Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 37 of 196
Found at i:10197345 original size:19 final size:19
Alignment explanation
Indices: 10197335--10197371 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10197325 AAATTATTTT
10197335 TTTCTATTTAAATTTAATA
1 TTTCTATTTAAATTTAATA
10197354 TTTCTATTTAAATTTAAT
1 TTTCTATTTAAATTTAAT
10197372 TCTTTCTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTCTATTTAAATTTAATA
Found at i:10197409 original size:18 final size:18
Alignment explanation
Indices: 10197382--10197426 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
10197372 TCTTTCTCAT
* *
10197382 TTTCAATTTTTTTTTTCA
1 TTTCAATTTTTGTCTTCA
*
10197400 TTTCAGTTTTTGTCTTCA
1 TTTCAATTTTTGTCTTCA
10197418 TTTCAATTT
1 TTTCAATTT
10197427 ATAATTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.13, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTCAATTTTTGTCTTCA
Found at i:10197487 original size:6 final size:5
Alignment explanation
Indices: 10197471--10197534 Score: 74
Period size: 5 Copynumber: 11.6 Consensus size: 5
10197461 CATAATCATA
10197471 ATTTC ATTTC ATATTC ATTTAAC ATTTC ATTTC ATTTC ATATTC ATTTAAC
1 ATTTC ATTTC AT-TTC ATTT--C ATTTC ATTTC ATTTC AT-TTC ATTT--C
10197522 ATTTC ATTTC ATT
1 ATTTC ATTTC ATT
10197535 AATTTTTTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
5 33 0.62
6 10 0.19
7 10 0.19
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTTC
Found at i:10197504 original size:28 final size:28
Alignment explanation
Indices: 10197471--10197534 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
10197461 CATAATCATA
10197471 ATTTCATTTCATATTCATTTAACATTTC
1 ATTTCATTTCATATTCATTTAACATTTC
10197499 ATTTCATTTCATATTCATTTAACATTTC
1 ATTTCATTTCATATTCATTTAACATTTC
10197527 ATTTCATT
1 ATTTCATT
10197535 AATTTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.55
Consensus pattern (28 bp):
ATTTCATTTCATATTCATTTAACATTTC
Found at i:10197647 original size:20 final size:22
Alignment explanation
Indices: 10197624--10197672 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10197614 TTTATCTTTT
10197624 TTCAATTCAT-TT-TTTTTCAA
1 TTCAATTCATATTCTTTTTCAA
*
10197644 TTCATTTCATATTCTTTTTCATA
1 TTCAATTCATATTCTTTTTCA-A
10197667 TT-AATT
1 TTCAATT
10197673 AGAAGTAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
22 10 0.42
23 3 0.12
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.61
Consensus pattern (22 bp):
TTCAATTCATATTCTTTTTCAA
Found at i:10197649 original size:15 final size:15
Alignment explanation
Indices: 10197608--10197650 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
10197598 AGTAGTCTCA
* *
10197608 TTTCAATTTATCTTT
1 TTTCAATTCATTTTT
10197623 TTTCAATTCATTTTT
1 TTTCAATTCATTTTT
10197638 TTTCAATTCATTT
1 TTTCAATTCATTT
10197651 CATATTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTCAATTCATTTTT
Found at i:10197739 original size:21 final size:21
Alignment explanation
Indices: 10197697--10197739 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
10197687 TATCAGGGTC
*
10197697 ATTTAAAATTTTTTATATTTT
1 ATTTAAAATTTTTTATAATTT
*
10197718 ATTT-AAATTTTTTCTCAATTT
1 ATTTAAAATTTTTTAT-AATTT
10197739 A
1 A
10197740 AATATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTTAAAATTTTTTATAATTT
Found at i:10197952 original size:6 final size:5
Alignment explanation
Indices: 10197934--10198018 Score: 98
Period size: 5 Copynumber: 15.6 Consensus size: 5
10197924 TTCTTTTTTT
*
10197934 TTTCA TTTCA TTTCTA TTTCTA TTTCA TTTCA TTTGTA TTTCCA TTTCA
1 TTTCA TTTCA TTTC-A TTTC-A TTTCA TTTCA TTT-CA TTT-CA TTTCA
10197983 TTTCA TTTCA TTTCCA TTTCCA TTTCCA TTTCA TTT
1 TTTCA TTTCA TTT-CA TTT-CA TTT-CA TTTCA TTT
10198019 AAATTATTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
5 38 0.51
6 36 0.49
ACGTcount: A:0.18, C:0.21, G:0.01, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:10197959 original size:22 final size:21
Alignment explanation
Indices: 10197934--10198018 Score: 116
Period size: 22 Copynumber: 3.9 Consensus size: 21
10197924 TTCTTTTTTT
*
10197934 TTTCATTTCATTTCTATTTCTA
1 TTTCATTTCATTTC-ATTTCCA
*
10197956 TTTCATTTCATTTGTATTTCCA
1 TTTCATTTCATTT-CATTTCCA
10197978 TTTCATTTCATTTCATTTCCA
1 TTTCATTTCATTTCATTTCCA
10197999 TTTCCATTTCCATTTCATTT
1 TTT-CATTT-CATTTCATTT
10198019 AAATTATTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
21 10 0.18
22 37 0.65
23 10 0.18
ACGTcount: A:0.18, C:0.21, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTCATTTCATTTCATTTCCA
Found at i:10198038 original size:19 final size:21
Alignment explanation
Indices: 10198013--10198058 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
10198003 CATTTCCATT
*
10198013 TCATTTAAA-TTATTTTTTTC
1 TCATTTAAATTTAATTTTTTC
10198033 -CATTTAAATTTAATTTTTTC
1 TCATTTAAATTTAATTTTTTC
10198053 TCATTT
1 TCATTT
10198059 TATTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 10 0.43
21 5 0.22
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (21 bp):
TCATTTAAATTTAATTTTTTC
Found at i:10198065 original size:26 final size:26
Alignment explanation
Indices: 10198034--10198124 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
10198024 ATTTTTTTCC
10198034 ATTTAAATTTAATTTTTTCTCATTTT
1 ATTTAAATTTAATTTTTTCTCATTTT
* ** * *
10198060 ATTTAAATTATCTACCTTTCCATTCATTTC
1 ATTTAAATT-T-AATTTTTTC--TCATTTT
*
10198090 ATTTAAATTTATTTTTTTCTC-TTTT
1 ATTTAAATTTAATTTTTTCTCATTTT
10198115 CATTTAAATT
1 -ATTTAAATT
10198125 ATCTTTCTTC
Statistics
Matches: 49, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
25 3 0.06
26 20 0.41
27 1 0.02
28 9 0.18
29 1 0.02
30 15 0.31
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTAAATTTAATTTTTTCTCATTTT
Found at i:10198139 original size:56 final size:56
Alignment explanation
Indices: 10198033--10198139 Score: 162
Period size: 56 Copynumber: 1.9 Consensus size: 56
10198023 TATTTTTTTC
*
10198033 CATTTAAATTTAATTTTTTCTCATTTTATTTAAATTATCTACCTTTCCATTCATTT
1 CATTTAAATTTAATTTTTTCTCATTTTATTTAAATTATCTACCTTCCCATTCATTT
* **
10198089 CATTTAAATTTATTTTTTTCTC-TTTTCATTTAAATTATCTTTCTTCCCATT
1 CATTTAAATTTAATTTTTTCTCATTTT-ATTTAAATTATCTACCTTCCCATT
10198140 TTAATTTACG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
55 4 0.09
56 42 0.91
ACGTcount: A:0.24, C:0.17, G:0.00, T:0.59
Consensus pattern (56 bp):
CATTTAAATTTAATTTTTTCTCATTTTATTTAAATTATCTACCTTCCCATTCATTT
Found at i:10201305 original size:113 final size:111
Alignment explanation
Indices: 10201100--10201313 Score: 241
Period size: 113 Copynumber: 1.9 Consensus size: 111
10201090 TTGGTTTTTT
* * * *
10201100 TCTACTTGCCAGCACCCAAATTTTTTTTAAAAAAAATTGATGTTGGCCATCAGTATCCCAAAGTA
1 TCTACTAGCCAGCACCAAAATTTTTTTTAAAAAAAATTGATGCTGGCCATCAGTATCCCAAAATA
**
10201165 AAAAAAAAATGCATTGGGAGCTGAAAATTGAACTTGGTGCCGGCCA
66 AAAAAAAAATGCATTGGGAGCCAAAAATTGAACTTGGTGCCGGCCA
* * * * * * *
10201211 TCTACTAGCCAGCACCAAAATTTTTTTTTTACAATACATTGGTGCTGGTCATTAGTGTCCCAAAA
1 TCTACTAGCCAGCACCAAAA--TTTTTTTTAAAAAAAATTGATGCTGGCCATCAGTATCCCAAAA
* * * *
10201276 TAAAAAAAAATTTCCTTGGG-GACCAAAAATTGTACTTG
64 TAAAAAAAAAATGCATTGGGAG-CCAAAAATTGAACTTG
10201314 ACATTTTTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
111 18 0.22
112 1 0.01
113 64 0.77
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (111 bp):
TCTACTAGCCAGCACCAAAATTTTTTTTAAAAAAAATTGATGCTGGCCATCAGTATCCCAAAATA
AAAAAAAAATGCATTGGGAGCCAAAAATTGAACTTGGTGCCGGCCA
Found at i:10201340 original size:137 final size:138
Alignment explanation
Indices: 10201196--10201449 Score: 354
Period size: 139 Copynumber: 1.8 Consensus size: 138
10201186 TGAAAATTGA
* * *
10201196 ACTTGGTGCCGGCCATCTAC-TAGCCAGCACC-AAAATTTT-TTTTTTACAATACATTGGTGCTG
1 ACTTGGTGCCGACCAT-TACATAGCCAGCACCAAAAATTTTATTTTTTA-AATACACTGGTGCAG
* * * *
10201258 GTCATTAGTGTCCCAAAATAAAAAAAAA-TTTCCTTGGGGACCAAAAATTGTACTTGACATTTTT
64 GCCATCAGTGTCCCAAAATAAAAAAAAAGTGT-CTTGGGAACCAAAAATTGTACTTGACATTTTT
10201322 TTATTAAATGT
128 TTATTAAATGT
*
10201333 ACTTGGTGCCGACCATTACATAGCCATCACCAAAAATTTTAATTTTTTAAATACACTGGTGCAGG
1 ACTTGGTGCCGACCATTACATAGCCAGCACCAAAAATTTT-ATTTTTTAAATACACTGGTGCAGG
* *
10201398 CCATCAGTGTCCCAAAGTAAAAAAAAAGTGTCTTGGGAACCGAAAATTGTAC
65 CCATCAGTGTCCCAAAATAAAAAAAAAGTGTCTTGGGAACCAAAAATTGTAC
10201450 CTGGTGCCGG
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
136 3 0.03
137 25 0.25
138 8 0.08
139 57 0.56
140 9 0.09
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.31
Consensus pattern (138 bp):
ACTTGGTGCCGACCATTACATAGCCAGCACCAAAAATTTTATTTTTTAAATACACTGGTGCAGGC
CATCAGTGTCCCAAAATAAAAAAAAAGTGTCTTGGGAACCAAAAATTGTACTTGACATTTTTTTA
TTAAATGT
Found at i:10204288 original size:5 final size:6
Alignment explanation
Indices: 10204272--10204296 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10204262 GGAAGTAGTC
10204272 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
10204297 AAATATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:10208520 original size:98 final size:98
Alignment explanation
Indices: 10208346--10208542 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
10208336 GTACAATAAA
* *
10208346 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
10208411 CCTCTAGAATCCCAAACTCGGAATATTTCGTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
10208444 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACATCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
10208509 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
10208542 A
1 A
10208543 TAATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:10210860 original size:44 final size:43
Alignment explanation
Indices: 10210805--10210909 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 43
10210795 CTCTCTGCAT
* * * *
10210805 CTTCAGAGAGATAAGATATGAGGTTTTAATCCACTCCACTGTAA
