Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 313 of 318
Found at i:98859007 original size:22 final size:23
Alignment explanation
Indices: 98858976--98859018 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
98858966 GGGTGAACTT
*
98858976 GATAGGAAAAACACGGGCGTGGG
1 GATAGGAAAAACACGGACGTGGG
*
98858999 GATA-GAAAACCACGGACGTG
1 GATAGGAAAAACACGGACGTG
98859019 CCACGGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.16, G:0.37, T:0.09
Consensus pattern (23 bp):
GATAGGAAAAACACGGACGTGGG
Found at i:98861079 original size:19 final size:18
Alignment explanation
Indices: 98861044--98861119 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 18
98861034 AATCCTCTTA
*
98861044 TTTTTTTTATCTATTTATT
1 TTTTTTTTAT-TTTTTATT
98861063 CTTTTTTTTATTTTTTATT
1 -TTTTTTTTATTTTTTATT
*
98861082 TTTCTTTTTCTTTTTCT-TT
1 TTT-TTTTTATTTTT-TATT
**
98861101 TGATTTTTA-TTTTTATT
1 TTTTTTTTATTTTTTATT
98861118 TT
1 TT
98861120 ATTATTTCAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
16 1 0.02
17 7 0.15
18 8 0.17
19 20 0.43
20 11 0.23
ACGTcount: A:0.11, C:0.07, G:0.01, T:0.82
Consensus pattern (18 bp):
TTTTTTTTATTTTTTATT
Found at i:98861083 original size:6 final size:6
Alignment explanation
Indices: 98861047--98861132 Score: 68
Period size: 6 Copynumber: 13.7 Consensus size: 6
98861037 CCTCTTATTT
* * *
98861047 TTTTTA TCTATTTA TTCTTT- TTTTTA TTTTTTA TTTTTC TTTTTC TTTTTC
1 TTTTTA T-T-TTTA TT-TTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA
*
98861098 TTTTGA TTTTTA TTTTTA -TTTTA TTATTTCA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTT-A TTTT
98861133 CAAAGACATA
Statistics
Matches: 68, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
5 8 0.12
6 36 0.53
7 16 0.24
8 8 0.12
ACGTcount: A:0.13, C:0.07, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:98864015 original size:13 final size:13
Alignment explanation
Indices: 98863999--98864031 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
98863989 TTTAATTAAA
*
98863999 TTAGTTAATTAGT
1 TTAGATAATTAGT
98864012 TTAGATAATTAGT
1 TTAGATAATTAGT
98864025 TTA-ATAA
1 TTAGATAA
98864032 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:98869595 original size:4 final size:4
Alignment explanation
Indices: 98869586--98869614 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
98869576 CCCTTTTCTA
98869586 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
98869615 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:98873877 original size:10 final size:11
Alignment explanation
Indices: 98873854--98873882 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
98873844 TGATTGCGTG
98873854 AAAATCTGGAA
1 AAAATCTGGAA
98873865 AAAATCTGGAA
1 AAAATCTGGAA
98873876 AAAATCT
1 AAAATCT
98873883 TGTAGATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (11 bp):
AAAATCTGGAA
Found at i:98877213 original size:16 final size:16
Alignment explanation
Indices: 98877188--98877221 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
98877178 AAATTAATTG
* *
98877188 TCTATTTATATTTATA
1 TCTATCTATATATATA
98877204 TCTATCTATATATATA
1 TCTATCTATATATATA
98877220 TC
1 TC
98877222 ATATATTCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TCTATCTATATATATA
Found at i:98882807 original size:20 final size:21
Alignment explanation
Indices: 98882763--98882807 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
98882753 CCTTCTCGTA
98882763 TCTTTAATTTTGTTTTTACAC
1 TCTTTAATTTTGTTTTTACAC
* *
98882784 -CTTTACTTTTGTTTTT-CTC
1 TCTTTAATTTTGTTTTTACAC
98882803 TCTTT
1 TCTTT
98882808 TGGACTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.67
Consensus pattern (21 bp):
TCTTTAATTTTGTTTTTACAC
Found at i:98885988 original size:17 final size:17
Alignment explanation
Indices: 98885957--98885989 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
98885947 TGTATAAAAC
98885957 TTATTTTATTGTTAATT
1 TTATTTTATTGTTAATT
98885974 TTATTATTATT-TTAAT
1 TTATT-TTATTGTTAAT
98885990 GACATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (17 bp):
TTATTTTATTGTTAATT
Found at i:98886001 original size:30 final size:30
Alignment explanation
Indices: 98885965--98886027 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
98885955 ACTTATTTTA
98885965 TTGTTAATTTTATTATTATTTTA-ATGACAT
1 TTGTTAATTTTATTATTATTTTAGA-GACAT
*
98885995 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAGAGACAT
98886025 TTG
1 TTG
98886028 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAGAGACAT
Found at i:98886110 original size:18 final size:18
Alignment explanation
Indices: 98886089--98886128 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
98886079 AAAATATTTA
*
98886089 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
98886107 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
98886125 TTTT
1 TTTT
98886129 TAAAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:98889871 original size:18 final size:19
Alignment explanation
Indices: 98889817--98889872 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
98889807 AAAAAAAACA
**
98889817 TCAAAATAATTTCCAAAGAT
1 TCAAAATAATTTATAAA-AT
* *
98889837 TCAACATAATTTTTAAAAT
1 TCAAAATAATTTATAAAAT
98889856 TCAAAAT-ATTTATAAAA
1 TCAAAATAATTTATAAAA
98889873 ATTTCAAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 9 0.29
19 8 0.26
20 14 0.45
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAT
Found at i:98891863 original size:20 final size:19
Alignment explanation
Indices: 98891816--98891863 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
98891806 AAGGACTTTT
*
98891816 ATTTATTTTATTCCAATCA
1 ATTTATTTAATTCCAATCA
**
98891835 ATTTGATTTAATTTTAATCAA
1 ATTT-ATTTAATTCCAATC-A
98891856 ATTTATTT
1 ATTTATTT
98891864 GTTGACTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.62
21 5 0.21
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTATTTAATTCCAATCA
Found at i:98894705 original size:11 final size:11
Alignment explanation
Indices: 98894682--98894748 Score: 82
Period size: 11 Copynumber: 6.2 Consensus size: 11
98894672 TATGAACTTG
*
98894682 TTCGACCATGA
1 TTCGACAATGA
*
98894693 TTTGACAATGA
1 TTCGACAATGA
98894704 TTCGACAATGA
1 TTCGACAATGA
*
98894715 TTCGACAGTGA
1 TTCGACAATGA
*
98894726 TTTGA-AATGA
1 TTCGACAATGA
*
98894736 TTCGACTATGA
1 TTCGACAATGA
98894747 TT
1 TT
98894749 TGGTATTGGA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 8 0.17
11 39 0.83
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (11 bp):
TTCGACAATGA
Found at i:98894736 original size:21 final size:21
Alignment explanation
Indices: 98894689--98894750 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
98894679 TTGTTCGACC
* *
98894689 ATGATTTGACAATGATTCGACA
1 ATGATTCGAC-ATGATTTGACA
98894711 ATGATTCGACAGTGATTTGA-A
1 ATGATTCGACA-TGATTTGACA
98894732 ATGATTCGACTATGATTTG
1 ATGATTCGAC-ATGATTTG
98894751 GTATTGGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.35
Consensus pattern (21 bp):
ATGATTCGACATGATTTGACA
Found at i:98896742 original size:3 final size:3
Alignment explanation
Indices: 98896736--98896761 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
98896726 TTTTCGTAAA
98896736 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
98896762 TTATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:98898673 original size:51 final size:51
Alignment explanation
Indices: 98898602--98898806 Score: 298
Period size: 51 Copynumber: 4.2 Consensus size: 51
98898592 CTGATCACAT
98898602 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * *
98898653 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
98898704 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * *
98898755 TTGTCA--T-T-A---ATCAGATAAATGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
98898799 TTGTCACT
1 TTATCACT
98898807 GATCAGAAGT
Statistics
Matches: 143, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
44 39 0.27
47 1 0.01
48 1 0.01
49 1 0.01
51 101 0.71
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:98898700 original size:44 final size:44
Alignment explanation
Indices: 98898650--98898813 Score: 220
Period size: 44 Copynumber: 3.6 Consensus size: 44
98898640 TACCACTTAT
*
98898650 CACTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTA-C
*
98898695 ACTTATCATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTAC
1 -C--A-C--TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
* * *
98898745 CACTTATCACTTGTCATTAATCAGATAAATGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
98898789 CACTTATCACTTGTCACTGATCAGA
1 CACTTATCACTTGTCACTGATCAGA
98898814 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
44 60 0.57
46 2 0.02
47 1 0.01
48 1 0.01
49 2 0.02
50 1 0.01
51 38 0.36
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (44 bp):
CACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:98898770 original size:95 final size:97
Alignment explanation
Indices: 98898599--98898806 Score: 321
Period size: 95 Copynumber: 2.1 Consensus size: 97
98898589 ACACTGATCA
98898599 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACT--CAC---TCACTTATCACTTGT
* *
98898664 CATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
61 CATTAATCAGATAAATGTAGCTAAAGCTACCACTTAT
98898701 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACT-AC-CACTTATCACTTGTCATTA
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTCACTCACTTATCACTTGTCATTA
98898764 ATCAGATAAATGTAGCTAAAGCTACCACTTAT
66 ATCAGATAAATGTAGCTAAAGCTACCACTTAT
* *
98898796 CACTTGTCACT
1 CATTTATCACT
98898807 GATCAGAAGT
Statistics
Matches: 102, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
