Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 43 of 230
Found at i:11655623 original size:40 final size:39
Alignment explanation
Indices: 11655567--11655673 Score: 117
Period size: 39 Copynumber: 2.7 Consensus size: 39
11655557 ACAGAAGCAT
* *
11655567 CGAAGTACAAACAGAGACA-CGAATGTGCAATCAGCGGCAC
1 CGAAGTGCAAACAGAGACACCGAA-GTGCAAT-AGAGGCAC
* * *
11655607 TGAAGTGCAAACAGAGATACCGAAGTGTAATAGAGGCAC
1 CGAAGTGCAAACAGAGACACCGAAGTGCAATAGAGGCAC
* * *
11655646 CAAAGTGCAAACAGAGGCACTGAAGTGC
1 CGAAGTGCAAACAGAGACACCGAAGTGC
11655674 GCGCATACTG
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 29 0.53
40 22 0.40
41 4 0.07
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (39 bp):
CGAAGTGCAAACAGAGACACCGAAGTGCAATAGAGGCAC
Found at i:11661054 original size:92 final size:92
Alignment explanation
Indices: 11660895--11661062 Score: 273
Period size: 92 Copynumber: 1.8 Consensus size: 92
11660885 CACGCCATCC
* * * *
11660895 GAGGCTCCTCGTCTCGAGGCTTGACAAGCCCCTGCCGCCATTTCACCAAAATGGCAAGGGCATCC
1 GAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGGCAAAGGCACCC
11660960 TTCTCTCCCCGCCATCTCACACCACCT
66 TTCTCTCCCCGCCATCTCACACCACCT
* * *
11660987 GAGGCTCCTTGTCCCGAGGCCTGACACGCCCCTGCCGCCATTTCACCAAAATGGCAAAGGCGCCC
1 GAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGGCAAAGGCACCC
11661052 TTCTCTCCCCG
66 TTCTCTCCCCG
11661063 ACGTTGACCG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 69 1.00
ACGTcount: A:0.18, C:0.42, G:0.20, T:0.20
Consensus pattern (92 bp):
GAGGCTCCTCGTCCCGAGGCCTGACAAGCCCCTGCCGCCATTTCACCAAAATGGCAAAGGCACCC
TTCTCTCCCCGCCATCTCACACCACCT
Found at i:11661351 original size:17 final size:18
Alignment explanation
Indices: 11661329--11661363 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11661319 TTTTTATTTT
11661329 AGAAAAA-AAAAGAATAA
1 AGAAAAAGAAAAGAATAA
*
11661346 AGAAAAAGAAAATAATAA
1 AGAAAAAGAAAAGAATAA
11661364 GTAAAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (18 bp):
AGAAAAAGAAAAGAATAA
Found at i:11662362 original size:3 final size:3
Alignment explanation
Indices: 11662335--11662409 Score: 57
Period size: 3 Copynumber: 25.3 Consensus size: 3
11662325 TGTATCCCTC
* * *
11662335 TTA TCA TTA TT- TTA TCTA CTTA TTA TTA TTA TTA -TA ATA TGA TTA
1 TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11662380 TTA ATA TTA TTA TTA -CA TTA TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11662410 AGTATTCCTT
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
2 5 0.09
3 46 0.82
4 4 0.07
5 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:11662369 original size:20 final size:19
Alignment explanation
Indices: 11662334--11662409 Score: 55
Period size: 20 Copynumber: 3.7 Consensus size: 19
11662324 TTGTATCCCT
*
11662334 CTTATCATTATT-TTATCTA
1 CTTATTATTATTATTAT-TA
11662353 CTTATTATTATTATTATAATA
1 CTTATTATTATTATTAT--TA
* *
11662374 TGATTATTAATATTATTATTA
1 --CTTATTATTATTATTATTA
*
11662395 CATTATTATTGTTAT
1 C-TTATTATTATTAT
11662410 AGTATTCCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
19 11 0.24
20 15 0.33
21 4 0.09
23 15 0.33
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.58
Consensus pattern (19 bp):
CTTATTATTATTATTATTA
Found at i:11662402 original size:23 final size:23
Alignment explanation
Indices: 11662354--11662404 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
11662344 TTTTATCTAC
* *
11662354 TTATTATTATTATTATAATATGA
1 TTATTAATATTATTATAACATGA
* *
11662377 TTATTAATATTATTATTACATTA
1 TTATTAATATTATTATAACATGA
11662400 TTATT
1 TTATT
11662405 GTTATAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATTAATATTATTATAACATGA
Found at i:11679291 original size:29 final size:29
Alignment explanation
Indices: 11679196--11680675 Score: 1101
Period size: 29 Copynumber: 54.3 Consensus size: 29
11679186 GGTTTTTACA
11679196 TTAATTAAATTAGGTTAGGGTTAGGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGG-TTT
** * ** * ** *
11679226 CAAATAAAATGATAAATCAAAGTAAGGGTTT
1 TTAATTAAAT--TAGGTTAGGGTTAGGGTTT
* *
11679257 TCAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11679286 TTAATTAAGA-TAGGTTAGAGTTTGGG-TT
1 TTAATTAA-ATTAGGTTAGGGTTAGGGTTT
* *
11679314 TTCATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
11679344 TTAACT-AA-T---TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11679367 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11679396 TTAGTTAAAATAGGTTAGGGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11679424 TTCATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
* *
11679454 TTAACT-AA--A--TTA-GGTTAGGCTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** *
11679477 TTAATTAAATTAAAATAGGGTAAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** *
11679506 TTAATTAAATTAAAATAGGGTAAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11679535 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11679563 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11679592 TTAATTAAAATAGGTTAGGGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* * *
11679620 TTCATGTAAAATAAGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
11679650 TTAACTAAATTAGGTTA-GG-T----TTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** *
11679673 TTAATTAAATTAAAATAGGGTAAGGGTTTTT
1 TTAATTAAATTAGGTTAGGGTTAGGG--TTT
*
11679704 AATTAAATTAAATTAGGTTAGGGTTAGGGATT
1 --TT-AATTAAATTAGGTTAGGGTTAGGGTTT
*
11679736 TTAATTAAAATAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11679765 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** *
11679788 TTAATTAAATTAAAATAGGGTAAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11679817 TTAATTAAATTAGGTTAGGGTTAGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11679846 TTAATAAAAATAGGTTAGGGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11679874 TTCATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
11679904 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*** * *
11679927 TTAATTAAATTAAAATAGGGTAAGGGTCT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* ** *
11679956 TTAATTAATTTAAATTA-AGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11679984 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11680012 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11680040 TTAATT--A--A-GTTA-AGTTAGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11680063 TTAATTAAAATAGGTTAGGGTTAGAGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680092 TTAACTAAATTAGGTTAGGG--A----TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
** *
11680115 TTAATTAAATTAAATTA-GGTTAGAGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11680143 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11680171 TTAATT--A--A-GTTA-AGTTAGGGCTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680194 TTAATTAAAATAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680223 TTAACTAAATTAGGTTAGGG--A----TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
11680246 TTAATTAAATTAGGTTAGGG--A----TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
** * * *
11680269 TTAATTAAATTAAATTA-AGTTGGGGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11680297 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11680325 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680353 TTAATT--A--A-GTTA-AGTTAGGG-TT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
11680375 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680404 TT-ATGTAAAATAGGTTAGGGTTAGGGTTT
1 TTAAT-TAAATTAGGTTAGGGTTAGGGTTT
*
11680433 TTAACT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11680456 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
11680484 TTAATT-AA--A--TTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
**
11680507 TTAATTAAATTAAATTA-GGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* * *
11680535 TAAATT-AA----GTTA-AGTTAGGATTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680558 TTAATTAAATTAGGTTAGGGTAAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
* *
11680587 TTAATTAAATTAAGTTA-GGTTA-GGATT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680614 TTAATT--A--A-GTTA-AGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
11680637 TTAATTAAATTAGGTTAGGGTTAGGGTTT
1 TTAATTAAATTAGGTTAGGGTTAGGGTTT
*
11680666 TTAATCAAAT
1 TTAATTAAAT
11680676 AATGTCAAAA
Statistics
Matches: 1208, Mismatches: 138, Indels: 209
0.78 0.09 0.13
Matches are distributed among these distances:
22 19 0.02
23 244 0.20
24 36 0.03
25 6 0.00
26 13 0.01
27 25 0.02
28 302 0.25
29 485 0.40
30 31 0.03
31 13 0.01
32 12 0.01
33 2 0.00
34 20 0.02
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (29 bp):
TTAATTAAATTAGGTTAGGGTTAGGGTTT
Found at i:11679360 original size:23 final size:23
Alignment explanation
Indices: 11679333--11679388 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
11679323 AATAGGTTAG
*
11679333 GGTTAGGGTTTTTAACTAATTTA
1 GGTTAGGGTTTTTAACTAAATTA
*
11679356 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAACTAAATTA
11679379 GGTTAGGGTT
1 GGTTAGGGTT
11679389 AGGGATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.02, G:0.27, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAACTAAATTA
Found at i:11679568 original size:23 final size:23
Alignment explanation
Indices: 11679443--11680658 Score: 490
Period size: 23 Copynumber: 45.4 Consensus size: 23
11679433 AATAGGTTAG
*
11679443 GGTTAGGGTTTTTAACTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
11679466 GGTTAGGCTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
