Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 60 of 190
Found at i:9919366 original size:14 final size:15
Alignment explanation
Indices: 9919347--9919375 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9919337 GCAATAACAG
9919347 AAGCAATCAA-AGCA
1 AAGCAATCAAGAGCA
9919361 AAGCAATCAAGAGCA
1 AAGCAATCAAGAGCA
9919376 TTAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.21, G:0.17, T:0.07
Consensus pattern (15 bp):
AAGCAATCAAGAGCA
Found at i:9919984 original size:7 final size:6
Alignment explanation
Indices: 9919971--9920044 Score: 57
Period size: 7 Copynumber: 12.2 Consensus size: 6
9919961 TTCTTTTTTG
* *
9919971 TTTTAT TTTCTAT TTTCTAT TTTGAT TTTGA- TTTTA- TTTTAT ATTTTAT
1 TTTTAT TTT-TAT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT
9920020 ATTTTA- -TTTAT TTTCTAT TTTTAT T
1 -TTTTAT TTTTAT TTT-TAT TTTTAT T
9920045 ATCTATTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
4 4 0.07
5 9 0.15
6 16 0.27
7 31 0.52
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:9920009 original size:31 final size:29
Alignment explanation
Indices: 9919966--9920044 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
9919956 TCCCTTTCTT
* *
9919966 TTTTGTTTTATTTTCTATTTTCTATTTTGA
1 TTTTGTTTTATTTTATATTTTATATTTT-A
9919996 TTTTGATTTTATTTTATATTTTATATTTTA
1 TTTTG-TTTTATTTTATATTTTATATTTTA
9920026 TTTAT-TTTCTATTTT-TATT
1 TTT-TGTTT-TATTTTATATT
9920045 ATCTATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
29 7 0.16
30 15 0.34
31 22 0.50
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (29 bp):
TTTTGTTTTATTTTATATTTTATATTTTA
Found at i:9920041 original size:24 final size:24
Alignment explanation
Indices: 9919960--9920044 Score: 88
Period size: 24 Copynumber: 3.6 Consensus size: 24
9919950 ACTTTTTCCC
*
9919960 TTTCT-TTTTTGTTTT-ATTTTCTAT
1 TTTCTATTTTTATTTTGA-TTT-TAT
*
9919984 TTTCTATTTTGATTTTGATTTTAT
1 TTTCTATTTTTATTTTGATTTTAT
*
9920008 TTTATATTTTATATTTT-A-TTTAT
1 TTTCTATTTT-TATTTTGATTTTAT
9920031 TTTCTATTTTTATT
1 TTTCTATTTTTATT
9920045 ATCTATTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 4 0.08
23 14 0.26
24 18 0.34
25 16 0.30
26 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTCTATTTTTATTTTGATTTTAT
Found at i:9920051 original size:24 final size:22
Alignment explanation
Indices: 9919981--9920044 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
9919971 TTTTATTTTC
*
9919981 TATTTTCTATTTTGATTTTGATTT
1 TATTTTCTATTTTTATTTT-A-TT
*
9920005 TATTTTATATTTTATATTTTATT
1 TATTTTCTATTTT-TATTTTATT
9920028 TATTTTCTATTTTTATT
1 TATTTTCTATTTTTATT
9920045 ATCTATTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 4 0.11
23 14 0.39
24 13 0.36
25 5 0.14
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (22 bp):
TATTTTCTATTTTTATTTTATT
Found at i:9920281 original size:33 final size:33
Alignment explanation
Indices: 9920231--9920324 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
9920221 TATGATATTA
9920231 TTGCATAATATTTTATATTATTGCATGAAAATTT
1 TTGCATAAT-TTTTATATTATTGCATGAAAATTT
* * *
9920265 TTGCGTAATTTTTATATTAGTGCATGATAATTT
1 TTGCATAATTTTTATATTATTGCATGAAAATTT
* * *
9920298 TTGCATGATATTTATATTATCGCATGA
1 TTGCATAATTTTTATATTATTGCATGA
9920325 TATCTTTGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 44 0.85
34 8 0.15
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (33 bp):
TTGCATAATTTTTATATTATTGCATGAAAATTT
Found at i:9920325 original size:33 final size:31
Alignment explanation
Indices: 9920222--9920335 Score: 120
Period size: 33 Copynumber: 3.5 Consensus size: 31
9920212 AAGATTTAGT
*
9920222 ATGATATTATTGCATAATATTTTATATTATTGC
1 ATGATATTTTTGCATAATA-TTTATATTA-TGC
* * *
9920255 ATGAAAATTTTTGCGTAATTTTTATATTAGTGC
1 ATG-ATATTTTTGCATAATATTTATATTA-TGC
*
9920288 ATGATAATTTTTGCATGATATTTATATTATCGC
1 ATGAT-ATTTTTGCATAATATTTATATTAT-GC
*
9920321 ATGATATCTTTGCAT
1 ATGATATTTTTGCAT
9920336 GATTGTTAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
32 11 0.16
33 45 0.66
34 12 0.18
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (31 bp):
ATGATATTTTTGCATAATATTTATATTATGC
Found at i:9920956 original size:21 final size:20
Alignment explanation
Indices: 9920900--9920962 Score: 51
Period size: 20 Copynumber: 3.0 Consensus size: 20
9920890 AACCTTTTTG
9920900 TTTATTTTGTAGATTATGATT
1 TTTATTTTGTAGATT-TGATT
*
9920921 TTT-TTTTATTA-ATTT-ATCT
1 TTTATTTT-GTAGATTTGAT-T
9920940 ATTTATTTTGTAGATTTTGATT
1 -TTTATTTTGTAGA-TTTGATT
9920962 T
1 T
9920963 GATTATTCGG
Statistics
Matches: 33, Mismatches: 2, Indels: 14
0.67 0.04 0.29
Matches are distributed among these distances:
18 2 0.06
19 2 0.06
20 12 0.36
21 11 0.33
22 4 0.12
23 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTATTTTGTAGATTTGATT
Found at i:9924549 original size:9 final size:9
Alignment explanation
Indices: 9924535--9924629 Score: 66
Period size: 9 Copynumber: 10.4 Consensus size: 9
9924525 AGATAAATGA
*
9924535 ATTGCATGC
1 ATTGCATTC
9924544 ATTGCATTC
1 ATTGCATTC
*
9924553 ACTGCATTC
1 ATTGCATTC
*
9924562 GTTGCATTC
1 ATTGCATTC
* *
9924571 ATTACAGTC
1 ATTGCATTC
* * *
9924580 ACTACATTT
1 ATTGCATTC
9924589 ATTGCATTC
1 ATTGCATTC
*
9924598 ATCAT-TATTC
1 AT--TGCATTC
*
9924608 ATTACATTC
1 ATTGCATTC
*
9924617 ATTACATTC
1 ATTGCATTC
9924626 ATTG
1 ATTG
9924630 AAGAATAAGA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
8 1 0.01
9 59 0.88
10 6 0.09
11 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.42
Consensus pattern (9 bp):
ATTGCATTC
Found at i:9924581 original size:27 final size:27
Alignment explanation
Indices: 9924535--9924628 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
9924525 AGATAAATGA
* * * *
9924535 ATTGCATGCATTGCATTCACTGCATTC
1 ATTGCATTCATTACAGTCACTACATTC
* *
9924562 GTTGCATTCATTACAGTCACTACATTT
1 ATTGCATTCATTACAGTCACTACATTC
* * * *
9924589 ATTGCATTCATCATTATTCATTACATTC
1 ATTGCATTCATTA-CAGTCACTACATTC
*
9924617 ATTACATTCATT
1 ATTGCATTCATT
9924629 GAAGAATAAG
Statistics
Matches: 52, Mismatches: 14, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
27 32 0.62
28 20 0.38
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.43
Consensus pattern (27 bp):
ATTGCATTCATTACAGTCACTACATTC
Found at i:9924667 original size:20 final size:20
Alignment explanation
Indices: 9924642--9924679 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9924632 GAATAAGAAC
* *
9924642 AATTAAAGTTTGAATTTTGA
1 AATTAAAATTAGAATTTTGA
9924662 AATTAAAATTAGAATTTT
1 AATTAAAATTAGAATTTT
9924680 AAAAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (20 bp):
AATTAAAATTAGAATTTTGA
Found at i:9925237 original size:6 final size:6
Alignment explanation
Indices: 9925221--9925301 Score: 65
Period size: 6 Copynumber: 13.3 Consensus size: 6
9925211 AAAACCCAAG
* * * *
9925221 ATTTTA A-TTTG ATTTTGA TTTTTTA ATTTTG ATTTTA GTTTTA ATTTTA
1 ATTTTA ATTTTA ATTTT-A ATT-TTA ATTTTA ATTTTA ATTTTA ATTTTA
* * * *
9925270 ATCTTG ATTTTA ATTTTA TTTTTA GTTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA AT
9925302 CTGGTCAAAG
Statistics
Matches: 57, Mismatches: 15, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
5 4 0.07
6 46 0.81
7 5 0.09
8 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.07, T:0.67
Consensus pattern (6 bp):
ATTTTA
Found at i:9925262 original size:18 final size:18
Alignment explanation
Indices: 9925222--9925301 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
9925212 AAACCCAAGA
*
9925222 TTTTAA-TTTGATTTTGATT
1 TTTTAATTTTGATTTT-A-G
9925241 TTTTAATTTTGATTTTAG
1 TTTTAATTTTGATTTTAG
* *
9925259 TTTTAATTTTAATCTT-G
1 TTTTAATTTTGATTTTAG
9925276 ATTTTAATTTT-ATTTTTAG
1 -TTTTAATTTTGA-TTTTAG
9925295 TTTTAAT
1 TTTTAAT
9925302 CTGGTCAAAG
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
17 2 0.04
18 34 0.64
19 8 0.15
20 9 0.17
ACGTcount: A:0.24, C:0.01, G:0.07, T:0.68
Consensus pattern (18 bp):
TTTTAATTTTGATTTTAG
Found at i:9925276 original size:24 final size:24
Alignment explanation
Indices: 9925241--9925293 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
9925231 GATTTTGATT
* *
9925241 TTTTAATTTTGATTTTAGTTTTAA
1 TTTTAATCTTGATTTTAATTTTAA
*
9925265 TTTTAATCTTGATTTTAATTTTAT
1 TTTTAATCTTGATTTTAATTTTAA
9925289 TTTTA
1 TTTTA
9925294 GTTTTAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (24 bp):
TTTTAATCTTGATTTTAATTTTAA
Found at i:9925286 original size:30 final size:30
Alignment explanation
Indices: 9925246--9925303 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9925236 TGATTTTTTA
*
9925246 ATTTTGATTTTAGTTTTAATTTTAATCTTG
1 ATTTTAATTTTAGTTTTAATTTTAATCTTG
* *
9925276 ATTTTAATTTTATTTTTAGTTTTAATCT
1 ATTTTAATTTTAGTTTTAATTTTAATCT
9925304 GGTCAAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.03, G:0.07, T:0.66
Consensus pattern (30 bp):
ATTTTAATTTTAGTTTTAATTTTAATCTTG
Found at i:9926306 original size:19 final size:18
Alignment explanation
Indices: 9926256--9926323 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
9926246 TCATTACCTT
*
9926256 TTTTCTTTT-TTTTTTG-
1 TTTTATTTTATTTTTTGA
* *
9926272 TTTTATTTTCTATTTTGA
1 TTTTATTTTATTTTTTGA
*
9926290 TTTTGATTTTATTTTTTTA
1 TTTT-ATTTTATTTTTTGA
9926309 TGTTTATTTTATTTT
1 T-TTTATTTTATTTT
9926324 CTTCTTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 8 0.19
17 6 0.14
18 4 0.09
19 22 0.51
20 3 0.07
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTATTTTATTTTTTGA
Found at i:9926322 original size:24 final size:24
Alignment explanation
Indices: 9926267--9926334 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
9926257 TTTCTTTTTT
* *
9926267 TTTTGTTTTA-TTTTCTATTTTGA
1 TTTTATTTTATTTTTTTATTTTGA
9926290 TTTTGATTTTATTTTTTTATGTTT-A
1 TTTT-ATTTTATTTTTTTAT-TTTGA
* *
9926315 TTTTATTTTCTTCTTTTATT
1 TTTTATTTTATTTTTTTATT
9926335 ATCCAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 5 0.13
24 18 0.47
25 12 0.32
26 3 0.08
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTTATTTTATTTTTTTATTTTGA
Found at i:9926607 original size:20 final size:20
Alignment explanation
Indices: 9926579--9926648 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 20
9926569 ATGATAATTT
9926579 TTGCATGATATTTTATATTA
