Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 41 of 79
Found at i:13517923 original size:12 final size:12
Alignment explanation
Indices: 13517894--13517922 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
13517884 TTGACCTCTC
13517894 CTTTTTCTTTTT
1 CTTTTTCTTTTT
13517906 CTTTTTC-TTTT
1 CTTTTTCTTTTT
13517917 CTTTTT
1 CTTTTT
13517923 TTGACTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:13517946 original size:10 final size:9
Alignment explanation
Indices: 13517932--13517993 Score: 83
Period size: 9 Copynumber: 7.0 Consensus size: 9
13517922 TTTGACTTTG
13517932 ATTTTTTTT
1 ATTTTTTTT
13517941 ATTTTTTTT
1 ATTTTTTTT
13517950 A--TTTTTT
1 ATTTTTTTT
*
13517957 ATTTTTTTG
1 ATTTTTTTT
13517966 ATTTTTTTT
1 ATTTTTTTT
*
13517975 GATTTTTTTG
1 -ATTTTTTTT
13517985 ATTTTTTTT
1 ATTTTTTTT
13517994 TAGTCTGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
7 7 0.15
9 31 0.67
10 8 0.17
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:13517949 original size:25 final size:26
Alignment explanation
Indices: 13517918--13517992 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
13517908 TTTTCTTTTC
*
13517918 TTTTTTTGA-CTTTGATTTTTTTTAT
1 TTTTTTTGATCTTTGATTTTTTTGAT
* *
13517943 TTTTTTT-ATTTTTTATTTTTTTGAT
1 TTTTTTTGATCTTTGATTTTTTTGAT
*
13517968 TTTTTTTGATTTTTTTGATTTTTTT
1 TTTTTTTGA--TCTTTGATTTTTTT
13517993 TTAGTCTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.02
25 27 0.64
26 1 0.02
28 13 0.31
ACGTcount: A:0.11, C:0.01, G:0.07, T:0.81
Consensus pattern (26 bp):
TTTTTTTGATCTTTGATTTTTTTGAT
Found at i:13517955 original size:19 final size:19
Alignment explanation
Indices: 13517928--13517995 Score: 90
Period size: 19 Copynumber: 3.8 Consensus size: 19
13517918 TTTTTTTGAC
13517928 TTTGA-TTTTTTTTA-TTT
1 TTTGATTTTTTTTTATTTT
*
13517945 TTT--TTATTTTTTATTTT
1 TTTGATTTTTTTTTATTTT
*
13517962 TTTGATTTTTTTTGATTTT
1 TTTGATTTTTTTTTATTTT
13517981 TTTGATTTTTTTTTA
1 TTTGATTTTTTTTTA
13517996 GTCTGAACTC
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.19
17 9 0.21
19 26 0.60
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (19 bp):
TTTGATTTTTTTTTATTTT
Found at i:13517955 original size:44 final size:43
Alignment explanation
Indices: 13517907--13517993 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 43
13517897 TTTCTTTTTC
* * *
13517907 TTTTTCTTTTCTTTTTTTGACTTTGATTTTTTTTATTTTTTTTAT
1 TTTTTATTTT-TTTATTT-ACTTTGATTTTTTTGATTTTTTTTAT
**
13517952 TTTTTATTTTTTTGATTTTTTTTGATTTTTTTGATTTTTTTT
1 TTTTTATTTTTTT-ATTTACTTTGATTTTTTTGATTTTTTTT
13517994 TAGTCTGAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
44 24 0.67
45 12 0.33
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.82
Consensus pattern (43 bp):
TTTTTATTTTTTTATTTACTTTGATTTTTTTGATTTTTTTTAT
Found at i:13523322 original size:87 final size:87
Alignment explanation
Indices: 13523176--13523352 Score: 354
Period size: 87 Copynumber: 2.0 Consensus size: 87
13523166 GGGTCGTACA
13523176 AAAAGGATTAAACTGTAATAGAGATAAAAGTTTAAGTATAGATTAAAAAAAATTAAAGGGATCAA
1 AAAAGGATTAAACTGTAATAGAGATAAAAGTTTAAGTATAGATTAAAAAAAATTAAAGGGATCAA
13523241 AGAAGCAATTATGCCATTGCTT
66 AGAAGCAATTATGCCATTGCTT
13523263 AAAAGGATTAAACTGTAATAGAGATAAAAGTTTAAGTATAGATTAAAAAAAATTAAAGGGATCAA
1 AAAAGGATTAAACTGTAATAGAGATAAAAGTTTAAGTATAGATTAAAAAAAATTAAAGGGATCAA
13523328 AGAAGCAATTATGCCATTGCTT
66 AGAAGCAATTATGCCATTGCTT
13523350 AAA
1 AAA
13523353 GTTGAGGCGG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 90 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (87 bp):
AAAAGGATTAAACTGTAATAGAGATAAAAGTTTAAGTATAGATTAAAAAAAATTAAAGGGATCAA
AGAAGCAATTATGCCATTGCTT
Found at i:13531491 original size:20 final size:20
Alignment explanation
Indices: 13531466--13531550 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
13531456 TATTGCTGAA
13531466 CAGAGGCACCGAAGTGCAAT
1 CAGAGGCACCGAAGTGCAAT
*
13531486 CAGAGGCAACGAAGTGCAAT
1 CAGAGGCACCGAAGTGCAAT
** *
13531506 CAGAGGCGTCGAAGTACAAT
1 CAGAGGCACCGAAGTGCAAT
* *
13531526 CAAAGGCACCAAAGTGCAAT
1 CAGAGGCACCGAAGTGCAAT
13531546 CAGAG
1 CAGAG
13531551 AGTACATAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.39, C:0.22, G:0.28, T:0.11
Consensus pattern (20 bp):
CAGAGGCACCGAAGTGCAAT
Found at i:13531593 original size:22 final size:22
Alignment explanation
Indices: 13531531--13531661 Score: 85
Period size: 22 Copynumber: 6.0 Consensus size: 22
13531521 ACAATCAAAG
* *
13531531 GCACCAAAGTGC-AATCAGAGA
1 GCACAAAAGTGCAAATTAGAGA
*
13531552 GTACATAAA-TGCTAAA-TAGAGA
1 GCACA-AAAGTGC-AAATTAGAGA
13531574 GCACAAAAGTGCAAATTAGAGA
1 GCACAAAAGTGCAAATTAGAGA
* *
13531596 GC-CTAGAAGTG-ATAATTAGAAA
1 GCAC-AAAAGTGCA-AATTAGAGA
*
13531618 GCATAAAAGTGCTAAA-TAGAGA
1 GCACAAAAGTGC-AAATTAGAGA
** * *
13531640 GCACTGAAGTGCTAATCAGAGA
1 GCACAAAAGTGCAAATTAGAGA
13531662 TCCAATTTCA
Statistics
Matches: 85, Mismatches: 14, Indels: 21
0.71 0.12 0.17
Matches are distributed among these distances:
21 16 0.19
22 64 0.75
23 4 0.05
24 1 0.01
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.18
Consensus pattern (22 bp):
GCACAAAAGTGCAAATTAGAGA
Found at i:13531626 original size:44 final size:44
Alignment explanation
Indices: 13531568--13531655 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
13531558 AAATGCTAAA
*
13531568 TAGAGAGCACAAAAGTGC-AAATTAGAGAGC-CTAGAAGTGATAAT
1 TAGAAAGCACAAAAGTGCTAAA-TAGAGAGCACT-GAAGTGATAAT
* *
13531612 TAGAAAGCATAAAAGTGCTAAATAGAGAGCACTGAAGTGCTAAT
1 TAGAAAGCACAAAAGTGCTAAATAGAGAGCACTGAAGTGATAAT
13531656 CAGAGATCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.19
Consensus pattern (44 bp):
TAGAAAGCACAAAAGTGCTAAATAGAGAGCACTGAAGTGATAAT
Found at i:13532855 original size:23 final size:23
Alignment explanation
Indices: 13532811--13532855 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13532801 TTAAAAAGTA
*
13532811 GTTAATTTCCACTTTAAACCTTG
1 GTTAATTTCCACTATAAACCTTG
*
13532834 GTTAATTTACCA-TATAAGCCTT
1 GTTAATTT-CCACTATAAACCTT
13532856 TTAACTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (23 bp):
GTTAATTTCCACTATAAACCTTG
Found at i:13543988 original size:20 final size:20
Alignment explanation
Indices: 13543918--13543988 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 20
13543908 ATACAGTGTG
* *
13543918 GATAAACCACTAATTAGTGTA
1 GATAAACCACTAA-TCGTATA
* *
13543939 GATAAAAACTACTAATACGCTATG
1 GAT--AAACCACTAAT-CG-TATA
13543963 GATAAACCACTAATCGTATA
1 GATAAACCACTAATCGTATA
13543983 GATAAA
1 GATAAA
13543989 ATCTGCTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
20 9 0.22
21 5 0.12
22 11 0.28
23 10 0.25
24 5 0.12
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (20 bp):
GATAAACCACTAATCGTATA
Found at i:13544000 original size:44 final size:45
Alignment explanation
Indices: 13543893--13544019 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
13543883 TAAATGTTGC
* *
13543893 AGATAAAAGCTGCTAATACAG-TGTGGATAAACCACTAATTAGTGT
1 AGATAAAAACTGCTAATAC-GCTGTGGATAAACCACTAATTAGTAT
* * *
13543938 AGATAAAAACTACTAATACGCTATGGATAAACCACTAA-TCGTAT
1 AGATAAAAACTGCTAATACGCTGTGGATAAACCACTAATTAGTAT
* *
13543982 AGATAAAATCTGCTAATACGAC-GTGGATTAACCACTAA
1 AGATAAAAACTGCTAATACG-CTGTGGATAAACCACTAA
13544020 ACGGTGAAGA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
44 37 0.52
45 34 0.48
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.25
Consensus pattern (45 bp):
AGATAAAAACTGCTAATACGCTGTGGATAAACCACTAATTAGTAT
Found at i:13551850 original size:95 final size:96
Alignment explanation
Indices: 13551734--13551925 Score: 377
Period size: 95 Copynumber: 2.0 Consensus size: 96
13551724 ATAACGTAAA
13551734 CATTGTAAAAATGTTAAGTTATATATATATTTTTAATAAATGAAAATATATAAAATTACTAAATA
1 CATTGTAAAAATGTTAAGTTATATATATATTTTTAATAAATGAAAATATATAAAATTACTAAATA
13551799 TTAAATCAAAAATATTAAAAAAATAATATGG
66 TTAAATCAAAAATATTAAAAAAATAATATGG
13551830 CATTGT-AAAATGTTAAGTTATATATATATTTTTAATAAATGAAAATATATAAAATTACTAAATA
1 CATTGTAAAAATGTTAAGTTATATATATATTTTTAATAAATGAAAATATATAAAATTACTAAATA
13551894 TTAAATCAAAAATATTAAAAAAATAATATGG
66 TTAAATCAAAAATATTAAAAAAATAATATGG
13551925 C
1 C
13551926 TCGGGTTTAA
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 90 0.94
96 6 0.06
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (96 bp):
CATTGTAAAAATGTTAAGTTATATATATATTTTTAATAAATGAAAATATATAAAATTACTAAATA
TTAAATCAAAAATATTAAAAAAATAATATGG
Found at i:13552450 original size:7 final size:7
Alignment explanation
Indices: 13552434--13552463 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
13552424 TTTATAGGAT
13552434 ATATTAAA
1 ATATT-AA
13552442 ATATTAA
1 ATATTAA
13552449 ATATTAA
1 ATATTAA
13552456 ATATTAA
1 ATATTAA
13552463 A
1 A
13552464 AAAACACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 17 0.77
8 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATATTAA
Found at i:13553000 original size:18 final size:18
Alignment explanation
Indices: 13552960--13553002 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
13552950 TTTCAAGGTG
13552960 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
13552978 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
13552996 TAATTAA
1 TAATTAA
13553003 AAAACTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:13557606 original size:14 final size:14
Alignment explanation
Indices: 13557587--13557621 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
13557577 TATATATATA
13557587 TATACATACTAGCC
1 TATACATACTAGCC
13557601 TATACATACTAGCC
1 TATACATACTAGCC
13557615 TATACAT
1 TATACAT
13557622 GTCATATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (14 bp):
