Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 161 of 187
Found at i:48824444 original size:16 final size:15
Alignment explanation
Indices: 48824417--48824460 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
48824407 AATGGACAAG
*
48824417 AAAAATAATAAAAAT
1 AAAAAAAATAAAAAT
*
48824432 AAAATAAAATAAAACT
1 AAAA-AAAATAAAAAT
*
48824448 AAAAGAAATAAAA
1 AAAAAAAATAAAA
48824461 TTTATTAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:48826415 original size:34 final size:34
Alignment explanation
Indices: 48826368--48826465 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 34
48826358 AACATATAGG
* *
48826368 CTCGCAT-TAACCTACGGTTCGCATAACATATAAA
1 CTCGCATAT-ACCTAGGGTTCGCATAACATACAAA
* * *
48826402 CTCGCGTATACCTAGGGTTCACA-AATCATACAAG
1 CTCGCATATACCTAGGGTTCGCATAA-CATACAAA
* * *
48826436 GTCGCATATTCCTAGGGTTCGCATATCATA
1 CTCGCATATACCTAGGGTTCGCATAACATA
48826466 GTATAGTGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
33 2 0.04
34 47 0.92
35 2 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (34 bp):
CTCGCATATACCTAGGGTTCGCATAACATACAAA
Found at i:48826731 original size:21 final size:19
Alignment explanation
Indices: 48826706--48826756 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
48826696 TATAAACATT
48826706 TAGGTTTGCATATACTACAAA
1 TAGGTTTGCATATA-TAC-AA
* *
48826727 TAGGTTTACATGTATACAA
1 TAGGTTTGCATATATACAA
48826746 T--GTTTGCATAT
1 TAGGTTTGCATAT
48826757 TACCTAGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 8 0.31
19 3 0.12
20 3 0.12
21 12 0.46
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
TAGGTTTGCATATATACAA
Found at i:48830065 original size:18 final size:17
Alignment explanation
Indices: 48830034--48830067 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48830024 AAACATTAGC
48830034 ATTTTTTTAATTATAAT
1 ATTTTTTTAATTATAAT
*
48830051 ATTTTTTATAGTTATAA
1 ATTTTTT-TAATTATAA
48830068 GTTATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTTTTAATTATAAT
Found at i:48832002 original size:32 final size:31
Alignment explanation
Indices: 48831961--48832025 Score: 112
Period size: 32 Copynumber: 2.1 Consensus size: 31
48831951 AACTTTCATA
48831961 TTTTTTGTTTGAGGTTTATTATGCGTATAATG
1 TTTTTTGTTTGAGGTTTATTATGCGTA-AATG
*
48831993 TTTTTTGTTTGAGTTTTATTATGCGTAAATG
1 TTTTTTGTTTGAGGTTTATTATGCGTAAATG
48832024 TT
1 TT
48832026 ATGTGTAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 6 0.19
32 26 0.81
ACGTcount: A:0.18, C:0.03, G:0.20, T:0.58
Consensus pattern (31 bp):
TTTTTTGTTTGAGGTTTATTATGCGTAAATG
Found at i:48851756 original size:20 final size:19
Alignment explanation
Indices: 48851709--48851758 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
48851699 TATTATATAT
48851709 AATTAAGTTAATCAAACATA
1 AATTAA-TTAATCAAACATA
* * *
48851729 ATTTAATTAATTAAACCTTA
1 AATTAATTAATCAAA-CATA
48851749 AATTAATTAA
1 AATTAATTAA
48851759 ACTAATGGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (19 bp):
AATTAATTAATCAAACATA
Found at i:48854460 original size:297 final size:297
Alignment explanation
Indices: 48853926--48854526 Score: 861
Period size: 297 Copynumber: 2.0 Consensus size: 297
48853916 AAAAATATAA
48853926 TAAAACATTTAAATTGCTCGAGAATAAGCTCATAAAGTGTAATGGAGAGCCTAATTTGATGTATC
1 TAAAACATTTAAATTGCTCGAGAATAAGCTCATAAAGTGTAATGGAGAGCCTAATTTGATGTATC
* * **
48853991 AAATTACGGAAGATCATGAGCCAATATTTCTTTCTATTTTGCTTTGCATTCAAAAACCACGTTTG
66 AAATTACGGAAGATCATGAGCCAATATTTCTTTCTATTTTGCTTTACATTCAAAAACCACATGAG
* * *
48854056 TTCAATTATACAAAGTGTATTATGTAATTCATGAATTGTGTTATTAACCAATTATATTAATGTAA
131 GTCAATTATACAAAGTATATTATGTAATCCATGAATTGTGTTATTAACCAATTATATTAATGTAA
* ** * * *
48854121 TCCATTGACTCCCTACAGTACTTAATCAACTCTTAAGTTCCCTTTGCCGTATTTGGCCAATTTAG
196 TCCATTGACTCACTACAACACTTAATCAACTCTTAAGTTCCCTATGCCGCATTTGGCCAATTCAG
* * *
48854186 GTTTCAAAAATAGCATAAAACACACTAGTTCACTTAT
261 GTATAAAAAATAGCATAAAACACACTAATTCACTTAT
* * *
48854223 TAAAACATTTAAATTTCTTGAGAATAAGCTCATCAAGTGTAATGGAGAGCCTAATTTGATGTATC
1 TAAAACATTTAAATTGCTCGAGAATAAGCTCATAAAGTGTAATGGAGAGCCTAATTTGATGTATC
* * *
48854288 AAATTAC-GACAGATCATGAGCCAATATTT-TCTTCTATTTTTCTTTACATTCAAAAACTATATG
66 AAATTACGGA-AGATCATGAGCCAATATTTCT-TTCTATTTTGCTTTACATTCAAAAACCACATG
* *
48854351 AGGTCAATTATAC-AAGTATATTAATGTAATCCATGAATTGCT-TTATTAACCAATTATGTTATT
129 AGGTCAATTATACAAAGTATATT-ATGTAATCCATGAATTG-TGTTATTAACCAATTATATTAAT
* * *
48854414 GTAATCCATTGACTCATTACAACACTTAATCAAC-CATTAGGTTCCCTATGGCGCATTTGGCCAA
192 GTAATCCATTGACTCACTACAACACTTAATCAACTC-TTAAGTTCCCTATGCCGCATTTGGCCAA
* *
48854478 TTCGGGTATAAAAAATAGCTTAAAACACACTAATTCACTTAT
256 TTCAGGTATAAAAAATAGCATAAAACACACTAATTCACTTAT
48854520 TAAAACA
1 TAAAACA
48854527 AAAACTAACT
Statistics
Matches: 270, Mismatches: 29, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
296 12 0.04
297 257 0.95
298 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (297 bp):
TAAAACATTTAAATTGCTCGAGAATAAGCTCATAAAGTGTAATGGAGAGCCTAATTTGATGTATC
AAATTACGGAAGATCATGAGCCAATATTTCTTTCTATTTTGCTTTACATTCAAAAACCACATGAG
GTCAATTATACAAAGTATATTATGTAATCCATGAATTGTGTTATTAACCAATTATATTAATGTAA
TCCATTGACTCACTACAACACTTAATCAACTCTTAAGTTCCCTATGCCGCATTTGGCCAATTCAG
GTATAAAAAATAGCATAAAACACACTAATTCACTTAT
Found at i:48858130 original size:23 final size:23
Alignment explanation
Indices: 48858104--48858147 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
48858094 AAACCAATTA
*
48858104 CAATTAAAAAGCTTCAAAAATAT
1 CAATGAAAAAGCTTCAAAAATAT
* *
48858127 CAATGAAAATGTTTCAAAAAT
1 CAATGAAAAAGCTTCAAAAAT
48858148 TTGATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.07, T:0.27
Consensus pattern (23 bp):
CAATGAAAAAGCTTCAAAAATAT
Found at i:48860433 original size:8 final size:8
Alignment explanation
Indices: 48860414--48860463 Score: 55
Period size: 8 Copynumber: 5.6 Consensus size: 8
48860404 AAATATATTT
48860414 ATTTTTTAA
1 ATTTTTT-A
48860423 ATTTTTTA
1 ATTTTTTA
48860431 ATTTTAAAATTA
1 ATTTT----TTA
48860443 ATTTTTTA
1 ATTTTTTA
48860451 ATTTTTTA
1 ATTTTTTA
48860459 ATTTT
1 ATTTT
48860464 AAAATATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 22 0.59
9 7 0.19
12 8 0.22
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
ATTTTTTA
Found at i:48860456 original size:28 final size:29
Alignment explanation
Indices: 48860414--48860468 Score: 103
Period size: 28 Copynumber: 1.9 Consensus size: 29
48860404 AAATATATTT
48860414 ATTTTTTAAATTTTTTAATTTTAAAATTA
1 ATTTTTTAAATTTTTTAATTTTAAAATTA
48860443 ATTTTTT-AATTTTTTAATTTTAAAAT
1 ATTTTTTAAATTTTTTAATTTTAAAAT
48860469 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTTAAATTTTTTAATTTTAAAATTA
Found at i:48860476 original size:11 final size:11
Alignment explanation
Indices: 48860460--48860536 Score: 76
Period size: 11 Copynumber: 7.4 Consensus size: 11
48860450 AATTTTTTAA
48860460 TTTTAAAATAT
1 TTTTAAAATAT
48860471 TTTTAAAATACT
1 TTTTAAAATA-T
48860483 TTTTAAAAT-T
1 TTTTAAAATAT
*
48860493 TTTT----TAA
1 TTTTAAAATAT
*
48860500 CTTTAAAATA-
1 TTTTAAAATAT
48860510 TTTTAAAATAT
1 TTTTAAAATAT
48860521 TTTTAAAATACT
1 TTTTAAAATA-T
48860533 TTTT
1 TTTT
48860537 TTTTTAATTT
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
6 1 0.02
7 3 0.05
10 14 0.25
11 22 0.40
12 15 0.27
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:48860485 original size:28 final size:27
Alignment explanation
Indices: 48860416--48860477 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
48860406 ATATATTTAT
48860416 TTTTTAAATTTTTTAATTTTAAAATTAA
1 TTTTTAAATTTTTTAATTTTAAAATT-A
*
48860444 TTTTTTAATTTTTTAATTTTAAAA-TA
1 TTTTTAAATTTTTTAATTTTAAAATTA
48860470 TTTTTAAA
1 TTTTTAAA
48860478 ATACTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 8 0.25
27 1 0.03
28 23 0.72
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTTAAATTTTTTAATTTTAAAATTA
Found at i:48860504 original size:29 final size:27
Alignment explanation
Indices: 48860472--48860526 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
48860462 TTAAAATATT
*
48860472 TTTAAAATACTTTTTAAAATTTTTTTAAC
1 TTTAAAATA--TTTTAAAATATTTTTAAC
48860501 TTTAAAATATTTTAAAATATTTTTAA
1 TTTAAAATATTTTAAAATATTTTTAA
48860527 AATACTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.64
29 9 0.36
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTAAAATATTTTAAAATATTTTTAAC
Found at i:48860507 original size:40 final size:38
Alignment explanation
Indices: 48860431--48860529 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 38
48860421 AAATTTTTTA
* *
48860431 ATTTTAAAATTAATTTTT-TAA-TTTTTTAATTTTAAAAT
1 ATTTTAAAA-T-ATTTTTAAAATTTTTTTAACTTTAAAAT
48860469 ATTTTTAAAATACTTTTTAAAATTTTTTTAACTTTAAAAT
1 A-TTTTAAAATA-TTTTTAAAATTTTTTTAACTTTAAAAT
48860509 ATTTTAAAATATTTTTAAAAT
1 ATTTTAAAATATTTTTAAAAT
48860530 ACTTTTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
37 1 0.02
38 17 0.31
39 20 0.36
40 17 0.31
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (38 bp):
ATTTTAAAATATTTTTAAAATTTTTTTAACTTTAAAAT
Found at i:48863401 original size:25 final size:25
Alignment explanation
Indices: 48863371--48863426 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
48863361 TTACCGAACG
48863371 CTGAAG-TCTTCCCATTTCTTTTACA
1 CTGAAGTTC-TCCCATTTCTTTTACA
*
48863396 CTGAAGTTCTCCCATTTCTTTTACT
1 CTGAAGTTCTCCCATTTCTTTTACA
48863421 CTGAAG
1 CTGAAG
48863427 AAATCCGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.43
Consensus pattern (25 bp):
CTGAAGTTCTCCCATTTCTTTTACA
Found at i:48868827 original size:21 final size:21
Alignment explanation
Indices: 48868789--48868828 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
48868779 AGTTTTTATT
*
48868789 AGTTAGATGAATTCAAGTTTA
1 AGTTAGATGAATTAAAGTTTA
48868810 AGTTAGATTG-ATTAAAGTT
1 AGTTAGA-TGAATTAAAGTT
48868829 ATTGACCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.40
Consensus pattern (21 bp):
AGTTAGATGAATTAAAGTTTA
Found at i:48880154 original size:31 final size:30
Alignment explanation
Indices: 48880119--48880178 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48880109 GGAGGTGGGA
*
48880119 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
48880150 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
48880179 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:48880406 original size:9 final size:9
Alignment explanation
Indices: 48880392--48880428 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
48880382 TATAGTTTGA
48880392 TATTCGAAT
1 TATTCGAAT
48880401 TATTCGAAT
1 TATTCGAAT
*
48880410 TATTCGAGT
1 TATTCGAAT
48880419 TATTCGAAT
1 TATTCGAAT
48880428 T
1 T
48880429 CAAAAAATCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:48880487 original size:31 final size:30
Alignment explanation
Indices: 48880411--48880487 Score: 70
Period size: 32 Copynumber: 2.6 Consensus size: 30
48880401 TATTCGAATT
