Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 440 of 770
Found at i:135424356 original size:56 final size:55
Alignment explanation
Indices: 135424257--135424387 Score: 217
Period size: 56 Copynumber: 2.4 Consensus size: 55
135424247 TAGGATTCCG
* * *
135424257 ATATGTGTACGAGTAAAACCACTTTTATATGTTGGCATCGATATGTGACTTCGAT
1 ATATGTGTACGAGTAAGACCACTTTTACATGTTGGCATCGATATGTGACTCCGAT
135424312 ATATGTGTACGAGTAAGACCACGTTTTACATGTTGGCATCGATATGTGACTCCGAT
1 ATATGTGTACGAGTAAGACCAC-TTTTACATGTTGGCATCGATATGTGACTCCGAT
*
135424368 ATATGTGTGCGAGTAAGACC
1 ATATGTGTACGAGTAAGACC
135424388 CTATCTAGGA
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
55 21 0.30
56 50 0.70
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (55 bp):
ATATGTGTACGAGTAAGACCACTTTTACATGTTGGCATCGATATGTGACTCCGAT
Found at i:135442633 original size:40 final size:40
Alignment explanation
Indices: 135442577--135442794 Score: 228
Period size: 40 Copynumber: 5.5 Consensus size: 40
135442567 CATGAGCATT
* * *
135442577 TGAATGATACCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAAT-ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG
* *
135442618 TGAATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG
* * *
135442658 TGATTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG
*
135442698 TTG--TCATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 -TGAAT-ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG
** * * * *
135442738 AT-ACCAAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTG
1 -TGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG
*
135442778 TGATTATATCC-GGCTAA
1 TGAATATATCCGGGCTAA
135442795 ATTCTGAAGA
Statistics
Matches: 153, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
39 7 0.05
40 139 0.91
41 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG
Found at i:135446438 original size:19 final size:19
Alignment explanation
Indices: 135446414--135446451 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
135446404 CGGGACTTAA
135446414 CCCGGATATCACAACTCGC
1 CCCGGATATCACAACTCGC
135446433 CCCGGATATCACAACTCGC
1 CCCGGATATCACAACTCGC
135446452 ACAATTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.42, G:0.16, T:0.16
Consensus pattern (19 bp):
CCCGGATATCACAACTCGC
Found at i:135446487 original size:39 final size:39
Alignment explanation
Indices: 135446433--135446519 Score: 174
Period size: 39 Copynumber: 2.2 Consensus size: 39
135446423 CACAACTCGC
135446433 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
135446472 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
135446511 CCCGGATAT
1 CCCGGATAT
135446520 TACCCGAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAG
Found at i:135450169 original size:29 final size:29
Alignment explanation
Indices: 135450145--135450238 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
135450135 TCGCACACCC
*
135450145 AGTGCCGTATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
135450174 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
135450203 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
135450232 AGTGCCA
1 AGTGCCA
135450239 ATCTCGTCTC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:135450170 original size:58 final size:58
Alignment explanation
Indices: 135450108--135450238 Score: 174
Period size: 58 Copynumber: 2.3 Consensus size: 58
135450098 ATTTAAGCCC
* * * *
135450108 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
135450166 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
135450224 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
135450239 ATCTCGTCTC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 63 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:135458880 original size:40 final size:40
Alignment explanation
Indices: 135458821--135458989 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
135458811 CGGGACTTTA
* * *
135458821 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
135458861 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
135458901 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
135458941 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
135458981 CCCGGATAT
1 CCCGGATAT
135458990 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:135462757 original size:36 final size:39
Alignment explanation
Indices: 135462663--135462769 Score: 132
Period size: 40 Copynumber: 2.8 Consensus size: 39
135462653 ATAACCACGT
*
135462663 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGGCTT
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAC-GCTC
* *
135462703 GCACGAATGCCTTCGGGTCTTCGCCCGGAT-GTA-GC-C
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGCTC
*
135462739 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
135462770 TAATTTCCAG
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
35 2 0.03
36 25 0.42
37 2 0.03
39 2 0.03
40 29 0.48
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (39 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGCTC
Found at i:135467606 original size:40 final size:40
Alignment explanation
Indices: 135467444--135467592 Score: 273
Period size: 40 Copynumber: 3.7 Consensus size: 40
135467434 TATTCGGATG
135467444 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
135467484 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
135467524 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
135467564 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
135467593 AGCAAGTAGC
Statistics
Matches: 105, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
39 1 0.01
40 103 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:135467606 original size:80 final size:80
Alignment explanation
Indices: 135467444--135467625 Score: 271
Period size: 80 Copynumber: 2.3 Consensus size: 80
135467434 TATTCGGATG
*
135467444 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCGAAGGCA
* *
135467509 TTTGTGCGAGTTACT
66 TTTGAGCAAGTTACT
135467524 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAGTCCCGAAGGC
135467588 ATTTGAGCAAG-TAGCT
65 ATTTGAGCAAGTTA-CT
* * *
135467604 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
135467626 TACTTGGTTT
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
79 18 0.19
80 76 0.81
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGTCCCGAAGGCA
TTTGAGCAAGTTACT
Found at i:135472329 original size:446 final size:445
Alignment explanation
Indices: 135471457--135472350 Score: 1734
Period size: 446 Copynumber: 2.0 Consensus size: 445
135471447 ATGATATTTT
*
135471457 GGTCTATTCGAGAAATGAAACCGATCATGCTGAACACCTGGATTAGTGTTGCAAATTTTACGGGA
1 GGTCTATTCGAGAAATGAAACCGATCATGCTAAACACCTGGATTAGTGTTGCAAATTTTACGGGA
135471522 TAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGTC
66 TAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGTC
*
135471587 ATGTGGTATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAAG
131 ATGTGATATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAAG
135471652 CCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTGT
196 CCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTGT
*
135471717 AAAAGGTTTCTCGATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAAT
261 AAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAAT
135471782 GGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACTA
326 GGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACTA
135471847 GTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
391 GTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
135471902 GGTCTATTCGAGAAATGAAACCGATCATGCTAAACACCTGGGATTAGTGTTGCAAATTTTACGGG
1 GGTCTATTCGAGAAATGAAACCGATCATGCTAAACACCT-GGATTAGTGTTGCAAATTTTACGGG
135471967 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
65 ATAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGT
* *
135472032 CATGTGATATCTGCATTGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAA
130 CATGTGATATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAA
135472097 GCCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTG
195 GCCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTG
135472162 TAAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAA
260 TAAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAA
135472227 TGGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACT
325 TGGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACT
135472292 AGTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
390 AGTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
135472348 GGT
1 GGT
135472351 TGGGTTGTGT
Statistics
Matches: 443, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
445 38 0.09
446 405 0.91
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.29
Consensus pattern (445 bp):
GGTCTATTCGAGAAATGAAACCGATCATGCTAAACACCTGGATTAGTGTTGCAAATTTTACGGGA
TAAGCAGTTATATGCTAAGTTCAGTAAGTGTGAGTTCTGGTTAAGAGAGGTTAGCTTCTTGGGTC
ATGTGATATCCGCATCGGGTATTCGAGTTGATCCGAGCAAAATTTCAGCCATACTTAACTGGAAG
CCTCCGAGAAATATTACTGAGGTTCGGAGCTTTTTGGGACTTGCCGGTTACTACCGACGGTTTGT
AAAAGGTTTCTCAATGATAGCCACACCAATGACGAAACTACTTCAGAAAGATGTTAAGTTTGAAT
GGACAGAAAAGTGTCAGAAAAGTTTCGATCAATTGAAAACTCATTTGACGGAAGCTCCAGTACTA
GTGCAGCCCGAATCAGGTAAGGAGTTCGTCATTTACAGTGATGCATCCTTACTTG
Found at i:135476102 original size:40 final size:40
Alignment explanation
Indices: 135475900--135476088 Score: 360
Period size: 40 Copynumber: 4.7 Consensus size: 40
135475890 TATTCGGATG
135475900 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
135475940 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
135475980 ATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
135476020 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
135476060 ATAACCGGACTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
135476089 AGCAAGTAGC
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:135478532 original size:21 final size:21
Alignment explanation
Indices: 135478508--135478558 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
135478498 TTGCCCACGT
135478508 CCTCTCGAAAACTGTGGTCCA
1 CCTCTCGAAAACTGTGGTCCA
135478529 CCTCTCGAAAACTGTGGTCCA
1 CCTCTCGAAAACTGTGGTCCA
135478550 CCTCTCGAA
