Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 18 of 199
Found at i:5910528 original size:26 final size:27
Alignment explanation
Indices: 5910497--5910568 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
5910487 AAAATTTTAC
*
5910497 AAAATATTTTTTATGTTTTATATTTTT
1 AAAATATTTTTTATATTTTATATTTTT
** *
5910524 -AAATATTTTAAATATTTTTTATTTTT
1 AAAATATTTTTTATATTTTATATTTTT
* *
5910550 AAAATAATTTTTAAATTTT
1 AAAATATTTTTTATATTTT
5910569 TTTATAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
26 22 0.61
27 14 0.39
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (27 bp):
AAAATATTTTTTATATTTTATATTTTT
Found at i:5910540 original size:19 final size:19
Alignment explanation
Indices: 5910516--5910569 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
5910506 TTTATGTTTT
5910516 ATATTTTTAAATATTTT-AA
1 ATATTTTTAAAT-TTTTAAA
*
5910535 ATATTTTT-TATTTTTAAA
1 ATATTTTTAAATTTTTAAA
5910553 ATAATTTTTAAATTTTT
1 AT-ATTTTTAAATTTTT
5910570 TTATAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 4 0.13
18 6 0.20
19 14 0.47
20 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATATTTTTAAATTTTTAAA
Found at i:5911703 original size:15 final size:16
Alignment explanation
Indices: 5911671--5911705 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
5911661 ATCCTAATAA
*
5911671 TATTTACATCTTTTAT
1 TATTTACATCTGTTAT
5911687 TATTTACAT-TGTTAT
1 TATTTACATCTGTTAT
5911702 TATT
1 TATT
5911706 GTAGCAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.63
Consensus pattern (16 bp):
TATTTACATCTGTTAT
Found at i:5914861 original size:26 final size:24
Alignment explanation
Indices: 5914831--5914899 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 24
5914821 GAGCCATGAT
*
5914831 CGGTAAGCTCAT-TCCGAGCTGATAAA
1 CGGTAAGCTCATAT-CAAGCTG--AAA
5914857 CGGTAAGCTC-TATCAAGCTGAAA
1 CGGTAAGCTCATATCAAGCTGAAA
5914880 CGGTAAGCTCATA-CAAGCTG
1 CGGTAAGCTCATATCAAGCTG
5914900 TGGTGAGTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
23 20 0.50
24 2 0.05
25 7 0.17
26 11 0.28
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (24 bp):
CGGTAAGCTCATATCAAGCTGAAA
Found at i:5922093 original size:26 final size:24
Alignment explanation
Indices: 5922063--5922123 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
5922053 GAGCCATGAT
*
5922063 CGGTAAGCTCAT-TCCGAGCTGATAAA
1 CGGTAAGCTCATGT-AGAGCTG--AAA
5922089 CGGTAAGCTC-TGTAGAGCTGAAA
1 CGGTAAGCTCATGTAGAGCTGAAA
5922112 CGGTAAGCTCAT
1 CGGTAAGCTCAT
5922124 ACAAGCTGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
23 13 0.41
24 1 0.03
25 7 0.22
26 11 0.34
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (24 bp):
CGGTAAGCTCATGTAGAGCTGAAA
Found at i:5922130 original size:23 final size:24
Alignment explanation
Indices: 5922063--5922131 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 24
5922053 GAGCCATGAT
*
5922063 CGGTAAGCTCATTCCGAGCTGATAAA
1 CGGTAAGCTCA-TACGAGCTGA-AAA
*
5922089 CGGTAAGCTCTGTA-GAGCTG-AAA
1 CGGTAAGCTC-ATACGAGCTGAAAA
*
5922112 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACGAGCTG
5922132 TGGTGAGTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 2 0.05
23 18 0.49
25 6 0.16
26 11 0.30
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (24 bp):
CGGTAAGCTCATACGAGCTGAAAA
Found at i:5924802 original size:35 final size:35
Alignment explanation
Indices: 5924756--5924827 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
5924746 TTACTAAGTT
*
5924756 TACCTGTCAACCACTATCTTTGGTGAGTTCCTTGG
1 TACCTGTCAACCACAATCTTTGGTGAGTTCCTTGG
5924791 TACCTGTCAACCACAATCTTTGGTGAGTTCCTTGG
1 TACCTGTCAACCACAATCTTTGGTGAGTTCCTTGG
5924826 TA
1 TA
5924828 TAAACTCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (35 bp):
TACCTGTCAACCACAATCTTTGGTGAGTTCCTTGG
Found at i:5925065 original size:36 final size:36
Alignment explanation
Indices: 5925018--5925172 Score: 157
Period size: 36 Copynumber: 4.0 Consensus size: 36
5925008 GCTAAGCTAC
5925018 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
5925054 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GT-A-T--AG
* * *
5925096 CTACCACTTATCACTTTGCCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* * *
5925136 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
5925172 C
1 C
5925173 TAAAGCTACC
Statistics
Matches: 100, Mismatches: 9, Indels: 20
0.78 0.07 0.16
Matches are distributed among these distances:
36 62 0.62
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:5925105 original size:46 final size:45
Alignment explanation
Indices: 5925054--5925208 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 45
5925044 ATAAGTATAG
5925054 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGT-ACTAAAGCTAC
** *
5925100 CACTTATCACTTTGCCTCTTGATCAGATAAGTG---T--AG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTACTAAAGCTAC
*
5925136 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTA-CTAAAGCTAC
* * *
5925182 CATTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
5925209 AGTACTCAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
36 29 0.33
40 3 0.03
42 3 0.03
46 53 0.60
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (45 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTACTAAAGCTAC
Found at i:5925110 original size:82 final size:82
Alignment explanation
Indices: 5924975--5925208 Score: 375
Period size: 82 Copynumber: 2.9 Consensus size: 82
5924965 TACGTATGAT
* *
5924975 CACTTATCA-TTTGTC-CTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
5925037 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
* *
5925054 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAACTAAAGCTACCACTTATCACTTTGCCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
*
5925119 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAG
* * *
5925136 CACTTATCACTTTTTCACTTGATCAAATAAGTGTAGCTAAAGCTACCATTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
5925201 TGATCAGA
66 TGATCAGA
5925209 AGTACTCAAA
Statistics
Matches: 142, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 9 0.06
80 5 0.04
81 20 0.14
82 108 0.76
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTATAG
Found at i:5928582 original size:12 final size:10
Alignment explanation
Indices: 5928540--5928604 Score: 60
Period size: 10 Copynumber: 6.4 Consensus size: 10
5928530 TTTAAATATA
*
5928540 TTTATAAGTT
1 TTTATAATTT
*
5928550 TTTA-ATACTT
1 TTTATA-ATTT
*
5928560 TTTCTAATTT
1 TTTATAATTT
*
5928570 TAATATAATTT
1 T-TTATAATTT
*
5928581 TTTATAAGTT
1 TTTATAATTT
5928591 TTTATAATTT
1 TTTATAATTT
5928601 TTTA
1 TTTA
5928605 CGTTTATATA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
9 1 0.02
10 34 0.77
11 9 0.20
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (10 bp):
TTTATAATTT
Found at i:5928583 original size:31 final size:31
Alignment explanation
Indices: 5928542--5928601 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
5928532 TAAATATATT
*
5928542 TATAAGTTTTTA-ATACTTTTTCTAATTTTAA
1 TATAAGTTTTTATA-ACTTTTTATAATTTTAA
* *
5928573 TATAATTTTTTATAAGTTTTTATAATTTT
1 TATAAGTTTTTATAACTTTTTATAATTTT
5928602 TTACGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (31 bp):
TATAAGTTTTTATAACTTTTTATAATTTTAA
Found at i:5928596 original size:20 final size:20
Alignment explanation
Indices: 5928540--5928604 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
5928530 TTTAAATATA
*
5928540 TTTATAAGTTTTTA-ATACTT
1 TTTATAAGTTTTTATA-ATTT
*
5928560 TTTCTAA-TTTTAATATAATTT
1 TTTATAAGTTTT--TATAATTT
5928581 TTTATAAGTTTTTATAATTT
1 TTTATAAGTTTTTATAATTT
5928601 TTTA
1 TTTA
5928605 CGTTTATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.11
20 18 0.47
21 11 0.29
22 5 0.13
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTATAAGTTTTTATAATTT
Found at i:5930015 original size:30 final size:30
Alignment explanation
Indices: 5929979--5930035 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
5929969 CAGTCATTGT
5929979 ATGTAATGGAGTAGTTTTGATGTATACAAA
1 ATGTAATGGAGTAGTTTTGATGTATACAAA
5930009 ATGTAATGGAGTAGTTTTGATGTATAC
1 ATGTAATGGAGTAGTTTTGATGTATAC
5930036 GGGCGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.39
Consensus pattern (30 bp):
ATGTAATGGAGTAGTTTTGATGTATACAAA
Found at i:5935223 original size:21 final size:21
Alignment explanation
Indices: 5935182--5935241 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
5935172 AAAACTAATT
* *
5935182 TACGAAAATATTTATAATTTATG
1 TACGAAAATA--TAAAATTTATA
**
5935205 TATTAAAATATAAAATTTATA
1 TACGAAAATATAAAATTTATA
5935226 TACGAAAATATAAAAT
1 TACGAAAATATAAAAT
5935242 CCGACCAACA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 23 0.74
23 8 0.26
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
TACGAAAATATAAAATTTATA
Found at i:5935884 original size:54 final size:55
Alignment explanation
Indices: 5935797--5935902 Score: 160
Period size: 54 Copynumber: 1.9 Consensus size: 55
5935787 TAAACTAAGT
* * *
5935797 GGGTACCGGCCATCAGTGTCCCAACACTCAATTTTTTTT-TCAAATCTGGTATAA
1 GGGTACCGGCCACCAGTATCCCAACACCCAATTTTTTTTCTCAAATCTGGTATAA
* *
5935851 GGGTGCCGGCCACCAGTATCCCAGCACCCAATTTTTTTTCTCAAATCTGGTA
1 GGGTACCGGCCACCAGTATCCCAACACCCAATTTTTTTTCTCAAATCTGGTA
5935903 CAAGAATGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
54 34 0.74
55 12 0.26
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (55 bp):
GGGTACCGGCCACCAGTATCCCAACACCCAATTTTTTTTCTCAAATCTGGTATAA
Found at i:5935928 original size:55 final size:54
Alignment explanation
Indices: 5935805--5935932 Score: 175
Period size: 55 Copynumber: 2.4 Consensus size: 54
5935795 GTGGGTACCG
* * ** *
5935805 GCCATCAGTGTCCCAACACTCAATTTTTTTTTCAAATCTGGTATAAGGGTGCCG
1 GCCATCAGTGTCCCAACACCCAATTTTTTTTTCAAATCTGGTACAAGAATGCCA
* * *
5935859 GCCACCAGTATCCCAGCACCCAATTTTTTTTCTCAAATCTGGTACAAGAATGCCA
1 GCCATCAGTGTCCCAACACCCAATTTTTTTT-TCAAATCTGGTACAAGAATGCCA
5935914 GCCATCAGTGTCCCAACAC
1 GCCATCAGTGTCCCAACAC
5935933 ATGAAAAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 27 0.44
55 35 0.56
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (54 bp):
GCCATCAGTGTCCCAACACCCAATTTTTTTTTCAAATCTGGTACAAGAATGCCA
Found at i:5936347 original size:16 final size:17
Alignment explanation
Indices: 5936310--5936353 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
5936300 TTATTTAGAT
*
5936310 GATTGTTTTTTAACTTA
1 GATTATTTTTTAACTTA
5936327 GATTATTTTTGTAA-TTA
1 GATTATTTTT-TAACTTA
5936344 -ATTATTTTTT
1 GATTATTTTTT
5936354 TGAGTCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 9 0.36
17 12 0.48
18 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.09, T:0.64
Consensus pattern (17 bp):
GATTATTTTTTAACTTA
Found at i:5944013 original size:15 final size:15
Alignment explanation
Indices: 5943964--5944014 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
5943954 TTACCTTAGG
*
5943964 TTACGTTTTAGTCAT
1 TTACGTTTTAATCAT
* *
5943979 TTATGTTTGAA--AT
1 TTACGTTTTAATCAT
5943992 GTTACGTTTTAATCAT
1 -TTACGTTTTAATCAT
5944008 TTACGTT
1 TTACGTT
5944015 ATCATGTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.53
Consensus pattern (15 bp):
TTACGTTTTAATCAT
Found at i:5944457 original size:12 final size:12
Alignment explanation
Indices: 5944440--5944465 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5944430 AAGAGAATGG
5944440 AAAAAAAAAAGA
1 AAAAAAAAAAGA
5944452 AAAAAAAAAAGA
1 AAAAAAAAAAGA
5944464 AA
1 AA
5944466 GAAAGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:5954242 original size:23 final size:22
Alignment explanation
Indices: 5954216--5954262 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
5954206 ATACTTTGAA
* *
5954216 AAATATATAAAATATTATAATAT
1 AAATATACAAAATA-TATAAAAT
*
5954239 AAATTTACAAAATATATAAAAT
