Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 5 of 10
Found at i:628668 original size:103 final size:104
Alignment explanation
Indices: 628478--628736 Score: 269
Period size: 104 Copynumber: 2.5 Consensus size: 104
628468 TGCACGTTAC
*
628478 TTTTAAATATTTATTAATATAAATTTAAATAAATTAATAAAATTACATATTAAAAAAGGAAAATT
1 TTTTAAATATTTATTAATTTAAATTTAAAT-AATTAATAAAATTACATATTAAAAAAGGAAAATT
* * *
628543 TTATTAATTTTAATGTGAATTAATAGAATGTGAACT-TTT
65 TTATTAATTTTAAAGTGAATTAATAGAATATGAACTCTAT
* * * ** *
628582 TTTTAAATATTTATTAATTTAGATTTAAAT-TTTAAATAAAATTA-TTATTTCAATAGGAAAATT
1 TTTTAAATATTTATTAATTTAAATTTAAATAATT-AATAAAATTACATATTAAAAAAGGAAAA-T
** *
628645 TTTATTAATTTTAAAGT-AGATTAATATCATATGGACTCTAT
64 TTTATTAATTTTAAAGTGA-ATTAATAGAATATGAACTCTAT
* * *
628686 TTCTAAATATTTATGAATTTAAATTTGGAAAT--TTCAGTAAAATTACATATT
1 TTTTAAATATTTATTAATTTAAATTT--AAATAATT-AATAAAATTACATATT
628737 TATACAGGAT
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
102 16 0.12
103 41 0.32
104 53 0.41
105 11 0.09
106 8 0.06
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (104 bp):
TTTTAAATATTTATTAATTTAAATTTAAATAATTAATAAAATTACATATTAAAAAAGGAAAATTT
TATTAATTTTAAAGTGAATTAATAGAATATGAACTCTAT
Found at i:630223 original size:2 final size:2
Alignment explanation
Indices: 630216--630250 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
630206 ATTTCTCATC
630216 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
630251 CTTATTGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:630687 original size:2 final size:2
Alignment explanation
Indices: 630680--630718 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
630670 ATTATCTCTA
630680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
630719 AATCTTCTGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:630929 original size:23 final size:21
Alignment explanation
Indices: 630898--630939 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
630888 ATAATAATTA
630898 AAATGTTAAAATATTTATTATTG
1 AAATGTTAAAAT-TTT-TTATTG
*
630921 AAATTTTAAAATTTTTTAT
1 AAATGTTAAAATTTTTTAT
630940 ACGAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 3 0.17
23 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
AAATGTTAAAATTTTTTATTG
Found at i:635804 original size:60 final size:60
Alignment explanation
Indices: 635682--635797 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
635672 CGATACATCT
* * * *
635682 TCATGTTTCGATTATTTCAGGACCTGGAGTGCAATTGTATCGATATAATTGCATGTCATA
1 TCATGTTTCGATTATTTCAAGACCTGGAGTGCAATTATATCGAAACAATTGCATGTCATA
* * *
635742 TCATGTTTTGATTATTTCAATACCTGGAGTGCAATTATATTGAAACAATTGCATGT
1 TCATGTTTCGATTATTTCAAGACCTGGAGTGCAATTATATCGAAACAATTGCATGT
635798 TGTATCAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (60 bp):
TCATGTTTCGATTATTTCAAGACCTGGAGTGCAATTATATCGAAACAATTGCATGTCATA
Found at i:636511 original size:24 final size:24
Alignment explanation
Indices: 636481--636536 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
636471 AATTCTTAGT
636481 AGAAAAAAAT-AGA-AAAGAGAAAAA
1 AGAAAAAAATGAGAGAAA-A-AAAAA
*
636505 AGAAAAAAATGAGAGAAAAATAAA
1 AGAAAAAAATGAGAGAAAAAAAAA
636529 AGAAAAAA
1 AGAAAAAA
636537 GAAAGCTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 22 0.76
25 4 0.14
26 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (24 bp):
AGAAAAAAATGAGAGAAAAAAAAA
Found at i:642269 original size:2 final size:2
Alignment explanation
Indices: 642262--642305 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
642252 CATCTTCCAT
642262 TA TA TA 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 TA TA TA
642304 TA
1 TA
642306 ACATAAGATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:642966 original size:17 final size:18
Alignment explanation
Indices: 642935--642971 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
642925 CTACTGCATC
642935 TTTATAGACTATTAC-AT
1 TTTATAGACTATTACTAT
642952 TTTATAGA-TATTTACTAT
1 TTTATAGACTA-TTACTAT
642970 TT
1 TT
642972 AGGCATCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 12 0.67
18 4 0.22
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTATAGACTATTACTAT
Found at i:645001 original size:72 final size:72
Alignment explanation
Indices: 644903--645037 Score: 166
Period size: 72 Copynumber: 1.9 Consensus size: 72
644893 TATATGGTTT
* * *
644903 CTTTCCACGCCGTACATAAACCATCTCATG-AGGTTTATTCCTATGCTGGGAATAAAGTATCTCA
1 CTTTCCACGCCGTACATAAACCATCTC-GGCAGGTTCATTCCTATGCTGGGAATAAACTATCTCA
644967 CTCGCTTG
65 CTCGCTTG
* * * * *
644975 CTTTCTACGCCG-AGCATAAACTATCTCGGCTGGTTCCTTTCTATGCTGGGAATAAACTATCTC
1 CTTTCCACGCCGTA-CATAAACCATCTCGGCAGGTTCATTCCTATGCTGGGAATAAACTATCTC
645038 TGTTGGTTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 51 0.96
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (72 bp):
CTTTCCACGCCGTACATAAACCATCTCGGCAGGTTCATTCCTATGCTGGGAATAAACTATCTCAC
TCGCTTG
Found at i:645015 original size:36 final size:36
Alignment explanation
Indices: 644975--645046 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
644965 CACTCGCTTG
*
644975 CTTTCTACGCCGAGCATAAACTATCTCGGCTGGTTC
1 CTTTCTACGCCGAGAATAAACTATCTCGGCTGGTTC
* * * * *
645011 CTTTCTATGCTGGGAATAAACTATCTCTGTTGGTTC
1 CTTTCTACGCCGAGAATAAACTATCTCGGCTGGTTC
645047 TATCTCAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (36 bp):
CTTTCTACGCCGAGAATAAACTATCTCGGCTGGTTC
Found at i:645058 original size:51 final size:51
Alignment explanation
Indices: 644995--645096 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
644985 CGAGCATAAA
* * * *
644995 CTATCTCGGCTGGTTCCTTTCTATGCTGGGAATAAACTATCTCTGTTGGTT
1 CTATCTCAGCTGGTTCCTTTCTACGCCGGGAATAAACTATCTCCGTTGGTT
* * *
645046 CTATCTCAGCTGGTTTCTTTCTACGCCGGGCATAAACTATTTCCGTTGGTT
1 CTATCTCAGCTGGTTCCTTTCTACGCCGGGAATAAACTATCTCCGTTGGTT
645097 TCAAACAACT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.40
Consensus pattern (51 bp):
CTATCTCAGCTGGTTCCTTTCTACGCCGGGAATAAACTATCTCCGTTGGTT
Found at i:651407 original size:9 final size:9
Alignment explanation
Indices: 651393--651438 Score: 74
Period size: 9 Copynumber: 5.0 Consensus size: 9
651383 AATTCAAATA
651393 TTTTTCTTT
1 TTTTTCTTT
651402 TTTTTCTTT
1 TTTTTCTTT
*
651411 TTTTTCTCT
1 TTTTTCTTT
651420 TTTTTCTTTT
1 TTTTTC-TTT
651430 TTTTTCTTT
1 TTTTTCTTT
651439 CTTCTTTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 26 0.76
10 8 0.24
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:651411 original size:7 final size:7
Alignment explanation
Indices: 651393--651447 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
651383 AATTCAAATA
651393 TTTTTCT
1 TTTTTCT
651400 TTTTT-T
1 TTTTTCT
651406 TCTTTT-T
1 T-TTTTCT
*
651413 TTTCTCT
1 TTTTTCT
651420 TTTTTCT
1 TTTTTCT
651427 TTTTT-T
1 TTTTTCT
651433 TTCTTTCT
1 TT-TTTCT
*
651441 TCTTTCT
1 TTTTTCT
651448 CACTTTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
6 8 0.20
7 31 0.76
8 2 0.05
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:651422 original size:17 final size:17
Alignment explanation
Indices: 651401--651445 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 17
651391 TATTTTTCTT
651401 TTTTTTCTTTTTTTTCTC
1 TTTTTTCTTTTTTTT-TC
651419 TTTTTTCTTTTTTTTTC
1 TTTTTTCTTTTTTTTTC
*
651436 TTTCTTCTTT
1 TTTTTTCTTT
651446 CTCACTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTTC
Found at i:651767 original size:23 final size:23
Alignment explanation
Indices: 651740--651798 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
651730 TACTTTTATC
*
651740 AAATAATTATTTTATTAATAAAT
1 AAATAATTATTTTAATAATAAAT
* *
651763 AAATAA-AATTTATAATAATATAT
1 AAATAATTATTT-TAATAATAAAT
*
651786 TAA-AATTATTTTA
1 AAATAATTATTTTA
651799 CTTTTATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATAATTATTTTAATAATAAAT
Found at i:651918 original size:30 final size:30
Alignment explanation
Indices: 651853--651919 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
651843 TCCATCCATA
651853 TTATTATATAATAATAAATTTATTATAGAC
1 TTATTATATAATAATAAATTTATTATAGAC
* * *
651883 ATATTATATAATAATATAATTT-TTATATAT
1 TTATTATATAATAATA-AATTTATTATAGAC
651913 TTATTAT
1 TTATTAT
651920 GTTTATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
TTATTATATAATAATAAATTTATTATAGAC
Found at i:652223 original size:29 final size:28
Alignment explanation
Indices: 652185--652270 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 28
652175 ATTATATGAA
*
652185 TAAAA-AATAATATTTTAATAAATACTTT
1 TAAAATAATAATATTTTAATAAATA-ATT
* *
652213 TAAAATAATAATATTTAAATAATTAATT
1 TAAAATAATAATATTTTAATAAATAATT
*
652241 TAATTAATAATAATATTTTAATCAA-AATT
1 TAA--AATAATAATATTTTAATAAATAATT
652270 T
1 T
652271 CCGTAATATT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
28 10 0.20
29 22 0.45
30 17 0.35
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAAATAATAATATTTTAATAAATAATT
Found at i:652243 original size:13 final size:14
Alignment explanation
Indices: 652185--652252 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
652175 ATTATATGAA
*
652185 TAAAAAATAATATT
1 TAAATAATAATATT
* *
652199 TTAATAAATACT-TT
1 TAAAT-AATAATATT
652213 TAAAATAATAATATT
1 T-AAATAATAATATT
*
652228 TAAATAATTA-ATT
1 TAAATAATAATATT
*
652241 TAATTAATAATA
1 TAAATAATAATA
652253 ATATTTTAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
13 11 0.26
14 20 0.48
15 11 0.26
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATAATATT
Found at i:652517 original size:18 final size:19
Alignment explanation
Indices: 652486--652521 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
652476 TTAATTTTTT
*
652486 AAAATTTTTATATATTAAA
1 AAAATATTTATATATTAAA
652505 AAAATATTT-TATATTAA
1 AAAATATTTATATATTAA
652522 TATTTAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATATTTATATATTAAA
Found at i:652524 original size:24 final size:25
Alignment explanation
Indices: 652497--652564 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
652487 AAATTTTTAT
*
652497 ATATTAAA-AAAATATTTTATATTA
1 ATATTAAATAAAATATTTTATATAA
**
652521 ATATTTAAATAAAA-ATTAAATATAA
1 ATA-TTAAATAAAATATTTTATATAA
652546 ATATTAAATAAAATATTTT
1 ATATTAAATAAAATATTTT
652565 TTTAAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTAAATAAAATATTTTATATAA
Found at i:652570 original size:24 final size:24
Alignment explanation
Indices: 652490--652570 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
652480 TTTTTTAAAA
*
652490 TTTTTATATATTAAA-AAAATATT
1 TTTTTAAATATTAAATAAAATATT
652513 TTATATT-AATATTTAAATAAAA-ATT
1 TT-T-TTAAATA-TTAAATAAAATATT
** *
652538 AAATATAAATATTAAATAAAATATT
1 -TTTTTAAATATTAAATAAAATATT
652563 TTTTTAAA
1 TTTTTAAA
652571 AAAAATAAAC
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
23 2 0.05
24 20 0.45
25 18 0.41
26 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTTTTAAATATTAAATAAAATATT
Found at i:652914 original size:10 final size:10
Alignment explanation
Indices: 652880--652934 Score: 57
Period size: 9 Copynumber: 5.9 Consensus size: 10
652870 ATATGGTATG
652880 AATATAAAAT
1 AATATAAAAT
652890 AA-A-AAAAT
1 AATATAAAAT
652898 AAT-TAAAAT
1 AATATAAAAT
*
652907 ATTATAAAAAT
1 AATAT-AAAAT
652918 AATAT-AAAT
1 AATATAAAAT
652927 AA-ATAAAA
1 AATATAAAA
652935 ATATTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
8 9 0.24
9 17 0.45
10 3 0.08
11 9 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AATATAAAAT
Found at i:652938 original size:30 final size:28
Alignment explanation
Indices: 652885--652940 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
652875 GTATGAATAT
*
652885 AAAATAAAAAAATAATTAAAATATTATA
1 AAAATAAAAAAATAATAAAAATATTATA
*
652913 AAAATAATATAAATAAATAAAAATATTA
1 AAAATAA-AAAAAT-AATAAAAATATTA
652941 AAATTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 5 0.21
30 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAATAAAAAAATAATAAAAATATTATA
Found at i:653031 original size:20 final size:20
Alignment explanation
Indices: 652881--653043 Score: 78
Period size: 20 Copynumber: 8.1 Consensus size: 20
652871 TATGGTATGA
*
652881 ATATAAA-ATAAAAAAATA-
1 ATATAAATATATAAAAATAT
652899 AT-TAAAATATTATAAAAATA-
1 ATAT-AAATA-TATAAAAATAT
*
652919 ATATAAATAAATAAAAATAT
1 ATATAAATATATAAAAATAT
652939 -TA-AAATTTATATAATCAAAT-T
1 ATATAAA--TATATAA--AAATAT
* *
652960 ATA-AAA-ATATTAAAATTT
1 ATATAAATATATAAAAATAT
652978 ATATAAATATAATATTTTAAACATA-
1 ATATAAATAT-ATA----AAA-ATAT
653003 AT-TATAATATATAAAAATAT
1 ATATA-AATATATAAAAATAT
* *
