Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 25 of 211
Found at i:7599809 original size:126 final size:125
Alignment explanation
Indices: 7599491--7599904 Score: 585
Period size: 125 Copynumber: 3.3 Consensus size: 125
7599481 ATATATTAAG
* * * ** *
7599491 GAAATCACTCCCACGTGGACGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTCCGAGTTGAT
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
* * *
7599556 GTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTGTCAAAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAAAAGAATTTTT
* * * * * * *
7599616 GCAATCGCTCCTACGTGGATGCGCTTTTGCTACAATAAGTCCTAAAAAAATAATTTTGAGTTAAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
* * * *
7599681 GTTTTTGAGCAAATAGTATAAAGATCGCTTCAAGCAGGATGTTTTATCAAAAGAATTTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAAAAGAA-TTTTT
* *
7599742 AAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
* * *
7599807 GTTTCTGAGCAAATAGAATAAAAAAAGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAAAAGAATTTTT
*
7599867 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
7599905 CATGTTTGGG
Statistics
Matches: 249, Mismatches: 39, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
125 141 0.57
126 108 0.43
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAAAAGAATTTTT
Found at i:7603022 original size:49 final size:49
Alignment explanation
Indices: 7602967--7603096 Score: 224
Period size: 49 Copynumber: 2.6 Consensus size: 49
7602957 TAAGAATATT
*
7602967 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAAAATCAAAATATTCAAAATA
*
7603016 AACTATTTTGTATTTTATTACATCAAATAAAATCAAAATATTCAAATTA
1 AACTATTTTGTATTTTATTACATCAAATAAAATCAAAATATTCAAAATA
*
7603065 AACTATTTTGTATTTTATTACATTAAAATAAA
1 AACTATTTTGTATTTTATTACA-TCAAATAAA
7603097 CTATTTTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 69 0.90
50 8 0.10
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.42
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAAAATCAAAATATTCAAAATA
Found at i:7603534 original size:18 final size:18
Alignment explanation
Indices: 7603508--7603550 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7603498 GATTAGAAAA
* * *
7603508 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
7603526 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
7603544 AGGATAC
1 AGGATAC
7603551 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:7605413 original size:51 final size:51
Alignment explanation
Indices: 7605352--7605451 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
7605342 AAATAATTAA
*
7605352 AAATAGGGATTTAAGAGAAATTT-AGGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTGA-AAGGAAATTGAGAGCAAATTGAGATT
* * *
7605403 AAATATGGATTTGAGAGAAATTTGAAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGGATTTAAGAGAAATTTGAAAGGAAATTGAGAGCAAATTGAGA
7605452 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.27, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTGAAAGGAAATTGAGAGCAAATTGAGATT
Found at i:7605436 original size:12 final size:12
Alignment explanation
Indices: 7605411--7605462 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 12
7605401 TTAAATATGG
7605411 ATTTGAGA-GAA
1 ATTTGAGAGGAA
*
7605422 ATTTGAAAGGAA
1 ATTTGAGAGGAA
*
7605434 A-TTGAGA-GCA
1 ATTTGAGAGGAA
7605444 ATTTGAGAGGAA
1 ATTTGAGAGGAA
7605456 A-TTGAGA
1 ATTTGAGA
7605463 AAATAATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 3 0.09
11 24 0.71
12 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:7605438 original size:22 final size:22
Alignment explanation
Indices: 7605413--7605466 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
7605403 AAATATGGAT
7605413 TTGAGAGAAATTTGAAAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
* *
7605435 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAAAGGAAA
7605457 TTGAGA-AAAT
1 TTGAGAGAAAT
7605467 AATTTAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (22 bp):
TTGAGAGAAATTTGAAAGGAAA
Found at i:7606899 original size:28 final size:28
Alignment explanation
Indices: 7606859--7606914 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
7606849 TTCTAAATTT
*
7606859 TCGAAGAGATTATTATAGAAACCAAACC
1 TCGAAGAGATTATGATAGAAACCAAACC
* *
7606887 TCGAAGAGATTATGCTAGAAATCAAACC
1 TCGAAGAGATTATGATAGAAACCAAACC
7606915 GACTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (28 bp):
TCGAAGAGATTATGATAGAAACCAAACC
Found at i:7618577 original size:5 final size:5
Alignment explanation
Indices: 7618560--7618594 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
7618550 GGGCGATTGA
* *
7618560 GTGCG GTGTG GTGCG GTGCG GTGCG GTGCT GTGCG
1 GTGCG GTGCG GTGCG GTGCG GTGCG GTGCG GTGCG
7618595 TTTAACTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.17, G:0.57, T:0.26
Consensus pattern (5 bp):
GTGCG
Found at i:7618976 original size:18 final size:17
Alignment explanation
Indices: 7618955--7618989 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7618945 TATATAATGT
7618955 ACTACTATTATATATATA
1 ACTACTATTATAT-TATA
*
7618973 ACTATTATTATATTATA
1 ACTACTATTATATTATA
7618990 GATTATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
ACTACTATTATATTATA
Found at i:7619419 original size:238 final size:246
Alignment explanation
Indices: 7618945--7619417 Score: 569
Period size: 251 Copynumber: 1.9 Consensus size: 246
7618935 TAAACAATAG
* *
7618945 TATATAATGTACTACTATTATATATATAACTATTATTATATTATAGATTATAATGAAAAGTATAG
1 TATATAAGGTACTACTATTATATATATAACTATTATAATATTATAGATTATAATGAAAAGTATAG
* * *
7619010 TATTATATGATATTATAATGTTTAATCTTTGATGCATATATATAAACTATTAATATTTTATACAT
66 TATTACATGATATTATAATGTTTAATCATTGATGCATAAATATAAACTATTAATA--TTATA-AT
* ** *
7619075 ACTATATGATATATATGATATAGCATTATATAACATAATAGGAGGGCTAATTTTCAAATATATGA
128 A-GATATGA-ATATA-GATATAGCATTATATAACATAATAGGAACGCTAACTTTCAAATATAT-A
* * *
7619140 AAAATAAAGGGACTTAGAGCATATTTCAACCAGTATAATAATATATGATAATATTTAA
189 AAAATAAAGAGACTTAGAACATATTTCAACCAATATAATAATATATGATAATATTTAA
*
7619198 TATATAAGGTACTACTATT-T-TATATAA-TAATTATAATATTATATATTATAAT-AAAAGATAT
1 TATATAAGGTACTACTATTATATATATAACT-ATTATAATATTATAGATTATAATGAAAAG-TAT
*
7619259 AGTATTACATGATATTATAATGTTTAATCATTGATTCATAAATATAAACTATT-A-A-TAT-AT-
64 AGTATTACATGATATTATAATGTTTAATCATTGATGCATAAATATAAACTATTAATATTATAATA
* * * * *
7619319 GATATG-ATATA-ATATAGCATTATATAATATAGTAGGAACGCTAACTTTGAAATGTAT-AAAGT
129 GATATGAATATAGATATAGCATTATATAACATAATAGGAACGCTAACTTTCAAATATATAAAAAT
* *
7619381 -ATGAGATTTAGAACAT-TATTCAACCAATATAATAATA
194 AAAGAGACTTAGAACATAT-TTCAACCAATATAATAATA
7619418 ATTAATATAT
Statistics
Matches: 196, Mismatches: 21, Indels: 24
0.81 0.09 0.10
Matches are distributed among these distances:
234 1 0.01
235 30 0.15
236 4 0.02
238 39 0.20
240 5 0.03
242 5 0.03
244 2 0.01
246 3 0.02
249 1 0.01
250 7 0.04
251 80 0.41
252 1 0.01
253 18 0.09
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.40
Consensus pattern (246 bp):
TATATAAGGTACTACTATTATATATATAACTATTATAATATTATAGATTATAATGAAAAGTATAG
TATTACATGATATTATAATGTTTAATCATTGATGCATAAATATAAACTATTAATATTATAATAGA
TATGAATATAGATATAGCATTATATAACATAATAGGAACGCTAACTTTCAAATATATAAAAATAA
AGAGACTTAGAACATATTTCAACCAATATAATAATATATGATAATATTTAA
Found at i:7621908 original size:41 final size:42
Alignment explanation
Indices: 7621862--7621944 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
7621852 AGGGTAAATC
* * *
7621862 CAACAACTCAAGTTTATCTTCT-C-CTTTTTAAATTCATTTTT
1 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTC-TTTTT
7621903 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCTTTTT
1 CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCTTTTT
7621945 GTCTAGGATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 19 0.51
42 6 0.16
43 12 0.32
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (42 bp):
CAACAACCCAAGATTATCTACTCCTCTTTTTAAATTCTTTTT
Found at i:7623288 original size:31 final size:32
Alignment explanation
Indices: 7623229--7623293 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
7623219 GGCAAATTAC
7623229 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
7623261 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
7623292 AA
1 AA
7623294 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:7628932 original size:43 final size:43
Alignment explanation
Indices: 7628811--7628930 Score: 188
Period size: 45 Copynumber: 2.7 Consensus size: 43
7628801 GAGAGGTAGG
7628811 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTAGGATTTTTCT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTAGGATTTTTCT
*
7628854 CAACTCTTTTTTTTTCCGCTGTTTGCCTTTTTTTTA-GATTTTTCT
1 CAA--CTTTTTTTTTGCGCTGTTTG-CTTTTTTTTAGGATTTTTCT
*
7628899 CAACTTTTTTTTTGCGCTTTTTGCTTTTTTTT
1 CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTT
7628931 TATTAACTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
42 9 0.13
43 21 0.30
45 31 0.44
46 10 0.14
ACGTcount: A:0.08, C:0.17, G:0.11, T:0.64
Consensus pattern (43 bp):
CAACTTTTTTTTTGCGCTGTTTGCTTTTTTTTAGGATTTTTCT
Found at i:7629516 original size:31 final size:32
Alignment explanation
Indices: 7629457--7629521 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
7629447 GGCAAATTAC
7629457 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
7629489 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
7629520 AA
1 AA
7629522 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:7633020 original size:106 final size:106
Alignment explanation
Indices: 7632812--7633104 Score: 267
Period size: 104 Copynumber: 2.7 Consensus size: 106
7632802 ATACCAATAT
* * * * * ** *
7632812 TTTAAAAAAAATT-GATGCTAGACA-GTAGATGGCCGGCACCAAGTACAATTTTCGGTTCCCAAA
1 TTTAAAAAAAATTAGGTGCTGGCCATGTA-ATGGACGACACCAAGTACAATTTTCGACTCCCAAT
* *
7632875 GCACATTTCTTTTACTTTGGGACACTGATGGCCAGCACCAGTGT-A
65 GCA-ATAT-TTTT--TTTGGAACACTGATGGCCAGCACCAGTGTGA
* * * *
