Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 95 of 240
Found at i:29812839 original size:25 final size:25
Alignment explanation
Indices: 29812811--29812928 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 25
29812801 AGTTATGTAT
29812811 TATGTAAGTTATTTATTATGAAAAC
1 TATGTAAGTTATTTATTATGAAAAC
* * *
29812836 TATGTAAGTTGTGTATTATGAAAAT
1 TATGTAAGTTATTTATTATGAAAAC
* * * **
29812861 TATGCTATGTAAGTTA-TAT-AAGTC
1 TATG-TAAGTTATTTATTATGAAAAC
* * * **
29812885 -ATATAAGTTATGTATTATGTAAGT
1 TATGTAAGTTATTTATTATGAAAAC
29812909 TATGTAAGTTATTTATTATG
1 TATGTAAGTTATTTATTATG
29812929 CAAATTGTTA
Statistics
Matches: 67, Mismatches: 22, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
22 7 0.10
23 5 0.07
24 3 0.04
25 46 0.69
26 6 0.09
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.46
Consensus pattern (25 bp):
TATGTAAGTTATTTATTATGAAAAC
Found at i:29813003 original size:13 final size:13
Alignment explanation
Indices: 29812985--29813019 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
29812975 AAGTTATGTA
29812985 ATTTATGTATAAT
1 ATTTATGTATAAT
29812998 ATTTATGTATAAT
1 ATTTATGTATAAT
*
29813011 ATTAATGTA
1 ATTTATGTA
29813020 AGTTATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTTATGTATAAT
Found at i:29813025 original size:22 final size:22
Alignment explanation
Indices: 29813000--29813060 Score: 122
Period size: 22 Copynumber: 2.8 Consensus size: 22
29812990 TGTATAATAT
29813000 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATGTAAG
29813022 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATGTAAG
29813044 TTATGTATAATATTAAT
1 TTATGTATAATATTAAT
29813061 TAATTAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
TTATGTATAATATTAATGTAAG
Found at i:29813174 original size:13 final size:15
Alignment explanation
Indices: 29813156--29813194 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
29813146 TATAAGTTTT
29813156 TGTAAGTTATG-A-A
1 TGTAAGTTATGTATA
29813169 TGTAAGTTATGTATTA
1 TGTAAGTTATGTA-TA
29813185 TGTAAGTTAT
1 TGTAAGTTAT
29813195 TTAAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
16 11 0.48
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (15 bp):
TGTAAGTTATGTATA
Found at i:29813189 original size:16 final size:16
Alignment explanation
Indices: 29813156--29813231 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
29813146 TATAAGTTTT
29813156 TGTAAGTTATG-A--A
1 TGTAAGTTATGTATTA
29813169 TGTAAGTTATGTATTA
1 TGTAAGTTATGTATTA
*
29813185 TGTAAGTTATTTAAATTA
1 TGTAAGTTATGT--ATTA
* *
29813203 TTTAAGTTGTGTATTA
1 TGTAAGTTATGTATTA
* *
29813219 TATAAGTCATGTA
1 TGTAAGTTATGTA
29813232 GGCTATGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.22
14 1 0.02
16 26 0.51
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.47
Consensus pattern (16 bp):
TGTAAGTTATGTATTA
Found at i:29815840 original size:8 final size:10
Alignment explanation
Indices: 29815817--29815853 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
29815807 ATTAATAACT
29815817 ATATATATCC
1 ATATATATCC
*
29815827 ATATATATTC
1 ATATATATCC
29815837 ATATATATCC
1 ATATATATCC
29815847 ATATATA
1 ATATATA
29815854 AGTAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATCC
Found at i:29816854 original size:16 final size:15
Alignment explanation
Indices: 29816833--29816863 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
29816823 CGTTTTCCCT
29816833 TAAAACGCCACTAATA
1 TAAAACGCCAC-AATA
29816849 TAAAACGCCACAATA
1 TAAAACGCCACAATA
29816864 GAATCTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.26, G:0.06, T:0.16
Consensus pattern (15 bp):
TAAAACGCCACAATA
Found at i:29817620 original size:15 final size:15
Alignment explanation
Indices: 29817600--29817637 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
29817590 ACCGTTGAAA
29817600 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
29817615 CCCTAAACCTCCAAC
1 CCCTAAATCTCAAAC
29817630 CCCTAAAT
1 CCCTAAAT
29817638 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:29820663 original size:38 final size:37
Alignment explanation
Indices: 29820613--29820796 Score: 140
Period size: 38 Copynumber: 4.7 Consensus size: 37
29820603 ATAGTATTAT
*
29820613 ATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
**** *
29820650 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATT
1 ATATTAAGAATTTTATTAAATTATATAAGAATATT---TA
* * * *
29820690 ATATTTAATAATAATTATTTTAAATTATATTA-TATAGTATTA
1 ATA-TTAAGAAT--TT-TATTAAATTATATAAGAATA-T-TTA
*
29820732 TATATTATG-ATTTTATTAAATTCATATAAGAATATTTA
1 -ATATTAAGAATTTTATTAAATT-ATATAAGAATATTTA
29820770 ATATTAAGAATTTTATTAAATTATATA
1 ATATTAAGAATTTTATTAAATTATATA
29820797 TTTTTATTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 28
0.71 0.11 0.17
Matches are distributed among these distances:
37 28 0.24
38 37 0.32
39 8 0.07
40 7 0.06
41 9 0.08
42 4 0.03
43 8 0.07
44 13 0.11
45 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTAAGAATTTTATTAAATTATATAAGAATATTTA
Found at i:29820681 original size:18 final size:18
Alignment explanation
Indices: 29820660--29820813 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
29820650 ATATTAAGAA
29820660 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
29820678 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
* *
29820693 -TTTAAT-AATAAT-TAT
1 TTTTATTAAATTATATAT
* * *
29820708 TTTAAATTATATTATATAG
1 TTT-TATTAAATTATATAT
* * *
29820727 TATTA-TATATTAT-GA-
1 TTTTATTAAATTATATAT
*
29820742 TTTTATTAAATTCATATAA
1 TTTTATTAAATT-ATATAT
*** * *
29820761 GAATATTTAATATTA-AGAA
1 TTTTA-TTAA-ATTATATAT
29820780 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
29820798 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
29820814 TTAATAATAA
Statistics
Matches: 100, Mismatches: 22, Indels: 28
0.67 0.15 0.19
Matches are distributed among these distances:
13 2 0.02
14 7 0.07
15 5 0.05
16 12 0.12
17 17 0.17
18 38 0.38
19 11 0.11
20 5 0.05
21 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:29820734 original size:120 final size:120
Alignment explanation
Indices: 29820595--29821075 Score: 750
Period size: 120 Copynumber: 4.0 Consensus size: 120
29820585 ATTATTAATC
* * * *
29820595 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* *
29820660 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * * *
29820715 TATATTATATAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
*
29820780 TTTTATTAAATTATATATTTTTATTA-AATTATATTTAATAATAATTATGTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTATGTTAAAT
* * *
29820835 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAATAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
* * *
29820900 TATTATTAAATTATATATTTTAATGATAATATATTTAATAATAATTATGTTAATT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
* *
29820955 TATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
29821020 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
29821076 ATGATTAAAT
Statistics
Matches: 343, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 336 0.98
121 7 0.02
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TATATTATATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGAATATTAAGAA
TTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAT
Found at i:29820936 original size:15 final size:15
Alignment explanation
Indices: 29820894--29820953 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
29820884 TATTGATTAT
*
29820894 TAATAATATTATTAAA
1 TAATAATA-TATTTAA
*
29820910 TTAT-ATAT-TTTAA
1 TAATAATATATTTAA
*
29820923 TGATAATATATTTAA
1 TAATAATATATTTAA
29820938 TAATAAT-TATGTTAA
1 TAATAATATAT-TTAA
29820953 T
1 T
29820954 TTATATTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
13 7 0.19
14 8 0.22
15 19 0.51
16 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TAATAATATATTTAA
Found at i:29821053 original size:16 final size:16
Alignment explanation
Indices: 29821032--29821073 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
29821022 TTATTAAATT
*
29821032 ATATATTTTAATTATA
1 ATATATTTTAATAATA
29821048 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
29821063 AT-TATGTTTAA
1 ATATAT-TTTAA
29821074 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:29821058 original size:15 final size:15
Alignment explanation
Indices: 29821023--29821064 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29821013 TTAAGAATTT
*
29821023 TATTAAATTAT-ATA
1 TATTTAATTATAATA
29821037 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
29821051 TATTTAATAATAAT
1 TATTTAATTATAAT
29821065 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:29821311 original size:16 final size:16
Alignment explanation
Indices: 29821290--29821357 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
29821280 GATTTGCTAT
29821290 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
29821306 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
29821322 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29821338 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
29821354 TACA
1 TACA
29821358 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:29821958 original size:41 final size:40
Alignment explanation
Indices: 29821910--29822149 Score: 194
Period size: 41 Copynumber: 5.8 Consensus size: 40
29821900 GCTTACATAT
* * * * *
29821910 AAAACGCCGCTAAATGCCAGAGTACTAGTGGCGCTCAGATA
1 AAAACGCCACTAAA-GACAGAGCATTAGTGGCGCTCAGACA
* * * * *
29821951 AAAACGCCACTGAAA-ACACGAACTTTAGCGGCGCTTAGAAA
1 AAAACGCCACT-AAAGACA-GAGCATTAGTGGCGCTCAGACA
* *
29821992 AAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACA
1 AAAACGCCACTAAAG-ACAGAGCATTAGTGGCGCTCAGACA
* * * * *
29822033 ATAACGCCACTAATGATACGAGCATTAGCGGCGCTTAGACA
1 AAAACGCCACTAAAGACA-GAGCATTAGTGGCGCTCAGACA
* * * *
29822074 AAAACGCCGCTAAAGGCCAGAACATTAGTGGCGCTCAGATA
1 AAAACGCCACTAAA-GACAGAGCATTAGTGGCGCTCAGACA
* * *
29822115 AAAACGCCACTAAAGATCGGAGAATTAGCGGCGCT
1 AAAACGCCACTAAAGA-CAGAGCATTAGTGGCGCT
29822150 AAAGTAAACA
Statistics
Matches: 154, Mismatches: 38, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
40 8 0.05
41 138 0.90
42 8 0.05
ACGTcount: A:0.38, C:0.24, G:0.23, T:0.15
Consensus pattern (40 bp):
AAAACGCCACTAAAGACAGAGCATTAGTGGCGCTCAGACA
Found at i:29822142 original size:82 final size:80
Alignment explanation
Indices: 29821891--29822171 Score: 309
Period size: 82 Copynumber: 3.4 Consensus size: 80
29821881 TAAAGGTAGC
* * * *
29821891 ATTAGCGGCGCTTACATATAAAACGCCGCTAAATGCCAGAGTACTAGTGGCGCTCAGATAAAAAC
1 ATTAGCGGCGCTTAGATA-AAAACGCCGCTAAAGGCCAGA-AATTAGTGGCGCTCAGATAAAAAC
29821956 GCCACTGAAA-A-C-ACGA
64 GCCACT-AAAGATCGA-GA
* ** * *
29821972 ACTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACAGAGAATTAGTGGCGCTCAGACAATAA
1 A--TTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGA-AATTAGTGGCGCTCAGATAAAAA
* *
29822037 CGCCACTAATGATACGAGC
63 CGCCACTAAAGAT-CGAGA
*
29822056 ATTAGCGGCGCTTAGACAAAAACGCCGCTAAAGGCCAGAACATTAGTGGCGCTCAGATAAAAACG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAA-ATTAGTGGCGCTCAGATAAAAACG
29822121 CCACTAAAGATCGGAGA
65 CCACTAAAGATC-GAGA
* *
29822138 ATTAGCGGCGC-TAAAGTAAACACGCCGCTAAAGG
1 ATTAGCGGCGCTTAGA-TAAAAACGCCGCTAAAGG
29822172 TTTAAAAATC
Statistics
