATATTATATT
494921 TATT-TAATATATTATATT
1 TATTATAATATATTATATT
494939 T
1 T
494940 GAGCAAAAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTATAATATATTATATT
Found at i:496271 original size:16 final size:16
Alignment explanation
Indices: 496249--496303 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
496239 ATACATATTT
496249 TAAAATTTATAAAATA
1 TAAAATTTATAAAATA
* * *
496265 AAAAATTT-TGATATA
1 TAAAATTTATAAAATA
496280 TTAAAATTTATATAAATA
1 -TAAAATTTATA-AAATA
496298 TAAAAT
1 TAAAAT
496304 ATTTTAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 5 0.17
16 14 0.47
17 7 0.23
18 4 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TAAAATTTATAAAATA
Found at i:496284 original size:32 final size:35
Alignment explanation
Indices: 496243--496405 Score: 102
Period size: 32 Copynumber: 5.0 Consensus size: 35
496233 TATAATATAC
*
496243 ATATTTTAAAATTTATA-AAATA-AAAA-ATTTTG
1 ATATATTAAAATTTATATAAATATAAAATATTTTG
496275 ATATATTAAAATTTATATAAATATAAAATATTTT-
1 ATATATTAAAATTTATATAAATATAAAATATTTTG
* * * * **
496309 A-A-ACTTGATAA-TGA-ATACGA-ATACAATA--TAC
1 ATATA-TT-AAAATTTATATA-AATATAAAATATTTTG
* * *
496340 ATATCTTAAAA-TT-TATAAA-ATAAAATTTTTTA
1 ATATATTAAAATTTATATAAATATAAAATATTTTG
*
496372 ATATATTAAAATTTATACAAATATAAAATATTTT
1 ATATATTAAAATTTATATAAATATAAAATATTTT
496406 AAACTTGATA
Statistics
Matches: 99, Mismatches: 17, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
30 8 0.08
31 8 0.08
32 41 0.41
33 13 0.13
34 13 0.13
35 16 0.16
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (35 bp):
ATATATTAAAATTTATATAAATATAAAATATTTTG
Found at i:496294 original size:34 final size:33
Alignment explanation
Indices: 496243--496308 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 33
496233 TATAATATAC
*
496243 ATATTTTAAAATTTATAAA-ATAAAAAATTTTG
1 ATATATTAAAATTTATAAATATAAAAAATTTTG
*
496275 ATATATTAAAATTTATATAAATATAAAATATTTT
1 ATATATTAAAA-TT-TATAAATATAAAAAATTTT
496309 AAACTTGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.34
33 2 0.07
34 6 0.21
35 11 0.38
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
ATATATTAAAATTTATAAATATAAAAAATTTTG
Found at i:496358 original size:97 final size:97
Alignment explanation
Indices: 496225--496419 Score: 327
Period size: 97 Copynumber: 2.0 Consensus size: 97
496215 ATAAAAATTT
* * *
496225 AATACAAATATAATATACATATTTTAAAATTTATAAAATAAAAAATTTTGATATATTAAAATTTA
1 AATACAAATACAATATACATATCTTAAAATTTATAAAATAAAAAATTTTAATATATTAAAATTTA
*
496290 TATAAATATAAAATATTTTAAACTTGATAATG
66 TACAAATATAAAATATTTTAAACTTGATAATG
* **
496322 AATACGAATACAATATACATATCTTAAAATTTATAAAATAAAATTTTTTAATATATTAAAATTTA
1 AATACAAATACAATATACATATCTTAAAATTTATAAAATAAAAAATTTTAATATATTAAAATTTA
496387 TACAAATATAAAATATTTTAAACTTGATAATG
66 TACAAATATAAAATATTTTAAACTTGATAATG
496419 A
1 A
496420 CACGATAAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (97 bp):
AATACAAATACAATATACATATCTTAAAATTTATAAAATAAAAAATTTTAATATATTAAAATTTA
TACAAATATAAAATATTTTAAACTTGATAATG
Found at i:496400 original size:17 final size:16
Alignment explanation
Indices: 496346--496400 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
496336 ATACATATCT
496346 TAAAATTTATAAAATA
1 TAAAATTTATAAAATA
* * *
496362 -AAATTTTTTAATATA
1 TAAAATTTATAAAATA
496377 TTAAAATTTATACAAATA
1 -TAAAATTTATA-AAATA
496395 TAAAAT
1 TAAAAT
496401 ATTTTAAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 12 0.40
17 14 0.47
18 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAAATTTATAAAATA
Found at i:502361 original size:2 final size:2
Alignment explanation
Indices: 502351--502380 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
502341 AATATAAAAA
502351 AT AT A- 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 A
502381 ATACCACTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:503987 original size:15 final size:15
Alignment explanation
Indices: 503969--503998 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
503959 GACTCATGGG
503969 TAAATTTATTTAAAT
1 TAAATTTATTTAAAT
503984 TAAATTTATTTAAAT
1 TAAATTTATTTAAAT
503999 ATTGATGTAG
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAAATTTATTTAAAT
Found at i:513117 original size:64 final size:64
Alignment explanation
Indices: 513016--513144 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
513006 CATATGAATG
*
513016 TTAAAAATCATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAAC
1 TTAAAAATCATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAACGATTGAAC
513080 TTAAAAATCATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAACGATTGAAC
1 TTAAAAATCATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAACGATTGAAC
513144 T
1 T
513145 AGAATTGGAG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (64 bp):
TTAAAAATCATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAACGATTGAAC
Found at i:513681 original size:49 final size:49
Alignment explanation
Indices: 513607--515084 Score: 1500
Period size: 49 Copynumber: 30.4 Consensus size: 49
513597 ATTTGAAGCC
* * *
513607 TAGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
513656 TAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
513705 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
513754 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
513797 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
513846 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
513895 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
513938 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
513987 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
514036 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
514079 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
514128 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
514177 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * * * *
514226 TAGCTGGCCTTGACTCAACACATTGGCACTTTCACCATTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
514275 TCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
514324 TAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
514373 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
514422 TAGTTGGCCTTGACTCAACACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
514471 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
514520 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
514563 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
514612 TAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
514655 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAATG
* * * *
514707 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAATG
* * * * * * * * * *
514762 TCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCA-TCATCATTT
1 TAGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCA-TCTT-TAAGTC--CAATG
** * ** * ** * *
514817 TAAGTCCAATATCGCTGGCCT-TG-A-ATCAGCATATTGGCATCGTCATCTTTAAGTCCAATG
1 T-AG--C--TGGC-CTTGAATCAGCACATTGGC--A---CCTTC---ATCTTTAAGTCCAATG
* *
514877 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
514920 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
514969 TAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
515012 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAATG
515064 TAGCTGGCCTTGAATCAGCAC
1 TAGCTGGCCTTGAATCAGCAC
515085 GTTGACATCC
Statistics
Matches: 1187, Mismatches: 166, Indels: 149
0.79 0.11 0.10
Matches are distributed among these distances:
43 279 0.24
45 3 0.00
47 4 0.00
48 1 0.00
49 732 0.62
50 2 0.00
52 73 0.06
53 5 0.00
54 7 0.01
55 46 0.04
56 3 0.00
57 5 0.00
58 4 0.00
59 3 0.00
60 9 0.01
61 5 0.00
62 5 0.00
63 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
Found at i:513776 original size:98 final size:98
Alignment explanation
Indices: 513607--514789 Score: 1661
Period size: 98 Copynumber: 12.3 Consensus size: 98
513597 ATTTGAAGCC
* * *
513607 TAGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTAGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
513672 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
*
513705 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
*
513770 AGCACATTGGCA----C--CTTTAAGTCCAATG
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * * *
513797 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
* * *
513862 AGCATATTGGCACCTTTATCTTTAAGTCCAATG
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
* *
513895 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATGTAGCTGGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
513954 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
*
513987 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
514052 AGCACATTGGCA----C--CTTTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
*
514079 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