TATACATACTAGCC
Found at i:13558494 original size:59 final size:62
Alignment explanation
Indices: 13558312--13558533 Score: 292
Period size: 63 Copynumber: 3.6 Consensus size: 62
13558302 CGTAGCAAAT
**
13558312 ATACATTCGGATAACATA-TATATAATTCATACAATTAAATTCAACTTATAGAACTCAAAAC
1 ATACATTCGGATAACATATTATATAATTCATACAATTAGTTTCAACTTATAGAACTCAAAAC
* * *
13558373 ATACATTCGGAAAACATATATATATAATTTATACAATTAGTTTCAACTCATAGAACTCAAAAC
1 ATACATTCGGATAACATAT-TATATAATTCATACAATTAGTTTCAACTTATAGAACTCAAAAC
* *
13558436 ATACATT-GGCTAAC-TATT-TATAATTCATACAATTAGTTTCAACTTATCA-AACTTAAAAC
1 ATACATTCGGATAACATATTATATAATTCATACAATTAGTTTCAACTTAT-AGAACTCAAAAC
* * *
13558495 ATACATTCAGCTAACATATTTATATAATTCATAAAATTA
1 ATACATTCGGATAACATA-TTATATAATTCATACAATTA
13558534 AATCCAGCTT
Statistics
Matches: 142, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
59 43 0.30
60 8 0.06
61 22 0.15
62 7 0.05
63 62 0.44
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (62 bp):
ATACATTCGGATAACATATTATATAATTCATACAATTAGTTTCAACTTATAGAACTCAAAAC
Found at i:13562460 original size:17 final size:18
Alignment explanation
Indices: 13562428--13562465 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13562418 ACAGTAATGA
*
13562428 GCTTGCGGCGGTGAT-AG
1 GCTTGCGGCGGCGATAAG
*
13562445 GCTTGCGGTGGCGATAAG
1 GCTTGCGGCGGCGATAAG
13562463 GCT
1 GCT
13562466 GCTCCAGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.13, C:0.18, G:0.45, T:0.24
Consensus pattern (18 bp):
GCTTGCGGCGGCGATAAG
Found at i:13565982 original size:40 final size:40
Alignment explanation
Indices: 13565938--13566180 Score: 296
Period size: 40 Copynumber: 6.1 Consensus size: 40
13565928 AATTATTGTA
* *
13565938 TGAATGCACATATGTGCCTTTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
*
13565978 TGAATGCACATGCGTG-CCTCTGTTTGTACTT-GAGTACCCC
1 TGAATGCACATACGTGCCCT-TGTTTGTACTTCG-GTACCCC
* * *
13566018 TGAATGCACATACGTGCCCATG-TTGTACTTTGGTATCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * *
13566057 TGAATGCACATGCGTGCCCTTATTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
*
13566097 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCT
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
* * * * * *
13566137 TGAATGCACTTATGTG-CCTTGTTTATACTCCGGTAACTC
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
13566176 TGAAT
1 TGAAT
13566181 TATGTAGTAT
Statistics
Matches: 177, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 59 0.33
40 116 0.66
41 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCC
Found at i:13566154 original size:119 final size:119
Alignment explanation
Indices: 13565938--13566154 Score: 321
Period size: 119 Copynumber: 1.8 Consensus size: 119
13565928 AATTATTGTA
* * * *
13565938 TGAATGCACATATGTGCCTTTGTTTGTACTTCGGTACCCCTGAATGCACATGCGTGCCTCTGTTT
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCCTCTGTTT
13566003 GTACTTGAGTACCCCTGAATGCACATACGTGCCCATGTTGTACTTTGGTATCCC
66 GTACTTGAGTACCCCTGAATGCACATACGTGCCCATGTTGTACTTTGGTATCCC
* *
13566057 TGAATGCACATGCGTGCCCTTATTTGTACTTTGGTACCCCTGAATGCACATACGTGCC-CTTGTT
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCCTC-TGTT
* * *
13566121 TGTACTTCG-GTACCCTTGAATGCACTTATGTGCC
65 TGTACTT-GAGTACCCCTGAATGCACATACGTGCC
13566155 TTGTTTATAC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
118 1 0.01
119 85 0.98
120 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (119 bp):
TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCCTCTGTTT
GTACTTGAGTACCCCTGAATGCACATACGTGCCCATGTTGTACTTTGGTATCCC
Found at i:13566179 original size:119 final size:119
Alignment explanation
Indices: 13565938--13566180 Score: 303
Period size: 119 Copynumber: 2.0 Consensus size: 119
13565928 AATTATTGTA
* * * *
13565938 TGAATGCACATATGTGCCTTTGTTTGTACTTCGGTACCCCTGAATGCACATGCGTGCCTCTGTTT
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCCTCTGTTT
* ** *
13566003 GTACTTGAGTACCCCTGAATGCACATACGTGCCCATGTTGTACTTTGGTATCCC
66 GTACTTGAGTACCCCTGAATGCACATACGTGCCCATGTTATACTCCGGTAACCC
* *
13566057 TGAATGCACATGCGTGCCCTTATTTGTACTTTGGTACCCCTGAATGCACATACGTGCC-CTTGTT
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCCTC-TGTT
* * * * *
13566121 TGTACTTCG-GTACCCTTGAATGCACTTATGTG-CCTTGTTTATACTCCGGTAACTC
65 TGTACTT-GAGTACCCCTGAATGCACATACGTGCCCATG-TTATACTCCGGTAACCC
13566176 TGAAT
1 TGAAT
13566181 TATGTAGTAT
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
118 5 0.05
119 100 0.94
120 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (119 bp):
TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCCTGAATGCACATACGTGCCTCTGTTT
GTACTTGAGTACCCCTGAATGCACATACGTGCCCATGTTATACTCCGGTAACCC
Found at i:13566180 original size:79 final size:77
Alignment explanation
Indices: 13565938--13566165 Score: 305
Period size: 79 Copynumber: 2.9 Consensus size: 77
13565928 AATTATTGTA
* *
13565938 TGAATGCACATATGTGCCTTTGTTTGTACTTCGGTACCCCTGAATGCACATGCGTGCCTCTGTTT
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTA-CCCTGAATGCACATGCGTGCCT-TGTTT
13566003 GTACTTGAGTACCCC
64 GTACTTG-GTACCCC
* * *
13566018 TGAATGCACATACGTGCCCATG-TTGTACTTTGGTATCCCTGAATGCACATGCGTGCCCTTATTT
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTA-CCCTGAATGCACATGCGTG-CCTTGTTT
13566082 GTACTTTGGTACCCC
64 GTAC-TTGGTACCCC
* ** *
13566097 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCTTGAATGCACTTATGTGCCTTGTTTA
1 TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCC-TGAATGCACATGCGTGCCTTGTTTG
13566162 TACT
65 TACT
13566166 CCGGTAACTC
Statistics
Matches: 131, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 80 0.61
80 50 0.38
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (77 bp):
TGAATGCACATACGTGCCCTTGTTTGTACTTCGGTACCCTGAATGCACATGCGTGCCTTGTTTGT
ACTTGGTACCCC
Found at i:13567326 original size:39 final size:40
Alignment explanation
Indices: 13567252--13567404 Score: 186
Period size: 39 Copynumber: 3.9 Consensus size: 40
13567242 TATTGTATGG
* * *
13567252 ATGCACATGCGTACCTCTGTTTGTACTTCGGTACCCCTAA
1 ATGCACATGCGTGCCCCTGCTTGTACTTCGGTACCCCTAA
* *
13567292 AGGCACATGCGTGCCCCTG-TTGTACTTCAGTACCCC-AGA
1 ATGCACATGCGTGCCCCTGCTTGTACTTCGGTACCCCTA-A
* *
13567331 ATGCACATACGTGCCCCTG-TTGTACTTCGGTACCCCTGA
1 ATGCACATGCGTGCCCCTGCTTGTACTTCGGTACCCCTAA
* * *
13567370 ATGCACATGCATGCCCTTGCTTCTACTTCGGTACC
1 ATGCACATGCGTGCCCCTGCTTGTACTTCGGTACC
13567405 TCTGACTACT
Statistics
Matches: 98, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 67 0.68
40 30 0.31
ACGTcount: A:0.19, C:0.33, G:0.20, T:0.29
Consensus pattern (40 bp):
ATGCACATGCGTGCCCCTGCTTGTACTTCGGTACCCCTAA
Found at i:13567385 original size:78 final size:80
Alignment explanation
Indices: 13567252--13567404 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 80
13567242 TATTGTATGG
* * * *
13567252 ATGCACATGCGTACCTCTGTTTGTACTTCGGTACCCCTAAAGGCACATGCGTGCCCCTG-TTGTA
1 ATGCACATACGTACCCCTGTTTGTACTTCGGTACCCCTAAAGGCACATGCATGCCCCTGCTTCTA
13567316 CTTCAGTACCCCAGA
66 CTTCAGTACCCCAGA
* * * *
13567331 ATGCACATACGTGCCCCTG-TTGTACTTCGGTACCCCTGAATGCACATGCATGCCCTTGCTTCTA
1 ATGCACATACGTACCCCTGTTTGTACTTCGGTACCCCTAAAGGCACATGCATGCCCCTGCTTCTA
*
13567395 CTTCGGTACC
66 CTTCAGTACC
13567405 TCTGACTACT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 35 0.55
79 29 0.45
ACGTcount: A:0.19, C:0.33, G:0.20, T:0.29
Consensus pattern (80 bp):
ATGCACATACGTACCCCTGTTTGTACTTCGGTACCCCTAAAGGCACATGCATGCCCCTGCTTCTA
CTTCAGTACCCCAGA
Found at i:13571660 original size:16 final size:16
Alignment explanation
Indices: 13571636--13571673 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13571626 TTTGGTTCAC
* *
13571636 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
13571652 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
13571668 TGTAAT
1 TGTAAT
13571674 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:13571757 original size:39 final size:43
Alignment explanation
Indices: 13571652--13571761 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
13571642 GGATTAGAGG
13571652 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
13571697 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
13571737 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
13571762 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:13589211 original size:26 final size:26
Alignment explanation
Indices: 13589148--13589201 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
13589138 TCCACAAAAT
13589148 ATCAATCTTTTAATATGGTATTTGAA
1 ATCAATCTTTTAATATGGTATTTGAA
13589174 ATCAATCTTTTAATATGGTATTTGAA
1 ATCAATCTTTTAATATGGTATTTGAA
13589200 AT
1 AT
13589202 TTTCTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (26 bp):
ATCAATCTTTTAATATGGTATTTGAA
Found at i:13593835 original size:31 final size:31
Alignment explanation
Indices: 13593791--13593859 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
13593781 GTTTGATTGA
*
13593791 TTATAA-TTATTTTTGCAATTTATATAATTTC
1 TTATAATTTATTTTTACAATTTATAT-ATTTC
* * * *
13593822 TTATAGTTTTTTTTTACAATTTTTATATTTT
1 TTATAATTTATTTTTACAATTTATATATTTC
13593853 TTATAAT
1 TTATAAT
13593860 GATTTTATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
31 15 0.48
32 16 0.52
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (31 bp):
TTATAATTTATTTTTACAATTTATATATTTC
Found at i:13596223 original size:14 final size:14
Alignment explanation
Indices: 13596204--13596234 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13596194 AAGAAAACCC
*
13596204 ATACCACAGTTTAT
1 ATACCACAATTTAT
13596218 ATACCACAATTTAT
1 ATACCACAATTTAT
13596232 ATA
1 ATA
13596235 ACTTAATGAC
