Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 166 of 204
Found at i:49646833 original size:12 final size:12
Alignment explanation
Indices: 49646818--49646867 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
49646808 AATAAAATAA
*
49646818 TAAAATATTATT
1 TAAAATATTAAT
49646830 TAAAA-ATTAAAT
1 TAAAATATT-AAT
49646842 TAAAATATTAA-
1 TAAAATATTAAT
* *
49646853 TAAACTAATAAT
1 TAAAATATTAAT
49646865 TAA
1 TAA
49646868 TTAATTAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 12 0.38
12 17 0.53
13 3 0.09
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATATTAAT
Found at i:49647546 original size:59 final size:59
Alignment explanation
Indices: 49647426--49647539 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
49647416 AACATAATTG
*
49647426 GGGATTTTAATCTATGAGCTATTTCATACTTAAGAAAATTTTAAAAGATAACACAACTA
1 GGGATTTTAATCCATGAGCTATTTCATACTTAAGAAAATTTTAAAAGATAACACAACTA
*
49647485 GGGATTTTAATCCATGAGCTATTTCATACTTAAGAAAATTTTGAAAGATAACACA
1 GGGATTTTAATCCATGAGCTATTTCATACTTAAGAAAATTTTAAAAGATAACACA
49647540 GTTAGGGCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (59 bp):
GGGATTTTAATCCATGAGCTATTTCATACTTAAGAAAATTTTAAAAGATAACACAACTA
Found at i:49647681 original size:69 final size:69
Alignment explanation
Indices: 49647561--49647746 Score: 205
Period size: 69 Copynumber: 2.7 Consensus size: 69
49647551 TCAACTTTCA
* * * * * ** * **
49647561 CTAACTATGTTGGAGGCTAAC-ACTCTTCGCCTGCTAGCCTTAATACAATAGCTGGGAGTTTTGC
1 CTAACTGTGTTGGAGGCT-GCGACTCTTCACCTGCAAGCCTTGATATGATAGCTGAGAGCATTGC
49647625 T-TCTG
65 TCTC-G
* *
49647630 CTAACTGTGTTGGAGGCTGCGACTTTTCACCTGCAAGCTTTGATATGATAGCTGAGAGCATTGCT
1 CTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCAAGCCTTGATATGATAGCTGAGAGCATTGCT
49647695 CTCG
66 CTCG
* * *
49647699 CTAATTGTGTTGGAGGCTGCGACTCTTCGCCTGCGAGCCTTGATATGA
1 CTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCAAGCCTTGATATGA
49647747 CACAACTACT
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
68 1 0.01
69 95 0.97
70 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (69 bp):
CTAACTGTGTTGGAGGCTGCGACTCTTCACCTGCAAGCCTTGATATGATAGCTGAGAGCATTGCT
CTCG
Found at i:49653242 original size:18 final size:18
Alignment explanation
Indices: 49653221--49653256 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49653211 TCGTTAACAG
49653221 TAAAGGGGTCAACGACGA
1 TAAAGGGGTCAACGACGA
*
49653239 TAAAGGGGTGAACGACGA
1 TAAAGGGGTCAACGACGA
49653257 CGACATTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.36, T:0.11
Consensus pattern (18 bp):
TAAAGGGGTCAACGACGA
Found at i:49653377 original size:17 final size:17
Alignment explanation
Indices: 49653347--49653385 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
49653337 TGAATTTTGG
*
49653347 TTTTTTTTTTTTTC-TC
1 TTTTTTTTTCTTTCTTC
49653363 TTTTTTCTTTCTTTCTTC
1 TTTTTT-TTTCTTTCTTC
49653381 TTTTT
1 TTTTT
49653386 GTTGGGGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 7 0.35
18 7 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTCTTTCTTC
Found at i:49653622 original size:10 final size:10
Alignment explanation
Indices: 49653604--49653637 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
49653594 TTAGTATTTA
*
49653604 AAATTAAAAT
1 AAATAAAAAT
49653614 AAATAAAAAT
1 AAATAAAAAT
49653624 AAATAAAAAT
1 AAATAAAAAT
49653634 AAAT
1 AAAT
49653638 GTGAGTTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:49669749 original size:12 final size:13
Alignment explanation
Indices: 49669732--49669762 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
49669722 GGTTTTCATA
49669732 AAATGAAAATG-G
1 AAATGAAAATGAG
49669744 AAATGAAAATGAG
1 AAATGAAAATGAG
49669757 AAATGA
1 AAATGA
49669763 TTTATTTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.23, T:0.16
Consensus pattern (13 bp):
AAATGAAAATGAG
Found at i:49670523 original size:104 final size:104
Alignment explanation
Indices: 49670414--49670627 Score: 392
Period size: 104 Copynumber: 2.1 Consensus size: 104
49670404 AAAAAGAAAA
49670414 GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCGAGTCCACAATCGAAGAAGTTCGTG
1 GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCGAGTCCACAATCGAAGAAGTTCGTG
*
49670479 GTACAAGAATAGAGTAGAAGATTTTTTGGGTGAAAGATG
66 GTACAAGAATAGAGTAGAAGATTGTTTGGGTGAAAGATG
*
49670518 GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCGAGTCCACACTCGAAGAAGTTCGTG
1 GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCGAGTCCACAATCGAAGAAGTTCGTG
* *
49670583 GTACAAGAATAGAGTAGAAGATTGTTTGGTTGAAAGCTG
66 GTACAAGAATAGAGTAGAAGATTGTTTGGGTGAAAGATG
49670622 GAAAAC
1 GAAAAC
49670628 ATCAATGATC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.34
Consensus pattern (104 bp):
GAAAACTTTTTCTAGTTCTATATTTTGATTCAATTGATTCGAGTCCACAATCGAAGAAGTTCGTG
GTACAAGAATAGAGTAGAAGATTGTTTGGGTGAAAGATG
Found at i:49673323 original size:23 final size:24
Alignment explanation
Indices: 49673284--49673330 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
49673274 CTCTTTCAAC
*
49673284 TTTCTTATTATTCTTTTATTATGT
1 TTTCTTATTATTATTTTATTATGT
49673308 TTTC-TATTATTATTTTATTATGT
1 TTTCTTATTATTATTTTATTATGT
49673331 AATATATATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.19, C:0.06, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTCTTATTATTATTTTATTATGT
Found at i:49680933 original size:20 final size:19
Alignment explanation
Indices: 49680908--49680955 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
49680898 ATGAGGCAAG
49680908 AAATGAAATATGAAATGATA
1 AAATGAAATATGAAATG-TA
* * * *
49680928 AAATGATATGTGAATTGTG
1 AAATGAAATATGAAATGTA
49680947 AAATGAAAT