Matches: 170, Mismatches: 21, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
81 8 0.05
82 143 0.84
83 15 0.09
84 3 0.02
85 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (80 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAAATTAGTGGCGCTCAGATAAAAACGC
CACTAAAGATCGAGA
Found at i:29833231 original size:38 final size:39
Alignment explanation
Indices: 29833168--29833245 Score: 140
Period size: 38 Copynumber: 2.0 Consensus size: 39
29833158 CAAGGAGGGG
29833168 AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
1 AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
*
29833207 AAAGAAAGAAA-AAAAAGTCAAAATGTGAGAAGAGAGAA
1 AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
29833245 A
1 A
29833246 CGTGAAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 27 0.71
39 11 0.29
ACGTcount: A:0.65, C:0.04, G:0.23, T:0.08
Consensus pattern (39 bp):
AAAGAAAGAAAGAAAAACTCAAAATGTGAGAAGAGAGAA
Found at i:29835961 original size:19 final size:19
Alignment explanation
Indices: 29835937--29835975 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
29835927 CTCTTTGTAA
*
29835937 ATCTTTAAATGGTAAAAGT
1 ATCTTTAAATGATAAAAGT
29835956 ATCTTTAAATGATAAAAGT
1 ATCTTTAAATGATAAAAGT
29835975 A
1 A
29835976 AGGGGGAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (19 bp):
ATCTTTAAATGATAAAAGT
Found at i:29838852 original size:21 final size:21
Alignment explanation
Indices: 29838824--29838885 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
29838814 ACATGTGCTA
29838824 AACAGAAACCCATAAGGGTTG
1 AACAGAAACCCATAAGGGTTG
* * * *
29838845 AACGGAAACTCATAAGAGCTG
1 AACAGAAACCCATAAGGGTTG
*
29838866 AATAGAAACCCATAAGGGTT
1 AACAGAAACCCATAAGGGTT
29838886 AAATTCAAGC
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
AACAGAAACCCATAAGGGTTG
Found at i:29838904 original size:42 final size:42
Alignment explanation
Indices: 29838820--29838942 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
29838810 GCATACATGT
* ***
29838820 GCTAAACAGAAACCCATAAGGGTTGAACGGAAACTCATAAGA
1 GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTCATAAGA
* * *
29838862 GCTGAATAGAAACCCATAAGGGTTAAATTCAAGCTCGA-AAGA
1 GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTC-ATAAGA
* ** * *
29838904 GCTAAACCGAAACCCATTCGGGTTAAATTGACACTCATA
1 GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTCATA
29838943 TGAGTTAACT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (42 bp):
GCTAAACAGAAACCCATAAGGGTTAAATTCAAACTCATAAGA
Found at i:29840651 original size:94 final size:94
Alignment explanation
Indices: 29840478--29840900 Score: 456
Period size: 94 Copynumber: 4.5 Consensus size: 94
29840468 AGATTCGAGG
* * * * * *
29840478 TTGTAGCTTTATCTTGCTCCACTGCATCTTCAGGGAGATTAGATTTGCTATTGTAGTTTCAATCT
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
** * ** *
29840543 ATTCCATTACAACTTCAGGGATATAGGAT
66 AAACTATTGTAACTTCAGGGGTATAGGAT
* * * *** *
29840572 TTGTAGCTCCATCTTGC-CCTACTGCAACTTTAGAGAGATAAGACACGCCATTGTAGCTTCATTC
1 TTGTAGCTTCATCTTGCTCC-ACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTC
* * *
29840636 CAAACTACTGTAACTTTAGGGGTATAAGAT
65 CAAACTATTGTAACTTCAGGGGTATAGGAT
* * * *
29840666 TTGTAGCTTCATCTTGCTCCACTACAAGTTCAGGGAGATAAAATTTGTTATTGTAGCTTCATTCC
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
* *
29840731 AAACCATTGTAACTGT-AGGGGTATAGGAC
66 AAACTATTGTAACT-TCAGGGGTATAGGAT
* * *
29840760 TTGTAGCTTTATCTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTATTGTAGTTTCATTCC
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
* * *
29840825 -GACTCATTGCAACTTCAGGGGTACAGGAT
66 AAACT-ATTGTAACTTCAGGGGTATAGGAT
* * **
29840854 TTATAGCTTCATCTTGCTTCACTAAAACTTCAGGGAGATAAGATTTG
1 TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
29840901 TAGCTTCATC
Statistics
Matches: 270, Mismatches: 54, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
93 5 0.02
94 262 0.97
95 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (94 bp):
TTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTCATTCC
AAACTATTGTAACTTCAGGGGTATAGGAT
Found at i:29840885 original size:44 final size:44
Alignment explanation
Indices: 29840835--29840942 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
29840825 GACTCATTGC
*
29840835 AACTTCAGGG-G-TACAGGATTTATAGCTTCATCTTGCTTCACTAA
1 AACTTCAGGGAGATA-A-GATTTATAGCTTCATCTTGCTCCACTAA
* **
29840879 AACTTCAGGGAGATAAGATTTGTAGCTTCATCTTGCTCCACTGT
1 AACTTCAGGGAGATAAGATTTATAGCTTCATCTTGCTCCACTAA
* *
29840923 AACTTCAGGTAGATGAGATT
1 AACTTCAGGGAGATAAGATT
29840943 CGCCATTGTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 52 0.93
45 2 0.04
46 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTTATAGCTTCATCTTGCTCCACTAA
Found at i:29846047 original size:34 final size:34
Alignment explanation
Indices: 29846007--29846077 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
29845997 TAACATAACA
29846007 TCAATTATATCATACCTTTCATAAACATAAATAT
1 TCAATTATATCATACCTTTCATAAACATAAATAT
29846041 TCAATTATATCATACCTTTCATAAACATAAATAT
1 TCAATTATATCATACCTTTCATAAACATAAATAT
29846075 TCA
1 TCA
29846078 TACTTTCACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (34 bp):
TCAATTATATCATACCTTTCATAAACATAAATAT
Found at i:29846216 original size:29 final size:29
Alignment explanation
Indices: 29846170--29846311 Score: 131
Period size: 29 Copynumber: 4.9 Consensus size: 29
29846160 TGTGTTAAAT
* * *
29846170 GATGGTCGTAACCGTCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATAATC
**
29846199 GATGGTTAAAACCATCCCTTTTCATTAATC
1 GATGGTCGAAACCATCCCTTTTCA-TAATC
** * *
29846229 GATGGTCGTCACTATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATAATC
* * *
29846258 GATAGTCGAAGCTATCCCTTTTCATAATC
1 GATGGTCGAAACCATCCCTTTTCATAATC
* * * *
29846287 GATAGCCGAATCTATCCCTTTTCAT
1 GATGGTCGAAACCATCCCTTTTCAT
29846312 TGGTCGATGA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
29 71 0.76
30 23 0.24
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATAATC
Found at i:29846275 original size:59 final size:58
Alignment explanation
Indices: 29846170--29846311 Score: 169
Period size: 59 Copynumber: 2.4 Consensus size: 58
29846160 TGTGTTAAAT
** * *
29846170 GATGGTCGTAACCGTCCCTTTTCATATTCGATGGTTAAAACCATCCCTTTTCATTAATC
1 GATGGTCGTAACTATCCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCA-TAATC
* * * *
29846229 GATGGTCGTCACTATCCCTTTTCATATTCGATAGTCGAAGCTATCCCTTTTCATAATC
1 GATGGTCGTAACTATCCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCATAATC
* *
29846287 GATAGCCG-AATCTATCCCTTTTCAT
1 GATGGTCGTAA-CTATCCCTTTTCAT
29846312 TGGTCGATGA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
57 1 0.01
58 25 0.35
59 45 0.63
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.37
Consensus pattern (58 bp):
GATGGTCGTAACTATCCCTTTTCATATTCGATAGTCAAAACCATCCCTTTTCATAATC
Found at i:29849170 original size:14 final size:14
Alignment explanation
Indices: 29849151--29849177 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29849141 GGGACCTTTT
29849151 ATGTAATGAAATGC
1 ATGTAATGAAATGC
29849165 ATGTAATGAAATG
1 ATGTAATGAAATG
29849178 TAATACTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (14 bp):
ATGTAATGAAATGC
Found at i:29853976 original size:10 final size:9
Alignment explanation
Indices: 29853961--29854040 Score: 56
Period size: 10 Copynumber: 8.6 Consensus size: 9
29853951 TTTTCTTACG
29853961 ATTTTATAAA
1 ATTTTAT-AA
29853971 ATTTTATAA
1 ATTTTATAA
* *
29853980 ATTTTTTAT
1 ATTTTATAA
*
29853989 ATTTCTATAT
1 ATTT-TATAA
29853999 ATTTTATAA
1 ATTTTATAA
*
29854008 CTTGTTACT-A
1 ATT-TTA-TAA
*
29854018 TTTTTATAAA
1 ATTTTAT-AA
29854028 ATTTTAT-A
1 ATTTTATAA
29854036 ATTTT
1 ATTTT
29854041 TTTTATTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
8 7 0.12
9 22 0.38
10 28 0.48
11 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (9 bp):
ATTTTATAA
Found at i:29853983 original size:19 final size:18
Alignment explanation
Indices: 29853961--29854040 Score: 65
Period size: 19 Copynumber: 4.3 Consensus size: 18
29853951 TTTTCTTACG
29853961 ATTTTATAAAATTTTATAA
1 ATTTTATAAAATTTTAT-A
* *
29853980 ATTTT-TTATATTTCTATA
1 ATTTTATAAAATTT-TATA
*
29853998 TATTTTAT-AACTTGTTACTA
1 -ATTTTATAAAATT-TTA-TA
*
29854018 TTTTTATAAAATTTTATA
1 ATTTTATAAAATTTTATA
29854036 ATTTT
1 ATTTT
29854041 TTTTATTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
18 13 0.27
19 27 0.56
20 8 0.17
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (18 bp):
ATTTTATAAAATTTTATA
Found at i:29854041 original size:19 final size:17
Alignment explanation
Indices: 29853962--29854086 Score: 56
Period size: 19 Copynumber: 6.8 Consensus size: 17
29853952 TTTCTTACGA
29853962 TTTTATAAAATTTTATAAAT
1 TTTTAT-AAATTTTAT--AT
*
29853982 TTTT-TATATTTCTATAT
1 TTTTATAAATTT-TATAT
*
29853999 ATTTTATAACTTGTTACTAT
1 -TTTTATAAATT-TTA-TAT
29854019 TTTTATAAAATTTTATAATT
1 TTTTAT-AAATTTTAT-A-T
* **
29854039 TTTTTTATTTTTTATGAT
1 TTTTATAAATTTTAT-AT
* * *
29854057 TTATATATATTCTA-AT
1 TTTTATAAATTTTATAT
29854073 TTTTAATAAATTTT
1 TTTT-ATAAATTTT
29854087 TAATATTGAA
Statistics
Matches: 81, Mismatches: 15, Indels: 21
0.69 0.13 0.18
Matches are distributed among these distances:
16 5 0.06
17 9 0.11
18 21 0.26
19 28 0.35
20 18 0.22
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (17 bp):
TTTTATAAATTTTATAT
Found at i:29854280 original size:88 final size:88
Alignment explanation
Indices: 29854177--29854393 Score: 248
Period size: 89 Copynumber: 2.5 Consensus size: 88
29854167 AATAAAAGCA
* * *
29854177 AGGG-CTTAATTGCTTTTTTGAAAAATTTTG-AGGATCTTTTTGAAGTATTTTGAAAGTTCAAGT
1 AGGGACTTAATTGCTTTTTTGAAAAATTTTGAAGG-TCTTTTTGAAGCACTTTAAAAGTTCAAGT
* * *
29854240 ACCCAATTGAGTGCAAAAAAATGT
65 ACCCAAATGAGTGAAAAAAAAAGT
* * *
29854264 AGGGACTTAATTGCTTTTTTAAAAAAGGTTTGAAGGTCTTTTTGATGCACTTTAAAAGTTCAAGT
1 AGGGACTTAATTGCTTTTTTGAAAAA-TTTTGAAGGTCTTTTTGAAGCACTTTAAAAGTTCAAGT
*
29854329 ACCGAAATGAGTGAAAAAAAAAGT
65 ACCCAAATGAGTGAAAAAAAAAGT
*
29854353 A-GAAGCTTAATTG-TATTTTTG-AAAATATTTGAAGG-CTTTTT
1 AGGGA-CTTAATTGCT-TTTTTGAAAAAT-TTTGAAGGTCTTTTT
29854394 TCACCCTTAA
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
87 10 0.09
88 35 0.32
89 63 0.57
90 3 0.03
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.37
Consensus pattern (88 bp):
AGGGACTTAATTGCTTTTTTGAAAAATTTTGAAGGTCTTTTTGAAGCACTTTAAAAGTTCAAGTA
CCCAAATGAGTGAAAAAAAAAGT
Found at i:29854532 original size:15 final size:15
Alignment explanation
Indices: 29854512--29854542 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29854502 GTCATGTAAG
29854512 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
29854527 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
29854542 T
1 T
29854543 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:29854733 original size:17 final size:17
Alignment explanation
Indices: 29854700--29854738 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
29854690 TAAGCTTTTG
29854700 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
29854717 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
29854734 ATTTT
1 ATTTT
29854739 CCACAATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:29855504 original size:15 final size:15
Alignment explanation