**
48880411 ATTCGAGTT-ATTCG-AATTCAAAAAATCA
1 ATTCGAGTTGATTCGAAATTCAAAAAAAAA
* *
48880439 ACTCGA-TTCGAACTCGAAATTCGAAAAAAAAA
1 ATTCGAGTT-G-ATTCGAAATTC-AAAAAAAAA
48880471 ATTCGAGTTGATTCGAA
1 ATTCGAGTTGATTCGAA
48880488 TAACTCGATT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
27 2 0.05
28 5 0.14
30 4 0.11
31 11 0.30
32 13 0.35
33 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (30 bp):
ATTCGAGTTGATTCGAAATTCAAAAAAAAA
Found at i:48880500 original size:9 final size:9
Alignment explanation
Indices: 48880483--48880513 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
48880473 TCGAGTTGAT
48880483 TCGAATAAC
1 TCGAATAAC
*
48880492 TCGATTAAC
1 TCGAATAAC
48880501 TCGAATAAC
1 TCGAATAAC
48880510 TCGA
1 TCGA
48880514 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:48881870 original size:18 final size:18
Alignment explanation
Indices: 48881835--48881872 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48881825 AATCGACCGA
*
48881835 TTAACCGAATTCGATCGG
1 TTAACCGAATTCAATCGG
48881853 TTAACCGAATT-AATTCGG
1 TTAACCGAATTCAA-TCGG
48881871 TT
1 TT
48881873 TTACCCGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (18 bp):
TTAACCGAATTCAATCGG
Found at i:48882111 original size:17 final size:17
Alignment explanation
Indices: 48882085--48882127 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
48882075 AATATTAGTT
*
48882085 AATTATTTTT-TTATTA
1 AATTATTTTTCTAATTA
48882101 AATTAATTTTTCTAATTA
1 AATT-ATTTTTCTAATTA
48882119 AATTATTTT
1 AATTATTTT
48882128 CTCAACCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 9 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
AATTATTTTTCTAATTA
Found at i:48882128 original size:16 final size:16
Alignment explanation
Indices: 48882085--48882129 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
48882075 AATATTAGTT
* *
48882085 AATTATTTTTTTATTA
1 AATTATTTTCTAATTA
48882101 AATTAATTTTTCTAATTA
1 AATT-A-TTTTCTAATTA
48882119 AATTATTTTCT
1 AATTATTTTCT
48882130 CAACCCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 10 0.40
17 2 0.08
18 13 0.52
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTCTAATTA
Found at i:48884205 original size:50 final size:49
Alignment explanation
Indices: 48884126--48884230 Score: 167
Period size: 50 Copynumber: 2.1 Consensus size: 49
48884116 TTGAAACATG
* * *
48884126 ATAT-TTATAATTCTTTTTGGAAAGAATATAATGTTTTTTAATACTTTCC
1 ATATGTTATAATTCTTTTTGGAAAGAATATAACG-TGTTTAACACTTTCC
48884175 ATATGTTATAATTCTTTTTGGAAAGAATATAACGTGTTTAACACTTTCC
1 ATATGTTATAATTCTTTTTGGAAAGAATATAACGTGTTTAACACTTTCC
48884224 ATATGTT
1 ATATGTT
48884231 CTCTATAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
49 24 0.46
50 28 0.54
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (49 bp):
ATATGTTATAATTCTTTTTGGAAAGAATATAACGTGTTTAACACTTTCC
Found at i:48896527 original size:8 final size:8
Alignment explanation
Indices: 48896510--48896543 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
48896500 ATCAATAAAT
48896510 AATTTCAA
1 AATTTCAA
48896518 AATTAT-AA
1 AATT-TCAA
48896526 AATTTCAA
1 AATTTCAA
48896534 AATTTCAA
1 AATTTCAA
48896542 AA
1 AA
48896544 ATATAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 1 0.04
8 22 0.92
9 1 0.04
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTTCAA
Found at i:48899758 original size:25 final size:25
Alignment explanation
Indices: 48899728--48899807 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
48899718 TACTAATTTT
*
48899728 AGCTCGTGAGAGCTTACCGATTCAC
1 AGCTCGTGAGAGCATACCGATTCAC
* * *
48899753 AGCTCGT-ATGAGCCTACCAATTTAC
1 AGCTCGTGA-GAGCATACCGATTCAC
*
48899778 AGCTCGTGAGAGCATACCGATTCAT
1 AGCTCGTGAGAGCATACCGATTCAC
48899803 AGCTC
1 AGCTC
48899808 ATCTGAGCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.02
25 44 0.96
26 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTCAC
Found at i:48899815 original size:25 final size:25
Alignment explanation
Indices: 48899728--48899819 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
48899718 TACTAATTTT
*
48899728 AGCTCGTGA-GAGCTTACCGATTCAC
1 AGCTCGT-ATGAGCATACCGATTCAC
* * *
48899753 AGCTCGTATGAGCCTACCAATTTAC
1 AGCTCGTATGAGCATACCGATTCAC
*
48899778 AGCTCGTGA-GAGCATACCGATTCAT
1 AGCTCGT-ATGAGCATACCGATTCAC
* *
48899803 AGCTCATCTGAGCATAC
1 AGCTCGTATGAGCATAC
48899820 TTGTACAGGA
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATTCAC
Found at i:48908171 original size:23 final size:23
Alignment explanation
Indices: 48908145--48908197 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
48908135 ACTCATTGAG
48908145 CTTTACCAAGCTCACACTCCTTA
1 CTTTACCAAGCTCACACTCCTTA
48908168 CTTTACCAAGCTCACACTCCTTA
1 CTTTACCAAGCTCACACTCCTTA
48908191 CTTTACC
1 CTTTACC
48908198 TTGCAGATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.40, G:0.04, T:0.32
Consensus pattern (23 bp):
CTTTACCAAGCTCACACTCCTTA
Found at i:48916698 original size:25 final size:25
Alignment explanation
Indices: 48916670--48916724 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
48916660 CATGAGTTTT
48916670 CCGATATTGGCTCGCTTGAACCTTC
1 CCGATATTGGCTCGCTTGAACCTTC
* *
48916695 CCGATATTGGTTCGTTTGAACCTTC
1 CCGATATTGGCTCGCTTGAACCTTC
48916720 CCGAT
1 CCGAT
48916725 TAAAGGCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.35
Consensus pattern (25 bp):
CCGATATTGGCTCGCTTGAACCTTC
Found at i:48916818 original size:25 final size:25
Alignment explanation
Indices: 48916765--48916822 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
48916755 CAGCTCTCTG
*
48916765 GAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTACATGGCTCACAA
* *
48916790 GAGCTTCTCGTTATATGGCTCGA-AA
1 GAGCTTCCCGTTACATGGCTC-ACAA
48916815 GAGCTTCC
1 GAGCTTCC
48916823 TATTTATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTTCCCGTTACATGGCTCACAA
Found at i:48928206 original size:25 final size:25
Alignment explanation
Indices: 48928172--48928230 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
48928162 CTCTCCGGAG
*
48928172 CTTCCTGATATTGGCTCACTTGAAC
1 CTTCCCGATATTGGCTCACTTGAAC
* **
48928197 CTTCCCGATATTGGTTCGTTTGAAC
1 CTTCCCGATATTGGCTCACTTGAAC
48928222 CTTCCCGAT
1 CTTCCCGAT
48928231 TAAAGGCTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (25 bp):
CTTCCCGATATTGGCTCACTTGAAC
Found at i:48928288 original size:25 final size:25
Alignment explanation
Indices: 48928245--48928316 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
48928235 GGCTCTTTCA
* *
48928245 GGAGCTTCCCGATTAATGGCTCTC-T
1 GGAGCTTCCTG-TTAATGGCTCACAT
48928270 GGAGCTTCCTGTTACATGGCTCACAT
1 GGAGCTTCCTGTTA-ATGGCTCACAT
48928296 -GAGCTTCCTGTTATATGGCTC
1 GGAGCTTCCTGTTA-ATGGCTC
48928317 GAAAGAGCTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 3 0.07
25 38 0.90
26 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (25 bp):
GGAGCTTCCTGTTAATGGCTCACAT
Found at i:48928290 original size:103 final size:103
Alignment explanation
Indices: 48928096--48928316 Score: 286
Period size: 103 Copynumber: 2.2 Consensus size: 103
48928086 CTAATGAGCG
* * * *
48928096 TCCCGATATATGGCTCTTTGGAGCTTCCCAATTAAAGGCTTTTTCATGAGCTTCCCGATTAATTG
1 TCCCGATATATGGCTCTTTGAACCTTCCCAATTAAAGGCTCTTTCAGGAGCTTCCCGATTAATTG
*
48928161 GCTCTCCGGAGCTTCCTGATATTGGCTCACTTGAACCT
66 GCTCTCCGGAGCTTCCTGATAATGGCTCACTTGAACCT
* *
48928199 TCCCGATAT-TGGTTCGTTTGAACCTTCCCGATTAAAGGCTCTTTCAGGAGCTTCCCGATTAA-T
1 TCCCGATATATGGCTC-TTTGAACCTTCCCAATTAAAGGCTCTTTCAGGAGCTTCCCGATTAATT
* * * *
48928262 GGCTCTCTGGAGCTTCCTGTTACATGGCTCACATG-AGCT
65 GGCTCTCCGGAGCTTCCTGATA-ATGGCTCACTTGAACCT
* *
48928301 TCCTGTTATATGGCTC
1 TCCCGATATATGGCTC
48928317 GAAAGAGCTG
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
102 36 0.36
103 65 0.64
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (103 bp):
TCCCGATATATGGCTCTTTGAACCTTCCCAATTAAAGGCTCTTTCAGGAGCTTCCCGATTAATTG
GCTCTCCGGAGCTTCCTGATAATGGCTCACTTGAACCT
Found at i:48928324 original size:25 final size:25
Alignment explanation
Indices: 48928271--48928325 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
48928261 TGGCTCTCTG
*
48928271 GAGCTTCCTGTTACATGGCTCACAT
1 GAGCTTCCTGTTACATGGCTCACAA
*
48928296 GAGCTTCCTGTTATATGGCTCGA-AA
1 GAGCTTCCTGTTACATGGCTC-ACAA
48928321 GAGCT
1 GAGCT
48928326 GTCTATTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 26 0.96
26 1 0.04
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTGTTACATGGCTCACAA
Found at i:48936350 original size:5 final size:6
Alignment explanation
Indices: 48936335--48936380 Score: 56
Period size: 6 Copynumber: 7.2 Consensus size: 6
48936325 GTTTTCCTGC
*
48936335 AAAAAT AAAAAT AAAAAT AAAATAGT AAAAAT AAATAAT AATAAT A
1 AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT A
48936381 GGAAAATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
6 24 0.67
7 7 0.19
8 5 0.14
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:48936365 original size:20 final size:22
Alignment explanation
Indices: 48936340--48936386 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
48936330 CCTGCAAAAA
48936340 TAAAAATAAA-AATAA-AATAG
1 TAAAAATAAATAATAATAATAG
48936360 TAAAAATAAATAATAATAATAG
1 TAAAAATAAATAATAATAATAG
*
48936382 GAAAA
1 TAAAA
48936387 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 5 0.21
22 9 0.38
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.21
Consensus pattern (22 bp):
TAAAAATAAATAATAATAATAG
Found at i:48936380 original size:13 final size:13
Alignment explanation
Indices: 48936335--48936380 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
48936325 GTTTTCCTGC
48936335 AAAAATAAA-AAT
1 AAAAATAAATAAT
*
48936347 AAAAATAAAATAGT
1 AAAAAT-AAATAAT
48936361 AAAAATAAATAAT
1 AAAAATAAATAAT
*
48936374 AATAATA
1 AAAAATA
48936381 GGAAAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
12 6 0.21
13 15 0.52
14 8 0.28
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAAATAAATAAT
Found at i:48942440 original size:152 final size:152
Alignment explanation
Indices: 48942164--48942467 Score: 599
Period size: 152 Copynumber: 2.0 Consensus size: 152
48942154 GGTCGATCCC
48942164 TCAGAGACTGGTTTACTGTAAATTGTTGCTCGCTTGACCAGATTTATGTCGGGGCAGCTGTCGTG
1 TCAGAGACTGGTTTACTGTAAATTGTTGCTCGCTTGACCAGATTTATGTCGGGGCAGCTGTCGTG
48942229 CCCAAGACGTTCGGGGGGATAAAAATTTGAAAACCTGAAATTAATAGAAAAAATAACGTCAAAAG
66 CCCAAGACGTTCGGGGGGATAAAAATTTGAAAACCTGAAATTAATAGAAAAAATAACGTCAAAAG
*
48942294 TAAAGGTTGAAAATAGAATAAT
131 AAAAGGTTGAAAATAGAATAAT
48942316 TCAGAGACTGGTTTACTGTAAATTGTTGCTCGCTTGACCAGATTTATGTCGGGGCAGCTGTCGTG
1 TCAGAGACTGGTTTACTGTAAATTGTTGCTCGCTTGACCAGATTTATGTCGGGGCAGCTGTCGTG
48942381 CCCAAGACGTTCGGGGGGATAAAAATTTGAAAACCTGAAATTAATAGAAAAAATAACGTCAAAAG
66 CCCAAGACGTTCGGGGGGATAAAAATTTGAAAACCTGAAATTAATAGAAAAAATAACGTCAAAAG
48942446 AAAAGGTTGAAAATAGAATAAT
131 AAAAGGTTGAAAATAGAATAAT