* *
514144 AGCACATTGGCACCTTCACCATTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
*
514177 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
* * * *
514242 AACACATTGGCACTTTCACCATTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * * *
514275 TCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTAGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
514340 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * *
514373 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGTTGGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
*
514438 AACACATTGGCACCTTCATCTTTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
* *
514471 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
514536 AGCACATTGGCA----C--CTTTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * *
514563 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
1 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
514628 AGCACATTGGCA----C--CTTTAAGTCCAATA
66 AGCACATTGGCACCTTCATCTTTAAGTCCAATA
* *
514655 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGA
1 TAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTTTAAGTCCAATGTAGCTGGCCTTGA
* * * *
514720 ATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATA
63 CTCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAATA
* * * *
514762 TCGTTGGCCATGAATCAACATATTGGCA
1 TAGCTGGCCTTGAATCAGCATATTGGCA
514790 TCTTTATCAC
Statistics
Matches: 1002, Mismatches: 50, Indels: 57
0.90 0.05 0.05
Matches are distributed among these distances:
92 391 0.39
94 6 0.01
95 42 0.04
96 1 0.00
98 524 0.52
105 1 0.00
107 37 0.04
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
AGCACATTGGCACCTTCATCTTTAAGTCCAATA
Found at i:513867 original size:141 final size:141
Alignment explanation
Indices: 513642--514726 Score: 1516
Period size: 141 Copynumber: 7.6 Consensus size: 141
513632 GCATCTTCAT
*
513642 CTTTAAGTCCAATGTAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
*
513707 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
513772 CACATTGGCAC
131 CACATTGGCAC
513783 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
*
513848 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
513913 CACATTGGCAC
131 CACATTGGCAC
513924 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
1 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
*
513989 GCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
66 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
514054 CACATTGGCAC
131 CACATTGGCAC
* * * * *
514065 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
* * * * * *
514130 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATAGCTGGCCTTGAATCAG
66 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
*
514195 CATATTGGCACC
131 CACATTGGCA-C
* * * *
514207 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGGCACTTTCACCATTAAGTCCA
1 -----CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * *
514272 ATATCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTAGCCTTGA
61 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGA
514337 CTCAGCACATTGGCACCTTC
126 CTCAGCACATTGGCA----C
* * * * * *
514357 ATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 --CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * * * * * *
514422 TAGTTGGCCTTGACTCAACACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
64 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
*
514487 AGCATATTGGCATCTTC
129 AGCACATTGGCA----C
514504 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 --CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
* * *
514563 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
64 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTC
514628 AGCACATTGGCAC
129 AGCACATTGGCAC
* * * * *
514641 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAAT
*
514706 GTAGCTGGCCTTGAATCAGCA
63 ATAGCTGGCCTTGAATCAGCA
514727 CGTTGACATC
Statistics
Matches: 848, Mismatches: 78, Indels: 33
0.88 0.08 0.03
Matches are distributed among these distances:
135 39 0.05
137 1 0.00
141 489 0.58
142 2 0.00
143 1 0.00
144 31 0.04
147 284 0.33
150 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (141 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATA
GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
CACATTGGCAC
Found at i:514711 original size:52 final size:54
Alignment explanation
Indices: 514641--515378 Score: 448
Period size: 55 Copynumber: 13.8 Consensus size: 54
514631 ACATTGGCAC
514641 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * ** * *
514693 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * * *
514748 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-----CA--TTT-TC-TCAT
*
514812 CATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---CA---TCGTCAT
1 C--TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTC-TCAT
* * *
514863 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG---CA------C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* *
514906 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG---CA-TCT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* *
514955 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG---CA------C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
514998 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * ** * *
515050 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * *
515105 CTTTAAG-CCAAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCC-AATATAGCTGGCCTTGAATCAGCATATTGGCA-C-----CA--TTT-TC-TCAT
* *
515169 CATTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGG---CA-TCT-TCAT
1 C--TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
* * ** * *
515220 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CCATTTTCTCAT
* * * * * *
515275 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTT-TCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-----CA-TTTTCTCAT
*
515335 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
515379 TTCATCATCT
Statistics
Matches: 547, Mismatches: 82, Indels: 112
0.74 0.11 0.15
Matches are distributed among these distances:
43 76 0.14
45 4 0.01
47 1 0.00
49 109 0.20
50 1 0.00
51 12 0.02
52 74 0.14
53 2 0.00
54 17 0.03
55 110 0.20
57 4 0.01
59 1 0.00
60 43 0.08
61 4 0.01
62 6 0.01
63 4 0.01
64 10 0.02
66 67 0.12
67 2 0.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCATTTTCTCAT
Found at i:514776 original size:55 final size:52
Alignment explanation
Indices: 514641--514778 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
514631 ACATTGGCAC
* *
514641 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
514693 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
514748 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
514779 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:514926 original size:43 final size:44
Alignment explanation
Indices: 514815--515041 Score: 287
Period size: 43 Copynumber: 5.0 Consensus size: 44
514805 TCATCATCAT
*
514815 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
514864 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
514907 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
514956 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
514999 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
515042 TTTTCCATCT
Statistics
Matches: 158, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
43 79 0.50
45 2 0.01
47 1 0.01
49 76 0.48
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Found at i:514972 original size:92 final size:92
Alignment explanation
Indices: 514815--515084 Score: 468
Period size: 92 Copynumber: 2.9 Consensus size: 92
514805 TCATCATCAT
*
514815 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
514880 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
514907 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
514972 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
514999 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATG
515064 TAGCTGGCCTTGAATCAGCAC
63 TAGCTGGCCTTGAATCAGCAC
515085 GTTGACATCC
Statistics
Matches: 170, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
92 128 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:515151 original size:357 final size:357
Alignment explanation
Indices: 514453--515254 Score: 1550
Period size: 357 Copynumber: 2.2 Consensus size: 357
514443 ATTGGCACCT
514453 TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
1 TCAT-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAA
514518 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
65 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
