Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 153 of 199
Found at i:45251045 original size:25 final size:24
Alignment explanation
Indices: 45251017--45251109 Score: 98
Period size: 25 Copynumber: 3.8 Consensus size: 24
45251007 ATATGTTTTC
*
45251017 ACGAGCTATAAATTGGTAAGCTCAT
1 ACGAGCTA-AAATCGGTAAGCTCAT
45251042 ACGAGCTAAGAATCGGTAAGCTC-T
1 ACGAGCTAA-AATCGGTAAGCTCAT
* * *
45251066 CATGAGCTACAATCGGTAAGCTTAT
1 -ACGAGCTAAAATCGGTAAGCTCAT
*
45251091 ACGAGCTGAGAATCGGTAA
1 ACGAGCT-AAAATCGGTAA
45251110 TCCCTAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
24 20 0.34
25 38 0.66
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (24 bp):
ACGAGCTAAAATCGGTAAGCTCAT
Found at i:45251049 original size:50 final size:48
Alignment explanation
Indices: 45250986--45251105 Score: 123
Period size: 50 Copynumber: 2.4 Consensus size: 48
45250976 ATACATGTAT
* * * * *
45250986 GCTCATACAAGCTATGAATCGATATGTTTTCACGAGCTATAAATTGGTAA
1 GCTCATACGAGCTA-GAATCGATAAGCTCTCACGAGCTA-AAATCGGTAA
* * *
45251036 GCTCATACGAGCTAAGAATCGGTAAGCTCTCATGAGCTACAATCGGTAA
1 GCTCATACGAGCT-AGAATCGATAAGCTCTCACGAGCTAAAATCGGTAA
*
45251085 GCTTATACGAGCTGAGAATCG
1 GCTCATACGAGCT-AGAATCG
45251106 GTAATCCCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 27 0.46
50 31 0.53
51 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (48 bp):
GCTCATACGAGCTAGAATCGATAAGCTCTCACGAGCTAAAATCGGTAA
Found at i:45252048 original size:12 final size:12
Alignment explanation
Indices: 45252031--45252073 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
45252021 AACTAATCCT
45252031 CTCTCAAATTTC
1 CTCTCAAATTTC
45252043 CTCTC-AATTTC
1 CTCTCAAATTTC
45252054 CT-TCAAAATTT-
1 CTCTC-AAATTTC
45252065 CTCTCAAAT
1 CTCTCAAAT
45252074 CCATATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 2 0.07
11 14 0.50
12 12 0.43
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:45253914 original size:18 final size:18
Alignment explanation
Indices: 45253887--45253926 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
45253877 CAGGTGCGTT
*
45253887 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
45253905 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
45253923 TCCT
1 TCCT
45253927 TTTTCCGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.07, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:45254429 original size:25 final size:24
Alignment explanation
Indices: 45254401--45254456 Score: 94
Period size: 25 Copynumber: 2.3 Consensus size: 24
45254391 TATTTTGATA
45254401 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAA-T
45254426 TTATTTGATGTAATAAAATAGAAT
1 TTATTTGATGTAATAAAATAGAAT
*
45254450 TTTTTTG
1 TTATTTG
45254457 TGTTATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
TTATTTGATGTAATAAAATAGAAT
Found at i:45254433 original size:45 final size:45
Alignment explanation
Indices: 45254346--45254433 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
45254336 ATATTTTGAA
* *
45254346 TATTTTGATATTATTTTATGTAATAAAATAAAAATTTTTTTGAGT
1 TATTTTGATATTATTTGATGTAATAAAATAAAAATTTATTTGAGT
* *
45254391 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAATAAAATAAAAATTTATTTGA
45254434 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAATAAAATAAAAATTTATTTGAGT
Found at i:45254472 original size:69 final size:66
Alignment explanation
Indices: 45254356--45254565 Score: 246
Period size: 64 Copynumber: 3.1 Consensus size: 66
45254346 TATTTTGATA
*
45254356 TTATTTTATGTAATAAAATAAAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATA
1 TTATTTAATGTAATAAAAT--AAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAAT-
*
45254421 GAAGT
63 G-AGC
* * *
45254426 TTATTTGATGTAATAAAATAGAATTTTTTTGTGTTATTTTGATATTATTTGATGTAATAACATGA
1 TTATTTAATGTAATAAAATA-AATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATGA
45254491 GC
65 GC
* ** * *
45254493 TTAATTAAT-TTGTACAAAT--ATTTTTTTGAGTTATTTTGATATTATTCGATGTAATAACATGA
1 TTATTTAATGTAATA-AAATAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATGA
45254555 GC
65 GC
*
45254557 TTAATTAAT
1 TTATTTAAT
45254566 TTGTACAAAT
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
64 52 0.41
66 3 0.02
67 13 0.10
68 2 0.02
69 40 0.31
70 18 0.14
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (66 bp):
TTATTTAATGTAATAAAATAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATGAG
C
Found at i:45254544 original size:64 final size:64
Alignment explanation
Indices: 45254379--45254576 Score: 263
Period size: 64 Copynumber: 3.0 Consensus size: 64
45254369 TAAAATAAAA
* * * * **
45254379 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGTAATA-AA
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACAT-G-AGCTTAATTAAT-TTGTACAA
45254443 AT
63 AT
*
45254445 AGAATTTTTTTGTGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAA
1 ---ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAA
45254510 AT
63 AT
*
45254512 ATTTTTTTGAGTTATTTTGATATTATTCGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
1 ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
45254576 A
1 A
45254577 ATTGAAAAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
64 63 0.53
66 3 0.03
67 13 0.11
68 1 0.01
69 39 0.33
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (64 bp):
ATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACATGAGCTTAATTAATTTGTACAAAT
Found at i:45257866 original size:124 final size:124
Alignment explanation
Indices: 45257583--45257955 Score: 547
Period size: 124 Copynumber: 3.0 Consensus size: 124
45257573 CCCAAACATG
* * *
45257583 CTACTGTAGCAAAAGCGCTTCCATGAGGGCGCGATTTCACTAATTCTTCTCAAATAGCATCC-TG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAT-
* *
45257647 TTAGAAGCGATTTTATA-AATTTACTCAGAAACGTC-AAAAAAATTATTTCTTCCATGAC
65 CTAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
*
45257705 CTACTGTAGCAAAAGCGCGTCCACGAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCATC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCATC
* * * *
45257770 TAGAAGCAATTTTATACTATTTTCTCAGAAACATCAAAAAAAATTATTTCTTCTATGAC
66 TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* *
45257829 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCATC
* ** *
45257894 TAGAAGCGATTTTATACTATTTGA-TCAGAAATGTCAACTCAAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTT-ACTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
45257954 CT
1 CT
45257956 CAAAACCCTA
Statistics
Matches: 225, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
122 73 0.32
123 16 0.07
124 116 0.52
125 20 0.09
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCATC
TAGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:45260809 original size:19 final size:19
Alignment explanation
Indices: 45260774--45260835 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
45260764 AAATTTTGGA
*
45260774 AATTTTAGAAA-TATTTTG
1 AATTTTAAAAATTATTTTG
*
45260792 AATTTTAAAAATTATTTTA
1 AATTTTAAAAATTATTTTG
* * *
45260811 AATGTTCAAAATTAATTTG
1 AATTTTAAAAATTATTTTG
45260830 AATTTT
1 AATTTT
45260836 TTTTTTTGGA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 10 0.28
19 26 0.72
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:45262571 original size:36 final size:36
Alignment explanation
Indices: 45262531--45262621 Score: 101
Period size: 36 Copynumber: 2.5 Consensus size: 36
45262521 CACTTGCCCG
* * * * * *
45262531 TGTGCCCTACATGACCTGCATGATTTTACACGACCA
1 TGTGCCCCACACGACCTACATGATTTCAAACAACCA
**
45262567 TGTGCCCCACACGGTCTACATGATTTCAAACAACCA
1 TGTGCCCCACACGACCTACATGATTTCAAACAACCA
*
45262603 TGTGCCCCACACGGCCTAC
1 TGTGCCCCACACGACCTAC
45262622 CCACACGATT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.23
Consensus pattern (36 bp):
TGTGCCCCACACGACCTACATGATTTCAAACAACCA
Found at i:45268155 original size:3 final size:3
Alignment explanation
Indices: 45268147--45268184 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
45268137 TTAGTATCAA
45268147 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
45268185 AAATAAGAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45276346 original size:54 final size:53
Alignment explanation
Indices: 45276287--45276494 Score: 125
Period size: 57 Copynumber: 3.6 Consensus size: 53
45276277 TTGTTAGTTA
45276287 TAATTATTTTAAATTTTATTAAATCATATATATTAATTAAAATATATTTAATAT
1 TAATTATTTTAAATTTTATTAAAT-ATATATATTAATTAAAATATATTTAATAT
* * * * * *
45276341 TAATTATTTCAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAAT-TCATATAAGAA
1 TAATTATTTTAAATT-T-TATTA-AATA-TATATATTA--A--TTA--AAATAT-ATTTAATAT
* * *
45276404 T-ATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAA
1 TAATT-ATT-TT-A-AATTTTATTAAA-TATATATATTAATTAAAATATATTTAATAT
* * *
45276461 TAATTATGTTTAAATATGATTAAAT-TATTTATTA
1 TAATTAT-TTTAAATTTTATTAAATATATATATTA
45276495 TTGATATTAA
Statistics
Matches: 118, Mismatches: 17, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
53 7 0.06
54 15 0.13
55 11 0.09
56 6 0.05
57 26 0.22
58 5 0.04
59 4 0.03
61 4 0.03
62 4 0.03
63 23 0.19
64 7 0.06
65 2 0.02
66 4 0.03
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (53 bp):
TAATTATTTTAAATTTTATTAAATATATATATTAATTAAAATATATTTAATAT
Found at i:45276371 original size:25 final size:23
Alignment explanation
Indices: 45276313--45276372 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 23
45276303 TATTAAATCA
*
45276313 TATATATTAATTAAAATATATTT
1 TATATATTATTTAAAATATATTT
* *
45276336 AATATTAATTATTTCAAATTATATTT
1 TATA-T-ATTATTT-AAAATATATTT
45276362 TATAGTATTAT
1 TATA-TATTAT
45276373 ATATTATGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.10
24 1 0.03
25 11 0.38
26 14 0.48
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATATTATTTAAAATATATTT
Found at i:45276453 original size:16 final size:16
Alignment explanation
Indices: 45276432--45276473 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45276422 TTATTAAATT
*
45276432 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45276448 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45276463 AT-TATGTTTAA
1 ATATAT-TTTAA
45276474 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:45276458 original size:15 final size:15
Alignment explanation
Indices: 45276423--45276464 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45276413 TTAAGAATTT
*
45276423 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45276437 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45276451 TATTTAATAATAAT
1 TATTTAATTATAAT
45276465 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:45276644 original size:39 final size:40
Alignment explanation
Indices: 45276601--45276705 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
45276591 TTCCATTATG
45276601 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