48942468 AAAACCCGTG
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
152 151 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (152 bp):
TCAGAGACTGGTTTACTGTAAATTGTTGCTCGCTTGACCAGATTTATGTCGGGGCAGCTGTCGTG
CCCAAGACGTTCGGGGGGATAAAAATTTGAAAACCTGAAATTAATAGAAAAAATAACGTCAAAAG
AAAAGGTTGAAAATAGAATAAT
Found at i:48943761 original size:22 final size:22
Alignment explanation
Indices: 48943734--48943780 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
48943724 ATTAATTACA
48943734 TAAAATATGTAACTTTAGTATT
1 TAAAATATGTAACTTTAGTATT
48943756 TAAAATATGTAACTTTAGTATT
1 TAAAATATGTAACTTTAGTATT
48943778 TAA
1 TAA
48943781 TCAATTCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.45
Consensus pattern (22 bp):
TAAAATATGTAACTTTAGTATT
Found at i:48946020 original size:20 final size:20
Alignment explanation
Indices: 48945995--48946032 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48945985 GGTTTAAAAT
*
48945995 TTTTTAACTCAATTGAAACA
1 TTTTTAAATCAATTGAAACA
*
48946015 TTTTTAAATCGATTGAAA
1 TTTTTAAATCAATTGAAA
48946033 AATTGTTCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTTTAAATCAATTGAAACA
Found at i:48951079 original size:17 final size:18
Alignment explanation
Indices: 48951053--48951086 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48951043 TCTTTTCAAC
48951053 TATTTCTATA-ATTTTTA
1 TATTTCTATATATTTTTA
*
48951070 TATTTTTATATATTTTT
1 TATTTCTATATATTTTT
48951087 TAATCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTCTATATATTTTTA
Found at i:48951095 original size:19 final size:19
Alignment explanation
Indices: 48951059--48951101 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
48951049 CAACTATTTC
*
48951059 TATAATTTTTATATTTTTA
1 TATATTTTTTATATTTTTA
48951078 TATATTTTTTA-ATCTTTTA
1 TATATTTTTTATAT-TTTTA
*
48951097 AATAT
1 TATAT
48951102 AAGATAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TATATTTTTTATATTTTTA
Found at i:48954198 original size:18 final size:18
Alignment explanation
Indices: 48954152--48954219 Score: 68
Period size: 18 Copynumber: 3.8 Consensus size: 18
48954142 TACATTTCTT
* **
48954152 TTCTTTTCTTTCTTTTCC
1 TTCTCTTCTTTCTTTTTA
48954170 TTC-CTTCCTTT-TTTTTA
1 TTCTCTT-CTTTCTTTTTA
48954187 TCTCTCTTCTTTCTTTTTA
1 T-TCTCTTCTTTCTTTTTA
*
48954206 TTTTCTTCTTTCTT
1 TTCTCTTCTTTCTT
48954220 CCACCATGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 7 0.17
18 25 0.60
19 10 0.24
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (18 bp):
TTCTCTTCTTTCTTTTTA
Found at i:48955887 original size:37 final size:38
Alignment explanation
Indices: 48955820--48955923 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 38
48955810 GAATTATATT
* * *
48955820 GTTATTCAAGCTTTGTGCCTAGCAGGCTTGGTGTCGGC
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTGGTGCCAGC
* *
48955858 GTTATTCAGGCTTT-TGACTAGCAGGCTTGGTGCCAGT
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTTGGTGCCAGC
*
48955895 GTTATTCAGGCTTTGTGCCTAGCAAGCTT
1 GTTATTCAGGCTTTGTGCCTAGCAGGCTT
48955924 AGTTTCGGTG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
37 33 0.57
38 25 0.43
ACGTcount: A:0.15, C:0.20, G:0.29, T:0.36
Consensus pattern (38 bp):
GTTATTCAGGCTTTGTGCCTAGCAGGCTTGGTGCCAGC
Found at i:48957226 original size:19 final size:19
Alignment explanation
Indices: 48957203--48957270 Score: 91
Period size: 19 Copynumber: 3.6 Consensus size: 19
48957193 AATGATGTTT
* **
48957203 GATTAGTGGAATTGTGTCT
1 GATTAGTGGAACTGTGTGA
*
48957222 GATTAGTGGAACTATGTGA
1 GATTAGTGGAACTGTGTGA
48957241 GATTAGTGGAACTGTGTGA
1 GATTAGTGGAACTGTGTGA
*
48957260 GATTAATGGAA
1 GATTAGTGGAA
48957271 TCGTGTGTGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.29, C:0.04, G:0.32, T:0.34
Consensus pattern (19 bp):
GATTAGTGGAACTGTGTGA
Found at i:48961924 original size:19 final size:19
Alignment explanation
Indices: 48961900--48961937 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
48961890 TCATTGCCAC
*
48961900 CCACCGTAGTCAAATTTGT
1 CCACCGTAATCAAATTTGT
48961919 CCACCGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
48961938 TATTAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGT
Found at i:48964674 original size:22 final size:21
Alignment explanation
Indices: 48964635--48964675 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
48964625 TTACTACTTT
* *
48964635 ATTTTATTTTAATTTTATACA
1 ATTTTATATTAATATTATACA
48964656 ATTTATATATTAATATTATA
1 ATTT-TATATTAATATTATA
48964676 TTTATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTATATTAATATTATACA
Found at i:48965304 original size:19 final size:19
Alignment explanation
Indices: 48965254--48965304 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
48965244 ATAAACTATT
*
48965254 TACTCAAATTCCTAATGAAA
1 TACTCAAATT-CTAATCAAA
**
48965274 -AAACAAACTTCTAATCAAA
1 TACTCAAA-TTCTAATCAAA
48965293 TACTCAAATTCT
1 TACTCAAATTCT
48965305 TATTAGAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 5
0.71 0.15 0.15
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (19 bp):
TACTCAAATTCTAATCAAA
Found at i:48966780 original size:17 final size:18
Alignment explanation
Indices: 48966746--48966791 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
48966736 CCGTTATGTC
48966746 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
48966761 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
48966778 CGCGACCGCGACCG
1 CGCGACCGCGACCG
48966792 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:48971848 original size:15 final size:17
Alignment explanation
Indices: 48971828--48971869 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
48971818 ATAAACTAAT
48971828 TTATTTATT-AAATT-A
1 TTATTTATTAAAATTGA
48971843 TTATTTATCTAAAATTGA
1 TTATTTAT-TAAAATTGA
*
48971861 TTATGTATT
1 TTATTTATT
48971870 TAAGGGTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 1 0.04
17 6 0.26
18 8 0.35
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (17 bp):
TTATTTATTAAAATTGA
Found at i:48979661 original size:21 final size:21
Alignment explanation
Indices: 48979635--48979676 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48979625 AGAATATATA
48979635 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
48979656 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
48979677 GATTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:48987170 original size:21 final size:21
Alignment explanation
Indices: 48987144--48987185 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
48987134 AGAATATATA
48987144 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
48987165 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
48987186 GATTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:48987753 original size:41 final size:41
Alignment explanation
Indices: 48987669--48987760 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
48987659 GGCAATGTGC
* *
48987669 CTAGCAGGCTTAATGTCGGTGAAATAATTCAGACCTAACGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACCTAACGT
* * * *
48987710 CTAGCAGGCTTAATGCCGGTGATACATTTCGGA-CTATAGGT
1 CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACCTA-ACGT
48987751 CTAGCAGGCT
1 CTAGCAGGCT
48987761 AAGAGCTGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 3 0.07
41 41 0.93
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAACAATTCAGACCTAACGT
Found at i:48991760 original size:46 final size:46
Alignment explanation
Indices: 48991682--48991820 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
48991672 ACATTGCTAT
* *
48991682 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTTAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* * *
48991728 AATTCAGTATGGTTTTCTTCACTAAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
48991774 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
48991820 A
1 A
48991821 CTTTTCCATG
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:48993075 original size:16 final size:17
Alignment explanation
Indices: 48993029--48993076 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
48993019 AAATTCTTTT
48993029 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
48993046 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
48993063 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
48993077 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:49007316 original size:18 final size:18
Alignment explanation
Indices: 49007281--49007330 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
49007271 TAGGTCCTTT
49007281 CTTTATTT-TAATTCTTTTA
1 CTTTATTTAT-ATT-TTTTA
49007300 -TTTATTTAGTATTTTTTA
1 CTTTATTTA-TATTTTTTA
*
49007318 CTTTTTTTATATT
1 CTTTATTTATATT
49007331 CAAATCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 16 0.59
19 10 0.37
20 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (18 bp):
CTTTATTTATATTTTTTA
Found at i:49007393 original size:23 final size:23
Alignment explanation
Indices: 49007367--49007420 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 23
49007357 GGGCATCTAT
49007367 TTATTTTATTTATTTATCTA-TTA
1 TTATTTTATTTA-TTATCTATTTA
49007390 TTA--TTA-TTATTATCTATTTA
1 TTATTTTATTTATTATCTATTTA
49007410 TGTATTTTATT
1 T-TATTTTATT
49007421 ACAAATTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 5 0.19
23 6 0.23
24 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TTATTTTATTTATTATCTATTTA
Found at i:49007421 original size:23 final size:22
Alignment explanation
Indices: 49007367--49007421 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
49007357 GGGCATCTAT
49007367 TTATTTTATTTATTTATCTATTA
1 TTATTTTA-TTATTTATCTATTA
49007390 TTA--TTATTA-TTATCTATTTA
1 TTATTTTATTATTTATCTA-TTA
49007410 TGTATTTTATTA
1 T-TATTTTATTA
49007422 CAAATTGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 7 0.25
20 7 0.25
21 5 0.18
23 9 0.32
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATTTTATTATTTATCTATTA
Found at i:49007785 original size:42 final size:42
Alignment explanation
Indices: 49007739--49007874 Score: 168
Period size: 43 Copynumber: 3.2 Consensus size: 42
49007729 AGATCATGAC
* *
49007739 CTTTAGCGGCG-TTTAAAGATAGGCACCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTTATAGATA-ACACCGCTAAAGGTCATGTT
*
49007781 CTTTAGCGGCGCTTTTATAGCTAACACCGCTAAAGGTCATGTT
1 CTTTAGCGGCGC-TTTATAGATAACACCGCTAAAGGTCATGTT
* * *
49007824 CTTTAGTGGCGCTTTTATAGCA-AACGCCGCTAAATGTCATGTT
1 CTTTAGCGGCGC-TTTATAG-ATAACACCGCTAAAGGTCATGTT
49007867 CTTTAGCG
1 CTTTAGCG
49007875 ACACTTTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
42 11 0.13
43 64 0.77
44 8 0.10
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTATAGATAACACCGCTAAAGGTCATGTT
Found at i:49007820 original size:43 final size:43
Alignment explanation
Indices: 49007762--49007885 Score: 194