1 AAATATACAAAATATATAAAAT
5954261 AA
1 AA
5954263 TTAGAACTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATATACAAAATATATAAAAT
Found at i:5959954 original size:39 final size:39
Alignment explanation
Indices: 5959884--5959960 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
5959874 ATCTTCACTC
* *
5959884 TCTTCTTCTTCCTCCTCCCTCTTCTCTTCCTCATCTTCT
1 TCTTCTTCTTCCTCCTCCCTCTCCTCTTCCTCAACTTCT
* **
5959923 TCTTCTTCTTCTTCCTCGTTCTCCT-TCTCCTCAACTTC
1 TCTTCTTCTTCCTCCTCCCTCTCCTCT-TCCTCAACTTC
5959961 CATTTGTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.04, C:0.44, G:0.01, T:0.51
Consensus pattern (39 bp):
TCTTCTTCTTCCTCCTCCCTCTCCTCTTCCTCAACTTCT
Found at i:5965712 original size:9 final size:9
Alignment explanation
Indices: 5965692--5965731 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
5965682 TTTGGTTAAA
*
5965692 AATTAACTG
1 AATTAACCG
*
5965701 AATTACCCG
1 AATTAACCG
5965710 AATTAACCG
1 AATTAACCG
*
5965719 AATTAACCA
1 AATTAACCG
5965728 AATT
1 AATT
5965732 GAATCTCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:5965874 original size:18 final size:18
Alignment explanation
Indices: 5965834--5965877 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5965824 AATTTTTATT
* **
5965834 ATTGAGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
5965852 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
5965870 CTTGGGTT
1 ATTGGGTT
5965878 TGGATTGTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:5967467 original size:22 final size:19
Alignment explanation
Indices: 5967436--5967488 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
5967426 ATAAAAAAAG
5967436 AAATAT-AAAAAAC-TAAA
1 AAATATAAAAAAACTTAAA
5967453 GAATATATTAAAAAAACTTAAA
1 -AA-ATA-TAAAAAAACTTAAA
5967475 AAATATAAAAAAAC
1 AAATATAAAAAAAC
5967489 CTACACAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.06
19 12 0.39
20 4 0.13
21 9 0.29
22 4 0.13
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.21
Consensus pattern (19 bp):
AAATATAAAAAAACTTAAA
Found at i:5967511 original size:24 final size:23
Alignment explanation
Indices: 5967484--5967532 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
5967474 AAAATATAAA
*
5967484 AAAACCTACACAACCCTAAATCCT
1 AAAACCTACAAAACCCTAAA-CCT
*
5967508 AAAATCTACAAAACCCTAAACCT
1 AAAACCTACAAAACCCTAAACCT
5967531 AA
1 AA
5967533 CCCTACTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (23 bp):
AAAACCTACAAAACCCTAAACCT
Found at i:5970993 original size:21 final size:22
Alignment explanation
Indices: 5970944--5970993 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
5970934 AGTATATATT
* * *
5970944 ATTTTTATTTTATTTTTAGTAA
1 ATTTATATTTTATTTTCACTAA
*
5970966 TTTTATATTTTA-TTTCACTAA
1 ATTTATATTTTATTTTCACTAA
5970987 ATTTATA
1 ATTTATA
5970994 AACATTTGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTATATTTTATTTTCACTAA
Found at i:5971174 original size:16 final size:16
Alignment explanation
Indices: 5971153--5971190 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
5971143 TTTGGTTCGT
5971153 TGTAATGGAATAGAAC
1 TGTAATGGAATAGAAC
* *
5971169 TGTAATTGAATAGAGC
1 TGTAATGGAATAGAAC
5971185 TGTAAT
1 TGTAAT
5971191 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAAC
Found at i:5971405 original size:37 final size:37
Alignment explanation
Indices: 5971352--5971445 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 37
5971342 TATTGTTATT
5971352 AAATTTTAATAA-AATTATTAATATAA-ATAATTTAATA
1 AAATTTTAA-AATAATTATTAATA-AATATAATTTAATA
* * *
5971389 ATATTTTAACATAATTATTATTAAATATAATTTAATA
1 AAATTTTAAAATAATTATTAATAAATATAATTTAATA
5971426 AAATTCTTAAAATAATTATT
1 AAATT-TTAAAATAATTATT
5971446 CTTATATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
36 3 0.06
37 33 0.67
38 13 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (37 bp):
AAATTTTAAAATAATTATTAATAAATATAATTTAATA
Found at i:5971458 original size:37 final size:36
Alignment explanation
Indices: 5971352--5971466 Score: 119
Period size: 37 Copynumber: 3.1 Consensus size: 36
5971342 TATTGTTATT
5971352 AAATTTTAATAA-AATTATTAATATAA-ATAATTTAATA
1 AAATTTTAA-AATAATTATT-AT-TAATATAATTTAATA
* *
5971389 ATATTTTAACATAATTATTATTAAATATAATTTAATA
1 AAATTTTAAAATAATTATTATT-AATATAATTTAATA
* *
5971426 AAATTCTTAAAATAATTATTCTT-ATATGAATTTACTA
1 AAATT-TTAAAATAATTATTATTAATAT-AATTTAATA
5971463 AAAT
1 AAAT
5971467 CATAATATAT
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
35 1 0.01
36 9 0.13
37 42 0.63
38 15 0.22
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (36 bp):
AAATTTTAAAATAATTATTATTAATATAATTTAATA
Found at i:5981774 original size:96 final size:96
Alignment explanation
Indices: 5981661--5981961 Score: 401
Period size: 96 Copynumber: 3.1 Consensus size: 96
5981651 ATTTTAGGGA
* ** * *
5981661 TTTAAGGAAAAAATTAAATAAATAAGGATTTAGGGTTTTTTAATTAAATTAATTATAAATTTTTA
1 TTTAAGGAAAAAATTAAATAAATTAGGATTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
* *
5981726 AAAAA-TAGATCAGGGTTCAGTGTTTATGGTT
66 AAAAATTAGATTAGGGTTTAGTGTTTA-GGTT
*
5981757 TTTAAAGAAAAAATTAAATAAATTA-GAGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTT
1 TTTAAGGAAAAAATTAAATAAATTAGGA-TTTAGGGTTACTTGAGTAAATTAATTATAAATTTTT
* *
5981820 AAAAAATTAAATTAGGGTTTAGTGTTTAGGGT
65 AAAAAATTAGATTAGGGTTTAGTGTTTAGGTT
* *
5981852 TTTAAGGAAAAAAATTAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTAA
1 TTTAAGG-AAAAAATTAAATAAATTAGGATTTAGGGTTACTTGAGTAAATTAATTATAAATTT-T
* * *
5981917 AAAAAAATTAGATTGGGGTTTAGTATTTAAGGTT
64 TAAAAAATTAGATTAGGGTTTAGTGTTT-AGGTT
5981951 TTTAAGGAAAA
1 TTTAAGGAAAA
5981962 TCAAATAAAA
Statistics
Matches: 180, Mismatches: 18, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
95 21 0.12
96 117 0.65
97 3 0.02
98 28 0.16
99 11 0.06
ACGTcount: A:0.43, C:0.01, G:0.17, T:0.39
Consensus pattern (96 bp):
TTTAAGGAAAAAATTAAATAAATTAGGATTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTA
AAAAATTAGATTAGGGTTTAGTGTTTAGGTT
Found at i:5988562 original size:18 final size:18
Alignment explanation
Indices: 5988539--5988577 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
5988529 TATCAAAGTA
5988539 AAGCGAACAAATTATATC
1 AAGCGAACAAATTATATC
5988557 AAGCGAACAAATTATATC
1 AAGCGAACAAATTATATC
5988575 AAG
1 AAG
5988578 TCTAACACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (18 bp):
AAGCGAACAAATTATATC
Found at i:5989158 original size:6 final size:6
Alignment explanation
Indices: 5989147--5989171 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
5989137 ATCGTCTCTA
5989147 AAATTT AAATTT AAATTT AAATTT A
1 AAATTT AAATTT AAATTT AAATTT A
5989172 TTTTTGAGAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AAATTT
Found at i:5998809 original size:25 final size:25
Alignment explanation
Indices: 5998781--5998849 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
5998771 TAAGCAAATC
* *
5998781 GCGCTGACGTGGACGCGATGTCATG
1 GCGCTGACATGAACGCGATGTCATG
5998806 GCGCTGACATGAACGCGATGTCATG
1 GCGCTGACATGAACGCGATGTCATG
5998831 GCGCTGACATGAACGCGAT
1 GCGCTGACATGAACGCGAT
5998850 TTCGCGAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.22, C:0.25, G:0.35, T:0.19
Consensus pattern (25 bp):
GCGCTGACATGAACGCGATGTCATG
Found at i:6002048 original size:12 final size:12
Alignment explanation
Indices: 6002023--6002063 Score: 73
Period size: 12 Copynumber: 3.3 Consensus size: 12
6002013 CTGTAGTAAA
6002023 ATATTATAAAAAT
1 ATATTAT-AAAAT
6002036 ATATTATAAAAT
1 ATATTATAAAAT
6002048 ATATTATAAAAT
1 ATATTATAAAAT
6002060 ATAT
1 ATAT
6002064 AATCTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 21 0.75
13 7 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATTATAAAAT
Found at i:6002434 original size:20 final size:21
Alignment explanation
Indices: 6002411--6002455 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
6002401 AAATACTTGT
*
6002411 AAATTATTT-AAAAATTATAA
1 AAATTATTTGAAAAACTATAA
*
6002431 AAA-TATTTGAAGAACTATAA
1 AAATTATTTGAAAAACTATAA
6002451 AAATT
1 AAATT
6002456 TAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATTATTTGAAAAACTATAA
Found at i:6002892 original size:6 final size:6
Alignment explanation
Indices: 6002881--6002919 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
6002871 TTTTGGGTTT
*
6002881 TTAGGG TTAGGG TTAGGG TTAGGT TTAGGG TTTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG TT
6002920 TTTAGGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (6 bp):
TTAGGG
Found at i:6003328 original size:125 final size:125
Alignment explanation
Indices: 6003099--6003510 Score: 684
Period size: 125 Copynumber: 3.3 Consensus size: 125
6003089 AATTATTAAG
* **
6003099 GAAATCGCTCCCACGTGGACGCGTTTTTTATACAGTAGGTCCTGAAAAAAT-ATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
6003163 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
* * *
6003223 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAAGTCCTGAAAAAGTAATTTCGAGTTGAT
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
6003288 GTTT-TAGAGCAAATAGTATAAAAAAAGCTTCAAGCAGGATGCTTTATCATAAGAATTTTT
66 GTTTCT-GAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
* *
6003348 GAAATCGCGCCCACGTGGACGCGCTTTTACTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
6003413 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATGAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
6003473 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
6003511 CATGTTTGGG
Statistics
Matches: 265, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
124 47 0.18
125 217 0.82
126 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATAAGAAGAATTTTT
Found at i:6005371 original size:49 final size:49
Alignment explanation
Indices: 6005316--6005444 Score: 240
Period size: 49 Copynumber: 2.6 Consensus size: 49
6005306 TAAGAGTATT
6005316 AACTATTTTGTATTTTATTACATTAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATTAAATAATATCAAAATATTCAAAATA
*
6005365 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATTAAATAATATCAAAATATTCAAAATA
6005414 AACTATTTTGTATTTTATTACATTAATATAA
1 AACTATTTTGTATTTTATTACATTAA-ATAA
6005445 ACTAAATTGT
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 73 0.95
50 4 0.05
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATTAAATAATATCAAAATATTCAAAATA
Found at i:6005885 original size:16 final size:17
Alignment explanation
Indices: 6005864--6005898 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
6005854 AAAAGGAAAC
6005864 ATAT-AAGGGTTAGGAT
1 ATATAAAGGGTTAGGAT
6005880 ATATAAAAGGGTTAGGAT
1 ATAT-AAAGGGTTAGGAT
6005898 A
1 A
6005899 CGCACCTGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
ATATAAAGGGTTAGGAT
Found at i:6007628 original size:19 final size:19
Alignment explanation
Indices: 6007604--6007642 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
6007594 TACGATTTAA
6007604 AATTTTTTTTAAAA-AATT
1 AATTTTTTTTAAAATAATT
6007622 AATTTTTTTTAAAATAATT
1 AATTTTTTTTAAAATAATT
6007641 AA
1 AA
6007643 AAATAGTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTTTTTAAAATAATT
Found at i:6007667 original size:11 final size:12
Alignment explanation
Indices: 6007651--6007687 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
6007641 AAAAATAGTG
6007651 ATTTAAGAG-AA
1 ATTTAAGAGCAA
6007662 ATTTAAGAGCAA
1 ATTTAAGAGCAA
*
6007674 A-TTGAGAGCAA
1 ATTTAAGAGCAA
6007685 ATT
1 ATT
6007688 GAGATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (12 bp):
ATTTAAGAGCAA
Found at i:6007697 original size:11 final size:11
Alignment explanation
Indices: 6007667--6007691 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6007657 GAGAAATTTA
6007667 AGAGCAAATTG
1 AGAGCAAATTG
6007678 AGAGCAAATTG
1 AGAGCAAATTG
6007689 AGA
1 AGA
