Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 164 of 210
Found at i:49372846 original size:19 final size:18
Alignment explanation
Indices: 49372810--49372846 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
49372800 AATAAATCAC
*
49372810 TAAAAAATTATAAAAAAA
1 TAAAAAATTAAAAAAAAA
49372828 TAAAAATATTAAAAAAAAA
1 TAAAAA-ATTAAAAAAAAA
49372847 CAGCTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (18 bp):
TAAAAAATTAAAAAAAAA
Found at i:49372943 original size:39 final size:39
Alignment explanation
Indices: 49372889--49372968 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
49372879 GTCCGTATCG
*
49372889 GTTTGTGGGTTAACCAGTCTGATGCCTTTCTTCAAATCA
1 GTTTGTGGGTTAACCAGTCTGATGCCTCTCTTCAAATCA
49372928 GTTTGTGGGTTAACCAGTCTGATGCCTCTCTTCAAATCA
1 GTTTGTGGGTTAACCAGTCTGATGCCTCTCTTCAAATCA
49372967 GT
1 GT
49372969 ACCCTAGCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (39 bp):
GTTTGTGGGTTAACCAGTCTGATGCCTCTCTTCAAATCA
Found at i:49375641 original size:23 final size:22
Alignment explanation
Indices: 49375597--49375646 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
49375587 ATATATAACC
49375597 TAACCCAAAACCTTAAAACCCAA
1 TAACCCAAAACCTTAAAACCC-A
* *
49375620 TAACCCAAAGCC-TAATAGCCCA
1 TAACCCAAAACCTTAA-AACCCA
49375642 TAACC
1 TAACC
49375647 TAAACTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.46, C:0.36, G:0.04, T:0.14
Consensus pattern (22 bp):
TAACCCAAAACCTTAAAACCCA
Found at i:49377317 original size:4 final size:5
Alignment explanation
Indices: 49377280--49377306 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
49377270 AGCATAGTAT
49377280 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
49377307 GATTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:49378294 original size:41 final size:41
Alignment explanation
Indices: 49378237--49378355 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
49378227 TTTTCTTACC
* **
49378237 TTTCGGGGCTTTAGCGGCGATTTCAAAAAAGCGCCGCTAAT
1 TTTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
49378278 TTTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 TTTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
** * *
49378319 GCTAGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 TTTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
49378356 AAAAAACATT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
TTTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
Found at i:49378482 original size:25 final size:25
Alignment explanation
Indices: 49378439--49378486 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
49378429 TCTTCAGAAA
*
49378439 AAATAAAAACACGTAGAAATAATTTG
1 AAATAAAAACACATAGAAA-AATTTG
*
49378465 AAAT-AAAACACATGGAAAAATT
1 AAATAAAAACACATAGAAAAATT
49378487 AAAATACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 12 0.60
26 4 0.20
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.21
Consensus pattern (25 bp):
AAATAAAAACACATAGAAAAATTTG
Found at i:49379018 original size:15 final size:14
Alignment explanation
Indices: 49378998--49379046 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
49378988 CATATTTTAA
*
49378998 GGTTTAGGGAGTAT
1 GGTTTAGGGATTAT
49379012 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
*
49379027 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
49379041 GGTTTA
1 GGTTTA
49379047 AGGGTTGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.22, C:0.00, G:0.39, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:49379155 original size:283 final size:286
Alignment explanation
Indices: 49378630--49379496 Score: 1151
Period size: 283 Copynumber: 3.0 Consensus size: 286
49378620 TATCACTATA
* * * * *
49378630 GTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTT-ACT
1 GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAATTCA-T
* * *
49378694 ATTTTAAGGTTTAAGGAGTATGGGTTTAGGGATTATGG-TGTAAGGGTTGAGATTTAAGGTTTAA
65 ATTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGGAT-T-A--G--G-GA-TTATGGTTTAA
* * * * * * **
49378758 GGGTT-AGAAGGTTAGGAGTTTAGGGGTTAGACGTTAGAGGTTAAGAGTTAGGGATTTAGGGTTT
122 GGGTTGAG-A-TTTAAG-GCTTAGGGG-T-GATGTTAGGGGTTAAGAGTTAGGGATTAAAAGTTT
* *
49378822 AGGGATTCAGGGATCGAGTTAGGATTTTGGGAGTTTAGATT-ATT-TTTTTTAATTTATATTTTA
182 AGGGATTCAGGGGTCGAGTTAGGGTTTT-GG-GTTTAGATTAATTATTTTTTAATTTATATTTTA
*
49378885 AATATGTTCTTATATAATTGTAAAAGAGATAATAATAATTTT
245 AATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
* * * * *
49378927 GTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGTCGGTTTAGGAGTTCATA
1 GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAATTCATA
*
49378992 TTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGAGA
66 TTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGAGA
* * *
49379057 TTTAAGGCTTA-GGG-G-T-TTAGGGGTTAGACGTGTTAGGGGTTAAAAG-TTAGGGATTTAGGG
131 TTTAAGGCTTAGGGGTGATGTTAGGGGTTA-A-GAGTTAGGGATTAAAAGTTTAGGGATTCAGGG
*
49379117 GTCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATA
194 GTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATA
49379182 TAATTGTAAAAGAGATAATAATAAATTT
259 TAATTGTAAAAGAGATAATAATAAATTT
49379210 GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAATTCATA
1 GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAATTCATA
*
49379275 TTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGGGA
66 TTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGAGA
* * *
49379340 TTTAAGGTTTAGGGGTTAGATGTTAGGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGATTCAGGG
131 TTTAAGGCTTAGGGG-T-GATGTTAGGGGTTAAGAGTTAGGGATTAAAAGTTTAGGGATTCAGGG
* *
49379405 GTCGAGTTAAGGTTTTGAGTTTAGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTTAT
194 GTCGAGTTAGGGTTTTGGGTTTAGATTAATTA-TTTTTTAATTTATATTTTAAATATGTTCTTAT
*
49379470 ATGATTGTAAAAGAGATAATAATAAAT
258 ATAATTGTAAAAGAGATAATAATAAAT
49379497 CAAATATATT
Statistics
Matches: 519, Mismatches: 36, Indels: 38
0.88 0.06 0.06
Matches are distributed among these distances:
281 9 0.02
282 14 0.03
283 220 0.42
284 16 0.03
287 17 0.03
288 48 0.09
289 72 0.14
290 16 0.03
291 4 0.01
292 1 0.00
294 1 0.00
296 1 0.00
297 98 0.19
298 2 0.00
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (286 bp):
GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAAATTTAAGGCCGGTTTAGGAATTCATA
TTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGAGA
TTTAAGGCTTAGGGGTGATGTTAGGGGTTAAGAGTTAGGGATTAAAAGTTTAGGGATTCAGGGGT
CGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATA
ATTGTAAAAGAGATAATAATAAATTT
Found at i:49379318 original size:14 final size:15
Alignment explanation
Indices: 49379283--49379329 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
49379273 TATTTTAAGG
*
49379283 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
49379298 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
49379313 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
49379326 TTTA
1 TTTA
49379330 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:49379350 original size:21 final size:21
Alignment explanation
Indices: 49379276--49379393 Score: 71
Period size: 21 Copynumber: 5.5 Consensus size: 21
49379266 GAATTCATAT
*
49379276 TTTAAGGTTTAGGGAGTAT-GGA
1 TTTAAGGTTTAAGG-GT-TGGGA
* * * *
49379298 TTTAGGGATTATGGATTAGGGA
1 TTTAAGGTTTAAGGGTT-GGGA
*
49379320 -TTATGGTTTAAGGGTTGGGA
1 TTTAAGGTTTAAGGGTTGGGA
* *
49379340 TTTAAGGTTTAGGGGTT-AGA
1 TTTAAGGTTTAAGGGTTGGGA
* * *
49379360 TGTTAGGGGTTAAGAGTTAGGGA
1 T-TTAAGGTTTAAGGGTT-GGGA
49379383 TTTAAGGTTTA
1 TTTAAGGTTTA
49379394 GGGATTCAGG
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
20 8 0.11
21 39 0.54
22 22 0.31
23 3 0.04
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.38
Consensus pattern (21 bp):
TTTAAGGTTTAAGGGTTGGGA
Found at i:49379394 original size:15 final size:15
Alignment explanation
Indices: 49379326--49379399 Score: 59
Period size: 14 Copynumber: 5.1 Consensus size: 15
49379316 GGGATTATGG
*
49379326 TTTAAGGGTT-GGGA
1 TTTAAGGTTTAGGGA
49379340 TTTAAGGTTTAGGG-
1 TTTAAGGTTTAGGGA
* *
49379354 GTT-AGATGTTAGGG-
1 TTTAAGGT-TTAGGGA
*
49379368 GTTAAGAG-TTAGGGA
1 TTTAAG-GTTTAGGGA
49379383 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
49379398 TT
1 TT
49379400 CAGGGGTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
13 3 0.06
14 27 0.55
15 19 0.39
ACGTcount: A:0.24, C:0.00, G:0.38, T:0.38
Consensus pattern (15 bp):
TTTAAGGTTTAGGGA
Found at i:49384218 original size:22 final size:22
Alignment explanation
Indices: 49384157--49384220 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
49384147 GTATTCCAGG
**
49384157 CGTACTAAGCTCTCATGGCTAA
1 CGTACTAAGCTCTCATGTTTAA
*
49384179 CGTACTAAGCTCTCATGTTTCA
1 CGTACTAAGCTCTCATGTTTAA
49384201 CGTACTAAGCTCTCATGTTT
1 CGTACTAAGCTCTCATGTTT
49384221 GAACAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (22 bp):
CGTACTAAGCTCTCATGTTTAA
Found at i:49389386 original size:85 final size:86
Alignment explanation
Indices: 49389237--49389548 Score: 328
Period size: 85 Copynumber: 3.7 Consensus size: 86
49389227 GATATGTTTT
* ** * * * * *
49389237 TAGCGGCGTTTGTGTGAAAAGCGTAGCTAAAGGTC-TGTTCTATAGCGGCGTTTGTAAGAAAAAG
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTAT-GGGAAAAG
* *
49389301 CGTCGCTAAAGA-TC-TGTTCTA
65 CGCCGCTAAA-ACTCATGATCTA
* * *
49389322 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTGATGATCTATAGCGGCGTTTATGGGGAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTATGGGAAAAGC
*
49389387 GCCGCTAAAAGTCATGATCTA
66 GCCGCTAAAACTCATGATCTA
* * * * *
49389408 TAGCGACGTTTGT-GGATAAGCGCCACTAAAAGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTATGGGAAAAGC
* *
49389472 GCCGCTAAAACTCATGACCTT
66 GCCGCTAAAACTCATGATCTA
* * * * *
49389493 TAGCTGTGTTTGTGGGAAAATCGCCGCTAAAGGTCATGA-CTTTTAGCGGCGTTTAT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC-TATAGCGGCGTTTAT
49389549 TTCTAAAAAC
Statistics
Matches: 190, Mismatches: 32, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
84 1 0.01
85 119 0.63
86 70 0.37
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (86 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTATGGGAAAAGC
GCCGCTAAAACTCATGATCTA
Found at i:49389487 original size:43 final size:43
Alignment explanation
Indices: 49389237--49389546 Score: 333
Period size: 43 Copynumber: 7.3 Consensus size: 43
49389227 GATATGTTTT
* ** * *
49389237 TAGCGGCGTTTGTGTGAAAAGCGTAGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
49389279 TAGCGGCGTTTGTAAGAAAAAGCGTCGCT-AAAGATC-TGTTCTA
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAAG-TCATGATCTA
* *
