Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 96 of 135
Found at i:35952000 original size:41 final size:41
Alignment explanation
Indices: 35951955--35952035 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
35951945 TACATAAGTG
* * *
35951955 GGGTTCACACATGT-AGTTCACACCTAGAGGTTCACACATAA
1 GGGTTCACACAAGTAAGGTCACACATAG-GGTTCACACATAA
*
35951996 GGGTTCACTCAAGTAAGGTCACACATAGGGTTCACACATA
1 GGGTTCACACAAGTAAGGTCACACATAGGGTTCACACATA
35952036 TAGATTTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 24 0.69
42 11 0.31
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (41 bp):
GGGTTCACACAAGTAAGGTCACACATAGGGTTCACACATAA
Found at i:35953686 original size:23 final size:23
Alignment explanation
Indices: 35953660--35953742 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
35953650 TTTACATGAT
35953660 ATTTCCTATAGGGTTCGCATAAC
1 ATTTCCTATAGGGTTCGCATAAC
*
35953683 ATTTACTAT-GGGATTCGCATAAC
1 ATTTCCTATAGGG-TTCGCATAAC
* * * * *
35953706 AGTTCCTATACGGTTCACATGAT
1 ATTTCCTATAGGGTTCGCATAAC
35953729 ATTTCCTATAGGGT
1 ATTTCCTATAGGGT
35953743 AAACATATAC
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.06
23 44 0.90
24 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (23 bp):
ATTTCCTATAGGGTTCGCATAAC
Found at i:35954040 original size:23 final size:23
Alignment explanation
Indices: 35954004--35954098 Score: 102
Period size: 23 Copynumber: 4.1 Consensus size: 23
35953994 GGTTTATACA
*
35954004 ATAATAGTTCCTATAGGGTTCAC
1 ATAATAATTCCTATAGGGTTCAC
* * *
35954027 ATAACAATTACTATAGGGTTTAC
1 ATAATAATTCCTATAGGGTTCAC
**
35954050 ATAATAGA-TCCTATAGGGTTGGC
1 ATAATA-ATTCCTATAGGGTTCAC
* *
35954073 ATAATATTTCCTATAGGGTTCGC
1 ATAATAATTCCTATAGGGTTCAC
35954096 ATA
1 ATA
35954099 TACTCATTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
23 59 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (23 bp):
ATAATAATTCCTATAGGGTTCAC
Found at i:35954062 original size:46 final size:48
Alignment explanation
Indices: 35953990--35954092 Score: 129
Period size: 46 Copynumber: 2.2 Consensus size: 48
35953980 AACTAAGTCA
* *
35953990 TATAGGTTTATACAATAATAGTTCCTATAGGGTTCACATAACAATTAC
1 TATAGGGTTATACAATAATAGATCCTATAGGGTTCACATAACAATTAC
** * * *
35954038 TATAGGGTT-TAC-ATAATAGATCCTATAGGGTTGGCATAATATTTCC
1 TATAGGGTTATACAATAATAGATCCTATAGGGTTCACATAACAATTAC
35954084 TATAGGGTT
1 TATAGGGTT
35954093 CGCATATACT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 37 0.77
47 3 0.06
48 8 0.17
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (48 bp):
TATAGGGTTATACAATAATAGATCCTATAGGGTTCACATAACAATTAC
Found at i:35955674 original size:32 final size:32
Alignment explanation
Indices: 35955632--35955697 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
35955622 TTAATTTCAC
*
35955632 AAATCGAACCAAAACACGTTATTATATCAAGT
1 AAATCAAACCAAAACACGTTATTATATCAAGT
35955664 AAATCAAACCAAAACACGTTATTATATCAAGT
1 AAATCAAACCAAAACACGTTATTATATCAAGT
35955696 AA
1 AA
35955698 GTTTCGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (32 bp):
AAATCAAACCAAAACACGTTATTATATCAAGT
Found at i:35956508 original size:17 final size:17
Alignment explanation
Indices: 35956467--35956501 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
35956457 GTAAGTTTTT
35956467 TTTCTTTCGTTTTATTC
1 TTTCTTTCGTTTTATTC
35956484 TTTCTTTCGTTTTATTC
1 TTTCTTTCGTTTTATTC
35956501 T
1 T
35956502 GTTTTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTCTTTCGTTTTATTC
Found at i:35969943 original size:12 final size:12
Alignment explanation
Indices: 35969926--35969956 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
35969916 ATTTAGCCTT
35969926 AAGTGAATATTG
1 AAGTGAATATTG
35969938 AAGTGAATATTG
1 AAGTGAATATTG
35969950 AAGTGAA
1 AAGTGAA
35969957 ATAAATTGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (12 bp):
AAGTGAATATTG
Found at i:35977929 original size:44 final size:45
Alignment explanation
Indices: 35977864--35977954 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
35977854 ACCTCTATTC
* * *
35977864 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
35977908 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
35977953 CA
1 CA
35977955 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:35977969 original size:17 final size:16
Alignment explanation
Indices: 35977935--35977998 Score: 119
Period size: 16 Copynumber: 3.9 Consensus size: 16
35977925 GATTAGCTAT
35977935 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35977951 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
35977968 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
35977984 TACACCTCTAATCCA
1 TACACCTCTAATCCA
35977999 TAAATTTAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 31 0.66
17 16 0.34
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:35977977 original size:33 final size:33
Alignment explanation
Indices: 35977935--35977997 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
35977925 GATTAGCTAT
35977935 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAA
35977968 TACACCTCTAATCCAATACACCTCTAATCC
1 TACACCTCTAATCCAATACACCTCTAATCC
35977998 ATAAATTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.40, G:0.00, T:0.25
Consensus pattern (33 bp):
TACACCTCTAATCCAATACACCTCTAATCCCAA
Found at i:35978775 original size:44 final size:45
Alignment explanation
Indices: 35978638--35978861 Score: 126
Period size: 44 Copynumber: 5.1 Consensus size: 45
35978628 GATGGCAAAT
*
35978638 CTTATCTTTCCAAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 CTTATCTTTCCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * * * * * *** **
35978683 CTTATC-TCCCTGAGCAGCAGT-GG-AGTA-AGTTGAAGACGGAAAAT
1 CTTATCTTTCCTAAG-A-TAGTGGGAAGCAGA-TTTAAGCCACCAAGC
35978727 CTTATCTTTCC-AAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 CTTATCTTTCCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
* * * * * * ** **
35978771 CTTATC--TCCGTGAGCAGCAGT-GG-AGTAGGTTGAAGACGGCAAAT
1 CTTATCTTTCC-TAAG-A-TAGTGGGAAGCAGATTTAAGCCACCAAGC
35978815 CTTATCTTT-CTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
1 CTTATCTTTCCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
35978859 CTT
1 CTT
35978862 GCCCCCTTAA
Statistics
Matches: 121, Mismatches: 43, Indels: 31
0.62 0.22 0.16
Matches are distributed among these distances:
42 9 0.07
43 7 0.06
44 81 0.67
45 17 0.14
46 7 0.06
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (45 bp):
CTTATCTTTCCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGC
Found at i:35978785 original size:88 final size:88
Alignment explanation
Indices: 35978582--35978894 Score: 502
Period size: 88 Copynumber: 3.5 Consensus size: 88
35978572 CAGATCGGTG
* *
35978582 AAGCCACCAAGCCTTATGTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATGGCAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGACGGCAAATCTTATCTTT
35978647 CCAAAGATAGTGGGAAGCAGATTT
66 CC-AAGATAGTGGGAAGCAGATTT
* *
35978671 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAAGTTGAAGACGGAAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGACGGCAAATCTTATCTTT
35978736 CCAAGATAGTGGGAAGCAGATTT
66 CCAAGATAGTGGGAAGCAGATTT
*
35978759 AAGCCACCAAGCCTTATCTCCGTGAGCAGCAGTGGAGTAGGTTGAAGACGGCAAATCTTATCTTT
1 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGACGGCAAATCTTATCTTT
*
35978824 CTAAGATAGTGGGAAGCAGATTT
66 CCAAGATAGTGGGAAGCAGATTT
* * * * *
35978847 AAGCCACCAAGCCTT-GCCCCCTTAAGCAGCAGCGAAGTAGGTTGAAGA
1 AAGCCACCAAGCCTTATCTCCC-TGAGCAGCAGTGGAGTAGGTTGAAGA
35978895 TTACAAATCC
Statistics
Matches: 209, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
87 3 0.01
88 143 0.68
89 63 0.30
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (88 bp):
AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGACGGCAAATCTTATCTTT
CCAAGATAGTGGGAAGCAGATTT
Found at i:35983747 original size:29 final size:29
Alignment explanation
Indices: 35983711--35983779 Score: 111
Period size: 29 Copynumber: 2.3 Consensus size: 29
35983701 AAATTGTTGT
35983711 GAAAATAAATCACGATGATAATATGTGTA
1 GAAAATAAATCACGATGATAATATGTGTA
*
35983740 GAAAATAAATCACGATGATATTATGTGTA
1 GAAAATAAATCACGATGATAATATGTGTA
*
35983769 GTAATATAAAT
1 G-AAAATAAAT
35983780 GCACCAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 29 0.78
30 8 0.22
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (29 bp):
GAAAATAAATCACGATGATAATATGTGTA
Found at i:35984000 original size:18 final size:19
Alignment explanation
Indices: 35983977--35984012 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35983967 GGTTTGTAAT
35983977 CACATAAAAG-AATATGAA
1 CACATAAAAGTAATATGAA
*
35983995 CACATAAATGTAATATGA
1 CACATAAAAGTAATATGA
35984013 TAAAAATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (19 bp):
CACATAAAAGTAATATGAA
Found at i:35985631 original size:44 final size:42
Alignment explanation
Indices: 35985518--35985673 Score: 120
Period size: 44 Copynumber: 3.6 Consensus size: 42
35985508 TTTTAGTCTA
* * * *
35985518 CTCCACTGCAACGTCAGGGAGATAATATTTGTTATA-TTCAGCCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TTA-ACTTCA-ACTG
* * *
35985563 CTCCACTGCGACTTTAGGGTGATAAGACTTATAACTTCAACTTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-TAACTTCAAC-TG
* * * *
35985607 CTCCACTGCAACTTCAGGGAGATAAG-GTTT-GCTATGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTTAACT-TCAACTG
*
35985648 CTCTACTGCAACTTCAGGGAGATAAG
1 CTCCACTGCAACTTCAGGGAGATAAG
35985674 GTTTGCTATG
Statistics
Matches: 92, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
41 29 0.32
42 4 0.04
43 5 0.05
44 32 0.35
45 22 0.24
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (42 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTTAACTTCAACTG
Found at i:35985659 original size:41 final size:40
Alignment explanation
