Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 127 of 168
Found at i:36969194 original size:14 final size:15
Alignment explanation
Indices: 36969155--36969196 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
36969145 TTTAAACATA
*
36969155 ATTATTATTAAATAT
1 ATTATAATTAAATAT
36969170 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
36969184 A-TATAATTTAATA
1 ATTATAATTAAATA
36969197 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:36969408 original size:24 final size:25
Alignment explanation
Indices: 36969362--36969409 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
36969352 TATGAATTTG
*
36969362 TATAATTTAAAATAATTATTATTACA
1 TATAATTT-AAATAATTAATATTACA
36969388 TATAATTT-AATAATTAATATTA
1 TATAATTTAAATAATTAATATTA
36969410 AATNNNNNNN
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
26 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAATTTAAATAATTAATATTACA
Found at i:36973183 original size:48 final size:47
Alignment explanation
Indices: 36973150--36973330 Score: 292
Period size: 48 Copynumber: 3.8 Consensus size: 47
36973140 ATTTCTTGAT
*
36973150 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
*
36973198 TTTTAATAAAATATTAAAGTCCTTAATTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-TCCTTA
**
36973246 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTA-AATTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTATCCTTA
*
36973292 TTTTAATGAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
36973331 GTAATTATTT
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
46 41 0.32
48 86 0.68
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (47 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTATCCTTA
Found at i:36973190 original size:25 final size:25
Alignment explanation
Indices: 36973162--36973330 Score: 137
Period size: 25 Copynumber: 7.1 Consensus size: 25
36973152 TTAATAAAAT
36973162 ATTAAAGTCCTTATTTTAAATATTG
1 ATTAAAGTCCTTATTTTAAATATTG
* *
36973187 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAA-ATATTG
* *
36973210 ATTAAAGTCCTTAATTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
* *
36973235 ATT--AGTCCTTATTTTAATAAAAT-
1 ATTAAAGTCCTTATTTTAA-ATATTG
*
36973258 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
*
36973283 ATTAAA----TTATTTT-AATGAAAT-
1 ATTAAAGTCCTTATTTTAAAT--ATTG
*
36973304 ATTAAAGTCCTTATTTTAATTATTG
1 ATTAAAGTCCTTATTTTAAATATTG
36973329 AT
1 AT
36973331 GTAATTATTT
Statistics
Matches: 111, Mismatches: 17, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
20 2 0.02
21 13 0.12
22 2 0.02
23 33 0.30
24 11 0.10
25 48 0.43
26 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (25 bp):
ATTAAAGTCCTTATTTTAAATATTG
Found at i:36973197 original size:23 final size:23
Alignment explanation
Indices: 36973167--36973286 Score: 109
Period size: 23 Copynumber: 5.0 Consensus size: 23
36973157 AAAATATTAA
36973167 AGTCCTTATTTTAAATATTGATT
1 AGTCCTTATTTTAAATATTGATT
* *
36973190 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
* *
36973213 AAAGTCCTTAATTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
* *
36973238 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
*
36973261 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
36973286 A
1 A
36973287 AATTATTTTA
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
23 34 0.45
24 9 0.12
25 33 0.43
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (23 bp):
AGTCCTTATTTTAAATATTGATT
Found at i:36973282 original size:96 final size:94
Alignment explanation
Indices: 36973150--36973330 Score: 299
Period size: 94 Copynumber: 1.9 Consensus size: 94
36973140 ATTTCTTGAT
**
36973150 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTA--AATTATTTTAATAAAATATTAA
36973215 AGTCCTTAATTTAATTATTGATTAGTCCTTA
64 AGTCCTTAATTTAATTATTGATTAGTCCTTA
* *
36973246 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAAATTATTTTAATGAAATATTAAAG
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAAATTATTTTAATAAAATATTAAAG
*
36973311 TCCTTATTTTAATTATTGAT
66 TCCTTAATTTAATTATTGAT
36973331 GTAATTATTT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 40 0.50
96 40 0.50
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (94 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAAATTATTTTAATAAAATATTAAAG
TCCTTAATTTAATTATTGATTAGTCCTTA
Found at i:36973338 original size:21 final size:21
Alignment explanation
Indices: 36973268--36973340 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
36973258 ATTAAAGTCC
36973268 TTATTTTAATTATTGAT-TAAA
1 TTATTTTAATTATTGATGT-AA
* * **
36973289 TTATTTTAATGAAATATTAAAGTCC
1 TTATTTTAAT----TATTGATGTAA
36973314 TTATTTTAATTATTGATGTAA
1 TTATTTTAATTATTGATGTAA
36973335 TTATTT
1 TTATTT
36973341 AAAATCAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
21 23 0.59
25 15 0.38
26 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.55
Consensus pattern (21 bp):
TTATTTTAATTATTGATGTAA
Found at i:36974543 original size:23 final size:23
Alignment explanation
Indices: 36974525--36974612 Score: 135
Period size: 23 Copynumber: 3.8 Consensus size: 23
36974515 TTCAATTTTT
36974525 AGCAGACAATCAAAACAATTTCC
1 AGCAGACAATCAAAACAATTTCC
*
36974548 AGCAGACAATCATAACAATTTCC
1 AGCAGACAATCAAAACAATTTCC
36974571 AGCAGACAATCAAAACAATTTCC
1 AGCAGACAATCAAAACAATTTCC
36974594 AG-A-ACAAATCAAGAACAAT
1 AGCAGAC-AATCAA-AACAAT
36974613 ATCAAAACAA
Statistics
Matches: 61, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
21 2 0.03
22 7 0.11
23 52 0.85
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (23 bp):
AGCAGACAATCAAAACAATTTCC
Found at i:36974621 original size:22 final size:22
Alignment explanation
Indices: 36974578--36974624 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
36974568 TCCAGCAGAC
* *
36974578 AATCAAAACAATTTCCAGAACA
1 AATCAAAACAATATCCAAAACA
36974600 AATCAAGAACAATAT-CAAAACA
1 AATCAA-AACAATATCCAAAACA
36974622 AAT
1 AAT
36974625 GCAACAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (22 bp):
AATCAAAACAATATCCAAAACA
Found at i:36975373 original size:17 final size:17
Alignment explanation
Indices: 36975351--36975386 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
36975341 ACTCAAAGGG
36975351 AAATAAACAGCAATAGA
1 AAATAAACAGCAATAGA
*
36975368 AAATAAATAGCAATAGA
1 AAATAAACAGCAATAGA
36975385 AA
1 AA
36975387 CATGCAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.08, G:0.11, T:0.14
Consensus pattern (17 bp):
AAATAAACAGCAATAGA
Found at i:36976651 original size:19 final size:20
Alignment explanation
Indices: 36976607--36976650 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
36976597 ATTTTTTAAT
* *
36976607 TATTTAAATTGAATTTTATA
1 TATTTTAATTGAATTATATA
36976627 TATTTTAATT-AATTATATA
1 TATTTTAATTGAATTATATA
36976646 T-TTTT
1 TATTTT
36976651 TGGTGTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTTTAATTGAATTATATA
Found at i:36983107 original size:44 final size:45
Alignment explanation
Indices: 36983023--36983115 Score: 100
Period size: 44 Copynumber: 2.1 Consensus size: 45
36983013 AAATGAATAG
* * *
36983023 AAATAGAGAAATGGAAAACATTCAGAAATGATTATGATTTT-TCCA
1 AAATAGAGAAATGGAAAACATTCAAAAATAAATATGATTTTCT-CA
* * * *
36983068 AAATGGAGAAATGG-AATCATTCAAAAATAAATGTTATTTTCTCA
1 AAATAGAGAAATGGAAAACATTCAAAAATAAATATGATTTTCTCA
36983112 AAAT
1 AAAT
36983116 TGAAATGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
44 26 0.65
45 14 0.35
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (45 bp):
AAATAGAGAAATGGAAAACATTCAAAAATAAATATGATTTTCTCA
Found at i:36986809 original size:2 final size:2
Alignment explanation
Indices: 36986804--36986833 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36986794 ACGCACGCAC
36986804 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36986834 TGTCTGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36991174 original size:19 final size:19
Alignment explanation
Indices: 36991146--36991182 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
36991136 GTAAAATTAT
36991146 TAAAATATTATA-AAAATC
1 TAAAATATTATAGAAAATC
36991164 TAAAATAATTATAGAAAAT
1 TAAAAT-ATTATAGAAAAT
36991183 AAATAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
TAAAATATTATAGAAAATC
Found at i:36991181 original size:13 final size:12
Alignment explanation
Indices: 36991165--36991206 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
36991155 ATAAAAATCT
36991165 AAAATAATTATA
1 AAAATAATTATA
*
36991177 GAAAATAAATAGTA
1 -AAAATAATTA-TA
36991191 AAAAT-ATTATA
1 AAAATAATTATA
36991202 AAAAT
1 AAAAT
36991207 TATAGAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 7 0.27
12 3 0.12
13 14 0.54
14 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (12 bp):
AAAATAATTATA
Found at i:36993360 original size:2 final size:2
Alignment explanation
Indices: 36993353--36993394 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
36993343 ATGTATTCGA
36993353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36993395 CAAACGGTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36997566 original size:31 final size:31
Alignment explanation
Indices: 36997531--36997619 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 31
36997521 TTTTAGACTT
**
36997531 AAATAATTAAAAAATTAATTAAACCCTTTTA
1 AAATAATTAAAAAATTAATTAAACCCTCATA
*
36997562 AAATAATTAAAAAATTAATTAAGCCCTCATA
1 AAATAATTAAAAAATTAATTAAACCCTCATA
*
36997593 AAATAATTAAAATAA-CAATTAAACCCT
1 AAATAATTAAAA-AATTAATTAAACCCT
36997620 ATACATCAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