6007692 TTAAATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.28, T:0.16
Consensus pattern (11 bp):
AGAGCAAATTG
Found at i:6009434 original size:19 final size:19
Alignment explanation
Indices: 6009412--6009453 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
6009402 ATATTCCTCC
6009412 TCCTACTCTTCATTCCACA
1 TCCTACTCTTCATTCCACA
6009431 TCCTACTCTTCATTCCACA
1 TCCTACTCTTCATTCCACA
6009450 TCCT
1 TCCT
6009454 TTATGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.43, G:0.00, T:0.38
Consensus pattern (19 bp):
TCCTACTCTTCATTCCACA
Found at i:6012471 original size:19 final size:19
Alignment explanation
Indices: 6012419--6012473 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
6012409 ATCCTTATTC
* *
6012419 TTTAAAATTTATAAAAAAA
1 TTTAAAAATAATAAAAAAA
* * **
6012438 ATAAAAAATCCTAAAAAAA
1 TTTAAAAATAATAAAAAAA
6012457 TTTAAAAATAATAAAAA
1 TTTAAAAATAATAAAAA
6012474 TTTTGAAACG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (19 bp):
TTTAAAAATAATAAAAAAA
Found at i:6020937 original size:81 final size:81
Alignment explanation
Indices: 6020797--6020959 Score: 254
Period size: 81 Copynumber: 2.0 Consensus size: 81
6020787 TAGATATTAT
* * * * **
6020797 ATAACTCATTTTATTGTTAATTTTCTTACTATTTTAGAGGCATTTGCTTGATAAGTTGTAGTTAT
1 ATAACTCATTTTATTGTTAATTTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
*
6020862 GTTAGTGTTATTTTTA
66 ATTAGTGTTATTTTTA
*
6020878 ATAACTCGTTTTATTGTTAATTTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
1 ATAACTCATTTTATTGTTAATTTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
6020943 ATTAGTGTTATTTTTA
66 ATTAGTGTTATTTTTA
6020959 A
1 A
6020960 GTATAAAAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (81 bp):
ATAACTCATTTTATTGTTAATTTTCATACTATTTTAGAAGCATTTACTTGATAAATTGTAACTAT
ATTAGTGTTATTTTTA
Found at i:6031879 original size:129 final size:129
Alignment explanation
Indices: 6031649--6031901 Score: 443
Period size: 129 Copynumber: 2.0 Consensus size: 129
6031639 GTTGGTGACT
6031649 AACTGATGCCAAGAATGGCATCAGATAAAGTGCCCAGGATTGCAACAATGTAAGGCATCCGCCCA
1 AACTGATGCCAAGAATGGCATCAGATAAAGTGCCCAGGATTGCAACAATGTAAGGCATCCGCCCA
* *
6031714 TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCGGAGACAACACTGCTAGAACTACCAG
66 TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCCGAGACAACACTGCCAGAACTACCAG
*
6031778 AACTGATGCCAAGAATGGCATCCGATAAAGTGCCCAGGATTGCAACAATGTAAGGCATCCGCCCA
1 AACTGATGCCAAGAATGGCATCAGATAAAGTGCCCAGGATTGCAACAATGTAAGGCATCCGCCCA
* * * *
6031843 TGTCTACGATAGCAGGCTTTGTCGTCCGACAAAGCTCCCGATACAACACTGCCAGAACT
66 TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCCGAGACAACACTGCCAGAACT
6031902 GCGGAGCCCC
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 117 1.00
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.18
Consensus pattern (129 bp):
AACTGATGCCAAGAATGGCATCAGATAAAGTGCCCAGGATTGCAACAATGTAAGGCATCCGCCCA
TGTCGACGACAGCAAGCTTTGTCGTCCGACAAAGCTCCCGAGACAACACTGCCAGAACTACCAG
Found at i:6032867 original size:159 final size:159
Alignment explanation
Indices: 6032671--6033837 Score: 1744
Period size: 159 Copynumber: 7.4 Consensus size: 159
6032661 CAATTTCAAT
* * *
6032671 GTATTTTTCTTATTTTCTGATTTTATTACTTTCAAAAAATATATTATTTTCATATTTTCA-TATT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTT-ATTATT
*
6032735 TTATATTATTTTAATACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTCTTATATAAATTTA
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTT-TTATATAAATTTA
* * *
6032800 GT-AAATAACCCTTATTTTGTCCCTTTGTCC
129 GTAAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
6032830 GCATTTTTCTTATTTTCGAATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
6032895 TATATTATTTTAGTACATAAAGTTTGAAATGTATCAATTTAGTGTGTTTTTTTTTATATAAATTT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG---TTTTTTATATAAATTT
*
6032960 AGTAAAAAAAACCCTTATTTTGGCTCTTTGTTC
128 AGT-AAAAAAACCCTTATTTTGGCCCTTTGTTC
* **
6032993 ATATTTTTCTTATTTTTAGATTTTATTACTTTCAAAAAATATACTATTTTCG--------TATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
6033050 TATATTATTTTAGTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTAG
6033115 TAAAAAAAACCCTTATTTTGGCCCTTTGTTC
130 T-AAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
6033146 GTATTTTTCTTATTTTCGGATTTTATCACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
6033211 TATATTATTTTGGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
*
6033276 AAAAAAAACCTTATTTTGGCCCTTTGTTC
131 AAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
6033305 GTATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATACTATTTTTGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
6033370 TATATTATTTTAGTACATAAAGATTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTAG
*
6033435 TAAAAAAA-CCTTATTTTGGCCCTTTATTC
130 TAAAAAAACCCTTATTTTGGCCCTTTGTTC
* * *
6033464 GTATTTTTTCTTATTTTCGGATTTTATTATTTTCAAAAAATATA--ATATT--T-TTTAATTATT
1 GTA-TTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
6033524 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAG
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAG
* *
6033589 T-AAAAAACCCTTATTTTGACCCTTTATTC
130 TAAAAAAACCCTTATTTTGGCCCTTTGTTC
6033618 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* *
6033683 TGTATTATTTTAGTACATAATGTTTGAAATGTATT-ATTT-TTGTGTTGTTTT-TATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTT-TTTTATATAAATTTAG
6033745 TAAAAAAAACCCCTTATTTTGGCCCTTTGTTC
130 T-AAAAAAA-CCCTTATTTTGGCCCTTTGTTC
* * *
6033777 GTATTTTTCTTTTTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCATTTTTTATT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATT
6033838 TCTTTTCGTA
Statistics
Matches: 926, Mismatches: 56, Indels: 52
0.90 0.05 0.05
Matches are distributed among these distances:
153 140 0.15
154 42 0.05
155 106 0.11
156 19 0.02
157 9 0.01
158 55 0.06
159 335 0.36
160 82 0.09
161 63 0.07
162 4 0.00
163 71 0.08
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (159 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAAACCCTTATTTTGGCCCTTTGTTC
Found at i:6033768 original size:472 final size:473
Alignment explanation
Indices: 6032671--6033837 Score: 1845
Period size: 475 Copynumber: 2.5 Consensus size: 473
6032661 CAATTTCAAT
* *
6032671 GTATTTTTCTTATTTTCTGATTTTATTACTTTCAAAAAATATATTATTTTCATATTTTCA-TATT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTT-ATTATT
*
6032735 TTATATTATTTTAATACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTCTTATATAAATTTA
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTT-TTATATAAATTTA
* * * *
6032800 GT--AAATAACCCTTATTTTGTCCCTTTGTCCGCATTTTTCTTATTTTCGAATTTTATTACTTTC
129 GTAAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCG-ATTTTATTACTTTC
*
6032863 AAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGTTTGAAATGTA
193 AAAAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTA
* *
6032928 TCAATTTAGTGTGTTTTTTTTTATATAAATTTAGTAAAAAAAACCCTTATTTTGGCTCTTTGTTC
258 TCAATTTAGTGTG-TTTTTTTTATATAAATTTAGTAAAAAAAACCCTTATTTTGGCCCTTTATTC
* * *
6032993 ATATTTTTCTTATTTTTAGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATATTAT
322 ATATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATAATATTTTAGTATTTTATATTAT
6033058 TTTAGTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGTAAAAAAA
387 TTTAGTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGT-AAAAAA
* *
6033123 ACCCTTATTTTGGCCCTTTGTTC
451 ACCCTTATTTTGACCCTTTATTC
*
6033146 GTATTTTTCTTATTTTCGGATTTTATCACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
* *
6033211 TATATTATTTTGGTACATAAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
6033276 AAAAAAAA-CCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCAGATTTTATTACTTTCAA
131 AAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTC-GATTTTATTACTTTCAA
* *
6033340 AAAATATACTATTTTTGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTATT
195 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTATC
*
6033405 AATTTAGTGTG-TTTTTTTATATAAATTTAGT-AAAAAAA-CCTTATTTTGGCCCTTTATTCGTA
260 AATTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAAAACCCTTATTTTGGCCCTTTATTCATA
* * *
6033467 TTTTTTCTTATTTTCGGATTTTATTATTTTCAAAAAATATAATATTTTTTAATTATTTTATATTA
325 -TTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATAATA--TTTT-AGTATTTTATATTA
* *
6033532 TTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTAGT-AAAAA
386 TTTTAGTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGTAAAAAA
6033595 ACCCTTATTTTGACCCTTTATTC
451 ACCCTTATTTTGACCCTTTATTC
*
6033618 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
* *
6033683 TGTATTATTTTAGTACATAATGTTTGAAATGTATT-ATTT-TTGTGTTGTTTT-TATAAATTTAG
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTT-TTTTATATAAATTTAG
*
6033745 TAAAAAAAACCCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTTTTTTCGGATTTTATTACTTTC
130 TAAAAAAAA-CCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTC-GATTTTATTACTTTC
* *
6033810 AAAAAATATACTATTTTCATTTTTTATT
193 AAAAAATATACTATTTTCGTATTTTATT
6033838 TCTTTTCGTA
Statistics
Matches: 644, Mismatches: 37, Indels: 25
0.91 0.05 0.04
Matches are distributed among these distances:
470 26 0.04
471 29 0.05
472 244 0.38
473 20 0.03
474 38 0.06
475 281 0.44
476 6 0.01
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (473 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGATTTTATTACTTTCAAA
AAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAAAGATTGAAATGTATCA
ATTTAGTGTGTTTTTTTTATATAAATTTAGTAAAAAAAACCCTTATTTTGGCCCTTTATTCATAT
TTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATAATATTTTAGTATTTTATATTATTTTA
GTACATAATGTTTGAAATGCATTAATTTAGTGTGTTTTTTTATATAAATTAAGTAAAAAAACCCT
TATTTTGACCCTTTATTC
Found at i:6034025 original size:30 final size:30
Alignment explanation
Indices: 6033991--6034091 Score: 121
Period size: 30 Copynumber: 3.1 Consensus size: 30
6033981 AAATAAAATA
6033991 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
6034021 AAATAATAAAATAATAAGACATAGTATGTACATAACAT
1 --A-AAT--AAT-A-AA-ACATAGAATGTACATAACAT
6034059 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
6034089 AAA
1 AAA
6034092 AGTTAAAATT
Statistics
Matches: 61, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
30 22 0.36
31 2 0.03
32 2 0.03
33 6 0.10
35 6 0.10
36 2 0.03
37 2 0.03
38 19 0.31
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:6034043 original size:38 final size:38
Alignment explanation
Indices: 6033987--6034069 Score: 148
Period size: 38 Copynumber: 2.2 Consensus size: 38
6033977 AAATAAATAA
6033987 AATAAAATAATAAAACATAGAATGTACATAACATAAAT
1 AATAAAATAATAAAACATAGAATGTACATAACATAAAT
* *
6034025 AATAAAATAATAAGACATAGTATGTACATAACATAAAT
1 AATAAAATAATAAAACATAGAATGTACATAACATAAAT
6034063 AATAAAA
1 AATAAAA
6034070 CATAGAATGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.63, C:0.07, G:0.06, T:0.24
Consensus pattern (38 bp):
AATAAAATAATAAAACATAGAATGTACATAACATAAAT
Found at i:6034089 original size:16 final size:16
Alignment explanation
Indices: 6034039--6034089 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
6034029 AAATAATAAG
*
6034039 ACATAGTATGTACATA
1 ACATAGAATGTACATA
*
6034055 ACATA-AATAATA-A-A
1 ACATAGAAT-GTACATA
6034069 ACATAGAATGTACATA
1 ACATAGAATGTACATA
6034085 ACATA
1 ACATA
6034090 AAAGTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (16 bp):
ACATAGAATGTACATA
Found at i:6034352 original size:14 final size:14
Alignment explanation
Indices: 6034335--6034373 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
6034325 TCCCTCCCTC
*
6034335 TTCTTCTTCTTCTT
1 TTCTTTTTCTTCTT
6034349 TTCTTTTTCTT-TT
1 TTCTTTTTCTTCTT
*
6034362 TCCTTTTTCTTC
1 TTCTTTTTCTTC
6034374 CTTCTGCGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTCTTTTTCTTCTT
Found at i:6036114 original size:23 final size:21
Alignment explanation
Indices: 6036054--6036117 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
6036044 ACTCTTCCTA
* * *
6036054 AATTTAAATTTAAATTTTAAT
1 AATTTAATTTTTATTTTTAAT
* *
6036075 ATTTTTATTTTTATTTTTAAT
1 AATTTAATTTTTATTTTTAAT
6036096 AATTTAATCTATTTATTTTTAA
1 AATTTAAT-T-TTTATTTTTAA
6036118 AACTTTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 22 0.65
22 1 0.03
23 11 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTAATTTTTATTTTTAAT
Found at i:6036334 original size:29 final size:30
Alignment explanation
Indices: 6036302--6036364 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
6036292 AAATAGAGCG
6036302 ACTAAATTCCTAGAA-TTA-AA-AGTACATGA
1 ACTAAATT-CTA-AATTTAGAAGAGTACATGA
6036331 ACTAAATTCTAAATTTATGAAGAGTACATGA
1 ACTAAATTCTAAATTTA-GAAGAGTACATGA
6036362 ACT
1 ACT
6036365 TGTGATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
27 2 0.07
28 6 0.20
29 8 0.27
30 2 0.07
31 12 0.40
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (30 bp):
ACTAAATTCTAAATTTAGAAGAGTACATGA
Found at i:6043789 original size:24 final size:27
Alignment explanation
Indices: 6043751--6043799 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
6043741 CGTGGGACCC
6043751 TTCCACCAACCCGAC-ATG-CAACATG
1 TTCCACCAACCCGACAATGACAACATG
*
6043776 TTCCA-CATCCCGACAATGACAACA
1 TTCCACCAACCCGACAATGACAACA
6043800 ATAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 8 0.38
26 5 0.24
ACGTcount: A:0.35, C:0.39, G:0.10, T:0.16
Consensus pattern (27 bp):
TTCCACCAACCCGACAATGACAACATG
Found at i:6046849 original size:25 final size:25
Alignment explanation
Indices: 6046816--6046927 Score: 120
Period size: 25 Copynumber: 4.5 Consensus size: 25
6046806 ACAAGCTATA
*
6046816 AACGGTAAGCTCCTCTGAGCTGAAT
1 AACGATAAGCTCCTCTGAGCTGAAT
6046841 AACGATAAGCTCCTCTGAGCTGAAT
1 AACGATAAGCTCCTCTGAGCTGAAT
*
6046866 AACGGTAAGCTCCTCT-ACGCTGAAT
1 AACGATAAGCTCCTCTGA-GCTGAAT
* * * * *
6046891 GATGATAAACTCATAC-GAGCTGAGT
1 AACGATAAGCTCCT-CTGAGCTGAAT
*
6046916 ATCGATAAGCTC
1 AACGATAAGCTC
6046928 ATAAGAGCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
24 1 0.01
25 69 0.96
26 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (25 bp):
AACGATAAGCTCCTCTGAGCTGAAT
Found at i:6046928 original size:25 final size:24
Alignment explanation
Indices: 6046894--6046947 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
6046884 GCTGAATGAT
* *
6046894 GATAAACTCATACGAGCTGAGTATC
1 GATAAACTCATAAGAGCTG-GAATC
*
6046919 GATAAGCTCATAAGAGCTGGAATC
1 GATAAACTCATAAGAGCTGGAATC
6046943 GATAA
1 GATAA
6046948 CCCTAATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (24 bp):
GATAAACTCATAAGAGCTGGAATC
Found at i:6047054 original size:11 final size:11
Alignment explanation
Indices: 6047038--6047062 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6047028 TCCTCGTTTC
6047038 ATTATAAGCTA
1 ATTATAAGCTA
6047049 ATTATAAGCTA
1 ATTATAAGCTA
6047060 ATT
1 ATT
6047063 GTATAATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
ATTATAAGCTA
Found at i:6047860 original size:22 final size:23
Alignment explanation
Indices: 6047835--6047877 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
6047825 TTATCTTTAA
6047835 TTACCT-A-TTTACAAAATTACCC
1 TTACCTAACTTTA-AAAATTACCC
6047857 TTACCTAACTTTAAAAATTAC
1 TTACCTAACTTTAAAAATTAC
6047878 ACTAATGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (23 bp):
TTACCTAACTTTAAAAATTACCC
Found at i:6052011 original size:23 final size:22
Alignment explanation
Indices: 6051960--6052011 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
6051950 CCTCGTCTTT
*
6051960 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
6051982 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
6052005 TTCTTTT
1 TTCTTTT
6052012 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:6055281 original size:21 final size:21
Alignment explanation
Indices: 6055257--6055296 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6055247 TTTATGAATT
*
6055257 TTATAATTTATATTTTAAAAA
1 TTATAATTTAGATTTTAAAAA
**
6055278 TTATTTTTTAGATTTTAAA
1 TTATAATTTAGATTTTAAA
6055297 TATTTTTACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (21 bp):
TTATAATTTAGATTTTAAAAA
Found at i:6066271 original size:68 final size:68
Alignment explanation
Indices: 6066162--6066306 Score: 283
Period size: 68 Copynumber: 2.1 Consensus size: 68
6066152 AACTTACCCC
6066162 TAGCAAGGCACCCCTCTTTGGTCACTGGTGCTTAATCGTTTCTACAGCCTCAATAACAAAGATAT
1 TAGCAAGGCACCCCTCTTTGGTCACTGGTGCTTAATCGTTTCTACAGCCTCAATAACAAAGATAT
6066227 AAG
66 AAG
6066230 TAGCAAGGCACCCCTCTTTGGTCACTGGTGCTTAATCGTTTCTACAGCCTCAATAACAAAGATAT
1 TAGCAAGGCACCCCTCTTTGGTCACTGGTGCTTAATCGTTTCTACAGCCTCAATAACAAAGATAT
6066295 AAG
66 AAG
6066298 -AGCAAGGCA
1 TAGCAAGGCA
6066307 ACCTACAACA
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 9 0.12
68 68 0.88
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (68 bp):
TAGCAAGGCACCCCTCTTTGGTCACTGGTGCTTAATCGTTTCTACAGCCTCAATAACAAAGATAT
AAG
Found at i:6069297 original size:15 final size:17
Alignment explanation
Indices: 6069279--6069323 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
6069269 ATCTTCAACC
6069279 TTTTTCTCTTCCA-T-T
1 TTTTTCTCTTCCACTGT
*
6069294 TTTTTCTCTTCAACTGGT
1 TTTTTCTCTTCCACT-GT
6069312 TTTTTCTCTTCC
1 TTTTTCTCTTCC
6069324 TATATGAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.48
16 1 0.04
18 12 0.48
ACGTcount: A:0.07, C:0.27, G:0.04, T:0.62
Consensus pattern (17 bp):
TTTTTCTCTTCCACTGT
Found at i:6069704 original size:3 final size:3
Alignment explanation
Indices: 6069698--6069768 Score: 106
Period size: 3 Copynumber: 23.7 Consensus size: 3
6069688 GCATTTTATT
6069698 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
6069746 GTT ATC AAC ATC ATA ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC AT
6069769 TTGATATACT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.35, C:0.30, G:0.01, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:6075348 original size:9 final size:9
Alignment explanation
Indices: 6075303--6075359 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
6075293 AGAGTATCAA
*
6075303 TAATAATAA
1 TAATAATAG
6075312 TAATAATAG
1 TAATAATAG
* *
6075321 TAGTAAAAAG
1 TAAT-AATAG
**
6075331 -AGCAATAG
1 TAATAATAG
6075339 TAATAATAG
1 TAATAATAG
6075348 TAATAATAG
1 TAATAATAG
6075357 TAA
1 TAA
6075360 CGAAATAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 4 0.10
9 31 0.79
10 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.12, T:0.28
Consensus pattern (9 bp):
TAATAATAG
Found at i:6075975 original size:20 final size:20
Alignment explanation
Indices: 6075938--6075975 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6075928 AAGCACTCAA
*
6075938 AAATAAAGTAAAATAAAAGT
1 AAATAAAGTAAAAAAAAAGT
6075958 AAAT-AAGTAGAAAAAAAA
1 AAATAAAGTA-AAAAAAAA
6075976 ACAAGAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (20 bp):
AAATAAAGTAAAAAAAAAGT
Found at i:6087870 original size:17 final size:16
Alignment explanation
Indices: 6087850--6087881 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6087840 AGAAATTATG
6087850 ATAATTATATATTTAAA
1 ATAATTATA-ATTTAAA
6087867 ATAATTATAATTTAA
1 ATAATTATAATTTAA
6087882 TAGAAGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:6090565 original size:44 final size:44
Alignment explanation
Indices: 6090515--6090708 Score: 127
Period size: 44 Copynumber: 4.2 Consensus size: 44
6090505 AGTGGAGTAA
6090515 ATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
1 ATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
* * * * * * ** * *
6090559 ACTGAAGACAGCAAACCTTATTTCTCTGGCGTTGCAGTGGAACAG
1 ATTGAAGCCATC-AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
* * * *
6090604 ATTAAAGCTACAAATTATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAG
1 ATTGAAGC--C-----AT--CAG-CCTTATCTCCCTGAAGTTGCAGCGGAGCAG
* * * *
6090658 ATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACCGCAGAGCAG
1 ATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
6090702 ATTGAAG
1 ATTGAAG
6090709 ACAGTGAATC
Statistics
Matches: 109, Mismatches: 30, Indels: 22
0.68 0.19 0.14
Matches are distributed among these distances:
44 40 0.37
45 33 0.30
47 2 0.02
52 2 0.02
53 1 0.01
54 31 0.28
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (44 bp):
ATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGCGGAGCAG
Found at i:6090749 original size:143 final size:143
Alignment explanation
Indices: 6090490--6091334 Score: 1089
Period size: 143 Copynumber: 5.9 Consensus size: 143
6090480 CTTTGAGCCT
* * * * *
6090490 TCTTCCTAAAGATGCAGTGGAGTAAATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGCGGA
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
* * *
6090555 GCAGACTGAAGACAGCAAACCTTATTTCTCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
66 GCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
6090620 ATGGCAGATCTTA
131 ATGGCAGATCTTA
* * * * *
6090633 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTACCGCAGA
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
* * * ** *
6090698 GCAGATTGAAGACAGTGAATCTTATTTCCCTAGCGTTATAGTGGAATAGATTAAAGCTACAAATT
66 GCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
*
6090763 ATGGCAAATCTTA
131 ATGGCAGATCTTA
* * *
6090776 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCTTGCGG
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC-AGCGG
* * * * * *
6090841 AGCAAACTGAAGACAGCAAATCTTATTTCCTTGACGTTGCAGTGGAACAAATTAAAGTTACAAAT
65 AGCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAAT
6090906 TATGGCAGATCTTA
130 TATGGCAGATCTTA
* * * ** *
6090920 TCTTCCTGAAGTTGAAATGGAGCAGATTGAAGCCACTGGCCTTATCTCCCTAAAGTTGCTGCGGA
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
* * *
6090985 GTAGACTGAAGACAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAAATTAAAGCTACAAATT
66 GCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
6091050 ATGGCAGATCTTA
131 ATGGCAGATCTTA
* * *
6091063 TCTTCCTAAAGTTACAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGAAGCGGA
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
** * *
6091128 GCAGACTGAAGACAGCGAATCTTATTTCTTTGGCATTGCAGTGGAATAGATTAAAGCTACAAATT
66 GCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
*
6091193 ATGGCGGATCTTA
131 ATGGCAGATCTTA
* ** * * * *
6091206 TCTTCTTAAAGTTGCAGTGGAGCAGATCAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
** * * * ** * ** * *
6091271 GCAGGTTGAAGATA-CCAATCTTATCTCCCTGAAGTTACAGTGGAGTAAATTAAAGCTACTAATT
66 GCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
6091335 TTATCTCCCT
Statistics
Matches: 614, Mismatches: 87, Indels: 3
0.87 0.12 0.00
Matches are distributed among these distances:
142 39 0.06
143 452 0.74
144 123 0.20
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (143 bp):
TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
GCAGACTGAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
ATGGCAGATCTTA
Found at i:6091007 original size:287 final size:285
Alignment explanation
Indices: 6090490--6091334 Score: 1154
Period size: 287 Copynumber: 3.0 Consensus size: 285
6090480 CTTTGAGCCT
* * * * *
6090490 TCTTCCTAAAGATGCAGTGGAGTAAATTGAAGCCATCAGCCTTATCTCCCTGAAGTTGCAGCGGA
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
*
6090555 GCAGACTGAAGACAGCAAACCTTATTT-CTCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAAT
66 GCAGACTGAAGACAGCAAATCTTATTTCCT-TGGCGTTGCAGTGGAACAGATTAAAGCTACAAAT
*
6090619 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCT
130 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCT
* * * * * * *
