Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 308 of 325
Found at i:93821485 original size:15 final size:15
Alignment explanation
Indices: 93821467--93821497 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93821457 CCGAAAGACA
93821467 AAAAATAAATTTTGC
1 AAAAATAAATTTTGC
93821482 AAAAATAAATTTTGC
1 AAAAATAAATTTTGC
93821497 A
1 A
93821498 CCTTTCAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
AAAAATAAATTTTGC
Found at i:93838274 original size:29 final size:29
Alignment explanation
Indices: 93838235--93838309 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
93838225 GGTTGAGAGA
* *
93838235 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
93838264 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
93838293 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
93838310 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:93838563 original size:15 final size:16
Alignment explanation
Indices: 93838543--93838575 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
93838533 ATATATATTT
93838543 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
93838558 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
93838575 T
1 T
93838576 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:93838648 original size:21 final size:21
Alignment explanation
Indices: 93838622--93838662 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93838612 GTTTTAAGAA
*
93838622 TTGTTTTAGTATTATTTTTAT
1 TTGTTTTAATATTATTTTTAT
*
93838643 TTGTTTTAATATTTTTTTTA
1 TTGTTTTAATATTATTTTTA
93838663 ATATTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (21 bp):
TTGTTTTAATATTATTTTTAT
Found at i:93838655 original size:12 final size:12
Alignment explanation
Indices: 93838610--93838668 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
93838600 AATTTGTGTA
* *
93838610 TTGTTTTAAGAA
1 TTGTTTTAATAT
*
93838622 TTGTTTTAGTA-
1 TTGTTTTAATAT
*
93838633 TTATTTT--TAT
1 TTGTTTTAATAT
93838643 TTGTTTTAATAT
1 TTGTTTTAATAT
*
93838655 TTTTTTTAATAT
1 TTGTTTTAATAT
93838667 TT
1 TT
93838669 TTAAATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 6 0.15
12 25 0.64
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:93838669 original size:12 final size:12
Alignment explanation
Indices: 93838640--93838670 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
93838630 GTATTATTTT
*
93838640 TATTTGTTTTAA
1 TATTTTTTTTAA
93838652 TATTTTTTTTAA
1 TATTTTTTTTAA
93838664 TATTTTT
1 TATTTTT
93838671 AAATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TATTTTTTTTAA
Found at i:93842359 original size:18 final size:19
Alignment explanation
Indices: 93842293--93842363 Score: 85
Period size: 18 Copynumber: 3.9 Consensus size: 19
93842283 TCCCAACTAT
* *
93842293 TGTATACGTGAACAGT-AC
1 TGTATACGTAAATAGTGAC
93842311 TGTATACGTAAATAGT-AC
1 TGTATACGTAAATAGTGAC
* *
93842329 TGTATACATAAATAGTGTC
1 TGTATACGTAAATAGTGAC
93842348 -GTATACGTAAATAGTG
1 TGTATACGTAAATAGTG
93842364 CCATAAATGG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 46 0.98
19 1 0.02
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (19 bp):
TGTATACGTAAATAGTGAC
Found at i:93844341 original size:10 final size:10
Alignment explanation
Indices: 93844300--93844343 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
93844290 TATATATATA
93844300 TATAA-TTTT
1 TATAATTTTT
*
93844309 AAT-ATTTTT
1 TATAATTTTT
93844318 TAT-ATTTTT
1 TATAATTTTT
93844327 T-TAATTTTT
1 TATAATTTTT
93844336 TATAATTT
1 TATAATTT
93844344 AAAAAATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 2 0.07
9 22 0.73
10 6 0.20
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TATAATTTTT
Found at i:93845670 original size:25 final size:24
Alignment explanation
Indices: 93845631--93845681 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
93845621 AACAAATAAT
93845631 TTAAAATTTATAAAATATTCAAAAAA
1 TTAAAATTTATAAAATA-T-AAAAAA
93845657 TTAAAA-TTATAAAATATAAAAAA
1 TTAAAATTTATAAAATATAAAAAA
93845680 TT
1 TT
93845682 CATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 8 0.32
24 1 0.04
25 10 0.40
26 6 0.24
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAAATTTATAAAATATAAAAAA
Found at i:93845679 original size:17 final size:17
Alignment explanation
Indices: 93845659--93845697 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
93845649 TCAAAAAATT
93845659 AAAATT-ATAAAATATAA
1 AAAATTCATAAAATA-AA
93845676 AAAATTCATAAAATAAA
1 AAAATTCATAAAATAAA
93845693 AAAAT
1 AAAAT
93845698 AGTGTAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAATTCATAAAATAAA
Found at i:93845814 original size:31 final size:32
Alignment explanation
Indices: 93845779--93845845 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
93845769 TTAAAAAAAT
*
93845779 AATTCAACT-TTTTTTGAAAAGTTGATA-GTCA
1 AATTCAACTCTTTTTTAAAAAGTTGA-AGGTCA
*
93845810 AATTCTACTCTTTTTTAAAAAGTTGAAGGTCA
1 AATTCAACTCTTTTTTAAAAAGTTGAAGGTCA
93845842 AATT
1 AATT
93845846 TAGTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (32 bp):
AATTCAACTCTTTTTTAAAAAGTTGAAGGTCA
Found at i:93849749 original size:3 final size:3
Alignment explanation
Indices: 93849741--93849794 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
93849731 TAGTTGCTTT
93849741 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
93849789 ATA ATA
1 ATA ATA
93849795 TCTATAGCTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93856235 original size:29 final size:27
Alignment explanation
Indices: 93856185--93856241 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
93856175 AATATTTAAA
* *
93856185 TAAAATATATCAAAATTATAATACTAT
1 TAAAATATATAAAAATTATAATAATAT
*
93856212 TAAAATATATAAAAATAATTTAATAATAT
1 TAAAATATATAAAAAT--TATAATAATAT
93856241 T
1 T
93856242 TATTTTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.60
29 10 0.40
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
TAAAATATATAAAAATTATAATAATAT
Found at i:93862466 original size:13 final size:12
Alignment explanation
Indices: 93862438--93862465 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
93862428 TCTCTAACAC
93862438 AAAATAGTTAAA
1 AAAATAGTTAAA
93862450 AAAATAGTTAAA
1 AAAATAGTTAAA
93862462 AAAA
1 AAAA
93862466 AGCTGACTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (12 bp):
AAAATAGTTAAA
Found at i:93862745 original size:6 final size:6
Alignment explanation
Indices: 93862734--93862770 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
93862724 GAAGGGAAGA
93862734 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
93862771 GAAGGAGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:93862897 original size:11 final size:11
Alignment explanation
Indices: 93862865--93862897 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
93862855 TATTATTGTT
93862865 GATTTGAATTT-
1 GATTT-AATTTA
93862876 GATTTAATTTA
1 GATTTAATTTA
93862887 GATTTAATTTA
1 GATTTAATTTA
93862898 TAAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (11 bp):
GATTTAATTTA
Found at i:93863725 original size:216 final size:214
Alignment explanation
Indices: 93863353--93863809 Score: 799
Period size: 216 Copynumber: 2.1 Consensus size: 214
93863343 AAACAAACCA
**
93863353 TTAATTTTAATAATGCATACTTTATCCGGATGAAGTATGTATTAGCAGATTCACTAATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCAAATGAAGTATGTATTAGCAGATTCACTAATATGATTA
* *
93863418 TATATATATAGATATTTACGCATGTATCACATTTCAAAAATAAAAATTAAAATACTTATACATAA
66 TATATATATAGATATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATACTTATACATAA
93863483 TAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATT
131 TAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATT
93863548 TCTTATTTAATATTTTAAT
196 TCTTATTTAATATTTTAAT
* *
93863567 TTAATTTTAATAATGCATACTTTATCCAAATGAAGTATGTATTAGTAGATTCACTTATATGATTA
1 TTAATTTTAATAATGCATACTTTATCCAAATGAAGTATGTATTAGCAGATTCACTAATATGATTA
* * *
93863632 TATATATATATATAGATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATATC-
66 TATATATATAGAT--ATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATACTTATA-CA
93863696 TAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTT
128 TAATAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTT
93863761 ATTTCTTATTTAATATTTTAAT
193 ATTTCTTATTTAATATTTTAAT
93863783 TTAATTTTAATAATGCATACTTTATCC
1 TTAATTTTAATAATGCATACTTTATCC
93863810 GGTAGCAGTA
Statistics
Matches: 231, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
214 73 0.32
216 157 0.68
217 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.44
Consensus pattern (214 bp):
TTAATTTTAATAATGCATACTTTATCCAAATGAAGTATGTATTAGCAGATTCACTAATATGATTA
TATATATATAGATATTTACGCATGTATCACATTACAAAAACAAAAATTAAAATACTTATACATAA
TAAAACATGTATCTCATTACAATAATAGTTATTTTCCAAATAACATATTGTTTTATAATTTTATT
TCTTATTTAATATTTTAAT
Found at i:93863988 original size:16 final size:17
Alignment explanation
Indices: 93863967--93864000 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
93863957 AATAATAATT
93863967 TTTTAA-ATGAAAAAAA
1 TTTTAATATGAAAAAAA
*
93863983 TTTTAATATTAAAAAAA
1 TTTTAATATGAAAAAAA
93864000 T
1 T