49389322 TAGCGGCATTTGTGGGAAAAGCGCCGCTAAAAGTGATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* *
49389365 TAGCGGCGTTTATGGGGAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
49389408 TAGCGACGTTTGT-GGATAAGCGCCACTAAAAGTCATGATCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
49389450 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAACTCATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * * *
49389493 TAGCTGTGTTTGTGGGAAAATCGCCGCTAAAGGTCATGA-CTTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC-TA
49389536 TAGCGGCGTTT
1 TAGCGGCGTTT
49389547 ATTTCTAAAA
Statistics
Matches: 229, Mismatches: 33, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
42 67 0.29
43 162 0.71
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:49397108 original size:32 final size:32
Alignment explanation
Indices: 49397067--49397130 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
49397057 TAGCTCAAAG
49397067 GATAATTTCTCGTTACCTCACATTGATACCTT
1 GATAATTTCTCGTTACCTCACATTGATACCTT
49397099 GATAATTTCTCGTTACCTCACATTGATACCTT
1 GATAATTTCTCGTTACCTCACATTGATACCTT
49397131 AGTGGACAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (32 bp):
GATAATTTCTCGTTACCTCACATTGATACCTT
Found at i:49401067 original size:45 final size:45
Alignment explanation
Indices: 49400965--49401406 Score: 335
Period size: 45 Copynumber: 9.7 Consensus size: 45
49400955 AGCTACAACA
* * *
49400965 ACAAATCTTATTTCCTTGAAGTTGCAGTGGAGT-AGATTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
49401009 ACAAAT-TTGATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
1 ACAAATCTT-ATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
* *
49401054 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGTAAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
* * *
49401099 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
* * * * * *
49401144 GCAAATATAATCTCCCTAAAGTTGTAGTGGAG-CAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
* * * ** * *
49401188 ACAAATCCTATAC-CTCTGAAGTTGCATTGG-GTTGGATTAAATCT
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
* * *
49401232 ACCATAGTGAGTCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAA-AGTTACAAACT
1 A-CA-A---A-TCTTATCTCCCTGAAGTTGCAGTGG---AG--TAAGA-TT-GAAGCT
* * * *
49401289 ACAAATCTTATCTCCTTGAAGTTGCAATGGAG-CAGATTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
** ** ** *
49401333 ATGAATCTTATCTTTCTGAAGTTGCAGCAGAGT-AGATTGAAACT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
* * *
49401377 ACAATTCCTATAC-CCCTAAAGTTGCAGTGG
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGTGG
49401407 GTTAGAATGA
Statistics
Matches: 318, Mismatches: 57, Indels: 46
0.76 0.14 0.11
Matches are distributed among these distances:
43 3 0.01
44 124 0.39
45 128 0.40
46 4 0.01
48 2 0.01
49 1 0.00
50 20 0.06
51 22 0.07
52 1 0.00
54 1 0.00
55 2 0.01
56 5 0.02
57 5 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (45 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
Found at i:49403165 original size:3 final size:3
Alignment explanation
Indices: 49403157--49403191 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
49403147 TTATACTTCC
*
49403157 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49403192 TCATTATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:49403177 original size:15 final size:15
Alignment explanation
Indices: 49403157--49403213 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
49403147 TTATACTTCC
49403157 TTATTATTATTATTG
1 TTATTATTATTATTG
*
49403172 TTATTATTATTATTA
1 TTATTATTATTATTG
49403187 TTATTTCATTATTCA-TG
1 TTA-TT-ATTATT-ATTG
*
49403204 TTAATATTAT
1 TTATTATTAT
49403214 GATAGTAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 22 0.61
16 3 0.08
17 10 0.28
18 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (15 bp):
TTATTATTATTATTG
Found at i:49408012 original size:34 final size:33
Alignment explanation
Indices: 49407950--49408021 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
49407940 GCTATTATTT
*
49407950 TTTTTCTTTGTATATTTTTCTTTTATTAGTATA
1 TTTTTCTTTGTATATTTTTATTTTATTAGTATA
* *
49407983 TTTTTCTTT-TTTAATTTTTATTTTCATTAGTTTA
1 TTTTTCTTTGTAT-ATTTTTATTTT-ATTAGTATA
49408017 TTTTT
1 TTTTT
49408022 TAGTACATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 2 0.06
33 19 0.56
34 13 0.38
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (33 bp):
TTTTTCTTTGTATATTTTTATTTTATTAGTATA
Found at i:49415085 original size:24 final size:24
Alignment explanation
Indices: 49415025--49415085 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
49415015 TTTATGTCCT
*
49415025 AAAATTTCAGTGGATTGAACCTTG
1 AAAATTACAGTGGATTGAACCTTG
* *
49415049 AAGATTATAGTGGATTGAACCTTG
1 AAAATTACAGTGGATTGAACCTTG
*
49415073 AAAATTACGGTGG
1 AAAATTACAGTGG
49415086 GGGCAATCCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (24 bp):
AAAATTACAGTGGATTGAACCTTG
Found at i:49415499 original size:88 final size:88
Alignment explanation
Indices: 49415390--49415673 Score: 406
Period size: 88 Copynumber: 3.2 Consensus size: 88
49415380 ATGGATTGAA
* * * *
49415390 GAAGATTGTAGATATTGTCTTCCTGTACTGGCAGTGAAGCAGATTGAAAACACTAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCTTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
49415455 CCTGAGCAGCAATGGAGTAGGTT
66 CCTGAGCAGCAATGGAGTAGGTT
* * * *
49415478 GAAAATTGTAGATCTTGTCTTCTTGTACTGGCAATGAAGCAGATCGAAAACACCAACTTTATCTC
1 GAAGATTGTAGATCTTGTCTTCTTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
* * * *
49415543 CCTGAGCAGTAGTAGAGTCGGTT
66 CCTGAGCAGCAATGGAGTAGGTT
* * *
49415566 GAAGACTATAAATCTTGTCTTCTTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCTTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
*
49415631 CTTGAGCAGCAATGGAGTAGGTT
66 CCTGAGCAGCAATGGAGTAGGTT
* *
49415654 GAAGATTGCAGATCATGTCT
1 GAAGATTGTAGATCTTGTCT
49415674 CCCTAAGCAG
Statistics
Matches: 167, Mismatches: 29, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 167 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (88 bp):
GAAGATTGTAGATCTTGTCTTCTTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
CCTGAGCAGCAATGGAGTAGGTT
Found at i:49416270 original size:132 final size:132
Alignment explanation
Indices: 49415616--49416248 Score: 883
Period size: 132 Copynumber: 4.8 Consensus size: 132
49415606 AGATCGAAAA
* * * *
49415616 CACCAG-CCTTATCTCCTTGAGCAGCAATGGAGTAGGTTGAAGATTGCAGATCATGTCTCCCTAA
1 CACCAGTCC-TATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGCAGATCCTGTCTCCCTAA
*
49415680 GCAGTAGTGGAGCAGATCAAATACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
65 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
49415745 AGC
130 AGC
* * * *
49415748 CACCAGTCCTATCTCCCTGAACAGCAGTAGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGCAGATCCTGTCTCCCTAAG
* * * * * *
49415813 AAGTAGTGGAGTAAATCAAAGACGGTGAATCTTATCTTTCCAATGTAGTAGGGAAGCAAATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
49415878 GC
131 GC
* * *
49415880 CATCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGCAAATCCTATCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGCAGATCCTGTCTCCCTAAG
* ** * * *
49415945 CAGTAGTGGAGCAGATCAAAGACAGTGAAAATTATCTTTCTAAGATAGTAGGGAAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
*
49416010 GT
131 GC
* * *
49416012 CACCAGTCCTATCTTCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGTAGATCATGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGCAGATCCTGTCTCCCTAAG
* * *
49416077 CAATAGTGGAGTAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGTAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
49416142 GC
131 GC
* * * * *
49416144 CACCAGTCCTATTTCTCTGAGCTGCAGTGGAGTAAGTTAAAGATTGTAGATCCTGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGCAGATCCTGTCTCCCTAAG
* * * *
49416209 TAGTAGTGGAGCAGACCAAAGACAGCGAATCTTAT-TTCCC
66 CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCC
49416249 TAGCTTTGCA
Statistics
Matches: 441, Mismatches: 59, Indels: 3
0.88 0.12 0.01
Matches are distributed among these distances:
131 5 0.01
132 434 0.98
133 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (132 bp):
CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGATTGCAGATCCTGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
GC
Found at i:49416465 original size:51 final size:51
Alignment explanation
Indices: 49416330--49416468 Score: 165
Period size: 51 Copynumber: 2.7 Consensus size: 51
49416320 TTAAAACTGA
* * * * *
49416330 AGTGGAGCGGATTAAAGCTGAAGGCAGGGAATCCTATTTCATTGGCGTTAC
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCATTGGCATTAC
* * * *
49416381 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTC-TCTGGCATTGC
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCAT-TGGCATTAC
49416432 AGCT-GAACAGATTAAAGCTGAAGGCAGCGAATCTTAT
1 AG-TGGAACAGATTAAAGCTGAAGGCAGCGAATCTTAT
49416469 CTCCCTGACG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 72 0.97
52 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (51 bp):
AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCATTGGCATTAC
Found at i:49416624 original size:44 final size:43
Alignment explanation
Indices: 49416528--49416688 Score: 155
Period size: 44 Copynumber: 3.7 Consensus size: 43
49416518 ACAGGCTACA
* * * **
49416528 AATCTTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCCA-C
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
* *
49416571 AAACGTTATCTTCCTGAAGTTGCAGTGGAGCA-AGTTGAAGATGCC
1 AATC-TTATC-TCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATACC
* * **
49416616 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTATT
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGATACC
49416660 AATCTTATCTCTCTGAAGTTGCAGTGGAG
1 AATCTTATCTC-CTGAAGTTGCAGTGGAG
49416689 TGGATTAAAA
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
43 7 0.07
44 83 0.86
45 7 0.07
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGATACC
Found at i:49416677 original size:88 final size:88
Alignment explanation
Indices: 49416528--49416688 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 88
49416518 ACAGGCTACA
49416528 AATCTTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCCACAAACGTTATCTTCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCCACAAACGTTATCTTCCTGAAGTTG
49416593 CAGTGGAGCAAGTTGAAGATGCC
66 CAGTGGAGCAAGTTGAAGATGCC
* ** * * * * *
49416616 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGCTATTAATC-TTATC-TCTCTGAAGT
1 AATCTTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCCA-CAAACGTTATCTTC-CTGAAGT
49416679 TGCAGTGGAG
64 TGCAGTGGAG
49416689 TGGATTAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 2 0.03