Period size: 43 Copynumber: 2.9 Consensus size: 43
49007752 TAAAGATAGG
*
49007762 CACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGCTAA
1 CACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGCAAA
*
49007805 CACCGCTAAAGGTCATGTTCTTTAGTGGCGCTTTTATAGCAAA
1 CACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGCAAA
* * * *
49007848 CGCCGCTAAATGTCATGTTCTTTAGCGACACTTTTATA
1 CACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATA
49007886 AGAATGATCT
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (43 bp):
CACCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGCAAA
Found at i:49013715 original size:9 final size:9
Alignment explanation
Indices: 49013697--49013901 Score: 152
Period size: 9 Copynumber: 22.6 Consensus size: 9
49013687 TATTTATGTA
*
49013697 TTATGCAAG
1 TTATGTAAG
49013706 TTATGTAAG
1 TTATGTAAG
*
49013715 TTATGATATG
1 TTATG-TAAG
**
49013725 ATATACATAAG
1 -T-TATGTAAG
49013736 TTAT-TAAG
1 TTATGTAAG
*
49013744 TTAGGTAAG
1 TTATGTAAG
*
49013753 TTATGTGAG
1 TTATGTAAG
*
49013762 TTATGTAAA
1 TTATGTAAG
*
49013771 TTATGATATG
1 TTATG-TAAG
* *
49013781 ATATG-ATG
1 TTATGTAAG
*
49013789 -TATATAAG
1 TTATGTAAG
49013797 TTAT-TAAG
1 TTATGTAAG
49013805 TTGA-GTAAG
1 TT-ATGTAAG
*
49013814 TTATGTGAG
1 TTATGTAAG
*
49013823 TTATTTAAG
1 TTATGTAAG
*
49013832 TTATGGTATG
1 TTAT-GTAAG
*
49013842 ATATATATAAG
1 -T-TATGTAAG
49013853 TTAT-TAAG
1 TTATGTAAG
49013861 TTATGTAAG
1 TTATGTAAG
49013870 TTATGTAAG
1 TTATGTAAG
*
49013879 TTATGTAAA
1 TTATGTAAG
49013888 TTATGTAAG
1 TTATGTAAG
49013897 TTATG
1 TTATG
49013902 ATATATATTT
Statistics
Matches: 157, Mismatches: 25, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
7 3 0.02
8 27 0.17
9 100 0.64
10 14 0.09
11 8 0.05
12 5 0.03
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (9 bp):
TTATGTAAG
Found at i:49013745 original size:38 final size:38
Alignment explanation
Indices: 49013648--49013757 Score: 103
Period size: 43 Copynumber: 2.7 Consensus size: 38
49013638 ATGGTTATTT
* * *
49013648 ATAAGTATAATTAAGTTATGCAACTTATGATATGATATAT
1 ATAAGT-T-ATTAAGTTATGTAAGTTATGATATGATATAC
* *
49013688 ATTTATGTATTATGCAAGTTATGTAAGTTATGATATGATATAC
1 A--TAAG--TTAT-TAAGTTATGTAAGTTATGATATGATATAC
*
49013731 ATAAGTTATTAAGTTAGGTAAGTTATG
1 ATAAGTTATTAAGTTATGTAAGTTATG
49013758 TGAGTTATGT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
38 16 0.28
39 4 0.07
40 1 0.02
41 3 0.05
42 5 0.09
43 27 0.47
44 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (38 bp):
ATAAGTTATTAAGTTATGTAAGTTATGATATGATATAC
Found at i:49013764 original size:56 final size:56
Alignment explanation
Indices: 49013704--49013892 Score: 254
Period size: 56 Copynumber: 3.3 Consensus size: 56
49013694 GTATTATGCA
* *
49013704 AGTTATGTAAGTTATGATATGATATACATAAGTTATTAAGTTAGGTAAGTTATGTG
1 AGTTATGTAAATTATGATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTG
49013760 AGTTATGTAAATTATGATATGATATGATGTATATAAGTTATTAAGTT-GAGTAAGTTATGTG
1 AGTTATGTAAATTATGATATG--AT-A--TATATAAGTTATTAAGTTAG-GTAAGTTATGTG
* * * * *
49013821 AGTTATTTAAGTTATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTA
1 AGTTATGTAAATTATGATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTG
49013877 AGTTATGTAAATTATG
1 AGTTATGTAAATTATG
49013893 TAAGTTATGA
Statistics
Matches: 117, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
56 63 0.54
58 3 0.03
59 3 0.03
60 1 0.01
61 47 0.40
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (56 bp):
AGTTATGTAAATTATGATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTG
Found at i:49013813 original size:61 final size:60
Alignment explanation
Indices: 49013716--49013909 Score: 263
Period size: 61 Copynumber: 3.3 Consensus size: 60
49013706 TTATGTAAGT
*
49013716 TATGATATGATATACATAAGTTATTAAGTTAGGTAAGTTATGTGAGTTATGTAAATTATG
1 TATGATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTGAGTTATGTAAATTATG
* * *
49013776 ATATGATATGATGTATATAAGTTATTAAGTT-GAGTAAGTTATGTGAGTTATTTAAGTTATG
1 -TATGATATGATATATATAAGTTATTAAGTTAG-GTAAGTTATGTGAGTTATGTAAATTATG
* *
49013837 ---G-TATGATATATATAAGTTATTAAGTTATGTAAGTTATGTAAGTTATGTAAATTATG
1 TATGATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTGAGTTATGTAAATTATG
* *
49013893 TAAGTTATGATATATAT
1 TATGATATGATATATAT
49013910 TTTGTAAGTT
Statistics
Matches: 118, Mismatches: 9, Indels: 13
0.84 0.06 0.09
Matches are distributed among these distances:
56 49 0.42
57 1 0.01
59 1 0.01
60 13 0.11
61 54 0.46
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.44
Consensus pattern (60 bp):
TATGATATGATATATATAAGTTATTAAGTTAGGTAAGTTATGTGAGTTATGTAAATTATG
Found at i:49015733 original size:22 final size:22
Alignment explanation
Indices: 49015702--49015745 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49015692 TACAGCAAAA
* *
49015702 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCAGCGCTTTTT
49015724 TAGGCCTTTAGCAGCGCTTTTT
1 TAGGCCTTTAGCAGCGCTTTTT
49015746 AGCACCGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCAGCGCTTTTT
Found at i:49015856 original size:43 final size:43
Alignment explanation
Indices: 49015808--49015951 Score: 150
Period size: 43 Copynumber: 3.3 Consensus size: 43
49015798 TTAGAAAAAA
*
49015808 AAACGCCGATAAAGACCACGACCTTTAGCGGCACTTTTGCGAC
1 AAACGCCGATAAAGACCACGACCTTTAGCGGCGCTTTTGCGAC
* * * *
49015851 AAACGCCGCTATAGACCACGACCCTTAGCAGCGCTTTTG-GCAC
1 AAACGCCGATAAAGACCACGACCTTTAGCGGCGCTTTTGCG-AC
* * * *
49015894 AAACG-CTACTAAAGATCATGACCTTTAGCGGCGCTTTTATC-AC
1 AAACGCCGA-TAAAGACCACGACCTTTAGCGGCGCTTTT-GCGAC
*
49015937 AAACGCCGCTAAAGA
1 AAACGCCGATAAAGA
49015952 ACAAACCTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 10
0.76 0.14 0.09
Matches are distributed among these distances:
42 2 0.02
43 78 0.96
44 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (43 bp):
AAACGCCGATAAAGACCACGACCTTTAGCGGCGCTTTTGCGAC
Found at i:49016083 original size:73 final size:72
Alignment explanation
Indices: 49015958--49016101 Score: 236
Period size: 71 Copynumber: 2.0 Consensus size: 72
49015948 AAGAACAAAC
* * *
49015958 CTTTAATGGCGCTTGTCGCAAAAAAACGCCGCTAAAAATATAACCTTTAAAAAAAATTATTTTAA
1 CTTTAATGGCGCTTCTCGC-AAAAAACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAA
49016023 TCAAATAT
65 TCAAATAT
*
49016031 CTTTAGTGGCGCTTCTCGC-AAAAACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAAT
1 CTTTAATGGCGCTTCTCGCAAAAAACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAAT
49016095 CAAATAT
66 CAAATAT
49016102 TATATTATGT
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 50 0.75
73 17 0.25
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (72 bp):
CTTTAATGGCGCTTCTCGCAAAAAACGCCACTAAAAACATAACCTTTAAAAAAAATTATTTTAAT
CAAATAT
Found at i:49017501 original size:57 final size:57
Alignment explanation
Indices: 49017408--49017524 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
49017398 GTGCAATATC
49017408 AAACAAGCATATAGAAGGATTAGCCATGCACCATCATAATAATGAAAAATAAAACAT
1 AAACAAGCATATAGAAGGATTAGCCATGCACCATCATAATAATGAAAAATAAAACAT
*
49017465 AAACAAGCATATAGAAGGATTAGCCATGCACTATCATAATAATGAAAAATAAAACAT
1 AAACAAGCATATAGAAGGATTAGCCATGCACCATCATAATAATGAAAAATAAAACAT
49017522 AAA
1 AAA
49017525 TTAGAGCATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.20
Consensus pattern (57 bp):
AAACAAGCATATAGAAGGATTAGCCATGCACCATCATAATAATGAAAAATAAAACAT
Found at i:49020688 original size:14 final size:14
Alignment explanation
Indices: 49020671--49020828 Score: 106
Period size: 14 Copynumber: 11.2 Consensus size: 14
49020661 CCTCAACCTT
*
49020671 TAAACCATAAACCA
1 TAAACCTTAAACCA
*
49020685 TAAACCATAAACCA
1 TAAACCTTAAACCA
* * *
49020699 T-AACCCTCAACTCT
1 TAAACCTTAAAC-CA
* * * *
49020713 TAACCCCTAACCCC
1 TAAACCTTAAACCA
*
49020727 TAAACCTTAAACCT
1 TAAACCTTAAACCA
* * *
49020741 TAACCCTTAATCTA
1 TAAACCTTAAACCA
49020755 TAAACCTTAAACCA
1 TAAACCTTAAACCA
* * *
49020769 TAAACCGTAACCCT
1 TAAACCTTAAACCA
49020783 TAAACCTTAAACGCA
1 TAAACCTTAAAC-CA
49020798 TAAA-CTATAAACCA
1 TAAACCT-TAAACCA
*
49020812 T-AATCTTAAACCCA
1 TAAACCTTAAA-CCA
49020826 TAA
1 TAA
49020829 TCTATTAACC
Statistics
Matches: 113, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
13 14 0.12
14 81 0.72
15 18 0.16
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:49020801 original size:8 final size:7
Alignment explanation
Indices: 49020671--49020814 Score: 92
Period size: 7 Copynumber: 20.4 Consensus size: 7
49020661 CCTCAACCTT
49020671 TAAACCA
1 TAAACCA
49020678 TAAACCA
1 TAAACCA
49020685 TAAACCA
1 TAAACCA
49020692 TAAACCA
1 TAAACCA
*
49020699 T-AACCC
1 TAAACCA
* *
49020705 TCAACTCT
1 TAAAC-CA
* *
49020713 TAACCCC
1 TAAACCA
* *
49020720 TAACCCC
1 TAAACCA
*
49020727 TAAACCT
1 TAAACCA
*
49020734 TAAACCT
1 TAAACCA
* *
49020741 TAACCCT
1 TAAACCA
* *
49020748 TAATCTA
1 TAAACCA
*
49020755 TAAACCT
1 TAAACCA
49020762 TAAACCA
1 TAAACCA
*
49020769 TAAACCG
1 TAAACCA
* *
49020776 TAACCCT
1 TAAACCA
*
49020783 TAAACCT
1 TAAACCA
49020790 TAAACGCA
1 TAAAC-CA
*
49020798 TAAACTA
1 TAAACCA
49020805 TAAACCA
1 TAAACCA
49020812 TAA
1 TAA
49020815 TCTTAAACCC
Statistics
Matches: 112, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
6 5 0.04
7 97 0.87
8 10 0.09
ACGTcount: A:0.44, C:0.32, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:49020872 original size:7 final size:7
Alignment explanation
Indices: 49020862--49020900 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
49020852 TCCTAAACTT
49020862 TAAACCC
1 TAAACCC
*
49020869 TAAACCA
1 TAAACCC
*
49020876 TATACCC
1 TAAACCC
*
49020883 TTAACCC
1 TAAACCC
49020890 TAAACCC
1 TAAACCC
49020897 TAAA
1 TAAA
49020901 TAATAATAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:49021212 original size:41 final size:40
Alignment explanation
Indices: 49021155--49021284 Score: 143
Period size: 41 Copynumber: 3.2 Consensus size: 40
49021145 AGCGCCGCTA
* * *
49021155 AAAACCCCGAGCATTAGTGGCGCTTATCCAAAAACGCCGCT
1 AAAACCCCAAGCATTAGCGGCGCTT-TCCAAAAACGCCACT
* *
49021196 AAAACCCTAAGCATTAGCGGCGCTTTTTCAAAAACGCCACT
1 AAAACCCCAAGCATTAGCGGCGC-TTTCCAAAAACGCCACT
* * * * * *
49021237 AAAGCCCCATGCTTTAGCGACGCTTTCTAAAAAAGCCACT
1 AAAACCCCAAGCATTAGCGGCGCTTTCCAAAAACGCCACT
49021277 AAAACCCC
1 AAAACCCC
49021285 TAAAACTCAG
Statistics
Matches: 74, Mismatches: 14, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
40 21 0.28
41 51 0.69
42 2 0.03
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (40 bp):
AAAACCCCAAGCATTAGCGGCGCTTTCCAAAAACGCCACT
Found at i:49021399 original size:41 final size:39
Alignment explanation
Indices: 49021316--49021429 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 39
49021306 TAGGTTTTTT
* * *
49021316 GCGGCGCTTTTTGGAAAACGCCGCTAAAACCCTGAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCC-CAGCATTA
* *