1 TTGCATGATATTTTATATTA
*
9926599 TTACATGATA----AT-TT-
1 TTGCATGATATTTTATATTA
*
9926613 TTGCATGATGTTTTATATTA
1 TTGCATGATATTTTATATTA
9926633 TTGCATGATATCTTTA
1 TTGCATGATAT-TTTA
9926649 ATGATTACTA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
14 8 0.21
15 2 0.05
16 2 0.05
18 2 0.05
19 2 0.05
20 19 0.49
21 4 0.10
ACGTcount: A:0.29, C:0.07, G:0.11, T:0.53
Consensus pattern (20 bp):
TTGCATGATATTTTATATTA
Found at i:9926607 original size:34 final size:34
Alignment explanation
Indices: 9926559--9926642 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 34
9926549 ATTTAGTATG
*
9926559 ATATTATTATATGATAATTTTTGCATGATATTTT
1 ATATTATTACATGATAATTTTTGCATGATATTTT
*
9926593 ATATTATTACATGATAATTTTTGCATGATGTTTT
1 ATATTATTACATGATAATTTTTGCATGATATTTT
*
9926627 ATATTATTGCATGATA
1 ATATTATTACATGATA
9926643 TCTTTAATGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (34 bp):
ATATTATTACATGATAATTTTTGCATGATATTTT
Found at i:9930590 original size:17 final size:17
Alignment explanation
Indices: 9930568--9930607 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9930558 AATCATACTT
*
9930568 ATTTTGATT-TTTATATG
1 ATTTTGATTGTTTA-ATA
9930585 ATTTTGATTGTTTAATA
1 ATTTTGATTGTTTAATA
9930602 ATTTTG
1 ATTTTG
9930608 TACATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
ATTTTGATTGTTTAATA
Found at i:9931109 original size:26 final size:26
Alignment explanation
Indices: 9931069--9931131 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
9931059 TATAACCCTA
* *
9931069 AAACCCT-AATCAAAACTCTAAAGTTT
1 AAACCCTAAATCAAAACCCTAAA-ATT
9931095 AAACCCTAAAT-AAAACCCTAAAATT
1 AAACCCTAAATCAAAACCCTAAAATT
9931120 AAAGCCCTAAAT
1 AAA-CCCTAAAT
9931132 GAAATCCCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 5 0.15
26 25 0.76
27 3 0.09
ACGTcount: A:0.51, C:0.24, G:0.03, T:0.22
Consensus pattern (26 bp):
AAACCCTAAATCAAAACCCTAAAATT
Found at i:9931112 original size:12 final size:12
Alignment explanation
Indices: 9931067--9931131 Score: 51
Period size: 14 Copynumber: 5.1 Consensus size: 12
9931057 AATATAACCC
9931067 TAAAACCCT-AA
1 TAAAACCCTAAA
*
9931078 TCAAAACTCTAAA
1 T-AAAACCCTAAA
*
9931091 GTTTAAACCCTAAA
1 --TAAAACCCTAAA
9931105 TAAAACCCTAAAA
1 TAAAACCCT-AAA
*
9931118 TTAAAGCCCTAAA
1 -TAAAACCCTAAA
9931131 T
1 T
9931132 GAAATCCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
11 1 0.02
12 16 0.37
13 8 0.19
14 17 0.40
15 1 0.02
ACGTcount: A:0.51, C:0.23, G:0.03, T:0.23
Consensus pattern (12 bp):
TAAAACCCTAAA
Found at i:9931131 original size:13 final size:12
Alignment explanation
Indices: 9931093--9931174 Score: 53
Period size: 13 Copynumber: 6.6 Consensus size: 12
9931083 ACTCTAAAGT
9931093 TTAAACCCTAAA
1 TTAAACCCTAAA
*
9931105 TAAAACCCTAAAA
1 TTAAACCCT-AAA
9931118 TTAAAGCCCTAAA
1 TTAAA-CCCTAAA
*
9931131 TGAAATCCC-AAA
1 TTAAA-CCCTAAA
* *
9931143 CCTTAAA-CCTTAG
1 --TTAAACCCTAAA
9931156 TTGAAACCCT-AA
1 TT-AAACCCTAAA
9931168 TTAAACC
1 TTAAACC
9931175 TTGCAACCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
11 7 0.13
12 19 0.35
13 21 0.38
14 8 0.15
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (12 bp):
TTAAACCCTAAA
Found at i:9931471 original size:47 final size:47
Alignment explanation
Indices: 9931388--9931481 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 47
9931378 AAATACAATC
* * *
9931388 TTAAATATAAATAGTTGCACACAAACTCTGCTTAGAGGTTGGAGAGT
1 TTAAATATAAATAGTCGCACACAAACTCTGCCTAGAGATTGGAGAGT
* * *
9931435 TTAAATATAAATAGTCGCACCCAAATTTTGCCTAGAGATTGGAGAGT
1 TTAAATATAAATAGTCGCACACAAACTCTGCCTAGAGATTGGAGAGT
9931482 CTAGGTGATC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (47 bp):
TTAAATATAAATAGTCGCACACAAACTCTGCCTAGAGATTGGAGAGT
Found at i:9935094 original size:3 final size:3
Alignment explanation
Indices: 9935086--9935166 Score: 117
Period size: 3 Copynumber: 26.0 Consensus size: 3
9935076 GCATAAAACC
9935086 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9935134 AAT AAT AAAT AAAT AAAT AAT GAT AAC AAT AAT
1 AAT AAT -AAT -AAT -AAT AAT AAT AAT AAT AAT
9935167 GATTATACCA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 62 0.85
4 11 0.15
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9942456 original size:22 final size:21
Alignment explanation
Indices: 9942431--9942492 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
9942421 TTAGCTTGAA
9942431 AAAAAAGAATAAAGAAAAAAAT
1 AAAAAAGAA-AAAGAAAAAAAT
* ** *
9942453 AAAAATGAAGGTACAAAAAAAT
1 AAAAAAGAA-AAAGAAAAAAAT
*
9942475 AAAAAATAAAAAGAAAAA
1 AAAAAAGAAAAAGAAAAA
9942493 TAAGGGAAGA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAAAAGAAAAAGAAAAAAAT
Found at i:9942476 original size:34 final size:35
Alignment explanation
Indices: 9942432--9942497 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
9942422 TAGCTTGAAA
* *
9942432 AAAAAGAATAAAGAA-AAAAATAAAAATGAAGGTAC
1 AAAAAGAATAAAAAATAAAAAGAAAAAT-AAGGTAC
9942467 AAAAA-AATAAAAAATAAAAAGAAAAATAAGG
1 AAAAAGAATAAAAAATAAAAAGAAAAATAAGG
9942498 GAAGAAGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.11
Consensus pattern (35 bp):
AAAAAGAATAAAAAATAAAAAGAAAAATAAGGTAC
Found at i:9944371 original size:3 final size:3
Alignment explanation
Indices: 9944363--9944396 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
9944353 ACATTAAACA
9944363 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9944397 CAAAAAATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9945158 original size:21 final size:22
Alignment explanation
Indices: 9945134--9945176 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
9945124 TGAAGCAGTG
*
9945134 GAAAAGAAGCAGAAG-AAAAAA
1 GAAAAGAAGAAGAAGCAAAAAA
* *
9945155 GAAAGGAGGAAGAAGCAAAAAA
1 GAAAAGAAGAAGAAGCAAAAAA
9945177 CAAGAACCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.67, C:0.05, G:0.28, T:0.00
Consensus pattern (22 bp):
GAAAAGAAGAAGAAGCAAAAAA
Found at i:9946222 original size:17 final size:17
Alignment explanation
Indices: 9946200--9946239 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
9946190 AATCATGCTT
*
9946200 ATTTTGATT-TTTATATG
1 ATTTTGATTGTTTA-ATA
9946217 ATTTTGATTGTTTAATA
1 ATTTTGATTGTTTAATA
9946234 ATTTTG
1 ATTTTG
9946240 TACATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (17 bp):
ATTTTGATTGTTTAATA
Found at i:9948159 original size:8 final size:8
Alignment explanation
Indices: 9948146--9948176 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
9948136 AAAGTGGTAT
9948146 ATTCAAAG
1 ATTCAAAG
9948154 ATTCAAAG
1 ATTCAAAG
9948162 ATTCAAAG
1 ATTCAAAG
9948170 ATTCAAA
1 ATTCAAA
9948177 ACTCCATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (8 bp):
ATTCAAAG
Found at i:9949709 original size:16 final size:16
Alignment explanation
Indices: 9949670--9949712 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9949660 TCAATTTTAT
9949670 GCCTACTTTATGTCTA
1 GCCTACTTTATGTCTA
*
9949686 GCCAACTTTATGT-TCA
1 GCCTACTTTATGTCT-A
*
9949702 GTCTACTTTAT
1 GCCTACTTTAT
9949713 ATCATGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (16 bp):
GCCTACTTTATGTCTA
Found at i:9960265 original size:163 final size:156
Alignment explanation
Indices: 9960081--9960402 Score: 421
Period size: 163 Copynumber: 2.0 Consensus size: 156
9960071 CTTTTTAACA
*
9960081 AACCAACCAAATCATTCCATGCAATAATCAGTCTTAGTTAGATTAACCTTCAAA-CCTTAAATCA
1 AACCAACCAAATCACTCCATGCAATAATCAGTCTTAGTTAGATTAACCTTCAAATCC-TAAAT--
* * *
9960145 CAAAAAAAAAAAAAGGAGAATCAACTAAAATCCTCTTAAAAATCACCAATAAAAATAAGAATAAA
63 C---AAAAAAAAAAGGAGAATCAACTAAAATCATCTTAAAAATCACCAACAAAAATAAGAAGAAA
* * *
9960210 AGAATTATAGAGACAAGATCAAACAATTATCAAG
125 AGAA-TACAAAGACAAAAT-AAACAATTATCAAG
* * *
9960244 AACCAACCCAATCACTCCATGCAATAATCAGTCTTAGTTAGATTAACCTTCAAATCCTGAATCAT
1 AACCAACCAAATCACTCCATGCAATAATCAGTCTTAGTTAGATTAACCTTCAAATCCTAAATCAA
* * ** * *
9960309 TAAAAAAAGGAGAATTAGTTAAAGTCATCTTAAAAATCACCAACAAAAATATGAAGAAAAGAATA
66 AAAAAAAAGGAGAATCAACTAAAATCATCTTAAAAATCACCAACAAAAATAAGAAGAAAAGAATA
9960374 CAAAGACAAAATAAACAATTATCAAG
131 CAAAGACAAAATAAACAATTATCAAG
9960400 AAC
1 AAC
9960403 AAAAAAAAAA
Statistics
Matches: 142, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
156 17 0.12
157 11 0.08
158 55 0.39
161 1 0.01
163 56 0.39
164 2 0.01
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.22
Consensus pattern (156 bp):
AACCAACCAAATCACTCCATGCAATAATCAGTCTTAGTTAGATTAACCTTCAAATCCTAAATCAA
AAAAAAAAGGAGAATCAACTAAAATCATCTTAAAAATCACCAACAAAAATAAGAAGAAAAGAATA
CAAAGACAAAATAAACAATTATCAAG
Found at i:9970475 original size:35 final size:35
Alignment explanation
Indices: 9970430--9970500 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
9970420 ATGGCTACAT
* *
9970430 AAACCAACTAAATTAAATTTTGAATTTAATATTTA
1 AAACCAACTAAATTAAATTTCGAATTCAATATTTA
*
9970465 AAACTAACTAAATTAAATTTCGAATTCAATATTTA
1 AAACCAACTAAATTAAATTTCGAATTCAATATTTA
9970500 A
1 A
9970501 TTTTAGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.38
Consensus pattern (35 bp):
AAACCAACTAAATTAAATTTCGAATTCAATATTTA
Found at i:9971017 original size:29 final size:29
Alignment explanation
Indices: 9970976--9971031 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
9970966 ATTGAGTCAA
*
9970976 AATAAAATATTAA-GAGCTTAATTAATTGC
1 AATAAAATATTAAGGA-CTTAAATAATTGC
*
9971005 AATAAAATGTTAAGGACTTAAATAATT
1 AATAAAATATTAAGGACTTAAATAATT
9971032 ATTAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (29 bp):
AATAAAATATTAAGGACTTAAATAATTGC
Found at i:9979028 original size:22 final size:22
Alignment explanation
Indices: 9978995--9979047 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
9978985 TGTGTGTTTG
*
9978995 TTTATTTATTTT-GTTTATTTGGT
1 TTTATTT-TTTTAATTT-TTTGGT
9979018 TTTATTTTTTTAATTTTTTGGT
1 TTTATTTTTTTAATTTTTTGGT
*
9979040 TTTGTTTT
1 TTTATTTT
9979048 GTTTTGCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (22 bp):
TTTATTTTTTTAATTTTTTGGT
Found at i:9979390 original size:43 final size:42
Alignment explanation
Indices: 9979343--9979443 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 42
9979333 GAGAGTCGAT
* *
9979343 AACTTTAAAATTTTGAAAATGCTCCTTTAAATAGA-GGCTTTGA
1 AACTTTAAAATTTTGAAAA-GCTCCTCTAAACA-ATGGCTTTGA
*