653023 ATATAAATAAATAAATATAT
1 ATATAAATATATAAAAATAT
653043 A
1 A
653044 ATTTTTTTAT
Statistics
Matches: 115, Mismatches: 8, Indels: 42
0.70 0.05 0.25
Matches are distributed among these distances:
17 5 0.04
18 12 0.10
19 23 0.20
20 43 0.37
21 6 0.05
22 9 0.08
24 5 0.04
25 10 0.09
26 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAATATATAAAAATAT
Found at i:653364 original size:15 final size:15
Alignment explanation
Indices: 653340--653369 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
653330 AACTAATTTG
*
653340 AAATACAAAATCAAA
1 AAATAAAAAATCAAA
653355 AAATAAAAAATCAAA
1 AAATAAAAAATCAAA
653370 CCTGATAGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATAAAAAATCAAA
Found at i:653436 original size:16 final size:17
Alignment explanation
Indices: 653400--653437 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
653390 CGATTTAATT
653400 ATAATAAAAAATTAAAC
1 ATAATAAAAAATTAAAC
* *
653417 ATAATATAAATTTAAA-
1 ATAATAAAAAATTAAAC
653433 ATAAT
1 ATAAT
653438 TCAATTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAAAAAATTAAAC
Found at i:661466 original size:79 final size:79
Alignment explanation
Indices: 661375--662056 Score: 619
Period size: 79 Copynumber: 8.6 Consensus size: 79
661365 TCCTCGATGA
** * ** *
661375 AAAAATTAATATTTTGGAAATAAAGA-CGAAGTTGGACTATCCCCTCAGAAATAACGGGACTGAA
1 AAAAATTAATATTTTGGAAATAAA-ATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGA
661439 GTATCCCCGATTGTG
65 GTATCCCCGATTGTG
* * * *
661454 AAAAATTGATATTTTAGAAATAAAATTGGGGTTGGAGTATCCCCT-TGAAAATAACGGGGTTGGA
1 AAAAATTAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGA
* * *
661518 GTACCCCCAATTATG
65 GTATCCCCGATTGTG
* ** * * * * *
661533 GAAAACCAATGTTTTGGAAATAAAA-CTAGGGTTGAAGTATCCCTTC-GAAAATAATGGGGTTGG
1 AAAAATTAATATTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGG
* *
661596 AGTATCCCTGATTTTG
64 AGTATCCCCGATTGTG
* * * * *
661612 AAAAATTGATGTTTTGGAAAT-AAACCGGGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAG
1 AAAAATTAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAG
* * *
661676 TATCCTCAATTATG
66 TATCCCCGATTGTG
* * *
661690 AAAAAATAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCT-AGGAAATAACGGGGTTGGA
1 AAAAATTAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCA-GAAATAACGGGGTTGGA
*
661754 GTATCCTCGATTGTG
65 GTATCCCCGATTGTG
* * ** * *
661769 GAAAATTAATATTTTTGAAAATAAAA-CTGGGGTTGGAGTATCCTTTGA-AAATAATGGGGTTGG
1 AAAAATTAATA-TTTTGGAAATAAAATC-GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGG
*
661832 AGTATCCTCGATTGTG
64 AGTATCCCCGATTGTG
** * * * * **
661848 AAAAATTGGTGTTTTGAAAATAAAACCGGGGTTAGAGTATCCCCTCAGAAATAATAGGGTTGGAG
1 AAAAATTAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAG
*
661913 TATCCCTGATTGTG
66 TATCCCCGATTGTG
* * * * * *
661927 AAAAATCAATGTTTTTGGAAATAAAATC-GGGTATGGAGTATTCCCTAAAAAATAACGGGGTTAG
1 AAAAATTAAT-ATTTTGGAAATAAAATCGGGGT-TGGAGTATCCCCTCAGAAATAACGGGGTTGG
*
661991 AGTATCCTCGATTGTG
64 AGTATCCCCGATTGTG
* * * ** * **
662007 AAAAACTGATGTTTTAAAAATAAAACCGAAGTTGGAGTATCCCCTC-GAAA
1 AAAAATTAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAA
662057 ATAAAAATAT
Statistics
Matches: 493, Mismatches: 94, Indels: 33
0.80 0.15 0.05
Matches are distributed among these distances:
78 98 0.20
79 303 0.61
80 91 0.18
81 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (79 bp):
AAAAATTAATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAG
TATCCCCGATTGTG
Found at i:661821 original size:236 final size:233
Alignment explanation
Indices: 661375--662060 Score: 788
Period size: 236 Copynumber: 2.9 Consensus size: 233
661365 TCCTCGATGA
* * * ** * * ** *
661375 AAAAATTAATATTTTGGAAATAAAGACGAAGTTGGACTATCCCCTCAGAAATAACGGGACTGAAG
1 AAAAATTGATGTTTTGGAAATAAA-CCGGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTGGAG
* * *
661440 TATCCCCGATTGTGAAAAATTGATATTTT-AGAAATAAAATTGGGGTTGGAGTATCCCCTTGAAA
65 TAT-CCCGATTGTGAAAAATAG-TATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTAGAAA
* * * * * * * *
661504 ATAACGGGGTTGGAGTACCCCCAATTATGGAAAACCAATGTTTTGGAAATAAAACTAGGGTTGAA
127 ATAACGGGGTTGGAGTATCCTCGATTGTGGAAAACTAATGTTTTGAAAATAAAACTGGGGTTGGA
*
661569 GTATCCCTTCGAAAATAATGGGGTTGGAGTATCC-CTGATTTTG
192 GTAT-CCTTCGAAAATAATGGGGTTGGAGTATCCTC-GATTGTG
*
661612 AAAAATTGATGTTTTGGAAATAAACCGGGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGT
1 AAAAATTGATGTTTTGGAAATAAACCGGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTGGAGT
* * *
661677 ATCCTCAATTATGAAAAAATAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTAGGAAAT
66 ATCC-CGATTGTG-AAAAATAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTAGAAAAT
* *
661742 AACGGGGTTGGAGTATCCTCGATTGTGGAAAATTAATATTTTTGAAAATAAAACTGGGGTTGGAG
129 AACGGGGTTGGAGTATCCTCGATTGTGGAAAACTAAT-GTTTTGAAAATAAAACTGGGGTTGGAG
*
661807 TATCCTTTGAAAATAATGGGGTTGGAGTATCCTCGATTGTG
193 TATCCTTCGAAAATAATGGGGTTGGAGTATCCTCGATTGTG
* * **
661848 AAAAATTGGTGTTTTGAAAATAAAACCGGGGTT-AGAGTATCCCCTCAGAAATAATAGGGTTGGA
1 AAAAATTGATGTTTTGGAAAT-AAACCGGGGTTGA-AGTATCCCCTCAGAAATAACGGGGTTGGA
* * *
661912 GTATCCCTGATTGTGAAAAATCAATGT-TTTTGGAAATAAAATC-GGGTATGGAGTATTCCCTAA
64 GTATCCC-GATTGTGAAAAAT--A-GTATTTTGAAAATAAAATCGGGGT-TGGAGTATCCCCTAG
* * * * * **
661975 AAAATAACGGGGTTAGAGTATCCTCGATTGTGAAAAACTGATGTTTTAAAAATAAAACCGAAGTT
124 AAAATAACGGGGTTGGAGTATCCTCGATTGTGGAAAACTAATGTTTTGAAAATAAAACTGGGGTT
*
662040 GGAGTATCCCCTCGAAAATAA
189 GGAGTAT-CCTTCGAAAATAA
662061 AAATATGAAT
Statistics
Matches: 385, Mismatches: 51, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
235 2 0.01
236 170 0.44
237 134 0.35
238 77 0.20
239 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (233 bp):
AAAAATTGATGTTTTGGAAATAAACCGGGGTTGAAGTATCCCCTCAGAAATAACGGGGTTGGAGT
ATCCCGATTGTGAAAAATAGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTAGAAAATAA
CGGGGTTGGAGTATCCTCGATTGTGGAAAACTAATGTTTTGAAAATAAAACTGGGGTTGGAGTAT
CCTTCGAAAATAATGGGGTTGGAGTATCCTCGATTGTG
Found at i:661833 original size:27 final size:29
Alignment explanation
Indices: 661782--661839 Score: 93
Period size: 27 Copynumber: 2.0 Consensus size: 29
661772 AATTAATATT
661782 TTTGAAAATAAAACTGGGGTTGGAGTATCC
1 TTTGAAAAT-AAACTGGGGTTGGAGTATCC
661812 TTTGAAAAT-AA-TGGGGTTGGAGTATCC
1 TTTGAAAATAAACTGGGGTTGGAGTATCC
661839 T
1 T
661840 CGATTGTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 17 0.61
28 2 0.07
30 9 0.32
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.33
Consensus pattern (29 bp):
TTTGAAAATAAACTGGGGTTGGAGTATCC
Found at i:664463 original size:20 final size:20
Alignment explanation
Indices: 664438--664492 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
664428 TAAAACCTAG
664438 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
664458 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
664478 AATGTATCGATACAA
1 AATGTATCGATACAA
664493 ATTGTGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:664891 original size:3 final size:3
Alignment explanation
Indices: 664883--664915 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
664873 ATGACATTTG
*
664883 ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
664916 TTTGGGGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:665425 original size:45 final size:44
Alignment explanation
Indices: 665376--666021 Score: 293
Period size: 45 Copynumber: 15.1 Consensus size: 44
665366 AGAATAAAAG
*
665376 AAAAAA-GAAATAAAGTGCATCCTGCTATTTGAGGATAAATGAGA
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAA-GAGA
* * * *
665420 AAAAAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAACG-GA
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAA-GAGA
* * * * *
665464 AAATAAGGAAATGAGGTGCACCCTGCTTTTTGAGGACAAAG-G-
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAAGAGA
* * *
665506 AAAAAAGGAAA-AAAATGCGTCCTGC-ATTTTGAGGACAAAAGGGA
1 AAAAAAGGAAATAAAGTGCATCCTGCTA-TTTGAGGAC-AAAGAGA
* * ** * *
665550 AAAGAAA-AAAATAAAATGTTTCATGCTTTTTGAGGACAAAGAAGA
1 AAA-AAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAAG-AGA
* * *
665595 AAAGAAGGAAATGAAATGTG--TCCTGTTCTTTGAGGACAAATGAG-
1 AAAAAAGGAAAT-AAA-GTGCATCCTGCTATTTGAGGACAAA-GAGA
* * * *
665639 --AAAAGG-AA-AAA--GCATCATGCTCTTTGAAGACTAAGAG-
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAAGAGA
* * * * *
665676 AAAAAAGGAAATGAGGTGC-GCCTTGCTCTTTGAGGA-TAA-AG-
1 AAAAAAGGAAATAAAGTGCATCC-TGCTATTTGAGGACAAAGAGA
* ** * * *
665717 AAAAAAGGAAATAAAGTGCGTTTTGCTCTTTGAGGACAAAAAAGG
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGAC-AAAGAGA
* * ** * * *
665762 AAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAAGGGA
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAAGAGA
* * *
665806 AAATAAA-GAAATGAAACGTG--TCTTGCTCTTTAAGGAC-AA-AGA
1 AAA-AAAGGAAAT-AAA-GTGCATCCTGCTATTTGAGGACAAAGAGA
* * * * * *
665848 AGAAAAGG-AA-AAA--GCGTCCTACTCTTTGAGGACTAAGGGA
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAAGAGA
* * * * * *
665888 AAATAAGGAAATGAGGTG-AGTCCTACTCTTTGAGGACAAA-A-T
1 AAAAAAGGAAATAAAGTGCA-TCCTGCTATTTGAGGACAAAGAGA
* * *
665930 AAAAAA-GAAATAAAGTGCATCTTGCTCTTTGAAGACAAAAGAGA
1 AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGAC-AAAGAGA
* *
665974 AAAGAAGGAAATGAAATGTG--TCCTGCTCTTTGAGGACAAAGGAGA
1 AAAAAAGGAAAT-AAA-GTGCATCCTGCTATTTGAGGACAAA-GAGA
666019 AAA
1 AAA
666022 GGAAAAGGCG
Statistics
Matches: 469, Mismatches: 85, Indels: 95
0.72 0.13 0.15
Matches are distributed among these distances:
36 2 0.00
37 3 0.01
38 30 0.06
39 14 0.03
40 10 0.02
41 83 0.18
42 38 0.08
43 22 0.05
44 110 0.23
45 142 0.30
46 10 0.02
47 5 0.01
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.21
Consensus pattern (44 bp):
AAAAAAGGAAATAAAGTGCATCCTGCTATTTGAGGACAAAGAGA
Found at i:665450 original size:86 final size:84
Alignment explanation
Indices: 665232--666048 Score: 481
Period size: 86 Copynumber: 9.7 Consensus size: 84
665222 GAAAGCGTCC
** * *
665232 TGCTCTTTGAGGACAAA-AGGAAAAGAAGGAAATGAAACGTGTCCTGCTCTTTGAGGACAAACGA
1 TGCTCTTTGAGGACAAAGA-GAAAA-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGA
* * *
665296 GAAAAG-GA-AAAG-GCGTC-
64 AAAAAGAAATAAAGTGCATCA
* * * * * * * * * *
665313 TACTCTTTGAAGACTAAGAGAAAAGAAAGAAAT-AAGGTGTGCCCTGTTCTTTAAGAATAAAAGA
1 TGCTCTTTGAGGACAAAGAGAAAA-AAGGAAATGAA-GTGCGTCCTGCTCTTTGAGGACAAAAGA
*
665377 AAAAAGAAATAAAGTGCATCC
64 AAAAAGAAATAAAGTGCATCA
* * * *
665398 TGCTATTTGAGGATAAATGAGAAAAAAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAACGG
1 TGCTCTTTGAGGACAAA-GAG-AAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA-AG
* * * *
665463 AAAATAAGGAAATGAGGTGCACCC
63 AAAA-AA-GAAATAAAGTGCATCA
* * *
665487 TGCTTTTTGAGGACAAAG-GAAAAAAGGAAA-AAAATGCGTCCTGCAT-TTTGAGGACAAAAGGG
1 TGCTCTTTGAGGACAAAGAGAAAAAAGGAAATGAAGTGCGTCCTGC-TCTTTGAGGACAAAA--G
* * **
665549 AAAAGAAAAAAATAAAATGTTTCA
63 -AAA-AAAGAAATAAAGTGCATCA
* * * * *
665573 TGCTTTTTGAGGACAAAGAAGAAAAGAAGGAAATGAAATGTGTCCTGTTCTTTGAGGACAAATGA
1 TGCTCTTTGAGGACAAAG-AGAAAA-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGA
* *
665638 GAAAAGGAA-AAA--GCATCA
64 AAAAAGAAATAAAGTGCATCA
* * * *
665656 TGCTCTTTGAAGACTAAGAGAAAAAAGGAAATGAGGTGCG-CCTTGCTCTTTGAGGA-TAAAGAA
1 TGCTCTTTGAGGACAAAGAGAAAAAAGGAAATGAAGTGCGTCC-TGCTCTTTGAGGACAAAAGAA
* **
665719 AAAAGGAAATAAAGTGCGTTT
65 AAAA-GAAATAAAGTGCATCA
* * * * *
665740 TGCTCTTTGAGGACAAAAAAGGAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAAGGG
1 TGCTCTTTGAGGAC-AAAGA-GAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAA-AG
*
665805 AAAATAAAGAAATGAAACGTG--TCT
63 -AAA-AAAGAAAT-AAA-GTGCATCA
* * * **
665829 TGCTCTTTAAGGACAAAGA-AGAAAAGGAAA--AA--GCGTCCTACTCTTTGAGGACTAAGGGAA
1 TGCTCTTTGAGGACAAAGAGAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAAAGAA
* * *
665889 AATAAGGAAATGAGGTG-AGTCC
65 AA-AA-GAAATAAAGTGCA-TCA
* * * * * *
665911 TACTCTTTGAGGACAAA-ATAAAAAA-GAAATAAAGTGCATCTTGCTCTTTGAAGACAAAAGAGA
1 TGCTCTTTGAGGACAAAGAGAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC-AAA-AGA
*
665974 AAAGAAGGAAATGAAATGTG--TCC
64 AAA-AA-GAAAT-AAA-GTGCATCA
*
665997 TGCTCTTTGAGGACAAAG-GAGAAAAGG-AA--AAG-GCGTCCTGCTCTTTGAGGAC
1 TGCTCTTTGAGGACAAAGAGAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC
666049 TGAAAATGAG
Statistics
Matches: 576, Mismatches: 109, Indels: 100
0.73 0.14 0.13
Matches are distributed among these distances:
80 16 0.03
81 91 0.16
82 57 0.10
83 44 0.08
84 25 0.04
85 59 0.10
