Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 309 of 320
Found at i:98594733 original size:17 final size:17
Alignment explanation
Indices: 98594713--98594746 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
98594703 AAATAGATTT
98594713 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
98594730 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
98594747 ACCTAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:98597191 original size:21 final size:21
Alignment explanation
Indices: 98597134--98597191 Score: 50
Period size: 21 Copynumber: 2.8 Consensus size: 21
98597124 TTTCTTTTTG
98597134 TATT-AAAATAA-ATAAATAT
1 TATTAAAAATAATATAAATAT
* * *
98597153 GATTAAAATTTATAATAAA-AT
1 TATTAAAAATAAT-ATAAATAT
98597174 TATTAAAAATAATGATAA
1 TATTAAAAATAAT-ATAA
98597192 TAAATATAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
19 3 0.10
20 5 0.17
21 16 0.55
22 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
TATTAAAAATAATATAAATAT
Found at i:98604876 original size:21 final size:20
Alignment explanation
Indices: 98604852--98604890 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
98604842 AGAACCAAAT
98604852 TATACATAAATAAATTTAATA
1 TATACATAAAT-AATTTAATA
* *
98604873 TATATATATATAATTTAA
1 TATACATAAATAATTTAA
98604891 GAAAATACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TATACATAAATAATTTAATA
Found at i:98612935 original size:15 final size:17
Alignment explanation
Indices: 98612902--98612943 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
98612892 GCAATTAGGA
98612902 TTAGGGTTTTGAGAATT
1 TTAGGGTTTTGAGAATT
*
98612919 TT-GGGTTTTTA-AATT
1 TTAGGGTTTTGAGAATT
98612934 TTAGGGTTTT
1 TTAGGGTTTT
98612944 AAGGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (17 bp):
TTAGGGTTTTGAGAATT
Found at i:98612944 original size:15 final size:15
Alignment explanation
Indices: 98612902--98612945 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
98612892 GCAATTAGGA
98612902 TTAGGGTTTTGAGAATT
1 TTAGGGTTTT-A-AATT
98612919 TT-GGGTTTTTAAATT
1 TTAGGG-TTTTAAATT
98612934 TTAGGGTTTTAA
1 TTAGGGTTTTAA
98612946 GGAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.48
16 7 0.28
17 6 0.24
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (15 bp):
TTAGGGTTTTAAATT
Found at i:98613061 original size:96 final size:98
Alignment explanation
Indices: 98612940--98613116 Score: 243
Period size: 96 Copynumber: 1.8 Consensus size: 98
98612930 AATTTTAGGG
* * ** *
98612940 TTTTAAGGAAAAAAAATTAAATAAATTAAGGTTTAGTGTTTGTTAATTAAATTAATTACT-AATT
1 TTTTAAGG-AAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTA-TAAATT
*
98613004 T-TAAAAAATTAGATTATGGTTTAGTGTTTATGGT
64 TAAAAAAAATTAGATTATGGTTTAGTGTTTATGGT
* *
98613038 TTTTAAGG-AAAAAATCAAATAAATTAGGGTTTAGGGTTACTTTAGTAAATTAATTATAAATTTA
1 TTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTA
98613102 AAAAAAATTAGATTA
66 AAAAAAATTAGATTA
98613117 GGATTTTAGG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
95 1 0.01
96 46 0.67
97 14 0.20
98 8 0.12
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.41
Consensus pattern (98 bp):
TTTTAAGGAAAAAAATCAAATAAATTAAGGTTTAGGGTTACTTAAGTAAATTAATTATAAATTTA
AAAAAAATTAGATTATGGTTTAGTGTTTATGGT
Found at i:98613138 original size:15 final size:15
Alignment explanation
Indices: 98613114--98613143 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98613104 AAAAATTAGA
98613114 TTAGGATTTTAGGAT
1 TTAGGATTTTAGGAT
*
98613129 TTAGGGTTTTAGGAT
1 TTAGGATTTTAGGAT
98613144 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGAT
Found at i:98613591 original size:126 final size:126
Alignment explanation
Indices: 98613227--98613763 Score: 855
Period size: 126 Copynumber: 4.3 Consensus size: 126
98613217 AAAAGCTTCT
* * *
98613227 ACGTGGACGCTCTTTTGCTACAATAGTATCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
*
98613292 ATAGTGTCAAAAACGGTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
98613353 ACGTGGATGCTCTTTTGCTACAGTAGTATCTG-AAAAATAATTTTGAGAAGACGTGTCTGTGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
* * *
98613417 ATAGTGTAAAAAACGCTTCAAACAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
98613478 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTATGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
* * *
98613543 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCC
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
* * * **
98613604 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGTATAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
* *
98613669 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
*
98613730 ACGTGGACGCTCTTTTGCTACAGT-GTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAA
98613764 TAACTTGGGC
Statistics
Matches: 382, Mismatches: 26, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
125 128 0.34
126 252 0.66
127 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTGTCTGTGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:98613763 original size:251 final size:251
Alignment explanation
Indices: 98613227--98613763 Score: 871
Period size: 251 Copynumber: 2.1 Consensus size: 251
98613217 AAAAGCTTCT
* *
98613227 ACGTGGACGCTCTTTTGCTACAATAGTATCTGAAAAAATAAATTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGACGTGTCTACGCAA
*
98613292 ATAGTGTCAAAAACGGTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGT
66 ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGT
*
98613357 GGATGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTGTCTGTGCAAATAGT
131 GGATGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTGTCTGTACAAATAGT
* *
98613422 GTAAAAAACGCTTCAAACAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTTCC
196 GTAAAAAACGCTTCAAACAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
* * *
98613478 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTATGCAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGACGTGTCTACGCAA
* * *
98613543 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAATTACTGGAAGAAGCTCCCACG
66 ATAGT-GTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACG
* * *
98613607 TGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGTATAAATA
130 TGGATGCTCTTTTGCTACAGTAGTATCTG-AAAAATAATTTTGAGAAGACGTGTCTGTACAAATA
* * *
98613672 GTGTCAAAAACGCTTCAAGCAGGATGCATTTTCAACAAAAGTACTGAAAGAAGCTCCC
194 GTGTAAAAAACGCTTCAAACAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
*
98613730 ACGTGGACGCTCTTTTGCTACAGT-GTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAA
98613764 TAACTTGGGC
Statistics
Matches: 265, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
251 153 0.58
252 112 0.42
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (251 bp):
ACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATTTGAGAAGACGTGTCTACGCAA
ATAGTGTCAAAAACGCTTCAAGCAGGATGCATTGTCAGCAAAAGTACTGAAAGAAGCTCCCACGT
GGATGCTCTTTTGCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTGTCTGTACAAATAGT
GTAAAAAACGCTTCAAACAGGATGCATTGTCAACAAAAGTACTGAAAGAAGCTCCC
Found at i:98618217 original size:38 final size:40
Alignment explanation
Indices: 98618165--98618415 Score: 267
Period size: 46 Copynumber: 5.9 Consensus size: 40
98618155 TCTGATATGA
98618165 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-T
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCAT
98618204 -ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-T
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCAT
*
98618242 -GTGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT
98618285 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
1 --AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT
98618331 GAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACAT
1 -A-ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CAT
* ** *
98618377 GAAAAGAATGAGACCATGGTTGAAAGATACCATGGCAAC
1 --AATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
98618416 ATGACAGAAA
Statistics
Matches: 190, Mismatches: 8, Indels: 21
0.87 0.04 0.10
Matches are distributed among these distances:
38 74 0.39
43 1 0.01
45 1 0.01
46 112 0.59
47 1 0.01
50 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCAT
Found at i:98618310 original size:46 final size:46
Alignment explanation
Indices: 98618243--98618459 Score: 292
Period size: 46 Copynumber: 4.7 Consensus size: 46
98618233 TGGCAACCTG
*
98618243 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
98618289 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
*
98618335 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** * *