1 CCTCTCGAA
135478559 GTTACGCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (21 bp):
CCTCTCGAAAACTGTGGTCCA
Found at i:135480509 original size:27 final size:26
Alignment explanation
Indices: 135480461--135480520 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
135480451 GTGAGGTTGC
*
135480461 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
135480488 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
135480514 CAGATAT
1 CAGATAT
135480521 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:135486576 original size:30 final size:30
Alignment explanation
Indices: 135486542--135486610 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
135486532 TCCTCCAGTA
* *
135486542 GCCAAAGCTAGTTTAAACCGCACATTTAGT
1 GCCAAAGCTAATTTAAACCGCACACTTAGT
** *
135486572 GCCAAAATTAATTTAAATCGCACACTTAGT
1 GCCAAAGCTAATTTAAACCGCACACTTAGT
135486602 GCCAAAGCT
1 GCCAAAGCT
135486611 TCCGATTCAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (30 bp):
GCCAAAGCTAATTTAAACCGCACACTTAGT
Found at i:135492501 original size:12 final size:12
Alignment explanation
Indices: 135492486--135492529 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
135492476 GTGATTAGTT
135492486 GAGAGATTTGAG
1 GAGAGATTTGAG
*
135492498 GAGAGGTTTGAG
1 GAGAGATTTGAG
* *
135492510 GAGGGATTTTAG
1 GAGAGATTTGAG
135492522 GAGAGATT
1 GAGAGATT
135492530 AGGGGAGGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (12 bp):
GAGAGATTTGAG
Found at i:135492536 original size:24 final size:24
Alignment explanation
Indices: 135492471--135492537 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
135492461 GTAGTTGAGG
* ** *
135492471 GAGGAGTGATTAGTTGAGAGATTT
1 GAGGAGAGATTAGAGGAGGGATTT
* *
135492495 GAGGAGAGGTTTGAGGAGGGATTT
1 GAGGAGAGATTAGAGGAGGGATTT
* *
135492519 TAGGAGAGATTAGGGGAGG
1 GAGGAGAGATTAGAGGAGG
135492538 AAAAAGTGGG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.46, T:0.25
Consensus pattern (24 bp):
GAGGAGAGATTAGAGGAGGGATTT
Found at i:135494553 original size:28 final size:28
Alignment explanation
Indices: 135494506--135494602 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
135494496 ATTTAAACCC
*
135494506 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
135494533 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
*
135494561 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
135494589 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
135494603 TGATCTATGC
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 9 0.14
28 56 0.86
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:135495253 original size:27 final size:27
Alignment explanation
Indices: 135495223--135495284 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
135495213 GGGCAAAATG
135495223 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
135495250 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
135495277 GTAATTTT
1 GTAATTTT
135495285 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:135495298 original size:54 final size:54
Alignment explanation
Indices: 135495240--135495390 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
135495230 TACCCCACAA
** * * *
135495240 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
135495294 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
135495348 GGGTATTTTGGTGATTTTATAAACTAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
135495391 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:135495356 original size:81 final size:81
Alignment explanation
Indices: 135495238--135495390 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
135495228 TTTACCCCAC
** *
135495238 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
135495302 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * * *
135495319 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACTAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
135495383 TGGTAATT
65 TGGTAATT
135495391 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:135495397 original size:27 final size:27
Alignment explanation
Indices: 135495267--135495390 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
135495257 TACCCTACAG
* *
135495267 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
135495294 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
135495321 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
135495348 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAA
135495375 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
135495391 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 82 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:135495404 original size:27 final size:27
Alignment explanation
Indices: 135495294--135495425 Score: 84
Period size: 27 Copynumber: 4.9 Consensus size: 27
135495284 TTCAAACCAT
* * **
135495294 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTCTGTAAATTAA
* * ** ** *
135495321 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTCTGTAAATTAA
* * * *
135495348 GGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTGGTAATTCTGTAAATTAA
*
135495375 GGGTATTTTGGTAATTCTGTAAATTGA
1 GGGTATTTTGGTAATTCTGTAAATTAA
****
135495402 GGGTAAAACGGTAATTCTGTAAAT
1 GGGTATTTTGGTAATTCTGTAAAT
135495426 CGGGAGTACT
Statistics
Matches: 87, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTCTGTAAATTAA
Found at i:135495406 original size:54 final size:54
Alignment explanation
Indices: 135495267--135495390 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
135495257 TACCCTACAG
* *
135495267 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
135495321 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACTAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
135495375 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
135495391 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:135496655 original size:27 final size:27
Alignment explanation
Indices: 135496625--135496774 Score: 99
Period size: 27 Copynumber: 5.6 Consensus size: 27
135496615 CCTTAATCGA
* *
135496625 TAAAATAACTATTTTGCCCTTTTGTGG
1 TAAAATAACTGTTTTGCCCTTTTATGG
* * *
135496652 TAAAATGATTGTTTTGCCCTTATGA-GG
1 TAAAATAACTGTTTTGCCCTT-TTATGG
**
135496679 TGAAACGAA-TGTTTTG-CCTTTATATGG
1 T-AAAATAACTGTTTTGCCCTTT-TATGG
* * * *
135496706 TAAAATTATTGTTTTGCCCTTATAAGG
1 TAAAATAACTGTTTTGCCCTTTTATGG
* * **
135496733 TAAAATTACTATTTTGTTCTTTTATGG
1 TAAAATAACTGTTTTGCCCTTTTATGG
* *
135496760 TAAGATGACTGTTTT
1 TAAAATAACTGTTTT
135496775 ACCCCTATGT
Statistics
Matches: 94, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
25 1 0.01
26 9 0.10
27 75 0.80
28 9 0.10
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (27 bp):
TAAAATAACTGTTTTGCCCTTTTATGG
Found at i:135496748 original size:54 final size:54
Alignment explanation
Indices: 135496625--135496774 Score: 169
Period size: 54 Copynumber: 2.8 Consensus size: 54
135496615 CCTTAATCGA
* *
135496625 TAAAATAACTATTTTGCCCTTTTGTGGTAAAATGATTGTTTTGCCCTTATGAGG
1 TAAAATAACTATTTTGCCCTTTTATGGTAAAATGATTGTTTTGCCCTTATAAGG
** * *
135496679 TGAAACGAA-TGTTTTG-CCTTTATATGGTAAAATTATTGTTTTGCCCTTATAAGG
1 T-AAAATAACTATTTTGCCCTTT-TATGGTAAAATGATTGTTTTGCCCTTATAAGG
* ** * *
135496733 TAAAATTACTATTTTGTTCTTTTATGGTAAGATGACTGTTTT
1 TAAAATAACTATTTTGCCCTTTTATGGTAAAATGATTGTTTT
135496775 ACCCCTATGT
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
53 9 0.12
54 60 0.77
55 9 0.12
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (54 bp):
TAAAATAACTATTTTGCCCTTTTATGGTAAAATGATTGTTTTGCCCTTATAAGG
Found at i:135497954 original size:31 final size:30
Alignment explanation
Indices: 135497877--135497989 Score: 140
Period size: 31 Copynumber: 3.7 Consensus size: 30
135497867 TTAGTCTTGA
*
135497877 CATATACTGGGCCGAAGCC-TTTCATTTAAT
1 CATATACTGGGCCGAAGCCTTTTCA-TAAAT
** *
135497907 GGT-TACTGGGCTGAAGCCTTTTCATAAAT
1 CATATACTGGGCCGAAGCCTTTTCATAAAT
135497936 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
*
135497967 CATATCATTGGGCCGAAGCCTTT
1 CATAT-ACTGGGCCGAAGCCTTT
135497990 ACTGTAAACG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 19 0.26
30 7 0.10
31 46 0.64
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTTCATAAAT
Found at i:135498279 original size:26 final size:26
Alignment explanation
Indices: 135498208--135498330 Score: 189
Period size: 26 Copynumber: 4.8 Consensus size: 26
135498198 CTCTTTCAAT
135498208 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
135498233 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
135498258 AACTGGGGCATAAGCCCTTTTC-AGTA
1 AACTGGGGCATAAGCCCTTTTCGA-TA
* * *
135498284 AATTAGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
135498310 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
135498331 GCACTTCCTC
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
25 36 0.40
26 54 0.59
27 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:135499155 original size:27 final size:27
Alignment explanation
Indices: 135499125--135499189 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
135499115 GGGCACATTC
135499125 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
135499152 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
135499179 GTCTTTTTACC
1 GTCATTTTACC
135499190 TAATAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:135499191 original size:26 final size:26
Alignment explanation
Indices: 135499125--135499226 Score: 73
Period size: 27 Copynumber: 3.8 Consensus size: 26
135499115 GGGCACATTC
135499125 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACG
* *
135499152 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTA-CCTACAAGGG-TATTACG
* ***
135499179 GTCTTTTTACCTA-ATAGGGGTATTTTA
1 GTCATTTTACCTACA-A-GGGTATTACG
*
135499206 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
135499227 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
25 1 0.02
26 5 0.09
27 43 0.74
28 8 0.14
29 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACG
Found at i:135499393 original size:54 final size:54
Alignment explanation
Indices: 135499228--135499539 Score: 227
Period size: 54 Copynumber: 5.7 Consensus size: 54
135499218 TACAAGGGTG
* * ** ** * *