86 150 0.26
87 25 0.04
88 18 0.03
89 59 0.10
90 29 0.05
91 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (84 bp):
TGCTCTTTGAGGACAAAGAGAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAA
AAAGAAATAAAGTGCATCA
Found at i:665509 original size:130 final size:125
Alignment explanation
Indices: 665354--666047 Score: 328
Period size: 130 Copynumber: 5.4 Consensus size: 125
665344 ATAAGGTGTG
* * * *
665354 CCCTGTTCTTTAAGAATAAAAGAAAAAAGAAATAAAGTGCATCCTGCTATTTGAGGATAAATGAG
1 CCCTGTTCTTTGAGGACAAAGGAAAAAAGAAA-AAA-TGCATCCTGCTATTTGAGGATAAA-GAG
**
665419 AAAAAAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAACGGAAAATAAGGAAATGAGGTGCA
63 AAAAAAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAA-GGAAAA-AAGGAAATGAAATGCA
* *
665484 CCCTGCTT-TTTGAGGACAAAGGAAAAAAGGAAAAAAATGCGTCCTGC-ATTTTGAGGACAAAAG
1 CCCTG-TTCTTTGAGGACAAAGGAAAAAA-G-AAAAAATGCATCCTGCTA-TTTGAGGA-TAAAG
* * * * ** *
665547 GGAAAAGAAA-AAAATAAAATGTTTCATGCTTTTTGAGGACAAAGAAGAAAAGAAGGAAATGAAA
61 AGAAAA-AAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAAG--GAAAA-AAGGAAATGAAA
**
665611 TGTG
122 TGCA
* * * * * * *
665615 TCCTGTTCTTTGAGGACAAATGAGAAAAGGAAAAA-GCATCATGCTCTTTGAAGACT-AAGAG-A
1 CCCTGTTCTTTGAGGACAAAGGAAAAAAGAAAAAATGCATCCTGCTATTTGAGGA-TAAAGAGAA
* * * * *
665677 AAAAAGGAAATGAGGTGCGCCTTGCTCTTTGAGGATAAA-GAAAAAAGGAAAT-AAAGTGCG
65 AAAAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAA-TGCA
*** * * * ** * * *
665737 TTTTGCTCTTTGAGGACAAAAAAGGAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAA
1 CCCTGTTCTTTGAGGAC---AAAGGAAA-AAAGAAA--AAATGCATCCTGCTATTTGAGGATAAA
* ** * * *
665802 GGGAAAATAAA-GAAATGAAACGTGTCTTGCTCTTTAAGGACAAA-GAAGAAAAGG-AA--AAA-
60 GAGAAAA-AAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAAGGAA-AAAAGGAAATGAAAT
*
665861 GCG
123 GCA
* ** * ** * * *
665864 TCCTACTCTTTGAGGACTAAGGGAAAATAAGGAAATGAGGTG-AGTCCTACTCTTTGAGGACAAA
1 CCCTGTTCTTTGAGGAC-AAAGGAAAA-AA-GAAA--AAATGCA-TCCTGCTATTTGAGGATAAA
* * * * *
665928 -A-TAAAAAA-GAAATAAAGTGCATCTTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAAA
60 GAGAAAAAAAGGAAATGAAGTGCGTCATGCTCTTTGAGGAC-AAAG-GAAAA-AAGGAAATGAAA
**
665990 TGTG
122 TGCA
* * * * * * *
665994 TCCTGCTCTTTGAGGACAAAGGAGAAAAG-GAAAAGGCGTCCTGCTCTTTGAGGA
1 CCCTGTTCTTTGAGGACAAAGGAAAAAAGAAAAAATGCATCCTGCTATTTGAGGA
666048 CTGAAAATGA
Statistics
Matches: 441, Mismatches: 88, Indels: 76
0.73 0.15 0.13
Matches are distributed among these distances:
121 3 0.01
122 25 0.06
123 31 0.07
124 24 0.05
125 19 0.04
126 67 0.15
127 24 0.05
128 19 0.04
129 40 0.09
130 126 0.29
131 60 0.14
132 3 0.01
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.21
Consensus pattern (125 bp):
CCCTGTTCTTTGAGGACAAAGGAAAAAAGAAAAAATGCATCCTGCTATTTGAGGATAAAGAGAAA
AAAAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAAGGAAAAAAGGAAATGAAATGCA
Found at i:665694 original size:212 final size:211
Alignment explanation
Indices: 665217--666022 Score: 718
Period size: 212 Copynumber: 3.8 Consensus size: 211
665207 TGGGCTTTAC
* * * * * * *
665217 AAGGAGAAAGCGTCCTGCTCTTTGAGGACAAAAGGAAAAGAAGGAAATGAAACGTG--TCCTGCT
1 AAGGAAAAAGCATCATGCTCTTTGAGGAC-TAAGGAAAATAAGGAAATG--AGGTGCACCCTGCT
* * * * *
665280 CTTTGAGGACAAACGAGAAAAGG--A-AAAG-GCGTC-TACTCTTTGAAGAC-TAAGAGAAAAGA
63 CTTTGAGGACAAA-GAAAAAAGGAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGGGAAAAGA
* * * * * * *
665339 AAGAAAT-AAGGTGTGCCCTGTTCTTTAAGAATAAA-AG-AAA-AAAGAAAT-AAA-GTGCATCC
127 AGGAAATGAA-ATGTGTCCTGCTCTTTGAGGACAAAGAGAAAAGAAAGAAATGAAACGTG--TCC
* * * *
665398 TGCTATTTGAGGATAAATGAGAAAAA
189 TGCTCTTTAAGGA-CAA--AGAAGAA
* *
665424 AAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAAACGGAAAATAAGGAAATGAGGTGCACCCTG
1 AAGGAAA--AA--GCATCATGCTCTTTGAGGACTAA-GGAAAATAAGGAAATGAGGTGCACCCTG
* * *
665489 CTTTTTGAGGACAAAGGAAAAAAGGAAA-AAAATGCGTCCTGCAT-TTTGAGGACAAAAGGGAAA
61 CTCTTTGAGGACAAA-GAAAAAAGGAAATAAAGTGCGTCTTGC-TCTTTGAGGACAAAAGGGAAA
** * * * * * *
665552 AGAAAAAAATAAAATGTTTCATGCTTTTTGAGGACAAAGAAGAAAAGAAGGAAATGAAATGTGTC
124 AGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAG-AGAAAAGAAAGAAATGAAACGTGTC
* *
665617 CTGTTCTTTGAGGACAAATG-AGAA
188 CTGCTCTTTAAGGACAAA-GAAGAA
* * *
665641 AAGGAAAAAGCATCATGCTCTTTGAAGACTAAGAGAAAA-AAGGAAATGAGGTGCGCCTTGCTCT
1 AAGGAAAAAGCATCATGCTCTTTGAGGACTAAG-GAAAATAAGGAAATGAGGTGCACCCTGCTCT
* * *
665705 TTGAGGATAAAGAAAAAAGGAAATAAAGTGCGTTTTGCTCTTTGAGGACAAAAAAGG-AAAGAAG
65 TTGAGGACAAAGAAAAAAGGAAATAAAGTGCGTCTTGCTCTTTGAGGAC-AAAAGGGAAAAGAAG
* * * * *
665769 GAAATGAAGTGTGTCCTGCTCTTTGAAGACAAAGGGAAAATAAAGAAATGAAACGTGTCTTGCTC
129 GAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGAGAAAAGAAAGAAATGAAACGTGTCCTGCTC
665834 TTTAAGGACAAAGAAGAA
194 TTTAAGGACAAAGAAGAA
* * * * *
665852 AAGGAAAAAGCGTCCTACTCTTTGAGGACTAAGGGAAAATAAGGAAATGAGGTG-AGTCCTACTC
1 AAGGAAAAAGCATCATGCTCTTTGAGGACTAA-GGAAAATAAGGAAATGAGGTGCA-CCCTGCTC
* * * *
665916 TTTGAGGACAAA-ATAAAAAAGAAATAAAGTGCATCTTGCTCTTTGAAGACAAAAGAGAAAAGAA
64 TTTGAGGACAAAGA-AAAAAGGAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGGGAAAAGAA
665980 GGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAG
128 GGAAATGAAATGTGTCCTGCTCTTTGAGGACAAA-GAGAAAAG
666023 GAAAAGGCGT
Statistics
Matches: 494, Mismatches: 73, Indels: 58
0.79 0.12 0.09
Matches are distributed among these distances:
207 6 0.01
209 6 0.01
210 4 0.01
211 152 0.31
212 187 0.38
213 41 0.08
214 5 0.01
215 12 0.02
216 33 0.07
217 13 0.03
218 3 0.01
219 5 0.01
220 21 0.04
221 3 0.01
222 3 0.01
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.21
Consensus pattern (211 bp):
AAGGAAAAAGCATCATGCTCTTTGAGGACTAAGGAAAATAAGGAAATGAGGTGCACCCTGCTCTT
TGAGGACAAAGAAAAAAGGAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGGGAAAAGAAGGA
AATGAAATGTGTCCTGCTCTTTGAGGACAAAGAGAAAAGAAAGAAATGAAACGTGTCCTGCTCTT
TAAGGACAAAGAAGAA
Found at i:665886 original size:82 final size:82
Alignment explanation
Indices: 665781--666044 Score: 305
Period size: 82 Copynumber: 3.2 Consensus size: 82
665771 AATGAAGTGT
* * * *
665781 GTCCTGCTCTTTGAAGACAAAGGGAAAATAAAGAAATGAAACGTGTCTTGCTCTTTAAGGACAAA
1 GTCCTGCTCTTTGAAGACAAAGGGAAAATAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAA
665846 GAAGAAAAGGAAAAAGC
66 GAAGAAAAGGAAAAAGC
* * * ** * *
665863 GTCCTACTCTTTGAGGACTAAGGGAAAATAAGGAAATGAGGTGAGTCCTACTCTTTGAGGACAAA
1 GTCCTGCTCTTTGAAGACAAAGGGAAAATAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAA
* *
665928 -ATAAAAAAGAAATAAAGTGC
66 GA-AGAAAAGGAA-AAA--GC
* * * *
665948 ATCTTGCTCTTTGAAGACAAAAGAGAAAAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAA
1 GTCCTGCTCTTTGAAGAC-AAAGGGAAAATAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAA
* *
666013 AGGAGAAAAGGAAAAGGC
65 AGAAGAAAAGGAAAAAGC
666031 GTCCTGCTCTTTGA
1 GTCCTGCTCTTTGA
666045 GGACTGAAAA
Statistics
Matches: 146, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
81 1 0.01
82 62 0.42
83 17 0.12
85 18 0.12
86 48 0.33
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (82 bp):
GTCCTGCTCTTTGAAGACAAAGGGAAAATAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAA
GAAGAAAAGGAAAAAGC
Found at i:666003 original size:168 final size:170
Alignment explanation
Indices: 665742--666049 Score: 451
Period size: 168 Copynumber: 1.8 Consensus size: 170
665732 GTGCGTTTTG
* ** *
665742 CTCTTTGAGGACAAAAAAGGAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAAGACAAAGGGAA
1 CTCTTTGAGGACAAAAAA-GAAAGAAGGAAATAAAGTGCATCCTGCTCTTTGAAGACAAAGAGAA
* *
665807 AATAAAGAAATGAAACGTGTCTTGCTCTTTAAGGACAAAGAAGAAAAGGAAAAAGCGTCCTACTC
65 AAGAAAGAAATGAAACGTGTCCTGCTCTTTAAGGACAAAGAAGAAAAGGAAAAAGCGTCCTACTC
665872 TTTGAGGACTAAGGGAAAATAAGGAAATGAGGTGAGTCCTA
130 TTTGAGGACTAAGGGAAAATAAGGAAATGAGGTGAGTCCTA
* *
665913 CTCTTTGAGGACAAAATA-AAA-AA-GAAATAAAGTGCATCTTGCTCTTTGAAGACAAAAGAGAA
1 CTCTTTGAGGACAAAAAAGAAAGAAGGAAATAAAGTGCATCCTGCTCTTTGAAGAC-AAAGAGAA
* * * * * *
665975 AAGAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAGGCGTCCTGCTC
65 AAGAAAGAAATGAAACGTGTCCTGCTCTTTAAGGACAAAGAAGAAAAGGAAAAAGCGTCCTACTC
666040 TTTGAGGACT
130 TTTGAGGACT
666050 GAAAATGAGT
Statistics
Matches: 122, Mismatches: 14, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
167 26 0.21
168 76 0.62
169 3 0.02
171 17 0.14
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (170 bp):
CTCTTTGAGGACAAAAAAGAAAGAAGGAAATAAAGTGCATCCTGCTCTTTGAAGACAAAGAGAAA
AGAAAGAAATGAAACGTGTCCTGCTCTTTAAGGACAAAGAAGAAAAGGAAAAAGCGTCCTACTCT
TTGAGGACTAAGGGAAAATAAGGAAATGAGGTGAGTCCTA
Found at i:666223 original size:44 final size:43
Alignment explanation
Indices: 666171--666414 Score: 229
Period size: 44 Copynumber: 5.7 Consensus size: 43
666161 GAAAGCGCCT
666171 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGTCTCC
1 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAAT-AAATGTCTCC
* * *
666215 TACTCTTTGAGGACAAA-GGAGAA-AAGG--A-AAA-GGCATCC
1 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAATGTC-TCC
* * *
666253 TGCTCTTTGAGGACTAAGGGAAAAGAAGGAAATAAGGTGTGTCC
1 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAA-ATGTCTCC
* * *
666297 TACTCTTTGAGGACAAA-GG-AAA-AATGAAATAAA-GTGCATCT
1 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAATGT-C-TCC
* * *
666338 TGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGTGTCC
1 TGCTCTTTGAGGAC-AAAGGGAAAAGAAGGAAAT-AAATGTCTCC
* *
666383 TGCTTTTTGAGGACAAAGGGAAAATAAGGAAA
1 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAA
666415 AGGCGTCCTG
Statistics
Matches: 160, Mismatches: 24, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
37 2 0.01
38 21 0.13
39 7 0.04
40 5 0.03
41 24 0.15
42 11 0.07
43 10 0.06
44 53 0.33
45 23 0.14
46 2 0.01
47 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (43 bp):
TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATAAATGTCTCC
Found at i:666298 original size:82 final size:81
Alignment explanation
Indices: 666171--666436 Score: 354
Period size: 82 Copynumber: 3.2 Consensus size: 81
666161 GAAAGCGCCT
* *
666171 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAATGTCTCCTACTCTTTGAGGACAAAGGAG
1 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTACTCTTTGAGGACAAAGGA-
666236 AAAAGGAAAAGGCATCC
65 AAAAGGAAAAGGCATCC
*
666253 TGCTCTTTGAGGACTAAGGGAAAAGAAGGAAAT-AAGGTGTGTCCTACTCTTTGAGGACAAAGGA
1 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAA-GTGTGTCCTACTCTTTGAGGACAAAGGA
* *
666317 AAAATGAAATAAAGTGCATCT
65 AAAA-G-GA-AAAG-GCATCC
* * *
666338 TGCTCTTTGAGGACAAAAGAGAAAAGAAGGAAATGAAGTGTGTCCTGCTTTTTGAGGACAAAGGG
1 TGCTCTTTGAGGAC-AAAGGGAAAAGAAGGAAATGAAGTGTGTCCTACTCTTTGAGGACAAA-GG
*
666403 AAAATAAGGAAAAGGCGTCC
64 -AAA-AAGGAAAAGGCATCC
666423 TGCTCTTTGAGGAC
1 TGCTCTTTGAGGAC
666437 TGAAAAGTGC
Statistics
Matches: 162, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
81 6 0.04
82 59 0.36
83 1 0.01
84 4 0.02
85 37 0.23
86 44 0.27
87 5 0.03
88 4 0.02
89 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (81 bp):
TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAATGAAGTGTGTCCTACTCTTTGAGGACAAAGGAA
AAAGGAAAAGGCATCC
Found at i:666508 original size:61 final size:61
Alignment explanation
Indices: 666408--666864 Score: 546
Period size: 61 Copynumber: 7.5 Consensus size: 61
666398 AAGGGAAAAT
* * *
666408 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCATCAACTCGTGCGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAA
** * *
666469 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCATGTTGTGTGAGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAA
* * * * * *
666530 CA-GAAAAGAAGTGTCATGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAG--GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAA
* * * * *
666592 AAGGAAAAGACGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAAGTTGTGTGAGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAA
* * * * *
666653 AAGGAAAGGGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGGCTTCAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAA
* *
666714 AAGGAAAAGACGTCCTACTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTCGTGTGGGCTTT-AA
* * ** * *
666776 AAGAAAAAGGTGTCCTGCTCTTTGAGGACT-AAAGGGTGCCATTAACTCGTGTGGACTTGAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCACCAACTCGTGTGGGCTTTAA
*
666837 AAGG-AAA-GCATCCTGCTCTTTGAGGACT
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACT
666865 AAAAATGCTA
Statistics