88 58 0.92
89 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTACAATGGAGCAGATTAAAGCCACAAACGTTATCTTCCTGAAGTTG
CAGTGGAGCAAGTTGAAGATGCC
Found at i:49416708 original size:44 final size:44
Alignment explanation
Indices: 49416528--49416726 Score: 124
Period size: 44 Copynumber: 4.5 Consensus size: 44
49416518 ACAGGCTACA
* * * ** *
49416528 AATCTTATCTCCCTGAAGTTACAATGGAGCAGATT-AAAGCCA-C
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAA-ATATG
* * ***
49416571 AAACGTTATCT-TCCTGAAGTTGCAGTGGAGCA-AGTTGAAGATGCC
1 AATC-TTATCTCT-CTGAAGTTGCAGTGGAGCAGA-TTGAAAATATG
* ** *
49416616 AATCTTATCTC-CTTGAAGTTGTAGTGGAGCAGATTGAAGCTATT
1 AATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTGAAAATATG
**
49416660 AATCTTATCTCTCTGAAGTTGCAGTGGAGTGGATT-AAAATGATG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAAT-ATG
*
49416704 AATCTTATAC-CTCTGACGTTGCA
1 AATCTTAT-CTCTCTGAAGTTGCA
49416727 ATAAGTCGGA
Statistics
Matches: 124, Mismatches: 21, Indels: 21
0.75 0.13 0.13
Matches are distributed among these distances:
43 8 0.06
44 107 0.86
45 9 0.07
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAAATATG
Found at i:49417124 original size:24 final size:24
Alignment explanation
Indices: 49417088--49417135 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
49417078 CAATAAAAAA
*
49417088 ACAACCCATATGGCCCAATATACT
1 ACAACCCATATGGCCCAAAATACT
49417112 ACAAGCCCA-ATGGCCCAAAATACT
1 ACAA-CCCATATGGCCCAAAATACT
49417136 TAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (24 bp):
ACAACCCATATGGCCCAAAATACT
Found at i:49419013 original size:35 final size:35
Alignment explanation
Indices: 49418974--49419042 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
49418964 TATTTGAATC
49418974 TTGTGGATAAAATCTTAGTTATTTTATTTTCTTTA
1 TTGTGGATAAAATCTTAGTTATTTTATTTTCTTTA
49419009 TTGTGGATAAAATCTTAGTTATTTTATTTTCTTT
1 TTGTGGATAAAATCTTAGTTATTTTATTTTCTTT
49419043 CTTTTGTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.58
Consensus pattern (35 bp):
TTGTGGATAAAATCTTAGTTATTTTATTTTCTTTA
Found at i:49424254 original size:43 final size:43
Alignment explanation
Indices: 49424193--49424468 Score: 310
Period size: 43 Copynumber: 6.4 Consensus size: 43
49424183 TTTTGAAAAT
49424193 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTT-CCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT-TTCCCAC
* *
49424236 AAACGCCACTAAAGAACATGACCTTTAGCGGCGCTGTTT-TCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCT-TTTCCCAC
* *
49424279 AAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* *
49424322 AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * * **
49424365 AAACGCTGCTAAAG-ACAATGACCTTTAGTGACACTTTTTATCAC
1 AAACGCCGCTAAAGAAC-ATGACCTTTAGCGGCGC-TTTTCCCAC
* * * * * * *
49424409 AAACGCCACTATAGAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
49424451 AAACGCCGCTAAA-AACAT
1 AAACGCCGCTAAAGAACAT
49424469 ATCATGCAAA
Statistics
Matches: 199, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
41 4 0.02
42 20 0.10
43 153 0.77
44 20 0.10
45 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:49424354 original size:129 final size:129
Alignment explanation
Indices: 49424193--49424469 Score: 364
Period size: 129 Copynumber: 2.2 Consensus size: 129
49424183 TTTTGAAAAT
*
49424193 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTCTT-CCACAAACGCCACTAAAGA-ACATG
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTT-TTCCCACAAACGCCACTAAAGACA-ATG
* * * * * * *
49424256 ACCTTTAGCGGCGCTGTTT-TCACAAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTCCC
64 ACCTTTAGCGACACTGTTTATCACAAACGCCACTATAGAACA-AACCTTTAGCGACGCTTCTCCC
*
49424320 AC
128 AA
* **
49424322 AAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACAATGAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACAATGAC
* * *
49424387 CTTTAGTGACACTTTTTATCACAAACGCCACTATAGAACAAACCTTTAGCGACGCTTCTCGCAA
66 CTTTAGCGACACTGTTTATCACAAACGCCACTATAGAACAAACCTTTAGCGACGCTTCTCCCAA
49424451 AAACGCCGCTAAA-AACATA
1 AAACGCCGCTAAAGAACATA
49424470 TCATGCAAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
128 7 0.05
129 101 0.78
130 21 0.16
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (129 bp):
AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACAATGAC
CTTTAGCGACACTGTTTATCACAAACGCCACTATAGAACAAACCTTTAGCGACGCTTCTCCCAA
Found at i:49427359 original size:16 final size:17
Alignment explanation
Indices: 49427340--49427378 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
49427330 GGATAAGGAA
49427340 AAAAATT-TATAAAT-AT
1 AAAAATTCTA-AAATAAT
49427356 AAAAATTCTAAAATAAT
1 AAAAATTCTAAAATAAT
49427373 AAAAAT
1 AAAAAT
49427379 AAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATTCTAAAATAAT
Found at i:49428854 original size:16 final size:16
Alignment explanation
Indices: 49428833--49428889 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
49428823 TTTGGTTCGC
*
49428833 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
49428849 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
49428865 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
49428881 TGTAATGGA
1 TGTAATGGA
49428890 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:49429156 original size:18 final size:17
Alignment explanation
Indices: 49429135--49429169 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49429125 TTATTATTAA
*
49429135 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49429153 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49429170 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49429308 original size:157 final size:157
Alignment explanation
Indices: 49429022--49429338 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
49429012 TAGAATACCC
49429022 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
49429087 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
49429152 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAAAAA
* *
49429179 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
49429244 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
49429309 TATATAATTTAATAAAATTCTTAAAAA
131 TATATAATTTAATAAAATTCTTAAAAA
49429336 TTA
1 TTA
49429339 ATATTCTTAT
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAAAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAAAAA
Found at i:49429309 original size:16 final size:16
Alignment explanation
Indices: 49429272--49429313 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49429262 TTAATCATAT
*
49429272 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
49429288 TT-AAATATATTATAA
1 TTAAAATATATTATAA
49429303 TTAAAATATAT
1 TTAAAATATAT
49429314 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:49429320 original size:14 final size:15
Alignment explanation
Indices: 49429281--49429322 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49429271 TTTAAACATA
*
49429281 ATTATTATTAAATAT
1 ATTATAATTAAATAT
49429296 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
49429310 A-TATAATTTAATA
1 ATTATAATTAAATA
49429323 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:49429410 original size:120 final size:121
Alignment explanation
Indices: 49429270--49429566 Score: 453
Period size: 120 Copynumber: 2.5 Consensus size: 121
49429260 ATTTAATCAT
*
49429270 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * *
49429334 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGGTACTGTAAAATATAA
66 AA-TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
49429392 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
49429455 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
49429511 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
49429567 TAAAATTATT
Statistics
Matches: 164, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
119 24 0.15
120 129 0.79
121 10 0.06
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:49429440 original size:14 final size:15
Alignment explanation
Indices: 49429391--49429442 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
49429381 GTAAAATATA
49429391 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
49429406 TATTAAATATATTAT
1 AATTAAATATATTAT
49429421 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
49429434 AATTTAATA
1 AATTAAATA
49429443 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:49429493 original size:59 final size:59
Alignment explanation
Indices: 49429310--49429493 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
49429300 TAATTAAAAT
49429310 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
49429369 ATAT-ATGGTACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
49429429 T-
58 TA
* *
49429430 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
49429489 ATATA
1 ATATA
49429494 TGATACTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:49429547 original size:15 final size:15
Alignment explanation
Indices: 49429527--49429565 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
49429517 AATAATTAAT
49429527 ATTAAATATGATTTA
1 ATTAAATATGATTTA
49429542 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
49429559 ATAAAAT
1 ATTAAAT
49429566 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:49429552 original size:17 final size:17
Alignment explanation
Indices: 49429532--49429565 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49429522 TTAATATTAA
*
49429532 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
49429549 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
49429566 TTAAAATTAT
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:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:49429713 original size:93 final size:91
Alignment explanation
Indices: 49429611--49429790 Score: 258
Period size: 93 Copynumber: 2.0 Consensus size: 91
49429601 GAATTTGTAT
*
49429611 AATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTCATAAAATTCCTGA
1 AATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTCATAAAATT-CT--
*
49429674 TAATAA-AAAATTTTCTTATATGAATTATAC
61 TAATAATAAAATGTTCTTATATGAATTATAC
* *
49429704 AATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCATAAAATTCTTAATA
1 AATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCATAAAATTCTTAATA
49429769 ATAAAATGTTCTTATATGAATT
66 ATAAAATGTTCTTATATGAATT
49429791 TACTAAAATC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
90 6 0.08
91 19 0.24
92 2 0.03
93 49 0.61
94 4 0.05
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (91 bp):
AATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCATAAAATTCTTAATA
ATAAAATGTTCTTATATGAATTATAC