7632920 TTTAAAAGAAATTTTTGGGTGCTGGTCATGTAAT-GACAGACACCAAGTACAATTTTCGACTTCC
1 TTTAAAA-AAA--ATTAGGTGCTGGCCATGTAATGGAC-GACACCAAGTACAATTTTCGACTCCC
*
7632984 AATGC-AT-TTTTTTTTGGAACACTGATGGCC-GACACCAGTGTGT
62 AATGCAATATTTTTTTTGGAACACTGATGGCCAG-CACCAGTGTGA
* * * * *
7633027 TTTAAAAAAAATTAGGTGCTGGCCATGTAATGGTCGGCACCAAGTACATTTTTTGCCTCCCAATG
1 TTTAAAAAAAATTAGGTGCTGGCCATGTAATGGACGACACCAAGTACAATTTTCGACTCCCAATG
7633092 CAATATTTTTTTT
66 CAATATTTTTTTT
7633105 ACTTTGAGAC
Statistics
Matches: 153, Mismatches: 21, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
104 44 0.29
105 5 0.03
106 37 0.24
107 7 0.05
108 11 0.07
109 4 0.03
110 2 0.01
111 4 0.03
112 36 0.24
113 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (106 bp):
TTTAAAAAAAATTAGGTGCTGGCCATGTAATGGACGACACCAAGTACAATTTTCGACTCCCAATG
CAATATTTTTTTTGGAACACTGATGGCCAGCACCAGTGTGA
Found at i:7635896 original size:77 final size:78
Alignment explanation
Indices: 7635768--7635913 Score: 276
Period size: 77 Copynumber: 1.9 Consensus size: 78
7635758 AGATCCTGCA
*
7635768 TTTATAGTAAATATAAATTGTTTTATTTCTCGTTTAAAAAAGAATTTAAATGAATATTTAAAATT
1 TTTATAGTAAATATAAATTGTTTTATTTCTCATTTAAAAAAGAATTTAAATGAATATTTAAAATT
7635833 AAATATAAATTGT
66 AAATATAAATTGT
7635846 TTTATAGTAAATATAAATTG-TTTATTTCTCATTTAAAAAAGAATTTAAATGAATATTTAAAATT
1 TTTATAGTAAATATAAATTGTTTTATTTCTCATTTAAAAAAGAATTTAAATGAATATTTAAAATT
7635910 AAAT
66 AAAT
7635914 GGGACATTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
77 47 0.70
78 20 0.30
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (78 bp):
TTTATAGTAAATATAAATTGTTTTATTTCTCATTTAAAAAAGAATTTAAATGAATATTTAAAATT
AAATATAAATTGT
Found at i:7636277 original size:11 final size:11
Alignment explanation
Indices: 7636263--7636305 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
7636253 AATTTTTTTT
7636263 CATTTCATTTC
1 CATTTCATTTC
*
7636274 CATTTTATTT-
1 CATTTCATTTC
7636284 CATTTACATTTC
1 CATTT-CATTTC
7636296 CATTTCATTT
1 CATTTCATTT
7636306 AAATTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 5 0.18
11 18 0.64
12 5 0.18
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (11 bp):
CATTTCATTTC
Found at i:7636293 original size:6 final size:5
Alignment explanation
Indices: 7636260--7636305 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
7636250 TTCAATTTTT
*
7636260 TTTCA TTTCA TTTCCA TTTTA TTTCA TTTACA TTTCCA TTTCA TTT
1 TTTCA TTTCA TTT-CA TTTCA TTTCA TTT-CA TTT-CA TTTCA TTT
7636306 AAATTTAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 21 0.58
6 15 0.42
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:7636296 original size:22 final size:21
Alignment explanation
Indices: 7636249--7636305 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
7636239 GGTCCTGTCC
* *
7636249 TTTCAATTTTTTTTCATTTCA
1 TTTCCATTTTATTTCATTTCA
7636270 TTTCCATTTTATTTCATTTACA
1 TTTCCATTTTATTTCATTT-CA
*
7636292 TTTCCATTTCATTT
1 TTTCCATTTTATTT
7636306 AAATTTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 17 0.53
22 15 0.47
ACGTcount: A:0.19, C:0.18, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTCCATTTTATTTCATTTCA
Found at i:7636342 original size:18 final size:19
Alignment explanation
Indices: 7636321--7636365 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
7636311 TAATTATTTC
7636321 TCATTTCAAAATTTT-TTT
1 TCATTTCAAAATTTTGTTT
**
7636339 TCATTTC-AGTTTTTGTTT
1 TCATTTCAAAATTTTGTTT
7636357 TCATTTCAA
1 TCATTTCAA
7636366 TTTATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.22
18 17 0.74
19 1 0.04
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.60
Consensus pattern (19 bp):
TCATTTCAAAATTTTGTTT
Found at i:7636419 original size:5 final size:5
Alignment explanation
Indices: 7636390--7636472 Score: 53
Period size: 5 Copynumber: 15.6 Consensus size: 5
7636380 TCATTTAAAC
* * * *
7636390 TTTCA TTCCA TTTCA TAATCA --TCA TTTCA TATTCA TTACAAA TTACA
1 TTTCA TTTCA TTTCA T-TTCA TTTCA TTTCA T-TTCA TTTC--A TTTCA
7636437 TTTCA TTTCA TTTCA TATTCA TTTAACA TTTCA TTT
1 TTTCA TTTCA TTTCA T-TTCA TTT--CA TTTCA TTT
7636473 AATTATTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 18
0.74 0.06 0.21
Matches are distributed among these distances:
3 3 0.05
5 38 0.59
6 13 0.20
7 10 0.16
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (5 bp):
TTTCA
Found at i:7636459 original size:11 final size:11
Alignment explanation
Indices: 7636411--7636460 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
7636401 TTCATAATCA
7636411 TCATTTCATAT
1 TCATTTCATAT
* *
7636422 TCATTACAAAT
1 TCATTTCATAT
7636433 TACATTTCAT-T
1 T-CATTTCATAT
7636444 TCATTTCATAT
1 TCATTTCATAT
7636455 TCATTT
1 TCATTT
7636461 AACATTTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.24
11 19 0.58
12 6 0.18
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (11 bp):
TCATTTCATAT
Found at i:7636487 original size:17 final size:19
Alignment explanation
Indices: 7636465--7636504 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7636455 TCATTTAACA
7636465 TTTCATTT-AA-TTATTTT
1 TTTCATTTAAATTTATTTT
7636482 TTTCATTTAAATTTATTTT
1 TTTCATTTAAATTTATTTT
7636501 TTTC
1 TTTC
7636505 CTAACATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 11 0.52
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTCATTTAAATTTATTTT
Found at i:7636901 original size:17 final size:17
Alignment explanation
Indices: 7636863--7636919 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
7636853 TAACATGTCC
*
7636863 TTTCATTTT--TTTTCA
1 TTTCATTTTCATTTCCA
7636878 TTTCATTTGT-ATTTCCA
1 TTTCATTT-TCATTTCCA
*
7636895 TTCCATTTTCATTTCCA
1 TTTCATTTTCATTTCCA
7636912 TTTCATTT
1 TTTCATTT
7636920 AAATTATCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 8 0.22
16 2 0.06
17 26 0.72
ACGTcount: A:0.16, C:0.19, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTCATTTTCATTTCCA
Found at i:7636941 original size:27 final size:27
Alignment explanation
Indices: 7636906--7637030 Score: 96
Period size: 22 Copynumber: 5.1 Consensus size: 27
7636896 TCCATTTTCA
7636906 TTTCCATTTCATTTAAATTATCTTTTT
1 TTTCCATTTCATTTAAATTATCTTTTT
**
7636933 TTT-C----CATTTAAATT-TAATTTT
1 TTTCCATTTCATTTAAATTATCTTTTT
*
7636954 TTTCTCATTTCATTTAAATTATC-TTTC
1 TTTC-CATTTCATTTAAATTATCTTTTT
* *
7636981 TTCCCA--T--TTTAATTTAT-TTTTT
1 TTTCCATTTCATTTAAATTATCTTTTT
*
7637003 TCT-CATTTCATTTAAATTATCTTTTT
1 TTTCCATTTCATTTAAATTATCTTTTT
7637029 TT
1 TT
7637031 ATATTTAAAT
Statistics
Matches: 74, Mismatches: 11, Indels: 27
0.66 0.10 0.24
Matches are distributed among these distances:
21 10 0.14
22 23 0.31
23 2 0.03
24 1 0.01
25 9 0.12
26 9 0.12
27 19 0.26
28 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTCCATTTCATTTAAATTATCTTTTT
Found at i:7636953 original size:21 final size:21
Alignment explanation
Indices: 7636915--7637052 Score: 64
Period size: 21 Copynumber: 6.0 Consensus size: 21
7636905 ATTTCCATTT
**
7636915 CATTTAAATTATCTTTTTTTTC
1 CATTTAAATT-TAATTTTTTTC
7636937 CATTTAAATTTAATTTTTTTC
1 CATTTAAATTTAATTTTTTTC
*
7636958 TCATTT-CATTTAAATTATCTTTCTTCC
1 -CATTTAAATTT-AA-T-T-TTT-TT-C
*
7636985 CATTTTAATTT-ATTTTTTTC
1 CATTTAAATTTAATTTTTTTC
* * *
7637005 TCATTTCATTTAAATTATCTTTTTTTA
1 -CATTT-A---AATTTA-ATTTTTTTC
*
7637032 TATTTAAATTTAATTTTTTTC
1 CATTTAAATTTAATTTTTTTC
7637053 TTATTTCATT
Statistics
Matches: 89, Mismatches: 12, Indels: 31
0.67 0.09 0.23
Matches are distributed among these distances:
20 1 0.01
21 27 0.30
22 25 0.28
23 2 0.02
24 2 0.02
25 9 0.10
26 11 0.12
27 12 0.13
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (21 bp):
CATTTAAATTTAATTTTTTTC
Found at i:7637050 original size:95 final size:94
Alignment explanation
Indices: 7636906--7637091 Score: 311
Period size: 95 Copynumber: 2.0 Consensus size: 94
7636896 TCCATTTTCA
7636906 TTTCCATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAATTTTTTTCTCATTTCATTTAA
1 TTTCCATTTCATTTAAATTATCTTTTTTTT-CATTTAAATTTAATTTTTTTCTCATTTCATTTAA
7636971 ATTATCTTTCTTCCCATTTTAATTTATTTT
65 ATTATCTTTCTTCCCATTTTAATTTATTTT
*
7637001 TTTCTCATTTCATTTAAATTATCTTTTTTTAT-ATTTAAATTTAATTTTTTTCTTATTTCATTTA
1 TTTC-CATTTCATTTAAATTATCTTTTTTT-TCATTTAAATTTAATTTTTTTCTCATTTCATTTA
* *
7637065 GATTATCTTTCTTTCCATTTTAATTTA
64 AATTATCTTTCTTCCCATTTTAATTTA
7637092 CGTTTTTTAC
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
95 60 0.70
96 25 0.29
97 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.63
Consensus pattern (94 bp):
TTTCCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAATTTTTTTCTCATTTCATTTAAA
TTATCTTTCTTCCCATTTTAATTTATTTT
Found at i:7637063 original size:21 final size:21
Alignment explanation
Indices: 7636944--7637064 Score: 73
Period size: 23 Copynumber: 5.2 Consensus size: 21
7636934 TTCCATTTAA
*
7636944 ATTTAATTTTTTTCTCATTTC
1 ATTTAATTTTTTTCTTATTTC
* *
7636965 ATTTAAATTATCTTTCTTCCCATTTTA
1 ATTT-AATT-TTTTTCTT---A-TTTC
*
7636992 ATTT-ATTTTTTTCTCATTTC
1 ATTTAATTTTTTTCTTATTTC
* *
7637012 ATTTAAATTATCTTTTTTTATATTTAA
1 ATTT-AA-T-T-TTTTTCT-TATTT-C
7637039 ATTTAATTTTTTTCTTATTTC
1 ATTTAATTTTTTTCTTATTTC
7637060 ATTTA
1 ATTTA
7637065 GATTATCTTT
Statistics
Matches: 76, Mismatches: 11, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
20 7 0.09
21 10 0.13
22 10 0.13
23 13 0.17
24 8 0.11
25 10 0.13
26 7 0.09
27 11 0.14
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (21 bp):
ATTTAATTTTTTTCTTATTTC
Found at i:7637099 original size:48 final size:48
Alignment explanation
Indices: 7636906--7637091 Score: 268
Period size: 48 Copynumber: 3.9 Consensus size: 48
7636896 TCCATTTTCA
*
7636906 TTTC-CATTTCATTTAAATTATCTTTTTTTTCCATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATC-TTTCTTTCCATTTAAATTTAATTTT
* *
7636954 TTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTT-ATTTT
1 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTT
* **
7637001 TTTCTCATTTCATTTAAATTATCTTTTTTTATATTTAAATTTAATTTT