6090684 GAAGTTACCGCAGAGCAGATTGAAGACAGTGAATCTTATTTCCCTAGCGTTATAGTGGAATAGAT
195 GAAGTTGCAGCGGAGCAGATTGAAGACAGCGAATCTTATTTCCCT-GAGTTACAGTGGAATAAAT
6090749 TAAAGCTACAAATTATGGCAAATCTTA
259 TAAAGCTACAAATTATGGCAAATCTTA
* * *
6090776 TCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAACCTTATCTCCCTAAAGTTGCTTGCGG
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGC-AGCGG
* * * *
6090841 AGCAAACTGAAGACAGCAAATCTTATTTCCTTGACGTTGCAGTGGAACAAATTAAAGTTACAAAT
65 AGCAGACTGAAGACAGCAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTACAAAT
* * **
6090906 TATGGCAGATCTTATCTTCCTGAAGTTGAAATGGAGCAGATTGAAGCCACTGGCCTTATCTCCCT
130 TATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCT
* * * * * * *
6090971 AAAGTTGCTGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAAAT
195 GAAGTTGCAGCGGAGCAGATTGAAGACAGCGAATCTTATTTCCCT-GAGTTACAGTGGAATAAAT
*
6091036 TAAAGCTACAAATTATGGCAGATCTTA
259 TAAAGCTACAAATTATGGCAAATCTTA
* * *
6091063 TCTTCCTAAAGTTACAATGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGAAGCGGA
1 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
* * * *
6091128 GCAGACTGAAGACAGCGAATCTTATTTCTTTGGCATTGCAGTGGAATAGATTAAAGCTACAAATT
66 GCAGACTGAAGACAGCAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
* * * ** *
6091193 ATGGCGGATCTTATCTTCTTAAAGTTGCAGTGGAGCAGATCAAAGCCACAAACCTTATCTCCCTG
131 ATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCTG
* * * * * *
6091258 AAGTTGCAGTGGAGCAGGTTGAAGATA-CCAATCTTATCTCCCTGAAGTTACAGTGGAGTAAATT
196 AAGTTGCAGCGGAGCAGATTGAAGACAGCGAATCTTATTTCCCTG-AGTTACAGTGGAATAAATT
*
6091322 AAAGCTACTAATT
260 AAAGCTACAAATT
6091335 TTATCTCCCT
Statistics
Matches: 487, Mismatches: 69, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
284 1 0.00
285 41 0.08
286 189 0.39
287 254 0.52
288 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (285 bp):
TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAGCGGA
GCAGACTGAAGACAGCAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATT
ATGGCAGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCCCTG
AAGTTGCAGCGGAGCAGATTGAAGACAGCGAATCTTATTTCCCTGAGTTACAGTGGAATAAATTA
AAGCTACAAATTATGGCAAATCTTA
Found at i:6091265 original size:44 final size:44
Alignment explanation
Indices: 6091200--6091356 Score: 170
Period size: 44 Copynumber: 3.6 Consensus size: 44
6091190 ATTATGGCGG
* * * * *
6091200 ATCTTATCTTCTTAAAGTTGCAGTGGAGCAGATCAAAGCCACAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * * *
6091244 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* * * *
6091288 ATCTTATCTCCCTGAAGTTACAGTGGAGTAAATTAAAGCTACTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
* *
6091332 ATTTTATCTCCCTGAAGTTGTAGTG
1 ATCTTATCTCCCTGAAGTTGCAGTG
6091357 AAGTGGATTA
Statistics
Matches: 92, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAA
Found at i:6093065 original size:17 final size:16
Alignment explanation
Indices: 6093026--6093067 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6093016 ATTTGTTCAC
6093026 TATTTTTTTTATATTT
1 TATTTTTTTTATATTT
*
6093042 TAGTTTTTTTTACT-TAT
1 TA-TTTTTTTTA-TATTT
6093059 TATTTTTTT
1 TATTTTTTT
6093068 CTTTTTGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 13 0.57
18 1 0.04
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (16 bp):
TATTTTTTTTATATTT
Found at i:6099163 original size:24 final size:24
Alignment explanation
Indices: 6099136--6099187 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6099126 TTAGTAAGTC
*
6099136 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6099160 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6099184 AAAT
1 AAAT
6099188 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6101000 original size:17 final size:18
Alignment explanation
Indices: 6100974--6101007 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6100964 AATGATCACA
*
6100974 AATAATCAAT-CAATACC
1 AATAAGCAATACAATACC
6100991 AATAAGCAATACAATAC
1 AATAAGCAATACAATAC
6101008 ACACCAGGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
AATAAGCAATACAATACC
Found at i:6101951 original size:3 final size:3
Alignment explanation
Indices: 6101943--6101974 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6101933 TTTAAGCCTT
*
6101943 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6101975 TTCTGTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:6102073 original size:29 final size:28
Alignment explanation
Indices: 6102041--6102183 Score: 135
Period size: 29 Copynumber: 4.9 Consensus size: 28
6102031 TACATTTTGG
*
6102041 CCCCTGAACTTTTCTAAATTACATTTCAA
1 CCCCTAAACTTTTCTAAATTACATTTC-A
*
6102070 CCCCTAAA-TTTTTTAAAATTACATTTCA
1 CCCCTAAACTTTTCT-AAATTACATTTCA
* *
6102098 CCCCTAAACTTTCTCAAAATTACATTTTTA
1 CCCCTAAACTTT-TCTAAATTACA-TTTCA
* * **
6102128 CTCCTAAACTTTTCTAAATTGCATTTGGG
1 CCCCTAAACTTTTCTAAATTACATTT-CA
* *
6102157 CCCCTAAACTTTCTATAAATTATATTT
1 CCCCTAAACTTT-TCTAAATTACATTT
6102184 TAGCCCCATA
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
28 17 0.18
29 50 0.53
30 27 0.29
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (28 bp):
CCCCTAAACTTTTCTAAATTACATTTCA
Found at i:6102185 original size:58 final size:57
Alignment explanation
Indices: 6102031--6102208 Score: 166
Period size: 58 Copynumber: 3.1 Consensus size: 57
6102021 AAACATAAAC
* * * *
6102031 TACATTTTGGCCCCTGAACTTT-TCTAAATTACATTTCAACCCCTAAATTTTTTAAAAT
1 TACA-TTTGGCCCCTAAACTTTCTATAAATTACATTT-TACCCCTAAATTTTCTAAAAT
** *
6102089 TACATTTCACCCCTAAACTTTCTCA-AAATTACATTTTTACTCCTAAACTTTTCT-AAAT
1 TACATTTGGCCCCTAAACTTTCT-ATAAATTACA-TTTTACCCCTAAA-TTTTCTAAAAT
* * *
6102147 TGCATTTGGGCCCCTAAACTTTCTATAAATTATATTTTAGCCCC-ATATTTTCCTAAAAT
1 TACATTT-GGCCCCTAAACTTTCTATAAATTACATTTTA-CCCCTAAATTTT-CTAAAAT
6102206 TAC
1 TAC
6102209 GTTTTTGCCT
Statistics
Matches: 97, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
57 18 0.19
58 41 0.42
59 38 0.39
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (57 bp):
TACATTTGGCCCCTAAACTTTCTATAAATTACATTTTACCCCTAAATTTTCTAAAAT
Found at i:6102783 original size:21 final size:20
Alignment explanation
Indices: 6102759--6102846 Score: 99
Period size: 21 Copynumber: 4.3 Consensus size: 20
6102749 GGGGTGACCC
6102759 GAAAAAGAAAGAAGAAAGAAA
1 GAAAAAGAAAGAA-AAAGAAA
*
6102780 GAAAAAAGGAAGAAAAAGAAA
1 G-AAAAAGAAAGAAAAAGAAA
* *
6102801 GAAAAAGAAGGAAAAGGGAAA
1 GAAAAAGAAAGAAAA-AGAAA
6102822 GAAAATAGAAA-AAAAAGAAA
1 GAAAA-AGAAAGAAAAAGAAA
6102842 -AAAAA
1 GAAAAA
6102847 TATTTTTAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
18 1 0.02
19 4 0.07
20 16 0.28
21 22 0.38
22 15 0.26
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (20 bp):
GAAAAAGAAAGAAAAAGAAA
Found at i:6102797 original size:10 final size:10
Alignment explanation
Indices: 6102759--6102846 Score: 99
Period size: 10 Copynumber: 8.6 Consensus size: 10
6102749 GGGGTGACCC
6102759 GAAAAAGAAA
1 GAAAAAGAAA
6102769 GAAGAAAGAAA
1 GAA-AAAGAAA
*
6102780 GAAAAAAGGAA
1 G-AAAAAGAAA
6102791 GAAAAAGAAA
1 GAAAAAGAAA
*
6102801 GAAAAAGAAG
1 GAAAAAGAAA
*
6102811 GAAAAGGGAAA
1 GAAAA-AGAAA
6102822 GAAAATAGAAA
1 GAAAA-AGAAA
6102833 -AAAAAGAAA
1 GAAAAAGAAA
6102842 -AAAAA
1 GAAAAA
6102847 TATTTTTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
9 10 0.15
10 29 0.43
11 27 0.40
12 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:6102815 original size:31 final size:31
Alignment explanation
Indices: 6102759--6102846 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 31
6102749 GGGGTGACCC
6102759 GAAAAAGAAAGAAGAAAGAAAGAAAAAAGG-AA
1 GAAAAAGAAAGAA-AAAGAAAG-AAAAAGGAAA
* *
6102791 GAAAAAGAAAGAAAAAGAAGGAAAAGGGAAA
1 GAAAAAGAAAGAAAAAGAAAGAAAAAGGAAA
6102822 GAAAATAGAAA-AAAAAGAAA-AAAAA
1 GAAAA-AGAAAGAAAAAGAAAGAAAAA
6102847 TATTTTTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.20
31 22 0.44
32 18 0.36
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (31 bp):
GAAAAAGAAAGAAAAAGAAAGAAAAAGGAAA
Found at i:6103134 original size:18 final size:18
Alignment explanation
Indices: 6103111--6103151 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6103101 CCAATCTGCA
*
6103111 GAAAAAAAGGGAAAA-AAG
1 GAAAAAAA-AGAAAAGAAG
6103129 GAAAAAAAAGAAAAGAAG
1 GAAAAAAAAGAAAAGAAG
6103147 GAAAA
1 GAAAA
6103152 GGAAAGGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAGAAAAGAAG
Found at i:6103710 original size:20 final size:20
Alignment explanation
Indices: 6103671--6103714 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
6103661 TCGTGTTTCT
6103671 AAAATGTTTGTATTTTAAAA
1 AAAATGTTTGTATTTTAAAA
*
6103691 AAAAT-TTTGTGTTTTCAAAA
1 AAAATGTTTGTATTTT-AAAA
6103711 AAAA
1 AAAA
6103715 AAGGAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (20 bp):
AAAATGTTTGTATTTTAAAA
Found at i:6114667 original size:1 final size:1
Alignment explanation
Indices: 6114663--6114745 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
6114653 AAAAGTAGAC
* * * * * * * * * *
6114663 AAAAAACAAAAAAAAACAACAAAAGAAAACAACAAAAAAAACAAAAACAAAAAAAGAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
6114728 AAAAAAGAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAA
6114746 TCAAGATGAA
Statistics
Matches: 58, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:6114676 original size:8 final size:8
Alignment explanation
Indices: 6114661--6114739 Score: 70
Period size: 8 Copynumber: 9.9 Consensus size: 8
6114651 AAAAAAGTAG
6114661 ACAAAAAA
1 ACAAAAAA
*
6114669 CAAAAAAAA
1 -ACAAAAAA
*
6114678 ACAACAAA
1 ACAAAAAA
* *
6114686 AGAAAACA
1 ACAAAAAA
6114694 ACAAAAAA
1 ACAAAAAA
*
6114702 A-ACAAAA
1 ACAAAAAA
6114709 ACAAAAAA
1 ACAAAAAA
*
6114717 AGAAAAAA
1 ACAAAAAA
*
6114725 AGAAAAAA
1 ACAAAAAA
*
6114733 AGAAAAA
1 ACAAAAA
6114740 GAAAAATCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
7 6 0.10
8 45 0.78
9 7 0.12
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (8 bp):
ACAAAAAA
Found at i:6114683 original size:13 final size:13
Alignment explanation
Indices: 6114663--6114725 Score: 71
Period size: 12 Copynumber: 5.2 Consensus size: 13
6114653 AAAAGTAGAC
6114663 AAAA-AACAAAAA
1 AAAACAACAAAAA
*
6114675 AAAACAACAAAAG
1 AAAACAACAAAAA
6114688 AAAACAAC-AAAA
1 AAAACAACAAAAA
*
6114700 AAAACAA-AAACA
1 AAAACAACAAAAA
*
6114712 AAAA-AAGAAAAA
1 AAAACAACAAAAA
6114724 AA
1 AA
6114726 GAAAAAAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.05
12 27 0.61
13 15 0.34
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAACAACAAAAA
Found at i:6114696 original size:16 final size:16
Alignment explanation
Indices: 6114661--6114739 Score: 97
Period size: 16 Copynumber: 4.9 Consensus size: 16
6114651 AAAAAAGTAG
*
6114661 ACAAAAAACAAAAAAAA
1 ACAAAAAA-AGAAAAAA
* *
6114678 ACAACAAAAGAAAACA
1 ACAAAAAAAGAAAAAA
*
6114694 ACAAAAAAA-ACAAAA
1 ACAAAAAAAGAAAAAA
6114709 ACAAAAAAAGAAAAAA
1 ACAAAAAAAGAAAAAA
*
6114725 AGAAAAAAAGAAAAA
1 ACAAAAAAAGAAAAA
6114740 GAAAAATCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
15 13 0.25
16 33 0.62
17 7 0.13
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (16 bp):
ACAAAAAAAGAAAAAA
Found at i:6114712 original size:31 final size:29
Alignment explanation
Indices: 6114663--6114738 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 29
6114653 AAAAGTAGAC
*
6114663 AAAAAACAAAAAAA-AACAACAAAAGAAAAC
1 AAAAAACAAAAAAAGAA-AACAAAA-AAAAA
* * *
6114693 AACAAA-AAAAACA-AAAACAAAAAAAGA
1 AAAAAACAAAAAAAGAAAACAAAAAAAAA
*
6114720 AAAAAAGAAAAAAAGAAAA
1 AAAAAACAAAAAAAGAAAA
6114739 AGAAAAATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 8 0.21
28 13 0.34
29 12 0.32
30 5 0.13
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (29 bp):
AAAAAACAAAAAAAGAAAACAAAAAAAAA
Found at i:6116134 original size:163 final size:161
Alignment explanation