9979386 AACTTTAAAATTTTGGAAAAGTTCCTCTAAACAATGGCTTTGA
1 AACTTTAAAATTTT-GAAAAGCTCCTCTAAACAATGGCTTTGA
*
9979429 AACTTTAAAAGTTTG
1 AACTTTAAAATTTTG
9979444 CAAACATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
42 2 0.04
43 45 0.87
44 5 0.10
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.37
Consensus pattern (42 bp):
AACTTTAAAATTTTGAAAAGCTCCTCTAAACAATGGCTTTGA
Found at i:9980145 original size:11 final size:10
Alignment explanation
Indices: 9980123--9980162 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
9980113 GCTATATTTC
*
9980123 TTTCTCTTTT
1 TTTCTTTTTT
*
9980133 TTCCTTTTTT
1 TTTCTTTTTT
9980143 TTTCTTTTTT
1 TTTCTTTTTT
9980153 TATTCTTTTT
1 T-TTCTTTTT
9980163 CCCTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:9982194 original size:6 final size:6
Alignment explanation
Indices: 9982183--9982318 Score: 53
Period size: 6 Copynumber: 21.7 Consensus size: 6
9982173 CACTCATTCA
* * * *
9982183 TTTCTT TTTCTTTT TTTCTT TTCCTT ATTTCCT TTTGTT ATTCTT CATATT-TT
1 TTTCTT TTTC--TT TTTCTT TTTCTT -TTTCTT TTTCTT TTTCTT --T-TTCTT
* * **
9982236 CTTC-T TTTC-T TTTCCT TTTCTTGT TTTCTT TTTCTT TTTCTT TCACTT
1 TTTCTT TTTCTT TTTCTT TTTC-T-T TTTCTT TTTCTT TTTCTT TTTCTT
* * * * *
9982284 TTTATCT TTTATT TTTATT TTGCTT TTTTTT TTTC
1 TTTCT-T TTTCTT TTTCTT TTTCTT TTTCTT TTTC
9982319 ATTTCCTTTC
Statistics
Matches: 98, Mismatches: 21, Indels: 22
0.70 0.15 0.16
Matches are distributed among these distances:
5 11 0.11
6 61 0.62
7 11 0.11
8 13 0.13
9 2 0.02
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTCTT
Found at i:9982202 original size:14 final size:14
Alignment explanation
Indices: 9982183--9982278 Score: 56
Period size: 14 Copynumber: 6.9 Consensus size: 14
9982173 CACTCATTCA
9982183 TTTCTTTTTCTTTT
1 TTTCTTTTTCTTTT
* *
9982197 TTTCTTTTCCTTAT
1 TTTCTTTTTCTTTT
* *
9982211 TTCCTTTTGT-TATT
1 TTTCTTTT-TCTTTT
* *
9982225 CTTCATATTTTCTTCT
1 TTTC-T-TTTTCTTTT
*
9982241 TTTCTTTTCCTTTT
1 TTTCTTTTTCTTTT
* *
9982255 CTT-GTTTTC--TT
1 TTTCTTTTTCTTTT
9982266 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
9982279 CACTTTTTAT
Statistics
Matches: 57, Mismatches: 18, Indels: 14
0.64 0.20 0.16
Matches are distributed among these distances:
11 4 0.07
12 5 0.09
13 4 0.07
14 33 0.58
15 3 0.05
16 8 0.14
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:9982271 original size:25 final size:24
Alignment explanation
Indices: 9982232--9982327 Score: 74
Period size: 25 Copynumber: 3.9 Consensus size: 24
9982222 ATTCTTCATA
9982232 TTTTCTTC-TTTTCTTTTCCTTTTC
1 TTTT-TTCTTTTTCTTTTCCTTTTC
* *
9982256 TTGTTTTCTTTTTCTTTTTCTTTCAC
1 TT-TTTTCTTTTTCTTTTCCTTT-TC
*
9982282 TTTTTATCTTTTAT-TTTT-ATTTTGC
1 TTTTT-TCTTTT-TCTTTTCCTTTT-C
*
9982307 TTTTTT-TTTTTCATTTCCTTT
1 TTTTTTCTTTTTCTTTTCCTTT
9982328 CCCCTTTCAT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
22 1 0.02
23 7 0.12
24 9 0.16
25 27 0.47
26 13 0.22
27 1 0.02
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTTCTTTTTCTTTTCCTTTTC
Found at i:9983478 original size:14 final size:14
Alignment explanation
Indices: 9983461--9983487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9983451 TATTTCTTCC
9983461 TTTTTTTTCCTTTA
1 TTTTTTTTCCTTTA
9983475 TTTTTTTTCCTTT
1 TTTTTTTTCCTTT
9983488 TCAAGGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCCTTTA
Found at i:9986122 original size:24 final size:26
Alignment explanation
Indices: 9986095--9986144 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9986085 GATTTTTTTG
9986095 TTTC-TCTTTTTGTTTCTT-TTCTTC
1 TTTCATCTTTTTGTTTCTTCTTCTTC
*
9986119 TTTCATTCTTTTTTTTTCTTCTTCTT
1 TTTCA-TCTTTTTGTTTCTTCTTCTT
9986145 TTACTTGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
26 13 0.59
27 5 0.23
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTCATCTTTTTGTTTCTTCTTCTTC
Found at i:9986406 original size:122 final size:122
Alignment explanation
Indices: 9986268--9986511 Score: 416
Period size: 122 Copynumber: 2.0 Consensus size: 122
9986258 AAATGTCTCC
* * *
9986268 GATGCTTTATATAAAAAAAATGATGCATGTATCAAACCCAAGAAAACACATAAAACTTAGAAAAA
1 GATGCTTTATATAAAAAAAATGATGCATGCATCAAACCAAAGAAAACACAAAAAACTTAGAAAAA
* * *
9986333 TCAATGAAAGATGACTTTTAAATAGAATACGTAAAGGTAAATTAATGTTCTTGAACA
66 TCAATGAAAGATGACTTTTAAATACAATACGAAAAGGTAAATTAATGTTCTTAAACA
9986390 GATGCTTTATATAAAAAAAATGATGCATGCATCAAACCAAAGAAAACACAAAAAACTTAGAAAAA
1 GATGCTTTATATAAAAAAAATGATGCATGCATCAAACCAAAGAAAACACAAAAAACTTAGAAAAA
* *
9986455 TCAGTGAAAGATGACTTTTAAATACAATGCGAAAAGGTAAATTAATGTTCTTAAACA
66 TCAATGAAAGATGACTTTTAAATACAATACGAAAAGGTAAATTAATGTTCTTAAACA
9986512 ACTTCCCATT
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
122 114 1.00
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (122 bp):
GATGCTTTATATAAAAAAAATGATGCATGCATCAAACCAAAGAAAACACAAAAAACTTAGAAAAA
TCAATGAAAGATGACTTTTAAATACAATACGAAAAGGTAAATTAATGTTCTTAAACA
Found at i:9990898 original size:24 final size:24
Alignment explanation
Indices: 9990869--9990923 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
9990859 TGCTTCAGGG
*
9990869 TTTTTTAAAGCTCAGCTCTTTTTT
1 TTTTTTAAAGCTCAGCTCTATTTT
* *
9990893 TTTTTTAGAGCTCATCTCTATTTT
1 TTTTTTAAAGCTCAGCTCTATTTT
*
9990917 TCTTTTA
1 TTTTTTA
9990924 TTTCTAGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.16, C:0.16, G:0.07, T:0.60
Consensus pattern (24 bp):
TTTTTTAAAGCTCAGCTCTATTTT
Found at i:9998699 original size:19 final size:19
Alignment explanation
Indices: 9998664--9998702 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
9998654 CATTATAATA
9998664 TTTTTTTAAAATTATAACAT
1 TTTTTTTAAAA-TATAACAT
9998684 TTTTTTTATAAA-ATAACAT
1 TTTTTTTA-AAATATAACAT
9998703 ATAATATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 8 0.44
21 3 0.17
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTTTAAAATATAACAT
Found at i:10001756 original size:20 final size:20
Alignment explanation
Indices: 10001718--10001756 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10001708 TTCCCATCAT
* *
10001718 ATATATAAATATATTATAAC
1 ATATATAAATACATGATAAC
*
10001738 ATATATAAATACCTGATAA
1 ATATATAAATACATGATAA
10001757 AGTTTATCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATATAAATACATGATAAC
Found at i:10001906 original size:40 final size:41
Alignment explanation
Indices: 10001846--10001940 Score: 138
Period size: 40 Copynumber: 2.3 Consensus size: 41
10001836 TTTTTTTTTT
*
10001846 AATTACAAATTGGATAATCTTAAATTTCTTT-AAATAGAAA
1 AATTACAAATTAGATAATCTTAAATTTCTTTCAAATAGAAA
* *
10001886 AATTACAAATTAGATCATCTTAAATTTTTTTCAAATAGAAA
1 AATTACAAATTAGATAATCTTAAATTTCTTTCAAATAGAAA
10001927 AATTATACAAATTA
1 AA-T-TACAAATTA
10001941 TAATTGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
40 28 0.57
41 11 0.22
42 1 0.02
43 9 0.18
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.38
Consensus pattern (41 bp):
AATTACAAATTAGATAATCTTAAATTTCTTTCAAATAGAAA
Found at i:10002882 original size:18 final size:17
Alignment explanation
Indices: 10002850--10002883 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10002840 AAATAAATTA
*
10002850 ATATATATGAATTTTAT
1 ATATATATAAATTTTAT
10002867 ATATATTATAAATTTTA
1 ATATA-TATAAATTTTA
10002884 AAAATTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATATATATAAATTTTAT
Found at i:10003647 original size:17 final size:18
Alignment explanation
Indices: 10003622--10003657 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
10003612 TTGGTTATTG
*
10003622 ATTTGTTATATTTATTAA
1 ATTTGTTATATATATTAA
10003640 ATTT-TTATATATATTAA
1 ATTTGTTATATATATTAA
10003657 A
1 A
10003658 AATTATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTGTTATATATATTAA
Found at i:10004032 original size:2 final size:2
Alignment explanation
Indices: 10004025--10004068 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
10004015 CACCATTAGC
* * * *
10004025 AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT GT AT TT 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
10004067 AT
1 AT
10004069 GCTTCAATGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10007335 original size:135 final size:135
Alignment explanation
Indices: 10007176--10007440 Score: 467
Period size: 135 Copynumber: 2.0 Consensus size: 135
10007166 ATATGCGATT
*
10007176 TATATATATATACTATTTTTTTTATCTACAAAAACTTAAGCTTTTAAACTTTTCATGATAGCTAG
1 TATATATATATACTATTTTCTTTATCTACAAAAACTTAAGCTTTTAAACTTTTCATGATAGCTAG
* ** *
10007241 GCTTATTTACTATATAAGAAGTATTTATTGAGGTTAGGGTTGTGGGTAGTTCATGGTTGTTGTAT
66 GCTTATTTACTATATAAGAAATATTTACAGAGGTTAGGGTTATGGGTAGTTCATGGTTGTTGTAT
10007306 ATATA
131 ATATA
*
10007311 TATATATATATACTATTTTCTTTATCTATAAAAACTTAAGCTTTTAAACTTTTCATGATAGCTAG
1 TATATATATATACTATTTTCTTTATCTACAAAAACTTAAGCTTTTAAACTTTTCATGATAGCTAG
*
10007376 GCTTATTTACTATATAAGAAATATTTACAGAGGTTAGGGTTATGGGTAGTTCGTGGTTGTTGTAT
66 GCTTATTTACTATATAAGAAATATTTACAGAGGTTAGGGTTATGGGTAGTTCATGGTTGTTGTAT
10007441 CTTTCATGCC
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 123 1.00
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.45
Consensus pattern (135 bp):
TATATATATATACTATTTTCTTTATCTACAAAAACTTAAGCTTTTAAACTTTTCATGATAGCTAG
GCTTATTTACTATATAAGAAATATTTACAGAGGTTAGGGTTATGGGTAGTTCATGGTTGTTGTAT
ATATA
Found at i:10012167 original size:13 final size:13
Alignment explanation
Indices: 10012149--10012199 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
10012139 ACAATGTAAT
*
10012149 ATGATGTAAATAC
1 ATGATGCAAATAC
*
10012162 ATGATGCAAATAG
1 ATGATGCAAATAC
* * *
10012175 ATGATACAAACAT
1 ATGATGCAAATAC
10012188 ATGATGCAAATA
1 ATGATGCAAATA
10012200 TGTAAATGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.16, T:0.25
Consensus pattern (13 bp):
ATGATGCAAATAC
Found at i:10013516 original size:17 final size:15
Alignment explanation
Indices: 10013476--10013529 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
10013466 ACTGAGCCCC
*
10013476 TCTTTTTTTTTTTCT
1 TCTTTTTTTCTTTCT
*
10013491 TCTTCTTTTCCTTTCAT
1 TCTT-TTTTTCTTTC-T
10013508 TCTTTTTTT-TTTC-
1 TCTTTTTTTCTTTCT
10013521 TCTTTTTTT
1 TCTTTTTTT
10013530 TTATTTATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
15 8 0.24
16 12 0.35