1 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTT
* * *
7637049 TTTCTTATTTCATTTAGATTATCTTTCTTTCCATTTTAATTTA
1 TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTA
7637092 CGTTTTTTAC
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 42 0.34
48 62 0.51
49 18 0.15
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.63
Consensus pattern (48 bp):
TTTCTCATTTCATTTAAATTATCTTTCTTTCCATTTAAATTTAATTTT
Found at i:7637140 original size:95 final size:93
Alignment explanation
Indices: 7636938--7637111 Score: 242
Period size: 95 Copynumber: 1.8 Consensus size: 93
7636928 TTTTTTTTCC
*
7636938 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTATTTTTT
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAGTTTTT
* * *
7637003 TCTCATTTCATTTAAATTATCTTTTTTTAT
66 TCACATTTAATTT--ATTATCTTTTATTAT
* * *
7637033 ATTTAAATTTAATTTTTTTCTTATTTCATTTAGATTATCTTTCTTTCCATTTTAATTTACGTTTT
1 ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTA-GTTTT
7637098 TT-ACATATTAATTT
65 TTCACAT-TTAATTT
7637112 TTCTCTCATT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
95 59 0.83
96 12 0.17
ACGTcount: A:0.25, C:0.11, G:0.01, T:0.63
Consensus pattern (93 bp):
ATTTAAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAGTTTTT
TCACATTTAATTTATTATCTTTTATTAT
Found at i:7641039 original size:19 final size:19
Alignment explanation
Indices: 7640987--7641041 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
7640977 AGGTTAGGCT
7640987 TAATTGGGTATTGGGTTGC
1 TAATTGGGTATTGGGTTGC
*
7641006 TAATTTGGGCT-TTGGTTTG-
1 TAA-TTGGG-TATTGGGTTGC
7641025 TAATTGGGTAGTTGGGT
1 TAATTGGGTA-TTGGGT
7641042 AGCTGAGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 11 0.37
20 12 0.40
21 1 0.03
ACGTcount: A:0.15, C:0.04, G:0.36, T:0.45
Consensus pattern (19 bp):
TAATTGGGTATTGGGTTGC
Found at i:7641110 original size:20 final size:20
Alignment explanation
Indices: 7641073--7641110 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7641063 GGCCTTTAGA
*
7641073 TGGGTTAGGTTTGTTGGGTC
1 TGGGTTAGGTTTGGTGGGTC
7641093 TGGG-TAGGTTTAGGTGGG
1 TGGGTTAGGTTT-GGTGGG
7641111 CATTGGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.08, C:0.03, G:0.50, T:0.39
Consensus pattern (20 bp):
TGGGTTAGGTTTGGTGGGTC
Found at i:7642862 original size:110 final size:109
Alignment explanation
Indices: 7642722--7642985 Score: 291
Period size: 110 Copynumber: 2.4 Consensus size: 109
7642712 TTTTATTAAA
* * * *
7642722 TGTACTTGGTGCCAGCCGTTACATGGCCAGCACCTAAATTTTTTTTTAAATACACTGGTGCCGAC
1 TGTACTTGGTGCCAGCCATTACATGACCAGCACCCAAA-TTTTTTTTAAATACACTAGTGCCGAC
* *
7642787 CGTCAGTGTTCCAAAATAAAAAAAAATGCATTGGGAGTCGAAAAT
65 CATCAGTGTCCCAAAATAAAAAAAAATGCATTGGGAGTCGAAAAT
* * *
7642832 TGTATTTGGTGCCAGCCATTACATGACCAGCACCCAAATTTTTTTTAAATACACTAGTGTCGGCC
1 TGTACTTGGTGCCAGCCATTACATGACCAGCACCCAAATTTTTTTTAAATACACTAGTGCCGACC
* * * * * **
7642897 ATCGGTGTCCCAAAGTAAAAAAAATGTGCCTTGAGAACCGAAAAT
66 ATCAGTGTCCCAAAATAAAAAAAA-ATGCATTGGGAGTCGAAAAT
* * * *
7642942 TGTAGC-TAGTGCCGGCCATCTA-TTGGCCAGCA-CCAAATTTTTTT
1 TGTA-CTTGGTGCCAGCCAT-TACATGACCAGCACCCAAATTTTTTT
7642986 ATTATTGTCT
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
109 56 0.43
110 72 0.55
111 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (109 bp):
TGTACTTGGTGCCAGCCATTACATGACCAGCACCCAAATTTTTTTTAAATACACTAGTGCCGACC
ATCAGTGTCCCAAAATAAAAAAAAATGCATTGGGAGTCGAAAAT
Found at i:7649095 original size:216 final size:216
Alignment explanation
Indices: 7648728--7649135 Score: 771
Period size: 216 Copynumber: 1.9 Consensus size: 216
7648718 ACTACTTATT
7648728 ACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAAATAGCTCGTAACTACATCAA
1 ACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAAATAGCTCGTAACTACATCAA
*
7648793 AGCATAACCCTAATTGGCCACATTATGAACATACCAAATTTGGTCACTCAAAACATACATCCACT
66 AGCATAACCCCAATTGGCCACATTATGAACATACCAAATTTGGTCACTCAAAACATACATCCACT
* * *
7648858 TAGCCATATCAACATCAACCATCAAAGCATCAAAATGCCAAAAGCACACCAACCATATACCACCA
131 TAACCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAGCACACCAACCATATACCACCA
7648923 TACGCAACTACTTATTACCAA
196 TACGCAACTACTTATTACCAA
7648944 ACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAAATAGCTCGTAACTACATCAA
1 ACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAAATAGCTCGTAACTACATCAA
*
7649009 AGCATAACCCCACTTGGCCACATTATGAACATACCAAATTTGGTCACTCAAAACATACATCCACT
66 AGCATAACCCCAATTGGCCACATTATGAACATACCAAATTTGGTCACTCAAAACATACATCCACT
7649074 TAACCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAGCACACCAACCATATACCA
131 TAACCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAGCACACCAACCATATACCA
7649136 TATATACATG
Statistics
Matches: 187, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 187 1.00
ACGTcount: A:0.43, C:0.30, G:0.07, T:0.20
Consensus pattern (216 bp):
ACCAAACCAAACTTACCATATATGACCACATTTATGCCAACACAAATAGCTCGTAACTACATCAA
AGCATAACCCCAATTGGCCACATTATGAACATACCAAATTTGGTCACTCAAAACATACATCCACT
TAACCATATAAACACCAACCATCAAAGCATCAAAATGCCAAAAGCACACCAACCATATACCACCA
TACGCAACTACTTATTACCAA
Found at i:7663657 original size:67 final size:67
Alignment explanation
Indices: 7663549--7663683 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
7663539 ATTCTTGCCC
7663549 GCACATAGGCATTCAGAAGGGCCCCATAGATTCTCTTGTCCTTCAAAGTATCAGGGAGTTGAAGG
1 GCACATAGGCATTCAGAAGGGCCCCATAGATTCTCTTGTCCTTCAAAGTATCAGGGAGTTGAAGG
7663614 AA
66 AA
7663616 GCACATAGGCATTCAGAAGGGCCCCATAGATTCTCTTGTCCTTCAAAGTATCAGGGAGTTGAAGG
1 GCACATAGGCATTCAGAAGGGCCCCATAGATTCTCTTGTCCTTCAAAGTATCAGGGAGTTGAAGG
7663681 AA
66 AA
7663683 G
1 G
7663684 AAATCTTCGG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.24
Consensus pattern (67 bp):
GCACATAGGCATTCAGAAGGGCCCCATAGATTCTCTTGTCCTTCAAAGTATCAGGGAGTTGAAGG
AA
Found at i:7666653 original size:17 final size:17
Alignment explanation
Indices: 7666627--7666670 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
7666617 TTCAGAAATA
* * *
7666627 AAAAAAAAAGATCCAAG
1 AAAAACAAAGAGCAAAG
7666644 AAAAACAAAGAGCAAAG
1 AAAAACAAAGAGCAAAG
*
7666661 AAACACAAAG
1 AAAAACAAAG
7666671 GTTTTCCTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.70, C:0.14, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAACAAAGAGCAAAG
Found at i:7668316 original size:3 final size:3
Alignment explanation
Indices: 7668310--7668427 Score: 50
Period size: 3 Copynumber: 37.7 Consensus size: 3
7668300 AGTCCTTTTT
* * *
7668310 TTA TTA TTC TTG TTA TGTTA TTGA TTA TTA TTA TTA TTA TTA -TA GGTA
1 TTA TTA TTA TTA TTA T-T-A TT-A TTA TTA TTA TTA TTA TTA TTA -TTA
* *
7668358 TTA TTA TT- GTA TTA GT- TTA TATA TCTA TTTA CCTT- TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA --TTA TTA T-TA TTA
7668403 TT- TTA TT- TTA TTA TGTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TT
7668428 TTAATTCTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
2 10 0.11
3 55 0.61
4 20 0.22
5 5 0.06
ACGTcount: A:0.27, C:0.03, G:0.07, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:7668411 original size:17 final size:18
Alignment explanation
Indices: 7668373--7668453 Score: 66
Period size: 17 Copynumber: 4.7 Consensus size: 18
7668363 ATTGTATTAG
7668373 TTTATATATCTA-TTTACCT
1 TTTATATATCTATTTTA--T
7668392 TTTATATAT-TATTTTAT
1 TTTATATATCTATTTTAT
*
7668409 TTTAT-TATGTATTATTAT
1 TTTATATATCTATT-TTAT
7668427 TTTA-AT-TCT-TTTTAT
1 TTTATATATCTATTTTAT
**
7668442 CATATATATCTA
1 TTTATATATCTA
7668454 ATTTCATAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
15 6 0.12
16 7 0.13
17 15 0.29
18 11 0.21
19 13 0.25
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.63
Consensus pattern (18 bp):
TTTATATATCTATTTTAT
Found at i:7668428 original size:18 final size:17
Alignment explanation
Indices: 7668334--7668430 Score: 61
Period size: 18 Copynumber: 5.2 Consensus size: 17
7668324 ATGTTATTGA
7668334 TTATTATTATTATTATT
1 TTATTATTATTATTATT
* * * *
7668351 ATAGGTATTATTATTGTA
1 TTA-TTATTATTATTATT
7668369 TTAGTTTATATATCTATTTACCTT
1 TTA--TTAT-TAT-TA-TTA--TT
7668393 TTATATATTATT-TTATT
1 TTAT-TATTATTATTATT
7668410 TTATTATGTATTATTATT
1 TTATTAT-TATTATTATT
7668428 TTA
1 TTA
7668431 ATTCTTTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.05
17 12 0.20
18 21 0.34
19 6 0.10
20 3 0.05
21 3 0.05
22 6 0.10
23 3 0.05
24 4 0.07
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (17 bp):
TTATTATTATTATTATT
Found at i:7670011 original size:19 final size:19
Alignment explanation
Indices: 7669987--7670034 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
7669977 TTTAATCTAC
7669987 TATACATAAAAAAAATTAT
1 TATACATAAAAAAAATTAT
*
7670006 TATACAT--AAAAATTTAT
1 TATACATAAAAAAAATTAT
*
7670023 TATATATAAAAA
1 TATACATAAAAA
7670035 TTAATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 15 0.60
19 10 0.40
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
TATACATAAAAAAAATTAT
Found at i:7672604 original size:17 final size:18
Alignment explanation
Indices: 7672582--7672616 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7672572 GCATACAACC
7672582 GAAAAAG-AAATTTACTA
1 GAAAAAGAAAATTTACTA
7672599 GAAAAAGAAAATTTACTA
1 GAAAAAGAAAATTTACTA
7672617 ATAATTGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (18 bp):
GAAAAAGAAAATTTACTA
Found at i:7677729 original size:23 final size:23
Alignment explanation
Indices: 7677703--7677748 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7677693 AAAAATTTAT
*
7677703 AAAAATTA-TTAGAAATTGTAAAA
1 AAAAATTATTTAAAAATT-TAAAA
*
7677726 AAAATTTATTTAAAAATTTAAAA
1 AAAAATTATTTAAAAATTTAAAA
7677749 CTAATAAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
AAAAATTATTTAAAAATTTAAAA
Found at i:7679375 original size:19 final size:19
Alignment explanation
Indices: 7679337--7679375 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7679327 AAAACAATGA
*
7679337 AAGAATTTACCTAATTTAG