31 50 0.96
32 2 0.04
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.30
Consensus pattern (31 bp):
AAATAATTAAAAAATTAATTAAACCCTCATA
Found at i:37002933 original size:24 final size:24
Alignment explanation
Indices: 37002915--37002967 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
37002905 TAATGGATAT
37002915 GGCAACAGCAACAGCAATGGTAAG
1 GGCAACAGCAACAGCAATGGTAAG
**
37002939 GGCAAGGGCAACAGCAATGGTAAG
1 GGCAACAGCAACAGCAATGGTAAG
37002963 GGCAA
1 GGCAA
37002968 GGGCGACAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.34, T:0.08
Consensus pattern (24 bp):
GGCAACAGCAACAGCAATGGTAAG
Found at i:37002933 original size:30 final size:30
Alignment explanation
Indices: 37002892--37002955 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
37002882 AATGGGAATG
* *
37002892 GCAACAACAATGGTAATGG-ATATGGCAACA
1 GCAACAACAATGGTAAGGGCA-AGGGCAACA
*
37002922 GCAACAGCAATGGTAAGGGCAAGGGCAACA
1 GCAACAACAATGGTAAGGGCAAGGGCAACA
37002952 GCAA
1 GCAA
37002956 TGGTAAGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.28, T:0.11
Consensus pattern (30 bp):
GCAACAACAATGGTAAGGGCAAGGGCAACA
Found at i:37002968 original size:24 final size:24
Alignment explanation
Indices: 37002922--37002977 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
37002912 TATGGCAACA
37002922 GCAACAGCAATGGTAAGGGCAAGG
1 GCAACAGCAATGGTAAGGGCAAGG
37002946 GCAACAGCAATGGTAAGGGCAAGG
1 GCAACAGCAATGGTAAGGGCAAGG
*
37002970 GCGACAGC
1 GCAACAGC
37002978 GACGATGGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.38, T:0.07
Consensus pattern (24 bp):
GCAACAGCAATGGTAAGGGCAAGG
Found at i:37005254 original size:150 final size:149
Alignment explanation
Indices: 37005024--37005327 Score: 423
Period size: 150 Copynumber: 2.0 Consensus size: 149
37005014 TTGTAAGGTG
* ***
37005024 TTATAAAAAAACGACAACACTAGTTAGAAAAAAATTGGGGTGCATTTAATATTTTTGATCATATG
1 TTATAAAAAAACGACAACACTAGCTAGAAAAAAATTAAAGTGCATTTAATATTTTTGATCATATG
*** * *
37005089 TATTTGTTTAATTAAATTTATTTTTACTTACAATTTAAATAAATTTATTTTTTTTAATTTCAT-A
66 TATTTACCTAATTAAATTTATTTTTACTCACAATTTAAATAAATTTA-TTTTTTAAATTTCATAA
37005153 CATATT-ACATATATTATTA
130 CATATTCACATATATTATTA
* * *
37005172 TTATAGAAAAATGACAACACTGAGCTAGAAAAATAATTAAAGTGCATTTAATATTTTTTATCATA
1 TTATAAAAAAACGACAACACT-AGCTAGAAAAA-AATTAAAGTGCATTTAATATTTTTGATCATA
*
37005237 TGTATTTACCTATTTAAATTTATTTTTACTCACAATTTAAATAAATTTATTTTTTAAATTTCATA
64 TGTATTTACCTAATTAAATTTATTTTTACTCACAATTTAAATAAATTTATTTTTTAAATTTCATA
*
37005302 GCACATATTCATATATATTATTA
129 --ACATATTCACATATATTATTA
37005325 TTA
1 TTA
37005328 ACTTCAAAAC
Statistics
Matches: 136, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
148 19 0.14
149 24 0.18
150 71 0.52
152 7 0.05
153 15 0.11
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.45
Consensus pattern (149 bp):
TTATAAAAAAACGACAACACTAGCTAGAAAAAAATTAAAGTGCATTTAATATTTTTGATCATATG
TATTTACCTAATTAAATTTATTTTTACTCACAATTTAAATAAATTTATTTTTTAAATTTCATAAC
ATATTCACATATATTATTA
Found at i:37018505 original size:3 final size:3
Alignment explanation
Indices: 37018497--37018525 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
37018487 AAGCTGTCAA
37018497 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37018526 AACAAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37018697 original size:5 final size:5
Alignment explanation
Indices: 37018687--37018728 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
37018677 CATCACAAGA
37018687 CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC CT
1 CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC CTCCC CT
37018729 TCCTGAGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.00, C:0.79, G:0.00, T:0.21
Consensus pattern (5 bp):
CTCCC
Found at i:37023442 original size:16 final size:15
Alignment explanation
Indices: 37023422--37023484 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
37023412 ATTAAAATTG
*
37023422 TAAAATTTAAAAAAA
1 TAAAAATTAAAAAAA
37023437 TAAAAA-T--AAAAA
1 TAAAAATTAAAAAAA
**
37023449 TAAAAATTAATTAAA
1 TAAAAATTAAAAAAA
*
37023464 TTAAAATATAAAGAAAA
1 TAAAAAT-TAAA-AAAA
37023481 TAAA
1 TAAA
37023485 TCCAAAACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
12 11 0.31
13 1 0.03
14 1 0.03
15 14 0.39
16 3 0.08
17 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (15 bp):
TAAAAATTAAAAAAA
Found at i:37023485 original size:21 final size:20
Alignment explanation
Indices: 37023422--37023485 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
37023412 ATTAAAATTG
* *
37023422 TAAAATTTAAAAAAATAAAAA
1 TAAAATATAAAAAAAT-AAAT
37023443 TAAAA-ATAAAAATTAATTAAAT
1 TAAAATATAAAAA--AA-TAAAT
37023465 TAAAATATAAAGAAAATAAAT
1 TAAAATATAAA-AAAATAAAT
37023486 CCAAAACTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
20 6 0.17
21 10 0.28
22 12 0.33
23 6 0.17
24 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAATATAAAAAAATAAAT
Found at i:37024717 original size:92 final size:92
Alignment explanation
Indices: 37024586--37024774 Score: 252
Period size: 92 Copynumber: 2.1 Consensus size: 92
37024576 TAACACCCAC
* ** * * * *
37024586 TACCATAATAAAACAAATATTGATAGTTTAGGTATCACATTATACATTTTCAAAGTACAAGTACC
1 TACCATAATAAAACAAATATTGATAGTTCAAATACCACATGAAACATTTTCAAAGTACAAGGACC
*
37024651 ACATTGGACATTTTATGAAAGTAAATG
66 ACATTGGACATTTTATGAAAATAAATG
* * * *
37024678 TACCATAATAAAACACATATTGATAGTTCAAATACCACATGAAATATTTTCAAAGTACAGGGATC
1 TACCATAATAAAACAAATATTGATAGTTCAAATACCACATGAAACATTTTCAAAGTACAAGGACC
* *
37024743 ATATTGGACATTTTATGAAAATACATG
66 ACATTGGACATTTTATGAAAATAAATG
37024770 TACCA
1 TACCA
37024775 AATGTGATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 83 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (92 bp):
TACCATAATAAAACAAATATTGATAGTTCAAATACCACATGAAACATTTTCAAAGTACAAGGACC
ACATTGGACATTTTATGAAAATAAATG
Found at i:37027767 original size:42 final size:42
Alignment explanation
Indices: 37027705--37027801 Score: 167
Period size: 42 Copynumber: 2.3 Consensus size: 42
37027695 TATGAACGGC
*
37027705 ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAATGGGA
1 ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAACGGGA
* *
37027747 ACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACGGGC
1 ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAACGGGA
37027789 ACTAAGTGTGCGA
1 ACTAAGTGTGCGA
37027802 TACCGAGAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.26
Consensus pattern (42 bp):
ACTAAGTGTGCGAAACTAAAATGATGATGTTGAATAACGGGA
Found at i:37028921 original size:2 final size:2
Alignment explanation
Indices: 37028914--37028938 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37028904 AAATAAATAA
37028914 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 A
37028939 GGATCGGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37031310 original size:19 final size:19
Alignment explanation
Indices: 37031286--37031331 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
37031276 CTAGTACGTA
*
37031286 AAGTGCATGGTGGCACACG
1 AAGTGCATAGTGGCACACG
37031305 AAGTGCATAGTGGCACACG
1 AAGTGCATAGTGGCACACG
37031324 AAGTGCAT
1 AAGTGCAT
37031332 CCTGACGCGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.17
Consensus pattern (19 bp):
AAGTGCATAGTGGCACACG
Found at i:37031676 original size:13 final size:13
Alignment explanation
Indices: 37031653--37031691 Score: 69
Period size: 13 Copynumber: 2.9 Consensus size: 13
37031643 CGCATTATCA
37031653 CAATAGACTCACCT
1 CAAT-GACTCACCT
37031667 CAATGACTCACCT
1 CAATGACTCACCT
37031680 CAATGACTCACC
1 CAATGACTCACC
37031692 AATCAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 21 0.84
14 4 0.16
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (13 bp):
CAATGACTCACCT
Found at i:37039999 original size:2 final size:2
Alignment explanation
Indices: 37039992--37040016 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37039982 TGTCGAATAA
37039992 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 A
37040017 ATGAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37050002 original size:15 final size:15
Alignment explanation
Indices: 37049982--37050011 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37049972 TTTTTAATTC
37049982 CTTATATTTAAATAT
1 CTTATATTTAAATAT
37049997 CTTATATTTAAATAT
1 CTTATATTTAAATAT
37050012 TTTTTTATAT
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:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
CTTATATTTAAATAT
Found at i:37052524 original size:42 final size:41
Alignment explanation
Indices: 37052465--37052863 Score: 413
Period size: 42 Copynumber: 9.4 Consensus size: 41
37052455 GCTTTTACAG
*
37052465 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* ** *
37052506 AAAAAAAGACGCCACTAAAGATTGTGTTCTTTAGCGGCACTT
1 AAAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
37052548 AACAAAAAATGCCGCTAAAAAACATGTTCTTTAGCGGCGCTT
1 AA-AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
37052590 AAAATAAAGACGCCACTAAAGATCATGTTCTTTAGCGGCGGTT
1 AAAA-AAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
37052633 ACAAAAAATCGCCGCTAAAGATAATGTTCTTTAGCGGCGGTT
1 A-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
37052675 ACAAAAAATCGCCGCTAAAGATAATGTTCTTTAGCGGCGCTT
1 A-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* * *
37052717 AAAGAAAAACGCCGCTAGAGATAATGTTCTTTAGCGGTGCTT
1 AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
* *
37052759 GGTAAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCGCTTT
1 --AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TT