93864001 GGGTTGCGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTTAATATGAAAAAAA
Found at i:93864293 original size:33 final size:31
Alignment explanation
Indices: 93864237--93864313 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 31
93864227 AAAATAGTAT
* * * *
93864237 AAAAAAGAAAATATGAAACAAATATATTAATG
1 AAAAAATAAAATACGAAACAAATAGAAT-ATG
*
93864269 AAAAAATAAAATACGAAAAGAAATAGAATATG
1 AAAAAATAAAATACG-AAACAAATAGAATATG
*
93864301 AAAAAATAGAATA
1 AAAAAATAAAATA
93864314 AAATACGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 28 0.74
33 10 0.26
ACGTcount: A:0.69, C:0.03, G:0.10, T:0.18
Consensus pattern (31 bp):
AAAAAATAAAATACGAAACAAATAGAATATG
Found at i:93864298 original size:17 final size:15
Alignment explanation
Indices: 93864268--93864313 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
93864258 ATATATTAAT
*
93864268 GAAAAAATAAAATAC
1 GAAAAAATAGAATAC
*
93864283 GAAAAGAAATAGAATAT
1 G-AAA-AAATAGAATAC
93864300 GAAAAAATAGAATA
1 GAAAAAATAGAATA
93864314 AAATACGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 11 0.41
16 6 0.22
17 10 0.37
ACGTcount: A:0.70, C:0.02, G:0.13, T:0.15
Consensus pattern (15 bp):
GAAAAAATAGAATAC
Found at i:93864333 original size:19 final size:18
Alignment explanation
Indices: 93864272--93864335 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
93864262 ATTAATGAAA
*
93864272 AAATAAAATACG-AAAAG
1 AAATAAAATACGAAAAAT
* *
93864289 AAATAGAATATGAAAAAAT
1 AAATAAAATACG-AAAAAT
93864308 AGAATAAAATACGAAAAAT
1 A-AATAAAATACGAAAAAT
93864327 AATATAAAA
1 AA-ATAAAA
93864336 ATAAAATACA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 10 0.26
18 1 0.03
19 18 0.47
20 9 0.24
ACGTcount: A:0.70, C:0.03, G:0.09, T:0.17
Consensus pattern (18 bp):
AAATAAAATACGAAAAAT
Found at i:93864348 original size:13 final size:13
Alignment explanation
Indices: 93864310--93864351 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
93864300 GAAAAAATAG
93864310 AATAAAATACGAAA
1 AATAAAATAC-AAA
*
93864324 AAT--AATATAAA
1 AATAAAATACAAA
93864335 AATAAAATACAAA
1 AATAAAATACAAA
93864348 AATA
1 AATA
93864352 GTATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
11 6 0.25
12 4 0.17
13 11 0.46
14 3 0.12
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (13 bp):
AATAAAATACAAA
Found at i:93864356 original size:24 final size:25
Alignment explanation
Indices: 93864310--93864356 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
93864300 GAAAAAATAG
93864310 AATAAAATACGAAAAATAATATAAA
1 AATAAAATACGAAAAATAATATAAA
*
93864335 AATAAAATAC-AAAAATAGTATA
1 AATAAAATACGAAAAATAATATA
93864357 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.21
Consensus pattern (25 bp):
AATAAAATACGAAAAATAATATAAA
Found at i:93864541 original size:137 final size:136
Alignment explanation
Indices: 93864322--93864661 Score: 529
Period size: 137 Copynumber: 2.5 Consensus size: 136
93864312 TAAAATACGA
* *
93864322 AAAATAATATAAAAATAAAATACAAAAATAGTATATTTTAAAAATAAAATCCGAAAATTTTAAAA
1 AAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATTTTAAAA
* * *
93864387 ATATAAACAAAGGGACAAAAT-TAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTA
66 ATACAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTA
93864451 TGGACT
131 TGGACT
* *
93864457 AAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAATTAAAATCCGAATATTTTAG
1 AAAATAAGAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAA-TAAAATCCGAAAATTTTAA
*
93864522 AAATACAAACAAAGAGACAAAATCAAGGTTATTTTAAAAACACTAAAATAATACATTTGAAACAT
64 AAATACAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
*
93864587 TATGTACT
129 TATGGACT
* * * *
93864595 AAAATAAGATAAAAATAAAATATGAAAATAATATATTTTAAAAAATAGAATCTGAAAATTTTAAA
1 AAAATAAGATAAAAATAAAATACGAAAATAGTATATTTT-AAAAATAAAATCCGAAAATTTTAAA
93864660 AA
65 AA
93864662 ATTTAGAAAT
Statistics
Matches: 186, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
135 9 0.05
136 33 0.18
137 83 0.45
138 61 0.33
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (136 bp):
AAAATAAGATAAAAATAAAATACGAAAATAGTATATTTTAAAAATAAAATCCGAAAATTTTAAAA
ATACAAACAAAGAGACAAAATCAAGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATTA
TGGACT
Found at i:93865694 original size:44 final size:44
Alignment explanation
Indices: 93865631--93865719 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
93865621 TGCCACTGAA
93865631 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
1 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
93865675 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
1 AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
93865719 A
1 A
93865720 GGGGGTGTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
AAAGAGTTGGTGTGCGCAGCTCAAGCGTACATTATGCATATCAT
Found at i:93867631 original size:41 final size:41
Alignment explanation
Indices: 93867553--93867631 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
93867543 ATGTTTGTGA
* * *
93867553 TGTTCGGGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGACTT
1 TGTTCGGGCTTCGAGCCTAGCAAGCCTTCTGCCGGTGACTT
* *
93867594 TGTTCGGGCTTCGTGCCTAGC-AGGCTTACTGCCGGTGA
1 TGTTCGGGCTTCGAGCCTAGCAAGCCTT-CTGCCGGTGA
93867632 ATGAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 5 0.16
41 27 0.84
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.32
Consensus pattern (41 bp):
TGTTCGGGCTTCGAGCCTAGCAAGCCTTCTGCCGGTGACTT
Found at i:93869531 original size:72 final size:72
Alignment explanation
Indices: 93869449--93869588 Score: 212
Period size: 72 Copynumber: 1.9 Consensus size: 72
93869439 GAGCAATCGT
* *
93869449 ATTCACATTCGG-CTAATACTTCTTATCATCCGGATTT-CCAGAGTAATGACTATTTACCGGGCT
1 ATTCACATTCGGTC-AATACTTCTTATCATCCGAATTTGCC-GAGCAATGACTATTTACCGGGCT
93869512 CGTCATCAC
64 CGTCATCAC
* *
93869521 ATTCACATTCGGTCGATACTTCTTATCATCCGAATTTGCCGAGCAATGACTATTTCCCGGGCTCG
1 ATTCACATTCGGTCAATACTTCTTATCATCCGAATTTGCCGAGCAATGACTATTTACCGGGCTCG
93869586 TCA
66 TCA
93869589 GGGGGCGGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
72 59 0.95
73 3 0.05
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (72 bp):
ATTCACATTCGGTCAATACTTCTTATCATCCGAATTTGCCGAGCAATGACTATTTACCGGGCTCG
TCATCAC
Found at i:93870159 original size:63 final size:63
Alignment explanation
Indices: 93870091--93870241 Score: 293
Period size: 63 Copynumber: 2.4 Consensus size: 63
93870081 TAGTCTACTA
*
93870091 ATATAAATTAAATACATTACAACATTAATCTAATTGGAACAAACTTTGCAATATAATTTTTTT
1 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
93870154 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
1 ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
93870217 ATATAAATTAAATACATTACAACAT
1 ATATAAATTAAATACATTACAACAT
93870242 AAGCTCAATT
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 87 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (63 bp):
ATATAAATTAAATACATTACAACATTAATCAAATTGGAACAAACTTTGCAATATAATTTTTTT
Found at i:93873473 original size:27 final size:27
Alignment explanation
Indices: 93873443--93873498 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
93873433 TCATCAACTG
* *
93873443 GTGCCGCCTCTGGCAGAGGCAAGACCA
1 GTGCCGCCTCTGACAGAGGCAAGAACA
93873470 GTGCCGCCTCTGACAGAGGCAAGAACA
1 GTGCCGCCTCTGACAGAGGCAAGAACA
93873497 GT
1 GT
93873499 ATTTTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.30, G:0.32, T:0.12
Consensus pattern (27 bp):
GTGCCGCCTCTGACAGAGGCAAGAACA
Found at i:93878561 original size:24 final size:23
Alignment explanation
Indices: 93878529--93878574 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
93878519 TATATACTAA
93878529 ATATATATATTTCTATTTTTAATC
1 ATATATATATTT-TATTTTTAATC
*
93878553 ATATTTATATTTTATTTTTAAT
1 ATATATATATTTTATTTTTAAT
93878575 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
ATATATATATTTTATTTTTAATC
Found at i:93879907 original size:5 final size:5
Alignment explanation
Indices: 93879897--93879933 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
93879887 AAATTTTTTT
93879897 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TC
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TC
93879934 AAGTAAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (5 bp):
TCGAA
Found at i:93880094 original size:21 final size:21
Alignment explanation
Indices: 93880065--93880107 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
93880055 ATGAACAATA
**
93880065 TAATAATTTTGTCTTTTAACT
1 TAATAATTTTGAATTTTAACT
*
93880086 TAATTATTTTGAATTTTAACT
1 TAATAATTTTGAATTTTAACT
93880107 T
1 T
93880108 TTAAAAAAGT
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:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (21 bp):
TAATAATTTTGAATTTTAACT
Found at i:93886274 original size:15 final size:15
Alignment explanation
Indices: 93886254--93886282 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
93886244 ATTCCAATAA
93886254 ACTGAGACGAGTCAT
1 ACTGAGACGAGTCAT
93886269 ACTGAGACGAGTCA
1 ACTGAGACGAGTCA
93886283 ACATCAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (15 bp):
ACTGAGACGAGTCAT
Found at i:93887140 original size:27 final size:27
Alignment explanation