Indices: 35985604--35985714 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 40
35985594 TAACTTCAAC
*
35985604 TTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGA
1 TTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGCTATGA
35985644 TCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGCTATGA
1 T-TGCTCTACTGCAACTTCAGGGAGATAAGGTTTGCTATGA
* * * *
35985685 TTCACTTTACTGCAACTTTAGAGAGATAAG
1 TT-GCTCTACTGCAACTTCAGGGAGATAAG
35985715 ATATCTAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 2 0.03
41 62 0.97
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (40 bp):
TTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGCTATGA
Found at i:35986024 original size:44 final size:43
Alignment explanation
Indices: 35985868--35986028 Score: 119
Period size: 44 Copynumber: 3.7 Consensus size: 43
35985858 TAAGATTTGT
* **
35985868 TCTACTCCACTGCAACTTCAGAGAGATAAGGTTTATAACTTTAA
1 TCTACTCCACTGCAACTTCAGAGAGATAAGATCCATAAC-TTAA
* * * * *
35985912 TCTGA-TCTACTGCAACTTCAGATAGATAAGAGTTGC-TATCTCTGA
1 TCT-ACTCCACTGCAACTTCAGAGAGATAAGA--TCCATAACT-TAA
* * ** * *
35985957 TTTACACCACTAAAACTTTAGGGAGATAAGATCCATAACTTAAA
1 TCTACTCCACTGCAACTTCAGAGAGATAAGATCCATAACTT-AA
*
35986001 TCTACTCCACTGCAACTTCAGGGAGATA
1 TCTACTCCACTGCAACTTCAGAGAGATA
35986029 GGATTTGTAA
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
43 3 0.03
44 56 0.64
45 27 0.31
46 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (43 bp):
TCTACTCCACTGCAACTTCAGAGAGATAAGATCCATAACTTAA
Found at i:35986175 original size:45 final size:45
Alignment explanation
Indices: 35986079--35986309 Score: 279
Period size: 45 Copynumber: 5.2 Consensus size: 45
35986069 TTAGGGAAAC
* * * * * *
35986079 AAGATTTGCTATCTTTAGTCTGCTCTATTG-TACTTTAGGGAGAT
1 AAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGAT
* *
35986123 AAGACTTGCTATCTTTAGTCCGCTCCACTGCAACTTCAGGGAGAT
1 AAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGAT
* * *
35986168 TAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGAC
1 AAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGAT
* * *
35986213 AAGACTTGGTATCTTCAGTCTGATCCACTGCAACTTCAAGGAGAT
1 AAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGAT
** *
35986258 AA-ACTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGAT
1 AAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGAT
*
35986301 AAGATTTGC
1 AAGACTTGC
35986310 AGCCTATCTT
Statistics
Matches: 163, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
43 33 0.20
44 35 0.21
45 95 0.58
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (45 bp):
AAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGAT
Found at i:35986177 original size:89 final size:90
Alignment explanation
Indices: 35986057--35986345 Score: 271
Period size: 90 Copynumber: 3.2 Consensus size: 90
35986047 TTTAATATGT
* * * * * * * * * * *
35986057 TCCATTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGCTCTATTG-TACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAG
* * *
35986121 ATAAGACTTGCTATCTTTAGTCCGC
66 ACAAGACTTGCTATCTTCAGTCCGA
*
35986146 TCCACTGCAACTTCAGGGAGATTAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAG
* *
35986211 ACAAGACTTGGTATCTTCAGTCTGA
66 ACAAGACTTGCTATCTTCAGTCCGA
* ** * *
35986236 TCCACTGCAACTTCAAGGAGATAA-ACTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAAGGAG
1 TCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAG
* * *
35986299 ATAAGATTTGCAGCCTATCTTCAATCC-A
66 ACAAGACTT---G-CTATCTTCAGTCCGA
*
35986327 TCTTACTGCAACTTCAGGG
1 TC-CACTGCAACTTCAGGG
35986346 GCATGGGTAA
Statistics
Matches: 164, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
88 37 0.23
89 48 0.29
90 51 0.31
91 4 0.02
92 24 0.15
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (90 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAG
ACAAGACTTGCTATCTTCAGTCCGA
Found at i:35986233 original size:134 final size:133
Alignment explanation
Indices: 35986057--35986309 Score: 301
Period size: 134 Copynumber: 1.9 Consensus size: 133
35986047 TTTAATATGT
* * * * * * * * * * *
35986057 TCCATTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGCTCTATTG-TACTTTAGGGAG
1 TCCACTGCAACTTCAAGGAAACAAGACTTGCTATCTTCAGTCTGATCCACTGCAACTTCAAGGAG
* * * *
35986121 ATAAGACTTGCTATCTTTAGTCCGCTCCACTGCAACTTCAGGGAGATTAGACTTGCTATCTTCAG
66 ATAA-ACTTG-TAGCTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGACTTGCTATCTTCAG
35986186 TCTGC
129 TCTGC
* *
35986191 TCCACTGCAACTTCAAGGAGACAAGACTTGGTATCTTCAGTCTGATCCACTGCAACTTCAAGGAG
1 TCCACTGCAACTTCAAGGAAACAAGACTTGCTATCTTCAGTCTGATCCACTGCAACTTCAAGGAG
* * *
35986256 ATAAACTTGTGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGC
66 ATAAACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGACTTGC
35986310 AGCCTATCTT
Statistics
Matches: 98, Mismatches: 20, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
133 38 0.39
134 47 0.48
135 13 0.13
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (133 bp):
TCCACTGCAACTTCAAGGAAACAAGACTTGCTATCTTCAGTCTGATCCACTGCAACTTCAAGGAG
ATAAACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGACTTGCTATCTTCAGTC
TGC
Found at i:35986247 original size:90 final size:89
Alignment explanation
Indices: 35986057--35986345 Score: 278
Period size: 89 Copynumber: 3.2 Consensus size: 89
35986047 TTTAATATGT
* * * * * * * * * *
35986057 TCCATTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGCTCTATTG-TACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAGA-TAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAG
* *
35986121 ATAAGACTTGCTATCTTTAGTCCGC
65 ATAAGACTTGCTATCTTCAGTCCGA
*
35986146 TCCACTGCAACTTCAGGGAGATTAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAG
1 TCCACTGCAACTTCAGGGAGA-TAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAG
* * *
35986211 ACAAGACTTGGTATCTTCAGTCTGA
65 ATAAGACTTGCTATCTTCAGTCCGA
* * ** *
35986236 TCCACTGCAACTTCAAGGAGATAAACTTG-TGGCTTTAATCTGCTCCACTGCAACTTCAAGGAGA
1 TCCACTGCAACTTCAGGGAGATAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGA
* *
35986300 TAAGATTTGCAGCCTATCTTCAATCC-A
66 TAAGACTT---G-CTATCTTCAGTCCGA
*
35986327 TCTTACTGCAACTTCAGGG
1 TC-CACTGCAACTTCAGGG
35986346 GCATGGGTAA
Statistics
Matches: 164, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
88 37 0.23
89 50 0.30
90 49 0.30
91 4 0.02
92 24 0.15
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAGACTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAAGGAGA
TAAGACTTGCTATCTTCAGTCCGA
Found at i:35995247 original size:18 final size:18
Alignment explanation
Indices: 35995226--35995260 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35995216 GATGCAATTC
35995226 CAGAGACAGATACAAATA
1 CAGAGACAGATACAAATA
**
35995244 CAGATTCAGATACAAAT
1 CAGAGACAGATACAAAT
35995261 GCGGACACAA
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:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (18 bp):
CAGAGACAGATACAAATA
Found at i:35996903 original size:15 final size:14
Alignment explanation
Indices: 35996879--35996910 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
35996869 CCACTCTTGG
35996879 TTTCACTAACCCAA
1 TTTCACTAACCCAA
35996893 TTTCTACTAACCCAA
1 TTTC-ACTAACCCAA
35996908 TTT
1 TTT
35996911 TTGAGGTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTCACTAACCCAA
Found at i:36000967 original size:25 final size:25
Alignment explanation
Indices: 36000951--36001007 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
36000941 ATAGGTAGTA
36000951 TATACTGGGACTACTATAGATAGAC
1 TATACTGGGACTACTATAGATAGAC
* *
36000976 TGTACTGGGACTATTATAGATAGAC
1 TATACTGGGACTACTATAGATAGAC
36001001 TATACTG
1 TATACTG
36001008 AAAACACTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (25 bp):
TATACTGGGACTACTATAGATAGAC
Found at i:36007319 original size:12 final size:13
Alignment explanation
Indices: 36007293--36007326 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
36007283 ACTGATTGAT
36007293 ATTTTATGTCATG
1 ATTTTATGTCATG
36007306 ATTTTATG-CATG
1 ATTTTATGTCATG
36007318 ATTTTATGT
1 ATTTTATGT
36007327 TTTAGCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (13 bp):
ATTTTATGTCATG
Found at i:36009060 original size:29 final size:29
Alignment explanation
Indices: 36008998--36009072 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
36008988 GTCATATGAC
* *
36008998 TGGCCGTGTGAGCCACACAAACGTGTGGT
1 TGGCTGTGTCAGCCACACAAACGTGTGGT
* *
36009027 TGGCTGTGTCAGCCACACAGATGTGTGGT
1 TGGCTGTGTCAGCCACACAAACGTGTGGT
* *
36009056 TGGCTATGTTAGCCACA
1 TGGCTGTGTCAGCCACA
36009073 TGGGCGTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCTGTGTCAGCCACACAAACGTGTGGT
Found at i:36009081 original size:29 final size:29
Alignment explanation
Indices: 36009008--36009087 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 29
36008998 TGGCCGTGTG
* *
36009008 AGCCACACAAACGTGTGGTTGGCTGTGTC
1 AGCCACACAGACGTGTGGTTGGCTATGTC
* *
36009037 AGCCACACAGATGTGTGGTTGGCTATGTT
1 AGCCACACAGACGTGTGGTTGGCTATGTC
** *
36009066 AGCCACATGGGCGTGTGGTTGG
1 AGCCACACAGACGTGTGGTTGG
36009088 ACATGTAGGC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.19, C:0.20, G:0.35, T:0.26
Consensus pattern (29 bp):
AGCCACACAGACGTGTGGTTGGCTATGTC
Found at i:36014691 original size:28 final size:28
Alignment explanation
Indices: 36014630--36014692 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
36014620 CGCGATTTCG
*
36014630 TGAAAAATGGCCCATTCCGGTAAATAAT
1 TGAAAAACGGCCCATTCCGGTAAATAAT
* *
36014658 TAAAAAACCGGCCCATTCCGGTAAAT-TT
1 TGAAAAA-CGGCCCATTCCGGTAAATAAT
36014686 TGAAAAA
1 TGAAAAA
36014693 AAACGGCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (28 bp):
TGAAAAACGGCCCATTCCGGTAAATAAT
Found at i:36015691 original size:60 final size:60
Alignment explanation
Indices: 36015617--36015729 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 60
