Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 140 of 163
Found at i:37923309 original size:42 final size:43
Alignment explanation
Indices: 37923250--37923359 Score: 161
Period size: 42 Copynumber: 2.6 Consensus size: 43
37923240 ATCTGTTATA
*
37923250 TTAGCGGCACTTGTGGAGAAAGCGCCGCTAAAAAACAT-GCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAAAACATGGCCT
* * *
37923292 TTAGCAGCGCTTGTGGAGAAAGCGCCGTTAAAGAACATGGCCT
1 TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAAAACATGGCCT
37923335 TTAGCGGCGCTTGTGG-GAAAAGCGC
1 TTAGCGGCGCTTGTGGAG-AAAGCGC
37923360 TAAAGGCCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
42 35 0.57
43 26 0.43
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (43 bp):
TTAGCGGCGCTTGTGGAGAAAGCGCCGCTAAAAAACATGGCCT
Found at i:37927886 original size:21 final size:20
Alignment explanation
Indices: 37927860--37927912 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
37927850 TAAGGGTGTT
37927860 AAAGAAGAAGAGAAAAGAGAA
1 AAAGAAGAAGAGAAAA-AGAA
*
37927881 AAAGAAGTGAAG-GAAAAAGGA
1 AAAGAA--GAAGAGAAAAAGAA
37927902 AAAGAAGAAGA
1 AAAGAAGAAGA
37927913 AGTTATTCCG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 4 0.14
21 15 0.54
22 5 0.18
23 4 0.14
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (20 bp):
AAAGAAGAAGAGAAAAAGAA
Found at i:37931944 original size:24 final size:24
Alignment explanation
Indices: 37931908--37931953 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
37931898 ATTAAAATAT
*
37931908 TTCGATCTAAAAT-TCGATTCGAAA
1 TTCGATATAAAATCT-GATTCGAAA
*
37931932 TTCGATATGAAATCTGATTCGA
1 TTCGATATAAAATCTGATTCGA
37931954 GAATCTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (24 bp):
TTCGATATAAAATCTGATTCGAAA
Found at i:37934466 original size:22 final size:22
Alignment explanation
Indices: 37934441--37934483 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
37934431 TATACAAATA
37934441 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* * *
37934463 ATAATAGTGAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
37934484 AACAATAGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.16, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:37934490 original size:22 final size:22
Alignment explanation
Indices: 37934450--37934508 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
37934440 AATAATAATA
* *
37934450 AAATAGTAGCAACATAATAGTG
1 AAATAGTAGCAAAACAATAGTG
* *
37934472 AAATGGTAGCAAAACAATAG-A
1 AAATAGTAGCAAAACAATAGTG
* *
37934493 AAACAATAGCAAAACA
1 AAATAGTAGCAAAACA
37934509 TTAGATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (22 bp):
AAATAGTAGCAAAACAATAGTG
Found at i:37934508 original size:11 final size:11
Alignment explanation
Indices: 37934478--37934508 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
37934468 AGTGAAATGG
37934478 TAGCAAAACAA
1 TAGCAAAACAA
37934489 TAG-AAAACAA
1 TAGCAAAACAA
37934499 TAGCAAAACA
1 TAGCAAAACA
37934509 TTAGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.65, C:0.16, G:0.10, T:0.10
Consensus pattern (11 bp):
TAGCAAAACAA
Found at i:37935345 original size:27 final size:26
Alignment explanation
Indices: 37935298--37935357 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
37935288 AGATACATGA
** *
37935298 TTTTTT-TAAAATTTCTAATTTTAAT
1 TTTTTTATAAAATTTAAAATTTTAAG
*
37935323 TTTTTTATAAAATTTAAATATTTTTAG
1 TTTTTTATAAAATTTAAA-ATTTTAAG
37935350 TTTTTTAT
1 TTTTTTAT
37935358 CGATCCCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 6 0.21
26 9 0.31
27 14 0.48
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTTTATAAAATTTAAAATTTTAAG
Found at i:37941846 original size:24 final size:24
Alignment explanation
Indices: 37941815--37941868 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
37941805 TAGGTACGGC
37941815 GGTGGTG-TTCGATAATGGGGTATT
1 GGTGGTGTTTC-ATAATGGGGTATT
*
37941839 GGTGGTGTTTCATAATGGGGTGTT
1 GGTGGTGTTTCATAATGGGGTATT
*
37941863 AGTGGT
1 GGTGGT
37941869 TTGATGGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.15, C:0.04, G:0.43, T:0.39
Consensus pattern (24 bp):
GGTGGTGTTTCATAATGGGGTATT
Found at i:37951108 original size:2 final size:2
Alignment explanation
Indices: 37951101--37951131 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
37951091 ACAAAATTCA
37951101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37951132 AAGTTTTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37951200 original size:28 final size:29
Alignment explanation
Indices: 37951160--37951216 Score: 73
Period size: 27 Copynumber: 2.0 Consensus size: 29
37951150 AATTTAGATA
*
37951160 TATTTTTTCAATTT-TATATA-ATATTTT
1 TATTTTTTAAATTTATATATATATATTTT
*
37951187 TATTTTTTGAAATTTATATTTATATATTTT
1 TATTTTTT-AAATTTATATATATATATTTT
37951217 AGAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.32
28 5 0.20
29 5 0.20
30 7 0.28
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (29 bp):
TATTTTTTAAATTTATATATATATATTTT
Found at i:37951205 original size:22 final size:23
Alignment explanation
Indices: 37951180--37951227 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
37951170 ATTTTATATA
* *
37951180 ATATTTTTAT-TTTTTGAAATTT
1 ATATTTATATATTTTAGAAATTT
*
37951202 ATATTTATATATTTTAGAATTTT
1 ATATTTATATATTTTAGAAATTT
37951225 ATA
1 ATA
37951228 AAAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
ATATTTATATATTTTAGAAATTT
Found at i:37951880 original size:22 final size:19
Alignment explanation
Indices: 37951834--37951880 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 19
37951824 TGTAAATTTT
37951834 AAAAA-ATTTAAAAACAGA
1 AAAAATATTTAAAAACAGA
37951852 AATAAATATATTAAAAATTCAGA
1 AA-AAATAT-TTAAAAA--CAGA
37951875 AAAAAT
1 AAAAAT
37951881 TATACATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 2 0.08
21 7 0.29
22 4 0.17
23 6 0.25
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAAATATTTAAAAACAGA
Found at i:37955553 original size:25 final size:25
Alignment explanation
Indices: 37955499--37955551 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
37955489 GTACTTTTTG
* **
37955499 TTTTATTTTTAGTTTTTTATGATAT
1 TTTTATTTTTAGTTTCTTAAAATAT
37955524 TTTTATTTTTA-TTTCTTAAAATAT
1 TTTTATTTTTAGTTTCTTAAAATAT
37955548 TTTT
1 TTTT
37955552 TAATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTATTTTTAGTTTCTTAAAATAT
Found at i:37955560 original size:18 final size:19
Alignment explanation
Indices: 37955529--37955566 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
37955519 GATATTTTTA
*
37955529 TTTTTATTTCTTAAAATAT
1 TTTTTAATTCTTAAAATAT
*
37955548 TTTTTAATT-TTAAATTAT
1 TTTTTAATTCTTAAAATAT
37955566 T
1 T
37955567 AATTGACGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTAATTCTTAAAATAT
Found at i:37961419 original size:23 final size:23
Alignment explanation
Indices: 37961388--37961434 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
37961378 CTACCGATAC
*
37961388 AAGTGCATAGAAGTATCAGTAGA
1 AAGTACATAGAAGTATCAGTAGA
37961411 AAGTACATAGAAGTATCAGTAGA
1 AAGTACATAGAAGTATCAGTAGA
37961434 A
1 A
37961435 CCAAGTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (23 bp):
AAGTACATAGAAGTATCAGTAGA
Found at i:37970425 original size:13 final size:14
Alignment explanation
Indices: 37970396--37970427 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
37970386 TGATAAGATA
37970396 TTGTAAAATTAATT
1 TTGTAAAATTAATT
37970410 TTGTAAAATT-ATT
1 TTGTAAAATTAATT
37970423 TTGTA
1 TTGTA
37970428 TGCTCTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TTGTAAAATTAATT
Found at i:37970738 original size:34 final size:34
Alignment explanation
Indices: 37970685--37970786 Score: 141
Period size: 34 Copynumber: 3.0 Consensus size: 34
37970675 AGAATATGAA
* *
37970685 AAGTTAAGGAAGATAGAAGGTTAAAGATCAAGGG
1 AAGTTAAGGAAGATGGAAGGTTAAAGATCAAAGG
* * *
37970719 AGGTTAAGGTAGATGGAAGGTTAAAGGTCAAAGG
1 AAGTTAAGGAAGATGGAAGGTTAAAGATCAAAGG
*
37970753 AAGTTAAGGAAGATGGAAGGTTAAAAGATGAAAG
1 AAGTTAAGGAAGATGGAAGGTT-AAAGATCAAAG
37970787 ATTGAACATC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
34 49 0.84
35 9 0.16
ACGTcount: A:0.45, C:0.02, G:0.34, T:0.19
Consensus pattern (34 bp):
AAGTTAAGGAAGATGGAAGGTTAAAGATCAAAGG
Found at i:37970739 original size:17 final size:17
Alignment explanation
Indices: 37970719--37970776 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
37970709 AGATCAAGGG
37970719 AGGTTAAGGTAGATGGA
1 AGGTTAAGGTAGATGGA
*
37970736 AGGTTAAAGGTCA-AAGGA
1 AGGTT-AAGGT-AGATGGA
*
37970754 A-GTTAAGGAAGATGGA
1 AGGTTAAGGTAGATGGA
37970770 AGGTTAA
1 AGGTTAA
37970777 AAGATGAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
15 1 0.03
16 9 0.26
17 13 0.38
18 10 0.29
19 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.36, T:0.21
Consensus pattern (17 bp):
AGGTTAAGGTAGATGGA
Found at i:37974546 original size:11 final size:9
Alignment explanation
Indices: 37974509--37974549 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
37974499 AATGTCACAT
*
37974509 AAATTTTTA
1 AAATATTTA
37974518 AAATATTTA
1 AAATATTTA
37974527 AAATATTTA
1 AAATATTTA
37974536 TAAATAGTTTA
1 -AAATA-TTTA
37974547 AAA
1 AAA
37974550 CATAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 17 0.59
10 8 0.28
11 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
AAATATTTA
Found at i:37976224 original size:34 final size:34
Alignment explanation
Indices: 37976177--37976270 Score: 125
Period size: 34 Copynumber: 2.8 Consensus size: 34
37976167 AAGAATATGA
*
37976177 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAGG
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
* * * * * *
37976211 GAGGTTAAAGAAGATGGAAGGTTAAAGGTTAAAT
1 AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
37976245 AAAGTTAAGGAAGATGGAAGGTTAAA
1 AAAGTTAAGGAAGATGGAAGGTTAAA
37976271 AAATGAAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.47, C:0.01, G:0.32, T:0.20
Consensus pattern (34 bp):
AAAGTTAAGGAAGATGGAAGGTTAAAGATCAAAG
Found at i:37976232 original size:17 final size:17
Alignment explanation
Indices: 37976180--37976282 Score: 72
Period size: 17 Copynumber: 6.2 Consensus size: 17
37976170 AATATGAAAA
*
37976180 GTTAAGGAAGATGGAAG
1 GTTAAAGAAGATGGAAG
** * *
37976197 GTTAAAGATCAAGGGAG
1 GTTAAAGAAGATGGAAG
37976214 GTTAAAGAAGATGGAAG
1 GTTAAAGAAGATGGAAG
*
37976231 GTTAAAGGTTAA-AT--AAA
1 GTTAAA-G--AAGATGGAAG