49021357 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCTTTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCCCA-GCATTA
* * *
49021398 GCGACGCTTTCTAAAAAAGCCACTAAAACCCC
1 GCGGCGCTTTTTAAAAACGCCACTAAAACCCC
49021430 TAAAACTCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 19 0.31
41 43 0.69
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (39 bp):
GCGGCGCTTTTTAAAAACGCCACTAAAACCCCAGCATTA
Found at i:49021436 original size:145 final size:145
Alignment explanation
Indices: 49021185--49022114 Score: 1851
Period size: 145 Copynumber: 6.4 Consensus size: 145
49021175 CGCTTATCCA
*
49021185 AAAACGCCGCTAAAACCCTAAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
1 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
49021250 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
66 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
49021315 TGCGGCGCTTTTTGG
131 TGCGGCGCTTTTTGG
49021330 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
1 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
49021395 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
66 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
49021460 TGCGGCGCTTTTTGG
131 TGCGGCGCTTTTTGG
49021475 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
1 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
49021540 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
66 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
49021605 TGCGGCGCTTTTTGG
131 TGCGGCGCTTTTTGG
49021620 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
1 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
49021685 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
66 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
49021750 TGCGGCGCTTTTTGG
131 TGCGGCGCTTTTTGG
49021765 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
1 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
49021830 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
66 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
49021895 TGCGGCGCTTTTTGG
131 TGCGGCGCTTTTTGG
49021910 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
1 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
49021975 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
66 TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
49022040 TGCGGCGCTTTTTGG
131 TGCGGCGCTTTTTGG
49022055 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCC
1 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCC
49022115 GCAAACTTAG
Statistics
Matches: 784, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 784 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (145 bp):
AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCT
TTAGCGACGCTTTCTAAAAAAGCCACTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTT
TGCGGCGCTTTTTGG
Found at i:49021544 original size:41 final size:39
Alignment explanation
Indices: 49021461--49021574 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 39
49021451 TAGGTTTTTT
* * *
49021461 GCGGCGCTTTTTGGAAAACGCCGCTAAAACCCTGAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCC-CAGCATTA
* *
49021502 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCTTTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCCCA-GCATTA
* * *
49021543 GCGACGCTTTCTAAAAAAGCCACTAAAACCCC
1 GCGGCGCTTTTTAAAAACGCCACTAAAACCCC
49021575 TAAAACTCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 19 0.31
41 43 0.69
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (39 bp):
GCGGCGCTTTTTAAAAACGCCACTAAAACCCCAGCATTA
Found at i:49021689 original size:41 final size:39
Alignment explanation
Indices: 49021606--49021719 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 39
49021596 TAGGTTTTTT
* * *
49021606 GCGGCGCTTTTTGGAAAACGCCGCTAAAACCCTGAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCC-CAGCATTA
* *
49021647 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCTTTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCCCA-GCATTA
* * *
49021688 GCGACGCTTTCTAAAAAAGCCACTAAAACCCC
1 GCGGCGCTTTTTAAAAACGCCACTAAAACCCC
49021720 TAAAACTCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 19 0.31
41 43 0.69
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (39 bp):
GCGGCGCTTTTTAAAAACGCCACTAAAACCCCAGCATTA
Found at i:49021834 original size:41 final size:39
Alignment explanation
Indices: 49021751--49021864 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 39
49021741 TAGGTTTTTT
* * *
49021751 GCGGCGCTTTTTGGAAAACGCCGCTAAAACCCTGAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCC-CAGCATTA
* *
49021792 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCTTTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCCCA-GCATTA
* * *
49021833 GCGACGCTTTCTAAAAAAGCCACTAAAACCCC
1 GCGGCGCTTTTTAAAAACGCCACTAAAACCCC
49021865 TAAAACTCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 19 0.31
41 43 0.69
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (39 bp):
GCGGCGCTTTTTAAAAACGCCACTAAAACCCCAGCATTA
Found at i:49021979 original size:41 final size:39
Alignment explanation
Indices: 49021896--49022009 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 39
49021886 TAGGTTTTTT
* * *
49021896 GCGGCGCTTTTTGGAAAACGCCGCTAAAACCCTGAGCATTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCC-CAGCATTA
* *
49021937 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCCCATGCTTTA
1 GCGGCGCTTTTT-AAAAACGCCACTAAAACCCCA-GCATTA
* * *
49021978 GCGACGCTTTCTAAAAAAGCCACTAAAACCCC
1 GCGGCGCTTTTTAAAAACGCCACTAAAACCCC
49022010 TAAAACTCAG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 19 0.31
41 43 0.69
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (39 bp):
GCGGCGCTTTTTAAAAACGCCACTAAAACCCCAGCATTA
Found at i:49022046 original size:104 final size:105
Alignment explanation
Indices: 49021937--49022131 Score: 250
Period size: 104 Copynumber: 1.9 Consensus size: 105
49021927 CTGAGCATTA
* *
49021937 GCGGCGCTTTTTCAAAAACGCCACTAAAGCCC-CATGCTTTAGCGACGCTTTCT-AAAAAAGCCA
1 GCGGCGCTTTTTCAAAAACGCCACTAAAACCCTCA-GCATTAGCGACGCTTTCTCAAAAAAGCCA
*
49022000 CTAAAACCCCTAAAACTCAGAAAACGAGGCTTAGGTTTTTT
65 CTAAAACCCCGAAAACTCAGAAAACGAGGCTTAGGTTTTTT
** * * * * *
49022041 GCGGCGCTTTTTGGAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCAC
1 GCGGCGCTTTTTCAAAAACGCCACTAAAACCCTCAGCATTAGCGACGCTTTCTCAAAAAAGCCAC
* * *
49022106 TAAAGCCCCGCAAACTTAGAAAACGA
66 TAAAACCCCGAAAACTCAGAAAACGA
49022132 CGTCGTTGTG
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
104 43 0.57
105 33 0.43
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (105 bp):
GCGGCGCTTTTTCAAAAACGCCACTAAAACCCTCAGCATTAGCGACGCTTTCTCAAAAAAGCCAC
TAAAACCCCGAAAACTCAGAAAACGAGGCTTAGGTTTTTT
Found at i:49022260 original size:40 final size:38
Alignment explanation
Indices: 49022172--49022282 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 38
49022162 TATTGAAAAA
*
49022172 CGCCGCTAATGCTCATTTTTAGCGGCGTTTTCCAAAGTT
1 CGCCGCTAATGCTCATCTTTAGCGGCGTTTTCCAAAG-T
* * **
49022211 CGCCACTAATGCTCAATCTTTAGTGGCGTTTTTTTAGAAG-
1 CGCCGCTAATGCTC-ATCTTTAGCGGCG-TTTTCCA-AAGT
* * *
49022251 CGCCGCTAATGCTTGATTTTTAGCGGCATTTT
1 CGCCGCTAATGC-TCATCTTTAGCGGCGTTTT
49022283 TTATCCAAAC
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
39 17 0.29
40 32 0.55
41 6 0.10
42 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (38 bp):
CGCCGCTAATGCTCATCTTTAGCGGCGTTTTCCAAAGT
Found at i:49022550 original size:20 final size:20
Alignment explanation
Indices: 49022521--49022561 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
49022511 ATTTGGAAGA
49022521 GATTTAGAAGGGGAATTAGG
1 GATTTAGAAGGGGAATTAGG
*
49022541 GATTTGGAAGGGGAATTAGG
1 GATTTAGAAGGGGAATTAGG
49022561 G
1 G
49022562 GCTGACTGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.44, T:0.24
Consensus pattern (20 bp):
GATTTAGAAGGGGAATTAGG
Found at i:49022938 original size:123 final size:126
Alignment explanation
Indices: 49022660--49022939 Score: 318
Period size: 126 Copynumber: 2.2 Consensus size: 126
49022650 GCCATTCTGA
* * * * *
49022660 ACAATTTTTAATACATTGTTGCAGCATTTTTAGACAAAACGCCGCTAATGCTTACCTTTTGCGGC
1 ACAATTTTTAATACATTGTTGCAGCGTTTTTAAACAAAACGCCGCTAATCCATACCTTTTGCAGC
* * *
49022725 GATTCTGAGAGAAACACCACTAAAAAGTTAAAATCCTGTAAGCAAACGACGTAGTTTTTGT
66 GATTCTGAGAGAAACACCACTAAAAAGTCAAAATCCTGTAACCAAACGACGCAGTTTTTGT
* * * *
49022786 ACACTTTTTAATACATTGTTACAGTGTTTTTATAAC-AAACGCCGCTATTCCATACCTTTTGCAG
1 ACAATTTTTAATACATTGTTGCAGCGTTTTTA-AACAAAACGCCGCTAATCCATACCTTTTGCAG
* * * * *
49022850 C-ATTGTG-GAGAAAACGCCACTAAAAA-TCAAATTCCTGTAACCAAACGGCGCCG-TTTTGT
65 CGATTCTGAGAG-AAACACCACTAAAAAGTCAAAATCCTGTAACCAAACGACGCAGTTTTTGT
* * **
49022909 ATAATTTTTAAGACATTGTTGTGGCGTTTTT
1 ACAATTTTTAATACATTGTTGCAGCGTTTTT
49022940 GGTCCAAACG
Statistics
Matches: 128, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
123 30 0.23
124 24 0.19
125 19 0.15
126 53 0.41
127 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (126 bp):
ACAATTTTTAATACATTGTTGCAGCGTTTTTAAACAAAACGCCGCTAATCCATACCTTTTGCAGC
GATTCTGAGAGAAACACCACTAAAAAGTCAAAATCCTGTAACCAAACGACGCAGTTTTTGT
Found at i:49023058 original size:39 final size:39
Alignment explanation
Indices: 49022999--49023076 Score: 122
Period size: 41 Copynumber: 2.0 Consensus size: 39
49022989 ATTTGATACA
49022999 TTAATATGACATTATTTTTAATTGTTAAATTTTTAAAATTT
1 TTAATATGACATTA-TTTTAATTGTTAAA-TTTTAAAATTT
*
49023040 TTAATATGACATTA-TTTAATTGTTCAATTTTAAAATT
1 TTAATATGACATTATTTTAATTGTTAAATTTTAAAATT
49023077 GAATATAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
38 10 0.28
39 12 0.33
41 14 0.39
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (39 bp):
TTAATATGACATTATTTTAATTGTTAAATTTTAAAATTT
Found at i:49023310 original size:14 final size:15
Alignment explanation
Indices: 49023270--49023338 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
49023260 ATTAGACAAA
*
49023270 AAAACCTTAAACCCT
1 AAAACCCTAAACCCT
*
49023285 AAAACTCTAAACCC-
1 AAAACCCTAAACCCT
* *
49023299 AAGACCCTAAACACCCA
1 AAAACCCT-AA-ACCCT
*
49023316 AAAACCCCTAAATCCT
1 AAAA-CCCTAAACCCT
49023332 AAAACCC
1 AAAACCC
49023339 CTAGACCATA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 6 0.14
15 17 0.40
16 11 0.26
17 5 0.12
18 4 0.09
ACGTcount: A:0.48, C:0.38, G:0.01, T:0.13
Consensus pattern (15 bp):
AAAACCCTAAACCCT
Found at i:49023657 original size:14 final size:14
Alignment explanation
Indices: 49023640--49023731 Score: 58
Period size: 14 Copynumber: 6.5 Consensus size: 14
49023630 CATTATACCA
*
49023640 TAAACCCTAAACCC
1 TAAACCATAAACCC
* **
49023654 TAAACCATAGACAT
1 TAAACCATAAACCC
* * **
49023668 TAAACCTTACATAC
1 TAAACCATAAACCC
* *
49023682 TAACCCTTAAACCC
1 TAAACCATAAACCC
** *
49023696 TAAACTTTAAATCC
1 TAAACCATAAACCC