95 58 0.57
99 2 0.02
102 42 0.41
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (97 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTCACTCACTTATCACTTGTCATTA
ATCAGATAAATGTAGCTAAAGCTACCACTTAT
Found at i:98900061 original size:51 final size:51
Alignment explanation
Indices: 98900005--98900127 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
98899995 TCCCAAACTT
* * **
98900005 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTAGCTTCAACAAGA
1 ACTTCATATTTCATCCGGATA-TATTACTTTATTACTCTAGCTTCAACAAGA
*
98900056 ACTTCATATTTCATCCGGATATATTACTTTATTACTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGATATATTACTTTATTACTCTAGCTTCAACAAGA
* *
98900107 GCTTCATATTTCATCCAGATA
1 ACTTCATATTTCATCCGGATA
98900128 ACTTAGTTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (51 bp):
ACTTCATATTTCATCCGGATATATTACTTTATTACTCTAGCTTCAACAAGA
Found at i:98900621 original size:16 final size:16
Alignment explanation
Indices: 98900596--98900642 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
98900586 TGTTCTTCGA
98900596 ATGCTCTTTGTTTCTT
1 ATGCTCTTTGTTTCTT
* *
98900612 ATGCTGTTTGTTTGTT
1 ATGCTCTTTGTTTCTT
* *
98900628 -GGCTTTTTGTTTCTT
1 ATGCTCTTTGTTTCTT
98900643 TCTCCTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.04, C:0.13, G:0.19, T:0.64
Consensus pattern (16 bp):
ATGCTCTTTGTTTCTT
Found at i:98901803 original size:137 final size:137
Alignment explanation
Indices: 98901557--98901830 Score: 406
Period size: 137 Copynumber: 2.0 Consensus size: 137
98901547 GTTTTTCTTC
* * **
98901557 ATGTTTGATAGCCCCTTGAACTGCATGTTTTGTCACTGTGTTTAATCCCTTATTTGAACAGTTGT
1 ATGTTTGATAGCCCATTGAACTACATGTTTTGTCACTGTGTTTAATCCCTTATTCAAACAGTTGT
* * *
98901622 CTAAACTAACTTTTGAACGACAGTCTAGACAAACTTTTAGGACAACTCAAGTGTAGTATAAAGTG
66 CTAAACTAACTTTTGAACAACAGTCTAGACAAACTTTCAAGACAACTCAAGTGTAGTATAAAGTG
98901687 AGCATTT
131 AGCATTT
* *
98901694 ATGTTTGATAGCTCATTGAACTACATGTTTTGTCACTGTGTTTAATCCCTTATTCAAATAGTTGT
1 ATGTTTGATAGCCCATTGAACTACATGTTTTGTCACTGTGTTTAATCCCTTATTCAAACAGTTGT
* * * *
98901759 CTAGATTAACTTTTGGACAACAGTCTAGACATGA-TTTCAAGACAACTCAAGTGTAGTATAAAGT
66 CTAAACTAACTTTTGAACAACAGTCTAGACA-AACTTTCAAGACAACTCAAGTGTAGTATAAAGT
*
98901823 TAGCATTT
130 GAGCATTT
98901831 TTTTTTTGAT
Statistics
Matches: 122, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
137 121 0.99
138 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (137 bp):
ATGTTTGATAGCCCATTGAACTACATGTTTTGTCACTGTGTTTAATCCCTTATTCAAACAGTTGT
CTAAACTAACTTTTGAACAACAGTCTAGACAAACTTTCAAGACAACTCAAGTGTAGTATAAAGTG
AGCATTT
Found at i:98903399 original size:21 final size:22
Alignment explanation
Indices: 98903347--98903401 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
98903337 GTGTAATAGT
*
98903347 TTTTGGGTATTTTCGAGTGTGAG
1 TTTTGAGT-TTTTCGAGTGTGAG
* * *
98903370 TTGTAAGTTTTTCGAGT-TGTG
1 TTTTGAGTTTTTCGAGTGTGAG
98903391 TTTTGAGTTTT
1 TTTTGAGTTTT
98903402 AGAATACTTG
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.13, C:0.04, G:0.29, T:0.55
Consensus pattern (22 bp):
TTTTGAGTTTTTCGAGTGTGAG
Found at i:98906136 original size:11 final size:11
Alignment explanation
Indices: 98906105--98906144 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
98906095 ATAATAACAA
*
98906105 CAAAATATTAG
1 CAAAATAATAG
* *
98906116 TAATATAATAG
1 CAAAATAATAG
98906127 CAAAATAATAG
1 CAAAATAATAG
98906138 CAAAATA
1 CAAAATA
98906145 GCGGTAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.25
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:98907407 original size:16 final size:16
Alignment explanation
Indices: 98907386--98907420 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
98907376 GATATAACCT
* *
98907386 AAAATAACTCAAATAC
1 AAAATAACCCAAACAC
98907402 AAAATAACCCAAACAC
1 AAAATAACCCAAACAC
98907418 AAA
1 AAA
98907421 GCCATCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.23, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATAACCCAAACAC
Found at i:98919164 original size:25 final size:25
Alignment explanation
Indices: 98919134--98919183 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
98919124 AAATATGAGA
*
98919134 TTATTTTCTAAATATGGGTTGTAGG
1 TTATTTTCTAAATATGAGTTGTAGG
98919159 TTATTTTCTAAATATGAGTTGTAGG
1 TTATTTTCTAAATATGAGTTGTAGG
98919184 AGTTCATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (25 bp):
TTATTTTCTAAATATGAGTTGTAGG
Found at i:98920602 original size:54 final size:54
Alignment explanation
Indices: 98920544--98920654 Score: 222
Period size: 54 Copynumber: 2.1 Consensus size: 54
98920534 TGAAGATAAG
98920544 TTGATGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
1 TTGATGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
98920598 TTGATGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
1 TTGATGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
98920652 TTG
1 TTG
98920655 TAAATTATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (54 bp):
TTGATGCACGTTCACCATAACCAACAATGGACGGAATTTCCTGATAAAACTACC
Found at i:98926049 original size:24 final size:24
Alignment explanation
Indices: 98926017--98926065 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
98926007 TTCAATTGAA
98926017 ATTTTGCATAATTGAACCTTCCTC
1 ATTTTGCATAATTGAACCTTCCTC
98926041 ATTTTGCATAATTGAACCTTCCTC
1 ATTTTGCATAATTGAACCTTCCTC
98926065 A
1 A
98926066 AAGGGTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.41
Consensus pattern (24 bp):
ATTTTGCATAATTGAACCTTCCTC
Found at i:98931399 original size:9 final size:8
Alignment explanation
Indices: 98931382--98931410 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
98931372 TCCGACCATA
98931382 TTATTTTT
1 TTATTTTT
98931390 TTATTTTT
1 TTATTTTT
98931398 TTATTTTT
1 TTATTTTT
98931406 TTATT
1 TTATT
98931411 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTATTTTT
Found at i:98940479 original size:19 final size:19
Alignment explanation
Indices: 98940435--98940481 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
98940425 AATCATTCTT
98940435 AAAAAATATAAAAAAAAATC
1 AAAAAAT-TAAAAAAAAATC
** *
98940455 TTAAAATTGAAAAAAAATC
1 AAAAAATTAAAAAAAAATC
98940474 AAAAAATT
1 AAAAAATT
98940482 TATAAACTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AAAAAATTAAAAAAAAATC
Found at i:98940678 original size:31 final size:31
Alignment explanation
Indices: 98940621--98940689 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
98940611 CTTTAACAAA
* * *
98940621 ATAAAAATAATTTTTAAAATTCTAAAAATAT
1 ATAAAAATAATTATTAAAAATATAAAAATAT
98940652 ATAACAAATAA-TATTAAAAATATAAAAATA-
1 ATAA-AAATAATTATTAAAAATATAAAAATAT
*
98940682 AAAAAAAT
1 ATAAAAAT
98940690 TCAATTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.12
30 3 0.09
31 20 0.61
32 6 0.18
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (31 bp):
ATAAAAATAATTATTAAAAATATAAAAATAT
Found at i:98940845 original size:17 final size:17
Alignment explanation
Indices: 98940815--98940848 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
98940805 TCAACTGATC
**
98940815 AATTTTTTTTAATTTTT
1 AATTTTTTAAAATTTTT
98940832 AATTTTTTAAAATTTTT
1 AATTTTTTAAAATTTTT
98940849 TATATAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
AATTTTTTAAAATTTTT
Found at i:98940873 original size:29 final size:27
Alignment explanation
Indices: 98940815--98940889 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 27
98940805 TCAACTGATC
98940815 AATTTTTTTTAATTTTTAATTTTTTAA
1 AATTTTTTTTAATTTTTAATTTTTTAA
98940842 AATTTTTTATATAA-TTTT-ATATTTTTACA
1 AATTTTTT-T-TAATTTTTAAT-TTTTTA-A
* *
98940871 AATTCTTGTT-ATTTTTAAT
1 AATTTTTTTTAATTTTTAAT
98940890 GTAACCAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
26 1 0.03
27 15 0.38
28 14 0.35
29 10 0.25
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (27 bp):
AATTTTTTTTAATTTTTAATTTTTTAA
Found at i:98942977 original size:24 final size:25
Alignment explanation
Indices: 98942950--98942999 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
98942940 AATATATAAT
*
98942950 ATTAATTTTAAATATTT-TTAAGTA
1 ATTAATATTAAATATTTATTAAGTA
*
98942974 ATTAATATTAATTATTTATTAAGTA
1 ATTAATATTAAATATTTATTAAGTA
98942999 A
1 A
98943000 ACAAAAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
ATTAATATTAAATATTTATTAAGTA
Found at i:98962808 original size:7 final size:7
Alignment explanation
Indices: 98962796--98962820 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
98962786 TTAAAAAACC
98962796 CAAATTT
1 CAAATTT
98962803 CAAATTT
1 CAAATTT
98962810 CAAATTT
1 CAAATTT
98962817 CAAA
1 CAAA
98962821 ACTTGACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (7 bp):
CAAATTT
Found at i:98967847 original size:15 final size:15
Alignment explanation
Indices: 98967821--98967853 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
98967811 ATATAATTAT
98967821 TATAATTTAACATATA
1 TATAATTTAACATA-A
98967837 TATAA-TTAACATAA
1 TATAATTTAACATAA
98967851 TAT
1 TAT
98967854 TTTTATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
TATAATTTAACATAA
Found at i:98968244 original size:22 final size:20
Alignment explanation
Indices: 98968218--98968300 Score: 93
Period size: 21 Copynumber: 4.2 Consensus size: 20
98968208 TCAACTCAAC
98968218 ATTAATATTTATTTAAAAAATA
1 ATTAATA-TTA-TTAAAAAATA
*
98968240 ATTAATATTATTATAAAA-A
1 ATTAATATTATTAAAAAATA
98968259 A-T-AT-TTATTTAAAAAATA
1 ATTAATATTA-TTAAAAAATA
98968277 ATTAATATTATTATAAAAATA
1 ATTAATATTATTA-AAAAATA
98968298 ATT
1 ATT
98968301 TTGTTTATTC
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.06
17 9 0.17
18 3 0.06
19 3 0.06
20 12 0.23
21 16 0.30
22 7 0.13
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAATATTATTAAAAAATA
Found at i:98968261 original size:15 final size:15
Alignment explanation
Indices: 98968243--98968276 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
98968233 AAAAATAATT
98968243 AATA-TTATTATAAAA
1 AATATTTATT-TAAAA
98968258 AATATTTATTTAAAA
1 AATATTTATTTAAAA
98968273 AATA
1 AATA
98968277 ATTAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATTTATTTAAAA
Found at i:98968262 original size:61 final size:61
Alignment explanation
Indices: 98968143--98968262 Score: 206
Period size: 62 Copynumber: 2.0 Consensus size: 61
98968133 CAATGACTAT
*
98968143 CAAGTCAACTCAACATTAATATTATTTAAAAAACAATTAATATTATTATAAATCAATATAA
1 CAAGTCAACTCAACATTAATATTATTTAAAAAACAATTAATATTATTATAAATAAATATAA
*
98968204 CAAGTCAACTCAACATTAATATTTATTTAAAAAATAATTAATATTATTATAAA-AAATAT
1 CAAGTCAACTCAACATTAATA-TTATTTAAAAAACAATTAATATTATTATAAATAAATAT
98968263 TTATTTAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
61 26 0.46
62 30 0.54
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.36
Consensus pattern (61 bp):
CAAGTCAACTCAACATTAATATTATTTAAAAAACAATTAATATTATTATAAATAAATATAA
Found at i:98968266 original size:37 final size:37
Alignment explanation
Indices: 98968221--98968295 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
98968211 ACTCAACATT
98968221 AATATTTATTTAAAAAATAATTAATATTATTATAAAA
1 AATATTTATTTAAAAAATAATTAATATTATTATAAAA
98968258 AATATTTATTTAAAAAATAATTAATATTATTATAAAA
1 AATATTTATTTAAAAAATAATTAATATTATTATAAAA
98968295 A
1 A
98968296 TAATTTTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (37 bp):
AATATTTATTTAAAAAATAATTAATATTATTATAAAA
Found at i:98970451 original size:5 final size:5
Alignment explanation
Indices: 98970443--98970476 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
98970433 TTAAAAAATA
98970443 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
98970477 ATATTTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:98971346 original size:28 final size:29
Alignment explanation
Indices: 98971313--98971369 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
98971303 TTTAATTCAA
*
98971313 TGTACAATTCA-ATAC-ATAAATTTTGATT
1 TGTACAATT-ATATACAATAAACTTTGATT
98971341 TGTACAATTATATACAATAAACTTTGATT
1 TGTACAATTATATACAATAAACTTTGATT
98971370 ATGATTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
28 13 0.50
29 12 0.46
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (29 bp):
TGTACAATTATATACAATAAACTTTGATT
Found at i:98971414 original size:24 final size:24
Alignment explanation
Indices: 98971382--98971428 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
98971372 GATTCAAATG
98971382 TATACACCGAACTTTTATTTTGAA
1 TATACACCGAACTTTTATTTTGAA
98971406 TATACACCGAACTTTTATTTTGA
1 TATACACCGAACTTTTATTTTGA
98971429 TTCAATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.43
Consensus pattern (24 bp):
TATACACCGAACTTTTATTTTGAA
Found at i:98971440 original size:28 final size:28
Alignment explanation
Indices: 98971360--98971440 Score: 80
Period size: 24 Copynumber: 2.9 Consensus size: 28
98971350 ATATACAATA
* *
98971360 AACTTTGATTATGATTCAAATGTATACACCG
1 AACTTTTATTTTGATTC-AAT-T-TACACCG
*
98971391 AACTTTTATTTTG----AATATACACCG
1 AACTTTTATTTTGATTCAATTTACACCG
98971415 AACTTTTATTTTGATTCAATTTACAC
1 AACTTTTATTTTGATTCAATTTACAC
98971441 ATTTAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
24 20 0.48
26 3 0.07
28 8 0.19
31 11 0.26
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (28 bp):
AACTTTTATTTTGATTCAATTTACACCG
Found at i:98974671 original size:239 final size:239
Alignment explanation
Indices: 98974240--98974912 Score: 1114
Period size: 239 Copynumber: 2.8 Consensus size: 239
98974230 ATGCTTATGT
*
98974240 TGGTTTTGGATAAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCACCA
1 TGGTTTTGGAT-AAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCA
98974305 AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
65 AACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTG
* *
98974370 ATGGGTAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGA
130 GTGGGCAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGA
98974435 AGACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
195 AGACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
98974480 TGGTTTTGGATAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCAA
1 TGGTTTTGGATAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCAA
98974545 ACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTGG
66 ACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTGG
*
98974610 TGGGCAATTTTGAATGCAATGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGAA
131 TGGGCAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGAA
98974675 GACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
196 GACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
* * *
98974719 TGGTTTTGGATTAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTCTCATAATCAA
1 TGGTTTTGGATAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCAA
* * * * * * * * * *
98974784 AATTTTAAGCAAAACTTTAACTTTCAGGATGCTACTGTCTCAAATCTCCATTCTTTGTACTTTGG
66 ACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTGG
* * * * * *
98974849 TGGGCAATTTTGAATGTATTGATATAGCTAAT-AGCTTTTATGTTGTTAAGTTTGATAATGAAGA
131 TGGGCAATTTTGAATGCATTGATATGGGTAATGA-CTTCTATGTCGTTAAGTTTAATAATGAAGA
98974913 GGATAAGGCT
Statistics
Matches: 408, Mismatches: 24, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
238 1 0.00
239 396 0.97
240 11 0.03
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (239 bp):
TGGTTTTGGATAAAAAAAATGAAGAGGAATTTGAGAAAGCCTTGGTGGAAGGCTTTCATCATCAA
ACTTTTAGGTAAAACTTTAGCTTACAGAATACTAGTGTCTCGAATCTCCATTCTTTATACTTTGG
TGGGCAATTTTGAATGCATTGATATGGGTAATGACTTCTATGTCGTTAAGTTTAATAATGAAGAA
GACAGGGCTAAAGTTTTGATTGTTACGATGGTGTTCTCCTACGA
Found at i:98977803 original size:59 final size:60
Alignment explanation
Indices: 98977721--98977848 Score: 186
Period size: 59 Copynumber: 2.1 Consensus size: 60
98977711 ATTTATGTAG
** *
98977721 ATATTAATATGAGATATTAAATTTAACTTAAAATTTATCTAAATAGTATTTTATTAATTTA
1 ATATTAATATGAGA-ATTAAATTTAACTTAAAATTTATCTAAATAAAATTATATTAATTTA
* * *
98977782 ATATTAATATGAG-ATTAAATTTAATTTAATATTTATCTAGATAAAATTATATTAATTTA
1 ATATTAATATGAGAATTAAATTTAACTTAAAATTTATCTAAATAAAATTATATTAATTTA
98977841 ATATTAAT
1 ATATTAAT
98977849 TTGATTAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 48 0.79
61 13 0.21
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (60 bp):
ATATTAATATGAGAATTAAATTTAACTTAAAATTTATCTAAATAAAATTATATTAATTTA
Found at i:98977840 original size:31 final size:31
Alignment explanation
Indices: 98977743--98977845 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
98977733 GATATTAAAT
* * * ** *
98977743 TTAACTTAAAATTTATCTAAATAGTATTTTA
1 TTAATTTAATATTTATCTAGATAAAATTATA
* * *
98977774 TTAATTTAATATTAATATGAGAT-TAA--AT-
1 TTAATTTAATATTTATCT-AGATAAAATTATA
98977802 TTAATTTAATATTTATCTAGATAAAATTATA
1 TTAATTTAATATTTATCTAGATAAAATTATA
98977833 TTAATTTAATATT
1 TTAATTTAATATT
98977846 AATTTGATTA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 4 0.07
28 18 0.32
29 1 0.02
30 2 0.04
31 28 0.50
32 3 0.05
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.50
Consensus pattern (31 bp):
TTAATTTAATATTTATCTAGATAAAATTATA
Found at i:98977872 original size:20 final size:20
Alignment explanation
Indices: 98977832--98977872 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
98977822 ATAAAATTAT
*
98977832 ATTAATTTAATATTAATTTG
1 ATTAATTTAATATTAAGTTG
98977852 ATTAATTCTAATATT-AGTTG
1 ATTAATT-TAATATTAAGTTG
98977872 A
1 A
98977873 ACTGTCTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (20 bp):
ATTAATTTAATATTAAGTTG
Found at i:98978055 original size:16 final size:16
Alignment explanation
Indices: 98978034--98978064 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98978024 GAACTTTAAA
*
98978034 GAAATTACTAAATTAT
1 GAAATTACGAAATTAT
98978050 GAAATTACGAAATTA
1 GAAATTACGAAATTA
98978065 CCCCATTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (16 bp):
GAAATTACGAAATTAT
Found at i:98990519 original size:21 final size:22
Alignment explanation
Indices: 98990490--98990536 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
98990480 CAGAAGGAGT
*
98990490 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
98990512 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
98990533 GAGT
1 GAGT
98990537 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:98991903 original size:28 final size:28
Alignment explanation
Indices: 98991854--98991941 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
98991844 GTCAATAGTA
* *
98991854 AATTTTTTGAATTTTTCCATTTGTTTTC
1 AATTTTTTGAATTTTTCAATTTATTTTC
* *
98991882 AATTTATTTTAATTTTT-AATTTATTTTGT
1 AATTT-TTTGAATTTTTCAATTTATTTT-C
* *
98991911 AATTTTCT-AAATTTT-AATTATATTTT-
1 AATTTTTTGAATTTTTCAATT-TATTTTC
98991937 AATTT
1 AATTT
98991942 ATTAAGCCTA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 5 0.10
27 10 0.20
28 21 0.41
29 15 0.29
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (28 bp):
AATTTTTTGAATTTTTCAATTTATTTTC
Found at i:98992324 original size:26 final size:30
Alignment explanation
Indices: 98992279--98992332 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
98992269 TAAAATGGCA
98992279 ATAAAAAAATAATTTGGGTATC-ACTTGTG
1 ATAAAAAAATAATTTGGGTATCAACTTGTG
98992308 ATAAAAAAA-AA-TT-GGTATCAACTTG
1 ATAAAAAAATAATTTGGGTATCAACTTG
98992333 AAAAAAATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.25
27 7 0.29
28 2 0.08
29 9 0.38
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.31
