Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 14 of 66
Found at i:4561411 original size:22 final size:23
Alignment explanation
Indices: 4561375--4561417 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4561365 GTGAAAGGTT
4561375 TTGTCAAAGCCTGGTAAAAGCCA
1 TTGTCAAAGCCTGGTAAAAGCCA
* *
4561398 TTGT-AAAGCTTGGTGAAAGC
1 TTGTCAAAGCCTGGTAAAAGC
4561418 TTGTGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (23 bp):
TTGTCAAAGCCTGGTAAAAGCCA
Found at i:4572726 original size:12 final size:12
Alignment explanation
Indices: 4572709--4572734 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4572699 GTAGCCACGT
4572709 ATAATCTCTCCA
1 ATAATCTCTCCA
4572721 ATAATCTCTCCA
1 ATAATCTCTCCA
4572733 AT
1 AT
4572735 TTGATTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATCTCTCCA
Found at i:4581106 original size:3 final size:3
Alignment explanation
Indices: 4581098--4581143 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
4581088 GGATACACAC
* *
4581098 ATA ATA ATA ATA ATA AGA ATA ATA ATA ATA ATA ATA ATG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4581144 GTTTGGCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4581230 original size:18 final size:16
Alignment explanation
Indices: 4581193--4581235 Score: 54
Period size: 15 Copynumber: 2.7 Consensus size: 16
4581183 CAAAACCTCT
4581193 ATAAATTAAT-ACTCG
1 ATAAATTAATAACTCG
4581208 ATAAATTAATAATCTCG
1 ATAAATTAATAA-CTCG
4581225 ATTAAA-TAATA
1 A-TAAATTAATA
4581236 TTTTTGACCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.40
16 1 0.04
17 10 0.40
18 4 0.16
ACGTcount: A:0.51, C:0.09, G:0.05, T:0.35
Consensus pattern (16 bp):
ATAAATTAATAACTCG
Found at i:4613153 original size:16 final size:16
Alignment explanation
Indices: 4613129--4613159 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4613119 TAAAAATATT
4613129 AAAAAAATCAAAATCC
1 AAAAAAATCAAAATCC
*
4613145 AAAACAATCAAAATC
1 AAAAAAATCAAAATC
4613160 TGAATTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.19, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAAAAATCAAAATCC
Found at i:4613414 original size:23 final size:24
Alignment explanation
Indices: 4613361--4613409 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
4613351 TCCTGGACTT
4613361 AGAAAATTTTTTACTTCAAAAGTG
1 AGAAAATTTTTTACTTCAAAAGTG
4613385 AGAAAATTTTTTACTTCAAAAGTG
1 AGAAAATTTTTTACTTCAAAAGTG
4613409 A
1 A
4613410 CAAATAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (24 bp):
AGAAAATTTTTTACTTCAAAAGTG
Found at i:4615316 original size:2 final size:2
Alignment explanation
Indices: 4615309--4615386 Score: 57
Period size: 2 Copynumber: 39.0 Consensus size: 2
4615299 TAAATTTCAA
* * * * * *
4615309 AT AT AT AT AT AT AT GT AT GT AT AT AT AT GT AT AT TT GT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
4615351 AT AT GT AC AT AT AT AC AC AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4615387 GGATGCTTCA
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4615351 original size:18 final size:20
Alignment explanation
Indices: 4615309--4615357 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
4615299 TAAATTTCAA
*
4615309 ATATATATATATATGTATGT
1 ATATATATGTATATGTATGT
4615329 ATATATATGTATAT-T-TGT
1 ATATATATGTATATGTATGT
*
4615347 GTATATATGTA
1 ATATATATGTA
4615358 CATATATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 13 0.48
19 1 0.04
20 13 0.48
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
ATATATATGTATATGTATGT
Found at i:4616132 original size:24 final size:23
Alignment explanation
Indices: 4616076--4616132 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
4616066 TGATGAGAAA
* *
4616076 AAAAATACTC-TTTATTAAAATT
1 AAAAATATTCTTTTATTAAAAAT
*
4616098 AAAAACT-TTCTTTTCTTAAAAGAT
1 AAAAA-TATTCTTTTATTAAAA-AT
4616122 AAAAATATTCT
1 AAAAATATTCT
4616133 GAGCAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 7 0.25
23 11 0.39
24 10 0.36
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAAATATTCTTTTATTAAAAAT
Found at i:4616151 original size:127 final size:125
Alignment explanation
Indices: 4615931--4616186 Score: 476
Period size: 127 Copynumber: 2.0 Consensus size: 125
4615921 TAAAAAACAA
* *
4615931 AAAAAACTATGATGAGAAATAAATACTCTTTATTAAAATTAAAAACTTTCTTTTCTTAAAAGATA
1 AAAATACTATGATGAGAAAAAAATACTCTTTATTAAAATTAAAAACTTTCTTTTCTTAAAAGATA
4615996 AAAATATTCTGAGCAATAAAATTAAAATAACTTTTACTATAATTAAATAATATTTTCACC
66 AAAATATTCTGAGCAATAAAATTAAAATAACTTTTACTATAATTAAATAATATTTTCACC
4616056 AAAATACNTATGATGAGAAAAAAAATACTCTTTATTAAAATTAAAAACTTTCTTTTCTTAAAAGA
1 AAAATAC-TATGATGAG-AAAAAAATACTCTTTATTAAAATTAAAAACTTTCTTTTCTTAAAAGA
4616121 TAAAAATATTCTGAGCAATAAAATTAAAATAACTTTTACTATAATTAAATAATATTTTCACC
64 TAAAAATATTCTGAGCAATAAAATTAAAATAACTTTTACTATAATTAAATAATATTTTCACC
4616183 AAAA
1 AAAA
4616187 ATACAAACAT
Statistics
Matches: 127, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
125 6 0.05
126 9 0.07
127 112 0.88
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (125 bp):
AAAATACTATGATGAGAAAAAAATACTCTTTATTAAAATTAAAAACTTTCTTTTCTTAAAAGATA
AAAATATTCTGAGCAATAAAATTAAAATAACTTTTACTATAATTAAATAATATTTTCACC
Found at i:4616238 original size:23 final size:22
Alignment explanation
Indices: 4616195--4616289 Score: 52
Period size: 23 Copynumber: 4.2 Consensus size: 22
4616185 AAATACAAAC
* **
4616195 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAGAAGATAATA
4616217 ATATTTTGTATTAGAAGATAATTA
1 ATATTTT-TATTAGAAGATAA-TA
* *
4616241 A-ACCTTTTTATTATAA-TTAAATA
1 ATA--TTTTTATTAGAAGAT-AATA
* *
4616264 ATATTTAATATTAAAAGATAA-A
1 ATATTT-TTATTAGAAGATAATA
4616286 ATAT
1 ATAT
4616290 ATTCTTCATT
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
22 15 0.26
23 24 0.42
24 14 0.25
25 4 0.07
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
ATATTTTTATTAGAAGATAATA
Found at i:4616367 original size:10 final size:10
Alignment explanation
Indices: 4616352--4616426 Score: 57
Period size: 10 Copynumber: 7.4 Consensus size: 10
4616342 ATATTCAAAT
4616352 AATAATATTA
1 AATAATATTA
*
4616362 AATAATATACTT
1 AATAATAT--TA
*
4616374 TATAATATT-
1 AATAATATTA
* *
4616383 TATTATAATTA
1 AATAAT-ATTA
4616394 AATAATATT-
1 AATAATATTA
4616403 AAT-ATATTA
1 AATAATATTA
4616412 AATAATATTTA
1 AATAATA-TTA
4616423 AATA
1 AATA
4616427 TTTTCATTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
8 5 0.09
9 11 0.21
10 18 0.34
11 11 0.21
12 8 0.15
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (10 bp):
AATAATATTA
Found at i:4616367 original size:45 final size:45
Alignment explanation
Indices: 4616307--4616400 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 45
4616297 ATTAAATTTA
* *
4616307 AATAATACTAAATAATATTCTTTATTACATTGATTAT-ATTCAAAT
1 AATAATACTAAATAATATACTTTATAACATTGATTATAATT-AAAT
* * *
4616352 AATAATATTAAATAATATACTTTATAATATTTATTATAATTAAAT
1 AATAATACTAAATAATATACTTTATAACATTGATTATAATTAAAT
4616397 AATA
1 AATA
4616401 TTAATATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
45 40 0.93
46 3 0.07
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (45 bp):
AATAATACTAAATAATATACTTTATAACATTGATTATAATTAAAT
Found at i:4616413 original size:18 final size:19
Alignment explanation
Indices: 4616375--4616420 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
4616365 AATATACTTT
*
4616375 ATAATATTTATTATAATTAA
1 ATAATA-TTAATATAATTAA
4616395 ATAATATTAATAT-ATTAA
1 ATAATATTAATATAATTAA
4616413 ATAATATT
1 ATAATATT
4616421 TAAATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.52
19 6 0.24
20 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATATTAATATAATTAA
Found at i:4616427 original size:18 final size:18
Alignment explanation
Indices: 4616375--4616428 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
4616365 AATATACTTT
*
4616375 ATAATATTTATTATAATTAA
1 ATAATATTTA-AAT-ATTAA
4616395 ATAATA-TTAATATATTAA
1 ATAATATTTAA-ATATTAA
4616413 ATAATATTTAAATATT
1 ATAATATTTAAATATT
4616429 TTCATTTCCC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
18 16 0.52
19 9 0.29
20 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATAATATTTAAATATTAA
Found at i:4624883 original size:21 final size:21
Alignment explanation
Indices: 4624842--4624883 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4624832 GGAAGCAAGT
*
4624842 TTCTCACTGCAGTGAAGTTCA
1 TTCTCACTGCAGTCAAGTTCA
*
4624863 TTCTCGCTGCAG-CAAGATTCA
1 TTCTCACTGCAGTCAAG-TTCA
4624884 GGCGGCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (21 bp):
TTCTCACTGCAGTCAAGTTCA
Found at i:4625470 original size:37 final size:37
Alignment explanation
Indices: 4625421--4625539 Score: 139
Period size: 37 Copynumber: 3.2 Consensus size: 37
4625411 CACATACATA
* * * *
4625421 CATCGTCATCATGTGCGCACTCCCTACTCGCACATTT
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
