Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 49 of 66
Found at i:17787006 original size:2 final size:2
Alignment explanation
Indices: 17786999--17787030 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
17786989 TTTATTGAAA
17786999 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17787031 GAGGGTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17798615 original size:31 final size:30
Alignment explanation
Indices: 17798577--17798669 Score: 150
Period size: 31 Copynumber: 3.0 Consensus size: 30
17798567 ATCTTACTAG
17798577 TATTATATTATAAGAATTAAATTAAACAAAA
1 TATTATATTATAA-AATTAAATTAAACAAAA
17798608 TATTATATTATAAAAATTAAATTAAACAAAA
1 TATTATATTAT-AAAATTAAATTAAACAAAA
*
17798639 TATTATAATATAAATATTAAATTAAACAAAA
1 TATTATATTATAAA-ATTAAATTAAACAAAA
17798670 CTCTATAGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
30 3 0.05
31 54 0.92
32 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (30 bp):
TATTATATTATAAAATTAAATTAAACAAAA
Found at i:17799592 original size:31 final size:31
Alignment explanation
Indices: 17799551--17799613 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
17799541 GTATCCACGA
* *
17799551 AGTCCCTATATTATAGA-GGTTTGTTCAATTT
1 AGTCCATATATTAT-GACAGTTTGTTCAATTT
*
17799582 AGTCCATATATTATGACATTTTGTTCAATTT
1 AGTCCATATATTATGACAGTTTGTTCAATTT
17799613 A
1 A
17799614 ATCTTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.46
Consensus pattern (31 bp):
AGTCCATATATTATGACAGTTTGTTCAATTT
Found at i:17799637 original size:31 final size:31
Alignment explanation
Indices: 17799570--17799634 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
17799560 ATTATAGAGG
* * *
17799570 TTTGTTCAATTTAGTCCATATATTATGACAT
1 TTTGTTCAATTTAATCCATATAATATAACAT
**
17799601 TTTGTTCAATTTAATCTTTATAATATAACGAT
1 TTTGTTCAATTTAATCCATATAATATAAC-AT
17799633 TT
1 TT
17799635 GTTTATTTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.51
Consensus pattern (31 bp):
TTTGTTCAATTTAATCCATATAATATAACAT
Found at i:17801348 original size:2 final size:2
Alignment explanation
Indices: 17801323--17801381 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
17801313 GATAAAATAA
* * *
17801323 AT AT AT AA AT AT AC AT AC AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17801364 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
17801382 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:17801442 original size:2 final size:2
Alignment explanation
Indices: 17801435--17801478 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
17801425 AATAATAATA
17801435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17801477 AT
1 AT
17801479 TCAGCATTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17802709 original size:41 final size:41
Alignment explanation
Indices: 17802639--17802729 Score: 114
Period size: 41 Copynumber: 2.2 Consensus size: 41
17802629 TTAATCGATA
*
17802639 AATTCCGTTGGTAAAAATACTAACGAATTTAGACCTC-TCAG
1 AATTCCGTTGGTAAAAATACTAACAAATTTAGA-CTCGTCAG
* *
17802680 AATTTCGTTGGTAAAAATA-TCGACAAATTTAGACTCGTCAG
1 AATTCCGTTGGTAAAAATACT-AACAAATTTAGACTCGTCAG
17802721 AAATTCCGT
1 -AATTCCGT
17802730 CGATGGTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
40 4 0.09
41 32 0.74
42 7 0.16
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (41 bp):
AATTCCGTTGGTAAAAATACTAACAAATTTAGACTCGTCAG
Found at i:17803175 original size:25 final size:25
Alignment explanation
Indices: 17803128--17803175 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
17803118 CATCCGAATG
* * *
17803128 TAAACATTTGATAAAAATTCAAACA
1 TAAACATCTAATAAAAATGCAAACA
*
17803153 TAAACATCTAATAAAAGTGCAAA
1 TAAACATCTAATAAAAATGCAAA
17803176 TCTTACTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.25
Consensus pattern (25 bp):
TAAACATCTAATAAAAATGCAAACA
Found at i:17803701 original size:30 final size:30
Alignment explanation
Indices: 17803665--17803731 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
17803655 TATATGTCGA
* * * *
17803665 ATATATACATGTGTGTGTGTATATATATAT
1 ATATATACATGTATGTGTATATATATACAC
17803695 ATATATACATGTATGTGTATATATATACAC
1 ATATATACATGTATGTGTATATATATACAC
17803725 ATATATA
1 ATATATA
17803732 AACACATATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (30 bp):
ATATATACATGTATGTGTATATATATACAC
Found at i:17805660 original size:17 final size:15
Alignment explanation
Indices: 17805630--17805672 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
17805620 ATTTTGTAGA
17805630 AAATTAATTAAAACT
1 AAATTAATTAAAACT
17805645 AAATTCAATCTAAAACT
1 AAATT-AAT-TAAAACT
*
17805662 AAATTTATTAA
1 AAATTAATTAA
17805673 CAAAAACTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 8 0.32
16 5 0.20
17 12 0.48
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTAATTAAAACT
Found at i:17807004 original size:21 final size:22
Alignment explanation
Indices: 17806967--17807010 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
17806957 AGAACAAAAA
*
17806967 AACTTAAAATTATCTAAT-AAT
1 AACTTAAAATTAACTAATCAAT
17806988 AACTT-AAATTAAACTAATCAAT
1 AACTTAAAATT-AACTAATCAAT
17807010 A
1 A
17807011 CGGAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (22 bp):
AACTTAAAATTAACTAATCAAT
Found at i:17807707 original size:12 final size:12
Alignment explanation
Indices: 17807664--17807708 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
17807654 CAACACTTCA
17807664 TTTTTTTTCTTCT
1 TTTTTTTTCTT-T
*
17807677 TTTTCTTCTCTTT
1 TTTT-TTTTCTTT
*
17807690 TCTTTTTTCTTT
1 TTTTTTTTCTTT
17807702 TTTTTTT
1 TTTTTTT
17807709 CTCAATATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 13 0.48
13 8 0.30
14 6 0.22
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:17811253 original size:17 final size:15
Alignment explanation
Indices: 17811223--17811265 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 15
17811213 ATTTTGTAGA
17811223 AAATTAATTAAAACT
1 AAATTAATTAAAACT
17811238 AAATTCAATCTAAAACT
1 AAATT-AAT-TAAAACT
17811255 AAATTAATTAA
1 AAATTAATTAA
17811266 CAAAAACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
17 12 0.46
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTAATTAAAACT
Found at i:17812400 original size:23 final size:23
Alignment explanation
Indices: 17812353--17812397 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
17812343 GCAAAATTTA
*
17812353 TAAACTCTCTCTCCCGCTCGCTC
1 TAAACTCTCTCTCCCGATCGCTC
17812376 TAAACTCT-TCTCCCGATC-CTC
1 TAAACTCTCTCTCCCGATCGCTC
17812397 T
1 T
17812398 CTATCTTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 9 0.43
23 8 0.38
ACGTcount: A:0.16, C:0.44, G:0.07, T:0.33
Consensus pattern (23 bp):
TAAACTCTCTCTCCCGATCGCTC
Found at i:17818273 original size:2 final size:2
Alignment explanation
Indices: 17818266--17818366 Score: 80
Period size: 2 Copynumber: 49.5 Consensus size: 2
17818256 ATGAATTAAT
* * *
17818266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
17818308 TA T- TG TT TCA GA TA TGA TA -A GTT TGA NA TA TA TA TA TA TA TA
1 TA TA TA TA T-A TA TA T-A TA TA -TA T-A TA TA TA TA TA TA TA TA
17818350 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
17818367 GTATGTATGT
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
1 2 0.03
2 75 0.95
3 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (2 bp):
TA
Found at i:17818376 original size:68 final size:67
Alignment explanation
Indices: 17818267--17818401 Score: 245
Period size: 68 Copynumber: 2.0 Consensus size: 67
17818257 TGAATTAATT
17818267 ATATATATATATATATATATATATATATATATGTATGTATGTAT-TGTTTCAGATATGATAAGTT
1 ATATATATATATATATATATATATATATATATGTATGTATGTATGT-TTTCAGATATGATAAGTT
17818331 TGA
65 TGA
17818334 NATATATATATATATATATATATATATATATATGTATGTATGTATGTTTTCAGATATGATAAGTT
1 -ATATATATATATATATATATATATATATATATGTATGTATGTATGTTTTCAGATATGATAAGTT
17818399 TGA
65 TGA
17818402 TGTATTTAGC
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 65 0.98
69 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (67 bp):
ATATATATATATATATATATATATATATATATGTATGTATGTATGTTTTCAGATATGATAAGTTT
GA
Found at i:17823171 original size:6 final size:6
Alignment explanation
Indices: 17823162--17823198 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
17823152 GGGGTTTTGG
17823162 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT G
1 GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT GAGAGT G
17823199 GGATTGGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.16
Consensus pattern (6 bp):
GAGAGT
Found at i:17828441 original size:33 final size:33
Alignment explanation
Indices: 17828379--17828442 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
17828369 ATATCATATG
* **
17828379 ATAATAATGTGATATATTAACATGTTATAATAA
1 ATAATAACGTGATATATTAACATAATATAATAA
* *
17828412 ATAATAACGTGATATATTGATATAATATAAT
1 ATAATAACGTGATATATTAACATAATATAAT
17828443 GACATAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (33 bp):
ATAATAACGTGATATATTAACATAATATAATAA
Found at i:17831609 original size:87 final size:87
Alignment explanation