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:0.42, C:0.19, G:0.03, T:0.35
Consensus pattern (14 bp):
ATACCACAATTTAT
Found at i:13598596 original size:14 final size:15
Alignment explanation
Indices: 13598562--13598605 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
13598552 ATATGATAAT
13598562 ATGCGAACCCTATAC
1 ATGCGAACCCTATAC
* *
13598577 ATGCGAACCC-CTAG
1 ATGCGAACCCTATAC
13598591 ATGCGAACCTCTATA
1 ATGCGAACC-CTATA
13598606 TATCTGTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 11 0.46
15 11 0.46
16 2 0.08
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (15 bp):
ATGCGAACCCTATAC
Found at i:13609401 original size:31 final size:34
Alignment explanation
Indices: 13609363--13609430 Score: 106
Period size: 31 Copynumber: 2.1 Consensus size: 34
13609353 ATTCCTCTTA
13609363 AAAAAAGCTTTAA-TTT-TTTTT-AATTATTTTT
1 AAAAAAGCTTTAATTTTATTTTTAAATTATTTTT
*
13609394 AAAAAAGCTTTAATTTTATTTTTAAATTTTTTTT
1 AAAAAAGCTTTAATTTTATTTTTAAATTATTTTT
13609428 AAA
1 AAA
13609431 TCATAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 13 0.39
32 3 0.09
33 5 0.15
34 12 0.36
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (34 bp):
AAAAAAGCTTTAATTTTATTTTTAAATTATTTTT
Found at i:13611637 original size:18 final size:18
Alignment explanation
Indices: 13611614--13611656 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
13611604 TGCCAGGTGC
* *
13611614 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
13611632 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
13611650 GTTTCCT
1 GTATCCT
13611657 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:13611894 original size:21 final size:21
Alignment explanation
Indices: 13611852--13611894 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13611842 AGATCCCCTA
* * *
13611852 CCGGAGAAACCAGAATCTCCG
1 CCGGAGAAACCACAACCCCCG
*
13611873 CCGGAGCAACCACAACCCCCG
1 CCGGAGAAACCACAACCCCCG
13611894 C
1 C
13611895 TAGAAGGTGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.44, G:0.21, T:0.05
Consensus pattern (21 bp):
CCGGAGAAACCACAACCCCCG
Found at i:13615459 original size:126 final size:126
Alignment explanation
Indices: 13615234--13615522 Score: 479
Period size: 126 Copynumber: 2.3 Consensus size: 126
13615224 GGCCAAACAT
* * *
13615234 GAGCTACTGTAGCAAAAGCGCATCCACTTAGGAGCTTTTTTCAGTACTTTTACTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
*
13615299 CTGTTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* * * *
13615360 GAGCTACTGTAACAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTTCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
*
13615425 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* *
13615486 GAGCTACTGTAGGAAAAGCGCATCCATGTGGGAGCTT
1 GAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTT
13615523 TTTTAAATTA
Statistics
Matches: 149, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 149 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
Found at i:13615767 original size:7 final size:7
Alignment explanation
Indices: 13615720--13615783 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
13615710 ATTTTTCTTT
13615720 AAAACCC
1 AAAACCC
* *
13615727 TAAACCTA
1 AAAACC-C
13615735 AAAACCCC
1 AAAA-CCC
13615743 AAAACCC
1 AAAACCC
* *
13615750 -TAACCT
1 AAAACCC
*
13615756 TAAACCC
1 AAAACCC
13615763 AAAACCC
1 AAAACCC
13615770 AAAACCC
1 AAAACCC
13615777 AAAACCC
1 AAAACCC
13615784 TAACCATAGT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
6 4 0.09
7 32 0.71
8 7 0.16
9 2 0.04
ACGTcount: A:0.52, C:0.41, G:0.00, T:0.08
Consensus pattern (7 bp):
AAAACCC
Found at i:13617235 original size:13 final size:13
Alignment explanation
Indices: 13617217--13617241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13617207 TAAGTTATAT
13617217 GTGTGAAAATTTC
1 GTGTGAAAATTTC
13617230 GTGTGAAAATTT
1 GTGTGAAAATTT
13617242 GATCGTTTGA
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:13618942 original size:41 final size:41
Alignment explanation
Indices: 13618885--13618987 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
13618875 CTTAAAGCCT
* ** * *
13618885 AGCAGGCTTAAGGCCGGTGATGTAATTCGGACTTTATGTCC
1 AGCAGGCTTAATGCCGGTGAAATAATTCAGACTTTAAGTCC
*
13618926 AGCAGGCTTAATGCCGGTGAAATAATTCAGACTTTAAGTCT
1 AGCAGGCTTAATGCCGGTGAAATAATTCAGACTTTAAGTCC
13618967 AGCAGGC-TAATTGCCGGTGAA
1 AGCAGGCTTAA-TGCCGGTGAA
13618988 CTGAATAAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (41 bp):
AGCAGGCTTAATGCCGGTGAAATAATTCAGACTTTAAGTCC
Found at i:13623713 original size:7 final size:8
Alignment explanation
Indices: 13623693--13623726 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13623683 ATTATTTTCT
13623693 TAAAAATA
1 TAAAAATA
13623701 TAAAAATA
1 TAAAAATA
*
13623709 TAAAAAGA
1 TAAAAATA
*
13623717 TAAATATA
1 TAAAAATA
13623725 TA
1 TA
13623727 TTTTGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (8 bp):
TAAAAATA
Found at i:13636870 original size:17 final size:17
Alignment explanation
Indices: 13636848--13636880 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13636838 TGGTTGTCGC
13636848 TTGAATTAAATTAATTA
1 TTGAATTAAATTAATTA
*
13636865 TTGAATTAATTTAATT
1 TTGAATTAAATTAATT
13636881 GGGTAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TTGAATTAAATTAATTA
Found at i:13638252 original size:12 final size:13
Alignment explanation
Indices: 13638228--13638256 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13638218 GGGCTATAAC
13638228 TATTGCATTTATT
1 TATTGCATTTATT
13638241 TATTGC-TTTATT
1 TATTGCATTTATT
13638253 TATT
1 TATT
13638257 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:13651567 original size:17 final size:17
Alignment explanation
Indices: 13651545--13651580 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13651535 TTATCATAAA
13651545 TTTTACTATTATTTTAT
1 TTTTACTATTATTTTAT
13651562 TTTTACTATTATTTTAT
1 TTTTACTATTATTTTAT
13651579 TT
1 TT
13651581 AAGCGTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTACTATTATTTTAT
Found at i:13660031 original size:21 final size:21
Alignment explanation
Indices: 13659952--13660107 Score: 114
Period size: 21 Copynumber: 7.3 Consensus size: 21
13659942 CGTGTTTACT
* * *
13659952 TTCTGTTTAGCTCTCACGAGC
1 TTCTGTTTAACTCTTATGAGC
* *
13659973 TTCTGTTTAACTCATATGAGT
1 TTCTGTTTAACTCTTATGAGC
** * * *
13659994 TTCCATTCAGCTTTCTTTTGAGC
1 TTCTGTTTAAC--TCTTATGAGC
*
13660017 TTCTGTTTAACTCTTATGAGT
1 TTCTGTTTAACTCTTATGAGC
*
13660038 TTCTGTTTAGCTCTTATGAGC
1 TTCTGTTTAACTCTTATGAGC
* * * * *
13660059 TTCCGTTCAACCCTTATGGGT
1 TTCTGTTTAACTCTTATGAGC
* * *
13660080 TTCTGTTTAGCACTTATGTGC
1 TTCTGTTTAACTCTTATGAGC
13660101 TTCTGTT
1 TTCTGTT
13660108 CAGCCGTCGA
Statistics
Matches: 101, Mismatches: 32, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
21 87 0.86
23 14 0.14
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTGTTTAACTCTTATGAGC
Found at i:13660075 original size:42 final size:42
Alignment explanation
Indices: 13659951--13660109 Score: 174
Period size: 42 Copynumber: 3.7 Consensus size: 42
13659941 TCGTGTTTAC
* * * *
13659951 TTTCTGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTATGAG
** * * *
13659993 TTTCCATTCAGCTTTCTTTTGAGCTTCTGTTTAACTCTTATGAG
1 TTTCTGTTTAGC--TCTTATGAGCTTCTGTTCAACTCTTATGAG
* * *
13660037 TTTCTGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGGG
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTATGAG
* *
13660079 TTTCTGTTTAGCACTTATGTGCTTCTGTTCA
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTCA
13660110 GCCGTCGAGC
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 62 0.64
44 35 0.36
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (42 bp):
TTTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTATGAG
Found at i:13662608 original size:26 final size:26
Alignment explanation
Indices: 13662561--13662631 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
13662551 AGTCATATCG
* *
13662561 GGAAGCTC-CGGAGAGCCATTAATTA
1 GGAAGCTCACGAAGAGCCATTAATCA
* *
13662586 GGAAGCTCA-GAAAGAGCCTTTAATCG
1 GGAAGCTCACG-AAGAGCCATTAATCA
13662612 GGAAGCTCACGAAGAGCCAT
1 GGAAGCTCACGAAGAGCCAT
13662632 ATAACGGAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
25 9 0.24
26 28 0.74
27 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (26 bp):
GGAAGCTCACGAAGAGCCATTAATCA
Found at i:13663098 original size:10 final size:10
Alignment explanation
Indices: 13663083--13663127 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
13663073 CTATACGAGT
*
13663083 AATTTAACTC
1 AATTTAATTC
*
13663093 AATTTAATAC
1 AATTTAATTC
13663103 AATTTATATTC
1 AATTTA-ATTC
*
13663114 AATTCAATTC
1 AATTTAATTC
13663124 AATT
1 AATT
13663128 CACATCTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (10 bp):
AATTTAATTC
Found at i:13663117 original size:21 final size:20
Alignment explanation
Indices: 13663083--13663127 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
13663073 CTATACGAGT
*
13663083 AATTTAACTCAATTTAATAC
1 AATTTAACTCAATTCAATAC
* *
13663103 AATTTATATTCAATTCAATTC
1 AATTTA-ACTCAATTCAATAC
13663124 AATT
1 AATT
13663128 CACATCTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAACTCAATTCAATAC
Found at i:13666453 original size:15 final size:16
Alignment explanation
Indices: 13666428--13666463 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
13666418 AAAGCAAACC
13666428 ATTGAGGGTGCCATTG
1 ATTGAGGGTGCCATTG
13666444 ATTG-GGGTGCCATTG
1 ATTGAGGGTGCCATTG
13666459 ATTGA
1 ATTGA
13666464 TCTCTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.19, C:0.11, G:0.36, T:0.33