45276640 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
45276685 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
45276706 ATACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:45276699 original size:45 final size:44
Alignment explanation
Indices: 45276599--45276706 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 44
45276589 TTTTCCATTA
45276599 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
45276638 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
45276683 TGCTATTACACCTCTATTCCATTA
1 TGCTATTACACCTCTATTCCATTA
45276707 TACCTCTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 16 0.29
40 1 0.02
44 16 0.29
45 23 0.41
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:45286681 original size:47 final size:46
Alignment explanation
Indices: 45286630--45286731 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 46
45286620 GTGGTTTAAC
* * *
45286630 CACATATCTGTTTTGGCAGT-TTGACTTCAATTATAGTGGCTCGACCA
1 CACATATCTGTTCTGGCA-TCTTAACTGCAA-TATAGTGGCTCGACCA
*
45286677 CACATATCTGTTCTGGCATCTTAACTGCAATATAGTGGCTTGACCA
1 CACATATCTGTTCTGGCATCTTAACTGCAATATAGTGGCTCGACCA
*
45286723 CATATATCT
1 CACATATCT
45286732 AATCTGGTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
46 24 0.49
47 25 0.51
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (46 bp):
CACATATCTGTTCTGGCATCTTAACTGCAATATAGTGGCTCGACCA
Found at i:45286724 original size:46 final size:47
Alignment explanation
Indices: 45286630--45286752 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 47
45286620 GTGGTTTAAC
* * *
45286630 CACATATCTGTTTTGGCAGTTTGACTTCAATTATAGTGGCTCGACCA
1 CACATATCTGTTCTGGCAGTTTAACTGCAATTATAGTGGCTCGACCA
*
45286677 CACATATCTGTTCTGGCA-TCTTAACTGCAA-TATAGTGGCTTGACCA
1 CACATATCTGTTCTGGCAGT-TTAACTGCAATTATAGTGGCTCGACCA
* ** *
45286723 CATATATCTAATCTGGTAGTTTAACTGCAA
1 CACATATCTGTTCTGGCAGTTTAACTGCAA
45286753 CTCTGGTGGC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 40 0.61
47 26 0.39
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (47 bp):
CACATATCTGTTCTGGCAGTTTAACTGCAATTATAGTGGCTCGACCA
Found at i:45287859 original size:3 final size:3
Alignment explanation
Indices: 45287853--45287902 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
45287843 ATGTTGTTTG
45287853 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45287901 TA
1 TA
45287903 AGTTTTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:45297237 original size:42 final size:42
Alignment explanation
Indices: 45297178--45297268 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
45297168 TTGGAAAAAT
*
45297178 GCCCATGTCCTTGCTCGTGTGGCTCACATGGCCTAGGCACAC
1 GCCCATGCCCTTGCTCGTGTGGCTCACATGGCCTAGGCACAC
* *
45297220 GCCCATGCCCTTGCTCGTGTGGTTCACATGGCCTGGGCACAC
1 GCCCATGCCCTTGCTCGTGTGGCTCACATGGCCTAGGCACAC
45297262 GCCCATG
1 GCCCATG
45297269 TCCTCTGTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.13, C:0.36, G:0.27, T:0.23
Consensus pattern (42 bp):
GCCCATGCCCTTGCTCGTGTGGCTCACATGGCCTAGGCACAC
Found at i:45298071 original size:6 final size:6
Alignment explanation
Indices: 45298060--45298120 Score: 88
Period size: 6 Copynumber: 10.3 Consensus size: 6
45298050 TAACAGAATT
*
45298060 GAAAAA GAAAAA -AAAAA GAAAAA GAAAAA TAAAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA
* *
45298107 TAAAAA GAAGAA GA
1 GAAAAA GAAAAA GA
45298121 GGAAGAAACG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
5 5 0.10
6 44 0.90
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:45298088 original size:18 final size:18
Alignment explanation
Indices: 45298060--45298120 Score: 106
Period size: 18 Copynumber: 3.4 Consensus size: 18
45298050 TAACAGAATT
45298060 GAAAAAGAAAAA-AAAAA
1 GAAAAAGAAAAATAAAAA
45298077 GAAAAAGAAAAATAAAAA
1 GAAAAAGAAAAATAAAAA
45298095 GAAAAAGAAAAATAAAAA
1 GAAAAAGAAAAATAAAAA
*
45298113 GAAGAAGA
1 GAAAAAGA
45298121 GGAAGAAACG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
17 12 0.29
18 30 0.71
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (18 bp):
GAAAAAGAAAAATAAAAA
Found at i:45300135 original size:21 final size:21
Alignment explanation
Indices: 45300111--45300151 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
45300101 AAGGCTTAAG
*
45300111 GTCGTGTGGAAGGGTTACACA
1 GTCGTGTGGAACGGTTACACA
45300132 GTCGTGTGGAACGGTTACAC
1 GTCGTGTGGAACGGTTACAC
45300152 GGCCGTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.37, T:0.24
Consensus pattern (21 bp):
GTCGTGTGGAACGGTTACACA
Found at i:45300158 original size:21 final size:21
Alignment explanation
Indices: 45300113--45300159 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
45300103 GGCTTAAGGT
* *
45300113 CGTGTGGAAGGGTTACACAGT
1 CGTGTGGAACGGTTACACAGC
*
45300134 CGTGTGGAACGGTTACACGGC
1 CGTGTGGAACGGTTACACAGC
45300155 CGTGT
1 CGTGT
45300160 AACAAGCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.38, T:0.23
Consensus pattern (21 bp):
CGTGTGGAACGGTTACACAGC
Found at i:45301819 original size:19 final size:20
Alignment explanation
Indices: 45301792--45301832 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
45301782 GTTAAAAATG
45301792 TTTTAATTAT-TATTTGAAT
1 TTTTAATTATATATTTGAAT
*
45301811 TTTTTATTATAATATTTGAAT
1 TTTTAATTAT-ATATTTGAAT
45301832 T
1 T
45301833 GATACATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTAATTATATATTTGAAT
Found at i:45309725 original size:21 final size:20
Alignment explanation
Indices: 45309689--45309730 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
45309679 AATTGTTATC
45309689 AAGATTTGGCAGGATTTACAA
1 AAGATTTGGCAGGATTT-CAA
45309710 AAGATTTGGC-GAGATTTCAA
1 AAGATTTGGCAG-GATTTCAA
45309730 A
1 A
45309731 TTGATTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.29
Consensus pattern (20 bp):
AAGATTTGGCAGGATTTCAA
Found at i:45310714 original size:15 final size:17
Alignment explanation
Indices: 45310694--45310726 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
45310684 CTCCACAGAA
45310694 TATTTTT-T-ATTTTTT
1 TATTTTTCTAATTTTTT
45310709 TATTTTTCTAATTTTTT
1 TATTTTTCTAATTTTTT
45310726 T
1 T
45310727 CACCTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TATTTTTCTAATTTTTT
Found at i:45311189 original size:12 final size:12
Alignment explanation
Indices: 45311172--45311196 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45311162 GGAAAAAAAT
45311172 AAAATAAAGAAG
1 AAAATAAAGAAG
45311184 AAAATAAAGAAG
1 AAAATAAAGAAG
45311196 A
1 A
45311197 TAGATGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATAAAGAAG
Found at i:45312386 original size:16 final size:17
Alignment explanation
Indices: 45312359--45312391 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
45312349 TAGAACTGGG
*
45312359 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
45312376 TTGAG-AAATTAATTAA
1 TTGAGAAAATTAATTAA
45312392 ATTAATTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:45322711 original size:4 final size:4
Alignment explanation
Indices: 45322702--45322754 Score: 106
Period size: 4 Copynumber: 13.2 Consensus size: 4
45322692 TCGGGAAAAA
45322702 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
45322750 ATGT A
1 ATGT A
45322755 CCTAGGTTGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:45324754 original size:29 final size:30
Alignment explanation
Indices: 45324722--45324780 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
45324712 GATAAAAAAT
45324722 AAAAAATAAAATCAATTGAG-CCTTCATGA
1 AAAAAATAAAATCAATTGAGCCCTTCATGA
* * *
45324751 AAAAAGTACATTCAATTGAGCCCTTCATGA
1 AAAAAATAAAATCAATTGAGCCCTTCATGA
45324781 TTCAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (30 bp):
AAAAAATAAAATCAATTGAGCCCTTCATGA
Found at i:45325492 original size:30 final size:31
Alignment explanation
Indices: 45325456--45325515 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
45325446 GATTTCAATT
45325456 CAGTCACTCAA-ATT-TCGAAAAATAACAAAC
1 CAGTCACT-AACATTATCGAAAAATAACAAAC
* *
45325486 CAGTCACTAACATTATTGAAAAATGACAAA
1 CAGTCACTAACATTATCGAAAAATAACAAA
45325516 TTAGTTACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 11 0.42
31 13 0.50
ACGTcount: A:0.50, C:0.20, G:0.08, T:0.22
Consensus pattern (31 bp):
CAGTCACTAACATTATCGAAAAATAACAAAC
Found at i:45325584 original size:21 final size:21
Alignment explanation
Indices: 45325558--45325599 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
45325548 TTAACGGGAC
45325558 AGCTGATGTGGCCAGTTAACT
1 AGCTGATGTGGCCAGTTAACT
*
45325579 AGCTGATGTGGCTAGTTAACT
1 AGCTGATGTGGCCAGTTAACT
45325600 TGCCATGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (21 bp):
AGCTGATGTGGCCAGTTAACT
Found at i:45325697 original size:29 final size:30
Alignment explanation
Indices: 45325659--45325719 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
45325649 CCTTTTCCAT
45325659 TTTTTAATAAAT-GACCCAATAT-TTT-TAC
1 TTTTTAATAAATAG-CCCAATATGTTTATAC
45325687 TTTTTACATAAATAGCCCAATATGTTTATAC
1 TTTTTA-ATAAATAGCCCAATATGTTTATAC
45325718 TT
1 TT
45325720 CTTCTTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 6 0.21
29 14 0.48
30 4 0.14
31 5 0.17
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (30 bp):
TTTTTAATAAATAGCCCAATATGTTTATAC
Found at i:45326161 original size:3 final size:3
Alignment explanation
Indices: 45326155--45326185 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
45326145 TTAACAAAAA
45326155 AAG AAG AAG AAG -AG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
45326186 ATGGAGATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45326174 original size:14 final size:14
Alignment explanation
Indices: 45326155--45326181 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45326145 TTAACAAAAA
45326155 AAGAAGAAGAAGAG
1 AAGAAGAAGAAGAG
45326169 AAGAAGAAGAAGA
1 AAGAAGAAGAAGA
45326182 AGAAATGGAG
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AAGAAGAAGAAGAG
Found at i:45331191 original size:12 final size:13
Alignment explanation
Indices: 45331176--45331204 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
45331166 TCCAAAACAA
45331176 AAAATGAAAAT-G
1 AAAATGAAAATGG
45331188 AAAATGAAAATGG
1 AAAATGAAAATGG
45331201 AAAA
1 AAAA
45331205 ACCAAGAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (13 bp):
AAAATGAAAATGG
Found at i:45339162 original size:21 final size:20
Alignment explanation
Indices: 45339111--45339162 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
45339101 GGTTGGATTT
45339111 TATATATTTA-AAATTTATAA
1 TATAT-TTTATAAATTTATAA
* * *
45339131 TAAAATGTATAATATTTATAA
1 TATATTTTATAA-ATTTATAA
45339152 TATATTTTATA
1 TATATTTTATA
45339163 TGCATCCGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
19 3 0.12
20 5 0.21
21 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATTTTATAAATTTATAA
Found at i:45340364 original size:4 final size:4