98618381 AGAATGAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* * * * *
98618427 TGAGTAAGACAATAGTTGAAAGACACTATGGCA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCA
98618460 TCACGTCAAA
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 153 0.99
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:98618566 original size:13 final size:13
Alignment explanation
Indices: 98618548--98618577 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
98618538 TCAGATGACG
98618548 AATGGTTATATGA
1 AATGGTTATATGA
*
98618561 AATGGTTGTATGA
1 AATGGTTATATGA
98618574 AATG
1 AATG
98618578 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:98618765 original size:23 final size:25
Alignment explanation
Indices: 98618720--98618766 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
98618710 AATAAATATA
*
98618720 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
98618745 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
98618767 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:98620248 original size:37 final size:37
Alignment explanation
Indices: 98620187--98620332 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
98620177 TACGTATGAT
*
98620187 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
98620222 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
98620259 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
98620296 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
98620333 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 4 0.04
37 91 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:98620375 original size:52 final size:52
Alignment explanation
Indices: 98620296--98620662 Score: 479
Period size: 52 Copynumber: 7.2 Consensus size: 52
98620286 TAAGTGTAGC
* * ** *
98620296 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
98620349 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
98620401 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
98620453 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
98620499 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
98620551 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
98620597 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
98620649 CACTTTGTCACTTG
1 CACTTT-TCACTTG
98620663 ATCAGAAGTA
Statistics
Matches: 275, Mismatches: 26, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
46 83 0.30
49 1 0.00
52 176 0.64
53 15 0.05
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:98620470 original size:46 final size:46
Alignment explanation
Indices: 98620398--98620668 Score: 328
Period size: 46 Copynumber: 5.7 Consensus size: 46
98620388 AGCTATCACT
*
98620398 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
98620443 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
98620489 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
98620541 TACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
98620587 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
98620639 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
98620669 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 18, Indels: 25
0.82 0.08 0.11
Matches are distributed among these distances:
45 12 0.06
46 99 0.51
48 2 0.01
50 2 0.01
52 80 0.41
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:98620473 original size:150 final size:144
Alignment explanation
Indices: 98620296--98620662 Score: 500
Period size: 150 Copynumber: 2.5 Consensus size: 144
98620286 TAAGTGTAGC
* *
98620296 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
* *
98620361 GTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAG
66 GTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTATCAC---T---TTGTCACTTGATCAG
*
98620426 ATAAGTGTAGCCGAAGCTAT
125 ATAAGTATAGCCGAAGCTAT
* ** * *
98620446 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
*
98620511 GTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGT
66 GTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGT
98620576 ATAGCCGAAGCTAT
131 ATAGCCGAAGCTAT
* *
98620590 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTT
98620655 GTCACTTG
60 -TCACTTG
98620663 ATCAGAAGTA
Statistics
Matches: 192, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
144 43 0.22
146 1 0.01
147 1 0.01
150 141 0.73
151 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (144 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGT
ATAGCCGAAGCTAT
Found at i:98620483 original size:98 final size:98
Alignment explanation
Indices: 98620307--98620668 Score: 589
Period size: 98 Copynumber: 3.6 Consensus size: 98
98620297 ACTTATCACT
* * *
98620307 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTTGTCACTTGATC
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTTGATC
* * *
98620372 AGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCAC
60 AGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCAC
** *
98620411 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
98620476 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
98620509 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
98620574 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
66 GTATAGCCGAAGCTATTACTTATCACTTTCCAC
98620607 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
98620669 AGTACTCAAA
Statistics
Matches: 248, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
98 206 0.83
101 1 0.00
104 41 0.17
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (98 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATTACTTATCACTTTCCAC
Found at i:98623845 original size:116 final size:116
Alignment explanation
Indices: 98623512--98624071 Score: 1005
Period size: 116 Copynumber: 4.8 Consensus size: 116
98623502 TTTGTATTTT
* * *
98623512 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* * *
98623577 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
98623628 ATCACATGAAATAATATAAAAATATTCAAAATGTTGCC-TATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
98623692 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
98623743 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
98623808 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* * *
98623859 ATTACATGAAATAATTTAAAAATATTTAAAATGTTGCCTTATTTAAAATAATTTCCATTTTACTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
*
98623924 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
98623975 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
98624040 AAAAATATAAAAGTAAATTACAATTACTTTAT
65 AAAAATATAAAAGTAAATTACAATTACTTTAT
98624072 GTAACACCCC
Statistics
Matches: 426, Mismatches: 16, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
115 110 0.26
116 285 0.67
117 31 0.07
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:98624006 original size:232 final size:231
Alignment explanation
Indices: 98623512--98624071 Score: 1003
Period size: 231 Copynumber: 2.4 Consensus size: 231
98623502 TTTGTATTTT
* * *
98623512 ATTACATGAAATAATATAAAAATATTCAAAATATTGCTTTATTTAAAATAATTTTCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
98623577 AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATTATCACATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
*
98623642 TATAAAAATATTCAAAATGTTGCCTATTTAAAATAATTTCCATTTTATTAAAAATATAAAAGTAA
131 TATAAAAATATTCAAAATGTTGCCTATTTAAAATAATTTCCATTTTACTAAAAATATAAAAGTAA
98623707 ATTACAATTACTTTATTTAAAACAACCTTTTATCTA
196 ATTACAATTACTTTATTTAAAACAACCTTTTATCTA
98623743 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
* *
98623808 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTAATTACATGAAATAA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
* *
98623873 TTTAAAAATATTTAAAATGTTGCCTTATTTAAAATAATTTCCATTTTACTAAAAATATAAAAGTA
131 TATAAAAATATTCAAAATGTTGCC-TATTTAAAATAATTTCCATTTTACTAAAAATATAAAAGTA
*
98623938 AATTATAATTACTTTATTTAAAACAACCTTTTATCTA
195 AATTACAATTACTTTATTTAAAACAACCTTTTATCTA
98623975 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATT-
98624040 AAAAATATAAAAGTAAATTACAATTACTTTAT
65 AAAAATATAAAAGTAAATTACAATTACTTTAT
98624072 GTAACACCCC
Statistics
Matches: 316, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
231 145 0.46
232 139 0.44
233 32 0.10
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.40
Consensus pattern (231 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATATAATCACATGAAATAA
TATAAAAATATTCAAAATGTTGCCTATTTAAAATAATTTCCATTTTACTAAAAATATAAAAGTAA
ATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:98624947 original size:46 final size:46