135499228 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTTAAATCAATGGTA
1 TTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTT-ACAAACCAGTGGTA
*** * * * * ** * *
135499283 TTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTA
1 TTTTGGTAA-TTTTACAAA-TTAAGGGTATTTCAGTAATTTTACAAACCAGTGGTA
*
135499339 TTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACCAGTGGTA
* * *
135499393 TTTTGGTAATTTTACAAATTGAGGGTATTTC-GATAATTTTACGAACCAATGGTA
1 TTTTGGTAATTTTACAAATTAAGGGTATTTCAG-TAATTTTACAAACCAGTGGTA
* * * * ** * * *
135499447 TTTTAGCAATTTTACAGACT-AGGGTATTTTGGTAATTTTACTGATCGAG-GGTA
1 TTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTAC-AAACCAGTGGTA
* * *
135499500 TTTTGGTAATTTTATAAACTGAA-GGTATTTTAGTAATTTT
1 TTTTGGTAATTTTACAAA-TTAAGGGTATTTCAGTAATTTT
135499540 GTAAATCAAT
Statistics
Matches: 207, Mismatches: 43, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
53 37 0.18
54 113 0.55
55 15 0.07
56 23 0.11
57 19 0.09
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACCAGTGGTA
Found at i:135499502 original size:80 final size:80
Alignment explanation
Indices: 135499334--135499539 Score: 243
Period size: 80 Copynumber: 2.5 Consensus size: 80
135499324 TGTAAATCAG
** * *
135499334 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAA-GGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGG
*
135499399 TAATTTTACAAATTGA
65 TAATTTTACAAATCGA
* * * * * *
135499415 GGGTATTTCGATAATTTTACGAACCAATGGTATTTTAGCAATTTTACAGACTAG-GGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAA-GGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGG
**
135499479 TAATTTTACTGATCGA
65 TAATTTTACAAATCGA
* *
135499495 GGGTATTTTGGTAATTTTATAAACTGAAGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTTACAAAC-CAAGGTATTTTAGTAATTTT
135499540 GTAAATCAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 59 0.57
81 45 0.43
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGTATTTTAGTAATTTTACAAACCAGTGGTATTTTGGT
AATTTTACAAATCGA
Found at i:135499550 original size:107 final size:107
Alignment explanation
Indices: 135499240--135499553 Score: 254
Period size: 107 Copynumber: 2.9 Consensus size: 107
135499230 TTGGTAAATC
* *** * * *** * * *
135499240 TACAAACCAAGGGTATTTCAGTAATTTTGTTAAATCAATGGTATTTCCATAATTTTTAGAAAGTC
1 TACAAACTAAGGGTATTTCAGTAA-TTTCACAAACCAGTGGTATTTTGGTAA-TTTTACAAACTG
* ** * *
135499305 AAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAATTT
64 AA-GGTATTT-TGTAATTTTGTAAATCAATGGTATTTTAGCAATTT
* * *
135499351 TACAAATTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAATTGAG
1 TACAAACTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTGAA
* *** *
135499416 GGTATTTCGATAATTTTACGAACCAATGGTATTTTAGCAATTT
66 GGTATTTTG-TAATTTTGTAAATCAATGGTATTTTAGCAATTT
* ** * * * * *
135499459 TACAGACT-AGGGTATTTTGGTAATTTTACTGATCGAG-GGTATTTTGGTAATTTTATAAACTGA
1 TACAAACTAAGGGTATTTCAGTAATTTCAC-AAACCAGTGGTATTTTGGTAATTTTACAAACTGA
135499522 AGGTATTTTAGTAATTTTGTAAATCAATGGTA
65 AGGTATTTT-GTAATTTTGTAAATCAATGGTA
135499554 AAACAGTAAT
Statistics
Matches: 160, Mismatches: 40, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
107 67 0.42
108 42 0.26
109 10 0.06
110 19 0.12
111 22 0.14
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (107 bp):
TACAAACTAAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTGAA
GGTATTTTGTAATTTTGTAAATCAATGGTATTTTAGCAATTT
Found at i:135499553 original size:27 final size:27
Alignment explanation
Indices: 135499220--135499580 Score: 169
Period size: 27 Copynumber: 13.3 Consensus size: 27
135499210 TTTCATCCTA
* * * * * *
135499220 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
135499247 CAAGGGTATTTCAGTAATTTTGTTAAAT
1 CAAGGGTATTTTAGTAATTTT-ATAAAT
* * *
135499275 CAATGGTATTTCCA-TAATTTTTAGAAAGT
1 CAAGGGTATTT-TAGTAA-TTTTATAAA-T
* *
135499304 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
135499331 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
135499358 TAAGGGTATTTCAGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
135499384 CCAGTGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTAGTAATTTTATAAAT
** * ** *
135499412 TGAGGGTA-TTTCGATAATTTTACGAAC
1 CAAGGGTATTTTAG-TAATTTTATAAAT
* * * *
135499439 CAATGGTATTTTAGCAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
135499465 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAT
* *
135499492 CGAGGGTATTTTGGTAATTTTATAAACT
1 CAAGGGTATTTTAGTAATTTTATAAA-T
* *
135499520 GAA-GGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** *
135499546 CAATGGTAAAACAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*
135499573 CGAGGGTA
1 CAAGGGTA
135499581 AAACAGTAAT
Statistics
Matches: 259, Mismatches: 60, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
26 31 0.12
27 174 0.67
28 33 0.13
29 21 0.08
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:135499581 original size:27 final size:27
Alignment explanation
Indices: 135499531--135499661 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
135499521 AAGGTATTTT
* * *
135499531 AGTAATTTTGTAAATCAATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
135499558 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
135499585 AGTAATTCTATAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
135499612 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
135499639 GGTAATTCTATGAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
135499662 CTTTGGTAAT
Statistics
Matches: 94, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:135499698 original size:81 final size:81
Alignment explanation
Indices: 135499477--135499699 Score: 189
Period size: 81 Copynumber: 2.8 Consensus size: 81
135499467 AGGGTATTTT
* * * * *
135499477 GGTAATTTTACTG-ATCGAGGGTATTTTGGTAATTTTATAAACTGAA-GGTATTTTAGTAATTTT
1 GGTAATTTTA-TGAATCGAGGGTAATTTGGTAATTTTA-AAAATTAAGGGTATTTCAGTAATTCT
*
135499540 GTAAATCAATGGTAAAAC
64 GTAAATCAAGGGTAAAAC
* * * **** * * * *** *
135499558 AGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATTGAGGGTAAAACGGTAATTCTGT
1 GGTAATTTTATGAATCGAGGGTAATTTGGTAATTTTAAAAATTAAGGGTATTTCAGTAATTCTGT
*
135499623 AAATCGAGGGTAAAAC
66 AAATCAAGGGTAAAAC
* * * *
135499639 GGTAATTCTATGAATCGAGGGTACTTTGGTAATTTTACAATTTAAGGGTATTTCAGTAATT
1 GGTAATTTTATGAATCGAGGGTAATTTGGTAATTTTAAAAATTAAGGGTATTTCAGTAATT
135499700 TGGTAAACTA
Statistics
Matches: 102, Mismatches: 38, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
80 5 0.05
81 97 0.95
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (81 bp):
GGTAATTTTATGAATCGAGGGTAATTTGGTAATTTTAAAAATTAAGGGTATTTCAGTAATTCTGT
AAATCAAGGGTAAAAC
Found at i:135505382 original size:40 final size:40
Alignment explanation
Indices: 135505338--135505479 Score: 144
Period size: 40 Copynumber: 3.5 Consensus size: 40
135505328 ATGGTAACCC
* * * * *
135505338 GCACAAAGGCCTTCGGGACTTAACCCGGATTTA-ACAATTT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTAGAC-ACTA
* *
135505378 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTAGACACTA
* *
135505418 GCACAATTGCCTTCGGGTCTTAACCCGGATGTA-ATTACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATGTAGA-CACTA
* * *
135505458 GCATAAATGTCTTCGGGACTTA
1 GCACAAATGCCTTCGGGTCTTA
135505480 GCCTGGATAT
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 84 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATGTAGACACTA
Found at i:135507716 original size:17 final size:18
Alignment explanation
Indices: 135507674--135507722 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
135507664 AGTTGAAAAG
135507674 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
135507693 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
135507710 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
135507723 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:135508610 original size:40 final size:40
Alignment explanation
Indices: 135508544--135508710 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
135508534 AAATTGAATG
* * *
135508544 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
135508583 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
135508623 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
135508663 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
135508703 ATATCCGG
1 ATATCCGG
135508711 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:135515714 original size:17 final size:18
Alignment explanation
Indices: 135515672--135515720 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
135515662 AGTTGAAAAG
135515672 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
135515691 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
135515708 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
135515721 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:135516608 original size:40 final size:39
Alignment explanation
Indices: 135516542--135516707 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
135516532 AAATTGAATG
* * *
135516542 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
135516581 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
135516620 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
135516660 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
135516700 ATATCCGG
1 ATATCCGG
135516708 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:135521692 original size:93 final size:93
Alignment explanation
Indices: 135521580--135521751 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
135521570 GCCCATAAGT
* *
135521580 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
135521645 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
135521673 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
135521738 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
135521752 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:135521747 original size:46 final size:46
Alignment explanation
Indices: 135521572--135521747 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
135521562 TGTAACCCGC
* *
135521572 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
135521618 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
135521664 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