36015607 ATACTAAATT
*
36015617 AAACACAACAATTTATAACATAATCTTAAATTACTAATAAATTAATTTTAAAACAATAAC
1 AAACACAACAATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAACAATAAC
*
36015677 AAACACAACCATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAA
1 AAACACAACAATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAA
36015730 TAATTATAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCTTAAATTACTAACAAATTAATTTTAAAACAATAAC
Found at i:36017947 original size:24 final size:24
Alignment explanation
Indices: 36017894--36017948 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
36017884 CTAAAGGCCC
*
36017894 ACACCTCCAAATGTACATCTGGTT
1 ACACCTCCAAATGTACATCTAGTT
** *
36017918 GTACCTCCAAATGTACATTTAGTT
1 ACACCTCCAAATGTACATCTAGTT
36017942 ACACCTC
1 ACACCTC
36017949 TGGCTGTACG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (24 bp):
ACACCTCCAAATGTACATCTAGTT
Found at i:36022189 original size:18 final size:18
Alignment explanation
Indices: 36022166--36022225 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
36022156 CTGCCCCTTC
36022166 TTCCTCACCTACATCTTT
1 TTCCTCACCTACATCTTT
*
36022184 TTCCTCGA-CTAC-CCTTT
1 TTCCTC-ACCTACATCTTT
*
36022201 CTTCCTCACCTACATCTTC
1 -TTCCTCACCTACATCTTT
36022220 TTCCTC
1 TTCCTC
36022226 TGTCGTATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 5 0.14
18 26 0.74
19 4 0.11
ACGTcount: A:0.13, C:0.43, G:0.02, T:0.42
Consensus pattern (18 bp):
TTCCTCACCTACATCTTT
Found at i:36024936 original size:22 final size:21
Alignment explanation
Indices: 36024906--36024965 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
36024896 ATAAAAAATA
*
36024906 TCTTCAATGAGCTCAAGATAAG
1 TCTTAAATG-GCTCAAGATAAG
* *
36024928 TCTTAAAT-GTTCAAGATATG
1 TCTTAAATGGCTCAAGATAAG
*
36024948 TCTTAAAT-GTTCAAGATA
1 TCTTAAATGGCTCAAGATA
36024966 TGCTTCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 28 0.80
22 7 0.20
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (21 bp):
TCTTAAATGGCTCAAGATAAG
Found at i:36024966 original size:20 final size:20
Alignment explanation
Indices: 36024918--36024967 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
36024908 TTCAATGAGC
*
36024918 TCAAGATAAGTCTTAAATGT
1 TCAAGATATGTCTTAAATGT
36024938 TCAAGATATGTCTTAAATGT
1 TCAAGATATGTCTTAAATGT
36024958 TCAAGATATG
1 TCAAGATATG
36024968 CTTCAAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (20 bp):
TCAAGATATGTCTTAAATGT
Found at i:36031304 original size:21 final size:22
Alignment explanation
Indices: 36031271--36031311 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36031261 ATGAATACGG
* *
36031271 GGTATTAGTGTTAC-ATTTAAT
1 GGTATCAGAGTTACGATTTAAT
36031292 GGTATCAGAGTTACGATTTA
1 GGTATCAGAGTTACGATTTA
36031312 GTCAGTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (22 bp):
GGTATCAGAGTTACGATTTAAT
Found at i:36038381 original size:25 final size:22
Alignment explanation
Indices: 36038328--36038371 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
36038318 CATATTAGAG
*
36038328 TGTAGTTTAACCACCAATGGTT
1 TGTAGATTAACCACCAATGGTT
*
36038350 TGTAGATTAACTACCAATGGTT
1 TGTAGATTAACCACCAATGGTT
36038372 GTGGATAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (22 bp):
TGTAGATTAACCACCAATGGTT
Found at i:36039574 original size:18 final size:18
Alignment explanation
Indices: 36039551--36039597 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
36039541 TTCTTGTCGA
36039551 AAAATAATTAATTTTTAC
1 AAAATAATTAATTTTTAC
36039569 AAAATAATTAATTTTTAC
1 AAAATAATTAATTTTTAC
36039587 AAAATAATTAA
1 AAAATAATTAA
36039598 AGTGCACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATAATTAATTTTTAC
Found at i:36045984 original size:19 final size:19
Alignment explanation
Indices: 36045960--36046000 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
36045950 TTTATTTTTA
* *
36045960 AATTAGAATCGAAAAGTTT
1 AATTAGAATAGAAAAGTAT
36045979 AATTAGAATAGAAAAGTAT
1 AATTAGAATAGAAAAGTAT
36045998 AAT
1 AAT
36046001 AAAAGTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.02, G:0.15, T:0.29
Consensus pattern (19 bp):
AATTAGAATAGAAAAGTAT
Found at i:36046943 original size:27 final size:27
Alignment explanation
Indices: 36046900--36047017 Score: 123
Period size: 27 Copynumber: 4.4 Consensus size: 27
36046890 ATCTGGACCA
*
36046900 AAATACCCCCATAGGGTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTG
* * *
36046927 TAATGCCCCTGTAGGGTAAAATGACTG
1 AAATACCCCTATAGGGTAAAATGACTG
* * * *
36046954 AAATACCCCCATAGGGAAAAATAACCG
1 AAATACCCCTATAGGGTAAAATGACTG
36046981 AAATA-CCCTCATAGGGTAAAATGA-TCG
1 AAATACCCCT-ATAGGGTAAAATGACT-G
*
36047008 TAATACCCCT
1 AAATACCCCT
36047018 GTGTGGGTTG
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
26 3 0.04
27 65 0.90
28 4 0.06
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (27 bp):
AAATACCCCTATAGGGTAAAATGACTG
Found at i:36047016 original size:54 final size:54
Alignment explanation
Indices: 36046900--36047004 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 54
36046890 ATCTGGACCA
* * * * * *
36046900 AAATACCCCCATAGGGTAAAATGACTGTAATGCCCCTGTAGGGTAAAATGACTG
1 AAATACCCCCATAGGGAAAAATAACCGAAATACCCCTATAGGGTAAAATGACTG
36046954 AAATACCCCCATAGGGAAAAATAACCGAAATA-CCCTCATAGGGTAAAATGA
1 AAATACCCCCATAGGGAAAAATAACCGAAATACCCCT-ATAGGGTAAAATGA
36047005 TCGTAATACC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.09
54 40 0.91
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (54 bp):
AAATACCCCCATAGGGAAAAATAACCGAAATACCCCTATAGGGTAAAATGACTG
Found at i:36047045 original size:21 final size:21
Alignment explanation
Indices: 36047021--36047064 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
36047011 TACCCCTGTG
*
36047021 TGGGTTGTTCGTGATATAAAT
1 TGGGATGTTCGTGATATAAAT
36047042 TGGGATGTTCGTGATATAAAT
1 TGGGATGTTCGTGATATAAAT
36047063 TG
1 TG
36047065 AATTGTGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.05, G:0.30, T:0.41
Consensus pattern (21 bp):
TGGGATGTTCGTGATATAAAT
Found at i:36049523 original size:25 final size:26
Alignment explanation
Indices: 36049473--36049524 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
36049463 TTTAAAACAC
*
36049473 AAAAATAAATACCAAAATGGGTTTAT
1 AAAAATAAATACCAAAATGGGATTAT
36049499 AAAAATAAATACCAAAAT-GGATTAT
1 AAAAATAAATACCAAAATGGGATTAT
36049524 A
1 A
36049525 TGCTTGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.25
Consensus pattern (26 bp):
AAAAATAAATACCAAAATGGGATTAT
Found at i:36049849 original size:51 final size:50
Alignment explanation
Indices: 36049788--36049885 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 50
36049778 GCACAAAAAA
*
36049788 ATACTAGTGCCACCCATCTCTCCCCCTCCACGCTTAAAAAATATATTTTTT
1 ATACTAGTGCCACCCATCTCTCCCCCTCCACCCTTAAAAAAT-TATTTTTT
* * * * * *
36049839 ATACTGGTGCCGCCCATTTCTCCCTCTCTACCCTTAAAATATTATTT
1 ATACTAGTGCCACCCATCTCTCCCCCTCCACCCTTAAAAAATTATTT
36049886 ATATTTTGTA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 5 0.12
51 35 0.88
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.36
Consensus pattern (50 bp):
ATACTAGTGCCACCCATCTCTCCCCCTCCACCCTTAAAAAATTATTTTTT
Found at i:36055929 original size:78 final size:79
Alignment explanation
Indices: 36055800--36055959 Score: 313
Period size: 78 Copynumber: 2.0 Consensus size: 79
36055790 TCTAAAAATA
36055800 TTTAGGTTAAATAGTGTTTAATTACTTAAGTTTACTCTTCTATAATTAATTTGTAAACTTATATA
1 TTTAGGTTAAATAGTGTTTAATTACTTAAGTTTACTCTTCTATAATTAATTTGTAAACTTATATA
36055865 ATCAT-ACAATTTT
66 ATCATAACAATTTT
36055878 TTTAGGTTAAATAGTGTTTAATTACTTAAGTTTACTCTTCTATAATTAATTTGTAAACTTATATA
1 TTTAGGTTAAATAGTGTTTAATTACTTAAGTTTACTCTTCTATAATTAATTTGTAAACTTATATA
36055943 ATCATAACAATTTT
66 ATCATAACAATTTT
36055957 TTT
1 TTT
36055960 TAAAAATATT
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 70 0.86
79 11 0.14
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.49
Consensus pattern (79 bp):
TTTAGGTTAAATAGTGTTTAATTACTTAAGTTTACTCTTCTATAATTAATTTGTAAACTTATATA
ATCATAACAATTTT
Found at i:36056010 original size:18 final size:20
Alignment explanation
Indices: 36055971--36056010 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
36055961 AAAAATATTG
*
36055971 TATTTAATTTTTTTTCAATA
1 TATTTAATTTATTTTCAATA
36055991 TATTTAA-TTATTTT-AATA
1 TATTTAATTTATTTTCAATA
36056009 TA
1 TA
36056011 AGCTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTAATTTATTTTCAATA
Found at i:36060088 original size:25 final size:25
Alignment explanation
Indices: 36059983--36060081 Score: 162
Period size: 25 Copynumber: 4.0 Consensus size: 25
36059973 CTCCAAGTTG
*
36059983 AATAACGGAAAGCTCATGCGAGCTA
1 AATAACGGGAAGCTCATGCGAGCTA
36060008 AATAACGGGAAGCTCATGCGAGCTA
1 AATAACGGGAAGCTCATGCGAGCTA
* *
36060033 AATAATGGGAAGCTCATGCGAGTTA
1 AATAACGGGAAGCTCATGCGAGCTA
*
36060058 AATAACAGGAAGCTCATGCGAGCT
1 AATAACGGGAAGCTCATGCGAGCT
36060082 TTATAACTGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (25 bp):
AATAACGGGAAGCTCATGCGAGCTA
Found at i:36060093 original size:25 final size:25
Alignment explanation
Indices: 36059983--36060094 Score: 147
Period size: 25 Copynumber: 4.5 Consensus size: 25
36059973 CTCCAAGTTG
36059983 AATAAC-GGAAAGCTCATGCGAGCTA
1 AATAACTGG-AAGCTCATGCGAGCTA
*
36060008 AATAACGGGAAGCTCATGCGAGCTA
1 AATAACTGGAAGCTCATGCGAGCTA
*
36060033 AATAA-TGGGAAGCTCATGCGAGTTA
1 AATAACT-GGAAGCTCATGCGAGCTA
* *
36060058 AATAACAGGAAGCTCATGCGAGCTT
1 AATAACTGGAAGCTCATGCGAGCTA
*
36060083 TATAACTGGAAG
1 AATAACTGGAAG
36060095 ATATGCAAGC
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
25 75 0.97
26 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (25 bp):
AATAACTGGAAGCTCATGCGAGCTA
Found at i:36060105 original size:24 final size:25
Alignment explanation
Indices: 36060059--36060105 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
36060049 TGCGAGTTAA
* *
36060059 ATAACAGGAAGCTCATGCGAGCTTT