Indices: 29855480--29855509 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29855470 TGGAGATCGA
*
29855480 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
29855495 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
29855510 CAAGAAGGGA
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:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:29858889 original size:15 final size:15
Alignment explanation
Indices: 29858869--29858899 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29858859 GTCATGTAAG
29858869 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
29858884 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
29858899 T
1 T
29858900 ATATTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.32, T:0.23
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:29859090 original size:17 final size:17
Alignment explanation
Indices: 29859057--29859095 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
29859047 TAAGCTTTTG
29859057 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
29859074 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
29859091 ATTTT
1 ATTTT
29859096 CCACATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:29863913 original size:45 final size:44
Alignment explanation
Indices: 29863848--29863937 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 44
29863838 GAATAGAGGC
*
29863848 GTAATGGAATAGAAGTGTAATAGTAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAAGCGTAATAGT-AATCAACTGTTTGGTTGAAT
* ***
29863893 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAAGCGTAATAGTAATCAACTGTTTGGTTGAAT
29863937 G
1 G
29863938 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAAGCGTAATAGTAATCAACTGTTTGGTTGAAT
Found at i:29863952 original size:39 final size:43
Alignment explanation
Indices: 29863848--29863954 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 43
29863838 GAATAGAGGC
*
29863848 GTAATGGAATAGAAGTGTAATAGTAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGTAAATCAACTGTTTGGTT--AT
* ***
29863893 GTAATGGAATAGAGGCGTAATAGT-AATCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGTAAATCAACTGTTTGGTTAT
29863933 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGTGTAATAG
29863955 CATAATGGAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGTAAATCAACTGTTTGGTTAT
Found at i:29864131 original size:18 final size:16
Alignment explanation
Indices: 29864080--29864123 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
29864070 ATTTAATCAT
* *
29864080 ATTTAAACATAATTATT
1 ATTTAAATAT-ATTATA
29864097 A-TTAAATATATTATA
1 ATTTAAATATATTATA
29864112 ATTTAAATATAT
1 ATTTAAATATAT
29864124 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 17 0.71
17 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAAATATATTATA
Found at i:29864183 original size:61 final size:61
Alignment explanation
Indices: 29864117--29864424 Score: 260
Period size: 61 Copynumber: 5.1 Consensus size: 61
29864107 TTATAATTTA
* *
29864117 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATTAT
* * * * * * * *
29864178 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATAAATTTACTCA-AATTAT
* * *
29864237 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATTAT
* * * * * * * ** *
29864298 AATATATGATACT-ATAAAA-TATGAATTAA-C-ATAATTATTAT-TAAATATATTGTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATAAATTTACTCAAATTAT
*
29864357 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATAAATTTACTCAAATTAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATTAT
29864418 AATATAT
1 AATATAT
29864425 GATACTATAA
Statistics
Matches: 184, Mismatches: 45, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
58 4 0.02
59 61 0.33
60 45 0.24
61 70 0.38
62 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATAAATTTACTCAAATTAT
Found at i:29864228 original size:120 final size:120
Alignment explanation
Indices: 29864085--29864489 Score: 747
Period size: 120 Copynumber: 3.4 Consensus size: 120
29864075 ATCATATTTA
* *
29864085 AACATAATTATTATTAAATATATTATAATTTAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
29864150 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
29864205 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
29864270 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATGAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
29864325 AACATAATTATTATTAAATATATTGTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
29864390 TATTCTTATATAAATTTACTCAAATTATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
*
29864445 AACATATTTATTATTAAATATATTATAATTAAAATATATAATTTA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTA
29864490 TTATTAAATA
Statistics
Matches: 276, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 276 1.00
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:29864250 original size:14 final size:15
Alignment explanation
Indices: 29864201--29864252 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
29864191 ATAAAATATA
29864201 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
29864216 TATTAAATATATTAT
1 AATTAAATATATTAT
29864231 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
29864244 AATTTAATA
1 AATTAAATA
29864253 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:29864479 original size:16 final size:16
Alignment explanation
Indices: 29864441--29864532 Score: 59
Period size: 15 Copynumber: 5.8 Consensus size: 16
29864431 ATAAAATATA
*
29864441 AATTAACATAT-TTAT
1 AATTAAAATATATTAT
*
29864456 TATT-AAATATATTAT
1 AATTAAAATATATTAT
*
29864471 AATTAAAATATATAATT
1 AATTAAAATATATTA-T
* *
29864488 TATTATTAAATATATTAC
1 AATTA--AAATATATTAT
29864506 AATTTAAAAT-TATTA-
1 AA-TTAAAATATATTAT
29864521 ACATT-AAATATA
1 A-ATTAAAATATA
29864533 ATTTAATAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
14 9 0.15
15 15 0.25
16 15 0.25
17 9 0.15
18 1 0.02
19 12 0.20
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTAAAATATATTAT
Found at i:29867754 original size:13 final size:13
Alignment explanation
Indices: 29867736--29867761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29867726 TTCTTTTGAG
29867736 TTCAAAAATAATT
1 TTCAAAAATAATT
29867749 TTCAAAAATAATT
1 TTCAAAAATAATT
29867762 CTGATTTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
TTCAAAAATAATT
Found at i:29869625 original size:43 final size:43
Alignment explanation
Indices: 29869572--29869656 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
29869562 GAAATCGATT
*
29869572 AACTCAAACAAATAATGCAATACAGGCAAGAATCGAAACAAAG
1 AACTCAAACAAATAATGCAATACAGGCAAGAACCGAAACAAAG
*
29869615 AACTGAAACAAATAATGCAATACAGGCAAGAACCGAAACAAA
1 AACTCAAACAAATAATGCAATACAGGCAAGAACCGAAACAAA
29869657 CTATTTAGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.11
Consensus pattern (43 bp):
AACTCAAACAAATAATGCAATACAGGCAAGAACCGAAACAAAG
Found at i:29885612 original size:19 final size:19
Alignment explanation
Indices: 29885571--29885612 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
29885561 ACAATATTAT
* *
29885571 TATGTGGTGAACTATTAAT
1 TATGTGGTGAACTACTAAA
29885590 TATGTGGTGTAA-TACTAAA
1 TATGTGGTG-AACTACTAAA
29885609 TATG
1 TATG
29885613 CACTTGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.40
Consensus pattern (19 bp):
TATGTGGTGAACTACTAAA
Found at i:29887030 original size:24 final size:24
Alignment explanation
Indices: 29887003--29887051 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
29886993 TGTGTTAGGA
29887003 AAATTTACTAATTTAATAAGTATG
1 AAATTTACTAATTTAATAAGTATG
29887027 AAATTTACTAATTTAATAAGTATG
1 AAATTTACTAATTTAATAAGTATG
29887051 A
1 A
29887052 TTTCATGGGT
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:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (24 bp):
AAATTTACTAATTTAATAAGTATG
Found at i:29887817 original size:14 final size:14
Alignment explanation
Indices: 29887793--29887833 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
29887783 TTTTTCCAAA
* *
29887793 AAAAATCATTTTCT
1 AAAAATTATTTTCC
*
29887807 AGAAATTATTTTCC
1 AAAAATTATTTTCC
29887821 AAAAATTATTTTC
1 AAAAATTATTTTC
29887834 AATGAAACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.44
Consensus pattern (14 bp):
AAAAATTATTTTCC
Found at i:29888504 original size:28 final size:29
Alignment explanation
Indices: 29888451--29888519 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
29888441 CGAGTTGTTT
* * *
29888451 TCTCATTTTCTCCCAACCTCTTTTTCTTC
1 TCTCATTTTCTCCAAACATCATTTTCTTC
29888480 TCTCATTTTCTCCAAACAT-ATTTTCTTC
1 TCTCATTTTCTCCAAACATCATTTTCTTC
29888508 TCTCATTTTCTC
1 TCTCATTTTCTC
29888520 TCAAGCACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 20 0.54
29 17 0.46
ACGTcount: A:0.14, C:0.33, G:0.00, T:0.52
Consensus pattern (29 bp):
TCTCATTTTCTCCAAACATCATTTTCTTC
Found at i:29889967 original size:79 final size:79
Alignment explanation
Indices: 29889858--29890087 Score: 302
Period size: 79 Copynumber: 2.9 Consensus size: 79
29889848 TACGCCTCCG
* * * * *
29889858 TGTTACTCTGTTGATGAAGAATATGT--GATATCTGATTATGTTAGATTGATTGTTACTGGTTTT
1 TGTTACTTTGTTGAT-AAGGA-ATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCT
*
29889921 GGTTTATAATCCTCTA
64 GATTTATAATCCTCTA
*
29889937 TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTAATTGTTACTGATTCTGA
1 TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCTGA
* *
29890002 TTTATGATCTTCTA
66 TTTATAATCCTCTA
* * * * *
29890016 CGTTACTTTGTTGATGAGGAATATACGATATCTGAACATGTTAGATTGATTGTTACTGATTCTAA
1 TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCTGA
29890081 TTTATAA
66 TTTATAA
29890088 CCGTGCATGT
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
77 4 0.03
78 4 0.03
79 125 0.94
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (79 bp):
TGTTACTTTGTTGATAAGGAATGTACGATATCTGAATATGTTAGATTGATTGTTACTGATTCTGA
TTTATAATCCTCTA
Found at i:29890908 original size:13 final size:13
Alignment explanation
Indices: 29890890--29890914 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29890880 TATGATTTGA
29890890 TCTTTTGGGTTTT
1 TCTTTTGGGTTTT
29890903 TCTTTTGGGTTT
1 TCTTTTGGGTTT
29890915 GTAATCTGTT
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:0.00, C:0.08, G:0.24, T:0.68
Consensus pattern (13 bp):
TCTTTTGGGTTTT
Found at i:29893033 original size:21 final size:21
Alignment explanation
Indices: 29893007--29893047 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
29892997 AAATGATCAA
29893007 GAATCGATACTTTATGCCAGG
1 GAATCGATACTTTATGCCAGG
29893028 GAATCGATACTTTATGCCAG
1 GAATCGATACTTTATGCCAG
29893048 AATTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (21 bp):
GAATCGATACTTTATGCCAGG
Found at i:29895408 original size:13 final size:13
Alignment explanation
Indices: 29895390--29895415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29895380 CGAAATTATA
29895390 ATTATAATAATTT
1 ATTATAATAATTT
29895403 ATTATAATAATTT
1 ATTATAATAATTT
29895416 CGATAAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:29898044 original size:11 final size:11
Alignment explanation
Indices: 29898028--29898054 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
29898018 TAACCATACA
29898028 TACTGAATATT
1 TACTGAATATT
29898039 TACTGAATATT
1 TACTGAATATT
29898050 TACTG
1 TACTG
29898055 TGGGACTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (11 bp):