Matches: 341, Mismatches: 50, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
59 19 0.06
60 12 0.04
61 205 0.60
62 99 0.29
63 6 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (61 bp):
AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTAA
Found at i:666591 original size:123 final size:123
Alignment explanation
Indices: 666419--666864 Score: 582
Period size: 123 Copynumber: 3.7 Consensus size: 123
666409 AGGAAAAGGC
* * *
666419 GTCCTGCTCTTTGAGGACTGAAAAGTGCCATCAACTCGTGCGGGCTTTAAAAGGAAAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGACGTCC
* * *
666484 TGCTCTTTGAGGACTGAAAGGTGCCACCATGTTGTGTGAGCTTTAACAGAAAAGAAGT
66 TGCTCTTTGAGGACTGAAAGGTGCCACCAAGTTGTGTGAGCTTTAAAAGAAAAGAGGT
* * *
666542 GTCATGCTCTTCGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTC
1 GTCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGACGTC
* * *
666606 CTGCTCTTTAAGGACTGAAAGGTGCCACCAAGTTGTGTGAGCTTTAAAAGGAAAG-GGC
65 CTGCTCTTTGAGGACTGAAAGGTGCCACCAAGTTGTGTGAGCTTTAAAAGAAAAGAGGT
* * *
666664 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGGCTTCAAAAGGAAAAGACGTCC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGACGTCC
* * * *
666729 TACTCTTTGAGGACT-AAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAA-AGGT
66 TGCTCTTTGAGGACTGAAA-GGTGCCACCAAGTTGTGTGAGCTTT-AAAAGAAAAGAGGT
* ** * * *
666787 GTCCTGCTCTTTGAGGACT-AAAGGGTGCCATTAACTCGTGTGGACTTGAAAAGG-AAAG-CATC
1 GTCCTGCTCTTTGAGGACTGAAA-AGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGACGTC
666849 CTGCTCTTTGAGGACT
65 CTGCTCTTTGAGGACT
666865 AAAAATGCTA
Statistics
Matches: 283, Mismatches: 34, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
121 21 0.07
122 101 0.36
123 161 0.57
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (123 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAAGACGTCC
TGCTCTTTGAGGACTGAAAGGTGCCACCAAGTTGTGTGAGCTTTAAAAGAAAAGAGGT
Found at i:666793 original size:184 final size:182
Alignment explanation
Indices: 666412--666869 Score: 564
Period size: 184 Copynumber: 2.5 Consensus size: 182
666402 GAAAATAAGG
* *
666412 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCATCAACTCGTGCGGGCTTTAAAAGGAAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCATCAACTCGTG-TGGCTTTAAAAGG-AAA
* ** ** * * *
666477 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCATGTTGTGTGAGCTTTAACAGAAAAGAAGT
64 GGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGAGCTTCAAAAGAAAAGAAGC
* * *
666542 GTCATGCTCTTCGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
129 GTCATACTCTTCGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA
* * * * *
666596 AAAAGACGTCCTGCTCTTTAAGGACTGAAAGGTGCCACCAAGTTGTGTGAGCTTTAAAAGGAAAG
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCATCAACTCGTGTG-GCTTTAAAAGGAAA-
* *
666661 GGCGTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGGGCTTCAAAAGGAAAAG-A-
64 GGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGAGCTTCAAAA-GAAAAGAAG
* * *
666724 CGTCCTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTGGGCTTTGAAAAGA
128 CGTCATACTCTTCGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGA
* * *
666780 AAAAGGTGTCCTGCTCTTTGAGGACT-AAAGGGTGCCATTAACTCGTGTGGACTTGAAAAGGAAA
1 AAAAGGCGTCCTGCTCTTTGAGGACTGAAA-GGTGCCATCAACTCGTGTGG-CTTTAAAAGGAAA
* *
666844 -GCATCCTGCTCTTTGAGGACTAAAAA
64 GGCGTCCTGCTCTTTGAGGACTGAAAA
666870 TGCTAAAAGG
Statistics
Matches: 234, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
182 23 0.10
183 51 0.22
184 154 0.66
185 6 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (182 bp):
AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCATCAACTCGTGTGGCTTTAAAAGGAAAGG
CGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCATGTGAGCTTCAAAAGAAAAGAAGCGT
CATACTCTTCGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGA
Found at i:673524 original size:159 final size:157
Alignment explanation
Indices: 673073--673659 Score: 682
Period size: 159 Copynumber: 3.7 Consensus size: 157
673063 TATTTTAGAG
* * ** *
673073 ATAAAGACAGGGTTAGAGTATCCCCTC-AGAAATAATGGGACTGGAATATCC-CTGATTGTGGAA
1 ATAAA-ACCGGGTTGGAGTATCCCCTCGA-AAATAATGGGGTTGGAGTATCCTC-GATTGTGGAA
* * ** * * ** *
673136 AATTGATATTTTAAAAAGAAAA-TCGGGGTTGGAGTATCTCCTTGAAAATAACGGGGTTGGAGTT
63 AATCGATGTTTTGGAAATAAAACT-GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTA
* * * *
673200 TCCCCAATTATGGAAAATCGATGTTTTGAAA
127 TCCCCGATTGTGGAAAATTGGTGTTTTGAAA
* * *
673231 ATAAAATCGGGTTGGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATCCTCGATTTTGG-AAAT
1 ATAAAACCGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCGATTGTGGAAAAT
* *
673295 CGATGTTTTGGAAATAAAA-TCGGGGTTGGAGTATCCCCTCAAAAATGACGGGGTTTGAGTATCC
66 CGATGTTTTGGAAATAAAACT-GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCC
673359 CCGATTGTGGAAAATTGGTGTTTTGAAA
130 CCGATTGTGGAAAATTGGTGTTTTGAAA
* * * *
673387 ATATAACCGAGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTTCGATTGTGGAAAA
1 ATAAAACCG-GGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCGATTGTGGAAAA
* * * *
673452 TCAATGTTTTTGGAAATAAAACTGGGGTTAGAGTATCCCCTTAAAAATAACGAGGTTGGAGTATC
65 TCGATG-TTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATC
* *
673517 CCTGATTGTGAAAAATTGGTGTTTTGAAA
129 CCCGATTGTGGAAAATTGGTGTTTTGAAA
* * *
673546 ATAAAACCGGGGTTGGAGTATCCCCTC-AGAAATAATGGGGTTGGAATATCCCCGATTGTGAAAA
1 ATAAAACC-GGGTTGGAGTATCCCCTCGA-AAATAATGGGGTTGGAGTATCCTCGATTGTGGAAA
* * * * *
673610 ACCGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAAAATAA
64 ATCGATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAA
673660 AAATATGAAT
Statistics
Matches: 368, Mismatches: 53, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
156 88 0.24
157 89 0.24
158 53 0.14
159 136 0.37
160 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (157 bp):
ATAAAACCGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCGATTGTGGAAAAT
CGATGTTTTGGAAATAAAACTGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCC
CGATTGTGGAAAATTGGTGTTTTGAAA
Found at i:673658 original size:79 final size:78
Alignment explanation
Indices: 673082--673659 Score: 615
Period size: 79 Copynumber: 7.3 Consensus size: 78
673072 GATAAAGACA
* * ** * * * *
673082 GGGTTAGAGTATCCCCTC-AGAAATAATGGGACTGGAATATCCCTGATTGTGGAAAATTGATATT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTT
* * *
673146 TTAAAAAGAAAATCG
65 TT-GAAATAAAACCG
* * * * *
673161 GGGTTGGAGTATCTCCTTGAAAATAACGGGGTTGGAGTTTCCCCAATTATGGAAAATCGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTT
*
673226 TGAAAATAAAATC-
66 TG-AAATAAAACCG
* * * *
673239 GGGTTGGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATCCTCGATTTTGG-AAATCGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTT
*
673303 TGGAAATAAAATCG
66 T-GAAATAAAACCG
* * * * *
673317 GGGTTGGAGTATCCCCTCAAAAATGACGGGGTTTGAGTATCCCCGATTGTGGAAAATTGGTGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTT
*
673382 TGAAAATATAACCG
66 TG-AAATAAAACCG
* * ** *
673396 AGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCTTCGATTGTGGAAAATCAATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATG-TT
*
673461 TTGGAAATAAAACTG
65 TT-GAAATAAAACCG
* ** * * * * *
673476 GGGTTAGAGTATCCCCTTAAAAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTT
673541 TGAAAATAAAACCG
66 TG-AAATAAAACCG
* * * *
673555 GGGTTGGAGTATCCCCTC-AGAAATAATGGGGTTGGAATATCCCCGATTGTGAAAAACCGATGTT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTT
673619 TTAGAAATAAAACCG
65 TT-GAAATAAAACCG
*
673634 AGGTTGGAGTATCCCCTCGAAAATAA
1 GGGTTGGAGTATCCCCTCGAAAATAA
673660 AAATATGAAT
Statistics
Matches: 417, Mismatches: 70, Indels: 24
0.82 0.14 0.05
Matches are distributed among these distances:
77 23 0.06
78 93 0.22
79 235 0.56
80 65 0.16
81 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTT
TGAAATAAAACCG
Found at i:676032 original size:20 final size:20
Alignment explanation
Indices: 676009--676060 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
675999 TAAAACCCAG
676009 AATGTATCGATAAAATGAAC
1 AATGTATCGATAAAATGAAC
*
676029 AATGTATCGATAGAATGAAC
1 AATGTATCGATAAAATGAAC
676049 AATGTATCGATA
1 AATGTATCGATA
676061 CATCTAGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (20 bp):
AATGTATCGATAAAATGAAC
Found at i:676080 original size:71 final size:70
Alignment explanation
Indices: 675979--676111 Score: 230
Period size: 71 Copynumber: 1.9 Consensus size: 70
675969 AAAATGCCTG
* *
675979 AATGTATTGATACATCTAGGTAAAACCCAGAATGTATCGATAAAATGAACAATGTATCGATAGAA
1 AATGTATCGATACATCTAGGTAAAACCCAGAATGTATCAATAAAATGAACAATGTATCGATAGAA
676044 TGAAC
66 TGAAC
*
676049 AATGTATCGATACATCTAGGGTAAAACCCAGAATGTATCAATACAATGAACAATGTATCGATA
1 AATGTATCGATACATCTA-GGTAAAACCCAGAATGTATCAATAAAATGAACAATGTATCGATA
676112 CAAATTATGA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
70 17 0.29
71 42 0.71
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.26
Consensus pattern (70 bp):
AATGTATCGATACATCTAGGTAAAACCCAGAATGTATCAATAAAATGAACAATGTATCGATAGAA
TGAAC
Found at i:676678 original size:38 final size:38
Alignment explanation
Indices: 676614--676709 Score: 140
Period size: 38 Copynumber: 2.5 Consensus size: 38
676604 AAATAAAATC
* *
676614 ACTATTTTTAACCAGCT-GCATAATTCGAAACAAAAACT
1 ACTATTCTAAACCAG-TGGCATAATTCGAAACAAAAACT
* *
676652 ACTATTCTAAACTAGTGGCATGATTCGAAACAAAAACT
1 ACTATTCTAAACCAGTGGCATAATTCGAAACAAAAACT
676690 ACTATTCTAAACCAGTGGCA
1 ACTATTCTAAACCAGTGGCA
676710 CCATTGAAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
37 1 0.02
38 51 0.98
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (38 bp):
ACTATTCTAAACCAGTGGCATAATTCGAAACAAAAACT
Found at i:679589 original size:13 final size:13
Alignment explanation
Indices: 679571--679595 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
679561 TTCAACGATT
679571 TGTATCGATACAA
1 TGTATCGATACAA
679584 TGTATCGATACA
1 TGTATCGATACA
679596 TAAGTTTTGT
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:683527 original size:20 final size:19
Alignment explanation
Indices: 683500--683576 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
683490 GTAAAAAGAT
*
683500 AAAATGTATCGATACATTT
1 AAAATGTATCGATACATTC
*
683519 AAGAATGTATTGATACATTC
1 AA-AATGTATCGATACATTC
* *
683539 ATACATGTATCGATACATTGA
1 A-AAATGTATCGATACATT-C
683560 AAAATGTATCGATACAT
1 AAAATGTATCGATACAT
683577 CTAGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.04
20 45 0.92
21 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (19 bp):
AAAATGTATCGATACATTC
Found at i:684536 original size:31 final size:31
Alignment explanation
Indices: 684497--684601 Score: 146
Period size: 32 Copynumber: 3.5 Consensus size: 31
684487 CCAACGACAT
*
684497 TGGG-TTTAGAAGGGTTGCCACCAACTTGTG
1 TGGGCTTTAAAAGGGTTGCCACCAACTTGTG
684527 TGGGCTTTAGAGAA-GGTTGCCACCAACTTGTG
1 TGGGCTTTA-A-AAGGGTTGCCACCAACTTGTG
*
684559 TGGGCTTTAAAAGGGTTGCCACTAAC-T-TG
1 TGGGCTTTAAAAGGGTTGCCACCAACTTGTG
684588 TGGGCTTTAAAAGG
1 TGGGCTTTAAAAGG
684602 ATGCTACTGA
Statistics
Matches: 69, Mismatches: 2, Indels: 9
0.86 0.03 0.11
Matches are distributed among these distances:
29 16 0.23
30 7 0.10
31 17 0.25
32 27 0.39
33 2 0.03
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (31 bp):
TGGGCTTTAAAAGGGTTGCCACCAACTTGTG
Found at i:684586 original size:63 final size:58
Alignment explanation
Indices: 684497--684882 Score: 189
Period size: 56 Copynumber: 6.8 Consensus size: 58
684487 CCAACGACAT
* * *
684497 TGGG-TTTAGAAGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTG
1 TGGGCTTTAAAAGGGTTGCCACTAACTT-TGTGGGCTTTA-A-AAGGATGCCACCAAC-T-TG
* **
684559 TGGGCTTTAAAAGGGTTGCCACTAAC-TTGTGGGCTTTAAAAGGATGCTACTGACTTG
1 TGGGCTTTAAAAGGGTTGCCACTAACTTTGTGGGCTTTAAAAGGATGCCACCAACTTG
* * * * ** *
684616 TGAGCTTCAAAAGGG-TGCCACTAAC-TTATGGGCTTGAAGAAGG-TGCCACTGAC-TC
1 TGGGCTTTAAAAGGGTTGCCACTAACTTTGTGGGCTTTAA-AAGGATGCCACCAACTTG
* * * * * ** *
684671 TGGGTTTTGAAAGGG-TGCCACTGAC-TTGTGGGCTTTGAAAGGGTGCCACTGACTTA
1 TGGGCTTTAAAAGGGTTGCCACTAACTTTGTGGGCTTTAAAAGGATGCCACCAACTTG
* * * * **
684727 TGGGATTTGAGAAA--G-TGCCACTAAC-TCGT-GGCTTTGAAAGGGTGCCACTGACTTG
1 TGGGCTTT-A-AAAGGGTTGCCACTAACTTTGTGGGCTTTAAAAGGATGCCACCAACTTG
** * * * ** * *
684782 TAGGTTTTTGAAAA--GATGCCACTGAC-TTGTGGGTTTTGGAAGGATGCCACTAACTCG
1 T-GGGCTTT-AAAAGGGTTGCCACTAACTTTGTGGGCTTTAAAAGGATGCCACCAACTTG
*
684839 TGGGTTTTAAAAGAGG-TGCCACTGAA-TTT-TGGGCTTTGAAAAGG
