Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 57 of 199
Found at i:16556291 original size:31 final size:29
Alignment explanation
Indices: 16556256--16556329 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
16556246 ACGGCTCAAA
*
16556256 GACTAAAATGTTACAATACGATAACATAAGT
1 GACTAAAATGTAACAATAC-A-AACATAAGT
* ** *
16556287 GACTAAAACGTAACCTTTCAAACATAAGT
1 GACTAAAATGTAACAATACAAACATAAGT
16556316 GACTAAAATGTAAC
1 GACTAAAATGTAAC
16556330 CTGAGATAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 22 0.59
30 1 0.03
31 14 0.38
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (29 bp):
GACTAAAATGTAACAATACAAACATAAGT
Found at i:16557316 original size:22 final size:24
Alignment explanation
Indices: 16557290--16557333 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
16557280 GAAAAATATT
16557290 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
16557312 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
16557334 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:16557444 original size:9 final size:9
Alignment explanation
Indices: 16557430--16557457 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16557420 TTTTGTTACA
16557430 ACAATTAAT
1 ACAATTAAT
16557439 ACAATTAAT
1 ACAATTAAT
16557448 ACAATTAAT
1 ACAATTAAT
16557457 A
1 A
16557458 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:16557479 original size:68 final size:68
Alignment explanation
Indices: 16557400--16557600 Score: 298
Period size: 59 Copynumber: 3.1 Consensus size: 68
16557390 TCAAGTTTGT
*
16557400 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
16557465 AAA
66 AAA
16557468 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
16557524 AAA
66 AAA
*
16557527 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTAGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
16557590 AAT
66 AAA
16557593 TTTACTAA
1 TTTACTAA
16557601 CAATTAATTT
Statistics
Matches: 121, Mismatches: 3, Indels: 20
0.84 0.02 0.14
Matches are distributed among these distances:
59 56 0.46
60 1 0.01
62 2 0.02
65 2 0.02
66 26 0.21
67 2 0.02
68 32 0.26
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:16557610 original size:16 final size:16
Alignment explanation
Indices: 16557589--16557630 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
16557579 AATAATTAGA
*
16557589 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
16557605 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
16557621 TAGTTTTAAT
1 TAATTTTAAT
16557631 TTTATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:16559415 original size:21 final size:21
Alignment explanation
Indices: 16559391--16559433 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
16559381 ACCTTTTCTA
**
16559391 AAGTTAAAAGTTAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
16559412 AAGTTAAAAGGCAAAACCATT
1 AAGTTAAAAGGCAAAACCATT
16559433 A
1 A
16559434 TGTTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACCATT
Found at i:16560165 original size:20 final size:20
Alignment explanation
Indices: 16560103--16560165 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
16560093 AAGATTACAA
*
16560103 AAAATTCAAAATAAAT-TTT
1 AAAATTCAAAATATATATTT
* **
16560122 AAAATTCAAAATATTTATAA
1 AAAATTCAAAATATATATTT
*
16560142 AAAATCCAAAATATATATTT
1 AAAATTCAAAATATATATTT
16560162 AAAA
1 AAAA
16560166 ATTTATAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTCAAAATATATATTT
Found at i:16560185 original size:41 final size:39
Alignment explanation
Indices: 16560097--16560186 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
16560087 TCAACAAAGA
* * *
16560097 TTACAAAAAATTCAAAATAAATTTTAAAATTCAAAATAT
1 TTACAAAAAATCCAAAATAAATTTAAAAATTCAAAAAAT
* *
16560136 TTATAAAAAATCCAAAATATATATTTAAAAATTTATAAAAAT
1 TTACAAAAAATCCAAAATA-A-ATTTAAAAATTCA-AAAAAT
16560178 TT-CAAAAAA
1 TTACAAAAAA
16560187 AATCTAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
39 17 0.40
40 1 0.02
41 17 0.40
42 7 0.17
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (39 bp):
TTACAAAAAATCCAAAATAAATTTAAAAATTCAAAAAAT
Found at i:16563258 original size:34 final size:34
Alignment explanation
Indices: 16563208--16563372 Score: 222
Period size: 34 Copynumber: 4.8 Consensus size: 34
16563198 GAATAATACC
* *
16563208 AGAATTGATGTATGAACATGAGAGATTCCCTGCA
1 AGAAATGATGTGTGAACATGAGAGATTCCCTGCA
16563242 AGAAATGATGTGTGAACATGAGAGATTCCCTGCA
1 AGAAATGATGTGTGAACATGAGAGATTCCCTGCA
* * * * *
16563276 ACAAAATAATGCGTGAACATGAAATATTCCCTGCA
1 A-GAAATGATGTGTGAACATGAGAGATTCCCTGCA
* * * *
16563311 AGAAATGATGCGTGAAGAGGAAAGATTCCCTGCA
1 AGAAATGATGTGTGAACATGAGAGATTCCCTGCA
16563345 AGAAATGATGTGTGAACATGAGAGATTC
1 AGAAATGATGTGTGAACATGAGAGATTC
16563373 TCTATAACAA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
34 85 0.75
35 29 0.25
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (34 bp):
AGAAATGATGTGTGAACATGAGAGATTCCCTGCA
Found at i:16563337 original size:69 final size:68
Alignment explanation
Indices: 16563220--16563419 Score: 231
Period size: 69 Copynumber: 2.9 Consensus size: 68
16563210 AATTGATGTA
* * *
16563220 TGAACATGAGAGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGCAACAAAATAA
1 TGAACATGAGAGATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAA-AAAATAA
16563285 TGCG
65 TGCG
* * * * *
16563289 TGAACATGAAATATTCCCTGCAAGAAATGATGCGTGAAGAGGAAAGATTCCCTGCAAGAAATGAT
1 TGAACATGAGAGATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAAAAAATAAT
*
16563354 GTG
66 GCG
* ** * *
16563357 TGAACATGAGAGATTCTCTATAACAAAATAATGCGTGAACAGGAAATG-TTCCCTGCAAGAAAA
1 TGAACATGAGAGATTCCCTGCAA-GAAATGATGCGTGAACAGGAAA-GATTCCCTGCAA-AAAA
16563420 GACAAGAGAA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
68 26 0.24
69 80 0.73
70 4 0.04
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.22
Consensus pattern (68 bp):
TGAACATGAGAGATTCCCTGCAAGAAATGATGCGTGAACAGGAAAGATTCCCTGCAAAAAATAAT
GCG
Found at i:16563392 original size:103 final size:103
Alignment explanation
Indices: 16563230--16563418 Score: 333
Period size: 103 Copynumber: 1.8 Consensus size: 103
16563220 TGAACATGAG
*
16563230 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTGCAACAAAATAATGCGTGAACA
1 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTACAACAAAATAATGCGTGAACA
*
16563295 TGAAATATTCCCTGCAAGAAATGATGCGTGAAGAGGAA
66 GGAAATATTCCCTGCAAGAAATGATGCGTGAAGAGGAA
* *
16563333 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCTCTATAACAAAATAATGCGTGAACA
1 AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTACAACAAAATAATGCGTGAACA
*
16563398 GGAAATGTTCCCTGCAAGAAA
66 GGAAATATTCCCTGCAAGAAA
16563419 AGACAAGAGA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (103 bp):
AGATTCCCTGCAAGAAATGATGTGTGAACATGAGAGATTCCCTACAACAAAATAATGCGTGAACA
GGAAATATTCCCTGCAAGAAATGATGCGTGAAGAGGAA
Found at i:16563686 original size:14 final size:13
Alignment explanation
Indices: 16563656--16563693 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
16563646 AGTTTCCAAA
*
16563656 TTTTCAAATTAAG
1 TTTTCAAATTAAC
16563669 TTTTCAAACTTAAC
1 TTTTCAAA-TTAAC
16563683 TTTTCAAATTA
1 TTTTCAAATTA
16563694 CAAATATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAC
Found at i:16566349 original size:3 final size:3
Alignment explanation
Indices: 16566341--16566370 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16566331 AATAAACATT
16566341 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
16566371 TTATTGCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16571559 original size:13 final size:13
Alignment explanation
Indices: 16571528--16571565 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
16571518 AAAAATTATC
16571528 AATT-AAAT-TTT
1 AATTCAAATATTT
16571539 AATATCAAATATTT
1 AAT-TCAAATATTT
16571553 AATTCAAATATTT
1 AATTCAAATATTT
16571566 GTTAAGAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 1 0.04
13 14 0.58
14 6 0.25
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (13 bp):
AATTCAAATATTT
Found at i:16576729 original size:33 final size:33
Alignment explanation
Indices: 16576692--16576762 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
16576682 TTTCCCCCAA
* * *
16576692 TACTTAACCTGATTATTGAGGCATCATCGCTGC
1 TACTTAACCTGATTATAGAGGCACCATCACTGC
* *
16576725 TACTTAACCTGCTTATAGGGGCACCATCACTGC
1 TACTTAACCTGATTATAGAGGCACCATCACTGC
16576758 TACTT
1 TACTT
16576763 GGCCTGCTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (33 bp):
TACTTAACCTGATTATAGAGGCACCATCACTGC
Found at i:16576769 original size:33 final size:32
Alignment explanation
Indices: 16576711--16576827 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 32
16576701 TGATTATTGA
**
16576711 GGCATCATCGCTGCTACTTAACCTGCTTATAGG
1 GGCATCATC-CTGCTACTTGGCCTGCTTATAGG
* **
16576744 GGCACCATCACTGCTACTTGGCCTGCTTATTTG
1 GGCATCATC-CTGCTACTTGGCCTGCTTATAGG
** * * *
16576777 AACATCATTCCTACTACTTGGGCTGCATATAGG
1 GGCATCA-TCCTGCTACTTGGCCTGCTTATAGG
16576810 GGCATCATCCCTGCTACT
1 GGCATCAT-CCTGCTACT
16576828 AGTCTGGATT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
32 1 0.02
33 62 0.95
34 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.31
Consensus pattern (32 bp):
GGCATCATCCTGCTACTTGGCCTGCTTATAGG
Found at i:16582725 original size:15 final size:15
Alignment explanation
Indices: 16582705--16582760 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
16582695 ATTTACTAAA
*
16582705 ATTATAATATATAAT
1 ATTATAAAATATAAT
16582720 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
16582733 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
16582746 ATTATTAAATATAAT
1 ATTATAAAATATAAT
16582761 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:16582755 original size:26 final size:25
Alignment explanation
Indices: 16582715--16582777 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
16582705 ATTATAATAT
16582715 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
16582740 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