*
37976248 GTTAAGGAAGATGGAAG
1 GTTAAAGAAGATGGAAG
*
37976265 GTTAAA-AA-ATGAAAG
1 GTTAAAGAAGATGGAAG
37976280 GTT
1 GTT
37976283 GAACATCCAT
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
14 2 0.03
15 11 0.17
16 3 0.05
17 45 0.68
18 1 0.02
19 2 0.03
20 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.32, T:0.21
Consensus pattern (17 bp):
GTTAAAGAAGATGGAAG
Found at i:37977311 original size:87 final size:86
Alignment explanation
Indices: 37977161--37977426 Score: 284
Period size: 87 Copynumber: 3.1 Consensus size: 86
37977151 GCCCCTGGTC
* * * * *
37977161 TTTTTAATGCATTTTGACAGATCAAGTACCCAATTGAGTGAAAAAAAATAGGGGCTTACTTGTTT
1 TTTTTAATGCATTTTAACAGTTCAAGTACCTAATTGAGTGAAAAAAAATAGGAGCTTAATTGTTT
37977226 TTTTAAAAAAAATTTGAGAGAT
66 TTTT-AAAAAAATTTGAGAGAT
* * * *
37977248 TTTTTTATGCATTTTAACAGTTTAAGTGCCTAATTGAGTGAAAAAAAATATGAGCTTAATTGTTT
1 TTTTTAATGCATTTTAACAGTTCAAGTACCTAATTGAGTGAAAAAAAATAGGAGCTTAATTG-TT
* * * * **
37977313 TTTTTGAAAAAGTTTAAGGGCC
65 TTTTTAAAAAAATTTGAGAGAT
* * * * * *
37977335 TTTTTGATGTATTTTAAAAGTTCAAGTACCTAATTGAGTATAAAAAAAAACAGGAACTTAATT-T
1 TTTTTAATGCATTTTAACAGTTCAAGTACCTAATTGAG--TGAAAAAAAATAGGAGCTTAATTGT
*
37977399 TTTTTTAAAAAATTTTGA-AGAT
64 TTTTTTAAAAAAATTTGAGAGAT
37977421 TTTTTA
1 TTTTTA
37977427 CACCATTAAA
Statistics
Matches: 145, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
86 6 0.04
87 113 0.78
88 7 0.05
89 19 0.13
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (86 bp):
TTTTTAATGCATTTTAACAGTTCAAGTACCTAATTGAGTGAAAAAAAATAGGAGCTTAATTGTTT
TTTTAAAAAAATTTGAGAGAT
Found at i:37989789 original size:24 final size:24
Alignment explanation
Indices: 37989759--37989808 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
37989749 TAATAAGATT
37989759 AAAATTTTGA-AATTAATAATTTTC
1 AAAA-TTTGAGAATTAATAATTTTC
* *
37989783 AAAATTTGAGATTTTATAATTTTC
1 AAAATTTGAGAATTAATAATTTTC
37989807 AA
1 AA
37989809 GCAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (24 bp):
AAAATTTGAGAATTAATAATTTTC
Found at i:37993378 original size:89 final size:89
Alignment explanation
Indices: 37993266--37993433 Score: 318
Period size: 89 Copynumber: 1.9 Consensus size: 89
37993256 CTTGGCCAAC
37993266 AATTGTGGTGGACGTACGCGACTTTCTAAGAAGTTGTGCAAGCAGAGACGAATACTGGCTAGGAG
1 AATTGTGGTGGACGTACGCGACTTTCTAAGAAGTTGTGCAAGCAGAGACGAATACTGGCTAGGAG
37993331 ACATTGAAATACTGGCTAGGAGAA
66 ACATTGAAATACTGGCTAGGAGAA
* *
37993355 AATTGTGGTGGACGTACGTGACTTTCTAAGAAGTTGTGCAAGCAGAGACGAATACTGGCTGGGAG
1 AATTGTGGTGGACGTACGCGACTTTCTAAGAAGTTGTGCAAGCAGAGACGAATACTGGCTAGGAG
37993420 ACATTGAAATACTG
66 ACATTGAAATACTG
37993434 ATGAATTGAA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (89 bp):
AATTGTGGTGGACGTACGCGACTTTCTAAGAAGTTGTGCAAGCAGAGACGAATACTGGCTAGGAG
ACATTGAAATACTGGCTAGGAGAA
Found at i:37998306 original size:332 final size:332
Alignment explanation
Indices: 37997700--37998702 Score: 1997
Period size: 332 Copynumber: 3.0 Consensus size: 332
37997690 TTTTTATTTC
37997700 AAGTTGGGGAGATGAGGGTTTTTAAGCCCAAATTTTCAGAGGCAAAAATCTTCTTATCTAGCTTA
1 AAGTTGGGGAGATGAGGGTTTTTAAGCCCAAATTTTCAGAGGCAAAAATCTTCTTATCTAGCTTA
37997765 AGGCTCATATGATTGATTGAAATGTAAATGAATATTTTTGGTTTAGGTATCATGAGAAAAGAACA
66 AGGCTCATATGATTGATTGAAATGTAAATGAATATTTTTGGTTTAGGTATCATGAGAAAAGAACA
*
37997830 AGTTATCGCAATACCCTAAACCTTGATCAATGATGGATAGGTAGTTAGATAGACAAAAACAGATA
131 AGTTATCGCAATACCCTAAACCTTGATCAATGATGGATGGGTAGTTAGATAGACAAAAACAGATA
37997895 AAACACTCATTTAGGTTCCTAAAGATAATTGTACTAATATAAGTTTATCTGTATGTACGCATTTG
196 AAACACTCATTTAGGTTCCTAAAGATAATTGTACTAATATAAGTTTATCTGTATGTACGCATTTG
37997960 TATAACCATGTGTTTAATTTTGGTGTGCGAAAATGTAGTATTGTAATGACTAAATGCTTAACACT
261 TATAACCATGTGTTTAATTTTGGTGTGCGAAAATGTAGTATTGTAATGACTAAATGCTTAACACT
37998025 TGCTTGG
326 TGCTTGG
37998032 AAGTTGGGGAGATGAGGGTTTTTAAGCCCAAATTTTCAGAGGCAAAAATCTTCTTATCTAGCTTA
1 AAGTTGGGGAGATGAGGGTTTTTAAGCCCAAATTTTCAGAGGCAAAAATCTTCTTATCTAGCTTA
37998097 AGGCTCATATGATTGATTGAAATGTAAATGAATATTTTTGGTTTAGGTATCATGAGAAAAGAACA
66 AGGCTCATATGATTGATTGAAATGTAAATGAATATTTTTGGTTTAGGTATCATGAGAAAAGAACA
37998162 AGTTATCGCAATACCCTAAACCTTGATCAATGATGGATGGGTAGTTAGATAGACAAAAACAGATA
131 AGTTATCGCAATACCCTAAACCTTGATCAATGATGGATGGGTAGTTAGATAGACAAAAACAGATA
37998227 AAACACTCATTTAGGTTCCTAAAGATAATTGTACTAATATAAGTTTATCTGTATGTACGCATTTG
196 AAACACTCATTTAGGTTCCTAAAGATAATTGTACTAATATAAGTTTATCTGTATGTACGCATTTG
37998292 TATAACCATGTGTTTAATTTTGGTGTGCGAAAATGTAGTATTGTAATGACTAAATGCTTAACACT
261 TATAACCATGTGTTTAATTTTGGTGTGCGAAAATGTAGTATTGTAATGACTAAATGCTTAACACT
37998357 TGCTTGG
326 TGCTTGG
37998364 AAGTTGGGGAGATGAGGGTTTTTAAGCCCAAATTTTCAGAGGCAAAAATCTTCTTATCTAGCTTA
1 AAGTTGGGGAGATGAGGGTTTTTAAGCCCAAATTTTCAGAGGCAAAAATCTTCTTATCTAGCTTA
37998429 AGGCTCATATGATTGATTGAAATGTAAATGAATATTTTTGGTTTAGGTATCATGAGAAAAGAACA
66 AGGCTCATATGATTGATTGAAATGTAAATGAATATTTTTGGTTTAGGTATCATGAGAAAAGAACA
37998494 AGTTATCGCAATACCCTAAACCTTGATCAATGATGGATGGGTAGTTAGATAGACAAAAACAGATA
131 AGTTATCGCAATACCCTAAACCTTGATCAATGATGGATGGGTAGTTAGATAGACAAAAACAGATA
37998559 AAACACTCATTTAGGTTCCTAAAGATAATTGTACTAATATAAGTTTATCTGTATGTACGCATTTG
196 AAACACTCATTTAGGTTCCTAAAGATAATTGTACTAATATAAGTTTATCTGTATGTACGCATTTG
37998624 TATAACCATGTGTTTAATTTTGGTGTGCGAAAATGTAGTATTGTAATGACTAAATGCTTAACACT
261 TATAACCATGTGTTTAATTTTGGTGTGCGAAAATGTAGTATTGTAATGACTAAATGCTTAACACT
37998689 TGCTTGG
326 TGCTTGG
37998696 AAGTTGG
1 AAGTTGG
37998703 AGCATATGTC
Statistics
Matches: 670, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
332 670 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (332 bp):
AAGTTGGGGAGATGAGGGTTTTTAAGCCCAAATTTTCAGAGGCAAAAATCTTCTTATCTAGCTTA
AGGCTCATATGATTGATTGAAATGTAAATGAATATTTTTGGTTTAGGTATCATGAGAAAAGAACA
AGTTATCGCAATACCCTAAACCTTGATCAATGATGGATGGGTAGTTAGATAGACAAAAACAGATA
AAACACTCATTTAGGTTCCTAAAGATAATTGTACTAATATAAGTTTATCTGTATGTACGCATTTG
TATAACCATGTGTTTAATTTTGGTGTGCGAAAATGTAGTATTGTAATGACTAAATGCTTAACACT
TGCTTGG
Found at i:38006720 original size:15 final size:15
Alignment explanation
Indices: 38006686--38006719 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38006676 AAGAATTTAA
38006686 ATTTTAAAGAAAATT
1 ATTTTAAAGAAAATT
*
38006701 ATTTTAATGAAAA-T
1 ATTTTAAAGAAAATT
38006715 ATTTT
1 ATTTT
38006720 TGAATATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
ATTTTAAAGAAAATT
Found at i:38015308 original size:30 final size:30
Alignment explanation
Indices: 38015272--38015357 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 30
38015262 TGGGAATAAG
* *
38015272 TTGCTCACACAAGCTGACAGTATATTAGGA
1 TTGCTCACACAAGCTGACATTATATTAGAA
* **
38015302 TTGCTCATACAAGCTGACATTATAACAGAA
1 TTGCTCACACAAGCTGACATTATATTAGAA
*
38015332 TTGCTCACATAAGCTGACATTATATT
1 TTGCTCACACAAGCTGACATTATATT
38015358 GAGGTTATCC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (30 bp):
TTGCTCACACAAGCTGACATTATATTAGAA
Found at i:38015846 original size:5 final size:5
Alignment explanation
Indices: 38015838--38015869 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
38015828 CTACTTCACG
38015838 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TC
1 TCGAT TCGAT TCGAT TCGAT TCGAT TCGAT TC
38015870 TTTATCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (5 bp):
TCGAT
Found at i:38027629 original size:29 final size:29
Alignment explanation
Indices: 38027530--38027688 Score: 78
Period size: 30 Copynumber: 5.4 Consensus size: 29
38027520 ACCCGGGGGC
* * *
38027530 AAAATGGTAATTTTGGTGAAGTCGAGGTT
1 AAAATGGTATTTTTGGTGAAATCGGGGTT
* * * **
38027559 AAGAACGGAATTTTT-GAGAGTTCAGGGG-T
1 AA-AATGGTATTTTTGGTGAAATC-GGGGTT
**
38027588 AAAATAATAATTTTTGGTGAAATCGGGGTT
1 AAAATGGT-ATTTTTGGTGAAATCGGGGTT
* *
38027618 AAAATGGTA--TTT--TAAAAGGTCGGGGGT
1 AAAATGGTATTTTTGGTGAAA--TCGGGGTT
* *
38027645 AAAATGGTAATTTTCGGTGAAATCGAGGTT
1 AAAATGGT-ATTTTTGGTGAAATCGGGGTT
*
38027675 AAAAATGGAATTTT
1 -AAAATGGTATTTT
38027689 GGAAAGTTCG
Statistics
Matches: 94, Mismatches: 23, Indels: 25
0.66 0.16 0.18
Matches are distributed among these distances:
25 4 0.04
27 18 0.19
28 3 0.03
29 21 0.22
30 37 0.39
31 7 0.07
32 4 0.04
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAATGGTATTTTTGGTGAAATCGGGGTT
Found at i:38027707 original size:29 final size:29
Alignment explanation
Indices: 38027676--38027906 Score: 163
Period size: 29 Copynumber: 7.9 Consensus size: 29
38027666 ATCGAGGTTA
* *
38027676 AAAATGG-AATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTAGAAAGTTCGGGGGT
* *
38027704 AAAATGGTAAATTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTAGAAAGTTCGGGGGT
* * * * *
38027733 AAAACGGTAATTTTTGGTGAAA--CCGAGGTT
1 AAAATGGTAA-TTTT--AGAAAGTTCGGGGGT
*
38027763 AAAAATGGT--TTTTCAAAAAGTTCGGGGGT
1 -AAAATGGTAATTTT-AGAAAGTTCGGGGGT
*
38027792 AAAATGGTAATTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTAGAAAGTTCGGGGGT
* * ** * *
38027821 AAAACGGTAATTTTGGTAAAACT-GTGGTT
1 AAAATGGTAATTTTAG-AAAGTTCGGGGGT
*
38027850 AAAAATGGT-ATTTTAGAAAGTTTGGGGGT
1 -AAAATGGTAATTTTAGAAAGTTCGGGGGT
38027879 AAAATGGTAAATTTTAG-AAGTTTCGGGG
1 AAAATGGT-AATTTTAGAAAG-TTCGGGG
38027907 TCAGAATGTA
Statistics
Matches: 154, Mismatches: 34, Indels: 28
0.71 0.16 0.13
Matches are distributed among these distances:
27 3 0.02
28 31 0.20
29 75 0.49
30 35 0.23
31 7 0.05
32 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAAGTTCGGGGGT
Found at i:38027732 original size:116 final size:115
Alignment explanation
Indices: 38027523--38027746 Score: 256
Period size: 116 Copynumber: 1.9 Consensus size: 115
38027513 TTTGGACACC
* * * *
38027523 CGGGGGCAAAATGGTAATTTTGGTGAAGTCGAGGTTAAGAACGGAATTTTTGAGAGTTCAGGGGT
1 CGGGGGCAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAACGGAATTTTGGAAAGTTCAGGGGT
* * ** *
38027588 AAAATAATAATTTTTGGTGAAATCGGGGTTAAAATGGT-ATTTTAAAAGGT
66 AAAATAATAAATTTAGAAGAAATCGGGG-TAAAACGGTAATTTTAAAAGGT
* *
38027638 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTC-GAGG
1 CGGGGGCAAAATGGTAATTTT-GGTGAAATCGAGGTTAAAAACGGAATTTTGGAAAGTTCAG-GG
** **
38027702 GTAAAATGGTAAATTTAGAAG-GTTCGGGGGTAAAACGGTAATTTT
64 GTAAAATAATAAATTTAGAAGAAATC-GGGGTAAAACGGTAATTTT
38027747 TGGTGAAACC
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
115 31 0.34
116 59 0.66
ACGTcount: A:0.33, C:0.05, G:0.31, T:0.30
Consensus pattern (115 bp):
CGGGGGCAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAACGGAATTTTGGAAAGTTCAGGGGT
AAAATAATAAATTTAGAAGAAATCGGGGTAAAACGGTAATTTTAAAAGGT