Indices: 17831506--17831683 Score: 302
Period size: 87 Copynumber: 2.0 Consensus size: 87
17831496 TCAATTTCCC
* **
17831506 TTTTGTTTTGTGTGCTTGATATGCAGATTGGTGCATGTTTAATTCAATTTGTCAGATTAAAAGAG
1 TTTTGTTTTGTGTGCTTGATATGCAGATTGGTGCATCTTTAATTCAATTTGTCAGAGGAAAAGAG
17831571 TATGAAACTCAGAATCTAAAAT
66 TATGAAACTCAGAATCTAAAAT
*
17831593 TTTTGTTTTTTGTGCTTGATATGCAGATTGGTGCATCTTTAATTCAATTTGTCAGAGGAAAAGAG
1 TTTTGTTTTGTGTGCTTGATATGCAGATTGGTGCATCTTTAATTCAATTTGTCAGAGGAAAAGAG
* *
17831658 TATGAAACTCGGAATCTAAACT
66 TATGAAACTCAGAATCTAAAAT
17831680 TTTT
1 TTTT
17831684 AAGTCTTTAG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (87 bp):
TTTTGTTTTGTGTGCTTGATATGCAGATTGGTGCATCTTTAATTCAATTTGTCAGAGGAAAAGAG
TATGAAACTCAGAATCTAAAAT
Found at i:17836333 original size:6 final size:6
Alignment explanation
Indices: 17836322--17836356 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
17836312 AGACACATGC
17836322 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTG
1 ATTTGT ATTTGT ATTTGT ATTTGT ATTTGT ATTTG
17836357 AGTCGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
ATTTGT
Found at i:17843954 original size:9 final size:9
Alignment explanation
Indices: 17843940--17843969 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17843930 TTTAAAAATT
*
17843940 TTTAAATAA
1 TTTAAAGAA
17843949 TTTAAAGAA
1 TTTAAAGAA
17843958 TTTAAAGAA
1 TTTAAAGAA
17843967 TTT
1 TTT
17843970 TTTAACATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (9 bp):
TTTAAAGAA
Found at i:17862466 original size:16 final size:15
Alignment explanation
Indices: 17862445--17862488 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
17862435 TAAAAGTTTG
17862445 AAAAATATATAATATA
1 AAAAATATATAAT-TA
17862461 AAAAATATA-AATTA
1 AAAAATATATAATTA
17862475 AATAAA-ATATAATT
1 AA-AAATATATAATT
17862489 TATTAATATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.27
15 10 0.38
16 9 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAAATATATAATTA
Found at i:17862476 original size:14 final size:16
Alignment explanation
Indices: 17862445--17862486 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
17862435 TAAAAGTTTG
17862445 AAAAATATATAATAT-A
1 AAAAATATA-AATATAA
17862461 AAAAATATAAAT-TAA
1 AAAAATATAAATATAA
17862476 ATAAAATATAA
1 A-AAAATATAA
17862487 TTTATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.04
15 5 0.21
16 18 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATATAAATATAA
Found at i:17862621 original size:41 final size:41
Alignment explanation
Indices: 17862576--17862658 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
17862566 TATCATATAG
17862576 TCAATATACCA-TGGCATCACTTAACATGTTAGACTGCAGCA
1 TCAATATA-CATTGGCATCACTTAACATGTTAGACTGCAGCA
17862617 TCAATATACATTGGCATCACTTAACATGTTAGACTGCAGCA
1 TCAATATACATTGGCATCACTTAACATGTTAGACTGCAGCA
17862658 T
1 T
17862659 GCCTGGGTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 2 0.05
41 39 0.95
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (41 bp):
TCAATATACATTGGCATCACTTAACATGTTAGACTGCAGCA
Found at i:17864922 original size:16 final size:16
Alignment explanation
Indices: 17864901--17864935 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17864891 TAAAATTATC
* *
17864901 ATAAAAAATCTAATAA
1 ATAAAAAATATAAAAA
17864917 ATAAAAAATATAAAAA
1 ATAAAAAATATAAAAA
17864933 ATA
1 ATA
17864936 TTTTTACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
ATAAAAAATATAAAAA
Found at i:17865040 original size:21 final size:22
Alignment explanation
Indices: 17865016--17865065 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
17865006 AAATTATTTT
* *
17865016 AATAAATAA-AAATATTTTTGA
1 AATAAATAAGAAAAATTTTTCA
17865037 AATAAA-AAGAAAAATTTTTCA
1 AATAAATAAGAAAAATTTTTCA
*
17865058 AAAAAATA
1 AATAAATA
17865066 TGTATTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 21 0.88
22 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (22 bp):
AATAAATAAGAAAAATTTTTCA
Found at i:17865974 original size:20 final size:21
Alignment explanation
Indices: 17865939--17865990 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
17865929 TTTTTATTTT
* *
17865939 TTATTTATATTATATGTTATA-
1 TTATTT-TATTTTATGTGATAG
17865960 TTATTTTATTTTATGTGATAG
1 TTATTTTATTTTATGTGATAG
17865981 TTA-TTTATTT
1 TTATTTTATTT
17865991 GAATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (21 bp):
TTATTTTATTTTATGTGATAG
Found at i:17866543 original size:19 final size:19
Alignment explanation
Indices: 17866497--17866533 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17866487 AATGTGGTGT
17866497 CAACATGATTACATGGCAA
1 CAACATGATTACATGGCAA
*
17866516 CAACATGATTACGTGGCA
1 CAACATGATTACATGGCA
17866534 CTAATATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.22
Consensus pattern (19 bp):
CAACATGATTACATGGCAA
Found at i:17868128 original size:24 final size:24
Alignment explanation
Indices: 17868100--17868146 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
17868090 ACATTATCAT
17868100 GCCATAATGTTGGTGTCATGTCAC
1 GCCATAATGTTGGTGTCATGTCAC
17868124 GCCATAATGTTGGTGTCATGTCA
1 GCCATAATGTTGGTGTCATGTCA
17868147 TTATAATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (24 bp):
GCCATAATGTTGGTGTCATGTCAC
Found at i:17889563 original size:2 final size:2
Alignment explanation
Indices: 17889556--17889581 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17889546 CAAGGAAGGA
17889556 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
17889582 GGGTTCGGCT
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):
AG
Found at i:17891266 original size:59 final size:59
Alignment explanation
Indices: 17891169--17891285 Score: 207
Period size: 59 Copynumber: 2.0 Consensus size: 59
17891159 TACTTTTATT
* * *
17891169 GCATTCAATTAAGTTTATAAATTTTACTTTTAGGTCAAACAAGTCATTTTCACTATCTA
1 GCATTCAATTAAGTTCATAAATTTTAATTTTAGATCAAACAAGTCATTTTCACTATCTA
17891228 GCATTCAATTAAGTTCATAAATTTTAATTTTAGATCAAACAAGTCATTTTCACTATCT
1 GCATTCAATTAAGTTCATAAATTTTAATTTTAGATCAAACAAGTCATTTTCACTATCT
17891286 CTTAACTAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (59 bp):
GCATTCAATTAAGTTCATAAATTTTAATTTTAGATCAAACAAGTCATTTTCACTATCTA
Found at i:17892858 original size:24 final size:23
Alignment explanation
Indices: 17892825--17892870 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
17892815 GTTCTTCCAA
17892825 TCTTTTTATCTTTGAATCTGTCG
1 TCTTTTTATCTTTGAATCTGTCG
*
17892848 TCTTTCTTATCTTTGAATTTGTC
1 TCTTT-TTATCTTTGAATCTGTC
17892871 AGCTTATGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.13, C:0.17, G:0.11, T:0.59
Consensus pattern (23 bp):
TCTTTTTATCTTTGAATCTGTCG
Found at i:17895613 original size:14 final size:15
Alignment explanation
Indices: 17895586--17895630 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
17895576 AAATCATATT
*
17895586 TAAAAAAAAT-ATAA
1 TAAATAAAATAATAA
17895600 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
*
17895614 T-AATAAAAAAATAA
1 TAAATAAAATAATAA
17895628 TAA
1 TAA
17895631 CGATTCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 7 0.27
14 18 0.69
15 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAATAAAATAATAA
Found at i:17895618 original size:17 final size:17
Alignment explanation
Indices: 17895587--17895630 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
17895577 AATCATATTT
17895587 AAAAAA-AAT-ATAATA
1 AAAAAATAATAATAATA
*
17895602 AATAAATAATAATAATA
1 AAAAAATAATAATAATA
17895619 AAAAAATAATAA
1 AAAAAATAATAA
17895631 CGATTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.20
16 3 0.12
17 17 0.68
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAAATAATAATAATA
Found at i:17895929 original size:19 final size:19
Alignment explanation
Indices: 17895893--17895978 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 19
17895883 CTTACAAAAA
*
17895893 AAAT-AAATAATAATATAAT
1 AAATAAAAT-ATAAAATAAT
17895912 -AATCAAAATATAAAATAAT
1 AAAT-AAAATATAAAATAAT
*
17895931 AAATAAAATA-AAAATAAAA
1 AAATAAAATATAAAAT-AAT
17895950 AAATAAAAAATAGTAAAA-AAT
1 AAAT--AAAATA-TAAAATAAT
17895971 AAA-AAAAT
1 AAATAAAAT
17895979 TTTGTCCACT
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
18 13 0.23
19 21 0.38
20 7 0.12
21 11 0.20
23 4 0.07
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.22
Consensus pattern (19 bp):
AAATAAAATATAAAATAAT
Found at i:17895936 original size:31 final size:32
Alignment explanation
Indices: 17895888--17895975 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 32
17895878 GATTGCTTAC
* * *
17895888 AAAA-AAAATAA-ATAATAATATAATAATCAA
1 AAAATAAAATAATATAATAAAATAAAAATAAA
*
17895918 AATATAAAATAATA-AATAAAATAAAAATAAA
1 AAAATAAAATAATATAATAAAATAAAAATAAA
17895949 AAAATAAAA-AATAGTAA-AAAATAAAAA
1 AAAATAAAATAATA-TAATAAAATAAAAA
17895976 AATTTTGTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
30 7 0.14
31 39 0.80
32 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (32 bp):
AAAATAAAATAATATAATAAAATAAAAATAAA
Found at i:17895951 original size:8 final size:8
Alignment explanation