Found at i:49437274 original size:15 final size:15
Alignment explanation
Indices: 49437257--49437344 Score: 62
Period size: 14 Copynumber: 6.1 Consensus size: 15
49437247 ACCCCTGAAT
*
49437257 CCCTAAACCTTAAAT
1 CCCTAAACCTTAAAC
49437272 CCCT-AACTCTT-AAC
1 CCCTAAAC-CTTAAAC
*
49437286 CCCT-AACATCT-AAC
1 CCCTAAACCT-TAAAC
*
49437300 CCCTAAACCCCT-AAC
1 CCCTAAA-CCTTAAAC
*
49437315 CCCTAAACCTTAAAT
1 CCCTAAACCTTAAAC
*
49437330 CCC-AACCCTTAAAC
1 CCCTAAACCTTAAAC
49437344 C
1 C
49437345 ATAATCCTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 1 0.02
14 33 0.55
15 25 0.42
16 1 0.02
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (15 bp):
CCCTAAACCTTAAAC
Found at i:49437292 original size:7 final size:7
Alignment explanation
Indices: 49437272--49437320 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
49437262 AACCTTAAAT
49437272 CCCTAAC
1 CCCTAAC
* *
49437279 TCTTAAC
1 CCCTAAC
49437286 CCCTAAC
1 CCCTAAC
**
49437293 ATCTAAC
1 CCCTAAC
49437300 CCCTAAAC
1 CCCT-AAC
49437308 CCCTAAC
1 CCCTAAC
49437315 CCCTAA
1 CCCTAA
49437321 ACCTTAAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:49437342 original size:21 final size:22
Alignment explanation
Indices: 49437283--49437344 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
49437273 CCTAACTCTT
** * *
49437283 AACCCCTAACATCTAACCCCTA
1 AACCCCTAACCCCTAAACCTTA
49437305 AACCCCTAACCCCTAAACCTTA
1 AACCCCTAACCCCTAAACCTTA
* *
49437327 AATCCC-AACCCTTAAACC
1 AACCCCTAACCCCTAAACC
49437345 ATAATCCTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 11 0.32
22 23 0.68
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (22 bp):
AACCCCTAACCCCTAAACCTTA
Found at i:49437649 original size:15 final size:15
Alignment explanation
Indices: 49437570--49437655 Score: 54
Period size: 15 Copynumber: 5.9 Consensus size: 15
49437560 CCCTAACTTT
*
49437570 TAATCCCTAAACCCC
1 TAATCCCTAAACCCA
* *
49437585 TAA-CCCTCTAACCCC
1 TAATCCCT-AAACCCA
* *
49437600 TAAACCTTAAATCCC-
1 TAATCCCTAAA-CCCA
* *
49437615 -AACCCCT-AATCCA
1 TAATCCCTAAACCCA
49437628 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
*
49437643 TACTCCCTAAACC
1 TAATCCCTAAACC
49437656 TTAAAATATG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
12 2 0.04
13 2 0.04
14 15 0.27
15 31 0.55
16 6 0.11
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:49437965 original size:41 final size:41
Alignment explanation
Indices: 49437906--49438015 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
49437896 AATATTTTTT
* * **
49437906 GCGGCGCTTTCCCAAAAACGCTGCTAAAGCTCTGGGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAACATTA
*
49437947 GCGGCGCTTTCCCCAAAACGCCGCTAAAGCCCTGAACATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAACATTA
* **
49437988 GCGGTGCTTTCTTAAAAACGCCGCTAAA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAA
49438016 TCCCCGAAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.26, C:0.31, G:0.22, T:0.21
Consensus pattern (41 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAACATTA
Found at i:49438083 original size:72 final size:72
Alignment explanation
Indices: 49437988--49438159 Score: 229
Period size: 72 Copynumber: 2.4 Consensus size: 72
49437978 CTGAACATTA
* * * * * * *
49437988 GCGGTGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGGTCGGAAAACGGCGTCGTTGGGCTTAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTCAGAAAACGACGTCGTTGGGCATAG
*
49438053 TTTTTTT
66 GTTTTTT
*
49438060 GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTTAGAAAACGACGTCGTTGGGCATAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTCAGAAAACGACGTCGTTGGGCATAG
49438125 GTTTTTT
66 GTTTTTT
* *
49438132 GCGGCGCTTT-TCCAAAACCGCCGCTAAA
1 GCGGCGCTTTCT-TAAAAACGCCGCTAAA
49438160 GCCCTGAGCA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 1 0.01
72 87 0.99
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.26
Consensus pattern (72 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTCAGAAAACGACGTCGTTGGGCATAG
GTTTTTT
Found at i:49438198 original size:113 final size:113
Alignment explanation
Indices: 49438060--49438271 Score: 379
Period size: 113 Copynumber: 1.9 Consensus size: 113
49438050 TAGTTTTTTT
49438060 GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTTAGAAAACGACGTCGTTGGGCATAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTTAGAAAACGACGTCGTTGGGCATAG
* * *
49438125 GTTTTTTGCGGCGCTTTTCCAAAACCGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTACGGCGCTTTTCCAAAAACGCCACTAAAGCCCTGAGCATTA
* *
49438173 GCGGCGCTTTCTTAAAAACGCCGCTAAAATCCCGAAAGCTTAGAAAACGACGTCGTTGGGCATAG
1 GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTTAGAAAACGACGTCGTTGGGCATAG
49438238 GTTTTTTACGGCGCTTTTCCAAAAACGCCACTAA
66 GTTTTTTACGGCGCTTTTCCAAAAACGCCACTAA
49438272 TGCTTATTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 94 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTTCTTAAAAACGCCGCTAAAACCCCAAAAGCTTAGAAAACGACGTCGTTGGGCATAG
GTTTTTTACGGCGCTTTTCCAAAAACGCCACTAAAGCCCTGAGCATTA
Found at i:49438417 original size:16 final size:18
Alignment explanation
Indices: 49438396--49438431 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
49438386 TCGATATGAC
49438396 ATTAA-TTAAAAA-TTAA
1 ATTAATTTAAAAAGTTAA
49438412 ATTAATTTAAAAAGTTAA
1 ATTAATTTAAAAAGTTAA
49438430 AT
1 AT
49438432 AACAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
ATTAATTTAAAAAGTTAA
Found at i:49438592 original size:30 final size:29
Alignment explanation
Indices: 49438557--49438619 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
49438547 AAAAAAGCCA
49438557 ATTTTTTTAAAAAATTACCGAAATGGGCC
1 ATTTTTTTAAAAAATTACCGAAATGGGCC
* ** * *
49438586 AGTTTTTTAATTATTTACCGGAATGGGCC
1 ATTTTTTTAAAAAATTACCGAAATGGGCC
49438615 ATTTT
1 ATTTT
49438620 CCGGGAAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (29 bp):
ATTTTTTTAAAAAATTACCGAAATGGGCC
Found at i:49438908 original size:24 final size:22
Alignment explanation
Indices: 49438877--49438993 Score: 71
Period size: 22 Copynumber: 5.2 Consensus size: 22
49438867 ATTTTCACAA
49438877 AAAAATTCAATATCAATATCC-TTC
1 AAAAATTC--TATCAAT-TCCGTTC
*
49438901 AAAAATTCTCTCAATTCCGTTC
1 AAAAATTCTATCAATTCCGTTC
* ***
49438923 AAAAATTCTCTCAAATTGTTTTC
1 AAAAATTCTATC-AATTCCGTTC
*
49438946 -AAAATTCTCTCAAATTCC-TTC
1 AAAAATTCTATC-AATTCCGTTC
* * *
49438967 TAAAATCCTCTCAATTTCC-TTC
1 AAAAATTCTATCAA-TTCCGTTC
49438989 AAAAA
1 AAAAA
49438994 ATCTCCAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
21 8 0.10
22 58 0.72
23 7 0.09
24 8 0.10
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.37
Consensus pattern (22 bp):
AAAAATTCTATCAATTCCGTTC
Found at i:49438923 original size:22 final size:21
Alignment explanation
Indices: 49438889--49438998 Score: 114
Period size: 22 Copynumber: 5.0 Consensus size: 21
49438879 AAATTCAATA
49438889 TCAATATCCTTCAAAAATTCTC
1 TCAAT-TCCTTCAAAAATTCTC
49438911 TCAATTCCGTTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
**
49438933 TCAAATTGTTTTC-AAAATTCTC
1 TC-AATT-CCTTCAAAAATTCTC
* *
49438955 TCAAATTCCTTCTAAAATCCTC
1 TC-AATTCCTTCAAAAATTCTC
*
49438977 TCAATTTCCTTCAAAAAATCTC
1 TCAA-TTCCTTCAAAAATTCTC
49438999 CAAATCCATA
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
21 8 0.11
22 60 0.80
23 7 0.09
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:49439099 original size:29 final size:29
Alignment explanation
Indices: 49439036--49439099 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
49439026 TAAATTTCAT
* *
49439036 TATTTTAAGAAAATTTTAAAATTTTTTAT
1 TATTTTAAAAAAATTTTAAAATTTTTTAA
*
49439065 TTTTTTAAAAATAATTTTAAAA-TTTTTAA
1 TATTTTAAAAA-AATTTTAAAATTTTTTAA
49439094 TATTTT
1 TATTTT
49439100 CAACAATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TATTTTAAAAAAATTTTAAAATTTTTTAA
Found at i:49439219 original size:14 final size:15
Alignment explanation
Indices: 49439190--49439223 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49439180 AAATTTTAAA
49439190 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
49439205 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
49439219 TTTTA
1 TTTTA
49439224 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:49441413 original size:28 final size:28
Alignment explanation
Indices: 49441368--49441577 Score: 262
Period size: 28 Copynumber: 7.9 Consensus size: 28
49441358 TTTTGACATT
* *
49441368 ATTTGATTAAAAACCCTAACATAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
49441396 ATATAATTAAAAA--C---CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
49441419 ACTTAATTAAAAACCCTAACCTAA-TTT
1 ATTTAATTAAAAACCCTAACCTAACTTA
49441446 ATTTAATTAAAAA--C---CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
49441469 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
49441497 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
49441525 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
49441553 ATTTAATTAAAAACCCTAACCTAAC
1 ATTTAATTAAAAACCCTAACCTAAC
49441578 CGCTACCGAA
Statistics
Matches: 155, Mismatches: 16, Indels: 22
0.80 0.08 0.11
Matches are distributed among these distances:
22 5 0.03
23 33 0.21
25 3 0.02
26 1 0.01
27 14 0.09
28 99 0.64
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.32
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:49441433 original size:51 final size:51
Alignment explanation
Indices: 49441373--49441577 Score: 313
Period size: 50 Copynumber: 3.9 Consensus size: 51
49441363 ACATTATTTG
* * *
49441373 ATTAAAAACCCTAACATAACTTAATATAATTAAAAACCCTAACTTAACTTA
1 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACTTAACTTA
49441424 ATTAAAAACCCTAACCTAATTT-ATTTAATTAAAAACCCTAACTTAACTTA
1 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACTTAACTTA
*
49441474 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAA-CT----TAACTTA
*
49441530 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAAC
1 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACTTAAC
49441578 CGCTACCGAA
Statistics
Matches: 142, Mismatches: 6, Indels: 12
0.89 0.04 0.08
Matches are distributed among these distances:
50 49 0.35
51 42 0.30
52 2 0.01
55 1 0.01
56 48 0.34
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (51 bp):
ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACTTAACTTA
Found at i:49442360 original size:125 final size:124
Alignment explanation
Indices: 49442139--49442394 Score: 361
Period size: 125 Copynumber: 2.1 Consensus size: 124
49442129 CCATGATGGC
* * * *
49442139 GCGATTTGACACTATTTGCTCAGAAATGTTAAAAAAATTTATTTCCTACATGACCAACTGTGGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * **
49442204 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * * *
49442263 GCGATTTTATACTATTTGTTCAGTAAACGTCACAAAAAAATTATTTCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACGTCA-AAAAAAATTATTTCCTACATGACCAACTGTAG
49442327 CGAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
64 CGAAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
49442388 GCGATTT
1 GCGATTT
49442395 CCAACTATTT
Statistics
Matches: 116, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
124 20 0.17
125 74 0.64
126 22 0.19
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCGCATCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:49442402 original size:125 final size:127
Alignment explanation
Indices: 49442169--49442405 Score: 363
Period size: 125 Copynumber: 1.9 Consensus size: 127
49442159 CAGAAATGTT
* * * *
49442169 AAAAAAATTTATTTCCTACATGACCAACTGTGGCGAAATCGCGTCCACGAGGGCGCGATTTCACA
1 AAAAAAATTTATTTCCTACATGACCAACTGTAGCGAAATCGCATCCACGAGGCCACGATTTCACA
* ** *
49442234 ATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTATACTATTTGTTCAGTAAACGTCAC
66 ATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTTCATACTATTTGTTCAGTAAACGTCAC
*
49442296 AAAAAAA-TTATTTCTTACATGACC-ACTGTAGCGAAATCGCATCCACGAGGCCACGATTTCACA
1 AAAAAAATTTATTTCCTACATGACCAACTGTAGCGAAATCGCATCCACGAGGCCACGATTTCACA
49442359 ATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTTCCA-ACTATTTG
66 ATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTT-CATACTATTTG
49442406 ACCAGATACA
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
125 76 0.76
126 17 0.17
127 7 0.07
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (127 bp):
AAAAAAATTTATTTCCTACATGACCAACTGTAGCGAAATCGCATCCACGAGGCCACGATTTCACA
ATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTTCATACTATTTGTTCAGTAAACGTCAC
Found at i:49442477 original size:7 final size:7
Alignment explanation
Indices: 49442465--49442537 Score: 83
Period size: 7 Copynumber: 10.1 Consensus size: 7
49442455 AAAAGCTTGC
49442465 ACCCTAA
1 ACCCTAA
49442472 ACCCTAAA
1 ACCCT-AA
**
49442480 AGCCAGAA
1 A-CCCTAA
*
49442488 AACCTAA
1 ACCCTAA
49442495 ACCCTAA
1 ACCCTAA
49442502 ACCCTAA
1 ACCCTAA
*
49442509 ATCCTAA
1 ACCCTAA
*
49442516 ACCTTAA
1 ACCCTAA
49442523 ACCCTAA
1 ACCCTAA
49442530 ACCCTAA
1 ACCCTAA
49442537 A
1 A
49442538 AGCTAGAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
7 46 0.85
8 6 0.11
9 2 0.04
ACGTcount: A:0.47, C:0.36, G:0.03, T:0.15
Consensus pattern (7 bp):
ACCCTAA
Found at i:49445484 original size:16 final size:17
Alignment explanation
Indices: 49445450--49445493 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
49445440 ACAAATTAGA
**
49445450 GATTTAATTATTTTTTT
1 GATTTAATTATTTAATT
49445467 GATTT-ATTATTTAATT
1 GATTTAATTATTTAATT
49445483 GATTGTAATTA
1 GATT-TAATTA
49445494 AATAATTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (17 bp):
GATTTAATTATTTAATT
Found at i:49445682 original size:28 final size:27
Alignment explanation
Indices: 49445638--49445690 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
49445628 GAGGAAATAA
*
49445638 TTTAATTATGAAATAAATTAAATTTAT
1 TTTAATTATGAAATAAATAAAATTTAT
*
49445665 TTTAATTCATTAAATAAATAAAATTT
1 TTTAATT-ATGAAATAAATAAAATTT
49445691 TGGAGAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
TTTAATTATGAAATAAATAAAATTTAT
Found at i:49447616 original size:94 final size:94
Alignment explanation
Indices: 49447451--49447644 Score: 363
Period size: 94 Copynumber: 2.1 Consensus size: 94
49447441 GACCAATTCA
*
49447451 TACC-AATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTTA
1 TACCAAATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
49447515 CAAGGATCAAGTTTATGCACTAATCTATT
66 CAAGGATCAAGTTTATGCACTAATCTATT
*
49447544 TACCAAATATATATAACATATATGAGCACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
1 TACCAAATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
49447609 CAAGGATCAAGTTTATGCACTAATCTATT
66 CAAGGATCAAGTTTATGCACTAATCTATT
49447638 TACCAAA
1 TACCAAA
49447645 CTGTATACAC
Statistics
Matches: 98, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 4 0.04
94 94 0.96
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (94 bp):
TACCAAATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
CAAGGATCAAGTTTATGCACTAATCTATT
Found at i:49449429 original size:16 final size:16
Alignment explanation
Indices: 49449408--49449438 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49449398 AATCGGGTTA
*
49449408 AAAAAATTATTTAATT
1 AAAAAATTAATTAATT
49449424 AAAAAATTAATTAAT
1 AAAAAATTAATTAAT
49449439 AATGTTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAAATTAATTAATT
Found at i:49460952 original size:7 final size:7
Alignment explanation
Indices: 49460937--49460970 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
49460927 AAATAGTGCA
49460937 AAAAAAG
1 AAAAAAG
*
49460944 AACAAAG
1 AAAAAAG
49460951 AAAAAAG
1 AAAAAAG
49460958 AAAAAAG
1 AAAAAAG
49460965 AAAAAA
1 AAAAAA
49460971 AGAGACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:49462501 original size:4 final size:4
Alignment explanation
Indices: 49462494--49462528 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
49462484 GTTAATATAT
49462494 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
49462529 TTAATTATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.23, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:49467282 original size:29 final size:28
Alignment explanation
Indices: 49467244--49467312 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 28
49467234 ATTTCTTAAC
49467244 ATTATCTTAAAAC-TTTTAAATTGTTAAA-T
1 ATTAT-TTAAAACATTTT--ATTGTTAAATT
*
49467273 ATATATTTAACAACATTTTATTTTTAAATT
1 AT-TATTTAA-AACATTTTATTGTTAAATT
49467303 ATTATTTAAA
1 ATTATTTAAA
49467313 GAATTATAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
28 1 0.03
29 21 0.60
30 9 0.26
31 4 0.11
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (28 bp):
ATTATTTAAAACATTTTATTGTTAAATT
Found at i:49469609 original size:18 final size:18
Alignment explanation
Indices: 49469582--49469624 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
49469572 ATTTAACGCA
*
49469582 TAATTTATTAT-AAAACTT
1 TAATTAATTATCAAAA-TT
49469600 TAATTAATTATCAAAATT
1 TAATTAATTATCAAAATT
*
49469618 AAATTAA
1 TAATTAA
49469625 AAAGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TAATTAATTATCAAAATT
Found at i:49469744 original size:24 final size:22
Alignment explanation
Indices: 49469725--49469770 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
49469715 CTTATCATGC
49469725 TTTAAAATATCTTCATTATCTA
1 TTTAAAATATCTTCATTATCTA
49469747 TTTAAAATATCTT-ATT-T-TA
1 TTTAAAATATCTTCATTATCTA
49469766 TTTAA
1 TTTAA
49469771 TTATCATGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.29
20 1 0.04
21 3 0.12
22 13 0.54
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTAAAATATCTTCATTATCTA
Found at i:49470352 original size:13 final size:13
Alignment explanation
Indices: 49470336--49470360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49470326 TTTTCTTGTT
49470336 TTATTATTATTTA
1 TTATTATTATTTA
49470349 TTATTATTATTT
1 TTATTATTATTT
49470361 TCACTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:49470595 original size:14 final size:13
Alignment explanation
Indices: 49470568--49470603 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
49470558 TTATATTATT
*
49470568 AAAAAATTATATA
1 AAAAAATAATATA
49470581 AAAATAATAATATA
1 AAAA-AATAATATA
49470595 AAAAAATAA
1 AAAAAATAA
49470604 AATGGACGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAAATAATATA
Found at i:49471269 original size:9 final size:9
Alignment explanation
Indices: 49471252--49471288 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49471242 TGAGTTTTCG
49471252 AATTCGAAT
1 AATTCGAAT
*
49471261 AACTCGAAT
1 AATTCGAAT
49471270 AATTCGAAT
1 AATTCGAAT
49471279 AATTCGAAT
1 AATTCGAAT
49471288 A
1 A
49471289 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49472295 original size:5 final size:5
Alignment explanation
Indices: 49472285--49472309 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49472275 CTCGAAAATT
49472285 TTCGA TTCGA TTCGA TTCGA TTCGA
1 TTCGA TTCGA TTCGA TTCGA TTCGA
49472310 CCGAATGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
TTCGA
Found at i:49475245 original size:68 final size:68
Alignment explanation
Indices: 49475136--49475302 Score: 226
Period size: 68 Copynumber: 2.5 Consensus size: 68
49475126 GCGAACTTCT
* * * * *
49475136 TATGTTGCCATAGCCTAGCTATGGTCTTACATAGTATTAACCGATGTTTACTGTCCTACTAGACT
1 TATGTTACCATAGCCTAGTTATGGTCTTACACAATATTAACCGATGTTTACTATCCTACTAGACT
49475201 CCA
66 CCA
* * * * * *
49475204 TATGTTATCATAGCCTAGTTATGGTATTACACAATATTAACCTATGTTTACTATCTTAGTGGACT
1 TATGTTACCATAGCCTAGTTATGGTCTTACACAATATTAACCGATGTTTACTATCCTACTAGACT
49475269 CCA
66 CCA
*
49475272 TATGTTGCCATAGCCTAGTTATGGTCTTACA
1 TATGTTACCATAGCCTAGTTATGGTCTTACA
49475303 TATTAGACCT
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 85 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (68 bp):
TATGTTACCATAGCCTAGTTATGGTCTTACACAATATTAACCGATGTTTACTATCCTACTAGACT
CCA
Found at i:49478270 original size:89 final size:89
Alignment explanation
Indices: 49478164--49478334 Score: 243
Period size: 89 Copynumber: 1.9 Consensus size: 89
49478154 GAATTGTAGT
* *
49478164 TTCAATCTACTCCACTGCAACTTTAGGGAAAGAAAATTTGTAGCTTCAATATGCTCTACTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAAAGAAAATTTGTAGCTTCAATATGCTCCACTGTAAC
49478229 TTCAGAGAAGTAAGATTCGCTATC
66 TTCAGAGAAGTAAGATTCGCTATC
* * * * * *
49478253 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGTTCCACTGTAAC
1 TTCAATCTACTCCACTGCAACTTCAGGGAAAGAAAATTTGTAGCTTCAATATGCTCCACTGTAAC
* * *
49478318 TTCGGGGAGGTAAGATT
66 TTCAGAGAAGTAAGATT
49478335 TGTGACTTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (89 bp):
TTCAATCTACTCCACTGCAACTTCAGGGAAAGAAAATTTGTAGCTTCAATATGCTCCACTGTAAC
TTCAGAGAAGTAAGATTCGCTATC
Found at i:49478407 original size:90 final size:93
Alignment explanation
Indices: 49478297--49478527 Score: 252
Period size: 95 Copynumber: 2.5 Consensus size: 93
49478287 GATTTGTAGC
* * * * * *
49478297 TTCAATCTGTTCCACTGTAACTTCGGGGAGGTAAGATTTGTGACTTGA-TTTAATCCGACCCACT
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTAACTTCAATCCGACCCACT
*
49478361 GTAACTTCAAAGGTATAGGA-T-TTAGT
66 GCAACTTCAAAGGTATAGGATTGTTAGT
* * * ** * *
49478387 TTCAATCTACTCCACTGTAACTTCAAGGAGATAATATTTGCCACGATAACTTCAATCCGTCCCAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAAC-TTAACTTCAATCCGACCCAC
** *
49478452 TGCAACTTCAGGGGTATAGGATTTGTTATT
65 TGCAACTTCAAAGGTATAGGA-TTGTTAGT