Found at i:38027748 original size:59 final size:59
Alignment explanation
Indices: 38027683--38027830 Score: 135
Period size: 59 Copynumber: 2.5 Consensus size: 59
38027673 TTAAAAATGG
* *
38027683 AATTTTGGAAAGTTCGAGGGTAAAATGGTAAATTT-AGAAGGTTCGGGGGTAAAACGGT
1 AATTTTGGAAAGTTCGAGGGTAAAATGGTAAATTTCAAAAAGTTCGGGGGTAAAACGGT
* * * *
38027741 AATTTTTGGTGAAA--CCGAGGTTAAAAATGGT--TTTTCAAAAAGTTCGGGGGTAAAATGGT
1 AA-TTTT-G-GAAAGTTCGAGGGT-AAAATGGTAAATTTCAAAAAGTTCGGGGGTAAAACGGT
* * * *
38027800 AATTTTAGAAGGTTCGGGGGTAAAACGGTAA
1 AATTTTGGAAAGTTCGAGGGTAAAATGGTAA
38027831 TTTTGGTAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
56 3 0.04
57 7 0.10
58 14 0.20
59 32 0.46
60 9 0.13
61 4 0.06
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.29
Consensus pattern (59 bp):
AATTTTGGAAAGTTCGAGGGTAAAATGGTAAATTTCAAAAAGTTCGGGGGTAAAACGGT
Found at i:38027907 original size:29 final size:29
Alignment explanation
Indices: 38027610--38027920 Score: 106
Period size: 29 Copynumber: 10.7 Consensus size: 29
38027600 TTTGGTGAAA
*
38027610 TCGGGGTTAAAATGGT-ATTTTA-AAAG-G
1 TCGGGG-TAAAATGGTAATTTTAGAAAGTT
*
38027637 TCGGGGGTAAAATGGTAATTTTCGGTGAAA---
1 TC-GGGGTAAAATGGTAATTTT---AGAAAGTT
* *
38027667 TCGAGGTTAAAAATGG-AATTTTGGAAAG-T
1 TCG-GGGT-AAAATGGTAATTTTAGAAAGTT
* *
38027696 TCGAGGGTAAAATGGTAAATTTAG-AAGGT
1 TCG-GGGTAAAATGGTAATTTTAGAAAGTT
* *
38027725 TCGGGGGTAAAACGGTAATTTTTGGTGAAA---
1 TC-GGGGTAAAATGGTAA-TTTT--AGAAAGTT
* * *
38027755 CCGAGGTTAAAAATGGT--TTTTCAAAAAG-T
1 TCG-GGGT-AAAATGGTAATTTT-AGAAAGTT
*
38027784 TCGGGGGTAAAATGGTAATTTTAG-AAGGT
1 TC-GGGGTAAAATGGTAATTTTAGAAAGTT
* * **
38027813 TCGGGGGTAAAACGGTAATTTTGGTAAA-AC
1 TC-GGGGTAAAATGGTAATTTTAG-AAAGTT
*
38027843 T-GTGGTTAAAAATGGT-ATTTTAGAAAGTT
1 TCG-GGGT-AAAATGGTAATTTTAGAAAGTT
*
38027872 TGGGGGTAAAATGGTAAATTTTAG-AAGTT
1 TCGGGGTAAAATGGT-AATTTTAGAAAGTT
*
38027901 TCGGGGTCAGAAT-GTAATTT
1 TCGGGGT-AAAATGGTAATTT
38027921 CTTGAAATTT
Statistics
Matches: 220, Mismatches: 30, Indels: 67
0.69 0.09 0.21
Matches are distributed among these distances:
27 18 0.08
28 51 0.23
29 85 0.39
30 44 0.20
31 16 0.07
32 4 0.02
33 2 0.01
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.32
Consensus pattern (29 bp):
TCGGGGTAAAATGGTAATTTTAGAAAGTT
Found at i:38027920 original size:87 final size:88
Alignment explanation
Indices: 38027610--38027906 Score: 399
Period size: 88 Copynumber: 3.4 Consensus size: 88
38027600 TTTGGTGAAA
* * * * *
38027610 TCGGGGTTAAAATGGT--ATTTTAAAAGG-TCGGGGGTAAAATGGTAATTTTCGGTGAAATCGAG
1 TCGGGGGTAAAATGGTAAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTT-GGTAAAACCGAG
* *
38027672 GTTAAAAATGGAATTTTGGAAAGT
65 GTTAAAAATGGTATTTTAGAAAGT
* *
38027696 TCGAGGGTAAAATGGTAAA-TTTAGAAGGTTCGGGGGTAAAACGGTAATTTTTGGTGAAACCGAG
1 TCGGGGGTAAAATGGTAAATTTTAGAAGGTTCGGGGGTAAAACGGTAA-TTTTGGTAAAACCGAG
*
38027760 GTTAAAAATGGT-TTTTCAAAAAGT
65 GTTAAAAATGGTATTTT-AGAAAGT
* *
38027784 TCGGGGGTAAAATGGT-AATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTGGTAAAACTGTGG
1 TCGGGGGTAAAATGGTAAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTGGTAAAACCGAGG
38027848 TTAAAAATGGTATTTTAGAAAGT
66 TTAAAAATGGTATTTTAGAAAGT
* *
38027871 TTGGGGGTAAAATGGTAAATTTTAGAAGTTTCGGGG
1 TCGGGGGTAAAATGGTAAATTTTAGAAGGTTCGGGG
38027907 TCAGAATGTA
Statistics
Matches: 188, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
86 14 0.07
87 60 0.32
88 110 0.59
89 4 0.02
ACGTcount: A:0.33, C:0.05, G:0.30, T:0.31
Consensus pattern (88 bp):
TCGGGGGTAAAATGGTAAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTGGTAAAACCGAGG
TTAAAAATGGTATTTTAGAAAGT
Found at i:38029770 original size:6 final size:6
Alignment explanation
Indices: 38029759--38029825 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
38029749 GAATTTATAA
* *
38029759 TAAATT TAAATT TAAA-T TAAATC CAAATT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
38029805 TAAA-A TAAATT TAATTT TAAA
1 TAAATT TAAATT TAAATT TAAA
38029826 ACAAATTCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
5 14 0.28
6 36 0.72
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:38029778 original size:11 final size:11
Alignment explanation
Indices: 38029750--38029804 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
38029740 TTGGACTTTG
38029750 AATTTATAA-TA
1 AATTTA-AATTA
38029761 AATTTAAATTTA
1 AATTTAAA-TTA
*
38029773 AA-TTAAATCCA
1 AATTTAAAT-TA
38029784 AATTTAAATTA
1 AATTTAAATTA
38029795 AATTTAAATT
1 AATTTAAATT
38029805 TAAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 3 0.08
11 25 0.66
12 10 0.26
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:38029826 original size:17 final size:17
Alignment explanation
Indices: 38029750--38029832 Score: 103
Period size: 17 Copynumber: 4.9 Consensus size: 17
38029740 TTGGACTTTG
*
38029750 AATTTATAATAAATTTA
1 AATTTAAAATAAATTTA
* **
38029767 AATTTAAATTAAATCCA
1 AATTTAAAATAAATTTA
*
38029784 AATTTAAATTAAATTTA
1 AATTTAAAATAAATTTA
38029801 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
* *
38029818 ATTTTAAAACAAATT
1 AATTTAAAATAAATT
38029833 CAAAATGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:38030274 original size:38 final size:37
Alignment explanation
Indices: 38030144--38030494 Score: 140
Period size: 38 Copynumber: 9.4 Consensus size: 37
38030134 TATCTTACTC
** * * *
38030144 TTACTTCAATTTCAGAGGGACGAAGGCTTGTCATCCAGCT
1 TTACTTCAATTTCAGA--GATAAAGACATGT-ATCCAGTT
**
38030184 TTACTTCAATTTCAAGAGGATAGGAA-A-ATG-ATCTTGTT
1 TTACTTCAATTTC-AGA-GATA--AAGACATGTATCCAGTT
* *
38030222 CTTACTTCATTTTCAGAGATAAAGACTTGATATCCAGTT
1 -TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGTT
* * ** *
38030261 TTACTTCAATTTCAAGAGGAT-AGGAAATG-ATCTTGCTC
1 TTACTTCAATTTC-AGA-GATAAAGACATGTATCCAG-TT
* *
38030299 TTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CT
1 TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGTT
* * * ** *
38030336 CTACTTCAATTTCAAGAGGAT-AGGAAATG-ATCTTGCTC
1 TTACTTCAATTTC-AGA-GATAAAGACATGTATCCAG-TT
*
38030374 TTACTTCAATTTCAGAGATAAAGACATGTTATCCA-CT
1 TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGTT
* * *
38030411 CTACTTCAATTTCAAGAGGAT--AGAC--GT-T--ACTC
1 TTACTTCAATTTC-AGA-GATAAAGACATGTATCCAGTT
* * **
38030443 TTACTTCAATTTCGGAGATAAAGACGTGTTATCCAACT
1 TTACTTCAATTTCAGAGATAAAGACATG-TATCCAGTT
38030481 TTACTTCAATTTCA
1 TTACTTCAATTTCA
38030495 AGCGGATAGG
Statistics
Matches: 230, Mismatches: 49, Indels: 66
0.67 0.14 0.19
Matches are distributed among these distances:
30 3 0.01
31 3 0.01
32 16 0.07
33 1 0.00
34 2 0.01
35 4 0.02
36 11 0.05
37 55 0.24
38 71 0.31
39 38 0.17
40 21 0.09
41 3 0.01
42 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (37 bp):
TTACTTCAATTTCAGAGATAAAGACATGTATCCAGTT
Found at i:38030371 original size:75 final size:75
Alignment explanation
Indices: 38030135--38030600 Score: 611
Period size: 76 Copynumber: 6.2 Consensus size: 75
38030125 TTGGTGCTTT
* ** * * * *
38030135 ATCTTACTCTTACTTCAATTTCAGAGGGACGAAGGCTTGTCATCCAGCTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTCAGA--GATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAG
38030200 AGGATAGGAAAATG
63 AGGATAGG-AAATG
* * * * * *
38030214 ATCTTGTTCTTACTTCATTTTCAGAGATAAAGACTTGATATCCAGTTTTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCA-CTCTACTTCAATTTCAAGAG
38030279 GATAGGAAATG
65 GATAGGAAATG
38030290 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
38030355 ATAGGAAATG
66 ATAGGAAATG
*
38030365 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACATGTTATCCACTCTACTTCAATTTCAAGAGG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
*
38030430 ATA-G--ACG
66 ATAGGAAATG
* * * *
38030437 ---TTACTCTTACTTCAATTTCGGAGATAAAGACGTGTTATCCAACTTTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
*
38030499 GATAGGAAAAG
65 GATAGGAAATG
* *
38030510 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTATTATCCAACTCTACTTCAATTTCAAGCG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAG
* *
38030575 GGTAGGAAAAG
65 GATAGGAAATG
38030586 ATCTTGCTCTTACTT
1 ATCTTGCTCTTACTT
38030601 GACTTCTAGG
Statistics
Matches: 352, Mismatches: 28, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
69 37 0.11
70 23 0.07
71 1 0.00
72 2 0.01
73 2 0.01
74 1 0.00
75 96 0.27
76 128 0.36
77 40 0.11
79 22 0.06
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (75 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCACTCTACTTCAATTTCAAGAGG
ATAGGAAATG
Found at i:38030468 original size:32 final size:33
Alignment explanation
Indices: 38030296--38030545 Score: 127
Period size: 38 Copynumber: 6.9 Consensus size: 33
38030286 AATGATCTTG
38030296 CTCTTACTTCAATTTCAGAGATAAAGACGTGTTATC
1 CTCTTACTTCAATTTCAGAGATAAAGAC--GTTA-C
* *
38030332 CACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TT-G
1 CTCT-TACTTCAATTTC-AGA-GAT---AAA-GA-CGTTAC
38030371 CTCTTACTTCAATTTCAGAGATAAAGACATGTTATC
1 CTCTTACTTCAATTTCAGAGATAAAGAC--GTTA-C
*
38030407 CACTCTACTTCAATTTCAAGAGGAT--AGACGTTA-
1 CTCT-TACTTCAATTTC-AGA-GATAAAGACGTTAC
*
38030440 CTCTTACTTCAATTTCGGAGATAAAGACGTGTTATC
1 CTCTTACTTCAATTTCAGAGATAAAGAC--GTTA-C
* * *
38030476 CAACTTTACTTCAATTTCAAGCGGATAGGAAAAGATC-TT-G
1 C-TC-TTACTTCAATTTC-AG-AGAT----AAAGA-CGTTAC
38030516 CTCTTACTTCAATTTCAGAGATAAAGACGT
1 CTCTTACTTCAATTTCAGAGATAAAGACGT
38030546 ATTATCCAAC
Statistics
Matches: 169, Mismatches: 13, Indels: 68
0.68 0.05 0.27
Matches are distributed among these distances:
30 3 0.02
31 4 0.02
32 24 0.14
33 6 0.04
34 6 0.04
35 4 0.02
36 13 0.08
37 34 0.20
38 44 0.26
39 11 0.07
40 4 0.02
41 2 0.01
42 5 0.03
43 2 0.01
44 6 0.04
45 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (33 bp):
CTCTTACTTCAATTTCAGAGATAAAGACGTTAC
Found at i:38030510 original size:44 final size:43
Alignment explanation
Indices: 38030462--38030586 Score: 101
Period size: 38 Copynumber: 3.1 Consensus size: 43
38030452 TTTCGGAGAT
38030462 AAAGACGTGTTATCCAACTTTACTTCAATTTCAAGCGGATAGGA
1 AAAGACGT-TTATCCAACTTTACTTCAATTTCAAGCGGATAGGA
* * * *
38030506 AAAGA--TCT-TGC-TC-TTACTTCAATTTC-AG-AGAT----
1 AAAGACGTTTATCCAACTTTACTTCAATTTCAAGCGGATAGGA
* *
38030538 AAAGACGTATTATCCAACTCTACTTCAATTTCAAGCGGGTAGGA
1 AAAGACGT-TTATCCAACTTTACTTCAATTTCAAGCGGATAGGA
38030582 AAAGA
1 AAAGA
38030587 TCTTGCTCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 24
0.63 0.11 0.26