*
11679494 GGGTAAGGGTTTTTAATTAAATTAAAATA
1 -GGTTAGGGTTTTTAATTAAA-T----TA
*
11679523 GGGTAAGGGTTTTTAATTAAATTAAATTA
1 -GGTTAGGG-T-TT--TT-AATTAAATTA
11679552 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
11679575 GGTTAGGGTTAGGGATTTTAATTAAAATA
1 GGTTAGGG-T-----TTTTAATTAAATTA
*
11679604 GGTTAGGGTTAGGGTTTTCATGTAAAATAAGTTA
1 GGTTAGGG-T----TTTTAAT-T-A---AA-TTA
*
11679638 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
11679662 GGTTAGGTTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
*
11679690 GGGTAAGGGTTTTTAATTAAATTAAATTA
1 -GGTTAGGG-T-TT--TT-AATTAAATTA
11679719 GGTTAGGGTTAGGGATTTTAATTAAAATAGGTTA
1 GGTTAGGG-T-----TTTTAATT--AA-A--TTA
*
11679753 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
11679777 GGTTAGGGTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
*
11679805 GGGTAAGGGTTTTTAATTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
* *
11679829 GGTTAGGGTTAGGGATTTTAATAAAAATA
1 GGTTAGGG-T-----TTTTAATTAAATTA
*
11679858 GGTTAGGGTTAGGGTTTTCATGTAAAATAGGTTA
1 GGTTAGGG-T----TTTTAAT-T-A-A-A--TTA
*
11679892 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
11679916 GGTTAGGGTTTTTAATTAAATTAAAATA
1 GGTTAGGGTTTTTAATTAAA-T----TA
* *
11679944 GGGTAAGGGTCTTTAATTAATTTAAATTA
1 -GGTTAGGGTTTTTAA-T----TAAATTA
*
11679973 AGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
11680001 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
*
11680029 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
11680052 AGTTAGGATTTTTAATTAAAATAGGTTA
1 GGTTAGGGTTTTTAATT--AA-A--TTA
* *
11680080 GGGTTAGAGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
11680104 GGTTAGGGATTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
*
11680132 GGTTAGAGTTTTTAATTAAATTAAATTA
1 GGTTAG-G-GTTT--TT-AATTAAATTA
*
11680160 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
11680183 AGTTAGGGCTTTTAATTAAAATAGGTTA
1 GGTTAGGGTTTTTAATT--AA-A--TTA
*
11680211 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
*
11680235 GGTTAGGGATTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
11680258 GGTTAGGGATTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
* *
11680286 AGTTGGGGATTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
11680314 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
*
11680342 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
*
11680365 AGTTAGGG-TTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
11680387 GGTTAGGGTTAGGGTTTTTATGTAAAATAGGTTA
1 GGTTAGGG-T----TTTTAAT-T-A-A-A--TTA
*
11680421 GGGTTAGGGTTTTTAACTAAATTA
1 -GGTTAGGGTTTTTAATTAAATTA
11680445 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
11680473 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
11680496 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGG--TTT--TT-AATTAAATTA
* *
11680524 GGTTAGGGTTTTAAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTA
* *
11680547 AGTTAGGATTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
11680570 GGTTAGGGTAAGGGTTTTTAATTAAATTA
1 GG-T----T-AGGGTTTTTAATTAAATTA
* * *
11680599 AGTTAGGTTAGGATTTTAATTAAGTTA
1 GGTTA-G---GGTTTTTAATTAAATTA
*
11680626 AGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
11680649 GGTTAGGGTT
1 GGTTAGGGTT
11680659 AGGGTTTTTA
Statistics
Matches: 969, Mismatches: 87, Indels: 274
0.73 0.07 0.21
Matches are distributed among these distances:
22 20 0.02
23 279 0.29
24 40 0.04
25 17 0.02
26 23 0.02
27 38 0.04
28 249 0.26
29 187 0.19
30 25 0.03
31 8 0.01
32 8 0.01
33 11 0.01
34 32 0.03
35 32 0.03
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:11682838 original size:14 final size:15
Alignment explanation
Indices: 11682821--11682854 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11682811 AATAAATATC
11682821 TAAAAATAT-ATAAA
1 TAAAAATATCATAAA
*
11682835 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
11682850 TAAAA
1 TAAAA
11682855 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:11683080 original size:22 final size:22
Alignment explanation
Indices: 11683050--11683091 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11683040 ATTTGGAGAT
*
11683050 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
11683072 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
11683092 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:11683099 original size:30 final size:30
Alignment explanation
Indices: 11683063--11683121 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
11683053 TTGAAGGAAA
*
11683063 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
11683093 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
11683122 AATTTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:11683112 original size:52 final size:51
Alignment explanation
Indices: 11683041--11683143 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
11683031 TTAATATGGA
* * *
11683041 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAA-TTGAGAG
* *
11683092 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAATTTTTGAACGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
11683144 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.09
52 37 0.82
53 4 0.09
ACGTcount: A:0.33, C:0.01, G:0.32, T:0.34
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
Found at i:11683117 original size:22 final size:22
Alignment explanation
Indices: 11683092--11683162 Score: 108
Period size: 22 Copynumber: 3.2 Consensus size: 22
11683082 AATTTGAGAG
*
11683092 TTTGAGAGAATTTTGGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
11683114 TTTGAGAGAATTTTTGAACGGAA
1 TTTGAGAGAATTTTTGAA-GGAA
11683137 -TTGAGAGAATTTTTGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
*
11683158 ATTGA
1 TTTGA
11683163 TATTGAATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 4 0.09
22 38 0.83
23 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.28, T:0.34
Consensus pattern (22 bp):
TTTGAGAGAATTTTTGAAGGAA
Found at i:11687336 original size:25 final size:24
Alignment explanation
Indices: 11687304--11687371 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
11687294 ATATAATAAG
**
11687304 ATAATTAAATTAATTATTATGTA-
1 ATAATTAAATTAATTAAAATGTAC
11687327 ATATGATTAAATTGAATTAAAATGTAC
1 ATA--ATTAAATT-AATTAAAATGTAC
11687354 ATAATTAAATTAAGTTAA
1 ATAATTAAATTAA-TTAA
11687372 GTTAATAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 3 0.08
24 2 0.05
25 20 0.53
26 10 0.26
27 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.41
Consensus pattern (24 bp):
ATAATTAAATTAATTAAAATGTAC
Found at i:11691854 original size:6 final size:6
Alignment explanation
Indices: 11691843--11691869 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11691833 CATTTTTCTG
11691843 TTTTGA TTTTGA TTTTGA TTTTGA TTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTT
11691870 ATTAAGTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:11703475 original size:26 final size:24
Alignment explanation
Indices: 11703430--11703477 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
11703420 ATATTATTGG
11703430 TATATAAAAATTGAATTAAAATTT
1 TATATAAAAATTGAATTAAAATTT
* *
11703454 TATATATACAATTGTATATAAAAT
1 TATATA-AAAATTGAAT-TAAAAT
11703478 CAAAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 8 0.40
26 6 0.30
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (24 bp):
TATATAAAAATTGAATTAAAATTT
Found at i:11714356 original size:11 final size:11
Alignment explanation
Indices: 11714340--11714367 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11714330 GCTTTTCTGT
11714340 ATTTTCTTGGC
1 ATTTTCTTGGC
11714351 ATTTTCTTGGC
1 ATTTTCTTGGC
11714362 ATTTTC
1 ATTTTC
11714368 CTGGATTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (11 bp):
ATTTTCTTGGC
Found at i:11716916 original size:33 final size:33
Alignment explanation
Indices: 11716876--11716944 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
11716866 GAAACACCAT
*
11716876 CACCACCCACAAATATTGAACCACAT-ATTGAAC
1 CACCACCCACAAATACTGAACCACATGA-TGAAC
11716909 CACCACCCACAAATACTGAACCACATGATGAAC
1 CACCACCCACAAATACTGAACCACATGATGAAC
11716942 CAC
1 CAC
11716945 ATATTGAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.36, G:0.07, T:0.14
Consensus pattern (33 bp):
CACCACCCACAAATACTGAACCACATGATGAAC
Found at i:11719093 original size:21 final size:20
Alignment explanation
Indices: 11719065--11719103 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11719055 TTTTTTTTTG
*
11719065 AATTGAGTCGAGTAAAATAA
1 AATTGAGTCAAGTAAAATAA
*
11719085 AATTCGAGTCAAGTTAAAT
1 AATT-GAGTCAAGTAAAAT
11719104 CGAGTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.08, G:0.18, T:0.28
Consensus pattern (20 bp):
AATTGAGTCAAGTAAAATAA
Found at i:11719118 original size:16 final size:16
Alignment explanation
Indices: 11719072--11719114 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
11719062 TTGAATTGAG
*
11719072 TCGAGTAAAATAAAAT
1 TCGAGTAAAATTAAAT
* *
11719088 TCGAGTCAAGTTAAA-
1 TCGAGTAAAATTAAAT
11719103 TCGAGTAAAATT
1 TCGAGTAAAATT
11719115 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.28
Consensus pattern (16 bp):
TCGAGTAAAATTAAAT
Found at i:11719278 original size:15 final size:17
Alignment explanation
Indices: 11719250--11719285 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
11719240 TTTAGGCCCT
11719250 AAAATTATTATTTTA-A
1 AAAATTATTATTTTATA
11719266 AAAATTATT-TTTTATA
1 AAAATTATTATTTTATA
11719282 AAAA
1 AAAA
11719286 GAAAAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTATTATTTTATA
Found at i:11726541 original size:9 final size:9
Alignment explanation
Indices: 11726527--11726559 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
11726517 AAGTGTTATG
11726527 ATAAACTAT
1 ATAAACTAT
11726536 ATAAACTAT
1 ATAAACTAT
11726545 ATAAA-TAT
1 ATAAACTAT
11726553 ACTAAAC
1 A-TAAAC
11726560 CTTTAGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (9 bp):
ATAAACTAT
Found at i:11729868 original size:9 final size:9
Alignment explanation
Indices: 11729847--11729875 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11729837 GTATATTTAA
11729847 AAATAAA-T
1 AAATAAAGT
11729855 AAATAAAGT
1 AAATAAAGT
11729864 AAATAAAGT
1 AAATAAAGT
11729873 AAA
1 AAA
11729876 AAAAAAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (9 bp):
AAATAAAGT
Found at i:11731333 original size:9 final size:9
Alignment explanation
Indices: 11731321--11731355 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
11731311 CAAAATATAT
11731321 AAAAAAAAC
1 AAAAAAAAC
11731330 -AAAAAAAC
1 AAAAAAAAC
11731338 AAAAAAAAC
1 AAAAAAAAC
11731347 AGAAAAAAA
1 A-AAAAAAA
11731356 AACCTGGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 9 0.38
10 7 0.29
ACGTcount: A:0.89, C:0.09, G:0.03, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:11731343 original size:17 final size:18
Alignment explanation
Indices: 11731321--11731354 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
11731311 CAAAATATAT
11731321 AAAAAAAACA-AAAAAAC
1 AAAAAAAACAGAAAAAAC
11731338 AAAAAAAACAGAAAAAA
1 AAAAAAAACAGAAAAAA
11731355 AAACCTGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAAAAAACAGAAAAAAC
Found at i:11731428 original size:27 final size:27
Alignment explanation
Indices: 11731396--11731464 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
11731386 GGAGGGAATA
11731396 CTGTTGGCGGCACCAAACAAAGGAACC
1 CTGTTGGCGGCACCAAACAAAGGAACC
* * **
11731423 CTGTTGGCGGCACCAACCAAGGGTTCC
1 CTGTTGGCGGCACCAAACAAAGGAACC
11731450 CTGTTGGCGGCACCA
1 CTGTTGGCGGCACCA
11731465 CTCGTGTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.29, T:0.16
Consensus pattern (27 bp):
CTGTTGGCGGCACCAAACAAAGGAACC
Found at i:11731762 original size:11 final size:11
Alignment explanation
Indices: 11731742--11731775 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11731732 AATAAAAATT
*
11731742 TTATAGTATTA
1 TTATATTATTA
11731753 TTATATTATTA
1 TTATATTATTA
11731764 TTATTATTATTA
1 TTA-TATTATTA
11731776 AGATGTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TTATATTATTA
Found at i:11731816 original size:61 final size:63
Alignment explanation
Indices: 11731751--11731898 Score: 152
Period size: 61 Copynumber: 2.4 Consensus size: 63
11731741 TTTATAGTAT
*
11731751 TATTATATTATTATTA-TTA-TTATTAA-GATGTTACTTAGTATTATTGTTAGTA-A-AAAATTA
1 TATTATATTATTATTAGTTAGTTATTAATAATGTTACTTAGTATTATT-TT-GTATATAAAATTA
* *
11731811 GTATTAT-TT-TTA-TAGTTAGTTATTAATAATTTTAGTTAGTATTATTTTGTATATAAAATTA
1 -TATTATATTATTATTAGTTAGTTATTAATAATGTTACTTAGTATTATTTTGTATATAAAATTA
* *
11731872 T-TAATATTATTATTGTGTTAGTTATTA
1 TATTATATTATTATT-AGTTAGTTATTA
11731899 GGATTAGTGG
Statistics
Matches: 73, Mismatches: 5, Indels: 16
0.78 0.05 0.17
Matches are distributed among these distances:
58 2 0.03
59 12 0.16
60 15 0.21
61 32 0.44
62 1 0.01
63 11 0.15
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (63 bp):
TATTATATTATTATTAGTTAGTTATTAATAATGTTACTTAGTATTATTTTGTATATAAAATTA
Found at i:11732533 original size:18 final size:18
Alignment explanation
Indices: 11732505--11732549 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
11732495 TTGATATGGT
* *
11732505 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
*
11732523 TGGTTGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
11732541 TGGTGGCGA
1 TGGTGGCGA
11732550 TCATTGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.47, T:0.20
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:11734948 original size:14 final size:14
Alignment explanation
Indices: 11734929--11734957 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11734919 TAACTGAAAC
11734929 TAGAATAATTAAAT
1 TAGAATAATTAAAT
11734943 TAGAATAATTAAAT
1 TAGAATAATTAAAT
11734957 T
1 T
11734958 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:11736108 original size:27 final size:28
Alignment explanation
Indices: 11736048--11736116 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
11736038 CTTTTTTTTG
*
11736048 ATATATTTTGGTAAATAAAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
11736076 ATATATTTTGGTAAATAAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAGTTAT
11736104 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
11736117 TTTTTTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 12 0.30
28 28 0.70
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (28 bp):
ATATATTTTGGTAAATAAAAAAAGTTAT
Found at i:11736184 original size:19 final size:19
Alignment explanation
Indices: 11736156--11736203 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
11736146 AAACCCATAA
* * *
11736156 TAAAACATTACAAAAATAT
1 TAAAATATTAAAAAAATAC
11736175 TAAAATATTAAAAAAATAC
1 TAAAATATTAAAAAAATAC
*
11736194 CAAAATATTA
1 TAAAATATTA
11736204 TATATATTTT
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:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAATATTAAAAAAATAC
Found at i:11736906 original size:5 final size:5
Alignment explanation
Indices: 11736893--11737027 Score: 70
Period size: 5 Copynumber: 27.4 Consensus size: 5
11736883 ATTTTCTTTT
* **
11736893 TTTCC -TTCC TTTCC TCTT-C TTCTTC TTT-C TTTTT TTTCTC TTCTCC
1 TTTCC TTTCC TTTCC T-TTCC TT-TCC TTTCC TTTCC TTTC-C TT-TCC
* * ** *
11736939 TTTCC TTTTC TTTCC TTAT-- TTTTC TTT-C TTTCC TCCCC TTTCC TTTTC
1 TTTCC TTTCC TTTCC TT-TCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC
* *
11736987 TTTCC -TTCC TTTTC TTT-C TTTCC TCTCC TTTCC TTTTCC TT
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC -TTTCC TT
11737028 CTTTTTCTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
3 1 0.01
4 23 0.23
5 60 0.59
6 16 0.16
7 2 0.02
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTCC
Found at i:11736935 original size:21 final size:21
Alignment explanation
Indices: 11736910--11737055 Score: 86
Period size: 18 Copynumber: 7.5 Consensus size: 21
11736900 CCTTTCCTCT
*
11736910 TCTTCTTCTTTCTTTTTTTTC
1 TCTTCTTCTTTCTTTTCTTTC
*
11736931 TCTTCTCCTTTCCTTTTCTTTC
1 TCTTCTTCTTT-CTTTTCTTTC
*
11736953 -CTTATT-TTTC-TTTCTTTC
1 TCTTCTTCTTTCTTTTCTTTC
**
11736971 -C-TCCCCTTTCCTTTTCTTTC
1 TCTTCTTCTTT-CTTTTCTTTC
*
11736991 -CTTCCT-TTTC-TTTCTTTC
1 TCTTCTTCTTTCTTTTCTTTC
* *
11737009 -C-TCTCCTTTCCTTTTCCTTC
1 TCTTCTTCTTT-CTTTTCTTTC
*
11737029 T-TT-TTCTTTC-TTCCTTTC
1 TCTTCTTCTTTCTTTTCTTTC
11737047 T-TTCTTCTT
1 TCTTCTTCTT
11737056 CTTCCCCTCT
Statistics
Matches: 100, Mismatches: 14, Indels: 24
0.72 0.10 0.17
Matches are distributed among these distances:
17 3 0.03
18 33 0.33
19 10 0.10
20 27 0.27
21 18 0.18
22 9 0.09
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (21 bp):
TCTTCTTCTTTCTTTTCTTTC
Found at i:11736953 original size:10 final size:10
Alignment explanation
Indices: 11736884--11737038 Score: 85
Period size: 10 Copynumber: 15.9 Consensus size: 10
11736874 AATTACCTTA
11736884 TTTTCTTT--
1 TTTTCTTTCC
*
11736892 TTTTCCTTCC
1 TTTTCTTTCC
*
11736902 TTTCCTCTT-C
1 TTTTCT-TTCC
11736912 TTCTTCTTT-C
1 TT-TTCTTTCC
*
11736922 TTTTTTTTCTC
1 TTTTCTTTC-C
*
11736933 TTCTCCTTTCC
1 TT-TTCTTTCC
11736944 TTTTCTTTCC
1 TTTTCTTTCC
11736954 TTATT-TTT-C
1 TT-TTCTTTCC
11736963 -TTTCTTTCC
1 TTTTCTTTCC
***
11736972 TCCCCTTTCC
1 TTTTCTTTCC
11736982 TTTTCTTTCC
1 TTTTCTTTCC
* *
11736992 -TTCCTTTTC
1 TTTTCTTTCC
11737001 -TTTCTTTCC
1 TTTTCTTTCC
* *
11737010 TCTCCTTTCC
1 TTTTCTTTCC
* *
11737020 TTTTCCTTCT
1 TTTTCTTTCC
11737030 TTTTCTTTC
1 TTTTCTTTC
11737039 TTCCTTTCTT
Statistics
Matches: 110, Mismatches: 25, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
7 2 0.02
8 11 0.10
9 21 0.19
10 58 0.53
11 13 0.12
12 5 0.05
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTCTTTCC
Found at i:11736984 original size:38 final size:38
Alignment explanation
Indices: 11736879--11737046 Score: 170
Period size: 38 Copynumber: 4.5 Consensus size: 38
11736869 ATAAAAATTA
* *
11736879 CCTTA-TTTTCTTTTTTTCCT-TCCTTTCCTCTTC-TT
1 CCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT
*
11736914 -CTTCTTTCTT-TTT-TTTCTCTTCTCCTTTCCTTTTCTTT
1 CCTTATTT-TTCTTTCTTTC-C-TCTCCTTTCCTTTTCTTT
*
11736952 CCTTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTT
1 CCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT
** *
11736990 CCTTCCTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTT
1 CCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT
* *
11737028 -CTTTTTCTTTCTTCCTTTC
1 CCTTATT-TTTCTTTCTTTC
11737047 TTTCTTCTTC
Statistics
Matches: 112, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
34 7 0.06
35 6 0.05
36 3 0.03
37 16 0.14
38 66 0.59
39 10 0.09
40 4 0.04
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65
Consensus pattern (38 bp):
CCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT
Found at i:11736995 original size:14 final size:14
Alignment explanation
Indices: 11736978--11737021 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
11736968 TTCCTCCCCT
11736978 TTCCTTTTCTTTCC
1 TTCCTTTTCTTTCC
*
11736992 TTCCTTTTCTTTCT
1 TTCCTTTTCTTTCC
* *
11737006 TTCCTCTCCTTTCC
1 TTCCTTTTCTTTCC
11737020 TT
1 TT
11737022 TTCCTTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCCTTTTCTTTCC
Found at i:11737039 original size:10 final size:10
Alignment explanation
Indices: 11736909--11737058 Score: 51
Period size: 10 Copynumber: 15.1 Consensus size: 10
11736899 TCCTTTCCTC
*
11736909 TTCTTCTTCT
1 TTCTTTTTCT
11736919 TTCTTTTT-T
1 TTCTTTTTCT
*
11736928 TTCTCTTCTCCT
1 TTCT-TT-TTCT
*
11736940 TTCCTTTTCT
1 TTCTTTTTCT
*
11736950 TTCCTTATT-T
1 TT-CTTTTTCT
11736960 TTC--TTTCT
1 TTCTTTTTCT
* ***
11736968 TTCCTCCCCT
1 TTCTTTTTCT
*
11736978 TTCCTTTTCT
1 TTCTTTTTCT
* *
11736988 TTC-CTTCCT
1 TTCTTTTTCT
*
11736997 TT-TCTTTCT
1 TTCTTTTTCT
* * *
11737006 TTCCTCTCCT
1 TTCTTTTTCT
* *
11737016 TTCCTTTTCC
1 TTCTTTTTCT
11737026 TTCTTTTTCT
1 TTCTTTTTCT
11737036 TTCTTCCTTTCT
1 TTCTT--TTTCT
*
11737048 TTCTTCTTCT
1 TTCTTTTTCT
11737058 T
1 T
11737059 CCCCTCTCCT
Statistics
Matches: 103, Mismatches: 26, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
7 2 0.02
8 4 0.04
9 19 0.18
10 57 0.55
11 7 0.07
12 14 0.14
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.67
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:11737056 original size:28 final size:30
Alignment explanation
Indices: 11736978--11737059 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 30
11736968 TTCCTCCCCT
11736978 TTCCTTTTCTTTCCTTCCTT-TTCTTTCTTTCC
1 TTCC-TTTCTTT-CTT-CTTCTTCTTTCTTTCC
*
11737010 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
11737039 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
11737060 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 10 0.23
31 3 0.07
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:11737180 original size:27 final size:27
Alignment explanation
Indices: 11737107--11737183 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 27
11737097 AATTCAAGGG
** * *
11737107 TGGTGCCGCCAACAGGGAACCTTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTATT
11737134 TGGTGCCGCCAACAGGGTTCCCTTATT
1 TGGTGCCGCCAACAGGGTTCCCTTATT
* *
11737161 TGGTGCCGCCAATAGTGTTCCCT
1 TGGTGCCGCCAACAGGGTTCCCT
11737184 CCACCCAGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.29
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTATT
Found at i:11743062 original size:3 final size:3
Alignment explanation
Indices: 11743054--11743097 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11743044 TACAAAACAA
11743054 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11743098 AGTAATGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11750718 original size:96 final size:96
Alignment explanation
Indices: 11750599--11750774 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
11750589 AATTGATCTC
* *
11750599 TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATGAGGGTTTTCGATGTCCAATTAA
1 TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCAATTAA
11750664 ATATCCAAATAGAGAGAATACGATTAAGCTA
66 ATATCCAAATAGAGAGAATACGATTAAGCTA
* * * **
11750695 TCACCTTTTGTGCAATGTTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCTTTTAA
1 TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCAATTAA
*
11750760 ATATCCAACTAGAGA
66 ATATCCAAATAGAGA
11750775 AGAAAGTAAG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (96 bp):
TCACCTGTTGTGAAATATTATTGGTATAGTTCAAAAGATCATAAGGGTTTTCAATGTCCAATTAA
ATATCCAAATAGAGAGAATACGATTAAGCTA
Found at i:11758662 original size:30 final size:32
Alignment explanation
Indices: 11758602--11758665 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
11758592 CACTTATTTT
11758602 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
11758635 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
11758666 ATATACATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:11758929 original size:41 final size:41
Alignment explanation
Indices: 11758884--11759080 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
11758874 ACCGGCTCTT
*
11758884 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11758925 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
11758966 AGCCTGCTAGACTTATAGTCTGAAATGTGTCGCCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11759007 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
11759048 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
11759081 TAACGATAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 137 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:11760632 original size:13 final size:13
Alignment explanation
Indices: 11760614--11760638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11760604 CCATCCAATG
11760614 CACACAAAATAAA
1 CACACAAAATAAA
11760627 CACACAAAATAA
1 CACACAAAATAA
11760639 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:11765754 original size:30 final size:32
Alignment explanation
Indices: 11765694--11765757 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
11765684 CACTTATTTT
11765694 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
11765727 CACCTATGCCGAATGCAACATATATATATAT
1 CACCTATGCCGAATGCAACACATAAATATAT
11765758 ACATATCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:11766017 original size:41 final size:41
Alignment explanation
Indices: 11765972--11766168 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
11765962 ACCGGCTCTT
*
11765972 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11766013 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11766054 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
*
11766095 AGCCTACTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
11766136 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
11766169 TAACGATAAA
Statistics
Matches: 146, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 137 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:11767724 original size:13 final size:13
Alignment explanation
Indices: 11767706--11767730 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11767696 CCATCCAATG
11767706 CACACAAAATAAA
1 CACACAAAATAAA
11767719 CACACAAAATAA
1 CACACAAAATAA
11767731 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:11770889 original size:39 final size:39
Alignment explanation
Indices: 11770840--11770917 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
11770830 GGAACGAAGG
*
11770840 AAAAGAAGAAAAAGAAAAGAAAAGAA-AAGAATGAGAAAA
1 AAAAGAAGAAAAAG-AAAGAAAAGAAGAAGAAGGAGAAAA
* **
11770879 AAAATAAGAAAAAGAAAGAAGGGAAGAAGAAGGAGAAAA
1 AAAAGAAGAAAAAGAAAGAAAAGAAGAAGAAGGAGAAAA
11770918 GAAACATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 9 0.26
39 25 0.74
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (39 bp):
AAAAGAAGAAAAAGAAAGAAAAGAAGAAGAAGGAGAAAA
Found at i:11788168 original size:21 final size:22
Alignment explanation
Indices: 11788127--11788169 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
11788117 TAAATAAATG
11788127 TGTAATAAATATATGTATACATT
1 TGTAATAAATATATG-ATACATT
*
11788150 TGTAATTAATATATG-TACAT
1 TGTAATAAATATATGATACAT
11788170 ACTTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (22 bp):
TGTAATAAATATATGATACATT
Found at i:11788313 original size:26 final size:27
Alignment explanation
Indices: 11788251--11788321 Score: 81
Period size: 26 Copynumber: 2.6 Consensus size: 27
11788241 AAAAGAGAAT
* *
11788251 AGAAACAGAATGACAAAACGAAAACAGGGG
1 AGAAA-AGAAAGA-AAAA-GAAAACAGGGA
11788281 AGAAAAGAAAGAAAAAGAAAA-AGGGA
1 AGAAAAGAAAGAAAAAGAAAACAGGGA
*
11788307 AGGAAAGAAAGAAAA
1 AGAAAAGAAAGAAAA
11788322 TTTGGGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 18 0.47
27 5 0.13
28 4 0.11
29 6 0.16
30 5 0.13
ACGTcount: A:0.66, C:0.06, G:0.27, T:0.01
Consensus pattern (27 bp):
AGAAAAGAAAGAAAAAGAAAACAGGGA
Found at i:11789202 original size:25 final size:25
Alignment explanation
Indices: 11789174--11789253 Score: 112
Period size: 25 Copynumber: 3.3 Consensus size: 25
11789164 ACTTTAGCGC
11789174 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
11789199 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTGATTATTAGCACATCAGT
*
11789224 GCTCTCTG--T-TTAGCACATCTGT
1 GCTCTCTGATTATTAGCACATCAGT
11789246 GCTCTCTG
1 GCTCTCTG
11789254 TATCACACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
22 18 0.36
23 1 0.02
25 31 0.62
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:11789247 original size:22 final size:22
Alignment explanation
Indices: 11789186--11789277 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 22
11789176 TCTCTGATTA
11789186 TTAGCACATCAGTGCTCTCTGAT
1 TTAGCACATCAGTGCTCTCTG-T
*
11789209 TACTAGCACGTCAGTGCTCTCTGT
1 T--TAGCACATCAGTGCTCTCTGT
*
11789233 TTAGCACATCTGTGCTCTCTGT
1 TTAGCACATCAGTGCTCTCTGT
* * *
11789255 ATCA-CACTTTAGTGCTCTCTGT
1 -TTAGCACATCAGTGCTCTCTGT
11789277 T
1 T
11789278 CATTAGTGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.02
22 34 0.58
23 3 0.05
24 2 0.03
25 19 0.32
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.38
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:11790866 original size:20 final size:21
Alignment explanation
Indices: 11790831--11790888 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
11790821 GAACAAAAAT
*
11790831 CAAAGGTATCGATACCTTTC-A
1 CAAA-GTATCAATACCTTTCTA
* *
11790852 TAAAGTATCAGTACC-TTCTA
1 CAAAGTATCAATACCTTTCTA
11790872 CAAAGTATCAATACCTT
1 CAAAGTATCAATACCTT
11790889 ACCCCTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.10
20 23 0.77
21 4 0.13
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (21 bp):
CAAAGTATCAATACCTTTCTA
Found at i:11793101 original size:17 final size:17
Alignment explanation
Indices: 11793079--11793111 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11793069 AGTTTACTTT