17 5 0.15
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.80
Consensus pattern (15 bp):
TCTTTTTTTCTTTCT
Found at i:10013627 original size:11 final size:11
Alignment explanation
Indices: 10013605--10013644 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10013595 TCTTTCCTTG
*
10013605 TTTTTCTCCTT
1 TTTTTCTTCTT
*
10013616 TTTTTTTTC-T
1 TTTTTCTTCTT
10013626 TTTTTCTTCTT
1 TTTTTCTTCTT
10013637 TTTTTCTT
1 TTTTTCTT
10013645 TGAATGACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:10018206 original size:14 final size:15
Alignment explanation
Indices: 10018175--10018207 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10018165 AATTGATATA
*
10018175 ATTTTTTAAAATAGT
1 ATTTTTTAAAATAAT
10018190 ATTTTTTAAAA-AAT
1 ATTTTTTAAAATAAT
10018204 ATTT
1 ATTT
10018208 ATTATTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
ATTTTTTAAAATAAT
Found at i:10020228 original size:13 final size:14
Alignment explanation
Indices: 10020212--10020265 Score: 51
Period size: 13 Copynumber: 4.1 Consensus size: 14
10020202 TGAATTTTAA
10020212 TATTTATAT-ATAT
1 TATTTATATAATAT
* *
10020225 TATTTTTATAACAT
1 TATTTATATAATAT
*
10020239 T-TTTGTATAATAT
1 TATTTATATAATAT
*
10020252 TA-TTATATTATAT
1 TATTTATATAATAT
10020265 T
1 T
10020266 TTAAATTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
13 29 0.88
14 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
TATTTATATAATAT
Found at i:10030137 original size:77 final size:75
Alignment explanation
Indices: 10029981--10030138 Score: 219
Period size: 77 Copynumber: 2.1 Consensus size: 75
10029971 ATAATATAAT
*
10029981 ATAATATATTATAATATAAGAGAAAAATTAAAAGAATATGTTATACTTTTACAATATTATTATGC
1 ATAATATAATATAATATAAGAGAAAAATTAAAAGAATATGTTATACTTTT--AATATTATTATGC
**
10030046 ATTTGGCCCTTG
64 ATTTAACCCTTG
* **
10030058 ATAATATAATATAATATAAGAGAAAAATTAAAAGAATATGTTATACTTTT-ATATTTTTATTTAT
1 ATAATATAATATAATATAAGAGAAAAATTAAAAGAATATGTTATACTTTTAATATTATTATGCAT
*
10030122 TTAACCATTG
66 TTAACCCTTG
*
10030132 ATGATAT
1 ATAATAT
10030139 GATGACTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
74 24 0.33
77 49 0.67
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (75 bp):
ATAATATAATATAATATAAGAGAAAAATTAAAAGAATATGTTATACTTTTAATATTATTATGCAT
TTAACCCTTG
Found at i:10033287 original size:19 final size:19
Alignment explanation
Indices: 10033257--10033298 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
10033247 TTTTTATTTT
10033257 TAAACTTTTTTAAAAATTAA
1 TAAACTTTTTTAAAAATT-A
10033277 TAAAC-TTTTTAAAAATTA
1 TAAACTTTTTTAAAAATTA
10033295 TAAA
1 TAAA
10033299 ATATATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 12 0.55
20 5 0.23
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAACTTTTTTAAAAATTA
Found at i:10037974 original size:13 final size:13
Alignment explanation
Indices: 10037956--10037989 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10037946 ATTTTTCTTT
10037956 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
**
10037969 AAAAAATGAAAGA
1 AAAAAAAAAAAGA
10037982 AAAAAAAA
1 AAAAAAAA
10037990 TTTTAAACTT
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:10043583 original size:26 final size:27
Alignment explanation
Indices: 10043520--10043591 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
10043510 ATTTGCATTC
10043520 ACACTTGCATTTGTATCATGAGAAAAG
1 ACACTTGCATTTGTATCATGAGAAAAG
* * *
10043547 ACA-TTCACATTTGTATGATGA-AAAGG
1 ACACTT-GCATTTGTATCATGAGAAAAG
*
10043573 ACACTTGCATTTGCATCAT
1 ACACTTGCATTTGTATCAT
10043592 TGCATCTGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
26 19 0.51
27 18 0.49
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (27 bp):
ACACTTGCATTTGTATCATGAGAAAAG
Found at i:10044627 original size:126 final size:127
Alignment explanation
Indices: 10044386--10044640 Score: 284
Period size: 126 Copynumber: 2.0 Consensus size: 127
10044376 ATTTTCAAGA
* * *
10044386 CTTTCAAGCAAAATATTTTAAGTTTTCAAAGCTTCAATGCCTCTACTATAAGAAGCATTCAAAGA
1 CTTTCAAGCAAAACATTTTAAATTTTCAAAGCTTCAATGCCTCCACTATAAGAAGCATTCAAAGA
* * * *
10044451 TTTTGAGATCTCTAAGAACTTCGGGCATAATCTGTAAGACTTCCAAGCATAATCTTTAGAAC
66 TTTTGAGATCTCTAAGAACATCGAGCATAATCTGTAAAACCTCCAAGCATAATCTTTAGAAC
* * *
10044513 CTTT-AAGTAAAACATTTTAAAATTTT-AAAGTTTCAATGCCTCCATTATAAGGAA-CATTCAAA
1 CTTTCAAGCAAAACATTTT-AAATTTTCAAAGCTTCAATGCCTCCACTATAA-GAAGCATTCAAA
* * * * * * * * *
10044575 GATTTTGATATTTGTAAG-ACATCTGAGTATAATCTTTAAAACCTCTAGGCATATTCTTTAGGAC
64 GATTTTGAGATCTCTAAGAACATC-GAGCATAATCTGTAAAACCTCCAAGCATAATCTTTAGAAC
10044639 CT
1 CT
10044641 ACGAACATAA
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
125 4 0.04
126 89 0.84
127 13 0.12
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.35
Consensus pattern (127 bp):
CTTTCAAGCAAAACATTTTAAATTTTCAAAGCTTCAATGCCTCCACTATAAGAAGCATTCAAAGA
TTTTGAGATCTCTAAGAACATCGAGCATAATCTGTAAAACCTCCAAGCATAATCTTTAGAAC
Found at i:10044715 original size:149 final size:148
Alignment explanation
Indices: 10044521--10044870 Score: 408
Period size: 149 Copynumber: 2.4 Consensus size: 148
10044511 ACCTTTAAGT
* * *
10044521 AAAACATTTTAAAATTTTAAAGTTTCAATGCCTCCATTATAAGGAACATTCAAAGATTTTGATAT
1 AAAACATTTTAAAATTTTAAAGTTTCAATGCCTCCATTACAAGGAACATTCAAAGATTTTAAGAT
* * *
10044586 TTGTAAGACATCTGAGTATAATCTTTAAAACCTCTAGGCAT-ATTCTTTAGGACCTACGAACATA
66 TTGTAAGACATCTGAGCATAATCTTTAAAACCTCAAGGCATAATT-TTTAAGACCTACGAACATA
10044650 ATTTCCAAGACCTCAAGAC
130 ATTTCCAAGACCTCAAGAC
* ** *
10044669 AAAACATTTTAAATTTTTTAAAGTTTCAATGCCTCTGTTACGAGGAACATTCAAAGATTTTAAGA
1 AAAACATTTTAAA-ATTTTAAAGTTTCAATGCCTCCATTACAAGGAACATTCAAAGATTTTAAGA
* * * * *
10044734 TTTGTAAGGCCTCTGAGCATAATTTTTAAGACCTCAAGGCATAATTTTTAAGACCTTTA-G-GCA
65 TTTGTAAGACATCTGAGCATAATCTTTAAAACCTCAAGGCATAATTTTTAAGACC--TACGAACA
* *
10044797 TAA--TCCGTAAGACTTTCGAG-C
128 TAATTTCC--AAGAC-CTCAAGAC
* * *
10044818 AAAAAATTTTAAAATTTCAAAGTTTCAATG-CTCTATTACAAGGAACATTCAAA
1 AAAACATTTTAAAATTTTAAAGTTTCAATGCCTCCATTACAAGGAACATTCAAA
10044871 AAATTGTGAG
Statistics
Matches: 173, Mismatches: 22, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
147 24 0.14
148 28 0.16
149 111 0.64
150 8 0.05
151 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (148 bp):
AAAACATTTTAAAATTTTAAAGTTTCAATGCCTCCATTACAAGGAACATTCAAAGATTTTAAGAT
TTGTAAGACATCTGAGCATAATCTTTAAAACCTCAAGGCATAATTTTTAAGACCTACGAACATAA
TTTCCAAGACCTCAAGAC
Found at i:10044763 original size:22 final size:22
Alignment explanation
Indices: 10044750--10044800 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
10044740 AGGCCTCTGA
10044750 GCATAATTTTTAAGACCTCAAG
1 GCATAATTTTTAAGACCTCAAG
**
10044772 GCATAATTTTTAAGACCTTTAG
1 GCATAATTTTTAAGACCTCAAG
10044794 GCATAAT
1 GCATAAT
10044801 CCGTAAGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (22 bp):
GCATAATTTTTAAGACCTCAAG
Found at i:10044929 original size:22 final size:20
Alignment explanation
Indices: 10044901--10044940 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
10044891 CTTTTAGGCA
10044901 TAATCTCTAAGATCTCTATAAG
1 TAATCTCTAAG-T-TCTATAAG
10044923 TAATCTCTAAGTTCTATA
1 TAATCTCTAAGTTCTATA
10044941 GGTAGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.40
Consensus pattern (20 bp):
TAATCTCTAAGTTCTATAAG
Found at i:10045118 original size:8 final size:8
Alignment explanation
Indices: 10045105--10045184 Score: 117
Period size: 8 Copynumber: 9.8 Consensus size: 8
10045095 AAAAAAAACC
10045105 AAAAAATA
1 AAAAAATA
10045113 AGAAAAACT-
1 A-AAAAA-TA
10045122 AAAAAATAA
1 AAAAAAT-A
10045131 AAAAAATA
1 AAAAAATA
10045139 AAAAAATA
1 AAAAAATA
10045147 AAAAAATA
1 AAAAAATA
*
10045155 AAAAAATT
1 AAAAAATA
10045163 AAAAAATA
1 AAAAAATA
10045171 AAAAAATA
1 AAAAAATA
10045179 AAAAAA
1 AAAAAA
10045185 CTTTTGAAAA
Statistics
Matches: 66, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
7 1 0.02
8 51 0.77
9 13 0.20
10 1 0.02
ACGTcount: A:0.85, C:0.01, G:0.01, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:10045125 original size:16 final size:16
Alignment explanation
Indices: 10045094--10045184 Score: 96
Period size: 16 Copynumber: 5.5 Consensus size: 16
10045084 TTTATTAGTT
*
10045094 TAAAAAAAACCAAAAAA
1 TAAAAAAAA-TAAAAAA
*
10045111 TAAGAAAAACTAAAAAA
1 TAA-AAAAAATAAAAAA
10045128 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
10045144 -ATAAAAAAATAAAAAA
1 TA-AAAAAAATAAAAAA
*
10045160 -ATTAAAAAATAAAAAAA
1 TA-AAAAAAAT-AAAAAA
10045177 TAAAAAAA
1 TAAAAAAA
10045185 CTTTTGAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
15 1 0.02
16 35 0.54
17 23 0.35
18 6 0.09
ACGTcount: A:0.84, C:0.03, G:0.01, T:0.12
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:10045195 original size:1 final size:1
Alignment explanation
Indices: 10045122--10045184 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
10045112 AAGAAAAACT
* * * * ** * *
10045122 AAAAAATAAAAAAAATAAAAAAATAAAAAAATAAAAAAATTAAAAAATAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10045185 CTTTTGAAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (1 bp):
A
Found at i:10048519 original size:24 final size:24
Alignment explanation
Indices: 10048471--10048517 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
10048461 CCATTACCAA
*
10048471 ACCCTTTTTTTCTTTTTCTTTTTT
1 ACCCTTTTTTTATTTTTCTTTTTT
10048495 ACCC-TTTTTTATTTTTCTTTTTT
1 ACCCTTTTTTTATTTTTCTTTTTT
10048518 TAAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (24 bp):
ACCCTTTTTTTATTTTTCTTTTTT
Found at i:10050193 original size:26 final size:26
Alignment explanation
Indices: 10050139--10050194 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
10050129 GATTAAGAAA
* *
10050139 AATTACTATAATGTCCTTCTTAACGT
1 AATTACTAAAATGTCCTTCTTAACAT
*
10050165 AATTACTAAAATGTCCATT-TTACCAT
1 AATTACTAAAATGTCC-TTCTTAACAT
10050191 AATT
1 AATT
10050195 GCTCAAAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (26 bp):
AATTACTAAAATGTCCTTCTTAACAT
Found at i:10050301 original size:496 final size:497
Alignment explanation
Indices: 10049312--10050352 Score: 1136
Period size: 497 Copynumber: 2.1 Consensus size: 497
10049302 ATATCTCTCA
* * * *
10049312 TATTATAATTGGCTCAAATTACTATAATACACTTTTACCATAATTACAAAAAAAAAAATCCTTTC