Matches are distributed among these distances:
32 5 0.08
34 1 0.02
35 1 0.02
36 5 0.08
37 3 0.05
38 25 0.42
39 3 0.05
40 4 0.07
41 1 0.02
42 1 0.02
44 10 0.17
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (43 bp):
AAAGACGTTTATCCAACTTTACTTCAATTTCAAGCGGATAGGA
Found at i:38030523 original size:38 final size:38
Alignment explanation
Indices: 38030481--38030600 Score: 115
Period size: 38 Copynumber: 3.2 Consensus size: 38
38030471 TTATCCAACT
38030481 TTACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTC
1 TTACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTC
* * * *
38030519 TTACTTCAATTTC-AG-AGATA--AAGACGTAT-TATCCAAC
1 TTACTTCAATTTCAAGCGGATAGGAA-AAG-ATCT-TGC-TC
*
38030556 TCTACTTCAATTTCAAGCGGGTAGGAAAAGATCTTGCTC
1 T-TACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTC
38030595 TTACTT
1 TTACTT
38030601 GACTTCTAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
34 2 0.03
35 3 0.05
36 8 0.13
37 4 0.06
38 30 0.48
39 4 0.06
40 7 0.11
41 3 0.05
42 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (38 bp):
TTACTTCAATTTCAAGCGGATAGGAAAAGATCTTGCTC
Found at i:38040953 original size:29 final size:28
Alignment explanation
Indices: 38040921--38041098 Score: 84
Period size: 29 Copynumber: 6.1 Consensus size: 28
38040911 AAACGGTAAT
38040921 TTTTGGTGAAATCGGGGTTAAAAATGGTA
1 TTTTGGTGAAATCGGGGTT-AAAATGGTA
* *
38040950 TTTT--AGAAGGTCGAGGG-TAAAATGGTAA
1 TTTTGGTGAA-ATCG-GGGTTAAAATGGT-A
* *
38040978 TTTTTGGTGAAATCAGGGTTAAAATGGAA
1 -TTTTGGTGAAATCGGGGTTAAAATGGTA
*
38041007 TTTT-G-GAAAGTTTGAGGG-TAAAATGGTAA
1 TTTTGGTGAAA--TCG-GGGTTAAAATGGT-A
* * * *
38041036 TTTT--AGAAGGTTCGGGGGTAAAACGGTAA
1 TTTTGGTGAA--ATCGGGGTTAAAATGGT-A
*
38041065 TTTTTGGTGAAACCGGGGTTAAAAATGGTA
1 -TTTTGGTGAAATCGGGGTT-AAAATGGTA
38041095 TTTT
1 TTTT
38041099 AGAAAGTTCG
Statistics
Matches: 113, Mismatches: 17, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
26 4 0.04
27 12 0.11
28 21 0.19
29 42 0.37
30 21 0.19
31 10 0.09
32 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.30, T:0.34
Consensus pattern (28 bp):
TTTTGGTGAAATCGGGGTTAAAATGGTA
Found at i:38040971 original size:58 final size:58
Alignment explanation
Indices: 38040907--38041039 Score: 196
Period size: 58 Copynumber: 2.3 Consensus size: 58
38040897 AGAGTTTGGA
* * *
38040907 GGTAAAACGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGTATTTTAG-AAGGTCGAG
1 GGTAAAATGGTAATTTTTGGTGAAATCAGGGTT-AAAATGGAATTTTAGAAAGGTCGAG
* * *
38040965 GGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAATGGAATTTTGGAAAGTTTGAG
1 GGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAATGGAATTTTAGAAAGGTCGAG
38041023 GGTAAAATGGTAATTTT
1 GGTAAAATGGTAATTTT
38041040 AGAAGGTTCG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 13 0.19
58 55 0.81
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (58 bp):
GGTAAAATGGTAATTTTTGGTGAAATCAGGGTTAAAATGGAATTTTAGAAAGGTCGAG
Found at i:38041117 original size:29 final size:29
Alignment explanation
Indices: 38040941--38041216 Score: 168
Period size: 29 Copynumber: 9.5 Consensus size: 29
38040931 ATCGGGGTTA
*
38040941 AAAATGGT-ATTTTAG-AAGGTCGAGGGT
1 AAAATGGTAATTTTAGAAAGTTCGAGGGT
*
38040968 AAAATGGTAATTTTTGGTGAAA--TC-AGGGTT
1 AAAATGGTAA-TTTT--AGAAAGTTCGAGGG-T
* *
38040998 AAAATGG-AATTTTGGAAAGTTTGAGGGT
1 AAAATGGTAATTTTAGAAAGTTCGAGGGT
* *
38041026 AAAATGGTAATTTTAGAAGGTTCGGGGGT
1 AAAATGGTAATTTTAGAAAGTTCGAGGGT
* * *
38041055 AAAACGGTAATTTTTGGTGAAA--CCG-GGGTT
1 AAAATGGTAA-TTTT--AGAAAGTTCGAGGG-T
38041085 AAAAATGGT-ATTTTAGAAAGTTCGAGGGT
1 -AAAATGGTAATTTTAGAAAGTTCGAGGGT
*
38041114 AAAATGGTAATTTTA-AAAGGTTCGGGGGT
1 AAAATGGTAATTTTAGAAA-GTTCGAGGGT
* * * *
38041143 AAAACGATAATTTTTGGAGAAA-CT-GAGGTT
1 AAAATGGTAA-TTTT--AGAAAGTTCGAGGGT
*
38041173 AAAAATGGT-ATTTTAGAAAGTT-TAGGGGT
1 -AAAATGGTAATTTTAGAAAGTTCGA-GGGT
38041202 AAAATGGTACATTTT
1 AAAATGGTA-ATTTT
38041217 GGAAGTTTCG
Statistics
Matches: 195, Mismatches: 25, Indels: 55
0.71 0.09 0.20
Matches are distributed among these distances:
26 4 0.02
27 17 0.09
28 35 0.18
29 80 0.41
30 35 0.18
31 15 0.08
32 6 0.03
33 3 0.02
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAAGTTCGAGGGT
Found at i:38041230 original size:88 final size:88
Alignment explanation
Indices: 38040941--38041229 Score: 399
Period size: 88 Copynumber: 3.3 Consensus size: 88
38040931 ATCGGGGTTA
* * *
38040941 AAAATGGT-ATTTTAGAAGG-TCGAGGGTAAAATGGTAATTTTTGGTGAAA-TCAGGGTT-AAAA
1 AAAATGGTAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTTGGTGAAACTGA-GGTTAAAAA
* *
38041002 TGGAATTTTGGAAAGTTTGAGGGT
65 TGGTATTTTAGAAAGTTTGAGGGT
* *
38041026 AAAATGGTAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTTGGTGAAACCGGGGTTAAAAAT
1 AAAATGGTAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTTGGTGAAACTGAGGTTAAAAAT
*
38041091 GGTATTTTAGAAAGTTCGAGGGT
66 GGTATTTTAGAAAGTTTGAGGGT
* * *
38041114 AAAATGGTAATTTTAAAAGGTTCGGGGGTAAAACGATAATTTTTGGAGAAACTGAGGTTAAAAAT
1 AAAATGGTAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTTGGTGAAACTGAGGTTAAAAAT
38041179 GGTATTTTAGAAAGTTT-AGGGGT
66 GGTATTTTAGAAAGTTTGA-GGGT
* *
38041202 AAAATGGTACATTTTGGAAGTTTCGGGG
1 AAAATGGTA-ATTTTAGAAGGTTCGGGG
38041230 TCAGAATGTA
Statistics
Matches: 181, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
85 8 0.04
86 11 0.06
87 33 0.18
88 114 0.63
89 15 0.08
ACGTcount: A:0.34, C:0.04, G:0.30, T:0.32
Consensus pattern (88 bp):
AAAATGGTAATTTTAGAAGGTTCGGGGGTAAAACGGTAATTTTTGGTGAAACTGAGGTTAAAAAT
GGTATTTTAGAAAGTTTGAGGGT
Found at i:38043109 original size:6 final size:6
Alignment explanation
Indices: 38043098--38043164 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
38043088 GAATTTATAA
* *
38043098 TAAATT TAAATT TAAA-T TAAATC CAAATT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
38043144 TAAA-A TAAATT TAATTT TAAA
1 TAAATT TAAATT TAAATT TAAA
38043165 ACAAATTCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
5 14 0.28
6 36 0.72
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:38043117 original size:11 final size:11
Alignment explanation
Indices: 38043089--38043143 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
38043079 TTGGATTTTG
38043089 AATTTATAA-TA
1 AATTTA-AATTA
38043100 AATTTAAATTTA
1 AATTTAAA-TTA
*
38043112 AA-TTAAATCCA
1 AATTTAAAT-TA
38043123 AATTTAAATTA
1 AATTTAAATTA
38043134 AATTTAAATT
1 AATTTAAATT
38043144 TAAAATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 3 0.08
11 25 0.66
12 10 0.26
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTTAAATTA
Found at i:38043165 original size:17 final size:17
Alignment explanation
Indices: 38043089--38043171 Score: 103
Period size: 17 Copynumber: 4.9 Consensus size: 17
38043079 TTGGATTTTG
*
38043089 AATTTATAATAAATTTA
1 AATTTAAAATAAATTTA
* **
38043106 AATTTAAATTAAATCCA
1 AATTTAAAATAAATTTA
*
38043123 AATTTAAATTAAATTTA
1 AATTTAAAATAAATTTA
38043140 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
* *
38043157 ATTTTAAAACAAATT
1 AATTTAAAATAAATT
38043172 CAAAATGGTT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:38043667 original size:20 final size:20
Alignment explanation
Indices: 38043636--38043686 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
38043626 TTAAAATTTT
*
38043636 AAATTATAAAAAAATTAATAA
1 AAATTGTAAAAAAA-TAATAA
*
38043657 AAA-TGTAAAAAAATATTAA
1 AAATTGTAAAAAAATAATAA
38043676 AAATTGTAAAA
1 AAATTGTAAAA
38043687 GTATTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 8 0.30
20 16 0.59
21 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AAATTGTAAAAAAATAATAA
Found at i:38043669 original size:11 final size:10
Alignment explanation
Indices: 38043636--38043678 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
38043626 TTAAAATTTT
38043636 AAATTATAAAA
1 AAATTA-AAAA
*
38043647 AAATTAATAA
1 AAATTAAAAA
38043657 AAATGTAAAAA
1 AAAT-TAAAAA
38043668 AATATTAAAAA
1 AA-ATTAAAAA
38043679 TTGTAAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 7 0.25
11 19 0.68
12 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (10 bp):
AAATTAAAAA
Found at i:38045474 original size:24 final size:23
Alignment explanation
Indices: 38045447--38045494 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
38045437 GACTGTATTT
38045447 ATTTTA-TAAATATATATTTCTTAA
1 ATTTTAGTAAATA-ATATTT-TTAA
38045471 ATTTTAGTAAATAATATTTTTAA
1 ATTTTAGTAAATAATATTTTTAA
38045494 A
1 A
38045495 GATCATAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.22
24 12 0.52
25 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTAGTAAATAATATTTTTAA
Found at i:38053054 original size:19 final size:19
Alignment explanation
Indices: 38053015--38053055 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
38053005 AAGAAAAAAA
*
38053015 AAATCATATTTATATATAT
1 AAATCATATTTATATAAAT
*
38053034 AAATCATATTTATTTAAAT
1 AAATCATATTTATATAAAT
38053053 AAA
1 AAA
38053056 AAATTTAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATCATATTTATATAAAT
Found at i:38071598 original size:20 final size:20
Alignment explanation
Indices: 38071551--38071601 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
38071541 TCACTAAACA
* * *
38071551 TTACCAAAATATCTAATGAT
1 TTACCAATATTTCTAAGGAT
38071571 TTACCAATATTTCTAAGGAT
1 TTACCAATATTTCTAAGGAT
*
38071591 TTATCAATATT
1 TTACCAATATT
38071602 GGCTTTACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (20 bp):
TTACCAATATTTCTAAGGAT
Found at i:38080480 original size:20 final size:19
Alignment explanation
Indices: 38080455--38080504 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
38080445 GGTGGATGTC
38080455 ATTAGTTTAATTAAAGCATA
1 ATTAGTTTAATTAAA-CATA
*
38080475 ATTAGTGTTAGTTAAACATA
1 ATTAGT-TTAATTAAACATA
*
38080495 ATTAATTTAA
1 ATTAGTTTAA
38080505 CTAATTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 15 0.58
21 8 0.31
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (19 bp):
ATTAGTTTAATTAAACATA
Found at i:38081631 original size:19 final size:19
Alignment explanation
Indices: 38081607--38081654 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
38081597 TCGTGAGTCG
*
38081607 GGATGCGTTTCATGCGCTA
1 GGATGCATTTCATGCGCTA
* * *
38081626 GGATGCATTTCGTGTGTTA
1 GGATGCATTTCATGCGCTA
38081645 GGATGCATTT
1 GGATGCATTT
38081655 TGTGCACCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.17, C:0.15, G:0.31, T:0.38