16582767 AAAATA-TATAA
1 ATAATATTATAA
16582778 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:16582773 original size:59 final size:59
Alignment explanation
Indices: 16582710--16582908 Score: 196
Period size: 59 Copynumber: 3.3 Consensus size: 59
16582700 CTAAAATTAT
16582710 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * * * *
16582769 AATATATAATTTAATAAAAT-T--CTTAGTATTAAATATTCTT--ATATGAATTT-ACTAA
1 AATATATAATTTAATAAAATATAATTTA-AAATAATTATTATTAAATAT-AATTTAACAAA
* *
16582824 AATCCTAATATATTATACTATAAAATATAATTTAAAATAATTATGATTAAATATAATTTAACAAA
1 AAT-AT-ATA-ATT-TA--ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
16582889 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
16582909 TCTTAGTATT
Statistics
Matches: 110, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
55 11 0.10
56 9 0.08
57 13 0.12
58 6 0.05
59 26 0.24
61 9 0.08
62 4 0.04
63 12 0.11
64 9 0.08
65 11 0.10
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (59 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:16582821 original size:120 final size:120
Alignment explanation
Indices: 16582688--16582927 Score: 435
Period size: 120 Copynumber: 2.0 Consensus size: 120
16582678 TTTAATAGAA
* * *
16582688 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
16582753 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
* *
16582808 TATATGAATTTACTAAAATCCTAATATATTATACTATAAAATATAATTTAAAATAATTATGATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
16582873 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
16582928 AATGATTGTA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATGATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:16589825 original size:13 final size:13
Alignment explanation
Indices: 16589807--16589834 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16589797 AATATAATGG
16589807 TTGTCAATTATTA
1 TTGTCAATTATTA
16589820 TTGTCAATTATTA
1 TTGTCAATTATTA
16589833 TT
1 TT
16589835 TTGTGATGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTGTCAATTATTA
Found at i:16593754 original size:37 final size:37
Alignment explanation
Indices: 16593700--16593814 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
16593690 AATTTTAAAT
*
16593700 ATAATGATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
* ** * * * *
16593737 ATATTTGTAAATGATATTTAAACATTTTTAGGA-AAAAT-
1 ATAATAATAAATAATATTTAAATA-ATTTA--ATATAATG
16593775 ATAATAATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
16593812 ATA
1 ATA
16593815 CATTAAATAA
Statistics
Matches: 59, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
35 1 0.02
36 4 0.07
37 26 0.44
38 23 0.39
39 4 0.07
40 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (37 bp):
ATAATAATAAATAATATTTAAATAATTTAATATAATG
Found at i:16593852 original size:75 final size:75
Alignment explanation
Indices: 16593693--16593852 Score: 178
Period size: 75 Copynumber: 2.1 Consensus size: 75
16593683 ATTTTAAAAT
* ** * * *
16593693 TTTAAATATAATGATAAATAATATTTAAATAATTTAATATAATGATATTTGTAAATGATATTTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
** *
16593758 ACATTTTTAG
66 ACAAATTGAG
***
16593768 GAAAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACAT-TAAATAAAAATTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
*
16593832 TATAAATTGAG
66 -ACAAATTGAG
*
16593843 TTTAGATATA
1 TTTAAATATA
16593853 CAAATACTTT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
74 11 0.16
75 56 0.84
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (75 bp):
TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
ACAAATTGAG
Found at i:16594389 original size:21 final size:21
Alignment explanation
Indices: 16594348--16594391 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
16594338 TAAAAAATTC
* *
16594348 AAATCAAATATTAATATTTTA
1 AAATCAAAAATTAATAATTTA
16594369 AAAT-AAAAATTAATAAATTTA
1 AAATCAAAAATTAAT-AATTTA
16594390 AA
1 AA
16594392 TTAATGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCAAAAATTAATAATTTA
Found at i:16594392 original size:20 final size:21
Alignment explanation
Indices: 16594342--16594392 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
16594332 CTTTAATAAA
* *
16594342 AAATTCAAATCAAATATTAAT
1 AAATTTAAATCAAAAATTAAT
*
16594363 -ATTTTAAAAT-AAAAATTAAT
1 AAATTT-AAATCAAAAATTAAT
16594383 AAATTTAAAT
1 AAATTTAAAT
16594393 TAATGCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTAAATCAAAAATTAAT
Found at i:16598552 original size:2 final size:2
Alignment explanation
Indices: 16598545--16598569 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16598535 GACTTAGGTT
16598545 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
16598570 GGCAATTATA
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:16610931 original size:280 final size:281
Alignment explanation
Indices: 16610416--16610975 Score: 917
Period size: 280 Copynumber: 2.0 Consensus size: 281
16610406 TAAAAAAATA
* * ** * *
16610416 GAAAATGGGGAGGTTTTCGAAATAGTCTATTAGAATTATCGGAGTTTTCGAAATAGTCATATTAA
1 GAAAATAGGGAGGTTTTCGAAATAGCCTACCAAAATTATCGGAGTTTTCGAAACAGTCATATTAA
* * *
16610481 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTTAGAAAAGATAACAAGTTATAAAAAATC
66 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATAAAAAACC
* *
16610546 GTTTTAGATTAACCTTCATATGTAACGGTGTCCATTTTTAAGAAAAACTTAGTTAACTTTCTATT
131 GTTTTAAATTAACCTTCATATGTAACGGTGTCCATTTTTAAGAAAAACTTAGTTAACTTTCCATT
16610611 TATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTAA
196 TATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTAA
16610676 TTTAA-AAAAATAAAATTTTC
261 TTTAATAAAAATAAAATTTTC
* *
16610696 GAAAATAGGGAGGTTTTCGAAATGGCCTACCAAAATTATCTGAGTTTTCGAAACAGTCATATTAA
1 GAAAATAGGGAGGTTTTCGAAATAGCCTACCAAAATTATCGGAGTTTTCGAAACAGTCATATTAA
*
16610761 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATCAAAAACC
66 ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATAAAAAACC
*
16610826 GTTTTAAATTAACCTTCATATGTAACGGTGAT-CGTTTTTAAGAAAAACTTAGTTAACTTTCCAT
131 GTTTTAAATTAACCTTCATATGTAACGGTG-TCCATTTTTAAGAAAAACTTAGTTAACTTTCCAT
* * *
16610890 TTATTTATTACCCTTAATTTTAACTAAAAACTAGTAGCGGAAAAGTGACATTCAACTTGGTTTTA
195 TTATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTA
* *
16610955 ATTTAATAAAAGTAAGATTTT
260 ATTTAATAAAAATAAAATTTT
16610976 ATGCATAATT
Statistics
Matches: 258, Mismatches: 20, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
280 245 0.95
281 13 0.05
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (281 bp):
GAAAATAGGGAGGTTTTCGAAATAGCCTACCAAAATTATCGGAGTTTTCGAAACAGTCATATTAA
ATATTTGTTTATTATAGTAGAAAACTTAGTCAATTTTCAGAAAAGACAACAAGTTATAAAAAACC
GTTTTAAATTAACCTTCATATGTAACGGTGTCCATTTTTAAGAAAAACTTAGTTAACTTTCCATT
TATTTATTACCCTCAATTTTAACTAAAAACTAGCAGCGGAAAAGTGACATTCAACTTAGTTTTAA
TTTAATAAAAATAAAATTTTC
Found at i:16623022 original size:23 final size:23
Alignment explanation
Indices: 16622990--16623066 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
16622980 TAAACACATA
*
16622990 GGTTCACATGTAACAACATGTAG
1 GGTTCACATGTAACAACATTTAG
* * ** *
16623013 CGTTCGCATGTAGTAATATTTAG
1 GGTTCACATGTAACAACATTTAG
16623036 GGTTCACATGTAACAACATTTAG
1 GGTTCACATGTAACAACATTTAG
16623059 GGTTCACA
1 GGTTCACA
16623067 AGCAATATAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (23 bp):
GGTTCACATGTAACAACATTTAG
Found at i:16623234 original size:28 final size:29
Alignment explanation
Indices: 16623203--16623259 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
16623193 TGGCATATAG
* *
16623203 GGGTTTGCTTGCA-GGGGTTCACACATAT
1 GGGTTTGCATGCATAGGGTTCACACATAT
16623231 GGGTTTGCATGCATTAGGGTTCACACATA
1 GGGTTTGCATGCA-TAGGGTTCACACATA
16623260 ACATGGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.48
30 13 0.52
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (29 bp):
GGGTTTGCATGCATAGGGTTCACACATAT
Found at i:16623393 original size:30 final size:30
Alignment explanation
Indices: 16623344--16623446 Score: 118
Period size: 30 Copynumber: 3.4 Consensus size: 30
16623334 TTACATATGA
*
16623344 GTTCACCTATAAGGG-TTCACATACAAGGGG
1 GTTCGCCTAT-AGGGTTTCACATACAAGGGG
* *
16623374 GTTCGTCTATAGGGTTTCACATGCAAGGGG
1 GTTCGCCTATAGGGTTTCACATACAAGGGG
* * *
16623404 GTTCGCCTATAGGGTTTCATATGCAAGAGG
1 GTTCGCCTATAGGGTTTCACATACAAGGGG
* *
16623434 ATTCACCTATAGG
1 GTTCGCCTATAGG
16623447 TATTCGCATG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.06
30 60 0.94
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (30 bp):
GTTCGCCTATAGGGTTTCACATACAAGGGG
Found at i:16639662 original size:3 final size:3
Alignment explanation
Indices: 16639654--16639683 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16639644 ATCAAGAACA
16639654 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16639684 GAAAAGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16639904 original size:23 final size:22
Alignment explanation
Indices: 16639868--16639911 Score: 79
Period size: 23 Copynumber: 2.0 Consensus size: 22
16639858 AAAATATAAA
16639868 ATATAAAAATATATATATGTAC
1 ATATAAAAATATATATATGTAC
16639890 ATATAAGAAATATATATATGTA
1 ATATAA-AAATATATATATGTA
16639912 TGTGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
ATATAAAAATATATATATGTAC
Found at i:16639936 original size:9 final size:9
Alignment explanation
Indices: 16639922--16639959 Score: 60
Period size: 9 Copynumber: 4.2 Consensus size: 9
16639912 TGTGAATTAT
16639922 AAAAAATAA
1 AAAAAATAA
16639931 AAAAAATAA
1 AAAAAATAA
16639940 AAAAAATAA
1 AAAAAATAA
16639949 AAGAAAA-AA
1 AA-AAAATAA
16639958 AA
1 AA
16639960 TATATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.89, C:0.00, G:0.03, T:0.08
Consensus pattern (9 bp):
AAAAAATAA
Found at i:16639950 original size:14 final size:14
Alignment explanation
Indices: 16639923--16639961 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16639913 GTGAATTATA
* *
16639923 AAAAATAAAAAAAAT
1 AAAAA-AAATAAAAG
16639938 AAAAAAAATAAAAG
1 AAAAAAAATAAAAG
16639952 AAAAAAAATA