TACTGAATATT
Found at i:29905050 original size:14 final size:14
Alignment explanation
Indices: 29905031--29905057 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29905021 ATATTTTAGG
29905031 GTTATGATATTCAA
1 GTTATGATATTCAA
29905045 GTTATGATATTCA
1 GTTATGATATTCA
29905058 CATTCTCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
GTTATGATATTCAA
Found at i:29911637 original size:25 final size:24
Alignment explanation
Indices: 29911536--29911661 Score: 127
Period size: 22 Copynumber: 5.3 Consensus size: 24
29911526 CACTAATGAA
* *
29911536 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACCAACGTGCTATAAT
*
29911558 CAGAGAGCA-CAGATGTGCTA-AA-
1 CAGAGAGCACCA-ACGTGCTATAAT
** *
29911580 CAGAGAGCACTGACGTGCTAAAAT
1 CAGAGAGCACCAACGTGCTATAAT
*
29911604 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACCAACGTGCTA-TAAT
29911629 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCT-ATAAT
29911654 CAGAGAGC
1 CAGAGAGC
29911662 GCGCTAAAGT
Statistics
Matches: 87, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
21 1 0.01
22 33 0.38
23 2 0.02
24 18 0.21
25 32 0.37
26 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.15
Consensus pattern (24 bp):
CAGAGAGCACCAACGTGCTATAAT
Found at i:29912839 original size:41 final size:41
Alignment explanation
Indices: 29912755--29912841 Score: 97
Period size: 41 Copynumber: 2.1 Consensus size: 41
29912745 TTTGTTTTAT
* * * **
29912755 ATATAATAATAATATAATATAATAACTTACTTATTAATTAA
1 ATATCATAATAATATAATATAATAACTTAATTATAAAAAAA
29912796 ATATCATAAT-ATATAATATATATAACTTAAATTA-AAAAAAA
1 ATATCATAATAATATAATATA-ATAACTT-AATTATAAAAAAA
29912837 ATATC
1 ATATC
29912842 TTAGATATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
40 10 0.26
41 25 0.64
42 4 0.10
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (41 bp):
ATATCATAATAATATAATATAATAACTTAATTATAAAAAAA
Found at i:29918061 original size:21 final size:21
Alignment explanation
Indices: 29918001--29918092 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
29917991 AGCTTCATTC
*
29918001 TAAAAT-TAT-AAAAATTCAT
1 TAAAATATATAAAAAAATCAT
* *
29918020 AAAAAAAATATAACCAAAAATCAT
1 -TAAAATATATAA--AAAAATCAT
29918044 TACAAAT-TATAAAAAAATCAT
1 TA-AAATATATAAAAAAATCAT
**
29918065 ATAAAATATATTTAAAAATCAT
1 -TAAAATATATAAAAAAATCAT
29918087 TAAAAT
1 TAAAAT
29918093 CATTAATGAA
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.07
21 22 0.38
22 15 0.26
23 6 0.10
24 11 0.19
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAAATATATAAAAAAATCAT
Found at i:29918070 original size:11 final size:10
Alignment explanation
Indices: 29918035--29918098 Score: 51
Period size: 11 Copynumber: 6.2 Consensus size: 10
29918025 AAATATAACC
29918035 AAAAATCATT
1 AAAAATCATT
* * *
29918045 ACAAATTATAA
1 AAAAATCAT-T
29918056 AAAAATCATAT
1 AAAAATCAT-T
29918067 AAAATAT-ATTT
1 AAAA-ATCA-TT
29918078 AAAAATCATT
1 AAAAATCATT
29918088 -AAAATCATT
1 AAAAATCATT
29918097 AA
1 AA
29918099 TGAAATCTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
9 9 0.21
10 12 0.28
11 19 0.44
12 3 0.07
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATCATT
Found at i:29922492 original size:20 final size:21
Alignment explanation
Indices: 29922463--29922501 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
29922453 GGACTAAATA
*
29922463 AAAAATATTTGGAAATTTTAG
1 AAAAATATTTGAAAATTTTAG
29922484 AAAAA-ATTTGAAAATTTT
1 AAAAATATTTGAAAATTTT
29922502 GGACTACAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAAATATTTGAAAATTTTAG
Found at i:29931281 original size:21 final size:21
Alignment explanation
Indices: 29931256--29931311 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
29931246 TAATTATTAA
*
29931256 AAATTATATAGTTT-CCATTTT
1 AAATTATATA-TTTACCAATTT
*
29931277 AAATTTTATATTTAACCAATTT
1 AAATTATATATTT-ACCAATTT
*
29931299 AAATT-TAAATTTA
1 AAATTATATATTTA
29931312 AATTTGAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 4 0.13
21 15 0.50
22 11 0.37
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (21 bp):
AAATTATATATTTACCAATTT
Found at i:29931847 original size:32 final size:31
Alignment explanation
Indices: 29931810--29931910 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 31
29931800 TTAATATAAT
29931810 ATTTAGTATTTGAACTTAACACTTTTTTTCTA
1 ATTTAGTATTT-AACTTAACACTTTTTTTCTA
** *
29931842 ATTTAGTATTT--CGTT--TTCTTTTTTGCTTA
1 ATTTAGTATTTAAC-TTAACACTTTTTTTC-TA
*
29931871 ATTTAGTATTTAAACTTAACATTTTTTTTCTA
1 ATTTAGTATTT-AACTTAACACTTTTTTTCTA
29931903 ATTT-GTAT
1 ATTTAGTAT
29931911 CCCAAAACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
28 8 0.15
29 14 0.25
30 2 0.04
31 6 0.11
32 18 0.33
33 7 0.13
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.58
Consensus pattern (31 bp):
ATTTAGTATTTAACTTAACACTTTTTTTCTA
Found at i:29932416 original size:7 final size:7
Alignment explanation
Indices: 29932404--29932433 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
29932394 GTTGTTGTAA
29932404 GGTGAAG
1 GGTGAAG
29932411 GGTGAAG
1 GGTGAAG
29932418 GGTGAAG
1 GGTGAAG
29932425 GGTGAAG
1 GGTGAAG
29932432 GG
1 GG
29932434 GGGATCGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.60, T:0.13
Consensus pattern (7 bp):
GGTGAAG
Found at i:29936789 original size:15 final size:15
Alignment explanation
Indices: 29936740--29936781 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
29936730 CTTGAACTTC
*
29936740 ATTATTACTATTACT
1 ATTATTACTATTAAT
*
29936755 ATTATTAATATTAAT
1 ATTATTACTATTAAT
29936770 ATTATTACTATT
1 ATTATTACTATT
29936782 GTTATTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTACTATTAAT
Found at i:29938149 original size:16 final size:16
Alignment explanation
Indices: 29938124--29938157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29938114 TGTGTTTTGC
* *
29938124 TTTGATTGCATGGCAT
1 TTTGACTGCATAGCAT
29938140 TTTGACTGCATAGCAT
1 TTTGACTGCATAGCAT
29938156 TT
1 TT
29938158 CATCCTAAAA
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:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (16 bp):
TTTGACTGCATAGCAT
Found at i:29946985 original size:381 final size:381
Alignment explanation
Indices: 29946282--29947042 Score: 1380
Period size: 381 Copynumber: 2.0 Consensus size: 381
29946272 CTCTAGCCTC
*
29946282 CATGATTAAAGTAAACAGACAAGAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
1 CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
*
29946347 CTCATTGTTGCAATATCAAGGAAGAGGAAAAGGATGACAGCCCTTGGTATCAAGATATATTATGA
66 CTCATTGTTGCAATATCAAGGAAGAGGAAAAGGATGACAGCCCTTGGTATCAAGATATATTACGA
*
29946412 TATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGACGACT
131 TATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGAAGACT
*
29946477 AGCCATTGATTATGTTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTAA
196 AGCCATTGATTATATTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTAA
*
29946542 GATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTTCATGAGGGTATTTGCGGAACG
261 GATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTCCATGAGGGTATTTGCGGAACG
*
29946607 CATGCTAGTGGTTTCTCAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGTT
326 CATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGTT
* *
29946663 CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATTTATGAAACCCTAG
1 CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
*
29946728 CTCATTGTTGCAATATCAAGGAAG-GGAAAAAGGATGATAGCCCTTGGTATCAAGATATATTACG
66 CTCATTGTTGCAATATCAAGGAAGAGG-AAAAGGATGACAGCCCTTGGTATCAAGATATATTACG
* *
29946792 ATATTTGAAGAATCGTGAATATCCTGACCAGGCAGCTGAGAATGATAAGAGGACTCTGAGAAGAC
130 ATATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGAAGAC
*
29946857 TAGCCATTGATTATATTTTAGATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTA
195 TAGCCATTGATTATATTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTA
* *
29946922 AGATGTGTGGACGCTGTGGAGGCTAAAAAAGTTTTGGAGGAAGTCCATGAGGGTATTTGCGGAAC
260 AGATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTCCATGAGGGTATTTGCGGAAC
29946987 GCATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGT
325 GCATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGT
29947043 CCACTATAGA
Statistics
Matches: 365, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
380 2 0.01
381 363 0.99
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (381 bp):
CATGATTAAAGTAAACAGACAAAAGGACATGAAACCTATCCGGATGAGCATCTATGAAACCCCAG
CTCATTGTTGCAATATCAAGGAAGAGGAAAAGGATGACAGCCCTTGGTATCAAGATATATTACGA
TATTTGAAGAATCGTGAATATCCTAACCAGGCAGCTAAGAATGATAAGAGGACTCTGAGAAGACT
AGCCATTGATTATATTTTAAATGGAGAGATCTTATATAAAAGAGGGAAGGATCAGGTACTGTTAA
GATGTGTGGACGCTGTGGAGGCTAAAAAAATTTTGGAAGAAGTCCATGAGGGTATTTGCGGAACG
CATGCTAGTGGTTTCACAATGGCTAGACAGATTATGAGATTCGGGTACTACTGGTT
Found at i:29949389 original size:44 final size:43
Alignment explanation
Indices: 29949209--29949509 Score: 157
Period size: 44 Copynumber: 6.8 Consensus size: 43
29949199 ACAGATTAGC
* * * *
29949209 GAAGATAGCAGATCCTATCTCCCTAAGCAGTAGTGGAGCAAATC
1 GAAGA-AGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* * * *
29949253 GAAGACGACAAATCTTATCTTCCC-AAGCTAATAG-GGAAGCAGATT
1 GAAGAAG-TAGATCTTATC-TCCCTAAGC-AGTAGTGG-AGCAGATT
* * * * ** * * *
29949298 TAAGCCACTA-ATCCTATCTCCCTGTGCAGCAGTGGAGTAGGTT
1 GAAG-AAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
** *
29949341 GAAGAATGTAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATC
1 GAAGAA-GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* *
29949385 GAAGACAGT-GAATCTTATCT-TCTCAAGGTAGTAG-GGAAGCAGATT
1 GAAGA-AGTAG-ATCTTATCTCCCT-AA-GCAGTAGTGG-AGCAGATT
* * * * * *
29949430 TAAGCCACTA-ATCCTATCTCCCTGAGCAGTAGTGGAGTAGATT
1 GAAG-AAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
* *
29949473 AAAGAATGTAGATCTTGTCTCCCTAAGCAGTAGTGGA
1 GAAGAA-GTAGATCTTATCTCCCTAAGCAGTAGTGGA
29949510 ATAGATAAAA
Statistics
Matches: 188, Mismatches: 49, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
42 2 0.01
43 40 0.21
44 107 0.57
45 39 0.21
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAGAAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATT
Found at i:29949446 original size:132 final size:131
Alignment explanation
Indices: 29949226--29949738 Score: 670
Period size: 132 Copynumber: 3.9 Consensus size: 131
29949216 GCAGATCCTA
* * * * *
29949226 TCTCCCTAAGCAGTAGTGGAGCAAATCGAAGACGACAAATCTTATCTTCCCAAGCTAATAGGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
*
29949291 GCAGATTTAAGCCACTAATCCTATCTCCCTGTGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCT
66 GCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCT
29949356 GG
131 -G
* * *
29949358 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-AGTGAATCTTATCTTCTCAAGGTAGTAGGGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGA-CGAATCTTATCTTCCCAAGGTAGTAGGGA
* * *
29949422 AGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGTAGTGGAGTAGATTAAAGAATGTAGATC
65 AGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATC
29949487 TTG
130 -TG
** * * * * *
29949490 TCTCCCTAAGCAGTAGTGGAATAGATAAAAAAAATGGCGAATCTTATCTTTCCAAGGTAGTAGGG
1 TCTCCCTAAGCAGTAGTGGAGCAGAT--CAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGG
* * * * *