49023710 TAAAACCATAAACCC
1 T-AAACCATAAACCC
49023725 TAAACCA
1 TAAACCA
49023732 AAAAGTGTAA
Statistics
Matches: 59, Mismatches: 18, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
14 48 0.81
15 11 0.19
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.22
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:49030898 original size:44 final size:44
Alignment explanation
Indices: 49030753--49031593 Score: 415
Period size: 44 Copynumber: 18.6 Consensus size: 44
49030743 GTCACCATGG
* * * * *
49030753 CAAATCTTATCTC-CTTGAAATTGCAATGGAGCAAATTGAAG-AA
1 CAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
49030796 CTAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAA-ATA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA
* * *
49030840 GCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTAAAGCTA
1 -CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
49030885 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAATTGAAGATA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAG-ATTAAAGCTA
* * * * *
49030930 GCGAATATTATCTCTCTGAAGTGGCAGTAGAGCAGATTAAAACTA
1 -CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * *
49030975 CAAACCTTATCTCCCTGAAATTGTAGTGGAGCAGGTTAAAGATAA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT-A
* * * * *
49031020 CAAATCTTATCT-TCCTGAAGATGCAGTAGAGCGGATTGAAGATA
1 CAAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * ** *
49031064 GCGAATCTTATTTCCCTG-AGATTGTAGTGGAATAGATTAAGGCTACAAACCA
1 -CAAATCTTATCTCTCTGAAG-TTGCAGTGGAGCAGATTAAAGCT-------A
* * * *
49031116 CAAATCCTATACCCT-TGAATTTGCAGTAGGATG--GATTGAAG-TCA
1 CAAATCTTAT-CTCTCTGAAGTTGCAGT-GGA-GCAGATTAAAGCT-A
* * * *
49031160 TCGTGGTGAATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAGCCA
1 -C-----AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * ** * *
49031210 GAAATC-T-TCTCCCT-AAGGTTGCAGTGGATTAGATTGAAGATA
1 CAAATCTTATCTCTCTGAA-GTTGCAGTGGAGCAGATTAAAGCTA
* * * * * * * *
49031252 CTAATCTTATCTCCCTGAACTTGTAGTGGAGTAAACTAAAAAC-A
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTA
* * * *
49031296 CAAATCTTATCTC-CTTGAAGTCGTAGTGGAGTAGATTAAAGTTA
1 CAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
49031340 CAAATATTATCT-TCCTGAAGTTGCAGTAGAGTAGATTGAAGATA
1 CAAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* *
49031384 GCGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTA
1 -CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * * *
49031429 TAAACCTTATCTCTCTAAAGTTGTACTGGAGCAAATTAAAGCTA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
* * * * *
49031473 CAAATCTCAT-TTTCCTAAAGTTGCAGTGGAACTTATTGAAGCTACAAG-TCA
1 CAAATCTTATCTCT-CTGAAGTTGCAGTGGAGC--A--G-A-TTA-AAGCT-A
* *
49031524 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TAAAGGCTA
1 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA-GCTA
*
49031568 CAAATCTTAT-TCCCTGAAGTTGCAGT
1 CAAATCTTATCTCTCTGAAGTTGCAGT
49031594 AGAATAGATT
Statistics
Matches: 609, Mismatches: 133, Indels: 112
0.71 0.16 0.13
Matches are distributed among these distances:
41 2 0.00
42 30 0.05
43 55 0.09
44 236 0.39
45 155 0.25
46 33 0.05
47 1 0.00
48 1 0.00
49 8 0.01
50 29 0.05
51 52 0.09
52 7 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA
Found at i:49030919 original size:89 final size:89
Alignment explanation
Indices: 49030752--49031606 Score: 428
Period size: 89 Copynumber: 9.5 Consensus size: 89
49030742 GGTCACCATG
* * * * * * * *
49030752 GCAAATCTTATCTC-CTTGAAATTGCAATGGAGCAAATTGAAG-AACTAATCTTATCTCCCTAAA
1 GCAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAA
**
49030815 GTTACAGTGGAGCAGATTGAAAATA
65 GTTGTAGTGGAGCAGATTGAAAATA
* * *
49030840 GCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTAAAGCTACAAATCTTATCTCTCTGAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAG
* *
49030905 TTGCAGTGGAGCAGAATTGAAGATA
66 TTGTAGTGGAGCAG-ATTGAAAATA
* * * * * *
49030930 GCGAATATTATCTCTCTGAAGTGGCAGTAGAGCAGATTAAAACTACAAACCTTATCTCCCTGAAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAG
*
49030995 TTGTAGTGGAGCAGGTT-AAAGATA
66 TTGTAGTGGAGCAGATTGAAA-ATA
* * * * * * *
49031019 ACAAATCTTATCT-TCCTGAAGATGCAGTAGAGCGGATTGAAGATAGCGAATCTTATTTCCCTG-
1 GCAAATCTTATCTCT-CTGAAGTTGCAGTAGAGCAGATTAAAGCTA-CAAATCTTATCTCCCTGA
** *
49031082 AGATTGTAGTGGAATAGATTAAGGCTACAAACCA
64 AG-TTGTAGTGGAGCAGATT---G--A-AAA-TA
* * * * *
49031116 -CAAATCCTATACCCT-TGAATTTGCAGTAG-G-ATGGATTGAAG-TCATCGTGGTGAATCTTAT
1 GCAAATCTTAT-CTCTCTGAAGTTGCAGTAGAGCA--GATTAAAGCT-A-C-----AAATCTTAT
* * **
49031176 CTCTCTGAAGTTGTAGTGGAGTAGATT-AAAGCCA
56 CTCCCTGAAGTTGTAGTGGAGCAGATTGAAA-ATA
* * ** * * *
49031210 G-AAATC-T-TCTCCCT-AAGGTTGCAGTGGATTAGATTGAAGATACTAATCTTATCTCCCTGAA
1 GCAAATCTTATCTCTCTGAA-GTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAA
* * * * * *
49031271 CTTGTAGTGGAGTAAACTAAAAACA
65 GTTGTAGTGGAGCAGATTGAAAATA
* * * * * * *
49031296 -CAAATCTTATCTC-CTTGAAGTCGTAGTGGAGTAGATTAAAGTTACAAATATTATCTTCCTGAA
1 GCAAATCTTATCTCTC-TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAA
* * * *
49031359 GTTGCAGTAGAGTAGATTGAAGATA
65 GTTGTAGTGGAGCAGATTGAAAATA
* * * * *
49031384 GCGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCTAAAG
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAG
* * *
49031449 TTGTACTGGAGCAAATT-AAAGCTA
66 TTGTAGTGGAGCAGATTGAAA-ATA
* * * * * *
49031473 -CAAATCTCAT-TTTCCTAAAGTTGCAGTGGAACTTATTGAAGCTACAAG-TCACAAATCTTATC
1 GCAAATCTTATCTCT-CTGAAGTTGCAGTAGAGC--A--G-A-TTA-AAGCT-ACAAATCTTATC
* * *
49031535 TCCCTAAAGTTGCAGTGGAGCAGA-T-AAAGGCTA
57 TCCCTGAAGTTGTAGTGGAGCAGATTGAAA--ATA
* **
49031568 -CAAATCTTAT-TCCCTGAAGTTGCAGTAGAATAGATTAAA
1 GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA
49031607 ACAAAAAATT
Statistics
Matches: 599, Mismatches: 116, Indels: 105
0.73 0.14 0.13
Matches are distributed among these distances:
86 38 0.06
87 9 0.02
88 123 0.21
89 139 0.23
90 109 0.18
91 5 0.01
92 21 0.04
93 3 0.01
94 32 0.05
95 50 0.08
96 33 0.06
97 4 0.01
98 1 0.00
101 30 0.05
102 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (89 bp):
GCAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAG
TTGTAGTGGAGCAGATTGAAAATA
Found at i:49031114 original size:134 final size:134
Alignment explanation
Indices: 49030753--49031082 Score: 327
Period size: 134 Copynumber: 2.5 Consensus size: 134
49030743 GTCACCATGG
* * * * *
49030753 CAAATCTTATCTC-CTTGAA-ATTGCAATGGAGCA-AATTGAAGA-A-CTAATCTTATCTCCCTA
1 CAAATCTTATCTCTC-TGAAGA-TGCAGTAGAGCAGAATTGAAGATAGCGAATATTATCTCCCTG
** * * * *
49030813 AAGTTACAGTGGAGCAGATTGAAAA-TAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAAAT
64 AAGTGGCAGTAGAACAGATT-AAAACTA-CAAACCTTATCTCCCTAAAGTTGCAGTAGAGCAAAT
*
49030877 TAAAGCTA
127 TAAAGATA
* * *
49030885 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAATTGAAGATAGCGAATATTATCTCTCTGAA
1 CAAATCTTATCTCTCTGAAGATGCAGTAGAGCAGAATTGAAGATAGCGAATATTATCTCCCTGAA
* * * **
49030950 GTGGCAGTAGAGCAGATTAAAACTACAAACCTTATCTCCCTGAAA-TTGTAGTGGAGCAGGTTAA
66 GTGGCAGTAGAACAGATTAAAACTACAAACCTTATCTCCCT-AAAGTTGCAGTAGAGCAAATTAA
49031014 AGATAA
130 AGAT-A
* * *
49031020 CAAATCTTATCT-TCCTGAAGATGCAGTAGAGC-GGATTGAAGATAGCGAATCTTATTTCCCTGA
1 CAAATCTTATCTCT-CTGAAGATGCAGTAGAGCAGAATTGAAGATAGCGAATATTATCTCCCTGA
49031083 GATTGTAGTG
Statistics
Matches: 167, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
132 28 0.17
133 10 0.06
134 65 0.39
135 64 0.38
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.28
Consensus pattern (134 bp):
CAAATCTTATCTCTCTGAAGATGCAGTAGAGCAGAATTGAAGATAGCGAATATTATCTCCCTGAA
GTGGCAGTAGAACAGATTAAAACTACAAACCTTATCTCCCTAAAGTTGCAGTAGAGCAAATTAAA
GATA
Found at i:49031459 original size:133 final size:130
Alignment explanation
Indices: 49031171--49031499 Score: 340
Period size: 133 Copynumber: 2.5 Consensus size: 130
49031161 CGTGGTGAAT
* * * *
49031171 CTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAGCCAGAAATCT-TCTCCCTAAGGTTGCAGT
1 CTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAGCTACAAATTTATCTTCCTAA-GTTGCAGT
* * * * * *
49031235 GGATTAGATTGAAGATACTAATCTTATCTCCCTGAACTTGTAGTGGAGTAAACTAAAAACACAAA
65 AGAGTAGATTGAAGATACGAATCTTATCTCCCTGAACTTGCAGTAGAGCAAACTAAAAACACAAA
*
49031300 T
130 C
* *
49031301 CTTATCTC-CTTGAAGTCGTAGTGGAGTAGATTAAAGTTACAAATATTATCTTCCTGAAGTTGCA
1 CTTATCTCTC-TGAAGTTGTAGTGGAGTAGATTAAAGCTACAAAT-TTATCTTCCT-AAGTTGCA
* * * * *
49031365 GTAGAGTAGATTGAAGATAGCGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TTAAAGCTA
63 GTAGAGTAGATTGAAGATA-CGAATCTTATCTCCCTGAACTTGCAGTAGAGCAAACTAAAAAC-A
*
49031429 TAAAC
126 CAAAC
* * * * * *
49031434 CTTATCTCTCTAAAGTTGTACTGGAGCAAATTAAAGCTACAAATCTCATTTTCCTAAAGTTGCAG
1 CTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAGCTACAAAT-TTATCTTCCT-AAGTTGCAG
49031499 T
64 T
49031500 GGAACTTATT
Statistics
Matches: 163, Mismatches: 29, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
129 1 0.01
130 38 0.23
131 1 0.01
132 34 0.21
133 88 0.54
134 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (130 bp):
CTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAGCTACAAATTTATCTTCCTAAGTTGCAGTA
GAGTAGATTGAAGATACGAATCTTATCTCCCTGAACTTGCAGTAGAGCAAACTAAAAACACAAAC
Found at i:49031568 original size:51 final size:51
Alignment explanation
Indices: 49031472--49031667 Score: 129
Period size: 51 Copynumber: 4.0 Consensus size: 51
49031462 AATTAAAGCT
* * ** *
49031472 ACAAATCTCATTTTCCTAAAGTTGCAGTGGAACTTATTGAAGCTACAAGTC
1 ACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTC
* * *
49031523 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TAAAG--GC---T-
1 ACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTC
* * * * * * * * *
49031567 ACAAATCTTAT-TCCCTGAAGTTGCAGTAGAATAGATTAAAACAAAAAATT
1 ACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTC
* ** ** *
49031617 ACCAATCTCATCTCCCTAAAGTTATAGTGGAGTAGATTAAAGCTATAAGTC
1 ACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTC
49031668 TAATCTCCCT
Statistics
Matches: 110, Mismatches: 27, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
43 20 0.18
44 15 0.14
45 1 0.01
48 1 0.01
49 1 0.01
50 13 0.12
51 59 0.54
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (51 bp):
ACAAATCTCATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCTACAAGTC
Found at i:49031632 original size:94 final size:95
Alignment explanation
Indices: 49031526--49031698 Score: 233
Period size: 94 Copynumber: 1.8 Consensus size: 95
49031516 ACAAGTCACA
* * * *
49031526 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGA-TAAAGGCTACAAATCTTAT-TCCCTGAAGTT
1 AATCTCATCTCCCTAAAGTTACAGTGGAGCAGATTAAA-GCTACAAATCTAATCTCCCTGAAATT
49031589 GCAGTAGAATAGATTAAAACAAAAAATTACC
65 GCAGTAGAATAGATTAAAACAAAAAATTACC
* * * *
49031620 AATCTCATCTCCCTAAAGTTATAGTGGAGTAGATTAAAGCTATAAGTCTAATCTCCCTGAAATTG