Indices: 93887110--93887168 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
93887100 GCATCAAACT
* *
93887110 CAGTCGACAAGCCGGTAAGCAAAACCG
1 CAGTCGACAAGCAGGTAAACAAAACCG
*
93887137 CAGTGGACAAGCAGGTAAACAAAACCG
1 CAGTCGACAAGCAGGTAAACAAAACCG
93887164 CAGTC
1 CAGTC
93887169 CTCTCGACCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.27, G:0.25, T:0.08
Consensus pattern (27 bp):
CAGTCGACAAGCAGGTAAACAAAACCG
Found at i:93889483 original size:15 final size:15
Alignment explanation
Indices: 93889463--93889493 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93889453 CAACGAGGTA
93889463 AGTTAGTGTAACTTG
1 AGTTAGTGTAACTTG
93889478 AGTTAGTGTAACTTG
1 AGTTAGTGTAACTTG
93889493 A
1 A
93889494 ATTGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTTAGTGTAACTTG
Found at i:93892810 original size:22 final size:21
Alignment explanation
Indices: 93892784--93892849 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 21
93892774 TACAAATTAA
93892784 ATCTTCAAGATTACAAGATCAT
1 ATCTTCAAGATTAC-AGATCAT
* *
93892806 ATCTTCAAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
* *
93892827 ATC-T-AAGATTGCATATCAT
1 ATCTTCAAGATTACAGATCAT
93892846 ATCT
1 ATCT
93892850 AAGATTGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.44
20 1 0.02
21 9 0.22
22 13 0.32
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCTTCAAGATTACAGATCAT
Found at i:93892836 original size:19 final size:19
Alignment explanation
Indices: 93892801--93892879 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
93892791 AGATTACAAG
93892801 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
93892822 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
93892841 ATCATATCTAAGATTGC--
1 ATCATATCTAAGATTGCAT
93892858 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
93892877 ATC
1 ATC
93892880 CTTAAAGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
20 1 0.02
21 8 0.14
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:93892843 original size:14 final size:15
Alignment explanation
Indices: 93892824--93892879 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 15
93892814 GATTGCATAT
93892824 CATATCTAAGATTGCATA
1 CATATCTAAGATTG---A
93892842 TCATATCTAAGATTGCA
1 -CATATCTAAGATTG-A
93892859 TCATATCTAAGATTG-
1 -CATATCTAAGATTGA
93892874 CATATC
1 CATATC
93892880 CTTAAAGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 6 0.17
17 16 0.44
19 14 0.39
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (15 bp):
CATATCTAAGATTGA
Found at i:93892867 original size:36 final size:39
Alignment explanation
Indices: 93892801--93892879 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 39
93892791 AGATTACAAG
93892801 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGCA-ATCATATCTAAGATTGCAT
93892841 ATCATATC-T-AAGATTGC-ATCATATCTAAGATTGCAT
1 ATCATATCTTCAAGATTGCAATCATATCTAAGATTGCAT
93892877 ATC
1 ATC
93892880 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 22 0.56
38 8 0.21
39 1 0.03
40 8 0.21
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (39 bp):
ATCATATCTTCAAGATTGCAATCATATCTAAGATTGCAT
Found at i:93893735 original size:16 final size:16
Alignment explanation
Indices: 93893714--93893744 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
93893704 AACATTAAAT
93893714 AACAGACGAAGGAGGC
1 AACAGACGAAGGAGGC
93893730 AACAGACGAAGGAGG
1 AACAGACGAAGGAGG
93893745 AACCGAGCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.16, G:0.39, T:0.00
Consensus pattern (16 bp):
AACAGACGAAGGAGGC
Found at i:93904339 original size:10 final size:10
Alignment explanation
Indices: 93904323--93904361 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
93904313 AATTTTAGCT
93904323 TTTATCTTTA
1 TTTATCTTTA
*
93904333 ATTATCTTTA
1 TTTATCTTTA
93904343 TTTAT-TTGTA
1 TTTATCTT-TA
93904353 TTTATCTTT
1 TTTATCTTT
93904362 TAGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:93905123 original size:40 final size:40
Alignment explanation
Indices: 93905086--93905165 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
93905076 TAATTTTAAT
*
93905086 TTTTAGAATTT-CAA-TCAAAACTTTTAATTCTATTTTTA
1 TTTTAGAATTTCCAATTCAAAAATTTTAATTCTATTTTTA
***
93905124 TTTTATTTTTTCCAATTCAAAAATTTTAATTCT-TTTTT-
1 TTTTAGAATTTCCAATTCAAAAATTTTAATTCTATTTTTA
93905162 TTTT
1 TTTT
93905166 GTTTTTCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 12 0.33
39 8 0.22
40 16 0.44
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.60
Consensus pattern (40 bp):
TTTTAGAATTTCCAATTCAAAAATTTTAATTCTATTTTTA
Found at i:93906765 original size:33 final size:33
Alignment explanation
Indices: 93906701--93906773 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 33
93906691 GCTAATATGT
* ** *
93906701 TTGATTTCCAACAGCAGATACAACGGTAAACAG
1 TTGATTTCCAACAGCAAATACAACGACAAACAC
* * *
93906734 TTGATTTCCAATAGCAAATTCTACGACAAACAC
1 TTGATTTCCAACAGCAAATACAACGACAAACAC
93906767 TTGATTT
1 TTGATTT
93906774 TCAAAAGGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.29
Consensus pattern (33 bp):
TTGATTTCCAACAGCAAATACAACGACAAACAC
Found at i:93908191 original size:23 final size:23
Alignment explanation
Indices: 93908161--93908219 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
93908151 GCAACCCAAT
*
93908161 TTTTATTTTTTTATTATTCT-TTC
1 TTTTATTTTTTTATTATT-TATTA
*
93908184 TTTTATTTTATTATTATTTATTA
1 TTTTATTTTTTTATTATTTATTA
93908207 TTTTATTTTTTTA
1 TTTTATTTTTTTA
93908220 AATATTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTATTTTTTTATTATTTATTA
Found at i:93914441 original size:26 final size:25
Alignment explanation
Indices: 93914357--93914463 Score: 171
Period size: 25 Copynumber: 4.2 Consensus size: 25
93914347 CATGAAATTC
93914357 TTATCAT-GAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCA
* *
93914381 TCATCATGAAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCA
93914406 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACC-A
93914432 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACC-A
93914458 TTATCA
1 TTATCA
93914464 ATTTGTATTA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
24 6 0.08
25 38 0.49
26 33 0.43
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (25 bp):
TTATCATGGAACATTTACCTAACCA
Found at i:93914450 original size:51 final size:50
Alignment explanation
Indices: 93914357--93914463 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 50
93914347 CATGAAATTC
93914357 TTATCATGAACATTTACCTAACCATCATCATGAAACATTTACCTAACC-A
1 TTATCATGAACATTTACCTAACCATCATCATGAAACATTTACCTAACCTA
* *
93914406 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACC-ATCATCATGAAACATTTACCTAACCTA
93914458 TTATCA
1 TTATCA
93914464 ATTTGTATTA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
49 7 0.13
50 16 0.30
51 23 0.43
52 7 0.13
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (50 bp):
TTATCATGAACATTTACCTAACCATCATCATGAAACATTTACCTAACCTA
Found at i:93920625 original size:33 final size:33
Alignment explanation
Indices: 93920575--93920656 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
93920565 TTAGAATTAA
* *
93920575 TGTTTTTGGTTGTATTTTTTATGTTAAATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
93920608 TGTTTTTGGCTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
93920639 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
93920657 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
Found at i:93921024 original size:43 final size:43
Alignment explanation
Indices: 93920729--93921024 Score: 502
Period size: 43 Copynumber: 6.9 Consensus size: 43
93920719 TTTGTAGAAA
*
93920729 AAACGCCGCTAAAAGCCTTGACCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
93920772 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
93920815 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
* * *
93920858 AAACGCCGCTAAAAGCCTTTACCTTTTGCGGCGCTTTTCCAAC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
** *
93920901 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCATTTTTACCAC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
* *
93920944 AAACGCCGCTAAAAGCCTTGACTTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
*
93920987 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
93921025 TTCCAATAAA
Statistics
Matches: 239, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 239 1.00
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCAC
Found at i:93922019 original size:11 final size:11
Alignment explanation
Indices: 93922003--93922031 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
93921993 TTTAGCCTTA
93922003 GTTTTCTCTAG
1 GTTTTCTCTAG
93922014 GTTTTCTCTAG
1 GTTTTCTCTAG
93922025 GTTTTCT
1 GTTTTCT
93922032 TCTTTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.17, T:0.59
Consensus pattern (11 bp):
GTTTTCTCTAG
Found at i:93928008 original size:41 final size:41
Alignment explanation
Indices: 93927964--93928142 Score: 306
Period size: 41 Copynumber: 4.4 Consensus size: 41
93927954 GTTTTAGTAA
* *
93927964 AAAAACGCCGCGAAAAA-TAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
93928004 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