29949555 AAGCAGATTTAAGCCACCAATCCTATTTCCCTGAGCAGGAGTGGAGTAGGTTGAAGATTGCAGAT
64 AAGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGAT
29949620 CATG
129 C-TG
* * *
29949624 TTTCCTTGAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
* * * *
29949689 GCAGATTTAGGTCACT-AGCCTTATCTCTCTGAGCAGCAGTGGAGTAGGTT
66 GCAGATTTAAGCCACTAATCC-TATCTCCCTGAGCAGCAGTGGAGTAGGTT
29949739 AAAAATTACA
Statistics
Matches: 330, Mismatches: 45, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
131 4 0.01
132 215 0.65
133 1 0.00
134 110 0.33
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (131 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAA
GCAGATTTAAGCCACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGAATGTAGATCT
G
Found at i:29949762 original size:266 final size:266
Alignment explanation
Indices: 29949263--29949765 Score: 712
Period size: 266 Copynumber: 1.9 Consensus size: 266
29949253 GAAGACGACA
* *
29949263 AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACTAATCCTATCTCCCTGTGCAGC
1 AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGC
* *
29949328 AGTGGAGTAGGTTGAAGAATGTAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG
66 AGTGGAGTAGGTTGAAGAATGCAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAG
* * *
29949393 TGAATCTTATCTTCTCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAATCCTATCTCCCTGAGCA
131 CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGCCTATCTCCCTGAGCA
* *
29949458 GTAGTGGAGTAGATTAAAGAATGTAGATCTTGTCTCCCTAAGCAGTAGTGGAATAGATAAAAAAA
196 GCAGTGGAGTAGATTAAAGAATGTAGATCTTATCTCCCTAAGCAGTAGTGGAATAGATAAAAAAA
29949523 ATGGCG
261 ATGGCG
* * * * *
29949529 AATCTTATCTTTCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAATCCTATTTCCCTGAGCAGG
1 AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGC
* * * *
29949594 AGTGGAGTAGGTTGAAGATTGCAGATCAT-GTTTCCTTGAGCAGTAGTGGAGCAGATCAAAGAC-
66 AGTGGAGTAGGTTGAAGAATGCAGATC-TGGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACA
* * *
29949657 GACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAGGTCACT-AGCCTTATCTCTCTGA
130 G-CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGCC-TATCTCCCTGA
*
29949721 GCAGCAGTGGAGTAGGTTAAA-AAT-TACAGAT-TCTATCTCCCTAAG
193 GCAGCAGTGGAGTAGATTAAAGAATGT--AGATCT-TATCTCCCTAAG
29949766 TTGCAGTGGA
Statistics
Matches: 209, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
264 1 0.00
265 8 0.04
266 199 0.95
267 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (266 bp):
AATCTTATCTTCCCAAGCTAATAGGGAAGCAGATTTAAGCCACCAATCCTATCTCCCTGAGCAGC
AGTGGAGTAGGTTGAAGAATGCAGATCTGGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACAG
CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAAGCCTATCTCCCTGAGCA
GCAGTGGAGTAGATTAAAGAATGTAGATCTTATCTCCCTAAGCAGTAGTGGAATAGATAAAAAAA
ATGGCG
Found at i:29951101 original size:13 final size:13
Alignment explanation
Indices: 29951079--29951110 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
29951069 GGCGTTTCAA
*
29951079 TTATATTTATAAT
1 TTATACTTATAAT
29951092 TTATACTTATAAT
1 TTATACTTATAAT
29951105 TTATAC
1 TTATAC
29951111 ATATTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATACTTATAAT
Found at i:29962953 original size:48 final size:49
Alignment explanation
Indices: 29962897--29962989 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
29962887 GGAGTCCTAA
* * *
29962897 CCAAATGAGT-AG-GAAGAAACAAAGAAAATGATAATCCAGCTATGGCAG
1 CCAAATGAGTGAGAGAA-AAACAAAGAAAATAAAAATCCAACTATGGCAG
*
29962945 CCAAATGAGTGAGAGAAAAACAAAGGAAATAAAAATCCAACTATG
1 CCAAATGAGTGAGAGAAAAACAAAGAAAATAAAAATCCAACTATG
29962990 TTATTAACGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
48 10 0.26
49 26 0.67
50 3 0.08
ACGTcount: A:0.52, C:0.14, G:0.20, T:0.14
Consensus pattern (49 bp):
CCAAATGAGTGAGAGAAAAACAAAGAAAATAAAAATCCAACTATGGCAG
Found at i:29970164 original size:15 final size:15
Alignment explanation
Indices: 29970144--29970174 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29970134 TATTCGATGT
29970144 ATGATCACTCAATTA
1 ATGATCACTCAATTA
*
29970159 ATGATCACTCGATTA
1 ATGATCACTCAATTA
29970174 A
1 A
29970175 GCCATGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (15 bp):
ATGATCACTCAATTA
Found at i:29987625 original size:21 final size:18
Alignment explanation
Indices: 29987601--29987643 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
29987591 TTCTCATTTT
*
29987601 CAACAACTTCTTCTT-TAG
1 CAACAACTTCCTCTTCT-G
29987619 CAACAACTTCCTCTTCTG
1 CAACAACTTCCTCTTCTG
29987637 CAACAAC
1 CAACAAC
29987644 AACTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.30, C:0.35, G:0.05, T:0.30
Consensus pattern (18 bp):
CAACAACTTCCTCTTCTG
Found at i:29991058 original size:22 final size:21
Alignment explanation
Indices: 29990990--29991063 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
29990980 CAGTAAAGCT
* *
29990990 GCCAGTAACCAGAATGGCTAAGA
1 GCCA-TAAACAGAATGACTAA-A
*
29991013 GCCATAAACAGGAT-AGCTATAA
1 GCCATAAACAGAATGA-CTA-AA
*
29991035 GCTATAAACAGAATGACTACAA
1 GCCATAAACAGAATGACTA-AA
29991057 GCCATAA
1 GCCATAA
29991064 GTACAGTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
22 35 0.85
23 6 0.15
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (21 bp):
GCCATAAACAGAATGACTAAA
Found at i:29991110 original size:32 final size:32
Alignment explanation
Indices: 29991055--29991254 Score: 231
Period size: 32 Copynumber: 6.3 Consensus size: 32
29991045 GAATGACTAC
* * *
29991055 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
29991086 AAGCCATAAGTAGTGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
29991118 CAGCCATTAGTAATAGTAGTATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
29991150 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
29991182 TAGCCATCAGTAATGGTAATATGATCGGTACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* ** *
29991214 CAGTAATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
29991246 AAGCCATCA
1 AAGCCATCA
29991255 ATAACATTGC
Statistics
Matches: 142, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
31 11 0.08
32 131 0.92
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:29991146 original size:64 final size:64
Alignment explanation
Indices: 29991055--29991254 Score: 258
Period size: 64 Copynumber: 3.1 Consensus size: 64
29991045 GAATGACTAC
* * *
29991055 AAGCCATAAGT-ACAGTAATATGATTGGCACAAAGCCATAAGTAGTGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
* * * *
29991118 CAGCCATTAGTAATAGTAGTATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
* * * * * ** *
29991182 TAGCCATCAGTAATGGTAATATGATCGGTACACAGTAATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
29991246 AAGCCATCA
1 AAGCCATCA
29991255 ATAACATTGC
Statistics
Matches: 118, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
63 9 0.08
64 109 0.92
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (64 bp):
AAGCCATCAGTAATAGTAATATGATTGGCACAAAGCCATCAGTAGTGGTAATATGATCGGCACA
Found at i:29991237 original size:96 final size:95
Alignment explanation
Indices: 29991055--29991254 Score: 274
Period size: 96 Copynumber: 2.1 Consensus size: 95
29991045 GAATGACTAC
* * *
29991055 AAGCCATAAGTACAGTAATATGATTGGCACAAAGCCATAAGTAGTGGTAATATGATCGGCACACA
1 AAGCCATCAGTACAGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACACA
* * * *
29991120 GCCATTAGTAATAGTAGTATGATTGGCACA
66 GCAATCAGTAATAGTAATATGATCGGCACA
* * * *
29991150 AAGCCATCAGTAGTAGTAATATGATCGGCACATAGCCATCAGTAATGGTAATATGATCGGTACAC
1 AAGCCATCAGTA-CAGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACAC
* *
29991215 AGTAATCAGTAATGGTAATATGATCGGCACA
65 AGCAATCAGTAATAGTAATATGATCGGCACA
29991246 AAGCCATCA
1 AAGCCATCA
29991255 ATAACATTGC
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 11 0.12
96 80 0.88
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (95 bp):
AAGCCATCAGTACAGTAATATGATCGGCACAAAGCCATAAGTAATGGTAATATGATCGGCACACA
GCAATCAGTAATAGTAATATGATCGGCACA
Found at i:29991312 original size:26 final size:26
Alignment explanation
Indices: 29991263--29991313 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
29991253 CAATAACATT
** *
29991263 GCAGCAAAGCTGGCAGCAATAGTATC
1 GCAGCAAAGCTACCAGCAACAGTATC
*
29991289 GCAGCAAAGCTACCAGTAACAGTAT
1 GCAGCAAAGCTACCAGCAACAGTAT
29991314 ATGTGGCCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGCAACAGTATC
Found at i:29991330 original size:27 final size:26
Alignment explanation
Indices: 29991295--29991360 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
29991285 TATCGCAGCA
*
29991295 AAGCTACCAGTAACAGT-ATATGTGGCC
1 AAGCCACCAGTAACAGTGAT-TGTGG-C
*
29991322 AAGCCACCAATAACAGTGATTGTGGC
1 AAGCCACCAGTAACAGTGATTGTGGC
*
29991348 AGAGCCACTAGTA
1 A-AGCCACCAGTA
29991361 CATTACTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 29 0.88
28 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.20
Consensus pattern (26 bp):
AAGCCACCAGTAACAGTGATTGTGGC
Found at i:29991475 original size:24 final size:24
Alignment explanation
Indices: 29991439--29991527 Score: 117
Period size: 24 Copynumber: 3.7 Consensus size: 24
29991429 AAACAGTCAT
29991439 ACAAATCAATCATTTAAATCACAG
1 ACAAATCAATCATTTAAATCACAG
* * * *
29991463 ACAAATCAGTCATTTACATCTCGG
1 ACAAATCAATCATTTAAATCACAG
*
29991487 ACAAATCAATCATTTACATCACAGG
1 ACAAATCAATCATTTAAATCACA-G
29991512 A-AAATCAATCATTTAA
1 ACAAATCAATCATTTAA
29991528 CTCTAAGGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 54 0.96
25 2 0.04
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.27
Consensus pattern (24 bp):
ACAAATCAATCATTTAAATCACAG
Found at i:29991620 original size:81 final size:80
Alignment explanation
Indices: 29991519--29991693 Score: 251
Period size: 81 Copynumber: 2.2 Consensus size: 80
29991509 AGGAAAATCA
* * *
29991519 ATCATTTAACTCTAAGGGGCAAAAAAGTCATTTTACCCTACAGGGGAATTATGGTCATTTTACCC
1 ATCATTTTACCCTAAGGGGCAAAAAAGTCATTTTACCCTACAGGGGAATTACGGTCATTTTACCC
*
29991584 TATAGGGGCATTACG
66 TACAGGGGCATTACG
** ** * *
29991599 ATCATTTTACCCTACAGGGGCATTACGGTCATTTTATCCTACAGGGGTATTACGGTCATTTTACC
1 ATCATTTTACCCTA-AGGGGCAAAAAAGTCATTTTACCCTACAGGGGAATTACGGTCATTTTACC
29991664 CTACAGGGGCATTACG
65 CTACAGGGGCATTACG
29991680 ATCATTTTACCCTA
1 ATCATTTTACCCTA
29991694 GAGCAGCATT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 12 0.14
81 72 0.86
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (80 bp):
ATCATTTTACCCTAAGGGGCAAAAAAGTCATTTTACCCTACAGGGGAATTACGGTCATTTTACCC
TACAGGGGCATTACG
Found at i:29991863 original size:27 final size:27
Alignment explanation
Indices: 29991545--29991931 Score: 359
Period size: 27 Copynumber: 14.4 Consensus size: 27
29991535 GGGCAAAAAA
* *
29991545 GTCATTTTACCCTACAGGGGAATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
*
29991572 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
29991599 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
29991626 GTCATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
29991653 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * **
29991680 ATCATTTTACCCTAGAGCAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
29991707 ATCATTCTGCCCTATAGGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
29991734 GTTATTTTACCCTA-AATGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
29991760 GTCATTTTACCCTACAAGAGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * ***
29991787 ATCATTTTAACCTATAGGGGTGCTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
29991814 ATCATTTTACCTTTCAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
29991841 GTCATTTTACCGTACAGGGGCATTGCG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
29991868 ATCATTTTA-CCAATC-GAGGGTATTTCG
1 GTCATTTTACCCTA-CAG-GGGCATTACG
* * *
29991895 ATCATTTTACCCTTCA-GGGTATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
29991921 GTCATTTTACC
1 GTCATTTTACC
29991932 TTTCAAAGGT
Statistics
Matches: 293, Mismatches: 62, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
26 43 0.15
27 248 0.85
28 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:29991952 original size:27 final size:27
Alignment explanation
Indices: 29991593--29991971 Score: 164
Period size: 27 Copynumber: 14.1 Consensus size: 27
29991583 CTATAGGGGC
* * * *
29991593 ATTACGATCATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACCTTTCAAGGGT
* * *
29991620 ATTACGGTCATTTTATCC-TACAGGGGT
1 ATTACGATCATTTTA-CCTTTCAAGGGT
* * * * *
29991647 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGATCATTTTACCTTTCAAGGGT
* * *
29991674 ATTACGATCATTTTACC-CT-AGAGCAGC
1 ATTACGATCATTTTACCTTTCA-AG-GGT
** * * *
29991701 ATTACGATCATTCTGCCCTAT-AGGGGC
1 ATTACGATCATT-TTACCTTTCAAGGGT
* * * * * * *
29991728 GTTACGGTTATTTTACC-CTAAATGGC
1 ATTACGATCATTTTACCTTTCAAGGGT
* * * * *
29991754 ATTATGGTCATTTTACCCTACAAGAGT
1 ATTACGATCATTTTACCTTTCAAGGGT
* *
29991781 ATTACGATCATTTTAACCTAT-AGGGGT
1 ATTACGATCATTTT-ACCTTTCAAGGGT
** *
29991808 GCTACGATCATTTTACCTTTC-AGAGGC
1 ATTACGATCATTTTACCTTTCAAG-GGT
* * * * *
29991835 ATTACGGTCATTTTACCGTACAGGGGC
1 ATTACGATCATTTTACCTTTCAAGGGT
* ** *
29991862 ATTGCGATCATTTTACCAATCGAGGGT
1 ATTACGATCATTTTACCTTTCAAGGGT
* *
29991889 ATTTCGATCATTTTACCCTTC-AGGGT
1 ATTACGATCATTTTACCTTTCAAGGGT
* *
29991915 ATTACGGTCATTTTACCTTTCAAAGGT
1 ATTACGATCATTTTACCTTTCAAGGGT
**
29991942 A-TATCGATCATTTTACCTTTTGAGGGT
1 ATTA-CGATCATTTTACCTTTCAAGGGT
29991969 ATT
1 ATT
29991972 CTAGTAATTT
Statistics
Matches: 270, Mismatches: 67, Indels: 29
0.74 0.18 0.08
Matches are distributed among these distances:
25 2 0.01
26 55 0.20
27 200 0.74
28 11 0.04
29 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTACGATCATTTTACCTTTCAAGGGT
Found at i:29991982 original size:80 final size:81
Alignment explanation
Indices: 29991751--29991983 Score: 190
Period size: 80 Copynumber: 2.9 Consensus size: 81
29991741 TACCCTAAAT
* * * * * * **
29991751 GGCATTATGGTCATTTTACCCTAC-AAGAGTATTACGATCATTTTAACCTATAG-GGGT-GCTAC
1 GGCATTACGGTCATTTTACCGTACAAAG-GCATTGCGATCATTTT-ACCAATCGAGGGTATTTA-
* *
29991813 GATCATTTTACCTTTCAGA
63 GATAATTTTACCCTTCAGA
** *
29991832 GGCATTACGGTCATTTTACCGTACAGGGGCATTGCGATCATTTTACCAATCGAGGGTATTTCGAT
1 GGCATTACGGTCATTTTACCGTACAAAGGCATTGCGATCATTTTACCAATCGAGGGTATTTAGAT
*
29991897 CATTTTACCCTTCAG-
66 AATTTTACCCTTCAGA
* * * * ** *
29991912 GGTATTACGGTCATTTTACCTTTCAAAGGTATAT-CGATCATTTTACCTTTTGAGGGTATTCTAG
1 GGCATTACGGTCATTTTACCGTACAAAGGCAT-TGCGATCATTTTACCAATCGAGGGTATT-TAG
29991976 -TAATTTTA
64 ATAATTTTA
29991984 TATTTCGATA
Statistics
Matches: 124, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
80 62 0.50
81 60 0.48
82 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
GGCATTACGGTCATTTTACCGTACAAAGGCATTGCGATCATTTTACCAATCGAGGGTATTTAGAT
AATTTTACCCTTCAGA
Found at i:29992034 original size:43 final size:43
Alignment explanation
Indices: 29991945--29992034 Score: 103
Period size: 43 Copynumber: 2.1 Consensus size: 43
29991935 CAAAGGTATA
* * *
29991945 TCGATCATTTTACCTTTTGAGGGTATTCTAGTAATTTTATATT
1 TCGATAATTTTACCTTTTGAGGGTATTCTAGTAATTTTACACT
* *
29991988 TCGATAATTTTATCC-TTTGAGGGTATT-TTGATAATTTTACCCT
1 TCGATAATTTTA-CCTTTTGAGGGTATTCTAG-TAATTTTACACT
29992031 TCGA
1 TCGA
29992035 AGTTATTTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.05
43 36 0.90
44 2 0.05
ACGTcount: A:0.23, C:0.13, G:0.14, T:0.49
Consensus pattern (43 bp):
TCGATAATTTTACCTTTTGAGGGTATTCTAGTAATTTTACACT
Found at i:29992041 original size:27 final size:27
Alignment explanation
Indices: 29991984--29992054 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
29991974 AGTAATTTTA
* * *
29991984 TATTTCGATAATTTTATCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTCGAAGG
* *
29992011 TATTTTGATAATTTTACCCTTCGAAGT
1 TATTTCGATAATTTTACCCTTCGAAGG
29992038 TATTTC-AGTAATTTTAC
1 TATTTCGA-TAATTTTAC
29992055 AACCTTTTCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 36 0.97
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.49
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTCGAAGG
Found at i:30002298 original size:21 final size:21
Alignment explanation
Indices: 30002272--30002314 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30002262 TCCATTTACC
30002272 TTAATTTTTCCTTCTATTATA
1 TTAATTTTTCCTTCTATTATA
30002293 TTAATTTTTCCTTCTATTATA
1 TTAATTTTTCCTTCTATTATA
30002314 T
1 T
30002315 CCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (21 bp):
TTAATTTTTCCTTCTATTATA
Found at i:30003320 original size:23 final size:23
Alignment explanation
Indices: 30003290--30003335 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
30003280 GATTGAGGTC
30003290 TGTTCTTTGTAATTTTTATATTT
1 TGTTCTTTGTAATTTTTATATTT
30003313 TGTTCTTTGTAATTTTTATATTT
1 TGTTCTTTGTAATTTTTATATTT
30003336 CTGAGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.09, T:0.70
Consensus pattern (23 bp):
TGTTCTTTGTAATTTTTATATTT
Found at i:30004992 original size:13 final size:13
Alignment explanation
Indices: 30004974--30004998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30004964 GTTGATGGTT
30004974 TTGAAGTTATAAG
1 TTGAAGTTATAAG
30004987 TTGAAGTTATAA
1 TTGAAGTTATAA
30004999 TGTACTTTAA
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (13 bp):
TTGAAGTTATAAG
Found at i:30007915 original size:50 final size:50
Alignment explanation
Indices: 30007837--30007933 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
30007827 ACTCACTTGA
* * *
30007837 GACTTCCTTGCCTTATTTGCTTAACTTTTTCTAGACACTGGAGCTTCCAT
1 GACTTCCTCGCCTTATCTGCTTAACTTTTTCTAGACACTAGAGCTTCCAT
* *
30007887 GACTTCCTCGCCTTATCTGCTTAGCTTTTTCTAGACGCTAGAGCTTC
1 GACTTCCTCGCCTTATCTGCTTAACTTTTTCTAGACACTAGAGCTTC
30007934 TATTCTCCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.16, C:0.28, G:0.15, T:0.40
Consensus pattern (50 bp):
GACTTCCTCGCCTTATCTGCTTAACTTTTTCTAGACACTAGAGCTTCCAT
Found at i:30013199 original size:17 final size:18
Alignment explanation
Indices: 30013170--30013206 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30013160 CTTTTTTATT
30013170 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
30013188 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
30013205 TT
1 TT
30013207 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:30025803 original size:49 final size:49
Alignment explanation
Indices: 30025724--30026653 Score: 530
Period size: 49 Copynumber: 19.4 Consensus size: 49
30025714 GCAATTTAAA
* * * *
30025724 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTAGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * ** *
30025773 AGATTGAAGCTACAACGGCGAGTCTCACTTCC---CCATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGA-TGCAGTGGAAC
* * * * *
30025820 AGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * ** *
30025869 AAATTGAAGCTACAACGGCGAGTCTCACTTTCC---C-ATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCAC-TTCCAGGCGA-TGCAGTGGAAC
* * * * *
30025916 AGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * * ** *
30025965 AGATTGAAGTTACAACGGCGAGTCTCACTTCC---CCATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGA-TGCAGTGGAAC
* * * * *
30026012 AGATCGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * *
30026061 AGATTGAAGCTACAACGGC-AAGTTTCACTTCC---C----CATTGCAAT
1 AGATTGAAGCTACAACGGCGAA-TCTCACTTCCAGGCGATGCAGTGGAAC
* * * *
30026103 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * ** *
30026152 AGATTGAAGCTACAACGGCGAGTCTCACTTCC---CCATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGA-TGCAGTGGAAC
* * * *
30026199 AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * **
30026248 AGATTGAAGCTACAACGGCGAGTCTCACTTCC---CCATTGCAATTTAA-
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGA-TGCAGTGGAAC
* * * * * * *
30026294 ATATCGAAGCCACAACGGCGAATCTTACTTTCAGACGATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * *
30026343 AGATTGAAGCTACAACGGCGAGTCTCACTTCC---C----CATTGCAAT
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * * ** *
30026385 AGATCGAAGCCACAATGGCGAATCTTACTTCCAGGCGATGCAGCAGAAT
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * * * * *
30026434 AGATTGAAGCTACAACAGCGAGTCTCACTTCCCCGAC-ATTGCAAT-TAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTT-CCAGGCGA-TGCAGTGGAAC
* * * * ** * *
30026483 AGATTGAAGCCATAACGACGAATCTCATTTCCTTGCGGTGTAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
* * * * ** *
30026532 AGATTGAAGCTACGATGGCGAATCTCGCTTCCCCA-AC-ATTGCAGTCAAAT
1 AGATTGAAGCTACAACGGCGAATCTCACTT--CCAGGCGA-TGCAGTGGAAC
* * *
30026582 AGATTGAAGCTACAACAGCGAATCTCACAT-CATTGGCGATACAGTGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCA--GGCGATGCAGTGGAAC
*
30026632 AGATTGAAGCTACAATGGCGAA
1 AGATTGAAGCTACAACGGCGAA
30026654 CCTTGTTTTG
Statistics
Matches: 639, Mismatches: 192, Indels: 99
0.69 0.21 0.11
Matches are distributed among these distances:
42 62 0.10
43 2 0.00
45 2 0.00
46 40 0.06
47 139 0.22
48 15 0.02
49 296 0.46
50 80 0.13
51 3 0.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (49 bp):
AGATTGAAGCTACAACGGCGAATCTCACTTCCAGGCGATGCAGTGGAAC
Found at i:30025875 original size:96 final size:96
Alignment explanation
Indices: 30025711--30026652 Score: 1336
Period size: 96 Copynumber: 9.9 Consensus size: 96
30025701 GTAACCATAG
**
30025711 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGTAGAACAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
30025776 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
66 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
* *
30025807 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCCAGGCGATGCAGCGGAACAAA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
30025872 TTGAAGCTACAACGGCGAGTCTCACTTTCCC
66 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
*
30025903 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
30025968 TTGAAGTTACAACGGCGAGTCTCACTTCCCC
66 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
*
30025999 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAAGCGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* *
30026064 TTGAAGCTACAACGGCAAGTTTCACTTCCCC
66 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
30026095 ATTGCAA--T---AGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
30026155 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
66 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
30026186 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
30026251 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
66 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
* * *