Indices: 17895889--17895978 Score: 69
Period size: 8 Copynumber: 11.0 Consensus size: 8
17895879 ATTGCTTACA
17895889 AAAAAAAT
1 AAAAAAAT
17895897 AAATAATAAT
1 AAA-AA-AAT
* *
17895907 ATAATAAT
1 AAAAAAAT
* *
17895915 CAAAATAT
1 AAAAAAAT
*
17895923 AAAATAAT
1 AAAAAAAT
17895931 AAATAAAAT
1 AAA-AAAAT
17895940 --AAAAAT
1 AAAAAAAT
17895946 AAAAAAAT
1 AAAAAAAT
17895954 -AAAAAAT
1 AAAAAAAT
17895961 AGTAAAAAAT
1 A--AAAAAAT
17895971 AAAAAAAT
1 AAAAAAAT
17895979 TTTGTCCACT
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
6 5 0.08
7 8 0.12
8 31 0.48
9 7 0.11
10 13 0.20
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (8 bp):
AAAAAAAT
Found at i:17895977 original size:33 final size:33
Alignment explanation
Indices: 17895888--17895978 Score: 73
Period size: 33 Copynumber: 2.8 Consensus size: 33
17895878 GATTGCTTAC
* * *
17895888 AAAAAA-AATAAATAATAATATAATAATCAAAATAT
1 AAAAAATAATAAATAA-AA-A-AAAAATAAAAAAAT
*
17895923 -AAAA-TAATAAATAAAATAAAAATAAAAAAAT
1 AAAAAATAATAAATAAAAAAAAAATAAAAAAAT
*
17895954 AAAAAATAGTAAA-AAATAAAAAAAT
1 AAAAAATAATAAATAAA-AAAAAAAT
17895979 TTTGTCCACT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
31 11 0.24
32 7 0.15
33 15 0.33
34 13 0.28
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (33 bp):
AAAAAATAATAAATAAAAAAAAAATAAAAAAAT
Found at i:17902126 original size:16 final size:14
Alignment explanation
Indices: 17902091--17902128 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
17902081 TTCGTTTGGT
17902091 AGAGAGAGAATGAG
1 AGAGAGAGAATGAG
*
17902105 AAAGAGAGCAATGA-
1 AGAGAGAG-AATGAG
17902119 AGAGAGAGAA
1 AGAGAGAGAA
17902129 AGAACAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 14 0.67
15 5 0.24
ACGTcount: A:0.55, C:0.03, G:0.37, T:0.05
Consensus pattern (14 bp):
AGAGAGAGAATGAG
Found at i:17909329 original size:3 final size:3
Alignment explanation
Indices: 17909316--17909385 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
17909306 CCTGTTTACA
* * *
17909316 TAT TAAT TAT TAT TAT T-T TAT TATT TAT TTT TCT AAT GTA- TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT
17909362 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
17909386 CTTTTAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 4 0.07
3 46 0.81
4 7 0.12
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17909640 original size:14 final size:13
Alignment explanation
Indices: 17909621--17909650 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
17909611 TTTATAAATA
17909621 TTTCTTTCTTTCTT
1 TTTCTTTCTTT-TT
17909635 TTTCTTTCTTTTT
1 TTTCTTTCTTTTT
17909648 TTT
1 TTT
17909651 GTTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTCTTTCTTTTT
Found at i:17909888 original size:21 final size:21
Alignment explanation
Indices: 17909858--17909898 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
17909848 TAATCTTCAT
17909858 ATTTTAAATATTAT-TTAAAA
1 ATTTTAAATATTATATTAAAA
17909878 ATTTTGAAATATTATATTAAA
1 ATTTT-AAATATTATATTAAA
17909899 TAATCCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTTAAATATTATATTAAAA
Found at i:17910480 original size:10 final size:10
Alignment explanation
Indices: 17910467--17910491 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17910457 TTTTGTATAT
17910467 TTTTTTTCTA
1 TTTTTTTCTA
17910477 TTTTTTTCTA
1 TTTTTTTCTA
17910487 TTTTT
1 TTTTT
17910492 GATTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTTCTA
Found at i:17911197 original size:59 final size:59
Alignment explanation
Indices: 17911012--17911390 Score: 452
Period size: 59 Copynumber: 6.4 Consensus size: 59
17911002 TTTCTAAGTA
* ** * *
17911012 CGACCTATCTCACGACAAGTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCT
1 CGACCTATCTTAAAACAGGTTCGATTCAAAAATTGAAATTCCTAGACTTGATCTAGGCT
* * * * * ** **
17911071 CAACTTATCTTAAAATAGGTTTGATTTTAAAAAATTGACGTTTTTAGACTTGATCTAGGCT
1 CGACCTATCTTAAAACAGGTTCGA--TTCAAAAATTGAAATTCCTAGACTTGATCTAGGCT
* * * * *
17911132 CAACCTATTTTAAAATAGGTTCGACTCAAAAATTGAAATTCCTAGACTTAATCTAGGCT
1 CGACCTATCTTAAAACAGGTTCGATTCAAAAATTGAAATTCCTAGACTTGATCTAGGCT
* * *
17911191 CGACCTATCTTAAAACAAGTTCGATTTAAAAAGTTGACATTCCTAGACTTGATCTAGGCT
1 CGACCTATCTTAAAACAGGTTCGATTCAAAAA-TTGAAATTCCTAGACTTGATCTAGGCT
* * * *
17911251 CGACCTATCTTAAAACAGGTTCAATTCAAAAATTAAAATTCCTAAACTTAATCTAGGCT
1 CGACCTATCTTAAAACAGGTTCGATTCAAAAATTGAAATTCCTAGACTTGATCTAGGCT
* * * *
17911310 CGACCTATCTCAAAACAGGTTCGATTCAAATATTGAAATTCCTAGACTTGATTTAGGTT
1 CGACCTATCTTAAAACAGGTTCGATTCAAAAATTGAAATTCCTAGACTTGATCTAGGCT
*
17911369 CGACCTATCTTAAAATAGGTTC
1 CGACCTATCTTAAAACAGGTTC
17911391 AACTTAATTG
Statistics
Matches: 269, Mismatches: 48, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
59 164 0.61
60 54 0.20
61 51 0.19
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (59 bp):
CGACCTATCTTAAAACAGGTTCGATTCAAAAATTGAAATTCCTAGACTTGATCTAGGCT
Found at i:17911280 original size:119 final size:118
Alignment explanation
Indices: 17911012--17911392 Score: 474
Period size: 119 Copynumber: 3.2 Consensus size: 118
17911002 TTTCTAAGTA
* ** * * * * * *
17911012 CGACCTATCTCACGACAAGTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCAACTT
1 CGACCTATCTTAAAACAGGTTCAATTCAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCT
* * * **
17911077 ATCTTAAAATAGGTTTGATTTTAAAAAATTGACGTTTTTAGACTTGATCTAGGCT
66 ATCTTAAAACAGGTTCGA-TTT-AAAAATTGACATTCCTAGACTTGATCTAGGCT
* * * * *
17911132 CAACCTATTTTAAAATAGGTTCGACTCAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCT
1 CGACCTATCTTAAAACAGGTTCAATTCAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCT
*
17911197 ATCTTAAAACAAGTTCGATTTAAAAAGTTGACATTCCTAGACTTGATCTAGGCT
66 ATCTTAAAACAGGTTCGATTTAAAAA-TTGACATTCCTAGACTTGATCTAGGCT
* *
17911251 CGACCTATCTTAAAACAGGTTCAATTCAAAAATTAAAATTCCTAAACTTAATCTAGGCTCGACCT
1 CGACCTATCTTAAAACAGGTTCAATTCAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCT
* * * * * *
17911316 ATCTCAAAACAGGTTCGATTCAAATATTGAAATTCCTAGACTTGATTTAGGTT
66 ATCTTAAAACAGGTTCGATTTAAAAATTGACATTCCTAGACTTGATCTAGGCT
*
17911369 CGACCTATCTTAAAATAGGTTCAA
1 CGACCTATCTTAAAACAGGTTCAA
17911393 CTTAATTGGA
Statistics
Matches: 227, Mismatches: 33, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
118 52 0.23
119 107 0.47
120 68 0.30
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (118 bp):
CGACCTATCTTAAAACAGGTTCAATTCAAAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCT
ATCTTAAAACAGGTTCGATTTAAAAATTGACATTCCTAGACTTGATCTAGGCT
Found at i:17911348 original size:178 final size:179
Alignment explanation
Indices: 17911012--17911383 Score: 487
Period size: 178 Copynumber: 2.1 Consensus size: 179
17911002 TTTCTAAGTA
* ** *
17911012 CGACCTATCTCACGACAAGTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCAACTT
1 CGACCTATCTTAAAACAAGTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCAACCT
* * * * ** ** * * *
17911077 ATCTTAAAATAGGTTTGATTTTAAAAAATTGACGTTTTTAGACTTGATCTAGGCTCAACCTATTT
66 ATCTTAAAACAGGTTTCATATTAAAAAATTAAAATTCCTAAACTTAATCTAGGCTCAACCTATCT
* *
17911142 TAAAATAGGTTCGACTCAAAAATTGAAATTCCTAGACTTAATCTAGGCT
131 CAAAACAGGTTCGACTCAAAAATTGAAATTCCTAGACTTAATCTAGGCT
* *
17911191 CGACCTATCTTAAAACAAGTTCGATTTAAAAAGTTGACATTCCTAGACTTGATCTAGGCTCGACC
1 CGACCTATCTTAAAACAAGTTCGATTTAAAAA-TTGAAATTCCTAGACTTGATCTAGGCTCAACC
* *
17911256 TATCTTAAAACAGG-TTCA-ATTCAAAAATTAAAATTCCTAAACTTAATCTAGGCTCGACCTATC
65 TATCTTAAAACAGGTTTCATATTAAAAAATTAAAATTCCTAAACTTAATCTAGGCTCAACCTATC
* * * * *
17911319 TCAAAACAGGTTCGATTCAAATATTGAAATTCCTAGACTTGATTTAGGTT
130 TCAAAACAGGTTCGACTCAAAAATTGAAATTCCTAGACTTAATCTAGGCT
17911369 CGACCTATCTTAAAA
1 CGACCTATCTTAAAA
17911384 TAGGTTCAAC
Statistics
Matches: 166, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
178 92 0.55
179 32 0.19
180 42 0.25
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (179 bp):
CGACCTATCTTAAAACAAGTTCGATTTAAAAATTGAAATTCCTAGACTTGATCTAGGCTCAACCT
ATCTTAAAACAGGTTTCATATTAAAAAATTAAAATTCCTAAACTTAATCTAGGCTCAACCTATCT
CAAAACAGGTTCGACTCAAAAATTGAAATTCCTAGACTTAATCTAGGCT
Found at i:17912312 original size:12 final size:12
Alignment explanation
Indices: 17912295--17912324 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17912285 CCCCCTATTT
17912295 TTTTTATTTATA
1 TTTTTATTTATA
*
17912307 TTTTTATTTATT
1 TTTTTATTTATA
17912319 TTTTTA
1 TTTTTA
17912325 AGCATAGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTATTTATA
Found at i:17912316 original size:16 final size:15
Alignment explanation
Indices: 17912290--17912319 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
17912280 ACAAACCCCC
17912290 TATTTTTTTTATTTA
1 TATTTTTTTTATTTA
17912305 TATTTTTATTTATTT
1 TATTTTT-TTTATTT
17912320 TTTTAAGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTTTTTATTTA
Found at i:17920717 original size:3 final size:3
Alignment explanation
Indices: 17920704--17920767 Score: 60
Period size: 3 Copynumber: 21.0 Consensus size: 3
17920694 CCTGTTTACA
* * *
17920704 TAT TAAT TAT TAT TAT T-T TAT TATT TAT TTT TCT AAT GTA- TAT TAT