1 AAAAAAAATA
16639962 TATAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (14 bp):
AAAAAAAATAAAAG
Found at i:16640697 original size:21 final size:21
Alignment explanation
Indices: 16640667--16640723 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
16640657 AATCATATCT
*
16640667 TCTAAGATTGCTTATATCATA
1 TCTAAGATTGCATATATCATA
*
16640688 TCTAATATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
16640709 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
16640724 CCTTGAAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:16647649 original size:714 final size:716
Alignment explanation
Indices: 16646269--16647703 Score: 1864
Period size: 714 Copynumber: 2.0 Consensus size: 716
16646259 AAACCAGTTT
* * * *
16646269 GTGCTAATATATTATAATGATTGTGGTGCCCCAAACCCGACCGGAACGGGCCAACCCGAATCCTG
1 GTGCTAAAATATTATAATGATTGTGGTGCCCCAAACCCGACCGAAACGGACCAACCCGAATCCTA
** *
16646334 AACGTCACATTAACCACTTATCTGACTCCTTACTGGTCATCCAAACACACCATAAAACAAACCAT
66 AACGTCACATTAACCACTTATCTGACTCCTTACAAGTCATCCAAACAAACCATAAAACAAACCAT
* * * *
16646399 CACACCATCAAACCATGTTTAAGCAAGTGTTTTAAGTTATGCAAGCCTAAATCATGTTTTGATTA
131 CACACCATCAAACCATGCTTAAGCAAGTATTTTAAGTCATGCAAGCCTAAATCATGTTTCGATTA
16646464 ACACAAATTAGCAATTTAAAAACAATCGTAAAATCGTCATTTTGCATGTCATTGGCGAAAAACAC
196 ACACAAATTAGCAATTTAAAAACAATCGTAAAATCGTCATTTTGCATGTCATTGGCGAAAAACAC
* * *** * * * * ** **
16646529 GTAAATCATAAAATTAATCCTATAAGTGTCTTGGGCATTTTATTTTAAACCATTATTGAAATTTT
261 GTAAATCATAAAATTAATCCAACAAG-G--TTGAAAAATTCAGTTTAAAACAACATTGAAATACT
* * *** * *
16646594 CAAGTTAAAACAACACTTAAAACTCATTTAATTTCAAAACTTAAATTTTACAAAATATCCAGATA
323 CAACTTAAAACAAAAC-TAAAA--CATTTAAGGGCAAAACGTAAATTTTACAAAATATACAGATA
* * *
16646659 AACAAATTTAAGAAATTGAAGTTAAAATATTGAAATTCAATGTTTAAATCCATGTCATGTAATTT
385 AACAAATTTAAGAAATTAAAGTTAAAATATTAAAATTCAAGGTTTAAATCCATGTCATGTAATTT
*
16646724 TCCAAAGCATTTCATGGTGTTTAAGGCCTCTAATTTTATTGTGTAAAAATCAAGACTAATTTGCA
450 TCCAAAGCATTTCATGGTGTTTAAGGCCTCTAATTTTATTGTGTAAAAATCAAGACTAACTTGCA
* * * *
16646789 ATAGTTTCAAAATATGCCCAGGACACTTTGAAAACCTTGTCACGACCATGCGATTTTCACATCGT
515 ATAGTTTCAAAATATACCCAGAACACTCTGAAAACCTTGTCACGACCATGCGATTTTCACATCGC
* * * * * *
16646854 GATATCGATCCCTTTTTGTGACATCCTATAAGGCTTGTTGCAACATCGATTGAAAGAATTGCAGA
580 AACATCGATCCCTTGTTGTGACATCCTATAAGGCTTGTTACAACATCGATAGAAAGAATTGCAAA
* *
16646919 AAAATTTCACTTCTTACATATAACACTTTGATACTCAAATGCACATACTAAGTCATCGTTTCATG
645 AAAATTTCACTTCTTACATATAACACTTTGATACTCAAATGCACATACCAAGTCATCGTGTCATG
16646984 CCATTTG
710 CCATTTG
* * * *
16646991 GTGCTAAAATATTATAATGATTGTGGTGCCCCAAACCCGACTGAAATGGACCGACCTGAATCCTA
1 GTGCTAAAATATTATAATGATTGTGGTGCCCCAAACCCGACCGAAACGGACCAACCCGAATCCTA
* * *
16647056 AACGTCACATTAGCCACTTATGTGACTCTCCTTACAAGTCATCCAAACAAACCATAAAACCAACC
66 AACGTCACATTAACCACTTATCTGA--CTCCTTACAAGTCATCCAAACAAACCATAAAACAAACC
* *
16647121 ATCACACCATCAAACCATGCTTAATCAAGTATTTCT-AGTCATGCAAGCCTAAATCCTGTTTCGA
129 ATCACACCATCAAACCATGCTTAAGCAAGTATTT-TAAGTCATGCAAGCCTAAATCATGTTTCGA
* * *
16647185 TTAACACAAATTAGCAATTTAAGAACAA-CGGTAAAATCGTTATTTTGCATGTCATTGGTGAAAA
193 TTAACACAAATTAGCAATTTAAAAACAATC-GTAAAATCGTCATTTTGCATGTCATTGGCGAAAA
* *
16647249 ACACGTAAATCCTAAAATTAATCCAACAA-G-TGAAAAATTCAGTTTAAAACAACATTTAAA-AC
257 ACACGTAAATCATAAAATTAATCCAACAAGGTTGAAAAATTCAGTTTAAAACAACATTGAAATAC
** * *
16647311 TC-ACTTAATTTCAAAAC-CAAA-ATTTAAGGGCTAAAACGTAAATTTTACAAAATATACATATA
322 TCAACTTAA-AACAAAACTAAAACATTTAAGGGC-AAAACGTAAATTTTACAAAATATACAGATA
* * * * * * *
16647373 AACCATTTTAATATATTAAAGTTAACATATTAAAATTCAAGGTTTAAATCCATTTTATGTAATTT
385 AACAAATTTAAGAAATTAAAGTTAAAATATTAAAATTCAAGGTTTAAATCCATGTCATGTAATTT
** * * *
16647438 TTTAAAGCATTTCGTGGTGTTTAAGGCCTCTAATTTTATTGTGTAAAAATCAGGACTAACTTGTA
450 TCCAAAGCATTTCATGGTGTTTAAGGCCTCTAATTTTATTGTGTAAAAATCAAGACTAACTTGCA
* * * **
16647503 ATAGTTTCAAAATATACCTAGAACACTCT-AAAATCCTTGTCGCGACCATGCGATTTTTATGTCG
515 ATAGTTTCAAAATATACCCAGAACACTCTGAAAA-CCTTGTCACGACCATGCGATTTTCACATCG
* * * *
16647567 CAACATCGATCCCTTGTTGTGACATCCTATAGGGCTTGTTACGACATTGACTAG-AAGGATTGCA
579 CAACATCGATCCCTTGTTGTGACATCCTATAAGGCTTGTTACAACATCGA-TAGAAAGAATTGCA
* * * *
16647631 AAAAAATTTCAGTTCTTACATATAACACTTTGATACTCAAATGCACATACCAATTCGTGGTGTCA
643 AAAAAATTTCACTTCTTACATATAACACTTTGATACTCAAATGCACATACCAAGTCATCGTGTCA
16647696 TGCCATTT
708 TGCCATTT
16647704 TCCCTATTCT
Statistics
Matches: 615, Mismatches: 90, Indels: 24
0.84 0.12 0.03
Matches are distributed among these distances:
713 11 0.02
714 309 0.50
715 2 0.00
716 3 0.00
717 5 0.01
718 7 0.01
719 20 0.03
722 81 0.13
723 1 0.00
724 175 0.28
725 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (716 bp):
GTGCTAAAATATTATAATGATTGTGGTGCCCCAAACCCGACCGAAACGGACCAACCCGAATCCTA
AACGTCACATTAACCACTTATCTGACTCCTTACAAGTCATCCAAACAAACCATAAAACAAACCAT
CACACCATCAAACCATGCTTAAGCAAGTATTTTAAGTCATGCAAGCCTAAATCATGTTTCGATTA
ACACAAATTAGCAATTTAAAAACAATCGTAAAATCGTCATTTTGCATGTCATTGGCGAAAAACAC
GTAAATCATAAAATTAATCCAACAAGGTTGAAAAATTCAGTTTAAAACAACATTGAAATACTCAA
CTTAAAACAAAACTAAAACATTTAAGGGCAAAACGTAAATTTTACAAAATATACAGATAAACAAA
TTTAAGAAATTAAAGTTAAAATATTAAAATTCAAGGTTTAAATCCATGTCATGTAATTTTCCAAA
GCATTTCATGGTGTTTAAGGCCTCTAATTTTATTGTGTAAAAATCAAGACTAACTTGCAATAGTT
TCAAAATATACCCAGAACACTCTGAAAACCTTGTCACGACCATGCGATTTTCACATCGCAACATC
GATCCCTTGTTGTGACATCCTATAAGGCTTGTTACAACATCGATAGAAAGAATTGCAAAAAAATT
TCACTTCTTACATATAACACTTTGATACTCAAATGCACATACCAAGTCATCGTGTCATGCCATTT
G
Found at i:16649236 original size:42 final size:43
Alignment explanation
Indices: 16649131--16649281 Score: 137
Period size: 43 Copynumber: 3.5 Consensus size: 43
16649121 AGATGTGTTA
** * * * *
16649131 TCGTGTAAGACCACGTCTGGAAC-GTTGGCATCGATTTTTGATT
1 TCGTGTAAGACCATATCTGGGACAG-TAGCATCGATATATGATT
* *
16649174 TACGTGTAAGACAATGTCTGGGACA-TCAGCATCG-TATATGATT
1 T-CGTGTAAGACCATATCTGGGACAGT-AGCATCGATATATGATT
* * *
16649217 TCGTGTAAGACCCTATCTGGGACAGTAGCATCGATATGTGATA
1 TCGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGATT
* *
16649260 ACATGTAAGACCATATCTGGGA
1 TCGTGTAAGACCATATCTGGGA
16649282 TATGACATTG
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 27 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TCGTGTAAGACCATATCTGGGACAGTAGCATCGATATATGATT
Found at i:16649717 original size:23 final size:23
Alignment explanation
Indices: 16649681--16649731 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
16649671 TAGTAAAGCA
* *
16649681 TGTAATATCTCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
16649704 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
16649727 AGTAA
1 TGTAA
16649732 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:16653300 original size:2 final size:2
Alignment explanation
Indices: 16653293--16653320 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16653283 TGTTAATGTC
16653293 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
16653321 TAACGTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16655474 original size:23 final size:23
Alignment explanation
Indices: 16655442--16655568 Score: 73
Period size: 23 Copynumber: 5.4 Consensus size: 23
16655432 TCCAAAGACA
*
16655442 GCTCACACATGCATGGTAAAACT
1 GCTCGCACATGCATGGTAAAACT
* * *
16655465 GCTTGCACATACAT-TTCAAATA-T
1 GCTCGCACATGCATGGT-AAA-ACT
* * *
16655488 AGCTAGCACATGCGTGATAAAA-T
1 -GCTCGCACATGCATGGTAAAACT
* * *
16655511 AGCTCGCACATACAT-TTCAAAGACA
1 -GCTCGCACATGCATGGT-AAA-ACT
16655536 GCTCGCACATGCATGGTAAAACT
1 GCTCGCACATGCATGGTAAAACT
*
16655559 GCTTGCACAT
1 GCTCGCACAT
16655569 ACATTTCAAA
Statistics
Matches: 79, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
22 2 0.03
23 43 0.54
24 32 0.41
25 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (23 bp):
GCTCGCACATGCATGGTAAAACT
Found at i:16655497 original size:24 final size:23
Alignment explanation
Indices: 16655469--16655592 Score: 74
Period size: 24 Copynumber: 5.3 Consensus size: 23
16655459 AAAACTGCTT
16655469 GCACATACATTTCAAATATAGCTA
1 GCACATACATTTCAAA-ATAGCTA
* * * *
16655493 GCACATGCGTGAT-AAAATAGCTC
1 GCACATACAT-TTCAAAATAGCTA
* *
16655516 GCACATACATTTCAAAGACAGCTC
1 GCACATACATTTCAAA-ATAGCTA
* * *
16655540 GCACATGCATGGT-AAAACT-GCTT
1 GCACATACAT-TTCAAAA-TAGCTA
* *
16655563 GCACATACATTTCAAAGACAACTA
1 GCACATACATTTCAAA-ATAGCTA
16655587 GCACAT
1 GCACAT
16655593 GCGTGGTAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
22 2 0.03
23 33 0.44
24 38 0.51
25 2 0.03
ACGTcount: A:0.38, C:0.24, G:0.15, T:0.23
Consensus pattern (23 bp):
GCACATACATTTCAAAATAGCTA
Found at i:16655498 original size:47 final size:47
Alignment explanation
Indices: 16655422--16655639 Score: 271
Period size: 47 Copynumber: 4.6 Consensus size: 47
16655412 ATGACAGCTC
*
16655422 GCACATACATTCCAAAGACAGCTCA-CACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGACAGCT-AGCACATGCATGGTAAAACTGCTT
* * * * *
16655469 GCACATACATTTCAAATATAGCTAGCACATGCGTGATAAAA-TAGCTC
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACT-GCTT
*
16655516 GCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACTGCTT
* * *
16655563 GCACATACATTTCAAAGACAACTAGCACATGCGTGGTAAAACAT-ATT
1 GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAAC-TGCTT
* * *
16655610 GCACATGCATTTCAAAGACAACTCGCACAT
1 GCACATACATTTCAAAGACAGCTAGCACAT
16655640 ATATTTAATC
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
46 2 0.01
47 145 0.97
48 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (47 bp):
GCACATACATTTCAAAGACAGCTAGCACATGCATGGTAAAACTGCTT
Found at i:16655578 original size:94 final size:94
Alignment explanation
Indices: 16655415--16655639 Score: 342
Period size: 94 Copynumber: 2.4 Consensus size: 94
16655405 TGTGACAATG
* *
16655415 ACAGCTCGCACATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTGCTTGCACATACATT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
* * *
16655480 TCAAATATAGCTAGCACATGCGTGATAAA
66 TCAAAGACAACTAGCACATGCGTGATAAA
*
16655509 ATAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
*
16655574 TCAAAGACAACTAGCACATGCGTGGTAAA
66 TCAAAGACAACTAGCACATGCGTGATAAA