Consensus pattern (16 bp):
ATTGAGGGTGCCATTG
Found at i:13668079 original size:18 final size:18
Alignment explanation
Indices: 13668065--13668099 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13668055 GTTCTTTTCT
13668065 CCTTTAATTTTCTTTATG
1 CCTTTAATTTTCTTTATG
*
13668083 CCTTTATTTTTCTTTAT
1 CCTTTAATTTTCTTTAT
13668100 AGATTTTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.03, T:0.66
Consensus pattern (18 bp):
CCTTTAATTTTCTTTATG
Found at i:13677038 original size:50 final size:50
Alignment explanation
Indices: 13676980--13677095 Score: 187
Period size: 50 Copynumber: 2.3 Consensus size: 50
13676970 ATTTGGGTAA
* *
13676980 AGAGGTCCCATGTAAGACCATGTCTGGGTCATGGCGTTGGAACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGAACCAAGATG
* *
13677030 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGAACCAAGATG
*
13677080 AGAGGTCTCATGTAAG
1 AGAGGTCCCATGTAAG
13677096 TTATGATCAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.27, C:0.20, G:0.32, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGAACCAAGATG
Found at i:13677468 original size:12 final size:12
Alignment explanation
Indices: 13677451--13677487 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13677441 TTTGATGATG
13677451 AATGGTTATTAA
1 AATGGTTATTAA
13677463 AATGGTTA--AA
1 AATGGTTATTAA
*
13677473 TATGGTTATTAA
1 AATGGTTATTAA
13677485 AAT
1 AAT
13677488 TGGCTCAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 9 0.43
12 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (12 bp):
AATGGTTATTAA
Found at i:13685342 original size:30 final size:30
Alignment explanation
Indices: 13685294--13685556 Score: 278
Period size: 30 Copynumber: 8.6 Consensus size: 30
13685284 TTGACAATAT
*
13685294 ATATGTATACAT-TACAAATCAATTCGGCA
1 ATATATATACATATACAAATCAATTCGGCA
13685323 ATATATATACATATACAAATCAATTCGGCA
1 ATATATATACATATACAAATCAATTCGGCA
* *
13685353 ATGTATAT-CTATATATAAATCAATTCGGCA
1 ATATATATAC-ATATACAAATCAATTCGGCA
* * * *
13685383 ATGTATATCCATATATAAATCAATTCGGCT
1 ATATATATACATATACAAATCAATTCGGCA
* * *
13685413 ATGTATATCCATATACAAATCAATTCGGTA
1 ATATATATACATATACAAATCAATTCGGCA
* *
13685443 ATGTATATCCATATACAAATCAATTCGGCTA
1 ATATATATACATATACAAATCAATTCGGC-A
* *
13685474 TATATATATATCTATATATAAATCAATTCGACA
1 -ATATATATA-C-ATATACAAATCAATTCGGCA
* **
13685507 ATATATATATCCATATACAAATAAATTTAGCA
1 ATATATATA--CATATACAAATCAATTCGGCA
*
13685539 ATATATAAAACATATACA
1 ATATAT-ATACATATACA
13685557 TTTGAATTCA
Statistics
Matches: 206, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
29 12 0.06
30 125 0.61
31 10 0.05
32 37 0.18
33 5 0.02
34 17 0.08
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (30 bp):
ATATATATACATATACAAATCAATTCGGCA
Found at i:13685433 original size:90 final size:92
Alignment explanation
Indices: 13685291--13685533 Score: 312
Period size: 90 Copynumber: 2.6 Consensus size: 92
13685281 AATTTGACAA
* * * * *
13685291 TATATATGTATACAT-TACAAATCAATTCGGCAATATATATACATATACAAATCAATTCGGCAAT
1 TATATATATATCCATATATAAATCAATTCGGCTATATATATCCATATACAAATCAATTCGGCAAT
* *
13685355 GTATATCTATATATAAATCAATTCGGC
66 GTATATCCATATACAAATCAATTCGGC
* * *
13685382 -A-ATGTATATCCATATATAAATCAATTCGGCTATGTATATCCATATACAAATCAATTCGGTAAT
1 TATATATATATCCATATATAAATCAATTCGGCTATATATATCCATATACAAATCAATTCGGCAAT
13685445 GTATATCCATATACAAATCAATTCGGC
66 GTATATCCATATACAAATCAATTCGGC
* * *
13685472 TATATATATATATCTATATATAAATCAATTCGACAATATATATATCCATATACAAATAAATT
1 --TATATATATATCCATATATAAATCAATTCGGC--TATATATATCCATATACAAATCAATT
13685534 TAGCAATATA
Statistics
Matches: 130, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
89 9 0.07
90 70 0.54
93 1 0.01
94 26 0.20
96 24 0.18
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (92 bp):
TATATATATATCCATATATAAATCAATTCGGCTATATATATCCATATACAAATCAATTCGGCAAT
GTATATCCATATACAAATCAATTCGGC
Found at i:13685545 original size:34 final size:34
Alignment explanation
Indices: 13685416--13685545 Score: 112
Period size: 34 Copynumber: 4.0 Consensus size: 34
13685406 TTCGGCTATG
** *
13685416 TATATCCATATACAAATCAA-TT--CGGTA-ATG
1 TATATCCATATACAAATCAATTTAGCAATATATA
** *
13685446 TATATCCATATACAAATCAATTCGGCTATATATA
1 TATATCCATATACAAATCAATTTAGCAATATATA
* * *
13685480 TATATCTATATATAAATCAA-TTCG-ACA-ATATA
1 TATATCCATATACAAATCAATTTAGCA-ATATATA
*
13685512 TATATCCATATACAAATAAATTTAGCAATATATA
1 TATATCCATATACAAATCAATTTAGCAATATATA
13685546 AAACATATAC
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
30 20 0.25
31 1 0.01
32 22 0.28
33 10 0.13
34 26 0.33
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (34 bp):
TATATCCATATACAAATCAATTTAGCAATATATA
Found at i:13685880 original size:21 final size:21
Alignment explanation
Indices: 13685834--13685881 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
13685824 TAAAACTTTC
*
13685834 ATTT-ATTTCATATTTCAACC
1 ATTTAATTTCATATTTCAACA
*
13685854 ACTTAATTTGCATATTTC-ACA
1 ATTTAATTT-CATATTTCAACA
13685875 ATTTAAT
1 ATTTAAT
13685882 CCCTATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 3 0.13
21 12 0.52
22 8 0.35
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTAATTTCATATTTCAACA
Found at i:13687539 original size:41 final size:41
Alignment explanation
Indices: 13687492--13687573 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
13687482 ATATTTTATT
13687492 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
*
13687533 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
13687574 CAATTAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCC
Found at i:13691268 original size:19 final size:19
Alignment explanation
Indices: 13691244--13691284 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
13691234 TATTTTAAAG
*
13691244 TTATTTTGGTAGATAAAAC
1 TTATTTAGGTAGATAAAAC
*
13691263 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAAAC
13691282 TTA
1 TTA
13691285 GAATAAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAAAC
Found at i:13691368 original size:41 final size:41
Alignment explanation
Indices: 13691322--13691402 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
13691312 ATATTTTATT
*
13691322 TTATCTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAACAAGGGAACTATTTTCC
*
13691363 TTATCTTTTAGTAGTTTATTAGAACAAGGGAATTATTTTC
1 TTATCTTTTAGTAGTTTATTAGAACAAGGGAACTATTTTC
13691403 TGAATTAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAACAAGGGAACTATTTTCC
Found at i:13694037 original size:18 final size:18
Alignment explanation
Indices: 13694014--13694049 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13694004 TTTGTTGAAA
*
13694014 CAAATCGAATTGGCCAAC
1 CAAATCGAATCGGCCAAC
13694032 CAAATCGAATCGGCCAAC
1 CAAATCGAATCGGCCAAC
13694050 AACCCTCCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.31, G:0.17, T:0.14
Consensus pattern (18 bp):
CAAATCGAATCGGCCAAC
Found at i:13696839 original size:23 final size:23
Alignment explanation
Indices: 13696813--13696884 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 23
13696803 TTTAAAAATA
13696813 TTTAAAATATATTTTTTAATTTT
1 TTTAAAATATATTTTTTAATTTT
13696836 TTTAATTTTAAT-TA-TTTTTAATTTT
1 TTTAA----AATATATTTTTTAATTTT
* *
13696861 ATTAAAATATTTTTTTTAATTTT
1 TTTAAAATATATTTTTTAATTTT
13696884 T
1 T
13696885 AAAAATTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 16 0.40
25 15 0.38
26 2 0.05
27 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTAAAATATATTTTTTAATTTT
Found at i:13696853 original size:16 final size:15
Alignment explanation
Indices: 13696826--13696861 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
13696816 AAAATATATT
13696826 TTTTAATTTTTTTAA
1 TTTTAATTTTTTTAA
13696841 TTTTAATTATTTTTAA
1 TTTTAATT-TTTTTAA
13696857 TTTTA
1 TTTTA
13696862 TTAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTAATTTTTTTAA
Found at i:13702450 original size:69 final size:69
Alignment explanation
Indices: 13702274--13702450 Score: 196
Period size: 69 Copynumber: 2.6 Consensus size: 69
13702264 GGTTAGCTTG
* * * ** *
13702274 GCTATGAAAACCAATAGAGTCTATTGGGACAGTAAATACGGAGATTTCAAGGTGTAAAACCATAG
1 GCTATGACAACCAATAGAGTCTATTAGGACAGTAAACATAGAGATTTCAAGGTGTAAAAACATAG
13702339 CTCA
66 CTCA
* *
13702343 GCTATGACAACCAATAGAGT-TAGTTAGGATAGTAAACATAGAGATTTCAATGTGTAAAAACATA
1 GCTATGACAACCAATAGAGTCTA-TTAGGACAGTAAACATAGAGATTTCAAGGTGTAAAAACATA
*
13702407 GCTCG
65 GCTCA
* * * * *
13702412 GGTTTGGCAACCAATAGAGTCCATCT-GGACATTAAACAT
1 GCTATGACAACCAATAGAGTCTAT-TAGGACAGTAAACAT
13702451 GGGTTTATAC
Statistics
Matches: 90, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
68 2 0.02
69 86 0.96
70 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (69 bp):
GCTATGACAACCAATAGAGTCTATTAGGACAGTAAACATAGAGATTTCAAGGTGTAAAAACATAG
CTCA
Found at i:13704545 original size:13 final size:13
Alignment explanation
Indices: 13704527--13704552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13704517 GGAATGATAT
13704527 TTTGAAAATTTCG
1 TTTGAAAATTTCG
13704540 TTTGAAAATTTCG
1 TTTGAAAATTTCG
13704553 ACGTTTGGGC
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:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGAAAATTTCG
Found at i:13704864 original size:15 final size:15
Alignment explanation
Indices: 13704844--13704875 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13704834 AGAGGAAAGC
13704844 CATATTTAGGGTTTT
1 CATATTTAGGGTTTT
13704859 CATATTTAGGGTTTT
1 CATATTTAGGGTTTT
13704874 CA
1 CA
13704876 AGCTTCCAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.50
Consensus pattern (15 bp):
CATATTTAGGGTTTT
Found at i:13705129 original size:15 final size:15
Alignment explanation