** ** * *
37052803 CATCACGAACGCCGCGGAAAG-TAATGTTCTTTAGCGGCGCTTTT
1 -AAAAAAAACGCCGC-TAAAGATCATGTTCTTTAGCGGCGC--TT
* *
37052847 ATAAAAAACGCCACTAA
1 AAAAAAAACGCCGCTAA
37052864 TTTTGGGATT
Statistics
Matches: 305, Mismatches: 42, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
41 11 0.04
42 173 0.57
43 108 0.35
44 13 0.04
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (41 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
Found at i:37052651 original size:127 final size:124
Alignment explanation
Indices: 37052465--37052863 Score: 428
Period size: 127 Copynumber: 3.1 Consensus size: 124
37052455 GCTTTTACAG
* * **
37052465 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTAAAAAAAGACGCCACTAAAGATTG
1 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAA-ACGCCGCTAAAGATAA
37052530 TGTTCTTTAGCGGCACTTAACAAAAAAT-GCCGCTAAA-AAACATGTTCTTTAGCGGCGCTT
65 TGTTCTTTAGCGGCACTT-ACAAAAAATCGCCGCTAAAGAAA-ATGTTCTTTAGCGGCGCTT
* * *
37052590 AAAATAAAGACGCCACTAAAGATCATGTTCTTTAGCGGCGGTTACAAAAAATCGCCGCTAAAGAT
1 AAAA-AAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-AAAAAAACGCCGCTAAAGAT
** *
37052655 AATGTTCTTTAGCGGCGGTTACAAAAAATCGCCGCTAAAGATAATGTTCTTTAGCGGCGCTT
63 AATGTTCTTTAGCGGCACTTACAAAAAATCGCCGCTAAAGAAAATGTTCTTTAGCGGCGCTT
* * * * *
37052717 AAAGAAAAACGCCGCTAGAGATAATGTTCTTTAGCGGTGCTTGGTAAAAAAACGCCGCTATAGAT
1 AAA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT--AAAAAAAACGCCGCTAAAGAT
* * * ** * *
37052782 CATGTTCTTTAGCGGCGCTTTCATCACGAA-CGCCGCGGAAAG-TAATGTTCTTTAGCGGCGCTT
63 AATGTTCTTTAGCGGCACTTACA--AAAAATCGCCGC-TAAAGAAAATGTTCTTTAGCGGCGC--
37052845 TT
123 TT
* *
37052847 ATAAAAAACGCCACTAA
1 AAAAAAAACGCCGCTAA
37052864 TTTTGGGATT
Statistics
Matches: 235, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
125 4 0.02
126 41 0.17
127 133 0.57
128 34 0.14
129 19 0.08
130 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (124 bp):
AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAAAAAAAACGCCGCTAAAGATAAT
GTTCTTTAGCGGCACTTACAAAAAATCGCCGCTAAAGAAAATGTTCTTTAGCGGCGCTT
Found at i:37052752 original size:169 final size:167
Alignment explanation
Indices: 37052467--37052863 Score: 455
Period size: 169 Copynumber: 2.3 Consensus size: 167
37052457 TTTTACAGAA
* * **
37052467 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTAAAAAAAGACGCCACTAAAGATTGTG
1 AAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGGTTAAAAAAAGACGCCACTAAAGATAATG
*
37052532 TTCTTTAGCGGCACTTAACAAAAAATGCCGCTAAAAAACATGTTCTTTAGCGGCGCTT-AAAATA
66 TTCTTTAGCGGCACTTAACAAAAAACGCCGCTAAAAAACATGTTCTTTAGCGGCGCTTGAAAA-A
*
37052596 AAGACGCCACTAAAGATCATGTTCTTTAGCGGCGGTTAC
130 AA-ACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAC
* *
37052635 AAAAAATCGCCGCTAAAGATAATGTTCTTTAGCGGCGGTTACAAAAAA-TCGCCGCTAAAGATAA
1 AAAAAA-CGCCGCTAAAGATAATGTTCTTTAGCGGCGGTTA-AAAAAAGACGCCACTAAAGATAA
* * * * *
37052699 TGTTCTTTAGCGGCGCTTAA-AGAAAAACGCCGCTAGAGATA-ATGTTCTTTAGCGGTGCTTGGT
64 TGTTCTTTAGCGGCACTTAACA-AAAAACGCCGCTA-AAAAACATGTTCTTTAGCGGCGCTT-GA
* * *
37052762 AAAAAAACGCCGCTATAGATCATGTTCTTTAGCGGCGCTTTC
126 AAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAC
** * * *
37052804 ATCACGAACGCCGCGGAAAG-TAATGTTCTTTAGCGGCGCTTTTATAAAAA-ACGCCACTAA
1 A--AAAAACGCCGC-TAAAGATAATGTTCTTTAGCGGCG--GTTAAAAAAAGACGCCACTAA
37052864 TTTTGGGATT
Statistics
Matches: 195, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
168 7 0.04
169 126 0.65
170 36 0.18
171 23 0.12
172 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (167 bp):
AAAAAACGCCGCTAAAGATAATGTTCTTTAGCGGCGGTTAAAAAAAGACGCCACTAAAGATAATG
TTCTTTAGCGGCACTTAACAAAAAACGCCGCTAAAAAACATGTTCTTTAGCGGCGCTTGAAAAAA
AACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAC
Found at i:37053300 original size:21 final size:21
Alignment explanation
Indices: 37053247--37053300 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
37053237 GCTTCTCTCG
* *
37053247 CTGCTTCTCGCGCTGCAGCCT
1 CTGCTTCTCTCGCTACAGCCT
37053268 CTGCTTCTCTCGCTACAGCCT
1 CTGCTTCTCTCGCTACAGCCT
*
37053289 CTGCTTCCCTCG
1 CTGCTTCTCTCG
37053301 TTGTCGCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.06, C:0.44, G:0.19, T:0.31
Consensus pattern (21 bp):
CTGCTTCTCTCGCTACAGCCT
Found at i:37054107 original size:2 final size:2
Alignment explanation
Indices: 37054100--37054125 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37054090 NATTTAACCC
37054100 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
37054126 TAAAATGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37054734 original size:35 final size:35
Alignment explanation
Indices: 37054692--37054768 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
37054682 TCTTGAATCT
* * * * *
37054692 CTAAACCCTAAATCACTAACTCTTAACTTCTAACC
1 CTAAACCCCAAACCACTAACCCCTAACTACTAACC
*
37054727 CTTAACCCCAAACCACTAACCCCTAACTACTAACC
1 CTAAACCCCAAACCACTAACCCCTAACTACTAACC
37054762 CTAAACC
1 CTAAACC
37054769 TTATCTAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (35 bp):
CTAAACCCCAAACCACTAACCCCTAACTACTAACC
Found at i:37054740 original size:14 final size:14
Alignment explanation
Indices: 37054729--37054768 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
37054719 TTCTAACCCT
37054729 TAACCCCAAACCAC
1 TAACCCCAAACCAC
* *
37054743 TAACCCCTAACTAC
1 TAACCCCAAACCAC
*
37054757 TAACCCTAAACC
1 TAACCCCAAACC
37054769 TTATCTAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (14 bp):
TAACCCCAAACCAC
Found at i:37054883 original size:80 final size:81
Alignment explanation
Indices: 37054747--37054902 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 81
37054737 AACCACTAAC
* *
37054747 CCCTAACTACTAACCCTAAACCTTATCTAATATACAAATTAAAAATATTAATTAATCAAAACCCT
1 CCCTAACTACTAACCCTAAACCTTATCTAATATACAAATTAAAAACACTAATTAATCAAAACCCT
37054812 AAATCCTAACCCGAAT
66 AAATCCTAACCCGAAT
* * * *
37054828 CCCTAAC-CCTAACCCTTAAACCTTATTTCATA-A-AAATTAAAATACACTAATTAATCTAAACC
1 CCCTAACTACTAACCC-TAAACCTTATCTAATATACAAATTAAAA-ACACTAATTAATCAAAACC
37054890 CTAAATCCTAACC
64 CTAAATCCTAACC
37054903 TGACACCGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
79 9 0.13
80 37 0.55
81 21 0.31
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.28
Consensus pattern (81 bp):
CCCTAACTACTAACCCTAAACCTTATCTAATATACAAATTAAAAACACTAATTAATCAAAACCCT
AAATCCTAACCCGAAT
Found at i:37054925 original size:80 final size:80
Alignment explanation
Indices: 37054758--37054927 Score: 193
Period size: 80 Copynumber: 2.1 Consensus size: 80
37054748 CCTAACTACT
* * *
37054758 AACCCTAAACCTTATCTAATATACAAATTAAAAATATTAATTAATCAAAACCCTAAATCCTAACC
1 AACCTTAAACCTTATCTAATATACAAATTAAAAACACTAATTAATCAAAACCCTAAATCCTAACC
* *
37054823 CGAATCCCTAACCCTA
66 CGAA-CCCGAACCATA
* * * *
37054839 ACCCTTAAACCTTATTTCATA-A-AAATTAAAATACACTAATTAATCTAAACCCTAAATCCTAAC
1 AACCTTAAACCTTATCTAATATACAAATTAAAA-ACACTAATTAATCAAAACCCTAAATCCTAAC
*
37054902 CTG-ACACCGAATCCATA
65 CCGAAC-CCGAA-CCATA
37054919 AACCTTAAA
1 AACCTTAAA
37054928 TCCCTAACTC
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
78 1 0.01
79 14 0.19
80 43 0.57
81 17 0.23
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.26
Consensus pattern (80 bp):
AACCTTAAACCTTATCTAATATACAAATTAAAAACACTAATTAATCAAAACCCTAAATCCTAACC
CGAACCCGAACCATA
Found at i:37054948 original size:14 final size:14
Alignment explanation
Indices: 37054911--37054990 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
37054901 CCTGACACCG
* *
37054911 AATCCATAAACCTT
1 AATCCCTAACCCTT
*
37054925 AAATCCCTAACTCTT
1 -AATCCCTAACCCTT
*
37054940 AATCTCTAACCCTT
1 AATCCCTAACCCTT
**
37054954 AAATTAC-AACCCTT
1 -AATCCCTAACCCTT
* * *
37054968 AATCCATAATCCAT
1 AATCCCTAACCCTT
37054982 AATCCCTAA
1 AATCCCTAA
37054991 TTCCATAATC
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
13 3 0.06
14 32 0.64
15 15 0.30
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.30
Consensus pattern (14 bp):
AATCCCTAACCCTT
Found at i:37054979 original size:7 final size:7
Alignment explanation
Indices: 37054967--37055000 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
37054957 TTACAACCCT
37054967 TAATCCA
1 TAATCCA
37054974 TAATCCA
1 TAATCCA
*
37054981 TAATCCC
1 TAATCCA
37054988 TAATTCCA
1 TAA-TCCA
37054996 TAATC
1 TAATC
37055001 TATACGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.32
Consensus pattern (7 bp):
TAATCCA
Found at i:37055538 original size:114 final size:113
Alignment explanation
Indices: 37055408--37055973 Score: 642
Period size: 114 Copynumber: 5.0 Consensus size: 113
37055398 GACACTTCAA
* * *
37055408 CAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCATT-CTTAAAACGCCACTAAAGCCTACGA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTACTTAAAACGCCACTAAATCC-CCGA
* * * *
37055472 ATTG-TCAGAAAACGGTGTAGTTCGG-TTTAGTTTTTGTTGCGGCGCTTTCT
64 A-AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTT-TTGCGGCGCTTTCT
* *
37055522 CAAAAACGCCGCTAAAGCCCTGAACATTAGCGGTGCTTACTTAAAAACGCCACTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTT-AAAACGCCACTAAATCCCCGAA
* * * *
37055587 AGCTCAAAAAACGGCGTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCT
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTTCT
* * * * *
37055636 CAAAAGCGCTGCTAAAG-CCTGAGCATTAGCGGCGCTTACCTAAAAACACCACTAACTCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTA-CTTAAAACGCCACTAAATCCCCGAA
* * *
37055700 TGCTCAGAAAACGGCGTCGTTGGGC-TTAGGTATTTTTT-CGGTGCTTTCC
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTA-GT-TTTTTTGCGGCGCTTTCT