** * * *
16655603 ACATATTGCACATGCATTTCAAAGACAACTCGCACAT
1 ACAGCTCGCACATACATTTCAAAGACAGCTCGCACAT
16655640 ATATTTAATC
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
94 118 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (94 bp):
ACAGCTCGCACATACATTTCAAAGACAGCTCGCACATGCATGGTAAAACTGCTTGCACATACATT
TCAAAGACAACTAGCACATGCGTGATAAA
Found at i:16656334 original size:20 final size:20
Alignment explanation
Indices: 16656309--16656362 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
16656299 AAGGGCATCG
16656309 AAGTGCAACCAGGGACACCA
1 AAGTGCAACCAGGGACACCA
* *
16656329 AAGTGCAACCAGGGGCACGA
1 AAGTGCAACCAGGGACACCA
* *
16656349 AAGTACAATCAGGG
1 AAGTGCAACCAGGG
16656363 GCACTAGAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.30, T:0.07
Consensus pattern (20 bp):
AAGTGCAACCAGGGACACCA
Found at i:16662002 original size:3 final size:3
Alignment explanation
Indices: 16661996--16662025 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16661986 CCCTAATAAC
16661996 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
16662026 GACTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16673495 original size:12 final size:12
Alignment explanation
Indices: 16673478--16673502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16673468 GGTGTTCATT
16673478 CGGTTAACCGAC
1 CGGTTAACCGAC
16673490 CGGTTAACCGAC
1 CGGTTAACCGAC
16673502 C
1 C
16673503 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:16673677 original size:9 final size:9
Alignment explanation
Indices: 16673663--16673732 Score: 122
Period size: 9 Copynumber: 7.8 Consensus size: 9
16673653 TTTGGTTAAA
16673663 AATTACCCG
1 AATTACCCG
16673672 AATTACCCG
1 AATTACCCG
16673681 AATTACCCG
1 AATTACCCG
16673690 AATTACCCG
1 AATTACCCG
16673699 AATTACCCG
1 AATTACCCG
*
16673708 AATTAACCG
1 AATTACCCG
*
16673717 AATTAACCG
1 AATTACCCG
16673726 AATTACC
1 AATTACC
16673733 GAAAAATACC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.37, C:0.30, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:16675765 original size:29 final size:29
Alignment explanation
Indices: 16675723--16675781 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16675713 TGAATAGAAG
16675723 AATGAGAGGATTTAGATTTAAAGCTTGGT
1 AATGAGAGGATTTAGATTTAAAGCTTGGT
16675752 AATGAGAGGATTTAGATTTAAAGCTTGGT
1 AATGAGAGGATTTAGATTTAAAGCTTGGT
16675781 A
1 A
16675782 GGCCATTGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.34
Consensus pattern (29 bp):
AATGAGAGGATTTAGATTTAAAGCTTGGT
Found at i:16676221 original size:13 final size:13
Alignment explanation
Indices: 16676203--16676227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16676193 AGAGGTAGCA
16676203 AAGAGATATTTTG
1 AAGAGATATTTTG
16676216 AAGAGATATTTT
1 AAGAGATATTTT
16676228 TATCAAGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
AAGAGATATTTTG
Found at i:16696119 original size:72 final size:71
Alignment explanation
Indices: 16695994--16696129 Score: 227
Period size: 72 Copynumber: 1.9 Consensus size: 71
16695984 TCGAATTTTT
* *
16695994 AAAAAAGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
1 AAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTACCGAGATCGTTTAAAAC
16696059 TTGAGA
66 TTGAGA
* *
16696065 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTGATTATCGAGATCGTTTAAAA
1 AAAAAA-GGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTACCGAGATCGTTTAAAA
16696130 TTTTAAGTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
71 6 0.10
72 54 0.90
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (71 bp):
AAAAAAGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTTAATTACCGAGATCGTTTAAAAC
TTGAGA
Found at i:16699792 original size:13 final size:14
Alignment explanation
Indices: 16699762--16699795 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
16699752 ATCTAACCTG
16699762 AAATGAATTTGCTTA
1 AAATGAATTT-CTTA
16699777 AAATGAATTT-TTA
1 AAATGAATTTCTTA
16699790 AAATGA
1 AAATGA
16699796 GATCGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
15 10 0.53
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (14 bp):
AAATGAATTTCTTA
Found at i:16706074 original size:21 final size:19
Alignment explanation
Indices: 16706031--16706082 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
16706021 ATTTTTTTAA
*
16706031 TTGAACTTTTT-TCTATGT
1 TTGAATTTTTTATCTATGT
16706049 TTGAATTTTTTATCTATTGTT
1 TTGAATTTTTTATCTA-TG-T
16706070 TTGAATTTTTTAT
1 TTGAATTTTTTAT
16706083 AATTTATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.33
19 4 0.13
20 2 0.07
21 14 0.47
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (19 bp):
TTGAATTTTTTATCTATGT
Found at i:16709278 original size:25 final size:26
Alignment explanation
Indices: 16709231--16709283 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
16709221 TGTATTAATC
*
16709231 ATAATTAAAATATATGAATAATAAAA
1 ATAAATAAAATATATGAATAATAAAA
16709257 ATAAATAAAA-ATAT-AATCAATAAAA
1 ATAAATAAAATATATGAAT-AATAAAA
16709282 AT
1 AT
16709284 GTAATTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (26 bp):
ATAAATAAAATATATGAATAATAAAA
Found at i:16713364 original size:14 final size:14
Alignment explanation
Indices: 16713347--16713384 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16713337 CTTTCGTACG
16713347 ATTTC-TTTCACTTT
1 ATTTCATTTCA-TTT
16713361 ATTTCATTTCATTT
1 ATTTCATTTCATTT
*
16713375 ATTTTATTTC
1 ATTTCATTTC
16713385 TACTGATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTCATTTCATTT
Found at i:16716197 original size:3 final size:3
Alignment explanation
Indices: 16716177--16716219 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
16716167 TTTAAGTTTT
* *
16716177 TTA TTA ATA TTG TTA TTA TTA -TA TTA TATA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
16716220 AATATTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:16716197 original size:15 final size:16
Alignment explanation
Indices: 16716177--16716225 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
16716167 TTTAAGTTTT
*
16716177 TTATTAATATTGT-TA
1 TTATTAATATTATATA
16716192 TTATT-ATATTATATA
1 TTATTAATATTATATA
*
16716207 TTATTATTATTATAATA
1 TTATTAATATTAT-ATA
16716224 TT
1 TT
16716226 TATACATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.21
15 12 0.41
16 6 0.21
17 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTATTAATATTATATA
Found at i:16716208 original size:21 final size:20
Alignment explanation
Indices: 16716178--16716220 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
16716168 TTAAGTTTTT
*
16716178 TATTAATATTGTTATTATTA
1 TATTAATATTATTATTATTA
16716198 TATTATATATTATTATTATTA
1 TATTA-ATATTATTATTATTA
16716219 TA
1 TA
16716221 ATATTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TATTAATATTATTATTATTA
Found at i:16716216 original size:24 final size:23
Alignment explanation
Indices: 16716184--16716229 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
16716174 TTTTTATTAA
* *
16716184 TATTGTTATTATTATATTATATAT
1 TATTATTATTATAATATT-TATAT
16716208 TATTATTATTATAATATTTATA
1 TATTATTATTATAATATTTATA
16716230 CATTTTCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTATTATTATAATATTTATAT
Found at i:16716228 original size:18 final size:18
Alignment explanation
Indices: 16716189--16716228 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
16716179 ATTAATATTG
*
16716189 TTATTATTATATTATATA
1 TTATTATTATATAATATA
16716207 TTATTATTATTATAATAT-
1 TTATTATTA-TATAATATA
16716225 TTAT
1 TTAT
16716229 ACATTTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATTATATAATATA
Found at i:16728981 original size:44 final size:44
Alignment explanation
Indices: 16728913--16729016 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 44
16728903 TGGCAAGTCT
* *
16728913 TATCTCCCTGAAGTTTCAGCGGAGCAGATGAAAGCCAATA-ATCC
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATGAAAACC-ATAGATCC
* * *
16728957 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGCGGAGCAGATGAAAACCATAGATCC
*
16729001 TATCTCTCTGAAGTTG
1 TATCTCCCTGAAGTTG
16729017 AAGAGAGCAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 3 0.06
44 50 0.94
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGCGGAGCAGATGAAAACCATAGATCC
Found at i:16729714 original size:21 final size:21
Alignment explanation
Indices: 16729676--16729715 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16729666 TGATCTTTTT
* **
16729676 TGTTTTTTTTTTTGTTTTTAC
1 TGTTTTTTATTTCATTTTTAC
16729697 TGTTTTTTATTTCATTTTT
1 TGTTTTTTATTTCATTTTT
16729716 CTATTGGTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (21 bp):
TGTTTTTTATTTCATTTTTAC
Found at i:16730808 original size:23 final size:23
Alignment explanation
Indices: 16730773--16730816 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
16730763 TATCATCCTG
*
16730773 ATATATATATAT-ATTGTAAATAC
1 ATATACATATATAATT-TAAATAC
*
16730796 ATATACATGTATAATTTAAAT
1 ATATACATATATAATTTAAAT
16730817 TAAAGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATACATATATAATTTAAATAC
Found at i:16730974 original size:40 final size:40
Alignment explanation
Indices: 16730921--16731028 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
16730911 CGTTTGGATA
** **
16730921 AAAAACGTTGCTAAAGATTGAGCATTAGCGGCACTTTTTG
1 AAAAACGCCGCTAAAGATTGAGCATTAGCGGCACTTTACG
* *
16730961 GAAAACGCCGCTAAAGATTGAG-ATTTAGCGGCGCTTTACG
1 AAAAACGCCGCTAAAGATTGAGCA-TTAGCGGCACTTTACG
* *
16731001 AAAAACGCCGCTAAA-AATAAGCATTAGC
1 AAAAACGCCGCTAAAGATTGAGCATTAGC
16731029 CGCGTTTTCA
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
39 10 0.18
40 47 0.82
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGATTGAGCATTAGCGGCACTTTACG
Found at i:16731165 original size:41 final size:41
Alignment explanation
Indices: 16731089--16731453 Score: 403
Period size: 41 Copynumber: 8.9 Consensus size: 41
16731079 TGTGAGCTTT
* * ** *
16731089 CAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCT
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCC
* * * *
16731130 CAAGGCTTTAGCGACATTTTCGGGGAAGC-CGCGCTAATGCC
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGC-CGCTAATGCC
*
16731171 CAGGGCTTTAGCGGCATTTTTGGGGAAGCGCCGCTAATGCC
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCC
* * *
16731212 CAAGGCTTTAGCGGCGTTTTTGGGAAAGCGCCACTAATGCC
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCC
* *
16731253 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATTCC
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCC
*
16731294 CAGGGCTTTAGCGGCGTTTGTT-GGAAAGCGCCGCT-ATGCC
1 CAGGGCTTTAGCGGCATTT-TTGGGAAAGCGCCGCTAATGCC
* * * * *
16731334 CATGGCTTTAGCGACGTTTTTGGTAAAGCGCCGATAATGCC
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCC
* * * **
16731375 CATGGCTTTAGGGGCGTTTTCAGGAAAGCGCCGCTAATGCC
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCC
* ** * * *
16731416 CATGGCTTTAGTTGCGTTTTTGAGAAAGTGCCGCTAAT
1 CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAAT
16731454 AATGCTCAAG
Statistics
Matches: 283, Mismatches: 36, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.01
40 33 0.12
41 245 0.87
42 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (41 bp):
CAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCGCTAATGCC
Found at i:16731249 original size:82 final size:82
Alignment explanation
Indices: 16731089--16731453 Score: 457
Period size: 82 Copynumber: 4.5 Consensus size: 82
16731079 TGTGAGCTTT
* ** * * *
16731089 CAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGACATTTTCGGG
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAAGGCTTTAGCGGCGTTTTCGGG
*
16731154 GAAGC-CGCGCTAATGCC
66 AAAGCGC-CGCTAATGCC
* * *
16731171 CAGGGCTTTAGCGGCATTTTTGGGGAAGCGCCGCTAATGCCCAAGGCTTTAGCGGCGTTTTTGGG
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAAGGCTTTAGCGGCGTTTTCGGG
*
16731236 AAAGCGCCACTAATGCC
66 AAAGCGCCGCTAATGCC
* * *
16731253 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATTCCCAGGGCTTTAGCGGCGTTTGT-TG
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAAGGCTTTAGCGGCGTTT-TCGG
16731317 GAAAGCGCCGCT-ATGCC
65 GAAAGCGCCGCTAATGCC
* * * * * * *
16731334 CATGGCTTTAGCGACGTTTTTGGTAAAGCGCCGATAATGCCCATGGCTTTAGGGGCGTTTTCAGG
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAAGGCTTTAGCGGCGTTTTCGGG
16731399 AAAGCGCCGCTAATGCC
66 AAAGCGCCGCTAATGCC
* ** * *
16731416 CATGGCTTTAGTTGCGTTTTTGAGAAAGTGCCGCTAAT
1 CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAAT
16731454 AATGCTCAAG
Statistics
Matches: 247, Mismatches: 32, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.00
81 71 0.29
82 173 0.70
83 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (82 bp):
CAGGGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCCCAAGGCTTTAGCGGCGTTTTCGGG
AAAGCGCCGCTAATGCC
Found at i:16731374 original size:122 final size:120
Alignment explanation
Indices: 16731095--16731451 Score: 439
Period size: 122 Copynumber: 2.9 Consensus size: 120
16731085 CTTTCAGGGA
* * * * * *
16731095 TTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTAGCGACATTTTCGGGGAAGC-
1 TTTAGCGGCGTTTTT-GGAAAGCGCCGATAATGCCCAAGGCTTTAGCGGCGTTTTCGGGAAAGCG
* *
16731159 CGCGCTAATGCCCAGGGCTTTAGCGGCATTTTTGGGGAAGCGCCGCTAATGCCCAAGGC
65 C-CGCTAATGCCCAGGGCTTTAGCGGCGTTTTT-GGAAAGCGCCGCT-ATGCCCAAGGC
* *
16731218 TTTAGCGGCGTTTTTGGGAAAGCGCC-ACTAATGCCCAGGGCTTTAGCGGCGTTTTTGGGAAAGC
1 TTTAGCGGCGTTTTT-GGAAAGCGCCGA-TAATGCCCAAGGCTTTAGCGGCGTTTTCGGGAAAGC
* *
16731282 GCCGCTAATTCCCAGGGCTTTAGCGGCGTTTGTTGGAAAGCGCCGCTATGCCCATGGC
64 GCCGCTAATGCCCAGGGCTTTAGCGGCGTTT-TTGGAAAGCGCCGCTATGCCCAAGGC
* * * *
16731340 TTTAGCGACGTTTTTGGTAAAGCGCCGATAATGCCCATGGCTTTAGGGGCGTTTTCAGGAAAGCG
1 TTTAGCGGCGTTTTTGG-AAAGCGCCGATAATGCCCAAGGCTTTAGCGGCGTTTTCGGGAAAGCG
* ** *
16731405 CCGCTAATGCCCATGGCTTTAGTTGCGTTTTTGAGAAAGTGCCGCTA
65 CCGCTAATGCCCAGGGCTTTAGCGGCGTTTTTG-GAAAGCGCCGCTA
16731452 ATAATGCTCA
Statistics
Matches: 205, Mismatches: 23, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
121 5 0.02
122 103 0.50
123 94 0.46
124 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (120 bp):
TTTAGCGGCGTTTTTGGAAAGCGCCGATAATGCCCAAGGCTTTAGCGGCGTTTTCGGGAAAGCGC
CGCTAATGCCCAGGGCTTTAGCGGCGTTTTTGGAAAGCGCCGCTATGCCCAAGGC
Found at i:16732257 original size:22 final size:21
Alignment explanation
Indices: 16732232--16732285 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
16732222 ATTAAATGAT
16732232 TTTAAGGTTTA-GAGATTATGTG
1 TTTAAGGTTTATG-GATTATG-G
* *
16732254 TTTAGGGATTATGGATTATGG
1 TTTAAGGTTTATGGATTATGG
*
16732275 TTTATGGTTTA
1 TTTAAGGTTTA
16732286 AGGGTTGGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 10 0.37
22 16 0.59
23 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (21 bp):
TTTAAGGTTTATGGATTATGG
Found at i:16732320 original size:7 final size:7
Alignment explanation
Indices: 16732310--16732354 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
16732300 AAATTTAGGA
16732310 GTTAAGG
1 GTTAAGG
16732317 GTTAAGG
1 GTTAAGG
16732324 GTT-AGAG
1 GTTAAG-G
*
16732331 GTTAGGG
1 GTTAAGG
*
16732338 GTTAGGG
1 GTTAAGG
16732345 GTTAAGG
1 GTTAAGG
16732352 GTT
1 GTT
16732355 GTGGGTTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 2 0.06
7 31 0.91
8 1 0.03
ACGTcount: A:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (7 bp):
GTTAAGG
Found at i:16732361 original size:14 final size:14
Alignment explanation
Indices: 16732310--16732354 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
16732300 AAATTTAGGA
*
16732310 GTTAAGGGTTAAGG
1 GTTAGGGGTTAAGG
* *
16732324 GTTAGAGGTTAGGG
1 GTTAGGGGTTAAGG
16732338 GTTAGGGGTTAAGG
1 GTTAGGGGTTAAGG
16732352 GTT
1 GTT
16732355 GTGGGTTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.22, C:0.00, G:0.47, T:0.31
Consensus pattern (14 bp):
GTTAGGGGTTAAGG
Found at i:16736669 original size:43 final size:43
Alignment explanation
Indices: 16736609--16736699 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
16736599 CTTTGAGTTC
* * *
16736609 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
16736651 ATTACCAAGATTTACTTGATTAAGAAAATGCATTCTATGTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
16736694 ATTACC
1 ATTACC
16736700 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:16736937 original size:16 final size:16
Alignment explanation
Indices: 16736913--16736944 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16736903 ATTTATCATA
*
16736913 GAAATAAAAATTATTT
1 GAAAAAAAAATTATTT
16736929 GAAAAAAAAATTATTT
1 GAAAAAAAAATTATTT
16736945 TTTTAAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
GAAAAAAAAATTATTT
Found at i:16737069 original size:44 final size:44
Alignment explanation
Indices: 16736959--16737152 Score: 284
Period size: 44 Copynumber: 4.5 Consensus size: 44
16736949 AAAGATATAT
* * * *
16736959 TTTTAGCGGTGTTTGTGTGAAAAGCGCCGTTAAAGGTCTTAGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
16737003 -TTTAGCGGTGCTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
16737046 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTGGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
16737090 TTTTAGCGGCGTTTGTGAGAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
16737134 -TTTAGCGGCGTTTGTGGGA
1 TTTTAGCGGCGTTTGTGGGA
16737153 TCGCCGCTAA
Statistics
Matches: 136, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
43 56 0.41
44 80 0.59
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.32
Consensus pattern (44 bp):
TTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:16737079 original size:87 final size:88
Alignment explanation
Indices: 16736959--16737152 Score: 304
Period size: 87 Copynumber: 2.2 Consensus size: 88
16736949 AAAGATATAT
* * *
16736959 TTTTAGCGGTGTTTGTGTGAAAAGCGCCGTTAAAGGTCTTAGTC-TTTAGCGGTGCTTGTG-GAA
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTAGTCTTTTAGCGGCGCTTGTGAG-A
16737022 AAAGCGCCGCTAAAGGTCTTGGTC
65 AAAGCGCCGCTAAAGGTCTTGGTC
* *
16737046 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTGGTCTTTTAGCGGCGTTTGTGAGAA
1 TTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTAGTCTTTTAGCGGCGCTTGTGAGAA
*
16737111 AAGTGCCGCTAAAGGTCTTGGTC
66 AAGCGCCGCTAAAGGTCTTGGTC
16737134 -TTTAGCGGCGTTTGTGGGA
1 TTTTAGCGGCGTTTGTGGGA
16737153 TCGCCGCTAA
Statistics
Matches: 99, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
87 60 0.61
88 38 0.38
89 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.32
Consensus pattern (88 bp):
TTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTTAGTCTTTTAGCGGCGCTTGTGAGAA
AAGCGCCGCTAAAGGTCTTGGTC
Found at i:16738058 original size:13 final size:13
Alignment explanation
Indices: 16738040--16738073 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
16738030 TTTAAATTGA
*
16738040 TTTATATAAAGAT
1 TTTATATAAAAAT
16738053 TTTATATAAAAAT
1 TTTATATAAAAAT
16738066 TATTATAT
1 T-TTATAT
16738074 TAATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TTTATATAAAAAT
Found at i:16738177 original size:21 final size:21
Alignment explanation
Indices: 16738152--16738193 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16738142 TTTTATTTTC
16738152 TATATTTA-AAAATTAAAAATA
1 TATATTTAGAAAA-TAAAAATA
*
16738173 TATATTTAGTAAATAAAAATA
1 TATATTTAGAAAATAAAAATA
16738194 AACATTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TATATTTAGAAAATAAAAATA
Found at i:16741635 original size:27 final size:27
Alignment explanation
Indices: 16741605--16741662 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
16741595 CTAGCTCATG
* *
16741605 TTTACTATCCCAATGGACTATCCCGTA
1 TTTACTATCCCAATAGACTACCCCGTA
* * *
16741632 TTTACTGTCCCGATAGACTACCCCTTA
1 TTTACTATCCCAATAGACTACCCCGTA
16741659 TTTA
1 TTTA
16741663 GTGTCCTGAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.36
Consensus pattern (27 bp):
TTTACTATCCCAATAGACTACCCCGTA
Found at i:16741678 original size:27 final size:27
Alignment explanation
Indices: 16741621--16741678 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
16741611 ATCCCAATGG