Consensus pattern (30 bp):
ATAAAAAAATAATTTGGGTATCAACTTGTG
Found at i:98997672 original size:12 final size:12
Alignment explanation
Indices: 98997655--98997680 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98997645 AAAATAGGGC
98997655 TTTAGCGGCGTT
1 TTTAGCGGCGTT
98997667 TTTAGCGGCGTT
1 TTTAGCGGCGTT
98997679 TT
1 TT
98997681 ATAAAAAACG
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:98998006 original size:14 final size:15
Alignment explanation
Indices: 98997987--98998038 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
98997977 TTAATTATCA
98997987 TTAT-AGTTTAAGGT
1 TTATGAGTTTAAGGT
* *
98998001 TTAT-AGTTAAAGAT
1 TTATGAGTTTAAGGT
* *
98998015 ATATGGGTTTAAGGT
1 TTATGAGTTTAAGGT
98998030 TTATGAGTT
1 TTATGAGTT
98998039 AACTATGGTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (15 bp):
TTATGAGTTTAAGGT
Found at i:98998057 original size:7 final size:7
Alignment explanation
Indices: 98998045--98998151 Score: 67
Period size: 7 Copynumber: 15.0 Consensus size: 7
98998035 AGTTAACTAT
98998045 GGTTTAG
1 GGTTTAG
*
98998052 GGTTTAA
1 GGTTTAG
98998059 GGTTTAAG
1 GGTTT-AG
98998067 GG-TTAG
1 GGTTTAG
98998073 GG-TTAG
1 GGTTTAG
* *
98998079 AGTTTAA
1 GGTTTAG
*
98998086 GGTGTAGG
1 GGTTTA-G
98998094 GGTTTAG
1 GGTTTAG
*
98998101 GGTTAAG
1 GGTTTAG
98998108 GGTTTAG
1 GGTTTAG
*
98998115 TGTTTATG
1 GGTTTA-G
*
98998123 GG-ATACG
1 GGTTTA-G
*
98998130 GGTTAAG
1 GGTTTAG
*
98998137 AGGTTTAA
1 -GGTTTAG
98998145 GGTTTAG
1 GGTTTAG
98998152 ATTAATTAGT
Statistics
Matches: 75, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
6 9 0.12
7 50 0.67
8 16 0.21
ACGTcount: A:0.22, C:0.01, G:0.39, T:0.37
Consensus pattern (7 bp):
GGTTTAG
Found at i:98998114 original size:14 final size:14
Alignment explanation
Indices: 98998045--98998114 Score: 63
Period size: 15 Copynumber: 5.0 Consensus size: 14
98998035 AGTTAACTAT
*
98998045 GGTTTAGGGTTTAAG
1 GGTTAAGGGTTT-AG
*
98998060 GTTTAAGGG-TTAG
1 GGTTAAGGGTTTAG
* *
98998073 GGTT-AGAGTTTAA
1 GGTTAAGGGTTTAG
*
98998086 GGTGTAGGGGTTTAG
1 GGT-TAAGGGTTTAG
98998101 GGTTAAGGGTTTAG
1 GGTTAAGGGTTTAG
98998115 TGTTTATGGG
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
12 3 0.07
13 11 0.26
14 13 0.30
15 16 0.37
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.37
Consensus pattern (14 bp):
GGTTAAGGGTTTAG
Found at i:99000918 original size:21 final size:22
Alignment explanation
Indices: 99000876--99000919 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
99000866 GACAATTTAT
* *
99000876 TTGAATCTGTCTAATTGTATTA
1 TTGAATCTGTCTAAGTGAATTA
*
99000898 TTGAA-CTGTCTTAGTGAATTA
1 TTGAATCTGTCTAAGTGAATTA
99000919 T
1 T
99000920 GTGGTTTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (22 bp):
TTGAATCTGTCTAAGTGAATTA
Found at i:99002246 original size:42 final size:43
Alignment explanation
Indices: 99002199--99002490 Score: 315
Period size: 42 Copynumber: 6.9 Consensus size: 43
99002189 TTATATTCTT
* * * *
99002199 TAGCGGCGTTTATGAGAAAAGTGCCGCTAAAGGT-TTGTTCCG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCCG
* *
99002241 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT-TTGTTCCG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCCG
* * *
99002283 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGGTCTG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCCG
* *
99002326 TAACGGCGTTT-TCGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
1 TAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAGGTCATGGTCCG
* * ** * **
99002369 TAGCGGCGTTTGCG-GGAAAGCGTTGTTAAAGGTCATGGTTTG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCCG
* **
99002411 TAGCGGCGTTT-TCGAGAAAAGCGCCGTTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAGGTCATGGTCCG
* * *
99002454 TAGCGGCGTTTGTGAAAAAAGTGTCGCTAAAGGTCAT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCAT
99002491 AGTCTTTAGT
Statistics
Matches: 217, Mismatches: 27, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
42 108 0.50
43 108 0.50
44 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCCG
Found at i:99002347 original size:43 final size:43
Alignment explanation
Indices: 99002199--99002507 Score: 340
Period size: 43 Copynumber: 7.3 Consensus size: 43
99002189 TTATATTCTT
* * * * *
99002199 TAGCGGCGTTTATGAGAAAAGTGCCGCTAAAGGT-TTGTTCCG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
* * *
99002241 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGT-TTGTTCCG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
* *
99002283 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGGTCTG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
*
99002326 TAACGGCGTTT-TCGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
1 TAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAGGTCATGGTCTG
* * ** * *
99002369 TAGCGGCGTTTGCG-GGAAAGCGTTGTTAAAGGTCATGGTTTG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
* *
99002411 TAGCGGCGTTT-TCGAGAAAAGCGCCGTTAAAGGTCATGGTCTT
1 TAGCGGCGTTTGT-GAGAAAAGCGCCGCTAAAGGTCATGGTCTG
* * * * *
99002454 TAGCGGCGTTTGTGAAAAAAGTGTCGCTAAAGGTCATAGTCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
*
99002497 TAGTGGCGTTT
1 TAGCGGCGTTT
99002508 TTTTAAATAA
Statistics
Matches: 232, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
42 108 0.47
43 123 0.53
44 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTCTG
Found at i:99002353 original size:85 final size:86
Alignment explanation
Indices: 99002199--99002508 Score: 358
Period size: 85 Copynumber: 3.6 Consensus size: 86
99002189 TTATATTCTT
* * * * * *
99002199 TAGCGGCGTTTATGAGAAAAGTGCCGCTAAAGGT-TTGTTCCGTAGCGGCGTTTGT-GAGAAAAG
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTGTAGCGGCGTTT-TCGAGAAAAG
* * *
99002262 CGCCGCTAAAGGT-TTGTTCCG
65 CGCCGCTAAAGGTCATGGTCTG
* *
99002283 TAGCGGCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGGTCTGTAACGGCGTTTTCGAGAAAAGC
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTGTAGCGGCGTTTTCGAGAAAAGC
99002348 GCCGCTAAAGGTCATGGTCTG
66 GCCGCTAAAGGTCATGGTCTG
* ** ** * *
99002369 TAGCGGCGTTTGCG-GGAAAGCGTTGTTAAAGGTCATGGTTTGTAGCGGCGTTTTCGAGAAAAGC
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTGTAGCGGCGTTTTCGAGAAAAGC
* *
99002433 GCCGTTAAAGGTCATGGTCTT
66 GCCGCTAAAGGTCATGGTCTG
* * * * *
99002454 TAGCGGCGTTTGTGAAAAAAGTGTCGCTAAAGGTCATAGTCTTTAGTGGCGTTTT
1 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTGTAGCGGCGTTTT
99002509 TTTAAATAAA
Statistics
Matches: 190, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
84 31 0.16
85 111 0.58
86 48 0.25
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.28
Consensus pattern (86 bp):
TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTGTAGCGGCGTTTTCGAGAAAAGC
GCCGCTAAAGGTCATGGTCTG
Found at i:99008295 original size:91 final size:91
Alignment explanation
Indices: 99008123--99008287 Score: 235
Period size: 91 Copynumber: 1.8 Consensus size: 91
99008113 CTCAAAATAA
* *
99008123 AAAAAAATAATTAAGACTCTCCTATTTGTTTTGCACTCAATTGGATACTTAAACTTTCAAAATGC
1 AAAAAAACAATTAAGACCCTCCTATTTGTTTTGCACTCAATTGGATACTTAAACTTTCAAAATGC
*
99008188 ATCAAAAATGCCTTCAAGCTTAAAAG
66 ATCAAAAAAGCCTTCAAGCTTAAAAG
* * * * *
99008214 AAAAAAACAATTAAGCCCCTGCTTTTTTTTTTGCACTCAATTGTATACTTAAA-TTGTCAAAATG
1 AAAAAAACAATTAAGACCCTCCTATTTGTTTTGCACTCAATTGGATACTTAAACTT-TCAAAATG
99008278 CAT-AAAAAAG
65 CATCAAAAAAG
99008288 AGCTTCAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
90 8 0.12
91 57 0.88
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (91 bp):
AAAAAAACAATTAAGACCCTCCTATTTGTTTTGCACTCAATTGGATACTTAAACTTTCAAAATGC
ATCAAAAAAGCCTTCAAGCTTAAAAG
Found at i:99008309 original size:91 final size:90
Alignment explanation
Indices: 99008121--99008333 Score: 234
Period size: 91 Copynumber: 2.4 Consensus size: 90
99008111 ATCTCAAAAT
* * * * *
99008121 AAAAAAAAATAATTAAGACTCTCCTATTTGTTTTGCACTCAATTGGATACTTAAACTTTCAAAAT
1 AAAAAAAAACAATTAAGCCCCTCCTTTTTTTTTTGCACTCAATTGGATACTTAAACTTTCAAAAT
*
99008186 GCATCAAAAATGCCTTCAAGCTTAA
66 GCATCAAAAAAGCCTTCAAGCTTAA
* *
99008211 AAGAAAAAAACAATTAAGCCCCTGCTTTTTTTTTTGCACTCAATTGTATACTTAAA-TTGTCAAA
1 AA-AAAAAAACAATTAAGCCCCTCCTTTTTTTTTTGCACTCAATTGGATACTTAAACTT-TCAAA
* ** **
99008275 ATGCAT-AAAAAAGAGCTTCAAATTTTT
64 ATGCATCAAAAAAG-CCTTCAAGCTTAA
** *
99008302 TCAAAAAAGCAATTAAGCCCC-CCTTTTTTTTT
1 AAAAAAAAACAATTAAGCCCCTCCTTTTTTTTT
99008334 CTTTTTTTTG
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
89 10 0.10
90 28 0.27
91 65 0.63
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (90 bp):
AAAAAAAAACAATTAAGCCCCTCCTTTTTTTTTTGCACTCAATTGGATACTTAAACTTTCAAAAT
GCATCAAAAAAGCCTTCAAGCTTAA
Found at i:99008513 original size:9 final size:9
Alignment explanation
Indices: 99008477--99008570 Score: 77
Period size: 9 Copynumber: 10.4 Consensus size: 9
99008467 ATATGACAAA
99008477 AAAAATTAT
1 AAAAATTAT
99008486 AAAAA--AT
1 AAAAATTAT
*
99008493 AAAAATCAAT
1 AAAAAT-TAT
99008503 AAAAATTAT
1 AAAAATTAT
99008512 AAAAATTAT
1 AAAAATTAT
* *
99008521 TAAACTT-T
1 AAAAATTAT
**
99008529 AAAAAAAAT
1 AAAAATTAT
*
99008538 AAAATTTTAT
1 AAAA-ATTAT
*
99008548 AAAATTTTAT
1 AAAA-ATTAT
99008558 AAAAATTAT
1 AAAAATTAT
99008567 AAAA
1 AAAA
99008571 TGCATAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
7 7 0.10
8 4 0.06
9 34 0.49
10 24 0.35
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:99008513 original size:19 final size:18
Alignment explanation
Indices: 99008477--99008570 Score: 68
Period size: 19 Copynumber: 5.2 Consensus size: 18
99008467 ATATGACAAA
*
99008477 AAAAATTATAAAAA--AT
1 AAAAATAATAAAAATTAT
99008493 AAAAATCAATAAAAATTAT