Alignment explanation
Indices: 98624878--98625098 Score: 316
Period size: 46 Copynumber: 4.8 Consensus size: 46
98624868 TGATGTCATA
* * * ** * *
98624878 GTATCTTTCAACTATGGTTTTACTCGTTTTTTGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
98624924 GTATCTTTCAACCATGATCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* * *
98624970 GTATCTTTCAATCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
98625016 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
98625062 GTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
98625099 AGAGCACACT
Statistics
Matches: 159, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 159 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:98626252 original size:14 final size:14
Alignment explanation
Indices: 98626235--98626265 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
98626225 ATAATATAGT
98626235 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
98626249 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
98626263 ATA
1 ATA
98626266 GAAAAGTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:98626299 original size:4 final size:4
Alignment explanation
Indices: 98626290--98626320 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
98626280 AGCAAACGTG
*
98626290 AGAA AGAA AGAA AGAA AGAA AGAT AGAA AGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA
98626321 CTAACAGAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (4 bp):
AGAA
Found at i:98628036 original size:18 final size:19
Alignment explanation
Indices: 98628013--98628052 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
98628003 CAATTTCCTC
*
98628013 TTTGTTTTCTCTTA-CTTA
1 TTTGTTTTATCTTATCTTA
98628031 TTTGTTTTATCTTATCTTA
1 TTTGTTTTATCTTATCTTA
98628050 TTT
1 TTT
98628053 TATTTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTGTTTTATCTTATCTTA
Found at i:98628060 original size:20 final size:18
Alignment explanation
Indices: 98628017--98628060 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
98628007 TTCCTCTTTG
* *
98628017 TTTTCTCTTACTTATTTG
1 TTTTATCTTACTTATTTA
98628035 TTTTATCTTATCTTATTTTA
1 TTTTATCTTA-CTTA-TTTA
98628055 TTTTAT
1 TTTTAT
98628061 ATTTTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 4 0.18
20 9 0.41
ACGTcount: A:0.16, C:0.11, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATCTTACTTATTTA
Found at i:98631948 original size:21 final size:22
Alignment explanation
Indices: 98631924--98631983 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
98631914 AGAACCAAAT
98631924 TATACATAAAT-AAATTTAAAA
1 TATACATAAATAAAATTTAAAA
* *
98631945 TATATATATATAAAATTTAAGAA
1 TATACATAAATAAAATTTAA-AA
* * *
98631968 AATACTTACATAAAAT
1 TATACATAAATAAAAT
98631984 AATACGAGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 9 0.29
22 8 0.26
23 14 0.45
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (22 bp):
TATACATAAATAAAATTTAAAA
Found at i:98634395 original size:5 final size:5
Alignment explanation
Indices: 98634385--98634414 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
98634375 AATAATTAAG
98634385 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
98634415 AAAAGAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:98634482 original size:31 final size:30
Alignment explanation
Indices: 98634447--98634507 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
98634437 GAAACAGAAT
*
98634447 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
98634478 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
98634508 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:98636083 original size:39 final size:40
Alignment explanation
Indices: 98635972--98636086 Score: 128
Period size: 38 Copynumber: 2.9 Consensus size: 40
98635962 CTTCGACCTC
*
98635972 GAGTCGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA
1 GAGTCGATGAGACACTGGGTGTCAAC--TATTACTTCGGATA
* ** ** *
98636013 GATTCGATGAGGTACTGGGTACCAACT-TTACTTCGGCTA
1 GAGTCGATGAGACACTGGGTGTCAACTATTACTTCGGATA
98636052 G-GTCGATGAGACACTGGGTGTCAACTATTACTTCG
1 GAGTCGATGAGACACTGGGTGTCAACTATTACTTCG
98636087 AACTATCCGA
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
38 20 0.33
39 19 0.32
40 1 0.02
41 18 0.30
42 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.30
Consensus pattern (40 bp):
GAGTCGATGAGACACTGGGTGTCAACTATTACTTCGGATA
Found at i:98641545 original size:30 final size:30
Alignment explanation
Indices: 98641500--98641559 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
98641490 CATTAATACG
*
98641500 AACTTTGGCAAAATTAC-CATTTTTCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
98641530 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
98641560 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:98643415 original size:47 final size:47
Alignment explanation
Indices: 98643306--98643416 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
98643296 CCGGGATAAG
* *
98643306 CACATAGTGCTTCATTGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
98643353 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
98643400 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
98643417 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:98655817 original size:20 final size:19
Alignment explanation
Indices: 98655794--98655858 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
98655784 ATTATTAAAT
98655794 TTTTAAAATATATAAAATTA
1 TTTTAAAATA-ATAAAATTA
98655814 TTTTAAAATAATTAAGAATTA
1 TTTTAAAATAA-TAA-AATTA
* *
98655835 --TTAAAAAAATTAAATTA
1 TTTTAAAATAATAAAATTA
98655852 TTTTAAA
1 TTTTAAA
98655859 TTACAATAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 5 0.13
18 2 0.05
19 14 0.36
20 13 0.33
21 5 0.13
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
TTTTAAAATAATAAAATTA
Found at i:98656606 original size:40 final size:40
Alignment explanation
Indices: 98656551--98656637 Score: 174
Period size: 40 Copynumber: 2.2 Consensus size: 40
98656541 CTAAAAATAC
98656551 TGAGAAAAATTTAATTTGTCATTCTCCTATTGGAAAGGGA
1 TGAGAAAAATTTAATTTGTCATTCTCCTATTGGAAAGGGA
98656591 TGAGAAAAATTTAATTTGTCATTCTCCTATTGGAAAGGGA
1 TGAGAAAAATTTAATTTGTCATTCTCCTATTGGAAAGGGA
98656631 TGAGAAA
1 TGAGAAA
98656638 CAGGGGCGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (40 bp):
TGAGAAAAATTTAATTTGTCATTCTCCTATTGGAAAGGGA
Found at i:98673248 original size:18 final size:18
Alignment explanation
Indices: 98673212--98673249 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
98673202 TCTAGTTCAA
*
98673212 TTATAATTTTTGCACTTG
1 TTATAATTTTTGCAATTG
98673230 TTATAATATTTT-CAATTG
1 TTATAAT-TTTTGCAATTG
98673248 TT
1 TT
98673250 TTAAACATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (18 bp):
TTATAATTTTTGCAATTG
Found at i:98675247 original size:18 final size:18
Alignment explanation
Indices: 98675210--98675247 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
98675200 AATATAATAC
98675210 AATTAAAATGTAAATATTA
1 AATTAAAA-GTAAATATTA
98675229 AATTAAAA-TAAATTATTA
1 AATTAAAAGTAAA-TATTA
98675247 A
1 A
98675248 TTTAGTGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 8 0.44
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AATTAAAAGTAAATATTA
Found at i:98684130 original size:22 final size:25
Alignment explanation
Indices: 98684098--98684145 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
98684088 TATTCCACAG
98684098 AAATTATATAAAAT-ATAA-TATAA
1 AAATTATATAAAATAATAATTATAA
*
98684121 AAATT-TATAATATAATAATTATAA
1 AAATTATATAAAATAATAATTATAA
98684145 A
1 A
98684146 CCTAATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATTATATAAAATAATAATTATAA
Found at i:98684131 original size:15 final size:14
Alignment explanation
Indices: 98684102--98684144 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
98684092 CCACAGAAAT
98684102 TATATAAAA-TATAA
1 TATA-AAAATTATAA
98684116 TATAAAAATTTATAA
1 TATAAAAA-TTATAA
*
98684131 TATAATAATTATAA
1 TATAAAAATTATAA
98684145 ACCTAATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.15
14 10 0.38
15 12 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAAAAATTATAA
Found at i:98694526 original size:24 final size:24
Alignment explanation
Indices: 98694477--98694535 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
98694467 AAATTTAATT
* *
98694477 TTAAAATTT-AAAAAGTAAAAAAA
1 TTAAATTTTAAAAAAATAAAAAAA
* *
98694500 TTAAATTTTAAAAAAATATAAAGA
1 TTAAATTTTAAAAAAATAAAAAAA
98694524 TTAAATTTTAAA
1 TTAAATTTTAAA
98694536 TTTATAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (24 bp):