11793079 TATAATTTATAA-TTTAA
1 TATAA-TTATAAGTTTAA
11793096 TATAATTATAAGTTTA
1 TATAATTATAAGTTTA
11793112 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATAATTATAAGTTTAA
Found at i:11794418 original size:32 final size:32
Alignment explanation
Indices: 11794382--11794450 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
11794372 TTTGGGTAGA
* *
11794382 GGTTGCTTGATTCTCTCTATGGCTGATTCAGT
1 GGTTGCTTGATTCTCTCAATGACTGATTCAGT
11794414 GGTTGCTTGATTCTCTCAATGACTGATTCAGT
1 GGTTGCTTGATTCTCTCAATGACTGATTCAGT
11794446 GGTTG
1 GGTTG
11794451 AGGTAGGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.42
Consensus pattern (32 bp):
GGTTGCTTGATTCTCTCAATGACTGATTCAGT
Found at i:11799268 original size:29 final size:29
Alignment explanation
Indices: 11799213--11799269 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
11799203 GGCTGTCGAT
* * *
11799213 ACCACACGGCCGTTTTTCAGGCCGTGTGA
1 ACCACACGACCGTTTGTCAAGCCGTGTGA
* *
11799242 ACCACTCGACCGTTTGTCAAGCTGTGTG
1 ACCACACGACCGTTTGTCAAGCCGTGTG
11799270 GGTCGTGTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.30, G:0.26, T:0.26
Consensus pattern (29 bp):
ACCACACGACCGTTTGTCAAGCCGTGTGA
Found at i:11799436 original size:63 final size:63
Alignment explanation
Indices: 11799357--11799481 Score: 187
Period size: 63 Copynumber: 2.0 Consensus size: 63
11799347 CACGGGTCAG
* *
11799357 GGACACAGGCGCGTGTCCAGACCTTGTGACTCACTGTTCACCAATTAGAGACATATAGGCCAA
1 GGACACAGGCGCGTGTCCAGACCTTGTGACTCACTATTCAACAATTAGAGACATATAGGCCAA
* * * * *
11799420 GGACACGGGCGCGTGTCCGGGCCTTGTGACTCACTATTCAAGAATTAGAGGCATATAGGCCA
1 GGACACAGGCGCGTGTCCAGACCTTGTGACTCACTATTCAACAATTAGAGACATATAGGCCA
11799482 GACACCCGGG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (63 bp):
GGACACAGGCGCGTGTCCAGACCTTGTGACTCACTATTCAACAATTAGAGACATATAGGCCAA
Found at i:11799500 original size:63 final size:63
Alignment explanation
Indices: 11799357--11799505 Score: 176
Period size: 63 Copynumber: 2.4 Consensus size: 63
11799347 CACGGGTCAG
* * * * *
11799357 GGACACAGGCGCGTGTCCAGACCTTGTGACTCACTGTTCACCAATTAGAGACATATAGGCCAA
1 GGACACGGGCGCATGTCCAGGCCTTGTGACTCACTATTCAACAATTAGAGACATATAGGCCAA
* * * *
11799420 GGACACGGGCGCGTGTCCGGGCCTTGTGACTCACTATTCAAGAATTAGAGGCATATAGGCC-A
1 GGACACGGGCGCATGTCCAGGCCTTGTGACTCACTATTCAACAATTAGAGACATATAGGCCAA
*
11799482 -GACACCCGGGTGCATGTCCAGGCC
1 GGACA--CGGGCGCATGTCCAGGCC
11799506 GCGTGACTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 4 0.05
62 1 0.01
63 69 0.93
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.19
Consensus pattern (63 bp):
GGACACGGGCGCATGTCCAGGCCTTGTGACTCACTATTCAACAATTAGAGACATATAGGCCAA
Found at i:11805084 original size:9 final size:9
Alignment explanation
Indices: 11805070--11805100 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11805060 GTTAAACGAA
11805070 TCGAGTTAT
1 TCGAGTTAT
*
11805079 TCGAGTTAA
1 TCGAGTTAT
11805088 TCGAGTTAT
1 TCGAGTTAT
11805097 TCGA
1 TCGA
11805101 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11805324 original size:29 final size:30
Alignment explanation
Indices: 11805240--11805313 Score: 141
Period size: 29 Copynumber: 2.5 Consensus size: 30
11805230 ACTTTTCCCT
11805240 CAAAACTTTTACTCCTTCCCACTTCCCCCC
1 CAAAACTTTTACTCCTTCCCACTTCCCCCC
11805270 C-AAACTTTTACTCCTTCCCACTTCCCCCC
1 CAAAACTTTTACTCCTTCCCACTTCCCCCC
11805299 CAAAACTTTTACTCC
1 CAAAACTTTTACTCC
11805314 CCTCCCCTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 29 0.67
30 14 0.33
ACGTcount: A:0.22, C:0.47, G:0.00, T:0.31
Consensus pattern (30 bp):
CAAAACTTTTACTCCTTCCCACTTCCCCCC
Found at i:11805472 original size:30 final size:31
Alignment explanation
Indices: 11805424--11805483 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
11805414 AAACCTTTTA
**
11805424 TTTTCCCCCAAAGTTTTTACT-CTTTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCTTTCCCAC
* *
11805454 TTTTCCCCTAAAACTTTTATTCCTTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCTTTCCCA
11805484 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.18, C:0.35, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCTTTCCCAC
Found at i:11805877 original size:18 final size:17
Alignment explanation
Indices: 11805854--11805923 Score: 52
Period size: 18 Copynumber: 3.9 Consensus size: 17
11805844 CAATTTCACA
11805854 TTTTATTTTTAAAATAAT
1 TTTTA-TTTTAAAATAAT
*
11805872 TTTTA-TTAAAAATCATAT
1 TTTTATTTTAAAAT-A-AT
* * *
11805890 TTTTACATTTAATATATT
1 TTTTA-TTTTAAAATAAT
11805908 TTTTAATTTTAAAATA
1 TTTT-ATTTTAAAATA
11805924 CATAGTGACA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
16 7 0.17
17 1 0.02
18 25 0.61
19 2 0.05
20 6 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTATTTTAAAATAAT
Found at i:11810181 original size:21 final size:21
Alignment explanation
Indices: 11810152--11810210 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
11810142 TACTAAACAA
11810152 AAACCCATAAGGGTTAAATAG
1 AAACCCATAAGGGTTAAATAG
* *
11810173 AAGCTCAT-AGGAGATT-AATAG
1 AAACCCATAAGG-G-TTAAATAG
11810194 AAACCCATAAGGGTTAA
1 AAACCCATAAGGGTTAA
11810211 TATAATGCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
20 5 0.17
21 20 0.67
22 5 0.17
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (21 bp):
AAACCCATAAGGGTTAAATAG
Found at i:11810297 original size:42 final size:41
Alignment explanation
Indices: 11810152--11810295 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 41
11810142 TACTAAACAA
* * * * *
11810152 AAACCCATAAGGGTTAAATAGAAGCTCATAGGAGATTAATAG
1 AAACCCATAAGGGTTAAATA-AAGCTCAAAAGAGCTAAATTG
* * *
11810194 AAACCCATAAGGGTTAATATAATGCTCAGAAGAGCTAAACTG
1 AAACCCATAAGGGTTAA-ATAAAGCTCAAAAGAGCTAAATTG
* *
11810236 AAACCCATTAGGGTTAAACTAAAGCTCAAAAGAGCTGAATTG
1 AAACCCATAAGGGTTAAA-TAAAGCTCAAAAGAGCTAAATTG
* *
11810278 AAACCCAGAATGGTTAAA
1 AAACCCATAAGGGTTAAA
11810296 CTGAAACTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 1 0.01
42 81 0.95
43 3 0.04
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.21
Consensus pattern (41 bp):
AAACCCATAAGGGTTAAATAAAGCTCAAAAGAGCTAAATTG
Found at i:11812202 original size:28 final size:28
Alignment explanation
Indices: 11812138--11812211 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
11812128 GAGGCTCTAA
* *
11812138 AAGGAAAGCATTTGTAGCAATTTTTGGAT
1 AAGG-AAGCCTTTGTGGCAATTTTTGGAT
**
11812167 AATAAAGCCTTTGTGGCAATTTTTGGAT
1 AAGGAAGCCTTTGTGGCAATTTTTGGAT
11812195 AAGGAAGCCTTTGTGGC
1 AAGGAAGCCTTTGTGGC
11812212 TATCTCTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.34
Consensus pattern (28 bp):
AAGGAAGCCTTTGTGGCAATTTTTGGAT
Found at i:11813718 original size:13 final size:12
Alignment explanation
Indices: 11813689--11813737 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
11813679 TTCAAAACTT
11813689 ATAAAAAT--AA
1 ATAAAAATAAAA
*
11813699 A-AAAAATCAAA
1 ATAAAAATAAAA
11813710 ATCAAAAATAAAA
1 AT-AAAAATAAAA
11813723 ATAAAAATATAAA
1 ATAAAAATA-AAA
11813736 AT
1 AT
11813738 GTTTATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 6 0.18
10 1 0.03
11 3 0.09
12 7 0.21
13 16 0.48
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (12 bp):
ATAAAAATAAAA
Found at i:11813736 original size:7 final size:6
Alignment explanation
Indices: 11813689--11813737 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
11813679 TTCAAAACTT
*
11813689 ATAAAA AT--AA A-AAAA ATCAAA ATCAAAA ATAAAA ATAAAA ATATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA AT-AAAA ATAAAA ATAAAA ATA-AAA
11813736 AT
1 AT
11813738 GTTTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
4 3 0.08
5 3 0.08
6 20 0.56
7 10 0.28
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:11813907 original size:31 final size:32
Alignment explanation
Indices: 11813848--11813909 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
11813838 AATCATTTCT
* *
11813848 ACTCTTTTTCAAAAGGTTGGTGGTCAAATTTG
1 ACTCTTTTTCAAAAGGTCGGTGGCCAAATTTG
11813880 ACTCTTTTT-AAAAGGTCGAG-GGCCAAATTT
1 ACTCTTTTTCAAAAGGTCG-GTGGCCAAATTT
11813910 AGCTCCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (32 bp):
ACTCTTTTTCAAAAGGTCGGTGGCCAAATTTG
Found at i:11815704 original size:21 final size:21
Alignment explanation
Indices: 11815680--11815719 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11815670 GTTTTGATAT
11815680 GGAAAATGGAGAAA-AAGTGAA
1 GGAAAAT-GAGAAACAAGTGAA
*
11815701 GGAAAGTGAGAAACAAGTG
1 GGAAAATGAGAAACAAGTG
11815720 GAGAGTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.10
Consensus pattern (21 bp):
GGAAAATGAGAAACAAGTGAA
Found at i:11815754 original size:3 final size:3
Alignment explanation
Indices: 11815748--11815804 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
11815738 GGAGCCAAAG
11815748 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
11815796 AAA GAA GAA
1 GAA GAA GAA
11815805 AGCTCAACTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11816041 original size:19 final size:18
Alignment explanation
Indices: 11816017--11816071 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
11816007 TATGTAATAG
11816017 AGAAAATAAAAGAAAAGTA
1 AGAAAA-AAAAGAAAAGTA
*
11816036 AGAAAAAAAGATTAAAAGTA
1 AGAAAAAAA-A-GAAAAGTA
11816056 A-AAAAAAAAGAGAAAG
1 AGAAAAAAAAGA-AAAG
11816072 ACTAAAGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 1 0.03
18 8 0.26
19 14 0.45
20 8 0.26
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (18 bp):
AGAAAAAAAAGAAAAGTA
Found at i:11816052 original size:20 final size:20
Alignment explanation