1 AAATGAAAT
49680956 CAAGTATTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (19 bp):
AAATGAAATATGAAATGTA
Found at i:49698341 original size:17 final size:18
Alignment explanation
Indices: 49698305--49698342 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49698295 ACTTACTAAG
* *
49698305 TCTTTTGCATCATCTTTC
1 TCTTTTGCAACATATTTC
49698323 TCTTTTGCAAC-TATTTC
1 TCTTTTGCAACATATTTC
49698340 TCT
1 TCT
49698343 CACCATAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.13, C:0.26, G:0.05, T:0.55
Consensus pattern (18 bp):
TCTTTTGCAACATATTTC
Found at i:49700211 original size:21 final size:22
Alignment explanation
Indices: 49700179--49700219 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
49700169 CTTTTTCTTC
49700179 TTCTTTTACTTTTT-CTTTTGT
1 TTCTTTTACTTTTTCCTTTTGT
49700200 TTCTGTTT-CTTTTTCCTTTT
1 TTCT-TTTACTTTTTCCTTTT
49700220 CTTTTACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.02, C:0.17, G:0.05, T:0.76
Consensus pattern (22 bp):
TTCTTTTACTTTTTCCTTTTGT
Found at i:49706432 original size:19 final size:18
Alignment explanation
Indices: 49706380--49706432 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
49706370 TCCCGCGAAG
* *
49706380 CTGCGAGCTCACTTGAAA
1 CTGCGAGCTCACCTAAAA
49706398 CTGCGAGCTCACCTAAAA
1 CTGCGAGCTCACCTAAAA
*
49706416 CTGCGAGTTCAACCTAA
1 CTGCGAGCTC-ACCTAA
49706433 TTGCGAGCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
18 25 0.81
19 6 0.19
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (18 bp):
CTGCGAGCTCACCTAAAA
Found at i:49711375 original size:12 final size:12
Alignment explanation
Indices: 49711344--49711385 Score: 61
Period size: 11 Copynumber: 3.7 Consensus size: 12
49711334 ATAAAGCCTT
*
49711344 TCTCTAATTTCC
1 TCTCAAATTTCC
49711356 TCTC-AATTTCC
1 TCTCAAATTTCC
49711367 TCTCAAATTT-C
1 TCTCAAATTTCC
49711378 TCTCAAAT
1 TCTCAAAT
49711386 CCCTATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (12 bp):
TCTCAAATTTCC
Found at i:49713301 original size:18 final size:18
Alignment explanation
Indices: 49713278--49713315 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49713268 TGCTAGGTGC
* *
49713278 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
49713296 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
49713314 GT
1 GT
49713316 TTCCATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:49717108 original size:126 final size:126
Alignment explanation
Indices: 49716876--49717166 Score: 438
Period size: 126 Copynumber: 2.3 Consensus size: 126
49716866 CAGGCCATGC
* * * *
49716876 GCCACTTTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGCACTTCTACTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTTCAACACTTCTACTGACAAAGCATCCT
* * * * *
49716941 GCTTAAAGCGTTTTTGATACTGTTTTCTCAGAAACGTCTACTCAAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTCGACACTGTTTGCTCAGAAACATCTACTCAAAATTATTTTCTCAGGA
* * * **
49717002 GCTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAATACTTCTGTTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTTCAACACTTCTACTGACAAAGCATCCT
* *
49717067 GCTTAAAGCGTTTTCGACACTGTTTGCTCAGAAACATCTACTTAAATTTATTTTCTCAGGA
66 GCTTAAAGCGTTTTCGACACTGTTTGCTCAGAAACATCTACTCAAAATTATTTTCTCAGGA
49717128 GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTT
49717167 AAATTAACAA
Statistics
Matches: 147, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 147 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (126 bp):
GCCACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTCTTTCAACACTTCTACTGACAAAGCATCCT
GCTTAAAGCGTTTTCGACACTGTTTGCTCAGAAACATCTACTCAAAATTATTTTCTCAGGA
Found at i:49717471 original size:95 final size:95
Alignment explanation
Indices: 49717365--49717542 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 95
49717355 TAATAAAAAA
* ** * * *
49717365 AACCCTAAACCCTAATATATTTAATTTTTCCTT-AAAAACCCTTAACTCGAAATCCTAATCTAAT
1 AACCCTAAACCCTAATATAGTTAATTTTTCCTTAAAAAACAATAAACACGAAA-ACTAATCTAAT
* *
49717429 TTTTAAATTTTTTTAATTATATTACTTAAGT
65 TTTGAAAATTTTTTAATTATATTACTTAAGT
* * *
49717460 AACCCTAAACCCTAATTTAGTTAATTTTTTCTTAAAAAATAATAAACACGAAAACTAATCTAATT
1 AACCCTAAACCCTAATATAGTTAATTTTTCCTTAAAAAACAATAAACACGAAAACTAATCTAATT
49717525 TTGAAAATTTTTTAATTA
66 TTGAAAATTTTTTAATTA
49717543 ATTTAATTGG
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
95 57 0.80
96 14 0.20
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.41
Consensus pattern (95 bp):
AACCCTAAACCCTAATATAGTTAATTTTTCCTTAAAAAACAATAAACACGAAAACTAATCTAATT
TTGAAAATTTTTTAATTATATTACTTAAGT
Found at i:49717560 original size:95 final size:95
Alignment explanation
Indices: 49717365--49717570 Score: 238
Period size: 95 Copynumber: 2.2 Consensus size: 95
49717355 TAATAAAAAA
* ** * * *
49717365 AACCCTAAACCCTAATATATTTAATTTTTCCTTAAAAACCCTTAACTCGAAATCCTAATCTAATT
1 AACCCTAAACCCTAATATAGTTAATTTTTCCTTAAAAACAATAAACACGAAATACTAATCTAATT
* * * *
49717430 TTTAAATTTTTTTAATTATATTACTTAAGT
66 TTGAAAATTTTTTAATTATATTAATTAAGC
* * *
49717460 AACCCTAAACCCTAATTTAGTTAATTTTTTCTTAAAAAATAATAAACACGAAA-ACTAATCTAAT
1 AACCCTAAACCCTAATATAGTTAATTTTTCCTT-AAAAACAATAAACACGAAATACTAATCTAAT
*
49717524 TTTGAAAATTTTTTAATTA-ATTTAATT-GGC
65 TTTGAAAATTTTTTAATTATA-TTAATTAAGC
49717554 AGACCCTAAACCCTAAT
1 A-ACCCTAAACCCTAAT
49717571 CTCTTATTTA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
94 3 0.03
95 77 0.82
96 14 0.15
ACGTcount: A:0.40, C:0.17, G:0.04, T:0.39
Consensus pattern (95 bp):
AACCCTAAACCCTAATATAGTTAATTTTTCCTTAAAAACAATAAACACGAAATACTAATCTAATT
TTGAAAATTTTTTAATTATATTAATTAAGC
Found at i:49724088 original size:22 final size:22
