Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 87 of 444
Found at i:20705540 original size:31 final size:31
Alignment explanation
Indices: 20705505--20705570 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
20705495 TTCCATTAGC
*
20705505 AAATTTGTAGTCAGCCTTTCTGCAATGTTAA
1 AAATTTGTAGTCAGCCTTTCTGAAATGTTAA
* *
20705536 AAATTTGTAGTCAGTCTTTCTGAAATGTTAC
1 AAATTTGTAGTCAGCCTTTCTGAAATGTTAA
20705567 AAAT
1 AAAT
20705571 ATAGTTTGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (31 bp):
AAATTTGTAGTCAGCCTTTCTGAAATGTTAA
Found at i:20709717 original size:19 final size:18
Alignment explanation
Indices: 20709684--20709731 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
20709674 ATTTTCCTTT
* *
20709684 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
20709702 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
20709721 TTTCTTTCTCT
1 TTTCTTTCTCT
20709732 GTAACTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:20709935 original size:3 final size:3
Alignment explanation
Indices: 20709914--20709968 Score: 87
Period size: 3 Copynumber: 18.7 Consensus size: 3
20709904 TTATCTCCAT
20709914 TAA TAGA TAA -AA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20709958 TAA TAA TAA TA
1 TAA TAA TAA TA
20709969 TCTTTTACTT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.08
3 42 0.86
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20711238 original size:31 final size:31
Alignment explanation
Indices: 20711197--20711255 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
20711187 ATTATTTATT
20711197 AGATAATTATTATT-TATTTAATATTTTAATA
1 AGATAATTATTATTAT-TTTAATATTTTAATA
* *
20711228 AGATATTTATTATTATTTTATTATTTTA
1 AGATAATTATTATTATTTTAATATTTTA
20711256 TTTAGTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.59
Consensus pattern (31 bp):
AGATAATTATTATTATTTTAATATTTTAATA
Found at i:20712977 original size:21 final size:21
Alignment explanation
Indices: 20712951--20712990 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
20712941 ACAAGGTAAG
20712951 TTAGTGTAACTTGAATTGTTT
1 TTAGTGTAACTTGAATTGTTT
20712972 TTAGTGTAACTTGAATTGT
1 TTAGTGTAACTTGAATTGT
20712991 ACTTTCGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (21 bp):
TTAGTGTAACTTGAATTGTTT
Found at i:20718088 original size:5 final size:5
Alignment explanation
Indices: 20718074--20718160 Score: 57
Period size: 5 Copynumber: 16.6 Consensus size: 5
20718064 GATGGGGTAG
* * * * *
20718074 GATAT CATAT GATAT GCTAT GATAC GTTAT GAGATAT GATAT GATAT GATAC
1 GATAT GATAT GATAT GATAT GATAT GATAT --GATAT GATAT GATAT GATAT
* * * *
20718126 GAAATGT GCTAT GACAT GATAT GATAA GATAT GAT
1 G--ATAT GATAT GATAT GATAT GATAT GATAT GAT
20718161 GTAAGATAAG
Statistics
Matches: 60, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
5 53 0.88
7 7 0.12
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (5 bp):
GATAT
Found at i:20718121 original size:27 final size:27
Alignment explanation
Indices: 20718080--20718151 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
20718070 GTAGGATATC
* **
20718080 ATATGATATGCTATGATACGTTATGAG
1 ATATGATATGATATGATACGAAATGAG
*
20718107 ATATGATATGATATGATACGAAATGTG
1 ATATGATATGATATGATACGAAATGAG
* *
20718134 CTATGACATGATATGATA
1 ATATGATATGATATGATA
20718152 AGATATGATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (27 bp):
ATATGATATGATATGATACGAAATGAG
Found at i:20720094 original size:49 final size:47
Alignment explanation
Indices: 20720031--20720264 Score: 134
Period size: 49 Copynumber: 4.7 Consensus size: 47
20720021 ACTATTTTCA
*
20720031 TATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTAT
1 TATTTTATTTTTTTATATTATTTTAGTAAATAATGTTTCAAATGTAT
* ** *
20720078 TATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTT
1 TATTTTA-T-TTTTTTATATTATTTTAGTAAATAA---TG--TTT---CAAATGTAT
** * * * * * * **
20720135 GTATTTTTAAAATTTTTGGATTTTATTTT--TAAA-AAT-ATACTATTTTCG
1 -TA-TTTT---ATTTTTTTATATTATTTTAGTAAATAATGTTTCAAATGTAT
*
20720183 TATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTAT
1 TATTTTATTTTTTTATATTATTTTAGTAAATAATGTTTCAAATGTAT
*
20720230 TATTTTAGTGTTTTTTATATTAATTTAGTAAATAA
1 TATTTTA-T-TTTTTTATATTATTTTAGTAAATAA
20720265 CCCTGATTTT
Statistics
Matches: 137, Mismatches: 29, Indels: 40
0.67 0.14 0.19
Matches are distributed among these distances:
43 15 0.11
45 3 0.02
46 7 0.05
47 21 0.15
48 6 0.04
49 46 0.34
51 1 0.01
52 2 0.01
54 4 0.03
57 8 0.06
58 6 0.04
59 4 0.03
60 12 0.09
61 1 0.01
62 1 0.01
ACGTcount: A:0.29, C:0.05, G:0.09, T:0.57
Consensus pattern (47 bp):
TATTTTATTTTTTTATATTATTTTAGTAAATAATGTTTCAAATGTAT
Found at i:20720435 original size:301 final size:301
Alignment explanation
Indices: 20719985--20720548 Score: 1006
Period size: 301 Copynumber: 1.9 Consensus size: 301
20719975 TATTTTTAAA
*
20719985 ATTTTTAAAATTTTCGGATCTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGGATCTTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTTATATT
20720050 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
20720115 CTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTT
130 CTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTT
* *
20720180 TCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTT
195 TCATATTTTA--TTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTT
20720245 TATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTATTTGT
258 TATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTATTTGT
* * *
20720289 ATTTTTGAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTATATTA
1 ATTTTTAAAATTTTCGGATCTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTA
20720353 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAATAACCC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
* * *
20720417 TGATTTTGGCCATTTGTTTGTATTTTTAATATTTTTTGATTTTATTTTTTAAAATATACTATTTT
131 TGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTT
20720482 CATATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAT
196 CATATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAT
20720547 AT
261 AT
20720549 AAGAATAATA
Statistics
Matches: 251, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
299 57 0.23
301 98 0.39
302 47 0.19
304 49 0.20
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (301 bp):
ATTTTTAAAATTTTCGGATCTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
TGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTT
CATATTTTATTTTTATATTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTAT
ATTAATTTAGTAAATAACCCTGATTTTGGCCATTTATTTGT
Found at i:20720451 original size:149 final size:151
Alignment explanation
Indices: 20719985--20720548 Score: 999
Period size: 152 Copynumber: 3.7 Consensus size: 151
20719975 TATTTTTAAA
* * *
20719985 ATTTTTAAAATTTTCGGATCTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTTATATT
20720050 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
20720115 CTGATTTTGGCCATTTGTTTGT
130 CTGATTTTGGCCATTTGTTTGT
*
20720137 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTTATATT
20720202 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACC
*
20720267 CTGATTTTGGCCATTTATTTGT
130 CTGATTTTGGCCATTTGTTTGT
*
20720289 ATTTTTGAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTA
20720353 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAATAACCC
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
20720417 TGATTTTGGCCATTTGTTTGT
131 TGATTTTGGCCATTTGTTTGT
* * *
20720438 ATTTTTAATATTTTTTGATTTTATTTTTTAAAATATACTATTTTCATATTTTA-TTTTTATATTA
1 ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTA
*
20720502 TTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATAT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATAT
20720549 AAGAATAATA
Statistics
Matches: 398, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
149 143 0.36
150 57 0.14
152 198 0.50
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (151 bp):
ATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCC
TGATTTTGGCCATTTGTTTGT
Found at i:20720613 original size:301 final size:301
Alignment explanation
Indices: 20720005--20720613 Score: 852
Period size: 301 Copynumber: 2.0 Consensus size: 301
20719995 TTTTCGGATC
*
20720005 TTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC
1 TTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTC
20720070 AAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTT
65 AAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTT
*
20720135 GTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCGTATTTTATTTTTTTATA
130 GTATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTTATA
* * *
20720200 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAA
194 TTATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAA-TGAATAAATAA
*** *** ** **** * *****
20720265 CCCTGATTTTGGCCATTTATTTGTATTTTTGAAATTTTTGGATT
258 AAATGAAAATGGAAATTTATTTGTAAAAATAAAATTCCAAAATT
20720309 TTATTTTTAAAAATATACTATTTTCATATTTTA-TTTTTATATTATTTTAGTACATAATGTTTCA
1 TTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA
20720373 AATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTG
66 AATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTG
* * *
20720437 TATTTTTAATATTTTTTGATTTTATTTTTTAAAATATACTATTTTCATATTTTA-TTTTTATATT
131 TATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATT
20720501 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATA-TAA-GAATAATATAAAA
196 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATGAATAA-ATAAAA
*
20720564 AT-AAAATGCGAAAATAGTATATTTTTAAAAATAAAATTCCAAAATT
260 ATGAAAATG-G-AAAT--T-TATTTGTAAAAATAAAATTCCAAAATT
20720610 TTAT
1 TTAT
20720614 AAATACAAAG
Statistics
Matches: 272, Mismatches: 27, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
296 7 0.03
297 6 0.02
298 5 0.02
299 56 0.21
300 1 0.00
301 118 0.43
302 47 0.17
304 32 0.12
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (301 bp):
TTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA
AATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCATTTGTTTG
TATTTTTAAAATTTTTGGATTTTATTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATT
ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATGAATAAATAAAAA
TGAAAATGGAAATTTATTTGTAAAAATAAAATTCCAAAATT
Found at i:20720745 original size:150 final size:149
Alignment explanation
Indices: 20720552--20720919 Score: 589
Period size: 150 Copynumber: 2.5 Consensus size: 149
20720542 TTTATATAAG
* *
20720552 AATAATAT-AAAAATAAAATGCGAAAATAGTATATTTTTAAAAATAAAATTCCAAAATTTTATAA
1 AATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAA-TCCAAAATTTTAAAA
* *
20720616 ATACAAAGAAAGGGCCAAAATTAGAGTTATTTACTAAATTAATATAAAAAA-ACTAAAATAATAC
65 ATACAAACAAAGGGACAAAATTAGAGTTATTTACTAAATTAATATAAAAAACACTAAAATAATAC
20720680 ATTTGAAACATTATGTACTAA
130 ATTTGAAACATTAT-TACTAA
**
20720701 AATAATATAAAAAAATAAAATACGAAAATAGTA-ATTTTTAAAAATAAAATCTGGAAATTTTAAA
1 AATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAATC-CAAAATTTTAAA
20720765 AATACAAACAAAGGGACAAAATTAGAGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
64 AATACAAACAAAGGGACAAAATTAGAGTTATTTACTAAATTAATATAAAAAACACTAAAATAATA
20720830 CATTTGAAACATTATTACTAA
129 CATTTGAAACATTATTACTAA
* * *
20720851 AATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAGATCCGAAAATTTTAAAA
1 AATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAATCC-AAAATTTTAAAA
20720916 ATAC
65 ATAC
20720920 GAAATTTTTT
Statistics
Matches: 202, Mismatches: 11, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
149 33 0.16
150 120 0.59
151 49 0.24
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (149 bp):
AATAATATAAAAAATAAAATACGAAAATAGTATATTTTTAAAAATAAAATCCAAAATTTTAAAAA
TACAAACAAAGGGACAAAATTAGAGTTATTTACTAAATTAATATAAAAAACACTAAAATAATACA
TTTGAAACATTATTACTAA
Found at i:20721046 original size:17 final size:16
Alignment explanation
Indices: 20721026--20721068 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
20721016 TTGCATCACT
20721026 AAAATTATTATTAAATA
1 AAAATTATT-TTAAATA
* *
20721043 AAAATTAATTTAAATT
1 AAAATTATTTTAAATA
20721059 AAAATATATT
1 AAAAT-TATT
20721069 GAACTACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATTATTTTAAATA
Found at i:20721055 original size:16 final size:17
Alignment explanation
Indices: 20721026--20721063 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
20721016 TTGCATCACT
*
20721026 AAAATTATTATTAAATA
1 AAAATTAATATTAAATA
*
20721043 AAAATTAAT-TTAAATT
1 AAAATTAATATTAAATA
20721059 AAAAT
1 AAAAT
20721064 ATATTGAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTAATATTAAATA
Found at i:20724404 original size:14 final size:14
Alignment explanation
Indices: 20724387--20724422 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
20724377 TAAGCCCCTT
20724387 AATTTTAAATCCTA
1 AATTTTAAATCCTA
20724401 AATTTTAAATCCTA
1 AATTTTAAATCCTA
20724415 AATTTTAA
1 AATTTTAA
20724423 TTAAATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AATTTTAAATCCTA
Found at i:20724469 original size:14 final size:14
Alignment explanation
Indices: 20724387--20724462 Score: 61
Period size: 14 Copynumber: 5.7 Consensus size: 14
20724377 TAAGCCCCTT
*
20724387 AATTTTAAATCCTA
1 AATTTTAAATACTA
*
20724401 AATTTTAAATCCTA
1 AATTTTAAATACTA
20724415 AATTTT-AAT--TA
1 AATTTTAAATACTA
*** *
20724426 AATCCAAAAAACT-
1 AATTTTAAATACTA
*
20724439 AACTTTAAATACTA
1 AATTTTAAATACTA
20724453 AATTTTAAAT
1 AATTTTAAAT
20724463 TATAAATCCT
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
11 5 0.10
12 2 0.04
13 11 0.23
14 30 0.62
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTAAATACTA
Found at i:20731674 original size:4 final size:4
Alignment explanation
Indices: 20731661--20731700 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
20731651 TAGTTTTTTG
20731661 AATT -ATT AATT AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT AATT A
20731701 GTTGAAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:20740511 original size:21 final size:20
Alignment explanation
Indices: 20740483--20740522 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
20740473 TGCTGGACAG
*
20740483 GAGCGGAATGGGAGTGTTTA
1 GAGCGGAATGAGAGTGTTTA
20740503 GAGCTGGAATGAGAGTGTTT
1 GAGC-GGAATGAGAGTGTTT
20740523 GGTTGCTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.25, C:0.05, G:0.42, T:0.28
Consensus pattern (20 bp):
GAGCGGAATGAGAGTGTTTA
Found at i:20749340 original size:9 final size:8
Alignment explanation
Indices: 20749326--20749350 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20749316 TAAATAGTGC
20749326 AAAAAAAG
1 AAAAAAAG
20749334 AAAAAAAG
1 AAAAAAAG
20749342 AAAAAAAG
1 AAAAAAAG
20749350 A
1 A
20749351 GACACCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:20754127 original size:2 final size:2
Alignment explanation
Indices: 20754122--20754147 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20754112 TATGGTTGAA
20754122 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20754148 GAAATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20754178 original size:16 final size:16
Alignment explanation
Indices: 20754150--20754189 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
20754140 ATATATATGA
20754150 AATTTTGATTTTGAT-T
1 AATTTT-ATTTTGATCT
20754166 CAATTTTATTTTGATCT
1 -AATTTTATTTTGATCT
20754183 AATTTTA
1 AATTTTA
20754190 CATATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (16 bp):
AATTTTATTTTGATCT
Found at i:20756533 original size:11 final size:10
Alignment explanation
Indices: 20756510--20756543 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
20756500 ATAGTAAGTG
*
20756510 TTTTAATTTT
1 TTTTAAATTT
20756520 TTTTAAAGTTT
1 TTTTAAA-TTT
20756531 TTTTAAATTT
1 TTTTAAATTT
20756541 TTT
1 TTT
20756544 AAAAAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:20758132 original size:3 final size:3
Alignment explanation
Indices: 20758126--20758159 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
20758116 ATCATCATCA
*
20758126 TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
20758160 TTTGTTAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TCT
Found at i:20759393 original size:28 final size:27
Alignment explanation
Indices: 20759361--20759418 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
20759351 GAACTGCTTT
*
20759361 TTTAAAA-AATTAAAAATCATTAAAATTA
1 TTTAAAAGAA-TAAAAATCA-TAAAAATA
*
20759389 TTTAAAAGAATAAAAATTATAAAAATA
1 TTTAAAAGAATAAAAATCATAAAAATA
20759416 TTT
1 TTT
20759419 TTTAATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 10 0.37
28 15 0.56
29 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
TTTAAAAGAATAAAAATCATAAAAATA
Found at i:20763826 original size:68 final size:68
Alignment explanation
Indices: 20763681--20763851 Score: 193
Period size: 68 Copynumber: 2.5 Consensus size: 68
20763671 ATCCTGGTGA
* * * * * *
20763681 ACTTCTTATGTTGCCACAGCCTACCTATGGTCTTACATAGTATTAACCTATGTTTACTGTCCTAC
1 ACTTCATATGTTGCCATAGCCTAGCTATGGTCTTACACAATATTAACCCATGTTTACTGTCCTAC
*
20763746 TGG
66 TAG
* * * *
20763749 AC-TCTATATGTTGTCATAGTCTAGCTATGGTCTTACACAATATTGACCCATGTTTACTGTCTTG
1 ACTTC-ATATGTTGCCATAGCCTAGCTATGGTCTTACACAATATTAACCCATGTTTACTGTCCT-
*
20763813 GC-AG
64 ACTAG
*
20763817 ACTTCATATGTTGCCATAGCCTAGTTATGGTCTTA
1 ACTTCATATGTTGCCATAGCCTAGCTATGGTCTTA
20763852 TATATCAGAT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
67 2 0.02
68 80 0.94
69 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (68 bp):
ACTTCATATGTTGCCATAGCCTAGCTATGGTCTTACACAATATTAACCCATGTTTACTGTCCTAC
TAG
Found at i:20765889 original size:17 final size:16
Alignment explanation
Indices: 20765867--20765899 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
20765857 ATATGGTCTT
20765867 TTAACCAACTCATATAA
1 TTAACCAACTCA-ATAA
20765884 TTAACCAACTCAATAA
1 TTAACCAACTCAATAA
20765900 ACAATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACCAACTCAATAA
Found at i:20767736 original size:5 final size:5
Alignment explanation
Indices: 20767726--20767751 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
20767716 GACCAAAATC
20767726 AAGAA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA A
20767752 TTGGTAGTGG
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:20767785 original size:2 final size:2
Alignment explanation
Indices: 20767780--20767817 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
20767770 GGAAAACATC
20767780 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20767818 GAAAAGAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20799704 original size:26 final size:26
Alignment explanation
Indices: 20799675--20799725 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
20799665 TAGAAGTACA