514583 TATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAG
130 TATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAG
514648 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTG
195 TCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTG
*
514713 GCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAATC
260 GCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCAAATATCGTTGGCCATGAATC
514778 AACATATTGGCATCTTTATCACTTTTCTCATCA
325 AACATATTGGCATCTTTATCACTTTTCTCATCA
*
514811 TCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCGTCATCTTTAAGTCCAAT
1 TCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
514876 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 GTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
514941 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
131 ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
515006 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGG
196 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGG
515071 CCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCAAATATCGTTGGCCATGAATCA
261 CCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCAAATATCGTTGGCCATGAATCA
515136 ACATATTGGCATCTTTATCACTTTTCTCATCA
326 ACATATTGGCATCTTTATCACTTTTCTCATCA
* *
515168 TCATTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAAT
1 TCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
*
515233 GTAGCTGGCCTTGAATCAGCAC
66 GTAGCTGGCCTTGACTCAGCAC
515255 GTTGACATCC
Statistics
Matches: 438, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
357 434 0.99
358 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (357 bp):
TCATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGT
CCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGG
CCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCAAATATCGTTGGCCATGAATCA
ACATATTGGCATCTTTATCACTTTTCTCATCA
Found at i:515337 original size:60 final size:61
Alignment explanation
Indices: 515266--515385 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
515256 TTGACATCCT
* * * *
515266 TTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCAC
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
* * * *
515327 TTTT-TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCA
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCA
515386 TCTCTAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 47 0.92
61 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (61 bp):
TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
Found at i:516210 original size:33 final size:33
Alignment explanation
Indices: 516173--516239 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
516163 TTCAACGATT
516173 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
516206 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
516239 T
1 T
516240 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:516211 original size:13 final size:13
Alignment explanation
Indices: 516193--516217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
516183 CATAAAATGT
516193 TGTATCGATACAA
1 TGTATCGATACAA
516206 TGTATCGATACA
1 TGTATCGATACA
516218 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:516301 original size:13 final size:13
Alignment explanation
Indices: 516283--516307 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
516273 ATTACTCACA
516283 TGTATCGATACAT
1 TGTATCGATACAT
516296 TGTATCGATACA
1 TGTATCGATACA
516308 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:516444 original size:52 final size:52
Alignment explanation
Indices: 516316--516436 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
516306 CACTGATCTT
*
516316 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
516368 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
516420 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
516437 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:523653 original size:16 final size:15
Alignment explanation
Indices: 523632--523661 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
523622 TTCTTTTCCA
523632 AAAAAAGAAACAAAAC
1 AAAAAAGAAA-AAAAC
523648 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
523662 GAGAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAC
Found at i:524689 original size:30 final size:29
Alignment explanation
Indices: 524585--525052 Score: 418
Period size: 30 Copynumber: 15.1 Consensus size: 29
524575 TTCAAATCTC
* *
524585 TTCTCAAAATCCACGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGC-AT-TT
524616 TTCTCAAAGTCCACGACTCAGTGGCATCTT
1 TTCTCAAAGTCCACGACTCAGTGGCAT-TT
*
524646 TTCCTTTAAAGTCCACGACTCAGTGGCATTT
1 TT-C-TCAAAGTCCACGACTCAGTGGCATTT
524677 TGTCTCAAAGTCCACGACTCAGTGGCATCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCAT-TT
* *
524708 TTCCTTTAAAGTCCACAACTCAGTGGCATTT
1 TT-C-TCAAAGTCCACGACTCAGTGGCATTT
524739 TGTCTCAAAGTCCACGACTCAGTGGCATCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCAT-TT
*
524770 TTCCTTTAAAGTCCACGACTCAGTGGCATTT
1 TT-C-TCAAAGTCCACGACTCAGTGGCATTT
524801 TGTCTCAAAGTCCACGACTCAGTGGCATCTTT
1 T-TCTCAAAGTCCACGACTCAGTGGCA--TTT
* *
524833 TTCTTTAAAGTCCACAACTCAGTGGCATTT
1 TTC-TCAAAGTCCACGACTCAGTGGCATTT
524863 TGTCTCAAAGTCCACGACTCAGTGGCATTTT
1 T-TCTCAAAGTCCACGACTCAGTGGCA-TTT
* * * * *
524894 TTCTTTAAAGCCCACAATTCCGTGGCACTTTT
1 TTC-TCAAAGTCCACGACTCAGTGGCA--TTT
* * * **
524926 TTCATCTTTAAGTCCACAACTCCGTGGCACCCT
1 TTC-TC--AAAGTCCACGACTCAGTGGCA-TTT
* * * *
524959 TT-T-AAAGCCCACAATTCCGTGGCACTTTT
1 TTCTCAAAGTCCACGACTCAGTGGCA--TTT
*
524988 TTCATCTTTAAAGTCCACAACTCAGTGGCATTT
1 TTC-TC---AAAGTCCACGACTCAGTGGCATTT
525021 TGTCTCAAAGTCCACGACTCAGTGGCATTT
1 T-TCTCAAAGTCCACGACTCAGTGGCATTT
525051 TT
1 TT
525053 TCTTTAAAGC
Statistics
Matches: 372, Mismatches: 37, Indels: 58
0.80 0.08 0.12
Matches are distributed among these distances:
28 18 0.05
29 4 0.01
30 126 0.34
31 73 0.20
32 104 0.28
33 9 0.02
34 20 0.05
35 18 0.05
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (29 bp):
TTCTCAAAGTCCACGACTCAGTGGCATTT
Found at i:524695 original size:62 final size:62
Alignment explanation
Indices: 524594--525314 Score: 556
Period size: 62 Copynumber: 11.3 Consensus size: 62
524584 CTTCTCAAAA
* *
524594 TCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
*
524657 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
524719 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
* *
524781 TCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
*
524843 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCAT-TTTTTCTTTAAAG
1 TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
* * * * * * *
524904 CCCACAATTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCA-C----CCTTTTAA
1 TCCACAACTCAGTGGCA-TTTTGTC-TC--AAAGTCCACGACTCAGTGGCATCTTTTCC-TTTAA
524964 AG
61 AG
* * * * * *
524966 CCCACAATTCCGTGGCACTTTTTTCATCTTTAAAGTCCACAACTCAGTGGCAT-TTTGT-C-TCA
1 TCCACAACTCAGTGGCA-TTTTGTC-TC---AAAGTCCACGACTCAGTGGCATCTTT-TCCTTTA
525028 AAG
60 AAG
* * * * * * * *
525031 TCCACGACTCAGTGGCATTTTTTCTTTAAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AA
1 TCCACAACTCAGTGGCATTTTGTC-TCAAAGTCCACGACTCAGTGGCA-TCTTTTC--CTTTAAA
525095 G
62 G
* ** * * * * *
525096 TCCACAACTCCGTGGCACCCTT-T-T-AAAGCCCACAATTCCGTGGCACTTTTTTCATCTTT-AA
1 TCCACAACTCAGTGGCA-TTTTGTCTCAAAGTCCACGACTCAGTGGCA-TCTTTTC--CTTTAAA
525157 G
62 G
* * * * *
525158 TCCACAACTCCGTGGCACCTTTT-TCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TCCACAACTCAGTGGCA--TTTTGTC---TCAAAGTCCACGACTCAGTGGCA-TC-TTTT-CC-T
525222 TTCAAAG
57 TT-AAAG
* * * * * * * *
525229 CCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 TCCACAACTCAGTGGCA-TTTTGTC--TCAAAGTCCACGACTCAGTGGCA-TC-TTTT-CCTTTA
525294 AAG
60 AAG
*
525297 TCCACAACTCCGTGGCAT
1 TCCACAACTCAGTGGCAT
525315 CTTTCTCCCT
Statistics
Matches: 587, Mismatches: 38, Indels: 62
0.85 0.06 0.09
Matches are distributed among these distances:
61 48 0.08
62 308 0.52
63 47 0.08
64 8 0.01
65 56 0.10
66 3 0.01
67 3 0.01
68 42 0.07
69 10 0.02
70 41 0.07
71 21 0.04
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (62 bp):
TCCACAACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAG
Found at i:525020 original size:158 final size:158
Alignment explanation
Indices: 524683--525285 Score: 701
Period size: 158 Copynumber: 3.8 Consensus size: 158
524673 ATTTTGTCTC
* * * *
524683 AAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAGTCCACAACTCAGTGGCATTTTGTC-TCAA
1 AAAGTCCACAACTCAGTGGCAT-TTTT-CTTCAAAGTCCACAACTCAGTGGCATTTTTTCTTTAA
* * * * * * **
524747 AGTCCACGACTCAGTGGCA-TCTTTTC-CTTTAAAGTCCACGACTCAGTGGCA-TTTTGTCTCAA
64 AGCCCACAACTCCGTGGCACTTTTTTCTCTTTAAAGTCCACAACTCCGTGGCACCCTT-T-T-AA
* * * * *
524809 AGTCCACGACTCAGTGGCA-TCTTTT--TCTTT