1 AAAAAT-AATAAAAATTAT
* * *
99008512 AAAAATTATTAAACTT-T
1 AAAAATAATAAAAATTAT
* *
99008529 AAAAAAAATAAAATTTTAT
1 AAAAATAATAAAA-ATTAT
* *
99008548 AAAATTTTATAAAAATTAT
1 AAAA-ATAATAAAAATTAT
99008567 AAAA
1 AAAA
99008571 TGCATAAAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
16 6 0.10
17 18 0.30
18 9 0.15
19 21 0.35
20 6 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATAATAAAAATTAT
Found at i:99008564 original size:11 final size:10
Alignment explanation
Indices: 99008536--99008571 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
99008526 TTTAAAAAAA
99008536 ATAAAATTTT
1 ATAAAATTTT
99008546 ATAAAATTTT
1 ATAAAATTTT
*
99008556 ATAAAA-ATT
1 ATAAAATTTT
99008565 ATAAAAT
1 ATAAAAT
99008572 GCATAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:99008823 original size:19 final size:20
Alignment explanation
Indices: 99008801--99008840 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
99008791 TTTAAACTTG
99008801 ATAATCTTTTAC-AATTTTT
1 ATAATCTTTTACTAATTTTT
*
99008820 ATAATCTTTTTCTAATTTTT
1 ATAATCTTTTACTAATTTTT
99008840 A
1 A
99008841 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (20 bp):
ATAATCTTTTACTAATTTTT
Found at i:99008871 original size:24 final size:23
Alignment explanation
Indices: 99008835--99008884 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
99008825 CTTTTTCTAA
99008835 TTTTTAATAAAAAATAAATATATT
1 TTTTTAATAAAAAATAAATA-ATT
* * * *
99008859 TTTTTTATTAAAATTTAATAATT
1 TTTTTAATAAAAAATAAATAATT
99008882 TTT
1 TTT
99008885 ATTTTTTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTTTAATAAAAAATAAATAATT
Found at i:99010945 original size:20 final size:20
Alignment explanation
Indices: 99010920--99010959 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
99010910 AACTGCCCTG
99010920 TTCAATATCACTCAAACCAC
1 TTCAATATCACTCAAACCAC
99010940 TTCAATATCACTCAAACCAC
1 TTCAATATCACTCAAACCAC
99010960 CAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (20 bp):
TTCAATATCACTCAAACCAC
Found at i:99013359 original size:22 final size:20
Alignment explanation
Indices: 99013321--99013360 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
99013311 TTTGTCTCAG
*
99013321 TTGCATATATTTGCATTTTC
1 TTGCATATATTGGCATTTTC
99013341 TTGCATATATATGGCCATTT
1 TTGCATATAT-TGG-CATTT
99013361 ACAAGTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 2 0.12
22 5 0.29
ACGTcount: A:0.23, C:0.15, G:0.12, T:0.50
Consensus pattern (20 bp):
TTGCATATATTGGCATTTTC
Found at i:99015814 original size:36 final size:35
Alignment explanation
Indices: 99015742--99015814 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 35
99015732 AAAATATATA
** *
99015742 TTAAAGTTTAGGGATTATGGGTTTAGGGGTTGGGGT
1 TTAAAGTTTAGGGATTATGGG-TTAAAGGTTAGGGT
99015778 TTAAAGTTTAGGGATTATTGGG-TAAAGGTTAAGGGT
1 TTAAAGTTTAGGGATTA-TGGGTTAAAGGTT-AGGGT
99015814 T
1 T
99015815 ATGGATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 6 0.19
36 22 0.69
37 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.37, T:0.38
Consensus pattern (35 bp):
TTAAAGTTTAGGGATTATGGGTTAAAGGTTAGGGT
Found at i:99015831 original size:22 final size:22
Alignment explanation
Indices: 99015806--99015860 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
99015796 TGGGTAAAGG
*
99015806 TTAAGGGTTATGGATTATGGGT
1 TTAAGGGTTAAGGATTATGGGT
* *
99015828 TTAAGGATTAAGGGTTATGGGT
1 TTAAGGGTTAAGGATTATGGGT
*
99015850 TTAATGGTTAA
1 TTAAGGGTTAA
99015861 AGGGATAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (22 bp):
TTAAGGGTTAAGGATTATGGGT
Found at i:99015845 original size:29 final size:28
Alignment explanation
Indices: 99015789--99015874 Score: 84
Period size: 30 Copynumber: 3.0 Consensus size: 28
99015779 TAAAGTTTAG
99015789 GGATTATTGGGTAAAGGTTAAGGGTTAT
1 GGATTATTGGGTAAAGGTTAAGGGTTAT
*
99015817 GGATTA-TGGGTTTAAGGATTAAGGGTTAT
1 GGATTATTGGG-TAAAGG-TTAAGGGTTAT
* * * *
99015846 GGGTTTAATGGTTAAAGGGATAAGGGTTA
1 -GGATTATTGGGTAAA-GGTTAAGGGTTA
99015875 GGGGTTTAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 4 0.08
28 11 0.23
29 11 0.23
30 17 0.35
31 5 0.10
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.35
Consensus pattern (28 bp):
GGATTATTGGGTAAAGGTTAAGGGTTAT
Found at i:99015849 original size:7 final size:7
Alignment explanation
Indices: 99015804--99015880 Score: 55
Period size: 7 Copynumber: 10.6 Consensus size: 7
99015794 ATTGGGTAAA
99015804 GGTTAAG
1 GGTTAAG
*
99015811 GGTTATG
1 GGTTAAG
* *
99015818 GATTATG
1 GGTTAAG
99015825 GGTTTAAG
1 GG-TTAAG
*
99015833 GATTAAG
1 GGTTAAG
*
99015840 GGTTATG
1 GGTTAAG
*
99015847 GGTTTAAT
1 GG-TTAAG
99015855 GGTTAAAG
1 GGTT-AAG
*
99015863 GGATAAG
1 GGTTAAG
*
99015870 GGTTAGG
1 GGTTAAG
99015877 GGTT
1 GGTT
99015881 TAATTAATGG
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
7 39 0.72
8 15 0.28
ACGTcount: A:0.26, C:0.00, G:0.39, T:0.35
Consensus pattern (7 bp):
GGTTAAG
Found at i:99015912 original size:34 final size:34
Alignment explanation
Indices: 99015850--99015916 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
99015840 GGTTATGGGT
* **
99015850 TTAATGGTTAAAGGGATAAGGGTTAGGGGTTTAA
1 TTAATGGTTAAAGGGACAAGGGAAAGGGGTTTAA
* *
99015884 TTAATGGTTAAGGGGACATGGGAAAGGGGTTTA
1 TTAATGGTTAAAGGGACAAGGGAAAGGGGTTTA
99015917 TGGTTTACGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.31, C:0.01, G:0.37, T:0.30
Consensus pattern (34 bp):
TTAATGGTTAAAGGGACAAGGGAAAGGGGTTTAA
Found at i:99015985 original size:21 final size:22
Alignment explanation
Indices: 99015961--99016014 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
99015951 TTTGGTCTAT
99015961 GGTTTAAGGGTT-G-GGATTTAA
1 GGTTTAAGGGTTAGTGGA-TTAA
* *
99015982 GGTTTAGGGGTTAGTGGATTAG
1 GGTTTAAGGGTTAGTGGATTAA
99016004 GGTTT-AGGGTT
1 GGTTTAAGGGTT
99016015 TCATGGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 16 0.57
22 9 0.32
23 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.39
Consensus pattern (22 bp):
GGTTTAAGGGTTAGTGGATTAA
Found at i:99016022 original size:15 final size:15
Alignment explanation
Indices: 99016004--99016045 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
99015994 AGTGGATTAG
99016004 GGTTTAGGGTTTCAT
1 GGTTTAGGGTTTCAT
*
99016019 GGTTTA-GGTATTTAT
1 GGTTTAGGGT-TTCAT
99016034 GGTTTAGGGTTT
1 GGTTTAGGGTTT
99016046 AAAGGGTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.12
15 18 0.75
16 3 0.12
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.50
Consensus pattern (15 bp):
GGTTTAGGGTTTCAT
Found at i:99016025 original size:22 final size:22
Alignment explanation
Indices: 99015961--99016026 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
99015951 TTTGGTCTAT
* *
99015961 GGTTTAAGGGTT-G-GGATTTAA
1 GGTTTAGGGGTTAGTGG-TTTAG
*
99015982 GGTTTAGGGGTTAGTGGATTAG
1 GGTTTAGGGGTTAGTGGTTTAG
*
99016004 GGTTTAGGGTTTCA-TGGTTTAG
1 GGTTTAGGGGTT-AGTGGTTTAG
99016026 G
1 G
99016027 TATTTATGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
21 11 0.30
22 23 0.62
23 3 0.08
ACGTcount: A:0.18, C:0.02, G:0.41, T:0.39
Consensus pattern (22 bp):
GGTTTAGGGGTTAGTGGTTTAG
Found at i:99016354 original size:26 final size:26
Alignment explanation
Indices: 99016266--99016347 Score: 98
Period size: 26 Copynumber: 3.2 Consensus size: 26
99016256 TATATTAAAT
*
99016266 AATTTAAA-AA-TTTAAAGATTTC-A
1 AATTTAAATAATTTTCAAGATTTCAA
*
99016289 AATTTAGAATAAATTTCAAGATTTCAA
1 AATTTA-AATAATTTTCAAGATTTCAA
* *
99016316 ATTTTAAATAATTTTCAATATTTCAA
1 AATTTAAATAATTTTCAAGATTTCAA
99016342 AATTTA
1 AATTTA
99016348 TCTAATTCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.12
24 2 0.04
25 2 0.04
26 34 0.68
27 6 0.12
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (26 bp):
AATTTAAATAATTTTCAAGATTTCAA
Found at i:99016617 original size:42 final size:41
Alignment explanation
Indices: 99016541--99016652 Score: 156
Period size: 42 Copynumber: 2.7 Consensus size: 41
99016531 TGTCTCCAAG
* *
99016541 GGAATTAGCGGCG-TTTTAAAAAAAGCTCCGCTAAAAAT-A
1 GGAATTAGCGGCGTTTTTAAAAAAAGCGCTGCTAAAAATAA
99016580 GAGAATTAGCGGCGTTTTTAAAAAAAAGCGCTGCTAAAAATAA
1 G-GAATTAGCGGCGTTTTT-AAAAAAAGCGCTGCTAAAAATAA
* *
99016623 GGAATTAGTGGCGTTTTTAAAAGAAGCGCT
1 GGAATTAGCGGCGTTTTTAAAAAAAGCGCT
99016653 TTTGTAAAAA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.02
40 12 0.18
41 15 0.23
42 35 0.54
43 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.25
Consensus pattern (41 bp):
GGAATTAGCGGCGTTTTTAAAAAAAGCGCTGCTAAAAATAA
Found at i:99019832 original size:242 final size:241
Alignment explanation
Indices: 99019028--99019914 Score: 1684
Period size: 241 Copynumber: 3.7 Consensus size: 241
99019018 AGTTATAAGC
*
99019028 AATTAAAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
* *
99019093 AGGCTGGAAACCTGACGGGTTGCTTTATATCGAGCTGTAAGATATAATGGGTCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
99019158 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
99019223 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
99019269 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
99019334 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
99019399 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
99019464 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
196 ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
99019510 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
*
99019575 AGGCTGGAAACCTGACGAGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
* *
99019640 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTAAAAAAAAGTTCTATCGAGCT
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTT-GAAAAAAGTTCTACCGAGCT