** * *
4625458 TGTCATCATCATGTGTGCATTCCCTACTTGCACACTC
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
* *
4625495 CATCATCATCATGTGTGCACTCCCTACTCACACACTT
1 CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
*
4625532 CAACATCA
1 CATCATCA
4625540 CAACCCAACA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.36, G:0.11, T:0.30
Consensus pattern (37 bp):
CATCATCATCATGTGTGCACTCCCTACTCGCACACTC
Found at i:4637576 original size:42 final size:42
Alignment explanation
Indices: 4637524--4637606 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
4637514 TGTTGATGTG
4637524 GACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGCT
1 GACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGCT
* * **
4637566 GACCTTGCTATGTGCGAGTGGGAGTGTGCATAAGCCATTGC
1 GACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGC
4637607 ATATGAGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (42 bp):
GACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCATTGCT
Found at i:4637977 original size:21 final size:21
Alignment explanation
Indices: 4637951--4637992 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4637941 TCATCAGCTA
*
4637951 AATTTCGCTGCAGCGAGAAAC
1 AATTTCGCTGCAACGAGAAAC
4637972 AATTTCGCTGCAACGAGAAAC
1 AATTTCGCTGCAACGAGAAAC
4637993 CTTCTGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (21 bp):
AATTTCGCTGCAACGAGAAAC
Found at i:4643191 original size:27 final size:28
Alignment explanation
Indices: 4643159--4643220 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
4643149 TTAATTTATT
4643159 ATTAATTTA-TG-TATAAATTAATAACTTA
1 ATTAATTTATTGAT-TAAA-TAATAACTTA
*
4643187 A-TAATTTATTGATTAAATAATATCTTA
1 ATTAATTTATTGATTAAATAATAACTTA
4643214 ATTAATT
1 ATTAATT
4643221 AATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 17 0.57
28 12 0.40
29 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (28 bp):
ATTAATTTATTGATTAAATAATAACTTA
Found at i:4643559 original size:73 final size:73
Alignment explanation
Indices: 4643473--4643613 Score: 185
Period size: 73 Copynumber: 1.9 Consensus size: 73
4643463 AAATGGCTTA
* ** * *
4643473 TTCAGAGATAGAGATGACTTAATGGACTAAAAAGTATAGTTAGTCGACTAAAAGC-TTACTGCCA
1 TTCAGAGACAGAGACAACTTAATCGACTAAAAAGCATAGTTAGTCGACTAAAAGCATT-CTGCCA
4643537 GAAACTGGG
65 GAAACTGGG
** * *
4643546 TTCAGAGACAGAGACAACTTAATCGACTAAGGAGCATAGTTAGTCGACTAAGAGCATTCTGTCAG
1 TTCAGAGACAGAGACAACTTAATCGACTAAAAAGCATAGTTAGTCGACTAAAAGCATTCTGCCAG
4643611 AAA
66 AAA
4643614 ATTTGAATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
73 56 0.97
74 2 0.03
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (73 bp):
TTCAGAGACAGAGACAACTTAATCGACTAAAAAGCATAGTTAGTCGACTAAAAGCATTCTGCCAG
AAACTGGG
Found at i:4660165 original size:20 final size:20
Alignment explanation
Indices: 4660142--4660183 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
4660132 AATTTATAGG
*
4660142 AAAATAAATAAAATTAAACT
1 AAAATAAATAAAACTAAACT
*
4660162 AAAATAAATTAAACTAAACT
1 AAAATAAATAAAACTAAACT
4660182 AA
1 AA
4660184 TCAACATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (20 bp):
AAAATAAATAAAACTAAACT
Found at i:4660170 original size:15 final size:16
Alignment explanation
Indices: 4660147--4660179 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
4660137 ATAGGAAAAT
4660147 AAATAAAATTAAACTA
1 AAATAAAATTAAACTA
4660163 AAAT-AAATTAAACTA
1 AAATAAAATTAAACTA
4660178 AA
1 AA
4660180 CTAATCAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAAAATTAAACTA
Found at i:4719129 original size:4 final size:5
Alignment explanation
Indices: 4719112--4719149 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
4719102 TATCTTGTTA
* *
4719112 TTTTT TTTTC CTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
4719150 CTCTCTTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:4719504 original size:34 final size:34
Alignment explanation
Indices: 4719465--4719555 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 34
4719455 ATAAAATTTT
* *
4719465 ACACTTTTTGGTCTCCAAAATCAATAGAAAAATG
1 ACACTTTTTAGCCTCCAAAATCAATAGAAAAATG
* ** * * *
4719499 GCACTTTCCAACCTCCAAAACCAGTAGAAAAATG
1 ACACTTTTTAGCCTCCAAAATCAATAGAAAAATG
*
4719533 ACACTTTTTAGCCTCAAAAATCA
1 ACACTTTTTAGCCTCCAAAATCA
4719556 GCCCTTAAAT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.25
Consensus pattern (34 bp):
ACACTTTTTAGCCTCCAAAATCAATAGAAAAATG
Found at i:4723573 original size:25 final size:25
Alignment explanation
Indices: 4723545--4723593 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
4723535 TCTAGTAAAC
4723545 TTTGTCA-TTCAATTATTAGTTTTAG
1 TTTGTCAGTTCAATT-TTAGTTTTAG
* *
4723570 TTTGTTAGTTCAATTTTATTTTTA
1 TTTGTCAGTTCAATTTTAGTTTTA
4723594 ATTAATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.22, C:0.06, G:0.10, T:0.61
Consensus pattern (25 bp):
TTTGTCAGTTCAATTTTAGTTTTAG
Found at i:4724163 original size:21 final size:21
Alignment explanation
Indices: 4724137--4724182 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4724127 AAAAAGGATT
*
4724137 TTGATGAACAAGTATCAACAC
1 TTGATGAACAAATATCAACAC
*
4724158 TTGATGAACAAATATCAATAC
1 TTGATGAACAAATATCAACAC
4724179 TTGA
1 TTGA
4724183 AACCCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (21 bp):
TTGATGAACAAATATCAACAC
Found at i:4728715 original size:27 final size:27
Alignment explanation
Indices: 4728681--4728735 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4728671 CATGATATTA
4728681 AGATTTGTATGTGATGTAGTTCCACAT
1 AGATTTGTATGTGATGTAGTTCCACAT
4728708 AGATTTGTATGTGATGTAGTTCCACAT
1 AGATTTGTATGTGATGTAGTTCCACAT
4728735 A
1 A
4728736 ACTTATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (27 bp):
AGATTTGTATGTGATGTAGTTCCACAT
Found at i:4733829 original size:102 final size:103
Alignment explanation
Indices: 4733586--4733840 Score: 314
Period size: 102 Copynumber: 2.5 Consensus size: 103
4733576 CATTAGGTGC
* * *
4733586 CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGTATTACATGATTGAATATATGTCGAGC
1 CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTCGAGC
* * *
4733651 GTTGCGTGACAGTCACTACGTGACTGAATATTACCTGA
66 GTTGCATGACAGGCACTACGTGAATGAATATTACCTGA
* * * *
4733689 CTGAATATTTGTTAAGCATTGCGTTAGTTCTTTATAGGCATTACGTGACTGAATATTTGT-TAGC
1 CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTCGAGC
** * *
4733753 GTTGCATGACAGGCGTTACGTGAATTAATATTACGTGA
66 GTTGCATGACAGGCACTACGTGAATGAATATTACCTGA
* * ** * * *
4733791 TTGAATATTTGTTGAGTATTGCGTGACCTATTTGTAGGCATTGCGTGACT
1 CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACT
4733841 TTAGCTACCT
Statistics
Matches: 129, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
102 75 0.58
103 54 0.42
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (103 bp):
CTGAATATTTGTTGAGCATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATATGTCGAGC
GTTGCATGACAGGCACTACGTGAATGAATATTACCTGA
Found at i:4737890 original size:111 final size:110
Alignment explanation
Indices: 4737674--4738092 Score: 430
Period size: 111 Copynumber: 3.7 Consensus size: 110
4737664 GGTGCATGAC
* * * * *
4737674 TGACTTGTGCAATTCATGTGTTGCTTTGAGGCTATTGTTCAGTAGTTTTTTAGGCAGTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTAAGGCTTTTGTTCAGTAGTTTTTTAGGC-TTGCATGAC
* *
4737739 TGGTTTTTATATATTGCATTACCTGTTGTAGCTAGAGTGGTGGCACA
65 TGGTTTTTATATATTGCATTACTTGTTGTAGCT-GAGTGGTGGCACG
* *
4737786 TGACTTGTGCAATTCATGTGTTGTTTTAAGGCTTTTGCTCAGTAGTTTTTTAAGCTTGCATGACT
1 TGACTTGTGCAATTCATGTGTTGTTTTAAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCATGACT
* *
4737851 GGTTTTTATATATTGCGTTACTTGTTGTAGCGTGAGTGGTGGCGCG
66 GGTTTTTATATATTGCATTACTTGTTGTAGC-TGAGTGGTGGCACG
* * * * *
4737897 TGACTTGTGCAATCCATGTGTTG-TTTAGGGGTTTTTGTTCAGTAG-TGTTTAGGGTTGCATGAC
1 TGACTTGTGCAATTCATGTGTTGTTTTA-AGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCATGA-
** * * *
4737960 CT-AATTTTATATATTGCATGACATGTTGTTATGTATTGCAAGAGTGGTTGCACG
64 CTGGTTTTTATATATTGCATTAC---TTG-T-TGTA--GC-TGAGTGGTGGCACG
* * * * * * *
4738014 TGACTTGTGCAATTCATATGTTGTTTAAAGGTTTTTGTTTAGTAGTTTTTTAGGATTGCGTTACT
1 TGACTTGTGCAATTCATGTGTTGTTTTAAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCATGACT
* *
4738079 GTTTTTTATGTATT
66 GGTTTTTATATATT
4738093 ATGTGACCTA
Statistics
Matches: 256, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
110 34 0.13
111 86 0.34
112 51 0.20
113 3 0.01
114 1 0.00
115 4 0.02
117 51 0.20
118 26 0.10
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.45
Consensus pattern (110 bp):
TGACTTGTGCAATTCATGTGTTGTTTTAAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCATGACT
GGTTTTTATATATTGCATTACTTGTTGTAGCTGAGTGGTGGCACG
Found at i:4738143 original size:118 final size:116
Alignment explanation
Indices: 4737892--4738146 Score: 278
Period size: 118 Copynumber: 2.2 Consensus size: 116
4737882 GTGAGTGGTG
* * ** *