Alignment explanation
Indices: 49724060--49724106 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
49724050 CTAAAAAGGA
49724060 TGGGAATAGATATTCCAAATTG
1 TGGGAATAGATATTCCAAATTG
49724082 TGGGAATAGATATTCCAAATTG
1 TGGGAATAGATATTCCAAATTG
49724104 TGG
1 TGG
49724107 CAACCCTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.32
Consensus pattern (22 bp):
TGGGAATAGATATTCCAAATTG
Found at i:49726071 original size:17 final size:16
Alignment explanation
Indices: 49726045--49726091 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
49726035 TGAAAATATA
49726045 AAAAATAATAAAAGAA-
1 AAAAA-AATAAAAGAAC
49726061 ATAATAAAATAACAAGAAC
1 A-AA-AAAATAA-AAGAAC
49726080 AAAAAAATAAAA
1 AAAAAAATAAAA
49726092 ATAAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.11
17 14 0.52
18 9 0.33
19 1 0.04
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (16 bp):
AAAAAAATAAAAGAAC
Found at i:49726095 original size:28 final size:29
Alignment explanation
Indices: 49726054--49726109 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
49726044 AAAAAATAAT
*
49726054 AAAAGAAATAATAAAATAACAAGAACAAA
1 AAAAGAAATAATAAAATAACAACAACAAA
* *
49726083 AAAATAAA-AATAAAATAATAACAACAA
1 AAAAGAAATAATAAAATAACAACAACAA
49726110 TAATGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.77, C:0.07, G:0.04, T:0.12
Consensus pattern (29 bp):
AAAAGAAATAATAAAATAACAACAACAAA
Found at i:49727946 original size:88 final size:87
Alignment explanation
Indices: 49727832--49728293 Score: 289
Period size: 96 Copynumber: 5.1 Consensus size: 87
49727822 ATAGGATTTA
* * * *
49727832 GTTTCAATCTACTCCACTGGAACTTTAGGGAGATAAGATTTGTTGTTTCAATCTATTCCACTGCA
1 GTTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTT-ATTCAACCTACTCCACTGCA
* * *
49727897 ACTTCAGGGAGATAATATTTTTT
65 ACTTCAAGAAGATAAGATTTTTT
* * *
49727920 GTTTCAATCTGCTCCTCTGCAGCTTTAGGGAGATAAGATTTGTTATTCAACCTACTCCACTGCAA
1 GTTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTTATTCAACCTACTCCACTGCAA
49727985 CTTCAAGAAGATAAGATTTGTAACTT
66 CTTCAAGAAGATAAGATTT-T---TT
* *** * * * * * *
49728011 GTAGCTTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTACAATCTGCTCCAC
1 GT---TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTTAT-T-CAACCTACTCCAC
*
49728076 TACAACTTCATAG-AGATAAGATTTGTAACTT
61 TGCAACTTCA-AGAAGATAAGATTT-T---TT
* * ** * * * *
49728107 GTAGCTTTAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTACTCCAC
1 GT---TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG-T-TATTCAACCTACTCCAC
* ***
49728172 TGCAACTTCATGAAGATAAGATTTGAA
61 TGCAACTTCAAGAAGATAAGATTTTTT
* * * * * * * * *
49728199 GCTTCAATCTGCTCAATTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCTACTGC
1 GTTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG-T-TATTCAACCTACTCCACTGC
* * * *
49728264 AACATT-AGGGAGATAAGATTTGTG
64 AAC-TTCAAGAAGATAAGATTTTTT
49728288 GTTTCA
1 GTTTCA
49728294 CTAATCTGTT
Statistics
Matches: 311, Mismatches: 49, Indels: 27
0.80 0.13 0.07
Matches are distributed among these distances:
87 34 0.11
88 41 0.13
89 75 0.24
90 2 0.01
91 4 0.01
92 1 0.00
94 35 0.11
95 2 0.01
96 112 0.36
97 3 0.01
98 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (87 bp):
GTTTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTTATTCAACCTACTCCACTGCAA
CTTCAAGAAGATAAGATTTTTT
Found at i:49728051 original size:51 final size:51
Alignment explanation
Indices: 49727975--49728149 Score: 177
Period size: 51 Copynumber: 3.5 Consensus size: 51
49727965 TTCAACCTAC
*
49727975 TCCACTGCAACTTCA-AGAAGATAAGATTTGTAACTTGTAGCTTTAATCCGT
1 TCCACTGCAACTTCAGAGAA-ATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * * *
49728026 TCCACTGCAACTTCAGGGAAATAAGATTCG---CTATCTA-C---AATCTGC
1 TCCACTGCAACTTCAGAGAAATAAGATTTGTAACT-TGTAGCTTTAATCTGT
* * * *
49728071 TCCACTACAACTTCATAGAGATAAGATTTGTAACTTGTAGCTTTAATTTGT
1 TCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
* *
49728122 TCCACTGCAACTTTAGGGAAATAAGATT
1 TCCACTGCAACTTCAGAGAAATAAGATT
49728150 CGCTATCTTC
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
45 30 0.31
47 3 0.03
48 6 0.06
49 3 0.03
51 52 0.54
52 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (51 bp):
TCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
Found at i:49728095 original size:45 final size:45
Alignment explanation
Indices: 49727834--49728285 Score: 349
Period size: 44 Copynumber: 9.9 Consensus size: 45
49727824 AGGATTTAGT
* * * * *
49727834 TTCAATCTACTCCACTGGAACTTTAGGGAGATAAGATTTGTTGT-
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
** * ** *
49727878 TTCAATCTATTCCACTGCAACTTCAGGGAGATAATATTTTTTGT-
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * *
49727922 TTCAATCTGCTCCTCTGCAGCTTTAGGGAGATAAGATTTG-T-TA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * * *
49727965 TTCAACCTACTCCACTGCAACTTCAAGAAGATAAGATTTGTAACTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATC
* * * * *
49728016 TTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * ** *
49728061 TACAATCTGCTCCACTACAACTTCATAGAGATAAGATTTGTAACTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG---C---TATC
* * * * * *
49728112 TTTAATTTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* * * * *
49728157 TTCAATCTACTCCACTGCAACTTCATGAAGATAAGATTTG-AAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
* *
49728201 TTCAATCTGCTCAATTGCAACTTCAGGGAGATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
*
49728246 TTCAATCTGCTCTACTGCAACATT-AGGGAGATAAGATTTG
1 TTCAATCTGCTCCACTGCAAC-TTCAGGGAGATAAGATTTG
49728286 TGGTTTCACT
Statistics
Matches: 319, Mismatches: 72, Indels: 33