30026282 ATTGCAATTT-AAATATCGAAGCCACAACGGCGAATCTTACTTTCAGACGATGCAGCGGAACAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
30026346 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
66 TTGAAGCTACAACGGCGAGTCTCACTTCCCC
* * *
30026377 ATTGCAA--T---AGATCGAAGCCACAATGGCGAATCTTACTTCCAGGCGATGCAGCAGAATAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
*
30026437 TTGAAGCTACAACAGCGAGTCTCACTTCCCCGAC
66 TTGAAGCTACAACGGCGAGTCTCACTT-CCC--C
* * * * * ** * * *
30026471 ATTGCAA-TTAAAAGATTGAAGCCATAACGACGAATCTCATTTCCTTGCGGTGTAGTGGAACAGA
1 ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
* * * *
30026535 TTGAAGCTACGATGGCGAATCTCGCTTCCCCAAC
66 TTGAAGCTACAACGGCGAGTCTCACTT-CCC--C
* * * * * * * * *
30026569 ATTGC-AGTCAAATAGATTGAAGCTACAACAGCGAATCTCACAT-CATTGGCGATACAGTGGAAC
1 ATTGCAATTTAAA-AGATCGAAGCCACAACGGCGAATCTTACTTCCA--GGCGATGCAGCGGAAC
*
30026632 AGATTGAAGCTACAATGGCGA
63 AGATTGAAGCTACAACGGCGA
30026653 ACCTTGTTTT
Statistics
Matches: 770, Mismatches: 60, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
91 159 0.21
92 3 0.00
93 2 0.00
94 9 0.01
95 90 0.12
96 373 0.48
97 1 0.00
98 77 0.10
99 24 0.03
100 32 0.04
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (96 bp):
ATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGA
TTGAAGCTACAACGGCGAGTCTCACTTCCCC
Found at i:30027299 original size:5 final size:5
Alignment explanation
Indices: 30027289--30027315 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30027279 GCGTTCCTTG
30027289 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
30027316 TCCTTTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:30028106 original size:3 final size:3
Alignment explanation
Indices: 30028100--30028136 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
30028090 AACTAATAAG
*
30028100 TTA TTA TTA TGA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30028137 CTATGTCTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:30028258 original size:17 final size:18
Alignment explanation
Indices: 30028229--30028265 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
30028219 CTTTTTTATT
30028229 TTATATAGATATAAATAC
1 TTATATAGATATAAATAC
*
30028247 TTATAT-GATATATATAC
1 TTATATAGATATAAATAC
30028264 TT
1 TT
30028266 TACACTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.46
Consensus pattern (18 bp):
TTATATAGATATAAATAC
Found at i:30031979 original size:113 final size:113
Alignment explanation
Indices: 30031781--30032216 Score: 667
Period size: 113 Copynumber: 3.9 Consensus size: 113
30031771 AAAATAAGCA
** * ** ** *
30031781 TTAGCGGCGTTTTCCAAAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCAGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
*
30031846 TGGGGATTTAGCGGCGTTTTTAAGAAAGCG-CAGCTAATGGTCAGGGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCA-CTAATGCTCAGGGCT
* * *
30031894 TTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAAAATAAGCTCAACGGCGCCGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
30031959 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
* * *
30032007 TTAGCGGCGTTTTTGAGAAAGCGCCGTAAGAAAAATAAGCCCAACGACGTCGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
* * *
30032072 TGGGGATTTAGCGGCGCTTTTAAGAAAGCGCCACTAATGCTTAGTGCT
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
*
30032120 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCTGTTTTGTGGGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
**
30032185 TGGGGATTTAGCAACGTTTTTAAGAAAGCGCC
66 TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCC
30032217 GCAAAAAACA
Statistics
Matches: 294, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
113 292 0.99
114 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCCGTTTTGTGGGCTTT
TGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGGCT
Found at i:30032238 original size:72 final size:72
Alignment explanation
Indices: 30032127--30032269 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 72
30032117 GCTTTAGCGG
* * * * *
30032127 CGTTTTTGAGAAAGCGCCGCAAAAAAAATAAGCCCAACGACGCTGTTTTGTGGGCTTTTGGGGAT
1 CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
30032192 TTAGCAA
66 TTAGCAA
*
30032199 CGTTTTTAAGAAAGCGCCGCAAAAAACATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
1 CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
30032264 TTAGCA
66 TTAGCA
30032270 GCCAAAAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (72 bp):
CGTTTTTAAGAAAGCGCCGCAAAAAAAATAAGCCAAACGACGCCGTTTTGTGAGCTTTCGGGGAT
TTAGCAA
Found at i:30032463 original size:14 final size:14
Alignment explanation
Indices: 30032446--30032476 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
30032436 GGTTTAGAGT
30032446 TTATGGATTAGGGA
1 TTATGGATTAGGGA
*
30032460 TTATGGATTATGGA
1 TTATGGATTAGGGA
30032474 TTA
1 TTA
30032477 GGGGTTGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (14 bp):
TTATGGATTAGGGA
Found at i:30032512 original size:15 final size:15
Alignment explanation
Indices: 30032492--30032520 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30032482 TGGGATTTAA
30032492 GGTTTAGGGGTTAGT
1 GGTTTAGGGGTTAGT
30032507 GGTTTAGGGGTTAG
1 GGTTTAGGGGTTAG
30032521 ATGTGCTAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.48, T:0.38
Consensus pattern (15 bp):
GGTTTAGGGGTTAGT
Found at i:30032789 original size:276 final size:287
Alignment explanation
Indices: 30032343--30032942 Score: 696
Period size: 276 Copynumber: 2.1 Consensus size: 287
30032333 ATTATTTAAA
* * * *
30032343 ATAATTGAAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTGGTTTAGGGTATATGATTTATCT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATATGATTAATCT
* * * * *
30032408 AAGATTTAAGGCCGATTTAAGGAGTATGGGTTTAGAGTTTATGGATTAGGGATTATGGATTATGG
66 AAGATTTAAGGCCGATTTAAGGAGTATGGATTTAGAGTTTAAGGAGTAGGGATTAGGGATTATGA
* *
30032473 ATTAGGGGTTGGGATTTAAGGTTTAGGGGTTAGTGGTTTAGGGGTTA-G-AT-G-TGCTA-GG-G
131 ATTAGGGATTGGGATTTAAGGTTTAGGGGTTAGAGGTTTAGGGGTTAGGTATAGATGCTAGGGAG
* *
30032532 -GTTA-A-AA-G-TTAGGGATTTAGGGGTCGAGTTAGGGTTTTGGGTTTAGATTAATTATTTTTT
196 AGTTAGATAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTTTAGATTAATTATTTTTT
30032592 TAATTTATATTTTAAATATGTTCTTAT
261 TAATTTATATTTTAAATATGTTCTTAT
* * *
30032619 ATAATTGTAAAAGAGATAGTAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATGTGATTAATTT
1 ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATATGATTAATCT
* * ** *
30032684 AATATTTAAGGCCGGTTT-AGGAGT-TCTTATATTA-AGGTTTAAGGAGTATGGATTTAGGGATT
66 AAGATTTAAGGCCGATTTAAGGAGTAT-GGAT-TTAGA-GTTTAAGGAGTAGGGA-TTAGGGATT
* * *
30032746 ATGAATTAGGGATTATGG-TTTAA-GTGTT-GGGATTTA-AGGTTTAGGGGTTAGGGGTTTAGAT
127 ATGAATTAGGGATT-GGGATTTAAGGT-TTAGGG-GTTAGAGGTTTAGGGGTTA--GGTATAGAT
*
30032807 GTTAGGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTT
187 GCTA-GGG---AGAGTTA--GA--TAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTT
30032872 TAGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTTAT
244 TAGATTAATTATTTTTTTAATTTATATTTTAAATATGTTCTTAT
30032916 ATAATTGTAAAAGAGATAATAATAAAT
1 ATAATTGTAAAAGAGATAATAATAAAT
30032943 CAAATATATT
Statistics
Matches: 270, Mismatches: 26, Indels: 35
0.82 0.08 0.11
Matches are distributed among these distances:
274 1 0.00
275 8 0.03
276 108 0.40
277 30 0.11
278 2 0.01
279 1 0.00
280 1 0.00
281 1 0.00
282 4 0.01
284 2 0.01
288 1 0.00
289 4 0.01
292 1 0.00
295 2 0.01
296 1 0.00
297 103 0.38
ACGTcount: A:0.29, C:0.02, G:0.27, T:0.42
Consensus pattern (287 bp):
ATAATTGTAAAAGAGATAATAATAAATTTGTTTAGGGTTTTTAGTTTAAGGTATATGATTAATCT
AAGATTTAAGGCCGATTTAAGGAGTATGGATTTAGAGTTTAAGGAGTAGGGATTAGGGATTATGA
ATTAGGGATTGGGATTTAAGGTTTAGGGGTTAGAGGTTTAGGGGTTAGGTATAGATGCTAGGGAG
AGTTAGATAAGGTTTAGGGATTTAGGGGTCGAGTTAAGGTTTTGAGTTTAGATTAATTATTTTTT
TAATTTATATTTTAAATATGTTCTTAT
Found at i:30032803 original size:15 final size:15
Alignment explanation
Indices: 30032783--30032852 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
30032773 TGGGATTTAA
30032783 GGTTTAGGGGTTAGG
1 GGTTTAGGGGTTAGG
**
30032798 GGTTTAGATGTTAGG
1 GGTTTAGGGGTTAGG
* *
30032813 GG-TTAAGAGTTAGG
1 GGTTTAGGGGTTAGG
* * *
30032827 GATTTAAGGTTTAGG
1 GGTTTAGGGGTTAGG
*
30032842 GATTTAGGGGT
1 GGTTTAGGGGT
30032853 CGAGTTAAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
14 10 0.23
15 34 0.77
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:30033685 original size:5 final size:5
Alignment explanation
Indices: 30033675--30033699 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
30033665 TAGCCCCTTT
30033675 TAGCA TAGCA TAGCA TAGCA TAGCA
1 TAGCA TAGCA TAGCA TAGCA TAGCA
30033700 AAACGGCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
TAGCA
Found at i:30033890 original size:158 final size:151
Alignment explanation
Indices: 30033460--30033891 Score: 569
Period size: 158 Copynumber: 2.9 Consensus size: 151
30033450 GCGGTGTTTT
* *
30033460 TAAGCAATAGCGGCGTTTTTAT-AAAAAACGCCACAAAATAATTTTACTTTAAAAAAATAGCCC-
1 TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCT
* ** * * *
30033523 CTT-T-TAGCATAGCATAGCAAAACGGCATAACTTTGTTCAAAATGAATTTTTTTGCGGCGTTTT
66 ATTATATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATAAATTTTTTTGCGGCATTTT
30033586 TATGAAAAACACCGCTAAAGG
131 TATGAAAAACACCGCTAAAGG
*
30033607 TAAGCAATAGCGGCGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCC
1 TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAG-CCC
* *
30033672 TTTTAGCATAGCATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATGAATTTTTTTGCG
65 TATT---AT---ATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATAAATTTTTTTGCG
* *
30033737 GCATTTTTATGAAAAACGCTGCTAAAGG
124 GCATTTTTATGAAAAACACCGCTAAAGG
*
30033765 TAAGCAATAGCGACGTTTTTAT-AAAAAACGCCACAAAATAATTTTAC-TTTAAAAAATAG-CC-
1 TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCT
* * *
30033826 ATT-T-TAGCATAGCATAGCAAAACGGCGTAGTTTTGTTTAAAATAAAAATTTTTTACGGCATTT
66 ATTATATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAAT-AAATTTTTTTGCGGCATTT
30033889 TTA
130 TTA
30033892 AGCAATAGCG
Statistics
Matches: 258, Mismatches: 15, Indels: 25
0.87 0.05 0.08
Matches are distributed among these distances:
145 38 0.15
146 19 0.07
147 22 0.09
148 37 0.14
149 4 0.02
150 2 0.01
153 2 0.01
154 3 0.01
156 11 0.04
157 25 0.10
158 95 0.37
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (151 bp):
TAAGCAATAGCGACGTTTTTATAAAAAAACGCCACAAAATAATTTTACGTTAAAAAAATAGCCCT
ATTATATAGCATAGCATAGCAAAACGGCATAGTTTTGTTTAAAATAAATTTTTTTGCGGCATTTT
TATGAAAAACACCGCTAAAGG
Found at i:30038007 original size:42 final size:42
Alignment explanation
Indices: 30037961--30038076 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 42
30037951 AAAGAAGCGT
** * *
30037961 CGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTCTCTAAACGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAACGC
* * *
30038003 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTGTAAGCGC
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAACGC
*
30038045 CGCTAAAGAACATGGTCTTTAGCAGCGTTTTT
1 CGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
30038077 GTTTGTAAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (42 bp):
CGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTCTAAACGC
Found at i:30038157 original size:21 final size:22