TTAAATTTTAAAAAAATAAAAAAA
Found at i:98695187 original size:30 final size:30
Alignment explanation
Indices: 98695118--98695177 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
98695108 CTAATAGTTT
*
98695118 ATATCTTTATAATTTTTAAAGGGTTAAATCA
1 ATAT-TTTATAATTTTTAAAGGGTAAAATCA
*
98695149 ATTTTTTATAATTTTTAAAGGGCTAAAAT
1 ATATTTTATAATTTTTAAAGGG-TAAAAT
98695178 ATAATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (30 bp):
ATATTTTATAATTTTTAAAGGGTAAAATCA
Found at i:98697260 original size:6 final size:6
Alignment explanation
Indices: 98697249--98697274 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
98697239 GTTCTCCCCA
98697249 CCCTCT CCCTCT CCCTCT CCCTCT CC
1 CCCTCT CCCTCT CCCTCT CCCTCT CC
98697275 TTCCCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:98699277 original size:5 final size:5
Alignment explanation
Indices: 98699267--98699338 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
98699257 TGTTAAAAAA
* *
98699267 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
98699313 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
98699339 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:98699320 original size:19 final size:19
Alignment explanation
Indices: 98699296--98699338 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
98699286 ATTATGTTTT
98699296 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
98699315 TATATTATATTATATTATA
1 TATATTATATTATATTATA
98699334 TATAT
1 TATAT
98699339 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:98699371 original size:18 final size:19
Alignment explanation
Indices: 98699343--98699382 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
98699333 ATATATACAT
*
98699343 AAAACAAAAGAAAGAATAG
1 AAAACAAAAGAAAGAAAAG
98699362 AAAA-AAAAGAAAGAAAAG
1 AAAACAAAAGAAAGAAAAG
98699380 AAA
1 AAA
98699383 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (19 bp):
AAAACAAAAGAAAGAAAAG
Found at i:98700311 original size:46 final size:44
Alignment explanation
Indices: 98700259--98700372 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 44
98700249 AGAACAGAAA
*
98700259 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
* * *
98700305 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACATGAA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
* ** *
98700349 TAATTCATGTAAGTCCATGTTAAA
1 TGAGCCATGTAAGTCCATATTAAA
98700373 GACATGGCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 38 0.64
46 21 0.36
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:98700358 original size:44 final size:45
Alignment explanation
Indices: 98700252--98700385 Score: 144
Period size: 46 Copynumber: 3.0 Consensus size: 45
98700242 ACAGGACAGA
* * *
98700252 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * *
98700298 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
98700342 ACATGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
98700386 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:98705426 original size:5 final size:5
Alignment explanation
Indices: 98705416--98705487 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
98705406 TGTTAAAAAA
* *
98705416 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATTATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT A-TATT
98705462 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
98705488 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 32 0.57
6 11 0.20
7 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:98705469 original size:19 final size:19
Alignment explanation
Indices: 98705445--98705487 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
98705435 ATTATGTTTT
98705445 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
98705464 TATATTATATTATATTATA
1 TATATTATATTATATTATA
98705483 TATAT
1 TATAT
98705488 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:98705519 original size:19 final size:19
Alignment explanation
Indices: 98705492--98705532 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
98705482 ATATATACAT
* *
98705492 AAAACAAAAGAAAGAATAG
1 AAAAAAAAAGAAAGAAAAG
98705511 AAAAAAAAAGAAAGAAAAG
1 AAAAAAAAAGAAAGAAAAG
98705530 AAA
1 AAA
98705533 CAGAATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAAAGAAAAG
Found at i:98705520 original size:15 final size:15
Alignment explanation
Indices: 98705497--98705542 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
98705487 TACATAAAAC
*
98705497 AAAAGAAAGAATAGA
1 AAAAAAAAGAATAGA
98705512 AAAAAAAAGAA-AGA
1 AAAAAAAAGAATAGA
*
98705526 AAAGAAACAGAATAGA
1 AAA-AAAAAGAATAGA
98705542 A
1 A
98705543 GAGACGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 17 0.63
16 4 0.15
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.04
Consensus pattern (15 bp):
AAAAAAAAGAATAGA
Found at i:98706497 original size:44 final size:45
Alignment explanation
Indices: 98706402--98706535 Score: 162
Period size: 44 Copynumber: 3.0 Consensus size: 45
98706392 ACAGGACAGA
* *
98706402 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
98706448 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * *
98706492 ACAGGAATAATTCATGTAAGTCCATGTTAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
98706536 CAGGATATTG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 37 0.49
45 1 0.01
46 37 0.49
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:98708666 original size:54 final size:54
Alignment explanation
Indices: 98708598--98708778 Score: 148
Period size: 54 Copynumber: 3.1 Consensus size: 54
98708588 TTATTAGTTA
*
98708598 TAATTATTTTAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
1 TAATTATTTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
* * * * **
98708652 TAATTATTTCAAATTTTCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATA
1 TAATTATTT-AAAATTT-TATTA-A--ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATA
98708717 T
54 T
* * *
98708718 TAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATTATTTAA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
98708772 TAATTAT
1 TAATTAT
98708779 GTTACTTTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 27
0.69 0.11 0.19
Matches are distributed among these distances:
54 19 0.20
55 9 0.09
56 5 0.05
57 3 0.03
59 11 0.11
60 8 0.08
61 10 0.10
63 4 0.04
64 7 0.07
65 10 0.10
66 11 0.11
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (54 bp):
TAATTATTTAAAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAT
Found at i:98708747 original size:120 final size:120
Alignment explanation
Indices: 98708609--98708901 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
98708599 AATTATTTTA
* * * *
98708609 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
98708672 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
98708729 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
98708794 ACAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
98708849 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAGTTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
98708902 TAAATATGAT
Statistics
Matches: 163, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 4 0.02
120 157 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:98708769 original size:15 final size:15
Alignment explanation
Indices: 98708734--98708775 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
98708724 TTAAGAATTT
*
98708734 TATTAAATTAT-ATA
1 TATTTAATTATAATA
98708748 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
98708762 TATTTAATAATAAT
1 TATTTAATTATAAT
98708776 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:98708864 original size:61 final size:61
Alignment explanation
Indices: 98708682--98708869 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
98708672 TTATAGTATC
98708682 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * *
98708743 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTACTTTA-TATTTTA-CAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATTA-TTAAGAATTTTATTA-AAT
98708801 T
61 T
98708802 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
98708863 ATATATT
1 ATATATT
98708870 TTAATTATAA
Statistics
Matches: 97, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
57 11 0.11
58 7 0.07
59 20 0.21
60 14 0.14
61 27 0.28
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:98709124 original size:157 final size:157
Alignment explanation
Indices: 98708838--98709154 Score: 546
Period size: 157 Copynumber: 2.0 Consensus size: 157
98708828 ATAAGAATAT
* *