4737892 GCGCGTGACTTGTGCAATCCATGTGTTGTTTAGGGGTTTTTGTTCAGTAGTGTTTAGGGTTGCAT
1 GCGCGTGACTTGTGCAATTCATATGTTGTTTAAAGGTTTTTGTTCAGTAGTGTTTAGGATTGCAT
* * * *
4737957 GACCTAATTTTATATATTGCATGACATGTTGTTATGTATTGCAAGAGTGGTT
66 GACCTAATTTTATATATTACATGACATATTGTTATATATTGCAAGAGCGG-T
* * * *
4738009 GCACGTGACTTGTGCAATTCATATGTTGTTTAAAGGTTTTTGTTTAGTAGTTTTTTAGGATTGCG
1 GCGCGTGACTTGTGCAATTCATATGTTGTTTAAAGGTTTTTGTTCAGTAG-TGTTTAGGATTGCA
* ** * ** * *
4738074 TTA-CTGTTTTTTATGTATTATGTGACCTATTGTTATATATTGCGAGAGCGGT
65 TGACCT-AATTTTATATATTACATGACATATTGTTATATATTGCAAGAGCGGT
4738126 GACGCGTGACTTGTGCAATTC
1 G-CGCGTGACTTGTGCAATTC
4738147 GCCTCTTGTT
Statistics
Matches: 113, Mismatches: 22, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
117 48 0.42
118 65 0.58
ACGTcount: A:0.20, C:0.11, G:0.25, T:0.43
Consensus pattern (116 bp):
GCGCGTGACTTGTGCAATTCATATGTTGTTTAAAGGTTTTTGTTCAGTAGTGTTTAGGATTGCAT
GACCTAATTTTATATATTACATGACATATTGTTATATATTGCAAGAGCGGT
Found at i:4744225 original size:21 final size:21
Alignment explanation
Indices: 4744172--4744225 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
4744162 ATCAAAAACT
* *
4744172 AGTCACACAATCTCCAAAGTA
1 AGTCACGCAATGTCCAAAGTA
* *
4744193 AGTCTCGCAATGTCCAAGGTA
1 AGTCACGCAATGTCCAAAGTA
4744214 AGTCACGCAATG
1 AGTCACGCAATG
4744226 CCTCATGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
AGTCACGCAATGTCCAAAGTA
Found at i:4744374 original size:21 final size:19
Alignment explanation
Indices: 4744345--4744385 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
4744335 GAAAAAAGTC
*
4744345 AGATTAAAGAATACAAGAAGA
1 AGATAAAAGAA-A-AAGAAGA
4744366 AGATAAAAGAAAAAGAAGA
1 AGATAAAAGAAAAAGAAGA
4744385 A
1 A
4744386 TGGGAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.10
Consensus pattern (19 bp):
AGATAAAAGAAAAAGAAGA
Found at i:4748838 original size:26 final size:26
Alignment explanation
Indices: 4748793--4748844 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
4748783 ATGAATGAAT
* *
4748793 ACAAAGAATAATATCTAAATGATACA
1 ACAAAGAATAATATCGAAATCATACA
* *
4748819 ACAAAGTATAATATGGAAATCATACA
1 ACAAAGAATAATATCGAAATCATACA
4748845 GAATAATGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.56, C:0.12, G:0.10, T:0.23
Consensus pattern (26 bp):
ACAAAGAATAATATCGAAATCATACA
Found at i:4750892 original size:13 final size:13
Alignment explanation
Indices: 4750874--4750899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4750864 TTTCAGAAAA
4750874 TTTATAAAATCAT
1 TTTATAAAATCAT
4750887 TTTATAAAATCAT
1 TTTATAAAATCAT
4750900 AATTTCTCCT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:4753194 original size:24 final size:24
Alignment explanation
Indices: 4753167--4753226 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
4753157 TGTCTACATT
* * *
4753167 TGCATCGCCTGTTGGATCTCCAAC
1 TGCATCGACTGCTAGATCTCCAAC
* *
4753191 TGCATTGATTGCTAGATCTCCAAC
1 TGCATCGACTGCTAGATCTCCAAC
*
4753215 TGCATTGACTGC
1 TGCATCGACTGC
4753227 ATCTGCATCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (24 bp):
TGCATCGACTGCTAGATCTCCAAC
Found at i:4753262 original size:24 final size:24
Alignment explanation
Indices: 4753179--4753289 Score: 75
Period size: 24 Copynumber: 4.8 Consensus size: 24
4753169 CATCGCCTGT
* ***
4753179 TGGATCTCCAACTGCATTGATTGC
1 TGGATCTCCAACTACATTGACCAC
* *
4753203 TAGATCTCCAACTGCATTG---AC
1 TGGATCTCCAACTACATTGACCAC
* * * * **
4753224 TGCATCTGCATCTACATTGCCCGT
1 TGGATCTCCAACTACATTGACCAC
*
4753248 TGGATCTCCAACTACATTGACTAC
1 TGGATCTCCAACTACATTGACCAC
*
4753272 TGGATCTCTAACTACATT
1 TGGATCTCCAACTACATT
4753290 AACTACATCT
Statistics
Matches: 67, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
21 15 0.22
24 52 0.78
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (24 bp):
TGGATCTCCAACTACATTGACCAC
Found at i:4753294 original size:24 final size:24
Alignment explanation
Indices: 4753248--4753295 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
4753238 CATTGCCCGT
*
4753248 TGGATCTCCAACTACATTGACTAC
1 TGGATCTCCAACTACATTAACTAC
*
4753272 TGGATCTCTAACTACATTAACTAC
1 TGGATCTCCAACTACATTAACTAC
4753296 ATCTGCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (24 bp):
TGGATCTCCAACTACATTAACTAC
Found at i:4756885 original size:31 final size:29
Alignment explanation
Indices: 4756847--4756928 Score: 94
Period size: 31 Copynumber: 2.8 Consensus size: 29
4756837 CACGTCATAT
4756847 GGACTAAATTGAACAAAAATATATAGTGTA
1 GGACTAAATTGAACAAAAATATATAGTG-A
* * *
4756877 GGGACTAAATTGAACAAAATTGAGATATTGA
1 -GGACTAAATTGAACAAAAAT-ATATAGTGA
*
4756908 AGACTAAATTGAA-AAAAATAT
1 GGACTAAATTGAACAAAAATAT
4756929 TTCAAAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
28 1 0.02
29 5 0.11
30 12 0.27
31 20 0.45
32 6 0.14
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (29 bp):
GGACTAAATTGAACAAAAATATATAGTGA
Found at i:4769877 original size:18 final size:20
Alignment explanation
Indices: 4769851--4769896 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
4769841 AGGAGACAAG
*
4769851 ATAAAATTTT-TAGAAT-AA
1 ATAATATTTTATAGAATGAA
*
4769869 ATAATATTTTATATAATGAA
1 ATAATATTTTATAGAATGAA
4769889 ATAATATT
1 ATAATATT
4769897 AAAATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 9 0.38
19 5 0.21
20 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (20 bp):
ATAATATTTTATAGAATGAA
Found at i:4771728 original size:13 final size:13
Alignment explanation
Indices: 4771710--4771734 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4771700 AGAGAAATTG
4771710 TGATTTTATAAAA
1 TGATTTTATAAAA
4771723 TGATTTTATAAA
1 TGATTTTATAAA
4771735 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:4781805 original size:22 final size:21
Alignment explanation
Indices: 4781780--4781858 Score: 52
Period size: 22 Copynumber: 3.4 Consensus size: 21
4781770 TAAACATCAA
4781780 TCCATAATTTCAACAGCACACT
1 TCCATAATTTCAACAGCACA-T
* *
4781802 TCCACAACTAACCTTTCAATAGCA-AA
1 T-C-C-A-TAA--TTTCAACAGCACAT
4781828 TCCATAATTTCAACAGCACAAT
1 TCCATAATTTCAACAGCAC-AT
*
4781850 TCCACAATT
1 TCCATAATT
4781859 AATTGTTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
20 10 0.23
22 13 0.30
23 2 0.05
24 2 0.05
25 2 0.05
26 4 0.09
27 1 0.02
28 10 0.23
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.27
Consensus pattern (21 bp):
TCCATAATTTCAACAGCACAT
Found at i:4781975 original size:46 final size:46
Alignment explanation
Indices: 4781827--4781979 Score: 136
Period size: 46 Copynumber: 3.3 Consensus size: 46
4781817 TCAATAGCAA
* * * *
4781827 ATCCATAATTTCAACAGCACAATTCCACAATTAATTGTT-AAGCCTCA-
1 ATCCACAATTT-AACAACACAATTCAACAATTAATTATTCAA-CCT-AG
* * *
4781874 ATCTACAATTTAACAACACAATTCAACAATTAATTATTCTACCTCG
1 ATCCACAATTTAACAACACAATTCAACAATTAATTATTCAACCTAG
* *
4781920 ATCCTCAATTTAACAACA-AAGTTCAATAATTAA-TAGTTCAACCTTAG
1 ATCCACAATTTAACAACACAA-TTCAACAATTAATTA-TTCAACC-TAG
4781967 -TCCACAATTTAAC
1 ATCCACAATTTAAC
4781980 TAATAATCTT
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
45 4 0.05
46 72 0.82
47 12 0.14
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.31
Consensus pattern (46 bp):
ATCCACAATTTAACAACACAATTCAACAATTAATTATTCAACCTAG
Found at i:4787323 original size:19 final size:21
Alignment explanation
Indices: 4787299--4787338 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4787289 AGTAAAGTCT
*
4787299 TTGAAC-TG-TTGTGTTAATA
1 TTGAACTTGATTGTGTAAATA
4787318 TTGAACTTGATTGTGTAAATA
1 TTGAACTTGATTGTGTAAATA
4787339 AATGTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (21 bp):
TTGAACTTGATTGTGTAAATA
Found at i:4788600 original size:37 final size:38
Alignment explanation
Indices: 4788559--4788658 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 38
4788549 GGGAACTTAC
*
4788559 TCATCCACACTCACACTTCT-A-ATACGTGGGCTTTCTA
1 TCATCCACACTCACACTTCTCACA-AAGTGGGCTTTCTA
* *
4788596 TCATCCACCCTCA-AGTAT-TCACAAAGTGGGCTTTCTA
1 TCATCCACACTCACACT-TCTCACAAAGTGGGCTTTCTA
*
4788633 TCATCCACACTCAC-CTTCTCATAAAG
1 TCATCCACACTCACACTTCTCACAAAG
4788659 GCGACTCTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
36 4 0.08
37 47 0.90
38 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.10, T:0.30
Consensus pattern (38 bp):
TCATCCACACTCACACTTCTCACAAAGTGGGCTTTCTA
Found at i:4791870 original size:39 final size:38
Alignment explanation
Indices: 4791787--4791870 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 38
4791777 AAGGTTGCAT
* *
4791787 GCAAGACAGAAAGTTTCTCCCTGCAGCGAGATTCAGGA
1 GCAAAACAGAAAGTTTCTCACTGCAGCGAGATTCAGGA
* *
4791825 GACAAAACAGAATGTTTCTCACTGCAGTGAG-TTACAGGCA
1 G-CAAAACAGAAAGTTTCTCACTGCAGCGAGATT-CAGG-A
4791865 GCAAAA
1 GCAAAA
4791871 ACAAAATGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 3 0.08
39 34 0.87
40 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (38 bp):
GCAAAACAGAAAGTTTCTCACTGCAGCGAGATTCAGGA
Found at i:4793108 original size:20 final size:19