1 TAT T-AT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT
17920750 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
17920768 ATTTTAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.08
3 40 0.78
4 7 0.14
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:17921543 original size:14 final size:14
Alignment explanation
Indices: 17921516--17921549 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
17921506 CTTTCTTCTT
17921516 CTTTTTTTTGTTGA
1 CTTTTTTTTGTTGA
17921530 CTTTTCTTTT-TTGA
1 CTTTT-TTTTGTTGA
17921544 CTTTTT
1 CTTTTT
17921550 GTTTCCACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 14 0.74
15 4 0.21
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.74
Consensus pattern (14 bp):
CTTTTTTTTGTTGA
Found at i:17926170 original size:180 final size:178
Alignment explanation
Indices: 17925806--17926250 Score: 477
Period size: 180 Copynumber: 2.5 Consensus size: 178
17925796 TATCTTTAGA
* * * * * *
17925806 AATTTAATTTCAATAAAATTTATCTTGATAGCTAACTCATGGAAATATTCTAGAATAAATTTTCA
1 AATTTAATTCCAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCTATAATAATTTTTCA
* ** * *
17925871 GGATTTTAGGAGGTGATTTGGCCATTCAAAAAATTCAAAAACCGTGACCTTTATCTGCAGGTGGC
66 GGATTTTAGGAGATG-TTTTTCCATTCAAAAAATTCAAAAACCATGACCTTTATCTGCAGGAGGC
* * * *
17925936 AGAAACTGTTTTTGAGAACTTTTGAAATTATTTGTGACTAAAACTTATG
130 AGAAACGGTTTTTGAGAACTTTTGAAACTATTTGTGACTAAAACTCAGG
* *
17925985 AATTTAATTCCTAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCATAATATTTTTTC
1 AATTTAATTCC-AATAAAATTTATCCTGATAGATAACTCATGGAACTATTCTATAATAATTTTTC
*
17926050 AGGATTTTAGGAGATGTTTTTCACTTTCAAAAAAATTC-AAAACCATGACCTTTATCTGCA-GAG
65 AGGATTTTAGGAGATGTTTTTC-CATTC-AAAAAATTCAAAAACCATGACCTTTATCTGCAGGAG
*** **** * *
17926113 GCAGTTTCGG-TTTTGTCTTTCTTTTGAAGCTATTTGGTGGCATAAAA-TCAGG
128 GCAGAAACGGTTTTTG-AGAACTTTTGAAACTATTT-GTGAC-TAAAACTCAGG
* * * *
17926165 AATTTAATTCCCAATTAAATTT-TCCTTGATAGACAACTTATGGAACAATTCTATAATAATTTTT
1 AATTTAATT-CCAATAAAATTTATCC-TGATAGATAACTCATGGAACTATTCTATAATAATTTTT
* *
17926229 CAGGATTTTAGGAAACGTTTTT
64 CAGGATTTTAGGAGATGTTTTT
17926251 TGTCAAAACC
Statistics
Matches: 223, Mismatches: 35, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
178 5 0.02
179 38 0.17
180 164 0.74
181 16 0.07
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (178 bp):
AATTTAATTCCAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCTATAATAATTTTTCA
GGATTTTAGGAGATGTTTTTCCATTCAAAAAATTCAAAAACCATGACCTTTATCTGCAGGAGGCA
GAAACGGTTTTTGAGAACTTTTGAAACTATTTGTGACTAAAACTCAGG
Found at i:17928908 original size:2 final size:2
Alignment explanation
Indices: 17928896--17928952 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
17928886 CATAATTATT
17928896 TA TA T- TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17928936 TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA
17928953 GATGGATGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 3 0.06
2 49 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17933960 original size:26 final size:26
Alignment explanation
Indices: 17933921--17933970 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17933911 TTTCTTCTAA
* *
17933921 TTATTTACTAGAAATATGATACAAAC
1 TTATTTACTAGAAAAATGAAACAAAC
17933947 TTATTTGACT-GAAAAATGAAACAA
1 TTATTT-ACTAGAAAAATGAAACAA
17933971 CATGACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (26 bp):
TTATTTACTAGAAAAATGAAACAAAC
Found at i:17936393 original size:76 final size:74
Alignment explanation
Indices: 17936267--17936414 Score: 179
Period size: 76 Copynumber: 2.0 Consensus size: 74
17936257 AAGTGATGAA
* * * * * ***
17936267 ATATGTTATTTTATTAATTATCGTGACTTTTACATGAGAAATGAACTAAATGGGGGAAAATAGAT
1 ATATGTTAGTTTATTAATTATCGTAACTTTTACATAAAAAATAAACTAAAT--AAAAAAATAGAT
17936332 ATTTATTAAGT
64 ATTTATTAAGT
* * *
17936343 ATATGTTAGTTTATTGATTATCTTAACTTTTACATAAAAAATAAATTAAATAAAAAAATAGATAT
1 ATATGTTAGTTTATTAATTATCGTAACTTTTACATAAAAAATAAACTAAATAAAAAAATAGATAT
17936408 TTATTAA
66 TTATTAA
17936415 ATATGAGAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
74 18 0.30
76 43 0.70
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (74 bp):
ATATGTTAGTTTATTAATTATCGTAACTTTTACATAAAAAATAAACTAAATAAAAAAATAGATAT
TTATTAAGT
Found at i:17953158 original size:2 final size:2
Alignment explanation
Indices: 17953151--17953184 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
17953141 TATGCAGTAA
*
17953151 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17953185 TTGTGGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17956138 original size:100 final size:100
Alignment explanation
Indices: 17955965--17956273 Score: 402
Period size: 109 Copynumber: 3.0 Consensus size: 100
17955955 GAGAGTCATC
* * * ** **
17955965 AGCATGGTAAAATACTTAGTCATATAGACACCGGAGCAAAATTAAGAGAGTTAGGCAAGCATGAT
1 AGCATGGTAGAATACTTAATCAAATAGACATTGGAGCAAAACCAAGAGAGTTAGGCAAGCATGAT
17956030 AGAGTTTGAGCCTGATTCAATCAAAAGCTTAAAAA
66 AGAGTTTGAGCCTGATTCAATCAAAAGCTTAAAAA
*
17956065 AGCATGGTAGGATACTTAATCAAATAGACATTGGAGCAAAACCAAGAGAGTTAGGCAAGCATGAT
1 AGCATGGTAGAATACTTAATCAAATAGACATTGGAGCAAAACCAAGAGAGTTAGGCAAGCATGAT
17956130 AGAGTTTGAGCCTGATTCAATCAAAAGCTGAAAAAGGTTAAAAA
66 AGAGTTTGAGCCTGATTCAATCAAAAGC---------TTAAAAA
** * *
17956174 ATAATGGTAGAATACTTAATCAAATAGACGTTGGAGCAAAACCAAGAGAGTTAGGCGAGCATGAT
1 AGCATGGTAGAATACTTAATCAAATAGACATTGGAGCAAAACCAAGAGAGTTAGGCAAGCATGAT
** *
17956239 AGAGTTTGAGTTTGATTCAATCAAAAGCTGAAAAA
66 AGAGTTTGAGCCTGATTCAATCAAAAGCTTAAAAA
17956274 GAAAAAGCTC
Statistics
Matches: 184, Mismatches: 16, Indels: 18
0.84 0.07 0.08
Matches are distributed among these distances:
100 91 0.49
109 93 0.51
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (100 bp):
AGCATGGTAGAATACTTAATCAAATAGACATTGGAGCAAAACCAAGAGAGTTAGGCAAGCATGAT
AGAGTTTGAGCCTGATTCAATCAAAAGCTTAAAAA
Found at i:17956711 original size:17 final size:17
Alignment explanation
Indices: 17956689--17956721 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
17956679 GGTAATATTT
*
17956689 TTTTTCTTTTTATTTTG
1 TTTTTCATTTTATTTTG
17956706 TTTTTCATTTTATTTT
1 TTTTTCATTTTATTTT
17956722 CTATCGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTCATTTTATTTTG
Found at i:17957555 original size:18 final size:18
Alignment explanation
Indices: 17957532--17957571 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17957522 AGTTCCACAA
* *
17957532 ATAATTTATAAGTAACAC
1 ATAATTCATAAATAACAC
*
17957550 ATAATTCATAAATAACCC
1 ATAATTCATAAATAACAC
17957568 ATAA
1 ATAA
17957572 GTAAATTAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (18 bp):
ATAATTCATAAATAACAC
Found at i:17964792 original size:22 final size:24
Alignment explanation
Indices: 17964767--17964813 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
17964757 ATGAAATTTA
17964767 TGAAGTA-A-AAAGATGAATCCAT
1 TGAAGTATATAAAGATGAATCCAT
17964789 TGAAGTATATTTAAAGATGAATCCA
1 TGAAGTATA--TAAAGATGAATCCA
17964814 CCAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
26 13 0.62
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (24 bp):
TGAAGTATATAAAGATGAATCCAT
Found at i:17972675 original size:13 final size:13
Alignment explanation
Indices: 17972657--17972683 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17972647 CAAAAAATAT
17972657 AACTTATAAAAAA
1 AACTTATAAAAAA
17972670 AACTTATAAAAAA
1 AACTTATAAAAAA
17972683 A
1 A
17972684 TTTTATCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AACTTATAAAAAA
Found at i:17972794 original size:68 final size:69
Alignment explanation
Indices: 17972673--17972804 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 69
17972663 TAAAAAAAAC
*
17972673 TTATAAAAAAATTTTATCAAATAATTTTAACTTAATTTTTAAAAACTATTATTTTTTA-AAAAAG
1 TTATAAAAAAAATTTATCAAATAATTTTAACTTAATTTTTAAAAACTATTATTTTTTATAAAAAG
17972737 TTTNT
66 TTT-T
*
17972742 TTATAAAAAAAATTTATCAAATAATTTTAACTTAA-TTTTAAAAATTATTATTTTTTATAAAAA
1 TTATAAAAAAAATTTATCAAATAATTTTAACTTAATTTTTAAAAACTATTATTTTTTATAAAAA
17972805 TTTCATAATA
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 21 0.35
69 39 0.65
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (69 bp):
TTATAAAAAAAATTTATCAAATAATTTTAACTTAATTTTTAAAAACTATTATTTTTTATAAAAAG
TTTT
Found at i:17978687 original size:15 final size:15
Alignment explanation
Indices: 17978667--17978733 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
17978657 ATAAAAAGTT
*
17978667 AATATTTTAAACTTA
1 AATATTTTAAATTTA
17978682 AATA--TTAAA-TTA
1 AATATTTTAAATTTA
17978694 AA-ATTTT-AATTATA
1 AATATTTTAAATT-TA
* *
17978708 AATATTTTATATTTT
1 AATATTTTAAATTTA
17978723 AATATTTTAAA
1 AATATTTTAAA
17978734 AATAAATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 1 0.02
12 7 0.16
13 8 0.19
14 4 0.09
15 20 0.47
16 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (15 bp):
AATATTTTAAATTTA
Found at i:17978741 original size:15 final size:15
Alignment explanation
Indices: 17978667--17978741 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
17978657 ATAAAAAGTT
*
17978667 AATATTTTAAACTTA
1 AATATTTTAAAATTA