98708838 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAGTTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
98708903 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
98708968 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
98708995 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
98709059 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
98709124 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
98709152 TAA
1 TAA
98709155 GGGTATTCTA
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
156 25 0.17
157 126 0.83
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:98709302 original size:16 final size:16
Alignment explanation
Indices: 98709277--98709345 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
98709267 GATTAGCTAT
*
98709277 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
98709293 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
98709310 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
98709326 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
98709342 TACA
1 TACA
98709346 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:98709320 original size:33 final size:32
Alignment explanation
Indices: 98709277--98709345 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
98709267 GATTAGCTAT
*
98709277 TACACTTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
98709310 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
98709342 TACA
1 TACA
98709346 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:98714968 original size:17 final size:16
Alignment explanation
Indices: 98714946--98714979 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
98714936 CATTGTTTTC
*
98714946 TAGAGGTCTGATAATTT
1 TAGAGGACTGAT-ATTT
98714963 TAGAGGACTGATATTT
1 TAGAGGACTGATATTT
98714979 T
1 T
98714980 CCATCTGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (16 bp):
TAGAGGACTGATATTT
Found at i:98723591 original size:20 final size:20
Alignment explanation
Indices: 98723555--98723605 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
98723545 TACATGAGAA
*
98723555 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAACACTTAATT
98723575 TAAAGAAAATAA-ACTTAATTAT
1 TAAA-AAAATAACACTTAA-T-T
98723597 TAAAAAAAT
1 TAAAAAAAT
98723606 TTCAAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.33
21 13 0.48
22 5 0.19
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAAAAATAACACTTAATT
Found at i:98723859 original size:15 final size:15
Alignment explanation
Indices: 98723839--98723877 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
98723829 ATCAAATCTA
*
98723839 TTTAAAAAATATTGT
1 TTTAAAAAATATTAT
98723854 TTTAAAAAATATTAT
1 TTTAAAAAATATTAT
*
98723869 TTGAAAAAA
1 TTTAAAAAA
98723878 ATGAATAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
TTTAAAAAATATTAT
Found at i:98725901 original size:24 final size:25
Alignment explanation
Indices: 98725874--98725922 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
98725864 CTTTTTTTAT
*
98725874 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
98725898 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
98725923 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:98725915 original size:25 final size:23
Alignment explanation
Indices: 98725886--98725950 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
98725876 AATAAAAAAC
*
98725886 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
98725911 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
98725932 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
98725951 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:98725949 original size:19 final size:20
Alignment explanation
Indices: 98725912--98725950 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
98725902 TCAAATACAT
98725912 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
98725932 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
98725951 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:98732191 original size:19 final size:20
Alignment explanation
Indices: 98732154--98732192 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
98732144 TTAAATACAT
98732154 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
98732174 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
98732193 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:98739550 original size:4 final size:4
Alignment explanation
Indices: 98739533--98739566 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
98739523 GAAGAAGCCT
* *
98739533 TACA TTCA TTCA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA
98739567 TGGGGTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (4 bp):
TACA
Found at i:98743495 original size:17 final size:16
Alignment explanation
Indices: 98743456--98743486 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98743446 AATTATCGTA
*
98743456 TTTTTTAAAATTTTAG
1 TTTTATAAAATTTTAG
98743472 TTTTATAAAATTTTA
1 TTTTATAAAATTTTA
98743487 TAGTTTATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTATAAAATTTTAG
Found at i:98743697 original size:20 final size:20
Alignment explanation
Indices: 98743672--98743736 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
98743662 CAAAATGATT
98743672 TAAATATCAAAATAGAAAAA
1 TAAATATCAAAATAGAAAAA
* **
98743692 TAAATAT-AAAA-A-ATGATT
1 TAAATATCAAAATAGA-AAAA
*
98743710 TGAATATCAAAATAGAAAAA
1 TAAATATCAAAATAGAAAAA
98743730 TAAATAT
1 TAAATAT
98743737 ACTTTTAAGA
Statistics
Matches: 33, Mismatches: 8, Indels: 8
0.67 0.16 0.16
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
19 8 0.24
20 15 0.45
21 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (20 bp):
TAAATATCAAAATAGAAAAA
Found at i:98743716 original size:38 final size:38
Alignment explanation
Indices: 98743663--98743737 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
98743653 AAACTAAGAC
98743663 AAAATGATTTAAATATCAAAATAGAAAAATAAATATAA
1 AAAATGATTTAAATATCAAAATAGAAAAATAAATATAA
*
98743701 AAAATGATTTGAATATCAAAATAGAAAAATAAATATA
1 AAAATGATTTAAATATCAAAATAGAAAAATAAATATA
98743738 CTTTTAAGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.27
Consensus pattern (38 bp):
AAAATGATTTAAATATCAAAATAGAAAAATAAATATAA
Found at i:98744800 original size:20 final size:20
Alignment explanation
Indices: 98744775--98744822 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
98744765 ACGTTATTAC
*
98744775 TTAAAATA-TTAAAAAATAT
1 TTAAAATAGTAAAAAAATAT
98744794 ATTAAAATTAGTAAAAAAATAT
1 -TTAAAA-TAGTAAAAAAATAT
98744816 TTAAAAT
1 TTAAAAT
98744823 TTTTAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
TTAAAATAGTAAAAAAATAT
Found at i:98750669 original size:12 final size:12
Alignment explanation
Indices: 98750654--98750701 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
98750644 TTTAAACCAA
98750654 ACTTTTCAAAGC
1 ACTTTTCAAAGC
*
98750666 ACTTCTCAAAAGC
1 ACTTTTC-AAAGC
*
98750679 ACTTTTTCACAGC
1 AC-TTTTCAAAGC
98750692 ACTTTTCAAA
1 ACTTTTCAAA
98750702 AGTATTACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 13 0.43
13 13 0.43
14 4 0.13
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (12 bp):
ACTTTTCAAAGC
Found at i:98756846 original size:28 final size:28
Alignment explanation
Indices: 98756793--98756876 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
98756783 CACTTTGTGC
98756793 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
98756822 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
98756850 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
98756877 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:98756888 original size:23 final size:24
Alignment explanation
Indices: 98756797--98756890 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
98756787 TTGTGCTATT
98756797 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
98756824 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
98756854 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
98756877 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
98756891 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:98757119 original size:23 final size:23
Alignment explanation
Indices: 98757081--98757167 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 23
98757071 GCTTTACTGA
*
98757081 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* * *
98757104 TTAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
* **
98757125 GCAGGCACCTCGTGTGTCG--TT
1 TCAGGCACCTTATGTGTCGTATT
98757146 TCAGGCA-CTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