1 ATAACAGGAAGATCATGCAAGCTTT
*
36060084 ATAACTGGAAGAT-ATGCAAGCT
1 ATAACAGGAAGATCATGCAAGCT
36060106 GTGGTGTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (25 bp):
ATAACAGGAAGATCATGCAAGCTTT
Found at i:36060614 original size:8 final size:8
Alignment explanation
Indices: 36060601--36060626 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36060591 GCCCACATAA
36060601 TTCACAAT
1 TTCACAAT
36060609 TTCACAAT
1 TTCACAAT
36060617 TTCACAAT
1 TTCACAAT
36060625 TT
1 TT
36060627 TACCATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (8 bp):
TTCACAAT
Found at i:36061296 original size:17 final size:15
Alignment explanation
Indices: 36061258--36061294 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
36061248 ATTGTTCTTT
36061258 TATTTTTCATTTATA
1 TATTTTTCATTTATA
36061273 TATTTTTCATTTATA
1 TATTTTTCATTTATA
36061288 TATTTTT
1 TATTTTT
36061295 TTATTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTCATTTATA
Found at i:36066494 original size:38 final size:36
Alignment explanation
Indices: 36066451--36066566 Score: 95
Period size: 28 Copynumber: 3.3 Consensus size: 36
36066441 CTTTCTAGCC
*
36066451 TCTGCCGATTTGCTCCCTCCGTTTCTTTTCTTTTATTT
1 TCTGCCGATTTGCTCCCT--GTTTCTTTTCTTTTCTTT
*
36066489 TCTGCC------CT--CTGTTTATTTTCTTTTCTTT
1 TCTGCCGATTTGCTCCCTGTTTCTTTTCTTTTCTTT
* *
36066517 TCTACCGATTTGCTCCCTTTGTTTCTTCTCATTTTCTTT
1 TCTGCCGATTTGCTCCC--TGTTTCTTTTC-TTTTCTTT
36066556 TCTGCCGATTT
1 TCTGCCGATTT
36066567 CCGAGTTAGT
Statistics
Matches: 61, Mismatches: 6, Indels: 21
0.69 0.07 0.24
Matches are distributed among these distances:
28 21 0.34
30 2 0.03
32 2 0.03
34 2 0.03
36 1 0.02
38 15 0.25
39 18 0.30
ACGTcount: A:0.06, C:0.28, G:0.09, T:0.57
Consensus pattern (36 bp):
TCTGCCGATTTGCTCCCTGTTTCTTTTCTTTTCTTT
Found at i:36069807 original size:45 final size:43
Alignment explanation
Indices: 36069707--36069816 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
36069697 TTTTCCATTA
36069707 TGCTATTACACCTCTATTC----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
* * ***
36069746 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATT-CATTACATTCAACCAAACACAAGA-T
36069791 TGCTATTACACCTCTATTTCATTACA
1 TGCTATTACACCTCTA-TTCATTACA
36069817 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 22 0.39
46 2 0.04
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCATTACATTCAACCAAACACAAGAT
Found at i:36070154 original size:14 final size:15
Alignment explanation
Indices: 36070122--36070155 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
36070112 AAAGAAAGGG
36070122 AGACAAGGCAGCGGC
1 AGACAAGGCAGCGGC
*
36070137 AGACAAGG-AGCTGC
1 AGACAAGGCAGCGGC
36070151 AGACA
1 AGACA
36070156 CATCAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.38, C:0.24, G:0.35, T:0.03
Consensus pattern (15 bp):
AGACAAGGCAGCGGC
Found at i:36070691 original size:15 final size:16
Alignment explanation
Indices: 36070660--36070693 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36070650 TGTCATATGA
36070660 ATTTTTTAAAATATTT
1 ATTTTTTAAAATATTT
*
36070676 ATTTTTTAATAT-TTT
1 ATTTTTTAAAATATTT
36070691 ATT
1 ATT
36070694 ATATTTGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTAAAATATTT
Found at i:36073299 original size:34 final size:35
Alignment explanation
Indices: 36073218--36073338 Score: 122
Period size: 34 Copynumber: 3.5 Consensus size: 35
36073208 AGAACGTTAG
* *
36073218 AAAA-AGAAGTTTTTGAGAAACCAAAGAAGAGCATTT
1 AAAAGAGAAGCTTTTGAAAAACC--AGAAGAGCATTT
* * *
36073254 GAAAGAAAAGCTTTTGAAAAACCAG-AGAGCGTTT
1 AAAAGAGAAGCTTTTGAAAAACCAGAAGAGCATTT
* *
36073288 AAAAGAGAAGCTTTTGAGAAA-CTGAAGAGCATTT
1 AAAAGAGAAGCTTTTGAAAAACCAGAAGAGCATTT
* *
36073322 GAAAGACAAGCTTTTGA
1 AAAAGAGAAGCTTTTGA
36073339 GAGAAGTAAA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
33 2 0.03
34 49 0.69
35 2 0.03
36 3 0.04
37 15 0.21
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.22
Consensus pattern (35 bp):
AAAAGAGAAGCTTTTGAAAAACCAGAAGAGCATTT
Found at i:36073338 original size:68 final size:69
Alignment explanation
Indices: 36073185--36073338 Score: 190
Period size: 71 Copynumber: 2.2 Consensus size: 69
36073175 TTAAATCATA
* *
36073185 GAAAGAAA-CTTTTGAAAAATCAAAGAACGTTAGAAAAAGAAGTTTTTGAGAAACCAAAGAAGAG
1 GAAAGAAAGCTTTTGAAAAACCAAAGAACGTTAGAAAAAGAAGCTTTTGAGAAACC-AAGAAGAG
36073249 CATTT
65 CATTT
* * * *
36073254 GAAAGAAAAGCTTTTGAAAAACCAGAGAGCGTTTA-AAAGAGAAGCTTTTGAGAAA-C-TGAAGA
1 GAAAG-AAAGCTTTTGAAAAACCAAAGAACG-TTAGAAAAAGAAGCTTTTGAGAAACCAAGAAGA
36073316 GCATTT
64 GCATTT
36073322 GAAAGACAAGCTTTTGA
1 GAAAGA-AAGCTTTTGA
36073339 GAGAAGTAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
67 1 0.01
68 26 0.35
69 5 0.07
70 4 0.05
71 36 0.48
72 3 0.04
ACGTcount: A:0.47, C:0.10, G:0.21, T:0.22
Consensus pattern (69 bp):
GAAAGAAAGCTTTTGAAAAACCAAAGAACGTTAGAAAAAGAAGCTTTTGAGAAACCAAGAAGAGC
ATTT
Found at i:36073339 original size:34 final size:33
Alignment explanation
Indices: 36073243--36073340 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 33
36073233 AGAAACCAAA
*
36073243 GAAGAGCATTTGAAAGAAAAGCTTTTGAAAAAC
1 GAAGAGCATTTGAAAGAAAAGCTTTTGAGAAAC
* * * *
36073276 CAGAGAGCGTTTAAAAGAGAAGCTTTTGAGAAAC
1 GA-AGAGCATTTGAAAGAAAAGCTTTTGAGAAAC
*
36073310 TGAAGAGCATTTGAAAGACAAGCTTTTGAGA
1 -GAAGAGCATTTGAAAGAAAAGCTTTTGAGA
36073341 GAAGTAAAAC
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
33 1 0.02
34 52 0.96
35 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.22
Consensus pattern (33 bp):
GAAGAGCATTTGAAAGAAAAGCTTTTGAGAAAC
Found at i:36076135 original size:30 final size:29
Alignment explanation
Indices: 36076078--36076146 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
36076068 CCTTTTTACT
* *
36076078 TTTTCCCCAAAACTTTTACTTCTTCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTCCCAC
*
36076107 TTTTCTCCAAAACTTTTACTCCCCTCCCATC
1 TTTTCCCCAAAACTTTTACT-CCCTCCCA-C
*
36076138 TTATCCCCA
1 TTTTCCCCA
36076147 TCTACCCCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 19 0.58
30 6 0.18
31 8 0.24
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (29 bp):
TTTTCCCCAAAACTTTTACTCCCTCCCAC
Found at i:36076402 original size:40 final size:40
Alignment explanation
Indices: 36076303--36076391 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
36076293 TTTTCCCCCC
36076303 AAAACTTTTACTCCCCTCCCATCCTAGCCCCTCTAACCCA
1 AAAACTTTTACTCCCCTCCCATCCTAGCCCCTCTAACCCA
*
36076343 AAAACTTTTACTCCCCTCCCATCCTAGCCCCATCT-ACCCC
1 AAAACTTTTACTCCCCTCCCATCCTAGCCCC-TCTAACCCA
36076383 AAAACTTTT
1 AAAACTTTT
36076392 TTATTTCTCC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 44 0.94
41 3 0.06
ACGTcount: A:0.26, C:0.45, G:0.02, T:0.27
Consensus pattern (40 bp):
AAAACTTTTACTCCCCTCCCATCCTAGCCCCTCTAACCCA
Found at i:36077763 original size:14 final size:14
Alignment explanation
Indices: 36077744--36077783 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
36077734 TTGATTGCCA
36077744 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
36077758 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
36077772 GGAAAATGTTTT
1 GTAAAATGTTTT
36077784 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:36077792 original size:20 final size:20
Alignment explanation
Indices: 36077767--36077806 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36077757 CGTAAAATGA
*
36077767 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
36077787 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
36077807 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:36077796 original size:34 final size:35
Alignment explanation
Indices: 36077752--36077818 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
36077742 CAGTAAAATG
*
36077752 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
36077786 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
36077819 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:36077822 original size:14 final size:15
Alignment explanation
Indices: 36077746--36077822 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
36077736 GATTGCCAGT
* *
36077746 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
36077760 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
36077774 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
36077794 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
36077809 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
36077823 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:36081404 original size:10 final size:10
Alignment explanation
Indices: 36081389--36081414 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
36081379 TCATTAAGTG
36081389 CTAACAAATA
1 CTAACAAATA
36081399 CTAACAAATA
1 CTAACAAATA
36081409 CTAACA
1 CTAACA
36081415 GATCAGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
CTAACAAATA
Found at i:36084203 original size:22 final size:22
Alignment explanation
Indices: 36084164--36084211 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
36084154 AAATAAAAGA
*
36084164 AAAAGAAACAAAGGAAGA-ACAG
1 AAAAGAAACAAAGAAAGAGAC-G
* *
36084186 AAAAGAAATAGAGAAAGAGACG
1 AAAAGAAACAAAGAAAGAGACG
36084208 AAAA
1 AAAA
36084212 TAGGGGAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.69, C:0.06, G:0.23, T:0.02
Consensus pattern (22 bp):
AAAAGAAACAAAGAAAGAGACG
Found at i:36084241 original size:30 final size:29
Alignment explanation
Indices: 36084188--36084245 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
36084178 AAGAACAGAA
* * *
36084188 AAGAAATAGAGAAAGAGACGAAAATAGGGG
1 AAGAAAAAGAGAAAGAAAAGAAAA-AGGGG
*
36084218 AAGAAAAAGGGAAAGAAAAGAAAAAGGG
1 AAGAAAAAGAGAAAGAAAAGAAAAAGGG
36084246 AAAATTCAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.62, C:0.02, G:0.33, T:0.03
Consensus pattern (29 bp):
AAGAAAAAGAGAAAGAAAAGAAAAAGGGG