Alignment explanation
Indices: 45340355--45340383 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
45340345 ATTGAAATGT
45340355 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
45340384 ACTTTGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:45351142 original size:15 final size:15
Alignment explanation
Indices: 45351122--45351154 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
45351112 ATTATTATTA
*
45351122 TTTTCTTTTTCTTTT
1 TTTTCTTTTTATTTT
45351137 TTTTCTTTTTATTTT
1 TTTTCTTTTTATTTT
45351152 TTT
1 TTT
45351155 AAACTAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTCTTTTTATTTT
Found at i:45364892 original size:22 final size:22
Alignment explanation
Indices: 45364859--45364900 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
45364849 AGTTAAAAAT
45364859 TATTATTATTAAATAATTATAC
1 TATTATTATTAAATAATTATAC
45364881 TATT-TTATTTAAATAATTAT
1 TATTATTA-TTAAATAATTAT
45364901 CGCATTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTATTATTAAATAATTATAC
Found at i:45367271 original size:22 final size:22
Alignment explanation
Indices: 45367221--45367271 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
45367211 AGTGTATGTC
* *
45367221 TATATACATATTATAAAACTAT
1 TATATATATATTATAAAACAAT
*
45367243 TAAATATATA-TATAAAA-AAT
1 TATATATATATTATAAAACAAT
45367263 TATATATAT
1 TATATATAT
45367272 GTAAGTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
TATATATATATTATAAAACAAT
Found at i:45369294 original size:46 final size:46
Alignment explanation
Indices: 45369241--45369513 Score: 361
Period size: 46 Copynumber: 5.9 Consensus size: 46
45369231 AGGATTGGCA
* * * *
45369241 ATCTTCGATCCACTCCACAGCCAAATACAGGAAAATAAGATCTGCT
1 ATCTTCGATCCACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
45369287 ATCTTCGATCCACTCCGCTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCCACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45369333 ATCTTCGATCCACTTCGTTGCCAAATACAAGAAGACAAGATCTGCT
1 ATCTTCGATCCACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
45369379 ATCTTCGATCTC-CTCCGCTGCCAAATACAGGAAGATAAGATCTGTT
1 ATCTTCGATC-CACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * * *
45369425 ATTTTCGATCTC-CTCTGCTGCCAAATACAGGAAGACAATATCTACT
1 ATCTTCGATC-CACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* * *
45369471 TTCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCT
1 ATCTTCGATCCACTCCGCTGCCAAATACAGGAAGACAAGATCT
45369514 CTGGCTTCAA
Statistics
Matches: 199, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
46 198 0.99
47 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (46 bp):
ATCTTCGATCCACTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:45369681 original size:131 final size:130
Alignment explanation
Indices: 45369522--45370428 Score: 457
Period size: 131 Copynumber: 6.9 Consensus size: 130
45369512 CTCTGGCTTC
* *
45369522 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
1 AATCTACTCCACTGTAACTTCAGGGAGATAAGATCT--AATTCTTCGGTCTACTCCACTGTAACC
* * *
45369587 TCAGGGAGATAAGA-CCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATG
64 TCAGGGAGATAAGATCCTGATGCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATG
45369651 TT
129 TT
* * * ** *
45369653 AATCCACTCCACTGTAACTTCAGGGAGATAAGA--TAGTGTCTT-GGATCTGCTCTGCTGTAATC
1 AATCTACTCCACTGTAACTTCAGGGAGATAAGATCTAAT-TCTTCGG-TCTACTCCACTGTAACC
* * * * * * * **
45369715 TTAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCGGGGAGATAAGAT-CTGAA
64 TCAGGGAGATAAGATC-CT-GATGCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCCT-TT
*
45369779 ATTCTT
126 A-TGTT
** * * * * * * * *
45369785 CGGTTTACTCCACTGTAACCTCAAGGAGATAAGACCTGA---TGCGATCTACTCTACTGTAACCT
1 -AATCTACTCCACTGTAACTTCAGGGAGATAAGATCTAATTCTTCGGTCTACTCCACTGTAACCT
* * *** ** * * * *
45369847 CAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-CAGTGTC
65 CAGGGAGATAAGATCCT-GA-TGCGATCTACTCCACTGTAACTTCAGGGAGATAAGATC-CTTTA
*
45369911 T-TG
127 TGTT
* * * * * * * *
45369914 GATCTGCT-CAGCTGTAATCTT-AGGGAGATAAGATCT-CTGGCTTCAGTCTGCTCCAATGTAAT
1 AATCTACTCCA-CTGTAA-CTTCAGGGAGATAAGATCTAAT-TCTTCGGTCTACTCCACTGTAAC
* * * * *
45369976 CTCGGGGAGATAAGAT-TTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CC
63 CTCAGGGAGATAAGATCCTG--A---TGCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCC
* *
45370039 -TGATG-C
123 TTTATGTT
* * * ** ** *
45370045 GATCTACTCTACTGTAACCTT-AGAGAGATAAGATCCTAAATT-TT-AATCCGCTCCACTATAAC
1 AATCTACTCCACTGTAA-CTTCAGGGAGATAAGAT-CT-AATTCTTCGGTCTACTCCACTGTAAC
* * ** * * * *
45370107 TTCAGGGAGATAGGATAGTGTCTTG-GATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTC
63 CTCAGGGAGATAAGATCCTG--ATGCGATCTACTCCACTGTAACT-TCAGGGAGATAAGATCCTT
*
45370169 T-GGCTT
125 TATG-TT
* * *
45370175 CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAAC
1 -AATCTACTCCACTGTAACTTCAGGGAGATAAGATCT--AATTCTTCGGTCTACTCCACTGTAAC
** ** *
45370240 CTCAGGGAGATAAGA-CCTGATGCGATCTACTCTGCTGTAACTTCAGAAAGATAAGATCTTTTAT
63 CTCAGGGAGATAAGATCCTGATGCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTTAT
*
45370304 TTT
128 GTT
** * * * *
45370307 AATCCGCTCCACTGTAACTTCAGGGAGATAAGA--TAGTGTCTT-GGATCTGCTCCGCTGTAATC
1 AATCTACTCCACTGTAACTTCAGGGAGATAAGATCTAAT-TCTTCGG-TCTACTCCACTGTAACC
* * * * *
45370369 TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATC
64 TCAGGGAGATAAGATC-CT-GATGCGATCTACTCCACTGTAACTTCAGGGAGATAAGATC
45370429 TAAAATTTTT
Statistics
Matches: 581, Mismatches: 146, Indels: 98
0.70 0.18 0.12
Matches are distributed among these distances:
127 10 0.02
128 115 0.20
129 8 0.01
130 17 0.03
131 326 0.56
132 21 0.04
133 82 0.14
134 1 0.00
135 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (130 bp):
AATCTACTCCACTGTAACTTCAGGGAGATAAGATCTAATTCTTCGGTCTACTCCACTGTAACCTC
AGGGAGATAAGATCCTGATGCGATCTACTCCACTGTAACTTCAGGGAGATAAGATCCTTTATGTT
Found at i:45369885 original size:218 final size:218
Alignment explanation
Indices: 45369498--45370818 Score: 2176
Period size: 218 Copynumber: 6.1 Consensus size: 218
45369488 CTGCCAAATA
* *
45369498 CAGGAAGACAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
*
45369563 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACT
66 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
* ** * * *
45369628 TCAGAGAGATGAGATCCTTTATGTTAATCCACTCCACTGTAACTTCAGGGAGATAAGATAGTGTC
131 TCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
*
45369693 TTGGATCTGCTCTGCTGTAATCT
196 TTGGATCTGCTCAGCTGTAATCT
* * *
45369716 TAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCGGGGAGATAAGATCTGAAAT
1 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
* *
45369781 TCTTCGGTTTACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
66 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
*
45369846 TCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGACAGTGTC
131 TCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
45369911 TTGGATCTGCTCAGCTGTAATCT
196 TTGGATCTGCTCAGCTGTAATCT
* * * * * *
45369934 TAGGGAGATAAGATCTCTGGCTTCAGTCTGCTCCAATGTAATCTCGGGGAGATAAGATTTGAAAT
1 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
45369999 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
66 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
* *
45370064 TTAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTATAACTTCAGGGAGATAGGATAGTGTC
131 TCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
*
45370129 TTGGATCTGCTCCGCTGTAATCT
196 TTGGATCTGCTCAGCTGTAATCT
45370152 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
* * *
45370217 TCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACT
66 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
* * ** *
45370282 TCAGAAAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTC
131 TCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
*
45370347 TTGGATCTGCTCCGCTGTAATCT
196 TTGGATCTGCTCAGCTGTAATCT
*
45370370 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAAT
1 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
* * * *
45370435 TTTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACT
66 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
* * **
45370500 TCATAAAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
131 TCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
45370565 TTGGATCTGCTCAGCTGTAATCT
196 TTGGATCTGCTCAGCTGTAATCT
* * * *
45370588 CAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCAAC-GTAATCTCGGGGAGATAAGATCTAAAA
1 CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCC-ACTGTAACCTCAGGGAGATAAGATCTGAAA
45370652 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAAC
65 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAAC
*
45370717 CTCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGATAGTGT
130 CTCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT
*
45370782 CTTGGATCTGCTCTGCTGTAATCT
195 CTTGGATCTGCTCAGCTGTAATCT
*
45370806 CAGAGAGATAAGA
1 CAGGGAGATAAGA
45370819 CCTGATACGA
Statistics
Matches: 1038, Mismatches: 64, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
218 1036 1.00
219 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (218 bp):
CAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACC
TCAGAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTC
TTGGATCTGCTCAGCTGTAATCT
Found at i:45370621 original size:87 final size:85
Alignment explanation
Indices: 45369523--45371208 Score: 383
Period size: 87 Copynumber: 19.4 Consensus size: 85
45369513 TCTGGCTTCA
* * ** * *
45369523 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTCCACTGTAACC
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACT
* *
45369587 TCAGGGAGATAAGA-CCTG--ATGCG
61 TCAGGGAGATAAGATACTGTCTTG-G
* * * * * **
45369610 ATCTACTCTACTGTAACTTCAGAGAGATGAGATCCTTTATG-TT-AATCCACTCCACTGTAACTT
1 ATCTGCTC-ACTGTAAC-TCAGGGAGATAAGAT-CTCT-GGCTTCAATCTGCTCCACTGTAACTT
*
45369673 CAGGGAGATAAGATAGTGTCTTGG
62 CAGGGAGATAAGATACTGTCTTGG
* * * * *
45369697 ATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTCTAGCTTCAATCTGCTCCACTGTAACCTCG
1 ATCTGCTC-ACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCA
45369762 GGGAGATAAGAT-CTGAAATTCTTCGG
64 GGGAGATAAGATACTG----TCTT-GG
* * * * * * * * *
45369788 -TTTACTCCACTGTAACCTCAAGGAGATAAGA-C-CT-GATGCGATCTACTCTACTGTAACCTCA
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCA
* * * **
45369849 GAGAGATAAGATCCTAAAT-TTTA
64 GGGAGATAAGATACT--GTCTTGG
* * ** * **
45369872 ATCCGCTCCACTGTAACTTCAGGGAGATAGGA-CAGTGTCTTGGATCTGCT-CAGCTGTAATCTT
1 ATCTGCT-CACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA-CTGTAA-CTT
* * *
45369935 -AGGGAGATAAGATCTCTGGCTT-C
62 CAGGGAGATAAGAT-ACTGTCTTGG
* * * ** *
45369958 AGTCTGCTCCAATGTAATCTCGGGGAGATAAGAT-T-TGAAATTCTTCGGTCTACTCCACTGTAA
1 A-TCTGCT-CACTGTAA-CTCAGGGAGATAAGATCTCTG----GCTTCAATCTGCTCCACTGTAA