Indices: 6115624--6116327 Score: 783
Period size: 163 Copynumber: 4.5 Consensus size: 161
6115614 TCAATTTCTA
* ** *
6115624 TTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGTCAC-G-TCGAGGTATC
1 TTTTTCAAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACTGCT-GAGGTAT-
* *
6115687 TTT-AA---A---TT-TCTATTTTCAAAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTC
64 TTTCAATTTATGTTTCTCTATTTTCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTC
*
6115744 GGGTTGCACGCTGAGGTATTTCTTTTAAA---T
129 GGGTCGCACGCTGAGGTATTTCTTTTAAATTTT
* * * * * *
6115774 TTTTTCAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCAC-TGCTGAGGTATT
* * * *
6115839 TT-AA---A--TTTCTGT-TTTTC--AAAACTCAACTCATA-CTGCGAGAGGTGAGTTGAGTCTC
65 TTCAATTTATGTTTCTCTATTTTCAAAAAAATCAACTCATATC-GCGAGAAGTGAGTTGAGCCTC
* *
6115894 GAGT--CACG-TCGAGGTA--T-TTTTCAATTTT
129 GGGTCGCACGCT-GAGGTATTTCTTTTAAATTTT
* * *
6115922 TGCTTTTC-AAAAAGCAACTCATATTGCT-AGAGATGAGTTGAGCCTCGGGTC-CTGCTGAGGTA
1 T--TTTTCAAAAAATCAACTCATAATG-TGAGAGGTGAGTTGAGCCTCGGGTCACTGCTGAGGTA
6115984 TTTTCAATTTATGTTTCTCTATTTTGCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCC
63 TTTTCAATTTATGTTTCTCTATTTT-CAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCC
6116049 TCGGGTCGCACGCTGAGGTATTTCTTTTAAATTTCT
127 TCGGGTCGCACGCTGAGGTATTTCTTTTAAATTT-T
*
6116085 TTTTTCAAAAAAATCAACTCATAATGTGAAAGGTGAGTTGAGCCTCGGGTCAC-GCTGAGGTATT
1 TTTTTC-AAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACTGCTGAGGTATT
*
6116149 TTCAATTTATGTTTTTCTATTTTTCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTC
65 TTCAATTTATGTTTCTCTA-TTTTCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTC
6116214 GGGTCGCACGCTGAGGTATTTCTTTTAAAATTTTT
129 GGGTCGCACGCTGAGGTATTTCTTTT-AAA-TTTT
* *
6116249 GTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA-TCCTGAGGTATT
1 -TTTTTCAAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACTGCTGAGGTA-T
*
6116313 TTTCAATTTCTGTTT
64 TTTCAATTTATGTTT
6116328 TTCAAAAGAA
Statistics
Matches: 477, Mismatches: 36, Indels: 67
0.82 0.06 0.12
Matches are distributed among these distances:
145 6 0.01
146 1 0.00
147 13 0.03
148 15 0.03
149 37 0.08
150 88 0.18
151 7 0.01
152 14 0.03
153 8 0.02
154 4 0.01
155 1 0.00
157 36 0.08
158 1 0.00
159 10 0.02
160 1 0.00
161 6 0.01
162 10 0.02
163 135 0.28
164 60 0.13
165 24 0.05
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (161 bp):
TTTTTCAAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACTGCTGAGGTATTT
TCAATTTATGTTTCTCTATTTTCAAAAAAATCAACTCATATCGCGAGAAGTGAGTTGAGCCTCGG
GTCGCACGCTGAGGTATTTCTTTTAAATTTT
Found at i:6116285 original size:81 final size:79
Alignment explanation
Indices: 6115624--6116334 Score: 613
Period size: 75 Copynumber: 9.1 Consensus size: 79
6115614 TCAATTTCTA
* * *
6115624 TTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGT-CACG-TCGAGGTA--
1 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCT-GAGGTATT
*
6115685 TC-TTTAAATTTCT-
65 TCTTTTAAATTTTTG
* * * * *
6115698 ATTTTCAAAAAAATCAACTTATATTGCGAGAAGTGAGTTGAGCCTCGGGTTGCACGCTGAGGTAT
1 TTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-TCCACGCTGAGGTAT
6115763 TTCTTTTAAA----T-
64 TTCTTTTAAATTTTTG
* * * ** *
6115774 TTTTTCAAAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTA--
1 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATT
*
6115837 --TTTTAAATTTCTG
65 TCTTTTAAATTTTTG
* * * *
6115850 TTTTTC-AAAACTCAACTCATACTGCGAGAGGTGAGTTGAGTCTCGAGT-CACG-TCGAGGTA--
1 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCT-GAGGTATT
*
6115910 T-TTTTCAATTTTTG
65 TCTTTTAAATTTTTG
* * * * * *
6115924 CTTTTC-AAAAAGCAACTCATATTGCTAGAGATGAGTTGAGCCTCGGGTCC-TGCTGAGGTATTT
1 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTA-TT
* ** *
6115987 TCAATTTATGTTTCTCTA
65 TC-TTTTAAATTT-T-TG
* *
6116005 TTTTGCAAAAAAATCAACTCAT-ATCGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
1 TTTTTC-AAAAAATCAACTCATAAT-GCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTA
*
6116069 TTTCTTTTAAATTTCT-
63 TTTCTTTTAAATTTTTG
* *
6116085 TTTTTCAAAAAAATCAACTCATAATGTGAAAGGTGAGTTGAGCCTCGGGT-CACGCTGAGGTATT
1 TTTTTC-AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTA-T
* ** *
6116149 TTCAATTTATGTTTTTCTA
64 TTC-TTTTA-AATTTT-TG
*
6116168 TTTTTCAAAAAAATCAACTCAT-ATCGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
1 TTTTTC-AAAAAATCAACTCATAAT-GCGAGAGGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTA
6116232 TTTCTTTTAAAATTTTTG
63 TTTCTTTT-AAATTTTTG
6116250 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT-CATC-CTGAGGTA--
1 TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCA-CGCTGAGGTATT
* *
6116311 T-TTTTCAATTTCTG
65 TCTTTTAAATTTTTG
6116325 TTTTTCAAAA
1 TTTTTCAAAA
6116335 GAAAAAGGAA
Statistics
Matches: 527, Mismatches: 69, Indels: 81
0.78 0.10 0.12
Matches are distributed among these distances:
71 7 0.01
73 8 0.02
74 64 0.12
75 141 0.27
76 17 0.03
77 12 0.02
78 13 0.02
79 22 0.04
80 55 0.10
81 50 0.09
82 13 0.02
83 94 0.18
84 10 0.02
85 21 0.04
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (79 bp):
TTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTT
CTTTTAAATTTTTG
Found at i:6116390 original size:89 final size:91
Alignment explanation
Indices: 6116256--6116425 Score: 265
Period size: 89 Copynumber: 1.9 Consensus size: 91
6116246 TTTGTTTTTC
*
6116256 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATC-CTGAGGTATTTTTCAAT
1 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCATCTC-GAGGTATTTTTCAAT
6116320 TTCTG-TTTTT-CAAAAGAAAAAGGAA
65 TTCTGATTTTTACAAAAGAAAAAGGAA
* * *
6116345 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGAGTCATGTCGAGGTATTTTTCAATT
1 AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCATCTCGAGGTATTTTTCAATT
*
6116410 TTTGATTTTTACAAAA
66 TCTGATTTTTACAAAA
6116426 ATCAACTCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
89 62 0.85
90 6 0.08
91 5 0.07
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (91 bp):
AAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCATCTCGAGGTATTTTTCAATT
TCTGATTTTTACAAAAGAAAAAGGAA
Found at i:6116478 original size:246 final size:236
Alignment explanation
Indices: 6115611--6116488 Score: 743
Period size: 246 Copynumber: 3.7 Consensus size: 236
6115601 AAGATTTTTT
* * * *
6115611 TTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGTCA
1 TTTTAAATTTCT-TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCGAGTCA
* * * * * * * *
6115675 CGTCGAGGTATCTTTAAATTTCT-ATTTTCAAAAAAATCAACTTATATTGCGAGAAGTGAGTTGA
65 CGTCGAGGTATTTTTCAATTTTTGATTTTTACAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
* * * *
6115739 GCCTCGGGTTGCACGCTGAGGTATTTC-TTTTAAA----T-T-TTTT-C-AAAAAATTAGCTCAT
130 GCCTCGGG-T-CATGCTGAGGTATTTCAATTTAAATTTCTCTATTTTGCAAAAAAATCAACTCAT
* * ** *
6115795 ATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTA---
193 ATCGCGAGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTATTC
* *
6115837 TTTTAAATTTCTGTTTTTC--AAAACTCAACTCATACTGCGAGAGGTGAGTTGAGTCTCGAGTCA
1 TTTTAAATTTCT-TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCGAGTCA
* * * *
6115900 CGTCGAGGTATTTTTCAATTTTTG-CTTTT-CAAAAAGCAACTCATATTGCTAGAGATGAGTTGA
65 CGTCGAGGTATTTTTCAATTTTTGATTTTTACAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
* **
6115963 GCCTCGGGTCCTGCTGAGGTATTTTCAATTTATGTTTCTCTATTTTGCAAAAAAATCAACTCATA
130 GCCTCGGGTCATGCTGAGGTA-TTTCAATTTAAATTTCTCTATTTTGCAAAAAAATCAACTCATA
6116028 TCGCGAGAAGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTC
194 TCGCGAGAAGTGAGTTGAGCCTCGGGTC-CACGCTGAGGTA-TTC
* * * *
6116073 TTTTAAATTTCTTTTTTCAAAAAAATCAACTCATAATGTGAAAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTAAATTTCTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCGAGTCAC
* * * * *
6116138 G-CTGAGGTA-TTTTCAATTTATGTTTTTCTATTTTTCAAAAAAATCAACTCATATCGCGAGAAG
66 GTC-GAGGTATTTTTC-A---A--TTTTT-GATTTTT-ACAAAAATCAACTCATATTGCAAGAGG
* * * *
6116201 TGAGTTGAGCCTCGGGTCGCACGCTGAGGTATTTC-TTTTAAAATTT-T-TGTTTTTC-AAAAAA
122 TGAGTTGAGCCTCGGGT--CATGCTGAGGTATTTCAATTT-AAATTTCTCTATTTTGCAAAAAAA
*
6116262 TCAACTCATAAT-GCGAGAGGTGAGTTGAGCCTCGGGT-CATC-CTGAGGTA-T-
184 TCAACTCAT-ATCGCGAGAAGTGAGTTGAGCCTCGGGTCCA-CGCTGAGGTATTC
* *
6116312 TTTTCAATTTCTGTTTTTCAAAAGAAAAAGGAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTTAAATTTCT-TTTTTC-------------AAAAAAATCAACTCATAATGCGAGAGGTGAGTT
* *
6116377 GAGTCTCGAGTCATGTCGAGGTATTTTTCAATTTTTGATTTTTACAAAAATCAACTCATATTACA
52 GAGTCTCGAGTCACGTCGAGGTATTTTTCAATTTTTGATTTTTACAAAAATCAACTCATATTGCA
**
6116442 AGAGGTGAGTTGAGCCTTAGGTCATATGCTGAGGTATTCTTCAATTT
117 AGAGGTGAGTTGAGCCTCGGGTC--ATGCTGAGGTA-T-TTCAATTT
6116489 CTATTTTTCA
Statistics
Matches: 529, Mismatches: 69, Indels: 85
0.77 0.10 0.12
Matches are distributed among these distances:
222 10 0.02
223 5 0.01
224 40 0.08
225 63 0.12
226 17 0.03
228 1 0.00
229 1 0.00
230 4 0.01
231 1 0.00
232 49 0.09
235 6 0.01
236 18 0.03
237 47 0.09
239 11 0.02
240 8 0.02
242 15 0.03
243 1 0.00
244 44 0.08
245 8 0.02
246 88 0.17
247 15 0.03
248 18 0.03
249 3 0.01
250 1 0.00
253 49 0.09
254 6 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (236 bp):
TTTTAAATTTCTTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGTCTCGAGTCAC
GTCGAGGTATTTTTCAATTTTTGATTTTTACAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG
CCTCGGGTCATGCTGAGGTATTTCAATTTAAATTTCTCTATTTTGCAAAAAAATCAACTCATATC
GCGAGAAGTGAGTTGAGCCTCGGGTCCACGCTGAGGTATTC
Found at i:6116905 original size:29 final size:28
Alignment explanation
Indices: 6116858--6117015 Score: 156
Period size: 29 Copynumber: 5.4 Consensus size: 28
6116848 CAAAAAAACA
** *
6116858 TAAATTACATTTTGGCCCCTGAACTTTTC
1 TAAATTACA-TTTCACCCCTAAACTTTTC
6116887 TAAATTACATTTCAACCCCTAAACTTTT-
1 TAAATTACATTTC-ACCCCTAAACTTTTC
6116915 TGAAATTACATTTCACCCCTAAACTTTCTC
1 T-AAATTACATTTCACCCCTAAACTTT-TC
* *
6116945 AAAATTACATTTTTACCCCTAAACTTTTC
1 TAAATTACA-TTTCACCCCTAAACTTTTC
* ** *
6116974 TAAATTGCATTTGGGCCCCTAAACTTTCTA
1 TAAATTACATTT-CACCCCTAAACTTT-TC
*
6117004 TAAATTATATTT
1 TAAATTACATTT
6117016 TAGCCCCATA
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
28 20 0.18
29 63 0.57
30 27 0.25
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (28 bp):
TAAATTACATTTCACCCCTAAACTTTTC
Found at i:6116950 original size:58 final size:58
Alignment explanation
Indices: 6116858--6117015 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 58
6116848 CAAAAAAACA
* *
6116858 TAAATTACATTTTGGCCCCTGAACTTT-TCTAAATTACATTTCAACCCCTAAACTTTT-
1 TAAATTACA-TTTGGCCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTC
** **
6116915 TGAAATTACATTTCACCCCTAAACTTTCTCAAAATTACATTTTTACCCCTAAACTTTTC
1 T-AAATTACATTTGGCCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTC
* *
6116974 TAAATTGCATTTGGGCCCCTAAACTTTCT-ATAAATTATATTT
1 TAAATTACATTT-GGCCCCTAAACTTTCTCA-AAATTACATTT
6117016 TAGCCCCATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
57 15 0.17
58 46 0.53
59 25 0.29
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (58 bp):
TAAATTACATTTGGCCCCTAAACTTTCTCAAAATTACATTTCAACCCCTAAACTTTTC
Found at i:6117495 original size:14 final size:15
Alignment explanation
Indices: 6117472--6117515 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
6117462 CAACCCAAAG
6117472 GAAA-AAGAGAGAAA
1 GAAAGAAGAGAGAAA
6117486 -AAAGAAGAGA-AAA
1 GAAAGAAGAGAGAAA
*
6117499 GAAAGAAGAGAGGAA
1 GAAAGAAGAGAGAAA
6117514 GA
1 GA
6117516 GAAGGGGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAAAGAAGAGAGAAA
Found at i:6117613 original size:11 final size:10
Alignment explanation
Indices: 6117594--6117683 Score: 87
Period size: 11 Copynumber: 8.6 Consensus size: 10
6117584 GGGGTGACCC
6117594 GAAAAAGAAA