93928045 CAAAACGCCTCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
93928086 AAAAACACCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
93928127 AAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
93928143 GTCATATAAC
Statistics
Matches: 130, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
40 16 0.12
41 114 0.88
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:93928314 original size:7 final size:7
Alignment explanation
Indices: 93928299--93928396 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
93928289 TTAATTATCA
*
93928299 TTATAGT
1 TTATGGT
93928306 TTATGGT
1 TTATGGT
93928313 TTATGGT
1 TTATGGT
* *
93928320 TTAAGAT
1 TTATGGT
*
93928327 ATATGGT
1 TTATGGT
*
93928334 TTAGGGT
1 TTATGGT
*
93928341 TTAAGGT
1 TTATGGT
93928348 TTATGAGT
1 TTATG-GT
93928356 TAACTATGGT
1 T---TATGGT
* *
93928366 TTAAGAT
1 TTATGGT
*
93928373 ATATGGT
1 TTATGGT
*
93928380 TTAGGGT
1 TTATGGT
*
93928387 TTAAGGT
1 TTATGGT
93928394 TTA
1 TTA
93928397 GAAGTTAACT
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 59 0.86
8 3 0.04
10 3 0.04
11 4 0.06
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:93928331 original size:21 final size:21
Alignment explanation
Indices: 93928307--93928391 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
93928297 CATTATAGTT
*
93928307 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
* *
93928328 TATGGTTTAGGGTTTAAGGTT
1 TATGGTTTAGGGTTTAAGATA
*
93928349 TATGAGTTAACTATGGTTTAAGATA
1 TATG-GTT---TAGGGTTTAAGATA
93928374 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
93928392 GTTTAGAAGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 32 0.60
22 3 0.06
24 3 0.06
25 15 0.28
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:93928366 original size:46 final size:46
Alignment explanation
Indices: 93928314--93928407 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 46
93928304 GTTTATGGTT
93928314 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATG-AGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTA-GAAGTTAAC
93928360 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGAAGTTAAC
1 TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGAAGTTAAC
93928406 TA
1 TA
93928408 GTATTTGAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 1 0.02
46 46 0.98
ACGTcount: A:0.30, C:0.02, G:0.26, T:0.43
Consensus pattern (46 bp):
TATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGAAGTTAAC
Found at i:93928564 original size:7 final size:7
Alignment explanation
Indices: 93928492--93928565 Score: 51
Period size: 7 Copynumber: 10.3 Consensus size: 7
93928482 TTAAGGTGTA
93928492 AGGGTTT
1 AGGGTTT
* *
93928499 GGGGTTA
1 AGGGTTT
*
93928506 AGGGTTA
1 AGGGTTT
93928513 AGGGTTT
1 AGGGTTT
*
93928520 AGAGTTT
1 AGGGTTT
*
93928527 AGTGTTT
1 AGGGTTT
*
93928534 ATGGG-AT
1 A-GGGTTT
*
93928541 AGGGGTTA
1 A-GGGTTT
93928549 AGAGGTTT
1 AG-GGTTT
93928557 AGGGTTT
1 AGGGTTT
93928564 AG
1 AG
93928566 ATTAATTAGT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
7 43 0.83
8 9 0.17
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (7 bp):
AGGGTTT
Found at i:93928677 original size:22 final size:22
Alignment explanation
Indices: 93928646--93928709 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
93928636 AAAACAAGTT
*
93928646 TTAAGAGGATAGGGGTTAGGCG
1 TTAAGGGGATAGGGGTTAGGCG
*
93928668 TTAAGGGGATAAGGGTTAGGCG
1 TTAAGGGGATAGGGGTTAGGCG
93928690 TTAAGGGGATAGGGGTTAGG
1 TTAAGGGGATAGGGGTTAGG
93928710 GGTTTATGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.27, C:0.03, G:0.47, T:0.23
Consensus pattern (22 bp):
TTAAGGGGATAGGGGTTAGGCG
Found at i:93928703 original size:7 final size:7
Alignment explanation
Indices: 93928655--93928713 Score: 55
Period size: 7 Copynumber: 8.1 Consensus size: 7
93928645 TTTAAGAGGA
93928655 TAGGGGT
1 TAGGGGT
*
93928662 TAGGCGT
1 TAGGGGT
*
93928669 TAAGGGGA
1 T-AGGGGT
*
93928677 TAAGGGT
1 TAGGGGT
*
93928684 TAGGCGT
1 TAGGGGT
*
93928691 TAAGGGGA
1 T-AGGGGT
93928699 TAGGGGT
1 TAGGGGT
93928706 TAGGGGT
1 TAGGGGT
93928713 T
1 T
93928714 TATGGTTTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
7 30 0.75
8 10 0.25
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.25
Consensus pattern (7 bp):
TAGGGGT
Found at i:93928775 original size:14 final size:14
Alignment explanation
Indices: 93928734--93928886 Score: 57
Period size: 14 Copynumber: 10.9 Consensus size: 14
93928724 GAGTTAATAT
*
93928734 TTTAAGGTTTATGG
1 TTTAAGGTTTAGGG
* *
93928748 ATT-ATGTATTAGGG
1 TTTAAGGT-TTAGGG
93928762 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
* * *
93928776 GTTATGTGTTAAGGG
1 TTTAAG-GTTTAGGG
93928791 TTT-AGGTTTTAAGGG
1 TTTAAGG-TTT-AGGG
* ** *
93928806 -TCAAGGGATATGG
1 TTTAAGGTTTAGGG
*
93928819 -TTATGGGTTTAGGG
1 TTTA-AGGTTTAGGG
*
93928833 TTT-AGGATTTAGGA
1 TTTAAGG-TTTAGGG
*
93928847 TTTAAGATTTAGGG
1 TTTAAGGTTTAGGG
* *
93928861 GTAAAGG-TTAGAGG
1 TTTAAGGTTTAG-GG
*
93928875 TTTAGGGTTTAG
1 TTTAAGGTTTAG
93928887 ATTAATTAGT
Statistics
Matches: 97, Mismatches: 30, Indels: 23
0.65 0.20 0.15
Matches are distributed among these distances:
13 15 0.15
14 55 0.57
15 27 0.28
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.41
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:93928780 original size:28 final size:29
Alignment explanation
Indices: 93928734--93928799 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
93928724 GAGTTAATAT
*
93928734 TTTAAGGTTTATGGATTATGTATT-AGGG
1 TTTAAGGTTTAGGGATTATGTATTAAGGG
* *
93928762 TTTAAGGTTTAGGGGTTATGTGTTAAGGG
1 TTTAAGGTTTAGGGATTATGTATTAAGGG
93928791 TTT-AGGTTT
1 TTTAAGGTTT
93928800 TAAGGGTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 27 0.79
29 7 0.21
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.47
Consensus pattern (29 bp):
TTTAAGGTTTAGGGATTATGTATTAAGGG
Found at i:93929153 original size:74 final size:74
Alignment explanation
Indices: 93929069--93929287 Score: 326
Period size: 68 Copynumber: 3.0 Consensus size: 74
93929059 TGGCTTCCAA
* * *
93929069 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAATGGCGTTTTTAAAAAAACACCACA
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACA
93929134 AAAAACACT
66 AAAAACACT
* *
93929143 ATTATAACAAATAAAAATAAATATGAAAATTAAAAGATTAGTGACGTTTTTTTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCG-TTTTTTAAAAAACGCCAC
93929208 AAAAAACAC-
65 AAAAAACACT
93929217 --TAT----AATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTCTAAAAAACGCCAC
1 ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTT-TAAAAAACGCCAC
93929276 AAAAAACACT
65 AAAAAACACT
93929286 AT
1 AT
93929288 GAAAACGACA
Statistics
Matches: 133, Mismatches: 7, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
67 5 0.04
68 57 0.43
72 3 0.02
74 43 0.32
75 25 0.19
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (74 bp):
ATTATAACAAATAAAAATAAATATGAAAATTAAGAGATTAGTGGCGTTTTTTAAAAAACGCCACA
AAAAACACT
Found at i:93929455 original size:18 final size:18
Alignment explanation
Indices: 93929415--93929462 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
93929405 CCCCAAAATT
*
93929415 AATTTCCCCAATTCTCTA
1 AATTTCCCCAATTCCCTA
*
93929433 CATTTCCCCTAA-TCCCTA
1 AATTTCCCC-AATTCCCTA
93929451 AATTTCTCCCAA
1 AATTTC-CCCAA
93929463 AATCCTTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (18 bp):
AATTTCCCCAATTCCCTA
Found at i:93931822 original size:17 final size:18
Alignment explanation
Indices: 93931800--93931833 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
93931790 TACTTGTGGG
93931800 GGAATATGGAG-TCAACT
1 GGAATATGGAGTTCAACT
93931817 GGAATATGGAGTTCAAC
1 GGAATATGGAGTTCAAC
93931834 ATTTTGGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (18 bp):
GGAATATGGAGTTCAACT
Found at i:93932235 original size:44 final size:43
Alignment explanation
Indices: 93932154--93932249 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 43
93932144 GATCATTATT
* *
93932154 TTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGAAAAAAGTGCCACTAAAGGTCATGATC
* *
93932197 TTTAGCGGCGTTTGTGAAAAAAAGTTCCACTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTG-AAAAAAGTGCCACTAAAGGTCATGATC
93932241 TTTAGCGGC
1 TTTAGCGGC
93932250 ATTTTTTTCG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
43 16 0.33
44 32 0.67
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGTGCCACTAAAGGTCATGATC
Found at i:93935561 original size:13 final size:13
Alignment explanation
Indices: 93935543--93935570 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93935533 CAGATTAATC
93935543 GACAAAGAAATGA
1 GACAAAGAAATGA
93935556 GACAAAGAAATGA
1 GACAAAGAAATGA
93935569 GA
1 GA
93935571 TCAATGCGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.25, T:0.07
Consensus pattern (13 bp):
GACAAAGAAATGA
Found at i:93939311 original size:20 final size:20
Alignment explanation
Indices: 93939269--93939311 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
93939259 ATTATGTTAG
*
93939269 AAATTTAAAAATAGAAATTT
1 AAATTTAAAAATAGAAATAT
** *
93939289 AAATTTAAATTTAGACATAT
1 AAATTTAAAAATAGAAATAT