* * * * *
37055749 CGAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCGTTTACTAAAAAACGCCATTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACT-TAAAACGCCACTAAATCCCCGAA
* *
37055814 AGCTCAGAAAACGGCGTCGTTGGGCTTTGGTTTTTTTGTGGCGCTTTCT
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTTCT
* * * * * *
37055863 CGAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCACTTTCTTAAAAATGCCGCTAAATCCCCGAA
1 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTT-AAAACGCCACTAAATCCCCGAA
* * * * *
37055928 AGCTCGGAAAACGGCGTCGTTGTGC-TTAGGTATTTTGCGACGCTTT
65 AGCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTT
37055974 ATGGAAACGC
Statistics
Matches: 385, Mismatches: 55, Indels: 25
0.83 0.12 0.05
Matches are distributed among these distances:
112 2 0.01
113 113 0.29
114 243 0.63
115 27 0.07
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (113 bp):
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAACGCCACTAAATCCCCGAAA
GCTCAGAAAACGGCGTCGTTGGGCTTTAGTTTTTTTGCGGCGCTTTCT
Found at i:37055797 original size:227 final size:228
Alignment explanation
Indices: 37055410--37055964 Score: 728
Period size: 227 Copynumber: 2.4 Consensus size: 228
37055400 CACTTCAACA
* * * *
37055410 AAAACGCCGCTAAAGCCCTAAGCATTAGCGGCGCATT-CTTAAAACGCCACTAAAGCCTACGAAT
1 AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTCCTAAAAACGCCACTAAATCC-CCGAA-
* * * * *
37055474 TG-TCAGAAAACGGTGTAGTTCGGTTTA-GT-TTTTGTTGCGGCGCTTTCTCAAAAACGCCGCTA
63 TGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTGCGGCGCTTTCCCAAAAACGCCGCTA
* *
37055536 AAGCCCTGAACATTAGCGGTGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGG
128 AAGCCCTGAACATTAGCGGCGCTTACTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGG
37055601 CGTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
193 CGTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
* * *
37055637 AAAAGCGCTGCTAAAG-CCTGAGCATTAGCGGCGCTTACCTAAAAACACCACTAACTCCCCGAAT
1 AAAA-CGCCGCTAAAGCCCTGAGCATTAGCGGCGCTT-CCTAAAAACGCCACTAAATCCCCGAAT
* *
37055701 GCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTT-TT-CGGTGCTTTCCCGAAAACGCCGCTAA
64 GCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTGCGGCGCTTTCCCAAAAACGCCGCTAA
* * * * *
37055764 AGCCCTGAGCATTAGTGGCGTTTACTAAAAAACGCCATTAAATCCCCGAAAGCTCAGAAAACGGC
129 AGCCCTGAACATTAGCGGCGCTTACTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGC
*
37055829 GTCGTTGGGCTTTGGTTTTTTTGTGGCGCTTTCTC
194 GTCGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
* * * * * *
37055864 GAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCACTTTCTTAAAAATGCCGCTAAATCCCCGAAA
1 -AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC-TTCCTAAAAACGCCACTAAATCCCCGAAT
* *
37055929 GCTCGGAAAACGGCGTCGTTGTGCTTAGGTATTTTG
64 GCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTG
37055965 CGACGCTTTA
Statistics
Matches: 285, Mismatches: 33, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
226 4 0.01
227 171 0.60
228 104 0.36
229 6 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (228 bp):
AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTAAAAACGCCACTAAATCCCCGAATGC
TCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTGTTGCGGCGCTTTCCCAAAAACGCCGCTAAAG
CCCTGAACATTAGCGGCGCTTACTAAAAAACGCCACTAAATCCCCGAAAGCTCAAAAAACGGCGT
CGTTGGGCTTTGGTTTTTTTGTGGAGCTTTCTC
Found at i:37061592 original size:61 final size:63
Alignment explanation
Indices: 37061490--37061629 Score: 160
Period size: 61 Copynumber: 2.2 Consensus size: 63
37061480 ATCTAATGCT
* * **
37061490 CCAATCAATTCAGCAATATATATATTCATATACGAATCAAATTCGACAATGAAT-ATCGATATA
1 CCAATCAATTCGGCAATATATATATCCATATAAAAATCAAATTCGACAATGAATAATC-ATATA
* * * *
37061553 CCAAGCAATTCGGCAATATATA-A-CCATATAAAAATCAAATTTGGCAATGTATAATCATATA
1 CCAATCAATTCGGCAATATATATATCCATATAAAAATCAAATTCGACAATGAATAATCATATA
*
37061614 CAAATCAAATTCGGCA
1 CCAATC-AATTCGGCA
37061630 TCCTATATTC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
61 32 0.49
62 13 0.20
63 20 0.31
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (63 bp):
CCAATCAATTCGGCAATATATATATCCATATAAAAATCAAATTCGACAATGAATAATCATATA
Found at i:37061642 original size:31 final size:31
Alignment explanation
Indices: 37061492--37061647 Score: 113
Period size: 31 Copynumber: 5.0 Consensus size: 31
37061482 CTAATGCTCC
* * *
37061492 AATC-AATTCAGCAATATATATATTCATATACG
1 AATCAAATTCGGCAATCTATA-A-TCATATACA
* ** *
37061524 AATCAAATTCGACAATGAAT-ATCGATATACC
1 AATCAAATTCGGCAATCTATAATC-ATATACA
* * * *
37061555 AAGC-AATTCGGCAATATATAACCATATAAA
1 AATCAAATTCGGCAATCTATAATCATATACA
* *
37061585 AATCAAATTTGGCAATGTATAATCATATACA
1 AATCAAATTCGGCAATCTATAATCATATACA
* *
37061616 AATCAAATTCGGC-ATCCTATATTCATAAACA
1 AATCAAATTCGGCAAT-CTATAATCATATACA
37061647 A
1 A
37061648 TTTAATTTCA
Statistics
Matches: 98, Mismatches: 21, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
30 24 0.24
31 59 0.60
32 4 0.04
33 11 0.11
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (31 bp):
AATCAAATTCGGCAATCTATAATCATATACA
Found at i:37061676 original size:93 final size:92
Alignment explanation
Indices: 37061566--37061855 Score: 275
Period size: 93 Copynumber: 3.1 Consensus size: 92
37061556 AGCAATTCGG
* * * *
37061566 CAATATATAACCATATAAAAATCAAATTT-GGCAATGTAT-AATCATATACAAATCAAATTCGGC
1 CAATGTATAACCATATAAAAAT-AAATTTCAGCAATGT-TCAACCATATACAAATC-AATTCAGC
* * *
37061629 ATCCTATATTCATAAACAATTTAATTTCAA
63 AACCTATATACATAAACAATTCAATTTCAA
* * * *
37061659 CAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATACGAATCATTTCAGCAA
1 CAATGTATAACCATAT-AAAAATAAATTTCAGCAATGTTCAACCATATACAAATCAATTCAGCAA
* ** *
37061724 CTTATATACATGTACAATTCAATTTCAG
65 CCTATATACATAAACAATTCAATTTCAA
* * * * *
37061752 CAATGAATAACCATATAAAAATTATTTTCAGCAATGTTCAACCATATA-AGAACCATTTCAGCAA
1 CAATGTATAACCATATAAAAATAAATTTCAGCAATGTTCAACCATATACA-AATCAATTCAGCAA
* * * *
37061816 CTTATGTA-ATACAA-AATTCAATATCAG
65 CCTATATACATA-AACAATTCAATTTCAA
37061843 CAATGTATAACCA
1 CAATGTATAACCA
37061856 AAAACAATTC
Statistics
Matches: 169, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
91 26 0.15
92 53 0.31
93 64 0.38
94 26 0.15
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (92 bp):
CAATGTATAACCATATAAAAATAAATTTCAGCAATGTTCAACCATATACAAATCAATTCAGCAAC
CTATATACATAAACAATTCAATTTCAA
Found at i:37061781 original size:31 final size:30
Alignment explanation
Indices: 37061653--37061800 Score: 113
Period size: 31 Copynumber: 4.8 Consensus size: 30
37061643 AACAATTTAA
*
37061653 TTTCAACAATGTATAACCATATAAAAAATTAT
1 TTTCAGCAATG-ATAACCATAT-AAAAATTAT
* ** *
37061685 TTTCAGCAATGTTCAACCATATACGAATCA-
1 TTTCAGCAATGAT-AACCATATAAAAATTAT
* * * *
37061715 TTTCAGCAACTTATATA-CATGT-ACAATTCAA
1 TTTCAGCAA-TGATA-ACCATATAAAAATT-AT
37061746 TTTCAGCAATGAATAACCATATAAAAATTAT
1 TTTCAGCAATG-ATAACCATATAAAAATTAT
*
37061777 TTTCAGCAATGTTCAACCATATAA
1 TTTCAGCAATGAT-AACCATATAA
37061801 GAACCATTTC
Statistics
Matches: 91, Mismatches: 16, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
29 3 0.03
30 18 0.20
31 47 0.52
32 23 0.25
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (30 bp):
TTTCAGCAATGATAACCATATAAAAATTAT
Found at i:37061810 original size:92 final size:92
Alignment explanation
Indices: 37061644--37061855 Score: 318
Period size: 92 Copynumber: 2.3 Consensus size: 92
37061634 ATATTCATAA
* * *
37061644 ACAATTTAATTTCAACAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAC
1 ACAATTCAATTTCAGCAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAA
* **
37061709 GAATCATTTCAGCAACTTATATACATGT
66 GAACCATTTCAGCAACTTATATA-ATAC
*
37061737 ACAATTCAATTTCAGCAATGAATAACCATAT-AAAAATTATTTTCAGCAATGTTCAACCATATAA
1 ACAATTCAATTTCAGCAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAA
*
37061801 GAACCATTTCAGCAACTTATGTAATAC
66 GAACCATTTCAGCAACTTATATAATAC
* *
37061828 AAAATTCAATATCAGCAATGTATAACCA
1 ACAATTCAATTTCAGCAATGTATAACCA
37061856 AAAACAATTC
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 27 0.25
92 53 0.49
93 28 0.26
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (92 bp):
ACAATTCAATTTCAGCAATGTATAACCATATAAAAAATTATTTTCAGCAATGTTCAACCATATAA
GAACCATTTCAGCAACTTATATAATAC
Found at i:37062598 original size:26 final size:26
Alignment explanation
Indices: 37062567--37062618 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
37062557 CAAAGGGCCG
37062567 AACCCTAAAATGCTTGAAATGGTCTT
1 AACCCTAAAATGCTTGAAATGGTCTT
37062593 AACCCTAAAATGCTTGAAATGGTCTT
1 AACCCTAAAATGCTTGAAATGGTCTT
37062619 TCTTCTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
AACCCTAAAATGCTTGAAATGGTCTT
Found at i:37069463 original size:3 final size:3
Alignment explanation
Indices: 37069455--37069480 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37069445 AACCAAAAAG
37069455 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
37069481 CATTTAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:37069779 original size:29 final size:31
Alignment explanation
Indices: 37069714--37069789 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
37069704 TTAAAATTAT
* * * *
37069714 ACATGAACTTTGATTTAATGTGTAATTGTAT
1 ACATGAACTTTAATTTAATGTGCAATTATAC
37069745 ACATGAACTTTAATTT-A-GTGCAATTATAC
1 ACATGAACTTTAATTTAATGTGCAATTATAC
*
37069774 ACATGAAACTCTAATT
1 ACATG-AACTTTAATT
37069790 GTGGCTCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.36
30 10 0.26
31 15 0.38
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (31 bp):
ACATGAACTTTAATTTAATGTGCAATTATAC