17978682 AATA--TT-AAATTA
1 AATATTTTAAAATTA
*
17978694 AA-ATTTT-AATTATA
1 AATATTTTAAAAT-TA
* * *
17978708 AATATTTTATATTTT
1 AATATTTTAAAATTA
*
17978723 AATATTTTAAAAATA
1 AATATTTTAAAATTA
17978738 AATA
1 AATA
17978742 ATGAAATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
11 1 0.02
12 7 0.15
13 7 0.15
14 4 0.09
15 25 0.53
16 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAAAATTA
Found at i:17985004 original size:3 final size:3
Alignment explanation
Indices: 17984992--17985027 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
17984982 ACATATACCA
17984992 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17985028 TATACATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:17988717 original size:15 final size:16
Alignment explanation
Indices: 17988686--17988719 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
17988676 ATAATTTTTT
*
17988686 AATTTTTAAAAATTAA
1 AATTCTTAAAAATTAA
17988702 AATTCTTAAAAA-TAA
1 AATTCTTAAAAATTAA
17988717 AAT
1 AAT
17988720 CCACATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTCTTAAAAATTAA
Found at i:17990915 original size:40 final size:40
Alignment explanation
Indices: 17990854--17990932 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
17990844 GTTAGGAATC
* *
17990854 CCACTAAGGTGAACACTAATCTTGGA-AAAGTTAAAAAACT
1 CCACTAAAGTAAACACTAATCTT-GACAAAGTTAAAAAACT
*
17990894 CCACTAAAGTAAACA-TCAATCTTGACAAAGTTAGAAAAC
1 CCACTAAAGTAAACACT-AATCTTGACAAAGTTAAAAAAC
17990933 CCCATTAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 3 0.09
40 31 0.91
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (40 bp):
CCACTAAAGTAAACACTAATCTTGACAAAGTTAAAAAACT
Found at i:17992021 original size:19 final size:19
Alignment explanation
Indices: 17991986--17992022 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17991976 GATCATTAAG
* *
17991986 AATAAAATAAAACAAAAAT
1 AATAAAAAAAAAAAAAAAT
17992005 AATAAAAAAAAAAAAAAA
1 AATAAAAAAAAAAAAAAA
17992023 GCAGCACTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (19 bp):
AATAAAAAAAAAAAAAAAT
Found at i:17992331 original size:2 final size:2
Alignment explanation
Indices: 17992324--17992364 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
17992314 AAAGGGGAAT
17992324 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17992365 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17992948 original size:2 final size:2
Alignment explanation
Indices: 17992943--17992967 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17992933 TTAATTTGAC
17992943 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17992968 GATCCATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17997096 original size:2 final size:2
Alignment explanation
Indices: 17997089--17997117 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17997079 CCGATAAAAC
17997089 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17997118 AATGTTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17997224 original size:2 final size:2
Alignment explanation
Indices: 17997217--17997245 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17997207 AAGATAAAAC
17997217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
17997246 AATGTTCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17998531 original size:24 final size:23
Alignment explanation
Indices: 17998499--17998547 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
17998489 ATCCTCATTT
*
17998499 CCCTCTTCTCTCAGCCACTCTTC
1 CCCTCTTCTCTCAACCACTCTTC
*
17998522 CCCTCTTTCTCTCAACCGCTCTTC
1 CCCTC-TTCTCTCAACCACTCTTC
17998546 CC
1 CC
17998548 TGATCTTCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.08, C:0.53, G:0.04, T:0.35
Consensus pattern (23 bp):
CCCTCTTCTCTCAACCACTCTTC
Found at i:17998634 original size:24 final size:24
Alignment explanation
Indices: 17998579--17998641 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
17998569 CGCCACTTGT
* * * *
17998579 CCCCTCTCTCTCTTAATCGCTCTT
1 CCCCTCTTTCTCTCAACCGCTCTC
*
17998603 CCCTTCTTTCTCTCAACCGCTCTC
1 CCCCTCTTTCTCTCAACCGCTCTC
*
17998627 CCCCTCTTTTTCTCA
1 CCCCTCTTTCTCTCA
17998642 GTTGCTCTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.08, C:0.48, G:0.03, T:0.41
Consensus pattern (24 bp):
CCCCTCTTTCTCTCAACCGCTCTC
Found at i:17998680 original size:34 final size:32
Alignment explanation
Indices: 17998619--17998683 Score: 85
Period size: 34 Copynumber: 2.0 Consensus size: 32
17998609 TTTCTCTCAA
* *
17998619 CCGCTCTCCCCCTCTTTTTCTCAGTTGCTCTT
1 CCGCTCTCCCCATCTTTCTCTCAGTTGCTCTT
*
17998651 CCGCTCTCTTCCCATCTTTCTCTCCGTTGCTCT
1 CCGCTCTC--CCCATCTTTCTCTCAGTTGCTCT
17998684 CACCCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 8 0.29
34 20 0.71
ACGTcount: A:0.03, C:0.45, G:0.09, T:0.43
Consensus pattern (32 bp):
CCGCTCTCCCCATCTTTCTCTCAGTTGCTCTT
Found at i:18000440 original size:71 final size:71
Alignment explanation
Indices: 18000362--18000500 Score: 172
Period size: 71 Copynumber: 2.0 Consensus size: 71
18000352 TACCCTAATA
* * * *
18000362 CAACCTTAATTAAATTAACTAATTTT-TATTTAATCTAAATTTAATCATTCAATTAATTGCTTAA
1 CAACCTTAATTAAATTAAATAATTTTGAATTT-ATCTAAATTTAATAATTCAATTAATTGATTAA
18000426 TTACCCT
65 TTACCCT
* * * * * *
18000433 CAACCTTACTTAAGTTAAATAATTTTGAATTTTTCTAAATTTACTAATTTAATTTATTGATTAAT
1 CAACCTTAATTAAATTAAATAATTTTGAATTTATCTAAATTTAATAATTCAATTAATTGATTAAT
18000498 TAC
66 TAC
18000501 TAATACATGA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
71 53 0.93
72 4 0.07
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (71 bp):
CAACCTTAATTAAATTAAATAATTTTGAATTTATCTAAATTTAATAATTCAATTAATTGATTAAT
TACCCT
Found at i:18004764 original size:21 final size:19
Alignment explanation
Indices: 18004740--18004780 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
18004730 GTATGATGTA
18004740 TTAATATATTACTATATATAG
1 TTAATATA-TACT-TATATAG
18004761 TTAATATATACTTATATAG
1 TTAATATATACTTATATAG
18004780 T
1 T
18004781 ATATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAATATATACTTATATAG
Found at i:18004842 original size:20 final size:20
Alignment explanation
Indices: 18004817--18004857 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
18004807 ATATATATAC
* *
18004817 TATATAATAGTACATTGTTA
1 TATATAATAGCAAATTGTTA
18004837 TATATAATAGCAAATTGTTA
1 TATATAATAGCAAATTGTTA
18004857 T
1 T
18004858 TGACTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TATATAATAGCAAATTGTTA
Found at i:18005191 original size:16 final size:16
Alignment explanation
Indices: 18005179--18005209 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18005169 ATAATATATT
*
18005179 AATAACTTAATATAAA
1 AATAAATTAATATAAA
18005195 AATAAATTAATATAA
1 AATAAATTAATATAA
18005210 TAAGTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AATAAATTAATATAAA
Found at i:18008174 original size:29 final size:29
Alignment explanation
Indices: 18008142--18008199 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18008132 TTTAAACTAT
* *
18008142 TTAAAATATTTAAGT-ATTAATATAATTTA
1 TTAAAAT-TTTAAATGATAAATATAATTTA
*
18008171 TTAATATTTTAAATGATAAATATAATTTA
1 TTAAAATTTTAAATGATAAATATAATTTA
18008200 AACGAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TTAAAATTTTAAATGATAAATATAATTTA
Found at i:18031078 original size:27 final size:27
Alignment explanation
Indices: 18031048--18031103 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
18031038 AATTAATTTT
18031048 TTATTAATTGATAT-ATAAATTAATAAA
1 TTATTAATTGAT-TGATAAATTAATAAA
* *
18031075 TTATTAATTTATTGATTAATTAATAAA
1 TTATTAATTGATTGATAAATTAATAAA
18031102 TT
1 TT
18031104 TTCATGATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
TTATTAATTGATTGATAAATTAATAAA
Found at i:18035702 original size:23 final size:25
Alignment explanation
Indices: 18035662--18035711 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
18035652 ATTTATTGAC
*
18035662 TTATTCATATATTTATCAT-TATTAT
1 TTATTCATATATTCATCATATA-TAT
18035687 TTATT-AT-TATTCATCATATATAT
1 TTATTCATATATTCATCATATATAT
18035710 TT
1 TT
18035712 TTTCTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 14 0.61
24 4 0.17
25 5 0.22
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATTCATATATTCATCATATATAT
Found at i:18035895 original size:3 final size:3
Alignment explanation
Indices: 18035887--18035937 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
18035877 TTTCATTTAT
* *
18035887 TTA TTA TTA TTA TTA TTA TTA TT- TT- TTA TTA TCT- TTA CTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
18035930 TTA TTA TT
1 TTA TTA TT
18035938 TTCTGATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 5 0.12
3 35 0.85
4 1 0.02
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18035981 original size:2 final size:2
Alignment explanation
Indices: 18035970--18035998 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18035960 ATAAATATTC
18035970 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18035999 TTCTTTCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:18036911 original size:11 final size:11