0.75 0.17 0.08
Matches are distributed among these distances:
42 1 0.00
43 34 0.11
44 109 0.34
45 105 0.33
46 2 0.01
48 3 0.01
50 1 0.00
51 64 0.20
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (45 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
Found at i:49728098 original size:96 final size:97
Alignment explanation
Indices: 49727925--49728266 Score: 402
Period size: 96 Copynumber: 3.6 Consensus size: 97
49727915 TTTTTGTTTC
* * * * * * * * *
49727925 AATCTGCTCCTCTGCAGCTTTAGGGAGATAAGATTTG-T-TATTCAACCTACTCCACTGCAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTT
49727988 CA-AGAAGATAAGATTTGTAACTTGTAGCTTT
66 CATAGAAGATAAGATTTGTAACTTGTAGCTTT
* * *
49728019 AATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTACAATCTGCTCCACTACAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTT
49728084 CATAG-AGATAAGATTTGTAACTTGTAGCTTT
66 CATAGAAGATAAGATTTGTAACTTGTAGCTTT
* * *
49728115 AATTTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAATCTACTCCACTGCAACTT
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTT
*
49728180 CAT-GAAGATAAGATTTG--A-----AGCTTC
66 CATAGAAGATAAGATTTGTAACTTGTAGCTTT
* * * * * *
49728204 AATCTGCTCAATTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCTACTGCAAC
1 AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAAC
49728267 ATTAGGGAGA
Statistics
Matches: 216, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
89 59 0.27
94 31 0.14
95 2 0.01
96 122 0.56
97 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (97 bp):
AATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACTT
CATAGAAGATAAGATTTGTAACTTGTAGCTTT
Found at i:49742654 original size:14 final size:13
Alignment explanation
Indices: 49742631--49742661 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
49742621 CAATCATAAA
49742631 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
49742644 TTTTGTTTTGTTTT
1 TTTT-TTTTGTTTT
49742658 TTTT
1 TTTT
49742662 CGATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:49745182 original size:15 final size:15
Alignment explanation
Indices: 49745128--49745180 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
49745118 TTATAATAAC
* *
49745128 AATAAAAGTAATAAT
1 AATAAAAATAAAAAT
* *
49745143 AATAACTACTAAAAAT
1 AATAA-AAATAAAAAT
49745159 AATAAAAATAAAAA-
1 AATAAAAATAAAAAT
49745173 AATAAAAA
1 AATAAAAA
49745181 ATGAGGGGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 8 0.25
15 12 0.38
16 12 0.38
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.21
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:49752601 original size:29 final size:28
Alignment explanation
Indices: 49752496--49752596 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 28
49752486 AAAAATAAAA
49752496 ATTTACCAAAATATTACAACTATTTTTTT
1 ATTTACCAAAATATTACAACT-TTTTTTT
49752525 ATTTACCAAAATATTACAACTTTTCTTTT
1 ATTTACCAAAATATTACAACTTTT-TTTT
49752554 ATTTACCAAAATATTTA-AACTTTTTTATT
1 ATTTACCAAAATA-TTACAACTTTTTT-TT
49752583 ATTTACCAAAATAT
1 ATTTACCAAAATAT
49752597 ATAAAAAAAC
Statistics
Matches: 69, Mismatches: 0, Indels: 7
0.91 0.00 0.09
Matches are distributed among these distances:
28 6 0.09
29 60 0.87
30 3 0.04
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:49752733 original size:27 final size:27
Alignment explanation
Indices: 49752665--49752733 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
49752655 CGCCAATGGT
*
49752665 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAAAACC
*
49752692 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAAAACC
49752719 ATTGGCGGCACCAAT
1 ATTGGCGGCACCAAT
49752734 TGGTTTTATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAACC
Found at i:49752792 original size:23 final size:23
Alignment explanation
Indices: 49752766--49752894 Score: 68
Period size: 26 Copynumber: 5.3 Consensus size: 23
49752756 TGGGGCAGAA
49752766 GAGAAAAAAGGAAAGAAAGAAAG
1 GAGAAAAAAGGAAAGAAAGAAAG
*
49752789 GAGAGGGAAGAAAGAAAAGGAAAGGAGAA-
1 GAGA---AA-AAAGGAAA-GAAA-GA-AAG
49752818 GAGAAAAAAGGAAAGAAAG-AAG
1 GAGAAAAAAGGAAAGAAAGAAAG
* *
49752840 AAGAAAAGGAGAAGAGAAGAAA-AAAG
1 GAGAAAA--A-AGGA-AAGAAAGAAAG
* * *
49752866 AAAGAAAGAAGGAAAGAAAAAAAG
1 -GAGAAAAAAGGAAAGAAAGAAAG
49752890 G-GAAA
1 GAGAAA
49752895 GGAGAAGAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 31
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.02
22 10 0.12
23 11 0.13
24 12 0.14
25 11 0.13
26 13 0.15
27 13 0.15
28 4 0.05
29 6 0.07
30 2 0.02
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (23 bp):
GAGAAAAAAGGAAAGAAAGAAAG
Found at i:49752799 original size:18 final size:19
Alignment explanation
Indices: 49752772--49752902 Score: 90
Period size: 20 Copynumber: 6.6 Consensus size: 19
49752762 AGAAGAGAAA
49752772 AAAGGA-AAGAAAGAAAGG
1 AAAGGAGAAGAAAGAAAGG
*
49752790 AGAGG-GAAGAAAGAAAAGG
1 AAAGGAGAAGAAAG-AAAGG
*
49752809 AAAGGAGAAGAGAAAAAAGG
1 AAAGGAGAAGA-AAGAAAGG
*
49752829 AAAGAAAGAAG-AAGAAAAGG
1 AAAG-GAGAAGAAAG-AAAGG
*
49752849 AGAAGAGAAGAAAAAAGAAA-G
1 A-AAG-G-AGAAGAAAGAAAGG
* *
49752870 AAAGAAGGAAAGAAAAAAAGGG
1 AAAGGA-G-AAGAAAGAAA-GG
49752892 AAAGGAGAAGA
1 AAAGGAGAAGA
49752903 GAAAAAAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
18 12 0.13
19 12 0.13
20 35 0.39
21 14 0.16
22 13 0.15
23 3 0.03
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (19 bp):
AAAGGAGAAGAAAGAAAGG
Found at i:49752844 original size:22 final size:21
Alignment explanation
Indices: 49752778--49752924 Score: 100
Period size: 19 Copynumber: 7.2 Consensus size: 21
49752768 GAAAAAAGGA
* *
49752778 AAGAAAGAAAGGAGAG-GGAAG