Found at i:36088786 original size:51 final size:50
Alignment explanation
Indices: 36088728--36088914 Score: 223
Period size: 51 Copynumber: 3.7 Consensus size: 50
36088718 TCAGTTCACA
* * *
36088728 TAGTAGCCTGCACATATTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGGTACACG
* * * * *
36088779 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGGTACACG
* * * * *
36088830 TAGTAGCCTGTACATAGTATTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGGTACACG
36088880 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
36088915 CACTTTCACT
Statistics
Matches: 111, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 68 0.61
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGGTACACG
Found at i:36088902 original size:101 final size:101
Alignment explanation
Indices: 36088726--36088910 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
36088716 GTTCAGTTCA
* *
36088726 CATAGTAGCCTGCACATATTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
36088791 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * * *
36088828 CATAGTAGCCTGTACATAGTATTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
36088892 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
36088911 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 41 0.54
102 31 0.41
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:36093635 original size:23 final size:23
Alignment explanation
Indices: 36093602--36093676 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
36093592 ATAAGTGCCA
* * *
36093602 CACTGATATGTAACCAAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
* *
36093625 CACTGAAATGTAGCTGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
36093648 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
36093671 CACTGA
1 CACTGA
36093677 TCAATAACAC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:36093921 original size:18 final size:17
Alignment explanation
Indices: 36093895--36093933 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36093885 ATTTTCCTTC
36093895 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
36093912 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
36093930 CACA
1 CACA
36093934 AGTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:36099552 original size:81 final size:82
Alignment explanation
Indices: 36099447--36099625 Score: 333
Period size: 81 Copynumber: 2.2 Consensus size: 82
36099437 GTTCGAATTC
*
36099447 TAAAAAAATTCAAAAAATCTAGTCCTCAATATTTACAAAAATTTTCAATTTAATTCTAATTCTAA
1 TAAAAAAATTC-ATAAATCTAGTCCTCAATATTTACAAAAATTTTCAATTTAATTCTAATTCTAA
36099512 AAATTAAAAATATA-TTT
65 AAATTAAAAATATATTTT
36099529 TAAAAAAATTCATAAATCTAGTCCTCAATATTTACAAAAATTTTCAATTTAATTCTAATTCTAAA
1 TAAAAAAATTCATAAATCTAGTCCTCAATATTTACAAAAATTTTCAATTTAATTCTAATTCTAAA
36099594 AATTAAAAATATATTTT
66 AATTAAAAATATATTTT
36099611 TAAAAAAATTCATAA
1 TAAAAAAATTCATAA
36099626 GAAATACAAA
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
81 66 0.69
82 29 0.31
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (82 bp):
TAAAAAAATTCATAAATCTAGTCCTCAATATTTACAAAAATTTTCAATTTAATTCTAATTCTAAA
AATTAAAAATATATTTT
Found at i:36112189 original size:6 final size:6
Alignment explanation
Indices: 36112178--36112204 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
36112168 GGCTTTAACT
36112178 AAAACG AAAACG AAAACG AAAACG AAA
1 AAAACG AAAACG AAAACG AAAACG AAA
36112205 TCTCATAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAACG
Found at i:36116092 original size:28 final size:29
Alignment explanation
Indices: 36116036--36116091 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
36116026 ATGTTATCTT
36116036 TTTTATTTATTTACCAAAATATTATAAAA
1 TTTTATTTATTTACCAAAATATTATAAAA
*
36116065 TTTT-TTTATTTACTAAAATA-TATAAAA
1 TTTTATTTATTTACCAAAATATTATAAAA
36116092 AACAAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
28 15 0.58
29 4 0.15
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTATTTATTTACCAAAATATTATAAAA
Found at i:36117225 original size:28 final size:30
Alignment explanation
Indices: 36117194--36117259 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
36117184 TTTTTGGTAT
*
36117194 ATTTTGGTAAAT-A-AAAAAAAGGGATAAC
1 ATTTTGGTAAATAATAAAAAAAAGGATAAC
36117222 ATTTTGGTAAATAATAAAAAAAAGGATAAC
1 ATTTTGGTAAATAATAAAAAAAAGGATAAC
36117252 ATTTTGGT
1 ATTTTGGT
36117260 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 12 0.34
29 1 0.03
30 22 0.63
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (30 bp):
ATTTTGGTAAATAATAAAAAAAAGGATAAC
Found at i:36117431 original size:9 final size:9
Alignment explanation
Indices: 36117419--36117449 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
36117409 GTTAAACGAG
36117419 TCGAGTTAT
1 TCGAGTTAT
*
36117428 TCGAGTTAA
1 TCGAGTTAT
36117437 TCGAGTTAT
1 TCGAGTTAT
36117446 TCGA
1 TCGA
36117450 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:36117520 original size:9 final size:9
Alignment explanation
Indices: 36117503--36117539 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
36117493 TGAGTTTTCG
36117503 AATTCGAAT
1 AATTCGAAT
*
36117512 AACTCGAAT
1 AATTCGAAT
36117521 AATTCGAAT
1 AATTCGAAT
36117530 AATTCGAAT
1 AATTCGAAT
36117539 A
1 A
36117540 TCAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:36118688 original size:20 final size:19
Alignment explanation
Indices: 36118663--36118700 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
36118653 AATTCTATTT
36118663 TTTTAATTTTATAACATATA
1 TTTTAATTTTATAA-ATATA
36118683 TTTTAATTTTATAAATAT
1 TTTTAATTTTATAAATAT
36118701 TTTATGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAATTTTATAAATATA
Found at i:36119732 original size:94 final size:96
Alignment explanation
Indices: 36119634--36119862 Score: 248
Period size: 104 Copynumber: 2.3 Consensus size: 96
36119624 TTGGTGGCAT
*
36119634 ATTTGGTGAAGCAATCTTGAATAGGTGAAATA-C-T-TGGGAAGAAAATTTGGAAAAGCCAGATT
1 ATTTGGTGAAGCAATCTTGAATAGGTGAAATAGCATATGGGAAGAAAATTTGGAAAAGCCAGACT
*
36119696 AAATAGGCAAAATAAAATTTCCTAAAAGGTAA
66 AAATAGGCAAAATAAAATGT-CTAAAAGGTAA
* * *
36119728 ATTTGGTGAAACAATCTTGAATAGGTGAAATATAATGCAAATACTTGGAAGCAAATTTGGAAAAG
1 ATTTGGTGAAGCAATCTTGAATAGGTG-AA-AT-A-GC--ATA-TGGGAAGAAAATTTGGAAAAG
* * * *
36119793 TCAGACTAAATAGGCAAAATAAGATGTCTTAGAGGTAA
59 CCAGACTAAATAGGCAAAATAAAATGTCTAAAAGGTAA
** * *
36119831 ATTTGACGAAGCAGTCTTGAAGAGGTGAAATA
1 ATTTGGTGAAGCAATCTTGAATAGGTGAAATA
36119863 TAATGCCTTG
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
94 26 0.23
95 2 0.02
96 2 0.02
97 1 0.01
99 1 0.01
100 1 0.01
101 2 0.02
102 3 0.03
103 31 0.28
104 42 0.38
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (96 bp):
ATTTGGTGAAGCAATCTTGAATAGGTGAAATAGCATATGGGAAGAAAATTTGGAAAAGCCAGACT
AAATAGGCAAAATAAAATGTCTAAAAGGTAA
Found at i:36119868 original size:103 final size:105
Alignment explanation
Indices: 36119661--36119868 Score: 294
Period size: 103 Copynumber: 2.0 Consensus size: 105
36119651 TGAATAGGTG
* *
36119661 AAATACTTGGGAAGAAAATTTGGAAAAGCCAGATTAAATAGGCAAAATAAAATTTCCTAAAAGGT
1 AAATACTTGGGAAGAAAATTTGGAAAAGCCAGACTAAATAGGCAAAATAAAATGTCCTAAAAGGT
** *
36119726 AAATTTGGTGAAACAATCTTGAATAGGTGAAATATAATGC
66 AAATTTGACGAAACAATCTTGAAGAGGTGAAATATAATGC
* * * * *
36119766 AAATACTT-GGAAGCAAATTTGGAAAAGTCAGACTAAATAGGCAAAATAAGATGT-CTTAGAGGT
1 AAATACTTGGGAAGAAAATTTGGAAAAGCCAGACTAAATAGGCAAAATAAAATGTCCTAAAAGGT
* *
36119829 AAATTTGACGAAGCAGTCTTGAAGAGGTGAAATATAATGC
66 AAATTTGACGAAACAATCTTGAAGAGGTGAAATATAATGC
36119869 CTTGGAGGTA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 42 0.46
104 41 0.45
105 8 0.09
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.25
Consensus pattern (105 bp):
AAATACTTGGGAAGAAAATTTGGAAAAGCCAGACTAAATAGGCAAAATAAAATGTCCTAAAAGGT
AAATTTGACGAAACAATCTTGAAGAGGTGAAATATAATGC
Found at i:36120244 original size:74 final size:74
Alignment explanation
Indices: 36120105--36120245 Score: 178
Period size: 74 Copynumber: 1.9 Consensus size: 74
36120095 ATAAGAGTAG
* * * * *
36120105 ATATATAATTAACTCTCCAAAGAAGGGGTTTGCCTAAATGAAAGAACTCTGTAATAGTAGATATA
1 ATATATAATGAACTCTCCAAAGAAGGAGTTTACCTAAATGAAAGAACTCCGAAATAGTAGATATA
36120170 TATATATAT
66 TATATATAT
** *
36120179 ATATATAATGAACTCTCCAATA-AAGGAGTTTACCTAAATGAGTGAACTCCGAAAGT-GTAGGTA
1 ATATATAATGAACTCTCCAA-AGAAGGAGTTTACCTAAATGAAAGAACTCCGAAA-TAGTAGATA
36120242 TATA
64 TATA
36120246 ATGAACTCTC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
74 55 0.96
75 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (74 bp):
ATATATAATGAACTCTCCAAAGAAGGAGTTTACCTAAATGAAAGAACTCCGAAATAGTAGATATA
TATATATAT
Found at i:36120274 original size:60 final size:60
Alignment explanation
Indices: 36120179--36120311 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 60
36120169 ATATATATAT
* * * *
36120179 ATATATAATGAACTCTCCAATAAAGGAGTTTACCTAAATGAGTGAACTCCGAAAGTGTAG
1 ATATATAATGAACTCTCCAATAAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
* *
36120239 GTATATAATGAACTCTCCAATGAAA-AAGTTCACCTAAATGAGTGAACACCGTAAGAGTAG
1 ATATATAATGAACTCTCCAAT-AAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
*
36120299 ACATATAATGAAC
1 ATATATAATGAAC
36120312 GGTTCACTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 61 0.95
61 3 0.05
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (60 bp):
ATATATAATGAACTCTCCAATAAAGAAGTTCACCTAAATGAGTGAACACCGAAAGAGTAG
Found at i:36120327 original size:47 final size:47
Alignment explanation
Indices: 36120266--36120358 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
36120256 CAATGAAAAA
*
36120266 GTTCACCTAAATGAGTGAACACCGTAAGAGTAGACATATAATGAACG
1 GTTCACCTAAATGAGTGAACACCATAAGAGTAGACATATAATGAACG
* * ** *
36120313 GTTCACTTGAATGAGTGAACTTCATAAGAGTAGATATATAATGAAC
1 GTTCACCTAAATGAGTGAACACCATAAGAGTAGACATATAATGAAC