Alignment explanation
Indices: 4793083--4793125 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
4793073 GAGGAAAAAG
*
4793083 ATGAAGAAGTTGCTAGAGAA
1 ATGAAGAAGCTGCTAGA-AA
*
4793103 ATGAAGAAGCTGCTGGAAA
1 ATGAAGAAGCTGCTAGAAA
4793122 ATGA
1 ATGA
4793126 GATCTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.44, C:0.07, G:0.30, T:0.19
Consensus pattern (19 bp):
ATGAAGAAGCTGCTAGAAA
Found at i:4794590 original size:39 final size:39
Alignment explanation
Indices: 4794547--4794630 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 39
4794537 TAAGTTTTAT
*
4794547 TTGAATTACTCACAAATGATTATAAACACTCGTTTTCAC
1 TTGAAATACTCACAAATGATTATAAACACTCGTTTTCAC
* * ** * * *
4794586 TTGAAATGCTCTCATTTGATTATAAACACTGGTTTTTAT
1 TTGAAATACTCACAAATGATTATAAACACTCGTTTTCAC
4794625 TTGAAA
1 TTGAAA
4794631 GGTTTATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.40
Consensus pattern (39 bp):
TTGAAATACTCACAAATGATTATAAACACTCGTTTTCAC
Found at i:4795284 original size:22 final size:22
Alignment explanation
Indices: 4795258--4795306 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
4795248 TATGACATCA
*
4795258 AATGTACTCAAAC-CGGTGGCTC
1 AATGTACTCAAACTC-ATGGCTC
* *
4795280 AATGTGCTTAAACTCATGGCTC
1 AATGTACTCAAACTCATGGCTC
4795302 AATGT
1 AATGT
4795307 GAAGTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (22 bp):
AATGTACTCAAACTCATGGCTC
Found at i:4795787 original size:104 final size:97
Alignment explanation
Indices: 4795612--4795812 Score: 294
Period size: 104 Copynumber: 2.0 Consensus size: 97
4795602 CCCAAGGGTG
*
4795612 TTCCACTTGTGGGTTAATTACCCATTTAGCCCTTTTTTTTGTGCAATTTAATCCCTCATGCAATT
1 TTCCACCTGTGGGTTAATTACCCATTTAGCCCTTTTTTTTGTGCAATTTAATCCCTCATGCAATT
*
4795677 GTTTCTTTATTTTAGCAAGCTAGACCGGTAAA
66 GTTTCTTTATTTTAGCAAGCTAGACAGGTAAA
* * *
4795709 TTCCACCTGTGGGTTAATTACCCATTTAGCCCTTTTCCTTTTTTTTTGTGGAATTTAATCTCTTA
1 TTCCACCTGTGGGTTAATTACCCATTTAG--C----CC-TTTTTTTTGTGCAATTTAATCCCTCA
4795774 TGCAATTGTTTCTTTATTTTAGCAAGCTAGACAGGTAAA
59 TGCAATTGTTTCTTTATTTTAGCAAGCTAGACAGGTAAA
4795813 GTTTTAAACA
Statistics
Matches: 92, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
97 28 0.30
99 1 0.01
103 2 0.02
104 61 0.66
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (97 bp):
TTCCACCTGTGGGTTAATTACCCATTTAGCCCTTTTTTTTGTGCAATTTAATCCCTCATGCAATT
GTTTCTTTATTTTAGCAAGCTAGACAGGTAAA
Found at i:4797193 original size:74 final size:75
Alignment explanation
Indices: 4797072--4797270 Score: 206
Period size: 74 Copynumber: 2.7 Consensus size: 75
4797062 GCAGATTGTG
* * * * * * * *
4797072 AGACAGAGAAGACATAGTCGACTAAGAAGTACAGTTAGTCAACTAAGAGCAT-ATTGCTAAAAAT
1 AGACAAAGAAGACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAGAGCATCACTACCAAAAAT
4797136 ATCAAATACA
66 ATCAAATACA
* * * *
4797146 AGACAAAGATA-ACTTAATCAACTAAGAAGCACGGTTAGTCAACTAAGAGC-TCCCTACCAGAGA
1 AGACAAAGA-AGACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAGAGCATCACTACCAAAAA
* * *
4797209 TTTCAATTTCA
65 TATCAAATACA
* * *
4797220 AGACAAATAAGACTTAATCGACTAAGAAGCATAGTTAGTCAACTAAGAGCA
1 AGACAAAGAAGACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAGAGCA
4797271 CTTTGTCTGA
Statistics
Matches: 102, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
73 2 0.02
74 99 0.97
75 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.21
Consensus pattern (75 bp):
AGACAAAGAAGACTTAATCAACTAAGAAGCACAGTTAGTCAACTAAGAGCATCACTACCAAAAAT
ATCAAATACA
Found at i:4801431 original size:21 final size:21
Alignment explanation
Indices: 4801407--4801448 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
4801397 ATTATCTTTT
*
4801407 CTATGT-TACATGGATTTTAAA
1 CTATGTCTA-ATGGATATTAAA
*
4801428 CTATTTCTAATGGATATTAAA
1 CTATGTCTAATGGATATTAAA
4801449 AGTGCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (21 bp):
CTATGTCTAATGGATATTAAA
Found at i:4802426 original size:22 final size:23
Alignment explanation
Indices: 4802383--4802429 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
4802373 TATAAAGTTT
4802383 ATTTAGGCTTAATTTTGATAGTA
1 ATTTAGGCTTAATTTTGATAGTA
*
4802406 ATTTA-GCTTAGTTCTTG-TAGTA
1 ATTTAGGCTTAATT-TTGATAGTA
4802428 AT
1 AT
4802430 GCATAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (23 bp):
ATTTAGGCTTAATTTTGATAGTA
Found at i:4803606 original size:2 final size:2
Alignment explanation
Indices: 4803599--4803626 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4803589 AAACTGAGTT
4803599 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4803627 CAATATTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4809193 original size:33 final size:35
Alignment explanation
Indices: 4809115--4809275 Score: 218
Period size: 36 Copynumber: 4.5 Consensus size: 35
4809105 TCAACTCAGC
* *
4809115 TCATGTGCACTCCCACACCGCACATAGCTAATATCC
1 TCATGTGCACTCCCACACCGCACATGGC-AATATCA
4809151 TCATGTGCACTCCCACACCGCACATGGCAA-AT-A
1 TCATGTGCACTCCCACACCGCACATGGCAATATCA
4809184 TCATGTGCACTCCCACACCGCACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCA-ATATCA
* *
4809220 TCATGTGCACTCCCACACCACACATGACATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCA-ATATCA
4809256 TCAGCTTGTGCACTCCCACA
1 TCA---TGTGCACTCCCACA
4809276 TTGAACACCA
Statistics
Matches: 115, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
33 29 0.25
34 3 0.03
35 4 0.03
36 65 0.57
39 14 0.12
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (35 bp):
TCATGTGCACTCCCACACCGCACATGGCAATATCA
Found at i:4809226 original size:69 final size:69
Alignment explanation
Indices: 4809115--4809256 Score: 223
Period size: 69 Copynumber: 2.1 Consensus size: 69
4809105 TCAACTCAGC
* * *
4809115 TCATGTGCACTCCCACACCGCACATAGCTAATATCCTCATGTGCACTCCCACACCGCACATGGCA
1 TCATGTGCACTCCCACACCGCACATAGCTAATATCATCATGTGCACTCCCACACCACACATGACA
4809180 AATA
66 AATA
*
4809184 TCATGTGCACTCCCACACCGCACATGGC-ATATATCATCATGTGCACTCCCACACCACACATGAC
1 TCATGTGCACTCCCACACCGCACATAGCTA-ATATCATCATGTGCACTCCCACACCACACATGAC
*
4809248 ATATA
65 AAATA
4809253 TCAT
1 TCAT
4809257 CAGCTTGTGC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
68 1 0.01
69 66 0.99
ACGTcount: A:0.30, C:0.37, G:0.12, T:0.22
Consensus pattern (69 bp):
TCATGTGCACTCCCACACCGCACATAGCTAATATCATCATGTGCACTCCCACACCACACATGACA
AATA
Found at i:4812329 original size:23 final size:24
Alignment explanation
Indices: 4812293--4812347 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
4812283 TTCTTCTCTT
4812293 TTGGGCCTACCCTTCCTTCTTGCCA
1 TTGGGCCTA-CCTTCCTTCTTGCCA
* * *
4812318 TTGGGCCT-CCTTTCTTGTTGCTA
1 TTGGGCCTACCTTCCTTCTTGCCA
4812341 TTGGGCC
1 TTGGGCC
4812348 CTTCTCATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 19 0.70
25 8 0.30
ACGTcount: A:0.05, C:0.33, G:0.22, T:0.40
Consensus pattern (24 bp):
TTGGGCCTACCTTCCTTCTTGCCA
Found at i:4812503 original size:38 final size:34
Alignment explanation
Indices: 4812455--4812560 Score: 131
Period size: 34 Copynumber: 3.0 Consensus size: 34
4812445 TATTTCTTCC
*
4812455 TCCTCCCCTCCTACATCGCACCTTTCTTTCTCTCTTTT
1 TCCTCTCCTCC-A-ATCG-ACC-TTCTTTCTCTCTTTT
* * *
4812493 TCCTCTCCTCCAACCGACCTTCTTTCTCCCTCTT
1 TCCTCTCCTCCAATCGACCTTCTTTCTCTCTTTT
*
4812527 TCTTCTCCTCCAATCGACCTTCTTTCTCTCTTTT
1 TCCTCTCCTCCAATCGACCTTCTTTCTCTCTTTT
4812561 CTTCCTTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 43 0.72
35 3 0.05
36 3 0.05
37 1 0.02
38 10 0.17
ACGTcount: A:0.08, C:0.44, G:0.03, T:0.44
Consensus pattern (34 bp):
TCCTCTCCTCCAATCGACCTTCTTTCTCTCTTTT
Found at i:4812567 original size:20 final size:22
Alignment explanation
Indices: 4812544--4812591 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
4812534 CTCCAATCGA
4812544 CCTTCT-TTCTCTCTTTTCT-T
1 CCTTCTCTTCTCTCTTTTCTCT
* *
4812564 CCTT-TCTTCTTTTTTTTCTCT
1 CCTTCTCTTCTCTCTTTTCTCT
4812585 CCTTCTC
1 CCTTCTC
4812592 CTTCCTTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 5 0.22
22 2 0.09
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (22 bp):
CCTTCTCTTCTCTCTTTTCTCT
Found at i:4812638 original size:34 final size:34
Alignment explanation
Indices: 4812546--4812676 Score: 110
Period size: 38 Copynumber: 3.7 Consensus size: 34
4812536 CCAATCGACC
* *
4812546 TTCTTTCTC-TCTT-TTCTTCC-TTTCTTCTTT-
1 TTCTTTCTCTTCTTCTCCTTCCTTTTCTCCTTTA
* *
4812576 TTTTTCTCTCCTTCTCCTTCCTTTCCTTTTCTCCTTTA
1 TTCTT-TCT-CTTCTTC-TCC-TTCCTTTTCTCCTTTA
4812614 TTCTTTCTC-TCATTCTCCTTCCTTTCCTTTCTCCTTTA
1 TTCTTTCTCTTC-TTCTCCTTCC--T--TTTCTCCTTTA
4812652 TTCTTTCTCTTCTTCTCCTTCCTTT
1 TTCTTTCTCTTCTTCTCCTTCCTTT
4812677 CATTTCTCCT
Statistics
Matches: 81, Mismatches: 6, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
30 4 0.05
31 3 0.04
32 1 0.01
33 3 0.04
34 6 0.07
35 7 0.09
36 9 0.11
37 12 0.15
38 34 0.42
39 2 0.02
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (34 bp):
TTCTTTCTCTTCTTCTCCTTCCTTTTCTCCTTTA