1 AATCTCATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTACAAATCTAATCTCCCTGAAATTG
* *
49031685 CAGTGGATTAGATT
66 CAGTAGAATAGATT
49031699 GAAGCAACAC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
94 40 0.60
95 27 0.40
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (95 bp):
AATCTCATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGCTACAAATCTAATCTCCCTGAAATTG
CAGTAGAATAGATTAAAACAAAAAATTACC
Found at i:49031677 original size:454 final size:449
Alignment explanation
Indices: 49030762--49031702 Score: 968
Period size: 454 Copynumber: 2.1 Consensus size: 449
49030752 GCAAATCTTA
* * ** * *
49030762 TCTCCTTGAAATTGCAATGGAGCAAATTGAAGAACTAATCTTATCTCCCTAAAGTTACAGTGGAG
1 TCTCCCTGAAATTGCAGTGGATTAGATTGAAGAACTAATCTTATCTCCCTAAACTTACAGTGGAG
* * * * * *
49030827 CAGATTGAAAATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTAAAGCTACAAATCT
66 CAAACTAAAAACAGCAAATCTTATCTCTCTAAAGTCGCAGTAGAGCAAATTAAAGCTACAAATAT
*
49030892 TATCTCTCTGAAGTTGCAGTGGAGCAGAATTGAAGATAGCGAATATTATCTCTCTGAAGTGGCAG
131 TATCTCTCTGAAGTTGCAGTAGAGCAGAATTGAAGATAGCGAATATTATCTCTCTGAAGTGGCAG
* **
49030957 TAGAGCAGATTAAAACTACAAACCTTATCTCCCTGAAATTGTAGTGGAGCAGGTTAAAGATAACA
196 TAGAGCAGATTAAAACTACAAACCTTATCTCCCTGAAATTGTACTGGAGCAAATTAAAGATAACA
* * * * * * *
49031022 AATCTTATCTTCCTGAAGATGCAGTAGAGCGGATTGAAGATAGCGAATCTTATTTCCCTGAGATT
261 AATCTCATCTTCCTAAAGATGCAGTAGAACGGATTGAAGAAAGCAAATCTTATCTCCCTAAGATT
* * * * * *
49031087 GTAGTGGAATAGATTAAGGCTACAAACCACAAATCCTATACCCTTGAATTTGCAGTAGGATGGAT
326 GCAGTGGAACAGATAAAGGCT----A--ACAAATCCTATACCCTTGAAGTTGCAGTAGAATAGAT
** *** *** * * * *
49031152 TGAAGTCATCGTGGTGAATCTTATCTCTCTGAAGTTGTAGTGGAGTAGATTAAAGCCAGAAATCT
385 TGAAAACAAAATGACCAATCTCATCTCCCTAAAGTTATAGTGGAGTAGATTAAAGCCAGAAATCT
* * **
49031217 TCTCCCT-AAGGTTGCAGTGGATTAGATTGAAGATACTAATCTTATCTCCCTGAACTTGTAGTGG
1 TCTCCCTGAA-ATTGCAGTGGATTAGATTGAAGA-ACTAATCTTATCTCCCTAAACTTACAGTGG
* * * * * * *
49031281 AGTAAACTAAAAACA-CAAATCTTATCTC-CTTGAAGTCGTAGTGGAGTAGATTAAAGTTACAAA
64 AGCAAACTAAAAACAGCAAATCTTATCTCTC-TAAAGTCGCAGTAGAGCAAATTAAAGCTACAAA
* * *
49031344 TATTATCT-TCCTGAAGTTGCAGTAGAGTAG-ATTGAAGATAGCGAATCTTATCTCTCTGAAGTT
128 TATTATCTCT-CTGAAGTTGCAGTAGAGCAGAATTGAAGATAGCGAATATTATCTCTCTGAAGTG
* * * *
49031407 GCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCT-AAAGTTGTACTGGAGCAAATTAAAGC
192 GCAGTAGAGCAGATTAAAACTACAAACCTTATCTCCCTGAAA-TTGTACTGGAGCAAATTAAAGA
* * * **
49031471 T-ACAAATCTCATTTTCCTAAAGTTGCAGTGGAACTTATTGAAGCTACAAGTCACAAATCTTATC
256 TAACAAATCTCATCTTCCTAAAGATGCAGTAGAACGGATTGAAG--A-AAG---CAAATCTTATC
* * *
49031535 TCCCTAA-AGTTGCAGTGGAGCAGATAAAGGCT-ACAAATCTTATTCCC-TGAAGTTGCAGTAGA
315 TCCCTAAGA-TTGCAGTGGAACAGATAAAGGCTAACAAATCCTATACCCTTGAAGTTGCAGTAGA
* *
49031597 ATAGATT-AAAACAAAAAATTACCAATCTCATCTCCCTAAAGTTATAGTGGAGTAGATTAAAGCT
379 ATAGATTGAAAAC--AAAATGACCAATCTCATCTCCCTAAAGTTATAGTGGAGTAGATTAAAGCC
* *
49031661 ATAAGTCT
442 AGAAATCT
49031669 AATCTCCCTGAAATTGCAGTGGATTAGATTGAAG
1 --TCTCCCTGAAATTGCAGTGGATTAGATTGAAG
49031703 CAACACATCA
Statistics
Matches: 397, Mismatches: 72, Indels: 35
0.79 0.14 0.07
Matches are distributed among these distances:
450 3 0.01
451 19 0.05
452 57 0.14
453 37 0.09
454 117 0.29
455 91 0.23
456 38 0.10
458 1 0.00
459 34 0.09
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (449 bp):
TCTCCCTGAAATTGCAGTGGATTAGATTGAAGAACTAATCTTATCTCCCTAAACTTACAGTGGAG
CAAACTAAAAACAGCAAATCTTATCTCTCTAAAGTCGCAGTAGAGCAAATTAAAGCTACAAATAT
TATCTCTCTGAAGTTGCAGTAGAGCAGAATTGAAGATAGCGAATATTATCTCTCTGAAGTGGCAG
TAGAGCAGATTAAAACTACAAACCTTATCTCCCTGAAATTGTACTGGAGCAAATTAAAGATAACA
AATCTCATCTTCCTAAAGATGCAGTAGAACGGATTGAAGAAAGCAAATCTTATCTCCCTAAGATT
GCAGTGGAACAGATAAAGGCTAACAAATCCTATACCCTTGAAGTTGCAGTAGAATAGATTGAAAA
CAAAATGACCAATCTCATCTCCCTAAAGTTATAGTGGAGTAGATTAAAGCCAGAAATCT
Found at i:49033283 original size:8 final size:8
Alignment explanation
Indices: 49033267--49033311 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
49033257 TTCATCGGGC
49033267 ATCTATTT
1 ATCTATTT
*
49033275 ATTTATTT
1 ATCTATTT
49033283 ATCTA-TT
1 ATCTATTT
49033290 AT-TA-TT
1 ATCTATTT
49033296 ATCTATTT
1 ATCTATTT
*
49033304 ATGTATTT
1 ATCTATTT
49033312 TATTACAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.19
7 6 0.19
8 20 0.62
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (8 bp):
ATCTATTT
Found at i:49033302 original size:21 final size:20
Alignment explanation
Indices: 49033273--49033316 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
49033263 GGGCATCTAT
*
49033273 TTATTTATTTATCTATTATTA
1 TTATCTATTTATCTATT-TTA
*
49033294 TTATCTATTTATGTATTTTA
1 TTATCTATTTATCTATTTTA
49033314 TTA
1 TTA
49033317 CAAATTGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATCTATTTATCTATTTTA
Found at i:49036356 original size:6 final size:6
Alignment explanation
Indices: 49036347--49036385 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
49036337 ATTGTGATCA
*
49036347 TATAAT TATAAT TATAAT TATAAT T-TCACT TATAAT TAT
1 TATAAT TATAAT TATAAT TATAAT TAT-AAT TATAAT TAT
49036386 TATTTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 1 0.03
6 27 0.93
7 1 0.03
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (6 bp):
TATAAT
Found at i:49036370 original size:18 final size:18
Alignment explanation
Indices: 49036347--49036390 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
49036337 ATTGTGATCA
49036347 TATAATTAT-AATTATAAT
1 TATAATT-TCAATTATAAT
*
49036365 TATAATTTCACTTATAAT
1 TATAATTTCAATTATAAT
*
49036383 TATTATTT
1 TATAATTT
49036391 AAATATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
TATAATTTCAATTATAAT
Found at i:49036620 original size:59 final size:60
Alignment explanation
Indices: 49036550--49036718 Score: 232
Period size: 59 Copynumber: 2.8 Consensus size: 60
49036540 AATATAGGAA
* * * * *
49036550 AAATTGAGATAATTATAATTATAATTTAATTCACAATTATTAGTTAAAAATTTGGCT-CT
1 AAATTGTGATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAATTTGGATGAT
* * *
49036609 AAATTGTGATAACTATAATTATAATTTAATTTACAGTTATTAGTTAAAAGTTTTGATGAT
1 AAATTGTGATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAATTTGGATGAT
* * *
49036669 AAAGTGTGATGATTATAATTATAATTTAATTTACAGTTATTCGTTAAAAA
1 AAATTGTGATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAA
49036719 ATTCGGTGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 50 0.52
60 46 0.48
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (60 bp):
AAATTGTGATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAATTTGGATGAT
Found at i:49036698 original size:60 final size:59
Alignment explanation
Indices: 49036557--49036718 Score: 225
Period size: 60 Copynumber: 2.7 Consensus size: 59
49036547 GAAAAATTGA
* * * * *
49036557 GATAATTATAATTATAATTTAATTCACAATTATTAGTTAAAAATTTGGCTCTAAATTGT
1 GATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAATTTGGATATAAAGTGT
* * *
49036616 GATAACTATAATTATAATTTAATTTACAGTTATTAGTTAAAAGTTTTGATGATAAAGTGT
1 GATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAATTTGGAT-ATAAAGTGT
* *
49036676 GATGATTATAATTATAATTTAATTTACAGTTATTCGTTAAAAA
1 GATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAA
49036719 ATTCGGTGCT
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
59 44 0.49
60 46 0.51
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (59 bp):
GATAATTATAATTATAATTTAATTTACAGTTATTAGTTAAAAATTTGGATATAAAGTGT
Found at i:49040122 original size:44 final size:44
Alignment explanation
Indices: 49040075--49040162 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
49040065 GACGTAAATT
* ** *
49040075 AAAATTTGTGATAATTATTCATTCAAAAATAATTATAATTTAATA
1 AAAATTT-TGATAATCACACATTCAAAAATAACTATAATTTAATA
* *
49040120 AAAATTTTGATAATCGCACATTTAAAAATAACTATAATTTAAT
1 AAAATTTTGATAATCACACATTCAAAAATAACTATAATTTAAT
49040163 TTACAATTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 30 0.81
45 7 0.19
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (44 bp):
AAAATTTTGATAATCACACATTCAAAAATAACTATAATTTAATA
Found at i:49042129 original size:459 final size:459
Alignment explanation
Indices: 49041271--49042192 Score: 1736
Period size: 459 Copynumber: 2.0 Consensus size: 459
49041261 GAGATTAGAT
49041271 TTTTCTTTACGTCAGGCACGTGCCTGACATTTGACAGTGTCCTAATTGTCCCATTGTGCATCCTG
1 TTTTCTTTACGTCAGGCACGTGCCTGACATTTGACAGTGTCCTAATTGTCCCATTGTGCATCCTG
49041336 ATCTAAACAGTACCAGTATCGATTACCTTATTGGGTGAACCATTCCCCGTGTGCACAACTTCACA
66 ATCTAAACAGTACCAGTATCGATTACCTTATTGGGTGAACCATTCCCCGTGTGCACAACTTCACA
*
49041401 TTCAACTAAACTGTATGTGGAGAACCAGTCCCTCTTGGGACACATGTGGAAAGAAAACCTCAAAT
131 TTCAACTAAACTGTATGTGGAGAACCAGTCCCTCTTGGGACACATGTGGAAAGAAAACATCAAAT
* *
49041466 CTAGGATCCACTCGGACGTAAACCTGAAGCTTTCACTTGCTGAAACCAACAAGAAATCATCTTCC
196 CTAAGATCCACTCGGACGTAAACCTGAAGCTTTCACTTGCTGAAACCAACAAGAAATCATCATCC
* *
49041531 TTATCATTGGCCAAATTAGCACCAACTAAATCTTTCTCGTTGCTCTCAACAACCAATTTCTAATG
261 TTATCATTGACCAAATTAGCACCAACTAAATCTTCCTCGTTGCTCTCAACAACCAATTTCTAATG
49041596 CTAACCACTATCTCCAATCTTAGCCCCTGTTTGTGGCCGAGGGAGCCACTCCTATTTCCTGCCAG
326 CTAACCACTATCTCCAATCTTAGCCCCTGTTTGTGGCCGAGGGAGCCACTCCTATTTCCTGCCAG
49041661 ACCAACTTTGTAAAGGCGCATTCCCGAAACAAATGAGCTACAAATTGGGCAAAGAGCATTCACCA
391 ACCAACTTTGTAAAGGCGCATTCCCGAAACAAATGAGCTACAAATTGGGCAAAGAGCATTCACCA
49041726 TAAG
456 TAAG
*
49041730 TTTTCTTTACGTCAGGCACGTGCCTGACATTTGGCAGTGTCCTAATTGTCCCATTGTGCATCCTG
1 TTTTCTTTACGTCAGGCACGTGCCTGACATTTGACAGTGTCCTAATTGTCCCATTGTGCATCCTG
49041795 ATCTAAACAGTACCAGTATCGATTACCTTATTGGGTGAACCATTCCCCGTGTGCACAACTTCACA
66 ATCTAAACAGTACCAGTATCGATTACCTTATTGGGTGAACCATTCCCCGTGTGCACAACTTCACA
*
49041860 TTCAACTAAACTGTATGTGGAGAACCAGTCCCTCTTGGGACACATGTGGAAAGAAAACATCGAAT
131 TTCAACTAAACTGTATGTGGAGAACCAGTCCCTCTTGGGACACATGTGGAAAGAAAACATCAAAT
49041925 CTAAGATCCACTCGGACGTAAACCTGAAGCTTTCACTTGCTGAAACCAACAAGAAATCATCATCC
196 CTAAGATCCACTCGGACGTAAACCTGAAGCTTTCACTTGCTGAAACCAACAAGAAATCATCATCC
* *
49041990 TTATCATTGACCAAATTAGGACCAACTAAATCTTCCTCGTTGCTCTCAGCAACCAATTTCTAATG
261 TTATCATTGACCAAATTAGCACCAACTAAATCTTCCTCGTTGCTCTCAACAACCAATTTCTAATG
* *
49042055 CTAACCACTATCTCCAATCTTAGCCCTTGTTTGTGGTCGAGGGAGCCACTCCTATTTCCTGCCAG
326 CTAACCACTATCTCCAATCTTAGCCCCTGTTTGTGGCCGAGGGAGCCACTCCTATTTCCTGCCAG
*
49042120 ACCAACTTTGTGAAGGCGCATTCCCGAAACAAATGAGCTACAAATTGGGCAAAGAGCATTCACCA
391 ACCAACTTTGTAAAGGCGCATTCCCGAAACAAATGAGCTACAAATTGGGCAAAGAGCATTCACCA
49042185 TAAG
456 TAAG
49042189 TTTT
1 TTTT
49042193 TATGATTTCA
Statistics
Matches: 451, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
459 451 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (459 bp):
TTTTCTTTACGTCAGGCACGTGCCTGACATTTGACAGTGTCCTAATTGTCCCATTGTGCATCCTG
ATCTAAACAGTACCAGTATCGATTACCTTATTGGGTGAACCATTCCCCGTGTGCACAACTTCACA
TTCAACTAAACTGTATGTGGAGAACCAGTCCCTCTTGGGACACATGTGGAAAGAAAACATCAAAT