Consensus pattern (19 bp):
GGATGCATTTCATGCGCTA
Found at i:38085423 original size:86 final size:86
Alignment explanation
Indices: 38085278--38085454 Score: 336
Period size: 86 Copynumber: 2.1 Consensus size: 86
38085268 TTTACAAATG
38085278 ATACATACCAAAACATCAAAATAAGCTTAAAAACTAAGCTATTACACTAGGTACATACCAACTTG
1 ATACATACCAAAACATCAAAATAAGCTTAAAAACTAAGCTATTACACTAGGTACATACCAACTTG
*
38085343 CTATAAAACATATCAAAAGCT
66 CTATAAAACACATCAAAAGCT
*
38085364 ATACATACCAAAACATCAAAATAAGCTTAAAAACTAAGCTATTACATTAGGTACATACCAACTTG
1 ATACATACCAAAACATCAAAATAAGCTTAAAAACTAAGCTATTACACTAGGTACATACCAACTTG
38085429 CTATAAAACACATCAAAAGCT
66 CTATAAAACACATCAAAAGCT
38085450 ATACA
1 ATACA
38085455 AACTTTGTTG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 89 1.00
ACGTcount: A:0.49, C:0.21, G:0.07, T:0.23
Consensus pattern (86 bp):
ATACATACCAAAACATCAAAATAAGCTTAAAAACTAAGCTATTACACTAGGTACATACCAACTTG
CTATAAAACACATCAAAAGCT
Found at i:38086460 original size:21 final size:22
Alignment explanation
Indices: 38086422--38086474 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 22
38086412 TGATTGTTTG
38086422 TATTTTTTAAAAACATTTTAATA
1 TATTTTTT-AAAACATTTTAATA
38086445 TATTTTTTAAAA-ATTTTAATA
1 TATTTTTTAAAACATTTTAATA
38086466 T-TTTATTTA
1 TATTT-TTTA
38086475 TTTTTTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.10
21 14 0.48
22 4 0.14
23 8 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTTTTTAAAACATTTTAATA
Found at i:38113426 original size:6 final size:6
Alignment explanation
Indices: 38113415--38113442 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
38113405 TATCCATCTT
38113415 CAACTC CAACTC CAACTC CAACTC CAAC
1 CAACTC CAACTC CAACTC CAACTC CAAC
38113443 ACAGAGCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.50, G:0.00, T:0.14
Consensus pattern (6 bp):
CAACTC
Found at i:38118679 original size:30 final size:30
Alignment explanation
Indices: 38118638--38118723 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
38118628 TTAAGCCTTT
* * *
38118638 TAAATTTTTTAATAATTTTAATTAGGCCTC
1 TAAAATTTTTAAAAATTCTAATTAGGCCTC
* * *
38118668 TAAAATTTTTAAAAATTCTCATTAAGCCTT
1 TAAAATTTTTAAAAATTCTAATTAGGCCTC
* *
38118698 TCAAAAATTTTAAAAATGCTAATTAG
1 T-AAAATTTTTAAAAATTCTAATTAG
38118724 ATTTCCAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 25 0.56
31 20 0.44
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (30 bp):
TAAAATTTTTAAAAATTCTAATTAGGCCTC
Found at i:38118712 original size:31 final size:30
Alignment explanation
Indices: 38118627--38118722 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 30
38118617 GAAATTTATT
* * *
38118627 ATTAAGCCTTTTAAATTTTTTAATAATTTTA
1 ATTAAGCC-TTTAAAATTTTTAAAAATTCTA
* * *
38118658 ATTAGGCCTCTAAAATTTTTAAAAATTCTC
1 ATTAAGCCTTTAAAATTTTTAAAAATTCTA
* *
38118688 ATTAAGCCTTTCAAAAATTTTAAAAATGCTA
1 ATTAAGCCTTT-AAAATTTTTAAAAATTCTA
38118719 ATTA
1 ATTA
38118723 GATTTCCAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
30 26 0.49
31 27 0.51
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (30 bp):
ATTAAGCCTTTAAAATTTTTAAAAATTCTA
Found at i:38118739 original size:30 final size:31
Alignment explanation
Indices: 38118669--38118740 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
38118659 TTAGGCCTCT
* * *
38118669 AAAATTTTTAAAAATTCTCATTAAGCCTTTC
1 AAAATTTTTAAAAATGCTAATTAAGCATTTC
*
38118700 AAAAATTTTAAAAATGCTAATT-AG-ATTTCC
1 AAAATTTTTAAAAATGCTAATTAAGCATTT-C
38118730 AAAATTTTTAA
1 AAAATTTTTAA
38118741 TAATTTCCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 13 0.37
31 19 0.54
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (31 bp):
AAAATTTTTAAAAATGCTAATTAAGCATTTC
Found at i:38122165 original size:17 final size:16
Alignment explanation
Indices: 38122145--38122187 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
38122135 CTCCCTTGTC
*
38122145 CTTTAACTTTCCATCTT
1 CTTTAACTTT-CATATT
38122162 CTTTAACATTTCATATT
1 CTTTAAC-TTTCATATT
38122179 CTTATAACT
1 CTT-TAACT
38122188 ACTTTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (16 bp):
CTTTAACTTTCATATT
Found at i:38127886 original size:21 final size:19
Alignment explanation
Indices: 38127840--38127889 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
38127830 TATAATTGTT
38127840 TATTAA-ATATTTATTAAA
1 TATTAATATATTTATTAAA
*
38127858 TTTGTAATATATTTATTAAAA
1 TAT-TAATATATTTATT-AAA
38127879 TAATTAATATA
1 T-ATTAATATA
38127890 AACTAAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.08
19 3 0.12
20 9 0.35
21 11 0.42
22 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATTAATATATTTATTAAA
Found at i:38129182 original size:53 final size:53
Alignment explanation
Indices: 38129097--38129216 Score: 145
Period size: 53 Copynumber: 2.3 Consensus size: 53
38129087 TGTGTCTCAA
* *
38129097 AACAATATACACACACCCTGACATACACCCATGTGTCAGCCCATATGC-CCTAG
1 AACAGTATACACACACCCTGACACACACCCATGTGTCAGCCCATATGCTCC-AG
* * * *
38129150 AACAGTATACACACACCTTGAGACACGA-CCATGTGTCAGCCCGTGTGCTCCAG
1 AACAGTATACACACACCCTGACACAC-ACCCATGTGTCAGCCCATATGCTCCAG
*
38129203 AAAAGTATACACAC
1 AACAGTATACACAC
38129217 GCCCGTGTGC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 55 0.95
54 3 0.05
ACGTcount: A:0.34, C:0.33, G:0.15, T:0.18
Consensus pattern (53 bp):
AACAGTATACACACACCCTGACACACACCCATGTGTCAGCCCATATGCTCCAG
Found at i:38129238 original size:29 final size:28
Alignment explanation
Indices: 38129188--38129278 Score: 92
Period size: 33 Copynumber: 3.0 Consensus size: 28
38129178 CCATGTGTCA
*
38129188 GCCCGTGTGCTCCAGAAAAGTATACACAC
1 GCCCGTGTGCTCCA-AACAGTATACACAC
*
38129217 GCCCGTGTGCCTTCAAACAGTATACACACACAC
1 GCCCGTGTG-CTCCAAACAGTAT----ACACAC
*
38129250 GCCCGTGTGGCTCCAAACAGTATGCACAC
1 GCCCGTGT-GCTCCAAACAGTATACACAC
38129279 ACACCCTGAC
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
29 21 0.40
30 4 0.08
33 26 0.50
34 1 0.02
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.18
Consensus pattern (28 bp):
GCCCGTGTGCTCCAAACAGTATACACAC
Found at i:38129253 original size:33 final size:33
Alignment explanation
Indices: 38129211--38129282 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
38129201 AGAAAAGTAT
*
38129211 ACACACGCCCGTGTGCCTTCAAACAGTATACAC
1 ACACACGCCCGTGTGCCTCCAAACAGTATACAC
* *
38129244 ACACACGCCCGTGTGGCTCCAAACAGTATGCAC
1 ACACACGCCCGTGTGCCTCCAAACAGTATACAC
38129277 ACACAC
1 ACACAC
38129283 CCTGACACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.31, C:0.38, G:0.17, T:0.15
Consensus pattern (33 bp):
ACACACGCCCGTGTGCCTCCAAACAGTATACAC
Found at i:38132005 original size:23 final size:23
Alignment explanation
Indices: 38131979--38132022 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
38131969 TAATAATTAT
38131979 TTAAT-TTATTATTATAATTTTCA
1 TTAATATTATTA-TATAATTTTCA
*
38132002 TTAATATTTTTATATAATTTT
1 TTAATATTATTATATAATTTT
38132023 TTTATTTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TTAATATTATTATATAATTTTCA
Found at i:38133064 original size:17 final size:17
Alignment explanation
Indices: 38133044--38133077 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38133034 AAAAAAAATT
*
38133044 ATTTAAATTTTATTTAA
1 ATTTAAATATTATTTAA
38133061 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
38133078 TTATTGTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:38133873 original size:17 final size:17
Alignment explanation
Indices: 38133835--38133872 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
38133825 AATTTAATTC
*
38133835 ATTTAATATATTTAAAT
1 ATTTTATATATTTAAAT
38133852 ATTTTATATA-TTAAAT
1 ATTTTATATATTTAAAT
38133868 ATTTT
1 ATTTT
38133873 TTAAAATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATATATTTAAAT
Found at i:38143209 original size:135 final size:134
Alignment explanation
Indices: 38142932--38143203 Score: 325
Period size: 135 Copynumber: 2.0 Consensus size: 134
38142922 TCACAGGAGT
* *
38142932 GATGATAGACGACCGGAATCTGGAAATGATAGGTATAGAAATAGGGATCAATGCCGTCGAGCACC
1 GATGATAGACGACCGGAATCTGAAAATGATAGGTATAGAAATAGGGATCAACGCCGTCGAGCACC
* * **
38142997 GCATGATTCGGATGATGATGATGAGAAGCGAAAAAGGTCCGGCAGAAATTCCGAAAGTGAGAATA
66 GCATGAGTCGGATGATGATGATGAGAAGCGAAAAAGGTCCGGCAGAAATACCGAAAGCAAGAATA
38143062 GAAG
131 GAAG
* * *
38143066 TGATGATAGACGGCCGGAATCTGAAAATGATAGGTAT-GTAAATAGTGATCAACGCCGTC-ATTC
1 -GATGATAGACGACCGGAATCTGAAAATGATAGGTATAG-AAATAGGGATCAACGCCGTCGA-GC
* * * * *
38143129 ACGGCATGAGTCGGATGATGGTGATGAGGATCA-CGGAAGAAGGTCCGGCAGAAGTACCGAAGGC
63 ACCGCATGAGTCGGATGATGATGATGA-GA--AGC-GAAAAAGGTCCGGCAGAAATACCGAAAGC
*
38143193 AAGAATGGAAG
124 AAGAATAGAAG
38143204 TGATAGGAAA
Statistics
Matches: 116, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
134 2 0.02
135 77 0.66
136 2 0.02
137 1 0.01
138 34 0.29
ACGTcount: A:0.35, C:0.15, G:0.32, T:0.18
Consensus pattern (134 bp):
GATGATAGACGACCGGAATCTGAAAATGATAGGTATAGAAATAGGGATCAACGCCGTCGAGCACC
GCATGAGTCGGATGATGATGATGAGAAGCGAAAAAGGTCCGGCAGAAATACCGAAAGCAAGAATA
GAAG
Found at i:38163220 original size:58 final size:58
Alignment explanation
Indices: 38163149--38163268 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
38163139 ATCCATCAAC
* * *
38163149 AAACTAAACCCAAATATTTTTAAACCTAAATATAATTTCATTCTTTAAA-AACATTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTC-CTAAATAACACTCAT
* *
38163207 AAACTAAATCCAAATATTTTTAAACCCAAATATAATTTTATTCCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
38163265 AAAC
1 AAAC
38163269 AACTCATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 4 0.07
58 52 0.93
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCAT
Found at i:38173729 original size:17 final size:18
Alignment explanation
Indices: 38173709--38173742 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38173699 ATTGTTTTAT
38173709 ATTTTTT-ATTTATAATC
1 ATTTTTTAATTTATAATC
38173726 ATTTTTTAATTTATAAT
1 ATTTTTTAATTTATAAT
38173743 GTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTTTAATTTATAATC
Found at i:38177513 original size:25 final size:26
Alignment explanation
Indices: 38177475--38177531 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
38177465 TTAAACAAGA
38177475 AGGCC-AAGGAACTGTGGGAGATTCG
1 AGGCCAAAGGAACTGTGGGAGATTCG
* *
38177500 ATGCCAAAGG-ACTGTGGGCGATTCG
1 AGGCCAAAGGAACTGTGGGAGATTCG
38177525 AGGCCAA
1 AGGCCAA
38177532 GTGATATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.28, C:0.19, G:0.37, T:0.16