1 TGGGCTTTAAAAG-GGTTGCCACT-AACTTTGTGGGCTTT-AAAAGG
684883 GTTGTATTGA
Statistics
Matches: 269, Mismatches: 40, Indels: 34
0.78 0.12 0.10
Matches are distributed among these distances:
54 4 0.01
55 75 0.28
56 76 0.28
57 55 0.20
58 12 0.04
59 11 0.04
60 1 0.00
61 11 0.04
62 5 0.02
63 19 0.07
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (58 bp):
TGGGCTTTAAAAGGGTTGCCACTAACTTTGTGGGCTTTAAAAGGATGCCACCAACTTG
Found at i:684627 original size:28 final size:27
Alignment explanation
Indices: 684557--684874 Score: 165
Period size: 28 Copynumber: 11.3 Consensus size: 27
684547 CACCAACTTG
* *
684557 TGTGGGCTTTAAAAGGGTTGCCACTAACT
1 TGTGGGCTTCAAAA-GG-TGCCACTGACT
* *
684586 TGTGGGCTTTAAAAGGATGCTACTGACT
1 TGTGGGCTTCAAAAGG-TGCCACTGACT
* *
684614 TGTGAGCTTCAAAAGGGTGCCACTAACT
1 TGTGGGCTTCAAAA-GGTGCCACTGACT
* *
684642 TATGGGCTTGAAGAAGGTGCCACTGACT
1 TGTGGGCTTCAA-AAGGTGCCACTGACT
** * *
684670 CTG-GGTTTTGAAAGGGTGCCACTGACT
1 -TGTGGGCTTCAAAAGGTGCCACTGACT
* *
684697 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGC-TTCAAAAGGTGCCACTGACT
* * * *
684725 TATGGGATTTGAGAAA-GTGCCACTAACT
1 TGTGGG-CTTCA-AAAGGTGCCACTGACT
* * *
684753 CGT-GGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGC-TTCAAAAGGTGCCACTGACT
** * *
684780 TGTAGGTTTTTGAAAAGATGCCACTGACT
1 TGT-GG-GCTTCAAAAGGTGCCACTGACT
* *** *
684809 TGTGGGTTTTGGAAGGATGCCACTAACT
1 TGTGGGCTTCAAAAGG-TGCCACTGACT
* * * *
684837 CGTGGGTTTTAAAAGAGGTGCCACTGAAT
1 TGTGGG-CTTCAAA-AGGTGCCACTGACT
*
684866 TTTGGGCTT
1 TGTGGGCTT
684875 TGAAAAGGGT
Statistics
Matches: 228, Mismatches: 46, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
26 4 0.02
27 41 0.18
28 120 0.53
29 60 0.26
30 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (27 bp):
TGTGGGCTTCAAAAGGTGCCACTGACT
Found at i:684802 original size:56 final size:55
Alignment explanation
Indices: 684575--684884 Score: 281
Period size: 56 Copynumber: 5.5 Consensus size: 55
684565 TTAAAAGGGT
* * * * *
684575 TGCCACTAACTTGTGGGCTTTAAAAGGATGCTACTGACTTGTGAG-CTTCAAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG-GTTTTGAAAA-GG
* * *
684631 TGCCACTAACTTATGGGC-TTGAAGAAGGTGCCACTGACTCTG-GGTTTTGAAAGGG
1 TGCCACTAACTTGTGGGCTTTGAA-AGGGTGCCACTGACT-TGTGGTTTTGAAAAGG
* * *
684686 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGATTTGAGAAA-G
1 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT-GGTTTTGA-AAAGG
* *
684742 TGCCACTAACTCGT-GGCTTTGAAAGGGTGCCACTGACTTGTAGGTTTTTGAAAAGA
1 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT-GG-TTTTGAAAAGG
* * * * * * *
684798 TGCCACTGACTTGTGGGTTTTGGAAGGATGCCACTAACTCGTGGGTTTTAAAAGAGG
1 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGT-GGTTTTGAAA-AGG
*
684855 TGCCACTGAA-TTTTGGGCTTTGAAAAGGGT
1 TGCCACT-AACTTGTGGGCTTTG-AAAGGGT
684885 TGTATTGACG
Statistics
Matches: 206, Mismatches: 35, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
54 1 0.00
55 68 0.33
56 84 0.41
57 47 0.23
58 6 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (55 bp):
TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGTTTTGAAAAGG
Found at i:684831 original size:84 final size:84
Alignment explanation
Indices: 684575--684881 Score: 336
Period size: 83 Copynumber: 3.7 Consensus size: 84
684565 TTAAAAGGGT
* * * * * * * * *
684575 TGCCACTAACTTGTGGGCTTTAAAAGGATGCTACTGACTTGTGAGC-TTCAAAAGGGTGCCACTA
1 TGCCACTAACTCGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTG
*
684639 ACTTATGGG-CTTGAAGAAGG
65 ACTTATGGGATTTG-AGAAGG
* * *
684659 TGCCACTGACTC-TGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
1 TGCCACTAACTCGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA
*
684723 CTTATGGGATTTGAGAAAG
66 CTTATGGGATTTGAGAAGG
* **
684742 TGCCACTAACTCGT-GGCTTTGAAAGGGTGCCACTGACTTGTAGGTTTTTGAAAAGATGCCACTG
1 TGCCACTAACTCGTGGGTTTTGAAAGGGTGCCACTGACTTGT-GGGCTTTGAAAAGATGCCACTG
* *
684806 ACTTGTGGGTTTTG-GAAGG
65 ACTTATGGGATTTGAGAAGG
* * *
684825 ATGCCACTAACTCGTGGGTTTTAAAAGAGGTGCCACTGAATTTTGGGCTTTGAAAAG
1 -TGCCACTAACTCGTGGGTTTTGAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAG
684882 GGTTGTATTG
Statistics
Matches: 189, Mismatches: 27, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
83 92 0.49
84 63 0.33
85 20 0.11
86 14 0.07
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (84 bp):
TGCCACTAACTCGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGA
CTTATGGGATTTGAGAAGG
Found at i:684957 original size:14 final size:14
Alignment explanation
Indices: 684925--684975 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
684915 CTAACAAACA
* *
684925 TTCTCGACAA-AAG
1 TTCTTGACAACAAT
* *
684938 TTCTTGACGATAAT
1 TTCTTGACAACAAT
*
684952 TTCTTGACAACCAT
1 TTCTTGACAACAAT
684966 TTCTTGACAA
1 TTCTTGACAA
684976 ATGGCAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 8 0.26
14 23 0.74
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (14 bp):
TTCTTGACAACAAT
Found at i:686186 original size:14 final size:13
Alignment explanation
Indices: 686169--686209 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
686159 GACCCTTCTA
686169 TTTTTGTTTGTTTT
1 TTTTTGTTT-TTTT
*
686183 TTTTGGTTTTTTT
1 TTTTTGTTTTTTT
686196 TGTTTTGTTTTTTT
1 T-TTTTGTTTTTTT
686210 GGTTATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTGTTTTTTT
Found at i:686198 original size:23 final size:23
Alignment explanation
Indices: 686169--686213 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
686159 GACCCTTCTA
686169 TTTTTG-TTTGTTTTTTTTGGTTT
1 TTTTTGTTTTG-TTTTTTTGGTTT
686192 TTTTTGTTTTGTTTTTTTGGTT
1 TTTTTGTTTTGTTTTTTTGGTT
686214 ATGAAAGACG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (23 bp):
TTTTTGTTTTGTTTTTTTGGTTT
Found at i:695350 original size:21 final size:21
Alignment explanation
Indices: 695326--695367 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
695316 AAAATAATGG
*
695326 GAATGAATAGCAAGAAAAAAA
1 GAATGAACAGCAAGAAAAAAA
* *
695347 GAATGAACATCAATAAAAAAA
1 GAATGAACAGCAAGAAAAAAA
695368 AGTGGCCCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.14, T:0.12
Consensus pattern (21 bp):
GAATGAACAGCAAGAAAAAAA
Found at i:698883 original size:61 final size:61
Alignment explanation
Indices: 698788--698914 Score: 229
Period size: 61 Copynumber: 2.1 Consensus size: 61
698778 CCAAGGCCAC
*
698788 AATAATGCATGATGTTCTTAAAAGGGTCATGGAAGCATGGTAAGCTCACTAAAATAAT-ACG
1 AATAATGCATGATGTTCTTAAAAGGGTCATGGAAGCATGATAAGCTCACTAAAATAATGA-G
698849 AATAATGCATGATGTTCTTAAAAGGGTCATGGAAGCATGATAAGCTCACTAAAATAATGAG
1 AATAATGCATGATGTTCTTAAAAGGGTCATGGAAGCATGATAAGCTCACTAAAATAATGAG
698910 AATAA
1 AATAA
698915 CAAAAACAGC
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
61 63 0.98
62 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (61 bp):
AATAATGCATGATGTTCTTAAAAGGGTCATGGAAGCATGATAAGCTCACTAAAATAATGAG
Found at i:699645 original size:20 final size:20
Alignment explanation
Indices: 699620--699742 Score: 84
Period size: 20 Copynumber: 5.6 Consensus size: 20
699610 TAACTAGATA
699620 TATCGATACATTGAAAAATG
1 TATCGATACATTGAAAAATG
699640 TATCGATACATCTGGGTAAAAAGACATAATG
1 TATCGATACAT-T--G---AAA-A-AT---G
*
699671 TATCGATACATTGAAGAATG
1 TATCGATACATTGAAAAATG
* * * *
699691 TATCAATACATTCATACATG
1 TATCGATACATTGAAAAATG
* *
699711 TATTGATACATTGAAAAATA
1 TATCGATACATTGAAAAATG
699731 TATCGATACATT
1 TATCGATACATT
699743 TGGGTAAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
20 52 0.66
21 1 0.01
23 3 0.04
24 1 0.01
25 2 0.03
26 3 0.04
27 1 0.01
28 3 0.04
30 1 0.01
31 12 0.15
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
TATCGATACATTGAAAAATG
Found at i:699723 original size:40 final size:39
Alignment explanation
Indices: 699664--699742 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 39
699654 GGTAAAAAGA
* *
699664 CATAATGTATCGATACATTGAAGAATGTATCAATACATT
1 CATAATGTATCGATACATTGAAAAATATATCAATACATT
* *
699703 CATACATGTATTGATACATTGAAAAATATATCGATACATT
1 CATA-ATGTATCGATACATTGAAAAATATATCAATACATT
699743 TGGGTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCAATACATT
Found at i:702154 original size:3 final size:3
Alignment explanation
Indices: 702146--702178 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
702136 TGATTTGGGC
*
702146 TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
702179 CTAGGTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:704006 original size:3 final size:3
Alignment explanation
Indices: 703998--704033 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
703988 TTAACCCCTT
703998 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
704034 CAACTTAGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:710784 original size:15 final size:15
Alignment explanation
Indices: 710766--710795 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
710756 AATGCTCGCA
710766 AATCCAAGCAACTTT
1 AATCCAAGCAACTTT
710781 AATCCAAGCAACTTT
1 AATCCAAGCAACTTT
710796 GTAGAGTATA
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:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (15 bp):
AATCCAAGCAACTTT
Found at i:718841 original size:17 final size:17
Alignment explanation
Indices: 718821--718854 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
718811 TTCCACTACA
718821 TTTTTGCTTTTGTTTTT
1 TTTTTGCTTTTGTTTTT
**
718838 TTTTTTTTTTTGTTTTT
1 TTTTTGCTTTTGTTTTT
718855 CCTATTTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTGCTTTTGTTTTT
Found at i:719064 original size:13 final size:12
Alignment explanation
Indices: 719025--719063 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
719015 CCTTTTTTAC
*
719025 TTTTATTTTATT
1 TTTTATTTGATT
*
719037 ATTT-TTTGATT
1 TTTTATTTGATT
719048 TTTTATTTGATT
1 TTTTATTTGATT
719060 TTTT
1 TTTT
719064 TGAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (12 bp):
TTTTATTTGATT
Found at i:719081 original size:21 final size:20
Alignment explanation
Indices: 719034--719083 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
719024 CTTTTATTTT
*
719034 ATTA-TTTTTTGATTTTTTA
1 ATTATTTTTTTGATTTTTAA
*
719053 TTTGATTTTTTTGAATTTTTAA
1 ATT-ATTTTTTTG-ATTTTTAA
719075 ATTATTTTT
1 ATTATTTTT
719084 ATTATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 1 0.04
21 13 0.52
22 9 0.36
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (20 bp):
ATTATTTTTTTGATTTTTAA
Found at i:720475 original size:20 final size:20
Alignment explanation
Indices: 720447--720486 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
720437 TCGATACAAC
720447 AAGTCAATGTATCAATACAT
1 AAGTCAATGTATCAATACAT
* *
720467 AAGTGAATGTATCGATACAT
1 AAGTCAATGTATCAATACAT
720487 GTTAGCATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (20 bp):
AAGTCAATGTATCAATACAT
Found at i:723009 original size:97 final size:98
Alignment explanation
Indices: 722860--723039 Score: 256
Period size: 97 Copynumber: 1.8 Consensus size: 98
722850 TACTTCAACC
* *
722860 TCATTTTTAAAACTTGTTAAGATTTAAAATTTATTTCTACATAAATTGTTATCATCAAGGACACT
1 TCATTTTTAAAACTCGTCAAGATTTAAAATTTATTTCTACATAAATTGTTATCATCAAGGACACT
*
722925 CCAACCCCATTCCTCTAAATGAAAACTCTAACG
66 CCAAACCCATTCCTCTAAATGAAAACTCTAACG
* * * **
722958 TCATTTTT-AAACTCGTCAAGATTT-AAATCTTATTTTTGCTTAAATTGTTATCATCGGGGACAC
1 TCATTTTTAAAACTCGTCAAGATTTAAAAT-TTATTTCTACATAAATTGTTATCATCAAGGACAC
*
723021 TCCAAACTCATTCCTCTAA
65 TCCAAACCCATTCCTCTAA
723040 TAAGATACTC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
96 4 0.06
97 60 0.83
98 8 0.11
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (98 bp):
TCATTTTTAAAACTCGTCAAGATTTAAAATTTATTTCTACATAAATTGTTATCATCAAGGACACT
CCAAACCCATTCCTCTAAATGAAAACTCTAACG
Found at i:726373 original size:25 final size:25
Alignment explanation
Indices: 726345--726408 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
726335 AGTTAGTAAT
726345 ACCTTAAATCAA-AGCCCTAAAACGA
1 ACCTTAAAT-AATAGCCCTAAAACGA
* *
726370 ACCTTAAATAATTTTGTCCTAAAACGA
1 ACCTTAAATAA--TAGCCCTAAAACGA
726397 ACCTTAAA-AATA
1 ACCTTAAATAATA
726409 AGTTTTGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 3 0.09
25 9 0.27
26 2 0.06
27 19 0.58
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (25 bp):
ACCTTAAATAATAGCCCTAAAACGA
Found at i:727058 original size:21 final size:21
Alignment explanation
Indices: 727029--727073 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
727019 AAAATAATAT
727029 TTAATTAAATTAAAAAATTACA
1 TTAATTAAATTAAAAAATTA-A
*
727051 TTAA-TAAATTAAAATATTAA