Found at i:4812654 original size:38 final size:37
Alignment explanation
Indices: 4812562--4812697 Score: 195
Period size: 38 Copynumber: 3.6 Consensus size: 37
4812552 CTCTCTTTTC
*
4812562 TTCCTTTCTTCTTT-TT-TTTCTCTCCTTCTCCTTCCT
1 TTCCTTTCTCCTTTATTCTTTCTCT-CTTCTCCTTCCT
4812598 TTCCTTTTCTCCTTTATTCTTTCTCTCATTCTCCTTCCT
1 TTCC-TTTCTCCTTTATTCTTTCTCTC-TTCTCCTTCCT
4812637 TTCCTTTCTCCTTTATTCTTTCTCTTCTTCTCCTTCCT
1 TTCCTTTCTCCTTTATTCTTTCTC-TCTTCTCCTTCCT
* *
4812675 TTCATTTCTCCTTTCTTCTTTCT
1 TTCCTTTCTCCTTTATTCTTTCT
4812698 TTTTCTTTCT
Statistics
Matches: 92, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.04
37 9 0.10
38 55 0.60
39 24 0.26
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.62
Consensus pattern (37 bp):
TTCCTTTCTCCTTTATTCTTTCTCTCTTCTCCTTCCT
Found at i:4812657 original size:19 final size:18
Alignment explanation
Indices: 4812548--4812696 Score: 64
Period size: 19 Copynumber: 8.0 Consensus size: 18
4812538 AATCGACCTT
4812548 CTTTCT-CTCTTTTC-TTC
1 CTTTCTCCT-TTTTCTTTC
*
4812565 CTTTCTTCTTTTT-TTTC
1 CTTTCTCCTTTTTCTTTC
*
4812582 TCTCCTTCTCC--TTCCTTTC
1 -CT--TTCTCCTTTTTCTTTC
4812601 CTTTTCTCCTTTATTCTTTC
1 C-TTTCTCCTTT-TTCTTTC
*
4812621 TCTCATTCTCC--TTCCTTTC
1 -CT--TTCTCCTTTTTCTTTC
4812640 CTTTCTCCTTTATTCTTTC
1 CTTTCTCCTTT-TTCTTTC
*
4812659 TCTTCTTCTCC--TTCCTTTC
1 -C-T-TTCTCCTTTTTCTTTC
*
4812678 ATTTCTCCTTTCTTCTTTC
1 CTTTCTCCTTT-TTCTTTC
4812697 TTTTTCTTTC
Statistics
Matches: 102, Mismatches: 8, Indels: 42
0.67 0.05 0.28
Matches are distributed among these distances:
16 12 0.12
17 20 0.20
18 11 0.11
19 30 0.29
20 15 0.15
21 2 0.02
22 12 0.12
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.62
Consensus pattern (18 bp):
CTTTCTCCTTTTTCTTTC
Found at i:4814442 original size:71 final size:72
Alignment explanation
Indices: 4814351--4814506 Score: 244
Period size: 71 Copynumber: 2.2 Consensus size: 72
4814341 CTCTACACCG
*
4814351 TAAGTATCAATACCTATAAGTCAA-ATATCAATACTTTGAACACAAAATGTTTTCGCAAGGCATT
1 TAAGTATCAATACCTATAAGT-AAGATATCAATACTTTGAACACAAAATGTTTTCCCAAGGCATT
4814415 CTAAAAAC
65 CTAAAAAC
* *
4814423 TAAGTAT-GATACCTATAAGTAAGATATCGATACTTTGAACACAAAATGTTTTCCCAAGGCATTC
1 TAAGTATCAATACCTATAAGTAAGATATCAATACTTTGAACACAAAATGTTTTCCCAAGGCATTC
*
4814487 TAAACAC
66 TAAAAAC
*
4814494 TAAGTATTAATAC
1 TAAGTATCAATAC
4814507 TTCCTTTTGA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
70 2 0.03
71 64 0.83
72 11 0.14
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (72 bp):
TAAGTATCAATACCTATAAGTAAGATATCAATACTTTGAACACAAAATGTTTTCCCAAGGCATTC
TAAAAAC
Found at i:4814548 original size:71 final size:71
Alignment explanation
Indices: 4814473--4814611 Score: 174
Period size: 71 Copynumber: 2.0 Consensus size: 71
4814463 ACAAAATGTT
* *
4814473 TTCCCAAGGCATTCTAAACACTAAGTATTAATA-CTTCCTTTTGAGGTACCAATACTTTT-CACA
1 TTCCCAAGACATTCTAAACACTAAGTATTAATACCTTCCTCTTG-GGTACCAATACTTTTGCA-A
4814536 CAGAATTG
64 CAGAATTG
*** * * *
4814544 TTCCCAAGACATTCTGGTCACTAAGTATTGATACCTTTCTCTTGGGTATCAATACTTTTGCAACA
1 TTCCCAAGACATTCTAAACACTAAGTATTAATACCTTCCTCTTGGGTACCAATACTTTTGCAACA
4814609 GAA
66 GAA
4814612 CACATTTTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
71 48 0.83
72 10 0.17
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (71 bp):
TTCCCAAGACATTCTAAACACTAAGTATTAATACCTTCCTCTTGGGTACCAATACTTTTGCAACA
GAATTG
Found at i:4815528 original size:20 final size:20
Alignment explanation
Indices: 4815503--4815548 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
4815493 TTAACATGGC
4815503 GTTGACCA-ATCTTACTTAAT
1 GTTGACCATAT-TTACTTAAT
*
4815523 GTTGACCATATTTACTTGAT
1 GTTGACCATATTTACTTAAT
4815543 GTTGAC
1 GTTGAC
4815549 TGAGGTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (20 bp):
GTTGACCATATTTACTTAAT
Found at i:4826744 original size:48 final size:48
Alignment explanation
Indices: 4826673--4826779 Score: 196
Period size: 48 Copynumber: 2.2 Consensus size: 48
4826663 TTCACAGCAT
4826673 AGTGCAGAATGCAGGTGAATCATCCAATGTGAGTGCATTTGCTGGTAC
1 AGTGCAGAATGCAGGTGAATCATCCAATGTGAGTGCATTTGCTGGTAC
* *
4826721 AGTGCAGAATGCAGGTGAATCATCTAATGTGAGTGCATTTGCTGGTCC
1 AGTGCAGAATGCAGGTGAATCATCCAATGTGAGTGCATTTGCTGGTAC
4826769 AGTGCAGAATG
1 AGTGCAGAATG
4826780 TAGACAGTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (48 bp):
AGTGCAGAATGCAGGTGAATCATCCAATGTGAGTGCATTTGCTGGTAC
Found at i:4827052 original size:75 final size:73
Alignment explanation
Indices: 4826950--4827156 Score: 238
Period size: 72 Copynumber: 2.8 Consensus size: 73
4826940 TATTGATCCA
* *
4826950 TTTCATGGTCTTTCTGGTGTATCTCCAAACATAGTGCATATTAGCAGCCAATCTGGACTGCCTCC
1 TTTCATGGTCTTTCTGGTGAATCTCC-AA-ATAGTGCATAGTAGCAGCCAATCTGGACTGCCTCC
4827015 TAATCAAAGC
64 TAATCAAAGC
* * * * * *
4827025 TTTCTTGGTCTTCCTGGTGGATCTCC-AATAGTGCATGGTAGTAGCCAATTTGGACTGCCTCCTA
1 TTTCATGGTCTTTCTGGTGAATCTCCAAATAGTGCATAGTAGCAGCCAATCTGGACTGCCTCCTA
* * *
4827089 ATGAAGGG
66 ATCAAAGC
* * * * *
4827097 TTTCATAGTCTTTGTTGTGAATC-ACAAATAGTGCATAGTAGCAGGCAATCTGGACTGCCT
1 TTTCATGGTCTTTCTGGTGAATCTCCAAATAGTGCATAGTAGCAGCCAATCTGGACTGCCT
4827157 GTTCAAGCAC
Statistics
Matches: 110, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
71 1 0.01
72 85 0.77
73 1 0.01
75 23 0.21
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (73 bp):
TTTCATGGTCTTTCTGGTGAATCTCCAAATAGTGCATAGTAGCAGCCAATCTGGACTGCCTCCTA
ATCAAAGC
Found at i:4834921 original size:19 final size:20
Alignment explanation
Indices: 4834897--4834935 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
4834887 AATATTTTAA
*
4834897 AAAAAATTTAAATTA-TTTT
1 AAAAAATGTAAATTAGTTTT
4834916 AAAAAATGTAAATTAGTTTT
1 AAAAAATGTAAATTAGTTTT
4834936 TAGTTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAAAATGTAAATTAGTTTT
Found at i:4835297 original size:19 final size:20
Alignment explanation
Indices: 4835264--4835312 Score: 91
Period size: 19 Copynumber: 2.5 Consensus size: 20
4835254 CAACGTTTGT
4835264 TCAAATTTTTAAAAAAAAAA
1 TCAAATTTTTAAAAAAAAAA
4835284 TCAAATTTTT-AAAAAAAAA
1 TCAAATTTTTAAAAAAAAAA
4835303 TCAAATTTTT
1 TCAAATTTTT
4835313 TGAAGTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
TCAAATTTTTAAAAAAAAAA
Found at i:4839038 original size:20 final size:19
Alignment explanation
Indices: 4839000--4839038 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4838990 GAAAAAAAAA
*
4839000 ATTCATTTGTAGTTTGTTT
1 ATTCATTTGTAGGTTGTTT
*
4839019 ATTCTTTTGTAGAGTTGTTT
1 ATTCATTTGTAG-GTTGTTT
4839039 GAAAAGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.15, C:0.05, G:0.18, T:0.62
Consensus pattern (19 bp):
ATTCATTTGTAGGTTGTTT
Found at i:4839379 original size:13 final size:13
Alignment explanation
Indices: 4839361--4839385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4839351 GAGTATGCCT
4839361 GTGTGATATACTC
1 GTGTGATATACTC
4839374 GTGTGATATACT
1 GTGTGATATACT
4839386 TAAATTAATG
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:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGATATACTC
Found at i:4851745 original size:17 final size:17
Alignment explanation
Indices: 4851702--4851746 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 17
4851692 TTCGTTTTTG
*
4851702 TGATTTTATAAGTAAAA
1 TGATTTTATAAATAAAA
*
4851719 TG-TGTT-TAAATAAAA
1 TGATTTTATAAATAAAA
4851734 TGATTTTATAAAT
1 TGATTTTATAAAT
4851747 TGTCTTGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 10 0.43
16 6 0.26
17 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (17 bp):
TGATTTTATAAATAAAA
Found at i:4858335 original size:28 final size:29
Alignment explanation
Indices: 4858302--4858370 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
4858292 AAAATATTTC
*
4858302 TTTTGTTACACGTAC-TGTA-TAATTTCTA
1 TTTTGTTACACGTACTTG-ACTAATTTATA
*
4858330 TTTTGTTACATG-ACTTGACTAATTTATA
1 TTTTGTTACACGTACTTGACTAATTTATA
4858358 TTTTGTTACACGT
1 TTTTGTTACACGT
4858371 CATACCTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.09
28 32 0.91
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTTGTTACACGTACTTGACTAATTTATA
Found at i:4858691 original size:28 final size:27
Alignment explanation
Indices: 4858651--4858804 Score: 146
Period size: 28 Copynumber: 5.5 Consensus size: 27
4858641 AACATATTTC
* * *
4858651 TTTTGTTAAATGCTTTGTATAATCTCTA
1 TTTTGTTACATGCCTT-TATAATTTCTA
* *
4858679 TTTTGTTACATGCACTTTACAATTTCTG
1 TTTTGTTACATGC-CTTTATAATTTCTA
*
4858707 TTTTGTTACATGCCCTATATAATTTCTA
1 TTTTGTTACATG-CCTTTATAATTTCTA
* * *
4858735 TTTTGTTACATGCCCTAAGTAACTTCTA
1 TTTTGTTACATGCCTTTA-TAATTTCTA
* * *
4858763 TTTTCTTACACGCCTTGACTAATTTCTA
1 TTTTGTTACATGCCTTTA-TAATTTCTA
*
4858791 TTTTCTTACATGCC
1 TTTTGTTACATGCC
4858805 ATAACTTTAA
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
27 3 0.03
28 98 0.94
29 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (27 bp):
TTTTGTTACATGCCTTTATAATTTCTA