135521711 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
135521748 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:135524171 original size:30 final size:30
Alignment explanation
Indices: 135524127--135524214 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
135524117 CAAAGATAAC
135524127 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
135524156 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
135524186 AAGAGATCCAG-ATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
135524215 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
29 23 0.46
30 27 0.54
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:135524175 original size:15 final size:15
Alignment explanation
Indices: 135524127--135524205 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
135524117 CAAAGATAAC
*
135524127 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
135524141 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
135524156 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
135524171 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
135524186 AAGAGATCCAG-ATA
1 AAGAAATCCAGAATA
135524200 AAGAAA
1 AAGAAA
135524206 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
14 17 0.31
15 37 0.67
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:135527242 original size:93 final size:93
Alignment explanation
Indices: 135527128--135527299 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
135527118 GCCCATAAGT
* *
135527128 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
135527193 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
135527221 GAACTCGGACTCAACTTAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
135527286 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
135527300 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:135527295 original size:46 final size:46
Alignment explanation
Indices: 135527120--135527295 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
135527110 TGTAACCCGC
* *
135527120 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
135527166 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
135527212 ACATCTCTCGAACTCGGACTCAACTTAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
135527259 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
135527296 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:135529073 original size:43 final size:42
Alignment explanation
Indices: 135529023--135529169 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 42
135529013 TATCCCCACT
* *
135529023 ATGGTCTTACATATTATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACATATAATCA-ATATCGATGCCAATGTCCCAGAC
*
135529066 AGGGTCTTACATGA-AATCGAATAAT-GATGCCAATGTCCCAGAC
1 ATGGTCTTACAT-ATAATC-AAT-ATCGATGCCAATGTCCCAGAC
* * *
135529109 ATGGTCTTATACGTATTCAT-AATA-CAATGCCAATGT-CCAGAC
1 ATGGTC-T-TACATA-TAATCAATATCGATGCCAATGTCCCAGAC
*
135529151 ATGGTCTTACATGTAATCA
1 ATGGTCTTACATATAATCA
135529170 CATCTTGGTA
Statistics
Matches: 85, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
39 3 0.04
40 5 0.06
41 1 0.01
42 12 0.14
43 49 0.58
44 9 0.11
45 4 0.05
46 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACATATAATCAATATCGATGCCAATGTCCCAGAC
Found at i:135535364 original size:31 final size:31
Alignment explanation
Indices: 135535329--135535392 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
135535319 CCCTTTCATA
135535329 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
135535360 TTTCATATTTCATATTACTGGGCCGATGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
135535391 TT
1 TT
135535393 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:135535673 original size:26 final size:25
Alignment explanation
Indices: 135535599--135535682 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
135535589 CTGGAGGCCT
*
135535599 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
135535623 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
135535648 AGCCCTTTTCGGTATACTGGGGCAAA
1 AGCCCTTTT-GATAAACTGGGGCAAA
*
135535674 AGCCTTTTT
1 AGCCCTTTT
135535683 TGCACTTCAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 7 0.13
24 13 0.25
25 11 0.21
26 22 0.42
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:135543308 original size:34 final size:31
Alignment explanation
Indices: 135543239--135543308 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
135543229 GCCCCTTTCA
* * *
135543239 AAGCCCAAAATAATTTCAGCCTGTTGGGCCT
1 AAGCCCAAAATAATTTCAGCATATTGGGCCG
*
135543270 AAGCCCAAATTCAATTTCAGCATATACTGGGCCG
1 AAGCCCAAAAT-AATTTCAGCATAT--TGGGCCG
135543304 AAGCC
1 AAGCC
135543309 TTTTCATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 10 0.31
32 11 0.34
34 11 0.34
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (31 bp):
AAGCCCAAAATAATTTCAGCATATTGGGCCG
Found at i:135543655 original size:26 final size:25
Alignment explanation
Indices: 135543584--135543667 Score: 118
Period size: 26 Copynumber: 3.4 Consensus size: 25
135543574 CTGGAGGCCT
*
135543584 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
135543608 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
135543633 AGCCCTTTTCGGTAAACTGGGGCAAA
1 AGCCCTTTT-GATAAACTGGGGCAAA
135543659 AGCCCTTTT
1 AGCCCTTTT
135543668 TGCACTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 7 0.13
24 13 0.24
25 11 0.20
26 24 0.44
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:135543738 original size:20 final size:20
Alignment explanation
Indices: 135543715--135543761 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
135543705 TTATGAATAC
135543715 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
135543735 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
135543755 ATCATGT
1 ATCATGT
135543762 ATATTAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:135547365 original size:43 final size:43
Alignment explanation
Indices: 135547275--135547388 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
135547265 TCACATATTG
* * *
135547275 ATGCCACTGTCCCAGACAAGGTCTTACACTAAATCGAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACTAAATCGAATAACA
* *
135547318 ATGCCAATGTCCCAGACATGGTCTTACACGT-ATTCATAAT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTACAC-TAAATC-GAATAACA
** *
135547361 ATGCCAATGTTTCAAACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
135547389 TGTAATCACA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 57 0.93
44 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACTAAATCGAATAACA
Found at i:135549175 original size:15 final size:16
Alignment explanation
Indices: 135549157--135549190 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
135549147 AAATTAAATT
*
135549157 AATTAA-CTAAATTCA
1 AATTAACCTAAATGCA
135549172 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
135549188 AAT
1 AAT
135549191 GAGATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:135550291 original size:17 final size:17
Alignment explanation
Indices: 135550265--135550298 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
135550255 TATATAATTG
*
135550265 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
135550282 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
135550299 TTAAGTGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:135551623 original size:24 final size:24
Alignment explanation
Indices: 135551591--135551697 Score: 119
Period size: 24 Copynumber: 4.5 Consensus size: 24
135551581 ATGACATTGA
*
135551591 CACTATGTGTGAGGATTTGAATGG
1 CACTATGTGTGAGGATTAGAATGG
** *
135551615 CACTATGTGTTCGGATTTGAATGG
1 CACTATGTGTGAGGATTAGAATGG
* *
135551639 CACTACGTGTGCGGATTAGCAA-GG
1 CACTATGTGTGAGGATTAG-AATGG
*
135551663 CACTATGTGTGCAGGA-TAGCATGG
1 CACTATGTGTG-AGGATTAGAATGG
135551687 CACTATGTGTG
1 CACTATGTGTG
135551698 TGAATTTCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
23 1 0.01
24 66 0.92
25 5 0.07
ACGTcount: A:0.23, C:0.15, G:0.32, T:0.30
Consensus pattern (24 bp):
CACTATGTGTGAGGATTAGAATGG
Found at i:135555190 original size:49 final size:47
Alignment explanation
Indices: 135555132--135555259 Score: 139
Period size: 50 Copynumber: 2.6 Consensus size: 47
135555122 TAAATGCAAT
*
135555132 ATCTGAACAAATAATATAAAAGAATATTTATATTTATGTAAAACATTAG
1 ATCTAAACAAATAA-ATAAAA-AATATTTATATTTATGTAAAACATTAG
* * *
135555181 ATCTAAACAAAAAAAATTAAATAAATTTTTATATTTATTTAAAACATTAG
1 ATCTAAAC-AAATAAA-TAAA-AAATATTTATATTTATGTAAAACATTAG
* *
135555231 ATTTGAAAACAATTAAATAAAAAATATTT
1 ATCT--AAACAAATAAATAAAAAATATTT
135555260 TCAAAAACCA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
49 15 0.23
50 41 0.62
51 6 0.09
52 4 0.06
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (47 bp):
ATCTAAACAAATAAATAAAAAATATTTATATTTATGTAAAACATTAG
Found at i:135557776 original size:49 final size:50
Alignment explanation
Indices: 135557703--135557838 Score: 186
Period size: 49 Copynumber: 2.7 Consensus size: 50
135557693 AGCCGAAGCT
* *
135557703 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTCAAC
* * *
135557751 AGTCTGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTCAAC
**
135557802 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACAC
135557839 CCCTTTTGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.49
50 34 0.44
51 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTCAAC
Found at i:135557838 original size:50 final size:49
Alignment explanation
Indices: 135557709--135557838 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 49
135557699 AGCTATCTGG
* * **
135557709 TACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGG
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAA
* * *
135557758 TACATGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAA
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTCTAA
135557808 TACACGTAGTAGCCTGCACTTAGTACTACAC
1 TACACGTAGTAGCCTGCACTTAGTACTACAC
135557839 CCCTTTTGCT
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 33 0.46
50 34 0.48
51 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCTAA
Found at i:135559193 original size:15 final size:15
Alignment explanation
Indices: 135559137--135559201 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