1 TTAATTAAATTAAAAAATTAA
727071 TTA
1 TTA
727074 TTATTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAATTAAATTAAAAAATTAA
Found at i:727099 original size:68 final size:68
Alignment explanation
Indices: 726953--727105 Score: 174
Period size: 68 Copynumber: 2.2 Consensus size: 68
726943 TTATTTTCAT
*
726953 ATAAAA-TTAATTAAAATTTAAAAATTTTAATAAATAGTATAATATATTAATTATTATTTTTTAA
1 ATAAAATTTAATT-AAATTAAAAAATTTTAATAAATA-TATAATATATTAATTATTATTTTTTAA
727017 TAAAA
64 TAAAA
*
727022 ATAATATTTAATTAAATTAAAAAATTACATTAATAAAT-TA-AA-ATATTAATTATTA-TTTTTA
1 ATAAAATTTAATTAAATTAAAAAATT---TTAATAAATATATAATATATTAATTATTATTTTTTA
727083 A-AAAA
63 ATAAAA
*
727088 ATTAAAAATTTAAATAAA
1 A-T-AAAATTTAATTAAA
727106 AAATAAAAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 13
0.81 0.04 0.14
Matches are distributed among these distances:
66 5 0.07
67 8 0.11
68 25 0.34
69 19 0.26
70 8 0.11
72 9 0.12
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (68 bp):
ATAAAATTTAATTAAATTAAAAAATTTTAATAAATATATAATATATTAATTATTATTTTTTAATA
AAA
Found at i:727198 original size:130 final size:131
Alignment explanation
Indices: 727018--727781 Score: 987
Period size: 128 Copynumber: 5.9 Consensus size: 131
727008 ATTTTTTAAT
* *
727018 AAAAATAATATTTAATTAA-ATTAAAAAA-TTACATTAATAAATTAAAATATTAATTATTAT-TT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
* *
727080 TTAAAAAAATTAAAAATTTAAA-T-AAAAAATAAAAAGGCTTTTTATTATTATTTTTTAATAAAA
66 TT-AAAAAATAAAAAATTTAAATTAAAAAAATAAAAAGGTTTTTTATTATTATTTTTTAATAAAA
727143 TAA
130 T-A
727146 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTAT-TT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
***
727210 TTTTTAAATAAAAAATTTTAAA-TAAAAAAATAAAAAAGG--TTTT-TTATTATTTTTTAATAAA
66 TTAAAAAATAAAAAA-TTTAAATTAAAAAAAT-AAAAAGGTTTTTTATTATTATTTTTTAATAAA
727271 ATA
129 ATA
* * *
727274 AAAAATAATATTTAATTAAGTTTTAAAAACTTTACATTAATAAATTAAAATATTTAATTATTATC
1 AAAAATAATATTTAATTAAG-TTTAAAAAATTTACATTAACAAATTAAAATA-TTAATTATTATA
* *
727339 TTTT-TAAAATAAAAAATTTTAAATT-----AA-AAAAAGGTTTTTTATTATTATTTTTTTGATA
64 TTTTAAAAAATAAAAAA-TTTAAATTAAAAAAATAAAAAGGTTTTTTATTATTA-TTTTTTAATA
727397 AAATA
127 AAATA
* *
727402 AAAAATAATATTTAATTAAGTTTAAAAACTTTACATTAATAAATTAAAATATTAATTATTATATT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATA-T
* *
727467 TTTAAAAAATAAAAAAATTAAATTAAAAAAATAGAAAGGATTTTTTATTATTATTTTTTAATAAA
65 TTTAAAAAATAAAAAATTTAAATTAAAAAAATAAAAAGG-TTTTTTATTATTATTTTTTAATAAA
727532 ATA
129 ATA
* * *
727535 AAAAATAATATTTGATTAAGTTTAAAAAAACTTGACATTAACATATTAAAATATTAATTATTATA
1 AAAAATAATATTTAATTAAGTTT-AAAAAA-TTTACATTAACAAATTAAAATATTAATTATTATA
** *
727600 TTTTTTAAAATAAAAAATTTTAAATTAAAAAAATAAAAAGAGTTTTTTATTA-TAATTTTTAATA
64 TTTTAAAAAATAAAAAA-TTTAAATTAAAAAAATAAAAAG-GTTTTTTATTATTATTTTTTAATA
727664 AAAT-
127 AAATA
* *
727668 AAAAA-AATATTTAATTGAGTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATT-T-TT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
**
727730 TTTTAAAATAAAAAATTTTAAATTAAAAAAATAAAAAGGGCTTTTTTATTAT
66 TTAAAAAATAAAAAA-TTTAAATTAAAAAAATAAAAA-GG-TTTTTTATTAT
727782 AATAATAATT
Statistics
Matches: 577, Mismatches: 30, Indels: 56
0.87 0.05 0.08
Matches are distributed among these distances:
124 7 0.01
126 17 0.03
127 48 0.08
128 125 0.22
129 78 0.14
130 103 0.18
131 18 0.03
132 24 0.04
133 47 0.08
134 48 0.08
135 61 0.11
136 1 0.00
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (131 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATT
TTAAAAAATAAAAAATTTAAATTAAAAAAATAAAAAGGTTTTTTATTATTATTTTTTAATAAAAT
A
Found at i:727240 original size:15 final size:14
Alignment explanation
Indices: 727211--727238 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
727201 TTATTATTTT
727211 TTTTAAATAAAAAA
1 TTTTAAATAAAAAA
727225 TTTTAAATAAAAAA
1 TTTTAAATAAAAAA
727239 ATAAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TTTTAAATAAAAAA
Found at i:727367 original size:14 final size:15
Alignment explanation
Indices: 727340--727369 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
727330 ATTATTATCT
727340 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
*
727355 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
727370 AGGTTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:727633 original size:16 final size:15
Alignment explanation
Indices: 727602--727631 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
727592 TTATTATATT
727602 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
*
727617 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
727632 ATAAAAAGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:727761 original size:16 final size:15
Alignment explanation
Indices: 727730--727759 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
727720 AATTATTTTT
727730 TTTTAAAATAAAAAA
1 TTTTAAAATAAAAAA
*
727745 TTTTAAATTAAAAAA
1 TTTTAAAATAAAAAA
727760 ATAAAAAGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAATAAAAAA
Found at i:728697 original size:95 final size:94
Alignment explanation
Indices: 728415--728839 Score: 508
Period size: 93 Copynumber: 4.6 Consensus size: 94
728405 CTTTATATAT
* * *
728415 ATTAGACTAATGCATGAATTATATTTGAGAATCAGATT-TTTTTTATAG--AAAAAAAGAAAAGT
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAAAAAGAAAAGT
* *
728477 TGATTGATTGTAAATATCAGACTGA-AAGG
66 TGATTGAGTGTAAATATCAAACT-ACAAGG
* * * *
728506 ATTAGACTAATGTATAAATTATATATGAGAATCAGATTCTTTTTT-TATAAAAAAAAAGAAAAGT
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAAAAAGAAAAGT
* *
728570 TGATTGAGTGTAAATATTAAACTGCAAGG
66 TGATTGAGTGTAAATATCAAACTACAAGG
* *
728599 ATTAGACTAATGCATAAATTATATCTGAAAATTAAATTCTTTTTTATAGAAAAAATAAAGAAAAG
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAA-AAAGAAAAG
* *
728664 TTGATTGGGTGTAAATGTCAAACTACAAGG
65 TTGATTGAGTGTAAATATCAAACTACAAGG
* *
728694 ATTAGACTAATGCATTAATTATATCTGAGAATTGGATT-TTTTTTATAG-AAAAAAAAGAAAAGT
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAAAAAGAAAAGT
* * * ** *
728757 TGATTGA-TAGTAAATGTCAGATTGTAAAG
66 TGATTGAGT-GTAAATATCAAACTACAAGG
* * * * *
728786 ATTAGACTAATGTATGAATTATATCTTA-AAATCGATTCTTTTTTATAGAAAAAA
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAA
728840 GACTATAAGG
Statistics
Matches: 292, Mismatches: 33, Indels: 16
0.86 0.10 0.05
Matches are distributed among these distances:
91 45 0.15
92 72 0.25
93 88 0.30
94 18 0.06
95 69 0.24
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (94 bp):
ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTCTTTTTTATAGAAAAAAAAAGAAAAGT
TGATTGAGTGTAAATATCAAACTACAAGG
Found at i:728795 original size:92 final size:91
Alignment explanation
Indices: 728415--728839 Score: 489
Period size: 92 Copynumber: 4.6 Consensus size: 91
728405 CTTTATATAT
* * *
728415 ATTAGACTAATGCATGAATTATATTTGAGAATCAGATTTTTTTTATAG-AAAAAAAGAAAAGTTG
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTTTTTTTATAGAAAAAAAAGAAAAGTTG
*
728479 ATTGATTGTAAATATCAGACTG-AAAGG
66 ATTGA-TGTAAATATCAAACTGCAAA-G
* * *
728506 ATTAGACTAATGTATAAATTATATATGAGAATCAGATTCTTTTTTTATA-AAAAAAAAGAAAAGT
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGA-T-TTTTTTTATAGAAAAAAAAGAAAAGT
* *
728570 TGATTGAGTGTAAATATTAAACTGCAAGG
64 TGATTGA-TGTAAATATCAAACTGCAAAG
* *
728599 ATTAGACTAATGCATAAATTATATCTGAAAATTAAATTCTTTTTTATAGAAAAAATAAAGAAAAG
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATT-TTTTTTATAG-AAAAA-AAAGAAAAG
* * * *
728664 TTGATTGGGTGTAAATGTCAAACTACAAGG
63 TTGATT-GATGTAAATATCAAACTGCAAAG
* *
728694 ATTAGACTAATGCATTAATTATATCTGAGAATTGGATTTTTTTTATAGAAAAAAAAGAAAAGTTG
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTTTTTTTATAGAAAAAAAAGAAAAGTTG
* * * *
728759 ATTGATAGTAAATGTCAGATTGTAAAG
66 ATTGAT-GTAAATATCAAACTGCAAAG
* * * * *
728786 ATTAGACTAATGTATGAATTATATCTTA-AAATCGATTCTTTTTTATAGAAAAAA
1 ATTAGACTAATGCATAAATTATATCTGAGAATTAGATT-TTTTTTATAGAAAAAA
728840 GACTATAAGG
Statistics
Matches: 292, Mismatches: 31, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
91 43 0.15
92 82 0.28
93 82 0.28
94 17 0.06
95 67 0.23
96 1 0.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (91 bp):
ATTAGACTAATGCATAAATTATATCTGAGAATTAGATTTTTTTTATAGAAAAAAAAGAAAAGTTG
ATTGATGTAAATATCAAACTGCAAAG
Found at i:730237 original size:24 final size:24
Alignment explanation
Indices: 730156--730237 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 24
730146 TGGAAAAGTC
730156 ACATTTTTACCTAGATGTATCGAT
1 ACATTTTTACCTAGATGTATCGAT
*
730180 ACATTTTT--C-A-ATTTATCGAT
1 ACATTTTTACCTAGATGTATCGAT
730200 ACATTCTATCTTTTACCTAGATGTATCGAT
1 --A--C-AT-TTTTACCTAGATGTATCGAT
730230 ACATTTTT
1 ACATTTTT
730238 CAATGTATCA
Statistics
Matches: 46, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
20 9 0.20
21 1 0.02
22 2 0.04
24 13 0.28
25 4 0.09
26 5 0.11
28 2 0.04
29 1 0.02
30 9 0.20
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (24 bp):
ACATTTTTACCTAGATGTATCGAT
Found at i:730245 original size:20 final size:20
Alignment explanation
Indices: 730170--730324 Score: 76
Period size: 20 Copynumber: 6.7 Consensus size: 20
730160 TTTTACCTAG
730170 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
730190 ATTTATCGATACATTCTATCTTTTACCTA
1 ATGTATCGAT--A--C-AT-TTTT--C-A
730219 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
* * * *
730240 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
730260 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
730290 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
730311 ATGTATCGATACAT
1 ATGTATCGATACAT
730325 GTAGTTAAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 42
0.67 0.06 0.27
Matches are distributed among these distances:
20 51 0.49
21 3 0.03
22 2 0.02
24 10 0.10
25 4 0.04
26 5 0.05
27 3 0.03
28 2 0.02
29 1 0.01
30 10 0.10
31 13 0.12
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:730314 original size:71 final size:70
Alignment explanation
Indices: 730170--730327 Score: 244
Period size: 71 Copynumber: 2.2 Consensus size: 70
730160 TTTTACCTAG
* * * *
730170 ATGTATCGATACATTTTTCAATTTATCGATACATTCTATCTTTTACCTAGATGTATCGATACATT
1 ATGTATCGATACATGTATCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATT
730235 TTTCA
66 TTTCA
* * *
730240 ATGTATCAATACATGTATGAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATACAT
1 ATGTATCGATACATGTATCAATGTATCGATACATTCTATC-TTTTACCCAGATGTATCGATACAT
730305 TTTTCA
65 TTTTCA
730311 ATGTATCGATACATGTA
1 ATGTATCGATACATGTA
730328 GTTAAAATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 34 0.43
71 45 0.57
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.42
Consensus pattern (70 bp):
ATGTATCGATACATGTATCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCGATACATT
TTTCA
Found at i:732755 original size:2 final size:2
Alignment explanation
Indices: 732748--732779 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
732738 AGCCTACATG
*
732748 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
732780 GCTTTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:733605 original size:32 final size:31
Alignment explanation
Indices: 733569--733628 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
733559 GATTATAAGT
733569 ATTAATTAA-AAAAATTTTAATTATTTAAAAAA
1 ATTAA-TAATAAAAATTTTAATT-TTTAAAAAA
* *
733601 ATTAATAATTATAATTTTAATTTTTAAA
1 ATTAATAATAAAAATTTTAATTTTTAAA
733629 TATTATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTAATAATAAAAATTTTAATTTTTAAAAAA
Found at i:733609 original size:20 final size:19
Alignment explanation
Indices: 733569--733612 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
733559 GATTATAAGT
* *
733569 ATTAATTAAAAAAATTTTA
1 ATTATTTAAAAAAATTATA
733588 ATTATTTAAAAAAATTAATA
1 ATTATTTAAAAAAATT-ATA
733608 ATTAT
1 ATTAT
733613 AATTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTATTTAAAAAAATTATA
Found at i:735297 original size:11 final size:11
Alignment explanation
Indices: 735281--735312 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
735271 TAATTTATCG
735281 TATTTATATTA
1 TATTTATATTA
735292 TATTTATA-TA
1 TATTTATATTA
735302 TATTT-TATTA
1 TATTTATATTA
735312 T
1 T
735313 GTCATAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 2 0.10
10 10 0.50
11 8 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTTATATTA
Found at i:745782 original size:13 final size:13
Alignment explanation
Indices: 745761--745805 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