1 TATTATAATTGACTAAAATTACTATAATACACTTTAACCATAATTAC--AAAAAAAAACCCTTTC
** ** * *
10049377 GATTGCTGCATATAATTTCTCTCCTACAATAATTATTAAAATACCTCTCATATTATAATTTGCCA
64 GATTGCTGCATATAATGCCTCTCCTACAATAATTACAAAAATACCTCTCATACTATAATTGGCCA
* ** *
10049442 AAATTACTATAATGCCTTCCAAGCATAATTACAAAAATATTTTTTTGATTGCTTTATAATCACTC
129 AAATTACTACAATGCCTTCCAAGCATAATTACAAAAATAGCTTTTTGATTGCTTCATAATCACTC
* * * *
10049507 ATTAAATTTTAACATTCATACAATAATAATATAAATTAGTCCCCTTAGAAATGATCATAATGCCC
194 ATTAAAATTTAACATTCATACAATAATAATAGAAATTAATCCCCTTAAAAATGATCATAATGCCC
**
10049572 TTTTTATCATTTGACAAATGAATTACATACATCCAAATTGATTGTAATGTCCCTCTGCAATGATT
259 TTTTTATCATTCAACAAATGAATTACATACATCCAAATTGATTGTAATGTCCCTCTGCAATGATT
* * *
10049637 AACTAAAATTACTATAATGCCCCGCTTAACATAATTACTAGAATATACTTTTTACCATAATTGAT
324 AACAAAAATTACTATAATGCCCCGCTTAACATAATTACTAAAATATACATTTTACCATAATTGAT
* * * * *
10049702 AGAGTTGCTATAATGCACCTACAACCATAGTTACGAAAATGCCTTCCTACCATCATATGCTAAAA
389 AAAGTTACTATAATGCACCCACAACCATAATTACGAAAATGCCTTCCTACCATCATATGCCAAAA
* *
10049767 TTACAATTATGCTCCTCTTAAAATAATTACAAAAATACCTCTTT
454 TTACAATTATGCACCTCTCAAAATAATTACAAAAATACCTCTTT
* ** *
10049811 TATTATAATTTGACTAAAATTACTATAATAC-CTTCTAATCATAATTAC-AAAAAATGCCCTTTT
1 TATTATAA-TTGACTAAAATTACTATAATACACTT-TAACCATAATTACAAAAAAAAACCCTTTC
* ** *
10049874 GATTGCTTCATATAATGCCTCTTTTATC-ATAATTACAAAAATATCC-CTTATACTATAATTGGC
64 GATTGCTGCATATAATGCCTCTCCTA-CAATAATTACAAAAATA-CCTCTCATACTATAATTGGC
* ** * *
10049937 CAGAATTACTACAATGCCTTTTAAGCATAATTACGAAAATAGCTTTTTGATTGCTTCATAATTAC
127 CAAAATTACTACAATGCCTTCCAAGCATAATTACAAAAATAGCTTTTTGATTGCTTCATAATCAC
* * * *
10050002 TTATTAAAATTTAACA-TCTATTCAATAA-CAT-GAAATTAATCTCCTTAAAAATGATCATAATG
192 TCATTAAAATTTAACATTC-ATACAATAATAATAGAAATTAATCCCCTTAAAAATGATCATAATG
* * * * * * * *
10050064 -TCTTTTTAATTATTCAACAATTGAATTGCATGCATCCAAATTGATTGTAATG-CCCTTATTTCT
256 CCCTTTTT-ATCATTCAACAAATGAATTACATACATCCAAATTGATTGTAATGTCCC-T-CTGCA
* * ** * * *
10050127 ATGATTAAGAAAAATTACTATAATGTCCTTCTTAACGTAATTACTAAAATGTCCATTTTACCATA
318 ATGATTAACAAAAATTACTATAATGCCCCGCTTAACATAATTACTAAAATATACATTTTACCATA
* * * * * *
10050192 ATTGCTCAAAGTTATTATAATGC-CCCACAATCATAATTATGAAATTGCTCTT-CTATCATCATA
383 ATTGAT-AAAGTTACTATAATGCACCCACAACCATAATTACGAAAATGC-CTTCCTACCATCATA
* * ** * **
10050255 TGCCAAAATTACGATTATGCACCTC-CAACCATAATTATGAAAATACCTATCA
446 TGCCAAAATTACAATTATGCACCTCTCAA-AATAATTACAAAAATACCTCTTT
* * * * * *
10050307 TATTAT-ATTGTGCCAGAATGATTATAATACCCTTTAACCATAATTA
1 TATTATAATTG-ACTAAAATTACTATAATACACTTTAACCATAATTA
10050353 TGAAAATATC
Statistics
Matches: 448, Mismatches: 81, Indels: 30
0.80 0.14 0.05
Matches are distributed among these distances:
494 12 0.03
495 94 0.21
496 144 0.32
497 153 0.34
498 3 0.01
499 11 0.02
500 31 0.07
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.37
Consensus pattern (497 bp):
TATTATAATTGACTAAAATTACTATAATACACTTTAACCATAATTACAAAAAAAAACCCTTTCGA
TTGCTGCATATAATGCCTCTCCTACAATAATTACAAAAATACCTCTCATACTATAATTGGCCAAA
ATTACTACAATGCCTTCCAAGCATAATTACAAAAATAGCTTTTTGATTGCTTCATAATCACTCAT
TAAAATTTAACATTCATACAATAATAATAGAAATTAATCCCCTTAAAAATGATCATAATGCCCTT
TTTATCATTCAACAAATGAATTACATACATCCAAATTGATTGTAATGTCCCTCTGCAATGATTAA
CAAAAATTACTATAATGCCCCGCTTAACATAATTACTAAAATATACATTTTACCATAATTGATAA
AGTTACTATAATGCACCCACAACCATAATTACGAAAATGCCTTCCTACCATCATATGCCAAAATT
ACAATTATGCACCTCTCAAAATAATTACAAAAATACCTCTTT
Found at i:10051564 original size:6 final size:6
Alignment explanation
Indices: 10051555--10051589 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10051545 AAAAAAGAAA
* *
10051555 AAAAAC AAAAAC CAAAAC AAAAAC AAAAAT AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
10051590 AATACACAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.83, C:0.14, G:0.00, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:10052175 original size:38 final size:38
Alignment explanation
Indices: 10052132--10052229 Score: 115
Period size: 38 Copynumber: 2.6 Consensus size: 38
10052122 GACCGGACTG
* * ** *
10052132 AACCGGTCGGATCGCTCGGACCGTTGATCCGACCGCCA
1 AACCGGTCAGATCGCCCGGACCGCCGATCCAACCGCCA
* * *
10052170 AACCGGTCAGATCGCCCGAACCGCCGATCCAACCGTCG
1 AACCGGTCAGATCGCCCGGACCGCCGATCCAACCGCCA
*
10052208 AACCGGTCAGACCGCCCGGACC
1 AACCGGTCAGATCGCCCGGACC
10052230 AGCATTGATC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.21, C:0.41, G:0.27, T:0.11
Consensus pattern (38 bp):
AACCGGTCAGATCGCCCGGACCGCCGATCCAACCGCCA
Found at i:10052315 original size:9 final size:9
Alignment explanation
Indices: 10052303--10052334 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
10052293 TAATTTTTTA
10052303 TTGTTATTT
1 TTGTTATTT
10052312 TTGTTA-TT
1 TTGTTATTT
10052320 TTGTTATTT
1 TTGTTATTT
10052329 TT-TTAT
1 TTGTTAT
10052335 ATTTATGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 12 0.55
9 10 0.45
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
TTGTTATTT
Found at i:10052325 original size:17 final size:16
Alignment explanation
Indices: 10052303--10052334 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10052293 TAATTTTTTA
10052303 TTGTTATTTTTGTTATT
1 TTGTTATTTTT-TTATT
10052320 TTGTTATTTTTTTAT
1 TTGTTATTTTTTTAT
10052335 ATTTATGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (16 bp):
TTGTTATTTTTTTATT
Found at i:10052767 original size:32 final size:32
Alignment explanation
Indices: 10052722--10052812 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 32
10052712 AAAACTCCTA
* *
10052722 AAAACCCAAAATCCCTTAAATCCAAACCCCAT
1 AAAATCCAAAATCCCTTAAATCCAAACCCCAC
* * *
10052754 AAAATTCAAAATCCATTAAATCCAAAACCCCCC
1 AAAATCCAAAATCCCTTAAATCC-AAACCCCAC
*
10052787 GAAATCCAAAAT-CCTTGAAATCCAAA
1 AAAATCCAAAATCCCTT-AAATCCAAA
10052813 GTCCTAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 26 0.53
33 23 0.47
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (32 bp):
AAAATCCAAAATCCCTTAAATCCAAACCCCAC
Found at i:10052797 original size:33 final size:32
Alignment explanation
Indices: 10052722--10052812 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 32
10052712 AAAACTCCTA
* *
10052722 AAAACCCAAAATCCCTTAAATCC-AAACCCCAT
1 AAAATCCAAAAT-CCTTAAATCCAAAACCCCAC
* *
10052754 AAAATTCAAAATCCATTAAATCCAAAACCCCCC
1 AAAATCCAAAATCC-TTAAATCCAAAACCCCAC
*
10052787 GAAATCCAAAATCCTTGAAATCCAAA
1 AAAATCCAAAATCCTT-AAATCCAAA
10052813 GTCCTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
31 2 0.04
32 20 0.40
33 28 0.56
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (32 bp):
AAAATCCAAAATCCTTAAATCCAAAACCCCAC
Found at i:10052808 original size:16 final size:15
Alignment explanation
Indices: 10052727--10052817 Score: 56
Period size: 16 Copynumber: 5.7 Consensus size: 15
10052717 TCCTAAAAAC
10052727 CCAAAATCCCTTAAAT
1 CCAAAAT-CCTTAAAT
** *
10052743 CCAAACCCCATAAAAT
1 CCAAAATCC-TTAAAT
*
10052759 TCAAAATCCATTAAAT
1 CCAAAATCC-TTAAAT
* **
10052775 CCAAAACCCCCCGAAAT
1 CCAAAA--TCCTTAAAT
10052792 CCAAAATCCTTGAAAT
1 CCAAAATCCTT-AAAT
*
10052808 CCAAAGTCCT
1 CCAAAATCCT
10052818 AAAAAAAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
15 4 0.07
16 40 0.71
17 10 0.18
18 2 0.04
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.20
Consensus pattern (15 bp):
CCAAAATCCTTAAAT
Found at i:10055986 original size:48 final size:48
Alignment explanation
Indices: 10055864--10056537 Score: 691
Period size: 48 Copynumber: 13.8 Consensus size: 48
10055854 AATAGATGAA
* * *
10055864 AAATTTTAAAGTTGTTGAGCCTCTGCTAAGAGCAGAGGAGCATTTTCAAGACG
1 AAATTTTAAAGTTGTGGAGCCTCTGCT----G-AGAGGAGCTTTTTCAAGAAG
*
10055917 AAAATTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAG
1 -AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAG
* * * *
10055966 AAATTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTCCAAGATGAG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA--AG
* **
10056016 AAA-TTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGC-TTTTCCAGTTG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAG
**
10056062 AGAATTTTAAAGTTGTGGAGCCTCTATTGAGAGGAGC-TTTTCAAGATA-
1 A-AATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA-AG
* * *
10056110 AGATTTTTAAAGTTATGGAGCCTTTGCTGAGAGGAGCTTTTTTCAAGAAG
1 A-AATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGC-TTTTTCAAGAAG
* * * *
10056160 AAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATG
1 AAA-TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAG
* * * * *
10056209 AAAATTTTAAAGTCGTTGAGCCTCTGTTGAGAGGAGC-TTTTCCAGATG
1 -AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAG
* * * *
10056257 AGATTTTAAAGTTATAGAGCCTCTGTTGAGAGGAGCTTTTTC-AGAGAG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA-AG
*
10056305 AATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCCTTTTTTCAAGAGAG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAG-C-TTTTTCAAGA-AG
*
10056356 AATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTTTCAAG-AG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGC--TTTTTCAAGAAG
* * * *
10056405 -ATTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTCCAGATG
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAG
* * ** *
10056451 AGATTTTTAAAGTTATGGAGCCTCTATTGAGAGGAGCTTTTTCTAGATGAG
1 A-AATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGA--AG
* * *
10056502 AATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
1 AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGC
10056538 CCTTTTCTGT
Statistics
Matches: 538, Mismatches: 60, Indels: 48
0.83 0.09 0.07
Matches are distributed among these distances:
45 7 0.01
46 3 0.01
47 37 0.07
48 228 0.42
49 100 0.19
50 85 0.16
51 53 0.10
54 25 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.34
Consensus pattern (48 bp):
AAATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGAAG
Found at i:10056206 original size:195 final size:197
Alignment explanation
Indices: 10055897--10056537 Score: 914
Period size: 195 Copynumber: 3.3 Consensus size: 197
10055887 TGCTAAGAGC
* * *
10055897 AGAGGAGCATTTTCAAGACGAA-AA-TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGC-TTTTT
1 AGAGGAGCTTTTTCAAGA-TAAGAATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTT
*
10055959 CAAGAAGAAA-TTTTAAAGTTGTTGAGCCTCTACTGAGATGAGCTTTTCCAAGATGAGAAATTTA
65 CAAGAAGAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGAAATTTA
* * *
10056023 AAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAGTTGAGAATTTTAAAGTTGTGGAGCCTCTA
130 AAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAGAATTTTAAAGTTATGGAGCCTCTA
10056088 TTG
195 TTG
* *
10056091 AGAGGAGC-TTTTCAAGATAAG-ATTTTTAAAGTTATGGAGCCTTTGCTGAGAGGAGCTTTTTTC
1 AGAGGAGCTTTTTCAAGATAAGAATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTTC
10056154 AAGAAGAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA-AAATTTTA
66 AAGAAGAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGAAA-TTTA
* * * *
10056218 AAGTCGTTGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAG-ATTTTAAAGTTATAGAGCCTCTG
130 AAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAGAATTTTAAAGTTATGGAGCCTCTA
10056282 TTG
195 TTG
*
10056285 AGAGGAGCTTTTTC-AGA-GAGAATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCCTTTTTT
1 AGAGGAGCTTTTTCAAGATAAGAATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAG-CTTTTTT
* * * **
10056348 CAAG-AGAGAATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTTTC-A-A-GAGATTT
65 CAAGAAGA-AATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC--TTTTCCAAGATGAGAAAT
*
10056409 TTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTTAAAGTTATGGAGCCT
127 TTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAGAATTTTAAAGTTATGGAGCCT
10056474 CTATTG
192 CTATTG
* * * *
10056480 AGAGGAGCTTTTTCTAGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGC
1 AGAGGAGCTTTTTCAAGATAAGAATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGC
10056538 CCTTTTCTGT
Statistics
Matches: 405, Mismatches: 27, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
192 3 0.01
193 41 0.10
194 140 0.35
195 175 0.43
196 5 0.01
197 41 0.10
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (197 bp):
AGAGGAGCTTTTTCAAGATAAGAATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTTC
AAGAAGAAATTTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAGAAATTTAA
AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAGAATTTTAAAGTTATGGAGCCTCTAT
TG
Found at i:10056264 original size:146 final size:147
Alignment explanation
Indices: 10055867--10056537 Score: 751
Period size: 146 Copynumber: 4.6 Consensus size: 147
10055857 AGATGAAAAA
* *
10055867 TTTTAAAGTTGTTGAGCCTCTGCTAAGAGCAGAGGAGCATTTT-CAAGACGAAAATTTTAAAGTT
1 TTTTAAAGTTGTGGAGCCTCTGCT----G-AGAGGAGC-TTTTCCAAGATGAAAATTTTAAAGTT
* * * * *
10055931 GTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGAAGA-AATTTTAAAGTTGTTGAGCCTCTACTGA
60 GTGGAGCCTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAAGTTATGGAGCCTCTGCTGA
* *
10055995 GATGAGCTTTTCCAAGATGAGAAA-
125 GAGGAGCTTTTTCAAGA--AGAAAT
* *
10056019 -TTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC-AGTTGAGAATTTTAAAGTTGTGGAG
1 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTGGAG
* * *
10056082 CCTCTATTGAGAGGAGC-TTTTCAAGATAAGATTTTTAAAGTTATGGAGCCTTTGCTGAGAGGAG
66 CCTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAAGTTATGGAGCCTCTGCTGAGAGGAG
10056146 CTTTTTTCAAGAAGAAAT
131 C-TTTTTCAAGAAGAAAT
* * * *
10056164 TTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTCGTTGAG
1 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTGGAG
* * *
10056229 CCTCTGTTGAGAGGAGC-TTTTCCAGATGAGA-TTTTAAAGTTATAGAGCCTCTGTTGAGAGGAG
66 CCTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAAGTTATGGAGCCTCTGCTGAGAGGAG
10056292 CTTTTTC-AG-AGAGAAT
131 CTTTTTCAAGAAGA-AAT
* *
10056308 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCCTTTTTTCAAGA-GAGAATTTTTAAAGTTGTG
1 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAG-C-TTTTCCAAGATGA-AAATTTTAAAGTTGTG
* * *
10056372 GAGCCTCTGCTGAGAGGAGCTTTTTTTC-A-A-GAGATTTTTAAAGTTGTGGAGCCTCTGTTGAG
63 GAGCCTCTGTTGAGAGGAGC--TTTTTCAAGATGAGATTTTTAAAGTTATGGAGCCTCTGCTGAG
* * *
10056434 AGGAGC-TTTTCCAGATGAGAT
126 AGGAGCTTTTTCAAGAAGAAAT
* ** * * * *
10056455 TTTTAAAGTTATGGAGCCTCTATTGAGAGGAGCTTTTTCTAGATGAGAATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGA-AAATTTTAAAGTTGTGGA
* *
10056520 GCCTCTGCTAAGAGGAGC
65 GCCTCTGTTGAGAGGAGC
10056538 CCTTTTCTGT
Statistics
Matches: 459, Mismatches: 43, Indels: 40
0.85 0.08 0.07
Matches are distributed among these distances:
143 3 0.01
144 50 0.11
145 89 0.19
146 172 0.37
147 115 0.25
148 3 0.01
149 5 0.01
151 22 0.05
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (147 bp):
TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAAAATTTTAAAGTTGTGGAG
CCTCTGTTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAAGTTATGGAGCCTCTGCTGAGAGGAG
CTTTTTCAAGAAGAAAT
Found at i:10057638 original size:16 final size:16
Alignment explanation
Indices: 10057617--10057706 Score: 69
Period size: 16 Copynumber: 5.6 Consensus size: 16
10057607 AAACTCCTAA
10057617 AAATCCAAAATCCCTT
1 AAATCCAAAATCCCTT
10057633 AAATCC-AAA-CCCTAT
1 AAATCCAAAATCCCT-T
* *
10057648 AAAATTCAAAATCCATT
1 -AAATCCAAAATCCCTT
* **
10057665 AAATCCAAAACCCCCCG
1 AAATCCAAAA-TCCCTT
*
10057682 AAATCCAAAAT-GCTT
1 AAATCCAAAATCCCTT
10057697 GAAATCCAAA
1 -AAATCCAAA
10057707 GTCCTAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
14 4 0.07
15 5 0.09
16 29 0.51
17 16 0.28
18 3 0.05
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.20
Consensus pattern (16 bp):
AAATCCAAAATCCCTT
Found at i:10057658 original size:32 final size:32
Alignment explanation
Indices: 10057607--10057716 Score: 107
Period size: 32 Copynumber: 3.4 Consensus size: 32
10057597 TAGGTTTCTA
*
10057607 AAACTCCTAAAAATCCAAAATCCCTTAAATCC
1 AAACTCCTAAAAATCCAAAATCCATTAAATCC
*
10057639 AAAC-CCTATAAAATTCAAAATCCATTAAATCC
1 AAACTCCTA-AAAATCCAAAATCCATTAAATCC
* *** *
10057671 AAAACCCCCCGAAATCCAAAATGC-TTGAAATCC
1 -AAACTCCTAAAAATCCAAAATCCATT-AAATCC
*
10057704 AAAGTCCTAAAAA
1 AAACTCCTAAAAA
10057717 AAAAAATCCT
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
31 4 0.06
32 35 0.56
33 21 0.34
34 2 0.03
ACGTcount: A:0.48, C:0.28, G:0.04, T:0.20
Consensus pattern (32 bp):
AAACTCCTAAAAATCCAAAATCCATTAAATCC
Found at i:10057691 original size:33 final size:32
Alignment explanation
Indices: 10057616--10057706 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 32
10057606 AAAACTCCTA
* *
10057616 AAAATCCAAAATCCCTTAAATCC-AAACCCTAT
1 AAAATCCAAAAT-CCTTAAATCCAAAACCCCAC
* *
10057648 AAAATTCAAAATCCATTAAATCCAAAACCCCCC
1 AAAATCCAAAATCC-TTAAATCCAAAACCCCAC
* *
10057681 GAAATCCAAAATGCTTGAAATCCAAA
1 AAAATCCAAAATCCTT-AAATCCAAA
10057707 GTCCTAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
31 2 0.04
32 21 0.43
33 26 0.53
ACGTcount: A:0.48, C:0.29, G:0.03, T:0.20
Consensus pattern (32 bp):
AAAATCCAAAATCCTTAAATCCAAAACCCCAC
Found at i:10060204 original size:7 final size:7
Alignment explanation
Indices: 10060177--10060351 Score: 81
Period size: 6 Copynumber: 26.4 Consensus size: 7
10060167 AAGTGTTGGT
*
10060177 TTTAGGG
1 TTTAAGG
10060184 TTTAAGG
1 TTTAAGG
*
10060191 ATT--GG
1 TTTAAGG
10060196 TTTAAGG
1 TTTAAGG
*
10060203 TTTAGGG
1 TTTAAGG
*
10060210 TTTAGGG
1 TTTAAGG
10060217 TTT-AGG
1 TTTAAGG
10060223 TTT-AGG
1 TTTAAGG
*
10060229 TTT-AGC
1 TTTAAGG
*
10060235 TTTAAGA
1 TTTAAGG
10060242 TTTAAGG
1 TTTAAGG
10060249 TTT-AGAG
1 TTTAAG-G
10060256 TTTAA-G
1 TTTAAGG
*
10060262 TTTTAGG
1 TTTAAGG
* *
10060269 ATGTAGGG
1 -TTTAAGG
10060277 TTTAAGG
1 TTTAAGG
10060284 TTT-AGG
1 TTTAAGG
10060290 TTT-AGG
1 TTTAAGG
*
10060296 GTT-AGG
1 TTTAAGG
*
10060302 GTT-AGG
1 TTTAAGG
*
10060308 GTT-AGG
1 TTTAAGG
*
10060314 TTT-ATG
1 TTTAAGG
10060320 TTT-AGG
1 TTTAAGG
*
10060326 TTTAGGG
1 TTTAAGG
*
10060333 TTTTTAGGG
1 --TTTAAGG
10060342 TTTAAGG
1 TTTAAGG
10060349 TTT
1 TTT
10060352 GCAAGGGAAT
Statistics
Matches: 138, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
5 4 0.03
6 61 0.44
7 61 0.44
8 5 0.04
9 7 0.05
ACGTcount: A:0.21, C:0.01, G:0.33, T:0.46
Consensus pattern (7 bp):
TTTAAGG
Found at i:10060207 original size:26 final size:26
Alignment explanation
Indices: 10060177--10060348 Score: 108
Period size: 26 Copynumber: 6.5 Consensus size: 26
10060167 AAGTGTTGGT
10060177 TTTAGGGTTTAAGGATT-GGTTTAAGG
1 TTTAGGGTTTAAGGATTAGGTTT-AGG
* *
10060203 TTTAGGGTTTAGGGTTTAGGTTTAGG
1 TTTAGGGTTTAAGGATTAGGTTTAGG
*
10060229 TTTA-GCTTTAA-GATTTAAGGTTTAGAG
1 TTTAGGGTTTAAGGA-TT-AGGTTTAG-G
* *
10060256 TTTA-AGTTTTAGGATGTAGGGTTTAAGG
1 TTTAGGGTTTAAGGAT-TA-GGTTT-AGG
* *
10060284 TTTA-GGTTT-AGGGTTAGGGTTAGG
1 TTTAGGGTTTAAGGATTAGGTTTAGG
* * *
10060308 GTTA-GGTTT-ATGTTTAGGTTTAGGG
1 TTTAGGGTTTAAGGATTAGGTTTA-GG
10060333 TTTTTAGGGTTTAAGG
1 --TTTAGGGTTTAAGG
10060349 TTTGCAAGGG
Statistics
Matches: 116, Mismatches: 17, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
24 22 0.19
25 13 0.11
26 32 0.28
27 23 0.20
28 22 0.19
29 4 0.03
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.45
Consensus pattern (26 bp):
TTTAGGGTTTAAGGATTAGGTTTAGG
Found at i:10060226 original size:6 final size:6
Alignment explanation
Indices: 10060194--10060331 Score: 114
Period size: 6 Copynumber: 21.3 Consensus size: 6
10060184 TTTAAGGATT
* *
10060194 GGTTTAA GGTTTA GGGTTTA GGGTTTA GGTTTA GGTTTA GCTTTAA GATTTAA
1 GGTTT-A GGTTTA -GGTTTA -GGTTTA GGTTTA GGTTTA GGTTT-A GGTTT-A
* * *
10060247 GGTTTA GAGTTTAA GTTTTA GGATGTA GGGTTTAA GGTTTA GGTTTA GGGTTA
1 GGTTTA G-GTTT-A GGTTTA GG-TTTA -GGTTT-A GGTTTA GGTTTA GGTTTA
* * *
10060300 GGGTTA GGGTTA GGTTTA TGTTTA GGTTTA GG
1 GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA GG
10060332 GTTTTTAGGG
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
6 62 0.55
7 46 0.41
8 5 0.04
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (6 bp):
GGTTTA
Found at i:10060226 original size:13 final size:13
Alignment explanation
Indices: 10060194--10060335 Score: 121
Period size: 14 Copynumber: 10.9 Consensus size: 13
10060184 TTTAAGGATT
*
10060194 GGTTTAAGGTTTA
1 GGTTTAGGGTTTA
10060207 GGGTTTAGGGTTTA
1 -GGTTTAGGGTTTA
10060221 GGTTTA-GGTTTA
1 GGTTTAGGGTTTA
* * *
10060233 GCTTTAAGATTTAA
1 GGTTTAGGGTTT-A
*