1 CTTCAGGGAGATAAGATAT-AGGCTTTAATCCACTCCACCGCAA
* * ***
10210849 CTTCAGGGAGATAGGATTATCGGCTTTAATCTGTTCCACCGCAA
1 CTTCAGGGAGATAAGA-TATAGGCTTTAATCCACTCCACCGCAA
10210893 CTTCAGGGAGATAAGAT
1 CTTCAGGGAGATAAGAT
10210910 TTGCCATCTT
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
43 1 0.02
44 46 0.92
45 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (43 bp):
CTTCAGGGAGATAAGATATAGGCTTTAATCCACTCCACCGCAA
Found at i:10210953 original size:45 final size:46
Alignment explanation
Indices: 10210878--10210996 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 46
10210868 TCGGCTTTAA
* * * *
10210878 TCTGTTCCACCGCAACTTC-AGGGAGATAAGATTTGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAAGAGAGATAAGACTTGCCATGCTT-AG
**
10210923 TCTGC-CTCACTGCAACTTCAAGAG-GATAAGACTTGCTTTGCTTAG
1 TCTGCTC-CACTGCAACTTCAAGAGAGATAAGACTTGCCATGCTTAG
*
10210968 TCTGCTCCACTGCAACTTC-AGGGAGATAA
1 TCTGCTCCACTGCAACTTCAAGAGAGATAA
10210997 AACTACATGC
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
44 4 0.06
45 51 0.82
46 7 0.11
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (46 bp):
TCTGCTCCACTGCAACTTCAAGAGAGATAAGACTTGCCATGCTTAG
Found at i:10211147 original size:45 final size:46
Alignment explanation
Indices: 10211075--10211196 Score: 153
Period size: 45 Copynumber: 2.7 Consensus size: 46
10211065 CGGCTTTAAT
*
10211075 CTGCTCCACTGCAACTTCA-GAGAGATAAGATTTGCCATCTTCAGC
1 CTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCCATCTTCAGC
** * * *
10211120 CTGC-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTTGTTTAGT
1 CTGCTC-CACTGCAACTTCAGGAGAGATAAGACTTGCCATCTTCAGC
10211165 CTGCTCCACTGCAACTTCAGG-GAGATAAGACT
1 CTGCTCCACTGCAACTTCAGGAGAGATAAGACT
10211197 AGATATGATC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 2 0.03
45 61 0.91
46 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (46 bp):
CTGCTCCACTGCAACTTCAGGAGAGATAAGACTTGCCATCTTCAGC
Found at i:10212427 original size:31 final size:31
Alignment explanation
Indices: 10212389--10212447 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
10212379 TAACTGAGTC
10212389 TGAATTTACAGGATTCGGAAGATTTTTGTCA
1 TGAATTTACAGGATTCGGAAGATTTTTGTCA
10212420 TGAATTTACAGGATTCGGAAGATTTTTG
1 TGAATTTACAGGATTCGGAAGATTTTTG
10212448 CCATCCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (31 bp):
TGAATTTACAGGATTCGGAAGATTTTTGTCA
Found at i:10222676 original size:98 final size:98
Alignment explanation
Indices: 10222497--10222693 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
10222487 GTACAATAAA
* *
10222497 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
* *
10222562 CCTCTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
10222595 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
10222660 CC-CTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTC-TAAAATCCCAAACTCGGAATATTTCCTTT
10222693 A
1 A
10222694 TAATTTTTAA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 92 0.99
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTCAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:10226605 original size:14 final size:14
Alignment explanation
Indices: 10226586--10226612 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10226576 CTTTTTCACA
10226586 AAACTTTATTGGAC
1 AAACTTTATTGGAC
10226600 AAACTTTATTGGA
1 AAACTTTATTGGA
10226613 ATTTGGTTTC
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:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (14 bp):
AAACTTTATTGGAC
Found at i:10227653 original size:20 final size:23
Alignment explanation
Indices: 10227628--10227684 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
10227618 TATTGTTAAT
10227628 ATTTTAATATTT-TAA-T-ATTA
1 ATTTTAATATTTCTAAGTAATTA
10227648 ATTTTAAATATTTCTAAGTAATTA
1 ATTTT-AATATTTCTAAGTAATTA
*
10227672 ATATTAATTATTT
1 ATTTTAA-TATTT
10227685 ATTAAATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 5 0.16
21 7 0.23
22 3 0.10
23 3 0.10
24 13 0.42
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTTAATATTTCTAAGTAATTA
Found at i:10227721 original size:19 final size:20
Alignment explanation
Indices: 10227686--10227746 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
10227676 TAATTATTTA
* *
10227686 TTAAATTTAAT-TAAAATAT
1 TTAAATATAATATTAAATAT
10227705 TTAAACTAT-AT-TTAAATAT
1 TTAAA-TATAATATTAAATAT
10227724 TTAAATATAATAATTAAATAT
1 TTAAATATAAT-ATTAAATAT
10227745 TT
1 TT
10227747 GTAATTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
18 3 0.08
19 21 0.58
20 2 0.06
21 10 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAATATAATATTAAATAT
Found at i:10232599 original size:27 final size:27
Alignment explanation
Indices: 10232537--10232600 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 27
10232527 GGACTACCAT
* * *
10232537 AGGCGGCACCAATGGTGCCAATGGCAA
1 AGGCAGCACCAAAGGTGCCAATGCCAA
* * *
10232564 AGGCTGCACCAAAGGTGCCACTGCCAC
1 AGGCAGCACCAAAGGTGCCAATGCCAA
*
10232591 AGTCAGCACC
1 AGGCAGCACC
10232601 TGTAACACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.33, G:0.28, T:0.11
Consensus pattern (27 bp):
AGGCAGCACCAAAGGTGCCAATGCCAA
Found at i:10232835 original size:20 final size:20
Alignment explanation
Indices: 10232805--10232842 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10232795 TCTAACTTGA
10232805 AATTCTATCAATTTAATCCCT
1 AATTCTATCAA-TTAATCCCT
10232826 AATT-TATCAATTAATCC
1 AATTCTATCAATTAATCC
10232843 AACATGAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTCTATCAATTAATCCCT
Found at i:10233367 original size:13 final size:13
Alignment explanation
Indices: 10233349--10233374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10233339 ACTAACTTCG
10233349 TAAATATTTATGA
1 TAAATATTTATGA
10233362 TAAATATTTATGA
1 TAAATATTTATGA
10233375 GTCCAATTTA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TAAATATTTATGA
Found at i:10234099 original size:158 final size:158
Alignment explanation
Indices: 10233805--10234285 Score: 716
Period size: 158 Copynumber: 3.0 Consensus size: 158
10233795 TACGAAAAGA
** * *
10233805 AACAAAAAACAAAAATAGTATATTTACTGAAAGTAATAAAATTTGAAAAAAAGAAGAAGAAAAAT
1 AACAAAAAACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTG-----AA-AATAAGAAAAAT
*
10233870 ACGAACAAAGGGCCAAAATAAGGGTTTTTCACTAAATTTATATAAAAAACACACTAAAATAATAC
60 ACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATAC
10233935 ATTTCAAACATTATGTACAAAAATAATATAAAAT
125 ATTTCAAACATTATGTACAAAAATAATATAAAAT
* *
10233969 AACAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
1 AACAAAAAACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
10234034 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCA
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCA
* *
10234099 AACATTATGTACTAAAATAAAATAAAAT
131 AACATTATGTACAAAAATAATATAAAAT
* * *
10234127 AA-ATAGACACAAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAA
1 AACA-AAAAACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAA
* * *
10234191 CAAATGACCAAAATGAA-GGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATACATTT
65 CAAAGGGCCAAAAT-AAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTT
*
10234255 CAAACTTTATGTA-ATAAAATAATATAAAAT
129 CAAACATTATGTACA-AAAATAATATAAAAT
10234285 A
1 A
10234286 TAAAGTTTAA
Statistics
Matches: 295, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
157 1 0.00
158 250 0.85
159 4 0.01
164 40 0.14
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (158 bp):
AACAAAAAACAAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCA
AACATTATGTACAAAAATAATATAAAAT
Found at i:10234390 original size:16 final size:16
Alignment explanation
Indices: 10234366--10234427 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
10234356 TTGTTCGTAT
* *
10234366 TTTTCTTATTTTCGGA
1 TTTTATTATTTTCGAA
*
10234382 TTTTATTATTTTCAAAAA
1 TTTTATTATTTTC--GAA
* * *
10234400 ATATATTATTTTCGTA
1 TTTTATTATTTTCGAA
10234416 TTTTATTATTTT
1 TTTTATTATTTT
10234428 ATATTATTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
16 23 0.66
18 12 0.34
ACGTcount: A:0.26, C:0.06, G:0.05, T:0.63
Consensus pattern (16 bp):
TTTTATTATTTTCGAA
Found at i:10234554 original size:129 final size:128
Alignment explanation
Indices: 10234300--10234555 Score: 363
Period size: 129 Copynumber: 2.0 Consensus size: 128
10234290 GTTTAAAATG
10234300 TATTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGCAATTTGTTCGTA
1 TATTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGCAATTTGTTCGTA
* *
10234365 TTTTTCTTATTTTCGGATTTTATTATTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTA
66 TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCG-ATTTTATTATTTTA
* * * * *
10234429 TATTATTTTAGTGTGTTTTTTATATAAATTTAGTGAAAAACCCTTATTTTGGCCATTTTTTCGTA
1 TATTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGCAATTTGTTCGTA
* * **
10234494 TTTTTCTTTTTTTTTTTGGATTTTATTACTTTCAGTAAATATACTATTTTC-ATTTT-TTATTT
66 TTTTTC---TTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGATTTTATTATTT
10234556 CTTTTTGTAT
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
129 72 0.64
130 5 0.04
132 36 0.32
ACGTcount: A:0.26, C:0.08, G:0.09, T:0.57
Consensus pattern (128 bp):
TATTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTCATTTTGGCAATTTGTTCGTA
TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGATTTTATTATTTTA
Found at i:10251508 original size:3 final size:3
Alignment explanation
Indices: 10251502--10251613 Score: 50
Period size: 3 Copynumber: 36.7 Consensus size: 3
10251492 CTTATATCTT
* * * * *
10251502 TAA TAA T-A CAA TAA TAA TAC TTA TAA TATT TAA TAA TAA T-A CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * * *
10251546 TAA TAA AAA TATT TAA TAA TATT TAA TAA TATT TAA TAA TATT TAA TAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TA-A TAA TAA TA-A TAA TAA
* *
10251595 TAA T-A CAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA TA
10251614 TGTTTAACAA
Statistics
Matches: 77, Mismatches: 24, Indels: 16
0.66 0.21 0.14
Matches are distributed among these distances:
2 3 0.04
3 64 0.83
4 10 0.13
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:10251518 original size:11 final size:11
Alignment explanation
Indices: 10251502--10251551 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
10251492 CTTATATCTT
10251502 TAATAATACAA
1 TAATAATACAA
*
10251513 TAATAATACTTA
1 TAATAATAC-AA
**
10251525 TAAT-ATTTAA
1 TAATAATACAA
10251535 TAATAATACAA
1 TAATAATACAA
10251546 TAATAA
1 TAATAA
10251552 AAATATTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
10 5 0.16
11 21 0.68
12 5 0.16
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAATACAA
Found at i:10251529 original size:9 final size:10
Alignment explanation
Indices: 10251484--10251596 Score: 71
Period size: 10 Copynumber: 11.8 Consensus size: 10
10251474 ATATGTTGAA
10251484 TAATAATACT
1 TAATAATACT
10251494 T-AT-AT-CTT
1 TAATAATAC-T
*
10251502 TAATAATACAA
1 TAATAATAC-T
10251513 TAATAATACT
1 TAATAATACT
*
10251523 T-ATAATATT
1 TAATAATACT
*
10251532 TAATAATAAT
1 TAATAATACT
*
10251542 ACAATAATA--
1 -TAATAATACT
*
10251551 -AA-AATATT
1 TAATAATACT
*
10251559 TAATAATATT
1 TAATAATACT
*
10251569 TAATAATATT
1 TAATAATACT
*
10251579 TAATAATATT
1 TAATAATACT
10251589 TAATAATA
1 TAATAATA
10251597 ATACAATAAT
Statistics
Matches: 87, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
6 4 0.05
7 3 0.03
8 4 0.05
9 14 0.16
10 45 0.52
11 17 0.20
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (10 bp):
TAATAATACT
Found at i:10251536 original size:30 final size:30
Alignment explanation
Indices: 10251482--10251576 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 30
10251472 AAATATGTTG
*
10251482 AATAATAATACTTAT-ATCTTTAATAATAC
1 AATAATAATACTTATAATATTTAATAATAC
10251511 AATAATAATACTTATAATATTTAATAATAATAC
1 AATAATAATACTTATAATA-TT--TAATAATAC
*
10251544 AATAATAAAAATATTTAATAATATTTAATAATA
1 AATAAT---AATACTT-ATAATATTTAATAATA
10251577 TTTAATAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
29 15 0.27
30 2 0.04
31 2 0.04
33 15 0.27
34 8 0.14
36 8 0.14
37 6 0.11
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (30 bp):
AATAATAATACTTATAATATTTAATAATAC
Found at i:10251539 original size:10 final size:10
Alignment explanation
Indices: 10251513--10251596 Score: 97
Period size: 10 Copynumber: 8.8 Consensus size: 10
10251503 AATAATACAA
*
10251513 TAATAATACT
1 TAATAATATT
10251523 T-ATAATATT
1 TAATAATATT
*
10251532 TAATAATAATA
1 TAATAAT-ATT
*
10251543 CAATAATA--
1 TAATAATATT
10251551 -AA-AATATT
1 TAATAATATT
10251559 TAATAATATT
1 TAATAATATT
10251569 TAATAATATT
1 TAATAATATT
10251579 TAATAATATT
1 TAATAATATT
10251589 TAATAATA
1 TAATAATA
10251597 ATACAATAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
9 10 0.15
10 41 0.63
11 8 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (10 bp):
TAATAATATT
Found at i:10251561 original size:57 final size:57
Alignment explanation
Indices: 10251500--10251614 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
10251490 TACTTATATC
10251500 TTTAATAATACAATAATAATACTT-ATAATATTTAATAATAATACAATAATAAAAATA
1 TTTAATAATA-AATAATAATACTTAATAATATTTAATAATAATACAATAATAAAAATA
** *
10251557 TTTAATAATATTTAATAATATTTAATAATATTTAATAATAATACAATAATAAAAATA
1 TTTAATAATAAATAATAATACTTAATAATATTTAATAATAATACAATAATAAAAATA
10251614 T
1 T
10251615 GTTTAACAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 10 0.19
57 44 0.81
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (57 bp):
TTTAATAATAAATAATAATACTTAATAATATTTAATAATAATACAATAATAAAAATA
Found at i:10251587 original size:30 final size:29
Alignment explanation
Indices: 10251483--10251607 Score: 109
Period size: 30 Copynumber: 4.3 Consensus size: 29
10251473 AATATGTTGA
* *
10251483 ATAATAATACTT-AT-ATCTTTAATAATACA
1 ATAATAATA-TTAATAATATTTAATAATA-T
10251512 ATAATAATACTT-ATAATATTTAATAATAAT
1 ATAATAATA-TTAATAATATTTAATAAT-AT
*
10251542 ACAATAATA--AA-AATATTTAATAATAT
1 ATAATAATATTAATAATATTTAATAATAT
*
10251568 TTAATAATATTTAATAATATTTAATAATAAT
1 ATAATAATA-TTAATAATATTTAATAAT-AT
*
10251599 ACAATAATA
1 ATAATAATA
10251608 AAAATATGTT
Statistics
Matches: 81, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
26 9 0.11
27 13 0.16
28 1 0.01
29 16 0.20
30 32 0.40
31 10 0.12
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (29 bp):
ATAATAATATTAATAATATTTAATAATAT
Found at i:10255856 original size:29 final size:29
Alignment explanation
Indices: 10255780--10255860 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
10255770 ATTTGTTAAT
* * *
10255780 GCACTTCGGTGCCACTCTGTTTTGATAAA
1 GCACTTCGATGCCACTCTATTCTGATAAA
** * **
10255809 GCACTTCGATGTTATTCTATTCTGATATT
1 GCACTTCGATGCCACTCTATTCTGATAAA
*
10255838 GTACTTCGATGCCACTCTATTCT
1 GCACTTCGATGCCACTCTATTCT
10255861 ATGATTATAC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (29 bp):
GCACTTCGATGCCACTCTATTCTGATAAA
Found at i:10257213 original size:45 final size:46
Alignment explanation
Indices: 10257162--10257298 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 46
10257152 TATGTGTTCT
10257162 CATGTAAGACCACGTCTGGGACGATGGCATCGATATATGTGATTA-
1 CATGTAAGACCACGTCTGGGACGATGGCATCGATATATGTGATTAG
* * *
10257207 CGTGTAAGACC-CTGT-TCGGGAC-AGTGGCACCG--ATATGAGA-TAG
1 CATGTAAGACCAC-GTCT-GGGACGA-TGGCATCGATATATGTGATTAG
*
10257250 CATGTAAGACCACGTCTGGGACGTTGGCATTGTTCGATATATGTGATTA
1 CATGTAAGACCACGTCTGGGACGATGGCA----TCGATATATGTGATTA
10257299 TCCGAGTATC
Statistics
Matches: 71, Mismatches: 7, Indels: 23
0.70 0.07 0.23
Matches are distributed among these distances:
42 2 0.03
43 29 0.41
44 5 0.07
45 24 0.34
47 2 0.03
49 7 0.10
50 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.27
Consensus pattern (46 bp):
CATGTAAGACCACGTCTGGGACGATGGCATCGATATATGTGATTAG
Found at i:10261209 original size:22 final size:23
Alignment explanation
Indices: 10261183--10261226 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
10261173 AATCCTTAAA
*
10261183 AAATAAATATTAAA-ACTAAAAC
1 AAATAAATACTAAATACTAAAAC
10261205 AAATAAATACTAAATACTAAAA
1 AAATAAATACTAAATACTAAAA
10261227 TATTCATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATAAATACTAAATACTAAAAC
Found at i:10267173 original size:40 final size:40
Alignment explanation
Indices: 10267142--10267219 Score: 95
Period size: 42 Copynumber: 1.9 Consensus size: 40
10267132 GATTTGTGTC
* *
10267142 CACGTAAGC-AAATCGCGCTGACGTGGACGCGATGTCCTGA
1 CACGTAACCGAAATCGCGCTGACGTGGACGCGAT-TTCTGA
* *
10267182 CACGTACCCTGACATCGCGCTGACGTGGACGCGATTTC
1 CACGTAACC-GAAATCGCGCTGACGTGGACGCGATTTC
10267220 GCGAAAATGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.22
41 2 0.06
42 23 0.72
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (40 bp):
CACGTAACCGAAATCGCGCTGACGTGGACGCGATTTCTGA
Found at i:10268441 original size:30 final size:30
Alignment explanation
Indices: 10268414--10268483 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
10268404 TGTATAAAGT
10268414 ATATAAAAAATTAGAAAAGTAAAATAAAAA
1 ATATAAAAAATTAGAAAAGTAAAATAAAAA
10268444 ATATAAAAAATTAGAAAAGTAAAATAAAAA
1 ATATAAAAAATTAGAAAAGTAAAATAAAAA
10268474 ATATAAAAAA
1 ATATAAAAAA
10268484 GTATATACGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (30 bp):
ATATAAAAAATTAGAAAAGTAAAATAAAAA
Found at i:10268470 original size:21 final size:22
Alignment explanation
Indices: 10268446--10268486 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10268436 AATAAAAAAT
*
10268446 ATAAAAAAT-TAGAAAAGTAAA
1 ATAAAAAATATAAAAAAGTAAA
10268467 ATAAAAAATATAAAAAAGTA
1 ATAAAAAATATAAAAAAGTA
10268487 TATACGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (22 bp):
ATAAAAAATATAAAAAAGTAAA
Found at i:10268650 original size:12 final size:12
Alignment explanation
Indices: 10268633--10268673 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
10268623 AATACAAAGG
*
10268633 TAATGATAGTAA
1 TAATGATAATAA
10268645 TAATGATAATATA
1 TAATGATAATA-A
10268658 TAAT-ATAATAA
1 TAATGATAATAA
10268669 TAATG
1 TAATG
10268674 TTTTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 5 0.19
12 16 0.62
13 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAATGATAATAA
Found at i:10269810 original size:5 final size:5
Alignment explanation
Indices: 10269802--10269826 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10269792 ATTTAATTTT
10269802 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
10269827 ATAAACAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:10275705 original size:26 final size:26
Alignment explanation
Indices: 10275650--10275706 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
10275640 TCTAAAATTA
* ** *
10275650 AAAG-ATAAATAAATTTGGAATAATT
1 AAAGAATAAAAAAATTAAGAATAAAT
*
10275675 TAAGAATAAAAAAATTAAGAATAAAT
1 AAAGAATAAAAAAATTAAGAATAAAT
10275701 AAAGAA
1 AAAGAA
10275707 AGATGGAAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.25
Consensus pattern (26 bp):
AAAGAATAAAAAAATTAAGAATAAAT
Found at i:10277575 original size:17 final size:16
Alignment explanation
Indices: 10277534--10277577 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
10277524 TACCCAAAAC
*
10277534 AAATTATAAATTTATAA
1 AAATTATAAATATAT-A
*
10277551 AAAATATAAATATATA
1 AAATTATAAATATATA
10277567 AAATGTATAAA
1 AAAT-TATAAA
10277578 AAAATTGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AAATTATAAATATATA
Found at i:10278683 original size:23 final size:23
Alignment explanation
Indices: 10278652--10278707 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