Consensus pattern (26 bp):
AGGCCAAAGGAACTGTGGGAGATTCG
Found at i:38184840 original size:17 final size:17
Alignment explanation
Indices: 38184818--38184856 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
38184808 AGGTGGAGAA
* *
38184818 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
38184835 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
38184852 CTTGT
1 CTTGT
38184857 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:38185514 original size:15 final size:15
Alignment explanation
Indices: 38185476--38185517 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
38185466 TGGAAAGGTA
*
38185476 AACCCAACTAAAGTG
1 AACCCAATTAAAGTG
38185491 AACCCAATTAAAGTG
1 AACCCAATTAAAGTG
*
38185506 AACCTAATTAAA
1 AACCCAATTAAA
38185518 CTGGATTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.50, C:0.21, G:0.10, T:0.19
Consensus pattern (15 bp):
AACCCAATTAAAGTG
Found at i:38186019 original size:13 final size:13
Alignment explanation
Indices: 38185978--38186021 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
38185968 AATATAATTA
38185978 TTAATATTTATAT
1 TTAATATTTATAT
*
38185991 TTGATTATTTTATAT
1 TT-AATA-TTTATAT
*
38186006 TTAATATATATAT
1 TTAATATTTATAT
38186019 TTA
1 TTA
38186022 TTGGTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 11 0.42
14 6 0.23
15 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TTAATATTTATAT
Found at i:38186117 original size:20 final size:20
Alignment explanation
Indices: 38186092--38186143 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
38186082 TTTAATTTAA
*
38186092 ATAAATAAATATGAAC-ACAT
1 ATAAATAAATATAAACGA-AT
38186112 ATAAATATAA-ATAAACGAAT
1 ATAAATA-AATATAAACGAAT
38186132 ATAAATAAATAT
1 ATAAATAAATAT
38186144 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
20 23 0.82
21 3 0.11
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (20 bp):
ATAAATAAATATAAACGAAT
Found at i:38190221 original size:16 final size:16
Alignment explanation
Indices: 38190196--38190226 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38190186 CTTATTGGAG
*
38190196 GAATTCAATCAAATTT
1 GAATTAAATCAAATTT
38190212 GAATTAAATCAAATT
1 GAATTAAATCAAATT
38190227 ACTTTATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
GAATTAAATCAAATTT
Found at i:38194865 original size:20 final size:20
Alignment explanation
Indices: 38194842--38194954 Score: 74
Period size: 20 Copynumber: 5.8 Consensus size: 20
38194832 AAAAAAAAAT
38194842 TATTGTAAATAATTATTAAA
1 TATTGTAAATAATTATTAAA
* *
38194862 TATTGTTAAA-AATATTTTTAA
1 TATTG-TAAATAAT-TATTAAA
*
38194883 -ATTGTAGAATAGTTATTAAA
1 TATTGTA-AATAATTATTAAA
* ** *
38194903 AATAATAAA-AATTATT-TA
1 TATTGTAAATAATTATTAAA
* *
38194921 T-TTTTAAAAAATTATTAAA
1 TATTGTAAATAATTATTAAA
*
38194940 AATTGTAAATAATTA
1 TATTGTAAATAATTA
38194955 ACAAGTCAAA
Statistics
Matches: 69, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
17 5 0.07
18 8 0.12
19 9 0.13
20 32 0.46
21 15 0.22
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TATTGTAAATAATTATTAAA
Found at i:38195068 original size:17 final size:17
Alignment explanation
Indices: 38194987--38195069 Score: 55
Period size: 17 Copynumber: 4.7 Consensus size: 17
38194977 TTTTTATAAT
38194987 TTTTTACAATTTTAAAATA
1 TTTTTACAA-TTT-AAATA
*
38195006 TTTTTAACAATATT-TAT-
1 TTTTT-ACAAT-TTAAATA
*
38195023 TTTTTACAATTATTAAA-C
1 TTTTTACAA-T-TTAAATA
* *
38195041 TTTTGATAATTTAAATA
1 TTTTTACAATTTAAATA
38195058 TTTTTACAATTT
1 TTTTTACAATTT
38195070 TTTAATCTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
16 9 0.18
17 20 0.39
18 10 0.20
19 6 0.12
20 6 0.12
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.55
Consensus pattern (17 bp):
TTTTTACAATTTAAATA
Found at i:38195327 original size:6 final size:6
Alignment explanation
Indices: 38195318--38195362 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
38195308 TTTATTTCTA
* *
38195318 AAATTT AAATTT -AATTT AAGTTT AAATTT ACATTT AAATTT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT
38195363 AAGTAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (6 bp):
AAATTT
Found at i:38195347 original size:12 final size:11
Alignment explanation
Indices: 38195302--38195360 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 11
38195292 CTCAACTCAT
*
38195302 TTTAAATTTAT
1 TTTAAATTTAA
38195313 TTCTAAAATTTAAA
1 TT-T-AAATTT-AA
38195327 TTT-AATTTAA
1 TTTAAATTTAA
38195337 GTTTAAATTTACA
1 -TTTAAATTTA-A
38195350 TTTAAATTTAA
1 TTTAAATTTAA
38195361 ATAAGTAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
10 2 0.05
11 11 0.27
12 17 0.41
13 8 0.20
14 3 0.07
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:38195354 original size:18 final size:17
Alignment explanation
Indices: 38195302--38195362 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 17
38195292 CTCAACTCAT
*
38195302 TTTAAATTTATTTCTAAAA
1 TTTAAATTTAATT-T-AAA
*
38195321 TTTAAATTTAATTTAAG
1 TTTAAATTTAATTTAAA
38195338 TTTAAATTTACATTTAAA
1 TTTAAATTTA-ATTTAAA
38195356 TTTAAAT
1 TTTAAAT
38195363 AAGTAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.32
18 14 0.37
19 12 0.32
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:38195445 original size:26 final size:27
Alignment explanation
Indices: 38195374--38195445 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
38195364 AGTAAAAATT
* *
38195374 CAAATACAGAATGTCCATTTAAAAGTCC
1 CAAATACA-AATGCCCAATTAAAAGTCC
*
38195402 CACATAC-AA-GCCCAAATTAAAAGT-C
1 CAAATACAAATGCCC-AATTAAAAGTCC
38195427 CAAATACAAATGCCCAATT
1 CAAATACAAATGCCCAATT
38195446 GGGCCCAAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
25 10 0.27
26 17 0.46
27 4 0.11
28 6 0.16
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (27 bp):
CAAATACAAATGCCCAATTAAAAGTCC
Found at i:38197218 original size:30 final size:27
Alignment explanation
Indices: 38197194--38197410 Score: 145
Period size: 28 Copynumber: 7.5 Consensus size: 27
38197184 AAACTATTCT
38197194 AAAAATTACATTTTACCCTCAAACTTCC
1 AAAAATTACATTTTACCCTCAAACTT-C
*
38197222 AAAAATTATATTTTTTAACCC-CAAAACTTC
1 AAAAATTACA--TTTT-ACCCTC-AAACTTC
38197252 TAAAAATTACATTTTTACTCC-CAAACTTCC
1 -AAAAATTACA-TTTTAC-CCTCAAACTT-C
* *
38197282 AAAAATTCCATTTTAACCCTGAAACTTC
1 AAAAATTACATTTT-ACCCTCAAACTTC
* * * *
38197310 CAAAATTACATTTTACCCCCGAGCTTTC
1 AAAAATTACATTTTACCCTCAAAC-TTC
*
38197338 AAAGATTACATTTTTGA-CCTCGAAACTTTC
1 AAAAATTACA-TTTT-ACCCTC-AAAC-TTC
* *
38197368 AAAAAATACCATTTTACCCTCGAATA-TCC
1 AAAAATTA-CATTTTACCCTC-AA-ACTTC
*
38197397 AAAAATTCCATTTT
1 AAAAATTACATTTT
38197411 TGATCCCGAT
Statistics
Matches: 153, Mismatches: 20, Indels: 32
0.75 0.10 0.16
Matches are distributed among these distances:
27 6 0.04
28 45 0.29
29 41 0.27
30 39 0.25
31 22 0.14
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAAATTACATTTTACCCTCAAACTTC
Found at i:38197226 original size:29 final size:28
Alignment explanation
Indices: 38197194--38197410 Score: 174
Period size: 29 Copynumber: 7.5 Consensus size: 28
38197184 AAACTATTCT
38197194 AAAAATTACATTTTACCCTCAAACTTCC
1 AAAAATTACATTTTACCCTCAAACTTCC
* *
38197222 AAAAATTATATTTTTTAACCC-CAAAACTTCT
1 AAAAATTACA--TTTT-ACCCTC-AAACTTCC
38197253 AAAAATTACATTTTTACTCC-CAAACTTCC
1 AAAAATTACA-TTTTAC-CCTCAAACTTCC
* *
38197282 AAAAATTCCATTTTAACCCTGAAACTTCC
1 AAAAATTACATTTT-ACCCTCAAACTTCC
* * * *
38197311 -AAAATTACATTTTACCCCCGAGCTTTC
1 AAAAATTACATTTTACCCTCAAACTTCC
* *
38197338 AAAGATTACATTTTTGA-CCTCGAAACTTTC
1 AAAAATTACA-TTTT-ACCCTC-AAACTTCC
* *
38197368 AAAAAATACCATTTTACCCTCGAA-TATCC
1 AAAAATTA-CATTTTACCCTCAAACT-TCC
*
38197397 AAAAATTCCATTTT
1 AAAAATTACATTTT
38197411 TGATCCCGAT
Statistics
Matches: 153, Mismatches: 22, Indels: 28
0.75 0.11 0.14
Matches are distributed among these distances:
27 9 0.06
28 42 0.27
29 46 0.30
30 34 0.22
31 22 0.14
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAAATTACATTTTACCCTCAAACTTCC
Found at i:38197409 original size:59 final size:57
Alignment explanation
Indices: 38197194--38197413 Score: 153
Period size: 59 Copynumber: 3.8 Consensus size: 57
38197184 AAACTATTCT
* * * ** * **
38197194 AAAAATTACATTTTACCCTC-AAACTTCCAAAAATTATATTTTTTAACCCCAAAACTTC
1 AAAAAATACATTTTACCCCCGAGA-TTCCAAAAATTCCA-TTTTTGACCCTGAAACTTC
* * * *
38197252 TAAAAATTACATTTTTACTCCC-AAACTTCCAAAAATTCCA-TTTTAACCCTGAAACTTC
1 -AAAAAATACA-TTTTACCCCCGAGA-TTCCAAAAATTCCATTTTTGACCCTGAAACTTC
* * * * * *
38197310 CAAAATTACATTTTACCCCCGAGCTTTCAAAGATTACATTTTTGA-CCTCGAAACTTTC
1 AAAAAATACATTTTACCCCCGAGATTCCAAAAATTCCATTTTTGACCCT-GAAAC-TTC
*
38197368 AAAAAATACCATTTTACCCTCGA-ATATCCAAAAATTCCATTTTTGA
1 AAAAAATA-CATTTTACCCCCGAGAT-TCCAAAAATTCCATTTTTGA
38197414 TCCCGATTTT
Statistics
Matches: 133, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
56 23 0.17
57 20 0.15
58 26 0.20
59 40 0.30
60 24 0.18
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.34
Consensus pattern (57 bp):
AAAAAATACATTTTACCCCCGAGATTCCAAAAATTCCATTTTTGACCCTGAAACTTC
Found at i:38197481 original size:58 final size:59
Alignment explanation
Indices: 38197367--38197498 Score: 137
Period size: 58 Copynumber: 2.3 Consensus size: 59
38197357 TCGAAACTTT
* * * * * *
38197367 CAAAAAATACCATTTTACCCTCGAATATCCAAAAATTCCATTTTTGATCCCGA-TTTTTC
1 CAAAAATTACCA-TTTACCCCCAAATATCCAAAAATTCCATTTTTAACCCCAATTTTTTC
* *
38197426 CAAAAATTACCATTTACCCCCAAATGTCC-AAAATGT-CATTTTTAACCCCAAATTTTTTT
1 CAAAAATTACCATTTACCCCCAAATATCCAAAAAT-TCCATTTTTAACCCC-AATTTTTTC
38197485 C-AAAATTACCATTT
1 CAAAAATTACCATTT
38197499 TGCCCCTGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
57 16 0.26
58 29 0.47
59 17 0.27
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.36
Consensus pattern (59 bp):
CAAAAATTACCATTTACCCCCAAATATCCAAAAATTCCATTTTTAACCCCAATTTTTTC
Found at i:38204606 original size:50 final size:49
Alignment explanation
Indices: 38204447--38204607 Score: 121
Period size: 50 Copynumber: 3.2 Consensus size: 49
38204437 GTGGATCCAG
*
38204447 TACCGCAAAGATACAAAAGGGAAACGTGACGACCGTAACGGTGAACCTTA
1 TACCGCAAAGATACAAAAGGGAAAGGTGACGACCGTAACGG-GAACCTTA
** ** * * * * * * * *
38204497 TACCTTAAAGATA-GGATGAGAAAGATCTAAGACTGCAACGATGGATCC--A
1 TACCGCAAAGATACAAAAGGGAAAGGT-GACGACCGTAACG--GGAACCTTA
38204546 GTACCGCAAAGATACAAAAGGGAAAGGTGACGACCGTAACGGCGAACCTTA
1 -TACCGCAAAGATACAAAAGGGAAAGGTGACGACCGTAACGG-GAACCTTA
*
38204597 TACCTCAAAGA
1 TACCGCAAAGA