* * *
45370021 CCTCAGGGAGATAAGA-CCTG--ATGCG
59 CTTCAGGGAGATAAGATACTGTCTTG-G
* * * *** * * *
45370046 ATCTACTCTACTGTAACCTTAGAGAGATAAGATC-CTAAATTTTAATCCGCTCCACTATAACTTC
1 ATCTGCTC-ACTGTAA-CTCAGGGAGATAAGATCTCT-GGCTTCAATCTGCTCCACTGTAACTTC
* *
45370110 AGGGAGATAGGATAGTGTCTTGG
63 AGGGAGATAAGATACTGTCTTGG
* *
45370133 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCA
45370198 GGGAGATAAGAT-CTGAAATTCTTCGG
64 GGGAGATAAGATACTG----TCTT-GG
* * * * * **
45370224 -TCTACTCTACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTGCTGTAACTTCA
1 ATCTGCTC-ACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCA
** * * **
45370285 GAAAGATAAGAT-CTTTTATTTTA
64 GGGAGATAAGATAC-TGT-CTTGG
* ** * ** *
45370308 ATCCGCTCCACTGTAACTTCAGGGAGATAAGAT-AGTGTCTTGGATCTGCTCCGCTGTAA-TCTC
1 ATCTGCT-CACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACT-TC
* * **
45370371 AGGGAGATAAGATCTCTGGCTTCA
63 AGGGAGATAAGAT-ACTGTCTTGG
* ** ** * * *
45370395 ATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAAT-TTTTCGGTCTACTCCACTATAACC
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACT
* *
45370459 TCAGGGAGATAAGA-CCTG--ATGCG
61 TCAGGGAGATAAGATACTGTCTTG-G
* * *** *** * *
45370482 ATCTACTCTGCTGTAACTTCATAAAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACTTC
1 ATCTGCTC-ACTGTAAC-TCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCACTGTAACTTC
* *
45370546 AGGGAGATAGGATAGTGTCTTGG
63 AGGGAGATAAGATACTGTCTTGG
*
45370569 ATCTGCTCAGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCAAC-GTAA-TCT
1 ATCTGCTCA-CTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCC-ACTGTAACT-T
* *
45370632 CGGGGAGATAAGAT-CTAAAATTCTTCGG
62 CAGGGAGATAAGATACT----GTCTT-GG
* * * * * * *
45370660 -TCTACTCCACTGTAACCTCAGGGAGATAAGA-C-CT-GATGCGATCTACTCTACTGTAACCTCA
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCA
* * * **
45370721 GAGAGATAAGATCCTAAAT-TTTA
64 GGGAGATAAGATACT--GTCTTGG
* * * ** * ** **
45370744 ATCCGCTCCACTGTAACTTTAGGGAGATAGGAT-AGTGTCTTGGATCTGCTCTGCTGTAA-TCTC
1 ATCTGCT-CACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACT-TC
* * * **
45370807 AGAGAGATAAGA-CCTG-ATACG
63 AGGGAGATAAGATACTGTCTTGG
* * * * *** * * *
45370828 ATCTACTCTACTATAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCTACTGTAA-TCTC
1 ATCTGCTC-ACTGTAAC-TCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACT-TC
* * **
45370892 AGGGAGATAGGATTACTATCTTCA
63 AGGGAGATAAGA-TACTGTCTTGG
* * * * * * *
45370916 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-C-CT-GATACGATCTACTCTATTGTAACTTCA
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCA
* * * * **
45370978 GAGAGATAAGATCCTTTATTTTA
64 GGGAGATAAGATACTGT-CTTGG
* * *
45371001 ATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTCT--CTTCAATCTGCTCCGCTGTAA-TC
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGA-T-CTCTGGCTTCAATCTGCTCCACTGTAACT-
* * **
45371063 GCAGGGAGATAAGAT-CTG-ATACG
61 TCAGGGAGATAAGATACTGTCTTGG
* * *** * * * *
45371086 ATCTACTCTACTGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCGATCCACTATAA-TCT
1 ATCTGCTC-ACTGTAAC-TCAGGGAGATAAGATCTC-TGGCTTCAATCTGCTCCACTGTAACT-T
* * **
45371149 CAGGGAGATAGGATTACTATCTTCA
62 CAGGGAGATAAGA-TACTGTCTTGG
*
45371174 ATCTGCTCCATTGTAACCTCAGGGAGATAAGATCT
1 ATCTGCT-CACTGTAA-CTCAGGGAGATAAGATCT
45371209 AAAATTCTTC
Statistics
Matches: 1187, Mismatches: 287, Indels: 248
0.69 0.17 0.14
Matches are distributed among these distances:
82 1 0.00
83 3 0.00
84 38 0.03
85 312 0.26
86 47 0.04
87 492 0.41
88 125 0.11
89 13 0.01
90 144 0.12
91 12 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (85 bp):
ATCTGCTCACTGTAACTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACTTCAGG
GAGATAAGATACTGTCTTGG
Found at i:45371226 original size:129 final size:129
Alignment explanation
Indices: 45370664--45371205 Score: 836
Period size: 129 Copynumber: 4.2 Consensus size: 129
45370654 CTTCGGTCTA
* * * *
45370664 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
** * * * **
45370729 AGATCCTAAATTTTAATCCGCTCCACTGTAA-CTTTAGGGAGATAGGA-TAGTGTCTTGGATCTG
66 AGATCCTTTATTTTAATCCGCTCCACTGTAATC-TCAGGGAGATAGGATTACTATCTTCAATCTG
* * *
45370792 CTCTGCTGTAATCTCAGAGAGATAAGACCTGATACGATCTACTCTACTATAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* *
45370857 AGATCTTTTATTTTAATCCGCTCTACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
66 AGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
*
45370921 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTATTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
*
45370986 AGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTCTCTTCAATCTG
66 AGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
* *
45371050 CTCCGCTGTAATCGCAGGGAGATAAGATCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
* *
45371115 AGATCCTTTATTTTAATCCGATCCACTATAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
66 AGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
** *
45371179 CTCCATTGTAACCTCAGGGAGATAAGA
1 CTCCGCTGTAATCTCAGGGAGATAAGA
45371206 TCTAAAATTC
Statistics
Matches: 379, Mismatches: 33, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
128 98 0.26
129 281 0.74
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (129 bp):
CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTATCTTCAATCTG
Found at i:45371235 original size:46 final size:44
Alignment explanation
Indices: 45369518--45371251 Score: 299
Period size: 44 Copynumber: 39.8 Consensus size: 44
45369508 AGATCTCTGG
* *
45369518 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-T-AAAAT
** * *
45369564 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * * * * * **
45369606 -TGCGATCTACTCTACTGTAACTTCAGAGAGATGAGATCCT-TTAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT--TAAAAT
* * * ***
45369650 GTT-AATCCACTCCACTGTAACTTCAGGGAGATAAGA-TAGTGT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
** * ** * * ** *
45369692 CTTGGATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCT-CTAG
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAAT
* * *
45369736 CTTCAATCTGCTCCACTGTAACCTCGGGGAGATAAGATCTGAAATT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-T-AAAAT
** * * * *
45369782 CTTCGGTTTACTCCACTGTAACCTCAAGGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * * *
45369824 -TGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCT-AAAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT--TAAAAT
* ** * * * ***
45369868 -TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-CAGTGT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
** * * * ****
45369910 CTTGGATCTGCT-CAGCTGTAATCTTAGGGAGATAAGATCT-CTGG
1 CTTCAATCTACTCCA-CTGTAACCTCAGGGAGATAAGAT-TAAAAT
* * * * * *
45369954 CTTCAGTCTGCTCCAATGTAATCTCGGGGAGATAAGATTTGAAATT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TT-AAAAT
** * *
45370000 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * * * *
45370042 -TGCGATCTACTCTACTGTAACCTTAGAGAGATAAGATCCT-AAAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT--TAAAAT
* ** * * * ***
45370086 -TTTAATCCGCTCCACTATAACTTCAGGGAGATAGGA-TAGTGT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
** * * * ****
45370128 CTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGG
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAAT
* *
45370172 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-T-AAAAT
** * * *
45370218 CTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * ** * ** ***
45370260 -TGCGATCTACTCTGCTGTAACTTCAGAAAGATAAGATCTTTTAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAAT
* ** * ***
45370304 -TTTAATCCGCTCCACTGTAACTTCAGGGAGATAAGA-TAGTGT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
** * * * ****
45370346 CTTGGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-CTGG
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAAT
*
45370390 CTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTAAAATT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAA-T
* ** * * *
45370436 TTTCGGTCTACTCCACTATAACCTCAGGGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * ** * *** **
45370478 -TGCGATCTACTCTGCTGTAACTTCATAAAGATAAGATCCT-TTAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT--TAAAAT
* ** * * ***
45370522 -TTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TAGTGT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
** * * * ****
45370564 CTTGGATCTGCT-CAGCTGTAATCTCAGAGAGATAAGATCT-CTGG
1 CTTCAATCTACTCCA-CTGTAACCTCAGGGAGATAAGAT-TAAAAT
* * *
45370608 CTTCAATCTGCTCCAAC-GTAATCTCGGGGAGATAAGATCTAAAATT
1 CTTCAATCTACTCC-ACTGTAACCTCAGGGAGATAAGAT-TAAAA-T
** * *
45370654 CTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * * *
45370696 -TGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCT-AAAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT--TAAAAT
* ** * * * ***
45370740 -TTTAATCCGCTCCACTGTAACTTTAGGGAGATAGGA-TAGTGT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
** * ** * * * *
45370782 CTTGGATCTGCTCTGCTGTAATCTCAGAGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * * * * * ***
45370824 -TACGATCTACTCTACTATAACTTCAGAGAGATAAGATCTTTTAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAAT
* ** * * * **
45370868 -TTTAATCCGCTCTACTGTAATCTCAGGGAGATAGGATTACTAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
* * * * *
45370911 CTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA-TTAAAAT
* * * * * * **
45370953 -TACGATCTACTCTATTGTAACTTCAGAGAGATAAGATCCT-TTAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT--TAAAAT
* ** * * ***
45370997 -TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTCT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
* * * * *
45371040 CTTCAATCTGCTCCGCTGTAATCGCAGGGAGATAAGATCT--GA-
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAAT
* * * * * **
45371082 -TACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTAT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT--TAAAAT
* * * * * **
45371126 -TTTAATCCGA-TCCACTATAATCTCAGGGAGATAGGATTACTAT
1 CTTCAAT-CTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
* *
45371169 CTTCAATCTGCTCCATTGTAACCTCAGGGAGATAAGATCTAAAATT
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGAT-TAAAA-T
** *
45371215 CTTCGGTCTACTCCACTGTAACCTTAGGGAGATAAGA
1 CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGA
45371252 CCTGATGCGA
Statistics
Matches: 1230, Mismatches: 366, Indels: 184
0.69 0.21 0.10
Matches are distributed among these distances:
41 270 0.22
42 26 0.02
43 181 0.15
44 502 0.41
45 20 0.02
46 231 0.19
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGTAACCTCAGGGAGATAAGATTAAAAT
Found at i:45371356 original size:175 final size:175
Alignment explanation