98757168 CTGATCAGGT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
20 9 0.18
21 22 0.44
22 2 0.04
23 17 0.34
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:98764648 original size:22 final size:22
Alignment explanation
Indices: 98764619--98764686 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
98764609 TGCACAAACG
98764619 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
*
98764641 TACAGAGAGCAC-AGATA-TGCTA
1 AACAGAGAGCACTA-A-AGTGCTA
*
98764663 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
98764686 A
1 A
98764687 TAATAGAACA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 1 0.03
22 28 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:98764699 original size:30 final size:29
Alignment explanation
Indices: 98764663--98764719 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
98764653 AGATATGCTA
98764663 AACAGAGAGCACTTAACGTGCTAATAATAG
1 AACAGAGAGCAC-TAACGTGCTAATAATAG
*
98764693 AACAGAGAGCACTAATGTGCTAATAAT
1 AACAGAGAGCACTAACGTGCTAATAAT
98764720 CAGAGAGCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (29 bp):
AACAGAGAGCACTAACGTGCTAATAATAG
Found at i:98766787 original size:12 final size:12
Alignment explanation
Indices: 98766770--98766808 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
98766760 CCATGAGGGC
98766770 TTTTATCACAAA
1 TTTTATCACAAA
*
98766782 TTTTATCAC-AC
1 TTTTATCACAAA
98766793 TTTTATCACAAA
1 TTTTATCACAAA
98766805 TTTT
1 TTTT
98766809 TTTGGTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (12 bp):
TTTTATCACAAA
Found at i:98766798 original size:11 final size:11
Alignment explanation
Indices: 98766769--98766802 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
98766759 GCCATGAGGG
98766769 CTTTTATCACAA
1 CTTTTATCAC-A
*
98766781 ATTTTATCACA
1 CTTTTATCACA
98766792 CTTTTATCACA
1 CTTTTATCACA
98766803 AATTTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (11 bp):
CTTTTATCACA
Found at i:98766857 original size:14 final size:14
Alignment explanation
Indices: 98766838--98766864 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98766828 TAATGTTACT
98766838 ATTTTTTTATTATC
1 ATTTTTTTATTATC
98766852 ATTTTTTTATTAT
1 ATTTTTTTATTAT
98766865 TTTCCTATTA
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:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTTTTATTATC
Found at i:98766902 original size:14 final size:15
Alignment explanation
Indices: 98766869--98766920 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
98766859 TATTATTTTC
*
98766869 CTATTATTTATTATA
1 CTATTATTTATTACA
*
98766884 CTATT-TTTTTTACA
1 CTATTATTTATTACA
*
98766898 CTATTATTTATTATA
1 CTATTATTTATTACA
98766913 CTTATTAT
1 C-TATTAT
98766921 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 12 0.39
15 13 0.42
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
CTATTATTTATTACA
Found at i:98768962 original size:19 final size:20
Alignment explanation
Indices: 98768922--98768965 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
98768912 GTTTCTTTTG
* *
98768922 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
98768941 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
98768960 GCATTA
1 GCATTA
98768966 GACTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:98771325 original size:52 final size:52
Alignment explanation
Indices: 98771246--98771410 Score: 216
Period size: 46 Copynumber: 3.2 Consensus size: 52
98771236 TACTTCTGAT
* *
98771246 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
** *
98771299 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
98771351 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
*
98771397 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
98771411 GCTACACTTA
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
46 43 0.45
52 41 0.43
53 12 0.12
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.27
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
Found at i:98771418 original size:37 final size:37
Alignment explanation
Indices: 98771374--98771482 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
98771364 GATAGCTTTA
98771374 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
98771411 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
98771448 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
98771483 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:98776064 original size:86 final size:86
Alignment explanation
Indices: 98775919--98776182 Score: 404
Period size: 86 Copynumber: 3.1 Consensus size: 86
98775909 AGTAAAAATT
* * * * *
98775919 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
98775984 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
98776005 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
98776070 GCATTGAC-GACGAAGCAGATC
66 GCATTGACAG-CGAAGCAGATC
* *
98776091 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTTCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
* *
98776156 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
98776178 GAAGA
1 GAAGA
98776183 TGGCAGATTT
Statistics
Matches: 162, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
85 1 0.01
86 140 0.86
87 20 0.12
88 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:98776371 original size:134 final size:134
Alignment explanation
Indices: 98776130--98776405 Score: 491
Period size: 134 Copynumber: 2.1 Consensus size: 134
98776120 GCAGAGCTGG
* * *
98776130 TTGAAGATATCAGATCTTGCTTTTCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATATCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
98776195 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
98776260 TAGA
131 TAGA
98776264 TTGAAGAT-TGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGATAT-CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
*
98776328 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
98776393 ATAGA
130 ATAGA
98776398 TTGAAGAT
1 TTGAAGAT
98776406 CAAAGATGGC
Statistics
Matches: 136, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
133 1 0.01
134 135 0.99
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TTGAAGATATCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:98776392 original size:45 final size:45
Alignment explanation
Indices: 98776341--98776498 Score: 133
Period size: 45 Copynumber: 3.4 Consensus size: 45
98776331 TCCCTGACCA
*
98776341 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* * * * * * *
98776386 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ACTCTATCTCCCTGTATTTGG
*
98776436 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
98776481 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
98776499 ATTGCAGATC
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
42 11 0.13
43 2 0.02
44 1 0.01
45 32 0.38
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 16 0.19
51 1 0.01
52 2 0.02
53 11 0.13
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:98776405 original size:88 final size:88
Alignment explanation
Indices: 98776287--98776507 Score: 309
Period size: 95 Copynumber: 2.4 Consensus size: 88
98776277 ATCTTGCCTT
* * **
98776287 CCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTA
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTA
98776351 CATTGAAGCCGATAACTCTATCTC
65 CATTGAAGCCGATAACTCTATCTC
*
98776375 CCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT
1 CCTGTATTTGGCAGTGGAATAGATT---G----AAGATGGCAGATTTTACCTCCCTGACCACAGT
98776440 GGAGTACATTGAAGCCGATAACTCTATCTC
59 GGAGTACATTGAAGCCGATAACTCTATCTC
*
98776470 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGAT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGAT
98776508 CTTGCCTTCC
Statistics
Matches: 119, Mismatches: 6, Indels: 16
0.84 0.04 0.11
Matches are distributed among these distances:
88 29 0.24
89 3 0.03
92 1 0.01
95 86 0.72
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTAC
ATTGAAGCCGATAACTCTATCTC
Found at i:98776420 original size:95 final size:95
Alignment explanation
Indices: 98776307--98776500 Score: 379
Period size: 95 Copynumber: 2.0 Consensus size: 95
98776297 GCAGCGAAGC
98776307 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
98776372 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
*
98776402 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
98776467 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
98776497 AGAT
1 AGAT
98776501 TGCAGATCTT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:98776441 original size:229 final size:229
Alignment explanation