10060247 GGTTTAGAGTTTAA
1 GGTTTAGGGTTT-A
* * *
10060261 GTTTTAGGATGTA
1 GGTTTAGGGTTTA
*
10060274 GGGTTTAAGGTTTA
1 -GGTTTAGGGTTTA
10060288 GGTTTAGGG-TTA
1 GGTTTAGGGTTTA
*
10060300 GGGTTAGGG-TTA
1 GGTTTAGGGTTTA
*
10060312 GGTTTA-TGTTTA
1 GGTTTAGGGTTTA
10060324 GGTTTAGGGTTT
1 GGTTTAGGGTTT
10060336 TTAGGGTTTA
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
11 1 0.01
12 39 0.38
13 23 0.22
14 40 0.39
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (13 bp):
GGTTTAGGGTTTA
Found at i:10061902 original size:78 final size:79
Alignment explanation
Indices: 10061773--10061935 Score: 204
Period size: 78 Copynumber: 2.1 Consensus size: 79
10061763 TCAAATTATG
* * * **
10061773 AAAATACCCATAATGAGGTATTTTGGTAATTTCACACCTTTCGATGTGCAATTGAGGT-TTTAAT
1 AAAATACCCATAATAAGGTATTTTAGTAATTTCACACCTTTCGAGGTGCAATCAAGGTCTTTAAT
*
10061837 GCATAAAAAATCAT
66 GCACAAAAAATCAT
* * * *
10061851 AAAATACCCTTAA-AAGGATATTTTAGTAATTTTACACCTTTTGAGGTGCAATCAAGGTCTTTAT
1 AAAATACCCATAATAAGG-TATTTTAGTAATTTCACACCTTTCGAGGTGCAATCAAGGTCTTTAA
*
10061915 TGCACCAAAAATCAT
65 TGCACAAAAAATCAT
10061930 AAAATA
1 AAAATA
10061936 ATATAGAATC
Statistics
Matches: 72, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
77 3 0.04
78 46 0.64
79 23 0.32
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (79 bp):
AAAATACCCATAATAAGGTATTTTAGTAATTTCACACCTTTCGAGGTGCAATCAAGGTCTTTAAT
GCACAAAAAATCAT
Found at i:10063009 original size:40 final size:39
Alignment explanation
Indices: 10062955--10063228 Score: 271
Period size: 40 Copynumber: 6.9 Consensus size: 39
10062945 GAAATTGTTC
*
10062955 AAAAATTTAAGATTTTGCCTGAAGGTCTTGAAAATCATT
1 AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATT
* * ** *
10062994 AAAAATTTTAAGATTTTG-CTTAGAGGTCTTGAAAATTGTCC
1 AAAAA-TTTAAGATTTTGCCTGA-AGGTCTTGGAAATCAT-T
* * * *
10063035 AAAAATTTAAAAATTTGCCCGAAGGTCCTGGAAATCATT
1 AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATT
* * * *
10063074 CAAAATTTAAGATTTTGCTTGGAGATCTTGGAAATCATT
1 AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATT
* * * * *
10063113 CAAAAGTTTAAGATTTTTCCTGGAGATCTTGGAAATCGTT
1 -AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATT
* * *
10063153 CAAAAATTTAAGATTTTGCTTGGAGGTCTTTGAAATCATT
1 -AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATT
* **
10063193 AAAAATTTAATATTTTGCCCAAAGGTCTTGGAAATC
1 AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATC
10063229 TTGTATTCAT
Statistics
Matches: 192, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
39 69 0.36
40 116 0.60
41 7 0.04
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (39 bp):
AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATT
Found at i:10063038 original size:80 final size:78
Alignment explanation
Indices: 10062952--10063228 Score: 331
Period size: 79 Copynumber: 3.5 Consensus size: 78
10062942 TTGGAAATTG
* * *
10062952 TTCAAAAATTTAAGATTTTGCCTGAAGGTCTTGAAAATCATTAAAAATTTTAAGATTTTGCTTAG
1 TTCAAAAATTTAAGATTTTGCCCGAAGGTCTTGGAAATCATTAAAAA-TTTAAGATTTTGCTTGG
**
10063017 AGGTCTTGAAAATTG
65 AGGTCTTG-AAATCA
* * * * *
10063032 TCCAAAAATTTAAAAATTTGCCCGAAGGTCCTGGAAATCATTCAAAATTTAAGATTTTGCTTGGA
1 TTCAAAAATTTAAGATTTTGCCCGAAGGTCTTGGAAATCATTAAAAATTTAAGATTTTGCTTGGA
*
10063097 GATCTTGGAAATCA
66 GGTCTT-GAAATCA
* * * * * *
10063111 TTCAAAAGTTTAAGATTTTTCCTGGAGATCTTGGAAATCGTTCAAAAATTTAAGATTTTGCTTGG
1 TTCAAAAATTTAAGATTTTGCCCGAAGGTCTTGGAAATCATT-AAAAATTTAAGATTTTGCTTGG
10063176 AGGTCTTTGAAATCA
65 AGGTC-TTGAAATCA
* *
10063191 TT-AAAAATTTAATATTTTGCCCAAAGGTCTTGGAAATC
1 TTCAAAAATTTAAGATTTTGCCCGAAGGTCTTGGAAATC
10063229 TTGTATTCAT
Statistics
Matches: 164, Mismatches: 30, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
79 87 0.53
80 75 0.46
81 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (78 bp):
TTCAAAAATTTAAGATTTTGCCCGAAGGTCTTGGAAATCATTAAAAATTTAAGATTTTGCTTGGA
GGTCTTGAAATCA
Found at i:10063222 original size:119 final size:119
Alignment explanation
Indices: 10062955--10063228 Score: 332
Period size: 119 Copynumber: 2.3 Consensus size: 119
10062945 GAAATTGTTC
* * * *
10062955 AAAAATTTAAGATTTTGCCTGAAGGTCTTGAAAATCATTAAAAATTTTAAGATTTTGCTTAGAGG
1 AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATTAAAAAGTTTAAGATTTTGCCTAGAGA
*
10063020 TCTTGAAAATTGTCCAAAAATTTAAAAATTTGCCCGAAGGTCCTGGAAATCATT
66 TCTTGAAAATCGTCCAAAAATTTAAAAATTTGCCCGAAGGTCCTGGAAATCATT
* * * * * * *
10063074 CAAAATTTAAGATTTTGCTTGGAGATCTTGGAAATCATTCAAAAGTTTAAGATTTTTCCTGGAGA
1 AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATTAAAAAGTTTAAGATTTTGCCTAGAGA
* * * * ** * * *
10063139 TCTTGGAAATCGTTCAAAAATTTAAGATTTTGCTTGGAGGTCTTTGAAATCATT
66 TCTTGAAAATCGTCCAAAAATTTAAAAATTTGCCCGAAGGTCCTGGAAATCATT
* **
10063193 AAAAATTTAATATTTTGCCCAAAGGTCTTGGAAATC
1 AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATC
10063229 TTGTATTCAT
Statistics
Matches: 127, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
119 127 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (119 bp):
AAAAATTTAAGATTTTGCCTGAAGGTCTTGGAAATCATTAAAAAGTTTAAGATTTTGCCTAGAGA
TCTTGAAAATCGTCCAAAAATTTAAAAATTTGCCCGAAGGTCCTGGAAATCATT
Found at i:10063579 original size:26 final size:26
Alignment explanation
Indices: 10063545--10063599 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
10063535 CTATGCAAAT
* * *
10063545 ATGCCAATGTCTTTTTCCTGATGCAA
1 ATGCAAATGTCATTTTCCTAATGCAA
*
10063571 ATGCAAATGTCATTTTCCTAATGTAA
1 ATGCAAATGTCATTTTCCTAATGCAA
10063597 ATG
1 ATG
10063600 TTCCATGCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (26 bp):
ATGCAAATGTCATTTTCCTAATGCAA
Found at i:10064858 original size:9 final size:9
Alignment explanation
Indices: 10064846--10064915 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
10064836 TTTATTCCTT
10064846 TTTCTTTTC
1 TTTCTTTTC
10064855 TTTCTTTTC
1 TTTCTTTTC
*
10064864 TTT-TGTTC
1 TTTCTTTTC
*
10064872 TTCTTTTTTC
1 TT-TCTTTTC
*
10064882 CTT-TTTTC
1 TTTCTTTTC
10064890 ATTTCTCATTTC
1 -TTTCT--TTTC
10064902 TTTCATTTTC
1 TTTC-TTTTC
10064912 TTTC
1 TTTC
10064916 CTATTTCTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
8 11 0.22
9 16 0.32
10 14 0.28
11 4 0.08
12 5 0.10
ACGTcount: A:0.04, C:0.21, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:10064895 original size:20 final size:19
Alignment explanation
Indices: 10064835--10064895 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 19
10064825 CGCTCAATCA
10064835 TTTTATTCC-TTTTTCTTTTC
1 TTTT-TTCCTTTTTTC-TTTC
*
10064855 TTTCTTTTCTTTTGTTC-TTC
1 TTT-TTTCCTTTT-TTCTTTC
10064875 TTTTTTCCTTTTTTCATTTC
1 TTTTTTCCTTTTTTC-TTTC
10064895 T
1 T
10064896 CATTTCTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
18 3 0.09
19 8 0.24
20 16 0.47
21 4 0.12
22 3 0.09
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTTTCCTTTTTTCTTTC
Found at i:10064935 original size:36 final size:37
Alignment explanation
Indices: 10064891--10064962 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
10064881 CCTTTTTTCA
10064891 TTTCTCATTTCTTTCA-TTTTC-TTTCCTATTTCTTAT
1 TTTCTCA-TTCTTTCACTTTTCTTTTCCTATTTCTTAT
*
10064927 TTTCTCATTCTTTCACTTTTTCTTTTCCTTTTTCTT
1 TTTCTCATTCTTTCAC-TTTTCTTTTCCTATTTCTT
10064963 TAAGTGGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 8 0.25
36 7 0.22
37 5 0.16
38 12 0.38
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (37 bp):
TTTCTCATTCTTTCACTTTTCTTTTCCTATTTCTTAT
Found at i:10067885 original size:23 final size:20
Alignment explanation
Indices: 10067854--10067915 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 20
10067844 AAAAATCAGT
10067854 AAAAT-AAAATAAAAAAACTTA
1 AAAATAAAAATAAAAAAA--TA
10067875 AAAATTAAAAATGGAAAAAAATA
1 AAAA-TAAAAAT--AAAAAAATA
10067898 AAAAT-AAAATAGAAAAAA
1 AAAATAAAAATA-AAAAAA
10067916 AACCTACGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 9 0.25
22 2 0.06
23 11 0.31
25 7 0.19
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAATAAAAATAAAAAAATA
Found at i:10068792 original size:9 final size:9
Alignment explanation
Indices: 10068780--10068805 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10068770 ATAACAAAAT
10068780 AACAACAAC
1 AACAACAAC
10068789 AACAACAAC
1 AACAACAAC
10068798 AACAACAA
1 AACAACAA
10068806 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (9 bp):
AACAACAAC
Found at i:10069131 original size:60 final size:59
Alignment explanation
Indices: 10069060--10069190 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 59
10069050 CTAGTCAGAT
10069060 AAATGATCTAGACCAAACTAAGATCAAAACAAACAATCAGGATTGAACCAT-AGTTTCAAA
1 AAATGATCTAGACCAAACTAAGATCAAAACAAACAATCAGGATTGAACCATGAG-TT-AAA
* * * ** * *
10069120 AAATGATCTAGATCAAGCTGAGATCAAAACAAATGATTAGGATTGAACTATGAGTTAAA
1 AAATGATCTAGACCAAACTAAGATCAAAACAAACAATCAGGATTGAACCATGAGTTAAA
10069179 AAATGATCTAGA
1 AAATGATCTAGA
10069191 TTGAGCCAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
59 15 0.24
60 46 0.73
61 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.23
Consensus pattern (59 bp):
AAATGATCTAGACCAAACTAAGATCAAAACAAACAATCAGGATTGAACCATGAGTTAAA
Found at i:10073736 original size:33 final size:33
Alignment explanation
Indices: 10073694--10073765 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
10073684 GAAAAAATGG
10073694 ATAAAATGCATGCTACTATCTTTTATTAGAATA
1 ATAAAATGCATGCTACTATCTTTTATTAGAATA
*
10073727 ATAAAATGCATGCTACTATCTTTTATTGGAATA
1 ATAAAATGCATGCTACTATCTTTTATTAGAATA
10073760 ATAAAA
1 ATAAAA
10073766 AATAAAAGGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.38
Consensus pattern (33 bp):
ATAAAATGCATGCTACTATCTTTTATTAGAATA
Found at i:10079932 original size:4 final size:4
Alignment explanation
Indices: 10079918--10079949 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
10079908 TATAAACAAG
*
10079918 GAAA AAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
10079950 AAATCTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:10080957 original size:27 final size:26
Alignment explanation
Indices: 10080918--10080982 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
10080908 GCTCAATTTA
*
10080918 AAAATCAATAAAATAAAAAAAAAATA-
1 AAAAGCAA-AAAATAAAAAAAAAATAG
*