1 AAGAAA-AAAGGAAAGAAGAAG
* *
49752799 AA-AGAAAAGGAAAGGAGAAG
1 AAGAAAAAAGGAAAGAAGAAG
49752819 -AGAAAAAAGGAAAG-A-AAG
1 AAGAAAAAAGGAAAGAAGAAG
49752837 AAGAAGAAAAGG--AGAAG-AG
1 AAGAA-AAAAGGAAAGAAGAAG
49752856 AAGAAAAAA-GAAAGAAAGAAGG
1 AAGAAAAAAGGAAAG-AAGAA-G
*
49752878 AAAGAAAAAAAGGGAAAGGAGAAG
1 -AAG-AAAAAA-GGAAAGAAGAAG
*
49752902 -AGAAAAAA-AAAAGAAGAAG
1 AAGAAAAAAGGAAAGAAGAAG
49752921 AAGA
1 AAGA
49752925 GGGAAGAAAG
Statistics
Matches: 103, Mismatches: 7, Indels: 33
0.72 0.05 0.23
Matches are distributed among these distances:
17 1 0.01
18 9 0.09
19 33 0.32
20 29 0.28
21 9 0.09
22 3 0.03
23 3 0.03
24 7 0.07
25 4 0.04
26 5 0.05
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (21 bp):
AAGAAAAAAGGAAAGAAGAAG
Found at i:49752863 original size:37 final size:37
Alignment explanation
Indices: 49752767--49752885 Score: 124
Period size: 37 Copynumber: 3.2 Consensus size: 37
49752757 GGGGCAGAAG
*
49752767 AGAA-AAAAGGA-AAGA-AAGAAAGGAGAGGGAAGAAAGA
1 AGAAGAAAAGGAGAAGAGAAGAAA--A-AGGAAAGAAAGA
*
49752804 A-AAGGAAAGGAGAAGAG-A-AAAAAGGAAAGAAAGA
1 AGAAGAAAAGGAGAAGAGAAGAAAAAGGAAAGAAAGA
*
49752838 AGAAGAAAAGGAGAAGAGAAGAAAAAAGAAAGAAAGA
1 AGAAGAAAAGGAGAAGAGAAGAAAAAGGAAAGAAAGA
49752875 AGGAAAGAAAA
1 A-G-AAGAAAA
49752886 AAAGGGAAAG
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
34 12 0.17
35 16 0.23
36 3 0.04
37 26 0.37
38 6 0.09
39 7 0.10
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (37 bp):
AGAAGAAAAGGAGAAGAGAAGAAAAAGGAAAGAAAGA
Found at i:49752908 original size:23 final size:21
Alignment explanation
Indices: 49752781--49752925 Score: 86
Period size: 22 Copynumber: 6.8 Consensus size: 21
49752771 AAAAGGAAAG
*
49752781 AAAGAAAGGAGAGGGAAGAAAGAA
1 AAAGAAAGGAGA-AG-AGAAA-AA
*
49752805 AAGGAAAGGAGAAGAG-AAAA
1 AAAGAAAGGAGAAGAGAAAAA
* *
49752825 AAGGAAA-GA-AAGAAGAAGAA
1 AAAGAAAGGAGAAG-AGAAAAA
*
49752845 AAGGAGAA-GAGAAGA-AAAAA
1 AAAGA-AAGGAGAAGAGAAAAA
*
49752865 GAAAGAAAGAAGGAA-AGAAAAA
1 -AAAGAAAGGA-GAAGAGAAAAA
*
49752887 AAGGGAAAGGAGAAGAGAAAAA
1 AA-AGAAAGGAGAAGAGAAAAA
* *
49752909 AAAAAGAAGAAGAAGAG
1 AAAGA-AAGGAGAAGAG
49752926 GGAAGAAAGG
Statistics
Matches: 99, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
18 3 0.03
19 4 0.04
20 23 0.23
21 19 0.19
22 38 0.38
23 1 0.01
24 11 0.11
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (21 bp):
AAAGAAAGGAGAAGAGAAAAA
Found at i:49752920 original size:62 final size:67
Alignment explanation
Indices: 49752796--49752922 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 67
49752786 AAGGAGAGGG
** *
49752796 AAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAA
1 AAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAAAAAAAGAGAAGAA
49752861 AA
66 AA
*
49752863 AAGAAAG-AAA-G-AAGGA-AAGA-AAAAAAGGGAAAG-GAGAAG-AGAAAAAAAAAAGAAGAAG
1 AAGAAAGAAAAGGAAAGGAGAAGAGAAAAAA-GGAAAGAAAGAAGAAGAAAAAAAAAAG-AGAAG
49752921 AA
64 AA
49752923 GAGGGAAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
61 10 0.19
62 18 0.33
63 10 0.19
64 5 0.09
65 1 0.02
66 3 0.06
67 7 0.13
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (67 bp):
AAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGGAAAGAAAGAAGAAGAAAAAAAAAAGAGAAGAA
AA
Found at i:49752928 original size:36 final size:32
Alignment explanation
Indices: 49752879--49752943 Score: 76
Period size: 36 Copynumber: 1.9 Consensus size: 32
49752869 GAAAGAAGGA
49752879 AAGAAAAAAAGGGAAAGGAGAAGAGAAAAAAAAAAG
1 AAGAAAAAAAGGG-AA-GA-AAG-GAAAAAAAAAAG
* *
49752915 AAGAAGAAGAGGGAAGAAAGGAAAAAAAA
1 AAGAAAAAAAGGGAAGAAAGGAAAAAAAA
49752944 GGGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 9 0.33
33 3 0.11
34 2 0.07
35 2 0.07
36 11 0.41
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (32 bp):
AAGAAAAAAAGGGAAGAAAGGAAAAAAAAAAG
Found at i:49752935 original size:45 final size:43
Alignment explanation
Indices: 49752762--49752939 Score: 125
Period size: 45 Copynumber: 4.0 Consensus size: 43
49752752 GTGGTGGGGC
* *
49752762 AGAAGAGAAAAAAGGAAAGAAAGAAAGGAGAGGGAAGAAAGAAAAGG
1 AGAAGAGAAAAAA-AAAAGAAAG-AA-GA-AAGGAAGAAAGAAAAGG
* *
49752809 A-AAGGAGAAGAGAAAAAAG-GA-AAGAAA-GAAG-AAGAAAAGG
1 AGAA-GAGAA-AAAAAAAAGAAAGAAGAAAGGAAGAAAGAAAAGG
* * *
49752849 AGAAGAGAAGAAAAAAGAAAGAAAGAAGGAAAGAAAAAAAGGGAAAGG
1 AGAAGAG-A-AAAAAA-AAAGAAAGAA-GAAAGGAAGAAA-GAAAAGG
49752897 AGAAGAGAAAAAAAAAAG-AAGAAGAAGAGGGAAGAAAGGAAAA
1 AGAAGAGAAAAAAAAAAGAAAGAAGAA-A-GGAAGAAA-GAAAA
49752940 AAAAGGGAAA
Statistics
Matches: 105, Mismatches: 12, Indels: 30
0.71 0.08 0.20
Matches are distributed among these distances:
40 13 0.12
41 11 0.10
42 6 0.06
43 6 0.06
44 10 0.10
45 19 0.18
46 11 0.10
47 13 0.12
48 16 0.15
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (43 bp):
AGAAGAGAAAAAAAAAAGAAAGAAGAAAGGAAGAAAGAAAAGG
Found at i:49753059 original size:18 final size:18
Alignment explanation
Indices: 49753036--49753098 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
49753026 GTTATTTTAT
49753036 TATTTTATTTAGCATATA
1 TATTTTATTTAGCATATA
***
49753054 TATTTTATAGTTATTTTAT-
1 TATTTTAT--TTAGCATATA
49753073 TATTTTATTTAGCATATA
1 TATTTTATTTAGCATATA
49753091 TATTTTAT
1 TATTTTAT
49753099 GAAATATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 6 0.17
18 16 0.44
19 8 0.22
20 6 0.17
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTTTATTTAGCATATA
Found at i:49753093 original size:37 final size:37
Alignment explanation
Indices: 49753021--49753098 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
49753011 GTAATGTACA
49753021 TTATAGTTATTTTATTATTTTATTTAGCATATATATT
1 TTATAGTTATTTTATTATTTTATTTAGCATATATATT