Found at i:4863437 original size:31 final size:34
Alignment explanation
Indices: 4863399--4863481 Score: 91
Period size: 36 Copynumber: 2.5 Consensus size: 34
4863389 AAGTTTGATG
4863399 AATATTAATATTTAA-CTT-AAAATATTAA-AAA
1 AATATTAATATTTAATCTTAAAAATATTAACAAA
* * * *
4863430 AATATTAATACTTAATTTTAAAAAATTTTAACTTAA
1 AATATTAATATTTAATCTT-AAAAATATTAAC-AAA
4863466 AATATTAATATTTAAT
1 AATATTAATATTTAAT
4863482 TATTCAATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
31 14 0.33
32 2 0.05
34 9 0.21
36 17 0.40
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (34 bp):
AATATTAATATTTAATCTTAAAAATATTAACAAA
Found at i:4863473 original size:23 final size:24
Alignment explanation
Indices: 4863405--4863473 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 24
4863395 GATGAATATT
4863405 AATATTTAACTTAAAATATTAAAAA
1 AATATTTAACTTAAAATATT-AAAA
* *
4863430 AATATTAATACTT--AATTTTAAAA
1 AATATTTA-ACTTAAAATATTAAAA
4863453 AAT-TTTAACTTAAAATATTAA
1 AATATTTAACTTAAAATATTAA
4863474 TATTTAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 14 0.38
24 5 0.14
25 7 0.19
26 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
AATATTTAACTTAAAATATTAAAA
Found at i:4864387 original size:86 final size:86
Alignment explanation
Indices: 4864242--4864399 Score: 280
Period size: 86 Copynumber: 1.8 Consensus size: 86
4864232 AATAATTGAA
* * *
4864242 ATGTAACAACAATTATAAAATAATTAGTCTGTATAAAAGTAGGATAATGTATTTTTCCATCTGAA
1 ATGTAACAACAATTATAAAATAATTAGTCTATATAAAAGTAGAATAATGTATTTTTCCATATGAA
4864307 AAAATTATACAATTTGTGCAG
66 AAAATTATACAATTTGTGCAG
*
4864328 ATGTAACACCAATTATAAAATAATTAGTCTATATAAAAGTAGAATAATGTATTTTTCCATATGAA
1 ATGTAACAACAATTATAAAATAATTAGTCTATATAAAAGTAGAATAATGTATTTTTCCATATGAA
4864393 AAAATTA
66 AAAATTA
4864400 CACATAATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (86 bp):
ATGTAACAACAATTATAAAATAATTAGTCTATATAAAAGTAGAATAATGTATTTTTCCATATGAA
AAAATTATACAATTTGTGCAG
Found at i:4866793 original size:2 final size:2
Alignment explanation
Indices: 4866782--4866823 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4866772 CTCTCTCTCT
*
4866782 CA CA CC CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4866824 GCAGACTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4868092 original size:56 final size:56
Alignment explanation
Indices: 4868003--4868114 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
4867993 AGATCAACTA
*
4868003 GTTGGAGAAAGTGGTTATGAAAACTTACTACACTGTCATGTAGCAAACCACTTTAG
1 GTTGGAGAAAGTGGTTATGAAAACTTACGACACTGTCATGTAGCAAACCACTTTAG
4868059 GTTGGAGAAAGTGGTTATGAAAACTTACGACACTGTCATGTAGCAAACCACTTTAG
1 GTTGGAGAAAGTGGTTATGAAAACTTACGACACTGTCATGTAGCAAACCACTTTAG
4868115 ATTGATCTTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (56 bp):
GTTGGAGAAAGTGGTTATGAAAACTTACGACACTGTCATGTAGCAAACCACTTTAG
Found at i:4879081 original size:26 final size:24
Alignment explanation
Indices: 4879042--4879090 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4879032 CTATTTCAGT
*
4879042 TTTCAGAATATTGGAGCTACTCTCAC
1 TTTCAAAATATT-G-GCTACTCTCAC
*
4879068 TTTCAAAATTTTGGCTACTCTCA
1 TTTCAAAATATTGGCTACTCTCA
4879091 AAGCTTTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (24 bp):
TTTCAAAATATTGGCTACTCTCAC
Found at i:4879481 original size:15 final size:15
Alignment explanation
Indices: 4879461--4879507 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
4879451 TAAAACAACC
4879461 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
4879476 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
* *
4879491 TTAAAACCAAAATCT
1 TTAAAATCAAAAACT
4879506 TT
1 TT
4879508 GATCTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.30
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:4880530 original size:20 final size:20
Alignment explanation
Indices: 4880505--4880550 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
4880495 TTTTGACCCC
4880505 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
4880525 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
4880545 ATTTGA
1 ATTTGA
4880551 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:4892871 original size:28 final size:27
Alignment explanation
Indices: 4892832--4892884 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
4892822 ATGTCCTGGT
*
4892832 GGTGGAAAATTACAATTTTGCCCTTGG
1 GGTGGAAAATTACAATTTTACCCTTGG
*
4892859 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
4892885 TTACTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTGG
Found at i:4892954 original size:20 final size:20
Alignment explanation
Indices: 4892929--4892974 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4892919 ATTCTAAACC
*
4892929 TCAAATCCTACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
4892949 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
4892969 TCAAAT
1 TCAAAT
4892975 GGGGCTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:4895296 original size:6 final size:6
Alignment explanation
Indices: 4895285--4895315 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4895275 ACATGAGCTT
4895285 GACCAA GACCAA GACCAA GACCAA GACCAA G
1 GACCAA GACCAA GACCAA GACCAA GACCAA G
4895316 TGGTGAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.32, G:0.19, T:0.00
Consensus pattern (6 bp):
GACCAA
Found at i:4899113 original size:20 final size:20
Alignment explanation
Indices: 4899088--4899133 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4899078 CTTCTAAACC
*
4899088 TCAAATCATACTCCACTAAG
1 TCAAATCATACTCCAATAAG
*
4899108 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
4899128 TCAAAT
1 TCAAAT
4899134 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:4901715 original size:20 final size:20
Alignment explanation
Indices: 4901679--4901716 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4901669 GTTCTGGACC
*
4901679 AAATGTATCGATACATTTTG
1 AAATGTATCCATACATTTTG
*
4901699 AAATGTATCCATGCATTT
1 AAATGTATCCATACATTT
4901717 CAGGTAGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
AAATGTATCCATACATTTTG
Found at i:4901890 original size:22 final size:20
Alignment explanation
Indices: 4901859--4901936 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 20
4901849 TGCAAGGGAG
*
4901859 GTTTAAAACTAATTTAAACAA
1 GTTTAAAACT-ATTCAAACAA
4901880 GTTTATAAACTATTCAAACAA
1 GTTTA-AAACTATTCAAACAA
* * *
4901901 GTTCAAAAATCATTCAAGCAA
1 GTTTAAAACT-ATTCAAACAA
4901922 -TTTCAAAACTCATTC
1 GTTT-AAAACT-ATTC
4901937 CTGTAGTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.12
21 37 0.77
22 5 0.10
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (20 bp):
GTTTAAAACTATTCAAACAA
Found at i:4902016 original size:21 final size:22
Alignment explanation
Indices: 4901992--4902064 Score: 105
Period size: 21 Copynumber: 3.4 Consensus size: 22
4901982 AAACCTAATT
4901992 AAACAAGTTTAAAAACT-ATTC
1 AAACAAGTTTAAAAACTCATTC
*
4902013 AAACAAGTTCAAAAACTCATTC
1 AAACAAGTTTAAAAACTCATTC
* *
4902035 AAACAACTTTGAAAA-TCATTC
1 AAACAAGTTTAAAAACTCATTC
4902056 AAACAAGTT
1 AAACAAGTT
4902065 CAAAGATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 30 0.65
22 16 0.35
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.26
Consensus pattern (22 bp):
AAACAAGTTTAAAAACTCATTC
Found at i:4902039 original size:43 final size:42
Alignment explanation
Indices: 4901979--4902068 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
4901969 GTTAGGATCC
* *
4901979 TCAAAACCTAATTAAACAAGTTTAAAAA-CTATTCAAACAAGT
1 TCAAAAACTAATTAAACAACTTTAAAAATC-ATTCAAACAAGT
* *
4902021 TCAAAAACTCATTCAAACAACTTTGAAAATCATTCAAACAAGT
1 TCAAAAACTAATT-AAACAACTTTAAAAATCATTCAAACAAGT
4902064 TCAAA
1 TCAAA
4902069 GATTATTCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 11 0.26
43 30 0.71
44 1 0.02
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.26
Consensus pattern (42 bp):
TCAAAAACTAATTAAACAACTTTAAAAATCATTCAAACAAGT
Found at i:4902076 original size:21 final size:21
Alignment explanation
Indices: 4901992--4902077 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 21
4901982 AAACCTAATT
*
4901992 AAACAAGTTTAAAAA-CTATTC
1 AAACAAGTTCAAAAATC-ATTC
4902013 AAACAAGTTCAAAAACTCATTC
1 AAACAAGTTCAAAAA-TCATTC
* **
4902035 AAACAACTTTGAAAATCATTC
1 AAACAAGTTCAAAAATCATTC
* *
4902056 AAACAAGTTCAAAGATTATTC
1 AAACAAGTTCAAAAATCATTC
4902077 A
1 A
4902078 TGTAATTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 37 0.69
22 16 0.30
23 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (21 bp):
AAACAAGTTCAAAAATCATTC
Found at i:4902124 original size:140 final size:139
Alignment explanation
Indices: 4901859--4902112 Score: 314
Period size: 140 Copynumber: 1.8 Consensus size: 139
4901849 TGCAAGGGAG
* * * * * *
4901859 GTTTAAAACTAATTTAAACAAGTTTATAAACTATTCAAACAAGTTCAAAAATCATTCAAGCAATT
1 GTTTAAAACTAATTCAAACAAGTTCAAAAACTATTCAAACAACTTCAAAAATCATTCAAACAAGT