135559127 TAAAGATAAC
*
135559137 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
135559151 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
135559166 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
135559181 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
135559196 AAGAAA
1 AAGAAA
135559202 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:135559203 original size:30 final size:31
Alignment explanation
Indices: 135559137--135559205 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
135559127 TAAAGATAAC
*
135559137 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
135559167 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
135559196 AAGAAACCCA
1 AAGAAACCCA
135559206 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:135562741 original size:45 final size:45
Alignment explanation
Indices: 135562650--135562882 Score: 321
Period size: 45 Copynumber: 5.2 Consensus size: 45
135562640 CGGCATTTCT
* * *
135562650 CCTGCTAGGCTC-GAGGCCCG-ATA-TCATTTCACTGGCATTATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGT-ATTTCACCGGCATCATAG
* *
135562693 CCTGCTAGGCTCGAAA-GCCCGAATAGTATCTCACCGGCATTATAG
1 CCTGCTAGGCTC-AAAGGCCCGAATAGTATTTCACCGGCATCATAG
* * * *
135562738 CCTGCTAGGCTCAAAGGCCCGAATAATATCTCAACGGCATCATAA
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCATAG
* *
135562783 CCTGCTAGGCTCAAAGGCCTGAATAGTATTTCACCAGCATCATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCATAG
135562828 CCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCATAG
1 CCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCATAG
135562873 CCTGCTAGGC
1 CCTGCTAGGC
135562883 CCGAAGCCCG
Statistics
Matches: 170, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
43 12 0.07
44 8 0.05
45 149 0.88
46 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
CCTGCTAGGCTCAAAGGCCCGAATAGTATTTCACCGGCATCATAG
Found at i:135564750 original size:26 final size:27
Alignment explanation
Indices: 135564698--135564750 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
135564688 TTGAATTCTG
* *
135564698 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
135564725 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
135564751 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:135570146 original size:47 final size:47
Alignment explanation
Indices: 135570091--135570244 Score: 204
Period size: 47 Copynumber: 3.3 Consensus size: 47
135570081 ACAAGATATG
*
135570091 TATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
135570138 TGTATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGCAAGTATA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
135570185 TATATATGATAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTA
135570232 TA-ACTGTGATAAG
1 TATA-TGTGATAAG
135570245 TCCCGAAGGA
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
46 1 0.01
47 89 0.96
48 3 0.03
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.27
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:135572994 original size:28 final size:28
Alignment explanation
Indices: 135572929--135573027 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
135572919 TCATGAATTG
* ** *
135572929 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-TGATTATATA
135572958 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
135572986 GCACTAAGTGTGCGAGTTTGACTAT-TAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
135573014 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
135573028 GGCTTATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 1 0.02
28 46 0.72
29 17 0.27
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:135580103 original size:39 final size:39
Alignment explanation
Indices: 135580022--135580171 Score: 155
Period size: 39 Copynumber: 3.8 Consensus size: 39
135580012 AAATTGAATG
* * **
135580022 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTCA-T
* *
135580061 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC-T
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-CAT
135580100 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCA-T
* *
135580140 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
135580172 ACATGCTTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
38 4 0.04
39 44 0.47
40 44 0.47
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCAT
Found at i:135580185 original size:40 final size:39
Alignment explanation
Indices: 135580059--135580187 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 39
135580049 ATGCTGGAAA
* * *
135580059 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGC
* *
135580099 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
135580137 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
135580178 TTATATCCGG
1 TTATATCCGG
135580188 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 30 0.40
40 40 0.53
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:135587222 original size:25 final size:25
Alignment explanation
Indices: 135587193--135587240 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
135587183 TTATAATATG
* * *
135587193 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
135587218 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
135587241 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:135587309 original size:20 final size:20
Alignment explanation
Indices: 135587284--135587339 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
135587274 TAAATATGGT
135587284 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
135587304 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
135587324 ATGTATGATATGCACA
1 ATGTATGATATGCACA
135587340 AGAGGTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:135587461 original size:47 final size:49
Alignment explanation
Indices: 135587394--135587487 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 49
135587384 AGGAAGTGAA
*
135587394 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
*
135587441 AAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
135587488 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 20 0.48
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:135587483 original size:25 final size:24
Alignment explanation
Indices: 135587393--135587487 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
135587383 GAGGAAGTGA
135587393 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
135587416 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
135587440 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
135587464 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
135587488 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 22 0.34
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:135587714 original size:31 final size:31
Alignment explanation
Indices: 135587679--135587773 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
135587669 CGTTTACAGT
135587679 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
135587710 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
135587741 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
135587772 AA
1 AA
135587774 TATGAAAAGG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:135590138 original size:32 final size:32
Alignment explanation
Indices: 135590092--135590154 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
135590082 CGAGAGAGAA
135590092 AGAAAGGAAATAAAGCTTAGGGTATTTGGCCG
1 AGAAAGGAAATAAAGCTTAGGGTATTTGGCCG
135590124 AGAAA-GAAATTAAAGCTTAGGGTATTTGGCC
1 AGAAAGGAAA-TAAAGCTTAGGGTATTTGGCC
135590155 ATTGTTCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 4 0.13
32 26 0.87
ACGTcount: A:0.38, C:0.10, G:0.29, T:0.24
Consensus pattern (32 bp):
AGAAAGGAAATAAAGCTTAGGGTATTTGGCCG
Found at i:135591009 original size:43 final size:42
Alignment explanation
Indices: 135590943--135591154 Score: 178
Period size: 41 Copynumber: 5.0 Consensus size: 42
135590933 CATAGTATTT
* * * *
135590943 TCGATATGTGTTCTCGTGGAAGACCACATCTGGGATTTTGGCA
1 TCGATATGTGAT-TCGTGTAAGACCACGTCTGGGATATTGGCA
* * *
135590986 TCGATATGTGATTACGTGTAAGACCATGTCTGAGATATCGGCA
1 TCGATATGTGATT-CGTGTAAGACCACGTCTGGGATATTGGCA
* ** * * * *
135591029 TCG-TATTTGATTCGTGTATCACCATGTCTGAGATATCGACA
1 TCGATATGTGATTCGTGTAAGACCACGTCTGGGATATTGGCA
* * *
135591070 TCG-TATTTGATTCGTGTAAGACC-CTGTTTGGGATAGTGGCA
1 TCGATATGTGATTCGTGTAAGACCAC-GTCTGGGATATTGGCA
* * **
135591111 TCGATATGTGATTACATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATT-CGTGTAAGACCACGTCTGGGATATTGGCA
135591154 T
1 T
135591155 TGTACAACAT
Statistics
Matches: 138, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
41 61 0.44
42 17 0.12
43 59 0.43
44 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
TCGATATGTGATTCGTGTAAGACCACGTCTGGGATATTGGCA
Found at i:135602417 original size:21 final size:20
Alignment explanation
Indices: 135602393--135602438 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
135602383 TGAAATGTAA
135602393 TCAACCCAATATGAATTAAAT
1 TCAACCCAATATG-ATTAAAT
* *
135602414 TCAAGCTAATATGATTAAAT
1 TCAACCCAATATGATTAAAT
135602434 T-AACC
1 TCAACC
135602439 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 3 0.14
20 8 0.36
21 11 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCCAATATGATTAAAT
Found at i:135614985 original size:93 final size:93
Alignment explanation
Indices: 135614817--135615040 Score: 405
Period size: 93 Copynumber: 2.4 Consensus size: 93
135614807 AAATCCATTC
*
135614817 ATCTCTTTACATATCCCTATGTCAATTCAACCGACTAAACAAATTCTAGTAAGCAAACATGATAT
1 ATCTC-TTGCATATCCCTATGTCAATTCAACCGACTAAACAAATTCTAGTAAGCAAACATGATAT
135614882 TGCACATACATACTCATTAAACTAAACTA
65 TGCACATACATACTCATTAAACTAAACTA
*
135614911 ATGTCTTGCATATCCCTATGTCAATTCAACCGACTAAACAAATTCTAGTAAGCAAACATGATATT
1 ATCTCTTGCATATCCCTATGTCAATTCAACCGACTAAACAAATTCTAGTAAGCAAACATGATATT
135614976 GCACATACATACTCATTAAACTAAACTA
66 GCACATACATACTCATTAAACTAAACTA
*
135615004 ATCTCTTGCATATCCCTATGTCAATTCAAACGA-TAAA
1 ATCTCTTGCATATCCCTATGTCAATTCAACCGACTAAA
135615041 TTAAATCTAA
Statistics
Matches: 126, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 4 0.03
93 118 0.94
94 4 0.03