* * *
16741621 ACTATCCCGTATTTACTGTCCCGATAG
1 ACTACCCCGTATTTACTGTCCCGACAA
* * *
16741648 ACTACCCCTTATTTAGTGTCCTGACAA
1 ACTACCCCGTATTTACTGTCCCGACAA
16741675 ACTA
1 ACTA
16741679 TACTGGTTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (27 bp):
ACTACCCCGTATTTACTGTCCCGACAA
Found at i:16742705 original size:16 final size:16
Alignment explanation
Indices: 16742686--16742717 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16742676 TCACTGTATC
*
16742686 GGAATAGAGGTGTAAT
1 GGAATAGAGGCGTAAT
16742702 GGAATAGAGGCGTAAT
1 GGAATAGAGGCGTAAT
16742718 AGCAAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.38, T:0.22
Consensus pattern (16 bp):
GGAATAGAGGCGTAAT
Found at i:16742979 original size:14 final size:15
Alignment explanation
Indices: 16742940--16742981 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
16742930 TTTTAACATA
*
16742940 ATTATTATTAAATAT
1 ATTATAATTAAATAT
16742955 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
16742969 A-TATAATTTAATA
1 ATTATAATTAAATA
16742982 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:16743031 original size:61 final size:61
Alignment explanation
Indices: 16742966--16743153 Score: 172
Period size: 61 Copynumber: 3.1 Consensus size: 61
16742956 TTATAATTAA
* *
16742966 AATATATAATTTAATAAAATTCTTAATAATCAATATTTTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTAAAATCAT
* * * * * * ** * *
16743027 AATATATGATACT-ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA--TAATCAAT-ATTATTATATGAATTTACTAAAATCAT
* *
16743086 AAAATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTAAAATCAT
16743147 AATATAT
1 AATATAT
16743154 GATACTATAA
Statistics
Matches: 93, Mismatches: 24, Indels: 20
0.68 0.18 0.15
Matches are distributed among these distances:
58 1 0.01
59 33 0.35
60 18 0.19
61 40 0.43
62 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTATTATATGAATTTACTAAAATCAT
Found at i:16743104 original size:16 final size:18
Alignment explanation
Indices: 16743069--16743104 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16743059 AATTATTATT
*
16743069 AAATATATTTTAATTAAA
1 AAATATAATTTAATTAAA
16743087 AAATATAATTTAA-TAAA
1 AAATATAATTTAATTAAA
16743104 A
1 A
16743105 TTCTTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATATAATTTAATTAAA
Found at i:16743225 original size:59 final size:58
Alignment explanation
Indices: 16743027--16743215 Score: 163
Period size: 66 Copynumber: 3.2 Consensus size: 58
16743017 CTCAAATCAT
*
16743027 AATATATGATACTATAAAATATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTAA-ATAATTAATATTAAATATATTTTAATTAA
** * * * ** *
16743086 AA-A-AT-ATA--ATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCA
1 AATATATGATACTATAAAATATAATT-TAAATAATTAATATT-AAATAT--ATTT--T--AATTA
*
16743146 T
58 A
16743147 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTAATATTAAATATATTTTAATTAA
16743206 AATATATGAT
1 AATATATGAT
16743216 TTAATAAAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 28
0.67 0.13 0.19
Matches are distributed among these distances:
54 20 0.21
55 6 0.06
56 3 0.03
57 6 0.06
58 1 0.01
59 17 0.18
61 7 0.07
62 1 0.01
63 6 0.06
64 3 0.03
65 5 0.05
66 22 0.23
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTAATATTAAATATATTTTAATTAA
Found at i:16743235 original size:120 final size:120
Alignment explanation
Indices: 16742931--16743226 Score: 522
Period size: 120 Copynumber: 2.5 Consensus size: 120
16742921 TTAATCATAT
*
16742931 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
16742996 CAATATTTTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
16743051 TTTAACATAATTATTATTAAATATATTTTAATTAAAAAATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
16743116 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
16743171 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
16743227 TAAAATAATT
Statistics
Matches: 168, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 166 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:16743277 original size:47 final size:46
Alignment explanation
Indices: 16743208--16743557 Score: 232
Period size: 47 Copynumber: 7.7 Consensus size: 46
16743198 TTAATTAAAA
*
16743208 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
16743255 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* ** * * *
16743300 TA-ATAAAAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
16743346 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
16743391 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
* *
16743437 TATATGAATTTATATAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
16743482 TA-AT-AATGATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
16743528 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
16743558 ATATTAAATA
Statistics
Matches: 234, Mismatches: 37, Indels: 65
0.70 0.11 0.19
Matches are distributed among these distances:
43 6 0.03
44 70 0.30
45 27 0.12
46 26 0.11
47 95 0.41
48 10 0.04
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:16743337 original size:91 final size:91
Alignment explanation
Indices: 16743242--16743630 Score: 733
Period size: 91 Copynumber: 4.3 Consensus size: 91
16743232 TAATTATAAC
* * *
16743242 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAA
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
16743307 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
16743333 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
16743398 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
16743424 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
16743489 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
16743515 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
16743580 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
16743606 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
16743631 CTAAAATCAT
Statistics
Matches: 293, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 293 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:16743613 original size:47 final size:46
Alignment explanation
Indices: 16743289--16743613 Score: 257
Period size: 47 Copynumber: 7.1 Consensus size: 46
16743279 TAATTATTAT
*
16743289 TAAATATAATTTAATAAAAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAAT-AATATATATAATTTCATAAAATTCTTGATAA
* * ** * *
16743336 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTGATAA
16743380 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTGATAA
* * ** * *
16743427 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTGATAA
16743471 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTGATAA
* * ** * *
16743518 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTGATAA
16743562 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTGATAA
16743609 TAAAT
1 TAAAT
16743614 GTTCTTATAT
Statistics
Matches: 214, Mismatches: 38, Indels: 52
0.70 0.12 0.17
Matches are distributed among these distances:
43 9 0.04
44 75 0.35
45 21 0.10
46 21 0.10
47 82 0.38
48 6 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTGATAA
Found at i:16746699 original size:6 final size:6
Alignment explanation
Indices: 16746688--16746713 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
16746678 TAGTTTGAAC
16746688 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
16746714 ATAATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:16747499 original size:13 final size:13
Alignment explanation
Indices: 16747481--16747505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16747471 ATCAAATTTG
16747481 TATGTACTCTTTA
1 TATGTACTCTTTA
16747494 TATGTACTCTTT
1 TATGTACTCTTT
16747506 CACTAATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:16747525 original size:51 final size:51
Alignment explanation
Indices: 16747470--16747574 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 51
16747460 TATATATTAG
** * *
16747470 TATCAAATTTGTATGTACTCTTTATATGTACTCTTTCACTAATAAGTTATA
1 TATCAAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAAATTATA
* * *
16747521 TATCAAATTTGTATCAATTTTTTTTATGTACGCTTTCACTAATAAATTATA
1 TATCAAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAAATTATA
16747572 TAT
1 TAT
16747575 TAGTAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (51 bp):
TATCAAATTTGTATCAACTCTTTATATGTACGCTTTCACTAATAAATTATA
Found at i:16748214 original size:23 final size:24
Alignment explanation
Indices: 16748154--16748216 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
16748144 TCTACTCACT
16748154 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
16748178 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
16748200 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
16748217 ATAAAACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:16759160 original size:29 final size:28
Alignment explanation
Indices: 16759128--16759197 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
16759118 AAAAAATTTT
16759128 AAATTTAAAAATATAAAAAGAGTATATAA
1 AAATTTAAAAATATAAAAA-AGTATATAA
* * **
16759157 AAATTATGAAAATTTCGAAAAGTATATAA
1 AAATT-TAAAAATATAAAAAAGTATATAA
*
16759186 AAATCTAAAAAT
1 AAATTTAAAAAT
16759198 TCATTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
28 6 0.18
29 18 0.53
30 10 0.29
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (28 bp):
AAATTTAAAAATATAAAAAAGTATATAA
Found at i:16759702 original size:36 final size:34
Alignment explanation
Indices: 16759662--16759728 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
16759652 ATTTAATTTT
*
16759662 TTTTAAATAATCTATTTTATTATAAAATTTTAATGA
1 TTTTAAACAATCT-TTTT-TTATAAAATTTTAATGA
* * *
16759698 TTTTATACAATCTTTTTTTTTCAAATTTTAA
1 TTTTAAACAATCTTTTTTTATAAAATTTTAA
16759729 ATAATTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 12 0.44
35 4 0.15
36 11 0.41
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (34 bp):
TTTTAAACAATCTTTTTTTATAAAATTTTAATGA
Found at i:16759772 original size:19 final size:20
Alignment explanation