126 AGCCCACAATTCCGTGGCACTTTTTTCATCTTT
*
524839 AAAGTCCACAACTCAGTGGCATTTTGTC-TCAAAGTCCACGACTCAGTGGCATTTTTTCTTTAAA
1 AAAGTCCACAACTCAGTGGCATTTT-TCTTCAAAGTCCACAACTCAGTGGCATTTTTTCTTTAAA
*
524903 GCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGC
65 GCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGC
524967 CCACAATTCCGTGGCACTTTTTTCATCTTT
129 CCACAATTCCGTGGCACTTTTTTCATCTTT
*
524997 AAAGTCCACAACTCAGTGGCATTTTGTC-TCAAAGTCCACGACTCAGTGGCATTTTTTCTTTAAA
1 AAAGTCCACAACTCAGTGGCATTTT-TCTTCAAAGTCCACAACTCAGTGGCATTTTTTCTTTAAA
*
525061 GCCCACAATTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGC
65 GCCCACAACTCCGTGGCACTTTTTTC-TCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGC
525125 CCACAATTCCGTGGCACTTTTTTCATCTTT
129 CCACAATTCCGTGGCACTTTTTTCATCTTT
* * * *
525155 -AAGTCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGTCCACAACTCAGTGGCA--TTTTTC--TTCAAAGTCCACAACTCAGTGGCA-T-TTTTT--
* *
525219 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCT
58 C-TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTCTTTAAAGTCCACAACTCCGTGGCACCCT
525283 TTT
121 TTT
525286 TCCCTTTTAA
Statistics
Matches: 399, Mismatches: 27, Indels: 32
0.87 0.06 0.07
Matches are distributed among these distances:
154 27 0.07
155 39 0.10
156 34 0.09
157 38 0.10
158 171 0.43
159 4 0.01
161 19 0.05
162 1 0.00
163 5 0.01
165 4 0.01
166 29 0.07
167 28 0.07
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (158 bp):
AAAGTCCACAACTCAGTGGCATTTTTCTTCAAAGTCCACAACTCAGTGGCATTTTTTCTTTAAAG
CCCACAACTCCGTGGCACTTTTTTCTCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCC
ACAATTCCGTGGCACTTTTTTCATCTTT
Found at i:525266 original size:70 final size:70
Alignment explanation
Indices: 525025--525690 Score: 656
Period size: 70 Copynumber: 9.4 Consensus size: 70
525015 GCATTTTGTC
* * * *
525025 TCAAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAATTCCGTGGCACT-TTTTT-
1 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
525086 CATCTT
66 CCT-TT
* * *
525092 T--AAGTCCACAACTCCGTGGCAC-----CCTTTTAAAGCCCACAATTCCGTGGCACT-TTTTT-
1 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
525148 CATCTT
66 CCT-TT
* *
525154 T--AAGTCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TCAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
525217 CCCTTT
65 CCCTTT
525223 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
525288 CCTTT
66 CCTTT
* ** * *
525293 T--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTTAAAGCCCACACAAGTCGGTGGCAAC-C
1 TCAAAGCCCACAACTCCGTGGCA-CTTT-TTTCTT-TTAAAG-CC-CACAACTCCGTGGC-ACTC
*
525355 TTCTT--CTTT
60 TTTTTCCCTTT
* * ** *
525364 TCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
525429 CCTTT
66 CCTTT
* * *
525434 TCAAAGCCCACAACTCCGTGGCACCTTTCTCTTTTAAAGCCCACAACTCTGTGGCACCTACGACT
1 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCA-CT----CT
*
525499 TTGTGGCACTCTCTT
61 TT-T-TC-C-CT-TT
* *
525514 TCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCAC
1 T--C-----AAAGCCCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC
525579 TCTTTTTCCCTTT
58 TCTTTTTCCCTTT
*
525592 TCAAAGCCTACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
525657 CCTTT
66 CCTTT
*
525662 T--AAGTCCACAACTCCGTGGCATCTTTTTT
1 TCAAAGCCCACAACTCCGTGGCA-CTTTTTT
525691 TCCTTCCCAA
Statistics
Matches: 518, Mismatches: 39, Indels: 82
0.81 0.06 0.13
Matches are distributed among these distances:
61 1 0.00
62 59 0.11
65 18 0.03
67 5 0.01
68 78 0.15
69 21 0.04
70 154 0.30
71 63 0.12
72 5 0.01
73 36 0.07
74 2 0.00
75 4 0.01
76 2 0.00
78 4 0.01
79 4 0.01
80 4 0.01
81 1 0.00
82 2 0.00
83 4 0.01
87 23 0.04
88 28 0.05
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (70 bp):
TCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTT
Found at i:525324 original size:34 final size:35
Alignment explanation
Indices: 525113--525489 Score: 375
Period size: 34 Copynumber: 10.8 Consensus size: 35
525103 CTCCGTGGCA
*
525113 CCCTTTTAAAGCCCACAATTCCGTGGCA-CTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
* * * *
525147 TCATCTTT-AAGTCCACAACTCCGTGGCACCTTTTT
1 CCCT-TTTAAAGCCCACAACTCCGTGGCATCTTTTT
525182 --CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCT-TTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
525217 CCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
*
525252 -TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
525287 CCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
* * * *
525321 CCCTTCTTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CCCTT-TTAAAG-CC-CACAACTCCGTGGC-ATCTTTTT
* *
525360 --CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
**
525394 --CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
525428 TCCTTTTCAAAGCCCACAACTCCGTGGCA-C-CTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
* *
525462 CTCTTTTAAAGCCCACAACTCTGTGGCA
1 CCCTTTTAAAGCCCACAACTCCGTGGCA
525490 CCTACGACTT
Statistics
Matches: 293, Mismatches: 30, Indels: 41
0.80 0.08 0.11
Matches are distributed among these distances:
33 64 0.22
34 81 0.28
35 61 0.21
36 20 0.07
37 50 0.17
38 12 0.04
39 5 0.02
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (35 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
Found at i:525558 original size:34 final size:34
Alignment explanation
Indices: 525501--525689 Score: 238
Period size: 35 Copynumber: 5.4 Consensus size: 34
525491 CTACGACTTT
*
525501 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCAC-CT-TTTTCC-TTTTAAAGCCCACAACTCC
*
525538 GTGGCACCTTTTTCCGTTTAAAGCCCACAACTCC
1 GTGGCACCTTTTTCCTTTTAAAGCCCACAACTCC
*
525572 GTGGCACTCTTTTTCCCTTTTCAAAGCCTACAACTCC
1 GTGGCAC-CTTTTT-CCTTTT-AAAGCCCACAACTCC
*
525609 GTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCC
1 GTGGCACCTTTTTCCTTTTAAAGCCCACAACTCC
*
525642 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCC
1 GTGGCAC-CTTTTT-CCTTTTAAAGCCCACAACTCC
*
525677 GTGGCATCTTTTT
1 GTGGCACCTTTTT
525690 TTCCTTCCCA
Statistics
Matches: 137, Mismatches: 9, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
33 20 0.15
34 36 0.26
35 42 0.31
36 12 0.09
37 27 0.20
ACGTcount: A:0.19, C:0.33, G:0.13, T:0.35
Consensus pattern (34 bp):
GTGGCACCTTTTTCCTTTTAAAGCCCACAACTCC
Found at i:525647 original size:158 final size:157
Alignment explanation
Indices: 525360--525648 Score: 479
Period size: 158 Copynumber: 1.8 Consensus size: 157
525350 CAACCTTCTT
* **
525360 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCGTTTAAAGCCCACAACTCCGTGGCACTCTT
* *
525425 TTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTCTCTTTTAAAGCCCACAACTCTGTGGCA
66 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTCTCTTTTAAAGCCCACAACTCCGTGGCA
525490 CCTACGACTTTGTGGCACTCTCTTTCC
131 CCTACGACTTTGTGGCACTCTCTTTCC
* *
525517 CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCT
1 CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT-CGTTTAAAGCCCACAACTCCGTGGCACTCT
* * *
525582 TTTTCCCTTTTCAAAGCCTACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGC
65 TTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTCTCTTTTAAAGCCCACAACTCCGTGGC
525647 AC
130 AC
525649 TCTTTTTCCC
Statistics
Matches: 121, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
157 32 0.26
158 89 0.74
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (157 bp):
CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTTCGTTTAAAGCCCACAACTCCGTGGCACTCTT
TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTCTCTTTTAAAGCCCACAACTCCGTGGCA
CCTACGACTTTGTGGCACTCTCTTTCC
Found at i:525690 original size:35 final size:35
Alignment explanation
Indices: 525501--525695 Score: 254
Period size: 34 Copynumber: 5.5 Consensus size: 35
525491 CTACGACTTT
*
525501 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCC
1 GTGGCACT-TTTTTCCC-TTTTAAAGCCCACAACTCC
* *
525538 GTGGCACCTTTTT-CCGTTTAAAGCCCACAACTCC
1 GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
*
525572 GTGGCACTCTTTTTCCCTTTTCAAAGCCTACAACTCC
1 GTGGCACT-TTTTTCCCTTTT-AAAGCCCACAACTCC
525609 GTGGCACTTTTTT--CTTTTAAAGCCCACAACTCC
1 GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
*
525642 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCC
1 GTGGCACT-TTTTTCCCTTTTAAAGCCCACAACTCC
*
525677 GTGGCATCTTTTTTTCCTT
1 GTGGCA-CTTTTTTCCCTT
525696 CCCAAAGCCC
Statistics
Matches: 142, Mismatches: 9, Indels: 16
0.85 0.05 0.10
Matches are distributed among these distances:
33 22 0.15
34 35 0.25
35 35 0.25
36 21 0.15
37 29 0.20
ACGTcount: A:0.18, C:0.33, G:0.12, T:0.36
Consensus pattern (35 bp):
GTGGCACTTTTTTCCCTTTTAAAGCCCACAACTCC
Found at i:525734 original size:104 final size:102
Alignment explanation
Indices: 525522--525740 Score: 255
Period size: 105 Copynumber: 2.1 Consensus size: 102