49753058 TTATAGTTATTTTATTATTTTATTTAGCATATATATT
1 TTATAGTTATTTTATTATTTTATTTAGCATATATATT
49753095 TTAT
1 TTAT
49753099 GAAATATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (37 bp):
TTATAGTTATTTTATTATTTTATTTAGCATATATATT
Found at i:49753630 original size:11 final size:11
Alignment explanation
Indices: 49753616--49753652 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
49753606 TTCGGGTTAT
49753616 TTACCAAAATA
1 TTACCAAAATA
*
49753627 TTACAAAAAATA
1 TTAC-CAAAATA
49753639 TTACCAAAATA
1 TTACCAAAATA
49753650 TTA
1 TTA
49753653 TAAAGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.30
Consensus pattern (11 bp):
TTACCAAAATA
Found at i:49755404 original size:26 final size:26
Alignment explanation
Indices: 49755326--49755395 Score: 140
Period size: 26 Copynumber: 2.7 Consensus size: 26
49755316 TGGTATTTCC
49755326 ATATGTTACTCACATGTTTCTATTCT
1 ATATGTTACTCACATGTTTCTATTCT
49755352 ATATGTTACTCACATGTTTCTATTCT
1 ATATGTTACTCACATGTTTCTATTCT
49755378 ATATGTTACTCACATGTT
1 ATATGTTACTCACATGTT
49755396 ATCGGTCTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.24, C:0.19, G:0.09, T:0.49
Consensus pattern (26 bp):
ATATGTTACTCACATGTTTCTATTCT
Found at i:49759318 original size:15 final size:12
Alignment explanation
Indices: 49759281--49759311 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
49759271 AAAAAAATTT
*
49759281 ATACTCAAAATA
1 ATACACAAAATA
49759293 ATACACAAAATA
1 ATACACAAAATA
49759305 ATACACA
1 ATACACA
49759312 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (12 bp):
ATACACAAAATA
Found at i:49759563 original size:3 final size:3
Alignment explanation
Indices: 49759555--49759628 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
49759545 TCTTCATACT
49759555 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
49759603 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
49759629 TAATAATAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:49759633 original size:3 final size:3
Alignment explanation
Indices: 49759627--49759676 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
49759617 CAACAACAAC
*
49759627 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ACT AACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
49759673 AAT A
1 AAT A
49759677 CTTTTATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49759746 original size:19 final size:21
Alignment explanation
Indices: 49759722--49759760 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
49759712 ACTACAACAA
*
49759722 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAATAATATAC
49759741 AAAATAATAACAATAATATA
1 AAAATAATAACAATAATATA
49759761 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAATAACAATAATATAC
Found at i:49759944 original size:27 final size:27
Alignment explanation
Indices: 49759908--49760006 Score: 153
Period size: 27 Copynumber: 3.7 Consensus size: 27
49759898 TATTAATAAT
*
49759908 ACCAGTGGTGCCGCCAATGGTATTGGC
1 ACCATTGGTGCCGCCAATGGTATTGGC
* *
49759935 ACAATTGGTGCCGCCAATGGTATTCGC
1 ACCATTGGTGCCGCCAATGGTATTGGC
*
49759962 ACCATTGGTGCCGCCAATGGTTTTGGC
1 ACCATTGGTGCCGCCAATGGTATTGGC
*
49759989 ACCTTTGGTGCCGCCAAT
1 ACCATTGGTGCCGCCAAT
49760007 ACCATTGTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.26
Consensus pattern (27 bp):
ACCATTGGTGCCGCCAATGGTATTGGC
Found at i:49760134 original size:28 final size:28
Alignment explanation
Indices: 49760075--49760174 Score: 166
Period size: 29 Copynumber: 3.5 Consensus size: 28
49760065 TTTTTTTTAT
49760075 ATATTTTGGTAAATAATAAAAAAGTT-TAA
1 ATATTTTGGTAAATAA-AAAAAAGTTGT-A
49760104 ATATTTTGGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
49760132 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAAT-AAAAAAAAGTTGTA
49760161 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
49760175 TTTTATTTTT
Statistics
Matches: 69, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
28 24 0.35
29 45 0.65
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:49771064 original size:22 final size:21
Alignment explanation
Indices: 49771039--49771080 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49771029 TCAGAGATGA
*
49771039 TATTTTTAAGGATTTTAAATTC
1 TATTTTTAA-GAATTTAAATTC
*
49771061 TATTTTTTAGAATTTAAATT
1 TATTTTTAAGAATTTAAATT
49771081 ATTGTGTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (21 bp):
TATTTTTAAGAATTTAAATTC
Found at i:49773845 original size:6 final size:6
Alignment explanation
Indices: 49773834--49773858 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49773824 ACAAGGATAA
49773834 CCAAAT CCAAAT CCAAAT CCAAAT C
1 CCAAAT CCAAAT CCAAAT CCAAAT C
49773859 GCATGAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (6 bp):
CCAAAT
Found at i:49774951 original size:22 final size:23
Alignment explanation
Indices: 49774912--49774954 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
49774902 AGTTTTCTAA
*
49774912 ATAATATTTTAATTTTAATTATC
1 ATAATATTTTAATGTTAATTATC
*
49774935 ATAAT-TTTTTATGTTAATTA
1 ATAATATTTTAATGTTAATTA
49774955 ATTAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
ATAATATTTTAATGTTAATTATC
Found at i:49776546 original size:2 final size:2
Alignment explanation
Indices: 49776539--49776568 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49776529 AATATTGTAA
49776539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49776569 TTCTAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49784079 original size:15 final size:15
Alignment explanation
Indices: 49784061--49784094 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49784051 AAAAAATTGT