10278642 TCTTTGTATA
* *
10278652 TTTA-AAATTTAGTATTTTTATT
1 TTTATAAATTTAGTATCTCTATT
*
10278674 TTTATAAATTTAGTCTCTCTATT
1 TTTATAAATTTAGTATCTCTATT
10278697 TTT-TAAATTTA
1 TTTATAAATTTA
10278708 AAAGTTCAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTATAAATTTAGTATCTCTATT
Found at i:10284398 original size:19 final size:19
Alignment explanation
Indices: 10284362--10284422 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
10284352 GTTTCCTGCA
*
10284362 AAAATAAAA-A-TGAAAAT
1 AAAATAAAATAGTAAAAAT
10284379 AAAATAAAATAGTAAAAAT
1 AAAATAAAATAGTAAAAAT
* *
10284398 -AAATAATAATAGGAAAATT
1 AAAATAA-AATAGTAAAAAT
10284417 AAAATA
1 AAAATA
10284423 TTTTTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 9 0.24
18 7 0.19
19 16 0.43
20 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (19 bp):
AAAATAAAATAGTAAAAAT
Found at i:10292392 original size:22 final size:22
Alignment explanation
Indices: 10292363--10292415 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
10292353 TAAATTCAGA
*
10292363 TAAA-TAAAAAAATTCAAATGT
1 TAAATTAAAAAAATTCAAATAT
**
10292384 TAAATTAAAAAGGTTCAAATAT
1 TAAATTAAAAAAATTCAAATAT
*
10292406 CAAATTAAAA
1 TAAATTAAAA
10292416 TCCCTTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (22 bp):
TAAATTAAAAAAATTCAAATAT
Found at i:10295438 original size:30 final size:30
Alignment explanation
Indices: 10295404--10295507 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 30
10295394 TATCTATAAT
10295404 TAAATTTGAGGATCAAATTGATTGAATTTG
1 TAAATTTGAGGATCAAATTGATTGAATTTG
* * * * *
10295434 TAAATGTGAAGGGTTAAATTTATTGAATTATT
1 TAAATTTG-AGGATCAAATTGATTGAATT-TG
* *
10295466 TAGAA-TT-AGGATCAAATTGATAGAATATG
1 TA-AATTTGAGGATCAAATTGATTGAATTTG
*
10295495 TAAGTATTGAGGA
1 TAAAT-TTGAGGA
10295508 CTAAATCTAT
Statistics
Matches: 55, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
28 1 0.02
29 3 0.05
30 24 0.44
31 21 0.38
32 4 0.07
33 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.21, T:0.38
Consensus pattern (30 bp):
TAAATTTGAGGATCAAATTGATTGAATTTG
Found at i:10298664 original size:20 final size:20
Alignment explanation
Indices: 10298639--10298688 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10298629 TGGCTTAAAA
10298639 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10298659 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10298676 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10298689 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10303292 original size:20 final size:20
Alignment explanation
Indices: 10303267--10303316 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10303257 TGGCTTAAAA
10303267 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10303287 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10303304 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10303317 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10306603 original size:5 final size:5
Alignment explanation
Indices: 10306593--10306674 Score: 121
Period size: 5 Copynumber: 16.2 Consensus size: 5
10306583 TGAAGTTTTC
* *
10306593 TCGAA TCGAA TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA -TCGAA TCGAA TCGAA TCGAA TCGAA
10306644 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
10306675 ATATTTGTTC
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
4 2 0.03
5 63 0.89
6 6 0.08
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (5 bp):
TCGAA
Found at i:10315149 original size:18 final size:17
Alignment explanation
Indices: 10315128--10315173 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
10315118 TTTTTTAAGA
10315128 GTTTAAGGTTTTTCTAGG
1 GTTT-AGGTTTTTCTAGG
*
10315146 GTTTAGGATTTTTGTAGG
1 GTTTAGG-TTTTTCTAGG
10315164 GTTTAGGTTT
1 GTTTAGGTTT
10315174 GGAAATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.15, C:0.02, G:0.30, T:0.52
Consensus pattern (17 bp):
GTTTAGGTTTTTCTAGG
Found at i:10320808 original size:16 final size:16
Alignment explanation
Indices: 10320771--10320808 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10320761 AAAGTTTTTA
10320771 TTTTTTCTGTTTCTCC
1 TTTTTTCTGTTTCTCC
* *
10320787 TATTTTCTTTTTCTCC
1 TTTTTTCTGTTTCTCC
10320803 TTTTTT
1 TTTTTT
10320809 TCTCTGCCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTCTGTTTCTCC
Found at i:10328546 original size:28 final size:27
Alignment explanation
Indices: 10328479--10328546 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
10328469 TTTTGTGTGC
* * * * *
10328479 GCCACAAAGGCGTTCTTTTCTTCATTT
1 GCCACAAAGGCTTTCTTTCCTTAAATA
10328506 GCCAC-AAGAGCTTTCCTTTCCTTAAATA
1 GCCACAAAG-GCTTT-CTTTCCTTAAATA
10328534 GCCACAAAGGCTT
1 GCCACAAAGGCTT
10328547 CTATATCATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 3 0.09
27 9 0.27
28 18 0.55
29 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.32
Consensus pattern (27 bp):
GCCACAAAGGCTTTCTTTCCTTAAATA
Found at i:10328568 original size:27 final size:27
Alignment explanation
Indices: 10328534--10328634 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
10328524 TCCTTAAATA
* *
10328534 GCCACAAAGGCTTCTATATCATAGATT
1 GCCACAAAGACTTCTATTTCATAGATT
* *
10328561 GCCACAAAAACTTCTATTTTATAGATT
1 GCCACAAAGACTTCTATTTCATAGATT
* *
10328588 GCCACAAAGACTTCCATTTCATAAATT
1 GCCACAAAGACTTCTATTTCATAGATT
* *
10328615 GTCACCAAAGGCTTCTATTT
1 GCCA-CAAAGACTTCTATTT
10328635 TCTAGCGCAT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 49 0.79
28 13 0.21
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (27 bp):
GCCACAAAGACTTCTATTTCATAGATT
Found at i:10330469 original size:41 final size:41
Alignment explanation
Indices: 10330324--10330467 Score: 216
Period size: 41 Copynumber: 3.5 Consensus size: 41
10330314 GACTTTTGGT
* * *
10330324 CTGCTAGACTTAAAGTCCGAAATGTTTCACCGGTATCAAGC
1 CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
*
10330365 CTGCTAGACATAAAGTCTGAAATGTTTCACCGACATCAAGC
1 CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
* *
10330406 CTGCTAGACATAAAGTCTGAATTGTTTCACCGGCATCTAGC
1 CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
* *
10330447 CTACTAGACATAGAGTCTGAA
1 CTGCTAGACATAAAGTCTGAA
10330468 TTATCTCACT
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (41 bp):
CTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCAAGC
Found at i:10342670 original size:3 final size:3
Alignment explanation
Indices: 10342657--10342705 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
10342647 TCATGATACC
*
10342657 ATT ATTT ATT ATT A-T ATT ATTT ATT ATT ATC ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
10342703 ATT
1 ATT
10342706 TCTATATTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:10342677 original size:15 final size:16
Alignment explanation
Indices: 10342656--10342701 Score: 78
Period size: 15 Copynumber: 3.0 Consensus size: 16
10342646 ATCATGATAC
10342656 CATTATTTATTATTAT
1 CATTATTTATTATTAT
10342672 -ATTATTTATTATTAT
1 CATTATTTATTATTAT
10342687 CATTA-TTATTATTAT
1 CATTATTTATTATTAT
10342702 TATTTCTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 25 0.86
16 4 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
CATTATTTATTATTAT
Found at i:10342759 original size:22 final size:23
Alignment explanation
Indices: 10342733--10342815 Score: 89
Period size: 22 Copynumber: 3.7 Consensus size: 23
10342723 GCATTGTTTT
10342733 TTTTATATAATATATATGCATT-
1 TTTTATATAATATATATGCATTA
* * *
10342755 TTTTATATAGTATACACGCATTA
1 TTTTATATAATATATATGCATTA
* *
10342778 TTTT-TATTATATATATGCATTTC
1 TTTTATATAATATATATGCA-TTA
*
10342801 TTTTATATAGTATAT
1 TTTTATATAATATAT
10342816 GTATACCTGT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
22 30 0.62
23 10 0.21
24 8 0.17
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (23 bp):
TTTTATATAATATATATGCATTA
Found at i:10346079 original size:13 final size:13
Alignment explanation
Indices: 10346061--10346085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10346051 GCTTCCACGT
10346061 TGCATTGCCTTGA
1 TGCATTGCCTTGA
10346074 TGCATTGCCTTG
1 TGCATTGCCTTG
10346086 TCACATCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (13 bp):
TGCATTGCCTTGA
Found at i:10346090 original size:54 final size:54
Alignment explanation
Indices: 10346020--10346126 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
10346010 GCTTTAACTT
* *
10346020 TGCATTGTCTTCTCACATCATGATCATGGTTGCTTCCACGTTGCATTGCCTTGA
1 TGCATTGCCTTCTCACATCATGAACATGGTTGCTTCCACGTTGCATTGCCTTGA
* * * *
10346074 TGCATTGCCTTGTCACATCATGAACATGGTTGGTTTCACGTTGCATTGTCTTG
1 TGCATTGCCTTCTCACATCATGAACATGGTTGCTTCCACGTTGCATTGCCTTG
10346127 TCACATCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (54 bp):
TGCATTGCCTTCTCACATCATGAACATGGTTGCTTCCACGTTGCATTGCCTTGA
Found at i:10346162 original size:44 final size:41
Alignment explanation
Indices: 10346074--10346162 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 41
10346064 ATTGCCTTGA
* *
10346074 TGCATTGCCTTGTCACATCATGAACATGGTTGGTTTCACGT
1 TGCATTGCCTTGTCACATCATGAACATGGTTGCTTCCACGT
*
10346115 TGCATTGTCTTGTCACATCATTGATTTA-ATGGTTGCTTCCACGT
1 TGCATTGCCTTGTCACATCA-TGA---ACATGGTTGCTTCCACGT
10346159 TGCA
1 TGCA
10346163 ATATTTTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 19 0.46
42 3 0.07
44 18 0.44
45 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
TGCATTGCCTTGTCACATCATGAACATGGTTGCTTCCACGT
Found at i:10355876 original size:6 final size:6
Alignment explanation
Indices: 10355865--10355892 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
10355855 AGAGAGCAAA
10355865 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
10355893 GCAGTGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:10356545 original size:14 final size:14