525512 TTTCCCTTTT
*
525522 TAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
** * * *
525587 CCTTTTCAAAGCCTACAACTCCGTGGCACTTTTTTCTTT
66 CCTTCCCAAAGCCCACAACTCCGTGGCAC-TTCTTC-TC
* *
525626 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTTT
1 TAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
* * *
525690 TTCCTTCCCAAAGCCCACACAAGTCGGTGGCAAC-TCTTC-C
64 TCCCTTCCCAAAG-CC-CACAACTCCGTGGC-ACTTCTTCTC
525730 TAAAGCCCACA
1 TAAAGCCCACA
525741 CAAGTCGGTG
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
104 36 0.36
105 44 0.44
106 6 0.06
107 11 0.11
108 2 0.02
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.31
Consensus pattern (102 bp):
TAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
CCTTCCCAAAGCCCACAACTCCGTGGCACTTCTTCTC
Found at i:525735 original size:32 final size:32
Alignment explanation
Indices: 525697--525788 Score: 159
Period size: 32 Copynumber: 2.8 Consensus size: 32
525687 TTTTTCCTTC
525697 CCAAAGCCCACACAAGTCGGTGGCAAC-TCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
525728 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAA-CTTCTT
525762 CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCAAAGCCCACACAAGTCGGTGGCAAC
525789 CCCTCTAAGC
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
31 2 0.03
32 25 0.43
33 25 0.43
34 6 0.10
ACGTcount: A:0.29, C:0.36, G:0.20, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACTTCTT
Found at i:525773 original size:33 final size:32
Alignment explanation
Indices: 525697--525789 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
525687 TTTTTCCTTC
525697 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
525728 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
525762 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
525790 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:525912 original size:49 final size:49
Alignment explanation
Indices: 525805--529049 Score: 3909
Period size: 49 Copynumber: 66.4 Consensus size: 49
525795 AAGCCAAATA
*
525805 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATG
* * *
525857 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
525906 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATG
* * *
525958 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
526007 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATG
* *
526059 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
526108 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATG
* *
526160 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
526209 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
526258 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
526307 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
526356 TAGCTGGCCTTGACTCAGCACATTAGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
526399 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
526448 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
526497 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATG
* *
526549 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
526598 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATG
* *
526650 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
526699 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
526748 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
526797 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
526846 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
526889 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
526938 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGCCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
526987 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTTTAAGTCCAATG
* *
527039 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
527088 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
527137 TAGCTGGCCTCGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
527186 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527235 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
527284 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527333 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527376 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
527425 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527474 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * * * *
527523 TAGCTGGCCTTGACTCAACACATTGGCACTTTCACCATTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
527572 TCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
527621 TAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527670 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
527719 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527762 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527811 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
527860 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527903 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
527952 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
528001 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
528044 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
528093 TAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
528142 TAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * * * *
528191 TAGCTGGCCTTGACTCAACACATTGGCACTTTCACCATTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
528240 TCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
528289 TAGCTAGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
528338 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * * *
528387 TAGTTGGCCTTGACTCAACACATTGGCACCTTCATCTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
528436 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* *
528485 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
528528 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
528577 TAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
528620 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAATG
* * * *
528672 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTTTAAGTCCAATG
* * * * * * * * * *
528727 TCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCA-TCATCATTT
1 TAGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCA-TCTT-TAAGTC--CAATG
** * ** * ** * *
528782 TAAGTCCAATATCGCTGGCCT-TG-A-ATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 T-AG--C--TGGC-CTTGAATCAGCACATTGGC--A---CCTTC---ATCTTTAAGTCCAATG
* *
528842 TAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
528885 TCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
*
528934 TAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
* * *
528977 TAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTTTAAGTCCAATG
529029 TAGCTGGCCTTGAATCAGCAC
1 TAGCTGGCCTTGAATCAGCAC
529050 GTTGACATCC
Statistics
Matches: 2738, Mismatches: 343, Indels: 224
0.83 0.10 0.07
Matches are distributed among these distances:
43 392 0.14
45 6 0.00
47 6 0.00
48 1 0.00
49 1851 0.68
50 16 0.01
51 12 0.00
52 361 0.13
53 5 0.00
54 7 0.00
55 46 0.02
56 3 0.00
57 5 0.00
58 4 0.00
59 3 0.00
60 9 0.00
61 5 0.00
62 5 0.00
63 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATG
Found at i:526310 original size:98 final size:98
Alignment explanation
Indices: 525801--529048 Score: 4595
Period size: 98 Copynumber: 33.2 Consensus size: 98
525791 CTCTAAGCCA
*
525801 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
*
525866 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
63 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
525902 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
*
525967 TTGACTCAGCACATTGGCACCTTCATCTTTAAGCCC
63 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526003 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
526068 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
63 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526104 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
526169 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
63 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
526205 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
526270 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526303 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
526368 ACTCAGCACATTAGCA----C--CTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526395 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
526460 ACTCAGCACATTGGCACCTTCATCTTTAAGCCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526493 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
526558 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