745751 CAAAAAGCAA
745761 AAAATAAAAAAAAC
1 AAAA-AAAAAAAAC
*
745775 AAAAAAAAAAACC
1 AAAAAAAAAAAAC
* *
745788 AAAAAAACAATAC
1 AAAAAAAAAAAAC
745801 AAAAA
1 AAAAA
745806 GGGAGGGGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 23 0.85
14 4 0.15
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:745794 original size:16 final size:16
Alignment explanation
Indices: 745752--745785 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
745742 CGTTCTTTTC
*
745752 AAAAAGCAAAAAATAA
1 AAAAAACAAAAAATAA
745768 AAAAAACAAAAAA-AA
1 AAAAAACAAAAAATAA
745783 AAA
1 AAA
745786 CCAAAAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.88, C:0.06, G:0.03, T:0.03
Consensus pattern (16 bp):
AAAAAACAAAAAATAA
Found at i:745804 original size:21 final size:21
Alignment explanation
Indices: 745753--745805 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
745743 GTTCTTTTCA
*
745753 AAAAGCAAAAAATAAAAAAAAC
1 AAAA-CAAAAAACAAAAAAAAC
* *
745775 AAAAAAAAAAACCAAAAAAAC
1 AAAACAAAAAACAAAAAAAAC
*
745796 AATACAAAAA
1 AAAACAAAAA
745806 GGGAGGGGTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.83, C:0.11, G:0.02, T:0.04
Consensus pattern (21 bp):
AAAACAAAAAACAAAAAAAAC
Found at i:747177 original size:28 final size:29
Alignment explanation
Indices: 747102--747862 Score: 835
Period size: 28 Copynumber: 26.6 Consensus size: 29
747092 CAATACGACA
*
747102 CCTTTTCAAAGCCCACGAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
** * *
747131 CCTTTTTCAAAGTTCACAAGTTAATGGCA-
1 CC-TTTTCAAAGCCCACAAGTCAGTGGCAT
* *
747160 CCTTTTCAAAGCCTACAAGTCAGTAGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
747188 CATTTTCAAAGCTCGCAAGTCAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
747217 CCTTTT-AAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
747245 CATTTT-AGAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
747273 CC-TTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
747301 CC-TTTCAGAA-CTCACAAGTTAGTGGCAAC
1 CCTTTTCA-AAGCCCACAAGTCAGTGGC-AT
*
747330 CCTTTTCAAAGCCCACAAGCCAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
747358 CCTTTT-AAAGCCCACAAGTTAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
747385 CCTTTTCAAAGCCCGCAAGTCAGTAGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
747414 CC-TTTCAAAGCCCACGAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
747442 CCCTTTTCAAAGCCCACGAGTCAGCGGCAT
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
747472 CCCTTTTCAAAGCCCACGAGTCAGCGACAT
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
747502 CCCTTTTCAAAGCCCATAAGTCAATGGCAT
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
747532 CC-TTTCAGAGCCCATAAGTCAATGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
747560 -CTTTTCAAAGCCCGCAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
747588 CTTTTTCAAAGCCTGCAAGTCAATGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
747617 CC-TTTCAAAGCCCACAAGTAAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
747645 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
747673 -CTTTTCAAAGCCTACAAATTAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
747700 CCTTTTTCAAAGCCCATAAGTTAGTGGCAT
1 CC-TTTTCAAAGCCCACAAGTCAGTGGCAT
747730 CC-TTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
747758 CC-TTTCAAAGCCCATAAGTCAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
747785 CCTTTTCAAAGCCTACAAGTCGGTGGCAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
747814 CCTCTTCTAAAGCTCACACAAGTCAGTGGCAA
1 CCTTTTC-AAAGC-C-CACAAGTCAGTGGCAT
*
747846 CC-CTTCTAAAGCCCACA
1 CCTTTTC-AAAGCCCACA
747863 CAAGTTGGTG
Statistics
Matches: 636, Mismatches: 74, Indels: 44
0.84 0.10 0.06
Matches are distributed among these distances:
27 32 0.05
28 369 0.58
29 82 0.13
30 126 0.20
31 11 0.02
32 16 0.03
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (29 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:747396 original size:113 final size:113
Alignment explanation
Indices: 747100--747862 Score: 851
Period size: 113 Copynumber: 6.7 Consensus size: 113
747090 GTCAATACGA
* ** * *
747100 CACCTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTTTCAAAGTTCACAAGTTAATGGCA-CCTT
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTCAGTGGCATCC-T
* * * * *
747164 TTCAAAGCCTACAAGTCAGTAGCA-CATTTTCAAAGCTCGCAAGTCAGTGG
64 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGG
* *
747214 CACCCTTTT-AAAGCCCACAAGTCAGTGGCATCATTTT-AGAGCCCACAAGTCAGTGGCATCCTT
1 CA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT
* *
747277 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAGAA-CTCACAAGTTAGTGG
65 TCAAAGCCCACAAGTCAGTGGCATCCTTTCA-AAGCCCACAAGTCAGTGG
* *
747326 CAACCCTTTTCAAAGCCCACAAGCCAGTGGCA-CCTTTT-AAAGCCCACAAGTTAGTGGCA-CCT
1 C-A-CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCC-
* * *
747388 TTTCAAAGCCCGCAAGTCAGTAGCATCCTTTCAAAGCCCACGAGTCAGTGG
63 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
747439 CATCCCTTTTCAAAGCCCACGAGTCAGCGGCATCCCTTTTCAAAGCCCACGAGTCAGCGACATCC
1 CA--CCTTTTCAAAGCCCACAAGTCAGTGGCAT-CCTTTTCAAAGCCCACAAGTCAGTGGCAT-C
* * * * *
747504 CTTTTCAAAGCCCATAAGTCAATGGCATCCTTTCAGAGCCCATAAGTCAATGG
62 C-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * * ** *
747557 CATCTTTTCAAAGCCCGCAAGTCAGTGGCATCTTTTTCAAAGCCTGCAAGTCAATGGCATCCTTT
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTT
* *
747622 CAAAGCCCACAAGTAAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGG
66 CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * * *
747670 CATCTTTTCAAAGCCTACAAATTAGTGGCA-CCTTTTTCAAAGCCCATAAGTTAGTGGCATCCTT
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTTCAAAGCCCACAAGTCAGTGGCATCCTT
*
747734 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGG
65 TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
* * * * *
747783 CACCTTTTCAAAGCCTACAAGTCGGTGGCAACCTCTTCTAAAGCTCACACAAGTCAGTGGCAACC
1 CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTC-AAAGC-C-CACAAGTCAGTGGCATCC
*
747848 CTTCTAAAGCCCACA
63 TTTC-AAAGCCCACA
747863 CAAGTTGGTG
Statistics
Matches: 553, Mismatches: 76, Indels: 37
0.83 0.11 0.06
Matches are distributed among these distances:
112 64 0.12
113 283 0.51
114 53 0.10
115 35 0.06
116 60 0.11
117 10 0.02
118 48 0.09
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (113 bp):
CACCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTT
CAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGG
Found at i:747874 original size:63 final size:63
Alignment explanation
Indices: 747799--747918 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
747789 TTCAAAGCCT
*
747799 ACAAGTCGGTGGCAACC-TCTTCTAAAG-CTCACACAAGTCAGTGGCAACCCTTCTAAAGCCCAC
1 ACAAGTCGGTGGCAACCTTC-TCTAAAGTC-CACACAAATCAGTGGCAACCCTTCTAAAGCCCAC
* **
747862 ACAAGTTGGTGGCAACCTTCTCTAAAGTCCACACAAATTGGTGGCAACCCTTCTAAA
1 ACAAGTCGGTGGCAACCTTCTCTAAAGTCCACACAAATCAGTGGCAACCCTTCTAAA
747919 CCTAATGTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
63 48 0.94
64 3 0.06
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (63 bp):
ACAAGTCGGTGGCAACCTTCTCTAAAGTCCACACAAATCAGTGGCAACCCTTCTAAAGCCCAC
Found at i:749575 original size:31 final size:30
Alignment explanation
Indices: 749507--749584 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
749497 ACATTTTTCA
** *
749507 ATGTATCGATACATCCTGTCTTTTACACGG
1 ATGTATCGATACATTTTGTCTTTTACACAG
*
749537 ATTTATCGATACATTTTGTCTTTTTA-ACTAG
1 ATGTATCGATACATTTTGTC-TTTTACAC-AG
749568 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
749585 TCAATGTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 19 0.46
31 22 0.54
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (30 bp):
ATGTATCGATACATTTTGTCTTTTACACAG
Found at i:752349 original size:24 final size:24
Alignment explanation
Indices: 752268--752349 Score: 64
Period size: 30 Copynumber: 3.3 Consensus size: 24
752258 TGGAAAAGTC
* *
752268 ACATTTTTACCTAGATGTATTGAT
1 ACATTTTTACCCAGATGTATCGAT
752292 ACATTTTT---CA-ATGTATCGAT
1 ACATTTTTACCCAGATGTATCGAT
752312 ACATTCTGTCTTTTACCCAGATGTATCGAT
1 ACA-----T-TTTTACCCAGATGTATCGAT
752342 ACATTTTT
1 ACATTTTT
752350 CAATGTATCA
Statistics
Matches: 46, Mismatches: 2, Indels: 20
0.68 0.03 0.29
Matches are distributed among these distances:
20 12 0.26
21 1 0.02
24 12 0.26
25 2 0.04
26 4 0.09
29 2 0.04
30 13 0.28
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (24 bp):
ACATTTTTACCCAGATGTATCGAT
Found at i:752398 original size:51 final size:51
Alignment explanation
Indices: 752271--752416 Score: 240
Period size: 50 Copynumber: 2.9 Consensus size: 51
752261 AAAAGTCACA
* *
752271 TTTTTACCTAGATGTATTGATACATTTTTCAATGTATCGATACATTCTGTC
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* *
752322 -TTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATTCTATC
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
*
752372 TTTTTACCTAGATGTATCGATACATTTTTTAATGTATCGATACAT
1 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACAT
752417 CTAGTTAAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 46 0.53
51 41 0.47
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.45
Consensus pattern (51 bp):
TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
Found at i:755774 original size:14 final size:15
Alignment explanation
Indices: 755756--755796 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
755746 GATATTAATA
755756 AAAAAATATTTT-TT
1 AAAAAATATTTTCTT
*
755770 GAAAAATATTTTCTT
1 AAAAAATATTTTCTT
755785 AAAAACATATTT
1 AAAAA-ATATTT
755797 AAGGAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 6 0.26
16 6 0.26
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (15 bp):
AAAAAATATTTTCTT
Found at i:755890 original size:15 final size:15
Alignment explanation
Indices: 755872--755901 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
755862 ATTATTAAGT
755872 TTTTTTAATTTAAAA
1 TTTTTTAATTTAAAA
*
755887 TTTTTTATTTTAAAA
1 TTTTTTAATTTAAAA
755902 AAACATAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTTTAATTTAAAA
Found at i:756048 original size:133 final size:132
Alignment explanation
Indices: 755875--756236 Score: 500
Period size: 133 Copynumber: 2.7 Consensus size: 132
755865 ATTAAGTTTT
* * *
755875 TTTAATTTAAAATTTTTTA-TTTTAAAAAAACATAACAATTAATATTTTAATTTGTTAATGAAAA
1 TTTAATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATG-TAA
** * ***
755939 ATTTTTAAACTTAATTAAATATTATTTTTTATTTTATT-AGGAATTATAATAAAATTTTTTTTTA
65 ATTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAAATAATAA-AAAAACCTTTTTTA
756003 TTTC
129 TTTC
*
756007 TTTAATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAGA
1 TTTAATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAA
*
756072 TTTTCTAAAACTTAATTAAATATTAGTTTTTATTTTATTAAAAAATAATAAAAAAACCTTTTTTA
66 TTTT-T-AAACTTAATTAAATATTATTTTTTATTTTATTAAAAAATAATAAAAAAACCTTTTTTA
756137 TTTC
129 TTTC
*
756141 -TT-ATTTAAAATTTTTTATTTTTTATAAAAAATATAAT-ATTAATATTTTAATTTGTTAATGTA
1 TTTAATTTAAAATTTTTTA-TTTTTAT-AAAAACATAATAATTAATATTTTAATTTGTTAATGTA
** *
756203 TTTTTTTAAATTTAATTAAATATTATTTTTTATT
64 AATTTTTAAACTTAATTAAATATTATTTTTTATT
756237 AAAAAATAAT
Statistics
Matches: 208, Mismatches: 16, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
131 25 0.12
132 41 0.20
133 78 0.38
134 56 0.27
135 8 0.04
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (132 bp):
TTTAATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATGTAAA
TTTTTAAACTTAATTAAATATTATTTTTTATTTTATTAAAAAATAATAAAAAAACCTTTTTTATT
TC
Found at i:756171 original size:21 final size:21
Alignment explanation
Indices: 756130--756172 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
756120 TAAAAAAACC
**
756130 TTTTTTATTTCTTATTTAAAA
1 TTTTTTATTTCTTATAAAAAA
*
756151 TTTTTTATTTTTTATAAAAAA
1 TTTTTTATTTCTTATAAAAAA
756172 T
1 T
756173 ATAATATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTATTTCTTATAAAAAA
Found at i:756464 original size:13 final size:14
Alignment explanation
Indices: 756426--756464 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
756416 AAAATAACAC
*
756426 ATTTTGAGAAATAT
1 ATTTTAAGAAATAT
*
756440 ATTTTAAAAAATAT
1 ATTTTAAGAAATAT
756454 A-TTTAAGAAAT
1 ATTTTAAGAAAT
756465 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (14 bp):
ATTTTAAGAAATAT
Found at i:761632 original size:16 final size:17