38204608 CATGACGGGA
Statistics
Matches: 77, Mismatches: 26, Indels: 16
0.65 0.22 0.13
Matches are distributed among these distances:
48 1 0.01
49 12 0.16
50 50 0.65
51 13 0.17
52 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (49 bp):
TACCGCAAAGATACAAAAGGGAAAGGTGACGACCGTAACGGGAACCTTA
Found at i:38204694 original size:100 final size:100
Alignment explanation
Indices: 38204407--38204727 Score: 376
Period size: 100 Copynumber: 3.2 Consensus size: 100
38204397 GAACCATGAA
* * * *
38204407 ACACAACGGGAAAGATCTAAGATCGCAACAGTGGATCCAGTACCGCAAAGATACAAAAGGGAAAC
1 ACACGACGGGAAAGATCTAAGACCGCAACGGTGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
*
38204472 GTGACGACCGTAACGGTGAACCTTATACCTTAAAG
66 GTGACGACCGTAACGGTGAACCTTATACCTCAAAG
* * * * * *
38204507 ATAGGATGAGAAAGATCTAAGACTGCAACGATGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
1 ACACGACGGGAAAGATCTAAGACCGCAACGGTGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
*
38204572 GTGACGACCGTAACGGCGAACCTTATACCTCAAAG
66 GTGACGACCGTAACGGTGAACCTTATACCTCAAAG
* * * *
38204607 ACATGACGGGAAAGATCTAAGACCGTAACGGTGGATCCA-TGACCGTAAAGATACAAAAGGGAAG
1 ACACGACGGGAAAGATCTAAGACCGCAACGGTGGATCCAGT-ACCGCAAAGATACAAAAGGGAAA
*** ** * * *
38204671 GGT-TTTAGGGTCAACGATAAACCTTGTACCTCAAAG
65 GGTGACGACCGT-AACGGTGAACCTTATACCTCAAAG
* *
38204707 ACACGACAGAAAAGATCTAAG
1 ACACGACGGGAAAGATCTAAG
38204728 GATGCAACAC
Statistics
Matches: 186, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
99 4 0.02
100 182 0.98
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (100 bp):
ACACGACGGGAAAGATCTAAGACCGCAACGGTGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
GTGACGACCGTAACGGTGAACCTTATACCTCAAAG
Found at i:38204845 original size:49 final size:48
Alignment explanation
Indices: 38204740--38204853 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 48
38204730 TGCAACACCG
* *
38204740 GATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCGTAACGACGA
1 GATCCAGTACCACGAAGACAGGAAGAGAAAGATCTAAGCCG--ACGACGA
* *
38204790 -ACCCAGTACTACGAAGACAGGAAGAGAAAGATCTAAGCCG-CGACGGTA
1 GATCCAGTACCACGAAGACAGGAAGAGAAAGATCTAAGCCGACGAC-G-A
38204838 GATCCAGTACCACGAA
1 GATCCAGTACCACGAA
38204854 TTGAAGAGAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
46 4 0.07
47 1 0.02
48 1 0.02
49 49 0.89
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.11
Consensus pattern (48 bp):
GATCCAGTACCACGAAGACAGGAAGAGAAAGATCTAAGCCGACGACGA
Found at i:38205190 original size:39 final size:38
Alignment explanation
Indices: 38205109--38205182 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
38205099 GATTCAAGAA
38205109 GGGCAAACTGAAGATTCTGATCTCTTACCCCGAGCAAG
1 GGGCAAACTGAAGATTCTGATCTCTTACCCCGAGCAAG
* *
38205147 GGGCAAATTGAAGCCATT-TGATCTTTTACCCCGAGC
1 GGGCAAACTGAAG--ATTCTGATCTCTTACCCCGAGC
38205183 CTGGGGCAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 12 0.38
39 17 0.53
40 3 0.09
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (38 bp):
GGGCAAACTGAAGATTCTGATCTCTTACCCCGAGCAAG
Found at i:38205476 original size:120 final size:120
Alignment explanation
Indices: 38205263--38205535 Score: 456
Period size: 120 Copynumber: 2.3 Consensus size: 120
38205253 ATGTGATCAT
* *
38205263 CTTCCTGATGAGATACTAAGAAGAAGACCAAATCAAACCCACGATCGATGTGAGCAAATCTTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGATCGATGTGAGCAAATATTCGA
* * * * *
38205328 ATCCCAGCTTTCTGATGAGATACTGAGAAGCAGGTTGAAGTAATAAAATGGTTAG
66 ATCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATTAG
*
38205383 CTTCCTGATGAGATACTGAGAAGAAGACTAAATCAAACCCACGATCGATGTGAGCAAATATTCGA
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGATCGATGTGAGCAAATATTCGA
38205448 ATCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATTAG
66 ATCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATTAG
**
38205503 CTTCCTGATGAGATACTGAGAAGTGGACCAAAT
1 CTTCCTGATGAGATACTGAGAAGAAGACCAAAT
38205536 TCGTCTTCTA
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 142 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.23
Consensus pattern (120 bp):
CTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGATCGATGTGAGCAAATATTCGA
ATCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGATTAG
Found at i:38205691 original size:152 final size:156
Alignment explanation
Indices: 38205501--38205835 Score: 446
Period size: 152 Copynumber: 2.2 Consensus size: 156
38205491 TAAAATGATT
* *
38205501 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTT-CTAAATGAGGTACAAAGAAGCG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCT-AATAAGATACAAAGAAGCG
* * * * * *
38205565 GATTGAAACAAACGAGGCGGTTATCTTCCTGATGAAATACAGAGAAGTATACC-AA-C-TCGAGG
65 GATTGAAACAAACGAGGCGGTCATCTTCCTGATGAAATACAGAGAAGAAGACCAAATCACCCACG
38205627 CTCAATACGAGCAAATCTTCGAA-CCC
130 CTCAATACGAGCAAATCTTCGAACCCC
* *
38205653 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATAAGATACAAAGAAGCGG
* * * *
38205718 ATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAACAAACGAGGCGGTCATCTTCCTGATGAAATACAGAGAAGAAGACCAAATC--ACCCAC
* **
38205783 GCTCGATGTGAGCAAATCTTCGAACCCC
129 GCTCAATACGAGCAAATCTTCGAACCCC
*
38205811 AGCTTCCTGATGAGATACTAAGAAG
1 AGCTTCCTGATGAGATACTGAGAAG
38205836 CAGGTCGAAG
Statistics
Matches: 158, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
152 103 0.65
153 4 0.03
154 1 0.01
157 23 0.15
158 27 0.17
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (156 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTAATAAGATACAAAGAAGCGG
ATTGAAACAAACGAGGCGGTCATCTTCCTGATGAAATACAGAGAAGAAGACCAAATCACCCACGC
TCAATACGAGCAAATCTTCGAACCCC
Found at i:38206007 original size:206 final size:206
Alignment explanation
Indices: 38205653--38206041 Score: 706
Period size: 206 Copynumber: 1.9 Consensus size: 206
38205643 CTTCGAACCC
38205653 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGCGG
* *
38205718 ATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAACAAGAGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
*
38205783 GCTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCA
131 GCTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTAAGAAGCAGGTCGAAGCA
38205848 ATAAAATAGTT
196 ATAAAATAGTT
* * *
38205859 AGCTTCCTGATGAGATAGTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGG
1 AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGCGG
38205924 ATTGAAACAAGAGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAACAAGAGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
* *
38205989 GCTCGATGTGAGCAAATCTTCGAACTCCAGCTTCCTAATGAGATACTGAGAAG
131 GCTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTAAGAAG
38206042 TGGACCAAAT
Statistics
Matches: 175, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
206 175 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (206 bp):
AGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATAAGATACAGAGAAGCGG
ATTGAAACAAGAGATGCGGTCATCTTCCTAATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
GCTCGATGTGAGCAAATCTTCGAACCCCAGCTTCCTAATGAGATACTAAGAAGCAGGTCGAAGCA
ATAAAATAGTT
Found at i:38206421 original size:5 final size:5
Alignment explanation
Indices: 38206411--38206436 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
38206401 TGAGCTTCAA
38206411 GTGAT GTGAT GTGAT GTGAT GTGAT G
1 GTGAT GTGAT GTGAT GTGAT GTGAT G
38206437 AGAGGTCCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.38
Consensus pattern (5 bp):
GTGAT
Found at i:38206881 original size:23 final size:23
Alignment explanation
Indices: 38206807--38206919 Score: 113
Period size: 23 Copynumber: 5.0 Consensus size: 23
38206797 AGTGTTGGGA
* *
38206807 AAACAGTAAGCACACACAGTGC-
1 AAACAGTAGGCACACAAAGTGCG
* * * *
38206829 AATCAGTAGGCGCACATAGCGC-
1 AAACAGTAGGCACACAAAGTGCG
* *
38206851 AAATCAGTAGGCATACGAAGTGCG
1 AAA-CAGTAGGCACACAAAGTGCG
38206875 AAACAGTAGGCACACAAAGTGCG
1 AAACAGTAGGCACACAAAGTGCG
* *
38206898 AAACAGTAAGCACACACAGTGC
1 AAACAGTAGGCACACAAAGTGC
38206920 TGAACGGTAA
Statistics
Matches: 74, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
22 19 0.26
23 52 0.70
24 3 0.04
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (23 bp):
AAACAGTAGGCACACAAAGTGCG
Found at i:38206905 original size:46 final size:44
Alignment explanation
Indices: 38206807--38206919 Score: 129
Period size: 46 Copynumber: 2.5 Consensus size: 44
38206797 AGTGTTGGGA
* * *
38206807 AAACAGTAAGCACACACAGTGCAATCAGTAGGCGCACATAGCGC
1 AAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
* * *
38206851 AAATCAGTAGGCATACGA-AGTGCGAAACAGTAGGCACACAAAGTGC
1 AAA-CAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACACAAAGCGC
38206897 GAAACAGTAAGCACACACAGTGC
1 -AAACAGTAAGCACACACAGTGC
38206920 TGAACGGTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
44 3 0.05
45 16 0.29
46 34 0.61
47 3 0.05
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.12
Consensus pattern (44 bp):
AAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
Found at i:38206931 original size:23 final size:23
Alignment explanation
Indices: 38206782--38206919 Score: 109
Period size: 23 Copynumber: 5.9 Consensus size: 23
38206772 CGAAGTACTT
* *
38206782 AACAGTAAGCACACAAGTGTTGGGAA
1 AACAGTAAGCACACAA-AG-TGCG-A
*
38206808 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * *
38206830 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * *
38206852 AATCAGTAGGCATACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
38206876 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
38206899 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
38206920 TGAACGGTAA
Statistics
Matches: 92, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
22 19 0.21
23 52 0.57
24 5 0.05
25 1 0.01
26 15 0.16
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:38214881 original size:23 final size:23
Alignment explanation
Indices: 38214709--38214869 Score: 164
Period size: 23 Copynumber: 6.9 Consensus size: 23
38214699 CGAAGTACTT
* *
38214709 AACAGTAAGCACACAAGTACTGGGAA
1 AACAGTAAGCACACAA--AGTGCG-A
*
38214735 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * *
38214757 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
38214779 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
38214803 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
38214826 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