*
20799675 TAATTTTAG-TTTCTTATTCTACAAGT
1 TAATTTTAGCTTT-TTAGTCTACAAGT
20799701 TAATTTTAGCTTTTTAGTCTACAAG
1 TAATTTTAGCTTTTTAGTCTACAAG
20799726 AATAAAGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (26 bp):
TAATTTTAGCTTTTTAGTCTACAAGT
Found at i:20804891 original size:102 final size:102
Alignment explanation
Indices: 20804715--20804905 Score: 265
Period size: 102 Copynumber: 1.9 Consensus size: 102
20804705 CTGGTTTCAC
* * * * * * * *
20804715 TATCATCTAATTTCTTTAAATTATTAAGCTAGAATTCTTTTCATTTTCAAAGAGATACAGAAGCA
1 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
* *
20804780 TAAATACGGCTAGATGGCAAGAACATGACTGCTAGTT
66 TAAATACGGCTAAATGACAAGAACATGACTGCTAGTT
* * *
20804817 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAATGAGATAAAGATGTA
1 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
20804882 TAAATACGGCTAAATGACAAGAAC
66 TAAATACGGCTAAATGACAAGAAC
20804906 GTTCATGTAG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
102 76 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.32
Consensus pattern (102 bp):
TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
TAAATACGGCTAAATGACAAGAACATGACTGCTAGTT
Found at i:20805535 original size:25 final size:25
Alignment explanation
Indices: 20805503--20805552 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
20805493 AATAAAGATA
20805503 AATTTTAATGGGAGGATACATTTAT
1 AATTTTAATGGGAGGATACATTTAT
20805528 AATTTTAATGGGAGGATACATTTAT
1 AATTTTAATGGGAGGATACATTTAT
20805553 TCACACAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (25 bp):
AATTTTAATGGGAGGATACATTTAT
Found at i:20807167 original size:14 final size:14
Alignment explanation
Indices: 20807144--20807182 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
20807134 TTTTTCAACA
20807144 TTTTACCTTTTCTT
1 TTTTACCTTTTCTT
* *
20807158 TTTTAACTTTACTT
1 TTTTACCTTTTCTT
20807172 TTTTACCTTTT
1 TTTTACCTTTT
20807183 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTACCTTTTCTT
Found at i:20811649 original size:19 final size:19
Alignment explanation
Indices: 20811624--20811676 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
20811614 ATGAATAATT
*
20811624 TAAAATTTATAAAAAATCA
1 TAAAAATTATAAAAAATCA
*
20811643 -AAAAATTATAAAAATTCA
1 TAAAAATTATAAAAAATCA
20811661 TAAAAATTATAAAAAA
1 TAAAAATTATAAAAAA
20811677 AATAGTATGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAATTATAAAAAATCA
Found at i:20811655 original size:9 final size:9
Alignment explanation
Indices: 20811620--20811675 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
20811610 GTTAATGAAT
20811620 AATT-TAAA
1 AATTATAAA
*
20811628 ATTTATAAAA
1 AATTAT-AAA
*
20811638 AATCA-AAA
1 AATTATAAA
20811646 AATTATAAA
1 AATTATAAA
20811655 AATTCATAAA
1 AATT-ATAAA
20811665 AATTATAAA
1 AATTATAAA
20811674 AA
1 AA
20811676 AAATAGTATG
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
8 10 0.25
9 15 0.38
10 15 0.38
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:20811776 original size:31 final size:31
Alignment explanation
Indices: 20811741--20811801 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
20811731 TATTTTAGTA
20811741 ATTAAAAAATAGTAATTTAA-T-TTTTTAAAAT
1 ATTAAAAAATA--AATTTAATTCTTTTTAAAAT
* *
20811772 ATTAATAATTAAATTTAATTCTTTTTAAAA
1 ATTAAAAAATAAATTTAATTCTTTTTAAAA
20811802 GACTACAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 7 0.27
30 1 0.04
31 18 0.69
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTAAAAAATAAATTTAATTCTTTTTAAAAT
Found at i:20815501 original size:39 final size:39
Alignment explanation
Indices: 20815451--20815536 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
20815441 AAATTAATGT
20815451 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
* * *
20815490 CTAGCAGGCCTCGTGCCGGTGTTAAGTTCGGGTTTATAC
1 CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
20815529 CTAGCAGG
1 CTAGCAGG
20815537 AAAATTGCCG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (39 bp):
CTAGCAGGCCTCGTGCCGGTGATAAATTCAGGTTTATAC
Found at i:20815546 original size:39 final size:39
Alignment explanation
Indices: 20815463--20815548 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
20815453 AGCAGGCCTC
****
20815463 GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGCCTC
1 GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGAAAA
* * *
20815502 GTGCCGGTGTTAAGTTCGGGTTTATACCTAGCAGGAAAA
1 GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGAAAA
*
20815541 TTGCCGGT
1 GTGCCGGT
20815549 TAAACAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
GTGCCGGTGATAAATTCAGGTTTATACCTAGCAGGAAAA
Found at i:20817473 original size:5 final size:5
Alignment explanation
Indices: 20817463--20817494 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
20817453 TCAAGTGTGA
20817463 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
20817495 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:20817488 original size:9 final size:9
Alignment explanation
Indices: 20817464--20817494 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
20817454 CAAGTGTGAA
20817464 AAATAAAAT
1 AAATAAAAT
20817473 AAAATAAAAT
1 -AAATAAAAT
20817483 AAATAAAAT
1 AAATAAAAT
20817492 AAA
1 AAA
20817495 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:20821921 original size:5 final size:5
Alignment explanation
Indices: 20821911--20821942 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
20821901 CAATTTGTGA
20821911 AAAAT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
20821943 GATGACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:20821936 original size:9 final size:9
Alignment explanation
Indices: 20821912--20821942 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
20821902 AATTTGTGAA
20821912 AAATAAAAT
1 AAATAAAAT
20821921 AAAATAAAAT
1 -AAATAAAAT
20821931 AAATAAAAT
1 AAATAAAAT
20821940 AAA
1 AAA
20821943 GATGACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:20823887 original size:2 final size:2
Alignment explanation
Indices: 20823880--20823916 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
20823870 TTGGACATTC
20823880 AT AT AT 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 AT AT AT A
20823917 GCAAAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20826430 original size:14 final size:16
Alignment explanation
Indices: 20826398--20826427 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20826388 AATAAAATAT
20826398 TTATATTAAAATAAAA
1 TTATATTAAAATAAAA
20826414 TTATATT-AAATAAA
1 TTATATTAAAATAAA
20826428 TTAAAATGAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTATATTAAAATAAAA
Found at i:20835284 original size:34 final size:32
Alignment explanation
Indices: 20835210--20835273 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
20835200 TAAGCAAAAA
20835210 AATGTTGGAATGAACATTATTGTGTGTTGAGT
1 AATGTTGGAATGAACATTATTGTGTGTTGAGT
*
20835242 AATGTTGGAATGGACATTATTGTGTGTTGAGT
1 AATGTTGGAATGAACATTATTGTGTGTTGAGT
20835274 GTTGTGTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.30, T:0.41
Consensus pattern (32 bp):
AATGTTGGAATGAACATTATTGTGTGTTGAGT
Found at i:20838641 original size:15 final size:15
Alignment explanation
Indices: 20838623--20838666 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 15
20838613 TTTTTACGTT
20838623 ATTTATTTTAAATTC
1 ATTTATTTTAAATTC
*
20838638 A--T-TTTTACATT-
1 ATTTATTTTAAATTC
20838649 ATTTATTTTAAATTC
1 ATTTATTTTAAATTC
20838664 ATT
1 ATT
20838667 CATGGTCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 1 0.04
12 8 0.35
13 2 0.09
14 8 0.35
15 4 0.17
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTATTTTAAATTC
Found at i:20838642 original size:26 final size:26
Alignment explanation
Indices: 20838613--20838666 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
20838603 ATTTTAACCT
*
20838613 TTTTTACGTTATTTATTTTAAATTCA
1 TTTTTACATTATTTATTTTAAATTCA
20838639 TTTTTACATTATTTATTTTAAATTCA
1 TTTTTACATTATTTATTTTAAATTCA
20838665 TT
1 TT
20838667 CATGGTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTTACATTATTTATTTTAAATTCA
Found at i:20851561 original size:88 final size:89
Alignment explanation
Indices: 20851410--20851592 Score: 332
Period size: 88 Copynumber: 2.1 Consensus size: 89
20851400 ACAACGGTGA
*
20851410 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCTCCTAAGCAGT
1 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCCCCTAAGCAGT
*
20851475 AGGGTAATAGGCTGGAAATTACAG
66 AGGGTAATAGGCTGAAAATTACAG
*
20851499 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCATA-TTAAGCCACCAAGCCTTAACCCCCTAAGCAGT
1 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCCCCTAAGCAGT
20851563 AGGGTAATAGGCTGAAAATTACAG
66 AGGGTAATAGGCTGAAAATTACAG
20851587 ATCTTG
1 ATCTTG
20851593 TATCTCTGAA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
88 60 0.66
89 31 0.34
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (89 bp):
ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCCCCTAAGCAGT
AGGGTAATAGGCTGAAAATTACAG
Found at i:20851602 original size:88 final size:88
Alignment explanation
Indices: 20851410--20851619 Score: 318
Period size: 88 Copynumber: 2.4 Consensus size: 88
20851400 ACAACGGTGA
*
20851410 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCTCCTAAGCAGT
1 ATCTTG-CTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCCCCTAAGCAGT
*