99019705 CATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
195 CATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
* *
99019752 AATTACAACAATAGCTTACCTTCTCTCCAACCTTGTTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
99019817 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
*
99019882 AACAACGCCACGTACGATGAATCTTAAAAAATT
131 AACAACGCCACGTATGATGAATCTTAAAAAATT
99019915 ACTATATTCA
Statistics
Matches: 635, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
241 411 0.65
242 224 0.35
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (241 bp):
AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGTAAGATATAATGGATCCTCCCTAGGTGT
AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTACCGAGCTC
ATTTACTATTGAATATTTATTACCATGTAGCTTGCTTGTCCATTAA
Found at i:99020102 original size:39 final size:39
Alignment explanation
Indices: 99020050--99020127 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
99020040 TAAATTACAT
*
99020050 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
99020089 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
99020128 TCACATAACG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:99020127 original size:57 final size:57
Alignment explanation
Indices: 99020046--99020158 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
99020036 TAAATAAATT
* * ** *
99020046 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACACAACTC
* *
99020103 ACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACACAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACACAACT
99020159 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACACAACTC
Found at i:99020160 original size:9 final size:9
Alignment explanation
Indices: 99020033--99020145 Score: 118
Period size: 9 Copynumber: 12.2 Consensus size: 9
99020023 ATTGATCATT
*
99020033 ACTTAAATA
1 ACTTACATA
*
99020042 AATTACATA
1 ACTTACATA
99020051 ACTTACATA
1 ACTTACATA
* *
99020060 ACTCATATA
1 ACTTACATA
99020069 ACTTACATA
1 ACTTACATA
*
99020078 ATTTACATAACA
1 ACTTACAT---A
99020090 ACTTACATA
1 ACTTACATA
*
99020099 ACTCACATA
1 ACTTACATA
99020108 ACTTACATA
1 ACTTACATA
*
99020117 ATTTACATA
1 ACTTACATA
*
99020126 ACTCACATA
1 ACTTACATA
*
99020135 ACGTACATA
1 ACTTACATA
99020144 AC
1 AC
99020146 AACTTACACA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
9 77 0.91
12 8 0.09
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:99026086 original size:31 final size:31
Alignment explanation
Indices: 99026040--99026106 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
99026030 TGTTGTATTT
* *
99026040 TTTTATGCTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
* * * *
99026071 TTTTATACTATATTTGTTGTATTTGGTTGGA
1 TTTTATACTAAATTTGCTGTATTTGGCTGCA
99026102 TTTTA
1 TTTTA
99026107 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.57
Consensus pattern (31 bp):
TTTTATACTAAATTTGCTGTATTTGGCTGCA
Found at i:99026228 original size:43 final size:43
Alignment explanation
Indices: 99026181--99026342 Score: 222
Period size: 43 Copynumber: 3.8 Consensus size: 43
99026171 TGAAAAAAGT
99026181 GCCGCTAAAAG-CCGTGA-TATTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCT-AAAGTCCGTGACT-TTTAGCGGCGCTTTTCCCACAAAC
* *
99026224 GCCGCTAAAGTTCGTGACTTTTAGCGGCGCTTTACCCACAAAC
1 GCCGCTAAAGTCCGTGACTTTTAGCGGCGCTTTTCCCACAAAC
* * * *
99026267 GCTGCTAAAAG-CCGTGCCTTTTAGCGGCACTTTTCCCACAAAT
1 GCCGCT-AAAGTCCGTGACTTTTAGCGGCGCTTTTCCCACAAAC
99026310 GCCGCTAAAGTCCGTGACTTTTAGCGGCGCTTT
1 GCCGCTAAAGTCCGTGACTTTTAGCGGCGCTTT
99026343 AGCGGCGTTT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
42 8 0.08
43 91 0.88
44 5 0.05
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGTCCGTGACTTTTAGCGGCGCTTTTCCCACAAAC
Found at i:99026303 original size:86 final size:86
Alignment explanation
Indices: 99026184--99026343 Score: 268
Period size: 86 Copynumber: 1.9 Consensus size: 86
99026174 AAAAAGTGCC
* *
99026184 GCTAAAAGCCGTGATATTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGTTCGTGACTTTTAGC
1 GCTAAAAGCCGTGATATTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGTCCGTGACTTTTAGC
99026249 GGCGCTTTACCCACAAACGCT
66 GGCGCTTTACCCACAAACGCT
* *
99026270 GCTAAAAGCCGTGCCT-TTTAGCGGCACTTTTCCCACAAATGCCGCTAAAGTCCGTGACTTTTAG
1 GCTAAAAGCCGTG-ATATTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGTCCGTGACTTTTAG
99026334 CGGCGCTTTA
65 CGGCGCTTTA
99026344 GCGGCGTTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 68 0.99
87 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (86 bp):
GCTAAAAGCCGTGATATTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGTCCGTGACTTTTAGC
GGCGCTTTACCCACAAACGCT
Found at i:99030214 original size:42 final size:42
Alignment explanation
Indices: 99030168--99030281 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 42
99030158 ATGTGATTAC
*
99030168 GTGTAAGACCATAGCTGAGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGAGCTATGGCATC-ATTATATGAAGAT
* *
99030210 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGAGCTATGGCATCATTATATGAAGAT
* *
99030252 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGCTGAGCTATGGCATCA
99030282 AGAAAACGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 1 0.02
42 64 0.98
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGAGCTATGGCATCATTATATGAAGAT
Found at i:99033977 original size:34 final size:35
Alignment explanation
Indices: 99033919--99034000 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
99033909 AGTATATATC
* * *
99033919 AATAAAATTATTT-TGATTTGTATTTT-TTATTTAT
1 AATATAATTATTTATGATTTATATTTTACTA-TTAT
99033953 AATATAATTATTTAT-ATTTATATTTTACTATTAT
1 AATATAATTATTTATGATTTATATTTTACTATTAT
*
99033987 -ATATATTTATTTAT
1 AATATAATTATTTAT
99034001 TATTCAAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 13 0.31
34 26 0.62
35 3 0.07
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.61
Consensus pattern (35 bp):
AATATAATTATTTATGATTTATATTTTACTATTAT
Found at i:99037455 original size:11 final size:11
Alignment explanation
Indices: 99037435--99037466 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
99037425 ACATATATAT
99037435 ATAA-ATAATA
1 ATAATATAATA
99037445 ATAATATAATA
1 ATAATATAATA
99037456 ATAATA-AATA
1 ATAATATAATA
99037466 A
1 A
99037467 ATAAATGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAATATAATA
Found at i:99037469 original size:14 final size:13
Alignment explanation
Indices: 99037435--99037470 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
99037425 ACATATATAT
99037435 ATAAATAATAATA
1 ATAAATAATAATA
99037448 ATATAATAATAATAA
1 ATA-AATAATAAT-A
99037463 ATAAATAA
1 ATAAATAA
99037471 ATGAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.67
15 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:99050680 original size:17 final size:18
Alignment explanation
Indices: 99050648--99050681 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99050638 ACAAACAACA
*
99050648 ATTATAAACCCAATGAAT
1 ATTATAAACACAATGAAT
99050666 ATTATAAA-ACAATGAA
1 ATTATAAACACAATGAA
99050682 ATGCGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (18 bp):
ATTATAAACACAATGAAT
Found at i:99051987 original size:13 final size:13
Alignment explanation
Indices: 99051969--99052002 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
99051959 AAGCACATAT
99051969 ATATATAATAATA
1 ATATATAATAATA
99051982 ATATATAATAATA
1 ATATATAATAATA
*
99051995 ATAAATAA
1 ATATATAA
99052003 ATAAATGAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:99066876 original size:16 final size:16
Alignment explanation
Indices: 99066855--99066922 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
99066845 TTTGGTTCGC
*
99066855 TGTATTGAATTAGAGG
1 TGTATTGGATTAGAGG
*
99066871 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGG
99066887 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99066903 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
99066919 TGTA
1 TGTA
99066923 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:99067173 original size:16 final size:16
Alignment explanation
Indices: 99067136--99067177 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
99067126 TTAATCATAT
*
99067136 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
99067152 TT-AAATATATTATAA
1 TTAAAATATATTATAA
99067167 TTAAAATATAT
1 TTAAAATATAT
99067178 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:99067184 original size:14 final size:15
Alignment explanation
Indices: 99067145--99067186 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
99067135 TTTAAACATA
*
99067145 ATTATTATTAAATAT
1 ATTATAATTAAATAT
99067160 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
99067174 A-TATAATTTAATA
1 ATTATAATTAAATA
99067187 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:99067303 original size:14 final size:15
Alignment explanation
Indices: 99067254--99067305 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
99067244 TATAAATATA
99067254 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
99067269 TATTAAATATATTAT
1 AATTAAATATATTAT
99067284 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
99067297 AATTTAATA
1 AATTAAATA
99067306 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:99067397 original size:15 final size:16
Alignment explanation
Indices: 99067376--99067416 Score: 68
Period size: 14 Copynumber: 2.7 Consensus size: 16
99067366 ATATAATTAA
99067376 TATATAATTTAATACT
1 TATATAATTTAATACT
99067392 TA-ATAA-TTAATACT
1 TATATAATTTAATACT
99067406 TATATAATTTA
1 TATATAATTTA
99067417 CTGAAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 8 0.35
16 5 0.22