38214849 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
38214870 TGAACGGTAA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
22 19 0.16
23 77 0.66
24 6 0.05
26 15 0.13
ACGTcount: A:0.42, C:0.24, G:0.24, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:38216940 original size:18 final size:17
Alignment explanation
Indices: 38216882--38216966 Score: 91
Period size: 17 Copynumber: 4.8 Consensus size: 17
38216872 CTCAACTCAT
*
38216882 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAA
38216899 TTCTAAAATTTAAATTTAA
1 TT-T-AAATTTAAATTTAA
*
38216918 TTTAAGTTTAAATTTACA
1 TTTAAATTTAAATTTA-A
*
38216936 TTTAAATTTAAAAGTT-A
1 TTTAAATTT-AAATTTAA
38216953 TTATAAATTTAAAT
1 TT-TAAATTTAAAT
38216967 AAGTAAAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 20 0.34
18 18 0.31
19 20 0.34
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:38216964 original size:36 final size:36
Alignment explanation
Indices: 38216882--38216966 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
38216872 CTCAACTCAT
* *
38216882 TTTAAATTTAAATTTATTTCTAAAATTTAAATTTAA
1 TTTAAATTTAAATTTAATTCTAAAATTTAAAGTTAA
*
38216918 TTTAAGTTTAAATTTACATT-T-AAATTTAAAAGTT-A
1 TTTAAATTTAAATTTA-ATTCTAAAATTT-AAAGTTAA
38216953 TTATAAATTTAAAT
1 TT-TAAATTTAAAT
38216967 AAGTAAAAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
35 9 0.21
36 31 0.74
37 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (36 bp):
TTTAAATTTAAATTTAATTCTAAAATTTAAAGTTAA
Found at i:38216966 original size:6 final size:6
Alignment explanation
Indices: 38216882--38216947 Score: 73
Period size: 6 Copynumber: 11.0 Consensus size: 6
38216872 CTCAACTCAT
* *
38216882 TTTAAA TTTAAA TTT-AT TTCTAAAA TTTAAA TTT-AA TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TT-T-AAA TTTAAA TTTAAA TTTAAA TTTAAA
*
38216930 TTTACA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
38216948 AGTTATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
5 8 0.16
6 38 0.76
7 1 0.02
8 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:38217665 original size:19 final size:18
Alignment explanation
Indices: 38217632--38217674 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
38217622 TAAATGGCAT
* *
38217632 TAATAATAATTTTATTAG
1 TAATAATAATATTATTAA
38217650 TAATAATTAATATTATTAA
1 TAATAA-TAATATTATTAA
38217669 TAATAA
1 TAATAA
38217675 CGTCTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAATAATAATATTATTAA
Found at i:38218845 original size:29 final size:29
Alignment explanation
Indices: 38218803--38219000 Score: 204
Period size: 30 Copynumber: 6.7 Consensus size: 29
38218793 AAACTATTTT
* *
38218803 AAAACTTACATTTTTACCCTCGAACTTCC
1 AAAAATTACATTTTTACCCTCAAACTTCC
*
38218832 AAAAATTACATTTTTGACCCTAAAACTTCC
1 AAAAATTACATTTTT-ACCCTCAAACTTCC
** *
38218862 AAAAATTATGTTTTTACCCTCAAACTTGC
1 AAAAATTACATTTTTACCCTCAAACTTCC
* *
38218891 AAAAATTCCATTTTTAACCCTAAAACTTCC
1 AAAAATTACATTTTT-ACCCTCAAACTTCC
* *
38218921 -AAAATTACATTTTTACCCCCTAAACTTCT
1 AAAAATTACATTTTTACCCTC-AAACTTCC
* *
38218950 AAAATTTACATTTTTAACCC-CAAAACTTTC
1 AAAAATTACATTTTT-ACCCTC-AAACTTCC
*
38218980 AAAAAATACCA-TTTTACCCTC
1 AAAAATTA-CATTTTTACCCTC
38219001 GAATGTCCAA
Statistics
Matches: 140, Mismatches: 22, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.03
29 62 0.44
30 68 0.49
31 6 0.04
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCTCAAACTTCC
Found at i:38218888 original size:59 final size:59
Alignment explanation
Indices: 38218803--38219027 Score: 253
Period size: 59 Copynumber: 3.8 Consensus size: 59
38218793 AAACTATTTT
* * *
38218803 AAAACTTACATTTTTACCCTCGAACTTCCAAAAATTACATTTTTGACCCTAAAACTTCC
1 AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTAACCCTAAAACTTCC
** * *
38218862 AAAAATTATGTTTTTACCCTCAAACTTGCAAAAATTCCATTTTTAACCCTAAAACTTCC
1 AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTAACCCTAAAACTTCC
* * * * *
38218921 -AAAATTACATTTTTACCCCCTAAACTTCTAAAATTTACATTTTTAACCCCAAAACTTTC
1 AAAAATTACATTTTTACCCTC-AAACTTCCAAAAATTACATTTTTAACCCTAAAACTTCC
* *
38218980 AAAAAATACCA-TTTTACCCTCGAA-TGTCC-AAAATGT-CATTTTTAACCC
1 AAAAATTA-CATTTTTACCCTCAAACT-TCCAAAAAT-TACATTTTTAACCC
38219028 CAATTTTTTT
Statistics
Matches: 140, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
58 34 0.24
59 89 0.64
60 15 0.11
61 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTAACCCTAAAACTTCC
Found at i:38219101 original size:29 final size:29
Alignment explanation
Indices: 38219040--38219101 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
38219030 ATTTTTTTTC
* * *
38219040 AAAATTACCGTTTTGCCCCCGAGAGTCCC
1 AAAATTACCATTTTACCCCCGAGAGTCCA
*
38219069 AAAATTACCATTTTACCCTCGAGTA-TCCA
1 AAAATTACCATTTTACCCCCGAG-AGTCCA
38219098 AAAA
1 AAAA
38219102 GTCTCATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAGAGTCCA
Found at i:38220747 original size:13 final size:12
Alignment explanation
Indices: 38220729--38220753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38220719 CTGTGTGTAT
38220729 TTAAAAATATTA
1 TTAAAAATATTA
38220741 TTAAAAATATTA
1 TTAAAAATATTA
38220753 T
1 T
38220754 GCGTAAAAGA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAAATATTA
Found at i:38234555 original size:3 final size:3
Alignment explanation
Indices: 38234542--38234575 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
38234532 CTATTTGTTC
* *
38234542 CTT CAT CTT CTT CTT CTT CAT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
38234576 AGTATCTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.59
Consensus pattern (3 bp):
CTT
Found at i:38234562 original size:15 final size:15
Alignment explanation
Indices: 38234542--38234576 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
38234532 CTATTTGTTC
38234542 CTTCATCTTCTTCTT
1 CTTCATCTTCTTCTT
38234557 CTTCATCTTCTTCTT
1 CTTCATCTTCTTCTT
38234572 CTTCA
1 CTTCA
38234577 GTATCTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (15 bp):
CTTCATCTTCTTCTT
Found at i:38235528 original size:15 final size:16
Alignment explanation
Indices: 38235498--38235536 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
38235488 TAATAAAAAT
38235498 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
38235515 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
38235530 ATAATTT
1 ATAATTT
38235537 TTAAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:38236862 original size:21 final size:21
Alignment explanation
Indices: 38236816--38236871 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
38236806 ATTTTTTTAC
* * *
38236816 AATTTTTTTATAATCTCTTAGT
1 AATTTTTATATAAT-TATTAAT
38236838 -ATTTTTATATAATTATTAAT
1 AATTTTTATATAATTATTAAT
38236858 AATTTTTATA-AATT
1 AATTTTTATATAATT
38236872 CTAATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 9 0.30
21 21 0.70
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTTTTATATAATTATTAAT
Found at i:38236876 original size:19 final size:21
Alignment explanation
Indices: 38236838--38236876 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38236828 ATCTCTTAGT
*
38236838 ATTTTTATATAATTATTAATA
1 ATTTTTATATAATTACTAATA
38236859 ATTTTTATA-AATT-CTAAT
1 ATTTTTATATAATTACTAAT
38236877 TTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTATATAATTACTAATA
Found at i:38237019 original size:19 final size:21
Alignment explanation
Indices: 38236981--38237019 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38236971 ATCTCTTAGT
*
38236981 ATTTTTATATAATTATTAATA
1 ATTTTTATATAATTACTAATA
38237002 ATTTTTATA-AATT-CTAAT
1 ATTTTTATATAATTACTAAT
38237020 TTTTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTTTATATAATTACTAATA
Found at i:38237126 original size:141 final size:142
Alignment explanation
Indices: 38236824--38237113 Score: 555
Period size: 141 Copynumber: 2.0 Consensus size: 142
38236814 ACAATTTTTT
38236824 TATAATCTCTTAGTATTTTTATATAATTATTAATAATTTTTATAAATTCTAATTTTTTTTTTTTA
1 TATAATCTCTTAGTATTTTTATATAATTATTAATAATTTTTATAAATTCTAA-TTTTTTTTTTTA
38236889 TAGTTTGAACTCAACTAGAACAAATAGTTGTTTAAATTTAAATGAACCTGTATAATCATATGTTC
65 TAGTTTGAACTCAACTAGAACAAATAGTTGTTTAAATTTAAATGAACCTGTATAATCATATGTTC
38236954 AGATTCATTCCAA
130 AGATTCATTCCAA
38236967 TATAATCTCTTAGTATTTTTATATAATTATTAATAATTTTTATAAATTCTAA-TTTTTTTTTTAT
1 TATAATCTCTTAGTATTTTTATATAATTATTAATAATTTTTATAAATTCTAATTTTTTTTTTTAT
*
38237031 AGTTTGAACTCATCTAGAACAAATAGTTGTTTAAATTTAAATGAACCTGTATAATCATATGTTCA
66 AGTTTGAACTCAACTAGAACAAATAGTTGTTTAAATTTAAATGAACCTGTATAATCATATGTTCA
38237096 GATTCATTCCAA
131 GATTCATTCCAA
38237108 TATAAT
1 TATAAT
38237114 TTTTATTAAT
Statistics
Matches: 146, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 94 0.64
143 52 0.36
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (142 bp):
TATAATCTCTTAGTATTTTTATATAATTATTAATAATTTTTATAAATTCTAATTTTTTTTTTTAT
AGTTTGAACTCAACTAGAACAAATAGTTGTTTAAATTTAAATGAACCTGTATAATCATATGTTCA
GATTCATTCCAA
Found at i:38239562 original size:5 final size:5
Alignment explanation
Indices: 38239552--38239588 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
38239542 ATAAATATTT
38239552 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AA
38239589 ATCCCCTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:38239702 original size:19 final size:19
Alignment explanation
Indices: 38239678--38239714 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
38239668 ATGATACCCT
38239678 GGAAAAT-TTGTGTGGAAAA
1 GGAAAATATT-TGTGGAAAA
38239697 GGAAAATATTTGTGGAAA
1 GGAAAATATTTGTGGAAA
38239715 GCAGTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (19 bp):
GGAAAATATTTGTGGAAAA
Found at i:38243738 original size:17 final size:17
Alignment explanation
Indices: 38243716--38243756 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
38243706 AATCTCCAAC
38243716 TACTTCATATTGGGCTT
1 TACTTCATATTGGGCTT
38243733 TACTTCATATTGGGCTT
1 TACTTCATATTGGGCTT
38243750 TAGCTTC
1 TA-CTTC
38243757 TTGAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (17 bp):
TACTTCATATTGGGCTT
Found at i:38252951 original size:16 final size:17
Alignment explanation
Indices: 38252930--38252962 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38252920 ATAATGAGTG
38252930 TAAAAA-TATTAAAAAA
1 TAAAAATTATTAAAAAA
38252946 TAAAAATTATTAAAAAA
1 TAAAAATTATTAAAAAA
38252963 AATTGTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAAAATTATTAAAAAA
Done.