* * * * *
4901924 TCAAAACTCATTCCTGTAGTTTTTAAAACTTTTCACATGGAAACAGTTAGGATCCTCAAAACCTA
66 TCAAAACTCATTCATGTAATTTTGAAAACTTTTCACATGGAAACACTTAGCATCCTCAAAACCTA
4901989 ATTAAACAA
131 ATTAAACAA
**
4901998 GTTTAAAAACT-ATTCAAACAAGTTCAAAAACTCATTCAAACAACTTTGAAAATCATTCAAACAA
1 GTTT-AAAACTAATTCAAACAAGTTCAAAAACT-ATTCAAACAACTTCAAAAATCATTCAAACAA
* ** *
4902062 GTTCAAAGA-TTATTCATGTAATTTTGATCATTTTTCACATGGAAACACTTA
64 GTTCAAA-ACTCATTCATGTAATTTTGAAAACTTTTCACATGGAAACACTTA
4902113 TGCACTTCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
139 22 0.23
140 73 0.76
141 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (139 bp):
GTTTAAAACTAATTCAAACAAGTTCAAAAACTATTCAAACAACTTCAAAAATCATTCAAACAAGT
TCAAAACTCATTCATGTAATTTTGAAAACTTTTCACATGGAAACACTTAGCATCCTCAAAACCTA
ATTAAACAA
Found at i:4902208 original size:21 final size:21
Alignment explanation
Indices: 4902184--4902237 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
4902174 TCAAACAACT
4902184 TCAAAAATCATTCCAACAAGA
1 TCAAAAATCATTCCAACAAGA
* * ** *
4902205 TCAAGAATCACTGGAACAAGT
1 TCAAAAATCATTCCAACAAGA
*
4902226 TCAAAGATCATT
1 TCAAAAATCATT
4902238 GAAGCAATTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.22
Consensus pattern (21 bp):
TCAAAAATCATTCCAACAAGA
Found at i:4905377 original size:19 final size:19
Alignment explanation
Indices: 4905353--4905451 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
4905343 TGCCCGTGTG
4905353 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
4905372 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
* * *
4905391 CACGATGTAGAGGGATGCA
1 CACGATGTGGGGGGATGTA
* ** *
4905410 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
4905431 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
4905450 CA
1 CA
4905452 TGAGCCGGGT
Statistics
Matches: 54, Mismatches: 22, Indels: 8
0.64 0.26 0.10
Matches are distributed among these distances:
18 3 0.06
19 33 0.61
20 8 0.15
21 10 0.19
ACGTcount: A:0.22, C:0.17, G:0.39, T:0.21
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:4905391 original size:38 final size:40
Alignment explanation
Indices: 4905349--4905451 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 40
4905339 ATAGTGCCCG
*
4905349 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* * * *
4905387 TGTGCACGATGTAGAGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
4905427 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
4905452 TGAGCCGGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 26 0.48
39 4 0.07
40 24 0.44
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:4909077 original size:14 final size:14
Alignment explanation
Indices: 4909058--4909091 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
4909048 GGGGAGAAGT
4909058 AAGAAAGAATTTTG
1 AAGAAAGAATTTTG
4909072 AAGAAAGAATTTTG
1 AAGAAAGAATTTTG
4909086 AAGAAA
1 AAGAAA
4909092 AACGACGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (14 bp):
AAGAAAGAATTTTG
Found at i:4911802 original size:60 final size:60
Alignment explanation
Indices: 4911727--4912478 Score: 908
Period size: 60 Copynumber: 12.5 Consensus size: 60
4911717 CGACATCATC
* * * * * **
4911727 ACCTACTCGTGGGAACTGCCCATGCCACCA-A-ATGAATCAAGGCTTCAAGTCTCTCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTC-C-CCCTTT
* * ** *
4911787 ACTTACTCGTGGGAACTACCCATGCCACCA-A-ATAAATCAGGGCTTCACATCCCTCTTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCC-C-CTTT
* *
4911847 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAAGGCTTTAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCCCCTTT
* * * * * * *
4911907 ACCTATTCTTGGGAACTACCCACACCACCATACATAAATCGGGGCTTCAAGTTCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCCCCTTT
* * * *
4911967 ACCTACTCGTGGGAACTACCAATGCCACCATATATAAAT-AGAGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAG-GGCTTCAGGTCCCCCTTT
* *
4912027 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCATGTCCCCTTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCCCCTTT
* * *
4912087 ACCTACTTGTGGGAACTACCCACGCCACCATATATAAATC-GAGGCTTCAGGTCCACCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAG-GGCTTCAGGTCCCCCTTT
* * * * * **
4912147 ACCTACTTGTGGGAACTACCTACGCCACCAAATATGAATTGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCCCCTTT
* * * *
4912207 ACTTACTCGTGGGAACTACCCACACCACCATATATAAATCAGGGCTTTAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCCCCTTT
* * *
4912267 ACCTACTCGTGGGAACTACCCACACCACCATACATAAATC-GAGGCTTCATGTCCTCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAG-GGCTTCAGGTCCCCCTTT
* * *
4912327 ACCTACTCGTGGGAACTACCCATGCCACCATACATAAATCACGGATTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCCCCTTT
* * * *
4912387 ACCTACTCATGGGAACTACCCACGCCACCCA-ATATGAATCGGGGCTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGAACTACCCACGCCA-CCATACATAAATCAGGGCTTCAGGTCCCCCTTT
*
4912447 ACCTACTCGTGGGAACTACCCATGCCACCATA
1 ACCTACTCGTGGGAACTACCCACGCCACCATA
4912479 NNNNNNNNNN
Statistics
Matches: 604, Mismatches: 76, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
58 1 0.00
59 7 0.01
60 570 0.94
61 8 0.01
62 18 0.03
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (60 bp):
ACCTACTCGTGGGAACTACCCACGCCACCATACATAAATCAGGGCTTCAGGTCCCCCTTT
Found at i:4913725 original size:2 final size:2
Alignment explanation
Indices: 4913718--4913749 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4913708 NNNNNNNNNN
4913718 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4913750 AATGTAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4916952 original size:11 final size:11
Alignment explanation
Indices: 4916938--4916971 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
4916928 AAGCCATTGT
4916938 AAAGCTTGGTG
1 AAAGCTTGGTG
4916949 AAAGCTTGGTG
1 AAAGCTTGGTG
4916960 AAAGCTT-GTG
1 AAAGCTTGGTG
4916970 AA
1 AA
4916972 TTTCACCAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.26
Consensus pattern (11 bp):
AAAGCTTGGTG
Found at i:4940334 original size:20 final size:20
Alignment explanation
Indices: 4940309--4940346 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4940299 TTTTGTTAAA
*
4940309 AATGTATTAATACATTTGTT
1 AATGTATCAATACATTTGTT
*
4940329 AATGTATCAATACTTTTG
1 AATGTATCAATACATTTG
4940347 ATGCAATGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (20 bp):
AATGTATCAATACATTTGTT
Found at i:4940978 original size:52 final size:52
Alignment explanation
Indices: 4940911--4941050 Score: 158
Period size: 52 Copynumber: 2.7 Consensus size: 52
4940901 ATTGCCTTTG
* * * *
4940911 GAAAAATATTTTACCTTGATTTGTTGTTTGTGCTTTGCTTGCATTT-AGCTTTC
1 GAAAAATATTTTACCTTGATTTATTATTTGTGCTTTGCTTACATTTGA-C-TTA
* * * * *
4940964 G-AAAATACTTTACCTTAATTCATTATTTATGCTTTGCTTACCTTTGACTTA
1 GAAAAATATTTTACCTTGATTTATTATTTGTGCTTTGCTTACATTTGACTTA
*
4941015 GAAAAATATTTTACCTTGATTTATTATTTGTTCTTT
1 GAAAAATATTTTACCTTGATTTATTATTTGTGCTTT
4941051 TCAATTTATT
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
51 3 0.04
52 66 0.93
53 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.11, T:0.51
Consensus pattern (52 bp):
GAAAAATATTTTACCTTGATTTATTATTTGTGCTTTGCTTACATTTGACTTA
Found at i:4943864 original size:29 final size:29
Alignment explanation
Indices: 4943835--4943891 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
4943825 AAGGACTTAT
4943835 TTTA-TCAAAATAAAAATATAAAGGTTTA
1 TTTAGTCAAAATAAAAATATAAAGGTTTA
* * *
4943863 TTTAGTTTAAAATAAAAGTATAATGGTTT
1 TTTAG-TCAAAATAAAAATATAAAGGTTT
4943892 TATTGAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
30 20 0.83
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (29 bp):
TTTAGTCAAAATAAAAATATAAAGGTTTA
Found at i:4949257 original size:48 final size:49
Alignment explanation
Indices: 4949185--4949285 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 49
4949175 TCAACGATTC
4949185 AATATATGAAGGGATGAATGGAAAAATTAACAACAGCACTTGAAAAGAA
1 AATATATGAAGGGATGAATGGAAAAATTAACAACAGCACTTGAAAAGAA
*
4949234 AATAT-TGAAGGGATGAATGGAAAAATTAATAACAGCACTTGAAAAGAA
1 AATATATGAAGGGATGAATGGAAAAATTAACAACAGCACTTGAAAAGAA
4949282 AATA
1 AATA
4949286 ACTTACTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 46 0.90
49 5 0.10
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (49 bp):
AATATATGAAGGGATGAATGGAAAAATTAACAACAGCACTTGAAAAGAA
Found at i:4949596 original size:18 final size:19
Alignment explanation
Indices: 4949554--4949596 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4949544 CTCTTATATT
* *
4949554 AAATTTTCTATATTGCGTA
1 AAATCTTCTATATTGCATA
4949573 AAATCTTCTAT-TTGCATA
1 AAATCTTCTATATTGCATA
*
4949591 ACATCT
1 AAATCT
4949597 ATAATATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (19 bp):
AAATCTTCTATATTGCATA
Found at i:4953658 original size:52 final size:51
Alignment explanation