63 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526594 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
526659 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
63 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
526695 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTCAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
526760 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526793 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
526858 ACTCAGCACATTGGCA----C--CTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526885 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
526950 ACTCAGCACATTGGCACCTTCATCTTTAAGCCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
526983 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAATGTAGCTGGCC
527048 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
63 TTGACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
527084 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTCG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
527149 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
527182 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
527247 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
527280 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTGAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
527345 ACTCAGCACATTGGCA----C--CTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
527372 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* *
527437 ACTCAGCACATTGGCACCTTCACCATTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
527470 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* * * *
527535 ACTCAACACATTGGCACTTTCACCATTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
527568 AATATCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTAGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
527633 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
527666 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
527731 ACTCAGCACATTGGCA----C--CTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* * * * *
527758 AATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* * *
527823 AATCAGCATATTGGCACCTTTATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
527856 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
527915 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
527948 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
528013 ACTCAGCACATTGGCA----C--CTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
528040 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* *
528105 ACTCAGCACATTGGCACCTTCACCATTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
528138 AATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* * * *
528203 ACTCAACACATTGGCACTTTCACCATTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
528236 AATATCGCTGGCCTTGAATCTGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTAGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
528301 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
528334 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGTTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
528399 ACTCAACACATTGGCACCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
528432 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
528497 ACTCAGCACATTGGCA----C--CTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
*
528524 AATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
*
528589 AATCAGCACATTGGCA----C--CTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* *
528616 AATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTAGCTGGCC
1 AATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATGTAGCTGGCC
* * * *
528681 TTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCC
63 TTGACTCAGCACATTGGCA-CC----T-TCATCTTTAAGTCC
* * * * * * * *
528723 AATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCA-TCATCATTTTAAGT
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATC--T-TCA-TCTT-TAAGTC--CAATGT-AG-
** * * * * * * *
528787 CCAATATCGCTGGCCTTGAATCAGCATATTG-GCATCTTCATCTTTAAGTCC
57 -C--TGGC-CTTGAC-T-CAGCA-CAT-TGGCACCT-T-CATCTTTAAGTCC
* * * * *
528838 AATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* * *
528897 AATCAGCATATTGGCATCTTCATCTTTAAGTCC
66 ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
* * *
528930 AATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGGCCTTG
1 AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
* * * *
528989 AATCAGCATATTGGCACATTTTCCATCTTTAAGTTC
66 ACTCAGCACATTGGCAC--CTT-CATCTTTAAGTCC
*
529025 AATGTAGCTGGCCTTGAATCAGCA
1 AATATAGCTGGCCTTGAATCAGCA
529049 CGTTGACATC
Statistics
Matches: 2929, Mismatches: 138, Indels: 166
0.91 0.04 0.05
Matches are distributed among these distances:
92 743 0.25
93 3 0.00
94 17 0.01
95 81 0.03
96 5 0.00
97 3 0.00
98 1322 0.45
99 9 0.00
100 7 0.00
101 618 0.21
102 1 0.00
103 4 0.00
104 2 0.00
105 8 0.00
107 38 0.01
108 6 0.00
109 2 0.00
110 4 0.00
111 2 0.00
113 1 0.00
114 3 0.00
115 39 0.01
116 3 0.00
117 1 0.00
118 4 0.00
119 2 0.00
120 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
AATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTG
ACTCAGCACATTGGCACCTTCATCTTTAAGTCC
Found at i:528735 original size:55 final size:52
Alignment explanation
Indices: 528606--528743 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
528596 ACATTGGCAC
* *
528606 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
528658 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
528713 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
528744 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:528891 original size:43 final size:44
Alignment explanation
Indices: 528780--529006 Score: 287
Period size: 43 Copynumber: 5.0 Consensus size: 44
528770 TCATCATCAT
*
528780 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* * *
528829 TTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
*
528872 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----CA-C
* *
528921 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC-C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
528964 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACA
529007 TTTTCCATCT
Statistics
Matches: 158, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
43 79 0.50
45 2 0.01
47 1 0.01
49 76 0.48
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACAC
Found at i:528937 original size:92 final size:92
Alignment explanation
Indices: 528780--529049 Score: 477
Period size: 92 Copynumber: 2.9 Consensus size: 92
528770 TCATCATCAT
528780 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
528845 CTGGCCTTGACTCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
528872 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
528937 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
528964 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAATG
529029 TAGCTGGCCTTGAATCAGCAC
63 TAGCTGGCCTTGAATCAGCAC
529050 GTTGACATCC
Statistics
Matches: 171, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 129 0.75
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:529092 original size:55 final size:55
Alignment explanation
Indices: 528963--529338 Score: 302
Period size: 55 Copynumber: 6.7 Consensus size: 55
528953 ACATTGGCAC
* *
528963 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--CATTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
529015 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * *
529070 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT-G-A-C---ATC-CTTTT-TC-TCAT
* *
529134 CATTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAT-C----T-TCAT
1 C--TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * **
529185 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
* * * * * * * * *
529240 CTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATC-CT-T---TTTCTCAT
*
529300 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
529339 GCACCTTCAT
Statistics
Matches: 254, Mismatches: 45, Indels: 42
0.74 0.13 0.12
Matches are distributed among these distances:
49 36 0.14
50 1 0.00
51 5 0.02
52 37 0.15
53 1 0.00
54 7 0.03
55 69 0.27
56 2 0.01
57 2 0.01
58 2 0.01
60 42 0.17
61 3 0.01
62 5 0.02
63 3 0.01
64 5 0.02
65 1 0.00
66 33 0.13
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGACATCCTTTTTCTCAT
Found at i:529302 original size:60 final size:61
Alignment explanation
Indices: 529231--529350 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
529221 TTGACATCCT
* * * *
529231 TTTTCTCATCTTTAGGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCAC
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
* * * *
529292 TTTT-TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCA
1 TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCA
529351 TCTCTAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
60 47 0.92
61 4 0.08
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (61 bp):
TTTTCTCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCAC
Found at i:530175 original size:33 final size:33
Alignment explanation
Indices: 530138--530204 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
530128 TTCAACGATT
530138 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
530171 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
530204 T
1 T
530205 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:530176 original size:13 final size:13
Alignment explanation
Indices: 530158--530182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
530148 CATAAAATGT
530158 TGTATCGATACAA
1 TGTATCGATACAA
530171 TGTATCGATACA
1 TGTATCGATACA
530183 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:530266 original size:13 final size:13
Alignment explanation
Indices: 530248--530272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
530238 ATTACTCACA
530248 TGTATCGATACAT
1 TGTATCGATACAT
530261 TGTATCGATACA
1 TGTATCGATACA
530273 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:530409 original size:52 final size:52
Alignment explanation
Indices: 530281--530401 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
530271 CACTGATCTT
*
530281 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
530333 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
530385 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
530402 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:534168 original size:83 final size:83
Alignment explanation
Indices: 534071--534234 Score: 319
Period size: 83 Copynumber: 2.0 Consensus size: 83
534061 GTTAAAAATC
534071 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
1 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
534136 GGGGTGTGCCAAATCCAT
66 GGGGTGTGCCAAATCCAT
*
534154 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGT
1 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
534219 GGGGTGTGCCAAATCC
66 GGGGTGTGCCAAATCC
534235 TTTCTACTAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (83 bp):
ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
GGGGTGTGCCAAATCCAT
Found at i:534594 original size:83 final size:83
Alignment explanation
Indices: 534497--534660 Score: 319
Period size: 83 Copynumber: 2.0 Consensus size: 83
534487 GTTAAAAATC
534497 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
1 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
534562 GGGGTGTGCCAAATCCAT
66 GGGGTGTGCCAAATCCAT
*
534580 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGT
1 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
534645 GGGGTGTGCCAAATCC
66 GGGGTGTGCCAAATCC
534661 TTTCTATAGT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (83 bp):
ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
GGGGTGTGCCAAATCCAT
Found at i:534607 original size:426 final size:426
Alignment explanation
Indices: 533809--534666 Score: 1689
Period size: 426 Copynumber: 2.0 Consensus size: 426
533799 TAAAATGAAC
533809 TTCTCACTATAGTATAAGGACTATAATAGAACTTAGCGAAGTATTAACTAGATGCAACAAAATGA
1 TTCT-ACTATAGTATAAGGACTATAATAGAACTTAGCGAAGTATTAACTAGATGCAACAAAATGA
533874 GATATTACAATAAATTGCCCACAACCAACTCTAAGGAAAATTGAACTCGTATTGATTAATCCAAA
65 GATATTACAATAAATTGCCCACAACCAACTCTAAGGAAAATTGAACTCGTATTGATTAATCCAAA
*
533939 TTAAACGATAAATTATTCTGTTCTAAAAAAAACTATATAACGACACATCATCTTGCCTAAAAATC
130 TTAAACGATAAATTATTCTGTTCTAAAAAAAACTAAATAACGACACATCATCTTGCCTAAAAATC
534004 CTCAGATATTATACGATTTAAGTGAATATAAGATTTTGATAAGCAAAGCATATGAACGTTAAAAA
195 CTCAGATATTATACGATTTAAGTGAATATAAGATTTTGATAAGCAAAGCATATGAACGTTAAAAA
534069 TCATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTG
260 TCATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTG
534134 GCGGGGTGTGCCAAATCCATATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATA
325 GCGGGGTGTGCCAAATCCATATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATA
534199 ATGATTGAACTAGAATTGGTGGGGTGTGCCAAATCCT
390 ATGATTGAACTAGAATTGGTGGGGTGTGCCAAATCCT
534236 TTCTACTATAGTATAAGGACTATAATAGAACTTAGCGAAGTATTAACTAGATGCAACAAAATGAG
1 TTCTACTATAGTATAAGGACTATAATAGAACTTAGCGAAGTATTAACTAGATGCAACAAAATGAG
534301 ATATTACAATAAATTGCCCACAACCAACTCTAAGGAAAATTGAACTCGTATTGATTAATCCAAAT
66 ATATTACAATAAATTGCCCACAACCAACTCTAAGGAAAATTGAACTCGTATTGATTAATCCAAAT
*
534366 TAAACGATAAATTATTGTGTTCTAAAAAAAACTAAATAACGACACATCATCTTGCCTAAAAATCC
131 TAAACGATAAATTATTCTGTTCTAAAAAAAACTAAATAACGACACATCATCTTGCCTAAAAATCC
534431 TCAGATATTATACGATTTAAGTGAATATAAGATTTTGATAAGCAAAGCATATGAACGTTAAAAAT
196 TCAGATATTATACGATTTAAGTGAATATAAGATTTTGATAAGCAAAGCATATGAACGTTAAAAAT
534496 CATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGG
261 CATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGG
534561 CGGGGTGTGCCAAATCCATATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAA
326 CGGGGTGTGCCAAATCCATATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAA
534626 TGATTGAACTAGAATTGGTGGGGTGTGCCAAATCCT
391 TGATTGAACTAGAATTGGTGGGGTGTGCCAAATCCT
534662 TTCTA
1 TTCTA
534667 TAGTGCAACG
Statistics
Matches: 429, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
426 425 0.99
427 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (426 bp):
TTCTACTATAGTATAAGGACTATAATAGAACTTAGCGAAGTATTAACTAGATGCAACAAAATGAG
ATATTACAATAAATTGCCCACAACCAACTCTAAGGAAAATTGAACTCGTATTGATTAATCCAAAT
TAAACGATAAATTATTCTGTTCTAAAAAAAACTAAATAACGACACATCATCTTGCCTAAAAATCC
TCAGATATTATACGATTTAAGTGAATATAAGATTTTGATAAGCAAAGCATATGAACGTTAAAAAT
CATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGG
CGGGGTGTGCCAAATCCATATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAA
TGATTGAACTAGAATTGGTGGGGTGTGCCAAATCCT
Found at i:537843 original size:83 final size:83
Alignment explanation
Indices: 537746--537911 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
537736 GTTAAAAATC
*
537746 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGC
1 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGA
537811 GGGGTGTGCCAAATCCAT
66 GGGGTGTGCCAAATCCAT
537829 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGA
1 ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGA
537894 GGGGTGTGCCAAATCCAT
66 GGGGTGTGCCAAATCCAT
537912 TCTATAGTGC
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (83 bp):
ATATTTGTTTCATGGGTAATGCCAATTGAATTGGTTAAAACTATAATGATTGAACTAGAATTGGA
GGGGTGTGCCAAATCCAT
Found at i:540275 original size:20 final size:20
Alignment explanation
Indices: 540250--540289 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
540240 GGTTTCTTTT
540250 GTAATGTGGGAAACAACTTC
1 GTAATGTGGGAAACAACTTC
540270 GTAATGTGGGAAACAACTTC
1 GTAATGTGGGAAACAACTTC
540290 TACCAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (20 bp):
GTAATGTGGGAAACAACTTC
Found at i:544161 original size:16 final size:16
Alignment explanation
Indices: 544126--544185 Score: 75
Period size: 16 Copynumber: 3.5 Consensus size: 16
544116 ATCATATTAC
*
544126 ATTTTATATCTTTTTCAT
1 ATTTTA-AT-TTTTTTAT
544144 ATTTTAATTTTTTTAT
1 ATTTTAATTTTTTTAT
544160 ATTTTAATTTTTTTAT
1 ATTTTAATTTTTTTAT
544176 CATATTTAAT
1 -AT-TTTAAT
544186 ATTATTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
16 23 0.59
17 4 0.10
18 12 0.31
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTAATTTTTTTAT
Found at i:545637 original size:25 final size:25
Alignment explanation
Indices: 545574--545637 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
545564 TTAATATTAA
* * * *
545574 AAAAATTTAATTTAAATTTAAATAT
1 AAAAATTAAATTTAAAATCAAACAT
545599 AAATAATTAAATTTAAAATCAAACAT
1 AAA-AATTAAATTTAAAATCAAACAT
545625 AAAAATTAAATTT
1 AAAAATTAAATTT
545638 TTTTTTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 13 0.38
26 21 0.62
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAAATTAAATTTAAAATCAAACAT
Found at i:546007 original size:74 final size:74
Alignment explanation
Indices: 545886--546028 Score: 259
Period size: 74 Copynumber: 1.9 Consensus size: 74
545876 AGAAGCCATT
545886 TTCTACACACCTTCCGAGTTGGGTCATATGTCTATTTGGGCCAGAAAATATCCTAGAGCCAGAAC
1 TTCTACACACCTTCCGAGTTGGGTCATATGTCTATTTGGGCCAGAAAATATCCTAGAGCCAGAAC
545951 TCTGCCTTA
66 TCTGCCTTA
* * *
545960 TTCTACACACCTTCCGAGTTGGGTGATATGTCTGTTTGGGCCAGAAAATATCCTAGAGCCATAAC
1 TTCTACACACCTTCCGAGTTGGGTCATATGTCTATTTGGGCCAGAAAATATCCTAGAGCCAGAAC
546025 TCTG
66 TCTG
546029 TGTGTGTGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 66 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (74 bp):