49784061 TTTATTTACTATTTA
1 TTTATTTACTATTTA
* *
49784076 TTTATTTATTATTTC
1 TTTATTTACTATTTA
49784091 TTTA
1 TTTA
49784095 ATCTTTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTACTATTTA
Found at i:49787101 original size:27 final size:27
Alignment explanation
Indices: 49787055--49787106 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
49787045 AAATCCCAAA
* *
49787055 TTTTCTTCCTTTCCTTCCCTTTTTTCT
1 TTTTCTTCCTTTCCTCCCCTCTTTTCT
49787082 TTTTCTTTCCTTT-CTCCCCTCTTTT
1 TTTTC-TTCCTTTCCTCCCCTCTTTT
49787107 GGTTTGCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTCTTCCTTTCCTCCCCTCTTTTCT
Found at i:49787326 original size:5 final size:5
Alignment explanation
Indices: 49787318--49787368 Score: 57
Period size: 5 Copynumber: 9.6 Consensus size: 5
49787308 TTAAAATATA
* *
49787318 ATAAT ATAAT ATAAT ATAAT ATAATTT ACAAT ATAAT AAAAT AATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATAAT ATAAT -ATAAT
49787366 ATA
1 ATA
49787369 CTTTAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 31 0.79
6 4 0.10
7 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:49787338 original size:15 final size:15
Alignment explanation
Indices: 49787318--49787368 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 15
49787308 TTAAAATATA
49787318 ATAATATAATATAAT
1 ATAATATAATATAAT
*
49787333 ATAATATAATTTACAAT
1 ATAATATAA--TATAAT
*
49787350 ATAATAAAATAATAAT
1 ATAATATAAT-ATAAT
49787366 ATA
1 ATA
49787369 CTTTAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.33
16 7 0.23
17 13 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:49787360 original size:27 final size:28
Alignment explanation
Indices: 49787320--49787373 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
49787310 AAAATATAAT
*
49787320 AATATAATATAAT-ATAATATAATTTAC
1 AATATAATAAAATAATAATATAATTTAC
*
49787347 AATATAATAAAATAATAATATACTTTA
1 AATATAATAAAATAATAATATAATTTA
49787374 AAAAAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (28 bp):
AATATAATAAAATAATAATATAATTTAC
Found at i:49800819 original size:18 final size:19
Alignment explanation
Indices: 49800796--49800833 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
49800786 GGAAGCAGGC
*
49800796 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
49800814 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
49800833 A
1 A
49800834 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:49803575 original size:53 final size:53
Alignment explanation
Indices: 49803490--49803595 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
49803480 CTGTAATTGT
*
49803490 TGTAAAGCATCACTCCAAAAAAATAAATGTTTATTTCGCAACGCCCTTGCAAC
1 TGTAAAGCATCACTCCAAAAAAATAAAGGTTTATTTCGCAACGCCCTTGCAAC
49803543 TGTAAAGCATCACTCCAAAAAAATAAAGGTTTATTTCGCAACGCCCTTGCAAC
1 TGTAAAGCATCACTCCAAAAAAATAAAGGTTTATTTCGCAACGCCCTTGCAAC
49803596 AGTTGCAAGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (53 bp):
TGTAAAGCATCACTCCAAAAAAATAAAGGTTTATTTCGCAACGCCCTTGCAAC
Found at i:49805872 original size:38 final size:39
Alignment explanation
Indices: 49805830--49805903 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 39
49805820 CCAAATTCAT
*
49805830 ATTTA-ATCCTTTATGTAATTTTAT-ATATATTTTTAGTA
1 ATTTATAT-CTTTATGTAATTTTATAATAAATTTTTAGTA
* *
49805868 ATTTATATTTTTATGTCATTTTATAATAAATTTTTA
1 ATTTATATCTTTATGTAATTTTATAATAAATTTTTA
49805904 TATATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 19 0.61
39 12 0.39
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.59
Consensus pattern (39 bp):
ATTTATATCTTTATGTAATTTTATAATAAATTTTTAGTA
Found at i:49806302 original size:22 final size:22
Alignment explanation
Indices: 49806274--49806337 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
49806264 TTTATTGTTC
49806274 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
*
49806296 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTG
**
49806318 AGCCATGAGAGCTTAGTACG
1 AAACATGAGAGCTTAGTACG
49806338 GATGAGTGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:49806835 original size:29 final size:28
Alignment explanation
Indices: 49806802--49806862 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
49806792 AAAGCCCTTT
49806802 TTTTTTCAAAATTTACCGGAATGAGCCGA
1 TTTTTTCAAAATTTACCGGAATGAGCC-A
* ** *
49806831 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCGGAATGAGCCA
49806859 TTTT
1 TTTT
49806863 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCGGAATGAGCCA
Found at i:49810072 original size:32 final size:31
Alignment explanation
Indices: 49810011--49810106 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
49810001 GGCAAATTAC
*
49810011 AAGAGTAATTGAATCCTAATAAAACTCTTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
49810042 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
49810074 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
49810105 AA
1 AA
49810107 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:49814076 original size:13 final size:13
Alignment explanation
Indices: 49814058--49814083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49814048 ATGAATTAGG
49814058 CATACCTCTATCT
1 CATACCTCTATCT
49814071 CATACCTCTATCT
1 CATACCTCTATCT
49814084 TTGGAGTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (13 bp):
CATACCTCTATCT
Found at i:49816294 original size:32 final size:31
Alignment explanation
Indices: 49816233--49816328 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
49816223 GGTAAATTAC
*
49816233 AAGAGTAATTGAATCCTAATAAAACTCTTTT
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