Alignment explanation
Indices: 18036895--18036923 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
18036885 AGGATAACCC
18036895 ATTTTTTTTAT
1 ATTTTTTTTAT
18036906 ATTTTTTTTAT
1 ATTTTTTTTAT
18036917 ATTTTTT
1 ATTTTTT
18036924 CATGTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
ATTTTTTTTAT
Found at i:18049794 original size:23 final size:25
Alignment explanation
Indices: 18049754--18049803 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
18049744 ATTTATTGAC
*
18049754 TTATTCATATATTTATCAT-TATTAT
1 TTATTCATATATTCATCATATA-TAT
18049779 TTATT-AT-TATTCATCATATATAT
1 TTATTCATATATTCATCATATATAT
18049802 TT
1 TT
18049804 TTTCTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 14 0.61
24 4 0.17
25 5 0.22
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TTATTCATATATTCATCATATATAT
Found at i:18049994 original size:9 final size:9
Alignment explanation
Indices: 18049978--18050034 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
18049968 ATTTCATTTA
18049978 TTTT-TTAT
1 TTTTATTAT
18049986 TTTTATTAT
1 TTTTATTAT
*
18049995 TATTATTAT
1 TTTTATTAT
18050004 TATTTATTAT
1 T-TTTATTAT
* *
18050014 CTTTACTAT
1 TTTTATTAT
**
18050023 CATTATTAT
1 TTTTATTAT
18050032 TTT
1 TTT
18050035 CTGATTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
8 4 0.10
9 28 0.72
10 7 0.18
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATTAT
Found at i:18049996 original size:3 final size:3
Alignment explanation
Indices: 18049982--18050032 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
18049972 CATTTATTTT
* * *
18049982 TTA TTT TTA TTA TTA TTA TTA TTA TTTA TTA TCT- TTA CTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA T-TA TTA TTA TTA TTA
18050028 TTA TT
1 TTA TT
18050033 TTCTGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 1 0.03
3 34 0.87
4 4 0.10
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18050003 original size:25 final size:26
Alignment explanation
Indices: 18049975--18050043 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 26
18049965 ATCATTTCAT
* *
18049975 TTATTTT-TTATTTTTATTATTATTA
1 TTATTTTATTATTTTTACTATCATTA
*
18050000 TTATTATTTATTATCTTTACTATCATTA
1 TTA-T-TTTATTATTTTTACTATCATTA
* *
18050028 TTATTTTCTGATTTTT
1 TTATTTTATTATTTTT
18050044 TAATATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.09
26 10 0.29
27 4 0.11
28 18 0.51
ACGTcount: A:0.23, C:0.06, G:0.01, T:0.70
Consensus pattern (26 bp):
TTATTTTATTATTTTTACTATCATTA
Found at i:18050006 original size:28 final size:28
Alignment explanation
Indices: 18049975--18050032 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
18049965 ATCATTTCAT
* * * *
18049975 TTATTTTTTATTTTTATTATTATTATTA
1 TTATTTATTATCTTTACTATCATTATTA
18050003 TTATTTATTATCTTTACTATCATTATTA
1 TTATTTATTATCTTTACTATCATTATTA
18050031 TT
1 TT
18050033 TTCTGATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (28 bp):
TTATTTATTATCTTTACTATCATTATTA
Found at i:18074900 original size:2 final size:2
Alignment explanation
Indices: 18074893--18074956 Score: 87
Period size: 2 Copynumber: 32.0 Consensus size: 2
18074883 AAACTTCATT
*
18074893 AG AG AG AG AG AG AG AG AG AG AG AG AG AG TG -G TAG NAG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -AG -AG AG AG AG
18074936 A- AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG
18074957 TGGTAGTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
1 2 0.04
2 52 0.91
3 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:18083886 original size:291 final size:291
Alignment explanation
Indices: 18083362--18083912 Score: 951
Period size: 291 Copynumber: 1.9 Consensus size: 291
18083352 GTTCTTATAA
*
18083362 TTTACCAAAAAAGTGGGTTAAAATGTACTCTCTTGAGAACTTCTCTTCATTGGGTTCTTAATTTG
1 TTTACCAAAAAAGTGGGTTAAAATGTACTCTCTTGAGAACTTCTCTTCATTGGGTTCTTAATTTC
* * *
18083427 GCTTTCGCTTTTATAATCAAATGATTTGTTGTTATTTTGTGGATTTAGGTTTTGGGTTACGTTGC
66 GCTTTCGCTTTTATAATCAAATGATTTGTTGTTATTTTGTGGATTCAAGTTTTGGATTACGTTGC
*
18083492 TTTGATTTAAAATTTTTGTGGGGAATGGAGATAGCTTTGAAGTGACGTAGCTTAAAAAATGAGTA
131 TTTGATTTAAAATTTTTGTGGGGAATGGAGATAGCCTTGAAGTGACGTAGCTTAAAAAATGAGTA
* * * *
18083557 AAATACACTAACACATTTAAGTTTTAATTATAATTTCACATGAGTTCATTAATTTTCAAAATATA
196 AAACACACTAACACATTTAAGTTTGAATCATAATTTCACATGAATTCATTAATTTTCAAAATATA
18083622 CAATCTATTTTCAAAAAAGTGGATTAAAATG
261 CAATCTATTTTCAAAAAAGTGGATTAAAATG
18083653 TTTACCAAAAAAGTGGGTTAAAATGTACTCTCTTGAGAACTTCTCTTCATTGGGTTCTTAATTTC
1 TTTACCAAAAAAGTGGGTTAAAATGTACTCTCTTGAGAACTTCTCTTCATTGGGTTCTTAATTTC
* * *
18083718 GCTTTCGCTTTTATAATCAAATGATTTTTTGTTATTTTGTGGATTCAAGTTTTGGATTACTTTGT
66 GCTTTCGCTTTTATAATCAAATGATTTGTTGTTATTTTGTGGATTCAAGTTTTGGATTACGTTGC
18083783 TTTGATTTAAAATTTTTGTGGGGAATGGAGATAGCCTTGAAGTGAC-TAAGCTTAAAAAATGAGT
131 TTTGATTTAAAATTTTTGTGGGGAATGGAGATAGCCTTGAAGTGACGT-AGCTTAAAAAATGAGT
* * *
18083847 AAAACAGACTAACACTTTTAAGTTTGAATCATAATTTCACATTAATTCATTAATTTTCAAAATAT
195 AAAACACACTAACACATTTAAGTTTGAATCATAATTTCACATGAATTCATTAATTTTCAAAATAT
18083912 A
260 A
18083913 TAATTTGTTC
Statistics
Matches: 244, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
290 1 0.00
291 243 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (291 bp):
TTTACCAAAAAAGTGGGTTAAAATGTACTCTCTTGAGAACTTCTCTTCATTGGGTTCTTAATTTC
GCTTTCGCTTTTATAATCAAATGATTTGTTGTTATTTTGTGGATTCAAGTTTTGGATTACGTTGC
TTTGATTTAAAATTTTTGTGGGGAATGGAGATAGCCTTGAAGTGACGTAGCTTAAAAAATGAGTA
AAACACACTAACACATTTAAGTTTGAATCATAATTTCACATGAATTCATTAATTTTCAAAATATA
CAATCTATTTTCAAAAAAGTGGATTAAAATG
Found at i:18092122 original size:2 final size:2
Alignment explanation
Indices: 18092115--18092163 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
18092105 TTTTTCATAC
*
18092115 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18092157 AT AT AT A
1 AT AT AT A
18092164 AGGGTAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18103812 original size:35 final size:34
Alignment explanation
Indices: 18103763--18103836 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
18103753 AAATTTAAAT
* * *
18103763 TTAAATAATCAAAAATAAATATATCAAATATCAAC
1 TTAAATAATCAAAAATAAATAT-CCAAACAACAAC
*
18103798 TTAAATAATTAAAAATAAATATCCAAACAACAAC
1 TTAAATAATCAAAAATAAATATCCAAACAACAAC
18103832 TTAAA
1 TTAAA
18103837 CAACATTACA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
34 14 0.40
35 21 0.60
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (34 bp):
TTAAATAATCAAAAATAAATATCCAAACAACAAC
Found at i:18107025 original size:99 final size:99
Alignment explanation
Indices: 18106849--18107045 Score: 297
Period size: 98 Copynumber: 2.0 Consensus size: 99
18106839 TAAATAGCAC
* *
18106849 TCATATTCAAGCATTCAAGTAATTTAGGCTATATTTGTTTTCTTTGGGAATAATATAATTATTTT
1 TCATATTCAAGCATTCAAATAATTTAGGCTATATTTGTTTTCTTTGAGAATAATATAATTATTTT
* * *
18106914 TTTCAAAATTTTTTTATTTTCTTCTAGTTTAGTT
66 TTCCAAAATTTTTTTAATTTCTTCAAGTTTAGTT
* * *
18106948 TCATTTTCAAGCATTCAAATAATTTAGGCTATGTTTGTTTT-TTTTAGAATAATATAATTATTTT
1 TCATATTCAAGCATTCAAATAATTTAGGCTATATTTGTTTTCTTTGAGAATAATATAATTATTTT
**
18107012 TTCCAATTTTTTTTTAATTTCTTCAAGTTTAGTT
66 TTCCAAAATTTTTTTAATTTCTTCAAGTTTAGTT
18107046 ATTTTTGCTT
Statistics
Matches: 88, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
98 50 0.57
99 38 0.43
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.54
Consensus pattern (99 bp):
TCATATTCAAGCATTCAAATAATTTAGGCTATATTTGTTTTCTTTGAGAATAATATAATTATTTT
TTCCAAAATTTTTTTAATTTCTTCAAGTTTAGTT
Found at i:18108870 original size:2 final size:2
Alignment explanation
Indices: 18108863--18108896 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
18108853 TTGAGCTAAC
18108863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18108897 TTGGTTGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18113947 original size:9 final size:8
Alignment explanation
Indices: 18113899--18113949 Score: 52
Period size: 8 Copynumber: 6.6 Consensus size: 8
18113889 TTCTTTTATT
18113899 TTTTAAAA
1 TTTTAAAA
*
18113907 TATTAAAA
1 TTTTAAAA
18113915 TTTT--AA
1 TTTTAAAA
**
18113921 TTTTATTA
1 TTTTAAAA
18113929 TTTTAAAA
1 TTTTAAAA
18113937 TTTTAAAA
1 TTTTAAAA
*
18113945 ATTTA
1 TTTTA
18113950 TCTTTATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 6 0.17
8 29 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTTTAAAA
Found at i:18113956 original size:30 final size:28
Alignment explanation
Indices: 18113875--18113956 Score: 94
Period size: 30 Copynumber: 2.9 Consensus size: 28
18113865 CCCAAAATTC
* *
18113875 TAAAATTTTATAAA-TTCTTTTATTTTT
1 TAAAATTTTAAAAATTTATTTTATTTTT
* *
18113902 TAAAATATTAAAATTTTAATTTTATTATTT
1 TAAAATTTTAAAAATTT-ATTTTATT-TTT
18113932 TAAAATTTTAAAAATTTATCTTTAT
1 TAAAATTTTAAAAATTTAT-TTTAT
18113957 AAATATTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.24
28 2 0.04
29 9 0.20
30 23 0.51
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
TAAAATTTTAAAAATTTATTTTATTTTT
Found at i:18114266 original size:2 final size:2
Alignment explanation