Found at i:37077150 original size:3 final size:3
Alignment explanation
Indices: 37077142--37077172 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37077132 TCAATCGATG
37077142 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37077173 AGCAATCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:37077330 original size:16 final size:16
Alignment explanation
Indices: 37077306--37077347 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
37077296 TTTGGTTTGC
* *
37077306 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
37077322 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
37077338 TGTAATGGAA
1 TGTAATGGAA
37077348 AAGCTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:37077785 original size:15 final size:15
Alignment explanation
Indices: 37077757--37077797 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
37077747 ATAAAATATA
37077757 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
37077772 TATTAAATATATTAT
1 AATTAAATATATTAT
37077787 AATTAAA-ATAT
1 AATTAAATATAT
37077798 CATGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:37077981 original size:101 final size:92
Alignment explanation
Indices: 37077932--37078163 Score: 276
Period size: 91 Copynumber: 2.5 Consensus size: 92
37077922 GACTTAATAA
* *
37077932 AATTT-AAAATAATTATA-ACTAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTATACA-TAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAA
*
37077995 TATTACATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * * *
37078023 AATTTCATAAAATTCTTCATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
*
37078088 TTAAATATAATTTAA-TAATGATATAT
66 TTAAATATAATTTAATTAATAATATAT
* * * *
37078114 AATTTCATAAAATTCTTA-ATAATAAAATATTCTTATATGAATTCATATAA
1 AATTTCAAAAAATT-ATACATAATAAATTA-TCTTATATGAATTTATATAA
37078164 GATAATTTAT
Statistics
Matches: 122, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
91 99 0.81
92 23 0.19
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (92 bp):
AATTTCAAAAAATTATACATAATAAATTATCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:37078005 original size:26 final size:28
Alignment explanation
Indices: 37077976--37078036 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
37077966 TATGAATTTG
*
37077976 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
37078002 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
37078030 TAAAATT
1 TATAATT
37078037 CTTCATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:37078034 original size:47 final size:46
Alignment explanation
Indices: 37077983--37078126 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
37077973 TTGTATAATT
37077983 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
37078030 TAAAAT--TCT-TCA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
37078074 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
37078121 TAAAAT
1 TAAAAT
37078127 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:37078046 original size:91 final size:91
Alignment explanation
Indices: 37077951--37078156 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 91
37077941 TAATTATAAC
* * * *
37077951 TAATAAATTATCTTATATGAATTTGTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
37078016 AATATATAATTTCATAAAATTCTTCA
66 AATATATAATTTCATAAAATTCTTAA
*
37078042 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
37078107 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATTCTTAA
*
37078133 TAATAAAATATTCTTATATGAATT
1 TAATAAATTA-TCTTATATGAATT
37078157 CATATAAGAT
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 92 0.88
92 13 0.12
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (91 bp):
TAATAAATTATCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTAA
Found at i:37078118 original size:44 final size:43
Alignment explanation
Indices: 37077976--37078118 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
37077966 TATGAATTTG
* *
37077976 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
37078020 TATAATTTCATAAAATTCTTCATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
37078067 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
37078111 TATAATTT
1 TATAATTT
37078119 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:37078133 original size:47 final size:47
Alignment explanation
Indices: 37078001--37078139 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
37077991 TTATTATTAC
* *
37078001 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTCATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
37078048 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
37078092 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
37078139 A
1 A
37078140 ATATTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:37089088 original size:3 final size:3
Alignment explanation
Indices: 37089074--37089109 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
37089064 CTTATCACAT
* *
37089074 CCA CCG CCA CCA CCA CCA CCA CCA CCA CCT CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
37089110 TAACTGCCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.67, G:0.03, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:37106336 original size:31 final size:31
Alignment explanation
Indices: 37106293--37106359 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
37106283 ATAAAATAGC
*
37106293 CATTAAACTATTTGAAAGCTTTCATTTAAGT
1 CATTGAACTATTTGAAAGCTTTCATTTAAGT
* *
37106324 CATTGAACTATTTGAAAGTTTTTATTTAAGT
1 CATTGAACTATTTGAAAGCTTTCATTTAAGT
37106355 CATTG
1 CATTG
37106360 GGTTATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (31 bp):
CATTGAACTATTTGAAAGCTTTCATTTAAGT
Found at i:37115128 original size:10 final size:10
Alignment explanation
Indices: 37115113--37115188 Score: 61
Period size: 10 Copynumber: 7.6 Consensus size: 10
37115103 TTTAAAATAC
37115113 TTTTTTAAAA
1 TTTTTTAAAA
*
37115123 TTTTTTAAAT
1 TTTTTTAAAA
37115133 TTTTTTAAAA
1 TTTTTTAAAA
*
37115143 TACTTTTT-TAA
1 T--TTTTTAAAA
*
37115154 TTTTTT-TAA
1 TTTTTTAAAA
37115163 --TTTTAAAA
1 TTTTTTAAAA
37115171 TATTTTTAAAA
1 T-TTTTTAAAA
37115182 TATTTTT
1 T-TTTTT
37115189 TTAATTTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
7 4 0.07
8 2 0.04
9 8 0.14
10 19 0.34
11 18 0.32
12 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:37115160 original size:11 final size:11
Alignment explanation
Indices: 37115091--37115189 Score: 70
Period size: 11 Copynumber: 9.5 Consensus size: 11
37115081 ATTTTTTTAA
* *
37115091 TTTTAAAATAC
1 TTTTTAAATAT
*
37115102 TTTTAAAATACT
1 TTTTTAAATA-T
37115114 TTTTTAAA-AT
1 TTTTTAAATAT
37115124 TTTTTAAAT-T
1 TTTTTAAATAT
37115134 TTTTTAAAATACT
1 TTTTT-AAATA-T
37115147 TTTTT-AAT-T
1 TTTTTAAATAT
37115156 TTTTT--A-A-
1 TTTTTAAATAT
*
37115163 TTTTAAAATAT
1 TTTTTAAATAT
*
37115174 TTTTAAAATAT
1 TTTTTAAATAT
37115185 TTTTT
1 TTTTT
37115190 TAATTTTTGT
Statistics
Matches: 74, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
7 4 0.05
8 1 0.01
9 7 0.09
10 16 0.22
11 33 0.45
12 7 0.09
13 6 0.08
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTTAAATAT
Found at i:37115189 original size:39 final size:42
Alignment explanation
Indices: 37115121--37115215 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 42
37115111 ACTTTTTTAA
* *
37115121 AATTTTTTAAATTTTTTTAAAATACTTTTTTAA-TTT-TTTT
1 AATTTTTAAAATATTTTTAAAATACTTTTTTAATTTTGTTTT
*
37115161 AA-TTTTAAAATATTTTTAAAATATTTTTTTAATTTTTGTTTT
1 AATTTTTAAAATATTTTTAAAATACTTTTTTAA-TTTTGTTTT
37115203 AATTTTTAAAATA
1 AATTTTTAAAATA
37115216 AATTTTTGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
39 27 0.56
40 2 0.04
41 3 0.06
42 6 0.12
43 10 0.21
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (42 bp):
AATTTTTAAAATATTTTTAAAATACTTTTTTAATTTTGTTTT
Found at i:37115222 original size:72 final size:71
Alignment explanation
Indices: 37115068--37115222 Score: 206
Period size: 72 Copynumber: 2.2 Consensus size: 71
37115058 GCCCGAATAT
37115068 AATAAATATTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAAATTTTTTAAAT
1 AATAAAT-TTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAAATTTTTTAAA-
37115133 TTTTTTAA
64 TTTTTTAA
* * * ** *
37115141 AAT-ACTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATATTTTTTTAATTTTTGTTTTAA
1 AATAAATTTTTT-ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAAATTT-TTTAAA
37115205 -TTTTTAA
64 TTTTTTAA
37115212 AATAAATTTTT
1 AATAAATTTTT
37115223 GGTATTTATT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
71 15 0.21
72 49 0.68
73 8 0.11
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (71 bp):
AATAAATTTTTTATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTAAAATTTTTTAAATT
TTTTAA
Found at i:37119171 original size:17 final size:18
Alignment explanation
Indices: 37119140--37119173 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
37119130 TATGTTAATT
37119140 TTATTGATTTAAATAGAG
1 TTATTGATTTAAATAGAG
*
37119158 TTATT-ATTTGAATAGA
1 TTATTGATTTAAATAGA
37119174 ATTTTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TTATTGATTTAAATAGAG
Found at i:37121790 original size:24 final size:24
Alignment explanation
Indices: 37121752--37121833 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
37121742 CAACTCGAAA
** *
37121752 GAGCATCCCGTTATTAACTCTCGT
1 GAGCATCCCAATATTAGCTCTCGT
* *
37121776 GAGCATCCCAATATTTGGCTCTCAT
1 GAGCATCCCAATA-TTAGCTCTCGT
*
37121801 GAGCTTCCCAATATTAGCTCTTCG-
1 GAGCATCCCAATATTAGCTC-TCGT
37121825 GAGCATCCC
1 GAGCATCCC