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATAATTTAATACT
Found at i:99070152 original size:62 final size:60
Alignment explanation
Indices: 99070057--99070175 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 60
99070047 TATTGGCTAT
99070057 GCCAATAACCAACAAACATGCCGTAAGGCCCCTATATACATGCC-CATTTAGACACAAAGA
1 GCCAATAACCAACAAACATGCCGTAAGGCCCCTATATACATGCCACATTT-GACACAAAGA
*
99070117 GCCAATACACCCAACCAAA-ATGCC-TAAGGTGCCCTATATACATGCCACATTTGACACAA
1 GCCAATA-A-CCAA-CAAACATGCCGTAAGG-CCCCTATATACATGCCACATTTGACACAA
99070176 GAGTGCAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
60 7 0.13
61 6 0.11
62 31 0.58
63 9 0.17
ACGTcount: A:0.39, C:0.31, G:0.13, T:0.18
Consensus pattern (60 bp):
GCCAATAACCAACAAACATGCCGTAAGGCCCCTATATACATGCCACATTTGACACAAAGA
Found at i:99072100 original size:10 final size:9
Alignment explanation
Indices: 99072074--99072109 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
99072064 GCCTAGGTGA
99072074 TTTATAATT
1 TTTATAATT
99072083 TTTATAATT
1 TTTATAATT
99072092 TTTATTAATT
1 TTTA-TAATT
99072102 TTATATAA
1 TT-TATAA
99072110 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 13 0.52
10 10 0.40
11 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATAATT
Found at i:99073675 original size:19 final size:22
Alignment explanation
Indices: 99073634--99073677 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
99073624 ATTTTGATTG
*
99073634 ATTGAATTTATTTTTAATATCA
1 ATTGAATTTATTTTAAATATCA
99073656 ATTG-ATTT-TTTTAAAT-TCA
1 ATTGAATTTATTTTAAATATCA
99073675 ATT
1 ATT
99073678 CACTAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 4 0.19
22 4 0.19
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (22 bp):
ATTGAATTTATTTTAAATATCA
Found at i:99087689 original size:44 final size:43
Alignment explanation
Indices: 99087628--99087717 Score: 101
Period size: 44 Copynumber: 2.1 Consensus size: 43
99087618 GCAACACATT
* *
99087628 ATAGCATATCAACTTTCATAACGAAGCATAACTTATAAGATATC
1 ATAGCATATCAACTTTCATAACGAA-CATAACTTATAACATAAC
* ** *
99087672 ATAGCATATTAGA-TTTCATATGGAACATATCTTATAACATAAC
1 ATAGCATATCA-ACTTTCATAACGAACATAACTTATAACATAAC
99087715 ATA
1 ATA
99087718 TCCTACCCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
43 18 0.46
44 20 0.51
45 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (43 bp):
ATAGCATATCAACTTTCATAACGAACATAACTTATAACATAAC
Found at i:99096442 original size:22 final size:21
Alignment explanation
Indices: 99096407--99096482 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
99096397 AAAAGGTATC
* *
99096407 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
99096428 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
99096451 TTCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
99096470 TGC-AATCATATCT
1 TACAAATCATATCT
99096483 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 6 0.13
19 10 0.22
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:99096496 original size:17 final size:18
Alignment explanation
Indices: 99096443--99096514 Score: 101
Period size: 17 Copynumber: 3.9 Consensus size: 18
99096433 AATCATATCT
*
99096443 TCTAAGATTTCATATCATA
1 TCTAAGATTGC-TATCATA
*
99096462 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
99096480 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
99096497 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
99096515 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 16 0.33
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:99096910 original size:45 final size:45
Alignment explanation
Indices: 99096844--99097043 Score: 233
Period size: 45 Copynumber: 4.5 Consensus size: 45
99096834 GGAAGGCGAT
* * * *
99096844 ATCTGCTATCTTTGATTTGCTCACCGTCTAATACAGGGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
99096889 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * *
99096934 ATCTGCT-CCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
99096978 ATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
99097023 ATCTG-TCATCTTGGATCTGCT
1 ATCTGCT-ATCTTCGATCTGCT
99097044 TCGATGTAAA
Statistics
Matches: 135, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
44 40 0.30
45 95 0.70
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:99096977 original size:89 final size:89
Alignment explanation
Indices: 99096861--99097027 Score: 235
Period size: 89 Copynumber: 1.9 Consensus size: 89
99096851 ATCTTTGATT
* *** *
99096861 TGCTCACCGTCTAATACAGGGACGCCAAATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
99096926 GACGCCAAATCTGCTCCTTCAATC
66 GACGCCAAATCTGCTCCTTCAATC
* * * * *
99096950 TGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTCCAATTTTCTCCCCGTCTAATACAAA
1 TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
*
99097015 GATGCCAAATCTG
66 GACGCCAAATCTG
99097028 TCATCTTGGA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.28
Consensus pattern (89 bp):
TGCTCACCGTCTAATACAGAGACGCCAAATCTGCTATCTCCAATCTGCTCCCCGTCTAATACAAA
GACGCCAAATCTGCTCCTTCAATC
Found at i:99097195 original size:78 final size:77
Alignment explanation
Indices: 99097060--99097351 Score: 406
Period size: 78 Copynumber: 3.7 Consensus size: 77
99097050 TAAACACATA
* *
99097060 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCTAATACAGTGATGCTAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC-AAATCATCTTGG
99097125 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * * *
99097138 AAGGTCTA-ATATGTTATGTCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTG
1 AAGGTC-AGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTG
*
99097202 AATCTGCTTCAATG
64 GATCTGCTTCAATG
*
99097216 AAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGG
99097281 ATCTGCTTCAATG
65 ATCTGCTTCAATG
* * * **
99097294 AAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATC
99097352 TATTTTTTCG
Statistics
Matches: 189, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
77 1 0.01
78 186 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (77 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCAAATCATCTTGGA
TCTGCTTCAATG
Found at i:99097498 original size:287 final size:276
Alignment explanation
Indices: 99097152--99097951 Score: 858
Period size: 287 Copynumber: 2.8 Consensus size: 276
99097142 TCTAATATGT
* * * * *
99097152 TATGTCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTGAATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
*
99097217 AGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
66 AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
* * * *
99097282 TCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCC
131 TCTGCTTCAATGAAGGTCAGATCTG-T-TGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCC
* * **
99097347 AAATCTATTTTTTCGATTTG-TTCTCTGACA-GTACAGAGATGCCAAATCATCTGAGATCTGCT-
194 AAATC-A--TCTTCGATCTGCTTCAATGA-AGGT-CAGAGATG-C-AAT-ATCTGAGATCTGCTC
* * *
99097409 TCAGCGT-AAACACGTAAAGGTCAGATCTGC
251 TC--CGTCAAACACGGAAAGGCCA-A-AT-C
99097439 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
* * *
99097504 AGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTGG
66 AGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* * * *
99097568 ATCTGCTTCAATGAAGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATAC
130 ATCTGCTTCAATGAAGGTCAGATCT-GT-TGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGC
* ** * * ** * *
99097633 CAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCG
193 CAAATCATCTTCGATCTGCTTCAATGAAGGTCAGAGATGCAATATCTGAGATCTGCTCTCCGTCA
* * * *
99097698 AATATGGAGATGCCAAATC
258 AACACGGAAAGGCCAAATC
* * * * * * *
99097717 TATTTCTTCGATTTGTTCTCTGAC-AATACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGT
1 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT---C--
* *
99097781 AAACACGTGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAA
61 --A-A--TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAA
* *
99097846 TCATCTTGGATCTGCTTCAATGAATGTCAAATCTGTTGTCTTCGATCTGCTCCCCGTCTAATATA
121 TCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGTTGTCTTCGATCTGCTCCCCGTCTAATATA
*
99097911 GAGATGCCAAATCATCTTGGAT-TGCTTCAATGAAGGTCAGA
186 GAGATGCCAAATCATCTTCGATCTGCTTCAATGAAGGTCAGA
99097952 TCTACTGTGT
Statistics
Matches: 440, Mismatches: 56, Indels: 37
0.83 0.11 0.07
Matches are distributed among these distances:
277 33 0.08
278 19 0.04
279 1 0.00
280 5 0.01
281 19 0.04
282 4 0.01
283 1 0.00
284 35 0.08
285 57 0.13
286 4 0.01
287 260 0.59
288 2 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (276 bp):
TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGA
AGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGA
TCTGCTTCAATGAAGGTCAGATCTGTTGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAA
ATCATCTTCGATCTGCTTCAATGAAGGTCAGAGATGCAATATCTGAGATCTGCTCTCCGTCAAAC
ACGGAAAGGCCAAATC
Found at i:99097554 original size:78 final size:78
Alignment explanation
Indices: 99097425--99097716 Score: 442
Period size: 78 Copynumber: 3.7 Consensus size: 78
99097415 TAAACACGTA
99097425 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
99097490 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * *
99097503 AAGGTCCA-ATCTGTTATGTCTTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
99097567 GATCTGCTTCAATG
65 GATCTGCTTCAATG
** * * *
99097581 AAGGTCAGATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
99097646 ATCTGCTTCAATG
66 ATCTGCTTCAATG
* * * * **
99097659 AAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATC
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
99097717 TATTTCTTCG
Statistics