Indices: 11816029--11816066 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11816019 AAAATAAAAG
*
11816029 AAAAGTAAGAAAAAAAGATT
1 AAAAGTAAAAAAAAAAGATT
11816049 AAAAGTAAAAAAAAAAGA
1 AAAAGTAAAAAAAAAAGA
11816067 GAAAGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAAGTAAAAAAAAAAGATT
Found at i:11818456 original size:19 final size:19
Alignment explanation
Indices: 11818421--11818502 Score: 50
Period size: 18 Copynumber: 4.4 Consensus size: 19
11818411 TAACCATTTT
11818421 TTTCAATATCTTATGTT-AA
1 TTTCAA-ATCTTATGTTCAA
* *
11818440 TTTCAAATCGTTTTGTTCAT
1 TTTCAAATC-TTATGTTCAA
*
11818460 TTTCAAAACATTA--TTC-A
1 TTTCAAATC-TTATGTTCAA
11818477 TTTACAAATCATTA--TTCAA
1 TTT-CAAATC-TTATGTTCAA
11818496 TTTCAAA
1 TTTCAAA
11818503 ATGTTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
17 3 0.06
18 22 0.42
19 16 0.31
20 11 0.21
ACGTcount: A:0.34, C:0.15, G:0.04, T:0.48
Consensus pattern (19 bp):
TTTCAAATCTTATGTTCAA
Found at i:11818478 original size:18 final size:18
Alignment explanation
Indices: 11818455--11818503 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
11818445 AATCGTTTTG
11818455 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* *
11818473 TTCATTTACAAATCATTA
1 TTCATTTTCAAAACATTA
*
11818491 TTCAATTTCAAAA
1 TTCATTTTCAAAA
11818504 TGTTTTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:11826101 original size:24 final size:24
Alignment explanation
Indices: 11826070--11826117 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
11826060 GATTCTGAGG
11826070 ACATTTTGCACATTATTCAAGATT
1 ACATTTTGCACATTATTCAAGATT
*
11826094 ACATTTTGCACATTATTCGAGATT
1 ACATTTTGCACATTATTCAAGATT
11826118 GCACTTTAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (24 bp):
ACATTTTGCACATTATTCAAGATT
Found at i:11831470 original size:22 final size:21
Alignment explanation
Indices: 11831442--11831538 Score: 72
Period size: 22 Copynumber: 4.4 Consensus size: 21
11831432 ATTTTTACTA
11831442 CGGTGCCTATTGTTCTGCACTT
1 CGGTGCCTATTGTT-TGCACTT
*
11831464 CGGTGCCTATTAATTTGCACTAT
1 CGGTGCCTATT-GTTTGCACT-T
* *
11831487 -GCTGCCTACTGCTTTGCACTT
1 CGGTGCCTATTG-TTTGCACTT
* *
11831508 TGGTGCCTACTAGTTAT-CACTT
1 CGGTGCCTA-TTGTT-TGCACTT
*
11831530 CGATGCCTA
1 CGGTGCCTA
11831539 CTGGTGTGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
21 1 0.02
22 54 0.90
23 5 0.08
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (21 bp):
CGGTGCCTATTGTTTGCACTT
Found at i:11833934 original size:15 final size:16
Alignment explanation
Indices: 11833914--11833943 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11833904 TTAAAAAATA
11833914 ATTTTTA-ATTATTTT
1 ATTTTTACATTATTTT
11833929 ATTTTTACATTATTT
1 ATTTTTACATTATTT
11833944 CTCTCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTACATTATTTT
Found at i:11834298 original size:16 final size:16
Alignment explanation
Indices: 11834277--11834310 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
11834267 CGGTTTTCTC
11834277 TATTTTTAAAAATTTT
1 TATTTTTAAAAATTTT
*
11834293 TATTTTTAATAATTTT
1 TATTTTTAAAAATTTT
11834309 TA
1 TA
11834311 AATAGATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTAAAAATTTT
Found at i:11837331 original size:32 final size:32
Alignment explanation
Indices: 11837266--11837333 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
11837256 TGGAAGTTTG
* * *
11837266 TATTTGTTTTTTCCAAAAAAATTGGAAGTTTA
1 TATTTGCTTTTTCCAAAAAAATTAGAAGCTTA
** *
11837298 TATTTGCTTTTTCCTCAAAATTTAGAAGCTTA
1 TATTTGCTTTTTCCAAAAAAATTAGAAGCTTA
11837330 TATT
1 TATT
11837334 CAATAAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (32 bp):
TATTTGCTTTTTCCAAAAAAATTAGAAGCTTA
Found at i:11837574 original size:24 final size:24
Alignment explanation
Indices: 11837540--11837591 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
11837530 TTTCTAGAAG
* **
11837540 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
11837564 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
11837588 ATTT
1 ATTT
11837592 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:11841977 original size:24 final size:24
Alignment explanation
Indices: 11841915--11841966 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11841905 TTTTTAGAAG
* **
11841915 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAACATAATAT
11841939 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
11841963 ATTT
1 ATTT
11841967 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:11842675 original size:26 final size:26
Alignment explanation
Indices: 11842639--11842690 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11842629 TAGAAGAAGA
11842639 AAAAAAAACTAAGATTTCTTTTGGTT
1 AAAAAAAACTAAGATTTCTTTTGGTT
11842665 AAAAAAAACTAAGATTTCTTTTGGTT
1 AAAAAAAACTAAGATTTCTTTTGGTT
11842691 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (26 bp):
AAAAAAAACTAAGATTTCTTTTGGTT
Found at i:11845699 original size:21 final size:22
Alignment explanation
Indices: 11845673--11845713 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11845663 GCTTACTAAC
11845673 TACC-TTGTATCGGTAGAAGTA
1 TACCTTTGTATCGGTAGAAGTA
*
11845694 TACCTTTGTGTCGGTAGAAG
1 TACCTTTGTATCGGTAGAAG
11845714 CCAAGTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (22 bp):
TACCTTTGTATCGGTAGAAGTA
Found at i:11846332 original size:20 final size:20
Alignment explanation
Indices: 11846290--11846349 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
11846280 TACCCAGAGA
*
11846290 TCAAAGTATC-GATACCCTAC
1 TCAAAGTATCAG-TACCTTAC
*
11846310 TCAAAGTATCAGTACCTTTC
1 TCAAAGTATCAGTACCTTAC
** *
11846330 TCATTGTATCAATACCTTAC
1 TCAAAGTATCAGTACCTTAC
11846350 CCCTAGTATC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (20 bp):
TCAAAGTATCAGTACCTTAC
Found at i:11849008 original size:17 final size:18
Alignment explanation
Indices: 11848974--11849009 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11848964 AACACGAAAA
11848974 TTTTGAAACACGAGATTT
1 TTTTGAAACACGAGATTT
11848992 TTTTGAAACACGA-ATTT
1 TTTTGAAACACGAGATTT
11849009 T
1 T
11849010 CTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (18 bp):
TTTTGAAACACGAGATTT
Found at i:11849009 original size:16 final size:16
Alignment explanation
Indices: 11848963--11849009 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
11848953 TTTTAAAAAA
**
11848963 AAACACGAAAATTTTG
1 AAACACGAATTTTTTG
11848979 AAACACGAGATTTTTTTG
1 AAACACGA-A-TTTTTTG
11848997 AAACACGAATTTT
1 AAACACGAATTTT
11849010 CTTTTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 2 0.07
18 13 0.48
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (16 bp):
AAACACGAATTTTTTG
Found at i:11849033 original size:16 final size:16
Alignment explanation
Indices: 11849011--11849046 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
11849001 ACGAATTTTC
*
11849011 TTTTTTAAACACGAAAA
1 TTTTTAAAACAC-AAAA
11849028 TTTTTAAAACACAAAA
1 TTTTTAAAACACAAAA
11849044 TTT
1 TTT
11849047 GTTTTTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (16 bp):
TTTTTAAAACACAAAA
Found at i:11849059 original size:38 final size:37
Alignment explanation
Indices: 11848974--11849056 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
11848964 AACACGAAAA
** * * *
11848974 TTTTGAAACACGAGATTTTTTTGAAACACGAATTTTCT
1 TTTTGAAACACGA-AAATTTTTAAAACACAAAATTTCT
* *
11849012 TTTTTAAACACGAAAATTTTTAAAACACAAAATTTGT
1 TTTTGAAACACGAAAATTTTTAAAACACAAAATTTCT
11849049 TTTTGAAA
1 TTTTGAAA
11849057 ACATAAAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.41
Consensus pattern (37 bp):
TTTTGAAACACGAAAATTTTTAAAACACAAAATTTCT
Found at i:11849068 original size:22 final size:20
Alignment explanation
Indices: 11849028--11849068 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
11849018 AACACGAAAA
*
11849028 TTTTTAAAACACAAAATTTG
1 TTTTTAAAACAAAAAATTTG
11849048 TTTTTGAAAACATAAAAATTT
1 TTTTT-AAAACA-AAAAATTT
11849069 TGATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTTTAAAACAAAAAATTTG
Found at i:11849114 original size:20 final size:20
Alignment explanation
Indices: 11849081--11849212 Score: 55
Period size: 21 Copynumber: 6.8 Consensus size: 20
11849071 ATAAAAAATG
**
11849081 AAACACGAGGATTTTTTTTA
1 AAACACGAAAATTTTTTTTA
*
11849101 AAACACGAAAA---TTTAT-
1 AAACACGAAAATTTTTTTTA
* ** *
11849117 GAACACGGTCAATTTTTTTGA
1 AAACAC-GAAAATTTTTTTTA
* *
11849138 AAACATGAAAA---TTTTTG
1 AAACACGAAAATTTTTTTTA
* *
11849155 AAAGACGAGAATTTTTTTTGTA
1 AAACACGA-AAATTTTTTT-TA
11849177 AAACAC-AGAAATTTTTTTTGA
1 AAACACGA-AAATTTTTTTT-A
*
11849198 AAACAAGAAAATTTT
1 AAACACGAAAATTTT
11849213 CAAAATACGG
Statistics
Matches: 79, Mismatches: 21, Indels: 23
0.64 0.17 0.19
Matches are distributed among these distances:
16 5 0.06
17 17 0.22
18 2 0.03
20 16 0.20
21 32 0.41
22 7 0.09
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (20 bp):
AAACACGAAAATTTTTTTTA
Found at i:11849154 original size:18 final size:18
Alignment explanation
Indices: 11849131--11849338 Score: 76
Period size: 17 Copynumber: 11.6 Consensus size: 18
11849121 ACGGTCAATT
11849131 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACATGAAAA
**
11849149 TTTTTGAAAGACGA-GAATTT
1 TTTTTGAAA-AC-ATGAA-AA
* *
11849169 TTTTTGTAAAACACAGAAATTT
1 TTTTTG-AAAACA-TGAAA--A
*
11849191 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACATGAAAA
* * * **
11849209 -TTTTCAAAATACGGGAA
1 TTTTTGAAAACATGAAAA
**
11849226 TTTTTGAAAACACT---TT
1 TTTTTGAAAACA-TGAAAA
*
11849242 TTTTTAAAAACATGAAAA
1 TTTTTGAAAACATGAAAA
*
11849260 TTTTTG-AAACACTG-GAA
1 TTTTTGAAAACA-TGAAAA
* *