Indices: 98776173--98776605 Score: 776
Period size: 229 Copynumber: 1.9 Consensus size: 229
98776163 GCAGCGAAGC
* *
98776173 AGATCGAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
98776238 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
98776303 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
98776368 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
*
98776402 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
98776467 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
* ** * **
98776532 AAGCAGATCGAAGATGGCAGATTTTACCTCCCTGATTACAGTGGAGTACATTGAAGCTGATAGTT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
98776597 CTATCTCCC
196 CTATCTCCC
98776606 GGGGTAAGAA
Statistics
Matches: 194, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
229 194 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCA
AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:98776850 original size:132 final size:132
Alignment explanation
Indices: 98776613--98777287 Score: 1082
Period size: 132 Copynumber: 5.1 Consensus size: 132
98776603 CCCGGGGTAA
* * * * * *
98776613 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
*
98776678 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
98776743 GT
131 GT
*
98776745 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
98776810 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
98776875 GT
131 GT
*
98776877 GAAGTAGATCGAATATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
* *
98776942 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGAC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
98777007 GT
131 GT
* * * * * * *
98777009 GAAGTAGATCAAAGATAACAGGTCCTATCTTCCTATAATGATTGGAAGTGGATCGACGACGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
* *
98777074 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTAGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
98777139 GT
131 GT
*
98777141 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
* ** * * *
98777206 TCTTGTCTTCCCATACTGGTGGTAAAGTAGATCGAAGAAAGTAAATCTTG-CCTCATGTATTGGC
66 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
*
98777270 AT
131 GT
*
98777272 GAAGTAGATTGAAGAT
1 GAAGTAGATCGAAGAT
98777288 TACAGATCTT
Statistics
Matches: 503, Mismatches: 40, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
131 28 0.06
132 475 0.94
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:98779664 original size:15 final size:15
Alignment explanation
Indices: 98779644--98779693 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
98779634 CTATTTTTTT
98779644 TTTATTTTCCTATTA
1 TTTATTTTCCTATTA
* *
98779659 TTTATTATACTATT-
1 TTTATTTTCCTATTA
*
98779673 TTT-TTTACACTATTA
1 TTTATTTTC-CTATTA
98779688 TTTATT
1 TTTATT
98779694 ATACTTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
13 2 0.07
14 8 0.30
15 15 0.56
16 2 0.07
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATTTTCCTATTA
Found at i:98779686 original size:14 final size:15
Alignment explanation
Indices: 98779653--98779704 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
98779643 TTTTATTTTC
*
98779653 CTATTATTTATTATA
1 CTATTATTTATTACA
*
98779668 CTATT-TTTTTTACA
1 CTATTATTTATTACA
*
98779682 CTATTATTTATTATA
1 CTATTATTTATTACA
98779697 CTTATTAT
1 C-TATTAT
98779705 ATCATTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 12 0.39
15 13 0.42
16 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
CTATTATTTATTACA
Found at i:98787753 original size:13 final size:13
Alignment explanation
Indices: 98787722--98787746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98787712 TAGATAATTA
98787722 ACAAATCATACAC
1 ACAAATCATACAC
98787735 ACAAATCATACA
1 ACAAATCATACA
98787747 TATAAATTCA
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:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
ACAAATCATACAC
Found at i:98789333 original size:12 final size:13
Alignment explanation
Indices: 98789303--98789337 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
98789293 CTATCTCAAT
98789303 TAATAGATAAAATA
1 TAATA-ATAAAATA
98789317 TAATAATAAAA-A
1 TAATAATAAAATA
98789329 TAATAATAA
1 TAATAATAA
98789338 GTAAATATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 6 0.29
14 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
TAATAATAAAATA
Found at i:98791291 original size:51 final size:51
Alignment explanation
Indices: 98791235--98791334 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 51
98791225 CTAAGATTTT
98791235 TTTTATG-TTT-AGTATATTAT-TATATCATTATATTATTATATAA-TAAAGATA
1 TTTTATGTTTTAAGTATATTATAT-TAT-ATTATATTA-TATA-AACTAAAGATA
*
98791286 TTTTATGTTTTAATTATATTATATTATATTATATTATATAAACTAAAGA
1 TTTTATGTTTTAAGTATATTATATTATATTATATTATATAAACTAAAGA
98791335 ACCAAAAGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
50 2 0.05
51 17 0.39
52 12 0.27
53 12 0.27
54 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (51 bp):
TTTTATGTTTTAAGTATATTATATTATATTATATTATATAAACTAAAGATA
Found at i:98791308 original size:5 final size:5
Alignment explanation
Indices: 98791298--98791324 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
98791288 TTATGTTTTA
98791298 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
98791325 AAACTAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:98791510 original size:13 final size:13
Alignment explanation
Indices: 98791492--98791524 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
98791482 GATGTTTTAG
98791492 AAGTTTTAGAACA
1 AAGTTTTAGAACA
98791505 AAGTTTTAGAACA
1 AAGTTTTAGAACA
98791518 AAGTTTT
1 AAGTTTT
98791525 GATGAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (13 bp):
AAGTTTTAGAACA
Found at i:98792623 original size:15 final size:15
Alignment explanation
Indices: 98792603--98792663 Score: 81
Period size: 15 Copynumber: 4.1 Consensus size: 15
98792593 TATGCGATGA
98792603 ATTTATTGAATTTAT
1 ATTTATTGAATTTAT
*
98792618 ATTTATTGAAATTAT
1 ATTTATTGAATTTAT
98792633 -TTTGATTGAATTTAT
1 ATTT-ATTGAATTTAT
*
98792648 ATTGATTGAA-TTAT
1 ATTTATTGAATTTAT
98792662 AT
1 AT
98792664 AATATATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.22
15 30 0.73
16 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (15 bp):
ATTTATTGAATTTAT
Found at i:98795952 original size:21 final size:21
Alignment explanation
Indices: 98795926--98795975 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
98795916 CCATTCTTTT
* *
98795926 TAATCTCACTGCTACAGTATC
1 TAATCTCACCGCTACAGTAAC
98795947 TAATCTCACCGCTACAGTAAC
1 TAATCTCACCGCTACAGTAAC
98795968 TAATCTCA
1 TAATCTCA
98795976 TCGCCACCGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (21 bp):
TAATCTCACCGCTACAGTAAC
Found at i:98800217 original size:16 final size:17
Alignment explanation
Indices: 98800173--98800217 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
98800163 AAGAGAATGG
*
98800173 AAAAAAAGA-AAAAGAA
1 AAAAAAACATAAAAGAA
*
98800189 AAAAGAACATAAAAGAA
1 AAAAAAACATAAAAGAA
98800206 AAAAAAAC-TAAA
1 AAAAAAACATAAA
98800218 TTGGTCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.04
Consensus pattern (17 bp):
AAAAAAACATAAAAGAA
Found at i:98800784 original size:20 final size:20
Alignment explanation
Indices: 98800756--98800794 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
98800746 TTTAAACCCA
* *
98800756 ACTTTTCTCTCTAAATCCAC
1 ACTTCTCTCCCTAAATCCAC
*
98800776 ACTTCTCTCCCTAAGTCCA
1 ACTTCTCTCCCTAAATCCA
98800795 AAAAGGCCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.36
Consensus pattern (20 bp):
ACTTCTCTCCCTAAATCCAC
Found at i:98809833 original size:16 final size:17
Alignment explanation
Indices: 98809812--98809844 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
98809802 CTAAGAGCTT
98809812 GGCTTG-TGTAGCTTAG
1 GGCTTGATGTAGCTTAG
98809828 GGCTTGACTGTAGCTTA
1 GGCTTGA-TGTAGCTTA
98809845 CATATGTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.36
Consensus pattern (17 bp):
GGCTTGATGTAGCTTAG
Found at i:98814850 original size:15 final size:15
Alignment explanation
Indices: 98814832--98814869 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
98814822 ATAAATATAA
98814832 AAAAATTAAAAAATT
1 AAAAATTAAAAAATT
**
98814847 AAAAATTAAAATCTT
1 AAAAATTAAAAAATT
98814862 AAAAATTA
1 AAAAATTA
98814870 TGCTTTGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATTAAAAAATT
Found at i:98817026 original size:15 final size:15
Alignment explanation
Indices: 98816984--98817026 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
98816974 TATTTACTAT
* *
98816984 AAAATAAATAAATTT