Indices: 45371065--45371399 Score: 535
Period size: 175 Copynumber: 1.9 Consensus size: 175
45371055 CTGTAATCGC
*
45371065 AGGGAGATAAGATCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * * *
45371130 ATCCGATCCACTATAATCTCAGGGAGATAGGATTACTATCTTCAATCTGCTCCATTGTAACCTCA
66 ATCCCATCCACTATAATCTCAGGGAGATAGGACTACCAGCTTCAATCTGCTCCACTATAACCTCA
45371195 GGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTT
131 GGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTT
* *
45371240 AGGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
* * * * *
45371305 ATCCCCTCCACTGTAATCTTAGGGAGATAGGACTACCAGCTTCAATCTGCTCCGCTATAATCTCA
66 ATCCCATCCACTATAATCTCAGGGAGATAGGACTACCAGCTTCAATCTGCTCCACTATAACCTCA
*
45371370 GGGAGATAAGATCTGAAATTCTTCGGTCTA
131 GGGAGATAAGATCTAAAATTCTTCGGTCTA
45371400 TTCCCTGGGG
Statistics
Matches: 145, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
175 145 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (175 bp):
AGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
ATCCCATCCACTATAATCTCAGGGAGATAGGACTACCAGCTTCAATCTGCTCCACTATAACCTCA
GGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTT
Found at i:45372637 original size:7 final size:7
Alignment explanation
Indices: 45372625--45372671 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
45372615 TTAGCCTCTC
45372625 CATTTTT
1 CATTTTT
45372632 CA-TTTT
1 CATTTTT
45372638 CATTTTT
1 CATTTTT
45372645 CATTTTT
1 CATTTTT
*
45372652 CA-TTCT
1 CATTTTT
45372658 CATTTTT
1 CATTTTT
*
45372665 TATTTTT
1 CATTTTT
45372672 TTTGACTCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 11 0.31
7 24 0.69
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:45372643 original size:13 final size:14
Alignment explanation
Indices: 45372625--45372671 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 14
45372615 TTAGCCTCTC
45372625 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
45372638 CATTTTTCATTTTT
1 CATTTTTCATTTTT
*
45372652 CA-TTCTCATTTTT
1 CATTTTTCATTTTT
*
45372665 TATTTTT
1 CATTTTT
45372672 TTTGACTCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 20 0.69
14 9 0.31
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:45372648 original size:20 final size:20
Alignment explanation
Indices: 45372625--45372671 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
45372615 TTAGCCTCTC
*
45372625 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
45372645 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
*
45372665 TATTTTT
1 CATTTTT
45372672 TTTGACTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:45373690 original size:12 final size:12
Alignment explanation
Indices: 45373673--45373724 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
45373663 ATTTTGATTT
45373673 TTTTCATTTTTA
1 TTTTCATTTTTA
*
45373685 TTTTCATTTTCA
1 TTTTCATTTTTA
* * *
45373697 TTTTGACTTTGA
1 TTTTCATTTTTA
* *
45373709 TTTTGATTTTTC
1 TTTTCATTTTTA
45373721 TTTT
1 TTTT
45373725 TCTTCCCTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (12 bp):
TTTTCATTTTTA
Found at i:45373694 original size:18 final size:18
Alignment explanation
Indices: 45373673--45373724 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
45373663 ATTTTGATTT
45373673 TTTTCATTTTTATTTTCA
1 TTTTCATTTTTATTTTCA
* * *
45373691 TTTTCATTTTGACTTTGA
1 TTTTCATTTTTATTTTCA
* *
45373709 TTTTGATTTTTCTTTT
1 TTTTCATTTTTATTTT
45373725 TCTTCCCTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTCATTTTTATTTTCA
Found at i:45378255 original size:22 final size:22
Alignment explanation
Indices: 45378205--45378255 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 22
45378195 AGTGTATATC
* *
45378205 TATATACATATTATAAAACTAT
1 TATATATATATTATAAAACAAT
*
45378227 TAAATATATA-TATAAAA-AAT
1 TATATATATATTATAAAACAAT
45378247 TATATATAT
1 TATATATAT
45378256 GTAAGTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
TATATATATATTATAAAACAAT
Found at i:45385467 original size:92 final size:91
Alignment explanation
Indices: 45385310--45385518 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
45385300 TTGATTTTAC
* * * *
45385310 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
45385375 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
45385402 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
45385466 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
45385494 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
45385519 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:45385481 original size:24 final size:25
Alignment explanation
Indices: 45385446--45385493 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
45385436 TTATGAAATT
45385446 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
45385470 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
45385494 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:45385647 original size:66 final size:63
Alignment explanation
Indices: 45385572--45385782 Score: 183
Period size: 66 Copynumber: 3.4 Consensus size: 63
45385562 AAATATATTT
45385572 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
*
45385637 G
63 A
* * * * **
45385638 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAA
*
45385692 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
45385756 AA
62 AA
*
45385758 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
45385783 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAA
Found at i:45385671 original size:59 final size:59
Alignment explanation
Indices: 45385608--45385791 Score: 164
Period size: 59 Copynumber: 3.1 Consensus size: 59
45385598 TATAGTATCA
*
45385608 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
* * * * * * * * *
45385667 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAAAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
45385726 CATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
45385787 TATAT
1 TATAT
45385792 ATTTTAATTA
Statistics
Matches: 93, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
56 6 0.06
57 11 0.12
58 9 0.10
59 19 0.20
60 8 0.09
61 14 0.15
62 9 0.10
63 11 0.12
64 6 0.06
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAAAT
Found at i:45385672 original size:120 final size:120
Alignment explanation
Indices: 45385534--45385826 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
45385524 AATTATTTTA
* * *
45385534 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
45385596 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
45385654 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
45385719 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
45385774 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
45385827 TAAATATGAT
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 157 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAG
Found at i:45385694 original size:15 final size:15
Alignment explanation
Indices: 45385659--45385710 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45385649 TTAAGAATTT
*
45385659 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45385673 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45385687 TATTTAATAATAAT-
1 TATTTAATTATAATA
45385701 TATGTTAATT
1 TAT-TTAATT
45385711 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45385779 original size:61 final size:61
Alignment explanation
Indices: 45385596--45385781 Score: 179
Period size: 61 Copynumber: 3.1 Consensus size: 61
45385586 CAAATTTTCA
*
45385596 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAAT
1 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
* * * * * * * * *
45385657 TTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TA
1 TTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAAAAT-ATTA-ATT-ATTAAGAA
45385715 T
61 T
*
45385716 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
1 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
45385777 TTTAT
1 TTTAT
45385782 TAAATTATAT
Statistics
Matches: 93, Mismatches: 20, Indels: 24
0.68 0.15 0.18
Matches are distributed among these distances:
57 11 0.12
58 7 0.08
59 18 0.19
60 16 0.17
61 22 0.24
62 8 0.09
63 11 0.12
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAAT
Found at i:45385809 original size:16 final size:16
Alignment explanation
Indices: 45385788--45385829 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
45385778 TTATTAAATT
*
45385788 ATATATTTTAATTATA
1 ATATATTTTAATAATA
45385804 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
45385819 AT-TATGTTTAA
1 ATATAT-TTTAA
45385830 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:45385814 original size:15 final size:15
Alignment explanation
Indices: 45385779--45385820 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45385769 TTAAGAATTT
*
45385779 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45385793 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45385807 TATTTAATAATAAT
1 TATTTAATTATAAT
45385821 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:45385859 original size:88 final size:87
Alignment explanation
Indices: 45385767--45386036 Score: 237
Period size: 88 Copynumber: 3.2 Consensus size: 87
45385757 AAATATTAAT
*
45385767 TATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 TATTAAGAATCTTATTAAATTATATATTTTAATTATAATATA-TTAATAATAATTATGTTTAAAT
45385832 ATGATTAAATTATTTATTATTGA
65 ATGATTAAATTATTTATTATTGA
* * ** * * *
45385855 TATTAATAATCTTATTAAAATT-TA-A--ATAACAATAACA-A-TAACAATAA-TA-ATTTACCA
1 TATTAAGAATCTTATT-AAATTATATATTTTAATTATAATATATTAATAATAATTATGTTTA--A
* ** *
45385912 A-A--A-TAAATT-TCTGCTAAT--
63 ATATGATTAAATTATTTATTATTGA
* *
45385930 TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATAATTAATAATAATTATGTTTAAAT
1 TATTAAGAATCTTATTAAATTATATATTTTAATTATAATAT-ATTAATAATAATTATGTTTAAAT
*
45385995 ATGATTAAAATATTTATTATTGA
65 ATGATTAAATTATTTATTATTGA
* *
45386018 TAATAATAATCTTATTAAA
1 TATTAAGAATCTTATTAAA
45386037 ATTTAAATAA
Statistics
Matches: 134, Mismatches: 29, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
74 5 0.04
75 16 0.12
76 1 0.01
77 5 0.04
78 13 0.10
79 1 0.01
80 5 0.04
81 13 0.10
82 13 0.10
83 4 0.03
84 2 0.01
85 13 0.10
86 5 0.04
87 1 0.01
88 32 0.24
89 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (87 bp):
TATTAAGAATCTTATTAAATTATATATTTTAATTATAATATATTAATAATAATTATGTTTAAATA
TGATTAAATTATTTATTATTGA
Found at i:45385939 original size:163 final size:163
Alignment explanation
Indices: 45385763--45386058 Score: 556
Period size: 163 Copynumber: 1.8 Consensus size: 163
45385753 ATAAAAATAT
* *
45385763 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATAATTAATAATAATTATGTTT
* *
45385828 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
45385893 TAACAATAATAATTTACCAAAATAAATTTCTGC
131 TAACAATAATAATTTACCAAAATAAATTTCTGC