Alignment explanation
Indices: 10356526--10356570 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
10356516 GTTGAAACAG
10356526 AAGAAACAAAGACA
1 AAGAAACAAAGACA
10356540 AAGAAACAAAGACA
1 AAGAAACAAAGACA
*
10356554 AAG-AAC-AAGACG
1 AAGAAACAAAGACA
10356566 AAGAA
1 AAGAA
10356571 GAAGTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 8 0.28
13 4 0.14
14 17 0.59
ACGTcount: A:0.69, C:0.13, G:0.18, T:0.00
Consensus pattern (14 bp):
AAGAAACAAAGACA
Found at i:10357702 original size:47 final size:47
Alignment explanation
Indices: 10357633--10357729 Score: 185
Period size: 47 Copynumber: 2.1 Consensus size: 47
10357623 ACTTTGATGT
10357633 AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
1 AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
*
10357680 AGTTTATTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
1 AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
10357727 AGT
1 AGT
10357730 GATTTCGTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.43
Consensus pattern (47 bp):
AGTTTACTAATCATTTAATAAAGGTTATAAATTTCTTAAACTCTTAG
Found at i:10361999 original size:244 final size:244
Alignment explanation
Indices: 10361560--10362029 Score: 807
Period size: 244 Copynumber: 1.9 Consensus size: 244
10361550 TAAATTATAA
*
10361560 ATAAGCCCAAAATGAGATATTTTGAGTGGCATAAGCTGAGAAAAATCAGGAGAATTCGTGAAATA
1 ATAAGCCCAAAAGGAGATATTTTGAGTGGCATAAGCTGAGAAAAATCAGGAGAATTCGTGAAATA
*
10361625 AGGGCAAAATGGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAGA
66 AGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAGA
* * *
10361690 ATTCTCTTCAGATTTTGTTCATTATCATCAACCAAAAACGTCCTAAGGGTTTCTTCAAACTGGTA
131 ATTCTCTTCAGATTTTATTCATTATCATCAACCAAAAACATCCTAAGGGTTTATTCAAACTGGTA
10361755 TTTCATAATTTTTGCACCAAAAAATTCAAATGAGGAGGGACAAATTGTC
196 TTTCATAATTTTTGCACCAAAAAATTCAAATGAGGAGGGACAAATTGTC
* *
10361804 ATAAGCCCAAAAGGAGATATTTTGGGTGGCATAAGTTGAGAAAAATCAGGAGAATT-GATGAAAT
1 ATAAGCCCAAAAGGAGATATTTTGAGTGGCATAAGCTGAGAAAAATCAGGAGAATTCG-TGAAAT
* * *
10361868 AAGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAATGAGACTAAATTATAATATCTAG
65 AAGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAG
* * *
10361933 AATTCTCTTCATATTTTATTCATTATCATCAGCCAAAAACATCCTAAGGGTTTATTCAAGCTGGT
130 AATTCTCTTCAGATTTTATTCATTATCATCAACCAAAAACATCCTAAGGGTTTATTCAAACTGGT
10361998 ATTTCATAATTTTTGCACCAAAAAATTCAAAT
195 ATTTCATAATTTTTGCACCAAAAAATTCAAAT
10362030 ACGAAGCTAG
Statistics
Matches: 212, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
243 1 0.00
244 211 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (244 bp):
ATAAGCCCAAAAGGAGATATTTTGAGTGGCATAAGCTGAGAAAAATCAGGAGAATTCGTGAAATA
AGGGCAAAATAGGAAAATAACAAAATTTACTAAAATAAAAACGAGACCAAATTAGAATATCTAGA
ATTCTCTTCAGATTTTATTCATTATCATCAACCAAAAACATCCTAAGGGTTTATTCAAACTGGTA
TTTCATAATTTTTGCACCAAAAAATTCAAATGAGGAGGGACAAATTGTC
Found at i:10380060 original size:20 final size:21
Alignment explanation
Indices: 10380021--10380060 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10380011 CACCAAGTGA
10380021 AAACATTTACATGAACAACTTC
1 AAACATTTACAT-AACAACTTC
*
10380043 AAACATTTATAT-ACAACT
1 AAACATTTACATAACAACT
10380061 ATGTGTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (21 bp):
AAACATTTACATAACAACTTC
Found at i:10380593 original size:35 final size:36
Alignment explanation
Indices: 10380547--10380711 Score: 155
Period size: 35 Copynumber: 4.8 Consensus size: 36
10380537 TAAAGAGTGT
10380547 GCCCAACACTAGTCAGATAAACTGACAGA-AGTTAC
1 GCCCAACACTAGTCAGATAAACTGACAGATAGTTAC
* * * **
10380582 GCCCAACACTAGTTAGA-GAACAGA-AGATAGTTGT
1 GCCCAACACTAGTCAGATAAACTGACAGATAGTTAC
* * *
10380616 GCCCAGCACTAGTCAGATAAACTAACAGA-AGTTGC
1 GCCCAACACTAGTCAGATAAACTGACAGATAGTTAC
* * * * *
10380651 GCCCAGCACTAGTCGGAT-AACCGAC-GATAATTAT
1 GCCCAACACTAGTCAGATAAACTGACAGATAGTTAC
10380685 GCCCAGA-ACTAGTCAGATAAACTGACA
1 GCCCA-ACACTAGTCAGATAAACTGACA
10380712 AAAATTGCGC
Statistics
Matches: 103, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
33 5 0.05
34 47 0.46
35 48 0.47
36 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (36 bp):
GCCCAACACTAGTCAGATAAACTGACAGATAGTTAC
Found at i:10380626 original size:34 final size:35
Alignment explanation
Indices: 10380547--10380732 Score: 139
Period size: 35 Copynumber: 5.4 Consensus size: 35
10380537 TAAAGAGTGT
* * *
10380547 GCCCAACACTAGTCAGATAAACTGACAGAAGTTAC
1 GCCCAGCACTAGTCAGATAAACTAACAGAAGTTGC
* * * *
10380582 GCCCAACACTAGTTAGA-GAAC-AGA-AGATAGTTGT
1 GCCCAGCACTAGTCAGATAAACTA-ACAGA-AGTTGC
10380616 GCCCAGCACTAGTCAGATAAACTAACAGAAGTTGC
1 GCCCAGCACTAGTCAGATAAACTAACAGAAGTTGC
* ** * **
10380651 GCCCAGCACTAGTCGGAT-AACCGAC-GATAATTAT
1 GCCCAGCACTAGTCAGATAAACTAACAGA-AGTTGC
* * * *
10380685 GCCCAGAACTAGTCAGATAAACTGACAAAAATTGC
1 GCCCAGCACTAGTCAGATAAACTAACAGAAGTTGC
* *
10380720 GCCAAGCGCTAGT
1 GCCCAGCACTAGT
10380733 TGGATAACCG
Statistics
Matches: 119, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
33 5 0.04
34 47 0.39
35 62 0.52
36 5 0.04
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (35 bp):
GCCCAGCACTAGTCAGATAAACTAACAGAAGTTGC
Found at i:10380655 original size:69 final size:69
Alignment explanation
Indices: 10380544--10380767 Score: 288
Period size: 69 Copynumber: 3.2 Consensus size: 69
10380534 ATATAAAGAG
* * * * * *
10380544 TGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTACGCCCAACACTAGTTAGAGAACAGAAGA
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACACTAGTTGGATAACCGACGA
10380609 TAGT
66 TAGT
* * *
10380613 TGTGCCCAGCACTAGTCAGATAAACTAACAGAAGTTGCGCCCAGCACTAGTCGGATAACCGACGA
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACACTAGTTGGATAACCGACGA
*
10380678 TAAT
66 TAGT
* * * * *
10380682 TATGCCCAGAACTAGTCAGATAAACTGACAAAAATTGCG-CCAAGCGCTAGTTGGATAACCGACG
1 TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAA-CACTAGTTGGATAACCGACG
*
10380746 ATGGT
65 ATAGT
10380751 TGTGCCCAGCACTAGTC
1 TGTGCCCAGCACTAGTC
10380768 GAATGAATCG
Statistics
Matches: 132, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
68 3 0.02
69 129 0.98
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (69 bp):
TGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAACACTAGTTGGATAACCGACGA
TAGT
Found at i:10380839 original size:20 final size:21
Alignment explanation
Indices: 10380805--10380851 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
10380795 GCAAATCCAT
10380805 AATATCA-TATACATAA-TTC
1 AATATCACTATACATAATTTC
*
10380824 AATATCACTTTACATAATTTC
1 AATATCACTATACATAATTTC
10380845 -ATATCAC
1 AATATCAC
10380852 ATTCACCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 15 0.60
21 3 0.12
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATCACTATACATAATTTC
Found at i:10383449 original size:18 final size:18
Alignment explanation
Indices: 10383410--10383451 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
10383400 ATTTCAAATT
*
10383410 TTTTATAATTATTAAGTA
1 TTTTATAATTATTAAGGA
*
10383428 TTTTA-AATTATTTAGGA
1 TTTTATAATTATTAAGGA
10383445 GTTTTAT
1 -TTTTAT
10383452 GTTAACAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (18 bp):
TTTTATAATTATTAAGGA
Found at i:10383903 original size:18 final size:18
Alignment explanation
Indices: 10383863--10383903 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10383853 TTAATCTTTG
10383863 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
10383880 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
10383899 -TTTAT
1 ATTTAT
10383904 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:10392149 original size:6 final size:6
Alignment explanation
Indices: 10392138--10392168 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10392128 GATTTGGGGA
*
10392138 CAGCCT CAGCCT CAGCCT CAGCCT CACCCT C
1 CAGCCT CAGCCT CAGCCT CAGCCT CAGCCT C
10392169 GTGGCTCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.55, G:0.13, T:0.16
Consensus pattern (6 bp):
CAGCCT
Found at i:10394969 original size:19 final size:19
Alignment explanation
Indices: 10394945--10394982 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10394935 ATAATAGTAA
10394945 AACCAAAAATTAAGATGAT
1 AACCAAAAATTAAGATGAT
*
10394964 AACCAAAAATTAATATGAT
1 AACCAAAAATTAAGATGAT
10394983 TCCCATCACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (19 bp):
AACCAAAAATTAAGATGAT
Found at i:10395234 original size:15 final size:16
Alignment explanation
Indices: 10395209--10395250 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10395199 TAAACTAAAA
10395209 CAAAGGAGAAATGAA-G
1 CAAA-GAGAAATGAATG
*
10395225 CAAAGAGAAACGAATG
1 CAAAGAGAAATGAATG
10395241 CAAAGA-AAAT
1 CAAAGAGAAAT
10395251 TGATCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.60, C:0.10, G:0.24, T:0.07
Consensus pattern (16 bp):
CAAAGAGAAATGAATG
Found at i:10399517 original size:15 final size:16
Alignment explanation
Indices: 10399492--10399533 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
10399482 TAAACTAAAA
10399492 CAAAGGAGAAATGAA-G
1 CAAA-GAGAAATGAATG
*
10399508 CAAAGAGAAACGAATG
1 CAAAGAGAAATGAATG
10399524 CAAAGA-AAAT
1 CAAAGAGAAAT
10399534 TGATCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.60, C:0.10, G:0.24, T:0.07
Consensus pattern (16 bp):
CAAAGAGAAATGAATG
Found at i:10402056 original size:21 final size:21
Alignment explanation
Indices: 10402018--10402059 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10402008 TGTTAAATGA
* *
10402018 TTATTTTTTATAATTAATATT
1 TTATTTTTCATAACTAATATT
*
10402039 TTATTTTTCATCACTAATATT
1 TTATTTTTCATAACTAATATT
10402060 ACATTAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTTTTCATAACTAATATT
Found at i:10409874 original size:33 final size:35
Alignment explanation