Indices: 18114259--18114285 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18114249 CTGTGACATC
18114259 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
18114286 CATAAACAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18116371 original size:2 final size:2
Alignment explanation
Indices: 18116364--18116402 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18116354 ATAATTTGTT
18116364 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18116403 GCTAAATNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18116443 original size:2 final size:2
Alignment explanation
Indices: 18116436--18116474 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18116426 TTGTTTTAAT
18116436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18116475 GTAAATCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18120454 original size:24 final size:24
Alignment explanation
Indices: 18120427--18120537 Score: 120
Period size: 24 Copynumber: 4.8 Consensus size: 24
18120417 AGATGTAGTT
* *
18120427 AATGTAGTTGAAGATCCAGCAGTC
1 AATGCAGTTGGAGATCCAGCAGTC
* *
18120451 AATGCAGTTGGAGATCTAGCAGGC
1 AATGCAGTTGGAGATCCAGCAGTC
* * * *
18120475 GATGCAGATGCAGAT---GCAATC
1 AATGCAGTTGGAGATCCAGCAGTC
*
18120496 AATGCAGTTGGAGATTCAGCAGTC
1 AATGCAGTTGGAGATCCAGCAGTC
18120520 AATGCAGTTGGAGATCCA
1 AATGCAGTTGGAGATCCA
18120538 ACGATCGATG
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
21 16 0.23
24 54 0.77
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (24 bp):
AATGCAGTTGGAGATCCAGCAGTC
Found at i:18120517 original size:69 final size:69
Alignment explanation
Indices: 18120407--18120535 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 69
18120397 GCAGACAAAA
* * * *
18120407 ATGCAGATGCAGATGTAGTTAATGTAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATCTAGCA
1 ATGCAGATGCAGATGCAATCAATGCAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATCTAGCA
18120472 GGCG
66 GGCG
* *
18120476 ATGCAGATGCAGATGCAATCAATGCAGTTGGAGATTCAGCAGTCAATGCAGTTGGAGATC
1 ATGCAGATGCAGATGCAATCAATGCAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATC
18120536 CAACGATCGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (69 bp):
ATGCAGATGCAGATGCAATCAATGCAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATCTAGCA
GGCG
Found at i:18120547 original size:69 final size:69
Alignment explanation
Indices: 18120407--18120557 Score: 196
Period size: 69 Copynumber: 2.2 Consensus size: 69
18120397 GCAGACAAAA
* * * * * *
18120407 ATGCAGATGCAGATGTAGTTAATGTAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATCTAGCA
1 ATGCAGATGCAGATGCAATCAATGCAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATCCAACA
18120472 GGCG
66 GGCG
* *
18120476 ATGCAGATGCAGATGCAATCAATGCAGTTGGAGATTCAGCAGTCAATGCAGTTGGAGATCCAAC-
1 ATGCAGATGCAGATGCAATCAATGCAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATCCAACA
*
18120540 GATCG
66 G-GCG
*
18120545 ATGTAGATGCAGA
1 ATGCAGATGCAGA
18120558 CGCAGTCACT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 1 0.01
69 70 0.99
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (69 bp):
ATGCAGATGCAGATGCAATCAATGCAGTTGAAGATCCAGCAGTCAATGCAGTTGGAGATCCAACA
GGCG
Found at i:18122205 original size:26 final size:26
Alignment explanation
Indices: 18122176--18122227 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
18122166 AACATTATTC
*
18122176 TGTATCATTTCCATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
18122202 TGTATCATTTACATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
18122228 ATTCATTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (26 bp):
TGTATCATTTACATATTATTCTTTGT
Found at i:18122227 original size:23 final size:23
Alignment explanation
Indices: 18122169--18122234 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
18122159 TAACATTAAC
*
18122169 ATTATTC--TGTATCATTTCCAT
1 ATTATTCTTTGTATCATTTACAT
18122190 ATTATTCTTTGTTGTATCATTTACAT
1 ATTATTC--T-TTGTATCATTTACAT
18122216 ATTATTCTTTGTATTCATT
1 ATTATTCTTTGTA-TCATT
18122235 CATGTGATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 7 0.18
23 5 0.13
24 6 0.16
26 20 0.53
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.58
Consensus pattern (23 bp):
ATTATTCTTTGTATCATTTACAT
Found at i:18122639 original size:95 final size:92
Alignment explanation
Indices: 18122456--18122650 Score: 266
Period size: 95 Copynumber: 2.1 Consensus size: 92
18122446 AATGGTGGGA
* * * * *
18122456 ATGGAATTACGTCACCAATTGATATTGATTTGGGGGGGTATTTGTTATGGAGTCATGCGAGTACT
1 ATGGAATCACGTCACCAATTGATATTGATTCGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
*
18122521 AAATGTTTAATCACGTCGGTAGTTAAT
66 AAATGTTTAATCACGTCGATAGTTAAT
* **
18122548 ATGGAATCACGTCATCGGTTGATATTGATTCGCGGGAGTATTTGTTATTATGGAGTCACGCGAGT
1 ATGGAATCACGTCACCAATTGATATTGATTCGCGGGAGTATTTG---TTATGGAGTCACGCGAGT
18122613 ACTAAAT-TTTGAATCACGTCGATAGTTAAT
63 ACTAAATGTTT-AATCACGTCGATAGTTAAT
18122643 ATGGAATC
1 ATGGAATC
18122651 GCATCACTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
92 37 0.41
94 3 0.03
95 50 0.56
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (92 bp):
ATGGAATCACGTCACCAATTGATATTGATTCGCGGGAGTATTTGTTATGGAGTCACGCGAGTACT
AAATGTTTAATCACGTCGATAGTTAAT
Found at i:18122682 original size:95 final size:95
Alignment explanation
Indices: 18122500--18122674 Score: 219
Period size: 95 Copynumber: 1.8 Consensus size: 95
18122490 GGGGTATTTG
* * * *
18122500 TTATGGAGTCATGCGAGTACTAAATGTTTAATCACGTCGGTAGTTAATATGGAATCACGTCATCG
1 TTATGGAGTCACGCGAGTACTAAATGTTTAATCACGTCGATAGTTAATATGGAATCACATCATCA
* ** * * *
18122565 GTTGATATTGATTCGCGGGAGTATTTGTTA
66 ATCCACATGGAATCGCGGGAGTATTTGTTA
*
18122595 TTATGGAGTCACGCGAGTACTAAAT-TTTGAATCACGTCGATAGTTAATATGGAATCGCATCA-C
1 TTATGGAGTCACGCGAGTACTAAATGTTT-AATCACGTCGATAGTTAATATGGAATCACATCATC
18122658 TAATCCACATGGAATCG
65 -AATCCACATGGAATCG
18122675 TGTGAGTAGT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
94 4 0.06
95 63 0.94
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (95 bp):
TTATGGAGTCACGCGAGTACTAAATGTTTAATCACGTCGATAGTTAATATGGAATCACATCATCA
ATCCACATGGAATCGCGGGAGTATTTGTTA
Found at i:18126145 original size:78 final size:78
Alignment explanation
Indices: 18126055--18126222 Score: 210
Period size: 78 Copynumber: 2.2 Consensus size: 78
18126045 TTTGAGATAG
* ***
18126055 ACATCTTGTGTTTTAGATTTGCTTGTCCTCTAGTCACCGTACTCAGTTTGCTTCGTTGTACTAGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCTCTAATCACAACACTCAGTTTGCTTCGTTGTACTAGT
18126120 CACAACTGCTGCA
66 CACAACTGCTGCA
* * * * * * * *
18126133 ATATCTTGTGTTTTATATTTGCTTGTCTTCTAATCACAACAGTCATTTTTCTTCGTTGTTCTGGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCTCTAATCACAACACTCAGTTTGCTTCGTTGTACTAGT
*
18126198 CACAGCTGCTGCA
66 CACAACTGCTGCA
*
18126211 ACATCATGTGTT
1 ACATCTTGTGTT
18126223 GCAAATATCA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (78 bp):
ACATCTTGTGTTTTAGATTTGCTTGTCCTCTAATCACAACACTCAGTTTGCTTCGTTGTACTAGT
CACAACTGCTGCA
Found at i:18129694 original size:22 final size:22
Alignment explanation
Indices: 18129668--18129715 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18129658 CACCACTCTT
*
18129668 GCAATACATAACAA-CAGGTCAC
1 GCAATACATAAAAACCA-GTCAC
*
18129690 GCAATATATAAAAACCAGTCAC
1 GCAATACATAAAAACCAGTCAC
18129712 GCAA
1 GCAA
18129716 CCCTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.48, C:0.25, G:0.12, T:0.15
Consensus pattern (22 bp):
GCAATACATAAAAACCAGTCAC
Found at i:18129696 original size:118 final size:118
Alignment explanation
Indices: 18129550--18129879 Score: 334
Period size: 118 Copynumber: 2.9 Consensus size: 118
18129540 TGCCGTTCTC
* ** * * * *
18129550 GCAATATATAACAACAGGTCACTTAATATATAAAAATCAGTTACTCAAGCCTAAAAAACTACAGA
1 GCAATACATAACAACAGGTCACGCAATATATAAAAACCAGTCACGCAACCCTAAAAAACTACAGA
* * *
18129615 ACAAAAGCCTCAAAATAACACATGAATTGCACAAGTGATGTGCCACCACTCTT
66 ACAAAAACCTCAAAACAACACATAAATTGCACAAGTGATGTGCCACCACTCTT
**
18129668 GCAATACATAACAACAGGTCACGCAATATATAAAAACCAGTCACGCAACCCTAAAAAACTATTGA
1 GCAATACATAACAACAGGTCACGCAATATATAAAAACCAGTCACGCAACCCTAAAAAACTACAGA
* *** *
18129733 ACAAAAACCTCAAAACAACACATAAATTGCACAAGTCACACGCCACGACTCTT
66 ACAAAAACCTCAAAACAACACATAAATTGCACAAGTGATGTGCCACCACTCTT
* * * * * *
18129786 G-----C-T-ACAACAGGTAACACAATATATAAAAACCAGTCATGCTAGCCTAGAAAACTACTA-
1 GCAATACATAACAACAGGTCACGCAATATATAAAAACCAGTCACGCAACCCTAAAAAACTAC-AG
* * * * * *
18129843 AATAAAAGCTTTAAAACAACACATGAATTGTACAAGT
65 AACAAAAACCTCAAAACAACACATAAATTGCACAAGT
18129880 CAGTCACGCA
Statistics
Matches: 180, Mismatches: 31, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
111 76 0.42
112 1 0.01
113 1 0.01
118 102 0.57
ACGTcount: A:0.46, C:0.23, G:0.11, T:0.20
Consensus pattern (118 bp):
GCAATACATAACAACAGGTCACGCAATATATAAAAACCAGTCACGCAACCCTAAAAAACTACAGA
ACAAAAACCTCAAAACAACACATAAATTGCACAAGTGATGTGCCACCACTCTT
Found at i:18131329 original size:40 final size:40
Alignment explanation
Indices: 18131270--18131425 Score: 141
Period size: 40 Copynumber: 3.7 Consensus size: 40
18131260 GTCATGTAAT
* *