TTCTACACACCTTCCGAGTTGGGTCATATGTCTATTTGGGCCAGAAAATATCCTAGAGCCAGAAC
TCTGCCTTA
Found at i:549234 original size:6 final size:6
Alignment explanation
Indices: 549207--549349 Score: 73
Period size: 6 Copynumber: 24.0 Consensus size: 6
549197 ACTTTATTAA
* *
549207 TTAAA- TTAATAT TAAAATT TTAAAT TTAAAT TTAAAT AATTAAAT TTAAAA
1 TTAAAT TTAA-AT TTAAA-T TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT
** * * ** * * *
549258 TT-AAT AAAAAT TTTAAT TTTAAT TTTTAT CTTAATT TTAACT TTAATT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT
* * *
549306 TTAAAA TAAAAT TTAAA- -TAAAT TTAAA- TTAAA- TTAATT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
549350 ATTTTATAAC
Statistics
Matches: 106, Mismatches: 22, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
4 4 0.04
5 15 0.14
6 70 0.66
7 11 0.10
8 6 0.06
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:549241 original size:20 final size:21
Alignment explanation
Indices: 549204--549261 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 21
549194 TTAACTTTAT
*
549204 TAATTAAA-TTAATATTAAAA
1 TAATTAAATTTAAAATTAAAA
* *
549224 T-TTTAAATTT-AAATTTAAA
1 TAATTAAATTTAAAATTAAAA
549243 TAATTAAATTTAAAATTAA
1 TAATTAAATTTAAAATTAA
549262 TAAAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 13 0.43
20 11 0.37
21 6 0.20
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAAATTTAAAATTAAAA
Found at i:549612 original size:6 final size:6
Alignment explanation
Indices: 549601--549643 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
549591 AGATTTAATA
* *
549601 ATTTAT ATTTAT ATTATAT TTTTAT ATATTAT AATTAT ATTTA
1 ATTTAT ATTTAT ATT-TAT ATTTAT AT-TTAT ATTTAT ATTTA
549644 AAATATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
ATTTAT
Found at i:549667 original size:20 final size:19
Alignment explanation
Indices: 549616--549675 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
549606 TATTTATATT
*
549616 ATATTTT-TATATATTATA
1 ATATTTTATAAATATTATA
549634 ATTATATTTA-AAATATTATA
1 A-TAT-TTTATAAATATTATA
549654 CATATTTTATAAAT-TT-TA
1 -ATATTTTATAAATATTATA
549672 ATAT
1 ATAT
549676 AATAATTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
17 4 0.11
18 3 0.08
19 9 0.25
20 19 0.53
21 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTTATAAATATTATA
Found at i:549697 original size:15 final size:15
Alignment explanation
Indices: 549655--549781 Score: 51
Period size: 14 Copynumber: 8.6 Consensus size: 15
549645 AATATTATAC
*
549655 ATATTTTATAAATTT
1 ATATTATATAAATTT
*
549670 -TAATATA-ATAATTT
1 ATATTATATA-AATTT
549684 ATATTATATAAATTTT
1 ATATTATATAAA-TTT
549700 AACATATTCATAT--ATTT
1 ---ATATT-ATATAAATTT
*
549717 ATATTATATATTATTTT
1 ATATTATATA--AATTT
* *
549734 TTATTATATTAATTT
1 ATATTATATAAATTT
549749 -TAATTAT-T---TTT
1 AT-ATTATATAAATTT
549760 ATATTATA-AAA-TT
1 ATATTATATAAATTT
549773 ATATTATAT
1 ATATTATAT
549782 TTAAAATCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 39
0.65 0.05 0.30
Matches are distributed among these distances:
11 8 0.09
12 1 0.01
13 15 0.17
14 17 0.20
15 17 0.20
16 4 0.05
17 14 0.16
18 1 0.01
19 5 0.06
20 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATTATATAAATTT
Found at i:549717 original size:33 final size:29
Alignment explanation
Indices: 549655--549726 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 29
549645 AATATTATAC
*
549655 ATATTTTATAAATTTTAATATAATAATTT
1 ATATTATATAAATTTTAATATAATAATTT
*
549684 ATATTATATAAATTTTAACATATTCATATATTT
1 ATATTATATAAATTTT-A-ATA-TAATA-ATTT
549717 ATATTATATA
1 ATATTATATA
549727 TTATTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 15 0.41
30 1 0.03
31 3 0.08
32 4 0.11
33 14 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
ATATTATATAAATTTTAATATAATAATTT
Found at i:549774 original size:19 final size:17
Alignment explanation
Indices: 549736--549788 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
549726 ATTATTTTTT
*
549736 ATTATATTA-ATTT-TA
1 ATTATATTATATTTAAA
*
549751 ATTATTTTTATATTATAAA
1 ATTA-TATTATATT-TAAA
549770 ATTATATTATATTTAAA
1 ATTATATTATATTTAAA
549787 AT
1 AT
549789 CATGAAGTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.13
16 4 0.13
17 9 0.29
18 9 0.29
19 5 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTATATTATATTTAAA
Found at i:549778 original size:24 final size:25
Alignment explanation
Indices: 549723--549784 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
549713 ATTTATATTA
*
549723 TATATTATTTTT-TATTATATTAAT
1 TATATTATTTTTATATTATATAAAT
*
549747 TTTAATTATTTTTATATTATA-AAAT
1 TAT-ATTATTTTTATATTATATAAAT
*
549772 TATATTATATTTA
1 TATATTATTTTTA
549785 AAATCATGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 14 0.44
26 7 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TATATTATTTTTATATTATATAAAT
Found at i:549915 original size:16 final size:16
Alignment explanation
Indices: 549868--549927 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
549858 TATTTTATAC
*
549868 ATAATAAATTATACAAT
1 ATAATAAATTA-AAAAT
* *
549885 AAAAAATAATT-AAAAT
1 ATAATA-AATTAAAAAT
549901 ATAATAAATTAAAAAT
1 ATAATAAATTAAAAAT
549917 A-ATATAAATTA
1 ATA-ATAAATTA
549928 TTAATTAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
15 5 0.14
16 22 0.63
17 4 0.11
18 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATAAATTAAAAAT
Found at i:549918 original size:14 final size:15
Alignment explanation
Indices: 549868--549920 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
549858 TATTTTATAC
549868 ATAATAAATTATACAAT
1 ATAATAAATTA-A-AAT
* *
549885 AAAAAATAATTAAAAT
1 ATAATA-AATTAAAAT
549901 ATAATAAATTAAAA-
1 ATAATAAATTAAAAT
549915 ATAATA
1 ATAATA
549921 TAAATTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
14 6 0.19
15 8 0.26
16 7 0.23
17 5 0.16
18 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAATAAATTAAAAT
Found at i:549955 original size:19 final size:18
Alignment explanation
Indices: 549915--549961 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
549905 TAAATTAAAA
549915 ATAATATAAATTATTAAT
1 ATAATATAAATTATTAAT
* *
549933 -TAATATATATTATTTTAT
1 ATAATATAAATTA-TTAAT
*
549951 ATAATAAAAAT
1 ATAATATAAAT
549962 AATAATCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 11 0.48
18 4 0.17
19 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATATAAATTATTAAT
Found at i:550379 original size:20 final size:21
Alignment explanation
Indices: 550356--550401 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
550346 ATTATATTTT
550356 TATTTAAAT-TTAAT-TATAAA
1 TATTTAAATATTAATATA-AAA
550376 TATTTAAATATTAATATAAAA
1 TATTTAAATATTAATATAAAA
550397 TATTT
1 TATTT
550402 TTTAATATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.38
21 13 0.54
22 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTAAATATTAATATAAAA
Found at i:550397 original size:21 final size:20
Alignment explanation
Indices: 550356--550401 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
550346 ATTATATTTT
550356 TATTTAAATTTAATTATAAA
1 TATTTAAATTTAATTATAAA
550376 TATTTAAATATTAA-TATAAAA
1 TATTTAAAT-TTAATTAT-AAA
550397 TATTT
1 TATTT
550402 TTTAATATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTTAAATTTAATTATAAA
Found at i:550546 original size:19 final size:19
Alignment explanation
Indices: 550521--550569 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
550511 ATCACACTTA
*
550521 ATTTTTTATG-ATTTATGT
1 ATTTTTTATGTATTTATAT
550539 AGTTTTTT-TGTATTTATAT
1 A-TTTTTTATGTATTTATAT
550558 ATTTTTATATGT
1 ATTTTT-TATGT
550570 TATAATTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.31
19 15 0.58
20 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.67
Consensus pattern (19 bp):
ATTTTTTATGTATTTATAT
Found at i:550572 original size:17 final size:16
Alignment explanation
Indices: 550543--550604 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
550533 TTATGTAGTT
*
550543 TTTTTGTATTTATATA
1 TTTTTATATTTATATA
550559 TTTTTATATGTTATAATTA
1 TTTTTATAT-TTAT-A-TA
*
550578 TTTTTAAAATATTATATA
1 TTTTT-ATAT-TTATATA
550596 TTTTGTATA
1 TTTT-TATA
550605 AATTTTTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 8 0.22
17 4 0.11
18 9 0.24
19 9 0.24
20 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTTATATTTATATA
Found at i:550650 original size:19 final size:18
Alignment explanation
Indices: 550626--550685 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
550616 ATTAATAATC
550626 TATGTTATATAACTTTTAA
1 TATGTTATAT-ACTTTTAA
*
550645 TATGTTCATAT-CTTTATAT
1 TATGTT-ATATACTTT-TAA
550664 TATGTTAGTATTA-TTTTAA
1 TATGTTA-TA-TACTTTTAA
550683 TAT
1 TAT
550686 CATATTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
18 5 0.15
19 21 0.62
20 8 0.24
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (18 bp):
TATGTTATATACTTTTAA
Done.