37121834 GATTTGGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 25 0.53
25 22 0.47
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.30
Consensus pattern (24 bp):
GAGCATCCCAATATTAGCTCTCGT
Found at i:37121951 original size:24 final size:24
Alignment explanation
Indices: 37121882--37121951 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
37121872 CAGCACTTAT
* * *
37121882 GAGCGTCCCGTTATATGGCTCTTTG
1 GAGCTTCCCGATA-ATGGCTCTTCG
37121907 GAGCTTCCCGATTAATGGCTCTTCG
1 GAGCTTCCCGA-TAATGGCTCTTCG
37121932 GAGCTTCCCGATAATGGCTC
1 GAGCTTCCCGATAATGGCTC
37121952 ACTTGAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 9 0.22
25 30 0.73
26 2 0.05
ACGTcount: A:0.16, C:0.27, G:0.26, T:0.31
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGCTCTTCG
Found at i:37121982 original size:24 final size:23
Alignment explanation
Indices: 37121895--37121982 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 23
37121885 CGTCCCGTTA
*
37121895 TATGGCTCTTTGGAGCTTCCCGAT
1 TATGGCTCTTT-GAACTTCCCGAT
* *
37121919 TAATGGCTCTTCGGAGCTTCCCGAT
1 T-ATGGCTCTT-TGAACTTCCCGAT
* * *
37121944 AATGGCTCACTTGAACTTCCCAAT
1 TATGGCTC-TTTGAACTTCCCGAT
37121968 TATGGCTCTTATGAA
1 TATGGCTCTT-TGAA
37121983 GTTCTTGTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 29 0.56
25 22 0.42
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (23 bp):
TATGGCTCTTTGAACTTCCCGAT
Found at i:37122017 original size:25 final size:25
Alignment explanation
Indices: 37121989--37122043 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
37121979 TGAAGTTCTT
*
37121989 GTTATACAGCTCGA-ATGAGTTTCCC
1 GTTATACAGCTC-ACATGAGCTTCCC
* **
37122014 GTTACATGGCTCACATGAGCTTCCC
1 GTTATACAGCTCACATGAGCTTCCC
37122039 GTTAT
1 GTTAT
37122044 TTAGTTCGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (25 bp):
GTTATACAGCTCACATGAGCTTCCC
Found at i:37123589 original size:22 final size:22
Alignment explanation
Indices: 37123564--37123618 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
37123554 TAAGGGTGTT
*
37123564 ACAAGATAATAGTAAGAAAACA
1 ACAAGAAAATAGTAAGAAAACA
* * *
37123586 ACAACAAAATTGTAGGAAAACA
1 ACAAGAAAATAGTAAGAAAACA
*
37123608 ACAAGAGAATA
1 ACAAGAAAATA
37123619 ATATATTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.62, C:0.11, G:0.15, T:0.13
Consensus pattern (22 bp):
ACAAGAAAATAGTAAGAAAACA
Found at i:37124909 original size:10 final size:10
Alignment explanation
Indices: 37124894--37124966 Score: 80
Period size: 10 Copynumber: 7.5 Consensus size: 10
37124884 TTTTTCAATT
37124894 AATTATTAAA
1 AATTATTAAA
37124904 AATTATTAAA
1 AATTATTAAA
*
37124914 AACTA-TAAGA
1 AATTATTAA-A
37124924 AATTA-TAAA
1 AATTATTAAA
*
37124933 AA-TATTATA
1 AATTATTAAA
*
37124942 AATTAATAAA
1 AATTATTAAA
*
37124952 AATTATTTAA
1 AATTATTAAA
37124962 AATTA
1 AATTA
37124967 CAATAAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.04
9 11 0.21
10 40 0.75
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (10 bp):
AATTATTAAA
Found at i:37124934 original size:19 final size:18
Alignment explanation
Indices: 37124903--37124954 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
37124893 TAATTATTAA
37124903 AAATTATTAAAAACTATAAG
1 AAATTA-TAAAAA-TATAAG
* *
37124923 AAATTATAAAAATATTAT
1 AAATTATAAAAATATAAG
37124941 AAATTAATAAAAAT
1 AAATT-ATAAAAAT
37124955 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 14 0.48
20 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTATAAAAATATAAG
Found at i:37124962 original size:19 final size:18
Alignment explanation
Indices: 37124897--37124977 Score: 65
Period size: 20 Copynumber: 4.2 Consensus size: 18
37124887 TTCAATTAAT
*
37124897 TATTAAAAATTATTAAAAA
1 TATTATAAATTA-TAAAAA
* *
37124916 CTATAAGAAATTATAAAAA
1 -TATTATAAATTATAAAAA
37124935 TATTATAAATTAATAAAAA
1 TATTATAAATT-ATAAAAA
*
37124954 TTATT-TAAAATTACAATAAA
1 -TATTAT-AAATTATAA-AAA
37124974 TATT
1 TATT
37124978 TGAATTACAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
18 9 0.17
19 21 0.40
20 22 0.42
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (18 bp):
TATTATAAATTATAAAAA
Found at i:37124965 original size:38 final size:39
Alignment explanation
Indices: 37124897--37124977 Score: 94
Period size: 38 Copynumber: 2.1 Consensus size: 39
37124887 TTCAATTAAT
* *
37124897 TATTAAAAATTATTAAAAACTATAAGAAATTATAA-AAA
1 TATTAAAAATTAATAAAAACTATAAGAAATTACAATAAA
* * *
37124935 TATTATAAATTAATAAAAATTATTTA-AAATTACAATAAA
1 TATTAAAAATTAATAAAAACTA-TAAGAAATTACAATAAA
37124974 TATT
1 TATT
37124978 TGAATTACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 27 0.75
39 9 0.25
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (39 bp):
TATTAAAAATTAATAAAAACTATAAGAAATTACAATAAA
Found at i:37127316 original size:27 final size:27
Alignment explanation
Indices: 37127286--37127338 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
37127276 GGATTATTCC
37127286 GTGTTTAACATCCTATTAGACAATCTT
1 GTGTTTAACATCCTATTAGACAATCTT
* * *
37127313 GTGTTTAACATCTTGTTAGACTATCT
1 GTGTTTAACATCCTATTAGACAATCT
37127339 ATGATGCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (27 bp):
GTGTTTAACATCCTATTAGACAATCTT
Found at i:37139369 original size:19 final size:18
Alignment explanation
Indices: 37139345--37139392 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
37139335 ATTTATTTAT
37139345 TAAATTTAATTAGAATATA
1 TAAATTTAATTA-AATATA
* *
37139364 TAAATTATATTTAAATATT
1 TAAATT-TAATTAAATATA
*
37139383 TAAATATAAT
1 TAAATTTAAT
37139393 AATTAGATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 16 0.67
20 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
TAAATTTAATTAAATATA
Found at i:37147118 original size:28 final size:29
Alignment explanation
Indices: 37147029--37147120 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
37147019 CTCTATATTA
* * *
37147029 AAAGATTGAATATTTGAAGTTGGGTGGAT
1 AAAGATTGAAGAATTGAAGTTGGCTGGAT
* * *
37147058 TAAGATTGAAG-ATTCGAAGTAGGCTAGAT
1 AAAGATTGAAGAATT-GAAGTTGGCTGGAT
37147087 AAAGATTGAAGAATTGAA-TTGGCTGGAT
1 AAAGATTGAAGAATTGAAGTTGGCTGGAT
37147115 AAAGAT
1 AAAGAT
37147121 CAAATTATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 5
0.79 0.14 0.08
Matches are distributed among these distances:
28 16 0.31
29 33 0.63
30 3 0.06
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.29
Consensus pattern (29 bp):
AAAGATTGAAGAATTGAAGTTGGCTGGAT
Found at i:37147195 original size:14 final size:15
Alignment explanation
Indices: 37147176--37147204 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
37147166 TAATCTTTAG
37147176 TTTAAATA-TGATTT
1 TTTAAATATTGATTT
37147190 TTTAAATATTGATTT
1 TTTAAATATTGATTT
37147205 ATCTAGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
TTTAAATATTGATTT
Found at i:37163470 original size:18 final size:17
Alignment explanation
Indices: 37163447--37163488 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
37163437 TCCAAACGCA
37163447 AAATATTACCTTATTTTG
1 AAATATTACCTT-TTTTG
*
37163465 AAATATTTTCCTTTTTTG
1 AAATA-TTACCTTTTTTG
37163483 AAATAT
1 AAATAT
37163489 GAAGTTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 1 0.05
18 15 0.68
19 6 0.27
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (17 bp):
AAATATTACCTTTTTTG
Found at i:37163643 original size:24 final size:27
Alignment explanation
Indices: 37163596--37163647 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
37163586 TAAATAAATA
37163596 ATAAACTAAAAACATAAGAATGAACAT
1 ATAAACTAAAAACATAAGAATGAACAT
*
37163623 ATAAAC-AAATACAT-A-AATGAACAT
1 ATAAACTAAAAACATAAGAATGAACAT
37163647 A
1 A
37163648 AAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 7 0.29
27 6 0.25
ACGTcount: A:0.63, C:0.12, G:0.06, T:0.19
Consensus pattern (27 bp):
ATAAACTAAAAACATAAGAATGAACAT
Found at i:37163840 original size:19 final size:18
Alignment explanation
Indices: 37163803--37163845 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
37163793 AAATATGCAT
*
37163803 ATATATATATAATAAAAA
1 ATATATATATAAGAAAAA
* *
37163821 ATTATATATATTAGATAAA
1 A-TATATATATAAGAAAAA
37163840 ATATAT
1 ATATAT
37163846 GTAATGTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATATATAAGAAAAA
Found at i:37163932 original size:11 final size:12
Alignment explanation
Indices: 37163918--37163968 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
37163908 TAATAATTAT
37163918 TAATGAAAAT-A
1 TAATGAAAATAA
*
37163929 TAATGATAATAA
1 TAATGAAAATAA
37163941 TAAT-AATAATAA
1 TAATGAA-AATAA
37163953 TAAT-AATAATAA
1 TAATGAA-AATAA
37163965 TAAT
1 TAAT
37163969 AAAGTTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
11 10 0.28
12 26 0.72
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (12 bp):
TAATGAAAATAA
Found at i:37163942 original size:3 final size:3
Alignment explanation
Indices: 37163928--37163970 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
37163918 TAATGAAAAT
*
37163928 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
37163971 AGTTAACAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:37171733 original size:6 final size:6
Alignment explanation
Indices: 37171722--37171762 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
37171712 GAAGACAGGT
37171722 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCAT
1 CCCATG CCCATG CCCATG CCCATG CCCATG CCCATG CCCAT
37171763 TGAGCTCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.17, C:0.51, G:0.15, T:0.17
Consensus pattern (6 bp):
CCCATG
Found at i:37174623 original size:92 final size:92
Alignment explanation
Indices: 37174478--37174647 Score: 236