1 AAGAATTTACCTAATCTAG
7679356 AAGAATTTGACCTAA-CTAG
1 AAGAATTT-ACCTAATCTAG
7679375 A
1 A
7679376 TTCAAGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (19 bp):
AAGAATTTACCTAATCTAG
Found at i:7680500 original size:58 final size:58
Alignment explanation
Indices: 7680423--7680543 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 58
7680413 AAACTTCCTA
* * *
7680423 ACATATTTATTTTTAGAATTTTTAGAAGATTTATTATACAACGAAAACAACACAAAAC
1 ACATATTTATTTTTAGAATTTTTAGAAGACTAATTAAACAACGAAAACAACACAAAAC
* * * * * *
7680481 ACATTTTTATTTTTGGAATTTTTGGAGGACTAATTAAACAAGGGAAACAACACAAAAC
1 ACATATTTATTTTTAGAATTTTTAGAAGACTAATTAAACAACGAAAACAACACAAAAC
7680539 ACATA
1 ACATA
7680544 AAATTGATAG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (58 bp):
ACATATTTATTTTTAGAATTTTTAGAAGACTAATTAAACAACGAAAACAACACAAAAC
Found at i:7684358 original size:105 final size:105
Alignment explanation
Indices: 7684167--7684538 Score: 447
Period size: 105 Copynumber: 3.5 Consensus size: 105
7684157 AACATATGTT
* * ** * * *
7684167 AACGAACTATTTAGGAGTCGCAATCTTAAATCAACTAACTCAAATAAATTTAGGTTGCGATCTTA
1 AACGAGCTGTTTAGGAGTTACAATCTTAAATCTACTAACTCAAAGAAACTTAGGTTGCGATCTTA
*
7684232 AATTAGCTAACCTTTGTAATATCAGCTGTGAACGTAGGAC
66 AATTAGCTAACCTTTGTAATATCAGCTGTGAACGTAGGTC
* * *
7684272 AACAAGTTGTTTAGGAGTTACAATCTTAAATCTGCTAACTCAAAGAAACTTAGGTTGCGATCTTA
1 AACGAGCTGTTTAGGAGTTACAATCTTAAATCTACTAACTCAAAGAAACTTAGGTTGCGATCTTA
* * * * * *
7684337 AATCAACCAACCTTTGTAATATCTGCTGTGAATGTAAGTC
66 AATTAGCTAACCTTTGTAATATCAGCTGTGAACGTAGGTC
** * * * * *
7684377 AGTGAGCTATTTAGGAGTTGCGATATTAAATCTACTAACTCAAAGAAACTTAGGTTGCGATCTGA
1 AACGAGCTGTTTAGGAGTTACAATCTTAAATCTACTAACTCAAAGAAACTTAGGTTGCGATCTTA
* * * * *
7684442 AATTAGCTAACCTTTATAATAACAGTTATGAACGTGGGTC
66 AATTAGCTAACCTTTGTAATATCAGCTGTGAACGTAGGTC
* * * *
7684482 ATCGAGCTGTTTAGGAGTTACGATCTTAAATTTGCTAACTCAAAGAAACTTAGGTTG
1 AACGAGCTGTTTAGGAGTTACAATCTTAAATCTACTAACTCAAAGAAACTTAGGTTG
7684539 TCCACGTTTG
Statistics
Matches: 222, Mismatches: 45, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
105 222 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (105 bp):
AACGAGCTGTTTAGGAGTTACAATCTTAAATCTACTAACTCAAAGAAACTTAGGTTGCGATCTTA
AATTAGCTAACCTTTGTAATATCAGCTGTGAACGTAGGTC
Found at i:7687802 original size:9 final size:9
Alignment explanation
Indices: 7687788--7687822 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
7687778 GTTAACTTAA
7687788 AAAATTCTG
1 AAAATTCTG
7687797 AAAATTCTG
1 AAAATTCTG
7687806 AAAATTCTG
1 AAAATTCTG
7687815 AAAATTCT
1 AAAATTCT
7687823 AACATGGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (9 bp):
AAAATTCTG
Found at i:7698606 original size:3 final size:3
Alignment explanation
Indices: 7698598--7698624 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7698588 TGTTGGTAGA
7698598 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
7698625 TTAGTGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7699681 original size:15 final size:17
Alignment explanation
Indices: 7699663--7699736 Score: 53
Period size: 17 Copynumber: 4.3 Consensus size: 17
7699653 TTTTAAAAAA
7699663 ATTAAATATTCAA-A-T
1 ATTAAATATTCAATATT
*
7699678 ATTATAATTTTCAATATT
1 ATTA-AATATTCAATATT
* *
7699696 ATTAAATATACATATCTAT
1 ATTAAATATTCA-ATAT-T
* * *
7699715 ATTTAATATTTAATATA
1 ATTAAATATTCAATATT
7699732 ATTAA
1 ATTAA
7699737 TGTTATATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
15 4 0.09
16 8 0.18
17 11 0.25
18 11 0.25
19 10 0.23
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAATATTCAATATT
Found at i:7700161 original size:10 final size:10
Alignment explanation
Indices: 7700148--7700278 Score: 51
Period size: 10 Copynumber: 13.0 Consensus size: 10
7700138 TTTTTTTTAT
7700148 TTTTAAAATA
1 TTTTAAAATA
* *
7700158 TTTTTTACATA
1 -TTTTAAAATA
** *
7700169 CTTTTTTAATT
1 -TTTTAAAATA
*
7700180 TTTTTAAAT-
1 TTTTAAAATA
7700189 TTT-AAAATA
1 TTTTAAAATA
7700198 TTTTTAAAATA
1 -TTTTAAAATA
* *
7700209 CTTTTTTTAAATTT
1 ---T-TTTAAAATA
7700223 TTTTAAAAT-
1 TTTTAAAATA
*
7700232 TTTT-TAAT-
1 TTTTAAAATA
7700240 TT-TAAAATA
1 TTTTAAAATA
*
7700249 TTTTTAAAATT
1 -TTTTAAAATA
7700260 TTTTAAAAT-
1 TTTTAAAATA
7700269 TTTTAAAATA
1 TTTTAAAATA
7700279 AAAATGGGCC
Statistics
Matches: 95, Mismatches: 14, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
7 1 0.01
8 12 0.13
9 16 0.17
10 29 0.31
11 28 0.29
13 2 0.02
14 7 0.07
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:7700161 original size:11 final size:11
Alignment explanation
Indices: 7700145--7700278 Score: 89
Period size: 11 Copynumber: 13.2 Consensus size: 11
7700135 ATATTTTTTT
7700145 TATTTTTAAAA
1 TATTTTTAAAA
* *
7700156 TATTTTTTACA
1 TATTTTTAAAA
*
7700167 TACTTTTT-TAA
1 TA-TTTTTAAAA
*
7700178 T-TTTTT-TAA
1 TATTTTTAAAA
7700187 -A-TTTTAAAA
1 TATTTTTAAAA
7700196 TATTTTTAAAA
1 TATTTTTAAAA
*
7700207 TACTTTTTTTAAA
1 TA--TTTTTAAAA
*
7700220 TTTTTTTAAAA
1 TATTTTTAAAA
7700231 T-TTTTT---A
1 TATTTTTAAAA
7700238 -A-TTTTAAAA
1 TATTTTTAAAA
7700247 TATTTTTAAAA
1 TATTTTTAAAA
7700258 T-TTTTT-AAA
1 TATTTTTAAAA
7700267 -ATTTTTAAAA
1 TATTTTTAAAA
7700277 TA
1 TA
7700279 AAAATGGGCC
Statistics
Matches: 99, Mismatches: 8, Indels: 32
0.71 0.06 0.23
Matches are distributed among these distances:
6 4 0.04
7 1 0.01
8 4 0.04
9 19 0.19
10 15 0.15
11 42 0.42
12 5 0.05
13 9 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:7700192 original size:40 final size:42
Alignment explanation
Indices: 7700137--7700278 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 42
7700127 TAATAAATAT
* * * *
7700137 ATTTTTTTTATTTTTAAAATATTTTTTACATAC-TTTTTT-A
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
7700177 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
* * *
7700219 ATTTTTTTAAAATTTT---TTAATTTTAAAATA--TTTTTAAA
1 ATTTTTTT-AAATTTTAAAATATTTTTAAAATACTTTTTTTAA
*
7700257 ATTTTTTAAAATTTTTAAAATA
1 ATTTTTTTAAA-TTTTAAAATA
7700279 AAAATGGGCC
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
37 3 0.03
38 18 0.21
40 41 0.48
41 8 0.09
42 9 0.10
43 7 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (42 bp):
ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:7700200 original size:20 final size:20
Alignment explanation
Indices: 7700130--7700202 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
7700120 CCTGATATAA
* *
7700130 TAAATATATTTTTTTTATTTT
1 TAAA-ATATTTTTTTAAATTT
7700151 TAAAATA-TTTTTTACATACTTT
1 TAAAATATTTTTTTA-A-A-TTT
**
7700173 T-TTA-ATTTTTTTAAATTT
1 TAAAATATTTTTTTAAATTT
7700191 TAAAATATTTTT
1 TAAAATATTTTT
7700203 AAAATACTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 4 0.10
19 8 0.20
20 12 0.30
21 12 0.30
22 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TAAAATATTTTTTTAAATTT
Found at i:7700200 original size:51 final size:49
Alignment explanation
Indices: 7700145--7700277 Score: 166
Period size: 51 Copynumber: 2.7 Consensus size: 49
7700135 ATATTTTTTT
*
7700145 TATTTTTAAAATATTTTTTACATACTTTTTT-AATTTTTTTAAATTTTAAAA
1 TATTTTTAAAATATTTTTTA-A-ACTTTTTTAAAATTTTTT-AATTTTAAAA
*
7700196 TATTTTTAAAATACTTTTTTTAAATTTTTTTAAAATTTTTTAATTTTAAAA
1 TATTTTTAAAATA--TTTTTTAAACTTTTTTAAAATTTTTTAATTTTAAAA
*
7700247 TATTTTT-AAA-ATTTTTTAAA-ATTTTTAAAAT
1 TATTTTTAAAATATTTTTTAAACTTTTTTAAAAT
7700278 AAAAATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
46 10 0.13
47 9 0.12
49 1 0.01
50 3 0.04
51 37 0.49
52 9 0.12
53 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (49 bp):
TATTTTTAAAATATTTTTTAAACTTTTTTAAAATTTTTTAATTTTAAAA
Found at i:7700244 original size:16 final size:17
Alignment explanation
Indices: 7700223--7700255 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7700213 TTTTAAATTT
7700223 TTTTAAAAT-TTTTTAA
1 TTTTAAAATATTTTTAA
7700239 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
7700256 AATTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:7700681 original size:24 final size:23
Alignment explanation
Indices: 7700628--7700681 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
7700618 TAAAAAAATT
* *
7700628 AATT-TAAACTTTTAAAATTATA
1 AATTATAAACTATTAAAATGATA
7700650 AATATATAAACTATTAAAATGATGA
1 AAT-TATAAACTATTAAAATGAT-A
7700675 AATTATA
1 AATTATA
7700682 TTTTTACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 3 0.11
23 1 0.04
24 19 0.70
25 4 0.15
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
AATTATAAACTATTAAAATGATA
Found at i:7705149 original size:85 final size:86
Alignment explanation
Indices: 7705055--7705234 Score: 346
Period size: 85 Copynumber: 2.1 Consensus size: 86
7705045 AATATAATTG
7705055 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAA-CTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
7705119 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
7705140 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
7705205 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
7705226 TAATT-TTAT
1 TAATTATTAT
7705235 GTGGAGAGAA
Statistics
Matches: 94, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 63 0.67
86 31 0.33
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:7705377 original size:51 final size:50
Alignment explanation
Indices: 7705301--7705403 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 50
7705291 TATACGTAAA
7705301 AATTATCATACACCAACAATATTTTTTAGGGTA-AATAACATTAAACCAAC
1 AATTATCATACACCAACAATATTTTTTAGGG-ACAATAACATTAAACCAAC
*
7705351 AATTATACATACACCAACAATGTTTTTTAGGGACAATAACATTAAACCAAC
1 AATTAT-CATACACCAACAATATTTTTTAGGGACAATAACATTAAACCAAC
7705402 AA
1 AA
7705404 GTAATTTTAG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
50 7 0.14
51 43 0.86
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (50 bp):
AATTATCATACACCAACAATATTTTTTAGGGACAATAACATTAAACCAAC
Found at i:7705448 original size:33 final size:33
Alignment explanation
Indices: 7705350--7705458 Score: 127