10080944 AAAATGGCAAAAAATAAAAATAAAATAG
1 AAAA--GCAAAAAATAAAAAAAAAATAG
10080972 AAAAGCAAAAA
1 AAAAGCAAAAA
10080983 TTGCGATTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 11 0.32
27 16 0.47
28 7 0.21
ACGTcount: A:0.77, C:0.05, G:0.06, T:0.12
Consensus pattern (26 bp):
AAAAGCAAAAAATAAAAAAAAAATAG
Found at i:10081689 original size:3 final size:3
Alignment explanation
Indices: 10081681--10081705 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10081671 GAATAAATAG
10081681 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
10081706 AATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:10081827 original size:3 final size:3
Alignment explanation
Indices: 10081704--10081814 Score: 150
Period size: 3 Copynumber: 37.0 Consensus size: 3
10081694 GATGATGATG
* * * * * *
10081704 ATA ATA ATA ATA ATA CTA CTA CTA ATA ATA ATA ATG ATG ATC ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
10081752 ACA AGA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10081800 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
10081815 GAAGCAATAA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 100 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10085127 original size:37 final size:37
Alignment explanation
Indices: 10085085--10085157 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
10085075 GACATTACCA
* *
10085085 TTAAGATGTGTAAGAGATGGACTGCATGCACTATCTC
1 TTAAGATATGCAAGAGATGGACTGCATGCACTATCTC
* * * *
10085122 TTAAGATATGCATGAGATGGATTGCGTGTACTATCT
1 TTAAGATATGCAAGAGATGGACTGCATGCACTATCT
10085158 ATCATGTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.33
Consensus pattern (37 bp):
TTAAGATATGCAAGAGATGGACTGCATGCACTATCTC
Found at i:10085266 original size:38 final size:38
Alignment explanation
Indices: 10085160--10085289 Score: 138
Period size: 38 Copynumber: 3.4 Consensus size: 38
10085150 TACTATCTAT
* * *
10085160 CATGTACTA-TCTATTAAGATGTGCATGAAATGGAATG
1 CATGTACTATTTTATTAAGATGTGCATGAGATGGAGTG
* *
10085197 CATGTATTATTTTATTAAGATGTGTC-CGAGATGGAGTG
1 CATGTACTATTTTATTAAGATGTG-CATGAGATGGAGTG
* * * *
10085235 CATGCACTATTTTATTAGGATGTGGATGAGATGTAGTG
1 CATGTACTATTTTATTAAGATGTGCATGAGATGGAGTG
* *
10085273 CATATACTATCTTATTA
1 CATGTACTATTTTATTA
10085290 TTTCCAACTC
Statistics
Matches: 76, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
37 8 0.11
38 67 0.88
39 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (38 bp):
CATGTACTATTTTATTAAGATGTGCATGAGATGGAGTG
Found at i:10087332 original size:27 final size:27
Alignment explanation
Indices: 10087303--10087433 Score: 96
Period size: 27 Copynumber: 5.0 Consensus size: 27
10087293 AAGCTTAGAT
*
10087303 TTTTAAGGTTT-GGGTTCAGGGTTTAG
1 TTTTAAGGTTTAAGGTTCAGGGTTTAG
*
10087329 TTTT-AGGATTTAAGGTTTAGGGTTTAG
1 TTTTAAGG-TTTAAGGTTCAGGGTTTAG
* * *
10087356 GTTTAAGGTTTTAGG-T-AAGGTTTAGG
1 TTTTAAGGTTTAAGGTTCAGGGTTTA-G
* * *
10087382 GTTT-AGGATTT-AGATTTAGGGTTTAAG
1 TTTTAAGG-TTTAAGGTTCAGGGTTT-AG
*
10087409 TTTTAA-GTTTAAGGTTTAGGGTTTA
1 TTTTAAGGTTTAAGGTTCAGGGTTTA
10087434 CAAGGGAATG
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
25 15 0.17
26 21 0.24
27 45 0.52
28 5 0.06
ACGTcount: A:0.22, C:0.01, G:0.31, T:0.47
Consensus pattern (27 bp):
TTTTAAGGTTTAAGGTTCAGGGTTTAG
Found at i:10087340 original size:7 final size:6
Alignment explanation
Indices: 10087308--10087433 Score: 74
Period size: 7 Copynumber: 19.2 Consensus size: 6
10087298 TAGATTTTTA
* * *
10087308 AGGTTT GGGTTC AGGGTTT AGTTTT AGGATTT AAGGTTT AGGGTTT AGGTTT
1 AGGTTT AGGTTT A-GGTTT AGGTTT AGG-TTT -AGGTTT A-GGTTT AGGTTT
* * *
10087360 AAGGTTTT AGG-TA AGGTTT AGGGTTT AGGATTT AGATTT AGGGTTT AAGTTTT
1 -AGG-TTT AGGTTT AGGTTT A-GGTTT AGG-TTT AGGTTT A-GGTTT -AGGTTT
*
10087413 AAGTTT AAGGTTT AGGGTTT A
1 AGGTTT -AGGTTT A-GGTTT A
10087434 CAAGGGAATG
Statistics
Matches: 93, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
5 4 0.04
6 29 0.31
7 53 0.57
8 7 0.08
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (6 bp):
AGGTTT
Found at i:10087345 original size:20 final size:19
Alignment explanation
Indices: 10087322--10087427 Score: 88
Period size: 20 Copynumber: 5.4 Consensus size: 19
10087312 TTGGGTTCAG
10087322 GGTTTAGTTTTAGGATTTAA
1 GGTTTAGTTTTAGG-TTTAA
*
10087342 GGTTTAGGGTTTAGGTTTAA
1 GGTTTA-GTTTTAGGTTTAA
* * *
10087362 GGTTTTAG-GTAAGGTTTAG
1 GG-TTTAGTTTTAGGTTTAA
* * *
10087381 GGTTTAGGATTTAGATTTAG
1 GGTTTA-GTTTTAGGTTTAA
*
10087401 GGTTTAAGTTTTAAGTTTAA
1 GGTTT-AGTTTTAGGTTTAA
10087421 GGTTTAG
1 GGTTTAG
10087428 GGTTTACAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.06
19 13 0.19
20 41 0.59
21 12 0.17
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (19 bp):
GGTTTAGTTTTAGGTTTAA
Found at i:10087349 original size:14 final size:13
Alignment explanation
Indices: 10087330--10087433 Score: 79
Period size: 13 Copynumber: 7.8 Consensus size: 13
10087320 AGGGTTTAGT
10087330 TTTAGGATTTAAGG
1 TTTAGG-TTTAAGG
10087344 TTTAGGGTTT-AGG
1 TTTA-GGTTTAAGG
*
10087357 TTTAAGGTTTTAGG
1 TTT-AGGTTTAAGG
* *
10087371 -TAAGGTTTAGGG
1 TTTAGGTTTAAGG
*
10087383 TTTAGGATTT-AGA
1 TTTAGG-TTTAAGG
*
10087396 TTTAGGGTTTAAGT
1 TTTA-GGTTTAAGG
*
10087410 TTTAAGTTTAAGG
1 TTTAGGTTTAAGG
10087423 TTTAGGGTTTA
1 TTTA-GGTTTA
10087434 CAAGGGAATG
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
12 8 0.11
13 35 0.49
14 27 0.38
15 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (13 bp):
TTTAGGTTTAAGG
Found at i:10088424 original size:22 final size:22
Alignment explanation
Indices: 10088399--10088457 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
10088389 AAAATCAAAA
10088399 GAAAATGATATGAAAAGCTATG
1 GAAAATGATATGAAAAGCTATG
*
10088421 GAAAATGATATGAAAATCTATG
1 GAAAATGATATGAAAAGCTATG
*
10088443 AAAAATGATATGAAA
1 GAAAATGATATGAAA
10088458 CGTAATGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (22 bp):
GAAAATGATATGAAAAGCTATG
Found at i:10088456 original size:12 final size:11
Alignment explanation
Indices: 10088399--10088457 Score: 68
Period size: 11 Copynumber: 5.4 Consensus size: 11
10088389 AAAATCAAAA
10088399 GAAAATGATAT
1 GAAAATGATAT
*
10088410 GAAAA-GCTAT
1 GAAAATGATAT
10088420 GGAAAATGATAT
1 -GAAAATGATAT
*
10088432 GAAAAT-CTAT
1 GAAAATGATAT
10088442 GAAAAATGATAT
1 G-AAAATGATAT
10088454 GAAA
1 GAAA
10088458 CGTAATGAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 8 0.20
11 24 0.60
12 8 0.20
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (11 bp):
GAAAATGATAT
Found at i:10088465 original size:22 final size:21
Alignment explanation
Indices: 10088400--10088466 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
10088390 AAATCAAAAG
* *
10088400 AAAATGATATGAAAAGCTATGG
1 AAAATGATATGAAACG-TATGA
10088422 AAAATGATATGAAAATC-TATGA
1 AAAATGATATG-AAA-CGTATGA
10088444 AAAATGATATGAAACGTAATGA
1 AAAATGATATGAAACGT-ATGA
10088466 A
1 A
10088467 GAATATAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 1 0.03
21 4 0.10
22 31 0.79
23 3 0.08
ACGTcount: A:0.54, C:0.04, G:0.18, T:0.24
Consensus pattern (21 bp):
AAAATGATATGAAACGTATGA
Found at i:10091474 original size:17 final size:17
Alignment explanation
Indices: 10091448--10091481 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10091438 TAATTCAATA
10091448 CAAGCATTCTTTATTTT
1 CAAGCATTCTTTATTTT
* *
10091465 CAAGCTTTCTTTGTTTT
1 CAAGCATTCTTTATTTT
10091482 TGATTTACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.56
Consensus pattern (17 bp):
CAAGCATTCTTTATTTT
Found at i:10095663 original size:21 final size:21
Alignment explanation
Indices: 10095629--10095669 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10095619 ATCAATCTTT
* *
10095629 TAGCTTATAGGATCAATCCCC
1 TAGCTTACAAGATCAATCCCC
*
10095650 TAGCTTACAAGATCTATCCC
1 TAGCTTACAAGATCAATCCC
10095670 TTCTTATAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.29
Consensus pattern (21 bp):
TAGCTTACAAGATCAATCCCC
Found at i:10101011 original size:45 final size:43
Alignment explanation
Indices: 10100960--10101045 Score: 102
Period size: 45 Copynumber: 2.0 Consensus size: 43
10100950 TATGTAGTAT
* *
10100960 ATTTG-TTGAGTTTAGGGTTGTATTTTTTGTTGTAAATTTGTTGAA
1 ATTTGTTTGAGTTT-GGGTTATATATTTT-TTG-AAATTTGTTGAA
* *
10101005 ATTTGTTTGGGTTTTGGTTATATATTTTTTGAAATTTGTTG
1 ATTTGTTTGAGTTTGGGTTATATATTTTTTGAAATTTGTTG
10101046 GTTATATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 10 0.28
44 3 0.08
45 16 0.44
46 7 0.19
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (43 bp):
ATTTGTTTGAGTTTGGGTTATATATTTTTTGAAATTTGTTGAA
Found at i:10103627 original size:4 final size:4
Alignment explanation
Indices: 10103618--10103647 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
10103608 AATGGAATGT
10103618 TTTA TTTA TTTA TTTA TTTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA T
10103648 ATTTTAGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:10104724 original size:22 final size:21
Alignment explanation
Indices: 10104683--10104724 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
10104673 CTTATAGCAA
*
10104683 TTGGTATAGGAGCTTAAACAT
1 TTGGTATAAGAGCTTAAACAT
*
10104704 TTGGTATAAAGAGTTTAAACA
1 TTGGTAT-AAGAGCTTAAACA
10104725 AAAAGAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.33
Consensus pattern (21 bp):
TTGGTATAAGAGCTTAAACAT
Found at i:10108038 original size:17 final size:17
Alignment explanation
Indices: 10108016--10108052 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
10108006 TAATTCAATA
10108016 CAAGCATTCTTTATTTT
1 CAAGCATTCTTTATTTT
*
10108033 CAAGCATTCTTTGTTTT
1 CAAGCATTCTTTATTTT
10108050 CAA
1 CAA
10108053 TTTACAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (17 bp):
CAAGCATTCTTTATTTT
Found at i:10110610 original size:28 final size:29
Alignment explanation
Indices: 10110570--10110625 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
10110560 CTTGTGGGTG
10110570 ATTGCTATAA-TTTTTCATCATCAAGTTT
1 ATTGCTATAATTTTTTCATCATCAAGTTT
*
10110598 ATTGTTATAATTTTTTCATCATCAAGTT
1 ATTGCTATAATTTTTTCATCATCAAGTT
10110626 GCAAGTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (29 bp):
ATTGCTATAATTTTTTCATCATCAAGTTT
Done.