Period size: 92 Copynumber: 1.8 Consensus size: 92
37174468 ACACCTACTC
* * * * * *
37174478 ATGTTGTGATATGCCAATCTAGAATTCATCTTACTAGAAGCAATATAGTGAGTGGTTTTGTATTA
1 ATGTCGTGATATGCCAATCCAGAATTCATCTTACTAGAAGCAACACAGTGAGTGGTTTCGTATCA
37174543 CACAATGCCATGGGTTTACACTTCCTT
66 CACAATGCCATGGGTTTACACTTCCTT
* *
37174570 ATGTCGTGATCTGCCAATCCA-AACTTCATCTTACTGGAAGCAACACCA-TGAGTGGTTTCGTAT
1 ATGTCGTGATATGCCAATCCAGAA-TTCATCTTACTAGAAGCAACA-CAGTGAGTGGTTTCGTAT
37174633 CACACAATGCCATGG
64 CACACAATGCCATGG
37174648 ATCTCAACCA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 2 0.03
92 65 0.96
93 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (92 bp):
ATGTCGTGATATGCCAATCCAGAATTCATCTTACTAGAAGCAACACAGTGAGTGGTTTCGTATCA
CACAATGCCATGGGTTTACACTTCCTT
Found at i:37181862 original size:23 final size:22
Alignment explanation
Indices: 37181826--37181890 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
37181816 AGAGAATTGG
* *
37181826 AAATAAAATTTATTTTTATTAATT
1 AAAT-AAATATATTTTTATTAA-A
*
37181850 AAATAAATATATTTTAAGTTAAA
1 AAATAAATATATTTTTA-TTAAA
37181873 AAATAAATAT-TTTTTATT
1 AAATAAATATATTTTTATT
37181891 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.06
22 5 0.14
23 21 0.58
24 8 0.22
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAATAAATATATTTTTATTAAA
Found at i:37183046 original size:29 final size:30
Alignment explanation
Indices: 37183000--37183058 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
37182990 AAATTAAATC
*
37183000 AAATCAAAATGTTATGTATAAAATTGCACA
1 AAATCAAAATGTTATGTATAAAATTACACA
*
37183030 AAATC-AAA-GTTCATGTATAACATTACACA
1 AAATCAAAATGTT-ATGTATAAAATTACACA
37183059 TTAAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (30 bp):
AAATCAAAATGTTATGTATAAAATTACACA
Found at i:37185898 original size:50 final size:49
Alignment explanation
Indices: 37185790--37185975 Score: 255
Period size: 50 Copynumber: 3.7 Consensus size: 49
37185780 ACATGCCAAA
* ** *
37185790 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGGTG-CCAT
*
37185841 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCTCAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGC-CAT
* *
37185891 GCCATGTCCCAGACATGGTCTTATAGGGGACCTATCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCC-AT
* *
37185941 GCCATGTCCCAGACATGGTCTTATATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
37185976 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 2 0.02
50 93 0.76
51 28 0.23
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAT
Found at i:37186348 original size:30 final size:30
Alignment explanation
Indices: 37186313--37186370 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37186303 CCTCGACTCT
* *
37186313 AACTTTTTCAAAATTTCAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* *
37186343 AACTTTTGCATAATTACATTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
37186371 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.24, G:0.05, T:0.43
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:37187258 original size:50 final size:50
Alignment explanation
Indices: 37187183--37187366 Score: 260
Period size: 50 Copynumber: 3.7 Consensus size: 50
37187173 GGGCCATTAC
*
37187183 AGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
* **
37187233 AGGTCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACTAAGATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
* * * * *
37187283 AGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGTACCGATATGAG
1 AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
**
37187333 AACATCCCATGTAAGACCATGTCTGGGACATGGC
1 -AGGTCCCATGTAAGACCATGTCTGGGACATGGC
37187367 TTTGACATGT
Statistics
Matches: 118, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 88 0.75
51 30 0.25
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAG
Found at i:37191829 original size:33 final size:34
Alignment explanation
Indices: 37191713--37191830 Score: 147
Period size: 33 Copynumber: 3.5 Consensus size: 34
37191703 TTTTATTTTA
* *
37191713 TTTTTAA-CTTAATTTAAAATACTTTAAAATACT
1 TTTTTAATTTTAATTTAAAATATTTTAAAATACT
*
37191746 TTATTAAATTTTAAATTTAAAAT-TTTTAAAATAC-
1 TT-TTTAATTTT-AATTTAAAATATTTTAAAATACT
37191780 -TTTTAATTTTTAATTTAAAATATTTTAAAATACT
1 TTTTTAA-TTTTAATTTAAAATATTTTAAAATACT
37191814 TTTTTAATTTT-ATTTAA
1 TTTTTAATTTTAATTTAA
37191831 TTTTAAAATA
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
32 14 0.19
33 24 0.32
34 8 0.11
35 18 0.24
36 10 0.14
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (34 bp):
TTTTTAATTTTAATTTAAAATATTTTAAAATACT
Found at i:37193673 original size:101 final size:101
Alignment explanation
Indices: 37193498--37193737 Score: 345
Period size: 101 Copynumber: 2.4 Consensus size: 101
37193488 TGAATCGACG
*
37193498 GATAAGATCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
* * * *
37193563 ATATGTAAGACCATAGTTGGGCTATGACATTTTGGT
66 ATATGTAAGACCATAGCTAGGCTATGACATTCTGAT
* * * * ** *
37193599 GATAAGACCATAACTGGATTATGACACTATGAACGTAAGACCATGTTTGGACCATGGTAGTGTTT
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
*
37193664 ATATGTAAGATCATAGCTAGGCTATGACATTCTGAT
66 ATATGTAAGACCATAGCTAGGCTATGACATTCTGAT
* *
37193700 GATAAGACCATAACTGGGTTATGGCACTACGAATGTAA
1 GATAAGACCATAACTGGGTTATGGCACTATGAACGTAA
37193738 ATGATGAATT
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
GATAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCAAGACAGTATTT
ATATGTAAGACCATAGCTAGGCTATGACATTCTGAT
Found at i:37196202 original size:13 final size:13
Alignment explanation
Indices: 37196184--37196209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37196174 TCTTTTGTAT
37196184 AAAAAATAACAAG
1 AAAAAATAACAAG
37196197 AAAAAATAACAAG
1 AAAAAATAACAAG
37196210 TGTTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAATAACAAG
Found at i:37198980 original size:95 final size:95
Alignment explanation
Indices: 37198860--37199050 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
37198850 TGATTTGAAC
37198860 TCCATTCCCACTCTGTCCTCTTCTTTGCTCCTTTTCCTTACCTTTTCTAACTTATCTTACAAAGC
1 TCCATTCCCACTCTGTCCTCTTCTTTGCTCCTTTTCCTTACCTTTTCTAACTTATCTTACAAAGC
37198925 TTTAGAACTTAACCCATTTCGGCATTTCCT
66 TTTAGAACTTAACCCATTTCGGCATTTCCT
37198955 TCCATTCCCACTCTGTCCTCTTCTTTGCTCCTTTTCCTTACCTTTTCTAACTTATCTTACAAAGC
1 TCCATTCCCACTCTGTCCTCTTCTTTGCTCCTTTTCCTTACCTTTTCTAACTTATCTTACAAAGC
37199020 TTTAGAACTTAACCCATTTCGGCATTTCCT
66 TTTAGAACTTAACCCATTTCGGCATTTCCT
37199050 T
1 T
37199051 TGCTTGTACT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.18, C:0.32, G:0.06, T:0.43
Consensus pattern (95 bp):
TCCATTCCCACTCTGTCCTCTTCTTTGCTCCTTTTCCTTACCTTTTCTAACTTATCTTACAAAGC
TTTAGAACTTAACCCATTTCGGCATTTCCT
Found at i:37210032 original size:5 final size:5
Alignment explanation
Indices: 37210022--37210047 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
37210012 CAACTCTCTT
37210022 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
37210048 AACTCTCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:37210295 original size:17 final size:17
Alignment explanation
Indices: 37210273--37210308 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
37210263 CGATTGCATG
37210273 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
37210290 TTTCTATTGCTGTTTAT
1 TTTCTATTGCTGTTTAT
37210307 TT
1 TT
37210309 CCCTTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTCTATTGCTGTTTAT
Found at i:37211066 original size:22 final size:22
Alignment explanation
Indices: 37211025--37211146 Score: 103
Period size: 23 Copynumber: 5.5 Consensus size: 22
37211015 GAAGATGAAA
37211025 CTGGAAATTG--TTGCATTTGTT
1 CTGGAAATTGTTTTG-ATTTGTT
* *
37211046 -TTGATATTGTTCTTGATTTGTT
1 CTGGAAATTGTT-TTGATTTGTT
37211068 CTGGAAATTGTTTTGA-TTGTCT
1 CTGGAAATTGTTTTGATTTGT-T
*
37211090 GCTGGAAATTGTTATGA-TTGTCT
1 -CTGGAAATTGTTTTGATTTGT-T
37211113 GCTGGAAATTGTTTTGA-TTGTCT
1 -CTGGAAATTGTTTTGATTTGT-T
37211136 GCTGGAAATTG
1 -CTGGAAATTG
37211147 AATTTGTTTA
Statistics
Matches: 89, Mismatches: 6, Indels: 10
0.85 0.06 0.10
Matches are distributed among these distances:
20 7 0.08
21 4 0.04
22 12 0.13
23 66 0.74
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (22 bp):
CTGGAAATTGTTTTGATTTGTT
Found at i:37211094 original size:23 final size:23
Alignment explanation
Indices: 37211051--37211146 Score: 151
Period size: 23 Copynumber: 4.2 Consensus size: 23
37211041 TTGTTTTGAT
37211051 ATTGTTCTTGATTTGT-T-CTGGAA
1 ATTGTT-TTGA-TTGTCTGCTGGAA
37211074 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
*
37211097 ATTGTTATGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
37211120 ATTGTTTTGATTGTCTGCTGGAA
1 ATTGTTTTGATTGTCTGCTGGAA
37211143 ATTG
1 ATTG
37211147 AATTTGTTTA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
21 4 0.06
22 5 0.07
23 60 0.87
ACGTcount: A:0.19, C:0.08, G:0.25, T:0.48
Consensus pattern (23 bp):
ATTGTTTTGATTGTCTGCTGGAA
Found at i:37212467 original size:25 final size:25
Alignment explanation
Indices: 37212433--37212608 Score: 181
Period size: 25 Copynumber: 7.3 Consensus size: 25
37212423 TACATCAATA
*
37212433 ATTAAAATAAGGACTTTAATATTTC
1 ATTAAAATAAGGACTTTAATATTTT
* *
37212458 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
37212481 ATTAAAATAAGGGCTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
37212506 ATTAAAATAAGGAC--TAATCA-ATA
1 ATTAAAATAAGGACTTTAAT-ATTTT
*
37212529 ATTAAATTAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
* *
37212554 ATTAAAATAAGGAC--TAATCAATAT
1 ATTAAAATAAGGACTTTAAT-ATTTT