93939309 AAA
1 AAA
93939312 AGAGAATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATTTAAAAATAGAAATAT
Found at i:93951000 original size:12 final size:12
Alignment explanation
Indices: 93950983--93951021 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
93950973 CGGCCCGACC
93950983 ATATTAATTTTT
1 ATATTAATTTTT
*
93950995 ATATTATTTTTT
1 ATATTAATTTTT
*
93951007 ATA-TAATTTTA
1 ATATTAATTTTT
93951018 ATAT
1 ATAT
93951022 ATATATATAT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:93951229 original size:14 final size:14
Alignment explanation
Indices: 93951210--93951240 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
93951200 ATCTAAACAA
93951210 TAACAACAAAATAG
1 TAACAACAAAATAG
*
93951224 TAACAACATAATAG
1 TAACAACAAAATAG
93951238 TAA
1 TAA
93951241 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:93959199 original size:18 final size:18
Alignment explanation
Indices: 93959160--93959251 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
93959150 CCCAACTACT
*
93959160 GTATACGTGAACAGTA-C
1 GTATACGTGAATAGTACC
* *
93959177 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
93959195 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
93959213 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
*
93959231 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
93959249 GTA
1 GTA
93959252 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
17 13 0.20
18 51 0.80
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:93959226 original size:36 final size:36
Alignment explanation
Indices: 93959160--93959251 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
93959150 CCCAACTACT
* * *
93959160 GTATACGTGAACAGTA-CGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
93959195 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
93959231 GTATATGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
93959252 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 15 0.29
36 37 0.71
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:93961894 original size:20 final size:17
Alignment explanation
Indices: 93961860--93961898 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
93961850 AATATAATGG
93961860 TATATAAAAATAATACTA
1 TATATAAAAATAATA-TA
93961878 TATATAAAAAGTAA-ATA
1 TATATAAAAA-TAATATA
93961895 TATA
1 TATA
93961899 CACGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 11 0.55
19 3 0.15
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
TATATAAAAATAATATA
Found at i:93962393 original size:24 final size:24
Alignment explanation
Indices: 93962351--93962437 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
93962341 TATACAATAT
*
93962351 ATAGTATTAGAAATATATACATAAA
1 ATAGTA-TAAAAATATATACATAAA
93962376 ATAGTATAAAAATATATA-ACT--A
1 ATAGTATAAAAATATATACA-TAAA
* *
93962398 AT-GACATTAAAATATATACATAATA
1 ATAG-TATAAAAATATATACATAA-A
93962423 ATA-TATAAAAATATA
1 ATAGTATAAAAATATA
93962438 ATATTAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
21 1 0.02
22 16 0.32
23 2 0.04
24 22 0.44
25 9 0.18
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (24 bp):
ATAGTATAAAAATATATACATAAA
Found at i:93962441 original size:13 final size:15
Alignment explanation
Indices: 93962420--93962452 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
93962410 TATATACATA
93962420 ATAATA-TATAAAAAT
1 ATAATATTA-AAAAAT
93962435 ATAATATTAAAAAAT
1 ATAATATTAAAAAAT
93962450 ATA
1 ATA
93962453 TGTACATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATATTAAAAAAT
Found at i:93962498 original size:24 final size:23
Alignment explanation
Indices: 93962408--93962515 Score: 74
Period size: 24 Copynumber: 4.3 Consensus size: 23
93962398 ATGACATTAA
* *
93962408 AATATATACATAATAATATATA-AA
1 AATATATA-TTAA-AATATATACAT
93962432 AATATAATATTAAAAAATATATGTACAT
1 AATAT-ATATT--AAAATATA--TACAT
* *
93962460 AACATATATAAAAAATATATACAT
1 AATATATAT-TAAAATATATACAT
* *
93962484 AATATAGTATTAAAATATTTAAAT
1 AATATA-TATTAAAATATATACAT
93962508 AATATATA
1 AATATATA
93962516 CATATATATA
Statistics
Matches: 68, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
23 2 0.03
24 33 0.49
25 12 0.18
26 10 0.15
27 6 0.09
28 5 0.07
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
AATATATATTAAAATATATACAT
Found at i:93962514 original size:13 final size:13
Alignment explanation
Indices: 93962409--93962515 Score: 73
Period size: 13 Copynumber: 8.4 Consensus size: 13
93962399 TGACATTAAA
*
93962409 ATATATACATAAT
1 ATATATAAATAAT
93962422 AATATATAAA-AAT
1 -ATATATAAATAAT
*
93962435 ATAATATTAAAAAAT
1 AT-ATA-TAAATAAT
* * *
93962450 ATATGTACATAAC
1 ATATATAAATAAT
93962463 ATATATAAA-AA-
1 ATATATAAATAAT
*
93962474 ATATATACATAAT
1 ATATATAAATAAT
*
93962487 ATAGTATTAA-AAT
1 ATA-TATAAATAAT
93962500 AT-T-TAAATAAT
1 ATATATAAATAAT
93962511 ATATA
1 ATATA
93962516 CATATATATA
Statistics
Matches: 73, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
10 3 0.04
11 14 0.19
12 7 0.10
13 26 0.36
14 18 0.25
15 5 0.07
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (13 bp):
ATATATAAATAAT
Found at i:93962535 original size:21 final size:20
Alignment explanation
Indices: 93962511--93962559 Score: 53
Period size: 23 Copynumber: 2.3 Consensus size: 20
93962501 TTTAAATAAT
*
93962511 ATATACATATATATATTAAAGAT
1 ATATACATATATA-A-TAAA-AC
*
93962534 ATATGCATATATAATAAAAC
1 ATATACATATATAATAAAAC
93962554 ATATAC
1 ATATAC
93962560 TAATATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 1 0.04
23 12 0.52
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (20 bp):
ATATACATATATAATAAAAC
Found at i:93962574 original size:3 final size:3
Alignment explanation
Indices: 93962560--93962610 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
93962550 AAACATATAC
* * * *
93962560 TAA TAT TAA TAA TAA TAA TAA TAA TAA T-A TTA TTA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
93962607 TAA T
1 TAA T
93962611 GTTAAAAGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
TAA
Found at i:93963199 original size:51 final size:50
Alignment explanation
Indices: 93963098--93963199 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 50
93963088 AAACCTTCAA
* *
93963098 AAATGCTCTCTACTCTCTCCCCCACTCCAAGTCCGGTCATTGGACTGACT
1 AAATGCTCTCTACTCTCTCCCCCACTCCAAGTCCGGTCATCGGACAGACT
93963148 AAATGCTCTCTACTCTCTCCCCC-CTCTCTAAGTCCGGTCATCGGACAGACT
1 AAATGCTCTCTACTCTCTCCCCCACTC-C-AAGTCCGGTCATCGGACAGACT
93963199 A
1 A
93963200 TTGGCCGCCG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
49 3 0.06
50 24 0.50
51 21 0.44
ACGTcount: A:0.21, C:0.38, G:0.14, T:0.27
Consensus pattern (50 bp):
AAATGCTCTCTACTCTCTCCCCCACTCCAAGTCCGGTCATCGGACAGACT
Found at i:93964633 original size:75 final size:75
Alignment explanation
Indices: 93964510--93964681 Score: 231
Period size: 75 Copynumber: 2.2 Consensus size: 75
93964500 AGTAGAAATT
* * *
93964510 AAAAACAGAAATTGAAAATATCTCGGCATGTGGCCCCAGGGTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCGGCATGTGACCCCAGGCTCAACTCACCTCTCGCAATATGAG
93964575 TTGATTTTTG
66 TTGATTTTTG
*
93964585 AAAAACTA-AAATTGAAAATACCTCGG-AGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAAC-AGAAATTGAAAATACCTCGGCA-TGTGACCCCAGGCTCAACTCACCTCTCGCAATATG
93964648 AGTTGATTTTTCTTG
64 AGTTGA--TTT-TTG
*
93964663 AAAAAGCAGAAATTAAAAA
1 AAAAA-CAGAAATTGAAAA
93964682 ACAGAACTTG
Statistics
Matches: 85, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
74 1 0.01
75 61 0.72
76 1 0.01
77 3 0.04
78 9 0.11
79 10 0.12
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (75 bp):
AAAAACAGAAATTGAAAATACCTCGGCATGTGACCCCAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTG
Found at i:93964733 original size:168 final size:160
Alignment explanation
Indices: 93964427--93964815 Score: 538
Period size: 168 Copynumber: 2.4 Consensus size: 160
93964417 AAAGTAAAAA
* * * *
93964427 AAAATTAAGAATACCTCAGTGTGTGACCTGAGGCTCAACTCCCCTCTCTCAATATGAGTTGA-TT
1 AAAATTAA-AATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
* * *
93964491 TTCTTGAAAAGTAGAAATTAAAAACAGAAATTGAAAATATCTCGGCATGTGGCCCCAGGGTCAAC
65 TTCTTGAAAAGCAGAAATTAAAAACAGAAATTGAAAATATCTCGGCATGTAGCCCCAGGCTCAAC
93964556 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACT
130 TCACCTCTCGCAATATGAGTTGA----T-AAAAACT
* *
93964592 AAAATTGAAAATACCTCGGAGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAAATT-AAAATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
* *
93964657 TTCTTGAAAAAGCAGAAATTAAAAAACAGAACTTGAAAATATCTCGGCATGTAGCCCGAGGCTCA
65 TTCTTG-AAAAGCAGAAATT-AAAAACAGAAATTGAAAATATCTCGGCATGTAGCCCCAGGCTCA
*
93964722 ACTCACCTCTCGCAATATGAGTTGATAGAAACT
128 ACTCACCTCTCGCAATATGAGTTGATAAAAACT
*
93964755 ---A--AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AAAATTAAAATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
93964815 T
66 T
93964816 GAAAAAACAA
Statistics
Matches: 206, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
157 57 0.28
160 1 0.00
163 6 0.03
164 1 0.00
165 54 0.26
166 10 0.05
167 12 0.06
168 65 0.32
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (160 bp):
AAAATTAAAATACCTCAGAGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
TCTTGAAAAGCAGAAATTAAAAACAGAAATTGAAAATATCTCGGCATGTAGCCCCAGGCTCAACT
CACCTCTCGCAATATGAGTTGATAAAAACT
Found at i:93974433 original size:26 final size:27
Alignment explanation
Indices: 93974380--93974436 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
93974370 ATGTACATGC
* *
93974380 AATGAATGGATGAATTAATAAATCATA
1 AATGAATGGATGAATAAATAAATAATA
* *
93974407 AATGAAT-GTTGAATAAATGAATAATA
1 AATGAATGGATGAATAAATAAATAATA
93974433 AATG
1 AATG
93974437 TTAGTCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.30
Consensus pattern (27 bp):
AATGAATGGATGAATAAATAAATAATA
Found at i:93977799 original size:12 final size:11
Alignment explanation
Indices: 93977784--93977896 Score: 50
Period size: 12 Copynumber: 9.4 Consensus size: 11
93977774 CAATAGTGAA
93977784 AATAATAAGTAT
1 AATAATAA-TAT
93977796 AATAATAAATAT
1 AATAAT-AATAT
*
93977808 AATGAT-ATAT
1 AATAATAATAT
*
93977818 AAAAATAATACT
1 AATAATAATA-T
*
93977830 ATATATAAAAGTAT
1 A-ATA-ATAA-TAT
* *
93977844 ATATACACACGTAT
1 A-ATA-ATA-ATAT
93977858 AATAA-AATAT
1 AATAATAATAT
*
93977868 ATATACTAATATT
1 A-ATAATAATA-T
93977881 AATAATAAATAT
1 AATAAT-AATAT
93977893 AATA
1 AATA
93977897 GGGGTAAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 22
0.71 0.10 0.20
Matches are distributed among these distances:
10 12 0.15
11 7 0.09
12 30 0.38
13 13 0.16
14 15 0.19
15 2 0.03
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (11 bp):
AATAATAATAT
Found at i:93977823 original size:18 final size:17
Alignment explanation
Indices: 93977782--93977848 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
93977772 AACAATAGTG
93977782 AAAATAATAAGTATA-ATA
1 AAAAT-ATAA-TATATATA
93977800 ATAAATATAATGATATATA
1 A-AAATATAAT-ATATATA
*
93977819 AAAATAATACTATATATA
1 AAAAT-ATAATATATATA
*
93977837 AAAGTAT-ATATA
1 AAAATATAATATA
93977849 CACACGTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
16 4 0.10
17 3 0.07
18 23 0.55
19 12 0.29
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (17 bp):
AAAATATAATATATATA
Found at i:93978083 original size:29 final size:29
Alignment explanation
Indices: 93978048--93978117 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
93978038 ACATGAATAG
*
93978048 ATATATAGTATTAAA-GATATATACATAAT
1 ATATATA-TATTAAATCATATATACATAAT
* ** *
93978077 ATATATAAAAAAAATCATATATACATGAT
1 ATATATATATTAAATCATATATACATAAT
93978106 ATATATATATTA
1 ATATATATATTA
93978118 GCAACAATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (29 bp):
ATATATATATTAAATCATATATACATAAT
Found at i:93978234 original size:25 final size:24
Alignment explanation
Indices: 93978183--93978295 Score: 96
Period size: 22 Copynumber: 4.9 Consensus size: 24
93978173 ATATATATAT
*
93978183 ATATATA-AATAATGGTATTAG-A
1 ATATATACAATAATAGTATTAGAA
93978205 A-ATATACAATATATAGTATTAGAA
1 ATATATACAATA-ATAGTATTAGAA
* * *
93978229 ATATATACATAAAATAGTATAAAAA
1 ATATATACA-ATAATAGTATTAGAA
*
93978254 ATATATA-ACTAAT-GATATTA-AA
1 ATATATACAATAATAG-TATTAGAA
*
93978276 ATATATAC-ATAATAATATTA
1 ATATATACAATAATAGTATTA
93978296 AAAAATAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
21 5 0.07
22 24 0.32
23 16 0.22
24 3 0.04
25 24 0.32
26 2 0.03
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATATACAATAATAGTATTAGAA
Found at i:93978279 original size:22 final size:22
Alignment explanation
Indices: 93978183--93978393 Score: 99
Period size: 24 Copynumber: 9.6 Consensus size: 22
93978173 ATATATATAT
* ** *
93978183 ATATATAAATAATGGTATTAGA
1 ATATATACATAATAATATTAAA
*
93978205 A-ATATACAATATATAGTATTAGAA
1 ATATATAC-ATA-ATAATATTA-AA
93978229 ATATATACATAA-AATAGTATAAAAA
1 ATATATACATAATAATA-T-T--AAA
*
93978254 ATATATA-ACTAATGATATTAAA
1 ATATATACA-TAATAATATTAAA
93978276 ATATATACATAATAATATT--A
1 ATATATACATAATAATATTAAA
93978296 A-A-A-A-ATAA-AATATTAAA
1 ATATATACATAATAATATTAAA
* *
93978313 AAATATA-ATATTAA-A--AAA
1 ATATATACATAATAATATTAAA
* * *
93978331 TATATGTACATAACATATATAAAAA
1 -ATATATACATAATA-ATAT-TAAA
93978356 ATATATACATAATATAGTATTAAA
1 ATATATACATAATA-A-TATTAAA
*
93978380 ATATTTACATAATA
1 ATATATACATAATA
93978394 TATACATATT
Statistics
Matches: 149, Mismatches: 15, Indels: 48
0.70 0.07 0.23
Matches are distributed among these distances:
15 6 0.04
16 4 0.03
17 3 0.02
18 5 0.03
19 7 0.05
20 11 0.07
21 8 0.05
22 27 0.18
23 11 0.07
24 38 0.26
25 25 0.17
26 4 0.03
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATATACATAATAATATTAAA
Found at i:93978333 original size:15 final size:15
Alignment explanation
Indices: 93978287--93978334 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
93978277 TATATACATA
93978287 ATAATATTAAAAAAT
1 ATAATATTAAAAAAT
*
93978302 AAAATATTAAAAAAT
1 ATAATATTAAAAAAT
93978317 ATAATATTAAAAAAT
1 ATAATATTAAAAAAT
93978332 ATA
1 ATA
93978335 TGTACATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATATTAAAAAAT
Found at i:93978349 original size:30 final size:28
Alignment explanation
Indices: 93978282--93978349 Score: 66
Period size: 30 Copynumber: 2.2 Consensus size: 28
93978272 TAAAATATAT
93978282 ACATAATAATATTAAAAAATAAAATATTAAA
1 ACAT-ATAATATTAAAAAAT--AATATTAAA
*
93978313 AAATATAATATTAAAAAAT-ATATGTACATA
1 ACATATAATATTAAAAAATAATAT-TA-A-A
93978343 ACATATA
1 ACATATA
93978350 TAAAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
27 4 0.12
28 2 0.06
29 1 0.03
30 22 0.69
31 3 0.09
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (28 bp):
ACATATAATATTAAAAAATAATATTAAA
Found at i:93978359 original size:24 final size:24
Alignment explanation
Indices: 93978227--93978397 Score: 129
Period size: 24 Copynumber: 6.8 Consensus size: 24
93978217 ATAGTATTAG
*
93978227 AAATATATACATAAAATAGTATAAA
1 AAATATATACATAATATA-TATAAA
93978252 AAATATATA-ACTAATGATAT-T--A
1 AAATATATACA-TAAT-ATATATAAA
93978274 AAATATATACATAATA-ATATTAAA
1 AAATATATACATAATATATA-TAAA
* *
93978298 AAATAAAATATTAAAAAATATAATATTAAA
1 AAAT---ATA-TACATAATAT-ATA-TAAA
*
93978328 AAATATATGTACATAACATATATAAA
1 AAATATA--TACATAATATATATAAA
*
93978354 AAATATATACATAATATAGTAT-TA
1 AAATATATACATAATATA-TATAAA
*
93978378 AAATATTTACATAATATATA
1 AAATATATACATAATATATA
93978398 CATATTAGAA
Statistics
Matches: 121, Mismatches: 10, Indels: 32
0.74 0.06 0.20
Matches are distributed among these distances:
20 2 0.02
21 1 0.01
22 15 0.12
23 3 0.02
24 35 0.29
25 16 0.13
26 14 0.12
27 9 0.07
28 14 0.12
30 12 0.10
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATATATACATAATATATATAAA
Found at i:93978369 original size:11 final size:11
Alignment explanation
Indices: 93978345--93978401 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
93978335 TGTACATAAC
* *
93978345 ATATATAAAAA
1 ATATATACATA
93978356 ATATATACATA
1 ATATATACATA
* *
93978367 ATATAGTATTAAA
1 ATATA-TA-CATA
*
93978380 ATATTTACATA
1 ATATATACATA
93978391 ATATATACATA
1 ATATATACATA
93978402 TTAGAAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 26 0.72
12 4 0.11
13 6 0.17
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (11 bp):
ATATATACATA
Found at i:93978396 original size:13 final size:13
Alignment explanation
Indices: 93978329--93978397 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 13
93978319 AATATTAAAA
*
93978329 AATATATGTACAT
1 AATATATATACAT
*
93978342 AACATATATA-A-
1 AATATATATACAT
*
93978353 AAAATATATACAT
1 AATATATATACAT
93978366 AATATAGTATTA-A-
1 AATATA-TA-TACAT
93978379 AATAT-T-TACAT
1 AATATATATACAT
93978390 AATATATA
1 AATATATA
93978398 CATATTAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
9 2 0.05
10 1 0.02
11 15 0.34
12 3 0.07
13 18 0.41
14 3 0.07
15 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (13 bp):
AATATATATACAT
Found at i:93978454 original size:16 final size:15
Alignment explanation
Indices: 93978425--93978462 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
93978415 AATGACTATT
93978425 AATA-ATACTACATA
1 AATATATACTACATA
93978439 AATATATACATACATA
1 AATATATAC-TACATA
*
93978455 TATATATA
1 AATATATA
93978463 TTAAAGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 13 0.62
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (15 bp):
AATATATACTACATA
Found at i:93978503 original size:3 final size:3
Alignment explanation
Indices: 93978497--93978524 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
93978487 AAACATATAC
93978497 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
93978525 GTTAAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:93979740 original size:10 final size:10
Alignment explanation
Indices: 93979725--93979761 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
93979715 TCCACTCAAA
*
93979725 ATAAACATAT
1 ATAAACAGAT
93979735 ATAAACAGAT
1 ATAAACAGAT
*
93979745 ATAAATAGAT
1 ATAAACAGAT
93979755 ATAAACA
1 ATAAACA
93979762 TATTCCACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (10 bp):
ATAAACAGAT
Found at i:93980838 original size:12 final size:12
Alignment explanation
Indices: 93980803--93980840 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
93980793 TCTATCCTAA
*
93980803 TATTTTTATAAA
1 TATTTTTATAAT
*