36120359 TCTCTAACAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (47 bp):
GTTCACCTAAATGAGTGAACACCATAAGAGTAGACATATAATGAACG
Found at i:36135103 original size:52 final size:52
Alignment explanation
Indices: 36135042--36135145 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
36135032 GTTATAAAAT
36135042 TTTATTCAAATTT-AA-TCTTCACGTTTTATAACTTCAAAATACTATATTTGTA
1 TTTATTCAAATTTAAACTCTTCACG--TTATAACTTCAAAATACTATATTTGTA
36135094 TTTATTCAAATTTAAACTCTTCACGTTATAACTTCAAAATACTATATTTGTA
1 TTTATTCAAATTTAAACTCTTCACGTTATAACTTCAAAATACTATATTTGTA
36135146 ACAAATAGGG
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
52 40 0.80
53 2 0.04
54 8 0.16
ACGTcount: A:0.36, C:0.14, G:0.04, T:0.46
Consensus pattern (52 bp):
TTTATTCAAATTTAAACTCTTCACGTTATAACTTCAAAATACTATATTTGTA
Found at i:36136752 original size:57 final size:60
Alignment explanation
Indices: 36136653--36136790 Score: 169
Period size: 57 Copynumber: 2.3 Consensus size: 60
36136643 GGATTACTCG
* *
36136653 TCCGGGCTAAATCCATTTTCCACATATTCTTCGGGGGTGCTATATC-A-A-GATCACCCA
1 TCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGGGTGCTATATCGATAGGATCACCCA
* *
36136710 TCCGGGCTAGAT-CTTTTTCACACATATTCTTTGGGAGG-GCTATATCAGGATAGGATCACCCG
1 TCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGG-GGTGCTATATC--GATAGGATCACCCA
36136772 TCCGGGCTAGATCCTTTTT
1 TCCGGGCTAGATCCTTTTT
36136791 ACCGTCAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
56 6 0.09
57 33 0.48
58 2 0.03
60 1 0.01
61 1 0.01
62 20 0.29
63 6 0.09
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (60 bp):
TCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGGGTGCTATATCGATAGGATCACCCA
Found at i:36140052 original size:20 final size:20
Alignment explanation
Indices: 36140029--36140066 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36140019 GTGAAAACAA
36140029 AGGCA-AAAATGTGCAATCAG
1 AGGCACAAAA-GTGCAATCAG
*
36140049 AGGCACCAAAGTGCAATC
1 AGGCACAAAAGTGCAATC
36140067 TCGTACAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (20 bp):
AGGCACAAAAGTGCAATCAG
Found at i:36144072 original size:33 final size:32
Alignment explanation
Indices: 36143995--36144074 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 32
36143985 CGACATGCCC
* ** * *
36143995 GTGTGGCCCACACGGCCTACTTGCCCTAGCTT
1 GTGTGGCTCACACGGCCTACTACCCCCAGCCT
36144027 GTGTGG-TCCACACGGCCTACCTACCCCCAGCCT
1 GTGTGGCT-CACACGGCCTA-CTACCCCCAGCCT
36144060 GTGTGGCTCACACGG
1 GTGTGGCTCACACGG
36144075 TCTGGTACAC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 17 0.43
33 22 0.55
34 1 0.03
ACGTcount: A:0.14, C:0.39, G:0.26, T:0.21
Consensus pattern (32 bp):
GTGTGGCTCACACGGCCTACTACCCCCAGCCT
Found at i:36145788 original size:50 final size:51
Alignment explanation
Indices: 36145722--36145900 Score: 256
Period size: 50 Copynumber: 3.6 Consensus size: 51
36145712 AAATCTCATA
* ** * *
36145722 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCTC-ATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCTCAACGCCATG
** *
36145772 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG-TCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCTCAACGCCATG
*
36145822 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC-CAACCCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCTCAACGCCATG
36145872 TCCCAGACATGGTCTTACATGGGACCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
36145901 TTACCCAAAT
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
49 2 0.02
50 113 0.98
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (51 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCTCAACGCCATG
Found at i:36150515 original size:15 final size:15
Alignment explanation
Indices: 36150497--36150526 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36150487 TTAAAATAAT
*
36150497 TTTTTAACTTTTTAG
1 TTTTTAAATTTTTAG
36150512 TTTTTAAATTTTTAG
1 TTTTTAAATTTTTAG
36150527 AAAACAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTTAAATTTTTAG
Found at i:36152163 original size:19 final size:19
Alignment explanation
Indices: 36152139--36152177 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
36152129 ATAAGTAAAT
36152139 ACACATATCACTTCAATTC
1 ACACATATCACTTCAATTC
36152158 ACACATATCACTTCAATTC
1 ACACATATCACTTCAATTC
36152177 A
1 A
36152178 TCCATCATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (19 bp):
ACACATATCACTTCAATTC
Found at i:36152947 original size:45 final size:45
Alignment explanation
Indices: 36152583--36152940 Score: 450
Period size: 45 Copynumber: 7.9 Consensus size: 45
36152573 ATCTTATTTA
* * * * *
36152583 TTTTCGACATGATGCCATAGTGTCTTTCAACTATGGTCTTATTCA
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
** * * ***
36152628 TTTTCCG-TCATGTTGCCATAGTGTCTTTCAACCATGGTCTTATTTA
1 TTTT-CGAT-ATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
** *
36152674 TTTTCTG-TCATGTTTCCATAGTGTCTTTCAACTATGGCCTTATACG
1 TTTTC-GAT-ATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
36152720 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
36152765 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
36152810 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
* * * *
36152855 TTTTCGATATAGTGCCATAGTGTCTTTCAACTATGGTCTTACATG
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
** * * *
36152900 TTTTTTATATAATGTCATAGTGCCTTTCAACTATGGTCTTA
1 TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTA
36152941 CATGTTTGAA
Statistics
Matches: 287, Mismatches: 22, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
45 207 0.72
46 80 0.28
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (45 bp):
TTTTCGATATAATGCCATAGTGTCTTTCAACTATGGCCTTATACG
Found at i:36152984 original size:90 final size:90
Alignment explanation
Indices: 36152689--36152986 Score: 269
Period size: 90 Copynumber: 3.3 Consensus size: 90
36152679 TGTCATGTTT
* * * * * * ** *
36152689 CCATAGTGTCTTTCAACTATGGCCTTATACGTTTTCGATATAATGCCATAGTGTCTTTCAACTAT
1 CCATAGCGTATTTCAACTATAGTCTTACATGTTTTTTATATAATGCCATAGTGCCTTTCAACTAT
* * *
36152754 GGCCTTATACGTTTTCGATATAATG
66 GGCCTTACACGTTTTCGATAGAGTG
* * * * * * ** *
36152779 CCATAGTGTCTTTCAACTATGGCCTTATACGTTTTCGATATAATGCCATAGTGTCTTTCAACTAT
1 CCATAGCGTATTTCAACTATAGTCTTACATGTTTTTTATATAATGCCATAGTGCCTTTCAACTAT
* *
36152844 GGCCTTATACGTTTTCGATATAGTG
66 GGCCTTACACGTTTTCGATAGAGTG
* * * *
36152869 CCATAGTGTCTTTCAACTATGGTCTTACATGTTTTTTATATAATGTCATAGTGCCTTTCAACTAT
1 CCATAGCGTATTTCAACTATAGTCTTACATGTTTTTTATATAATGCCATAGTGCCTTTCAACTAT
* *
36152934 GGTCTTACATGTTTGAATCG-T-GA-TG
66 GGCCTTACACGTTT---TCGATAGAGTG
* *
36152959 CCATAGCGTATTTTAGCTATAGTCTTAC
1 CCATAGCGTATTTCAACTATAGTCTTAC
36152987 TCTTTTAATT
Statistics
Matches: 188, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
90 183 0.97
91 1 0.01
92 1 0.01
93 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (90 bp):
CCATAGCGTATTTCAACTATAGTCTTACATGTTTTTTATATAATGCCATAGTGCCTTTCAACTAT
GGCCTTACACGTTTTCGATAGAGTG
Found at i:36157469 original size:19 final size:19
Alignment explanation
Indices: 36157431--36157469 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
36157421 AAATAGCAAG
*
36157431 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGGATA
36157450 AATTCTATTTTCT-AGGATA
1 AATT-TATTTTCTAAGGATA
36157469 A
1 A
36157470 CAATTCTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTAAGGATA
Found at i:36158851 original size:60 final size:61
Alignment explanation
Indices: 36158733--36158865 Score: 146
Period size: 60 Copynumber: 2.2 Consensus size: 61
36158723 ATTAGCCTAA
* * *
36158733 TAACAAATTTAGTCCTCCAATGTTTACACATTTTATTAATTTGATGCTAAATCT-AAAAAT
1 TAACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCTAAAAAAT
* * ** *
36158793 TCAACAAATTTAGT-CTTCAATGTTTACAAAATTTA-TCATTTAATTTTAATTCTAAAAAAAT
1 T-AACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCT-AAAAAAT
*
36158854 TAATAAATTTAG
1 TAACAAATTTAG
36158866 CCCTAAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
59 13 0.21
60 29 0.48
61 19 0.31
ACGTcount: A:0.41, C:0.12, G:0.05, T:0.41
Consensus pattern (61 bp):
TAACAAATTTAGTCCTCCAATGTTTACAAAATTTATTAATTTAATGCTAAATCTAAAAAAT
Found at i:36159641 original size:52 final size:52
Alignment explanation
Indices: 36159506--36159715 Score: 267
Period size: 52 Copynumber: 4.0 Consensus size: 52
36159496 TGGGTCTCGA
*
36159506 AATTTTTTTGGGGTTTTGGGACATTGATGGTCGACACCAACTTTATCAGATT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
* ** * *
36159558 AAAAATTTTTTGGGGGTTTTGGGACATTGATGATCGATACCAACTGTATCAGATT
1 ---AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
** * *
36159613 AATTTTTTTTTGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
*** *
36159665 AATTTTTTTTTTGTTTTAGGACATTGATGGCCGACACCAACTTTATCAGAT
1 AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGAT
36159716 ATATATAGGT
Statistics
Matches: 138, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
52 90 0.65
55 48 0.35
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (52 bp):
AATTTTTTTGGGGTTTTGGGACATTGATGGCCGACACCAACTTTATCAGATT
Found at i:36159674 original size:107 final size:104
Alignment explanation
Indices: 36159506--36159715 Score: 267
Period size: 107 Copynumber: 2.0 Consensus size: 104
36159496 TGGGTCTCGA
* * *
36159506 AATTTTTTTGGGGTTTTGGGACATTGATGGTCGACACCAACTTTATCAGATTAAAAATTTTTTGG
1 AATTTTTTTGGGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATTAAAAATTTTTT--
* * *
36159571 GGGTTTTGGGACATTGATGATCGATACCAACTGTATCAGATT
64 -GGTTTTAGGACATTGATGACCGACACCAACTGTATCAGATT
** *** *
36159613 AATTTTTTTTTGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATTAATTTTTTTTTTG
1 AATTTTTTTGGGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATTAAAAATTTTTTGG
* *
36159678 TTTTAGGACATTGATGGCCGACACCAACTTTATCAGAT
66 TTTTAGGACATTGATGACCGACACCAACTGTATCAGAT