Indices: 13705109--13705140 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
13705099 AAAAGAGTAA
13705109 AACGACATAATCGGT
1 AACGACATAATCGGT
13705124 AACGACATAATCGGT
1 AACGACATAATCGGT
13705139 AA
1 AA
13705141 AAATACCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (15 bp):
AACGACATAATCGGT
Found at i:13720431 original size:19 final size:19
Alignment explanation
Indices: 13720407--13720468 Score: 115
Period size: 19 Copynumber: 3.3 Consensus size: 19
13720397 GATTATGTTT
13720407 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
*
13720426 ATATCATATCTAGGATTGC
1 ATATCATATCTAAGATTGC
13720445 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
13720464 ATATC
1 ATATC
13720469 CATTTTGTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:13723063 original size:2 final size:2
Alignment explanation
Indices: 13723056--13723095 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13723046 TGTTCTAGGA
13723056 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13723096 GTTATTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13728584 original size:19 final size:20
Alignment explanation
Indices: 13728551--13728594 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
13728541 ATTATTTGTT
13728551 ATTTGGAAGGGTTAA-GGC-
1 ATTTGGAAGGGTTAATGGCG
*
13728569 ATTTGGAATTGGTTAATGGCG
1 ATTTGGAA-GGGTTAATGGCG
13728590 ATTTG
1 ATTTG
13728595 AAAGTGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 6 0.27
20 3 0.14
21 5 0.23
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.36
Consensus pattern (20 bp):
ATTTGGAAGGGTTAATGGCG
Found at i:13732239 original size:24 final size:23
Alignment explanation
Indices: 13732210--13732317 Score: 108
Period size: 24 Copynumber: 4.5 Consensus size: 23
13732200 TCCAGGCTAT
*
13732210 ATAACGGGAAGCTCATGCGAGCCA
1 ATAACGGGAAGCTC-TGAGAGCCA
* *
13732234 ATAACGGGTAGCTCTAAAGAGCCA
1 ATAACGGGAAGCTCT-GAGAGCCA
*
13732258 TTAACGGGAAGCTCTGAAGAGCCA
1 ATAACGGGAAGCTCTG-AGAGCCA
* *
13732282 TTAACGGGAAGCTCTGGATAGCCA
1 ATAACGGGAAGCTCT-GAGAGCCA
*
13732306 TATATCGGGAAG
1 -ATAACGGGAAG
13732318 TTCAAGCGAG
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.01
24 60 0.85
25 10 0.14
ACGTcount: A:0.33, C:0.20, G:0.29, T:0.18
Consensus pattern (23 bp):
ATAACGGGAAGCTCTGAGAGCCA
Found at i:13732305 original size:48 final size:49
Alignment explanation
Indices: 13732208--13732317 Score: 134
Period size: 48 Copynumber: 2.3 Consensus size: 49
13732198 TATCCAGGCT
* *
13732208 ATATAACGGGAAGCTCATGCGAGCCAATAACGGGTAGCTCTAAAGAGCC
1 ATATAACGGGAAGCTCATGAGAGCCAATAACGGGAAGCTCTAAAGAGCC
* ** *
13732257 AT-TAACGGGAAGCTC-TGAAGAGCCATTAACGGGAAGCTCTGGATAGCC
1 ATATAACGGGAAGCTCATG-AGAGCCAATAACGGGAAGCTCTAAAGAGCC
*
13732305 ATATATCGGGAAG
1 ATATAACGGGAAG
13732318 TTCAAGCGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 2 0.04
48 39 0.75
49 11 0.21
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (49 bp):
ATATAACGGGAAGCTCATGAGAGCCAATAACGGGAAGCTCTAAAGAGCC
Found at i:13732366 original size:26 final size:26
Alignment explanation
Indices: 13732329--13732391 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
13732319 TCAAGCGAGT
*
13732329 TGGGAAGCTCACAAAGAGCC-TTTAA
1 TGGGAAGCTCACAAAGAGCCATATAA
13732354 TCGGGAAGCTCACAAAGAGCCATATAA
1 T-GGGAAGCTCACAAAGAGCCATATAA
*
13732381 TGGGATGCTCA
1 TGGGAAGCTCA
13732392 TAAGAGCTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 1 0.03
26 28 0.82
27 5 0.15
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
TGGGAAGCTCACAAAGAGCCATATAA
Found at i:13733432 original size:30 final size:30
Alignment explanation
Indices: 13733398--13733455 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
13733388 TATTTTATTA
*
13733398 TTTATCATCTTTATTTTTC-ATTTTTCCAAT
1 TTTATCAT-TTTATTTTTCTAATTTTCCAAT
* *
13733428 TTTATCCTTTTCTTTTTCTAATTTTCCA
1 TTTATCATTTTATTTTTCTAATTTTCCA
13733456 TGAATGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTATCATTTTATTTTTCTAATTTTCCAAT
Found at i:13735284 original size:45 final size:45
Alignment explanation
Indices: 13735233--13735411 Score: 358
Period size: 45 Copynumber: 4.0 Consensus size: 45
13735223 AAAATGTCAG
13735233 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATGT
1 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATGT
13735278 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATGT
1 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATGT
13735323 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATGT
1 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATGT
13735368 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATG
1 CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATG
13735412 ATAATCGAGT
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (45 bp):
CTTAGCTTTTAACTCAGCTAAGATTGAGCCATCATCAAACAATGT
Found at i:13740134 original size:24 final size:25
Alignment explanation
Indices: 13740054--13740132 Score: 85
Period size: 24 Copynumber: 3.3 Consensus size: 25
13740044 TGTATAACGT
13740054 GAAGCTCAT-AAGAGCCA-TAATCAG
1 GAAGCTCATGAAGAGCCATTAA-CAG
* * *
13740078 GAAGATCATG-TGAGCCAATAACAG
1 GAAGCTCATGAAGAGCCATTAACAG
*
13740102 GCAGCTC-TGAAGAGCCATTAACAG
1 GAAGCTCATGAAGAGCCATTAACAG
13740126 GAAGCTC
1 GAAGCTC
13740133 TGGATAGCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.04
24 40 0.89
25 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (25 bp):
GAAGCTCATGAAGAGCCATTAACAG
Found at i:13740141 original size:24 final size:24
Alignment explanation
Indices: 13740054--13740144 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 24
13740044 TGTATAACGT
13740054 GAAGCTCAT-AAGAGCCA-TAATCAG
1 GAAGCTC-TGAAGAGCCATTAA-CAG
* * *
13740078 GAAGATCATG-TGAGCCAATAACAG
1 GAAGCTC-TGAAGAGCCATTAACAG
*
13740102 GCAGCTCTGAAGAGCCATTAACAG
1 GAAGCTCTGAAGAGCCATTAACAG
* *
13740126 GAAGCTCTGGATAGCCATT
1 GAAGCTCTGAAGAGCCATT
13740145 TATTGGGAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
23 2 0.04
24 50 0.91
25 3 0.05
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (24 bp):
GAAGCTCTGAAGAGCCATTAACAG
Found at i:13740213 original size:26 final size:26
Alignment explanation
Indices: 13740172--13740259 Score: 108
Period size: 26 Copynumber: 3.4 Consensus size: 26
13740162 TAGCTATATT
* *
13740172 GGGAAGCTTACAAAGAGCCTTTAATAC
1 GGGAAGCTCACGAAGAGCCTTTAAT-C
13740199 -GGAAGCTCACGAAGAGCCTTTAATC
1 GGGAAGCTCACGAAGAGCCTTTAATC
*
13740224 GGGAAGCTCACGAAGAGCCATATAAT-
1 GGGAAGCTCACGAAGAGCC-TTTAATC
*
13740250 GGGATGCTCA
1 GGGAAGCTCA
13740260 TAAGAGCTGC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
25 1 0.02
26 49 0.89
27 5 0.09
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.19
Consensus pattern (26 bp):
GGGAAGCTCACGAAGAGCCTTTAATC
Found at i:13745657 original size:30 final size:30
Alignment explanation
Indices: 13745623--13745691 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
13745613 AAAAAATATC
* *
13745623 AATTTAACTCTTTTGAAAGGTTGATGGTCA
1 AATTTAACTCTTTTAAAAGGTTGATGGACA
**
13745653 AATTTGATTTCTTTTAAAAGGTTGATGGACA
1 AATTT-AACTCTTTTAAAAGGTTGATGGACA
13745684 AATTTAAC
1 AATTTAAC
13745692 AAAAAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (30 bp):
AATTTAACTCTTTTAAAAGGTTGATGGACA
Found at i:13747162 original size:14 final size:14
Alignment explanation
Indices: 13747143--13747170 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13747133 TAAAAGACAA
13747143 TGATTACTTAATGG
1 TGATTACTTAATGG
13747157 TGATTACTTAATGG
1 TGATTACTTAATGG
13747171 GGTTCTCCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TGATTACTTAATGG
Found at i:13747296 original size:27 final size:27
Alignment explanation
Indices: 13747257--13747567 Score: 293
Period size: 27 Copynumber: 11.5 Consensus size: 27
13747247 CACGATAGAT
* * *
13747257 AAGAATAGCCTTTATGGCATAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* * *
13747284 AAGAAAAGTCTTTGTGGTGTAATATGT
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* * * *
13747311 AAGAAAATCATTTGTGGCATAATATGT
1 AAGAAAAGCCTTTGTGGCGTAATATGA
*
13747338 AAGAAAAGCATTTGTGGCGTAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* * * *
13747365 AATAATAGCCTTTGTGACGCAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* * *
13747392 AAGAAAAAACCTTTGTGGCATAATATGT
1 AAG-AAAAGCCTTTGTGGCGTAATATGA
* *
13747420 ATGAAAAGCCTTTGTGACGTAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* *
13747447 AATAATAA-CCTTTGTAGCGTAATATGA
1 AAGAA-AAGCCTTTGTGGCGTAATATGA
* * *
13747474 AAGAAAAGTCTTTGTAGCATAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* * **
13747501 AATAATAGCCTTTGTGATGTAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* **
13747528 AAGAATAGCCTTTGTGGCAAAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
13747555 AATG-AAAGCCTTT
1 AA-GAAAAGCCTTT
13747568 CTGGAAAACC
Statistics
Matches: 229, Mismatches: 51, Indels: 8
0.80 0.18 0.03
Matches are distributed among these distances:
26 2 0.01
27 204 0.89
28 23 0.10
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.31
Consensus pattern (27 bp):
AAGAAAAGCCTTTGTGGCGTAATATGA
Found at i:13747509 original size:136 final size:135
Alignment explanation
Indices: 13747265--13747567 Score: 378
Period size: 136 Copynumber: 2.2 Consensus size: 135
13747255 ATAAGAATAG
* * * ** * *
13747265 CCTTTATGGCATAATATGAAAGAAAAGTCTTTGTGGTGTAATATGTAAGAAAATCATTTGTGGCA
1 CCTTTGTGGCATAATATGAATGAAAAGCCTTTGTGACGTAATATGAAAGAAAATCATTTGTAGCA
* * *
13747330 TAATATGTAAGAAAAGCATTTGTGGCGTAATATGAAATAATAGCCTTTGTGACGCAATATGAAAG
66 TAATATGAAAGAAAAGCATTTGTAGCATAATATGAAATAATAGCCTTTGTGACGCAATATGAAAG