11849277 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACATGAAAA
* *
11849294 TTTTTG-AAACGTGAGAAT
1 TTTTTGAAAACATGA-AAA
*
11849312 TTTTTGAAAACACG-AAA
1 TTTTTGAAAACATGAAAA
*
11849329 TTTTTTAAAA
1 TTTTTGAAAA
11849339 AAAACACGGA
Statistics
Matches: 141, Mismatches: 30, Indels: 39
0.67 0.14 0.19
Matches are distributed among these distances:
15 1 0.01
16 17 0.12
17 42 0.30
18 37 0.26
19 11 0.08
20 14 0.10
21 12 0.09
22 7 0.05
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (18 bp):
TTTTTGAAAACATGAAAA
Found at i:11849171 original size:38 final size:38
Alignment explanation
Indices: 11849078--11849187 Score: 120
Period size: 37 Copynumber: 2.9 Consensus size: 38
11849068 TTGATAAAAA
*
11849078 ATGAAACACGAGGATTTTTTTT-AAAACACGAAAATTT
1 ATGAAACACGAGAATTTTTTTTGAAAACACGAAAATTT
*
11849115 ATG-AACACG-GTCAA-TTTTTTTGAAAACATGAAAATTT
1 ATGAAACACGAG--AATTTTTTTTGAAAACACGAAAATTT
* *
11849152 TTGAAAGACGAGAATTTTTTTTGTAAAACACAGAAA
1 ATGAAACACGAGAATTTTTTTTG-AAAACAC-GAAA
11849188 TTTTTTTTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
35 1 0.02
36 13 0.22
37 22 0.37
38 13 0.22
39 7 0.12
40 4 0.07
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (38 bp):
ATGAAACACGAGAATTTTTTTTGAAAACACGAAAATTT
Found at i:11849192 original size:22 final size:20
Alignment explanation
Indices: 11849129--11849212 Score: 84
Period size: 21 Copynumber: 4.2 Consensus size: 20
11849119 ACACGGTCAA
*
11849129 TTTTTTTGAAAACATGAAA-
1 TTTTTTTGAAAACAAGAAAT
* *
11849148 -ATTTTTGAAAGACGAG-AAT
1 TTTTTTTGAAA-ACAAGAAAT
11849167 TTTTTTTGTAAAACACAGAAAT
1 TTTTTTTG-AAAACA-AGAAAT
11849189 TTTTTTTGAAAACAAGAAAAT
1 TTTTTTTGAAAACAAG-AAAT
11849210 TTT
1 TTT
11849213 CAAAATACGG
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 11 0.21
19 3 0.06
20 10 0.19
21 18 0.34
22 11 0.21
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTTTTTGAAAACAAGAAAT
Found at i:11849199 original size:60 final size:51
Alignment explanation
Indices: 11849129--11849288 Score: 153
Period size: 60 Copynumber: 3.0 Consensus size: 51
11849119 ACACGGTCAA
11849129 TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAATTTTTTTTGTAAAACACAGAAAT
1 TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAA---TTTTTG-AAAACAC-----T
* ** * *
11849189 TTTTTTTGAAAACAAGAAAATTTTCAAAATACGGGAATTTTTGAAAACACT
1 TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAATTTTTGAAAACACT
* *
11849240 TTTTTTTAAAAACATGAAAATTTTTGAAACACTG-GAA-TTTTGAAAACAC
1 TTTTTTTGAAAACATGAAAATTTTTGAAAGAC-GAGAATTTTTGAAAACAC
11849289 GAAGATTTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
50 12 0.13
51 31 0.35
52 1 0.01
56 7 0.08
57 6 0.07
60 32 0.36
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.37
Consensus pattern (51 bp):
TTTTTTTGAAAACATGAAAATTTTTGAAAGACGAGAATTTTTGAAAACACT
Found at i:11849259 original size:51 final size:50
Alignment explanation
Indices: 11849188--11849288 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
11849178 AACACAGAAA
* *
11849188 TTTTTTTTGAAAACAAGAAAATTTTCAAAATACGGGAATTTTTGAAAACAC
1 TTTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAA-TTTTGAAAACAC
* ** *
11849239 TTTTTTTTAAAAACATGAAAATTTTTGAAACACTGGAATTTTGAAAACAC
1 TTTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAATTTTGAAAACAC
11849289 GAAGATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 12 0.27
51 32 0.73
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.37
Consensus pattern (50 bp):
TTTTTTTTAAAAACAAGAAAATTTTCAAAACACGGGAATTTTGAAAACAC
Found at i:11849286 original size:34 final size:35
Alignment explanation
Indices: 11849242--11849334 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 35
11849232 AAAACACTTT
* *
11849242 TTTTTAAAAACATGAAAATTTTTGAAACACTG-GAA
1 TTTTTGAAAACACGAAAATTTTTGAAAC-CTGAGAA
* *
11849277 -TTTTGAAAACACGAAGATTTTTGAAACGTGAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACCTGAGAA
*
11849311 TTTTTTGAAAACACGAAATTTTTT
1 -TTTTTGAAAACACGAAAATTTTT
11849335 AAAAAAAACA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
33 2 0.04
34 27 0.55
36 20 0.41
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.37
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACCTGAGAA
Found at i:11849339 original size:18 final size:18
Alignment explanation
Indices: 11849241--11849412 Score: 63
Period size: 18 Copynumber: 9.4 Consensus size: 18
11849231 GAAAACACTT
*
11849241 TTTTTTAAAAACATGAAA
1 TTTTTTAAAAACACGAAA
* * *
11849259 ATTTTT-GAAACACTGGAA
1 TTTTTTAAAAACAC-GAAA
*
11849277 --TTTTGAAAACACGAAGA
1 TTTTTTAAAAACACGAA-A
* **
11849294 -TTTTT-GAAACGTGAGAA
1 TTTTTTAAAAACACGA-AA
*
11849311 TTTTTTGAAAACACGAAA
1 TTTTTTAAAAACACGAAA
11849329 TTTTTTAAAAAAAACACGGAAA
1 TTTTTT---AAAAACAC-GAAA
* *
11849351 TTTTTGAAACACGA-GAAA
1 TTTTTTAAAAAC-ACGAAA
*
11849369 TTTTTTTAAAAAACCCGAAA
1 -TTTTTT-AAAAACACGAAA
* * *
11849389 ATTTTT-GAAACACG-AT
1 TTTTTTAAAAACACGAAA
11849405 TTTTTTAA
1 TTTTTTAA
11849413 GAAGTATTGT
Statistics
Matches: 114, Mismatches: 24, Indels: 33
0.67 0.14 0.19
Matches are distributed among these distances:
16 12 0.11
17 25 0.22
18 30 0.26
19 21 0.18
20 10 0.09
21 7 0.06
22 9 0.08
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (18 bp):
TTTTTTAAAAACACGAAA
Found at i:11849362 original size:17 final size:17
Alignment explanation
Indices: 11849257--11849373 Score: 71
Period size: 18 Copynumber: 6.5 Consensus size: 17
11849247 AAAAACATGA
11849257 AAATTTTTGAAACACTGG
1 AAATTTTTGAAACAC-GG
11849275 -AA-TTTTGAAAACAC-G
1 AAATTTTTG-AAACACGG
**
11849290 AAGATTTTTGAAACGTGAG
1 AA-ATTTTTGAAACACG-G
*
11849309 AATTTTTTGAAAACAC-G
1 AAATTTTTG-AAACACGG
*
11849326 AAATTTTTTAAAAAAAACACGG
1 AAA-TTTTT----GAAACACGG
11849348 AAATTTTTGAAACACGAG
1 AAATTTTTGAAACACG-G
11849366 AAATTTTT
1 AAATTTTT
11849374 TTAAAAAACC
Statistics
Matches: 77, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
15 1 0.01
16 6 0.08
17 23 0.30
18 25 0.32
19 7 0.09
21 11 0.14
22 4 0.05
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (17 bp):
AAATTTTTGAAACACGG
Found at i:11849373 original size:39 final size:38
Alignment explanation
Indices: 11849312--11849403 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 38
11849302 ACGTGAGAAT
* *
11849312 TTTTTGAAAACACGAAATTTTTTAAAAAAAACACGGAAA
1 TTTTTG-AAACACGAAAATTTTTAAAAAAAACACGAAAA
** *
11849351 TTTTTGAAACACGAGAAATTTTTTTAAAAAACCCGAAAA
1 TTTTTGAAACACGA-AAATTTTTAAAAAAAACACGAAAA
11849390 TTTTTGAAACACGA
1 TTTTTGAAACACGA
11849404 TTTTTTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 8 0.17
39 39 0.83
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (38 bp):
TTTTTGAAACACGAAAATTTTTAAAAAAAACACGAAAA
Found at i:11849843 original size:21 final size:21
Alignment explanation
Indices: 11849817--11849856 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11849807 AAAAAGCTCA
11849817 AAAATACGAGATTGACCGATC
1 AAAATACGAGATTGACCGATC
*
11849838 AAAATACGAGCTTGACCGA
1 AAAATACGAGATTGACCGA
11849857 GAGGGTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (21 bp):
AAAATACGAGATTGACCGATC
Found at i:11849893 original size:7 final size:7
Alignment explanation
Indices: 11849881--11849968 Score: 88
Period size: 7 Copynumber: 12.1 Consensus size: 7
11849871 TCGAGCCTTC
11849881 CTTTTTT
1 CTTTTTT
11849888 CTTTTTT
1 CTTTTTT
*
11849895 C-TTTTC
1 CTTTTTT
11849901 CTTTTTT
1 CTTTTTT
11849908 CCCTTTTTTTT
1 --C--TTTTTT
*
11849919 CTCTTTT
1 CTTTTTT
11849926 CTTTTTT
1 CTTTTTT
11849933 CTTTTTT
1 CTTTTTT
*
11849940 CTGTTTT
1 CTTTTTT
*
11849947 CTGTTTT
1 CTTTTTT
*
11849954 CTGTTTT
1 CTTTTTT
11849961 CTTTTTT
1 CTTTTTT
11849968 C
1 C
11849969 CTTCTTTTTC
Statistics
Matches: 70, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.07
7 57 0.81
9 2 0.03
11 6 0.09
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.77
Consensus pattern (7 bp):
CTTTTTT
Found at i:11849912 original size:9 final size:8
Alignment explanation
Indices: 11849878--11849982 Score: 59
Period size: 7 Copynumber: 13.9 Consensus size: 8
11849868 GACTCGAGCC
11849878 TTCCTTTT
1 TTCCTTTT
11849886 TT-CTTTT
1 TTCCTTTT
11849893 TT-C--TT
1 TTCCTTTT
11849898 TTCCTTTT
1 TTCCTTTT
11849906 TTCCCTTTTT
1 TT-CC-TTTT
* *
11849916 TTTCTCTT
1 TTCCTTTT
11849924 TT-CTTTT
1 TTCCTTTT
11849931 TT-CTTTT
1 TTCCTTTT
*
11849938 TT-CTGTT
1 TTCCTTTT
*
11849945 TT-CTGTT
1 TTCCTTTT
*
11849952 TT-CTGTT
1 TTCCTTTT
11849959 TT-CTTTT
1 TTCCTTTT
11849966 TTCCTTCTTT
1 TTCC-T-TTT
11849976 TTCCTTT
1 TTCCTTT
11849983 GGCCTGCTTC
Statistics
Matches: 84, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.05
6 1 0.01
7 47 0.56
8 14 0.17
9 5 0.06
10 13 0.15
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (8 bp):
TTCCTTTT
Found at i:11850268 original size:18 final size:18
Alignment explanation
Indices: 11850247--11850290 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
11850237 GTTTGGGTTG
11850247 CGGGTCGGGTCACCGGAT
1 CGGGTCGGGTCACCGGAT
* *
11850265 CGGGTCGTGTCGCCGGAT
1 CGGGTCGGGTCACCGGAT
11850283 CGGGTCGG
1 CGGGTCGG
11850291 TTTGACCCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.27, G:0.48, T:0.18
Consensus pattern (18 bp):
CGGGTCGGGTCACCGGAT
Found at i:11850344 original size:6 final size:6
Alignment explanation
Indices: 11850334--11850368 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
11850324 ATTTTTTATT
11850334 TTTTTCC TTTTTC -TTTTC TTTTTC TTTTTC TTTTT
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
11850369 TCTTCTCTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:11850356 original size:12 final size:11