1 AAAATAAATAACTTA
*
98816999 AAAATTAAT-ACTTA
1 AAAATAAATAACTTA
98817013 AAAATAAATAACTT
1 AAAATAAATAACTT
98817027 GAATTATGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATAAATAACTTA
Found at i:98823344 original size:27 final size:28
Alignment explanation
Indices: 98823296--98823350 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
98823286 TAAATTATGC
*
98823296 TATTTATGTTTTTAATTATATT-ATTTA
1 TATTTATGATTTTAATTATATTGATTTA
*
98823323 TATTTAT-ATTTTATTTATTATTGATTTA
1 TATTTATGATTTTAATTA-TATTGATTTA
98823351 GGGAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 11 0.46
28 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TATTTATGATTTTAATTATATTGATTTA
Found at i:98823400 original size:21 final size:20
Alignment explanation
Indices: 98823374--98823413 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
98823364 AAAAATGAGC
*
98823374 TTATATTATAAACTAAGAGAA
1 TTATATAATAAAC-AAGAGAA
98823395 TTATATAATAAACAAGAGA
1 TTATATAATAAACAAGAGA
98823414 GAATAGTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (20 bp):
TTATATAATAAACAAGAGAA
Found at i:98825724 original size:45 final size:45
Alignment explanation
Indices: 98825674--98825780 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 45
98825664 GTAACGGTAG
* * * *
98825674 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTATAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTATTGAATCGACAA
* * *
98825719 CAGTAACGGTAACAGTATTCGACATACAAAGTATTGAATCGGCAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTATTGAATCGACAA
98825764 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
98825781 ACAGTAGTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTATTGAATCGACAA
Found at i:98826787 original size:6 final size:6
Alignment explanation
Indices: 98826772--98826815 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
98826762 AAATCTCTAG
** *
98826772 TTTTTCC TTTTTC TTTTTC TTTCCC TTTTTC TTTCTC TTTTTC T
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
98826816 CCCCTGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:98826793 original size:12 final size:12
Alignment explanation
Indices: 98826772--98826815 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
98826762 AAATCTCTAG
*
98826772 TTTTTCCTTTTTC
1 TTTTT-CTTTCTC
*
98826785 TTTTTCTTTCCC
1 TTTTTCTTTCTC
98826797 TTTTTCTTTCTC
1 TTTTTCTTTCTC
98826809 TTTTTCT
1 TTTTTCT
98826816 CCCCTGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 23 0.82
13 5 0.18
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:98826800 original size:18 final size:18
Alignment explanation
Indices: 98826777--98826811 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
98826767 TCTAGTTTTT
*
98826777 CCTTTTTCTTTTTCTTTC
1 CCTTTTTCTTTCTCTTTC
98826795 CCTTTTTCTTTCTCTTT
1 CCTTTTTCTTTCTCTTT
98826812 TTCTCCCCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
CCTTTTTCTTTCTCTTTC
Found at i:98826825 original size:24 final size:24
Alignment explanation
Indices: 98826772--98826826 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
98826762 AAATCTCTAG
* *
98826772 TTTTTCCTTTTTCTTTTTCTTTCCC
1 TTTTT-CTTTCTCTTTTTCTTCCCC
98826797 TTTTTCTTTCTCTTTTTC-TCCCC
1 TTTTTCTTTCTCTTTTTCTTCCCC
98826820 TGTTTTC
1 T-TTTTC
98826827 GAATGCCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 5 0.19
24 17 0.63
25 5 0.19
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (24 bp):
TTTTTCTTTCTCTTTTTCTTCCCC
Found at i:98826914 original size:16 final size:16
Alignment explanation
Indices: 98826864--98826916 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
98826854 GTTTTGTTTC
*
98826864 TATTTATTTTATACTT
1 TATTTACTTTATACTT
*
98826880 TATTT-CTTTTTACTT
1 TATTTACTTTATACTT
98826895 TATTTACTTTATA-TT
1 TATTTACTTTATACTT
98826910 ATATTTA
1 -TATTTA
98826917 ATAATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTACTTTATACTT
Found at i:98827128 original size:33 final size:33
Alignment explanation
Indices: 98827059--98827121 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
98827049 ATTATTTAAT
*
98827059 TAATAAATATCTCTTAATTTTAATAACAATAAA
1 TAATAAATATCTCTTAATTTAAATAACAATAAA
98827092 TAATAAATATCTAC-TAATTTAAATAA-AATA
1 TAATAAATATCT-CTTAATTTAAATAACAATA
98827122 TTATAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.14
33 23 0.82
34 1 0.04
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (33 bp):
TAATAAATATCTCTTAATTTAAATAACAATAAA
Found at i:98827513 original size:3 final size:3
Alignment explanation
Indices: 98827505--98827565 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
98827495 TTAATTTATT
* * *
98827505 TAA TAA TAA TAT TAA TAA TAA TTAA TAA TTA TAA TAA TCAA TTA T-A
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA
98827551 TAA T-A TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TA
98827566 TTTATAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.12
3 36 0.75
4 6 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:98827519 original size:12 final size:12
Alignment explanation
Indices: 98827504--98827573 Score: 54
Period size: 13 Copynumber: 5.7 Consensus size: 12
98827494 TTTAATTTAT
98827504 TTAATAATAATA
1 TTAATAATAATA
98827516 TTAATAATAATTA
1 TTAATAATAA-TA
* *
98827529 ATAATTATAATAA
1 TTAATAATAAT-A
*
98827542 TCAATTATATAATA
1 TTAA-TA-ATAATA
98827556 -TAAT-ATAATA
1 TTAATAATAATA
*
98827566 TTTATAAT
1 TTAATAAT
98827574 TTAAATAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
10 6 0.13
11 3 0.07
12 14 0.31
13 15 0.33
14 2 0.04
15 5 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATAATAATA
Found at i:98827529 original size:22 final size:21
Alignment explanation
Indices: 98827504--98827564 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 21
98827494 TTTAATTTAT
98827504 TTAATAATAATATTAATAATAA
1 TTAATAATAATA-TAATAATAA
98827526 TTAATAAT--TATAATAATCAA
1 TTAATAATAATATAATAAT-AA
98827546 TT-AT-ATAATATAAT-ATAA
1 TTAATAATAATATAATAATAA
98827564 T
1 T
98827565 ATTTATAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
18 5 0.14
19 11 0.31
20 12 0.33
22 8 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATAATAATATAATAATAA
Found at i:98827540 original size:31 final size:34
Alignment explanation
Indices: 98827505--98827573 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
98827495 TTAATTTATT
98827505 TAATAAT-AA-TAT-TAATAATAAT-TAATAATTA
1 TAATAATCAATTATATAAT-ATAATATAATAATTA
*
98827536 TAATAATCAATTATATAATATAATATAATATTTA
1 TAATAATCAATTATATAATATAATATAATAATTA
98827570 TAAT
1 TAAT
98827574 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
31 7 0.21
32 2 0.06
33 8 0.24
34 16 0.48
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (34 bp):
TAATAATCAATTATATAATATAATATAATAATTA
Found at i:98827566 original size:10 final size:11
Alignment explanation
Indices: 98827505--98827565 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 11
98827495 TTAATTTATT
98827505 TAATAATAATA
1 TAATAATAATA
98827516 TTAATAATAAT-
1 -TAATAATAATA
*
98827527 TAATAATTATAA
1 TAATAATAAT-A
*
98827539 TAATCAATTATA
1 TAAT-AATAATA
98827551 TAAT-ATAATA
1 TAATAATAATA
98827561 TAATA
1 TAATA
98827566 TTTATAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
10 18 0.42
12 19 0.44
13 6 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATAATAATA
Found at i:98837032 original size:12 final size:13
Alignment explanation
Indices: 98837015--98837051 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
98837005 GAACCGGACA
98837015 CGAACCGAA-CTC
1 CGAACCGAAGCTC
98837027 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
98837039 CGAACCGTAGCTC
1 CGAACCGAAGCTC
98837052 TGATACCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:98841677 original size:3 final size:3
Alignment explanation
Indices: 98841669--98841706 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
98841659 CAAACTATGG
*
98841669 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ACT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
98841707 ATGATCAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:98843750 original size:18 final size:19
Alignment explanation
Indices: 98843727--98843775 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
98843717 TATACACATT
98843727 TTTTAAATCAAATCT-AAA
1 TTTTAAATCAAATCTAAAA
98843745 TTTTAAAGAT-AAATCTAAAA
1 TTTT-AA-ATCAAATCTAAAA
*
98843765 TTTTAGATCAA
1 TTTTAAATCAA
98843776 CTCAAATCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
20 9 0.35
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (19 bp):
TTTTAAATCAAATCTAAAA
Done.