45385926 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATAATTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATAATTAATAATAATTATGTTT
45385991 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
45386056 TAA
131 TAA
45386059 TCATTTACCA
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
163 129 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.45
Consensus pattern (163 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATAATTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAACAATAATAATTTACCAAAATAAATTTCTGC
Found at i:45385958 original size:17 final size:18
Alignment explanation
Indices: 45385938--45385971 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45385928 ATTATTAAGA
*
45385938 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
45385955 ATTTTAATTAAAATATA
1 ATTTTAATTAAAATATA
45385972 ATTAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:45386235 original size:16 final size:16
Alignment explanation
Indices: 45386210--45386245 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
45386200 GATTTGCTAT
*
45386210 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
45386226 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45386242 TACA
1 TACA
45386246 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45392180 original size:16 final size:16
Alignment explanation
Indices: 45392159--45392193 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
45392149 AGAAAAAAAA
45392159 ATGTTAGTAGTATATT
1 ATGTTAGTAGTATATT
45392175 ATGTTAGTAGTATATT
1 ATGTTAGTAGTATATT
45392191 ATG
1 ATG
45392194 AGGAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (16 bp):
ATGTTAGTAGTATATT
Found at i:45395471 original size:18 final size:18
Alignment explanation
Indices: 45395437--45395477 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45395427 TAATTGATAT
**
45395437 GGAGGATATATTTGAGGA
1 GGAGGATATATGAGAGGA
*
45395455 GGAGGATATATGAGAGGT
1 GGAGGATATATGAGAGGA
45395473 GGAGG
1 GGAGG
45395478 TGGGTGATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.22
Consensus pattern (18 bp):
GGAGGATATATGAGAGGA
Found at i:45396424 original size:14 final size:14
Alignment explanation
Indices: 45396400--45396438 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
45396390 CAAAATGTAC
45396400 AATAT-AATTAAAT
1 AATATAAATTAAAT
45396413 AATATAAATTAAAT
1 AATATAAATTAAAT
* *
45396427 TATATAATTTAA
1 AATATAAATTAA
45396439 TTAACTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATAAATTAAAT
Found at i:45396440 original size:13 final size:13
Alignment explanation
Indices: 45396401--45396441 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
45396391 AAAATGTACA
*
45396401 ATATAATTAAATA
1 ATATAATTAAATT
45396414 ATATAAATTAAATT
1 ATAT-AATTAAATT
*
45396428 ATATAATTTAATT
1 ATATAATTAAATT
45396441 A
1 A
45396442 ACTATTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATAATTAAATT
Found at i:45399754 original size:21 final size:21
Alignment explanation
Indices: 45399684--45399742 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
45399674 TTTTACGCTG
45399684 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
45399705 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
45399726 CTCTGCTTCTCTCGCTG
1 CTCTGCTTCCCTCGCTG
45399743 CCGCATCTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.03, C:0.42, G:0.19, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:45399805 original size:66 final size:66
Alignment explanation
Indices: 45399725--45399871 Score: 226
Period size: 66 Copynumber: 2.2 Consensus size: 66
45399715 CTCGCTGTAG
*
45399725 CCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
45399788 GAA
64 GAA
* * *
45399791 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
45399856 A
66 A
45399857 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
45399872 ATGTTGCCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
65 1 0.01
66 70 0.93
67 4 0.05
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:45399887 original size:66 final size:65
Alignment explanation
Indices: 45399725--45399895 Score: 218
Period size: 66 Copynumber: 2.6 Consensus size: 65
45399715 CTCGCTGTAG
* * * * *
45399725 CCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGA
45399790 A
65 A
* * *
45399791 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTCGTTG
45399855 AA
64 AA
* *
45399857 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTG
45399896 TAATTTGCTC
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
65 2 0.02
66 89 0.94
67 4 0.04
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (65 bp):
CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAA
Found at i:45404943 original size:27 final size:27
Alignment explanation
Indices: 45404905--45404958 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45404895 ACGACTAAAA
45404905 ACCATGATTGTGCATATTAAATGCATC
1 ACCATGATTGTGCATATTAAATGCATC
45404932 ACCATGATTGTGCATATTAAATGCATC
1 ACCATGATTGTGCATATTAAATGCATC
45404959 CCGCAACATA
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:0.19, G:0.15, T:0.33
Consensus pattern (27 bp):
ACCATGATTGTGCATATTAAATGCATC
Found at i:45405338 original size:9 final size:9
Alignment explanation
Indices: 45405324--45405527 Score: 130
Period size: 9 Copynumber: 23.8 Consensus size: 9
45405314 AATTACACAA
45405324 GTAAGTTAT
1 GTAAGTTAT
45405333 GTAAGTTAT
1 GTAAGTTAT
*
45405342 TTAAGTTAT
1 GTAAGTTAT
*
45405351 GTAAGTTGT
1 GTAAGTTAT
45405360 GT-A-TTAT
1 GTAAGTTAT
*
45405367 GTAAGTTTT
1 GTAAGTTAT
* *
45405376 GTAGGCTAT
1 GTAAGTTAT
*
45405385 GTATA-TTAA
1 GTA-AGTTAT
*
45405394 GTAAGTAAT
1 GTAAGTTAT
45405403 GT-A-TTAT
1 GTAAGTTAT
*
45405410 GTAAGTTGT
1 GTAAGTTAT
*
45405419 GT-A-TAAT
1 GTAAGTTAT
*
45405426 GTTAGTTAT
1 GTAAGTTAT
**
45405435 CAAAGTTAT
1 GTAAGTTAT
45405444 GT-A-TTAT
1 GTAAGTTAT
*
45405451 GTAAGTTGT
1 GTAAGTTAT
45405460 GT-A-TTAT
1 GTAAGTTAT
45405467 GTAAGTTAT
1 GTAAGTTAT
*
45405476 GTAAGCTAT
1 GTAAGTTAT
45405485 GT-A-TTAT
1 GTAAGTTAT
45405492 GTAAGTTAT
1 GTAAGTTAT
*
45405501 -TATGTTATTAT
1 GTAAG---TTAT
45405512 GTAAGTTAT
1 GTAAGTTAT
*
45405521 GCAAGTT
1 GTAAGTT
45405528 TATATATAAG
Statistics
Matches: 147, Mismatches: 30, Indels: 36
0.69 0.14 0.17
Matches are distributed among these distances:
7 30 0.20
8 16 0.11
9 94 0.64
11 4 0.03
12 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:45405387 original size:18 final size:17
Alignment explanation
Indices: 45405327--45405379 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 17
45405317 TACACAAGTA
45405327 AGTTATGTAAGTTATT-T
1 AGTTATGTAAGTT-TTGT
*
45405344 AAGTTATGTAAGTTGTGT
1 -AGTTATGTAAGTTTTGT
45405362 A-TTATGTAAGTTTTGT
1 AGTTATGTAAGTTTTGT
45405378 AG
1 AG
45405380 GCTATGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 15 0.48
17 2 0.06
18 14 0.45
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (17 bp):
AGTTATGTAAGTTTTGT
Found at i:45405421 original size:16 final size:16
Alignment explanation
Indices: 45405388--45405521 Score: 69
Period size: 16 Copynumber: 8.0 Consensus size: 16
45405378 AGGCTATGTA
* *
45405388 TATTAAGTAAGTAATG
1 TATTATGTAAGTTATG
*
45405404 TATTATGTAAGTTGTG
1 TATTATGTAAGTTATG
* * *
45405420 TATAATGTTAGTTATCA
1 TATTATGTAAGTTAT-G
*
45405437 AAGTTATGT-A-TTATG
1 TA-TTATGTAAGTTATG
*
45405452 TAAGTTGTGT-A-TTATG
1 T-A-TTATGTAAGTTATG
*
45405468 TAAGTTATGTAAGCTATG
1 T-A-TTATGTAAGTTATG
45405486 TATTATGTAAGTTATTATG
1 TATTATGTAAG---TTATG
45405505 TTATTATGTAAGTTATG
1 -TATTATGTAAGTTATG
45405522 CAAGTTTATA
Statistics
Matches: 94, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
16 60 0.64
17 9 0.10
18 10 0.11
19 4 0.04
20 11 0.12
ACGTcount: A:0.32, C:0.01, G:0.19, T:0.47
Consensus pattern (16 bp):
TATTATGTAAGTTATG
Found at i:45405434 original size:25 final size:25
Alignment explanation
Indices: 45405399--45405469 Score: 60
Period size: 25 Copynumber: 3.0 Consensus size: 25
45405389 ATTAAGTAAG
*
45405399 TAATG-TA-TTATGTAAGTTGTGTA
1 TAATGTTAGTTATGTAAGTTATGTA
**
45405422 TAATGTTAGTTATCAAAGTTATGTA
1 TAATGTTAGTTATGTAAGTTATGTA
* * *
45405447 TTATGTAAGTTGTGT-A-TTATGTA
1 TAATGTTAGTTATGTAAGTTATGTA
45405470 AGTTATGTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 12 0.32
24 3 0.08
25 23 0.61
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (25 bp):
TAATGTTAGTTATGTAAGTTATGTA
Found at i:45405456 original size:41 final size:41
Alignment explanation
Indices: 45405396--45405498 Score: 152
Period size: 41 Copynumber: 2.5 Consensus size: 41
45405386 TATATTAAGT
* *
45405396 AAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCA
1 AAGTTATGTATTATGTAAGTTGTGTATAATGTAAGTTATCA
* **
45405437 AAGTTATGTATTATGTAAGTTGTGTATTATGTAAGTTATGT
1 AAGTTATGTATTATGTAAGTTGTGTATAATGTAAGTTATCA
*
45405478 AAGCTATGTATTATGTAAGTT
1 AAGTTATGTATTATGTAAGTT
45405499 ATTATGTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (41 bp):
AAGTTATGTATTATGTAAGTTGTGTATAATGTAAGTTATCA
Found at i:45405511 original size:20 final size:19
Alignment explanation
Indices: 45405482--45405520 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
45405472 TTATGTAAGC
45405482 TATGTATTATGTAAGTTAT
1 TATGTATTATGTAAGTTAT
45405501 TATGTTATTATGTAAGTTAT
1 TATG-TATTATGTAAGTTAT
45405521 GCAAGTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (19 bp):
TATGTATTATGTAAGTTAT
Found at i:45405952 original size:121 final size:121
Alignment explanation
Indices: 45405574--45406011 Score: 817
Period size: 121 Copynumber: 3.6 Consensus size: 121
45405564 TATGTATCCT
*
45405574 ATTTATAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
45405639 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
66 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
*
45405695 ATTTACAATTATTTTT-AAATTATAAAATTTATTGACAATAAAACTGACATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
45405759 CATACCATATAT-GGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
66 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
45405814 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
*
45405879 CATACCATTTATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
66 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
* *
45405935 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGAAATATAGGTTATATATT
1 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
45406000 CATACCATATAT
66 CATACCATATAT
45406012 ATAAATTTTA
Statistics
Matches: 308, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
119 59 0.19
120 117 0.38
121 132 0.43
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (121 bp):
ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATC
CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
Found at i:45406057 original size:23 final size:23