Period size: 33 Copynumber: 3.3 Consensus size: 33
7705340 ATTAAACCAA
* *
7705350 CAATTATACATACACCAACAATGT-TTTTTAGGGA
1 CAATTATACATACACCAACAAT-TAATTTTA-GGT
* *
7705384 CAA-TA-ACATTAAACCAACAAGTAATTTTAGGT
1 CAATTATACA-TACACCAACAATTAATTTTAGGT
7705416 CAATTATACATACACCAACAATTAATTTTAGGT
1 CAATTATACATACACCAACAATTAATTTTAGGT
7705449 C-ATTATACAT
1 CAATTATACAT
7705459 GCTTTATAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
32 18 0.28
33 41 0.63
34 6 0.09
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (33 bp):
CAATTATACATACACCAACAATTAATTTTAGGT
Found at i:7708600 original size:18 final size:17
Alignment explanation
Indices: 7708572--7708606 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7708562 ATTATTAAGA
*
7708572 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7708589 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7708607 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7708721 original size:18 final size:17
Alignment explanation
Indices: 7708693--7708727 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7708683 CCAATTAAGA
*
7708693 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7708710 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7708728 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7708765 original size:121 final size:120
Alignment explanation
Indices: 7708481--7708864 Score: 725
Period size: 120 Copynumber: 3.2 Consensus size: 120
7708471 TTTTCAAGTT
*
7708481 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
7708546 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
7708601 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
7708666 TAATATAAGAATATT-ATCCAATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
7708722 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
7708787 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
7708842 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
7708865 TAAATATGAT
Statistics
Matches: 258, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
119 2 0.01
120 138 0.53
121 116 0.45
122 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:7708841 original size:18 final size:17
Alignment explanation
Indices: 7708813--7708847 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7708803 ATTATTAAGA
*
7708813 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
7708830 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
7708848 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:7709061 original size:44 final size:45
Alignment explanation
Indices: 7709012--7709102 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
7709002 ACCTCTATTC
* * *
7709012 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
7709056 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
7709101 CA
1 CA
7709103 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:7709104 original size:16 final size:16
Alignment explanation
Indices: 7709083--7709151 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
7709073 GATTAGCTAT
7709083 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
7709099 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
7709116 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
*
7709132 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
7709148 TACA
1 TACA
7709152 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
16 33 0.69
17 15 0.31
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:7709130 original size:33 final size:32
Alignment explanation
Indices: 7709083--7709151 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
7709073 GATTAGCTAT
7709083 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
* *
7709116 TACATCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
7709148 TACA
1 TACA
7709152 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.36, C:0.36, G:0.01, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:7711425 original size:28 final size:27
Alignment explanation
Indices: 7711368--7711444 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 27
7711358 AAAAGGGTAC
* * *
7711368 AAAATATATACATGTACATATATAAAA
1 AAAATATATACATATATATAGATAAAA
7711395 AAAATTATATACATATATATAGATTATAAA
1 AAAA-TATATACATATATATAGA-TA-AAA
*
7711425 AAGATA-ATTACATATATATA
1 AAAATATA-TACATATATATA
7711445 AAACAACTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 4 0.10
28 16 0.38
29 16 0.38
30 6 0.14
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAATATATACATATATATAGATAAAA
Found at i:7711624 original size:17 final size:17
Alignment explanation
Indices: 7711602--7711645 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7711592 TAGGAAATAA
7711602 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
7711619 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
7711636 -ATATGTATAT
1 AAAATGTATAT
7711646 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:7711781 original size:12 final size:12
Alignment explanation
Indices: 7711764--7711797 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7711754 GTATATATAG
**
7711764 TAATAATAATGA
1 TAATAATAACAA
7711776 TAATAATAACAA
1 TAATAATAACAA
7711788 TAATAATAAC
1 TAATAATAAC
7711798 TTAATAACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (12 bp):
TAATAATAACAA
Found at i:7711804 original size:20 final size:20
Alignment explanation
Indices: 7711779--7711838 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
7711769 ATAATGATAA
7711779 TAATAACAATAATAATAACT
1 TAATAACAATAATAATAACT
* *
7711799 TAATAACAAGAA-AATCAAATT
1 TAATAACAATAATAAT--AACT
*
7711820 TAATAAAAATAAATAATAA
1 TAATAACAAT-AATAATAA
7711839 ATAAAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 3 0.09
20 11 0.34
21 13 0.41
22 2 0.06
23 3 0.09
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
TAATAACAATAATAATAACT
Found at i:7711986 original size:29 final size:29
Alignment explanation
Indices: 7711950--7712008 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
7711940 CAAGAGAAAG
7711950 AGAAATTTGAGGGAATACTCTTAAGAATT
1 AGAAATTTGAGGGAATACTCTTAAGAATT
7711979 AGAAATTTGAGGGAATACTCTTAAGAATT
1 AGAAATTTGAGGGAATACTCTTAAGAATT
7712008 A
1 A
7712009 TTATTACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (29 bp):
AGAAATTTGAGGGAATACTCTTAAGAATT
Found at i:7712203 original size:19 final size:19
Alignment explanation
Indices: 7712161--7712216 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
7712151 AATCATATCT
*
7712161 TCTAAGATTGCATAAATTATA
1 TCTAAGATTGCAT--ATCATA
7712182 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
7712201 TCTAAGATTACATATC
1 TCTAAGATTGCATATC
7712217 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 20 0.61
21 13 0.39
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7712711 original size:44 final size:44
Alignment explanation
Indices: 7712654--7712771 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 44
7712644 GATGTGATCT
* * *
7712654 ACTCTACTGCAACTTCAGAGAAATAAGATCT-GTGATTTTAATCC
1 ACTCCACTGCAACTTCAGAGAGATAAGAT-TAGTGACTTTAATCC
* * * * * *
7712698 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 ACTCCACTGCAACTTCAGAGAGATAAGATTAGTGACTTTAATCC
7712742 ACTCCACTGCAACTTCAGAGAGATAAGATT
1 ACTCCACTGCAACTTCAGAGAGATAAGATT
7712772 CGCCATCTTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.02
44 60 0.98
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGAGAGATAAGATTAGTGACTTTAATCC
Found at i:7713081 original size:50 final size:50
Alignment explanation
Indices: 7712964--7713081 Score: 139
Period size: 50 Copynumber: 2.4 Consensus size: 50
7712954 TCCAAGCCTT
*
7712964 AACGCCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTAC
1 AACGCCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTAC
* * ** * *
7713014 AACGCCAGAGAAG-TAAGATTCGCCGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGCCA-AGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTAC
* *
7713064 AACGTCAAGGTGATAAGA
1 AACGCCAAGGAGATAAGA
7713082 CTGATGTCTT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.05
50 49 0.88
51 4 0.07
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (50 bp):
AACGCCAAGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTAC
Found at i:7713330 original size:88 final size:88
Alignment explanation
Indices: 7713223--7714140 Score: 1343
Period size: 88 Copynumber: 10.4 Consensus size: 88
7713213 GTTGGGGTCA
* * * *
7713223 TCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAAATCTACTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
7713288 CTAGGGAGGCAAAGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
7713311 TCGATCTGCTTCGCTGTCGGTGCAGGAAAGCAAGATCTGCTATTTTTAACCTACTCCGTTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
7713376 CCAGTGAGGTAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
7713399 TCGATCTGCTTTGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCTCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * *
7713464 CTAGGAAGGCAAGGCTGGTGTTT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
7713487 TCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
7713552 CCAGGGAGGCAAGGTTGATGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * *
7713575 TCGATCTACTTCGCTGTCGGTGCAGGAAGGCAATG-TCTACTATTTTTAACCTACTCCGCTATAA
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAA-GATCTGCTATTTTTAACCTGCTCCGCTACAA
* *
7713639 CCCAGGGAGGCAAAGCTAGTGTCT
65 CCCAGGGAGGCAAGGCTGGTGTCT
* * * * *
7713663 TCGATTTGCTTCACTGCCGGTGCAGGAAGACAAGATCTGTTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
7713728 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
7713751 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGTTATTTTTAACATGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
7713816 CCAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