13747395 AAAAAA
131 -AAAAA
* * *
13747401 CCTTTGTGGCATAATATGTATGAAAAGCCTTTGTGACGTAATATGAAATAATAA-CCTTTGTAGC
1 CCTTTGTGGCATAATATGAATGAAAAGCCTTTGTGACGTAATATGAAAGAA-AATCATTTGTAGC
* * *
13747465 GTAATATGAAAGAAAAGTC-TTTGTAGCATAATATGAAATAATAGCCTTTGTGATGTAATATGAA
65 ATAATATGAAAGAAAAG-CATTTGTAGCATAATATGAAATAATAGCCTTTGTGACGCAATATGAA
* *
13747529 AGAATAG
129 AGAAAAA
*
13747536 CCTTTGTGGCAAAATATGAAATG-AAAGCCTTT
1 CCTTTGTGGCATAATATG-AATGAAAAGCCTTT
13747568 CTGGAAAACC
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
135 29 0.20
136 112 0.78
137 3 0.02
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (135 bp):
CCTTTGTGGCATAATATGAATGAAAAGCCTTTGTGACGTAATATGAAAGAAAATCATTTGTAGCA
TAATATGAAAGAAAAGCATTTGTAGCATAATATGAAATAATAGCCTTTGTGACGCAATATGAAAG
AAAAA
Found at i:13747581 original size:27 final size:26
Alignment explanation
Indices: 13747524--13747599 Score: 73
Period size: 27 Copynumber: 2.8 Consensus size: 26
13747514 GTGATGTAAT
* *
13747524 ATGAAAGAATAGCCTTTGTGGCAAAAT
1 ATGAAAGAA-AGCCTTTCTGGCAAAAC
13747551 ATGAAATGAAAGCCTTTCTGG-AAAACC
1 ATGAAA-GAAAGCCTTTCTGGCAAAA-C
* *
13747578 ATGAAAAGAAAGTCTTTGTGGC
1 ATG-AAAGAAAGCCTTTCTGGC
13747600 GATCTCCCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.10
27 31 0.76
28 6 0.15
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (26 bp):
ATGAAAGAAAGCCTTTCTGGCAAAAC
Found at i:13749558 original size:41 final size:41
Alignment explanation
Indices: 13749501--13749722 Score: 320
Period size: 41 Copynumber: 5.4 Consensus size: 41
13749491 CTTTAATTAT
* *
13749501 TTTGTACTTTGGTACCCCAT-AATTGCACATACGTGCCCCTA
1 TTTGTACTTCGGTACCCC-TGAATTGCACATACGTGCCCCTG
* * * *
13749542 TTTGTACTTCGATACCCATGAATTGCACATACATGCCCTTG
1 TTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTG
*
13749583 TTTGTACTTCAGTACCCCTGAATTGCACATACGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTG
* *
13749624 TTTGTACTTCGGTACCCTTAAATTGCACATACGTGCCCCTG
1 TTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTG
*
13749665 TTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCTCTG
1 TTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTG
* *
13749706 TTTATACTTCAGTACCC
1 TTTGTACTTCGGTACCC
13749723 TGTTTAGATT
Statistics
Matches: 161, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
40 1 0.01
41 160 0.99
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (41 bp):
TTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTG
Found at i:13749684 original size:20 final size:19
Alignment explanation
Indices: 13749581--13749684 Score: 55
Period size: 20 Copynumber: 5.1 Consensus size: 19
13749571 TACATGCCCT
13749581 TGTTTGTACTTCAGTACCCC
1 TGTTTGTACTTC-GTACCCC
* * * *
13749601 TGAATTGCACATACGTGCCCC
1 TG-TTTGTAC-TTCGTACCCC
*
13749622 TGTTTGTACTTCGGTACCCT
1 TGTTTGTACTTC-GTACCCC
** * * *
13749642 TAAATTGCACATACGTGCCCC
1 T-GTTTGTAC-TTCGTACCCC
13749663 TGTTTGTACTTCGGTACCCC
1 TGTTTGTACTTC-GTACCCC
13749683 TG
1 TG
13749685 AATTGCACAT
Statistics
Matches: 58, Mismatches: 20, Indels: 12
0.64 0.22 0.13
Matches are distributed among these distances:
19 4 0.07
20 26 0.45
21 24 0.41
22 4 0.07
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (19 bp):
TGTTTGTACTTCGTACCCC
Found at i:13754554 original size:36 final size:36
Alignment explanation
Indices: 13754513--13754581 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
13754503 AGAAGTTATG
*
13754513 ATAATTACACATTTAAAAATAATCACAATTTAATTA
1 ATAATTACACATTTAAAAATAATCAAAATTTAATTA
* * *
13754549 ATAATTATACATTTATAAATAATTAAAATTTAA
1 ATAATTACACATTTAAAAATAATCAAAATTTAA
13754582 ATTACAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (36 bp):
ATAATTACACATTTAAAAATAATCAAAATTTAATTA
Found at i:13754569 original size:18 final size:18
Alignment explanation
Indices: 13754513--13754573 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
13754503 AGAAGTTATG
*
13754513 ATAATTACACATTTAAAA
1 ATAATTACACATTTATAA
* *
13754531 ATAATCACA-ATTTAATTA
1 ATAATTACACATTT-ATAA
*
13754549 ATAATTATACATTTATAA
1 ATAATTACACATTTATAA
13754567 ATAATTA
1 ATAATTA
13754574 AAATTTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 4 0.11
18 27 0.77
19 4 0.11
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATTACACATTTATAA
Found at i:13754591 original size:36 final size:36
Alignment explanation
Indices: 13754515--13754592 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
13754505 AAGTTATGAT
* * *
13754515 AATTACACATTTAAAAATAATCACAATTTAATTAAT
1 AATTATACATTTAAAAATAATCAAAATTTAATTAAC
* *
13754551 AATTATACATTTATAAATAATTAAAATTTAAATT-AC
1 AATTATACATTTAAAAATAATCAAAATTT-AATTAAC
13754587 AATTAT
1 AATTAT
13754593 TCCTTAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 32 0.89
37 4 0.11
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.40
Consensus pattern (36 bp):
AATTATACATTTAAAAATAATCAAAATTTAATTAAC
Found at i:13758420 original size:1 final size:1
Alignment explanation
Indices: 13758414--13758469 Score: 103
Period size: 1 Copynumber: 56.0 Consensus size: 1
13758404 TGGTTGCTTC
*
13758414 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
13758470 GTATATATGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.02, C:0.00, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:13760186 original size:2 final size:2
Alignment explanation
Indices: 13760179--13760205 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13760169 ACGAGTAATT
13760179 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13760206 TGAATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13761006 original size:11 final size:11
Alignment explanation
Indices: 13760990--13761023 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13760980 TTCTCACTGA
13760990 TTTACTACTAT
1 TTTACTACTAT
*
13761001 TTTACTATTAT
1 TTTACTACTAT
*
13761012 GTTACTACTAT
1 TTTACTACTAT
13761023 T
1 T
13761024 ATGTTGTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (11 bp):
TTTACTACTAT
Found at i:13765502 original size:28 final size:28
Alignment explanation
Indices: 13765468--13765531 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
13765458 TTTTTAAAAA
* *
13765468 TAATTTTTATATTTTATAC-CTTTTTTAT
1 TAATTTTTAAATTTTAAACAC-TTTTTAT
13765496 TAATTTTTAAATTTTAAACACTTTTTAT
1 TAATTTTTAAATTTTAAACACTTTTTAT
*
13765524 AAATTTTT
1 TAATTTTT
13765532 TGAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (28 bp):
TAATTTTTAAATTTTAAACACTTTTTAT
Found at i:13768125 original size:41 final size:42
Alignment explanation
Indices: 13768068--13768150 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 42
13768058 TAGTCAAATG
*
13768068 GTCAAAAAGAAAAGAAAAGATGATTGGTCCTTCTCT-TCTCT
1 GTCAAAAAGAAAAGAAAAGATGATTAGTCCTTCTCTGTCTCT
*
13768109 GTCAAAAAGAAAAGAAAATATGATTAGTCCTTCTCTGTCTCT
1 GTCAAAAAGAAAAGAAAAGATGATTAGTCCTTCTCTGTCTCT
13768151 TTTTTCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 34 0.87
42 5 0.13
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (42 bp):
GTCAAAAAGAAAAGAAAAGATGATTAGTCCTTCTCTGTCTCT
Found at i:13770988 original size:9 final size:9
Alignment explanation
Indices: 13770974--13771010 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13770964 TATAGTTTGA
13770974 TATTCGAAT
1 TATTCGAAT
13770983 TATTCGAAT
1 TATTCGAAT
*
13770992 TATTCGAGT
1 TATTCGAAT
13771001 TATTCGAAT
1 TATTCGAAT
13771010 T
1 T
13771011 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:13771079 original size:9 final size:9
Alignment explanation
Indices: 13771062--13771092 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13771052 TCGAGTTGAT
13771062 TCGAATAAC
1 TCGAATAAC
*
13771071 TCGATTAAC
1 TCGAATAAC
13771080 TCGAATAAC
1 TCGAATAAC
13771089 TCGA
1 TCGA
13771093 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:13772253 original size:14 final size:14
Alignment explanation
Indices: 13772234--13772264 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13772224 TTCCATTTTC
13772234 TCTTCTTCTCCTCT
1 TCTTCTTCTCCTCT
*
13772248 TCTTCTTTTCCTCT
1 TCTTCTTCTCCTCT
13772262 TCT
1 TCT
13772265 CCTCTATTTC
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:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TCTTCTTCTCCTCT
Found at i:13772286 original size:11 final size:11
Alignment explanation
Indices: 13772231--13772289 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
13772221 TCCTTCCATT
13772231 TTCTCTTCTTC
1 TTCTCTTCTTC
*
13772242 TCCTCTTCTTC
1 TTCTCTTCTTC
* *
13772253 TTTTCCTCTTC
1 TTCTCTTCTTC
*
13772264 TCCTCTAT-TTC
1 TTCTCT-TCTTC
*
13772275 TTCTCTTATTC
1 TTCTCTTCTTC
13772286 TTCT
1 TTCT
13772290 TCTACTGCCC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
10 1 0.03
11 36 0.95
12 1 0.03
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (11 bp):
TTCTCTTCTTC
Found at i:13772286 original size:22 final size:22
Alignment explanation
Indices: 13772231--13772286 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
13772221 TCCTTCCATT
13772231 TTCTCTTCTTCTCCTCTTCTTC
1 TTCTCTTCTTCTCCTCTTCTTC
* *
13772253 TTTTCCTCTTCTCCTCTAT-TTC
1 TTCTCTTCTTCTCCTCT-TCTTC
*
13772275 TTCTCTTATTCT
1 TTCTCTTCTTCT
13772287 TCTTCTACTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.04, C:0.36, G:0.00, T:0.61
Consensus pattern (22 bp):
TTCTCTTCTTCTCCTCTTCTTC
Found at i:13772624 original size:24 final size:24
Alignment explanation
Indices: 13772578--13772626 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
13772568 ACATTTTTTT
**
13772578 ATTTGATTGAATTTTGCTATTAAA
1 ATTTGATTGAATTTTAATATTAAA
* *
13772602 ATTTGATTTAATTTTAATTTTAAA
1 ATTTGATTGAATTTTAATATTAAA