* *
49478482 TTCAATATGCTCTACTGTAACTTCAGGGAGATAAGATTTGTAACTT
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTT
49478528 CAATCTATTC
Statistics
Matches: 112, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
90 36 0.32
91 2 0.02
92 31 0.28
94 2 0.02
95 41 0.37
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (93 bp):
TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAACTTAACTTCAATCCGACCCACT
GCAACTTCAAAGGTATAGGATTGTTAGT
Found at i:49479264 original size:89 final size:89
Alignment explanation
Indices: 49478625--49479333 Score: 603
Period size: 89 Copynumber: 7.9 Consensus size: 89
49478615 CGGTAGATTT
* * * * *
49478625 AATCTGAC-CCACTACAACTTCAGAGG-TATAGGATTTGTCGCTTTAATATGCTCCACTACAACT
1 AATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTGGCTTTAATCTGCTCCACTACAACT
* ** *
49478688 TCAAGGAGATAAGATTTACTATATTC
64 TCAGGGAGATAAGATTTGTTATCTTC
* * * ** * * *
49478714 ACTCTGCTCCACTACAACTTTAGGGAGATAAGATTTGCTATCTTCACTCTGTTCCACTACAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGGCTTTAATCTGCTCCACTACAACTT
* * *
49478779 TAGGGAGATAAGATTTG-TAGCTTT
65 CAGGGAGATAAGATTTGTTATCTTC
* ** **
49478803 AATCTGCTCCATTGCAACTTCAGGGAGATAAGATTTACGGCTTTAATCTATTCCACTACAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCACTACAACTTC
* * ** *
49478868 ATGGAGATAAGATTTATGGT-TTT
66 AGGGAGATAAGATTTGTTATCTTC
* * * ** * * *
49478891 AATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGATATCTTCAATCTGCTCTACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TGGCTTTAATCTGCTCCACTACAACTT
49478956 CAGGGAGATAAGATTT-TCTATCTTC
65 CAGGGAGATAAGATTTGT-TATCTTC
* * * * * * *
49478981 AATCTGCTCTACTGCAACTTTAAGGAGATAAGATTTGTGGCTTTAATCTTCTTCACTGCAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCACTACAACTTC
*
49479046 AGGGAGATAAAATTCATGTT-T-TT-
66 AGGGAGATAAGATT--TGTTATCTTC
* * *
49479069 AATCTGCTTCA-TCGCAACTTCAGGGAGATAAGATTTGCCACGATGACTTCAATCTG-TCCTACT
1 AATCTGCTCCACT-GCAACTTCAGGGAGATAAGATTT-----G-TGGCTTTAATCTGCTCC-ACT
* * * * * * *
49479132 GCAACTTAAGAGG-TATAGGGTTTGCTATTTTC
58 ACAACTTCAG-GGAGATAAGATTTGTTATCTTC
* * ** * * *
49479164 AATCTGCTCCACTGTAACTTCAGGAAGATAAGATTTGTAACTTTAATCTACTCTACTGCAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCACTACAACTTC
*
49479229 AGAGAGATAAGATTTGTTATCTTC
66 AGGGAGATAAGATTTGTTATCTTC
*
49479253 AATCTGATCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCACTACAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCACTACAACTTC
*
49479318 AGGGAGATAAAATTTG
66 AGGGAGATAAGATTTG
49479334 CCACCATAAC
Statistics
Matches: 497, Mismatches: 98, Indels: 50
0.77 0.15 0.08
Matches are distributed among these distances:
87 1 0.00
88 105 0.21
89 242 0.49
90 76 0.15
91 2 0.00
92 4 0.01
93 4 0.01
94 29 0.06
95 33 0.07
96 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCCACTACAACTTC
AGGGAGATAAGATTTGTTATCTTC
Found at i:49479323 original size:44 final size:44
Alignment explanation
Indices: 49478133--49479333 Score: 669
Period size: 44 Copynumber: 26.6 Consensus size: 44
49478123 GTTCCAACTT
* * * *
49478133 ACTGCAACTTCAAGGG-TATAGGAATTGTAG-TTTCAATCTACTCC
1 ACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTT-AATCTGCTCC
* * * * * * *
49478177 ACTGCAACTTTAGGGAAAGAAAATTTGTAGCTTCAATATGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * * *
49478221 ACTGTAACTTCAGAGA-AGTAAGATTCGCTATCTTCAATCTGCTCC
1 ACTGCAACTTCAGGGAGA-TAAGATTTG-TAGCTTTAATCTGCTCC
* *
49478266 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * * *
49478310 ACTGTAACTTCGGGGAGGTAAGATTTGTGACTTGATTTAATCCGAC-CC
1 ACTGCAACTTCAGGGAGATAAGATTTGT-A---GCTTTAATCTG-CTCC
* * * * *
49478358 ACTGTAACTTCAAAGG-TATAGGA-TT-TAG-TTTCAATCTACTCC
1 ACTGCAACTTC-AGGGAGATAAGATTTGTAGCTTT-AATCTGCTCC
* * * * * *
49478400 ACTGTAACTTCAAGGAGATAATATTTGCCACGATAACTTCAATCCG-TCCC
1 ACTGCAACTTCAGGGAGATAAGATTT-----G-TAGCTTTAATCTGCT-CC
* * * *
49478450 ACTGCAACTTCAGGG-GTATAGGATTTGTTA-TTTTCAATATGCTCT
1 ACTGCAACTTCAGGGAG-ATAAGATTTG-TAGCTTT-AATCTGCTCC
* * * **
49478495 ACTGTAACTTCAGGGAGATAAGATTTGTAACTTCAATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * * * * **
49478539 ACTGTAACTTTAGGGAAATAAGATTTATAGCTTGTAGCTTTAATCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTT-TA-ATCTGCTCC
* * ** * * *
49478585 -CTTCCGACTTCAAAGAAATAAGACTCGCTACGGTAGATTTAATCTGAC-CC
1 AC-TGCAACTTCAGGGAGATAAGA-T---T--TGTAGCTTTAATCTG-CTCC
* * * * *
49478635 ACTACAACTTCAGAGG-TATAGGATTTGTCGCTTTAATATGCTCC
1 ACTGCAACTTCAG-GGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * ** * *
49478679 ACTACAACTTCAAGGAGATAAGATTTACTATATTCACTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTT-GTAGCTTTAATCTGCTCC
* * * * * *
49478724 ACTACAACTTTAGGGAGATAAGATTTGCTATCTTCACTCTGTTCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCC
* *
49478769 ACTACAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* *** **
49478813 ATTGCAACTTCAGGGAGATAAGATTTACGGCTTTAATCTATTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * * * *
49478857 ACTACAACTTCATGGAGATAAGATTTATGGTTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * * *
49478901 ACTGCAACTTTAGAGAGATAAGATTTGATATCTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCC
* * * *
49478946 ACTGCAACTTCAGGGAGATAAGATTTTCTATCTTCAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTGCTCC
* * * * *
49478991 ACTGCAACTTTAAGGAGATAAGATTTGTGGCTTTAATCTTCTTC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * *
49479035 ACTGCAACTTTAGGGAGATAAAATTCATGT--TTTTAATCTGCTTC
1 ACTGCAACTTCAGGGAGATAAGATT--TGTAGCTTTAATCTGCTCC
* *
49479079 A-TCGCAACTTCAGGGAGATAAGATTTGCCACGATGACTTCAATCTG-TCC
1 ACT-GCAACTTCAGGGAGATAAGATTTG----TA-G-CTTTAATCTGCTCC
* * * * *
49479128 TACTGCAACTTAAGAGG-TATAGGGTTTGCTA-TTTTCAATCTGCTCC
1 -ACTGCAACTTCAG-GGAGATAAGATTTG-TAGCTTT-AATCTGCTCC
* * * * *
49479174 ACTGTAACTTCAGGAAGATAAGATTTGTAACTTTAATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* * * *
49479218 ACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTGATCC
1 ACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTGCTCC
*
49479263 ACTGCAACTTCAGGGAGATAAGATTTGTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
* *
49479307 ACTACAACTTCAGGGAGATAAAATTTG
1 ACTGCAACTTCAGGGAGATAAGATTTG
49479334 CCACCATAAC
Statistics
Matches: 900, Mismatches: 191, Indels: 132
0.74 0.16 0.11
Matches are distributed among these distances:
41 8 0.01
42 24 0.03
43 11 0.01
44 409 0.45
45 290 0.32
46 35 0.04
47 5 0.01
48 25 0.03
49 7 0.01
50 72 0.08
51 9 0.01
52 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCC
Found at i:49487486 original size:19 final size:19
Alignment explanation
Indices: 49487464--49487514 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
49487454 GGGTCTTTTT
*
49487464 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGC-TATGA
49487483 ATGAAATGTAATGCTATGA
1 ATGAAATGTAATGCTATGA
49487502 ATGAAATG-AATGC
1 ATGAAATGTAATGC
49487515 AAAAAGGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (19 bp):
ATGAAATGTAATGCTATGA
Found at i:49489316 original size:9 final size:8
Alignment explanation
Indices: 49489281--49489327 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 8
49489271 TAAAATGATA
49489281 AATAATA-
1 AATAATAT
*
49489288 AATAATAG
1 AATAATAT
*
49489296 AATACTAT
1 AATAATAT
49489304 AATAATGAT
1 AATAAT-AT
49489313 AATAATATT
1 AATAATA-T
49489322 AATAAT
1 AATAAT
49489328 GTAAAATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.21
8 12 0.35
9 15 0.44
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:49502362 original size:2 final size:2
Alignment explanation
Indices: 49502355--49502386 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
49502345 ATCAAGAATC
49502355 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49502387 TCCTTTCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49505088 original size:18 final size:18
Alignment explanation
Indices: 49505065--49505099 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
49505055 TAAAAAAAAA
49505065 AAATTATAAACCTACAAG
1 AAATTATAAACCTACAAG
49505083 AAATTATAAACCTACAA
1 AAATTATAAACCTACAA
49505100 AGATCATGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.03, T:0.23
Consensus pattern (18 bp):
AAATTATAAACCTACAAG
Found at i:49521136 original size:152 final size:147
Alignment explanation
Indices: 49520840--49521139 Score: 546
Period size: 152 Copynumber: 2.0 Consensus size: 147
49520830 CAAGTCCGGG
49520840 TAACGAAGTTCATCATTACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAGA
1 TAACGAAGTTCATCATTACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAGA
49520905 AATGGTATCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAATAACTA
66 AATGGTATCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAATAACTA
49520970 GTGACTAGAATGTTGTT
131 GTGACTAGAATGTTGTT
49520987 TAACGAAGTTCATCATTACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAGA
1 TAACGAAGTTCATCATTACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAGA
49521052 AATGGTAGAATTTCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAAT
66 AATGGT---A--TCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAAT
*
49521117 AACTAGTGACTAGAGTGTTGTT
126 AACTAGTGACTAGAATGTTGTT
49521139 T
1 T
49521140 TGCAGGTTAC
Statistics
Matches: 147, Mismatches: 1, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
147 71 0.48
150 1 0.01
152 75 0.51
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (147 bp):
TAACGAAGTTCATCATTACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAGA
AATGGTATCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAATAACTA
GTGACTAGAATGTTGTT
Found at i:49521380 original size:26 final size:26
Alignment explanation
Indices: 49521334--49521384 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
49521324 TAGAAGTACA
*
49521334 TAATTTTAGTTGCTTATTCTACAAGT
1 TAATTTTAGTTGCTTAGTCTACAAGT
*
49521360 TAATTTTAGCTT-TTTAGTCTACAAG
1 TAATTTTAG-TTGCTTAGTCTACAAG
49521385 AATAAAGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (26 bp):
TAATTTTAGTTGCTTAGTCTACAAGT
Found at i:49526593 original size:102 final size:102
Alignment explanation
Indices: 49526417--49526606 Score: 254
Period size: 102 Copynumber: 1.9 Consensus size: 102
49526407 CTGGTTTCAC
* * * * * * * *
49526417 TATCATCTAATTTCTTTAAATTATTAAGCTAGAATTCTTTTCATTTTCAAAGAGATACAGAAACA
1 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAACA
*
49526482 TAAATACGGCTAAATGGCAAGAACATGACCGCTAGTT
66 TAAATACGGCTAAATGACAAGAACATGACCGCTAGTT
* ****
49526519 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAACGAGATAAAGATGTT
1 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAACA
49526584 TAAATACGGCTAAATGACAAGAA
66 TAAATACGGCTAAATGACAAGAA
49526607 TGTTCATGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (102 bp):
TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAACA
TAAATACGGCTAAATGACAAGAACATGACCGCTAGTT
Found at i:49528810 original size:14 final size:14
Alignment explanation
Indices: 49528787--49528825 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
49528777 TTTTTCAACA
49528787 TTTTACCTTTTCTT
1 TTTTACCTTTTCTT
* *
49528801 TTTTAACTTTACTT
1 TTTTACCTTTTCTT
49528815 TTTTACCTTTT
1 TTTTACCTTTT
49528826 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTACCTTTTCTT
Found at i:49532142 original size:4 final size:4
Alignment explanation
Indices: 49532128--49532162 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
49532118 AGGAAATATG
*
49532128 ATGA TTGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
49532163 CAGACATCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.29
Consensus pattern (4 bp):
ATGA
Found at i:49533524 original size:16 final size:16
Alignment explanation
Indices: 49533499--49533567 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
49533489 TTGGTTCGCT
*
49533499 GTAATGGAATAGAGGC
1 GTAATGGAATAAAGGC
*
49533515 GTAATAGAATAAAGGC
1 GTAATGGAATAAAGGC
* **
49533531 TTAATGGAATAAAGAT
1 GTAATGGAATAAAGGC
* *
49533547 ATAATGGAATAGAGGC
1 GTAATGGAATAAAGGC
49533563 GTAAT
1 GTAAT
49533568 AGTATTCTTG
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.45, C:0.04, G:0.28, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAAAGGC
Found at i:49533747 original size:35 final size:35
Alignment explanation
Indices: 49533682--49533770 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
49533672 ATTGTTTTGT
49533682 TATAAA-ATTTTAATAAGATTATTAAAATAATATAA
1 TATAAATATTTTAATAAGATTATTAAAATAAT-TAA
* * * *
49533717 TATAAATATTTTAATCATATT-TTAACATAATTAT
1 TATAAATATTTTAATAAGATTATTAAAATAATTAA
49533751 TATTAAATATAATTTAATAA
1 TA-TAAATAT--TTTAATAA
49533771 AAAATATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.09
35 22 0.49
36 12 0.27
37 7 0.16
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (35 bp):
TATAAATATTTTAATAAGATTATTAAAATAATTAA
Found at i:49533851 original size:60 final size:56
Alignment explanation
Indices: 49533738--49533844 Score: 130
Period size: 55 Copynumber: 1.9 Consensus size: 56
49533728 TAATCATATT
*
49533738 TTAACATAATTATTATTAAATATAATTTAATAAAAAATATATAATTTAATAAAATTC
1 TTAACATAATTATTATT-AATATAATTTAATAAAAAATATATAATATAATAAAATTC
* * *
49533795 TTAATATAATTATTATT-ATATGAATTTACT-AAAATTATGAT-ATATAATAA
1 TTAACATAATTATTATTAATAT-AATTTAATAAAAAATAT-ATAATATAATAA
49533845 TATAAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
55 19 0.43
56 9 0.20
57 16 0.36
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (56 bp):
TTAACATAATTATTATTAATATAATTTAATAAAAAATATATAATATAATAAAATTC
Found at i:49537635 original size:19 final size:18
Alignment explanation
Indices: 49537611--49537655 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
49537601 AGAAATCTAG
49537611 AGAAAAGAAAATG-GAGAAA
1 AGAAAAGAAAATGTGAG--A
49537630 AGAAAAG-AAATGTGAGA
1 AGAAAAGAAAATGTGAGA
49537647 AGAAAAGAA
1 AGAAAAGAA
49537656 GCGTACCGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.33
18 6 0.25
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAAATGTGAGA
Found at i:49545773 original size:67 final size:67
Alignment explanation
Indices: 49545662--49545788 Score: 236
Period size: 67 Copynumber: 1.9 Consensus size: 67
49545652 AGGAACATCC
* *
49545662 AAATACATACCTAGATCCTTTACCTTTGTAAATCCAAGATTGTTACATAAATTAGTTGATAACAC
1 AAATACATACCTAGATCCCTTACCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGATAACAC
49545727 CT
66 CT
49545729 AAATACATACCTAGATCCCTTACCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGAT
1 AAATACATACCTAGATCCCTTACCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGAT
49545789 TCTTCCTATG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (67 bp):
AAATACATACCTAGATCCCTTACCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGATAACAC
CT
Found at i:49546481 original size:14 final size:15
Alignment explanation
Indices: 49546455--49546484 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49546445 AAACACGGTC
49546455 CATAAAAACCCATAT
1 CATAAAAACCCATAT
49546470 CATAAAAA-CCATAT
1 CATAAAAACCCATAT
49546484 C
1 C
49546485 CAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAAAAACCCATAT
Found at i:49549597 original size:22 final size:22
Alignment explanation
Indices: 49549538--49549594 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
49549528 ATCTTCAAGT
49549538 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
49549557 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
49549579 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
49549595 GATTTAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.38
22 8 0.25
23 12 0.38
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:49551439 original size:14 final size:14
Alignment explanation
Indices: 49551420--49551459 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
49551410 TTGATTGCCA
49551420 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
49551434 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
49551448 GGAAAATGTTTT
1 GTAAAATGTTTT
49551460 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:49551468 original size:20 final size:20
Alignment explanation
Indices: 49551443--49551482 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49551433 CGTAAAATGA
*
49551443 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
49551463 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
49551483 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:49551472 original size:34 final size:35
Alignment explanation
Indices: 49551428--49551494 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
49551418 CAGTAAAATG
*
49551428 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
49551462 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
49551495 CAGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:49551674 original size:22 final size:25
Alignment explanation
Indices: 49551648--49551702 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
49551638 TGATTTATTT
49551648 ATATATAAATAA-A-TCAA-ATTAA
1 ATATATAAATAATACTCAATATTAA
49551670 ATATAT-AATAATACTCAATTATTAA
1 ATATATAAATAATACTCAA-TATTAA
49551695 A-ATATAAA
1 ATATATAAA
49551703 AGCATTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 5 0.18
22 7 0.25
23 4 0.14
24 4 0.14
25 8 0.29
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATACTCAATATTAA
Found at i:49553823 original size:6 final size:6
Alignment explanation
Indices: 49553814--49553862 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
49553804 TCAAGGATAA
* * *
49553814 GGGAAG GGGAAA GGGAAG GGGAAG GGGAAG GGGAAG GGAAAG GGAAAG
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG
49553862 G
1 G
49553863 AAAATTTTCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:49555718 original size:19 final size:20
Alignment explanation
Indices: 49555692--49555746 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 20
49555682 AAAGCTGTAC
*
49555692 CAAATATTTATTTATGAAAA
1 CAAATATTTATTTATAAAAA
49555712 C-AATA-TT-TTTATAAAAA
1 CAAATATTTATTTATAAAAA
49555729 CTAAATATTTAATTTATA
1 C-AAATATTT-ATTTATA
49555747 CCTTATTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
17 10 0.34
18 2 0.07
19 8 0.28
20 3 0.10
22 6 0.21
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
CAAATATTTATTTATAAAAA
Found at i:49562754 original size:48 final size:48
Alignment explanation
Indices: 49562701--49562814 Score: 147
Period size: 48 Copynumber: 2.4 Consensus size: 48
49562691 AAAAATTTAT
* *
49562701 TTTAAAAATTAAAACAAAAATTAAAAAAGTATTTTAAAATATTTTAAAA
1 TTTAAAAATTAAAA-AAAAATTAAAAAAGTATTTTAAAAAAGTTTAAAA
* ** * *
49562750 TTAAAAAATTAAAAAGTATTTTAAAAAGTATTTTAAAAAAGTTTAAAA
1 TTTAAAAATTAAAAAAAAATTAAAAAAGTATTTTAAAAAAGTTTAAAA
*
49562798 TTTAAAAATTTAAAAAA
1 TTTAAAAATTAAAAAAA
49562815 GTATTTTAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
48 41 0.76
49 13 0.24
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (48 bp):
TTTAAAAATTAAAAAAAAATTAAAAAAGTATTTTAAAAAAGTTTAAAA
Found at i:49562762 original size:37 final size:38
Alignment explanation
Indices: 49562716--49562839 Score: 134
Period size: 38 Copynumber: 3.3 Consensus size: 38
49562706 AAATTAAAAC
49562716 AAAAATTAAAAAAGTATTTT-AAAA-TATTTTAAAATTA
1 AAAAATT-AAAAAGTATTTTAAAAAGTATTTTAAAATTA
49562753 AAAAATTAAAAAGTATTTTAAAAAGTATTTTAAAAAAGTT-
1 AAAAATTAAAAAGTATTTTAAAAAGTATTTT--AAAA-TTA
* * * *
49562793 TAAAATTTAAAA--ATTTAAAAAAGTATTTTAAAATTG
1 AAAAATTAAAAAGTATTTTAAAAAGTATTTTAAAATTA
49562829 AAAAA-TAAAAA
1 AAAAATTAAAAA
49562840 TAATAAAATA
Statistics
Matches: 76, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
35 7 0.09
36 20 0.26
37 11 0.14
38 22 0.29
40 14 0.18
41 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (38 bp):
AAAAATTAAAAAGTATTTTAAAAAGTATTTTAAAATTA
Found at i:49562775 original size:12 final size:12
Alignment explanation
Indices: 49562758--49562788 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
49562748 AATTAAAAAA
49562758 TTAAAAAGTATT
1 TTAAAAAGTATT
49562770 TTAAAAAGTATT
1 TTAAAAAGTATT
49562782 TTAAAAA
1 TTAAAAA
49562789 AGTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (12 bp):
TTAAAAAGTATT
Found at i:49565046 original size:630 final size:630
Alignment explanation
Indices: 49563838--49565083 Score: 1807
Period size: 630 Copynumber: 2.0 Consensus size: 630
49563828 ACTTTATTTA
* ** * *
49563838 TAATTTAGTCCTTTTCTATTTTAGTTAATTAATTAGGTTAATTAACCTTTAACTTATGTTTTGTT
1 TAATTTAGTCCTTTTCTATTTCAGTTAATTAATTACCTTAATTAACCTTTAAATTATGTTTTGTC
* * * *
49563903 GTAATATAGACATTAGTGAGTAGCTAGCTAGATTCCTTTCTTGCATGCTTGATTGAATAGAAAAC
66 GTAATATAGACATCAGTGAGTAGCTAGCTAGACTCCTTTCTTGCATGCTTAATTGAATACAAAAC
* * * * *
49563968 ATTAAATCGCTGACTCATTTGGGTTCAACCCTTTGGAATACTTCGTGTTCCATCGGATTATAAAT
131 ATTAAACCGCTAACTCATTTGGGTTCAACCCCTTGAAATACTTCGTGTTCCATCGAATTATAAAT
* * * * * *
49564033 ATTACAACTGACATTGTACGATTGCAGTTAAAACTGTTCTTTAAAATAGTTTTTTTTATAAAATC
196 ATTACAACTAAAACTGTACGATTGCAGTTAAAACTGCTCCTTAAAATAGTTTTTTTTATAAAAGC
* * ** * * *
49564098 AGTTACTTTTACGTGCATGCGATATAGCGGTCAACTGAGCAATAGAGCTCAATGTTATTTCCATG
261 AATCACTTTTACGTGCACACGAGATAGCGGTCAACTAAGCAATAGAGCTCAATGGTATTTCCATG
* * *
49564163 ATTCAAATTATTATAATACGAAATCCAAATCAATTGCATATAACTAATTTCAAATGCAAATATTA
326 ATTCAAATCATTATAATACAAAATCCAAATCAATTGCATATAACTAATTTCAAATG-----A-GA
* *