7713839 TCGATCTGTTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
** *
7713904 TGAGGGAGGCAAGACTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
7713927 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* * *
7713992 CTAGGGAGGCAAGGCTAGTATCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* **
7714015 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTGTAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
7714080 CCAGGGAGGCAAGGTTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
7714103 TCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCT
7714141 TTTATCTTCA
Statistics
Matches: 742, Mismatches: 86, Indels: 4
0.89 0.10 0.00
Matches are distributed among these distances:
87 1 0.00
88 740 1.00
89 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.29
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:7713471 original size:44 final size:43
Alignment explanation
Indices: 7713421--7713564 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 43
7713411 GCTGTCGGTG
7713421 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCTCTACAACC
1 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCTCT-CAACC
* * * ** * * **
7713465 TAGGAAGGCAAG-GCTGGTGTTTTCGATCTGCTTCGCTGTCAGTGC
1 TAGGAAGGCAAGATCTGCTATTTTTAACCTGC-TC-CTCTCA-ACC
* *
7713510 -AGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTGCAACC
1 TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCTCT-CAACC
* *
7713553 CAGGGAGGCAAG
1 TAGGAAGGCAAG
7713565 GTTGATGTCT
Statistics
Matches: 73, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
43 16 0.22
44 40 0.55
45 17 0.23
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.27
Consensus pattern (43 bp):
TAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCTCTCAACC
Found at i:7713606 original size:44 final size:44
Alignment explanation
Indices: 7713466--7713607 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
7713456 TCTACAACCT
* *
7713466 AGGAAGGCAAGGCTGGTGTTTTCGATCTGCTTCGCTGTCAGTGC
1 AGGAAGGCAAGGTTGATGTTTTCGATCTGCTTCGCTGTCAGTGC
* * * ** * ***
7713510 AGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTG-CAACCC
1 AGGAAGGCAAGGT-TGATGTTTTCGATCTGCTTCGCTGTCAGTGC
* * * *
7713554 AGGGAGGCAAGGTTGATGTCTTCGATCTACTTCGCTGTCGGTGC
1 AGGAAGGCAAGGTTGATGTTTTCGATCTGCTTCGCTGTCAGTGC
7713598 AGGAAGGCAA
1 AGGAAGGCAA
7713608 TGTCTACTAT
Statistics
Matches: 72, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
43 17 0.24
44 36 0.50
45 19 0.26
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (44 bp):
AGGAAGGCAAGGTTGATGTTTTCGATCTGCTTCGCTGTCAGTGC
Found at i:7719391 original size:28 final size:29
Alignment explanation
Indices: 7719353--7719419 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
7719343 ATACATGTAC
* *
7719353 ATATATAAAAAAAATTATATACATATATAG
1 ATATATAAAAAAGATAAT-TACATATATAG
*
7719383 AT-TATAAAAAAGATAATTACATATATAT
1 ATATATAAAAAAGATAATTACATATATAG
7719411 ATATATAAA
1 ATATATAAA
7719420 CAACTAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 12 0.36
29 19 0.58
30 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATATAAAAAAGATAATTACATATATAG
Found at i:7719603 original size:17 final size:17
Alignment explanation
Indices: 7719581--7719624 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7719571 TAGGAAATAA
7719581 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
7719598 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
7719615 -ATATGTATAT
1 AAAATGTATAT
7719625 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:7719759 original size:3 final size:3
Alignment explanation
Indices: 7719751--7719786 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
7719741 GTATATATAG
* *
7719751 TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7719787 CTTAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7720149 original size:21 final size:21
Alignment explanation
Indices: 7720100--7720178 Score: 106
Period size: 21 Copynumber: 3.7 Consensus size: 21
7720090 AAATTAAATC
7720100 TCTAAGATTACA-AAATCATA
1 TCTAAGATTACATAAATCATA
*
7720120 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTACATAAATCATA
*
7720144 TCTAAGATTGCATAAATCATA
1 TCTAAGATTACATAAATCATA
7720165 TCTAAGATTACATA
1 TCTAAGATTACATA
7720179 TCCTTGAAGA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
21 34 0.64
23 11 0.21
24 8 0.15
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (21 bp):
TCTAAGATTACATAAATCATA
Found at i:7724690 original size:3 final size:3
Alignment explanation
Indices: 7724682--7724708 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7724672 ATTTTATTAA
7724682 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
7724709 GAATAAATCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7735525 original size:3 final size:3
Alignment explanation
Indices: 7735517--7735541 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7735507 ATTTAATGTT
7735517 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
7735542 ATCATTGCAT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:7741510 original size:3 final size:3
Alignment explanation
Indices: 7741502--7741536 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7741492 CGGCTGGAGT
*
7741502 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
7741537 AGATAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7762015 original size:18 final size:20
Alignment explanation
Indices: 7761992--7762033 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
7761982 CTTCACCATT
7761992 TACAATAACA-ATAAT-CAG
1 TACAATAACAGATAATACAG
*
7762010 TACAATAACAGATTATACAG
1 TACAATAACAGATAATACAG
7762030 TACA
1 TACA
7762034 CAGGTCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 4 0.19
20 7 0.33
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (20 bp):
TACAATAACAGATAATACAG
Found at i:7767002 original size:49 final size:51
Alignment explanation
Indices: 7766949--7767054 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 51
7766939 CCAATATCGG
*
7766949 GAAGCTCCAA-AGAGCCAATTATTAGG-AAGCTC-AGATGAGCCATA-AACGA
1 GAAGCTCCAAGAGAGCC-ATTAATAGGAAAGCTCGAGA-GAGCCATATAACGA
* *
7766998 GAAGCT-CAAGAGAGCCATTAATGGGAAAGCTCGTGAGAGCCATATAACGA
1 GAAGCTCCAAGAGAGCCATTAATAGGAAAGCTCGAGAGAGCCATATAACGA
*
7767048 GATGCTC
1 GAAGCTC
7767055 ATGAGAGATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
48 10 0.21
49 26 0.54
50 12 0.25
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.17
Consensus pattern (51 bp):
GAAGCTCCAAGAGAGCCATTAATAGGAAAGCTCGAGAGAGCCATATAACGA
Found at i:7767059 original size:25 final size:25
Alignment explanation
Indices: 7766886--7767061 Score: 116
Period size: 25 Copynumber: 7.1 Consensus size: 25
7766876 AAGCTCTTCC
* **
7766886 GAGCCATATAACGGGAAGCTCATTT
1 GAGCCATATAACGAGAAGCTCATGA
* *
7766911 GAGCCATTTAACGGGAAGCTCATGCA
1 GAGCCATATAACGAGAAGCTCATG-A
* * *
7766937 -AGCCA-ATATCGGGAAGCTCCA-AA
1 GAGCCATATAACGAGAAGCT-CATGA
*
7766960 GAGCCAATTATTA-G-GAAGCTCA-GA
1 GAGCC-A-TATAACGAGAAGCTCATGA
*
7766984 TGAGCCATA-AACGAGAAGCTCAAGA
1 -GAGCCATATAACGAGAAGCTCATGA
* * *
7767009 GAGCCAT-TAATGGGAAAGCTCGTGA
1 GAGCCATATAACGAG-AAGCTCATGA
*
7767034 GAGCCATATAACGAGATGCTCATGA
1 GAGCCATATAACGAGAAGCTCATGA
7767059 GAG
1 GAG
7767062 ATAATTAATG
Statistics
Matches: 120, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.01
23 4 0.03
24 38 0.32
25 69 0.57
26 6 0.05
27 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGAGAAGCTCATGA
Found at i:7769928 original size:18 final size:17
Alignment explanation
Indices: 7769895--7769933 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
7769885 TTTTATAAAT
7769895 TGTGAATTATATTTGAAA
1 TGTGAATTATATTTG-AA
7769913 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
7769930 TGTG
1 TGTG
7769934 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:7770178 original size:23 final size:23
Alignment explanation
Indices: 7770151--7770226 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
7770141 AGTGTTATTG
**
7770151 ATCAGTGGTAGCTTTAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
7770174 TTCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
7770197 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
7770220 ATCAGTG
1 ATCAGTG
7770227 TGGCACTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:7776784 original size:18 final size:17
Alignment explanation
Indices: 7776735--7776787 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
7776725 GCAATAAAAA
7776735 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAA-TGAAT
* *
7776753 AACGATTTGTAAATGAAT
1 AATGTTTTG-AAATGAAT
7776771 AATGTTTTTGAAATGAA
1 AATG-TTTTGAAATGAA
7776788 CGACACGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (17 bp):
AATGTTTTGAAATGAAT
Found at i:7782649 original size:17 final size:19
Alignment explanation
Indices: 7782627--7782663 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7782617 AAGCAAAAGA
7782627 ATTTC-ATATTA-TGAGAT
1 ATTTCAATATTAGTGAGAT
*
7782644 ATTTCAATTTTAGTGAGAT
1 ATTTCAATATTAGTGAGAT
7782663 A
1 A
7782664 GGGGTAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 5 0.29
19 7 0.41
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (19 bp):
ATTTCAATATTAGTGAGAT
Found at i:7789600 original size:28 final size:28
Alignment explanation
Indices: 7789569--7789625 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
7789559 TAGAATCTCT
*
7789569 TAAATCATACCTTTCATATTCATGAATA
1 TAAATCATACATTTCATATTCATGAATA
* *
7789597 TAAATCATACATTTCATGTTTATGAATA
1 TAAATCATACATTTCATATTCATGAATA
7789625 T
1 T
7789626 TCATACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (28 bp):
TAAATCATACATTTCATATTCATGAATA
Found at i:7789871 original size:101 final size:101
Alignment explanation
Indices: 7789758--7789956 Score: 317
Period size: 101 Copynumber: 2.0 Consensus size: 101
7789748 CTTACATTCG
* *