20851475 AGGGTAATAGGCTGGAAATTACAG
65 AGGGTAATAGGCTGAAAATTACAG
*
20851499 ATCTTGCCTTCCTGAAGTTGCAGTGAAGCATA-TTAAGCCACCAAGCCTTAACCCCCTAAGCAGT
1 ATCTTG-CTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCCCCTAAGCAGT
20851563 AGGGTAATAGGCTGAAAATTACAG
65 AGGGTAATAGGCTGAAAATTACAG
*
20851587 ATCTTG-TATCTCTGAAGTTACAGTGGAA-CAGAT
1 ATCTTGCT-TC-CTGAAGTTGCAGT-GAAGCAGAT
20851620 CGAATACAGC
Statistics
Matches: 112, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
86 1 0.01
87 2 0.02
88 75 0.67
89 34 0.30
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (88 bp):
ATCTTGCTTCCTGAAGTTGCAGTGAAGCAGATTTAAGCCACCAAGCCTTAACCCCCTAAGCAGTA
GGGTAATAGGCTGAAAATTACAG
Found at i:20856149 original size:2 final size:2
Alignment explanation
Indices: 20856142--20856186 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
20856132 TTCCAAGATA
*
20856142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20856184 AT A
1 AT A
20856187 AATCAAAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20856309 original size:21 final size:19
Alignment explanation
Indices: 20856285--20856338 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
20856275 TAAGATTAAA
20856285 TTAACTTTAATTAATCATAT
1 TTAA-TTTAATTAATCATAT
* *
20856305 GTTAATTATGATTAATCTTAT
1 -TTAATT-TAATTAATCATAT
20856326 TTAATTTAATTAA
1 TTAATTTAATTAA
20856339 ACCAATGTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 6 0.21
20 8 0.28
21 15 0.52
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (19 bp):
TTAATTTAATTAATCATAT
Found at i:20858876 original size:12 final size:12
Alignment explanation
Indices: 20858859--20858885 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20858849 ATCTTTTCAT
20858859 GTTAATTAGTTA
1 GTTAATTAGTTA
20858871 GTTAATTAGTTA
1 GTTAATTAGTTA
20858883 GTT
1 GTT
20858886 GATGAGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.52
Consensus pattern (12 bp):
GTTAATTAGTTA
Found at i:20859066 original size:26 final size:27
Alignment explanation
Indices: 20859030--20859104 Score: 107
Period size: 28 Copynumber: 2.8 Consensus size: 27
20859020 ATCCTCTTTG
*
20859030 AGTTTTCTTTTGAAGAATTTT-TTTTA
1 AGTTTTTTTTTGAAGAATTTTCTTTTA
20859056 AGTTTTTTTTTGAAGAATTTCTCTTTTA
1 AGTTTTTTTTTGAAGAATTT-TCTTTTA
* *
20859084 AGTTTTTTTTAGAAGAGTTTT
1 AGTTTTTTTTTGAAGAATTTT
20859105 AATAATCTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 19 0.43
27 2 0.05
28 23 0.52
ACGTcount: A:0.23, C:0.04, G:0.13, T:0.60
Consensus pattern (27 bp):
AGTTTTTTTTTGAAGAATTTTCTTTTA
Found at i:20863752 original size:21 final size:21
Alignment explanation
Indices: 20863694--20863754 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
20863684 ATAATTTAAT
*
20863694 TTATTTTTAAAATTTAAAAAA
1 TTATTTTTAAAATATAAAAAA
* *
20863715 TTATCTTTAAAAAATAAAAAA
1 TTATTTTTAAAATATAAAAAA
20863736 -TATTTTTAAAAGTATAAAA
1 TTATTTTTAAAA-TATAAAA
20863755 TTTAGTTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTTTTAAAATATAAAAAA
Found at i:20868484 original size:20 final size:20
Alignment explanation
Indices: 20868459--20868501 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
20868449 TAATAAAGTA
20868459 AAACTAGAATATTTTTATAG
1 AAACTAGAATATTTTTATAG
20868479 AAACTAGAATATTTTTATAG
1 AAACTAGAATATTTTTATAG
20868499 AAA
1 AAA
20868502 TTTATTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (20 bp):
AAACTAGAATATTTTTATAG
Found at i:20869678 original size:56 final size:56
Alignment explanation
Indices: 20869566--20869683 Score: 141
Period size: 56 Copynumber: 2.1 Consensus size: 56
20869556 CTTGAGTTTA
* * * *
20869566 TTTTATCCAAGTTAAGTCTTGAACTTGACAATTGTTTCCACATTGAGATTTAAACT
1 TTTTATCCAAATTAAGTCCTGAACTTGACAAATGTTTCCACATTGAGACTTAAACT
* * *
20869622 TTTTTTCCAAATTAAGTCCTGAACTTGACAAATG-TTCC-CATGTTAGGACTTCAACT
1 TTTTATCCAAATTAAGTCCTGAACTTGACAAATGTTTCCACAT-TGA-GACTTAAACT
20869678 TTTTAT
1 TTTTAT
20869684 TATTATTATC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
54 3 0.06
55 6 0.12
56 43 0.83
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.42
Consensus pattern (56 bp):
TTTTATCCAAATTAAGTCCTGAACTTGACAAATGTTTCCACATTGAGACTTAAACT
Found at i:20871321 original size:4 final size:4
Alignment explanation
Indices: 20871312--20871340 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
20871302 AAATGGCCGC
20871312 TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
1 TGTT TGTT TGTT TGTT TGTT TGTT TGTT T
20871341 ATTGCTGGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (4 bp):
TGTT
Found at i:20874369 original size:102 final size:102
Alignment explanation
Indices: 20874205--20874408 Score: 372
Period size: 102 Copynumber: 2.0 Consensus size: 102
20874195 ATTATTTGCT
** *
20874205 TTATCCTGATTATATATGTAATTGAATATACAGGGATATATAACATGAATTATTTATGTGAAAGA
1 TTATCCTGATTATATATGTAATTGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
20874270 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
66 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
*
20874307 TTATCCTGATTATATATGTAATTGAATATACAGGGATATATAACATGAATTAGATATATGAAAGT
1 TTATCCTGATTATATATGTAATTGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
20874372 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
66 TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
20874409 AGTGAAGCGC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (102 bp):
TTATCCTGATTATATATGTAATTGAATATACAGGGATATATAACATGAATTAGATATATGAAAGA
TATTGCACAAGTCTTGACCTTCCAAAATATGATGCCC
Found at i:20877526 original size:28 final size:28
Alignment explanation
Indices: 20877486--20877539 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
20877476 AGAGTTATGA
20877486 ATAGGAATTAGAATATCCAATTTTTTGG
1 ATAGGAATTAGAATATCCAATTTTTTGG
20877514 ATAGGAATTAGAATATCCAATTTTTT
1 ATAGGAATTAGAATATCCAATTTTTT
20877540 CTTTCCATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (28 bp):
ATAGGAATTAGAATATCCAATTTTTTGG
Found at i:20879917 original size:13 final size:13
Alignment explanation
Indices: 20879901--20879930 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
20879891 ACTTTTTAAA
20879901 AGCACTTCTCAAT
1 AGCACTTCTCAAT
20879914 AGCACTTCTCAAT
1 AGCACTTCTCAAT
20879927 AGCA
1 AGCA
20879931 TTTTTCCACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (13 bp):
AGCACTTCTCAAT
Found at i:20880617 original size:22 final size:23
Alignment explanation
Indices: 20880592--20880636 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
20880582 AATTAATTAA
20880592 AATT-CAATTCAAGATATTTTAT
1 AATTACAATTCAAGATATTTTAT
* *
20880614 AATTAACAATTTAATATATTTTA
1 AATT-ACAATTCAAGATATTTTA
20880637 ATATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
24 15 0.79
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
AATTACAATTCAAGATATTTTAT
Found at i:20887145 original size:25 final size:25
Alignment explanation
Indices: 20887117--20887240 Score: 70
Period size: 25 Copynumber: 5.2 Consensus size: 25
20887107 CGAATGGCCA
20887117 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
20887142 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
20887164 ATGTGATGAATGTGAGCATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
20887189 GTGTGAT-AAGGCTG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
*
20887211 ATGTGATGAATATGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
20887236 ATGTG
1 ATGTG
20887241 GTAAAGCCGA
Statistics
Matches: 70, Mismatches: 15, Indels: 28
0.62 0.13 0.25
Matches are distributed among these distances:
22 16 0.23
23 16 0.23
24 17 0.24
25 21 0.30
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:20887217 original size:22 final size:22
Alignment explanation
Indices: 20887099--20887217 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
20887089 GTATATATGA
*
20887099 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
* *
20887121 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCTG-A-ATGGC-CA-ATGT
*
20887146 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
*
20887168 GATGAATG-TGAGCAT-G-CATATGTGT
1 GAT-AAGGCTGA--ATGGCCA-A--TGT
20887193 GATAAGGCTGAATGGCCAATGT
1 GATAAGGCTGAATGGCCAATGT
20887215 GAT
1 GAT
20887218 GAATATGAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 32
0.64 0.08 0.28
Matches are distributed among these distances:
22 21 0.29
23 16 0.22
24 16 0.22
25 19 0.26
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
GATAAGGCTGAATGGCCAATGT
Found at i:20887263 original size:47 final size:47
Alignment explanation
Indices: 20887070--20887255 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
20887060 TTAGGATTTT
** * *
20887070 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20887117 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
20887164 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
20887211 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
20887256 TAGTGTGAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20887308 original size:94 final size:93
Alignment explanation
Indices: 20887091--20887310 Score: 216
Period size: 94 Copynumber: 2.3 Consensus size: 93
20887081 GTGAATGTGT
* * * * *
20887091 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
1 ATATATGTGAT-AGGCCGAACGACCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCG
*
20887156 AATGGCCAATGTGATGAATGTGAGCATGC
65 AATGGCCAATGTGATAAATGTGAGCATGC
* * * * *