Indices: 16759733--16759775 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16759723 TTTTAAATAA
16759733 TTTATAATTTTTTTATAAAT
1 TTTATAATTTTTTTATAAAT
* *
16759753 TTTATGATTTTTTTGT-AAT
1 TTTATAATTTTTTTATAAAT
16759772 TTTA
1 TTTA
16759776 AGTGTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTATAATTTTTTTATAAAT
Found at i:16777108 original size:23 final size:22
Alignment explanation
Indices: 16777080--16777125 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
16777070 TTATAATAAA
16777080 ATACATGTGTAATAAATATATAT
1 ATACATGTGTAAT-AATATATAT
* *
16777103 ATACATTTGTAATAATATGTAT
1 ATACATGTGTAATAATATATAT
16777125 A
1 A
16777126 ATTTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (22 bp):
ATACATGTGTAATAATATATAT
Found at i:16778578 original size:25 final size:27
Alignment explanation
Indices: 16778550--16778608 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
16778540 GTATATAAAT
16778550 TGAAATGAACT-ATTGGAA-TGAGAT-G
1 TGAAAT-AACTCATTGGAATTGAGATAG
*
16778575 TGAAA-AATTCATTGGAATTGAGATAG
1 TGAAATAACTCATTGGAATTGAGATAG
16778601 TGAAATAA
1 TGAAATAA
16778609 GGTATGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 3 0.10
24 7 0.24
25 11 0.38
26 6 0.21
27 2 0.07
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (27 bp):
TGAAATAACTCATTGGAATTGAGATAG
Found at i:16783518 original size:18 final size:17
Alignment explanation
Indices: 16783495--16783529 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16783485 ACGAATATTG
16783495 AAGAAATAGAAAAGAAAA
1 AAGAAATAGAAAA-AAAA
*
16783513 AAGAAATCGAAAAAAAA
1 AAGAAATAGAAAAAAAA
16783530 TTGAGATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (17 bp):
AAGAAATAGAAAAAAAA
Found at i:16784434 original size:44 final size:44
Alignment explanation
Indices: 16784385--16784577 Score: 187
Period size: 44 Copynumber: 4.5 Consensus size: 44
16784375 GTTCCACTGT
* * *
16784385 AACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTAC
1 AACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTAC
* * * * * * *
16784429 AACTTCAGAGAGATAAGATT--TGTCAT-GATATGCTCTACTGC
1 AACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTAC
* * *
16784470 AACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGCTCCACTAC
1 AACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTAC
* * * **
16784514 AACTTTAGGGAGATAAGATTTGTGGCTTCAATCAGCT-AATCTGT
1 AACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAA-CTAC
16784558 AACTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATT
16784578 TGCCATGATC
Statistics
Matches: 121, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
41 31 0.26
42 3 0.02
43 5 0.04
44 82 0.68
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTGGTGGCTTCAATCTGCTCAACTAC
Found at i:16784490 original size:85 final size:85
Alignment explanation
Indices: 16784380--16784536 Score: 242
Period size: 85 Copynumber: 1.8 Consensus size: 85
16784370 AATTCGTTCC
* * * *
16784380 ACTGTAACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTACAACTTCAGAGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
16784445 GATTTGTCATGATATGCTCT
66 GATTTGTCATGATATGCTCT
* * * *
16784465 ACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGCTCCACTACAACTTTAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
16784530 GATTTGT
66 GATTTGT
16784537 GGCTTCAATC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (85 bp):
ACTGCAACTTCAGAGAGATAAGATTGGTCGCTTCAATCTGCTCCACTACAACTTCAGAGAGATAA
GATTTGTCATGATATGCTCT
Found at i:16784565 original size:129 final size:129
Alignment explanation
Indices: 16784385--16784617 Score: 333
Period size: 129 Copynumber: 1.8 Consensus size: 129
16784375 GTTCCACTGT
* * *
16784385 AACTTCAGGGAGATAGGATTGGTCGCTTCAATCTGCTCGACTACAACTTCAGAGAGATAAGATTT
1 AACTTCAGGGAGATAAGATTGGTCGCTTCAATCAGCTCAACTACAACTTCAGAGAGATAAGATTT
*
16784450 GTCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGCTCCACTAC
66 GCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGCTCCACTAC
* * * ** *
16784514 AACTTTAGGGAGATAAGATTTGTGGCTTCAATCAGCT-AATCTGTAACTTCAGGGAGATAAGATT
1 AACTTCAGGGAGATAAGATTGGTCGCTTCAATCAGCTCAA-CTACAACTTCAGAGAGATAAGATT
* * *
16784578 TGCCATGATCTGTTCTACTGCAACTTTAGAGAGATAAGAT
65 TGCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGAT
16784618 CTGTTATTTG
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 1 0.01
129 89 0.99
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (129 bp):
AACTTCAGGGAGATAAGATTGGTCGCTTCAATCAGCTCAACTACAACTTCAGAGAGATAAGATTT
GCCATGATATGCTCTACTGCAACTTCAGAGAGATAAGATTGGTGGCTTCAATTTGCTCCACTAC
Found at i:16793344 original size:19 final size:18
Alignment explanation
Indices: 16793297--16793344 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
16793287 ATTACTCTTT
* *
16793297 TGATGGAATTTAATACATA
1 TGAT-GAATGTAATACAAA
16793316 TGATGTAATGTAATACAAA
1 TGATG-AATGTAATACAAA
16793335 TGCATGAATG
1 TG-ATGAATG
16793345 CAAAAAGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.84
20 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (18 bp):
TGATGAATGTAATACAAA
Found at i:16799255 original size:23 final size:23
Alignment explanation
Indices: 16799220--16799270 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
16799210 ACCTACTTTC
*
16799220 TTACTGTAATAATTTTCGGTG-TA
1 TTACAGTAATAATTTTCGG-GATA
*
16799243 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAATAATTTTCGGGATA
16799266 TTACA
1 TTACA
16799271 ATGATATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (23 bp):
TTACAGTAATAATTTTCGGGATA
Found at i:16802278 original size:29 final size:30
Alignment explanation
Indices: 16802244--16802312 Score: 115
Period size: 28 Copynumber: 2.4 Consensus size: 30
16802234 ATATGCATTT
16802244 AATAATTTTAATAATTTTATATTTC-AAAA
1 AATAATTTTAATAATTTTATATTTCAAAAA
*
16802273 AATAA-TATAATAATTTTATATTTCAAAAA
1 AATAATTTTAATAATTTTATATTTCAAAAA
16802302 AATAATTTTAA
1 AATAATTTTAA
16802313 AATCATTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 18 0.50
29 14 0.39
30 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (30 bp):
AATAATTTTAATAATTTTATATTTCAAAAA
Found at i:16806997 original size:20 final size:21
Alignment explanation
Indices: 16806972--16807017 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
16806962 AGATTGATGG
*
16806972 TTAAATTTAACTAAAA-AAAT
1 TTAAATTTAACAAAAAGAAAT
16806992 TTAAA-TTAACAAAAAGAAAT
1 TTAAATTTAACAAAAAGAAAT
*
16807012 ATAAAT
1 TTAAAT
16807018 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.30
Consensus pattern (21 bp):
TTAAATTTAACAAAAAGAAAT
Found at i:16807659 original size:22 final size:22
Alignment explanation
Indices: 16807625--16807666 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16807615 ATATTATTGT
**
16807625 TTTGAAATTAAAATATATAATA
1 TTTGAAAAAAAAATATATAATA
*
16807647 TTTGAAAAAAAAATTTATAA
1 TTTGAAAAAAAAATATATAA
16807667 AAATTATAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (22 bp):
TTTGAAAAAAAAATATATAATA
Found at i:16809326 original size:15 final size:14
Alignment explanation
Indices: 16809295--16809341 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
16809285 ATATTTTTCT
* *
16809295 TTATTTTTATTTTC
1 TTATTTTTATATAC
16809309 TTAGTTTTTATATAC
1 TTA-TTTTTATATAC
*
16809324 TTA-TTATATATAC
1 TTATTTTTATATAC
16809337 TTATT
1 TTATT
16809342 CATTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 12 0.43
14 4 0.14
15 12 0.43
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTTTTATATAC
Found at i:16809544 original size:12 final size:12
Alignment explanation
Indices: 16809529--16809557 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16809519 CATGCATACC
16809529 TACATATTTTAA
1 TACATATTTTAA
16809541 TACATATTTTAA
1 TACATATTTTAA
16809553 TACAT
1 TACAT
16809558 TCATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
TACATATTTTAA
Found at i:16814270 original size:47 final size:46
Alignment explanation
Indices: 16814212--16814301 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 46
16814202 AAAAAGGTGG
* * * *
16814212 GACCAAGGTGAAAGCCTATAAAGGGCGCTTTGAGTCAAAAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGT-AAAAAAAAAAA
*
16814259 GACCAGGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAA
16814302 TGGAGAGGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
46 8 0.21
47 30 0.79
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (46 bp):
GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAAAA
Found at i:16817961 original size:19 final size:18
Alignment explanation
Indices: 16817920--16817962 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
16817910 CGTCTCTTTT
16817920 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
16817939 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
16817958 TGCAT
1 TGCAT
16817963 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:16819812 original size:9 final size:9
Alignment explanation
Indices: 16819799--16819854 Score: 96
Period size: 9 Copynumber: 6.3 Consensus size: 9
16819789 CATGAGTTCA
*
16819799 AAAAAAATA
1 AAAAAAATC
16819808 AAAAAAATC
1 AAAAAAATC
16819817 AAAAAAATC
1 AAAAAAATC
16819826 AAAAAAATC
1 AAAAAAATC
16819835 -AAAAAATC
1 AAAAAAATC
16819843 AAAAAAATC
1 AAAAAAATC
16819852 AAA
1 AAA
16819855 GTCAAAATAG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
8 8 0.18
9 37 0.82
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:16819820 original size:17 final size:17
Alignment explanation
Indices: 16819800--16819854 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
16819790 ATGAGTTCAA
*
16819800 AAAAAATAAAAAAAATC
1 AAAAAATCAAAAAAATC
16819817 AAAAAAATCAAAAAAATC
1 -AAAAAATCAAAAAAATC
16819835 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
16819852 AAA
1 AAA
16819855 GTCAAAATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 20 0.56
18 16 0.44
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:16819829 original size:26 final size:26
Alignment explanation