Indices: 10409822--10409891 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 35
10409812 TTAGAAAATT
* *
10409822 AAAAAAAGTATCTTAAAAATA-TTTTAAAAGTAAA
1 AAAAAAAATATCTTAAAAATATTTTTAAAAATAAA
*
10409856 AAAAAAAATAT-TTTAAAATATTTTTAAAAATAAA
1 AAAAAAAATATCTTAAAAATATTTTTAAAAATAAA
10409890 AA
1 AA
10409892 GTATATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 8 0.25
34 24 0.75
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (35 bp):
AAAAAAAATATCTTAAAAATATTTTTAAAAATAAA
Found at i:10413783 original size:55 final size:56
Alignment explanation
Indices: 10413724--10413893 Score: 168
Period size: 55 Copynumber: 3.0 Consensus size: 56
10413714 TTATTATTAA
* * **
10413724 ATTTTAATA-AGATTATTATTAAATATACTTTAAT-AATAATAAATAATTTAATCCT
1 ATTTTAATATA-ATTATTATTAAATACAATTTAATAAATAATAAATAATTTAATAAT
* *
10413779 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATACAATTTAAT-AAATAATAAATAATTTAATAAT
* * * * *
10413836 ATTCTTCATATAATTATTATTAAAAATGAA-TTAA-AAATAATATATAATATTAAAAAT
1 ATT-TTAATATAATTATTATTAAATA-CAATTTAATAAATAATAAATAAT-TTAATAAT
10413893 A
1 A
10413894 ATATATAACC
Statistics
Matches: 98, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
55 29 0.30
56 15 0.15
57 29 0.30
58 23 0.23
59 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (56 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAATAATAAATAATTTAATAAT
Found at i:10413907 original size:21 final size:19
Alignment explanation
Indices: 10413865--10413901 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10413855 TTAAAAATGA
10413865 ATTAAAAATAATATATAAT
1 ATTAAAAATAATATATAAT
10413884 ATTAAAAATAATATATAA
1 ATTAAAAATAATATATAA
10413902 CCTATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAAATAATATATAAT
Found at i:10422885 original size:2 final size:2
Alignment explanation
Indices: 10422878--10422903 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10422868 GATACATGTA
10422878 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
10422904 AATGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10433323 original size:25 final size:25
Alignment explanation
Indices: 10433289--10433337 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10433279 TTTAATTAAT
*
10433289 ACAAGACTTTGGACTGTTCTAAGAC
1 ACAAGACTTTGGACTGTTCCAAGAC
*
10433314 ACAAGACTTTGGATTGTTCCAAGA
1 ACAAGACTTTGGACTGTTCCAAGA
10433338 TGGTCTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (25 bp):
ACAAGACTTTGGACTGTTCCAAGAC
Found at i:10449762 original size:49 final size:49
Alignment explanation
Indices: 10449567--10450111 Score: 884
Period size: 47 Copynumber: 11.4 Consensus size: 49
10449557 ATTTTGTTAC
10449567 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10449616 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10449663 GATGAATGTGAAAGTGTATGTATA--TGATAAGGCCGAATGGCCAATTT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10449710 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10449759 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAGTGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
* *
10449808 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCTGAATGGCGAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10449855 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATTT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10449904 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10449953 GATGAATGTGAAAGTGT-TG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10449999 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
* * * * *
10450046 GATGAATGTGAAA--GTATATATATATGATAAGGCTGAATGGTCAATGG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10450093 GATGGAA-GTGGAAGTGTAT
1 GAT-GAATGTGAAAGTGTAT
10450112 AACTGTGATA
Statistics
Matches: 468, Mismatches: 16, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
45 4 0.01
46 44 0.09
47 210 0.45
48 5 0.01
49 205 0.44
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
Found at i:10449834 original size:16 final size:15
Alignment explanation
Indices: 10449806--10450060 Score: 69
Period size: 16 Copynumber: 16.1 Consensus size: 15
10449796 AGTGGCCAAT
10449806 GTGATGAATGTGAAA
1 GTGATGAATGTGAAA
*
10449821 GTGTATGTATGTGATAA
1 GTG-ATGAATGTGA-AA
* * *
10449838 G-GCTGAATGGCGAAT
1 GTGATGAAT-GTGAAA
10449853 GTGATGAATGTGAAA
1 GTGATGAATGTGAAA
10449868 GTGTATGTATATGTGATAA
1 GTG-ATG-A-ATGTGA-AA
** *
10449887 G-GCCGAATG-GCCAAT
1 GTGATGAATGTG--AAA
*
10449902 TTGATGAATGTGAAA
1 GTGATGAATGTGAAA
10449917 GTGTATGTATATGTGATAA
1 GTG-ATG-A-ATGTGA-AA
** *
10449936 G-GCCGAATG-GCCAAT
1 GTGATGAATGTG--AAA
10449951 GTGATGAATGTGAAA
1 GTGATGAATGTGAAA
* *
10449966 GTGTTGTATGTGATAA
1 GTGATGAATGTGA-AA
** *
10449982 G-GCCGAATG-GCCAAT
1 GTGATGAATGTG--AAA
10449997 GTGATGAATGTGAAA
1 GTGATGAATGTGAAA
*
10450012 GTGTATGTATGTGATAA
1 GTG-ATGAATGTGA-AA
** *
10450029 G-GCCGAATG-GCCAAT
1 GTGATGAATGTG--AAA
10450044 GTGATGAATGTGAAA
1 GTGATGAATGTGAAA
10450059 GT
1 GT
10450061 ATATATATAT
Statistics
Matches: 170, Mismatches: 39, Indels: 62
0.63 0.14 0.23
Matches are distributed among these distances:
14 4 0.02
15 64 0.38
16 68 0.40
17 14 0.08
18 14 0.08
19 6 0.04
ACGTcount: A:0.32, C:0.07, G:0.32, T:0.29
Consensus pattern (15 bp):
GTGATGAATGTGAAA
Found at i:10449860 original size:145 final size:145
Alignment explanation
Indices: 10449567--10450111 Score: 917
Period size: 145 Copynumber: 3.8 Consensus size: 145
10449557 ATTTTGTTAC
10449567 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
10449632 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
*
10449695 CCGAATGGCCAATTT
131 CCGAATGGCCAATGT
10449710 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
10449775 TATGTATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
* *
10449840 CTGAATGGCGAATGT
131 CCGAATGGCCAATGT
*
10449855 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATTTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
10449920 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT-TGTATGTGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
10449984 CCGAATGGCCAATGT
131 CCGAATGGCCAATGT
10449999 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * * *
10450060 TATATATATATGATAAGGCTGAATGGTCAATGGGATGGAA-GTGGAAGTGTAT
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
10450112 AACTGTGATA
Statistics
Matches: 382, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
140 41 0.11
141 4 0.01
142 39 0.10
143 69 0.18
144 47 0.12
145 182 0.48
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (145 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
CCGAATGGCCAATGT
Found at i:10449955 original size:22 final size:22
Alignment explanation
Indices: 10449927--10450001 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
10449917 GTGTATGTAT
10449927 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ****
10449949 ATGTGATGAATG-TGAAAGTGTTGT
1 ATGTGAT-AAGGCCG-AA-TGGCCA
10449973 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
10449995 ATGTGAT
1 ATGTGAT
10450002 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
22 17 0.46
23 10 0.27
24 10 0.27
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:10452013 original size:40 final size:40
Alignment explanation
Indices: 10451959--10452230 Score: 458
Period size: 40 Copynumber: 6.8 Consensus size: 40
10451949 CAGTATGTTA
*
10451959 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGTGA-G
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
10451998 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 -TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
10452039 TATCCGGGGTAAGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10452079 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10452119 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10452159 TATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10452199 TATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
10452231 TGGACAAAAT
Statistics
Matches: 221, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
39 11 0.05
40 209 0.95
41 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:10456334 original size:49 final size:49
Alignment explanation
Indices: 10456277--10456821 Score: 893
Period size: 47 Copynumber: 11.4 Consensus size: 49
10456267 ATTTTGTTAC
10456277 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10456326 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10456373 GATGAATGTGAAAGTGTATGTATA--TGATAAGGCCGAATGGCCAATTT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10456420 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10456469 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAGTGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10456518 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCGAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10456565 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATTT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10456614 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10456663 GATGAATGTGAAAGTGT-TG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10456709 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
* * * * *
10456756 GATGAATGTGAAA--GTATATATATATGATAAGGCTGAATGGTCAATGG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10456803 GATGGAA-GTGGAAGTGTAT
1 GAT-GAATGTGAAAGTGTAT
10456822 AACTGTGATA
Statistics
Matches: 470, Mismatches: 14, Indels: 24
0.93 0.03 0.05
Matches are distributed among these distances:
45 4 0.01
46 44 0.09
47 211 0.45
48 5 0.01
49 206 0.44
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
Found at i:10456569 original size:145 final size:145
Alignment explanation