36159716 ATATATAGGT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
104 34 0.38
107 55 0.62
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (104 bp):
AATTTTTTTGGGGTTTTGGGACACTGATGGCCAACACCAACTTTATCAGATTAAAAATTTTTTGG
TTTTAGGACATTGATGACCGACACCAACTGTATCAGATT
Found at i:36165034 original size:6 final size:6
Alignment explanation
Indices: 36165023--36165127 Score: 124
Period size: 6 Copynumber: 17.7 Consensus size: 6
36165013 AATATATAAA
* * * *
36165023 AAATTG AAATTG AAAGTTG -TATTG -AATTG AAATTC AATTTG AAATTA
1 AAATTG AAATTG AAA-TTG AAATTG AAATTG AAATTG AAATTG AAATTG
* * *
36165070 AAATAG GAATTA AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG
1 AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG AAATTG
36165118 AAATTG AAAT
1 AAATTG AAAT
36165128 GAATTTATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
5 7 0.08
6 73 0.88
7 3 0.04
ACGTcount: A:0.50, C:0.01, G:0.15, T:0.34
Consensus pattern (6 bp):
AAATTG
Found at i:36165407 original size:18 final size:17
Alignment explanation
Indices: 36165361--36165400 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
36165351 TGGAATGAAA
*
36165361 TTAAAATGAAATTATAT
1 TTAAAATGAAAATATAT
36165378 TTAAAATGAAAATATAT
1 TTAAAATGAAAATATAT
36165395 TTAAAA
1 TTAAAA
36165401 AAGAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
TTAAAATGAAAATATAT
Found at i:36165412 original size:18 final size:17
Alignment explanation
Indices: 36165374--36165412 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
36165364 AAATGAAATT
* *
36165374 ATATTTAAAATGAAAAT
1 ATATTTAAAAAGAAAAA
36165391 ATATTTAAAAAAGAAAAA
1 ATATTT-AAAAAGAAAAA
36165409 ATAT
1 ATAT
36165413 ATTGATTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
ATATTTAAAAAGAAAAA
Found at i:36165846 original size:23 final size:23
Alignment explanation
Indices: 36165795--36165840 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
36165785 TTTGGGGTAG
* *
36165795 CTGTAATATCCCGAAAATTACTA
1 CTGTAATACCCCGAAAATTAATA
36165818 CTGTAATACCCCGAAAATTAATA
1 CTGTAATACCCCGAAAATTAATA
36165841 TAGTAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (23 bp):
CTGTAATACCCCGAAAATTAATA
Found at i:36169924 original size:89 final size:92
Alignment explanation
Indices: 36169824--36170029 Score: 265
Period size: 93 Copynumber: 2.3 Consensus size: 92
36169814 AATATGCAAC
* * * *
36169824 AAATTAAATTTATAGAT-ATAAGAA-A-ACACAAACATTCTAAAATATTAATACACGAAAATATA
1 AAATTAAATTTACAGATAAAAAAAATATACACAAACATTCTAAAAAATTAATACACGAAAATATA
**
36169886 AAATTCAAACAACAAACAATATGGACT
66 AAATTCAAACAACAAACAATACAGACT
* *
36169913 AAATTAAATTTACAGATACAAAAAAATATATATAAACATTCTAAAAAATTAATACACGAAAATAT
1 AAATTAAATTTACAGATA-AAAAAAATATACACAAACATTCTAAAAAATTAATACACGAAAATAT
* *
36169978 AAAATTCGAACAACAAATAATACAGACT
65 AAAATTCAAACAACAAACAATACAGACT
** *
36170006 AAATTTGATTTACAGATACAAAAA
1 AAATTAAATTTACAGATAAAAAAA
36170030 TTTTGAATAG
Statistics
Matches: 100, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
89 16 0.16
91 5 0.05
92 6 0.06
93 73 0.73
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (92 bp):
AAATTAAATTTACAGATAAAAAAAATATACACAAACATTCTAAAAAATTAATACACGAAAATATA
AAATTCAAACAACAAACAATACAGACT
Found at i:36170056 original size:93 final size:93
Alignment explanation
Indices: 36169853--36170029 Score: 291
Period size: 93 Copynumber: 1.9 Consensus size: 93
36169843 AAGAAAACAC
* **
36169853 AAACATTCTAAAATATTAATACACGAAAATATAAAATTCAAACAACAAACAATATGGACTAAATT
1 AAACATTCTAAAAAATTAATACACGAAAATATAAAATTCAAACAACAAACAATACAGACTAAATT
36169918 AAATTTACAGATACAAAAAAATATATAT
66 AAATTTACAGATACAAAAAAATATATAT
* *
36169946 AAACATTCTAAAAAATTAATACACGAAAATATAAAATTCGAACAACAAATAATACAGACTAAATT
1 AAACATTCTAAAAAATTAATACACGAAAATATAAAATTCAAACAACAAACAATACAGACTAAATT
**
36170011 TGATTTACAGATACAAAAA
66 AAATTTACAGATACAAAAA
36170030 TTTTGAATAG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (93 bp):
AAACATTCTAAAAAATTAATACACGAAAATATAAAATTCAAACAACAAACAATACAGACTAAATT
AAATTTACAGATACAAAAAAATATATAT
Found at i:36177054 original size:3 final size:3
Alignment explanation
Indices: 36177046--36177092 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
36177036 TCGAAAAACT
36177046 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
36177093 GTCAAAACCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:36178004 original size:13 final size:13
Alignment explanation
Indices: 36177986--36178010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36177976 CAACAAACAA
36177986 ATAAAGAAAAAAT
1 ATAAAGAAAAAAT
36177999 ATAAAGAAAAAA
1 ATAAAGAAAAAA
36178011 GCGCATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
ATAAAGAAAAAAT
Found at i:36178077 original size:17 final size:17
Alignment explanation
Indices: 36178055--36178104 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
36178045 CTATAAAATT
36178055 TATATAAAAAATATTTA
1 TATATAAAAAATATTTA
* *
36178072 TATATATAATATATTTA
1 TATATAAAAAATATTTA
*
36178089 TGAGAATAAAAAATAT
1 T-A-TATAAAAAATAT
36178105 ATANNNNNNN
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 16 0.62
18 1 0.04
19 9 0.35
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
TATATAAAAAATATTTA
Found at i:36178211 original size:20 final size:20
Alignment explanation
Indices: 36178183--36178229 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
36178173 GCATATATAT
*
36178183 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
36178203 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
36178223 ATATATA
1 ATATATA
36178230 CGTACATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:36179284 original size:18 final size:18
Alignment explanation
Indices: 36179261--36179296 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
36179251 TTCGATTTAC
36179261 GAATCTTTGATTTTCTTT
1 GAATCTTTGATTTTCTTT
36179279 GAATCTTTGATTTTCTTT
1 GAATCTTTGATTTTCTTT
36179297 CTATCTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (18 bp):
GAATCTTTGATTTTCTTT
Found at i:36179302 original size:18 final size:18
Alignment explanation
Indices: 36179262--36179305 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
36179252 TCGATTTACG
*
36179262 AATCTTTGATTTTCTTTG
1 AATCTTTGATTTTCTTTC
36179280 AATCTTTGATTTTCTTTC
1 AATCTTTGATTTTCTTTC
*
36179298 TATCTTTG
1 AATCTTTG
36179306 CTGTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.61
Consensus pattern (18 bp):
AATCTTTGATTTTCTTTC
Found at i:36179914 original size:45 final size:45
Alignment explanation
Indices: 36179864--36180001 Score: 183
Period size: 44 Copynumber: 3.1 Consensus size: 45
36179854 CTACATCTTT
* ** *
36179864 AGGGAGATAGGATTTGTTTA-CTTTCAACCTATTCCATTGCTGACC
1 AGGGAGATAGGATTTCTCAATC-TTCAACCTATTCCACTGCTGACC
36179909 AGGGAGATAGGA-TTCTCAATCTTCAACCTATTCCACTGCTGACC
1 AGGGAGATAGGATTTCTCAATCTTCAACCTATTCCACTGCTGACC
* * *
36179953 AGGGAGATAGGA-TTCACAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAGGATTTCTCAATCTTCAACCTATTCCACTGCTGACC
36179997 AGGGA
1 AGGGA
36180002 AGTAGAATTA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
44 72 0.85
45 13 0.15
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
AGGGAGATAGGATTTCTCAATCTTCAACCTATTCCACTGCTGACC
Found at i:36179943 original size:44 final size:44
Alignment explanation
Indices: 36179886--36180001 Score: 196
Period size: 44 Copynumber: 2.6 Consensus size: 44
36179876 TTTGTTTACT
* *
36179886 TTCAACCTATTCCATTGCTGACCAGGGAGATAGGATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
36179930 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
36179974 TTCAATCTATTCCACTGCTGCCCAGGGA
1 TTCAACCTATTCCACTGCTGACCAGGGA
36180002 AGTAGAATTA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:36180089 original size:132 final size:130
Alignment explanation
Indices: 36179953--36180600 Score: 886
Period size: 132 Copynumber: 4.9 Consensus size: 130
36179943 ACTGCTGACC
* * * * *
36179953 AGGGAGATAGGATTCACAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGTCT
1 AGGGAGATAAGATTGA-AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTG-CT
* ** * * * *
36180018 TCAATGTATTCCGTTGTAACCATAGGGAGGTAAAATTCGTCATCTTCGATCTACTCCGCTACTGC
64 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGC
36180083 TT
129 TT
* * * *
36180085 AGGGAGATAATATCTGAAATCTTCAACCTACTCCACTATTGTCTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGAT-TGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACT-GCT
* *
36180150 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGCCATCTTCGATCTGCTCCGCTACTA
64 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-GCCATCTTCGATCTGCTCCACTACTG
36180214 CTT
128 CTT
* * * * *
36180217 GGGGAGATAAGATCTGAAATCTTTAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTATTGGCT
1 AGGGAGATAAGAT-TGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACT-GCT
* * * *
36180282 TCAATGTACTCTATTGTAACCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
64 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGC
36180347 TT
129 TT
*
36180349 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTAGCT
1 AGGGAGATAAGA-TTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACT-GCT
*
36180414 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGC
64 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGC
36180479 TT
129 TT
* *
36180481 AGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCTAAGGAAGTAGAATTACTGGCT
1 AGGGAGATAAGA-TTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACT-GCT
*
36180546 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGTCATCTTCGATCTGCT
64 TCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTC-GCCATCTTCGATCTGCT
36180601 TCGCTGTCGG
Statistics
Matches: 464, Mismatches: 46, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 457 0.98
133 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (130 bp):
AGGGAGATAAGATTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGCTTC
AATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTT
Found at i:36180393 original size:264 final size:263
Alignment explanation
Indices: 36179970--36180600 Score: 992
Period size: 264 Copynumber: 2.4 Consensus size: 263
36179960 TAGGATTCAC
* * * * *
36179970 AATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGTCTTCAATGTATTCCGTTGT
1 AATCTTCAATCTATTCCACTGTTGTCCA-GGAAGTAGAATTACTGGCTTCAATGTACTCCATTGT
* * * * * *
36180035 AACCATAGGGAGGTAAAATTCGTCATCTTCGATCTACTCCGCTACTGCTTAGGGAGATAATATCT
65 AACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
36180100 GAAATCTTCAACCTACTCCACTATTGTCTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACT
130 GAAATCTTCAACCTACTCCACTATTGTCTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACT
* * * *
36180165 GTAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTACTTGGGGAGATAAGAT
195 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGAC
36180230 CTGA
260 CTGA
* * *
36180234 AATCTTTAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTATTGGCTTCAATGTACTCTATTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGG-AAGTAGAATTACTGGCTTCAATGTACTCCATTGT
* *
36180299 AACCACAGAGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
65 AACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCT
* * *
36180364 GAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACT
130 GAAATCTTCAACCTACTCCACTATTGTCTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACT
*
36180429 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAC
195 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGAC
36180494 CTGA
260 CTGA
* *
36180498 AATCTTCAATCTATTCCACTGTTGTCTAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTC-CAGGAAGTAGAATTACTGGCTTCAATGTACTCCATTGT
*
36180563 AACCACAGGGAGGTAAAATCTGTCATCTTCGATCTGCT
65 AACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCT
36180601 TCGCTGTCGG
Statistics
Matches: 333, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
263 2 0.01
264 328 0.98
265 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (263 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGAAGTAGAATTACTGGCTTCAATGTACTCCATTGTA
ACCACAGGGAGGTAAAATCCGTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGACCTG
AAATCTTCAACCTACTCCACTATTGTCTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTG
TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGACC
TGA
Found at i:36180396 original size:44 final size:45
Alignment explanation
Indices: 36180348--36180523 Score: 103
Period size: 44 Copynumber: 4.0 Consensus size: 45
36180338 CACTACTGCT
*
36180348 TAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTC-
1 TAGGGAGATAAGACCTGAAATCTTCAATCTACTCCACTGTTGTCA
* * * * * ***
36180392 TAGGGA-AGT-AGA-ATTACTAGCTTCAATGTACTCCACTGTAACCA
1 TAGGGAGA-TAAGACCTGA-AATCTTCAATCTACTCCACTGTTGTCA
* * * ** * * ** *
36180436 CAGGGAGGTAAAATCC-GCCATCTTCGATCTGCTCCACTACTG-CT
1 TAGGGAGATAAGA-CCTGAAATCTTCAATCTACTCCACTGTTGTCA
*
36180480 TAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTC
1 TAGGGAGATAAGACCTGAAATCTTCAATCTACTCCACTGTTGTC
36180524 TAAGGAAGTA
Statistics
Matches: 88, Mismatches: 35, Indels: 17
0.63 0.25 0.12
Matches are distributed among these distances:
42 2 0.02
43 25 0.28
44 43 0.49
45 18 0.20
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
TAGGGAGATAAGACCTGAAATCTTCAATCTACTCCACTGTTGTCA
Found at i:36180715 original size:44 final size:44
Alignment explanation
Indices: 36180660--36180803 Score: 112
Period size: 44 Copynumber: 3.3 Consensus size: 44
36180650 CGCTGTAACC
*
36180660 CAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGCA
1 CAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGCA
* * * * * * * *
36180704 CAGGAAGGCAAGATCTGCTATTTTTAACCTG-TTCCGCTGT-AACC
1 CAGGAAGGCAAG-GCTGGTGTCTTTGATCTGCTT-CGCTGTCAGCA
* * * * * **
36180748 CAGGGAGGCAAGGCTGGTGTCTTCGATATGCTTCGCTATCGGTG
1 CAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGCA
36180792 CAGGAAGGCAAG
1 CAGGAAGGCAAG
36180804 ATCTGCTATT
Statistics
Matches: 72, Mismatches: 24, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
43 15 0.21
44 39 0.54
45 18 0.25
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGTCAGCA
Found at i:36180761 original size:88 final size:88
Alignment explanation
Indices: 36180588--36180815 Score: 366
Period size: 88 Copynumber: 2.6 Consensus size: 88
36180578 AAATCTGTCA
*
36180588 TCTTCGATCTGCTTCGCTGTCGGCGCAAGAAGGCAAGATCTGCTATTTTTTTTAACCTGTTCCGC
1 TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTA---TTTTTAACCTGTTCCGC
36180653 TGTAACCCAGGGAGGCAAGGCTGGTG
63 TGTAACCCAGGGAGGCAAGGCTGGTG
* * *
36180679 TCTTTGATCTGCTTCGCTGTCAGCACAGGAAGGCAAGATCTGCTATTTTTAACCTGTTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGTTCCGCTGT
36180744 AACCCAGGGAGGCAAGGCTGGTG
66 AACCCAGGGAGGCAAGGCTGGTG
* * *
36180767 TCTTCGATATGCTTCGCTATCGGTGCAGGAAGGCAAGATCTGCTATTTT
1 TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTT
36180816 CACTGATCTG
Statistics
Matches: 127, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
88 86 0.68
91 41 0.32
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGGCGCAGGAAGGCAAGATCTGCTATTTTTAACCTGTTCCGCTGT
AACCCAGGGAGGCAAGGCTGGTG
Found at i:36186817 original size:13 final size:13
Alignment explanation
Indices: 36186799--36186823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36186789 CAACAAACAA
36186799 ATAAAGAAAAAAT
1 ATAAAGAAAAAAT
36186812 ATAAAGAAAAAA
1 ATAAAGAAAAAA
36186824 GCGCATAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
ATAAAGAAAAAAT
Found at i:36186903 original size:39 final size:41
Alignment explanation
Indices: 36186831--36186913 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
36186821 AAAGCGCATA
36186831 ATATATACATTGAAATTATGAAAAAACACTATAAAATTTAT
1 ATATATACATTGAAATTATGAAAAAACACTATAAAATTTAT
*
36186872 ATATATACATTGAAATTATGGAAAAA-A-TATAAAATTTAT
1 ATATATACATTGAAATTATGAAAAAACACTATAAAATTTAT
36186911 ATA
1 ATA
36186914 AAAAATATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 15 0.37
40 1 0.02
41 25 0.61
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (41 bp):
ATATATACATTGAAATTATGAAAAAACACTATAAAATTTAT
Found at i:36186989 original size:20 final size:20
Alignment explanation
Indices: 36186961--36187007 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
36186951 AAAGAAAAAT
*
36186961 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
36186981 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
36187001 ATATATA
1 ATATATA
36187008 CGTACATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:36189562 original size:22 final size:20
Alignment explanation
Indices: 36189522--36189562 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
36189512 ATTAACTTAC
*
36189522 TTATATTATATGTATTTATT
1 TTATATTATATATATTTATT
36189542 TTATATTATAAATATATTTAT
1 TTATATTAT--ATATATTTAT
36189563 AATAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTATATTATATATATTTATT
Found at i:36189587 original size:29 final size:29
Alignment explanation
Indices: 36189553--36189613 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
36189543 TATATTATAA
36189553 ATATATTTATAATA-ACTAAAAATAATACT
1 ATATATTTATAATATACTAAAAATAATA-T
* *
36189582 ATATATTTATTATATATTAAAAATAATAT
1 ATATATTTATAATATACTAAAAATAATAT
36189611 ATA
1 ATA
36189614 GATAAATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATATTTATAATATACTAAAAATAATAT
Found at i:36191710 original size:43 final size:43
Alignment explanation
Indices: 36191662--36191933 Score: 356
Period size: 43 Copynumber: 6.4 Consensus size: 43
36191652 AGCGTTTACA
* *
36191662 GAAAAAAACGCCGCTAAAGCTCATGTCCTTTAGCGGCGCTTAG
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
36191705 GAAAAAAACGCCGCTAATGATCATGTTCTTTAGCGGTGCTT-G
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * * *
36191747 GGAAAAAACGCCGCTAAAGGA-CATGATCTTTAGCAGCGCTTTG
1 GAAAAAAACGCCGCTAAA-GATCATGTTCTTTAGCGGCGCTTAG
* * *
36191790 GTAAAAAACGCCACTAATGATCATGTTCTTTAGCGGCGCTT-G
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
36191832 G-GAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* * * *
36191874 GAAAAAAACGCCACTAAAAATAATGTTCTTTAGCGGCGCATAG
1 GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
36191917 G-AAAAAACGCCGCTAAA
1 GAAAAAAACGCCGCTAAA
36191934 AGTAGTGTTC
Statistics
Matches: 201, Mismatches: 23, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
41 36 0.18
42 55 0.27
43 110 0.55
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (43 bp):
GAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:36191764 original size:85 final size:84
Alignment explanation
Indices: 36191664--36191933 Score: 391
Period size: 85 Copynumber: 3.2 Consensus size: 84
36191654 CGTTTACAGA
* *
36191664 AAAAAACGCCGCTAAAGCTCATGTCCTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAATGATCAT
1 AAAAAACGCCGCTAAAGATCATGT-CTTTAGCGGCGCTTAGGAAAAAAACGCCACTAATGATCAT
*
36191729 GTTCTTTAGCGGTGCTTGGG
65 GTTCTTTAGCGGCGCTTGGG
* * *
36191749 AAAAAACGCCGCTAAAGGA-CATGATCTTTAGCAGCGCTTTGGTAAAAAACGCCACTAATGATCA
1 AAAAAACGCCGCTAAA-GATCATG-TCTTTAGCGGCGCTTAGGAAAAAAACGCCACTAATGATCA
36191813 TGTTCTTTAGCGGCGCTTGGG
64 TGTTCTTTAGCGGCGCTTGGG
** *
36191834 -AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAAACGCCACTAAAAATAAT
1 AAAAAACGCCGCTAAAGATCATG-TCTTTAGCGGCGCTTAGGAAAAAAACGCCACTAATGATCAT
* *
36191898 GTTCTTTAGCGGCGCATAGG
65 GTTCTTTAGCGGCGCTTGGG
36191918 AAAAAACGCCGCTAAA
1 AAAAAACGCCGCTAAA
36191934 AGTAGTGTTC
Statistics
Matches: 166, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
83 2 0.01
84 72 0.43
85 90 0.54
86 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTCTTTAGCGGCGCTTAGGAAAAAAACGCCACTAATGATCATG
TTCTTTAGCGGCGCTTGGG
Done.