49564228 ACTAATTCACATATAAATTATGCAAATCTTCAAATCATACAACAATATACATATGTAAAAAATAC
385 ACTAATTCACATACAAATTATGCAAATCTTCAAATCATACAACAATATACAAATGTAAAAAATAC
*
49564293 ACTAGTTATGTCAATTGATTCAACTAAGCATATTGTCTTAATTAATAACTAAATGAACATACTAT
450 ACTAGTTATGTCAATTGATTCAACTAAGCATATTGTCTTAATTAACAACTAAATGAACATACTAT
*
49564358 ACCGATTTGATTTAAATTCACATTTCTTTCACTTTTATGCATTCAATAAAGTTTACATATCA-TT
515 ACCGATTTGATTTAAATTCACATTTCTTTCACTTTTATGCATTCAATAAAGTTTACATATAATTT
* * *
49564422 TCTGAACTGAAAACAATTCAAA-CATTGTCTTTAAATTAGCTTAATTAACCTT
580 TC-AAACCGAAAACAATT-AAACCATTATCTTTAAATTAGCTTAATTAACCTT
*
49564474 TAATTTAGTCCTTTTCTGTTTCAGTTAATTAATTACCTTAATTAACCTTTAAATTATGTTTTGTC
1 TAATTTAGTCCTTTTCTATTTCAGTTAATTAATTACCTTAATTAACCTTTAAATTATGTTTTGTC
* * *
49564539 GTAATATAGACGTCAGTGAGTAGCTAGCTAGACTCCTTTCTTGCATGTTTAATTGAATACAAATC
66 GTAATATAGACATCAGTGAGTAGCTAGCTAGACTCCTTTCTTGCATGCTTAATTGAATACAAAAC
* **
49564604 ATTAAACCGCTAACTCCTTTGGGTTTGACCCCTTGAAATACTTCGTGTTCCATCAGAATTATAAA
131 ATTAAACCGCTAACTCATTTGGGTTCAACCCCTTGAAATACTTCGTGTTCCATC-GAATTATAAA
* *
49564669 TATTACAACTAAAACTGTACGCTTGCAGTTAAAATTGCTCCTTAAAATAGTTTTTTTTATAAAAG
195 TATTACAACTAAAACTGTACGATTGCAGTTAAAACTGCTCCTTAAAATAGTTTTTTTTATAAAAG
** * ** ** * *
49564734 CAATCGGTTTTACGTGCACACGCGATAGCTTTCAGTTAAGTAATAGAGCTTAATGGTATTTCCAT
260 CAATCACTTTTACGTGCACACGAGATAGCGGTCAACTAAGCAATAGAGCTCAATGGTATTTCCAT
** *
49564799 GATTCAAATCATTATAATACAAAATCTGAATCAATTGTATATAACTAATTTCAAATG-GAACTAA
325 GATTCAAATCATTATAATACAAAATCCAAATCAATTGCATATAACTAATTTCAAATGAGAACTAA
*
49564863 TTCACATACAAATTATGCAAATCTTCAAATCATACAACAATATGCAAATGTAAAAAATACACTAG
390 TTCACATACAAATTATGCAAATCTTCAAATCATACAACAATATACAAATGTAAAAAATACACTAG
*
49564928 TTATG-CTAATTGATTCAACTAAGCATATTGTTTTAATTAACAACTAAATGAACATACTATACCG
455 TTATGTC-AATTGATTCAACTAAGCATATTGTCTTAATTAACAACTAAATGAACATACTATACCG
* * *
49564992 ATTTGATTTACATTCACATTTCTTTCACTTTTATGCATTTAATAATGTTTACATATAATTTTCAA
519 ATTTGATTTAAATTCACATTTCTTTCACTTTTATGCATTCAATAAAGTTTACATATAATTTTCAA
49565057 ACCGAAAACAATTAAACCATTATCTTT
584 ACCGAAAACAATTAAACCATTATCTTT
49565084 CCATATCGGT
Statistics
Matches: 543, Mismatches: 63, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
629 4 0.01
630 204 0.38
631 4 0.01
636 164 0.30
637 167 0.31
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (630 bp):
TAATTTAGTCCTTTTCTATTTCAGTTAATTAATTACCTTAATTAACCTTTAAATTATGTTTTGTC
GTAATATAGACATCAGTGAGTAGCTAGCTAGACTCCTTTCTTGCATGCTTAATTGAATACAAAAC
ATTAAACCGCTAACTCATTTGGGTTCAACCCCTTGAAATACTTCGTGTTCCATCGAATTATAAAT
ATTACAACTAAAACTGTACGATTGCAGTTAAAACTGCTCCTTAAAATAGTTTTTTTTATAAAAGC
AATCACTTTTACGTGCACACGAGATAGCGGTCAACTAAGCAATAGAGCTCAATGGTATTTCCATG
ATTCAAATCATTATAATACAAAATCCAAATCAATTGCATATAACTAATTTCAAATGAGAACTAAT
TCACATACAAATTATGCAAATCTTCAAATCATACAACAATATACAAATGTAAAAAATACACTAGT
TATGTCAATTGATTCAACTAAGCATATTGTCTTAATTAACAACTAAATGAACATACTATACCGAT
TTGATTTAAATTCACATTTCTTTCACTTTTATGCATTCAATAAAGTTTACATATAATTTTCAAAC
CGAAAACAATTAAACCATTATCTTTAAATTAGCTTAATTAACCTT
Found at i:49568710 original size:4 final size:4
Alignment explanation
Indices: 49568696--49568742 Score: 76
Period size: 4 Copynumber: 11.8 Consensus size: 4
49568686 ATCTTTTCAT
* *
49568696 GTTA ATTA GTTA GTTA GTTA GTTA GTTA CTTA GTTA GTTA GTTA GTT
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTT
49568743 GATAAGTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.02, G:0.21, T:0.51
Consensus pattern (4 bp):
GTTA
Found at i:49578089 original size:59 final size:58
Alignment explanation
Indices: 49577981--49578106 Score: 171
Period size: 59 Copynumber: 2.2 Consensus size: 58
49577971 AGGCTTGAGT
* * * *
49577981 TTTTTTTATCCAAGTTAAGTCTTGAACTTGTCAATTGTTCCCACATTGAGATCTAAAAC
1 TTTTTTTATCCAAGTTAAGTCCTGAACTTGACAAATGTTCCCACATTGAG-CCTAAAAC
** **
49578040 TTTTTTTATCCAAGTTAAGTCCTGAACTTGACAAATGTTCCCATGTTGAGCCTTCAAC
1 TTTTTTTATCCAAGTTAAGTCCTGAACTTGACAAATGTTCCCACATTGAGCCTAAAAC
49578098 TTTTTTTAT
1 TTTTTTTAT
49578107 TATTATCTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 14 0.24
59 45 0.76
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.43
Consensus pattern (58 bp):
TTTTTTTATCCAAGTTAAGTCCTGAACTTGACAAATGTTCCCACATTGAGCCTAAAAC
Found at i:49589245 original size:18 final size:18
Alignment explanation
Indices: 49589222--49589259 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
49589212 TCCAAGACCG
49589222 GCGGTTTGCGAGACTTAA
1 GCGGTTTGCGAGACTTAA
*
49589240 GCGGTTTGTGAGACTTAA
1 GCGGTTTGCGAGACTTAA
49589258 GC
1 GC
49589260 TCTAGCCCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (18 bp):
GCGGTTTGCGAGACTTAA
Found at i:49598583 original size:64 final size:64
Alignment explanation
Indices: 49598476--49598601 Score: 189
Period size: 64 Copynumber: 2.0 Consensus size: 64
49598466 TATCCCGATT
* * *
49598476 GGTAGTAATCCTGCATGTGTTGCGTACATACCGCAGCTATTTATGAGCGTCCTGTTATATGATC
1 GGTAGTAATCCTACATGTGTTGCGGACATACCACAGCTATTTATGAGCGTCCTGTTATATGATC
* * * *
49598540 GGTAGTGATCCTACATGTGTTGCGGACATACCACAGTTCTTTATGAGCTTCCTGTTATATGA
1 GGTAGTAATCCTACATGTGTTGCGGACATACCACAGCTATTTATGAGCGTCCTGTTATATGA
49598602 CTCTCTAGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (64 bp):
GGTAGTAATCCTACATGTGTTGCGGACATACCACAGCTATTTATGAGCGTCCTGTTATATGATC
Found at i:49598626 original size:23 final size:23
Alignment explanation
Indices: 49598584--49598642 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
49598574 AGTTCTTTAT
*
49598584 GAGCTTCCTGTTATATGACTCTCTA
1 GAGCTTCCTG--ATATGACTCGCTA
*
49598609 GAGCTTCCTGATATGACTCGCTT
1 GAGCTTCCTGATATGACTCGCTA
*
49598632 GAACTTCCTGA
1 GAGCTTCCTGA
49598643 CATATGGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 21 0.68
25 10 0.32
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (23 bp):
GAGCTTCCTGATATGACTCGCTA
Found at i:49598723 original size:26 final size:26
Alignment explanation
Indices: 49598694--49598744 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
49598684 GCTTCCCGTT
* * *
49598694 TAAAGGATCTTTGTGAGCTTCCTGAG
1 TAAAAGATCTTTATGAACTTCCTGAG
*
49598720 TAAAAGTTCTTTATGAACTTCCTGA
1 TAAAAGATCTTTATGAACTTCCTGA
49598745 TTATGGCTCT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (26 bp):
TAAAAGATCTTTATGAACTTCCTGAG
Found at i:49598818 original size:23 final size:24
Alignment explanation
Indices: 49598782--49598840 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
49598772 ATAGCTCAGA
49598782 TAAGCTTC-CTGATA-GACTCTTTG
1 TAAGCTTCTCTGATATGA-TCTTTG
*
49598805 TAAGCTTCTC-GATATGATTTTTG
1 TAAGCTTCTCTGATATGATCTTTG
*
49598828 TGAGCTTCT-TGAT
1 TAAGCTTCTCTGAT
49598841 TAATGGCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 28 0.90
24 3 0.10
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (24 bp):
TAAGCTTCTCTGATATGATCTTTG
Found at i:49598856 original size:26 final size:26
Alignment explanation
Indices: 49598824--49598875 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
49598814 CGATATGATT
*
49598824 TTTGTGAGCTTCTTGATTA-ATGGCTC
1 TTTGTGAGCTTCCTG-TTATATGGCTC
*
49598850 TTTGTGAGTTTCCTGTTATATGGCTC
1 TTTGTGAGCTTCCTGTTATATGGCTC
49598876 GAGAGAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.48
Consensus pattern (26 bp):
TTTGTGAGCTTCCTGTTATATGGCTC
Found at i:49602143 original size:51 final size:51
Alignment explanation
Indices: 49602084--49602187 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
49602074 TCCAAAAAAG
49602084 TATGTAAACTCACCTACCAATGGATGTTGAATCTACCAAAAATAATATTTT
1 TATGTAAACTCACCTACCAATGGATGTTGAATCTACCAAAAATAATATTTT
49602135 TATGTAAACTCACCTACCAATGGATGTTGAATCTACCAAAAATAATATTTT
1 TATGTAAACTCACCTACCAATGGATGTTGAATCTACCAAAAATAATATTTT
49602186 TA
1 TA
49602188 CTCCTAAATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (51 bp):
TATGTAAACTCACCTACCAATGGATGTTGAATCTACCAAAAATAATATTTT
Found at i:49603110 original size:30 final size:29
Alignment explanation
Indices: 49603076--49603136 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
49603066 GGGAGGTGGG
*
49603076 ATGGGAAGAGAATAAAAGTTTTAGGGGAAA
1 ATGGG-AGAGAATAAAAATTTTAGGGGAAA
* * *
49603106 ATGGGAGGGAGTAAAAATTTTGGGGGAAA
1 ATGGGAGAGAATAAAAATTTTAGGGGAAA
49603135 AT
1 AT
49603137 AAAAGGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGGAGAGAATAAAAATTTTAGGGGAAA
Found at i:49603444 original size:9 final size:9
Alignment explanation
Indices: 49603427--49603457 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49603417 TCGAGTTGAT
49603427 TCGAATAAC
1 TCGAATAAC
*
49603436 TCGATTAAC
1 TCGAATAAC
49603445 TCGAATAAC
1 TCGAATAAC
49603454 TCGA
1 TCGA
49603458 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:49603538 original size:16 final size:16
Alignment explanation
Indices: 49603517--49603551 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49603507 TCACCCCTAC
*
49603517 GCCAAACAGCTGTCGT
1 GCCAAACAGCTGTCAT
*
49603533 GCCAAACAGTTGTCAT
1 GCCAAACAGCTGTCAT
49603549 GCC
1 GCC
49603552 CACGATGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (16 bp):
GCCAAACAGCTGTCAT
Found at i:49604659 original size:21 final size:21
Alignment explanation
Indices: 49604635--49604678 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
49604625 ATCGGATTTT
49604635 AAAGAACCCACATCACCTCCG
1 AAAGAACCCACATCACCTCCG
49604656 AAAGAACCCACATCACCTCCG
1 AAAGAACCCACATCACCTCCG
49604677 AA
1 AA
49604679 CTCTATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.41, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAGAACCCACATCACCTCCG
Found at i:49609129 original size:19 final size:18
Alignment explanation
Indices: 49609085--49609130 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
49609075 GAGTTAAACG
* * *
49609085 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAATC
49609103 AATCGAATTATTCGAATC
1 AATCGAATTATTCGAATC
49609121 AACTCGAATT
1 AA-TCGAATT
49609131 TTTTTTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAATC
Found at i:49609187 original size:9 final size:9
Alignment explanation
Indices: 49609170--49609206 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
49609160 TGAGTTTTCG
49609170 AATTCGAAT
1 AATTCGAAT
*
49609179 AACTCGAAT
1 AATTCGAAT
49609188 AATTCGAAT
1 AATTCGAAT
49609197 AATTCGAAT
1 AATTCGAAT
49609206 A
1 A
49609207 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:49610475 original size:23 final size:24
Alignment explanation
Indices: 49610449--49610496 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
49610439 AGATTGAAAG
*
49610449 CCAAA-ACGTGCTAGGTTAGCAGA
1 CCAAAGACGTGCTAGGGTAGCAGA
*
49610472 CCAAAGACGTGCTAGGGTAGTAGA
1 CCAAAGACGTGCTAGGGTAGCAGA
49610496 C
1 C
49610497 TTTTAGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (24 bp):
CCAAAGACGTGCTAGGGTAGCAGA
Done.