18131270 GCTCAACAAAAATTCAGTCACGTAACGCCTGTCACGCAAC
1 GCTCAACAAATATTCAGTCACGTAATGCCTGTCACGCAAC
* * *
18131310 GCTCAACAAATATTAAGTCACGTATTGCCTATAAAGAACTCACGCAAT
1 GCTCAACAAATATTCAGTCACGTAATGCC--T---G---TCACGCAAC
* * * *
18131358 GCTCAACAAATATTCAGTCAGGTAATACCTATCATGCAAC
1 GCTCAACAAATATTCAGTCACGTAATGCCTGTCACGCAAC
* *
18131398 GCTCAACATATATTTAGTCACGTAATGC
1 GCTCAACAAATATTCAGTCACGTAATGC
18131426 TTATAAAGAA
Statistics
Matches: 92, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
40 56 0.61
42 1 0.01
45 1 0.01
46 1 0.01
48 33 0.36
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (40 bp):
GCTCAACAAATATTCAGTCACGTAATGCCTGTCACGCAAC
Found at i:18131377 original size:48 final size:48
Alignment explanation
Indices: 18131301--18131474 Score: 166
Period size: 48 Copynumber: 3.8 Consensus size: 48
18131291 GTAACGCCTG
* *
18131301 TCACGCAACGCTCAACAAATATTAAGTCACGTATTGCCTATAAAGAAC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* * *
18131349 TCACGCAATGCTCAACAAATATTCAGTCAGGTAATACC--T-----A-
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
* * * *
18131389 TCATGCAACGCTCAACATATATTTAGTCACGTAATGCTTATAAAGAAC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
** * * *
18131437 TCACGCAATTCTCAATAAATATTCAGGCACCTAATGCC
1 TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCC
18131475 AAATAAACAA
Statistics
Matches: 97, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
40 31 0.32
41 1 0.01
42 1 0.01
46 1 0.01
47 1 0.01
48 62 0.64
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (48 bp):
TCACGCAACGCTCAACAAATATTCAGTCACGTAATGCCTATAAAGAAC
Found at i:18131397 original size:88 final size:88
Alignment explanation
Indices: 18131267--18131462 Score: 284
Period size: 88 Copynumber: 2.2 Consensus size: 88
18131257 CAGGTCATGT
* * *
18131267 AATGCTCAACAAAAATTCAGTCACGTAACGCCTGTCACGCAACGCTCAACAAATATTAAGTCACG
1 AATGCTCAACAAATATTCAGTCACGTAACACCTATCACGCAACGCTCAACAAATATTAAGTCACG
*
18131332 TATTGCCTATAAAGAACTCACGC
66 TAATGCCTATAAAGAACTCACGC
* * * * *
18131355 AATGCTCAACAAATATTCAGTCAGGTAATACCTATCATGCAACGCTCAACATATATTTAGTCACG
1 AATGCTCAACAAATATTCAGTCACGTAACACCTATCACGCAACGCTCAACAAATATTAAGTCACG
*
18131420 TAATGCTTATAAAGAACTCACGC
66 TAATGCCTATAAAGAACTCACGC
* *
18131443 AATTCTCAATAAATATTCAG
1 AATGCTCAACAAATATTCAG
18131463 GCACCTAATG
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 96 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (88 bp):
AATGCTCAACAAATATTCAGTCACGTAACACCTATCACGCAACGCTCAACAAATATTAAGTCACG
TAATGCCTATAAAGAACTCACGC
Found at i:18132321 original size:23 final size:23
Alignment explanation
Indices: 18132294--18132835 Score: 275
Period size: 23 Copynumber: 23.9 Consensus size: 23
18132284 TTTGACAAGG
* *
18132294 CATGGTGAGAATTTGTGAGATGA
1 CATGGTGAGAATATGTGACATGA
* * *
18132317 CATGGAGGGAATATGTGACATGG
1 CATGGTGAGAATATGTGACATGA
* * *
18132340 CAGGGTGAG-A-ATGGGACA-CA
1 CATGGTGAGAATATGTGACATGA
*
18132360 CCATGGTG-GAATATGTGACATGC
1 -CATGGTGAGAATATGTGACATGA
* * * *
18132383 CATGGTGAAAATATGTAAGATGG
1 CATGGTGAGAATATGTGACATGA
*
18132406 CATGGTGAGAATATATGACACTG-
1 CATGGTGAGAATATGTGACA-TGA
* * * * *
18132429 CAAGGTTTA-AAGTTTGTGACACGT
1 CATGG-TGAGAA-TATGTGACATGA
* * *
18132453 CATGGTGGGAATGTGTGACATGG
1 CATGGTGAGAATATGTGACATGA
18132476 CATGGTGAGAATATGTGACAT-A
1 CATGGTGAGAATATGTGACATGA
* * *
18132498 GCATGGTGAGAATGTGTGACACGG
1 -CATGGTGAGAATATGTGACATGA
* * * *
18132522 TA-GGATGAGAATATATAACACGA
1 CATGG-TGAGAATATGTGACATGA
*
18132545 CATGGTGAGAATATGTGAGATGA
1 CATGGTGAGAATATGTGACATGA
* * **
18132568 CTTGG-AAGGAATATGTGACACAA
1 CATGGTGA-GAATATGTGACATGA
* * *
18132591 TAGGGTGAGAATATGTGACATGC
1 CATGGTGAGAATATGTGACATGA
* * *
18132614 CA-GG-AAGGAATATGTGAGACGA
1 CATGGTGA-GAATATGTGACATGA
*
18132636 TATGGTGAGAATATGTGACATG-
1 CATGGTGAGAATATGTGACATGA
* *
18132658 CTAAGGTGAG-A-ATGTGACA-CA
1 C-ATGGTGAGAATATGTGACATGA
18132679 TCATGGTGAGAATATGTGAGACA-G-
1 -CATGGTGAGAATATGT--GACATGA
* * *
18132703 CATGGTGAGAACATGTGATATGC
1 CATGGTGAGAATATGTGACATGA
* * *
18132726 CATGATGAG-A-ATCTGACATGC
1 CATGGTGAGAATATGTGACATGA
*
18132747 CATGGTG-GAAATATGTGACATGC
1 CATGGTGAG-AATATGTGACATGA
* *
18132770 CATGATG-GAAATATGTGACACCG-
1 CATGGTGAG-AATATGTGACA-TGA
* * *
18132793 CATGGTGAGAATATATAACATGC
1 CATGGTGAGAATATGTGACATGA
*
18132816 CATTGATG-GAATATGTGACA
1 CA-TGGTGAGAATATGTGACA
18132836 CGCCATGGCT
Statistics
Matches: 392, Mismatches: 92, Indels: 70
0.71 0.17 0.13
Matches are distributed among these distances:
20 2 0.01
21 48 0.12
22 40 0.10
23 271 0.69
24 27 0.07
25 4 0.01
ACGTcount: A:0.34, C:0.11, G:0.31, T:0.25
Consensus pattern (23 bp):
CATGGTGAGAATATGTGACATGA
Found at i:18132751 original size:67 final size:66
Alignment explanation
Indices: 18132620--18132764 Score: 166
Period size: 67 Copynumber: 2.2 Consensus size: 66
18132610 ATGCCAGGAA
* * * * * *
18132620 GGAATATGTGAGACGATATGGTGAGAATATGTGACATGCTAAGGTGAGAATGTGACACATCATGG
1 GGAATATGTGAGACGACATGGTGAGAACATGTGACATGCCAAGATGAGAATCTGACACACCATGG
18132685 T
66 T
* * **
18132686 GAGAATATGTGAGAC-AGCATGGTGAGAACATGTGATATGCCATGATGAGAATCTGACATGCCAT
1 G-GAATATGTGAGACGA-CATGGTGAGAACATGTGACATGCCAAGATGAGAATCTGACACACCAT
18132750 GGT
64 GGT
18132753 GGAAATATGTGA
1 GG-AATATGTGA
18132765 CATGCCATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
66 3 0.05
67 63 0.95
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (66 bp):
GGAATATGTGAGACGACATGGTGAGAACATGTGACATGCCAAGATGAGAATCTGACACACCATGG
T
Found at i:18135071 original size:26 final size:26
Alignment explanation
Indices: 18135042--18135141 Score: 105
Period size: 26 Copynumber: 3.9 Consensus size: 26
18135032 AAAATTTTGC
*
18135042 TACACGCCTTGTTGAAAACATGTTGT
1 TACACGCCATGTTGAAAACATGTTGT
* * * *
18135068 TACATGCCATGTTGAAAAAATTTTTT
1 TACACGCCATGTTGAAAACATGTTGT
* * **
18135094 TGCACGTCATGTTGAAAA-A-AATGT
1 TACACGCCATGTTGAAAACATGTTGT
18135118 TACACGCCATGTTGAAAACATGTT
1 TACACGCCATGTTGAAAACATGTT
18135142 ACATGCCATT
Statistics
Matches: 57, Mismatches: 15, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
24 18 0.32
25 2 0.04
26 37 0.65
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (26 bp):
TACACGCCATGTTGAAAACATGTTGT
Found at i:18135123 original size:24 final size:24
Alignment explanation
Indices: 18135042--18135177 Score: 94
Period size: 26 Copynumber: 5.5 Consensus size: 24
18135032 AAAATTTTGC
* **
18135042 TACACGCCTTGTTGAAAACATGTTGT
1 TACACGCCATGTTGAAAA-A-AATGT
* * *
18135068 TACATGCCATGTTGAAAAAATTTTTT
1 TACACGCCATGTTGAAAAAA--ATGT
* *
18135094 TGCACGTCATGTTGAAAAAAATGT
1 TACACGCCATGTTGAAAAAAATGT
*
18135118 TACACGCCATGTTG-AAAACATGT
1 TACACGCCATGTTGAAAAAAATGT
* * *
18135141 TACATGCCATTTTCAATAAAAATGT
1 TACACGCCATGTTGAA-AAAAATGT
* *
18135166 TATACGTCATGT
1 TACACGCCATGT
18135178 ACTAAAATAT
Statistics
Matches: 86, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
23 19 0.22
24 15 0.17
25 16 0.19
26 36 0.42
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (24 bp):
TACACGCCATGTTGAAAAAAATGT
Found at i:18148799 original size:135 final size:135
Alignment explanation
Indices: 18148517--18148800 Score: 376
Period size: 135 Copynumber: 2.1 Consensus size: 135
18148507 CGTTTAAATC
* * * * * *
18148517 AATGATTTCAT-CATCAACTTGGTTTGATTTTTATATTGTTTACGTGAGATCGTATAAGTAAATA
1 AATGATTTAATCCATCAAATTGGTTTGATTTTTATATTGCTTACGTAAAATCATATAAGTAAATA
** *
18148581 AATTAATTAAATTTGTTCAAATTCATCAATTTTTTTATATTTGTTTGTGCGTTAATCTGATATTA
66 AATTAATTAAATTTGTTCAAATTCATCAATTTTTTTATATTTACTTGTGCGATAATCTGATATTA
18148646 ACTTG
131 ACTTG
* * * * *
18148651 AACGGTTTAATCCATCAAATTGGTTTGTTTTTTATGTTGCTTATC-TAAAATCATGTAAGTAAAT
1 AATGATTTAATCCATCAAATTGGTTTGATTTTTATATTGCTTA-CGTAAAATCATATAAGTAAAT
* *
18148715 AAATTAATTAAA-TTGTTCAAATTCATCCAATTTTTTTATTTTTACTTGTGTGATAATCTGATAT
65 AAATTAATTAAATTTGTTCAAATTCAT-CAATTTTTTTATATTTACTTGTGCGATAATCTGATAT
18148779 TAACTTG
129 TAACTTG
*
18148786 AATGATTTTATCCAT
1 AATGATTTAATCCAT
18148801 ATTTTCAAGA
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
134 22 0.17
135 105 0.82
136 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (135 bp):
AATGATTTAATCCATCAAATTGGTTTGATTTTTATATTGCTTACGTAAAATCATATAAGTAAATA
AATTAATTAAATTTGTTCAAATTCATCAATTTTTTTATATTTACTTGTGCGATAATCTGATATTA
ACTTG
Found at i:18151411 original size:16 final size:16
Alignment explanation
Indices: 18151392--18151425 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
18151382 TAAAATTAAA
18151392 AAGAAAA-AAAAAGAAG
1 AAGAAAAGAAAAA-AAG
18151408 AAGAAAAGAAAAAAAG
1 AAGAAAAGAAAAAAAG
18151424 AA
1 AA
18151426 ATTCGCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAAAAAAAG
Found at i:18155258 original size:15 final size:15
Alignment explanation
Indices: 18155238--18155269 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18155228 ATGCTCAACA
*
18155238 AATATTCAGTCACGT
1 AATATTAAGTCACGT
18155253 AATATTAAGTCACGT
1 AATATTAAGTCACGT
18155268 AA
1 AA
18155270 CGCCTGTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (15 bp):
AATATTAAGTCACGT
Done.