Indices: 16819799--16819854 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 26
16819789 CATGAGTTCA
16819799 AAAAAAATAAAAAAAATCAAAAAAATC
1 AAAAAAAT-AAAAAAATCAAAAAAATC
*
16819826 AAAAAAATCAAAAAATCAAAAAAATC
1 AAAAAAATAAAAAAATCAAAAAAATC
16819852 AAA
1 AAA
16819855 GTCAAAATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (26 bp):
AAAAAAATAAAAAAATCAAAAAAATC
Found at i:16820840 original size:21 final size:21
Alignment explanation
Indices: 16820814--16820860 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
16820804 GCTCAAATGT
16820814 TGATCAGAATAGGGCATGAAG
1 TGATCAGAATAGGGCATGAAG
* * *
16820835 TGATCAGATTGGGGCATGATG
1 TGATCAGAATAGGGCATGAAG
16820856 TGATC
1 TGATC
16820861 TTGCTATACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.11, G:0.34, T:0.26
Consensus pattern (21 bp):
TGATCAGAATAGGGCATGAAG
Found at i:16821984 original size:46 final size:46
Alignment explanation
Indices: 16821912--16822679 Score: 1241
Period size: 46 Copynumber: 16.7 Consensus size: 46
16821902 TATCAATGAG
*
16821912 GATAGTAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16821958 GATAGCAGATCTTATCTTCCTTTATTTGGCAGCGGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16822004 GATAGCGGATCTTATCTTTCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16822050 GATAGCGGATCTTATCTTCTTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
16822096 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
16822142 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
16822188 GATAGCGGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
16822234 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
16822280 GATAGCAGATCTTATCTTCTTGTATGTGGCAGTGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
16822326 GATAGTC-GATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
1 GATAG-CAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16822372 GATACCAGATCTTATCTTCCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
16822418 GATAGTAGATCTTATCTTCTTGTATTTGGCAGCAGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * * * *
16822464 GATAGTAGATCTTGTCTTCCTGTATTTGGCAGTGAAGAAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
*
16822510 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAAGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16822556 GATAGCAGATATTATCTTCCTGTATTTAGCAGCGGAGGAGATCGAA
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* * *
16822602 GATAGCAGGTCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
* *
16822648 GATAGCAGATCTTGTCTTCCTGTAATTGGCAG
1 GATAGCAGATCTTATCTTCCTGTATTTGGCAG
16822680 TAGAGGGATT
Statistics
Matches: 670, Mismatches: 50, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 668 1.00
47 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (46 bp):
GATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATCGAA
Found at i:16822850 original size:132 final size:132
Alignment explanation
Indices: 16822690--16823658 Score: 1661
Period size: 132 Copynumber: 7.3 Consensus size: 132
16822680 TAGAGGGATT
* *
16822690 GAAGATTACAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16822755 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
*
16822820 TT
131 TC
* * *
16822822 AAAGATTGCAGATTCTGTTACCCTAATCAGCAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
* *
16822887 CCCAATACAGTGGAGAAGTAAATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
*
16822952 TT
131 TC
*
16822954 GAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
* * *
16823019 CCCAATATAGTGGGGAAGCAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
*
16823084 TT
131 TC
16823086 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16823151 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16823216 TC
131 TC
16823218 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16823283 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTA-TCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16823347 TC
131 TC
* *
16823349 GAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
*
16823414 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAATAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16823479 TC
131 TC
* * * * * *
16823481 GAAGATTGCAGATTTTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTATCTT
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
* * *
16823546 CCTAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACTCTAAGCAGTAGTGGAATAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16823611 TC
131 TC
* * * *
16823613 GAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
1 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAA
16823659 CAATAACGAA
Statistics
Matches: 801, Mismatches: 35, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
131 129 0.16
132 672 0.84
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
TC
Found at i:16823561 original size:395 final size:396
Alignment explanation
Indices: 16822690--16823658 Score: 1661
Period size: 395 Copynumber: 2.4 Consensus size: 396
16822680 TAGAGGGATT
*
16822690 GAAGATTACAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16822755 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
** * *
16822820 TTAAAGATTGCAGATTCTGTTACCCTAATCAGCAGTGGAGCAGATCAAAGATGGTGAATCTTATC
131 TCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
*
16822885 TTCCCAATACAGTGGAGAAGTAAATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
196 TTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
* * *
16822950 GGTTGAAGATTGTAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
261 GGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
* * * *
16823015 TCTTCCCAATATAGTGGGGAAGCAGATTTAGGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAG
326 TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAA
*
16823080 TAGGTT
391 TAGGTC
*
16823086 GAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
1 GAAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
16823151 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
16823216 TCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
131 TCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
*
16823281 TTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA-TCCTATCACCCTAAGCAGTAGTGGAGTA
196 TTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
*
16823345 GGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTA
261 GGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
16823410 TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAA
326 TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAA
16823475 TAGGTC
391 TAGGTC
* * * * * *
16823481 GAAGATTGCAGATTTTGTCACCCTAAGCAGTAGTGGAGCAGATCGAATATGGTAAATATTATCTT
1 GAAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
* * *
16823546 CCTAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACTCTAAGCAGTAGTGGAATAGG
66 CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
* * * *
16823611 TCGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTAGAGCAAATCAA
131 TCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAA
16823659 CAATAACGAA
Statistics
Matches: 543, Mismatches: 30, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
395 320 0.59
396 223 0.41
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (396 bp):
GAAGATTGCAGATTATGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTT
CCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGG
TCGAAGATTGCAGATTCTGTCACCCTAATCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTATC
TTCCCAATACAGTGGAGAAGCAAATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTA
GGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATCTTA
TCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCCTATCACCCTAAGCAGTAGTGGAA
TAGGTC
Found at i:16824122 original size:19 final size:20
Alignment explanation
Indices: 16824098--16824135 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
16824088 CGCTTTAGCA
16824098 GCCACCAGCTC-CTGCCACC
1 GCCACCAGCTCTCTGCCACC
*
16824117 GCCACCTGCTCTCTGCCAC
1 GCCACCAGCTCTCTGCCAC
16824136 TGTCGTCGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.55, G:0.16, T:0.16
Consensus pattern (20 bp):
GCCACCAGCTCTCTGCCACC
Found at i:16825166 original size:3 final size:3
Alignment explanation
Indices: 16825158--16825188 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
16825148 ATTTTTTAGC
*
16825158 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
16825189 GTATATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:16829972 original size:14 final size:14
Alignment explanation
Indices: 16829953--16829980 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16829943 AAACTGCAAA
16829953 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
16829967 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
16829981 TAAGCAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:16834531 original size:18 final size:18
Alignment explanation
Indices: 16834505--16834541 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16834495 GCTTTCATTT
*
16834505 TTTTTATAACATTTTATA
1 TTTTAATAACATTTTATA
*
16834523 TTTTAATAATATTTTATA
1 TTTTAATAACATTTTATA
16834541 T
1 T
16834542 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATAACATTTTATA
Found at i:16846738 original size:43 final size:43
Alignment explanation
Indices: 16846677--16846790 Score: 176
Period size: 43 Copynumber: 2.7 Consensus size: 43
16846667 AACGTTTGCA
* *
16846677 GCGTTTTTTATGTGAGCGCTGCTAAAGAACATGTTCTTTAGCG
1 GCGTTTTTTATGTAAGCGCCGCTAAAGAACATGTTCTTTAGCG
*
16846720 GCGTTTTTTATGTAAGCGCCGCTAAAGAACATGTTCTTTAGTG
1 GCGTTTTTTATGTAAGCGCCGCTAAAGAACATGTTCTTTAGCG
* *
16846763 GCATTTTTT-TCTAAGCGCCGCTAAAGAA
1 GCGTTTTTTATGTAAGCGCCGCTAAAGAA
16846791 GCCGCTAGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 18 0.27
43 48 0.73
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (43 bp):
GCGTTTTTTATGTAAGCGCCGCTAAAGAACATGTTCTTTAGCG
Done.