93980815 TATTTTTTTAAT
1 TATTTTTATAAT
93980827 TATTTTTATAAT
1 TATTTTTATAAT
93980839 TA
1 TA
93980841 AAATGATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTTTATAAT
Found at i:93990110 original size:29 final size:30
Alignment explanation
Indices: 93990063--93990120 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
93990053 AATACTAGGA
* *
93990063 TACAGATAAAAACAAAAAAAAAACAATATT
1 TACAGATAAAAAAAAAAAAAAAAAAATATT
93990093 TACA-ATAAAAAAAAAAAAAAAAAAATAT
1 TACAGATAAAAAAAAAAAAAAAAAAATAT
93990121 ATATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.76, C:0.07, G:0.02, T:0.16
Consensus pattern (30 bp):
TACAGATAAAAAAAAAAAAAAAAAAATATT
Found at i:93990567 original size:23 final size:25
Alignment explanation
Indices: 93990538--93990594 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
93990528 TATACCTGTA
93990538 TATATATATAAAAA-AAATACATAG
1 TATATATATAAAAATAAATACATAG
**
93990562 TA-ATAT-TAAAAATATGTACATAG
1 TATATATATAAAAATAAATACATAG
93990585 TATATATATA
1 TATATATATA
93990595 CATATAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 6 0.21
23 14 0.50
24 6 0.21
25 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (25 bp):
TATATATATAAAAATAAATACATAG
Found at i:93990622 original size:26 final size:27
Alignment explanation
Indices: 93990590--93990649 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
93990580 CATAGTATAT
* *
93990590 ATATACATATAATATA-ATTATTAAGAA
1 ATATACATACAATATATAGTATTAA-AA
93990617 A-ATACATACAATATATAGTATTAAAA
1 ATATACATACAATATATAGTATTAAAA
93990643 ATATACA
1 ATATACA
93990650 CAATACGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 16 0.55
27 13 0.45
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (27 bp):
ATATACATACAATATATAGTATTAAAA
Found at i:93990921 original size:16 final size:17
Alignment explanation
Indices: 93990891--93990923 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
93990881 GCAAAATAAT
93990891 AAATATAATAATATATG
1 AAATATAATAATATATG
*
93990908 AAAT-TAATACTATATG
1 AAATATAATAATATATG
93990924 TAAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (17 bp):
AAATATAATAATATATG
Found at i:93990996 original size:24 final size:24
Alignment explanation
Indices: 93990969--93991061 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 24
93990959 TATAGATAAA
*
93990969 AATAGATATAATAATAATATACGT
1 AATAGATATAAAAATAATATACGT
*
93990993 AATATGATATAAAAATATATATGTATGT
1 AATA-GATATAAAAATA-ATA--TACGT
* *
93991021 AATAGTATTTAAGAAT-ATATACGT
1 AATAG-ATATAAAAATAATATACGT
93991045 AAGATA-ATATAAAAATA
1 -A-ATAGATATAAAAATA
93991062 TGTACATAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
24 16 0.30
25 12 0.22
26 9 0.17
27 1 0.02
28 16 0.30
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (24 bp):
AATAGATATAAAAATAATATACGT
Found at i:93991265 original size:12 final size:13
Alignment explanation
Indices: 93991209--93991268 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 13
93991199 ATATTTAAAA
*
93991209 TAATACTAAATA-
1 TAATAATAAATAG
93991221 TAAT-ATAAAATAG
1 TAATAAT-AAATAG
93991234 TAATAATAATAATAG
1 TAATAAT-A-AATAG
*
93991249 CAATAATAAAT-G
1 TAATAATAAATAG
93991261 TAATAATA
1 TAATAATA
93991269 TATAAAGATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.02
12 17 0.41
13 7 0.17
14 5 0.12
15 11 0.27
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (13 bp):
TAATAATAAATAG
Found at i:93991292 original size:34 final size:32
Alignment explanation
Indices: 93991199--93991292 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 32
93991189 TTAAAATATG
* *
93991199 ATATTTAAAATAATACTAAATAT-AATATAAA
1 ATATATAAAATAATACTATATATAAATATAAA
* *
93991230 ATAGTAATAATAATAATAGCAATA-ATAAATGTAATA
1 ATA-T-ATAA-AATAATA-CTATATATAAATATAA-A
93991266 ATATATAAAGATAATACTATATATAAA
1 ATATATAAA-ATAATACTATATATAAA
93991293 AAGTATATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
31 3 0.06
32 1 0.02
33 8 0.16
34 24 0.48
35 10 0.20
36 4 0.08
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (32 bp):
ATATATAAAATAATACTATATATAAATATAAA
Found at i:93991980 original size:15 final size:14
Alignment explanation
Indices: 93991953--93992014 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
93991943 AAAAGGTAAA
*
93991953 ATTTTATTTTATTTT
1 ATTTT-TTTTATTAT
93991968 ATTTTTTTGTATTAT
1 ATTTTTTT-TATTAT
*
93991983 A-TTTTTATATTTAT
1 ATTTTTTTTA-TTAT
93991997 ATGTTTTTTTATATAT
1 AT-TTTTTTTAT-TAT
93992013 AT
1 AT
93992015 ACGTGGAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.05
14 13 0.33
15 12 0.31
16 12 0.31
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
ATTTTTTTTATTAT
Found at i:94000419 original size:48 final size:48
Alignment explanation
Indices: 94000316--94000560 Score: 253
Period size: 48 Copynumber: 5.1 Consensus size: 48
94000306 TCATTAGGAG
* * * * * *
94000316 CTTCATTAAGTTGGTTTCGGGTCATGATATTAGCACTTTGGGTGCG-A
1 CTTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAA
* * **
94000363 GTTACATTGATTTGGCTTCGGACCATGATATTGGCACTTCGGGTATGAA
1 CTT-CATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAA
* * *
94000412 CTTCATTGATTTGGCGTCGGGTCATGATATTAGCACTTCGGGTGCG-A
1 CTTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAA
* * * * * *
94000459 GTTACATTGATTTGACTTTGTGCCATGATATTGGCACTTCGAGTGCGAG
1 CTT-CATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAA
*
94000508 CTTCATTGATTTGGCTTCGGGCCATGATATTGGCA-TCTAGGGTGCGAAA
1 CTTCATTGATTTGGCTTCGGGCCATGATATTGGCACT-TCGGGTGCG-AA
94000557 CTTC
1 CTTC
94000561 CAAGTATCCA
Statistics
Matches: 159, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
47 6 0.04
48 143 0.90
49 10 0.06
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (48 bp):
CTTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAA
Found at i:94000551 original size:96 final size:96
Alignment explanation
Indices: 94000313--94000554 Score: 326
Period size: 96 Copynumber: 2.5 Consensus size: 96
94000303 ATGTCATTAG
* * * * *
94000313 GAGCTTCATTAAGTTGGTTTCGGGTCATGATATTAGCACTTTGGGTGCGAGTTACATTGATTTGG
1 GAGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACTTAGGGTGCGAGTTACATTGATTTGA
* *
94000378 CTTCGGACCATGATATTGGCACTTCGGGTAT
66 CTTCGGACCATGATATTGGCACTTCGAGTAC
* * *
94000409 GAACTTCATTGATTTGGCGTCGGGTCATGATATTAGCACTTCGGGTGCGAGTTACATTGATTTGA
1 GAGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACTTAGGGTGCGAGTTACATTGATTTGA
* *
94000474 CTTTGTG-CCATGATATTGGCACTTCGAGTGC
66 CTTCG-GACCATGATATTGGCACTTCGAGTAC
* *
94000505 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTGGCA-TCTAGGGTGCGA
1 GAGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACT-TAGGGTGCGA
94000555 AACTTCCAAG
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 1 0.01
96 126 0.98
97 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (96 bp):
GAGCTTCATTGATTTGGCTTCGGGTCATGATATTAGCACTTAGGGTGCGAGTTACATTGATTTGA
CTTCGGACCATGATATTGGCACTTCGAGTAC
Found at i:94008155 original size:48 final size:48
Alignment explanation
Indices: 94008054--94008229 Score: 210
Period size: 48 Copynumber: 3.7 Consensus size: 48
94008044 TAGGAGCTTT
* * * * * *
94008054 ATTGAGTTGGTTTTGGGCCATGATATTAGCACTTCGGGTACGAGTTAC
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGAGTTAC
* * * *
94008102 TTTGATTTGGCTTCGAGCCATGATATTGGCACTTCATGTGTGAGCTT-C
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGAG-TTAC
* *
94008150 ATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTAC
1 ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGAGTTAC
* *
94008198 ATTGATTTGCCTTTGGGCCATGATATTGGCAC
1 ATTGATTTGGCTTCGGGCCATGATATTGGCAC
94008230 CTAGGGTGTG
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.02
48 103 0.96
49 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (48 bp):
ATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGAGTTAC
Found at i:94008218 original size:96 final size:96
Alignment explanation
Indices: 94008047--94008229 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 96
94008037 ATGTCATTAG
* * * * *
94008047 GAGCTTTATTGAGTTGGTTTTGGGCCATGATATTAGCACTTCGGGTACGAGTTACTTTGATTTGG
1 GAGCTTCATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTACGAGTTACATTGATTTGC
94008112 CTTCGAGCCATGATATTGGCACTTCATGTGT
66 CTTCGAGCCATGATATTGGCACTTCATGTGT
* *
94008143 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGTTACATTGATTTGC
1 GAGCTTCATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTACGAGTTACATTGATTTGC
* *
94008208 CTTTGGGCCATGATATTGGCAC
66 CTTCGAGCCATGATATTGGCAC
94008230 CTAGGGTGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.37
Consensus pattern (96 bp):
GAGCTTCATTGAGTTGGCTTCGGGCCATGATATTAGCACTTCGGGTACGAGTTACATTGATTTGC
CTTCGAGCCATGATATTGGCACTTCATGTGT
Found at i:94010700 original size:19 final size:19
Alignment explanation
Indices: 94010676--94010712 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
94010666 CGCCAATGCA
94010676 TGGATGGCCACTTCGCAAT
1 TGGATGGCCACTTCGCAAT
94010695 TGGATGGCCACTTCGCAA
1 TGGATGGCCACTTCGCAA
94010713 CACTCCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (19 bp):
TGGATGGCCACTTCGCAAT