7789758 TAGTGTCATAACCCAGTTATGGTTTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
*
7789823 AAACACTACCATGGTCGAACCATGGTATTACGTCTA
66 AAACACTACCATGGTCCAACCATGGTATTACGTCTA
* * * *
7789859 TAGTGCCATAACCTAGTTATGGTCTTATCATTAGAATGCCATAGCCCAGCTATGGTTTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
* *
7789924 AAACACTGCCATGGTCCAACCATGGTCTTACGT
66 AAACACTACCATGGTCCAACCATGGTATTACGT
7789957 GTGAATGCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATACCATAGCCCAGCTATGGTCTTACATAT
AAACACTACCATGGTCCAACCATGGTATTACGTCTA
Found at i:7789913 original size:33 final size:33
Alignment explanation
Indices: 7789764--7789924 Score: 83
Period size: 33 Copynumber: 4.8 Consensus size: 33
7789754 TTCGTAGTGT
* * * *
7789764 CATAACCCAGTTATGGTTTTATCAT-CAGAATAC
1 CATAGCCCAGCTATGGTCTTA-CATATAGAATAC
*
7789797 CATAGCCCAGCTATGGTCTTACATATAAACACTAC
1 CATAGCCCAGCTATGGTCTTACATATAGA-A-TAC
* * * * * * * * * * *
7789832 CATGGTCGAACCATGGTATTACGTCTATAGTGC
1 CATAGCCCAGCTATGGTCTTACATATAGAATAC
* * * *
7789865 CATAACCTAGTTATGGTCTTATCAT-TAGAATGC
1 CATAGCCCAGCTATGGTCTTA-CATATAGAATAC
*
7789898 CATAGCCCAGCTATGGTTTTACATATA
1 CATAGCCCAGCTATGGTCTTACATATA
7789925 AACACTGCCA
Statistics
Matches: 92, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
32 6 0.07
33 60 0.65
34 3 0.03
35 23 0.25
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (33 bp):
CATAGCCCAGCTATGGTCTTACATATAGAATAC
Found at i:7797316 original size:72 final size:72
Alignment explanation
Indices: 7797209--7797403 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 72
7797199 ACAATAAAAA
* * * * *
7797209 GAATTATTGTGACAATTTAATTTTGTTACAATTACTTATGATTTTAGTGTA-AAAAATTGGTCAC
1 GAATAATTGTGACCATTTAA-TTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGCCAC
7797273 AAACAAATT
65 AAA-AAATT
* * * *
7797282 TAATAATTGTGCCCATTTAATTTGTCACAATTACTTACGATTTTAGTGTACAAAACTTGGCCATA
1 GAATAATTGTGACCATTTAATTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGCCACA
7797347 AAAAATT
66 AAAAATT
* * *
7797354 GAATAATTGTGACCATTTAATTTCGACATAATTACTTACAATTTTAGTGT
1 GAATAATTGTGACCATTTAATTT-GTCACAATTACTTACGATTTTAGTGT
7797404 TTGACATTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
72 54 0.51
73 52 0.49
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (72 bp):
GAATAATTGTGACCATTTAATTTGTCACAATTACTTACGATTTTAGTGTACAAAAATTGGCCACA
AAAAATT
Found at i:7803804 original size:33 final size:32
Alignment explanation
Indices: 7803767--7803913 Score: 105
Period size: 33 Copynumber: 4.4 Consensus size: 32
7803757 ATAACTCATT
*
7803767 TATGGTCTTATCATCAGAATGCCATAGCCTAGC
1 TATGGTCTTA-CATCAGAATGCCATAGCCCAGC
* * * * * *
7803800 TATGGTCTTACATATAAACACTGCTATGGTCCAAC
1 TATGGTCTTACAT-CAGA-A-TGCCATAGCCCAGC
* * * * * * *
7803835 CATGGTCTTACGTTCATAGTGCCACAACCCAGT
1 TATGGTCTTAC-ATCAGAATGCCATAGCCCAGC
*
7803868 TATGGTATTATCATCAGAATGCCATAGCCCAGC
1 TATGGTCTTA-CATCAGAATGCCATAGCCCAGC
7803901 TATGGTCTTACAT
1 TATGGTCTTACAT
7803914 ATAAACACTG
Statistics
Matches: 81, Mismatches: 28, Indels: 11
0.68 0.23 0.09
Matches are distributed among these distances:
32 6 0.07
33 51 0.63
34 2 0.02
35 21 0.26
36 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (32 bp):
TATGGTCTTACATCAGAATGCCATAGCCCAGC
Found at i:7803980 original size:101 final size:101
Alignment explanation
Indices: 7803741--7803980 Score: 356
Period size: 101 Copynumber: 2.4 Consensus size: 101
7803731 AATTCATCCT
* * * * *
7803741 TTACATTCGTAGTGCCATAACTCATTTATGGTCTTATCATCAGAATGCCATAGCCTAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
7803806 CTTACATATAAACACTGCTATGGTCCAACCATGGTC
66 CTTACATATAAACACTGCTATAGTCCAACCATGGTC
* * *
7803842 TTACGTTCATAGTGCCACAACCCAGTTATGGTATTATCATCAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
*
7803907 CTTACATATAAACACTG-TCATAGTCTAACCATGGTC
66 CTTACATATAAACACTGCT-ATAGTCCAACCATGGTC
* *
7803943 TTACGTTCATAGTACCATAACCCAATTATGATCTTATC
1 TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATC
7803981 CGTCAATTCA
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 1 0.01
101 123 0.99
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCTATAGTCCAACCATGGTC
Found at i:7804705 original size:13 final size:13
Alignment explanation
Indices: 7804687--7804712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7804677 ACATTTTTAC
7804687 AAAATTTCCCTTT
1 AAAATTTCCCTTT
7804700 AAAATTTCCCTTT
1 AAAATTTCCCTTT
7804713 TATTCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTCCCTTT
Found at i:7808826 original size:85 final size:86
Alignment explanation
Indices: 7808702--7808868 Score: 230
Period size: 85 Copynumber: 2.0 Consensus size: 86
7808692 GGACTCAACC
* * *
7808702 CCTCAAAAATGAATTTCTTTTTTAATTTAATTATTTTATAAATAGAGAAATTATGAATTAATATA
1 CCTCAAAAATGAATTTCTTTTTTAATTTAATTATCTTATAAATAAAGAAATTATGAATCAATATA
*
7808767 TAGTAAAATTGTATTTTGACT
66 TAATAAAATTGTATTTTGACT
* * * * *
7808788 CCTC-AAAAT-AAGTTTTTTTTTTAATTTAGTTCTCTTATAAATAAATAAATTATTAATCAATAT
1 CCTCAAAAATGAA-TTTCTTTTTTAATTTAATTATCTTATAAATAAAGAAATTATGAATCAATAT
7808851 ATAATAAAATTGTATTTT
65 ATAATAAAATTGTATTTT
7808869 ACCCCCTGAA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 2 0.03
85 65 0.92
86 4 0.06
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (86 bp):
CCTCAAAAATGAATTTCTTTTTTAATTTAATTATCTTATAAATAAAGAAATTATGAATCAATATA
TAATAAAATTGTATTTTGACT
Found at i:7810242 original size:19 final size:18
Alignment explanation
Indices: 7810201--7810242 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
7810191 GTTTAAAATT
7810201 ATTAAATATTAAAATAAA
1 ATTAAATATTAAAATAAA
7810219 A-TAAATATTTTAAAA-AAA
1 ATTAAATA--TTAAAATAAA
7810237 ATTAAA
1 ATTAAA
7810243 ATATAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.29
18 5 0.24
19 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAATATTAAAATAAA
Found at i:7812278 original size:14 final size:14
Alignment explanation
Indices: 7812259--7812286 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7812249 CAGATTATCA
7812259 CATATTTCATTTTT
1 CATATTTCATTTTT
7812273 CATATTTCATTTTT
1 CATATTTCATTTTT
7812287 TACTATATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
CATATTTCATTTTT
Found at i:7814150 original size:13 final size:14
Alignment explanation
Indices: 7814132--7814172 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
7814122 TTTTCAAAGA
7814132 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
7814145 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
7814159 TACGGTTTA-GACT
1 TATGGTTTAGGACT
7814172 T
1 T
7814173 TAGGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:7814263 original size:25 final size:26
Alignment explanation
Indices: 7814229--7814280 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
7814219 TTGTTTGTGG
** *
7814229 TTTATGGGTTTAATTTTTATGGTTAA
1 TTTATGGGTTTAAGATTTACGGTTAA
7814255 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTATGGGTTTAAGATTTACGGTTAA
7814280 T
1 T
7814281 GCGTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.21, T:0.52
Consensus pattern (26 bp):
TTTATGGGTTTAAGATTTACGGTTAA
Found at i:7814356 original size:7 final size:7
Alignment explanation
Indices: 7814344--7814398 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
7814334 GTTAATTGAC
7814344 GGGTTTA
1 GGGTTTA
7814351 GGGTTTA
1 GGGTTTA
* *
7814358 AGTTTTA
1 GGGTTTA
* *
7814365 TGGTTTG
1 GGGTTTA
7814372 GGGTTTA
1 GGGTTTA
7814379 GGGTTTA
1 GGGTTTA
*
7814386 GGG-TAA
1 GGGTTTA
7814392 GGGTTTA
1 GGGTTTA
7814399 TATAGTTTGG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 5 0.13
7 33 0.87
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GGGTTTA
Found at i:7815619 original size:16 final size:16
Alignment explanation
Indices: 7815598--7815629 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7815588 ACTTAGTAAT
7815598 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
7815614 TAAAAGATACAGTTAA
1 TAAAAGATACAGTTAA
7815630 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAGTTAA
Found at i:7816491 original size:12 final size:12
Alignment explanation
Indices: 7816474--7816513 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
7816464 TCTAATACTG
7816474 TTTGTTCATAAA
1 TTTGTTCATAAA
* *
7816486 TTTGTTAATAAT
1 TTTGTTCATAAA
*
7816498 TTTGTTCATAAG
1 TTTGTTCATAAA
7816510 TTTG
1 TTTG
7816514 AAACTGTTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (12 bp):
TTTGTTCATAAA
Found at i:7817725 original size:22 final size:22
Alignment explanation
Indices: 7817695--7817736 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7817685 CGACGCTGTT
7817695 ATATAATACATAACTTACATTA
1 ATATAATACATAACTTACATTA
*
7817717 ATATTATACATAACTTACAT
1 ATATAATACATAACTTACAT
7817737 AACTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAATACATAACTTACATTA
Found at i:7817737 original size:9 final size:9
Alignment explanation
Indices: 7817723--7817942 Score: 92
Period size: 9 Copynumber: 26.2 Consensus size: 9
7817713 ATTAATATTA
7817723 TACATAACT
1 TACATAACT
7817732 TACATAACT
1 TACATAACT
7817741 TA-ATTAA-T
1 TACA-TAACT
*
7817749 TA-AT-ATT
1 TACATAACT
*
7817756 ATACATAAAT
1 -TACATAACT
7817766 TACATAACT
1 TACATAACT
7817775 TA-ATTAA-T
1 TACA-TAACT
*
7817783 TA-AT-ATT
1 TACATAACT
*
7817790 ATACATAAAT
1 -TACATAACT
7817800 TACATAACT
1 TACATAACT
7817809 TA-ATTAA-T
1 TACA-TAACT
*
7817817 TA-AT-ATT
1 TACATAACT
7817824 ATACATAACT
1 -TACATAACT
7817834 TACATAACT
1 TACATAACT
*
7817843 T-C-CAACT
1 TACATAACT
*
7817850 TATATAACT
1 TACATAACT
*
7817859 TAC-TTA--
1 TACATAACT
7817865 TA-ATAACT
1 TACATAACT
7817873 TACATAA--
1 TACATAACT
7817880 TACATATAACT
1 TAC--ATAACT
*
7817891 TTCATAACT
1 TACATAACT
*
7817900 TACATTA--
1 TACATAACT
7817907 TAC--AACT
1 TACATAACT
*
7817914 TATATAACT
1 TACATAACT
7817923 TACATAACT
1 TACATAACT
*
7817932 TACATAGCT
1 TACATAACT
7817941 TA
1 TA
7817943 ATTATACTTA
Statistics