Alignment explanation
Indices: 761608--761649 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
761598 TTTATAAATA
761608 TAATAATTA-TAATAAG
1 TAATAATTATTAATAAG
*
761624 TAATTATTATTAATAAAG
1 TAATAATTATTAAT-AAG
*
761642 AAATAATT
1 TAATAATT
761650 TTTTTTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TAATAATTATTAATAAG
Found at i:762520 original size:12 final size:12
Alignment explanation
Indices: 762503--762547 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
762493 ATAGATTCGA
762503 ATATTTATTTAT
1 ATATTTATTTAT
*
762515 ATATTTAATTAT
1 ATATTTATTTAT
762527 -TATTTGATTT-T
1 ATATTT-ATTTAT
762538 ATATTT-TTTA
1 ATATTTATTTA
762548 AAAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 3 0.11
11 6 0.21
12 19 0.68
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
ATATTTATTTAT
Found at i:762698 original size:26 final size:25
Alignment explanation
Indices: 762654--762706 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
762644 TATCAAATAA
* *
762654 TAAAAAAATTAAATTTTTAATAAAT
1 TAAAAAAATTAAATATTTAAAAAAT
*
762679 TAAATAAATTTAAATATTTAAAAAAT
1 TAAA-AAAATTAAATATTTAAAAAAT
762705 TA
1 TA
762707 TATATATTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (25 bp):
TAAAAAAATTAAATATTTAAAAAAT
Found at i:765803 original size:19 final size:18
Alignment explanation
Indices: 765757--765841 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 18
765747 TTTCAACAAT
*
765757 TTGTATCGATACAAACTG
1 TTGTATCGATACAAAGTG
765775 TAACTGTATCGATACATAAGTG
1 T---TGTATCGATACA-AAGTG
765797 TTGTATCGATAC-AA---
1 TTGTATCGATACAAAGTG
*
765811 -TGTATCGATACATAAGTT
1 TTGTATCGATACA-AAGTG
765829 TTGTATCGATACA
1 TTGTATCGATACA
765842 GTGTATCGCT
Statistics
Matches: 56, Mismatches: 1, Indels: 19
0.74 0.01 0.25
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
18 1 0.02
19 23 0.41
21 12 0.21
22 5 0.09
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
TTGTATCGATACAAAGTG
Found at i:765816 original size:13 final size:13
Alignment explanation
Indices: 765798--765822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
765788 ACATAAGTGT
765798 TGTATCGATACAA
1 TGTATCGATACAA
765811 TGTATCGATACA
1 TGTATCGATACA
765823 TAAGTTTTGT
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:765820 original size:32 final size:32
Alignment explanation
Indices: 765779--765849 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
765769 AAACTGTAAC
765779 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
765811 TGTATCGATACATAAGTTTTGTATCGATACAG
1 TGTATCGATACATAAGTGTTGTATCGATACAA
765843 TGTATCG
1 TGTATCG
765850 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:779794 original size:4 final size:4
Alignment explanation
Indices: 779787--779882 Score: 81
Period size: 4 Copynumber: 23.8 Consensus size: 4
779777 CTGCAAAAAA
* * * *
779787 AAAC AAAC AAAC AAAC AAAC AAAAC AAAAC AAAA AAAG AGAC AAAA AAAC
1 AAAC AAAC AAAC AAAC AAAC -AAAC -AAAC AAAC AAAC AAAC AAAC AAAC
* *
779837 AAA- ACAA- AAAC AAAAC AAAA AAAA AAAC AAAC AAAC AAAC -AAC AAA
1 AAAC A-AAC AAAC -AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAA
779883 AAGGGTCCGG
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
3 6 0.08
4 59 0.76
5 13 0.17
ACGTcount: A:0.80, C:0.18, G:0.02, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:784059 original size:52 final size:52
Alignment explanation
Indices: 783981--784109 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
783971 CGAAATATGA
*
783981 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGAC
* *
784033 AAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGAC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGAC
784085 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
784110 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGAC
Found at i:784136 original size:13 final size:13
Alignment explanation
Indices: 784118--784142 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
784108 CAAAGATCAG
784118 TGTATCGATACAA
1 TGTATCGATACAA
784131 TGTATCGATACA
1 TGTATCGATACA
784143 TTTGAGTAAT
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:785160 original size:49 final size:49
Alignment explanation
Indices: 785050--785223 Score: 150
Period size: 49 Copynumber: 3.5 Consensus size: 49
785040 CCAATATCGC
** * *
785050 TGGCCTTGAATCAACATGTTGGTGTCTTCTTCATCTTTAAGACTAATGTCAT
1 TGGCCTTGAATCAACACATT-G-G-CATCTTCATCTTTAAGACCAATGTCAT
** * ** *
785102 TGGTATTGAATTAGTACATTGGCATCTTCATCTTTAAGTCCAATGTCAT
1 TGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGACCAATGTCAT
* * * * * *
785151 TGGCCTTGAATCAACACATTGGTACCTTCTTCTTTAAGCCCAATATCAC
1 TGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGACCAATGTCAT
* * *
785200 TGGCCCTGAATCAGCATATTGGCA
1 TGGCCTTGAATCAACACATTGGCA
785224 CCTTTATCAC
Statistics
Matches: 97, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
49 82 0.85
50 1 0.01
51 1 0.01
52 13 0.13
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (49 bp):
TGGCCTTGAATCAACACATTGGCATCTTCATCTTTAAGACCAATGTCAT
Found at i:785330 original size:113 final size:105
Alignment explanation
Indices: 785129--785519 Score: 381
Period size: 113 Copynumber: 3.7 Consensus size: 105
785119 ATTGGCATCT
* * * * *
785129 TCATCTTTAAGTCCAATGTCATTGGCCTTGAATCAACACATTGGTACCTTCTTCTTTAAGCCCAA
1 TCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
785194 TATCACTGGCCCTGAATCAGCATATTGGCACCTTTATCACTTTTC
66 TATCGCTGGCCTTGAATCAGCATATTGGC-CC-TT-GC-C-TTTC
*
785239 TCATCCTCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
1 TCA---TCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
*
785304 CAATATCGCTGGCCTTGAATCAGCATATTGG--C--GCCTTTG
63 CAATATCGCTGGCCTTGAATCAGCATATTGGCCCTTGCCTTTC
* * *
785343 TCATCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTTTAAAGAT-C
1 TCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT-AAG-TCC
*
785407 AGTATCGCTGGCCTTGAATCAGCATATTGG--C--GCC-TTC
64 AATATCGCTGGCCTTGAATCAGCATATTGGCCCTTGCCTTTC
** * * * *
785444 GTCATCTTTAAAACCCAAT-TCATTGGCCTTGAATCAGCGCATTGGCATTCTTCTCATCTTCAAG
1 -TCATCTTT-AAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAG
*
785508 CCCAATATCGCT
61 TCCAATATCGCT
785520 AGCCGCATAT
Statistics
Matches: 243, Mismatches: 27, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
101 52 0.21
102 69 0.28
103 7 0.03
104 20 0.08
105 8 0.03
106 1 0.00
110 4 0.02
113 82 0.34
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.34
Consensus pattern (105 bp):
TCATCTTTAAGTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
TATCGCTGGCCTTGAATCAGCATATTGGCCCTTGCCTTTC
Found at i:785454 original size:102 final size:101
Alignment explanation
Indices: 785245--785519 Score: 365
Period size: 102 Copynumber: 2.7 Consensus size: 101
785235 TTTCTCATCC
*
785245 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
*
785310 CGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
66 CGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
* * * *
785346 TCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTTTAAAGAT-CAGT
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT-AAG-TCCAAT
785410 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
64 ATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
* ** * * * *
785448 TCTTTAAAACCCAAT-TCATTGGCCTTGAATCAGCGCATTGGCATTCTTCTCATCTTCAAGCCCA
1 TCTTTAAGA-CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAGTCCA
785512 ATATCGCT
62 ATATCGCT
785520 AGCCGCATAT
Statistics
Matches: 150, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
101 50 0.33
102 74 0.49
103 5 0.03
104 14 0.09
105 7 0.05
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (101 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATAT
CGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
Found at i:785477 original size:52 final size:49
Alignment explanation
Indices: 785245--785490 Score: 242
Period size: 52 Copynumber: 4.9 Consensus size: 49
785235 TTTCTCATCC
* * *
785245 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAAACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
** * *
785294 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCA
1 TCTTTAAAACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
** * * *
785346 TCTTTAAGTCTAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCA
1 TCTTTAAAACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
785395 TCTTTAAAGATCAGTATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCA
1 TCTTTAAA-ACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-T--TCA
** *
785448 TCTTTAAAACCCAAT-TCATTGGCCTTGAATCAGCGCATTGGCA
1 TCTTTAAAA-CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
785491 TTCTTCTCAT
Statistics
Matches: 163, Mismatches: 26, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
49 50 0.31
50 30 0.18
51 2 0.01
52 67 0.41
53 14 0.09
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (49 bp):
TCTTTAAAACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:786236 original size:18 final size:19
Alignment explanation
Indices: 786170--786240 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
786160 TTTCAACAAT
*
786170 TTGTATCGATACA-AACTG
1 TTGTATCGATACATAAGTG
786188 TAACTGTATCGATACATAAGTG
1 T---TGTATCGATACATAAGTG
786210 TTGTATCGATACATAAGT-
1 TTGTATCGATACATAAGTG
*
786228 TTTTATCGATACA
1 TTGTATCGATACA
786241 ATGTATCGCT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
18 13 0.28
19 17 0.36
21 12 0.26
22 5 0.11
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:786312 original size:13 final size:13
Alignment explanation
Indices: 786294--786320 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
786284 TTACTCAAAA
786294 GTATCGATACATT
1 GTATCGATACATT
786307 GTATCGATACATT
1 GTATCGATACATT
786320 G
1 G
786321 ACCTTTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:790911 original size:16 final size:16
Alignment explanation
Indices: 790890--790933 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
790880 TCATGCCTAT
*
790890 TTCGAGCTTATTTGGG
1 TTCGAGCCTATTTGGG
790906 TTCGAGCCTATTTGGG
1 TTCGAGCCTATTTGGG
790922 TTCGAGCC-ATTT
1 TTCGAGCCTATTT
790934 CAAGTTCAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (16 bp):
TTCGAGCCTATTTGGG
Found at i:790953 original size:31 final size:32
Alignment explanation
Indices: 790911--790972 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
790901 TTGGGTTCGA
790911 GCCTATTTGGGTTCGAGCCATTTCAAGTTCAG
1 GCCTATTTGGGTTCGAGCCATTTCAAGTTCAG
* *
790943 GCCT-TTTGGGTTCGAGTCTTTTCAAGTTCA
1 GCCTATTTGGGTTCGAGCCATTTCAAGTTCA
790973 AGTTCGAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.39
Consensus pattern (32 bp):
GCCTATTTGGGTTCGAGCCATTTCAAGTTCAG
Found at i:792353 original size:2 final size:2
Alignment explanation
Indices: 792346--792473 Score: 98
Period size: 2 Copynumber: 64.0 Consensus size: 2
792336 TCTTTATGTG
* * *
792346 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA GTG TG TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A -TA TA TA TA TA
* * * * * * * * * * *
792390 TA TA TA TA TG TG TG TG TG TA TG TG TG TG TG TG TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
792431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
792472 TA
1 TA
792474 AAGTCATTAT
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
1 2 0.02
2 112 0.97
3 1 0.01
4 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.49
Consensus pattern (2 bp):
TA
Found at i:793468 original size:16 final size:16
Alignment explanation
Indices: 793447--793491 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
793437 GGTCAATCTC
793447 GGGTTTGGGTTCTCTT
1 GGGTTTGGGTTCTCTT
* *
793463 GGGTTTGGGTTTTTTT
1 GGGTTTGGGTTCTCTT
*
793479 GAGTTTGGGTTCT
1 GGGTTTGGGTTCT
793492 TTAGGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.02, C:0.07, G:0.38, T:0.53
Consensus pattern (16 bp):
GGGTTTGGGTTCTCTT
Found at i:793516 original size:16 final size:17
Alignment explanation
Indices: 793497--793535 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
793487 GTTCTTTAGG
*
793497 GTTCAAG-TTCTTTTAA
1 GTTCAAGATTCTTTCAA
793513 GTTC-AGATTCTTTCAA
1 GTTCAAGATTCTTTCAA
793529 GTTCAAG
1 GTTCAAG
793536 CTATTTCGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 16 0.80
17 2 0.10
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (17 bp):
GTTCAAGATTCTTTCAA
Done.