Alignment explanation
Indices: 45406008--45406116 Score: 75
Period size: 23 Copynumber: 5.3 Consensus size: 23
45405998 TTCATACCAT
* *
45406008 ATATATAAATTTTAAAT-ATATA
1 ATATATAAATTTTAAGTAATGTA
45406030 TATATATAAATTTTAAGTAATGT-
1 -ATATATAAATTTTAAGTAATGTA
45406053 A-ATAT--A-TTTAAGTAATGTA
1 ATATATAAATTTTAAGTAATGTA
*
45406072 AGT-TATAAATTTT-TGTAA-GT-
1 A-TATATAAATTTTAAGTAATGTA
45406092 A-ATAT--A-TTTAAGTAATGTA
1 ATATATAAATTTTAAGTAATGTA
45406111 ATATAT
1 ATATAT
45406117 TTTAGTAAGT
Statistics
Matches: 70, Mismatches: 4, Indels: 27
0.69 0.04 0.27
Matches are distributed among these distances:
16 3 0.04
17 5 0.07
18 14 0.20
19 6 0.09
20 8 0.11
21 6 0.09
22 6 0.09
23 19 0.27
24 3 0.04
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (23 bp):
ATATATAAATTTTAAGTAATGTA
Found at i:45406064 original size:18 final size:18
Alignment explanation
Indices: 45406041--45406129 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
45406031 ATATATAAAT
45406041 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
45406059 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
**
45406081 TTTTTGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
45406098 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
45406116 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
45406130 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.49
19 3 0.05
20 3 0.05
21 4 0.07
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:45406080 original size:240 final size:239
Alignment explanation
Indices: 45405589--45406045 Score: 731
Period size: 240 Copynumber: 1.9 Consensus size: 239
45405579 TAATTATTTT
45405589 TAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATCCATACCATATATGGG
1 TAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATCCATACCATATATGGG
45405654 GTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAATTATA
66 GTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAATTATA
* * *
45405719 AAATTTATTGACAATAAAACTGACATATAGGTTATATATCCATACCATATATGGGTGATATATTA
131 AAATTTATTGACAATAAAACTGAAATATAGGTTATATATCCATACCATATAT-GATGAAATATTA
* * * * * *
45405784 AAAATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTT
195 AAAATATAGATATAAATATTTAAAAATAACATTTACAAGTATATG
*
45405829 TAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATCCATACCATTTATGGG
1 TAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATCCATACCATATATGGG
45405894 GTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTAT
66 GTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTT-AAATTAT
* * *
45405959 AAAATTTATTGACAATAAAATTGAAATATAGGTTATATATTCATACCATATAT-AT-AAATTTTA
130 AAAATTTATTGACAATAAAACTGAAATATAGGTTATATATCCATACCATATATGATGAAATATTA
*
45406022 AATATATATATATATAAAT-TTTAA
195 AA-A-ATATAGATATAAATATTTAA
45406046 GTAATGTAAT
Statistics
Matches: 203, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
238 8 0.04
239 7 0.03
240 131 0.65
241 57 0.28
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (239 bp):
TAAAATTATAAAATTTATTGACAATAAAATTGACATATAGGTTATATATCCATACCATATATGGG
GTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAATTATA
AAATTTATTGACAATAAAACTGAAATATAGGTTATATATCCATACCATATATGATGAAATATTAA
AAATATAGATATAAATATTTAAAAATAACATTTACAAGTATATG
Found at i:45406124 original size:31 final size:31
Alignment explanation
Indices: 45406043--45406147 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
45406033 ATATAAATTT
45406043 TAAGTAATGTAATATA--TT--TAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
45406070 TAAGT--TATAA-ATTTTTGTAAGTAA-TATATT
1 TAAGTAATGTAATATATTT-T-AGTAAGTA-ATG
45406100 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
45406131 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
45406148 ACTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 1 0.02
27 6 0.10
29 2 0.03
30 10 0.16
31 24 0.39
32 7 0.11
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:45406186 original size:13 final size:13
Alignment explanation
Indices: 45406170--45406261 Score: 91
Period size: 13 Copynumber: 6.9 Consensus size: 13
45406160 GTAAGTCATG
45406170 TATTTAAGTAATA
1 TATTTAAGTAATA
45406183 TATTTAAGTAA-A
1 TATTTAAGTAATA
*
45406195 T-TCTAGTAAGTAATG
1 TAT-T--TAAGTAATA
45406210 TATTTAAGTAATA
1 TATTTAAGTAATA
45406223 TATTTAAGTAA-A
1 TATTTAAGTAATA
* *
45406235 TTTTAGTAATTAATA
1 TATT--TAAGTAATA
45406250 TATTTAAGTAAT
1 TATTTAAGTAAT
45406262 GTAAGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
11 1 0.02
12 7 0.11
13 37 0.57
14 13 0.20
15 6 0.09
16 1 0.02
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.46
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:45406211 original size:40 final size:39
Alignment explanation
Indices: 45406025--45406278 Score: 211
Period size: 40 Copynumber: 6.5 Consensus size: 39
45406015 AATTTTAAAT
*
45406025 ATATATATATATAAATTTTAAGTAATGTAATATATTTAAGTA
1 ATATATTTA-ATAAATTTT-AGTAA-GTAATATATTTAAGTA
* * *
45406067 ATGTAAGTT-ATAAATTTTTGTAAGTAATATATTTAAG--
1 ATAT-ATTTAATAAATTTTAGTAAGTAATATATTTAAGTA
* * * **
45406104 -TA-ATGTAATATATTTTAGTAAGTAATGTAAGTAATGTA
1 ATATATTTAATAAATTTTAGTAAGTAATATATTTAA-GTA
* *
45406142 ATATATACTT--T-AATTTTAGTAAGTCATGTATTTAAGTA
1 ATATAT--TTAATAAATTTTAGTAAGTAATATATTTAAGTA
* *
45406180 ATATATTTAAGTAAATTCTAGTAAGTAATGTATTTAAGTA
1 ATATATTTAA-TAAATTTTAGTAAGTAATATATTTAAGTA
*
45406220 ATATATTTAAGTAAATTTTAGTAATTAATATATTTAAGTA
1 ATATATTTAA-TAAATTTTAGTAAGTAATATATTTAAGTA
* *
45406260 ATGTAAGTT-ATAAATTTTA
1 ATAT-ATTTAATAAATTTTA
45406279 AATATATATA
Statistics
Matches: 174, Mismatches: 24, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
34 2 0.01
35 22 0.13
36 4 0.02
38 9 0.05
39 46 0.26
40 73 0.42
41 12 0.07
42 4 0.02
43 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (39 bp):
ATATATTTAATAAATTTTAGTAAGTAATATATTTAAGTA
Found at i:45407454 original size:12 final size:12
Alignment explanation
Indices: 45407437--45407468 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
45407427 AAAATCTCGC
*
45407437 AAAACAGACTAG
1 AAAACAAACTAG
45407449 AAAACAAACTAG
1 AAAACAAACTAG
45407461 AAAACAAA
1 AAAACAAA
45407469 ACCCAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.16, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAACAAACTAG
Found at i:45407748 original size:21 final size:21
Alignment explanation
Indices: 45407722--45407767 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
45407712 TGTCCTGCAC
45407722 TTAAAAAAGCCACCAACAATA
1 TTAAAAAAGCCACCAACAATA
45407743 TTAAAAAAGCCACCAACAATA
1 TTAAAAAAGCCACCAACAATA
45407764 TTAA
1 TTAA
45407768 CATTTTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.22, G:0.04, T:0.17
Consensus pattern (21 bp):
TTAAAAAAGCCACCAACAATA
Found at i:45408608 original size:83 final size:85
Alignment explanation
Indices: 45408494--45408722 Score: 207
Period size: 83 Copynumber: 2.7 Consensus size: 85
45408484 AAACAGCACC
* * * * ***
45408494 GTTTTAAGAACCTTAAATATATATTTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACCTTA
1 GTTTTAAGAAACTTTAATACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAAGA
* * *
45408559 -CTGAATAGAAACGGTG-CT
66 CCTGAAGAGAAACAGTGACG
* * * ** * *
45408577 GTTTTAAGAAACTTTAATCCATAGTTCCGGCG-TTTTCCCGAAAAATGCCACT-AAAATTTCAAG
1 GTTTTAAGAAACTTTAATACATAATTGCGGCGTTTTTAGC-AAAAACGCCACTAAAAATTACAAG
*
45408640 ACCTGAAGAGAAACATTGACG
65 ACCTGAAGAGAAACAGTGACG
* * * *
45408661 GTTTGAA-AAACATTAATACATAATTGCGGCGTTTTTAGCATAAACGCCACTAATAGATTACA
1 GTTTTAAGAAACTTTAATACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAA-AAATTACA
45408723 CTCCTCTTCT
Statistics
Matches: 112, Mismatches: 28, Indels: 10
0.75 0.19 0.07
Matches are distributed among these distances:
82 13 0.12
83 80 0.71
84 13 0.12
85 6 0.05
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.30
Consensus pattern (85 bp):
GTTTTAAGAAACTTTAATACATAATTGCGGCGTTTTTAGCAAAAACGCCACTAAAAATTACAAGA
CCTGAAGAGAAACAGTGACG
Found at i:45409694 original size:7 final size:7
Alignment explanation
Indices: 45409671--45409708 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
45409661 ATATAATTCT
45409671 TAACCCC
1 TAACCCC
**
45409678 TAACGTC
1 TAACCCC
45409685 TAACCCC
1 TAACCCC
45409692 TAACCCC
1 TAACCCC
45409699 TAACCCC
1 TAACCCC
45409706 TAA
1 TAA
45409709 ACCTTGAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.32, C:0.47, G:0.03, T:0.18
Consensus pattern (7 bp):
TAACCCC
Found at i:45409738 original size:20 final size:21
Alignment explanation
Indices: 45409700--45409740 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45409690 CCTAACCCCT
*
45409700 AACCCCTAAACCTTGAATCCC
1 AACCCCTAAACCATGAATCCC
*
45409721 AACCCTTAAACCAT-AATCCC
1 AACCCCTAAACCATGAATCCC
45409741 TAGTCCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.41, G:0.02, T:0.20
Consensus pattern (21 bp):
AACCCCTAAACCATGAATCCC
Found at i:45409890 original size:9 final size:9
Alignment explanation
Indices: 45409876--45409900 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45409866 ATTATATAAG
45409876 AAAATATTT
1 AAAATATTT
45409885 AAAATATTT
1 AAAATATTT
45409894 AAAATAT
1 AAAATAT
45409901 AAATTAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:45410785 original size:41 final size:42
Alignment explanation
Indices: 45410660--45410899 Score: 258
Period size: 41 Copynumber: 5.8 Consensus size: 42
45410650 TAAAATGTCC
* * **
45410660 TTAGCGGCGCTTTTCCAGAAAACGCCGCTAAAGACCCTAGCA
1 TTAGCGGCGCTTTTACAGAAAACGCCGCTAAAGGCCAAAGCA
* * *
45410702 TTAGCGGTGCTTTTCCAGAAAATGCCGCTAAAGGCCAAAGCA
1 TTAGCGGCGCTTTTACAGAAAACGCCGCTAAAGGCCAAAGCA
*
45410744 TTAGCGGCGCTTTTACA-AAAACGCTGCTAAAGGCCAAAGCA
1 TTAGCGGCGCTTTTACAGAAAACGCCGCTAAAGGCCAAAGCA
* * * * *
45410785 TTAGCGGCACTTTTTCA-AAAACGCCGCTAAAGCCCATAGAA
1 TTAGCGGCGCTTTTACAGAAAACGCCGCTAAAGGCCAAAGCA
* *
45410826 TTAGCGGCGCTTATT-TA-AAAACGCCGCTAAA-GCCTACAGCA
1 TTAGCGGCGCTT-TTACAGAAAACGCCGCTAAAGGCC-AAAGCA
* *
45410867 TTAGCGGCACTTCTTA-ATAAAACGCCGCTAAAG
1 TTAGCGGCGCTT-TTACAGAAAACGCCGCTAAAG
45410900 ACCCGAAAGG
Statistics
Matches: 171, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
40 2 0.01
41 101 0.59
42 68 0.40
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (42 bp):
TTAGCGGCGCTTTTACAGAAAACGCCGCTAAAGGCCAAAGCA
Found at i:45411251 original size:18 final size:16
Alignment explanation
Indices: 45411220--45411270 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 16
45411210 ATAAATTATG
* *
45411220 AAATTTAAATATATTA
1 AAATTAAAAAATATTA
45411236 AAATTGAAATAAATATTA
1 AAATT-AAA-AAATATTA
*
45411254 ATATTAAAAAA-ATTA
1 AAATTAAAAAATATTA
45411269 AA
1 AA
45411271 TCTTATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
15 5 0.17
16 8 0.28
17 5 0.17
18 11 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAATTAAAAAATATTA
Found at i:45417857 original size:17 final size:17
Alignment explanation
Indices: 45417835--45417867 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45417825 AATACAGTAC
45417835 ATTTCTATGGTTGTTTT
1 ATTTCTATGGTTGTTTT
*
45417852 ATTTCTGTGGTTGTTT
1 ATTTCTATGGTTGTTT
45417868 GCCAATATTA
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:0.09, C:0.06, G:0.21, T:0.64
Consensus pattern (17 bp):
ATTTCTATGGTTGTTTT
Found at i:45417998 original size:4 final size:4
Alignment explanation
Indices: 45417989--45418110 Score: 111
Period size: 4 Copynumber: 30.2 Consensus size: 4
45417979 TTATTCTAAT
*
45417989 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCAC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * *
45418037 TCTC TCTC ACAC TCAC TCAC TCAC TCAC TCAC TCAC TCAC TCTC TCATC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TC-TC
* *
45418086 TCTT TCTAA T-TC TCTC TCTC TCTC T
1 TCTC TCT-C TCTC TCTC TCTC TCTC T
45418111 TAAACTTGAT
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
3 1 0.01
4 100 0.94
5 5 0.05
ACGTcount: A:0.11, C:0.47, G:0.00, T:0.43
Consensus pattern (4 bp):
TCTC
Found at i:45422590 original size:12 final size:12
Alignment explanation
Indices: 45422569--45422598 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45422559 GCAAATGAAT
*
45422569 CATTTCTATTTC
1 CATTTTTATTTC
45422581 CATTTTTATTTC
1 CATTTTTATTTC
45422593 CATTTT
1 CATTTT
45422599 GGAAACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (12 bp):
CATTTTTATTTC
Found at i:45424939 original size:72 final size:72
Alignment explanation
Indices: 45424805--45424941 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 72
45424795 TGCCCTGTCA
* **
45424805 TTTGCTTAAATCATCAAAAGAAGGATTTTCAACTTAACAAGCTTTTTTTTTTCTTTTTCTTTTGC
1 TTTGCTTAAATCATCAAAAGAAGGATTTTCAACTTAACAAGCTTTTTTTTTTCTCTAACTTTTGC
45424870 ACTAACT
66 ACTAACT
* * * * * * **
45424877 TTTGCTTAAGTCGTCTAATGAAGGATTTTTAGCTTAATGAGCTTTTTTTTTTCTCTAACTTTTGC
1 TTTGCTTAAATCATCAAAAGAAGGATTTTCAACTTAACAAGCTTTTTTTTTTCTCTAACTTTTGC
45424942 TTGAGCCATC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 54 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (72 bp):
TTTGCTTAAATCATCAAAAGAAGGATTTTCAACTTAACAAGCTTTTTTTTTTCTCTAACTTTTGC
ACTAACT
Found at i:45424957 original size:60 final size:61
Alignment explanation
Indices: 45424856--45425042 Score: 160
Period size: 60 Copynumber: 2.9 Consensus size: 61
45424846 CTTTTTTTTT
* * * * * *
45424856 TCTTTTTCTTTTGCACTAACTTTTGCTTAAGTCGTCTAATGAAGGATTTTTAGCTTAATGAG
1 TCTTTTT-TTTTTCTCTAACTTTTGCTTGAGCCATCCAATGAAGGATTTTTAGCTTAATGAG
* * * * *
45424918 -CTTTTTTTTTTCTCTAACTTTTGCTTGAGCCATCCAATGAAGTATATTCAACTTAATTAG
1 TCTTTTTTTTTTCTCTAACTTTTGCTTGAGCCATCCAATGAAGGATTTTTAGCTTAATGAG
* * *
45424978 CTCTTCTTCTTTTCTTTATGCTCTAACTTTTTCTTGAGCTATCCAAAGAAGGATTTTTAGCTTAA
1 ----TCTT-TTTT-TTT-T-CTCTAACTTTTGCTTGAGCCATCCAATGAAGGATTTTTAGCTTAA
45425043 CAAAATTTTG
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
60 43 0.44
61 6 0.06
65 3 0.03
66 4 0.04
67 3 0.03
68 1 0.01
69 38 0.39
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.47
Consensus pattern (61 bp):
TCTTTTTTTTTTCTCTAACTTTTGCTTGAGCCATCCAATGAAGGATTTTTAGCTTAATGAG
Found at i:45433017 original size:16 final size:16
Alignment explanation
Indices: 45432998--45433030 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45432988 ATGAATAGAG
45432998 TCTGGCTTGGTAAGGA
1 TCTGGCTTGGTAAGGA
45433014 TCTGGCTTGGTAAGGA
1 TCTGGCTTGGTAAGGA
45433030 T
1 T
45433031 GGCTTAATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.36, T:0.33
Consensus pattern (16 bp):
TCTGGCTTGGTAAGGA
Found at i:45435361 original size:14 final size:13
Alignment explanation
Indices: 45435324--45435365 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
45435314 AGGATTAGTG
45435324 ATTAA-TTAATTA
1 ATTAAGTTAATTA
45435336 TGATTAAGTTAATTA
1 --ATTAAGTTAATTA
45435351 ATTAAGTTTAATTA
1 ATTAAG-TTAATTA
45435365 A
1 A
45435366 AACTAAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.23
14 13 0.50
15 7 0.27
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
ATTAAGTTAATTA
Found at i:45435361 original size:19 final size:18
Alignment explanation
Indices: 45435324--45435365 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
45435314 AGGATTAGTG
*
45435324 ATTAATTAATTATGATTA
1 ATTAATTAATTAAGATTA
*
45435342 AGTTAATTAATTAAGTTTA
1 A-TTAATTAATTAAGATTA
45435361 ATTAA
1 ATTAA
45435366 AACTAAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (18 bp):
ATTAATTAATTAAGATTA
Found at i:45438452 original size:13 final size:13
Alignment explanation
Indices: 45438416--45438455 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
45438406 AGTTTGGCAA
45438416 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
45438429 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
45438442 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
45438455 T
1 T
45438456 TTGGTTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:45442481 original size:49 final size:49
Alignment explanation
Indices: 45442428--45442537 Score: 118
Period size: 50 Copynumber: 2.2 Consensus size: 49
45442418 GAAAACCAGA
*
45442428 TAAAACATAAACCTTAAAACCTAAAG-TTATGGAAA-AT-AAGACTAAACCC
1 TAAAACATAAACATTAAAACCT-AAGTTTAT--AAAGATGAAGACTAAACCC
* * *
45442477 TAAAAATATAAACATTAAACCCTAAGTTTATAAAGATGAAGACTAAACCT
1 T-AAAACATAAACATTAAAACCTAAGTTTATAAAGATGAAGACTAAACCC
*
45442527 TAAAAGATAAA
1 TAAAACATAAA
45442538 GAAAAAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
48 3 0.06
49 15 0.29
50 34 0.65
ACGTcount: A:0.55, C:0.15, G:0.08, T:0.23
Consensus pattern (49 bp):
TAAAACATAAACATTAAAACCTAAGTTTATAAAGATGAAGACTAAACCC
Found at i:45445324 original size:27 final size:26
Alignment explanation
Indices: 45445275--45445326 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
45445265 TTTAAAAAAA
*
45445275 TTAAAATTATTAAAATATTATATTTT
1 TTAAAATTATTAAAATATCATATTTT
45445301 TTAAATATTATTAAACATA-CATATTT
1 TTAAA-ATTATTAAA-ATATCATATTT
45445327 AATTATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 15 0.65
28 3 0.13
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
TTAAAATTATTAAAATATCATATTTT
Found at i:45445375 original size:22 final size:22
Alignment explanation
Indices: 45445350--45445393 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45445340 TAGCCATATA
*
45445350 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAAAATAATAAAT
45445372 ATAAATTATTAAAATAATAAAT
1 ATAAATTATTAAAATAATAAAT
45445394 TATTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATAAATTATTAAAATAATAAAT
Found at i:45445393 original size:16 final size:15
Alignment explanation
Indices: 45445368--45445397 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45445358 TTAATATAAT
45445368 AAATATAAATTATTA
1 AAATATAAATTATTA
45445383 AAATAATAAATTATT
1 AAAT-ATAAATTATT
45445398 TAATATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATAAATTATTA
Found at i:45445429 original size:13 final size:14
Alignment explanation
Indices: 45445413--45445454 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
45445403 TTTCAATTTT
45445413 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
45445426 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
45445441 ATTTTAGATAATAT
1 ATTTTA-ATAATAT
45445455 GATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 9 0.38
16 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:45445515 original size:19 final size:19
Alignment explanation
Indices: 45445488--45445535 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
45445478 TCAATATTAA
*
45445488 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
* *
45445507 TATTATAATTACAAATATT
1 TATTATAATAATAAATATT
45445526 TA--ATAATAAT
1 TATTATAATAAT
45445536 TTTTTTTGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 6 0.25
19 18 0.75
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:45449003 original size:24 final size:24
Alignment explanation
Indices: 45448976--45449027 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45448966 TTAGTAAGTC
*
45448976 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45449000 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45449024 AAAT
1 AAAT
45449028 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45451624 original size:27 final size:28
Alignment explanation
Indices: 45451578--45451632 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
45451568 TTTCTCTTGT
45451578 TAAAAAAATTATAAATATTTGTAT-TTTA
1 TAAAAAAATTATAAATATTT-TATATTTA
45451606 TAAAAAAATCT-TAAA-ATTTTATATTTA
1 TAAAAAAAT-TATAAATATTTTATATTTA
45451633 ATTACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.12
27 8 0.32
28 13 0.52
29 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
TAAAAAAATTATAAATATTTTATATTTA
Found at i:45452470 original size:19 final size:19
Alignment explanation
Indices: 45452448--45452492 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
45452438 TACCATTTCG
*
45452448 TTATTATATTACTACTATT
1 TTATTATATAACTACTATT
* * *
45452467 TTATTGTATAACTATTGTT
1 TTATTATATAACTACTATT
45452486 TTATTAT
1 TTATTAT
45452493 TAATTTTACT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (19 bp):
TTATTATATAACTACTATT
Found at i:45452979 original size:27 final size:28
Alignment explanation
Indices: 45452913--45452988 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 28
45452903 TGAATTATTG
** * *
45452913 TTAAAAATATTTAAAT-ATTAATTTTCA
1 TTAAAAATATTTTTATAATTAAATTTAA
*
45452940 TT-AATATATTTTTATAATTAAATTTAA
1 TTAAAAATATTTTTATAATTAAATTTAA
45452967 TTAAAAATATTTTTACTAATTA
1 TTAAAAATATTTTTA-TAATTA
45452989 GACAGCAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 10 0.25
27 13 0.32
28 11 0.28
29 6 0.15
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (28 bp):
TTAAAAATATTTTTATAATTAAATTTAA
Found at i:45468186 original size:29 final size:29
Alignment explanation
Indices: 45468133--45468189 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
45468123 TATAACTTTT
*
45468133 TTTTATTTATCAAAATATTATAAAAAAAA
1 TTTTATTTATCAAAATATTACAAAAAAAA
*
45468162 TTTTATTTATCAAAATA-TACCAAAAAAA
1 TTTTATTTATCAAAATATTACAAAAAAAA
45468190 CAAAAAACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (29 bp):
TTTTATTTATCAAAATATTACAAAAAAAA
Found at i:45468592 original size:19 final size:19
Alignment explanation
Indices: 45468568--45468633 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
45468558 ATTAAAATAG
45468568 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
45468587 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
45468605 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
45468624 TTTAATTTAA
1 TTTAATTTAA
45468634 AAAATTAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Done.