37212578 -TTAAAATAAGGACTTTAATATTTT
1 ATTAAAATAAGGACTTTAATATTTT
37212602 ATTAAAA
1 ATTAAAA
37212609 ATTACGAAAT
Statistics
Matches: 123, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
23 53 0.43
24 10 0.08
25 60 0.49
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (25 bp):
ATTAAAATAAGGACTTTAATATTTT
Found at i:37212481 original size:48 final size:48
Alignment explanation
Indices: 37212426--37212608 Score: 330
Period size: 48 Copynumber: 3.8 Consensus size: 48
37212416 AAATAATTAC
*
37212426 ATCAATAATTAAAATAAGGACTTTAATATTTCATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
37212474 ATCAATAATTAAAATAAGGGCTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
37212522 ATCAATAATTAAATTAAGGACTTTAATATTTTATTAAAATAAGGACTA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
*
37212570 ATCAATATTTAAAATAAGGACTTTAATATTTTATTAAAA
1 ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAA
37212609 ATTACGAAAT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 129 1.00
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.37
Consensus pattern (48 bp):
ATCAATAATTAAAATAAGGACTTTAATATTTTATTAAAATAAGGACTA
Found at i:37216173 original size:50 final size:50
Alignment explanation
Indices: 37216058--37216303 Score: 321
Period size: 50 Copynumber: 4.9 Consensus size: 50
37216048 GATAATAACA
* ** * *
37216058 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * *
37216109 TGCCCATGCCATGTCTCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
37216159 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTGTCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
37216209 TGCCAACGCCATGTCCCATACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
37216259 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
37216304 GATCTCAAGG
Statistics
Matches: 169, Mismatches: 26, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 137 0.81
51 32 0.19
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:37216729 original size:30 final size:30
Alignment explanation
Indices: 37216694--37216751 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37216684 CCTCGACTCT
* *
37216694 AACTTTTTCAAAATTATAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
37216724 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
37216752 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:37218239 original size:16 final size:16
Alignment explanation
Indices: 37218218--37218264 Score: 53
Period size: 15 Copynumber: 3.0 Consensus size: 16
37218208 TTATTAAATT
37218218 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
37218234 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
37218249 AT-TATGTTAAGTTATA
1 ATATATTTTAA-TTATA
37218265 TTTTACAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 15 0.58
16 9 0.35
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:37218330 original size:120 final size:120
Alignment explanation
Indices: 37218146--37218496 Score: 684
Period size: 120 Copynumber: 2.9 Consensus size: 120
37218136 CAAATTTTCA
*
37218146 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
1 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
37218211 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAGTTATAT
66 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAGTTATAT
37218266 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
1 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
*
37218331 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATAT
66 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAGTTATAT
37218386 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
1 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
37218451 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
37218497 TAAATATGAT
Statistics
Matches: 229, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 229 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAGTTATAT
Found at i:37218364 original size:15 final size:15
Alignment explanation
Indices: 37218329--37218380 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
37218319 TTAAGAATTT
*
37218329 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37218343 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37218357 TATTTAATAATAAT-
1 TATTTAATTATAATA
37218371 TATGTTAATT
1 TAT-TTAATT
37218381 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:37218479 original size:16 final size:16
Alignment explanation
Indices: 37218458--37218499 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37218448 TTATTAAATT
*
37218458 ATATATTTTAATTATA
1 ATATATTTTAATAATA
37218474 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
37218489 AT-TATGTTTAA
1 ATATAT-TTTAA
37218500 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:37218484 original size:15 final size:15
Alignment explanation
Indices: 37218449--37218490 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37218439 TTAAGAATTT
*
37218449 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37218463 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37218477 TATTTAATAATAAT
1 TATTTAATTATAAT
37218491 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:37218611 original size:157 final size:157
Alignment explanation
Indices: 37218433--37218722 Score: 562
Period size: 157 Copynumber: 1.8 Consensus size: 157
37218423 ATAAGAATAT
*
37218433 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
37218498 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
37218563 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
37218590 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
37218655 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
37218720 TAA
131 TAA
37218723 CAATAACAAT
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 131 1.00
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:37218630 original size:18 final size:17
Alignment explanation
Indices: 37218602--37218636 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37218592 ATTATTAAGA
*
37218602 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37218619 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37218637 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37218670 original size:75 final size:75
Alignment explanation
Indices: 37218434--37218672 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
37218424 TAAGAATATT
*
37218434 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
37218499 AATATGATTA
66 AATATGATTA
* ** * * * * *
37218509 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
37218571 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
37218591 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
37218656 AATATGATTA
66 AATATGATTA
37218666 AATTATT
1 AATTATT
37218673 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:37218715 original size:6 final size:6
Alignment explanation
Indices: 37218706--37218734 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
37218696 TTAAAATTTA
37218706 AATAAC AATAAC AATAAC AATAAC AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAA
37218735 TCATTTACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (6 bp):
AATAAC
Found at i:37218869 original size:44 final size:45
Alignment explanation
Indices: 37218806--37218903 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
37218796 CTATTACACC
* *
37218806 TCTATTCCATTCAACCAAACACAAGA-TTACTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*** *
37218850 TCTATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
*
37218895 TCCATTACA
1 TCTATTACA
37218904 CCTCTATTCC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 22 0.48
45 24 0.52
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACACAAGATTTACTATTACACCTCTAT
Found at i:37218902 original size:45 final size:44
Alignment explanation
Indices: 37218794--37218903 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
37218784 TTTTCCATTA
37218794 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * * ***
37218833 TACTATTACGCCTCTATTCTATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
37218878 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
37218904 CCTCTATTCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 16 0.29
44 16 0.29
45 24 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:37218903 original size:16 final size:16
Alignment explanation
Indices: 37218882--37218935 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
37218872 TTGATTTGCT
37218882 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
37218898 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
37218914 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
37218930 AATACA
1 ATTACA
37218936 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:37229865 original size:2 final size:2
Alignment explanation
Indices: 37229860--37229888 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37229850 TTTTTTTCTT
37229860 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
37229889 TATTCTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37235676 original size:20 final size:19
Alignment explanation
Indices: 37235633--37235676 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
37235623 AAGGATTATT
*
37235633 TTTTAATATTTAAAATATA
1 TTTTAATATTTAAAATAAA
* *
37235652 GTTTATATATTTAAATTAAA
1 TTTTA-ATATTTAAAATAAA
37235672 TTTTA
1 TTTTA
37235677 CAAAAAATTC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
TTTTAATATTTAAAATAAA
Done.