13772626 A
1 A
13772627 AAATTGAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (24 bp):
ATTTGATTGAATTTTAATATTAAA
Found at i:13772700 original size:24 final size:23
Alignment explanation
Indices: 13772673--13772718 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
13772663 AAATTTATTT
13772673 TAATAGCTAAAAATAATAATTAAG
1 TAATAGCTAAAAATAA-AATTAAG
** *
13772697 TAATATTTAAAATTAAAATTAA
1 TAATAGCTAAAAATAAAATTAA
13772719 CTATATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAATAGCTAAAAATAAAATTAAG
Found at i:13772716 original size:23 final size:25
Alignment explanation
Indices: 13772680--13772728 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
13772670 TTTTAATAGC
*
13772680 TAAAAATAATAATTAAGTA-ATATT
1 TAAAAATAATAATTAACTATATATT
*
13772704 TAAAATTAA-AATTAACTATATATT
1 TAAAAATAATAATTAACTATATATT
13772728 T
1 T
13772729 GAGTTGAGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
TAAAAATAATAATTAACTATATATT
Found at i:13776282 original size:28 final size:30
Alignment explanation
Indices: 13776250--13776309 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 30
13776240 GTTTAGTCTT
13776250 AATTTTTAAAATTA-AAAAGT-T-AAAAAAA
1 AATTTTT-AAATTAGAAAAGTATGAAAAAAA
*
13776278 AA-TTTTAAATTAGAAAATTATGAAAAAAA
1 AATTTTTAAATTAGAAAAGTATGAAAAAAA
13776307 AAT
1 AAT
13776310 ATATTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
26 6 0.22
27 9 0.33
28 3 0.11
29 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (30 bp):
AATTTTTAAATTAGAAAAGTATGAAAAAAA
Found at i:13776294 original size:27 final size:29
Alignment explanation
Indices: 13776253--13776309 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
13776243 TAGTCTTAAT
13776253 TTTTAAAATTAAAAAGT-T-AAAAAAAAA
1 TTTTAAAATTAAAAAGTATGAAAAAAAAA
*
13776280 TTTT-AAATTAGAAAATTATGAAAAAAAAA
1 TTTTAAAATTA-AAAAGTATGAAAAAAAAA
13776309 T
1 T
13776310 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.23
27 9 0.35
28 1 0.04
29 10 0.38
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (29 bp):
TTTTAAAATTAAAAAGTATGAAAAAAAAA
Found at i:13778108 original size:43 final size:41
Alignment explanation
Indices: 13778049--13778180 Score: 111
Period size: 43 Copynumber: 3.1 Consensus size: 41
13778039 ACCACCAGTG
* * *
13778049 TTTGCAGATGAACTGCCAGTAGGTTATGGATGCACAACATA
1 TTTGCAAATAAACTGCCAGTAGGTTATGGATACACAACATA
* * * * * *
13778090 TTTGCAAATAAGAGCTGCCAATAAGTTTGTGGATAAACCATCAGTG
1 TTTGCAAATAA-A-CTGCCAGT-AGGTTATGGATACA-CAACA-TA
* * *
13778136 TTTGCAAATAAATTGCCAGTAGGTTATGAATACACAACGTA
1 TTTGCAAATAAACTGCCAGTAGGTTATGGATACACAACATA
13778177 TTTG
1 TTTG
13778181 TAGACAAAAG
Statistics
Matches: 68, Mismatches: 18, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
41 14 0.21
42 4 0.06
43 17 0.25
44 16 0.24
45 5 0.07
46 12 0.18
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (41 bp):
TTTGCAAATAAACTGCCAGTAGGTTATGGATACACAACATA
Found at i:13778179 original size:87 final size:87
Alignment explanation
Indices: 13778032--13778228 Score: 232
Period size: 87 Copynumber: 2.3 Consensus size: 87
13778022 CTCCAATTTT
* * * * * *
13778032 TGGATGAACCACCAGTGTTTGCAGATGAACTGCCAGTAGGTTATGGATGCACAACATATTTGCAA
1 TGGATAAACCATCAGTGTTTGCAAATAAACTGCCAGTAGGTTATGAATACACAACATATTTGCAA
* * * * *
13778097 ATAAGAGCTGCCAATAAGTTTG
66 ACAAAAGATGCCAATAAATTCG
* * * *
13778119 TGGATAAACCATCAGTGTTTGCAAATAAATTGCCAGTAGGTTATGAATACACAACGTATTTGTAG
1 TGGATAAACCATCAGTGTTTGCAAATAAACTGCCAGTAGGTTATGAATACACAACATATTTGCAA
* *
13778184 ACAAAAGATGCTAGTAAATTCG
66 ACAAAAGATGCCAATAAATTCG
*
13778206 TGGATAAACCATTAGTGTTTGCA
1 TGGATAAACCATCAGTGTTTGCA
13778229 GATTATTAAA
Statistics
Matches: 92, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 92 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (87 bp):
TGGATAAACCATCAGTGTTTGCAAATAAACTGCCAGTAGGTTATGAATACACAACATATTTGCAA
ACAAAAGATGCCAATAAATTCG
Found at i:13781575 original size:53 final size:53
Alignment explanation
Indices: 13781505--13781641 Score: 184
Period size: 53 Copynumber: 2.6 Consensus size: 53
13781495 TGAAGAATCT
* *
13781505 TATCGTGTAAGACCGTAATTGGTGGGTTATGACATCATATGGAAAGAAGACCA
1 TATCGTGTAAAACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAGACCA
* *
13781558 TATCGTGTAAAACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAAATCA
1 TATCGTGTAAAACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAGACCA
** * ** *
13781611 TATAATGTAAGATTGTAACTGGTGGTTTATG
1 TATCGTGTAAAACCGTAACTGGTGGGTTATG
13781642 GGAAAAATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 74 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (53 bp):
TATCGTGTAAAACCGTAACTGGTGGGTTATGACATCATATGGAAAGAAGACCA
Found at i:13781862 original size:61 final size:61
Alignment explanation
Indices: 13781763--13781917 Score: 213
Period size: 61 Copynumber: 2.5 Consensus size: 61
13781753 CAAGAAAGGA
* * *
13781763 AAGCCTTTTTGGCGAGTACTGAATGTAAATGAATGCCTTTGTAACAAAACTCTAGACA-AG
1 AAGCCTTTGTGGCGAGTACTAAATGTAAATGAACGCCTTTGTAACAAAACTCTAGACATAG
* * * * *
13781823 AATGCCTTTGTGGAGAGTACTAAATGTAAATGAACGCCTTTGTAGCAAAATTCTGGACATGG
1 AA-GCCTTTGTGGCGAGTACTAAATGTAAATGAACGCCTTTGTAACAAAACTCTAGACATAG
*
13781885 AAGCTTTTGTGGCGAGTACTAAATGTAAATGAA
1 AAGCCTTTGTGGCGAGTACTAAATGTAAATGAA
13781918 TACCTTCGTG
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
60 2 0.02
61 78 0.94
62 3 0.04
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (61 bp):
AAGCCTTTGTGGCGAGTACTAAATGTAAATGAACGCCTTTGTAACAAAACTCTAGACATAG
Found at i:13784226 original size:27 final size:27
Alignment explanation
Indices: 13784196--13784249 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
13784186 AAAATAAAAC
13784196 AATGTTGATTACATGTGTATAGACCAT
1 AATGTTGATTACATGTGTATAGACCAT
13784223 AATGTTGATTACATGTGTATAGACCAT
1 AATGTTGATTACATGTGTATAGACCAT
13784250 GTATTGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (27 bp):
AATGTTGATTACATGTGTATAGACCAT
Found at i:13796220 original size:50 final size:52
Alignment explanation
Indices: 13796095--13796225 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 52
13796085 TGAACAAATG
* *
13796095 AGTTACTTAATGCA-AGA-TTTAATTTAATGATGCAGACTTAAACTAACATGGG
1 AGTTACATAATGCATA-ACTTT-ATTTAATGATGCAGACTTAAACTAACATGGA
** * * *
13796147 AGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGA
1 AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
*
13796197 AGTTACATAATGCATAACTTTATTAAATG
1 AGTTACATAATGCATAACTTTATTTAATG
13796226 CAGAATACAC
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
50 31 0.48
51 15 0.23
52 17 0.26
53 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (52 bp):
AGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:13800701 original size:63 final size:62
Alignment explanation
Indices: 13800630--13800800 Score: 207
Period size: 63 Copynumber: 2.7 Consensus size: 62
13800620 AAAAACATGT
* * *
13800630 GTGTGTCTAGCCCGTGTAACTCTTTGATTTCAGATTTGAGTCATACAGGCAAGACACACGGGC
1 GTGTGTCTAG-CCGTGTAACTCTCTGACTTCAGATTTGAGTCACACAGGCAAGACACACGGGC
* * * * * * *
13800693 GTGTGTCTAAGCCTTGTAACTCTCTAACTTCAGATTGGAGTTACACGGGTAAGACACACGGGT
1 GTGTGTCT-AGCCGTGTAACTCTCTGACTTCAGATTTGAGTCACACAGGCAAGACACACGGGC
* *
13800756 GTGTGTCTAGGCCGTGTAACTCACTGACTTCAGATTTGAGACACA
1 GTGTGTCTA-GCCGTGTAACTCTCTGACTTCAGATTTGAGTCACA
13800801 TGGGCGTGTG
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
62 1 0.01
63 87 0.97
64 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (62 bp):
GTGTGTCTAGCCGTGTAACTCTCTGACTTCAGATTTGAGTCACACAGGCAAGACACACGGGC
Found at i:13804913 original size:16 final size:16
Alignment explanation
Indices: 13804892--13804922 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13804882 CAATATCCAA
*
13804892 TTATCATATTTACACG
1 TTATCACATTTACACG
13804908 TTATCACATTTACAC
1 TTATCACATTTACAC
13804923 ATTCATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (16 bp):
TTATCACATTTACACG
Found at i:13807261 original size:41 final size:39
Alignment explanation
Indices: 13807216--13807307 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
13807206 AGCGGTATTT
*
13807216 TTAGCGGCGTTTGGACAAAAAACGCCGCTAAAAATTGAGCA
1 TTAGCGGCGTTTCGA-AAAAAACGCCGCTAAAAA-TGAGCA
* * ** *
13807257 TTAGCGGCGCTTCTAGGAAAGCGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTCGAAAAAAACGCCGCTAAAAATGAGCA
13807296 TTAGCGGCGTTT
1 TTAGCGGCGTTT
13807308 TTTGGAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 17 0.39
40 15 0.34
41 12 0.27
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (39 bp):
TTAGCGGCGTTTCGAAAAAAACGCCGCTAAAAATGAGCA
Found at i:13807328 original size:39 final size:40
Alignment explanation
Indices: 13807233--13807328 Score: 115
Period size: 39 Copynumber: 2.4 Consensus size: 40
13807223 CGTTTGGACA
*
13807233 AAAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTAGG
1 AAAAACGCCGC-AAAAAATGAGCATTAGCGGCGCTTCTAGG
* * * * *
13807274 -AAAGCGCCGCTAAAAATGAGCATTAGCGGCGTTTTTTGG
1 AAAAACGCCGCAAAAAATGAGCATTAGCGGCGCTTCTAGG
13807313 AAAAAC-CCGCAAAAAA
1 AAAAACGCCGCAAAAAA
13807329 CCTAAGCCCA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.72
40 13 0.28
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (40 bp):
AAAAACGCCGCAAAAAATGAGCATTAGCGGCGCTTCTAGG
Found at i:13807416 original size:41 final size:40
Alignment explanation
Indices: 13807371--13807553 Score: 258
Period size: 41 Copynumber: 4.4 Consensus size: 40
13807361 TTTAACGATA
* *
13807371 TTTTTGAGAAAGCGTCGCTAATGCTCGGGGCTTTAGCAGCG
1 TTTTTGA-AAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
13807412 TTTTTGAAGAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