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (93 bp):
ATCTCTTGCATATCCCTATGTCAATTCAACCGACTAAACAAATTCTAGTAAGCAAACATGATATT
GCACATACATACTCATTAAACTAAACTA
Found at i:135616293 original size:22 final size:22
Alignment explanation
Indices: 135616267--135616310 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
135616257 GAAAATAACC
135616267 AAAATT-ACTCAAAATTAATTAT
1 AAAATTAACT-AAAATTAATTAT
*
135616289 AAAATTAACTAAAATTCATTAT
1 AAAATTAACTAAAATTAATTAT
135616311 GTTCATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTAACTAAAATTAATTAT
Found at i:135619238 original size:18 final size:18
Alignment explanation
Indices: 135619198--135619239 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
135619188 TCACTTTTCT
*
135619198 AATCATCCCTCATCTTTC
1 AATCATCCCTCATCATTC
135619216 AATCATCCCTCACTCATTC
1 AATCATCCCTCA-TCATTC
135619235 -ATCAT
1 AATCAT
135619240 TCTCTCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (18 bp):
AATCATCCCTCATCATTC
Found at i:135622037 original size:23 final size:23
Alignment explanation
Indices: 135621955--135622041 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
135621945 CCTGATCAGT
*
135621955 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
135621977 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
135621997 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
135622020 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
135622042 TTGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:135622438 original size:15 final size:15
Alignment explanation
Indices: 135622413--135622470 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
135622403 TCATATATAT
135622413 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
135622429 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
135622444 AATAATTTCAATCAA
1 TATAAATTCAATCAA
135622459 TATAAATTCAAT
1 TATAAATTCAAT
135622471 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:135626647 original size:28 final size:28
Alignment explanation
Indices: 135626578--135626678 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
135626568 GACAAGATTG
* * * *
135626578 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
135626608 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
135626636 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
135626665 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
135626679 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:135634578 original size:28 final size:28
Alignment explanation
Indices: 135634509--135634609 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
135634499 TGACAAGATT
* * * *
135634509 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
135634539 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
135634567 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
135634596 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
135634610 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:135637247 original size:88 final size:87
Alignment explanation
Indices: 135636988--135637538 Score: 317
Period size: 88 Copynumber: 6.3 Consensus size: 87
135636978 GAATATGGCG
* * * *
135636988 AATCTTATCTTCCCGAGGTATCAGGGGAGCAGA-TTTAGCCACCAGCCTTATCTCTCTGAGGTGG
1 AATCTTATCTTCCCGAGGTAGCA-GGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGATAG
* * *
135637052 CAAAGAGAGCAGGTTGAAGATTGT
65 C-AAGAGAGCAGATTGAAAATGGT
** * * ** * ***** *
135637076 AATCTTATCTTCTTGAGGTAGTAAGGAAGCA-AACTGAGATTGAAGATCTTATCT-CCTGAGATA
1 AATCTTATCTTCCCGAGGTAG-CAGGGAGCAGATTTTAGCCACCAG-CCTTATCTCCCTGAGATA
* * * **
135637139 GC-AGTGGGATAGATAAAAAATGGT
64 GCAAGAGAG-CAGATTGAAAATGGT
* ** * *
135637163 GAATCTTATCTTCCCGAGGTAGCAGGGAGCAGATTTTGGTTACCATCCTTATCTCTCTGAGATAG
1 -AATCTTATCTTCCCGAGGTAGCAGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGATAG
* * *
135637228 CAAGAGAGTAGGTTGAAAATTGT
65 CAAGAGAGCAGATTGAAAATGGT
* * * * ** ***** * *
135637251 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTAAAGTTTTTTAGATCTTATCTCCCTAAG-T
1 AATCTTATCTTCCCGAGGTAGC-AGGGAGCAGATTTTAG-CCACCAG-CCTTATCTCCCTGAGAT
* * * ** *
135637315 AG-TAGTGGAGCAGATCGAAGTTGGCG
63 AGCAAG-AGAGCAGATTGAAAATGG-T
* * *
135637341 AATCTTATCTTCTCGAGGTAGCAGGGAAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGATAG
1 AATCTTATCTTCCCGAGGTAGCAGGG-AGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGATAG
* *
135637406 CAAGAGAGCAGGTTGAAAATTGT
65 CAAGAGAGCAGATTGAAAATGGT
* * * *
135637429 ATTCTTATTTTCCCGAGGTAGTAGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGGTAG-
1 AATCTTATCTTCCCGAGGTAGCAGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGATAGC
* * *
135637493 AAAAGGAGCAGACT-AAAGATTGT
66 AAGA-GAGCAGATTGAAA-ATGGT
* **
135637516 AGTCTTATCTTCCTAAGGTAGCA
1 AATCTTATCTTCCCGAGGTAGCA
135637539 AGGAAGTAGA
Statistics
Matches: 342, Mismatches: 103, Indels: 37
0.71 0.21 0.08
Matches are distributed among these distances:
86 10 0.03
87 109 0.32
88 131 0.38
89 50 0.15
90 42 0.12
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.29
Consensus pattern (87 bp):
AATCTTATCTTCCCGAGGTAGCAGGGAGCAGATTTTAGCCACCAGCCTTATCTCCCTGAGATAGC
AAGAGAGCAGATTGAAAATGGT
Found at i:135637581 original size:44 final size:42
Alignment explanation
Indices: 135637475--135637592 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 42
135637465 AGCCACCAGC
*
135637475 CTTATCTCCCTGAGGTAGAAAAGGAGCAGACTAAAGATTGTAGT
1 CTTATCT-CCTGAGGTAG-CAAGGAGCAGACTAAAGATTGTAGT
* * *
135637519 CTTATCTTCCTAAGGTAGCAAGGAAGTAGACTAAAGTTTGTAGAT
1 CTTATC-TCCTGAGGTAGCAAGG-AGCAGACTAAAGATTGTAG-T
*
135637564 CTTATCTCCTGAGGTAGCAATAGAGCAGA
1 CTTATCTCCTGAGGTAGCAA-GGAGCAGA
135637593 TCGAAGATGG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.06
44 50 0.79
45 9 0.14
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (42 bp):
CTTATCTCCTGAGGTAGCAAGGAGCAGACTAAAGATTGTAGT
Found at i:135637735 original size:42 final size:43
Alignment explanation
Indices: 135637620--135637746 Score: 123
Period size: 42 Copynumber: 2.9 Consensus size: 43
135637610 TATCTCCATG
* * * *
135637620 AGTGGAGAAGATTGAAATTTGTAGATTTTATCTCCATGCGGTAGC
1 AGTGGAGCAGATTGAAGTTTGTAGA-TCTATCTCCATG-AGTAGC
* * ** *
135637665 AATGGAGCAGATTGAAG-ATGGCGAATCT-TCTCCATGAGTTGC
1 AGTGGAGCAGATTGAAGTTTGTAG-ATCTATCTCCATGAGTAGC
135637707 AGTGGAGCAGATTGAAGTTTGTAGATCTTATCTCCATGAG
1 AGTGGAGCAGATTGAAGTTTGTAGATC-TATCTCCATGAG
135637747 GTAGTAATGG
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
42 23 0.35
43 12 0.18
44 15 0.23
45 15 0.23
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (43 bp):
AGTGGAGCAGATTGAAGTTTGTAGATCTATCTCCATGAGTAGC
Found at i:135637742 original size:87 final size:87
Alignment explanation
Indices: 135637552--135637791 Score: 314
Period size: 87 Copynumber: 2.8 Consensus size: 87
135637542 AAGTAGACTA
*
135637552 AAGTTTGTAGATCTTATCTCC-TGAGGTAGCAATAGAGCAGATCGAAGATGGCGAATCTTATCTC
1 AAGTTTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGATGGCGAATCTTATCTC
135637616 C---A-TGAGTGGAGAAGATTG
66 CATGAGTGAGTGGAGAAGATTG
* * * *
135637634 AAATTTGTAGATTTTATCTCCATGCGGTAGCAATGGAGCAGATTGAAGATGGCGAATC-T-TCTC
1 AAGTTTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGATGGCGAATCTTATCTC
*
135637697 CATGAGTTGCAGTGGAGCAGATTG
66 CATGAG-TG-AGTGGAGAAGATTG
* * * **
135637721 AAGTTTGTAGATCTTATCTCCATGAGGTAGTAATGGAGTAGATCGAATATGGAAAATCTTATCTC
1 AAGTTTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGATGGCGAATCTTATCTC
135637786 CATGAG
66 CATGAG
135637792 GTGGCAATAG
Statistics
Matches: 134, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
81 5 0.04
82 20 0.15
83 33 0.25
84 1 0.01
86 2 0.01
87 62 0.46
88 1 0.01
89 10 0.07
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (87 bp):
AAGTTTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGATGGCGAATCTTATCTC
CATGAGTGAGTGGAGAAGATTG
Found at i:135644107 original size:19 final size:20
Alignment explanation
Indices: 135644079--135644116 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
135644069 AAACTTGAAT
*
135644079 TTAAATTATTTT-TATTATA
1 TTAAAATATTTTATATTATA
135644098 TTAAAATATTTTATATTAT
1 TTAAAATATTTTATATTAT
135644117 CGAAATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTAAAATATTTTATATTATA
Found at i:135649213 original size:128 final size:132
Alignment explanation
Indices: 135648899--135649316 Score: 390
Period size: 130 Copynumber: 3.2 Consensus size: 132
135648889 AAACATTGAA
* * * **
135648899 TATCATCTTCGTTTTTAAGG-TTTTTAATAA-ACATGAATGTAAA-CCT-AAAGGAATATTCGAT
1 TATCACCTTCGTTTTAAAGGATTTTTAA-AAGACATGAGTG-AAATTTTGAAAGG-ATATTCGAT
* * * * ** * * ** * *
135648960 TGTTTTAGACAAACGAGGAATCACAACCCAACACGATAAGGCATGATTCC-TGAATTGTCAAATA
63 TATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATA
* *
135649024 CCGAG
128 TCGCG
* * * * *
135649029 TGTTACCTTCGTTTTAAAGGATTTTTAGAAGACCTGAGTGAAATTTTGAAAGGATATTTGATTAT
1 TATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAAGGATATTCGATTAT
**
135649094 TTTAAAC-AA-TTGAAATTGCAACCCAACACGTTAGGGCACAATTCCACTG-ATTGCCAAATATC
66 TTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCAC-GAATTGCCAAATATC
135649156 GCG
130 GCG
*
135649159 TATCACCTTCG-TTTAAGGGA-TTTTAAAAGACATGAGTGAAATTTTG-AAGTGATATTCGATTA
1 TATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAAG-GATATTCGATTA
* * * *
135649221 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATC
65 TTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATC
*
135649286 GCA
130 GCG
* * * *
135649289 CATCGCCTCCGTTTTAAAGAATTTTTAA
1 TATCACCTTCGTTTTAAAGGATTTTTAA
135649317 TAATTGTGAA
Statistics
Matches: 233, Mismatches: 43, Indels: 22
0.78 0.14 0.07
Matches are distributed among these distances:
127 3 0.01
128 41 0.18
129 38 0.16
130 102 0.44
131 38 0.16
132 11 0.05
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (132 bp):
TATCACCTTCGTTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTTGAAAGGATATTCGATTAT
TTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCACGAATTGCCAAATATCG
CG
Found at i:135649684 original size:2 final size:2
Alignment explanation
Indices: 135649677--135649701 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
135649667 AATAAGCTAG