Matches: 194, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
77 2 0.01
78 190 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAATG
Found at i:99097706 original size:365 final size:364
Alignment explanation
Indices: 99097028--99098046 Score: 1715
Period size: 365 Copynumber: 2.8 Consensus size: 364
99097018 GCCAAATCTG
* *
99097028 TCATCTTG-GATCTGCTTC-GATGTAAACACATAAAGGTCAGATCTGCTATGTCTTCGATCTGCT
1 TCATC-TGAGATCTGCTTCAG-CGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCT
* * * * *
99097091 CTCCGTCTAATACAGTGATGCTAAATCATCTTGGATCTGCTTCAATGAAGGTCTAATATGTTATG
64 CCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATG
* * * *
99097156 TCTTTGATCTGCTCCCCATCTAATACAAAGATGTCAAATCATCTTGAATCTGCTTCAATGAAGGT
129 TCTTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGGATCTGCTTCAATGAAGGT
*
99097221 CAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
193 CAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTG
99097286 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAAT
258 CTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAAT
* *
99097351 CTATTTTTTCGATTTGTTCTCTGACAGTACAGAGATGCCAAA
323 CTATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
99097393 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
1 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
*
99097458 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTTATGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
*
99097523 TTCGATTTGCTCCCCGTCTAATACAGAGATGCGAAATCATCTTGGATCTGCTTCAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATGC-AAATCATCTTGGATCTGCTTCAATGAAGGTCA
* * *
99097588 GATCTATTGTGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGGATCTGCT
195 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
99097653 TCAATGAAGGTCAGATCTGCTATGTCTTTGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
260 TCAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCT
99097718 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
325 ATTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
* * *
99097758 TCATCTTAGATCTGCTTCAGCGTAAACACGTGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCC
1 TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
* *
99097823 CCGTCTAATATAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAATGTCAAATCTG-T-TGTC
66 CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
*
99097886 TTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTTGGAT-TGCTTCAATGAAGGTCA
131 TTCGATCTGCTCCCCGTCTAATACAGAGATG-CAAATCATCTTGGATCTGCTTCAATGAAGGTCA
99097950 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
195 GATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCT
*
99098015 TCAATGAAGGTTAGATCTGCTATGTCTTCGAT
260 TCAATGAAGGTCAGATCTGCTATGTCTTCGAT
99098047 TTGTTCTCTA
Statistics
Matches: 618, Mismatches: 32, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
362 109 0.18
363 47 0.08
364 5 0.01
365 456 0.74
366 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (364 bp):
TCATCTGAGATCTGCTTCAGCGTAAACACGTAAAGGTCAGATCTGCTATGTCTTCGATCTGCTCC
CCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAAATCTGTTATGTC
TTCGATCTGCTCCCCGTCTAATACAGAGATGCAAATCATCTTGGATCTGCTTCAATGAAGGTCAG
ATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTT
CAATGAAGGTCAGATCTGCTATGTCTTCGATCTTCTCTCCGTCGAATATGGAGATGCCAAATCTA
TTTCTTCGATTTGTTCTCTGACAATACAGAGATGCCAAA
Found at i:99098003 original size:77 final size:78
Alignment explanation
Indices: 99097788--99098094 Score: 433
Period size: 77 Copynumber: 4.0 Consensus size: 78
99097778 CGTAAACACG
* *
99097788 TGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
99097853 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * *
99097866 TGAATGTCAAATCTG-T-TGTCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
99097929 GGAT-TGCTTCAA
66 GGATCTGCTTCAA
* *
99097941 TGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
99098006 GGATCTGCTTCAA
66 GGATCTGCTTCAA
* * * * *** *
99098019 TGAAGGTTAGATCTGCTATGTCTTCGATTTGTTCTCTAAC-AGTACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
* *
99098083 AGATCTACTTCA
66 GGATCTGCTTCA
99098095 GTGTAAACAC
Statistics
Matches: 207, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
75 20 0.10
76 51 0.25
77 84 0.41
78 52 0.25
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (78 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
GGATCTGCTTCAA
Found at i:99098175 original size:87 final size:89
Alignment explanation
Indices: 99098067--99098228 Score: 231
Period size: 89 Copynumber: 1.8 Consensus size: 89
99098057 ACAGTACAGA
* *
99098067 GATGCCAAATCATCTTAGATCTACTTC-A-GTGTAAACA-CGTGAAAGCCAAATCTGCTATGTCT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATC-CGAAAGCCAAATCTGCTATGTCT
99098129 TCGATCTGCTCCTTGTCAACGCAAG
65 TCGATCTGCTCCTTGTCAACGCAAG
* * ** *
99098154 GATGCCAAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
99098219 CGATCTGCTC
66 CGATCTGCTC
99098229 TCCGTCGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 26 0.40
88 1 0.02
89 37 0.57
90 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
GATGCCAAATCATCTTAGATCTACTTCGATGTGAAAACATCCGAAAGCCAAATCTGCTATGTCTT
CGATCTGCTCCTTGTCAACGCAAG
Found at i:99098225 original size:89 final size:88
Alignment explanation
Indices: 99098020--99098228 Score: 239
Period size: 87 Copynumber: 2.4 Consensus size: 88
99098010 CTGCTTCAAT
* * *
99098020 GAAGGTTAGATCTGCTATGTCTTCGATTTG-TTCTCTAACAGTACAGAGATGCCAAATCATCTTA
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
* *
99098084 GATCTACTTCAGTGTAAACACGT
66 GATCTACTTCAGTGAAAACACGC
* ** * *
99098107 GAAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAAC-GCA-AG-GATGCCAAATCATCT
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCC-TCT-AACAGCACAGAGATGCCAAATCATCT
*
99098169 TGGATCTACTTCGATGTGAAAACATC-C
64 TAGATCTACTTC-A-GTGAAAACA-CGC
99098196 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTC
99098229 TCCGTCGAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
87 51 0.50
88 5 0.05
89 41 0.41
90 4 0.04
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (88 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCTCTAACAGCACAGAGATGCCAAATCATCTTA
GATCTACTTCAGTGAAAACACGC
Found at i:99123828 original size:11 final size:11
Alignment explanation
Indices: 99123808--99123839 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
99123798 ACATATATAT
99123808 ATAA-ATAATA
1 ATAATATAATA
99123818 ATAATATAATA
1 ATAATATAATA
99123829 ATAATA-AATA
1 ATAATATAATA
99123839 A
1 A
99123840 ATAAATGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAATATAATA
Found at i:99123842 original size:14 final size:13
Alignment explanation
Indices: 99123808--99123843 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
99123798 ACATATATAT
99123808 ATAAATAATAATA
1 ATAAATAATAATA
99123821 ATATAATAATAATAA
1 ATA-AATAATAAT-A
99123836 ATAAATAA
1 ATAAATAA
99123844 ATGAGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.67
15 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAATAATAATA
Found at i:99124899 original size:16 final size:16
Alignment explanation
Indices: 99124878--99124908 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99124868 TGTCCATTGG
99124878 GTTCGGGTATTGGGCC
1 GTTCGGGTATTGGGCC
*
99124894 GTTCGGGTTTTGGGC
1 GTTCGGGTATTGGGC
99124909 TCTGGGTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.45, T:0.35
Consensus pattern (16 bp):
GTTCGGGTATTGGGCC
Found at i:99147159 original size:35 final size:36
Alignment explanation
Indices: 99147104--99147179 Score: 145
Period size: 35 Copynumber: 2.1 Consensus size: 36
99147094 AAGCGGCACT
99147104 AGTATGTATTTTTTTAAAATATTAGTGAAAAATAAG
1 AGTATGTATTTTTTTAAAATATTAGTGAAAAATAAG
99147140 AGTATGTA-TTTTTTAAAATATTAGTGAAAAATAAG
1 AGTATGTATTTTTTTAAAATATTAGTGAAAAATAAG
99147175 AGTAT
1 AGTAT
99147180 TCACAGCAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 32 0.80
36 8 0.20
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (36 bp):
AGTATGTATTTTTTTAAAATATTAGTGAAAAATAAG
Found at i:99149205 original size:2 final size:2
Alignment explanation
Indices: 99149198--99149235 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
99149188 GCCAAAGTGA
* *
99149198 AG AG AG AG AG AG AG AG AG AG GG AG AG AG AG TG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
99149236 TTAGTTAGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.53, T:0.03
Consensus pattern (2 bp):
AG
Found at i:99152980 original size:18 final size:18
Alignment explanation
Indices: 99152946--99152980 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99152936 ATAATATTAA
* *
99152946 TTAATAAAATATTATTTC
1 TTAATAAAAAATCATTTC
99152964 TTAATAAAAAATCATTT
1 TTAATAAAAAATCATTT
99152981 AAAAGCCATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATAAAAAATCATTTC
Found at i:99156698 original size:3 final size:3
Alignment explanation
Indices: 99156690--99156715 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
99156680 CAATAATGCC
99156690 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
99156716 AGACCCCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:99157811 original size:28 final size:28
Alignment explanation
Indices: 99157779--99157835 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
99157769 TTACCATTAC
99157779 ATCAACAATAATTCTTATATGAATTTTA
1 ATCAACAATAATTCTTATATGAATTTTA
99157807 ATCAACAATAATTCTTATATGAATTTTA
1 ATCAACAATAATTCTTATATGAATTTTA
99157835 A
1 A
99157836 AAAATTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.42
Consensus pattern (28 bp):
ATCAACAATAATTCTTATATGAATTTTA
Done.