1 GAAAAAGAAA
6117604 GAAGAAAGAAA
1 GAA-AAAGAAA
*
6117615 GAAAAAAGGAA
1 G-AAAAAGAAA
6117626 GAAAAAAGAAA
1 G-AAAAAGAAA
6117637 GAAAAA-AAA
1 GAAAAAGAAA
6117646 GGAAAAAGGGAAA
1 -GAAAAA--GAAA
6117659 GAAAAAAGAAA
1 G-AAAAAGAAA
6117670 -AAAAAGAAA
1 GAAAAAGAAA
6117679 -AAAAA
1 GAAAAA
6117684 AATATTTTAA
Statistics
Matches: 71, Mismatches: 2, Indels: 15
0.81 0.02 0.17
Matches are distributed among these distances:
9 17 0.24
10 14 0.20
11 29 0.41
12 3 0.04
13 8 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
GAAAAAGAAA
Found at i:6117620 original size:22 final size:21
Alignment explanation
Indices: 6117595--6117685 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 21
6117585 GGGTGACCCG
6117595 AAAAAGAAAGAAGAAAGAAAGA
1 AAAAAGAAAGAA-AAAGAAAGA
*
6117617 AAAAAGGAAGAAAAAAGAAAGA
1 AAAAAGAAAG-AAAAAGAAAGA
*
6117639 AAAAA-AAGGAAAAAGGGAAAGA
1 AAAAAGAAAGAAAAA--GAAAGA
*
6117661 AAAAAGAAA-AAAAAGAAAAA
1 AAAAAGAAAGAAAAAGAAAGA
6117681 AAAAA
1 AAAAA
6117686 TATTTTAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
20 15 0.25
21 2 0.03
22 39 0.65
23 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAGAAAAAGAAAGA
Found at i:6117635 original size:33 final size:33
Alignment explanation
Indices: 6117595--6117685 Score: 125
Period size: 33 Copynumber: 2.8 Consensus size: 33
6117585 GGGTGACCCG
6117595 AAAAAGAAAGAAGAAAGAAAGAAAAAAGG-AAGA
1 AAAAAGAAAGAA-AAAGAAAGAAAAAAGGAAAGA
*
6117628 AAAAAGAAAGAAAAA-AAAGGAAAAAGGGAAAGA
1 AAAAAGAAAGAAAAAGAAA-GAAAAAAGGAAAGA
*
6117661 AAAAAGAAA-AAAAAGAAAAAAAAAA
1 AAAAAGAAAGAAAAAGAAAGAAAAAA
6117686 TATTTTAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
31 3 0.06
32 21 0.40
33 28 0.54
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (33 bp):
AAAAAGAAAGAAAAAGAAAGAAAAAAGGAAAGA
Found at i:6117969 original size:18 final size:18
Alignment explanation
Indices: 6117944--6117986 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
6117934 CCAATCTGCA
6117944 GAAAAAAAGGGAAAAA-AAG
1 GAAAAAAA--GAAAAAGAAG
6117963 GAAAAAAAGAAAAAGAAG
1 GAAAAAAAGAAAAAGAAG
6117981 GAAAAA
1 GAAAAA
6117987 GGAAAGGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.26
18 9 0.39
19 8 0.35
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
GAAAAAAAGAAAAAGAAG
Found at i:6117987 original size:10 final size:9
Alignment explanation
Indices: 6117944--6117986 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
6117934 CCAATCTGCA
6117944 GAAAAAAAGG
1 GAAAAAAA-G
6117954 GAAAAAAAG
1 GAAAAAAAG
6117963 GAAAAAAA-
1 GAAAAAAAG
6117971 GAAAAAGAAG
1 GAAAAA-AAG
6117981 GAAAAA
1 GAAAAA
6117987 GGAAAGGGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.19
9 11 0.35
10 14 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:6118599 original size:16 final size:17
Alignment explanation
Indices: 6118568--6118613 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
6118558 TTTCGAAAAA
6118568 TCGTGTTTCTAAAATTC
1 TCGTGTTTCTAAAATTC
*
6118585 TCGTGTTTC-AAAATTT
1 TCGTGTTTCTAAAATTC
*
6118601 TCGT-TTTTTAAAA
1 TCGTGTTTCTAAAA
6118614 AAAAGAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 3 0.12
16 14 0.54
17 9 0.35
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (17 bp):
TCGTGTTTCTAAAATTC
Found at i:6118660 original size:18 final size:18
Alignment explanation
Indices: 6118639--6118674 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6118629 TTCTAAAATG
*
6118639 TTTGTATTTTTAAAAAAA
1 TTTGTATTTTCAAAAAAA
*
6118657 TTTGTGTTTTCAAAAAAA
1 TTTGTATTTTCAAAAAAA
6118675 AAAGGAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (18 bp):
TTTGTATTTTCAAAAAAA
Found at i:6120127 original size:44 final size:44
Alignment explanation
Indices: 6119989--6120270 Score: 230
Period size: 44 Copynumber: 6.5 Consensus size: 44
6119979 ACTCTAATTA
* * *
6119989 CAACTTCAGGGCGATATGATTATTAGCTTTAATCTGCTCCATTG
1 CAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGCTCCACTG
** * * * * *
6120033 CAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTACCCCACTG
1 CAACTTCAGGGAGATAAGATT-ATTAGCTTTAATCTGCTCCACTG
* * * * *
6120078 CAACTTCAGAGAGATAGGATTATTGGTTTTAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGCTCCACTG
* * * * *
6120122 CAACTTTAGGGAGATAAGACTT-GTAACTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGA-TTATTAGCTTTAATCTGCTCCACTG
* * * *
6120166 CAACTTCAGAGAGATAGGATTATTGGCTTTAATTTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGCTCCACTG
* * ** * * *
6120210 AAACTTCAGGGAAATAAGA-T-TT-GCCATGATATGCTCTACTG
1 CAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGCTCCACTG
*
6120251 CAACTTCAGAGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
6120271 CTGTGATTTA
Statistics
Matches: 183, Mismatches: 51, Indels: 10
0.75 0.21 0.04
Matches are distributed among these distances:
41 30 0.16
42 2 0.01
43 3 0.02
44 112 0.61
45 36 0.20
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGCTCCACTG
Found at i:6120190 original size:88 final size:88
Alignment explanation
Indices: 6119989--6120230 Score: 299
Period size: 88 Copynumber: 2.7 Consensus size: 88
6119979 ACTCTAATTA
* * * * *
6119989 CAACTTCAGGGCGATATGATTATTAGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
* *
6120054 CACCATCTTCAGTCTACCCCACTG
66 CA-CATCTTCAATCCACCCCACTG
* * *
6120078 CAACTTCAGAGAGATAGGATTATTGGTTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGACT
1 CAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T
* * *
6120143 TGTA-A-CTTCAATCCGCTCCACTG
65 T-CACATCTTCAATCCACCCCACTG
* * *
6120166 CAACTTCAGAGAGATAGGATTATTGGCTTTAATTTGCTCCACTGAAACTTCAGGGAAATAAGATT
1 CAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
6120231 TGCCATGATA
Statistics
Matches: 132, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
87 2 0.02
88 71 0.54
89 56 0.42
90 2 0.02
91 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (88 bp):
CAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
CACATCTTCAATCCACCCCACTG
Found at i:6120370 original size:51 final size:51
Alignment explanation
Indices: 6120306--6121468 Score: 383
Period size: 51 Copynumber: 23.9 Consensus size: 51
6120296 GCAATGCCAG
* * *
6120306 GGAAACAAGATTCGTTGCTTTCAACTTTAATTTGTTCTACTACAACTCCAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * *
6120357 GGCAATAAGATTCGCTG-TCTTCAGCTTTAA-----TCTACTGCCACGCCAG
1 GGAAATAAGATTCGTTGCT-TTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * *
6120403 GGAAATAAGATTTGTTGCCTTCTGCTTTAATTTGTTCCACTGCAACTCCAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * *
6120454 GGAAATAAGATTC-TCTACCTTCAGCTTTAA-----TCTATTGCAA-TGCCAA
1 GGAAATAAGATTCGT-TGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
* * * * * * *
6120500 GGAAACAAGATT-GTGAGCCTTCAACTTTAATTTATTCCACTGTAACAT-CAA
1 GGAAATAAGATTCGT-TGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * *
6120551 GGAAATAAGATTCGCTGC-TTCAGCTTTAA-----TCTATTACAA-TGCCAG
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
** * ** *
6120596 GGAAATAAGATTCACTGCCTTCAGCTTTAATCCGTTCCACTGCAAC-CCTAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCC-AA
* * * * * * *
6120647 AGAAATAAGATTCGCTGTCTTT-AGCTTTAA-----TCTATTGTAACGCTAG
1 GGAAATAAGATTCGTTG-CTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
6120693 GGAAACAAGATTCGTTGCCTTT-AGATTTAATCTATTCCACTACAACGT-CAA
1 GGAAATAAGATTCGTTG-CTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * *
6120744 GGAAATAAGATTCGTTGCCTTCAGCTTTAATCT-AT-TA-T--AACGCCAG
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * *
6120790 GGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAGCAACGT-CAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * *
6120841 GGAAATAAGATTCGCTGCCTTCAGCTTTAA-----TCTATTGCAACGCCAG
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
6120887 GGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGT-TAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * * * * *
6120938 GGAAATAAGATTTGCTGCCTTCAACTTTAA-----TCTACTGCAGCGCTAG
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * * * * *
6120984 GGAAATAAGATTTGCTGCATTCAGCTTTAATCTATTCCACTACGA-TGCTAA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
* * * *
6121035 GGAAATAAGATTTGTTACTTTCAACTTTAA-----TCTACTGCAACGCC-A
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * *
6121080 GAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAGCAACGT-CAA
1 G-GAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * *
6121132 GGAAATAAGATTTGCTGCCTTCAGCTTTAA-----TCTATTGCAACGCC-A
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
6121177 GAGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACTGCAACGT-TAA
1 G-GAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC-TCCAA
* * * * * * *
6121229 GGAAATAAGATTTGCTGCCTTCAACTTTAA-----TCTACTGCAGC-GCTA
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * * * * * *
6121274 GGAAAATAAAATTTGCTGCATTCAGCTTTAATCTATTCCACTACGA-TGCTAA
1 GG-AAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
* * * *
6121326 GGAAATAAGATTTGTTACTTTCAACTTTAA-----TCTACTGCAACGCC-A
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
* * * * * *
6121371 GAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCATTGCAA-TGCCAG
1 G-GAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACT-CCAA
** * * *
6121423 GGAAATAAGATTCACTGCCTTCAGCTTTAATCTGTTCCACTGCAAC
1 GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAAC
6121469 GCTCGGGAAA
Statistics
Matches: 854, Mismatches: 163, Indels: 189
0.71 0.14 0.16
Matches are distributed among these distances:
43 1 0.00
45 35 0.04
46 368 0.43
47 2 0.00
48 2 0.00
49 1 0.00
50 18 0.02
51 414 0.48
52 12 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (51 bp):
GGAAATAAGATTCGTTGCTTTCAGCTTTAATTTGTTCTACTGCAACTCCAA
Found at i:6120413 original size:97 final size:97
Alignment explanation
Indices: 6120282--6121455 Score: 1333
Period size: 97 Copynumber: 12.1 Consensus size: 97
6120272 TGTGATTTAT
* * * * * * *
6120282 AGCTTTAATCTATTGCAATGCCAGGGAAACAAGATTCGTTGCTTTCAACTTTAATTTGTTCTACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* *
6120347 ACAAC-TCCAAGGCAATAAGATTCGCTGTCTTC
66 ACAACGT-CAAGGAAATAAGATTCGCTGCCTTC
* * * * * *
6120379 AGCTTTAATCTACTGCCACGCCAGGGAAATAAGATTTGTTGCCTTCTGCTTTAATTTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
6120444 GCAAC-TCCAAGGAAATAAGATTCTCTACCTTC
66 ACAACGT-CAAGGAAATAAGATTCGCTGCCTTC
* * * * * *
6120476 AGCTTTAATCTATTGCAATGCCAAGGAAACAAGATT-G-TGAGCCTTCAACTTTAATTTATTCCA
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCT--GCCTTCAGCTTTAATCTGTTCCA
** *
6120539 CTGTAACATCAAGGAAATAAGATTCGCTG-CTTC
64 CTACAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * * *
6120572 AGCTTTAATCTATTACAATGCCAGGGAAATAAGATTCACTGCCTTCAGCTTTAATCCGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * *
6120637 GCAAC-CCTAAAGAAATAAGATTCGCTGTCTTT
66 ACAACGTC-AAGGAAATAAGATTCGCTGCCTTC
* * * * * * *
6120669 AGCTTTAATCTATTGTAACGCTAGGGAAACAAGATTCGTTGCCTTTAGATTTAATCTATTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
*
6120734 ACAACGTCAAGGAAATAAGATTCGTTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
**
6120766 AGCTTTAATCTATTATAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC-
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
6120830 AGCAACGTCAAGGAAATAAGATTCGCTGCCTTC
66 A-CAACGTCAAGGAAATAAGATTCGCTGCCTTC
*
6120863 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
6120928 GCAACGTTAAGGAAATAAGATTTGCTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * * * * * *
6120960 AACTTTAATCTACTGCAGCGCTAGGGAAATAAGATTTGCTGCATTCAGCTTTAATCTATTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * * *
6121025 ACGATG-CTAAGGAAATAAGATTTGTTACTTTC
66 ACAACGTC-AAGGAAATAAGATTCGCTGCCTTC