135649677 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
135649702 GGTTGACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:135652195 original size:44 final size:44
Alignment explanation
Indices: 135652125--135652261 Score: 168
Period size: 44 Copynumber: 3.1 Consensus size: 44
135652115 CGGGAACACC
* * * *
135652125 AATCTGTTATTTTCGATCTGCTCTCTGCCAAAATAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
* * *
135652169 AATCTGCTGTCTTCGATTTG-TCCTCTGACAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCT-CTCTGCCAATACAGAGATGCCA
* **
135652213 AATCTGCTATCTTTGATCTGCTCTCTGCCAATACAGAGACACCA
1 AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
135652257 AATCT
1 AATCT
135652262 ACAGGATTTG
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 76 0.97
45 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
Found at i:135664210 original size:130 final size:129
Alignment explanation
Indices: 135664015--135664345 Score: 344
Period size: 130 Copynumber: 2.6 Consensus size: 129
135664005 ACCTAAAGGA
* * * * * ** * * * *
135664015 ATATTCGATTGTTGTAGACAAACGAGGAATCACAACCCAGCACGATAAGGCATGATTCCCGAATT
1 ATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCCGAATT
* * * * *
135664080 GTCAAACACCGAGTGTTACCTTCGTTTTAAAGGATTTTTAGAAGACCTAAGTGAAATTTTGAAAG
66 GCCAAACACCGAGTATCACCTTCG-TTTAAAGGA-TTTTAAAAGACATAAGTGAAATTTT-AAAG
135664145 -G
128 TG
* * *
135664146 ATATTTGATTATTTTAAAC-AA-TCGAAATTGCAACCCAACACGTTAGGGCACGATTCCACTAAT
1 ATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCC-CGAAT
* * * * * * *
135664209 TGCCAAATATCGCGTATCGCTTTCGTTTAAGGGATTTTAAAAGACATGAGTGAAATTTTAAAGTG
65 TGCCAAACACCGAGTATCACCTTCGTTTAAAGGATTTTAAAAGACATAAGTGAAATTTTAAAGTG
* *
135664274 ATATTCGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAAT
1 ATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCC-CGAAT
135664339 TGCCAAA
65 TGCCAAA
135664346 TATCGCACAT
Statistics
Matches: 164, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
127 4 0.02
128 39 0.24
129 37 0.23
130 69 0.42
131 15 0.09
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (129 bp):
ATATTCGATTATTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCCGAATT
GCCAAACACCGAGTATCACCTTCGTTTAAAGGATTTTAAAAGACATAAGTGAAATTTTAAAGTG
Found at i:135664277 original size:128 final size:132
Alignment explanation
Indices: 135664100--135664380 Score: 383
Period size: 130 Copynumber: 2.2 Consensus size: 132
135664090 GAGTGTTACC
* * *
135664100 TTCGTTTTAAAGGATTTTTAGAAGACCTAAGTGAAATTTTGAAAGGATATTTGATTATTTTAAAC
1 TTCGTTTTAAAGGATTTTTAAAAGACATAAGTGAAATTTTGAAAGGATATTCGATTATTTTAAAC
* *
135664165 -AA-TCGAAATTGCAACCCAACACGTTAGGGCACGATTCCACTAATTGCCAAATATCGCGTATCG
66 AAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGCGTATCG
135664228 CT
131 CT
* * * *
135664230 TTCG-TTTAAGGGA-TTTTAAAAGACATGAGTGAAATTTT-AAAGTGATATTCGATTATTTTGAG
1 TTCGTTTTAAAGGATTTTTAAAAGACATAAGTGAAATTTTGAAAG-GATATTCGATTATTTTAAA
* **
135664292 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGCACATC
65 CAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGCGTATC
*
135664357 GCC
130 GCT
* *
135664360 TCCGTTTTAAAGAATTTTTAA
1 TTCGTTTTAAAGGATTTTTAA
135664381 TAATTGTGAA
Statistics
Matches: 130, Mismatches: 16, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
127 4 0.03
128 39 0.30
129 10 0.08
130 64 0.49
131 7 0.05
132 6 0.05
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (132 bp):
TTCGTTTTAAAGGATTTTTAAAAGACATAAGTGAAATTTTGAAAGGATATTCGATTATTTTAAAC
AAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGCGTATCG
CT
Found at i:135664748 original size:2 final size:2
Alignment explanation
Indices: 135664741--135664767 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
135664731 AATAAGCTAG
135664741 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
135664768 GGTTGACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:135669119 original size:18 final size:18
Alignment explanation
Indices: 135669084--135669138 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
135669074 TATATTATAC
135669084 ATTATAAG-ATTA-TTTT
1 ATTATAAGTATTATTTTT
*
135669100 ATTATAAGTGTTATTTTT
1 ATTATAAGTATTATTTTT
* *
135669118 ATTATATGTATTATTATT
1 ATTATAAGTATTATTTTT
135669136 ATT
1 ATT
135669139 TGTTATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 22 0.67
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
ATTATAAGTATTATTTTT
Found at i:135669129 original size:15 final size:16
Alignment explanation
Indices: 135669096--135669148 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 16
135669086 TATAAGATTA
135669096 TTTTATTATAAGTGTTAT
1 TTTTATTAT-A-TGTTAT
135669114 TTTTATTATATG-TAT
1 TTTTATTATATGTTAT
* *
135669129 TATTATTATTTGTTAT
1 TTTTATTATATGTTAT
135669145 TTTT
1 TTTT
135669149 CTCAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 13 0.42
16 8 0.26
17 1 0.03
18 9 0.29
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.68
Consensus pattern (16 bp):
TTTTATTATATGTTAT
Found at i:135669516 original size:3 final size:3
Alignment explanation
Indices: 135669508--135669574 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
135669498 GTGTTAAATG
135669508 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
135669556 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
135669575 ATGTTATATT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:135672667 original size:188 final size:188
Alignment explanation
Indices: 135672350--135672726 Score: 727
Period size: 188 Copynumber: 2.0 Consensus size: 188
135672340 AGAATTTGAG
135672350 AGGAAAAATTTGGAGCTTGAGAAAAGGATAGCAAAGCTCGAAGAAGAAAAGATGTACTTGAGTTT
1 AGGAAAAATTTGGAGCTTGAGAAAAGGATAGCAAAGCTCGAAGAAGAAAAGATGTACTTGAGTTT
135672415 AGATATCAATGTCCAAAAGATGGAGGTCGAGAAAGAAAGAAAGGAAAAGAGGAAAATTGAAGAGG
66 AGATATCAATGTCCAAAAGATGGAGGTCGAGAAAGAAAGAAAGGAAAAGAGGAAAATTGAAGAGG
*
135672480 ATAGAGATGATTTGAAGGAATACTACAAAAAGGCACAGGCATCCTTGAAAAGAGCGAA
131 ATAGAGATGATTTGAAGGAACACTACAAAAAGGCACAGGCATCCTTGAAAAGAGCGAA
135672538 AGGAAAAATTTGGAGCTTGAGAAAAGGATAGCAAAGCTCGAAGAAGAAAAGATGTACTTGAGTTT
1 AGGAAAAATTTGGAGCTTGAGAAAAGGATAGCAAAGCTCGAAGAAGAAAAGATGTACTTGAGTTT
*
135672603 AGATATCGATGTCCAAAAGATGGAGGTCGAGAAAGAAAGAAAGGAAAAGAGGAAAATTGAAGAGG
66 AGATATCAATGTCCAAAAGATGGAGGTCGAGAAAGAAAGAAAGGAAAAGAGGAAAATTGAAGAGG
*
135672668 ATAGAGATGATTTGAAGGAACACTACAAAAAGGCACAGGCATCCTTGAGAAGAGCGAA
131 ATAGAGATGATTTGAAGGAACACTACAAAAAGGCACAGGCATCCTTGAAAAGAGCGAA
135672726 A
1 A
135672727 ATAGGAAGGT
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
188 186 1.00
ACGTcount: A:0.46, C:0.09, G:0.28, T:0.17
Consensus pattern (188 bp):
AGGAAAAATTTGGAGCTTGAGAAAAGGATAGCAAAGCTCGAAGAAGAAAAGATGTACTTGAGTTT
AGATATCAATGTCCAAAAGATGGAGGTCGAGAAAGAAAGAAAGGAAAAGAGGAAAATTGAAGAGG
ATAGAGATGATTTGAAGGAACACTACAAAAAGGCACAGGCATCCTTGAAAAGAGCGAA
Found at i:135680170 original size:19 final size:19
Alignment explanation
Indices: 135680125--135680170 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
135680115 TATTAATTTA
* *
135680125 AAATGAAATAGTATATAAT
1 AAATGAAATAATAAATAAT
135680144 AAAT-AAATAAATAAATAAT
1 AAATGAAAT-AATAAATAAT
135680163 -AATGAAAT
1 AAATGAAAT
135680171 GTGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (19 bp):
AAATGAAATAATAAATAAT
Found at i:135680442 original size:28 final size:30
Alignment explanation
Indices: 135680410--135680544 Score: 81
Period size: 29 Copynumber: 4.6 Consensus size: 30
135680400 TATGGAAAAC
135680410 AATATATATAAATAAT-TAGT-A-AATATAA
1 AATATATATAAA-AATATAGTAATAATATAA
*
135680438 AATATATATGAAAATATAGTAATAATATAA
1 AATATATATAAAAATATAGTAATAATATAA
* * *
135680468 AA-AAATGATGCAAAATA-A-TAATAATTTGAGA
1 AATATAT-AT-AAAAATATAGTAATAATAT-A-A
* *
135680499 AAAATA-ATATATAATATA-TAATAA-ATAA
1 AATATATATA-AAAATATAGTAATAATATAA
*
135680527 TAATATATATAATAATAT
1 -AATATATATAAAAATAT
135680545 TTATAATAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.03
28 16 0.19
29 25 0.29
30 24 0.28
31 16 0.19
32 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (30 bp):
AATATATATAAAAATATAGTAATAATATAA
Found at i:135680453 original size:30 final size:32
Alignment explanation
Indices: 135680410--135680486 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 32
135680400 TATGGAAAAC
135680410 AATATATAT--AAATAATTAGT-A-AATATAA
1 AATATATATGAAAATAATTAGTAATAATATAA
135680438 AATATATATGAAAAT-A-TAGTAATAATATAA
1 AATATATATGAAAATAATTAGTAATAATATAA
*
135680468 AA-AAATGATGCAAAATAAT
1 AATATAT-ATG-AAAATAAT
135680487 AATAATTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
28 13 0.32
29 5 0.12
30 16 0.40
31 5 0.12
32 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (32 bp):
AATATATATGAAAATAATTAGTAATAATATAA
Found at i:135680512 original size:24 final size:25
Alignment explanation
Indices: 135680481--135680540 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 25
135680471 AATGATGCAA
* *
135680481 AATA-ATAATAATTTGAGAAA-AAT
1 AATATATAATAATATAAGAAATAAT
*
135680504 AATATATAAT-ATATAATAAATAAT
1 AATATATAATAATATAAGAAATAAT
135680528 AATATAT-ATAATA
1 AATATATAATAATA
135680541 ATATTTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (25 bp):
AATATATAATAATATAAGAAATAAT
Found at i:135680514 original size:7 final size:7
Alignment explanation
Indices: 135680502--135680582 Score: 62
Period size: 7 Copynumber: 11.9 Consensus size: 7
135680492 TTTGAGAAAA
135680502 ATAATAT
1 ATAATAT
135680509 ATAATAT
1 ATAATAT
*
135680516 ATAATAA
1 ATAATAT
135680523 ATAATA-
1 ATAATAT
135680529 AT-ATAT
1 ATAATAT
135680535 ATAATA-
1 ATAATAT
*
135680541 AT-ATTT
1 ATAATAT
*
135680547 ATAATAAA
1 ATAAT-AT
*
135680555 ATAATTTT
1 ATAA-TAT
135680563 ATAATAT
1 ATAATAT
*
135680570 ATACTAT
1 ATAATAT
*
135680577 AAAATA
1 ATAATA
135680583 AGGTTAAAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 5 0.09
6 8 0.14
7 36 0.62
8 8 0.14
9 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:135680540 original size:12 final size:12
Alignment explanation
Indices: 135680501--135680572 Score: 67
Period size: 12 Copynumber: 5.9 Consensus size: 12
135680491 ATTTGAGAAA
135680501 AATAATATATAAT
1 AATAATATAT-AT
135680514 ATATAATA-A-AT
1 A-ATAATATATAT
135680525 AATAATATATAT
1 AATAATATATAT
*