Indices: 4953611--4953708 Score: 126
Period size: 52 Copynumber: 1.9 Consensus size: 51
4953601 GCAAAGACCA
*
4953611 AATAATAAACAAAGGTAAAATATTTTCCTAAGT-CAAGTGCAAGCAAAGCATG
1 AATAATAAACAAAGGTAAAATATTTTCCTAA-TCCAAATGCAAGCAAAGCA-G
* ** *
4953663 AATAATGAATTAAGGTAAAATATTTTCTTAATCCAAATGCAAGCAA
1 AATAATAAACAAAGGTAAAATATTTTCCTAATCCAAATGCAAGCAA
4953709 TAATAAATCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 1 0.03
52 39 0.98
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (51 bp):
AATAATAAACAAAGGTAAAATATTTTCCTAATCCAAATGCAAGCAAAGCAG
Found at i:4964642 original size:36 final size:36
Alignment explanation
Indices: 4964538--4964643 Score: 99
Period size: 36 Copynumber: 2.9 Consensus size: 36
4964528 AATCCATTAT
* * * *
4964538 CAACTTGCCTTTTCAACAAGGTCA-AATGTAACCTTTA
1 CAACATGCCTTTTC-ACAAGATCAGGA-GTAACCTTCA
* * * *
4964575 CAACATGCCTTTTAATAGGATTAGGCA-TAACCTTCA
1 CAACATGCCTTTTCACAAGATCAGG-AGTAACCTTCA
4964611 CAACATGCCTTTTCACAAGATCAGGAGTAACCT
1 CAACATGCCTTTTCACAAGATCAGGAGTAACCT
4964644 CAACCAAGAC
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
35 1 0.02
36 40 0.74
37 12 0.22
38 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (36 bp):
CAACATGCCTTTTCACAAGATCAGGAGTAACCTTCA
Found at i:4975836 original size:23 final size:22
Alignment explanation
Indices: 4975783--4975836 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
4975773 AAGAGAAGAA
*
4975783 GGAAGAAGAAGAAGAAGCTAGT
1 GGAAGATGAAGAAGAAGCTAGT
* *
4975805 AGAAAATGAGAGAAGAAGCT-GCT
1 GGAAGATGA-AGAAGAAGCTAG-T
4975828 GGAAGATGA
1 GGAAGATGA
4975837 TATTTATAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.48, C:0.06, G:0.35, T:0.11
Consensus pattern (22 bp):
GGAAGATGAAGAAGAAGCTAGT
Found at i:4979611 original size:2 final size:2
Alignment explanation
Indices: 4979604--4979633 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4979594 TAGGATGCTG
4979604 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
4979634 GTTGTGTATC
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:4984908 original size:32 final size:33
Alignment explanation
Indices: 4984862--4984955 Score: 93
Period size: 32 Copynumber: 2.8 Consensus size: 33
4984852 TTTACAATTG
**
4984862 GTTTTTCCCGGGCTCAACCAAAACCCAA-AATA
1 GTTTTTCCAAGGCTCAACCAAAACCCAACAATA
* * *
4984894 GTTTTTCCAAGGCTCAACCATAACCTTCAACACTG
1 GTTTTTCCAAGGCTCAACCAAAACC--CAACAATA
*
4984929 GTTTTTCTCGA-GCTCAACCAAAACCCA
1 GTTTTTC-CAAGGCTCAACCAAAACCCA
4984956 CAACTAACTT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
32 22 0.43
33 2 0.04
34 3 0.06
35 22 0.43
36 2 0.04
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.26
Consensus pattern (33 bp):
GTTTTTCCAAGGCTCAACCAAAACCCAACAATA
Found at i:4989713 original size:27 final size:27
Alignment explanation
Indices: 4989683--4989734 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
4989673 TTGCAATGCT
*
4989683 TGCTTCAAAATGACTTGGATGAATAAC
1 TGCTTCAAAATGACTTGGAAGAATAAC
* * *
4989710 TGCTTGAAATTGATTTGGAAGAATA
1 TGCTTCAAAATGACTTGGAAGAATA
4989735 CTCGCTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (27 bp):
TGCTTCAAAATGACTTGGAAGAATAAC
Found at i:4991267 original size:26 final size:26
Alignment explanation
Indices: 4991238--4991298 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
4991228 ACCATATACC
4991238 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
4991264 CATCATCATCATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
4991290 CATCATCAT
1 CATCATCAT
4991299 TCCCAACTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.31, C:0.41, G:0.03, T:0.25
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:4991356 original size:43 final size:42
Alignment explanation
Indices: 4991308--4991460 Score: 216
Period size: 43 Copynumber: 3.6 Consensus size: 42
4991298 TTCCCAACTC
** *
4991308 ATGCGCACTCCCTACTCGCACATGGCTAGGTCATCACCGGGTT
1 ATGCGCACTCCCTACTCGCACATAAC-AGGTCATCATCGGGTT
*
4991351 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCATCGGGTT
1 ATGCGCACTCCCTACTCGCACATAA-CAGGTCATCATCGGGTT
* * *
4991394 ATGCGTACTCCCTACTCGCACATAACCGGATCATCATCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACAGG-TCATCATCGGGTT
4991437 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
4991461 GCTGAGTCAA
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
42 3 0.03
43 96 0.96
44 1 0.01
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.24
Consensus pattern (42 bp):
ATGCGCACTCCCTACTCGCACATAACAGGTCATCATCGGGTT
Found at i:4993343 original size:31 final size:31
Alignment explanation
Indices: 4993304--4993372 Score: 131
Period size: 31 Copynumber: 2.3 Consensus size: 31
4993294 ACCAATTGAT
4993304 ATAA-TGAGGTTTAATATAATTCCATCTCTC
1 ATAATTGAGGTTTAATATAATTCCATCTCTC
4993334 ATAATTGAGGTTTAATATAATTCCATCTCTC
1 ATAATTGAGGTTTAATATAATTCCATCTCTC
4993365 ATAATTGA
1 ATAATTGA
4993373 TATCATGCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 34 0.89
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (31 bp):
ATAATTGAGGTTTAATATAATTCCATCTCTC
Found at i:4994844 original size:73 final size:73
Alignment explanation
Indices: 4994704--4994844 Score: 196
Period size: 73 Copynumber: 1.9 Consensus size: 73
4994694 GAGCATTGAG
** *
4994704 AGACAGAACCAACTTAGTCGACCAAGAAGTGGGTTAATCGACTAAGTAGCTACTGCCAAAAATCT
1 AGACAGAACCAACTTAGTCGACCAAGAAGTAAGTTAATCGACTAACTAGCTACTGCCAAAAATCT
4994769 GGACTTCA
66 GGACTTCA
* * *
4994777 AGACAGAACTAACTTAGTCGACCAAGAAAGTAAGTTAGTCGACTAACT-GCTCACTGCCAGAAA-
1 AGACAGAACCAACTTAGTCGACCAAG-AAGTAAGTTAATCGACTAACTAGCT-ACTGCCAAAAAT
4994840 CTGGA
64 CTGGA
4994845 AGCAGAAAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
73 33 0.55
74 27 0.45
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.20
Consensus pattern (73 bp):
AGACAGAACCAACTTAGTCGACCAAGAAGTAAGTTAATCGACTAACTAGCTACTGCCAAAAATCT
GGACTTCA
Found at i:4998699 original size:73 final size:72
Alignment explanation
Indices: 4998613--4998752 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 72
4998603 GTTTTTTGCT
* * ** *
4998613 TCTAGTTTCTGGCAGTGAGC-ACTTAGTCTACTAACTTACTTCTGGGTCGACTAAGTTGGTTTTG
1 TCTAGTTTCTGGCAG-GAGCTACTTAGACGACTAACCCACTTCTGGGTCGACTAAGTTGGTTCTG
4998677 TCTTGAAG
65 TCTTGAAG
* * *
4998685 TCTAGATTTTTGGCAGGAGCTACTTAGACGACTAACCCACTTCTTGGTTGACTAAGTTGGTTCTG
1 TCTAG-TTTCTGGCAGGAGCTACTTAGACGACTAACCCACTTCTGGGTCGACTAAGTTGGTTCTG
4998750 TCT
65 TCT
4998753 CTCAACGCTC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 9 0.16
73 49 0.84
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (72 bp):
TCTAGTTTCTGGCAGGAGCTACTTAGACGACTAACCCACTTCTGGGTCGACTAAGTTGGTTCTGT
CTTGAAG
Found at i:5009776 original size:19 final size:19
Alignment explanation
Indices: 5009725--5009777 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
5009715 TCCTTCTGTC
5009725 AATATAACTATT--AAAAA
1 AATATAACTATTAAAAAAA
* *
5009742 ATTAT-ACTTTTCAAAAAAA
1 AATATAACTATT-AAAAAAA
5009761 AATATAACTATTAAAAA
1 AATATAACTATTAAAAA
5009778 CCAACATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 5 0.18
17 4 0.14
19 14 0.50
20 5 0.18
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (19 bp):
AATATAACTATTAAAAAAA
Found at i:5010294 original size:2 final size:2
Alignment explanation
Indices: 5010287--5010338 Score: 65
Period size: 2 Copynumber: 27.5 Consensus size: 2
5010277 TTCTTTTTAA
*
5010287 AT AT AT AT AT -T AT A- AT AT -T AT AT AT AT TT 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
*
5010326 AA AT AT AT AT AT A
1 AT AT AT AT AT AT A
5010339 AAAAACTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5016311 original size:17 final size:18
Alignment explanation
Indices: 5016281--5016314 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5016271 GCTAAAATAC
5016281 TTATATATGATAATTTAG
1 TTATATATGATAATTTAG
*
5016299 TTAT-TATGTTAATTTA
1 TTATATATGATAATTTA
5016315 TATAAGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (18 bp):
TTATATATGATAATTTAG
Found at i:5016941 original size:25 final size:25
Alignment explanation
Indices: 5016894--5016942 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
5016884 CATGCCTACA
* *
5016894 TATAACAACTCTAATACACTTGACG
1 TATAACAAATCTAATAAACTTGACG
* *
5016919 TATAACAAATCTATTAAATTTGAC
1 TATAACAAATCTAATAAACTTGAC
5016943 ATAGTTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (25 bp):
TATAACAAATCTAATAAACTTGACG
Found at i:5017293 original size:28 final size:28
Alignment explanation
Indices: 5017261--5017320 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
5017251 ATTAAACACC
* *
5017261 TTAAACATGGCATATAATAACTTTTTTT
1 TTAAACATGACATATAACAACTTTTTTT
* *
5017289 TTAAACATGACATGTAACAATTTTTTTT
1 TTAAACATGACATATAACAACTTTTTTT
5017317 TTAA
1 TTAA
5017321 TATGACTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (28 bp):
TTAAACATGACATATAACAACTTTTTTT
Done.