Alignment explanation
Indices: 30038134--30038176 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
30038124 TAGTGGCGTT
*
30038134 AAAAAGCGCCGCTAAAGACCTA
1 AAAAAACGCCGCTAAAGACCTA
*
30038156 AAAAAATGCCGCTAAAGACCT
1 AAAAAACGCCGCTAAAGACCT
30038177 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAGACCTA
Found at i:30050145 original size:39 final size:39
Alignment explanation
Indices: 30050102--30050236 Score: 189
Period size: 39 Copynumber: 3.4 Consensus size: 39
30050092 CATATTCACT
*
30050102 TTTAAGCATATATCACATTACACATATAATCTCATAACA
1 TTTAAGCATATATCACATTACACATATAATCACATAACA
* * * *
30050141 TTTAAAGCATATATCACAATACTCGTATAAGCACATAACA
1 TTT-AAGCATATATCACATTACACATATAATCACATAACA
* * *
30050181 TTCAAGCATATACCTCATTACACATATAATCACATAACA
1 TTTAAGCATATATCACATTACACATATAATCACATAACA
30050220 TTTAAGCATATATCACA
1 TTTAAGCATATATCACA
30050237 ATACTCAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 47 0.59
40 33 0.41
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACATTACACATATAATCACATAACA
Found at i:30055801 original size:27 final size:27
Alignment explanation
Indices: 30055748--30055874 Score: 87
Period size: 27 Copynumber: 4.8 Consensus size: 27
30055738 ACATAAGGCC
* * * * *
30055748 ATAACAGTCATTTCATCTTCTAGGGGT
1 ATAACAGTCATTTTACCCTATAAGGGT
30055775 ATAACAGTCATTTTACCCTATAAGGGT
1 ATAACAGTCATTTTACCCTATAAGGGT
** * * *
30055802 ATTTCGGTTATTTTACCCTATAGGGGT
1 ATAACAGTCATTTTACCCTATAAGGGT
**** * *
30055829 ATTTTGGTTATTTTACCCTATGAGGG-
1 ATAACAGTCATTTTACCCTATAAGGGT
*
30055855 -TAACAATCATTTTACCCTAT
1 ATAACAGTCATTTTACCCTAT
30055875 GGGGTATTTC
Statistics
Matches: 81, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
25 14 0.17
27 67 0.83
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATAAGGGT
Found at i:30055826 original size:54 final size:54
Alignment explanation
Indices: 30055781--30055965 Score: 225
Period size: 54 Copynumber: 3.5 Consensus size: 54
30055771 GGGTATAACA
* * * *
30055781 GTCATTTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
* * *
30055835 GTTATTTTACCCTATGAGGGTA--ACAATCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
* * *
30055886 ATCATTTTACTCTATG-GAGGTATTTCGATCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGAG-GGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
*
30055940 GTCATTTTACCCTATGGGGGGTATTT
1 GTCATTTTACCCTAT-GAGGGTATTT
30055966 TGGTTATTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
50 1 0.01
51 27 0.25
52 14 0.13
53 16 0.15
54 43 0.39
55 8 0.07
56 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (54 bp):
GTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
Found at i:30055934 original size:78 final size:79
Alignment explanation
Indices: 30055776--30055931 Score: 210
Period size: 78 Copynumber: 2.0 Consensus size: 79
30055766 TCTAGGGGTA
* * * * * *
30055776 TAACAGTCATTTTACCCTATAAGGGTATTTCGGTTATTTTACCCTATAGGGGTATTTTGGTTATT
1 TAACAATCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATT
30055841 TTACCCTATGAGGG
66 TTACCCTATGAGGG
* *
30055855 TAACAATCATTTTACCCTAT-GGGGTATTTCGATCATTTTACTCTAT-GGAGGTATTTCGATCAT
1 TAACAATCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGG-GGTATTTCGATCAT
30055918 TTTACCCTAT-AGGG
65 TTTACCCTATGAGGG
30055932 GTATTTTGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
77 6 0.09
78 43 0.63
79 19 0.28
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (79 bp):
TAACAATCATTTTACCCTATAAGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCGATCATT
TTACCCTATGAGGG
Found at i:30055981 original size:27 final size:27
Alignment explanation
Indices: 30055781--30055978 Score: 204
Period size: 27 Copynumber: 7.4 Consensus size: 27
30055771 GGGTATAACA
**
30055781 GTCATTTTACCCTATAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
30055808 GTTATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
30055835 GTTATTTTACCCTATGAGGGTA--ACA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
30055860 ATCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
30055886 ATCATTTTACTCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
30055913 ATCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
30055940 GTCATTTTACCCTATGGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGGTATTTCG
*
30055968 GTTATTTTACC
1 GTCATTTTACC
30055979 TATTTTGGGG
Statistics
Matches: 145, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.03
25 13 0.09
26 15 0.10
27 91 0.63
28 21 0.14
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:30071401 original size:15 final size:16
Alignment explanation
Indices: 30071374--30071412 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
30071364 ATGGGTTAGC
30071374 TAAATCAAGTTCC-CA
1 TAAATCAAGTTCCACA
* *
30071389 TAATTCAATTTCCACA
1 TAAATCAAGTTCCACA
30071405 TAAATCAA
1 TAAATCAA
30071413 AGAAAAATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.44, C:0.23, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAATCAAGTTCCACA
Found at i:30075400 original size:27 final size:27
Alignment explanation
Indices: 30075370--30075685 Score: 273
Period size: 27 Copynumber: 11.7 Consensus size: 27
30075360 GCAAGGTTCG
*
30075370 CCACAAGGGCTTTTCTTTCATATTTCA
1 CCACAAAGGCTTTTCTTTCATATTTCA
* **
30075397 CCACAAGGGCTTTTCTTTCATATTTTT
1 CCACAAAGGCTTTTCTTTCATATTTCA
*
30075424 CCACAAAGGC-TTTCTTTTCATATTTCG
1 CCACAAAGGCTTTTC-TTTCATATTTCA
* * * *
30075451 CCACAAAAGTTTTTCTTTCATGTTTTA
1 CCACAAAGGCTTTTCTTTCATATTTCA
* ** **
30075478 TCACAAAGAATTTTCTTTCATATTTTG
1 CCACAAAGGCTTTTCTTTCATATTTCA
*
30075505 CTACAAAGG-TTTTCCTTTCATATTTCA
1 CCACAAAGGCTTTT-CTTTCATATTTCA
* *
30075532 CCATAAAGGTTTTTCTTTCATATTTCA
1 CCACAAAGGCTTTTCTTTCATATTTCA
* * *
30075559 CCACAAAGGATTTTCTTTCAAGATTT-T
1 CCACAAAGGCTTTTCTTTC-ATATTTCA
* *
30075586 CCACAAAGACTTTTCTTTCATGTTT-A
1 CCACAAAGGCTTTTCTTTCATATTTCA
* * * *
30075612 GCAACAAAAGCTTTTCTTTCATGGTTT-T
1 -CCACAAAGGCTTTTCTTTCAT-ATTTCA
* * *
30075640 CCACAAAGGCTTTTCTTTTATTTTTCT
1 CCACAAAGGCTTTTCTTTCATATTTCA
* *
30075667 CCACAAAGGTTTTTATTTC
1 CCACAAAGGCTTTTCTTTC
30075686 CTGTCATGTT
Statistics
Matches: 238, Mismatches: 43, Indels: 16
0.80 0.14 0.05
Matches are distributed among these distances:
26 15 0.06
27 206 0.87
28 17 0.07
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (27 bp):
CCACAAAGGCTTTTCTTTCATATTTCA
Found at i:30075451 original size:81 final size:81
Alignment explanation
Indices: 30075366--30075675 Score: 322
Period size: 81 Copynumber: 3.8 Consensus size: 81
30075356 CTTTGCAAGG
** * *
30075366 TTCGCCACAAGGGCTTTTCTTTCATATTTCACCACAAGGGCTTTTCTTTCATATTTTTCCACAAA
1 TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATATTTTTCCACAAA
30075431 GGCTTTCTTTTCATAT
66 GGCTTTCTTTTCATAT
* * * * * * *
30075447 TTCGCCACAAAAGTTTTTCTTTCATGTTTTATCACAAAGAATTTTCTTTCATATTTTGCTACAAA
1 TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATATTTTTCCACAAA
* *
30075512 GGTTTTCCTTTCATAT
66 GGCTTTCTTTTCATAT
* * * * *
30075528 TTCACCATAAAGGTTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCA-AGATTTTCCACAA
1 TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATA-TTTTTCCACAA
* *
30075592 AGACTTT-TCTTTCATGT
65 AGGCTTTCT-TTTCATAT
* * * * * *
30075609 TTAGCAACAAAAGCTTTTCTTTCATGGTTT-TCCACAAAGGCTTTTCTTTTAT-TTTTCTCCACA
1 TTCGCCACAAAAGCTTTTCTTTCAT-ATTTCACCACAAAGGATTTTCTTTCATATTTT-TCCACA
30075672 AAGG
64 AAGG
30075676 TTTTTATTTC
Statistics
Matches: 185, Mismatches: 39, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
80 4 0.02
81 178 0.96
82 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.10, T:0.44
Consensus pattern (81 bp):
TTCGCCACAAAAGCTTTTCTTTCATATTTCACCACAAAGGATTTTCTTTCATATTTTTCCACAAA
GGCTTTCTTTTCATAT
Found at i:30103299 original size:3 final size:3
Alignment explanation
Indices: 30103293--30103373 Score: 76
Period size: 3 Copynumber: 27.0 Consensus size: 3
30103283 AAAGTAGTAG
* * *
30103293 TAA TAA TAA TGA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* * *
30103342 -AA TAT TAA -AC TAAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
30103374 CACAAAAAGG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.05
3 59 0.89
4 4 0.06
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:30109941 original size:21 final size:21
Alignment explanation
Indices: 30109892--30109942 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
30109882 TTAGGAGCAC
*
30109892 GGGCGTGTGGAATAGCCACAT
1 GGGCGTGTGGAATAACCACAT
** * *
30109913 AAGTGTGTGGAATAACCTCAT
1 GGGCGTGTGGAATAACCACAT
30109934 GGGCGTGTG
1 GGGCGTGTG
30109943 TATCGATCTC
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGCGTGTGGAATAACCACAT
Found at i:30111387 original size:62 final size:62
Alignment explanation
Indices: 30111290--30111415 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
30111280 CAAAATGCTT
*
30111290 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTAGCTAGTCATGCAACATAAGTCCAA
1 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
30111352 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
1 TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
30111414 TA
1 TA
30111416 CCATTCATTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (62 bp):
TATACATGTACTAAATAAAAGTGTTCCAAAAGGACTTACCTAGTCATGCAACATAAGTCCAA
Found at i:30111772 original size:22 final size:22
Alignment explanation
Indices: 30111738--30111831 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 22
30111728 AGCCTGATAC
*
30111738 GCACAAAGCCTGAATAACACCA
1 GCACTAAGCCTGAATAACACCA
* * *
30111760 GCACTAAGTCTGAATAATACCG
1 GCACTAAGCCTGAATAACACCA
*
30111782 GCACTAAGCCT--AT-A-A--G
1 GCACTAAGCCTGAATAACACCA
* *
30111798 GCACAAAGCCTGAATAACACCG
1 GCACTAAGCCTGAATAACACCA
*
30111820 GCACTAAACCTG
1 GCACTAAGCCTG
30111832 CAGGCACAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
16 11 0.19
18 3 0.05
19 2 0.03
20 3 0.05
22 39 0.67
ACGTcount: A:0.39, C:0.29, G:0.17, T:0.15
Consensus pattern (22 bp):
GCACTAAGCCTGAATAACACCA
Found at i:30111820 original size:38 final size:37
Alignment explanation
Indices: 30111760--30111853 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 37
30111750 AATAACACCA
* * * * *
30111760 GCACTAAGTCTGAATAATACCGGCACTAAGCCTATAAG
1 GCACAAAGCCTGAATAACACCGGCACTAAACCT-GAAG
*
30111798 GCACAAAGCCTGAATAACACCGGCACTAAACCTGCAG
1 GCACAAAGCCTGAATAACACCGGCACTAAACCTGAAG
*
30111835 GCACAAAGCCCGAATAACA
1 GCACAAAGCCTGAATAACA
30111854 ATATAATTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
37 20 0.41
38 29 0.59
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (37 bp):
GCACAAAGCCTGAATAACACCGGCACTAAACCTGAAG
Found at i:30111850 original size:37 final size:38
Alignment explanation
Indices: 30111771--30111853 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 38
30111761 CACTAAGTCT
* * * *
30111771 GAATAATACCGGCACTAAGCCTATAAGGCACAAAGCCT
1 GAATAACACCGGCACTAAACCTAGAAGGCACAAAGCCC
*
30111809 GAATAACACCGGCACTAAACCT-GCAGGCACAAAGCCC
1 GAATAACACCGGCACTAAACCTAGAAGGCACAAAGCCC
30111846 GAATAACA
1 GAATAACA
30111854 ATATAATTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 20 0.50
38 20 0.50
ACGTcount: A:0.41, C:0.29, G:0.18, T:0.12
Consensus pattern (38 bp):
GAATAACACCGGCACTAAACCTAGAAGGCACAAAGCCC
Done.