20887185 ATATGTGTGATAAGGCTGAATGGCCAATGTGATGAATATGAACATGCATATATGTGGTAAAGCCG
1 ATATATGTGAT-AGGCCGAACGACCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCG
* *
20887250 AATGGCTAGTGTGA-AATATGT-AGGCGATGTGC
65 AATGGCCAATGTGATAA-ATGTGA-GC-A--TGC
20887282 ATATAT-TG-T-GGCCGAACGACCAAATGTGA
1 ATATATGTGATAGGCCGAACGACC-AATGTGA
20887311 AAGGTGTGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
93 11 0.10
94 84 0.79
95 2 0.02
96 2 0.02
97 8 0.07
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (93 bp):
ATATATGTGATAGGCCGAACGACCAATGTGATGAATATGAACATGCATATATGTGATAAAGCCGA
ATGGCCAATGTGATAAATGTGAGCATGC
Found at i:20887526 original size:37 final size:37
Alignment explanation
Indices: 20887418--20887526 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
20887408 GGAAATATAT
*
20887418 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
20887455 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
20887492 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
20887527 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:20889020 original size:46 final size:46
Alignment explanation
Indices: 20888954--20889046 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
20888944 AGCAAGTAGT
20888954 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTG
1 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTG
*
20889000 TAGTTAGATTTTTTATTTGCATGCTTATTGCATCTTGATCACTTTG
1 TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTG
20889046 T
1 T
20889047 CCCTAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.19, C:0.14, G:0.15, T:0.52
Consensus pattern (46 bp):
TAGTTAGATTTTCTATTTGCATGCTTATTGCATCTTGATCACTTTG
Found at i:20891052 original size:43 final size:43
Alignment explanation
Indices: 20890989--20891074 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
20890979 TATGTGATTC
* *
20890989 CGATATGTGTTTACGAGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATGTGGTTACGAGTAAGACCATGTCTGGGAC-GTTGGCAT
*
20891032 CGATATGTGGTTAC-ATGTAAGACCATGTTTGGGACGTTGGCAT
1 CGATATGTGGTTACGA-GTAAGACCATGTCTGGGACGTTGGCAT
20891075 TGTACGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.30
Consensus pattern (43 bp):
CGATATGTGGTTACGAGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:20892769 original size:22 final size:22
Alignment explanation
Indices: 20892726--20892770 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20892716 AATTTGTTAC
*
20892726 ATTATATATGTAATTTGTTTTT
1 ATTATATATGTAATTTATTTTT
*
20892748 ATTATATAT-TGATTTATGTTTT
1 ATTATATATGTAATTTAT-TTTT
20892770 A
1 A
20892771 AACCATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTATATATGTAATTTATTTTT
Found at i:20894893 original size:30 final size:30
Alignment explanation
Indices: 20894857--20894913 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
20894847 TAGGCACTTC
* *
20894857 CAAACGGGTAAACCACATGCCTGTGTGAGG
1 CAAACGGGCAAACCACACGCCTGTGTGAGG
*
20894887 CAAACGGGCAGACCACACGCCTGTGTG
1 CAAACGGGCAAACCACACGCCTGTGTG
20894914 TCATGGCCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.30, T:0.14
Consensus pattern (30 bp):
CAAACGGGCAAACCACACGCCTGTGTGAGG
Found at i:20902680 original size:38 final size:37
Alignment explanation
Indices: 20902624--20902696 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
20902614 TTCTCCTCTC
*
20902624 TTTCTCTTTTCTTTTCTTCC-TTTCGCTTCCCTTTTA
1 TTTCTCTTTTCTTCTCTTCCTTTTCGCTTCCCTTTTA
*
20902660 TTTCTCTTTTCTCCTCTCTTCCTTTTCTCTTCCCTTT
1 TTTCTCTTTTCT--TCTCTTCCTTTTCGCTTCCCTTT
20902697 CACTTTCCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 12 0.38
38 7 0.22
39 13 0.41
ACGTcount: A:0.01, C:0.34, G:0.01, T:0.63
Consensus pattern (37 bp):
TTTCTCTTTTCTTCTCTTCCTTTTCGCTTCCCTTTTA
Found at i:20902872 original size:17 final size:17
Alignment explanation
Indices: 20902850--20902900 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
20902840 TTATTTCACT
20902850 TTTATTTTCTTTTATTC
1 TTTATTTTCTTTTATTC
* *
20902867 TTTATTTTATTTTAAT-
1 TTTATTTTCTTTTATTC
*
20902883 TTTATCTCTCTTTTATTC
1 TTTAT-TTTCTTTTATTC
20902901 ATCCTTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTCTTTTATTC
Found at i:20902876 original size:33 final size:34
Alignment explanation
Indices: 20902831--20902900 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
20902821 TCCTTTTCTT
* *
20902831 TTCTTTGATTTATTTCACTTTTAT-TTTCTTTTA
1 TTCTTTGATTTATTTCAATTTTATCTCTCTTTTA
*
20902864 TTCTTT-ATTTTATTTTAATTTTATCTCTCTTTTA
1 TTCTTTGA-TTTATTTCAATTTTATCTCTCTTTTA
20902898 TTC
1 TTC
20902901 ATCCTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.03
33 20 0.62
34 11 0.34
ACGTcount: A:0.16, C:0.13, G:0.01, T:0.70
Consensus pattern (34 bp):
TTCTTTGATTTATTTCAATTTTATCTCTCTTTTA
Found at i:20902896 original size:22 final size:21
Alignment explanation
Indices: 20902839--20902899 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
20902829 TTTTCTTTGA
* * *
20902839 TTTATTTCACTTTTATTTTCT
1 TTTATCTCTCTTTTATTTTAT
* *
20902860 TTTATTCTTTATTTTATTTTAAT
1 TTTA-TCTCTCTTTTATTTT-AT
20902883 TTTATCTCTCTTTTATT
1 TTTATCTCTCTTTTATT
20902900 CATCCTTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 4 0.13
22 22 0.71
23 5 0.16
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATCTCTCTTTTATTTTAT
Found at i:20906079 original size:12 final size:12
Alignment explanation
Indices: 20906062--20906095 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
20906052 CCCGGCCGCC
20906062 TATATTAATTTT
1 TATATTAATTTT
20906074 TATATT-ATTTT
1 TATATTAATTTT
20906085 TATA-TAATTTT
1 TATATTAATTTT
20906096 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:20906263 original size:30 final size:30
Alignment explanation
Indices: 20906220--20906281 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
20906210 CTTAACAAGT
*
20906220 AAATGTTTCTAAAATAATAACAAAATTAAC
1 AAATGTTTCTAAAATAATAAAAAAATTAAC
20906250 AAATGTGTT-TAAAATAATAAAAAAATTAAC
1 AAATGT-TTCTAAAATAATAAAAAAATTAAC
20906280 AA
1 AA
20906282 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATGTTTCTAAAATAATAAAAAAATTAAC
Found at i:20906336 original size:22 final size:22
Alignment explanation
Indices: 20906311--20906353 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20906301 TATCCAAACA
20906311 ATAACAACAAAATAGTAGCAAC
1 ATAACAACAAAATAGTAGCAAC
* *
20906333 ATAATAGCAAAATAGTAGCAA
1 ATAACAACAAAATAGTAGCAA
20906354 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.16
Consensus pattern (22 bp):
ATAACAACAAAATAGTAGCAAC
Found at i:20906358 original size:11 final size:11
Alignment explanation
Indices: 20906318--20906358 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
20906308 ACAATAACAA
20906318 CAAAATAGTAG
1 CAAAATAGTAG
* *
20906329 CAACATAATAG
1 CAAAATAGTAG
20906340 CAAAATAGTAG
1 CAAAATAGTAG
20906351 CAAAATAG
1 CAAAATAG
20906359 GGAGAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.17
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:20910537 original size:17 final size:17
Alignment explanation
Indices: 20910515--20910548 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20910505 ATTTTATATA
20910515 TATTAAATATTA-ATTAT
1 TATT-AATATTATATTAT
20910532 TATTAATATTATATTAT
1 TATTAATATTATATTAT
20910549 GAAATGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TATTAATATTATATTAT
Found at i:20910945 original size:2 final size:2
Alignment explanation
Indices: 20910938--20910975 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
20910928 TTATTGTTAT
20910938 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20910976 AAAACAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20912296 original size:2 final size:2
Alignment explanation
Indices: 20912289--20912336 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
20912279 AGGAGGAGGA
20912289 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20912331 AT AT AT
1 AT AT AT
20912337 GAATATTCAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20916061 original size:6 final size:6
Alignment explanation
Indices: 20916050--20916077 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20916040 TCCTACATTA
20916050 TGTTCT TGTTCT TGTTCT TGTTCT TGTT
1 TGTTCT TGTTCT TGTTCT TGTTCT TGTT
20916078 ACTCTCCTTC
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:0.00, C:0.14, G:0.18, T:0.68
Consensus pattern (6 bp):
TGTTCT
Found at i:20927294 original size:28 final size:28
Alignment explanation
Indices: 20927249--20927304 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
20927239 ATGCCGTTGA
*
20927249 ATACTTAATATTTCGCACACTAAGTGTC
1 ATACTCAATATTTCGCACACTAAGTGTC
*
20927277 ATACTCAATATCTT-GCACACTGAGTGTC
1 ATACTCAATAT-TTCGCACACTAAGTGTC
20927305 GTATAGAGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.34
Consensus pattern (28 bp):
ATACTCAATATTTCGCACACTAAGTGTC
Found at i:20927360 original size:40 final size:40
Alignment explanation
Indices: 20927291--20927425 Score: 162
Period size: 40 Copynumber: 3.4 Consensus size: 40
20927281 TCAATATCTT
* * * * * *
20927291 GCACACTGAGTGTCGTATAGAGCCAAAGCTATCTCAAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATC
* * *
20927331 ACACACTAAGTGCCATATATAGCTGAAGCTATGTCGAATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATC
* *
20927371 GCACACTAAGTGCCATATATAGCCGAAGCTATTTCGTATC
1 GCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATC
*
20927411 GCACACTAAATGCCA
1 GCACACTAAGTGCCA
20927426 CAAATAACCG
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (40 bp):
GCACACTAAGTGCCATATATAGCCGAAGCTATCTCGAATC
Found at i:20928937 original size:84 final size:85
Alignment explanation
Indices: 20928767--20928938 Score: 274
Period size: 84 Copynumber: 2.0 Consensus size: 85
20928757 AGCCACAACA
* *
20928767 AAGAATAAATATGTAAATTTCTTCTTGTTGCAACTTTAAAAAAAAAAAACATAAGAATGCTAATC
1 AAGAATAAATATGTAAATTTCTTCTTGTTACAACTTT-AAAAAAAAAAACATAAGAACGCTAATC
20928832 ACTTGGATTCAGATGTAATCC
65 ACTTGGATTCAGATGTAATCC
* * *
20928853 AAGAATAAATATGTAAATTTCTTCTTGTTATAACTTT-AAAAAAAATACATAAGAACGTTAATCA
1 AAGAATAAATATGTAAATTTCTTCTTGTTACAACTTTAAAAAAAAAAACATAAGAACGCTAATCA
*
20928917 CTTGGATTCAGTTGTAATCC
66 CTTGGATTCAGATGTAATCC
20928937 AA
1 AA
20928939 CTTGGGTATA
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
84 45 0.56
86 35 0.44
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (85 bp):
AAGAATAAATATGTAAATTTCTTCTTGTTACAACTTTAAAAAAAAAAACATAAGAACGCTAATCA
CTTGGATTCAGATGTAATCC
Found at i:20930150 original size:27 final size:27
Alignment explanation
Indices: 20930112--20930165 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20930102 TAAATTACAC
20930112 AATATACGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
20930139 AATATACGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
20930166 TAATCATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
AATATACGTTATCATCTTATGCATATA
Found at i:20930737 original size:8 final size:8
Alignment explanation
Indices: 20930717--20930750 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
20930707 TTTTAAAATT
20930717 ATAATA-A
1 ATAATATA
*
20930724 ATAATATT
1 ATAATATA
20930732 ATAATATA
1 ATAATATA
20930740 ATAATATA
1 ATAATATA
20930748 ATA
1 ATA
20930751 TAATGAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:20930742 original size:13 final size:13
Alignment explanation
Indices: 20930714--20930754 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
20930704 AATTTTTAAA
20930714 ATTATAATAAATAAT
1 ATTATAAT--ATAAT
20930729 ATTATAATATAAT
1 ATTATAATATAAT
*
20930742 AATATAATATAAT
1 ATTATAATATAAT
20930755 GAACAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 17 0.68
15 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATAATATAAT
Found at i:20932496 original size:44 final size:44
Alignment explanation
Indices: 20932448--20933073 Score: 795
Period size: 44 Copynumber: 14.4 Consensus size: 44
20932438 AAACTCAGGA
* * **
20932448 ACGCCAAATCTGTTATTTTTTATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
** * *
20932492 ACGCCAAATCCACTATTTTCGATCTGCTCTCTGATAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
20932536 ACGCCAAATCTGCTATTTTCAATCTGCTTTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
20932580 GCGCCAAATCTG-TCATCTTCGATCTGCTCTCT-ATCAATATAGAT
1 ACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGA-CAATACAGAG
* * * *
20932624 ACACCAAATCTGATATTTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
20932668 ACGCCAAATCTGTTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
20932712 ACGCTAAATCTGCTATTTTCGATCTGCTCTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
20932756 ACGTCAAATCAGCTATCTTTGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
20932800 ATGTCAAATCAGCTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
20932844 ACGCCAAATCCGCTATCTTCGATCTGTTCTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* *
20932888 ACGCCAAATCAGCTATCTTCGATCTGCTCTCTAACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
20932932 ACGCCAAA-----TAT-TT-GATCTGCTCTCT-ATCAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATACAGAG
* * *
20932969 ACACCAAATCTGATATCTTCGATCTGCTTTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
20933013 ACACCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAG
1 ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
*
20933057 ACGCCAAATCGGCTATC
1 ACGCCAAATCTGCTATC
20933074 GGTGATCTAC
Statistics
Matches: 515, Mismatches: 54, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
36 1 0.00
37 29 0.06
38 2 0.00
39 3 0.01
42 3 0.01
43 4 0.01
44 470 0.91
45 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (44 bp):
ACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:20933006 original size:81 final size:81
Alignment explanation
Indices: 20932864--20933066 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
20932854 CGCTATCTTC
* * *
20932864 GATCTGTTCTCTAACAATACAGAGACGCCAAATCAGCTATCTTCGATCTGCTCTCTAACAATACA
1 GATCTGCTCTCTAACAATACAGAGACACCAAATCAGATATCTTCGATCTGCTCTCTAACAATACA
*
20932929 GAGACGCCAAATATTT
66 GAGACACCAAATATTT
* * * *
20932945 GATCTGCTCTCTATCAATACAGAGACACCAAATCTGATATCTTCGATCTGCTTTCTGACAATACA
1 GATCTGCTCTCTAACAATACAGAGACACCAAATCAGATATCTTCGATCTGCTCTCTAACAATACA
20933010 GAGACACCAAATCTGTTATCTT
66 GAGACACCAAA-----TAT-TT
* * *
20933032 CAATCTGCTCTCTGACAATACAGAGACGCCAAATC
1 -GATCTGCTCTCTAACAATACAGAGACACCAAATC
20933067 GGCTATCGGT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
81 68 0.66
86 3 0.03
87 2 0.02
88 30 0.29
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.28
Consensus pattern (81 bp):
GATCTGCTCTCTAACAATACAGAGACACCAAATCAGATATCTTCGATCTGCTCTCTAACAATACA
GAGACACCAAATATTT
Found at i:20944528 original size:27 final size:27
Alignment explanation
Indices: 20944490--20944543 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
20944480 TAAATTACAC
20944490 AATATACGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
20944517 AATATACGTTATCATCTTATGCATATA
1 AATATACGTTATCATCTTATGCATATA
20944544 TAATCATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (27 bp):
AATATACGTTATCATCTTATGCATATA
Found at i:20945118 original size:8 final size:8
Alignment explanation
Indices: 20945098--20945131 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
20945088 TTTTAAAATT
20945098 ATAATA-A
1 ATAATATA
*
20945105 ATAATATT
1 ATAATATA
20945113 ATAATATA
1 ATAATATA
20945121 ATAATATA
1 ATAATATA
20945129 ATA
1 ATA
20945132 TAATGAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATAATATA
Found at i:20945123 original size:13 final size:13
Alignment explanation
Indices: 20945095--20945135 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
20945085 AATTTTTAAA
20945095 ATTATAATAAATAAT
1 ATTATAAT--ATAAT
20945110 ATTATAATATAAT
1 ATTATAATATAAT
*
20945123 AATATAATATAAT
1 ATTATAATATAAT
20945136 GAACAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 17 0.68
15 8 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATAATATAAT
Found at i:20945144 original size:33 final size:33
Alignment explanation
Indices: 20945097--20945170 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
20945087 TTTTTAAAAT
* * *
20945097 TATAATAAATAATATTATAATATAATAATAT-A-A
1 TATAATGAACAATA-TAT-ATATAATAAAATGATA
*
20945130 TATAATGAACAATATATGTATAATAAAATGATA
1 TATAATGAACAATATATATATAATAAAATGATA
20945163 TATAATGA
1 TATAATGA
20945171 GATGTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 10 0.29
32 4 0.11
33 21 0.60
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.36
Consensus pattern (33 bp):
TATAATGAACAATATATATATAATAAAATGATA
Found at i:20946702 original size:6 final size:6
Alignment explanation
Indices: 20946693--20946772 Score: 63
Period size: 6 Copynumber: 13.2 Consensus size: 6
20946683 AAGAAATGGG
* * * *
20946693 GAAGGA GAA-GA GAAGAA GAAGAA GAAGGA GAAGAGAA GAAGAA GAAGAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAG-G-A GAAGGA GAAGGA
* * * *
20946742 GAAGAA GAAGAA GAAGGA GGAGGA GGAGGA G
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA G
20946773 GCAGCATTGG
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
5 5 0.08
6 55 0.83
7 1 0.02
8 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:20946711 original size:3 final size:3
Alignment explanation
Indices: 20946693--20946757 Score: 98
Period size: 3 Copynumber: 22.3 Consensus size: 3
20946683 AAGAAATGGG
* *
20946693 GAA GGA GAA G-A GAA GAA GAA GAA GAA GGA GAA G-A GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
20946739 GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA G
20946758 GAGGAGGAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 52 0.93
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20946719 original size:23 final size:23
Alignment explanation
Indices: 20946693--20946757 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
20946683 AAGAAATGGG
20946693 GAAGGAGAAGAGAAGAAGAAGAA
1 GAAGGAGAAGAGAAGAAGAAGAA
20946716 GAAGGAGAAGAGAAGAAGAAGAA
1 GAAGGAGAAGAGAAGAAGAAGAA
*
20946739 GAAGAAGAAGAAGAAGAAG
1 GAAGGAGAAG-AGAAGAAG
20946758 GAGGAGGAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
23 32 0.80
24 8 0.20
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (23 bp):
GAAGGAGAAGAGAAGAAGAAGAA
Found at i:20947669 original size:155 final size:150
Alignment explanation
Indices: 20947354--20948160 Score: 1147
Period size: 155 Copynumber: 5.4 Consensus size: 150
20947344 GCGGGTTTTT
* * *
20947354 TACTAAAATGATATAAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAATA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAATCCGAAAATA
*
20947419 AAAA-AATAAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAA
65 AAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAA
*
20947483 TAATACATTTGAAACATTATA
130 TAATACATTTGAAACATTATG
* *
20947504 TACTAAAATAATATAAAAATAAAATACGAAAATTGGATATTTTAAAAAATAAAATCCGAAAATAG
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT--
20947569 AATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAAAACACT
64 AA-AAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATAT--AAAAAACACT
20947634 AAAATAATACATTTGAAACATTATG
126 AAAATAATACATTTGAAACATTATG
* *
20947659 TACTAAAATAATATAAAAATAAAATACGTAAATAGTATATTTTAAAAAATAAAATCCGAAACT-A
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
* * *
20947723 AAATAA-AAAAA-ATA--GCCAAAATCAGAGTTTTTTACTAAATTAATAT-AAAAATACTAAAAT
66 AAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAAT
20947783 AATACATTTGAAACATTATG
131 AATACATTTGAAACATTATG
* *
20947803 TACTAAAATAATATAAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT-
*
20947868 AAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAAATACT
64 -AA-AAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATAT-AAAAAACACT
*
20947933 AAAATAATACATTTGAAACATTTTG
126 AAAATAATACATTTGAAACATTATG
20947958 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT--G-----
1 TACTAAAATAATAT--AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* * * *
20948016 -------A-AAAAACAAACGGCCAAAATCAAATTTTTTTACTAAATTAATATAAAAAACACTAAA
64 AAAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAA
20948073 ATAATACATTTGAAACATTA-G
129 ATAATACATTTGAAACATTATG
*
20948094 TACTAAAATAATATAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
20948159 AA
66 AA
20948161 TAAATACCAA
Statistics
Matches: 598, Mismatches: 30, Indels: 63
0.87 0.04 0.09
Matches are distributed among these distances:
134 40 0.07
136 16 0.03
137 31 0.05
138 39 0.07
139 1 0.00
144 47 0.08
145 45 0.08
147 31 0.05
148 1 0.00
149 31 0.05
150 45 0.08
151 10 0.02
152 4 0.01
153 76 0.13
155 140 0.23
156 41 0.07
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (150 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAA
AAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAAT
AATACATTTGAAACATTATG
Found at i:20947835 original size:25 final size:25
Alignment explanation
Indices: 20947807--20947887 Score: 74
Period size: 30 Copynumber: 3.1 Consensus size: 25
20947797 ATTATGTACT
*
20947807 AAAATAATATAAAAAATAAAATACG
1 AAAATAATATAAAAAATAAAATACA
*
20947832 AAAATAGCATATTTTAAAAAATAAAATCCA
1 AAAATA--ATA---TAAAAAATAAAATACA
* *
20947862 AAAATAAAATAAATAATAAAA-ACA
1 AAAATAATATAAAAAATAAAATACA
20947886 AA
1 AA
20947888 GGGCCAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
24 4 0.09
25 17 0.37
27 3 0.07
28 2 0.04
30 20 0.43
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACA
Found at i:20947901 original size:300 final size:296
Alignment explanation
Indices: 20947354--20948166 Score: 1248
Period size: 300 Copynumber: 2.7 Consensus size: 296
20947344 GCGGGTTTTT
* *
20947354 TACTAAAATGATATAAAAATAAAATACGAAAATAGTTTATTTTTAAAAAATAAAATACGAAAATA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAAT-CG-AAATA
*
20947419 AAAAAATAAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAAT
63 AAAAAA-AA-AA-AAA--GCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAAT
* * *
20947484 AATACATTTGAAACATTATATACTAAAATAATATAAAAATAAAATACGAAAATTGGATATTTTAA
123 AATACATTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGCATATTTTAA
*
20947549 AAAATAAAATCCGAAAATAGAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAA
188 AAAATAAAATCCGAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAA
20947614 ATTAATATAAAAAAAACACTAAAATAATACATTTGAAACATTATG
253 ATTAATAT-AAAAAAACACTAAAATAATACATTTGAAACATTATG
*
20947659 TACTAAAATAATATAAAAATAAAATACGTAAATAGTATATTTTAAAAAATAAAATCCGAAACTAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-CGAAA-TAA
* *
20947724 AATAAAAAAAATAGCCAAAATCAGAGTTTTTTACTAAATTAATAT-AAAAATACTAAAATAATAC
64 AA-AAAAAAAAAAGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATAC
20947788 ATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGCATATTTTAAAAAA
128 ATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAGCATATTTTAAAAAA
*
20947853 TAAAATCCAAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTA
192 TAAAATCCGAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTA
* *
20947918 ATATAAAAAAATACTAAAATAATACATTTGAAACATTTTG
257 ATATAAAAAAACACTAAAATAATACATTTGAAACATTATG
20947958 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAAT-G------
1 TACTAAAATAATAT--AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCGAAATAA
* ** * *
20948016 AAAAAACAAACGGCCAAAATCAAATTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACA
64 AAAAAAAAAAAAGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACA
* *
20948081 TTTGAAACATTA-GTACTAAAATAATATAAAAATAAAATATGAAAATAGTATATTTTAAAAAATA
129 TTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGCATATTTTAAAAAATA
20948145 AAATCCGAAAATAAAATAAATA
194 AAATCCGAAAATAAAATAAATA
20948167 CCAAAATATA
Statistics
Matches: 478, Mismatches: 24, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
290 56 0.12
291 52 0.11
292 33 0.07
299 95 0.20
300 131 0.27
301 40 0.08
302 2 0.00
303 5 0.01
304 25 0.05
305 39 0.08
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (296 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCGAAATAAAA
AAAAAAAAAAGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATT
TGAAACATTATGTACTAAAATAATATAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAA
ATCCGAAAATAAAATAAATAATAAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATAT
AAAAAAACACTAAAATAATACATTTGAAACATTATG
Found at i:20948025 original size:138 final size:134
Alignment explanation
Indices: 20947879--20948148 Score: 441
Period size: 134 Copynumber: 2.0 Consensus size: 134
20947869 AATAAATAAT
* * *
20947879 AAAAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAAATACTAAAATAATACA
1 AAAAACAAACGGCCAAAACCAAAGTTTTTTACTAAATTAATAT-AAAAAACACTAAAATAATACA
*
20947944 TTTGAAACATTTTGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAA
65 TTTGAAACA-TTAGTACTAAAATAATAT--AAAAATAAAATACGAAAATAGTATATTTTAAAAAA
20948009 TAAAATGA
127 TAAAATGA
* *
20948017 AAAAACAAACGGCCAAAATCAAATTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACAT
1 AAAAACAAACGGCCAAAACCAAAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACAT
*
20948082 TTGAAACATTAGTACTAAAATAATATAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAA
66 TTGAAACATTAGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAA
20948147 AT
131 AT
20948149 CCGAAAATAA
Statistics
Matches: 125, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
134 40 0.32
136 17 0.14
137 29 0.23
138 39 0.31
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (134 bp):
AAAAACAAACGGCCAAAACCAAAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACAT
TTGAAACATTAGTACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAA
ATGA
Found at i:20954724 original size:18 final size:19
Alignment explanation
Indices: 20954696--20954731 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20954686 AAATTTACCT
20954696 TTTCTTTTCTTTCTTCTCC
1 TTTCTTTTCTTTCTTCTCC
20954715 TTTC-TTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTCTC
20954732 TTCTATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCC
Found at i:20955784 original size:28 final size:29
Alignment explanation
Indices: 20955728--20955784 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
20955718 ACAAGTATAA
* *
20955728 GAACTAAATTCTTAAAAATTAAATTAGAG
1 GAACTAAATTCTCAAAAATTAAATGAGAG
20955757 GAACTAAATT-TCAAAAATCTAAA-GAGAG
1 GAACTAAATTCTCAAAAAT-TAAATGAGAG
20955785 AAGGGCTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (29 bp):
GAACTAAATTCTCAAAAATTAAATGAGAG
Found at i:20956861 original size:22 final size:21
Alignment explanation
Indices: 20956826--20956882 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
20956816 TATTATATTC
*
20956826 ATATTTTAAGTTTATTTCTTT
1 ATATTTTAAATTTATTTCTTT
20956847 ATATTTTAAAATTTATTTCTTT
1 ATATTTT-AAATTTATTTCTTT
20956869 CAGTA-TTTAAATTT
1 -A-TATTTTAAATTT
20956883 CATGAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.22
22 19 0.59
23 4 0.12
24 2 0.06
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (21 bp):
ATATTTTAAATTTATTTCTTT
Found at i:20958097 original size:29 final size:29
Alignment explanation
Indices: 20958064--20958119 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
20958054 TTCAATCTCT
* *
20958064 ATATTTTTAAAATGTTTTTAATTAGTTTA
1 ATATTTTTAAAATATTATTAATTAGTTTA
*
20958093 ATATTTTTATAATATTATTAATTAGTT
1 ATATTTTTAAAATATTATTAATTAGTT
20958120 CAAATAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
ATATTTTTAAAATATTATTAATTAGTTTA
Found at i:20959386 original size:18 final size:17
Alignment explanation
Indices: 20959363--20959400 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
20959353 GTGGGAATTA
*
20959363 AAAAAAAAGGTAAAATAG
1 AAAAAAAAGCTAAAA-AG
20959381 AAAAAAAAGCTAAAAAG
1 AAAAAAAAGCTAAAAAG
20959398 AAA
1 AAA
20959401 CAATTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.76, C:0.03, G:0.13, T:0.08
Consensus pattern (17 bp):
AAAAAAAAGCTAAAAAG
Found at i:20962783 original size:23 final size:23
Alignment explanation
Indices: 20962740--20962783 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
20962730 TTATTAAAAT
*
20962740 ATTAAATAAATAATAATTATCTA