Matches: 164, Mismatches: 18, Indels: 58
0.68 0.08 0.24
Matches are distributed among these distances:
5 1 0.01
6 7 0.04
7 19 0.12
8 26 0.16
9 103 0.63
10 6 0.04
11 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.39
Consensus pattern (9 bp):
TACATAACT
Found at i:7817756 original size:34 final size:34
Alignment explanation
Indices: 7817713--7817843 Score: 244
Period size: 34 Copynumber: 3.9 Consensus size: 34
7817703 CATAACTTAC
*
7817713 ATTAATATTATACATAACTTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
7817747 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
7817781 ATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTAATTA
*
7817815 ATTAATATTATACATAACTTACATAACTT
1 ATTAATATTATACATAAATTACATAACTT
7817844 CCAACTTATA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 95 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (34 bp):
ATTAATATTATACATAAATTACATAACTTAATTA
Found at i:7817761 original size:25 final size:24
Alignment explanation
Indices: 7817732--7817840 Score: 74
Period size: 25 Copynumber: 4.6 Consensus size: 24
7817722 ATACATAACT
7817732 TACATAACTTAATTAATTAATATTA
1 TACATAACTTAA-TAATTAATATTA
* *
7817757 TACATAAATTACATAACTTAAT-TAA
1 TACATAACTTA-ATAA-TTAATATTA
7817782 TTA-AT-A-TT-ATACA-TAA-A-T-
1 -TACATAACTTAATA-ATTAATATTA
7817800 TACATAACTTAATTAATTAATATTA
1 TACATAACTTAA-TAATTAATATTA
7817825 TACATAACTTACATAA
1 TACATAACTTA-ATAA
7817841 CTTCCAACTT
Statistics
Matches: 66, Mismatches: 3, Indels: 30
0.67 0.03 0.30
Matches are distributed among these distances:
17 2 0.03
18 2 0.03
19 1 0.02
20 5 0.08
21 5 0.08
22 6 0.09
23 3 0.05
24 2 0.03
25 31 0.47
26 9 0.14
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (24 bp):
TACATAACTTAATAATTAATATTA
Found at i:7817865 original size:13 final size:14
Alignment explanation
Indices: 7817847--7817875 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7817837 ATAACTTCCA
7817847 ACTTAT-ATAACTT
1 ACTTATAATAACTT
7817860 ACTTATAATAACTT
1 ACTTATAATAACTT
7817874 AC
1 AC
7817876 ATAATACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (14 bp):
ACTTATAATAACTT
Found at i:7817879 original size:23 final size:22
Alignment explanation
Indices: 7817846--7817948 Score: 78
Period size: 23 Copynumber: 5.0 Consensus size: 22
7817836 CATAACTTCC
*
7817846 AACTTATATAACTTACTTATAAT
1 AACTTACATAACTTACTTAT-AT
7817869 AACTTACATAA--TAC--ATAT
1 AACTTACATAACTTACTTATAT
* *
7817887 AACTTTCATAACTTACATTATAC
1 AACTTACATAACTTAC-TTATAT
*
7817910 AACTTATATAACTTAC----AT
1 AACTTACATAACTTACTTATAT
* *
7817928 AACTTACATAGCTTAATTATA
1 AACTTACATAACTTACTTATA
7817949 CTTATTCCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 19
0.69 0.10 0.21
Matches are distributed among these distances:
18 26 0.42
19 2 0.03
20 3 0.05
21 3 0.05
22 1 0.02
23 27 0.44
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.39
Consensus pattern (22 bp):
AACTTACATAACTTACTTATAT
Found at i:7817914 original size:41 final size:40
Alignment explanation
Indices: 7817757--7817949 Score: 114
Period size: 41 Copynumber: 4.7 Consensus size: 40
7817747 ATTAATATTA
* * *
7817757 TACATAAATTACATAACTTA-ATTAATTA-ATATTATACATAAAT
1 TACATAACTTACATAACTTACATT-A-TACA-ACT-TACAT-AAC
*
7817800 TACATAACTTA-ATTAA-TTAATATTATACATAACTTACATAAC
1 TACATAACTTACA-TAACTT-ACATTATAC--AACTTACATAAC
* * * *
7817842 TTC-CAACTTATATAACTTAC-TTATAATAACTTACATAA-
1 TACATAACTTACATAACTTACATTAT-ACAACTTACATAAC
* *
7817880 TACATATAACTTTCATAACTTACATTATACAACTTATATAAC
1 TAC--ATAACTTACATAACTTACATTATACAACTTACATAAC
*
7817922 TTACATAACTTACATAGCTTA-ATTATAC
1 -TACATAACTTACATAACTTACATTATAC
7817950 TTATTCCTAA
Statistics
Matches: 120, Mismatches: 15, Indels: 33
0.71 0.09 0.20
Matches are distributed among these distances:
38 2 0.02
39 11 0.09
40 11 0.09
41 51 0.43
42 16 0.13
43 23 0.19
44 5 0.04
45 1 0.01
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.39
Consensus pattern (40 bp):
TACATAACTTACATAACTTACATTATACAACTTACATAAC
Found at i:7818034 original size:19 final size:17
Alignment explanation
Indices: 7817980--7818044 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 17
7817970 CGTACGACTT
7817980 ACATAACTTAT-TAAT-
1 ACATAACTTATATAATA
*
7817995 ACA-AACTCAGT-TAAT-
1 ACATAACTTA-TATAATA
7818010 ACATAACTTATATAATA
1 ACATAACTTATATAATA
7818027 CGACATAACTTAT-TAATA
1 --ACATAACTTATATAATA
7818045 TATATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 5 0.12
15 12 0.29
16 9 0.21
18 5 0.12
19 11 0.26
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (17 bp):
ACATAACTTATATAATA
Found at i:7818076 original size:9 final size:9
Alignment explanation
Indices: 7818062--7818117 Score: 50
Period size: 9 Copynumber: 6.8 Consensus size: 9
7818052 TTTAAGATGA
*
7818062 TACATATCT
1 TACATAACT
7818071 TACATAACT
1 TACATAACT
*
7818080 TA-TTAA--
1 TACATAACT
7818086 TACATAACT
1 TACATAACT
*
7818095 TATATAA--
1 TACATAACT
7818102 TACATAACT
1 TACATAACT
7818111 TACATAA
1 TACATAA
7818118 TACGACATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 23 0.62
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:7818106 original size:31 final size:30
Alignment explanation
Indices: 7817979--7818137 Score: 105
Period size: 34 Copynumber: 5.1 Consensus size: 30
7817969 CCGTACGACT
*
7817979 TACATAACTTATTAATACA-AACTCAGTTAA
1 TACATAACTTATTAATACATAACTTA-TTAA
7818009 TACATAACTTATATAATACGACATAACTTATTAA
1 TACATAACTTAT-TAAT---ACATAACTTATTAA
* * * *
7818043 TATATATA-TT-TTAAGATGAT-ACATATCT--
1 TACATA-ACTTATTAATA-CATAACTTAT-TAA
7818071 TACATAACTTATTAATACATAACTTATATAA
1 TACATAACTTATTAATACATAACTTAT-TAA
*
7818102 TACATAACTTACATAATACGACATAACTTATTAA
1 TACATAACTTA-TTAAT---ACATAACTTATTAA
7818136 TA
1 TA
7818138 TATTTATGGA
Statistics
Matches: 101, Mismatches: 11, Indels: 30
0.71 0.08 0.21
Matches are distributed among these distances:
27 1 0.01
28 9 0.09
29 17 0.17
30 15 0.15
31 15 0.15
32 7 0.07
33 1 0.01
34 19 0.19
35 17 0.17
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (30 bp):
TACATAACTTATTAATACATAACTTATTAA
Found at i:7818116 original size:40 final size:43
Alignment explanation
Indices: 7818029--7818117 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 43
7818019 ATATAATACG
* * * *
7818029 ACATAACTTATTAATATATATATTTTAAGATGATACATATCTT
1 ACATAACTTATTAATACATATATCTTAAGATAATACATAACTT
*
7818072 ACATAACTTATTAATACATA-A-CTT-ATATAATACATAACTT
1 ACATAACTTATTAATACATATATCTTAAGATAATACATAACTT
7818112 ACATAA
1 ACATAA
7818118 TACGACATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 19 0.46
41 2 0.05
42 1 0.02
43 19 0.46
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (43 bp):
ACATAACTTATTAATACATATATCTTAAGATAATACATAACTT
Found at i:7818120 original size:93 final size:92
Alignment explanation
Indices: 7817976--7818236 Score: 373
Period size: 93 Copynumber: 2.8 Consensus size: 92
7817966 AACCCGTACG
*
7817976 ACTTACATAACTTATTAATACA-AACTCAGTTAATACATAACTTATATAATACGACATAACTTAT
1 ACTTACATAACTTATTAATACATAACTTA-TTAATACATAACTTATATAATACGACATAACTTAT
** *
7818040 TAATATATATAT-TTTAAGATGATACATA
65 TAATATATATATGGATAA-ACGATACATA
* *
7818068 TCTTACATAACTTATTAATACATAACTTATATAATACATAACTTACATAATACGACATAACTTAT
1 ACTTACATAACTTATTAATACATAACTTAT-TAATACATAACTTATATAATACGACATAACTTAT
*
7818133 TAATATATTTATGGATAAACGATACATA
65 TAATATATATATGGATAAACGATACATA
* * *
7818161 ACTTACATAACTTATTAATACTTTTACATTTTTAATACATAACTTATATAATACGACATAACTTA
1 ACTTACATAACTTATTAATAC-ATAAC-TTATTAATACATAACTTATATAATACGACATAACTTA
7818226 TTAATATATAT
64 TTAATATATAT
7818237 CATATGATAA
Statistics
Matches: 151, Mismatches: 13, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
92 22 0.15
93 78 0.52
94 48 0.32
95 3 0.02
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.39
Consensus pattern (92 bp):
ACTTACATAACTTATTAATACATAACTTATTAATACATAACTTATATAATACGACATAACTTATT
AATATATATATGGATAAACGATACATA
Found at i:7818131 original size:19 final size:16
Alignment explanation
Indices: 7818071--7818120 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
7818061 ATACATATCT
*
7818071 TACATAACTTA-TTAA
1 TACATAACTTACATAA
*
7818086 TACATAACTTATATAA
1 TACATAACTTACATAA
7818102 TACATAACTTACATAA
1 TACATAACTTACATAA
7818118 TAC
1 TAC
7818121 GACATAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 11 0.34
16 21 0.66
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:7823133 original size:88 final size:88
Alignment explanation
Indices: 7822984--7823154 Score: 342
Period size: 88 Copynumber: 1.9 Consensus size: 88
7822974 TTTAATAATT
7822984 AACGTACTAATAATTTCATAATGTAGGATCGTGAACGAGTTGGAACAAGTAGTAGGCAGAAACAA
1 AACGTACTAATAATTTCATAATGTAGGATCGTGAACGAGTTGGAACAAGTAGTAGGCAGAAACAA
7823049 AAATTCACGCACACAGCTTGAGA
66 AAATTCACGCACACAGCTTGAGA
7823072 AACGTACTAATAATTTCATAATGTAGGATCGTGAACGAGTTGGAACAAGTAGTAGGCAGAAACAA
1 AACGTACTAATAATTTCATAATGTAGGATCGTGAACGAGTTGGAACAAGTAGTAGGCAGAAACAA
7823137 AAATTCACGCACACAGCT
66 AAATTCACGCACACAGCT
7823155 GCGTTGAGAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (88 bp):
AACGTACTAATAATTTCATAATGTAGGATCGTGAACGAGTTGGAACAAGTAGTAGGCAGAAACAA
AAATTCACGCACACAGCTTGAGA
Found at i:7823946 original size:66 final size:66
Alignment explanation
Indices: 7823799--7823963 Score: 199
Period size: 66 Copynumber: 2.5 Consensus size: 66
7823789 AGCAAATTAC
* * * *
7823799 ACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTGCAGC
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
7823864 T
66 T
* * *
7823865 ACAACTTAAAGCAGATGCTGCAGCGAGAGAAGCTGGGGTTCAACGAAAG-TATGAAGAACTCCAG
1 ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
7823929 C-
65 CT
* * * *
7823930 AGCAGCTTAAAGCAGATGCGGCCGCAAGAGAAGC
1 A-CAACTTAAAGCAGATGCAGCAGCGAGAGAAGC
7823964 AGAGACTGCA
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.14
Consensus pattern (66 bp):
ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
T
Done.