1 TTTTTGAA-AAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
** *
13807453 TTTTCCAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCG
1 TTTTTGAA-AAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
*
13807494 TTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGTG
1 -TTTTTG-AAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
13807536 TTTTTGAAAAAGCGCCGC
1 TTTTTG-AAAAGCGCCGC
13807554 AAAAATATTT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 93 0.72
42 34 0.26
43 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.28
Consensus pattern (40 bp):
TTTTTGAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCG
Found at i:13807529 original size:83 final size:82
Alignment explanation
Indices: 13807379--13807553 Score: 269
Period size: 83 Copynumber: 2.1 Consensus size: 82
13807369 TATTTTTGAG
* *
13807379 AAAGCGTCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGGCT
1 AAAGCGCCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCT
13807444 TTAGCGGCGTTTTCCAA
66 TTAGCGGCGTTTTCCAA
* * *
13807461 GAAGCGCCGCTAATGCTCGGGGTTTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTCGGGGC
1 AAAGCGCCGCTAATGCTCGGGGCTTTAGCAGCG-TTTTTGAAAAAGCGCCGCTAATGCTCGGGGC
* **
13807526 TTTAGCGGTGTTTTTGAA
65 TTTAGCGGCGTTTTCCAA
13807544 AAAGCGCCGC
1 AAAGCGCCGC
13807554 AAAAATATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 29 0.35
83 54 0.65
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.27
Consensus pattern (82 bp):
AAAGCGCCGCTAATGCTCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCT
TTAGCGGCGTTTTCCAA
Found at i:13811536 original size:42 final size:43
Alignment explanation
Indices: 13811490--13811682 Score: 239
Period size: 43 Copynumber: 4.5 Consensus size: 43
13811480 GAAGCGTTGT
* * **
13811490 TAAAGGT-TTGTTCTATAGTGGCGCTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGATCTATAGCGGCATTTGTGGGAAAAGCGCCGC
** * **
13811532 TAAAGGTCTTGAGATATAGCGGCGTTTGTGAAAAAAGCGCCGC
1 TAAAGGTCTTGATCTATAGCGGCATTTGTGGGAAAAGCGCCGC
* *
13811575 TAAAGGTCTTGATCTATAGCGGCATTTGT-GCAAAAGCCCCGC
1 TAAAGGTCTTGATCTATAGCGGCATTTGTGGGAAAAGCGCCGC
*
13811617 TAAAGGTCCTGATCTATAGCGGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGATCTATAGCGGCATTTGTGGGAAAAGCGCCGC
*
13811660 TAAAGGTCAT-AGTCTATAGCGGC
1 TAAAGGTCTTGA-TCTATAGCGGC
13811683 GTTTATTTCT
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
42 46 0.35
43 85 0.65
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
TAAAGGTCTTGATCTATAGCGGCATTTGTGGGAAAAGCGCCGC
Found at i:13811610 original size:85 final size:86
Alignment explanation
Indices: 13811490--13811682 Score: 239
Period size: 85 Copynumber: 2.3 Consensus size: 86
13811480 GAAGCGTTGT
* * * * * *
13811490 TAAAGGT-TTGTTCTATAGTGGCGCTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGATATAGCGG
1 TAAAGGTCTTGATCTATAGCGGCACTTGTGGCAAAAGCCCCGCTAAAGGTCCTGAGATATAGCGG
*
13811554 CGTTTGTGAAAAAAGCGCCGC
66 CATTTGTGAAAAAAGCGCCGC
* **
13811575 TAAAGGTCTTGATCTATAGCGGCATTTGT-GCAAAAGCCCCGCTAAAGGTCCTGATCTATAGCGG
1 TAAAGGTCTTGATCTATAGCGGCACTTGTGGCAAAAGCCCCGCTAAAGGTCCTGAGATATAGCGG
**
13811639 CATTTGTGGGAAAAGCGCCGC
66 CATTTGTGAAAAAAGCGCCGC
*
13811660 TAAAGGTCAT-AGTCTATAGCGGC
1 TAAAGGTCTTGA-TCTATAGCGGC
13811683 GTTTATTTCT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
84 1 0.01
85 75 0.81
86 17 0.18
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (86 bp):
TAAAGGTCTTGATCTATAGCGGCACTTGTGGCAAAAGCCCCGCTAAAGGTCCTGAGATATAGCGG
CATTTGTGAAAAAAGCGCCGC
Found at i:13813083 original size:14 final size:15
Alignment explanation
Indices: 13813064--13813094 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
13813054 TATTTTACTG
13813064 TTTTTGAAAAAT-GA
1 TTTTTGAAAAATAGA
13813078 TTTTTGAAAAATAGA
1 TTTTTGAAAAATAGA
13813093 TT
1 TT
13813095 AATTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (15 bp):
TTTTTGAAAAATAGA
Found at i:13813120 original size:20 final size:21
Alignment explanation
Indices: 13813078--13813121 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13813068 TGAAAAATGA
*
13813078 TTTTTGAAAAATAGATTAATT
1 TTTTTAAAAAATAGATTAATT
13813099 TTTTTAAAAAATAGA-T-ATT
1 TTTTTAAAAAATAGATTAATT
13813118 TTTT
1 TTTT
13813122 ATGTTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 1 0.05
21 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (21 bp):
TTTTTAAAAAATAGATTAATT
Found at i:13813444 original size:24 final size:23
Alignment explanation
Indices: 13813417--13813463 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13813407 ACAAATACTC
13813417 ATATTTTATA-TAATTAAAATATTT
1 ATATTTTATACT-A-TAAAATATTT
*
13813441 ATATTTTGTACTATAAAATATTT
1 ATATTTTATACTATAAAATATTT
13813464 TTTAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 10 0.48
25 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
ATATTTTATACTATAAAATATTT
Found at i:13813461 original size:17 final size:18
Alignment explanation
Indices: 13813441--13813480 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
13813431 TAAAATATTT
*
13813441 ATATTTTGTACTATAA-A
1 ATATTTTGTAATATAATA
*
13813458 ATATTTTTTAATATAATA
1 ATATTTTGTAATATAATA
13813476 ATATT
1 ATATT
13813481 AAGCTTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
ATATTTTGTAATATAATA
Found at i:13815296 original size:459 final size:460
Alignment explanation
Indices: 13814427--13815345 Score: 1822
Period size: 459 Copynumber: 2.0 Consensus size: 460
13814417 CTAAAACTGA
13814427 GGAACAAAATAATTATAAATAATATTTAATAAATTTAATAAAATTTATTTCAAGTCTTTTAATAT
1 GGAACAAAATAATTATAAATAATATTTAATAAATTTAATAAAATTTATTTCAAGTCTTTTAATAT
13814492 TTTTATTTTACATCCGTTTTTAATTTCTACTATGAGATAACAAATTTTTCTATAATTTAATTTTT
66 TTTTATTTTACATCCGTTTTTAATTTCTACTATGAGATAACAAATTTTTCTATAATTTAATTTTT
13814557 AAGGATGATTAAATATCCAAAAGCTTTTTATCTTCTTTTTAGTAAGGTTATTGAGAGTCGAAGGG
131 AAGGATGATTAAATATCCAAAAGCTTTTTATCTTCTTTTTAGTAAGGTTATTGAGAGTCGAAGGG
13814622 AGTTAAGCACTTAAATCCGCCATTGATTTTATTATATATAAAGTGTGAATTGAAAATTTTTATAA
196 AGTTAAGCACTTAAATCCGCCATTGATTTTATTATATATAAAGTGTGAATTGAAAATTTTTATAA
13814687 TGAGATGAAAATATTTTACAAAAAAAGAATGGAGAATGATAGGGTTTGAATTTGTGTTAATTAAA
261 TGAGATGAAAATATTTTACAAAAAAAGAATGGAGAATGATAGGGTTTGAATTTGTGTTAATTAAA
13814752 TATTGCTTCAAACTAACCTTGCCATTAATTAATTATTTTTAGGTCTACATAATCTTTAACTTTCA
326 TATTGCTTCAAACTAACCTTGCCATTAATTAATTATTTTTAGGTCTACATAATCTTTAACTTTCA
13814817 TCAGGGAATTCAAAGTGTGGCTTATAAATATTAGAGTTCCACGTCAAAATGTTTTATAGGCGACC
391 TCAGGGAATTCAAAGTGTGGCTTATAAATATTAGAGTTCCACGTCAAAATGTTTTATAGGCGACC
13814882 AAATC
456 AAATC
*
13814887 GGAACAAAAT-ATTATAAATAATATTTAATAAATTTAATAAAATTTATTTCGAGTCTTTTAATAT
1 GGAACAAAATAATTATAAATAATATTTAATAAATTTAATAAAATTTATTTCAAGTCTTTTAATAT
13814951 TTTTATTTTACATCCGTTTTTAATTTCTACTATGAGATAACAAATTTTTCTATAATTTAATTTTT
66 TTTTATTTTACATCCGTTTTTAATTTCTACTATGAGATAACAAATTTTTCTATAATTTAATTTTT
13815016 AAGGATGATTAAATATCCAAAAGCTTTTTATCTTCTTTTTAGTAAGGTTATTGAGAGTCGAAGGG
131 AAGGATGATTAAATATCCAAAAGCTTTTTATCTTCTTTTTAGTAAGGTTATTGAGAGTCGAAGGG
13815081 AGTTAAGCACTTAAATCCGCCATTGATTTTATTATATATAAAGTGTGAATTGAAAATTTTTATAA
196 AGTTAAGCACTTAAATCCGCCATTGATTTTATTATATATAAAGTGTGAATTGAAAATTTTTATAA
13815146 TGAGATGAAAATATTTTACAAAAAAAGAATGGAGAATGATAGGGTTTGAATTTGTGTTAATTAAA
261 TGAGATGAAAATATTTTACAAAAAAAGAATGGAGAATGATAGGGTTTGAATTTGTGTTAATTAAA
13815211 TATTGCTTCAAACTAACCTTGCCATTAATTAATTATTTTTAGGTCTACATAATCTTTAACTTTCA
326 TATTGCTTCAAACTAACCTTGCCATTAATTAATTATTTTTAGGTCTACATAATCTTTAACTTTCA
13815276 TCAGGGAATTCAAAGTGTGGCTTATAAATATTAGAGTTCCACGTCAAAATGTTTTATAGGCGACC
391 TCAGGGAATTCAAAGTGTGGCTTATAAATATTAGAGTTCCACGTCAAAATGTTTTATAGGCGACC
13815341 AAATC
456 AAATC
13815346 TCAATTTGAT
Statistics
Matches: 458, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
459 448 0.98
460 10 0.02
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (460 bp):
GGAACAAAATAATTATAAATAATATTTAATAAATTTAATAAAATTTATTTCAAGTCTTTTAATAT
TTTTATTTTACATCCGTTTTTAATTTCTACTATGAGATAACAAATTTTTCTATAATTTAATTTTT
AAGGATGATTAAATATCCAAAAGCTTTTTATCTTCTTTTTAGTAAGGTTATTGAGAGTCGAAGGG
AGTTAAGCACTTAAATCCGCCATTGATTTTATTATATATAAAGTGTGAATTGAAAATTTTTATAA
TGAGATGAAAATATTTTACAAAAAAAGAATGGAGAATGATAGGGTTTGAATTTGTGTTAATTAAA
TATTGCTTCAAACTAACCTTGCCATTAATTAATTATTTTTAGGTCTACATAATCTTTAACTTTCA
TCAGGGAATTCAAAGTGTGGCTTATAAATATTAGAGTTCCACGTCAAAATGTTTTATAGGCGACC
AAATC
Found at i:13817942 original size:95 final size:96
Alignment explanation
Indices: 13817838--13818116 Score: 305
Period size: 95 Copynumber: 2.9 Consensus size: 96
13817828 GTTTGTCAAT
* * * ** *
13817838 TAAATTAATTATAAATTTTT-CAAAATTGGATTAGGTTTCGTGTTTATTGTTTTTTAAGAAAAAA
1 TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGTGTTTAAGGGTTTTTAAGAAAAAA
* * *
13817902 TCAATTAAATTAGGGTTTAGGGTTACTTGAG
66 TCAAATAAATTAGGGTTCAAGGTTACTTGAG
* * * *
13817933 TAATTTAA-T-TAATTTTATTAAAAAATTAGATTAGGATTTAGAG-TTAAGGGTTTTTAAGGAAA
1 TAAATTAATTATAAATTT-TTAAAAAATTAGATTAGG-TTTAGTGTTTAAGGGTTTTTAAGAAAA
13817995 AATCAAATAAATTAGGGTTCAAGGTTACTTGAG
64 AATCAAATAAATTAGGGTTCAAGGTTACTTGAG
*
13818028 TAAATTAATTATAAATTTTTATAAAATTAGATTAAGGTTTAGTGTTTAGGATTTAGGGTTTTTAA
1 TAAATTAATTATAAATTTTTAAAAAATTAGATT-AGGTTTAGTGTTT---A---AGGGTTTTTAA
* *
13818093 GTAAAACTCAAATAAATTAGGGTT
59 GAAAAAATCAAATAAATTAGGGTT
13818117 TGGGAAACTC
Statistics
Matches: 152, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
93 6 0.04
94 3 0.02
95 72 0.47
96 26 0.17
97 11 0.07
100 1 0.01
103 33 0.22
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (96 bp):
TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGTTTAGTGTTTAAGGGTTTTTAAGAAAAAA
TCAAATAAATTAGGGTTCAAGGTTACTTGAG
Done.