Indices: 10456277--10456821 Score: 926
Period size: 145 Copynumber: 3.8 Consensus size: 145
10456267 ATTTTGTTAC
10456277 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
10456342 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
*
10456405 CCGAATGGCCAATTT
131 CCGAATGGCCAATGT
10456420 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
10456485 TATGTATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
*
10456550 CCGAATGGCGAATGT
131 CCGAATGGCCAATGT
*
10456565 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATTTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
10456630 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT-TGTATGTGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
10456694 CCGAATGGCCAATGT
131 CCGAATGGCCAATGT
10456709 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * * *
10456770 TATATATATATGATAAGGCTGAATGGTCAATGGGATGGAA-GTGGAAGTGTAT
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
10456822 AACTGTGATA
Statistics
Matches: 384, Mismatches: 14, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
140 41 0.11
141 4 0.01
142 39 0.10
143 69 0.18
144 48 0.12
145 183 0.48
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (145 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
CCGAATGGCCAATGT
Found at i:10456665 original size:22 final size:22
Alignment explanation
Indices: 10456637--10456711 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
10456627 GTGTATGTAT
10456637 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ****
10456659 ATGTGATGAATG-TGAAAGTGTTGT
1 ATGTGAT-AAGGCCG-AA-TGGCCA
10456683 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
10456705 ATGTGAT
1 ATGTGAT
10456712 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
22 17 0.46
23 10 0.27
24 10 0.27
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:10458726 original size:40 final size:40
Alignment explanation
Indices: 10458672--10458942 Score: 449
Period size: 40 Copynumber: 6.8 Consensus size: 40
10458662 CAGTATGTTA
*
10458672 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGTGA-G
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
10458711 ATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 -TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* *
10458752 TATCCGGGGTAAGTTCCGAAGA-CATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10458791 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10458831 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10458871 TATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10458911 TATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
10458943 TGGACAAAAT
Statistics
Matches: 219, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 49 0.22
40 169 0.77
41 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:10458890 original size:119 final size:120
Alignment explanation
Indices: 10458672--10458942 Score: 449
Period size: 119 Copynumber: 2.3 Consensus size: 120
10458662 CAGTATGTTA
*
10458672 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGTTGGTGAGATATCCGGGCTAAGTCCCGAAGAGCA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAGATATCCGGGCTAAGTCCCGAAGAGCA
* ** *
10458737 TTCGTGCTGGTGATGTATCCGGGGTAAGTTCCGAAGA-CATTCGTGCTGGTGATG
66 TTCGTGCTGGTGATATATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10458791 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGATG-TATCCGGGCTAAGTCCCGAAGAGC
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA-GATATCCGGGCTAAGTCCCGAAGAGC
10458855 ATTCGTGCTGGTGATATATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGTGATG
65 ATTCGTGCTGGTGATATATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
10458911 TATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
10458943 TGGACAAAAT
Statistics
Matches: 142, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
119 105 0.74
120 37 0.26
ACGTcount: A:0.21, C:0.22, G:0.32, T:0.25
Consensus pattern (120 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGAGATATCCGGGCTAAGTCCCGAAGAGCA
TTCGTGCTGGTGATATATCCGGGCAAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:10463185 original size:49 final size:49
Alignment explanation
Indices: 10462990--10463534 Score: 902
Period size: 47 Copynumber: 11.4 Consensus size: 49
10462980 ATTTTGTTAC
10462990 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10463039 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10463086 GATGAATGTGAAAGTGTATGTATA--TGATAAGGCCGAATGGCCAATTT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10463133 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10463182 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAGTGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10463231 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCGAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10463278 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATTT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10463327 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10463376 GATGAATGTGAAAGTGT-TG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
10463422 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
* * * *
10463469 GATGAATGTGAAA--GTATATATATATGATAAGGCCGAATGGTCAATGG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
*
10463516 GATGGAA-GTGGAAGTGTAT
1 GAT-GAATGTGAAAGTGTAT
10463535 AACTGTGATA
Statistics
Matches: 471, Mismatches: 13, Indels: 24
0.93 0.03 0.05
Matches are distributed among these distances:
45 4 0.01
46 44 0.09
47 212 0.45
48 5 0.01
49 206 0.44
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGT
Found at i:10463282 original size:145 final size:145
Alignment explanation
Indices: 10462990--10463534 Score: 935
Period size: 145 Copynumber: 3.8 Consensus size: 145
10462980 ATTTTGTTAC
10462990 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
10463055 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATATGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
*
10463118 CCGAATGGCCAATTT
131 CCGAATGGCCAATGT
10463133 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
10463198 TATGTATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
*
10463263 CCGAATGGCGAATGT
131 CCGAATGGCCAATGT
*
10463278 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATTTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
10463343 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT-TGTATGTGATAAGG
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
10463407 CCGAATGGCCAATGT
131 CCGAATGGCCAATGT
10463422 GATGAATGTGAAAGTGTATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G
1 GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * * *
10463483 TATATATATATGATAAGGCCGAATGGTCAATGGGATGGAA-GTGGAAGTGTAT
66 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTGTAT
10463535 AACTGTGATA
Statistics
Matches: 385, Mismatches: 13, Indels: 10
0.94 0.03 0.02
Matches are distributed among these distances:
140 42 0.11
141 4 0.01
142 39 0.10
143 69 0.18
144 48 0.12
145 183 0.48
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (145 bp):
GATGAATGTGAAAGTGTATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATGTATGTGATAAGG
CCGAATGGCCAATGT
Found at i:10463378 original size:22 final size:22
Alignment explanation
Indices: 10463350--10463424 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
10463340 GTGTATGTAT
10463350 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ****
10463372 ATGTGATGAATG-TGAAAGTGTTGT
1 ATGTGAT-AAGGCCG-AA-TGGCCA
10463396 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
10463418 ATGTGAT
1 ATGTGAT
10463425 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 8
0.65 0.21 0.14
Matches are distributed among these distances:
22 17 0.46
23 10 0.27
24 10 0.27
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.27
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:10472844 original size:18 final size:18
Alignment explanation
Indices: 10472823--10472863 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10472813 AATTACAAAA
*
10472823 AAAATT-AAAATAATTTTT
1 AAAATTCAAAAT-ATTTAT
10472841 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
10472859 AAAAT
1 AAAAT
10472864 ATCCAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:10473621 original size:20 final size:20
Alignment explanation
Indices: 10473596--10473639 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
10473586 AAAAAATCTA
10473596 AAAAATAAATATAAAT-TATT
1 AAAAATAAAT-TAAATATATT
*
10473616 AAAAATATATTAAATATATT
1 AAAAATAAATTAAATATATT
10473636 AAAA
1 AAAA
10473640 TTTATGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATAAATTAAATATATT
Found at i:10475004 original size:30 final size:30
Alignment explanation
Indices: 10474968--10475024 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10474958 TTTTACATAT
10474968 ATATTTTGAATTTTTATAAAAT-TTTTATTC
1 ATATTTTGAATTTTTA-AAAATATTTTATTC
*
10474998 ATATTTTTAATTTTTAAAAATATTTTA
1 ATATTTTGAATTTTTAAAAATATTTTA
10475025 ACGTGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (30 bp):
ATATTTTGAATTTTTAAAAATATTTTATTC
Found at i:10475046 original size:9 final size:9
Alignment explanation
Indices: 10475032--10475082 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
10475022 TTAACGTGAA
10475032 TTTTAATAT
1 TTTTAATAT
10475041 TTTTAATAAT
1 TTTTAAT-AT
* *
10475051 TTATATTTAT
1 TTTTA-ATAT
10475061 TTTTAATAT
1 TTTTAATAT
10475070 ATTTTAA-AT
1 -TTTTAATAT
10475079 TTTT
1 TTTT
10475083 TTAAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 4 0.11
9 12 0.34
10 18 0.51
11 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTAATAT
Found at i:10475080 original size:22 final size:20
Alignment explanation
Indices: 10475038--10475084 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
10475028 TGAATTTTAA
*
10475038 TATTTTTAATAATTTATATT
1 TATTTTTAATAATTTAAATT
10475058 TATTTTTAATATATTTTAAATT
1 TATTTTTAATA-A-TTTAAATT
10475080 T-TTTT
1 TATTTT
10475085 AAAAATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
21 5 0.21
22 8 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTTAATAATTTAAATT
Found at i:10475083 original size:20 final size:19
Alignment explanation
Indices: 10475030--10475091 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 19
10475020 TTTTAACGTG
*
10475030 AATTTT-AATATTTTTAAT
1 AATTTTAAATTTTTTTAAT
*
10475048 AA-TTTATATTTATTTTTAAT
1 AATTTTA-AATT-TTTTTAAT
*
10475068 ATATTTTAAATTTTTTTAAA
1 A-ATTTTAAATTTTTTTAAT
10475088 AATT
1 AATT
10475092 ATTGTTAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.09
18 2 0.06
19 5 0.14
20 17 0.49
21 4 0.11
22 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTTAAATTTTTTTAAT
Found at i:10485774 original size:21 final size:21
Alignment explanation
Indices: 10485750--10485811 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
10485740 ATTAGGTGGA
*
10485750 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
10485771 TCAGCTCTTACGAGCTTCTAT
1 TCAGCTCTTACGAGCTTCTGT
*
10485792 TCAACT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
10485811 T
1 T
10485812 GGCGTGTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.30
20 2 0.05
21 24 0.65
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:10493435 original size:21 final size:21
Alignment explanation
Indices: 10493409--10493468 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
10493399 TAGGTGGATT
10493409 AGCTCTTACGAGCTTCTGTTA
1 AGCTCTTACGAGCTTCTGTTA
* * *
10493430 AGCTCTTAGGAGCTTCTATTC
1 AGCTCTTACGAGCTTCTGTTA
*
10493451 A--TCTTTCGAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
10493469 GGCGTGTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 14 0.42
21 19 0.58
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTA
Found at i:10499162 original size:13 final size:11
Alignment explanation
Indices: 10499130--10499172 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
10499120 CTATTTTTTA
*
10499130 AATAAAATAAT
1 AATAAAATATT
10499141 AAT-AAATATCT
1 AATAAAATAT-T
10499152 AAGTAAAATATT
1 AA-TAAAATATT
10499164 AATAAAATA
1 AATAAAATA
10499173 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:10501027 original size:26 final size:26
Alignment explanation
Indices: 10500973--10501045 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
10500963 TATTTTCTCG
** * * *
10500973 AAATTTTACTAGGGACAAAGTCGTTA
1 AAATTTTACTAGGGGTAAAATCATCA
10500999 AAATTTTACTAGGGGTAAAATCATCA
1 AAATTTTACTAGGGGTAAAATCATCA
** *
10501025 AAATTTTGTTGGGGGTAAAAT
1 AAATTTTACTAGGGGTAAAAT
10501046 AGGATGAGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCATCA
Found at i:10501298 original size:73 final size:73
Alignment explanation
Indices: 10501179--10501324 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
10501169 GGACCTGATG
10501179 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
1 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
10501244 GTGTCGTC
66 GTGTCGTC
10501252 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
1 TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
10501317 GTGTCGTC
66 GTGTCGTC
10501325 CACCTCTCTC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.22
Consensus pattern (73 bp):
TGAGCTAGGCCCAAAACCCTTCATGTAAAATGAAGGGGTGACAACCCTAGTAGGAATACTAGAGT
GTGTCGTC
Found at i:10502983 original size:30 final size:30
Alignment explanation
Indices: 10502877--10502984 Score: 112
Period size: 30 Copynumber: 3.6 Consensus size: 30
10502867 AATATATACA
* * **
10502877 TATATATATAATATATATGGGTTTTGGTGT
1 TATATGTATAATATATTTGGGTCATGGTGT
* **
10502907 TATA--TATAATATATGTACGTGCATGGGTGT
1 TATATGTATAATATATTTGGGT-CAT-GGTGT
*
10502937 TATATGAATAATATATTTGGGTCATGGTGT
1 TATATGTATAATATATTTGGGTCATGGTGT
10502967 TATATGTATAATATATTT
1 TATATGTATAATATATTT
10502985 ACCTGGGTCA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.20
29 1 0.02
30 35 0.55
31 3 0.05
32 12 0.19
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.46
Consensus pattern (30 bp):
TATATGTATAATATATTTGGGTCATGGTGT
Found at i:10515584 original size:21 final size:22
Alignment explanation
Indices: 10515551--10515594 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
10515541 ACCAAAATGC
*
10515551 AACAATTGGTATCTTA-ATTCA
1 AACAATTGGTATCTAACATTCA
* *
10515572 AACATTTGTTATCTAACATTCA
1 AACAATTGGTATCTAACATTCA
10515594 A
1 A
10515595 CACCATTCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (22 bp):
AACAATTGGTATCTAACATTCA
Found at i:10515596 original size:21 final size:20
Alignment explanation
Indices: 10515545--10515596 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
10515535 TGTCTAACCA
*
10515545 AAATGCAACAATTGGTATCT
1 AAATTCAACAATTGGTATCT
* * *
10515565 TAATTCAAACATTTGTTATCT
1 AAATTC-AACAATTGGTATCT
10515586 AACATTCAACA
1 AA-ATTCAACA
10515597 CCATTCACAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 4 0.16
21 17 0.68
22 4 0.16
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (20 bp):
AAATTCAACAATTGGTATCT
Found at i:10527125 original size:5 final size:5
Alignment explanation
Indices: 10527115--10527153 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
10527105 CCAAAAACAC
10527115 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTAT
1 GTATA GTATA GTATA GTATA GTATA GTATA GTATA GTAT
10527154 TTTGAAGCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
GTATA
Found at i:10538723 original size:68 final size:67
Alignment explanation
Indices: 10538615--10538747 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 67
10538605 TGTTGAGCGC
10538615 ACATAAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGGC
1 ACATAAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGGC
10538680 GG
66 GG
* * *
10538682 ACATAAAAAAATCTAACACTCGTCATCATTATCAAATTATTGTGAAATGTAAATGTGAGTTATGG
1 ACAT-AAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGG
10538747 C
65 C
10538748 AGTTGTATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
67 4 0.06
68 58 0.94
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (67 bp):
ACATAAAAAATCTAACACTCATCATCATTATCAAATTATTGTGAAATGCAAATGTAAGTTATGGC
GG
Found at i:10540747 original size:23 final size:23
Alignment explanation
Indices: 10540721--10540764 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
10540711 TATTTAATCT
*
10540721 CTACTGAATAGTTATACATATTC
1 CTACTCAATAGTTATACATATTC
10540744 CTACTCAATAGTTATACATAT
1 CTACTCAATAGTTATACATAT
10540765 ATAGGAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (23 bp):
CTACTCAATAGTTATACATATTC
Found at i:10541676 original size:25 final size:25
Alignment explanation
Indices: 10541642--10541691 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10541632 GCTAGGCTAC
10541642 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
10541667 CACTTATCACTTTGTCACTTGATCA
1 CACTTATCACTTTGTCACTTGATCA
10541692 GATAAGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (25 bp):
CACTTATCACTTTGTCACTTGATCA
Found at i:10541727 original size:71 final size:68
Alignment explanation
Indices: 10541599--10541737 Score: 233
Period size: 71 Copynumber: 2.0 Consensus size: 68
10541589 TACGTATGAT
*
10541599 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTTGA
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
10541664 TCA
66 TCA
*
10541667 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
10541732 TGATCA
63 TGATCA
10541738 GATAAGTGTA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
68 10 0.15
69 5 0.08
70 20 0.30
71 31 0.47
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.35
Consensus pattern (68 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTTGA
TCA
Found at i:10541734 original size:46 final size:46
Alignment explanation
Indices: 10541667--10541831 Score: 294
Period size: 46 Copynumber: 3.6 Consensus size: 46
10541657 CACTTGATCA
*
10541667 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
10541713 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
10541759 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
* * *
10541805 CACTTATCACATTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
10541832 AGTACTCAAA
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 115 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAATGCTAC
Found at i:10548165 original size:50 final size:50
Alignment explanation
Indices: 10548090--10548408 Score: 381
Period size: 50 Copynumber: 6.4 Consensus size: 50
10548080 GTTGGTGAAT
*
10548090 TGGGACATAGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* *
10548140 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCTCATGTAAGACCATATC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
**
10548190 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * **
10548240 TGGGACATGGC-ATGAGCACCGATATGAGAACATCCCATGTAAGA-CATGTC
1 TGGGACATGGCGTTG-GCACCGAGATGAG-AGGTCCCATGTAAGACCATGTC
* * ** *
10548290 TGGGACATGGTGTTGGCACCGAGATTAGAGGTCCCCCGTAAAACCATGTC
1 TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
* * * * ** * *
10548340 TGGGACATGGCATGGGCACTGATATGAGAACATCCTATGTAAGACCATGTT
1 TGGGACATGGCGTTGGCACCGAGATGAG-AGGTCCCATGTAAGACCATGTC
* *
10548391 TGGGACATTGCTTTGGCA
1 TGGGACATGGCGTTGGCA
10548409 TGTTATGATC
Statistics
Matches: 226, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
49 12 0.05
50 171 0.76
51 43 0.19
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTC
Done.