135680537 AATAATATTTAT
1 AATAATATATAT
* *
135680549 AATAAAATAATTT
1 AATAATAT-ATAT
*
135680562 TATAATATATA
1 AATAATATATA
135680573 CTATAAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 6 0.12
11 4 0.08
12 22 0.46
13 10 0.21
14 6 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATAATATATAT
Found at i:135680603 original size:25 final size:25
Alignment explanation
Indices: 135680549--135680635 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
135680539 TAATATTTAT
* *
135680549 AATAAAATAATTTTATAAT-ATATA
1 AATAAAATAATGTTAAAATAATATA
* *
135680573 CTATAAAATAAGGTTAAAATAATATA
1 -AATAAAATAATGTTAAAATAATATA
*
135680599 AATAACAATATATG-AAAAATATATATA
1 AATAA-AATA-ATGTTAAAATA-ATATA
*
135680626 TATAAAATAA
1 AATAAAATAA
135680636 ATAAGAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
25 20 0.40
26 19 0.38
27 11 0.22
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.33
Consensus pattern (25 bp):
AATAAAATAATGTTAAAATAATATA
Found at i:135685154 original size:15 final size:15
Alignment explanation
Indices: 135685136--135685174 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
135685126 AATTATTATT
135685136 ATTATTTTATATTTA
1 ATTATTTTATATTTA
135685151 ATTATTTTATATTTA
1 ATTATTTTATATTTA
*
135685166 ACTATTTTA
1 ATTATTTTA
135685175 GAATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTTATATTTA
Found at i:135693697 original size:24 final size:26
Alignment explanation
Indices: 135693657--135693707 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 26
135693647 ATTGGGACAT
135693657 TTTTCAATGTCAACATG-CAA-TGAA
1 TTTTCAATGTCAACATGACAATTGAA
*
135693681 TTTTC-ATGTGAATCATGACAATTGAA
1 TTTTCAATGTCAA-CATGACAATTGAA
135693707 T
1 T
135693708 AAACGTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 6 0.26
24 9 0.39
25 3 0.13
26 5 0.22
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (26 bp):
TTTTCAATGTCAACATGACAATTGAA
Found at i:135700642 original size:71 final size:71
Alignment explanation
Indices: 135700558--135700721 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
135700548 CGATTTGTCT
135700558 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
135700623 CTTTCA
66 CTTTCA
135700629 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
135700694 CTTTCA
66 CTTTCA
135700700 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
135700722 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:135700759 original size:71 final size:70
Alignment explanation
Indices: 135700558--135700755 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
135700548 CGATTTGTCT
* * * *
135700558 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
135700623 CTTTCA
65 CTTTCA
* * * *
135700629 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
135700694 CTTTCA
65 CTTTCA
* *
135700700 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
135700756 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:135702056 original size:6 final size:6
Alignment explanation
Indices: 135702026--135702169 Score: 82
Period size: 6 Copynumber: 23.3 Consensus size: 6
135702016 AAGAAATATC
* * *
135702026 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
135702073 GTGACAGA ATCAGA ATCAGT ATTAGGTA A-CAGA ATCAGA ATCAGA ATTAG-
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* * *
135702123 GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA AT
1 AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
135702170 GTGAATGCAA
Statistics
Matches: 104, Mismatches: 20, Indels: 28
0.68 0.13 0.18
Matches are distributed among these distances:
5 7 0.07
6 83 0.80
7 10 0.10
8 4 0.04
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:135702083 original size:25 final size:25
Alignment explanation
Indices: 135702052--135702169 Score: 182
Period size: 25 Copynumber: 4.7 Consensus size: 25
135702042 AAATGAGAAT
*
135702052 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
*
135702077 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
135702102 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
* *
135702127 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
135702152 CAGAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
135702170 GTGAATGCAA
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 84 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:135702113 original size:50 final size:50
Alignment explanation
Indices: 135702052--135702169 Score: 218
Period size: 50 Copynumber: 2.4 Consensus size: 50
135702042 AAATGAGAAT
*
135702052 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
135702102 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
*
135702152 CAGAATTAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
135702170 GTGAATGCAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (50 bp):
CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAA
Found at i:135702369 original size:27 final size:27
Alignment explanation
Indices: 135702339--135702394 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
135702329 TGCCAGGGCT
* *
135702339 ACCA-AAATAGATATTTGTGGCATAGCC
1 ACCAGAAATAGATA-ATGTGGCAAAGCC
135702366 ACCAGAAATAGATAATGTGGCAAAGCC
1 ACCAGAAATAGATAATGTGGCAAAGCC
135702393 AC
1 AC
135702395 TTAACAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
ACCAGAAATAGATAATGTGGCAAAGCC
Found at i:135702581 original size:22 final size:22
Alignment explanation
Indices: 135702553--135702616 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
135702543 GCAAATACGT
135702553 TTGGCACAAAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
135702575 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
135702597 TTGGCGCAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
135702617 AAATAATTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:135703033 original size:27 final size:27
Alignment explanation
Indices: 135703003--135703198 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
135702993 GAGGTAAAAT
* * * *
135703003 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
135703030 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
135703057 GGTATTTCTACTTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
135703084 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
135703111 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
135703138 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
135703165 AGTAATTCTACCCTATAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
135703192 AGTAATT
1 GGTAATT
135703199 TTGTAAATCG
Statistics
Matches: 152, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:135710647 original size:43 final size:42
Alignment explanation
Indices: 135710600--135710747 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
135710590 CAGATGAGGT
* *
135710600 CTTACATGAAATCAAATATTGATGCCACTGTCCCAGACAGGGC
1 CTTACACGAAATCAAATA-TGATGCCAATGTCCCAGACAGGGC
* * *
135710643 CTTACACGAAATCATATATGATGCCAATGTCCCAGACATGGT
1 CTTACACGAAATCAAATATGATGCCAATGTCCCAGACAGGGC
* * *
135710685 CTTACACGTAAATCTCAAAT-CGATGCC-ATCGTCCTAGAC-GTGGT
1 CTTACACG-AAA--TCAAATATGATGCCAAT-GTCCCAGACAG-GGC
*
135710729 CTTACACGAAATCACATAT
1 CTTACACGAAATCAAATAT
135710748 TGGAATCCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
41 5 0.06
42 29 0.33
43 24 0.27
44 25 0.28
45 5 0.06
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
CTTACACGAAATCAAATATGATGCCAATGTCCCAGACAGGGC
Found at i:135710678 original size:42 final size:42
Alignment explanation
Indices: 135710597--135710747 Score: 155
Period size: 43 Copynumber: 3.5 Consensus size: 42
135710587 TCCCAGATGA
* * *
135710597 GGTCTTACATGAAATCAAATATTGATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCATATA-TGATGCCAATGTCCCAGACAG
* *
135710640 GGCCTTACACGAAATCATATATGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCATATATGATGCCAATGTCCCAGACAG
* *
135710682 GGTCTTACACGTAAATC-TCAAATCGATGCC-ATCGTCCTAGAC-G
1 GGTCTTACACG-AAATCAT-ATAT-GATGCCAAT-GTCCCAGACAG
*
135710725 TGGTCTTACACGAAATCACATAT
1 -GGTCTTACACGAAATCATATAT
135710748 TGGAATCCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
42 30 0.33
43 36 0.40
44 25 0.27
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATCATATATGATGCCAATGTCCCAGACAG
Found at i:135714106 original size:42 final size:42
Alignment explanation
Indices: 135713984--135714153 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 42
135713974 ATCTGATATG
* *
135713984 TGATTTCGTGTAAGATCGC-ATCTGGGACGTTGGCATCG-ACTT
1 TGATTTCGTGTAAGA-CCCTGTCTGGGACGTTGGCATCGTA-TT
* * * **
135714026 ATGATTTACGTGTAAGACCATGTTTGGGACATCAGCATCGTATT
1 -TGATTT-CGTGTAAGACCCTGTCTGGGACGTTGGCATCGTATT
* *
135714070 TGATTTTGTGTAAGACCCTGTCTGGGACAG-TGGCATCAATATT
1 TGATTTCGTGTAAGACCCTGTCTGGGAC-GTTGGCATC-GTATT
* * *
135714113 TGATTACATGTAAGACCAC-GTCTGGGACGTTGGCATTGTAT
1 TGATTTCGTGTAAGACC-CTGTCTGGGACGTTGGCATCGTAT
135714154 GAGCTTTCTG
Statistics
Matches: 101, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.28
43 46 0.46
44 26 0.26
45 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.34
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCATCGTATT
Found at i:135718660 original size:27 final size:28
Alignment explanation
Indices: 135718629--135718682 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
135718619 CGTAGATCAC
135718629 GAAATTACCCCTAAAGA-CAAAATTACT
1 GAAATTACCCCTAAAGAGCAAAATTACT
135718656 GAAATTACCCCTAAAGAGCAAAATTAC
1 GAAATTACCCCTAAAGAGCAAAATTAC
135718683 CAATATACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.48, C:0.22, G:0.09, T:0.20
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACT
Found at i:135718691 original size:27 final size:27
Alignment explanation
Indices: 135718630--135718695 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
135718620 GTAGATCACG
*
135718630 AAATTACCCCTAAAGACAAAATTACTG
1 AAATTACCCCTAAAGACAAAATTACTC
135718657 AAATTACCCCTAAAGAGCAAAATTAC-C
1 AAATTACCCCTAAAGA-CAAAATTACTC
135718684 -AATATACCCCTA
1 AAAT-TACCCCTA
135718696 GGGTTTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 3 0.08
27 24 0.67
28 9 0.25
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (27 bp):
AAATTACCCCTAAAGACAAAATTACTC
Done.