Alignment explanation
Indices: 11850335--11850401 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 11
11850325 TTTTTTATTT
11850335 TTTTCCTTTTTC
1 TTTT-CTTTTTC
11850347 TTTTCTTTTTC
1 TTTTCTTTTTC
11850358 TTTTTCTTTTTTC
1 -TTTTC-TTTTTC
* **
11850371 TTCTCTCCTTC
1 TTTTCTTTTTC
*
11850382 TTCTTCTTCTTC
1 TT-TTCTTTTTC
11850394 TTCTTCTT
1 TT-TTCTT
11850402 CTTCACGAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
11 13 0.28
12 28 0.60
13 6 0.13
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:11850363 original size:17 final size:18
Alignment explanation
Indices: 11850334--11850367 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
11850324 ATTTTTTATT
11850334 TTTTTCCTTTTTCTTTTC
1 TTTTTCCTTTTTCTTTTC
11850352 TTTTT-CTTTTTCTTTT
1 TTTTTCCTTTTTCTTTT
11850368 TTCTTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCCTTTTTCTTTTC
Found at i:11850384 original size:3 final size:3
Alignment explanation
Indices: 11850344--11850405 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
11850334 TTTTTCCTTT
* * *
11850344 TTC TT- TTC TTT TTC TTT TTC TT- TT- TTC TTC -TC TCC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
11850388 TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC
11850406 ACGAGCCCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
2 8 0.16
3 42 0.84
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:11850462 original size:18 final size:18
Alignment explanation
Indices: 11850422--11850465 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11850412 CCTAGCCGCC
11850422 GCGCCG-CGCCGTCGCTT
1 GCGCCGTCGCCGTCGCTT
*
11850439 GTGCCGTCGCCGTCGTCTT
1 GCGCCGTCGCCGTCG-CTT
11850458 -CGCCGTCG
1 GCGCCGTCG
11850466 AGCCGCTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 15 0.65
19 3 0.13
ACGTcount: A:0.00, C:0.43, G:0.34, T:0.23
Consensus pattern (18 bp):
GCGCCGTCGCCGTCGCTT
Found at i:11850541 original size:20 final size:20
Alignment explanation
Indices: 11850484--11850541 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
11850474 TCGGAGGCTC
*
11850484 TCCTCTTC-TTCTC-CTTTC
1 TCCTCTTCTTTCTCTCTTTT
*
11850502 TCCTC-TCTTTCTCTCCTTT
1 TCCTCTTCTTTCTCTCTTTT
*
11850521 TCCTCTTCTTTTTCTCTTTT
1 TCCTCTTCTTTCTCTCTTTT
11850541 T
1 T
11850542 TGCAAGTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 10 0.30
19 8 0.24
20 13 0.39
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (20 bp):
TCCTCTTCTTTCTCTCTTTT
Found at i:11850801 original size:29 final size:29
Alignment explanation
Indices: 11850768--11850884 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
11850758 TGTAATTTTT
*
11850768 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
11850797 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
11850827 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
11850856 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
11850885 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:11850823 original size:30 final size:30
Alignment explanation
Indices: 11850783--11850884 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
11850773 ATTTAGGATT
*
11850783 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
11850813 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
11850843 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
11850873 AAAATGCAATTT
1 AAAATGAAATTT
11850885 TTATTTTTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:11850906 original size:15 final size:16
Alignment explanation
Indices: 11850880--11850916 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
11850870 GTCAAAATGC
*
11850880 AATTTTTATTTTTTTA
1 AATTTTTATTTTTTGA
11850896 AATTTTT-TTTTTTGA
1 AATTTTTATTTTTTGA
11850911 AATTTT
1 AATTTT
11850917 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
AATTTTTATTTTTTGA
Found at i:11851298 original size:54 final size:54
Alignment explanation
Indices: 11851158--11851369 Score: 356
Period size: 54 Copynumber: 3.9 Consensus size: 54
11851148 CACGTGAGCC
* *
11851158 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
11851213 AAGGCTCAACTCACGTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
11851266 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
11851320 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
11851370 CTGAAAAGTA
Statistics
Matches: 151, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
53 28 0.19
54 86 0.57
55 37 0.25
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:11851484 original size:13 final size:14
Alignment explanation
Indices: 11851456--11851488 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
11851446 TTTTTGAAAC
11851456 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
11851470 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
11851483 ACAGAA
1 ACAGAA
11851489 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:11851496 original size:14 final size:14
Alignment explanation
Indices: 11851449--11851496 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
11851439 ATTTTTTTTT
*
11851449 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
11851463 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
11851477 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
11851490 TTGAAAA
1 TTGAAAA
11851497 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:11851760 original size:72 final size:72
Alignment explanation
Indices: 11851572--11852163 Score: 1019
Period size: 72 Copynumber: 8.2 Consensus size: 72
11851562 ATTAGTAAAG
* * *
11851572 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
11851636 TTTGAAAA
65 TTTGAAAA
*
11851644 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
11851709 TTTGAAAA
65 TTTGAAAA
*
11851717 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
11851782 TTGAGAAG
66 TTGA-AAA
11851790 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
11851855 TTGAAAA
66 TTGAAAA
*
11851862 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
11851927 TTGAAAA
66 TTGAAAA
*
11851934 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
11851999 TTGAAAA
66 TTGAAAA
*
11852006 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
11852070 TTTGAAAA
65 TTTGAAAA
11852078 GCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
11852143 TTTGAAAAA
65 TTTG-AAAA
*
11852152 CAAAAATT-AAAA
1 CAGAAATTGAAAA
11852164 GGCTTAACTC
Statistics
Matches: 501, Mismatches: 12, Indels: 13
0.95 0.02 0.02
Matches are distributed among these distances:
71 2 0.00
72 285 0.57
73 206 0.41
74 8 0.02
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:11851823 original size:145 final size:145
Alignment explanation
Indices: 11851572--11852159 Score: 1056
Period size: 145 Copynumber: 4.1 Consensus size: 145
11851562 ATTAGTAAAG
* * * *
11851572 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
11851636 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
11851701 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
11851717 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
11851782 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
11851847 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
11851862 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
11851927 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
11851991 GTTGAATTTTGAAAA
131 GTTGAATTTTGAAAA
11852006 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
11852070 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
11852135 AGTTGAATTTTGAAAAA
130 AGTTGAATTTTG-AAAA
*
11852152 CAAAAATT
1 CAGAAATT
11852160 AAAAGGCTTA
Statistics
Matches: 429, Mismatches: 9, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
143 2 0.00
144 140 0.33
145 274 0.64
146 11 0.03
147 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (145 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAA
Found at i:11852092 original size:289 final size:291
Alignment explanation
Indices: 11851572--11852163 Score: 1059
Period size: 289 Copynumber: 2.0 Consensus size: 291
11851562 ATTAGTAAAG
*
11851572 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAGTT
1 CAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAGTT
*
11851637 TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
11851702 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
11851767 AATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
196 AATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
11851832 TTTCTCGCAATATGAGTTGAATTTTG-AAAA
261 TTTCTCGCAATATGAGTTGAATTTTGAAAAA
* * *
11851862 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
1 CAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
*
11851926 TTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
11851990 AGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
130 AGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
11852054 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
194 GCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACT
11852119 CATTTCTCGCAATATGAGTTGAATTTTGAAAAA
259 CATTTCTCGCAATATGAGTTGAATTTTGAAAAA
*
11852152 CAAAAATT-AAAA
1 CAGAAATTGAAAA
11852164 GGCTTAACTC
Statistics
Matches: 290, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
288 2 0.01
289 210 0.72
290 76 0.26
291 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (291 bp):
CAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAGTT
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
AATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
TTTCTCGCAATATGAGTTGAATTTTGAAAAA
Done.