1 ATTAAATAAATAATAAATATCTA
* *
20962763 ATTAAATAATTATTAAATATC
1 ATTAAATAAATAATAAATATC
20962784 ACCAACATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTAAATAAATAATAAATATCTA
Found at i:20963035 original size:30 final size:31
Alignment explanation
Indices: 20962980--20963038 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
20962970 CACCCTTAAA
* * *
20962980 ATATTTTCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTT
20963011 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAAATTTT
20963039 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.51
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTT
Found at i:20963046 original size:30 final size:31
Alignment explanation
Indices: 20962980--20963048 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
20962970 CACCCTTAAA
* * * *
20962980 ATATTTTCACTATTAGTCCTTCAAATTTTTT
1 ATATTTACACTATTAATCCCTCAAATTTTTG
20963011 ATATTTACACT-TTAATCCCTCAAA-TTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTTG
20963040 AGTATTTAC
1 A-TATTTAC
20963049 TCTTAGGCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 18 0.55
31 10 0.30
ACGTcount: A:0.29, C:0.17, G:0.04, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAAATTTTTG
Found at i:20964212 original size:21 final size:22
Alignment explanation
Indices: 20964173--20964214 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20964163 TTCAATAAAT
*
20964173 AAAAATAAAATTATTAATATTA
1 AAAAATAAAATTATAAATATTA
*
20964195 AAAAATATAA-TATAAATATT
1 AAAAATAAAATTATAAATATT
20964215 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATAAAATTATAAATATTA
Found at i:20978356 original size:3 final size:3
Alignment explanation
Indices: 20978348--20978434 Score: 72
Period size: 3 Copynumber: 29.0 Consensus size: 3
20978338 GGACTCGTAT
* *
20978348 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T-A ACAA TAA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC-A TCA TCA TCA
* * * *
20978393 T-A ACAA TAA TAA TCA TCA TCA TCA TAA TCA -CTA TCA TCA TCA
1 TCA TC-A TCA TCA TCA TCA TCA TCA TCA TCA TC-A TCA TCA TCA
20978435 AAAGAAGTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
2 3 0.04
3 62 0.91
4 3 0.04
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:20979570 original size:38 final size:37
Alignment explanation
Indices: 20979501--20979598 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 37
20979491 TTAATTAATT
*
20979501 TTTTTAAAAATTT-AAAAATTCAAAAAATATAAGAACTA
1 TTTTTAAAAATTTAAAAAATT-AAAAAATATAA-AAATA
* *
20979539 TTTTTAAAAATTTAAAAAATTATAAATTATAAAAATA
1 TTTTTAAAAATTTAAAAAATTAAAAAATATAAAAATA
* *
20979576 TTTTT-TAATTTTAAAAAATTAAA
1 TTTTTAAAAATTTAAAAAATTAAA
20979599 TAACTGCTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
36 15 0.28
37 9 0.17
38 22 0.42
39 7 0.13
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (37 bp):
TTTTTAAAAATTTAAAAAATTAAAAAATATAAAAATA
Found at i:20980952 original size:39 final size:39
Alignment explanation
Indices: 20980898--20980973 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
20980888 ATTCCCCTAC
20980898 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
1 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
*
20980937 ATTCCCCTACATTCAACAACTTTGTACATAAATTGAA
1 ATTCCCCTACATTCAACAACTTTGTACATAAAATGAA
20980974 GTACCCGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (39 bp):
ATTCCCCTACATTCAACAACTTTGTACATAAAATGAACT
Found at i:20983052 original size:30 final size:30
Alignment explanation
Indices: 20983002--20983074 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
20982992 GGTTTCATTT
20983002 CAGTCACTTAACTTTC-AAAAAGTAACAAAA
1 CAGTCAC-TAACTTTCAAAAAAGTAACAAAA
* * *
20983032 CGGTCACTAACGTTTTAAAAAAGTGACAAAA
1 CAGTCACTAAC-TTTCAAAAAAGTAACAAAA
20983063 CAGTCACTAACT
1 CAGTCACTAACT
20983075 AACAGTTACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 10 0.27
31 23 0.62
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (30 bp):
CAGTCACTAACTTTCAAAAAAGTAACAAAA
Found at i:20983696 original size:12 final size:12
Alignment explanation
Indices: 20983667--20983751 Score: 59
Period size: 12 Copynumber: 7.1 Consensus size: 12
20983657 CACTGATTCT
* *
20983667 GATTTTGATTTT
1 GATTTCGATTTA
20983679 GATTTCGATTTA
1 GATTTCGATTTA
* *
20983691 GATTTCGAACTCA
1 GATTTCG-ATTTA
**
20983704 -ATCTAGGA-TTA
1 GAT-TTCGATTTA
*
20983715 GAATTT-GATTTT
1 G-ATTTCGATTTA
20983727 GATTTCGATTTA
1 GATTTCGATTTA
20983739 GATTTCGATTTA
1 GATTTCGATTTA
20983751 G
1 G
20983752 GGTTATTTCA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
11 8 0.14
12 42 0.74
13 7 0.12
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (12 bp):
GATTTCGATTTA
Found at i:20983959 original size:16 final size:16
Alignment explanation
Indices: 20983934--20983970 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
20983924 ACTGATCTTT
20983934 ATTGTGTGTATCTGCC
1 ATTGTGTGTATCTGCC
*
20983950 ATTGTTTGTATCTGCC
1 ATTGTGTGTATCTGCC
20983966 ATTGT
1 ATTGT
20983971 ATGAATGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.14, C:0.16, G:0.22, T:0.49
Consensus pattern (16 bp):
ATTGTGTGTATCTGCC
Found at i:20984134 original size:62 final size:62
Alignment explanation
Indices: 20983888--20984337 Score: 630
Period size: 62 Copynumber: 7.2 Consensus size: 62
20983878 GATTTTGATG
** * * * * *
20983888 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTGTATCTGCCAT
1 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
** * * * * *
20983952 TGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATCTTTATTGTGTATGTCTGCCAT
1 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
** * * * * *
20984016 TGTTTGTATCTGCCATTGTATGAATGTCATTATCAAATTGATGTTTATTGTGTATATTTGCCAT
1 TGTTTGTATCTGCCATTAAAT-TAT-ACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
20984080 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
20984142 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
*
20984204 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTAATGTTTATTGTGTATATCTGCCAT
1 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
**
20984266 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTATCAT
1 TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
20984328 TGTTTGTATC
1 TGTTTGTATC
20984338 CAGGCTCCTA
Statistics
Matches: 368, Mismatches: 18, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
62 226 0.61
63 2 0.01
64 140 0.38
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (62 bp):
TGTTTGTATCTGCCATTAAATTATACATTATTAAACTGATGTTTATTGTGTATATCTGCCAT
Found at i:20984642 original size:15 final size:15
Alignment explanation
Indices: 20984622--20984670 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
20984612 TGAAGAAAAC
**
20984622 GTGTCTGGTAGTGTT
1 GTGTCTGGTAGTGAA
20984637 GTGTCTGGTAGTGAA
1 GTGTCTGGTAGTGAA
20984652 GTGTCTGGTAGTGATA
1 GTGTCTGGTAGTGA-A
20984668 GTG
1 GTG
20984671 ATGCATCTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 27 0.87
16 4 0.13
ACGTcount: A:0.14, C:0.06, G:0.41, T:0.39
Consensus pattern (15 bp):
GTGTCTGGTAGTGAA
Found at i:20986395 original size:43 final size:43
Alignment explanation
Indices: 20986304--20986481 Score: 265
Period size: 43 Copynumber: 4.2 Consensus size: 43
20986294 TTGCTGATCA
* *
20986304 CATGCAGTGATTGTTGGAAAGCTATTGACT-TTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* * *
20986346 TATGCAATGATTATTGGAAAGTTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
20986389 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
* *
20986432 CATGCAATGATTGTTGG--TG-TGTTGCCTATTTTTTAATATG
1 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
20986472 CATGCAATGA
1 CATGCAATGA
20986482 GTTTTTTTTA
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 30 0.24
41 1 0.01
42 25 0.20
43 69 0.55
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (43 bp):
CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATG
Found at i:20986479 original size:83 final size:84
Alignment explanation
Indices: 20986304--20986481 Score: 270
Period size: 83 Copynumber: 2.1 Consensus size: 84
20986294 TTGCTGATCA
* *
20986304 CATGCAGTGATTGTTGGAAAGCTATTGACTTTTTTTAATATGTATGCAATGATTATTGGAAAGTT
1 CATGCAATGATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGG-AAGTT
20986369 GTTGACTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
* * *
20986389 CATGCAATGATTGTTGGAAAGCTGTTGACTATTTTTTAATATGCATGCAATGATTGTTGG-TG-T
1 CATGCAATGATTGTTGGAAAGCTATTGACT-TTTTTTAATATGCATGCAATGATTATTGGAAGTT
*
20986452 GTTGCCTATTTTTTAATATG
65 GTTGACTATTTTTTAATATG
20986472 CATGCAATGA
1 CATGCAATGA
20986482 GTTTTTTTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
83 30 0.35
84 1 0.01
85 28 0.33
86 27 0.31
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (84 bp):
CATGCAATGATTGTTGGAAAGCTATTGACTTTTTTTAATATGCATGCAATGATTATTGGAAGTTG
TTGACTATTTTTTAATATG
Found at i:20987130 original size:21 final size:21
Alignment explanation
Indices: 20987104--20987149 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
20987094 CTGAACCTAG
*
20987104 CAAGAGGCTACCCCAAGTCAA
1 CAAGAGGCTACCCCAACTCAA
*
20987125 CAAGAGGGTACCCCAACTCAA
1 CAAGAGGCTACCCCAACTCAA
20987146 CAAG
1 CAAG
20987150 GTGTCCCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.33, G:0.20, T:0.09
Consensus pattern (21 bp):
CAAGAGGCTACCCCAACTCAA
Done.