CTAAGATCCACTCGGACGTAAACCTGAAGCTTTCACTTGCTGAAACCAACAAGAAATCATCATCC
TTATCATTGACCAAATTAGCACCAACTAAATCTTCCTCGTTGCTCTCAACAACCAATTTCTAATG
CTAACCACTATCTCCAATCTTAGCCCCTGTTTGTGGCCGAGGGAGCCACTCCTATTTCCTGCCAG
ACCAACTTTGTAAAGGCGCATTCCCGAAACAAATGAGCTACAAATTGGGCAAAGAGCATTCACCA
TAAG
Found at i:49050383 original size:25 final size:25
Alignment explanation
Indices: 49050355--49050437 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
49050345 TTTCAGTGAT
49050355 TAATTTAAATTAATTAAGAGATAAA
1 TAATTTAAATTAATTAAGAGATAAA
* * *
49050380 TAATATAAACTATATTATCACTA-ATTAAA
1 TAATTTAAATTA-ATTA--A-GAGA-TAAA
*
49050409 TTAATTTAAATTAA-TATGAGATAAA
1 -TAATTTAAATTAATTAAGAGATAAA
49050434 TAAT
1 TAAT
49050438 AAATGAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 15
0.67 0.11 0.23
Matches are distributed among these distances:
24 4 0.09
25 15 0.34
26 5 0.11
28 4 0.09
29 6 0.14
30 10 0.23
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (25 bp):
TAATTTAAATTAATTAAGAGATAAA
Found at i:49052112 original size:21 final size:21
Alignment explanation
Indices: 49052087--49052157 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
49052077 TTAAACTTTG
49052087 ATTAGTGTAGGTTATTTTAAT
1 ATTAGTGTAGGTTATTTTAAT
*** *
49052108 ATTAGT-T-TCCTATTTAAACTTT
1 ATTAGTGTAGGTTATTTTAA---T
49052130 GATTAGTGTAGGTTATTTTAAT
1 -ATTAGTGTAGGTTATTTTAAT
49052152 ATTAGT
1 ATTAGT
49052158 TTCCCATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
19 7 0.19
20 1 0.03
21 12 0.33
22 2 0.06
23 6 0.17
24 1 0.03
25 7 0.19
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (21 bp):
ATTAGTGTAGGTTATTTTAAT
Found at i:49052128 original size:44 final size:44
Alignment explanation
Indices: 49052065--49052243 Score: 286
Period size: 44 Copynumber: 4.1 Consensus size: 44
49052055 AACTCTGTTT
* * *
49052065 TTAGTTTCTCACTTAAACTTTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCATTTAAACTCTGATTAGTGTAGGTTATTTTAATA
* *
49052109 TTAGTTTCCTATTTAAACTTTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCATTTAAACTCTGATTAGTGTAGGTTATTTTAATA
* *
49052153 TTAGTTTCCCATTTAAACTCTGATTAGTATAGATTATTTTAATA
1 TTAGTTTCCCATTTAAACTCTGATTAGTGTAGGTTATTTTAATA
*
49052197 TTAGTTTCCCATTTAAACTCTAATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCATTTAAACTCTGATTAGTGTAGGTTATTTTAATA
49052241 TTA
1 TTA
49052244 TTTTATCTAC
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 125 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (44 bp):
TTAGTTTCCCATTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:49060370 original size:5 final size:5
Alignment explanation
Indices: 49060360--49060397 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
49060350 ATCAATATAA
49060360 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
49060398 TATATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:49069561 original size:18 final size:18
Alignment explanation
Indices: 49069538--49069577 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
49069528 GGGCCCTTCG
49069538 GGCCGGGCCGGGCCGCCC
1 GGCCGGGCCGGGCCGCCC
49069556 GGCCGGGCCGGGCCGCCC
1 GGCCGGGCCGGGCCGCCC
49069574 GGCC
1 GGCC
49069578 CATGGACAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.50, G:0.50, T:0.00
Consensus pattern (18 bp):
GGCCGGGCCGGGCCGCCC
Found at i:49071308 original size:45 final size:44
Alignment explanation
Indices: 49071176--49071314 Score: 156
Period size: 45 Copynumber: 3.1 Consensus size: 44
49071166 ATTAATGAAA
* *
49071176 ATAAAGGTGATTGCTATGTACAGATTTCACCGGATACCAATG-GTT
1 ATAAAGGTGATTGCTATGTACTGATTTCACCGG-TACCATTGAG-T
*
49071221 ATATAA-GTGATTGCTATGTACTGAATTCACCCGGTACCATTGAGT
1 ATA-AAGGTGATTGCTATGTACTGATTTCA-CCGGTACCATTGAGT
* * * *
49071266 ATAAAGGTGGTTGCTATGTACTGATTTCACAGAGTACTATTGACT
1 ATAAAGGTGATTGCTATGTACTGATTTCACCG-GTACCATTGAGT
49071311 ATAA
1 ATAA
49071315 GTGTGGTGCT
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
44 4 0.05
45 70 0.86
46 7 0.09
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (44 bp):
ATAAAGGTGATTGCTATGTACTGATTTCACCGGTACCATTGAGT
Found at i:49075992 original size:52 final size:55
Alignment explanation
Indices: 49075907--49076020 Score: 128
Period size: 52 Copynumber: 2.1 Consensus size: 55
49075897 TTGGATTGGT
* *
49075907 TATTTTGTAACTTTTCATAGTTTGGTGAAAAAAAT-A-T-TAATAGTTGAGTGAC
1 TATTTTGTAACTTTTCATAATTGGGTGAAAAAAATAATTATAATAGTTGAGTGAC
* *
49075959 TATTTTGTAACTTTTTATAATTGGGT-ACTAAAAATGAATTTACTAATAGTTGAGTGAC
1 TATTTTGTAACTTTTCATAATTGGGTGA-AAAAAAT-AA-TTA-TAATAGTTGAGTGAC
49076017 TATT
1 TATT
49076021 AGTGTAGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
51 1 0.02
52 29 0.57
54 1 0.02
56 1 0.02
58 19 0.37
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (55 bp):
TATTTTGTAACTTTTCATAATTGGGTGAAAAAAATAATTATAATAGTTGAGTGAC
Found at i:49081331 original size:3 final size:3
Alignment explanation
Indices: 49081323--49081376 Score: 58
Period size: 3 Copynumber: 18.7 Consensus size: 3
49081313 TTTTTTAAAA
* * * *
49081323 AAT AAT AAT AA- AAT AAC AA- GAT AAT AAA AAT CAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49081369 AAT AAT AA
1 AAT AAT AA
49081377 ATAAAAATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 3 0.07
3 39 0.93
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:49081362 original size:31 final size:31
Alignment explanation
Indices: 49081324--49081384 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
49081314 TTTTTAAAAA
49081324 ATAATAATAA-AATAACAAGATAATAAAAATC
1 ATAATAATAATAATAACAAGA-AATAAAAATC
* *
49081355 ATAATAATAATAATAATAATAAATAAAAAT
1 ATAATAATAATAATAACAAGAAATAAAAAT
49081385 TAAAGCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 19 0.70
32 8 0.30
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (31 bp):
ATAATAATAATAATAACAAGAAATAAAAATC
Found at i:49082584 original size:30 final size:30
Alignment explanation
Indices: 49082550--49082606 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49082540 ATAATAAATT
49082550 ATATTTAAATAATTTAATATAATGATAATG
1 ATATTTAAATAATTTAATATAATGATAATG
**
49082580 ATATTTAGGTAATTTAATATAATGATA
1 ATATTTAAATAATTTAATATAATGATA
49082607 CATAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (30 bp):
ATATTTAAATAATTTAATATAATGATAATG
Found at i:49083891 original size:27 final size:27
Alignment explanation
Indices: 49083855--49083910 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
49083845 AAAAATAAAA
* *
49083855 TTTAATTTGCTGAATAACCATTAGAAT
1 TTTAATTTGCTGAATAACCACTACAAT
49083882 TTTAATTTGCTGAATAACCACTACAAT
1 TTTAATTTGCTGAATAACCACTACAAT
49083909 TT
1 TT
49083911 AGATCGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (27 bp):
TTTAATTTGCTGAATAACCACTACAAT
Found at i:49084063 original size:41 final size:41
Alignment explanation
Indices: 49084002--49084088 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
49083992 AATTATTATC
*
49084002 AAATATAGGAAAATCGTATATATATACTTTTGCTTTTTAAA
1 AAATATAGGAAAATCATATATATATACTTTTGCTTTTTAAA
* * * *
49084043 AAATATAGGGAATTCATATATATATATTTTTTCTTTTTAAA
1 AAATATAGGAAAATCATATATATATACTTTTGCTTTTTAAA
49084084 AAATA
1 AAATA
49084089 AAATAAGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.44
Consensus pattern (41 bp):
AAATATAGGAAAATCATATATATATACTTTTGCTTTTTAAA
Found at i:49087503 original size:20 final size:21
Alignment explanation
Indices: 49087473--49087516 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
49087463 AGAGTAGATA
49087473 AAATAAAAACCACGA-AACTGT
1 AAATAAAAACCACGATAA-TGT
49087494 AAAT-AAAACCACGATAATGT
1 AAATAAAAACCACGATAATGT
49087514 AAA
1 AAA
49087517 CTGAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.59, C:0.16, G:0.09, T:0.16
Consensus pattern (21 bp):
AAATAAAAACCACGATAATGT
Found at i:49090080 original size:17 final size:17
Alignment explanation
Indices: 49090058--49090093 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
49090048 CCTTTTGCTG
49090058 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
49090075 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
49090092 TA
1 TA
49090094 TATTAGGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TAATTTGAAATATGAGT
Found at i:49091023 original size:15 final size:15
Alignment explanation
Indices: 49090988--49091039 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
49090978 TTAAGAATTT
*
49090988 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49091002 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49091016 TATTTAATAATAAT-
1 TATTTAATTATAATA
49091030 TATGTTAATT
1 TAT-TTAATT
49091040 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49091171 original size:107 final size:109
Alignment explanation
Indices: 49091052--49091267 Score: 409
Period size: 107 Copynumber: 2.0 Consensus size: 109
49091042 TATTTTACAG
49091052 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
49091117 ATATATTTTAATTATAATATATTTTATAATAATTATG-TTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
49091160 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
49091224 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
49091268 ATGATTAAAT
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
107 96 0.91
108 10 0.09
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.49
Consensus pattern (109 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
Found at i:49091245 original size:16 final size:16
Alignment explanation
Indices: 49091224--49091265 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49091214 TTATTAAATT
*
49091224 ATATATTTTAATTATA
1 ATATATTTTAATAATA
49091240 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
49091255 AT-TATGTTTAA
1 ATATAT-TTTAA
49091266 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:49091250 original size:15 final size:15
Alignment explanation
Indices: 49091215--49091256 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49091205 TTAAGAATTT
*
49091215 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49091229 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49091243 TATTTAATAATAAT
1 TATTTAATTATAAT
49091257 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49095697 original size:2 final size:2
Alignment explanation
Indices: 49095690--49095715 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49095680 AATTCAGGAC
49095690 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
49095716 ATCCTAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:49097790 original size:16 final size:15
Alignment explanation
Indices: 49097769--49097799 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
49097759 TTTATTCTCC
49097769 TTTTTCCTTTTCTTTA
1 TTTTTCCTTTT-TTTA
49097785 TTTTTCCTTTTTTTA
1 TTTTTCCTTTTTTTA
49097800 ATGGAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTCCTTTTTTTA
Done.