* * *
6121057 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCAC-
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
*
6121121 AGCAACGTCAAGGAAATAAGATTTGCTGCCTTC
66 A-CAACGTCAAGGAAATAAGATTCGCTGCCTTC
* *
6121154 AGCTTTAATCTATTGCAACGCCAGAGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
6121219 GCAACGTTAAGGAAATAAGATTTGCTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * * * * * * * *
6121251 AACTTTAATCTACTGCAGCGCTAGGAAAATAAAATTTGCTGCATTCAGCTTTAATCTATTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * * *
6121316 ACGATG-CTAAGGAAATAAGATTTGTTACTTTC
66 ACAACGTC-AAGGAAATAAGATTCGCTGCCTTC
* * * *
6121348 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCATT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * *
6121413 GCAATGCCAGGGAAATAAGATTCACTGCCTTC
66 ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
6121445 AGCTTTAATCT
1 AGCTTTAATCT
6121456 GTTCCACTGC
Statistics
Matches: 930, Mismatches: 131, Indels: 32
0.85 0.12 0.03
Matches are distributed among these distances:
95 2 0.00
96 83 0.09
97 840 0.90
98 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (97 bp):
AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
ACAACGTCAAGGAAATAAGATTCGCTGCCTTC
Found at i:6120984 original size:291 final size:291
Alignment explanation
Indices: 6120282--6121455 Score: 1527
Period size: 291 Copynumber: 4.0 Consensus size: 291
6120272 TGTGATTTAT
* * * * * * *
6120282 AGCTTTAATCTATTGCAATGCCAGGGAAACAAGATTCGTTGCTTTCAACTTTAATTTGTTCTACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * * * * *
6120347 ACAAC-TCCAAGGCAATAAGATTCGCTGTCTTCAGCTTTAATCTACTGCCA-CGCCAGGGAAATA
66 GCAACGT-TAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTG-CAGCGCTAGGGAAATA
* * * * * * * *
6120410 AGATTTGTTGCCTTCTGCTTTAATTTGTTCCACTGCAACTCCAAGGAAATAAGATTC-TCTACCT
129 AGATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGT-TACCT
* * * * * * *
6120474 TCAGCTTTAATCTATTGCAATGCCA-AGGAAACAAGATT-G-TGAGCCTTCAACTTTAATTTATT
193 TCAACTTTAATCTACTGCAACGCCAGA-GAAATAAGATTCGCT--GCCTTCAGCTTTAATCTGTT
* * *
6120536 CCACTGTAACATCAAGGAAATAAGATTCGCTG-CTTC
255 CCACAGCAACGTCAAGGAAATAAGATTCGCTGCCTTC
* * * *
6120572 AGCTTTAATCTATTACAATGCCAGGGAAATAAGATTCACTGCCTTCAGCTTTAATCCGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
** * * * * * * * *
6120637 GCAACCCTAAAGAAATAAGATTCGCTGTCTTTAGCTTTAATCTATTGTAACGCTAGGGAAACAAG
66 GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAGGGAAATAAG
* * * * * *
6120702 ATTCGTTGCCTTTAGATTTAATCTATTCCACTACAACG-TCAAGGAAATAAGATTCGTTGCCTTC
131 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCT-AAGGAAATAAGATTCGTTACCTTC
* * ** *
6120766 AGCTTTAATCTATTATAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACA
195 AACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACA
6120831 GCAACGTCAAGGAAATAAGATTCGCTGCCTTC
260 GCAACGTCAAGGAAATAAGATTCGCTGCCTTC
*
6120863 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
*
6120928 GCAACGTTAAGGAAATAAGATTTGCTGCCTTCAACTTTAATCTACTGCAGCGCTAGGGAAATAAG
66 GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAGGGAAATAAG
* * * *
6120993 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACGATGCTAAGGAAATAAGATTTGTTACTTTCA
131 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGTTACCTTCA
6121058 ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAG
196 ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAG
*
6121123 CAACGTCAAGGAAATAAGATTTGCTGCCTTC
261 CAACGTCAAGGAAATAAGATTCGCTGCCTTC
* *
6121154 AGCTTTAATCTATTGCAACGCCAGAGAAATAAGATTTGCTGCCTTCAGCTTTAATCTGTTCCACT
1 AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
* * *
6121219 GCAACGTTAAGGAAATAAGATTTGCTGCCTTCAACTTTAATCTACTGCAGCGCTAGGAAAATAAA
66 GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAGGGAAATAAG
* * * *
6121284 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACGATGCTAAGGAAATAAGATTTGTTACTTTCA
131 ATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGTTACCTTCA
**
6121349 ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCATTG
196 ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAG
* * * *
6121414 CAATGCCAGGGAAATAAGATTCACTGCCTTC
261 CAACGTCAAGGAAATAAGATTCGCTGCCTTC
6121445 AGCTTTAATCT
1 AGCTTTAATCT
6121456 GTTCCACTGC
Statistics
Matches: 793, Mismatches: 82, Indels: 17
0.89 0.09 0.02
Matches are distributed among these distances:
289 1 0.00
290 235 0.30
291 555 0.70
292 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (291 bp):
AGCTTTAATCTATTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACT
GCAACGTTAAGGAAATAAGATTCGCTGCCTTCAACTTTAATCTACTGCAGCGCTAGGGAAATAAG
ATTTGCTGCATTCAGCTTTAATCTATTCCACTACAACGCTAAGGAAATAAGATTCGTTACCTTCA
ACTTTAATCTACTGCAACGCCAGAGAAATAAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACAG
CAACGTCAAGGAAATAAGATTCGCTGCCTTC
Found at i:6123830 original size:137 final size:137
Alignment explanation
Indices: 6123583--6123854 Score: 474
Period size: 137 Copynumber: 2.0 Consensus size: 137
6123573 GCCTTTACCA
* *
6123583 GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGTGATACCCATTAGAAGCCTTCGGTGATATT
1 GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
*
6123648 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTAAGCCACCATTTTCGAGTTTTCAACTC
66 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTAAGCCACCATTTTCAAGTTTTCAACTC
6123713 AAATCCC
131 AAATCCC
* *
6123720 GTTTGGTGAAGTAATTAATGACCTCAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
1 GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
*
6123785 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTGAA-CCACCCTTTTCAAGTTTTCAACT
66 GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTT-AAGCCACCATTTTCAAGTTTTCAACT
6123849 CAAATC
130 CAAATC
6123855 TCCATTGGTC
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
137 126 0.98
138 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (137 bp):
GTTTGGTGAAGTAATTAATAACCTAAAAAATGAAGCGATACCCATTAGAAGCCTTCGATGATATT
GGCCCGATGACATCCATGCCCCACTTTGCTTAAAATTTAAGCCACCATTTTCAAGTTTTCAACTC
AAATCCC
Found at i:6123947 original size:11 final size:11
Alignment explanation
Indices: 6123904--6123947 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
6123894 GGCCTCTACT
*
6123904 TTTTCTTTTCC
1 TTTTCTTTTTC
6123915 TTTTCTTTTTCC
1 TTTTCTTTTT-C
* *
6123927 TTCTCTTTTTA
1 TTTTCTTTTTC
6123938 TTTTCTTTTT
1 TTTTCTTTTT
6123948 TTTATCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:6123958 original size:23 final size:23
Alignment explanation
Indices: 6123907--6123963 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
6123897 CTCTACTTTT
* *
6123907 TCTTTTCCTTTTCTTTTTCCTTC
1 TCTTTTCATTTTCTTTTTCCTTA
* *
6123930 TCTTTTTATTTTCTTTTT-TTTA
1 TCTTTTCATTTTCTTTTTCCTTA
6123952 TCATTTTCATTT
1 TC-TTTTCATTT
6123964 CCAATTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (23 bp):
TCTTTTCATTTTCTTTTTCCTTA
Found at i:6123991 original size:28 final size:28
Alignment explanation
Indices: 6123955--6124019 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
6123945 TTTTTTATCA
*
6123955 TTTTCATTTCCAATTTTTTTGAAATATT
1 TTTTGATTTCCAATTTTTTTGAAATATT
***
6123983 TTTTGATTTTTTTATTTTTTTGAAATATT
1 TTTTGA-TTTCCAATTTTTTTGAAATATT
6124012 TTTTGATT
1 TTTTGATT
6124020 GGATCTGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 7 0.22
29 25 0.78
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.68
Consensus pattern (28 bp):
TTTTGATTTCCAATTTTTTTGAAATATT
Found at i:6138037 original size:17 final size:16
Alignment explanation
Indices: 6138017--6138048 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
6138007 AGAAATTATG
6138017 ATAATTATATATTTAAA
1 ATAATTATA-ATTTAAA
6138034 ATAATTATAATTTAA
1 ATAATTATAATTTAA
6138049 TAGAAGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:6139385 original size:9 final size:9
Alignment explanation
Indices: 6139373--6139398 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
6139363 ATGCGAAATG
6139373 TTATTTTCT
1 TTATTTTCT
6139382 TTATTTTCT
1 TTATTTTCT
6139391 TTATTTTC
1 TTATTTTC
6139399 GTTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (9 bp):
TTATTTTCT
Found at i:6140118 original size:27 final size:29
Alignment explanation
Indices: 6140078--6140137 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
6140068 TATATTTACT
* *
6140078 TATTCATTACTTTTATATTATTA-TGTTA
1 TATTCATTACTTTTATACTATTATTATTA
* *
6140106 TATT-ATTAGTTTTGTACTATTATTATTA
1 TATTCATTACTTTTATACTATTATTATTA
6140134 TATT
1 TATT
6140138 TCTATTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (29 bp):
TATTCATTACTTTTATACTATTATTATTA
Found at i:6141700 original size:19 final size:17
Alignment explanation
Indices: 6141668--6141703 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
6141658 TTAGCTCATA
6141668 ATCTGAAGAAAAAAAAC
1 ATCTGAAGAAAAAAAAC
6141685 ATCTCGAAGTAAAAAAAAC
1 ATCT-GAAG-AAAAAAAAC
6141704 TACAACACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 4 0.24
19 9 0.53
ACGTcount: A:0.61, C:0.14, G:0.11, T:0.14
Consensus pattern (17 bp):
ATCTGAAGAAAAAAAAC
Found at i:6142252 original size:84 final size:84
Alignment explanation
Indices: 6142146--6142315 Score: 286
Period size: 84 Copynumber: 2.0 Consensus size: 84
6142136 TCACTAATTT
* * *
6142146 ACATAATAAATCTTCCAAAAACGCATCAAGAATGGGATTAAAAACATGAAACTTTTATGGCTTGT
1 ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGAAACTTTTATGGCTTAT
*
6142211 CGGACATCGGGATCAATAA
66 CAGACATCGGGATCAATAA
**
6142230 ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGCTACTTTTATGGCTTAT
1 ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGAAACTTTTATGGCTTAT
6142295 CAGACATCGGGATCAATAA
66 CAGACATCGGGATCAATAA
6142314 AC
1 AC
6142316 CCTAAACCTA
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.25
Consensus pattern (84 bp):
ACATAATAAATCATCCAAAAACGCATCAAAAATGGGATTAAAAACATGAAACTTTTATGGCTTAT
CAGACATCGGGATCAATAA
Found at i:6143553 original size:22 final size:22
Alignment explanation
Indices: 6143511--6143555 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6143501 TCTGCAACCG
*
6143511 CCGCACATCGCGCCAGTTGCTC
1 CCGCACATCGCGCCAGCTGCTC
**
6143533 CCGCACATCGCGCTTGCTGCTC
1 CCGCACATCGCGCCAGCTGCTC
6143555 C
1 C
6143556 GCGCGCGCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.47, G:0.22, T:0.20
Consensus pattern (22 bp):
CCGCACATCGCGCCAGCTGCTC
Found at i:6144429 original size:19 final size:18
Alignment explanation
Indices: 6144407--6144460 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 18
6144397 TTTTTTACAT
6144407 TATTATTGTT-TTATGGTAC
1 TATTATTGTTATTAT--TAC
6144426 TATTACTTGTTTATTATTAC
1 TATTA-TTG-TTATTATTAC
6144446 TATTATTGTCTATTA
1 TATTATTGT-TATTA
6144461 CTATTACTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 1 0.03
19 13 0.42
20 11 0.35
21 2 0.06
22 4 0.13
ACGTcount: A:0.24, C:0.07, G:0.09, T:0.59
Consensus pattern (18 bp):
TATTATTGTTATTATTAC
Found at i:6144446 original size:20 final size:19
Alignment explanation
Indices: 6144423--6144460 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6144413 TGTTTTATGG
*
6144423 TACTATTACTTGTTTATTAT
1 TACTATTA-TTGTCTATTAT
6144443 TACTATTATTGTCTATTA
1 TACTATTATTGTCTATTA
6144461 CTATTACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (19 bp):
TACTATTATTGTCTATTAT
Found at i:6146114 original size:22 final size:22
Alignment explanation
Indices: 6146088--6146138 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
6146078 TGGGAACTTG
6146088 CCCTAGGTAGAGCTATACCAAA
1 CCCTAGGTAGAGCTATACCAAA
6146110 CCCTAGGTAGAGCTATACCAAA
1 CCCTAGGTAGAGCTATACCAAA
6146132 CCCTAGG
1 CCCTAGG
6146139 GGATTCCTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (22 bp):
CCCTAGGTAGAGCTATACCAAA
Done.