Found at i:94013190 original size:13 final size:13
Alignment explanation
Indices: 94013172--94013196 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94013162 TTGTCGTGTT
94013172 ATTTAGTTAATTA
1 ATTTAGTTAATTA
94013185 ATTTAGTTAATT
1 ATTTAGTTAATT
94013197 TTAATTTTAA
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:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:94016780 original size:6 final size:6
Alignment explanation
Indices: 94016769--94016794 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94016759 AGTGAACAAG
94016769 TTTTGT TTTTGT TTTTGT TTTTGT TT
1 TTTTGT TTTTGT TTTTGT TTTTGT TT
94016795 GGCCTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:94023348 original size:255 final size:255
Alignment explanation
Indices: 94022897--94023360 Score: 705
Period size: 255 Copynumber: 1.8 Consensus size: 255
94022887 GTGAATATTG
* *
94022897 AGATTCTCTTATTTCGAATAAATAAAACATCACATCCAGCACGTAGGACACAACATTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
* * *
94022962 TCAATATCAAAATCATCTCATAATTCCCAGAATTTATGCATTGAAAATTTAAAAAGGATATTCGG
66 TCAATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTGAAAATTTAAAAAGGATATTCGG
* * *
94023027 TCGTTCGGTCAAACGATAAATCGAAACCCAGCACGTAGGGCAAAATTTCTCGAAATTTCCAAACA
131 TCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCAAAATTTCTCAAAATTTCCAAACA
*
94023092 CGAAATATTGCCTTGTTAAAAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACGATTA
196 CGAAATATTACCTTGTTAAAAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACGATTA
* * * *
94023152 AGATTCTCTTGTTTCGAAGAAATAAAATATCACATCCAACACGTAGGACACGATATTTCAAACCT
1 AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
* * ** ** * *
94023217 TCGATACCAAAATCATCTCATATTTTTC-GAAACTCATGTTTTGAAATTTTAAAAAGGATATTTG
66 TCAATACCAAAATCATCTCATAATTCCCAG-AACTCATGCATTGAAAATTTAAAAAGGATATTCG
* *
94023281 GTTGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCACAATTTCTCAAAATTTCCAAAC
130 GTCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCAAAATTTCTCAAAATTTCCAAAC
94023346 ACGAAATATTACCTT
195 ACGAAATATTACCTT
94023361 ATTTTGAATA
Statistics
Matches: 185, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
254 1 0.01
255 184 0.99
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (255 bp):
AGATTCTCTTATTTCGAAGAAATAAAACATCACATCCAACACGTAGGACACAACATTTCAAACCT
TCAATACCAAAATCATCTCATAATTCCCAGAACTCATGCATTGAAAATTTAAAAAGGATATTCGG
TCGTTCGGTCAAACGACAAATCGAAACCCAACACGTAGGGCAAAATTTCTCAAAATTTCCAAACA
CGAAATATTACCTTGTTAAAAAAAAGTCTTGAATAAAAATGCAATAGTATGAAACGATTA
Found at i:94024597 original size:12 final size:12
Alignment explanation
Indices: 94024564--94024597 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
94024554 CCACCGTGTA
* *
94024564 CGGTGGCCGACG
1 CGGTGGACGGCG
94024576 CGGTGGACGGCG
1 CGGTGGACGGCG
94024588 CGGTGGACGG
1 CGGTGGACGG
94024598 AGACCGGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.26, G:0.56, T:0.09
Consensus pattern (12 bp):
CGGTGGACGGCG
Found at i:94025271 original size:11 final size:12
Alignment explanation
Indices: 94025250--94025282 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
94025240 AATTTAATAT
94025250 TATTATTTTATG
1 TATTATTTTATG
94025262 TATT-TTTTATG
1 TATTATTTTATG
*
94025273 TATTCTTTTA
1 TATTATTTTA
94025283 ATATACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (12 bp):
TATTATTTTATG
Found at i:94025394 original size:21 final size:22
Alignment explanation
Indices: 94025358--94025407 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
94025348 GACATTACAT
*
94025358 ATATTTTACGTATATTATGTAC
1 ATATTTTACATATATTATGTAC
**
94025380 ATATTTTA-ATATATTATGTGT
1 ATATTTTACATATATTATGTAC
94025401 ATATTTT
1 ATATTTT
94025408 GTTTTGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (22 bp):
ATATTTTACATATATTATGTAC
Found at i:94025712 original size:25 final size:25
Alignment explanation
Indices: 94025677--94025727 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
94025667 CTACTACTAG
*
94025677 TATTACTATTATT-TCTTTATTATTT
1 TATTACCATTATTAT-TTTATTATTT
*
94025702 TATTACCATTATTATTTTTTTATTT
1 TATTACCATTATTATTTTATTATTT
94025727 T
1 T
94025728 TTTTATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (25 bp):
TATTACCATTATTATTTTATTATTT
Found at i:94035244 original size:43 final size:44
Alignment explanation
Indices: 94035180--94035270 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 44
94035170 CTAGAATCAG
* *
94035180 TGAATTCACCAAACCTTAACCCCCTAAGCAGTAGGGTAACAGGT
1 TGAATTCACCAAACCTTAACCCCCTAAGCACTAGGGTAACAGGC
*
94035224 TGAATTCA-CAAGCCTTAACCCCCTAAGCACTAGGGTAACAGGC
1 TGAATTCACCAAACCTTAACCCCCTAAGCACTAGGGTAACAGGC
94035267 TGAA
1 TGAA
94035271 GATATAGATC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 36 0.82
44 8 0.18
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (44 bp):
TGAATTCACCAAACCTTAACCCCCTAAGCACTAGGGTAACAGGC
Found at i:94035291 original size:43 final size:42
Alignment explanation
Indices: 94035244--94035397 Score: 123
Period size: 44 Copynumber: 3.5 Consensus size: 42
94035234 AGCCTTAACC
* *
94035244 CCCTAAGCACTAGGGTAACAGGCTGAAGATATAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACA-GATGAAGATATAGATCTTATCA
* * * * * * * *
94035287 CCCTAAGTAGTAGGGAAACAAATCAAAGGTA-ACGAGCTTTAACC
1 CCCTAAGCAGTAGGGTAACAGAT-GAAGATATA-GATC-TTATCA
* *
94035331 CCCTAAGCAGTAGGGTAACAAGTTGAAGTTTATAGATCTTATCA
1 CCCTAAGCAGTAGGGTAAC-AGATGAAG-ATATAGATCTTATCA
94035375 CCCTAAGCAGTAGGG-AAGCAGAT
1 CCCTAAGCAGTAGGGTAA-CAGAT
94035398 CAATTGCTTT
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
42 2 0.02
43 30 0.36
44 44 0.52
45 7 0.08
46 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGATGAAGATATAGATCTTATCA
Found at i:94035346 original size:87 final size:88
Alignment explanation
Indices: 94035238--94035400 Score: 256
Period size: 88 Copynumber: 1.9 Consensus size: 88
94035228 TTCACAAGCC
* *
94035238 TTAACCCCCTAAGCACTAGGGTAACAGGCTGAAG-ATATAGATCTTATCACCCTAAGTAGTAGGG
1 TTAACCCCCTAAGCACTAGGGTAACAAGCTGAAGTATATAGATCTTATCACCCTAAGCAGTAGGG
94035302 AAACAAATCAAAGGTAACGAGCT
66 AAACAAATCAAAGGTAACGAGCT
* * *
94035325 TTAACCCCCTAAGCAGTAGGGTAACAAGTTGAAGTTTATAGATCTTATCACCCTAAGCAGTAGGG
1 TTAACCCCCTAAGCACTAGGGTAACAAGCTGAAGTATATAGATCTTATCACCCTAAGCAGTAGGG
* *
94035390 AAGCAGATCAA
66 AAACAAATCAA
94035401 TTGCTTTCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
87 31 0.46
88 37 0.54
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (88 bp):
TTAACCCCCTAAGCACTAGGGTAACAAGCTGAAGTATATAGATCTTATCACCCTAAGCAGTAGGG
AAACAAATCAAAGGTAACGAGCT
Found at i:94035379 original size:44 final size:43
Alignment explanation
Indices: 94035194--94035389 Score: 155
Period size: 43 Copynumber: 4.5 Consensus size: 43
94035184 TTCACCAAAC
* * * *
94035194 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA-TTCACA-AGC
1 CTTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTT-ATAGA-T
* * * * *
94035237 CTTAACCCCCTAAGCACTAGGGTAACAGGCTGAAGATATAGAT
1 CTTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTTATAGAT
* * * * ** * *
94035280 CTTATCACCCTAAGTAGTAGGGAAACAAATCAAAGGTA-ACGAG
1 CTTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTTATA-GAT
*
94035323 CTTTAACCCCCTAAGCAGTAGGGTAACAAGTTGAAGTTTATAGAT
1 C-TTAACACCCTAAGCAGTAGGGTAACAAGTTGAAG-TTATAGAT
*
94035368 CTTATCACCCTAAGCAGTAGGG
1 CTTAACACCCTAAGCAGTAGGG
94035390 AAGCAGATCA
Statistics
Matches: 119, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
42 1 0.01
43 64 0.54
44 48 0.40
45 5 0.04
46 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (43 bp):
CTTAACACCCTAAGCAGTAGGGTAACAAGTTGAAGTTATAGAT
Found at i:94035819 original size:43 final size:42
Alignment explanation
Indices: 94035760--94035865 Score: 113
Period size: 43 Copynumber: 2.5 Consensus size: 42
94035750 GGGCTTCAAC
* * *
94035760 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAACAGTAGGGTAACAAGCCAAATTTACAAACC-TAAA
* *** * *
94035803 CCCCTAAACAGTAGGGTAACAGGTTGAATTTACAGATCTAAA
1 CCCCTAAACAGTAGGGTAACAAGCCAAATTTACAAACCTAAA
*
94035845 CCCCTAAACAGTAGGGAAACA
1 CCCCTAAACAGTAGGGTAACA
94035866 GATCAAAGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 24 0.45
43 29 0.55
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (42 bp):
CCCCTAAACAGTAGGGTAACAAGCCAAATTTACAAACCTAAA
Found at i:94036874 original size:18 final size:18
Alignment explanation
Indices: 94036851--94036892 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
94036841 GCGGTGGACG
94036851 GAGACCGGTCCGGCAGCA
1 GAGACCGGTCCGGCAGCA
94036869 GAGACCGGTCCGGCAGCA
1 GAGACCGGTCCGGCAGCA
94036887 GAGACC
1 GAGACC
94036893 TGGGGCTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.38, T:0.05
Consensus pattern (18 bp):
GAGACCGGTCCGGCAGCA
Found at i:94037537 original size:11 final size:12
Alignment explanation
Indices: 94037516--94037548 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
94037506 AATTTAATAT
94037516 TATTATTTTATG
1 TATTATTTTATG
94037528 TATT-TTTTATG
1 TATTATTTTATG
*
94037539 TATTCTTTTA
1 TATTATTTTA
94037549 ATATACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (12 bp):
TATTATTTTATG
Done.