49816264 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
49816296 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
49816327 AA
1 AA
49816329 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:49817347 original size:14 final size:13
Alignment explanation
Indices: 49817281--49817347 Score: 52
Period size: 14 Copynumber: 5.2 Consensus size: 13
49817271 TTTATTAATA
49817281 ATTTAT-TATATT
1 ATTTATATATATT
*
49817293 ATTCATCATATATT
1 ATTTAT-ATATATT
*
49817307 ACTATTTTATA-ATT
1 A-T-TTATATATATT
49817321 ATTTATAT-T-TT
1 ATTTATATATATT
49817332 ATTTACTATATATT
1 ATTTA-TATATATT
49817346 AT
1 AT
49817348 GAATATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
11 7 0.16
12 13 0.30
13 2 0.05
14 15 0.35
15 4 0.09
16 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATATATATT
Found at i:49818218 original size:52 final size:52
Alignment explanation
Indices: 49818140--49818244 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
49818130 GGGTTTTAAG
49818140 GTTTAGGGTGCAAGCTTTTTTAGGGTTTAGGGGTACCGAAAAAAATTATTTC
1 GTTTAGGGTGCAAGCTTTTTTAGGGTTTAGGGGTACCGAAAAAAATTATTTC
* *
49818192 GTTTAGGGTGCAGGCTTTTTTAGGGTTTAGGGGTCCCGAAAAAAATTATTTC
1 GTTTAGGGTGCAAGCTTTTTTAGGGTTTAGGGGTACCGAAAAAAATTATTTC
49818244 G
1 G
49818245 AGTTGACGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.25, C:0.10, G:0.29, T:0.36
Consensus pattern (52 bp):
GTTTAGGGTGCAAGCTTTTTTAGGGTTTAGGGGTACCGAAAAAAATTATTTC
Found at i:49818478 original size:126 final size:125
Alignment explanation
Indices: 49818247--49818529 Score: 437
Period size: 126 Copynumber: 2.3 Consensus size: 125
49818237 TTATTTCGAG
**
49818247 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTGATACCAGGATGCTATTAGAGAAGAAATTGT
* *
49818311 GAAATCGTGCCCTCGTGGACGCCATTTCAGCACAGTTGGTCATGTAAGAAATAATTTTTTT
65 GAAATCGCGCCCTCGTGGACGCCATTTCAGCACAGTTGGTCATGTAAGAAATAATTATTTT
49818372 TTGACGTTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTA-TATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATTA-GAGAAGAAATTG
* *
49818436 TGAAATCGCGCCCTCGTGGACGCGATTTC-GCTACAGTTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCCATTTCAGC-ACAGTTGGTCATGTAAGAAATAATTATTTT
* *
49818498 TTGACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
49818530 GCCCTCGTGG
Statistics
Matches: 146, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
125 34 0.23
126 111 0.76
127 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTGATACCAGGATGCTATTAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCCATTTCAGCACAGTTGGTCATGTAAGAAATAATTATTTT
Found at i:49821987 original size:29 final size:29
Alignment explanation
Indices: 49821948--49822005 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
49821938 CAGAAAATAT
49821948 TAAAAATTTTAAAATTAT-TTTAAAAAAA
1 TAAAAATTTTAAAATTATCTTTAAAAAAA
*
49821976 TAAAAATATTTAAAATTTTCTTTAAAAAAA
1 TAAAAAT-TTTAAAATTATCTTTAAAAAAA
49822006 ATGAAATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 7 0.26
29 10 0.37
30 10 0.37
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTTAAAAAAA
Found at i:49822116 original size:52 final size:51
Alignment explanation
Indices: 49822038--49822143 Score: 149
Period size: 52 Copynumber: 2.1 Consensus size: 51
49822028 ATTTAATATG
* * * *
49822038 GAGTTTAGAGATTTTTTGAAGGAAATTGTGAGGATTTTGGAAGGAATTCGA
1 GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
* *
49822089 GAGTTTAAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGACTTTGA
1 GAGTTT-AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
49822141 GAG
1 GAG
49822144 AATTTTTGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 6 0.12
52 42 0.88
ACGTcount: A:0.34, C:0.02, G:0.32, T:0.32
Consensus pattern (51 bp):
GAGTTTAGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAATTCGA
Found at i:49822123 original size:22 final size:22
Alignment explanation
Indices: 49822096--49822164 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
49822086 CGAGAGTTTA
49822096 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
**
49822118 AGAGAATTTTGGAAGGACTTTG
1 AGAGAATTTTGGAAGGAAATTG
* *
49822140 AGAGAATTTTTGAATGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
49822162 AGA
1 AGA
49822165 TAGGATTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.39, C:0.01, G:0.29, T:0.30
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:49822495 original size:29 final size:28
Alignment explanation
Indices: 49822437--49822498 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
49822427 GATTTCGGGG
49822437 AAAACGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAA-TAAA
* * * *
49822466 AAACCGGCCTATTTCGGTAAATTAAAAAA
1 AAAACGGCCCATTCCGGTAAA-TAATAAA
49822495 AAAA
1 AAAA
49822499 AGGGCTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (28 bp):
AAAACGGCCCATTCCGGTAAATAATAAA
Found at i:49825147 original size:2 final size:2
Alignment explanation
Indices: 49825142--49825175 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
49825132 ATATATACAT
49825142 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
49825176 TATATATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:49826646 original size:24 final size:24
Alignment explanation
Indices: 49826614--49826667 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
49826604 TATTCAATAA
49826614 GATAATTTTTATAGTTTAATTGGT
1 GATAATTTTTATAGTTTAATTGGT
49826638 GATAATTTTTATAGTTTAATTGGT
1 GATAATTTTTATAGTTTAATTGGT
49826662 GA-AATT
1 GATAATT
49826668 AAGTTTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
GATAATTTTTATAGTTTAATTGGT
Found at i:49838648 original size:21 final size:19
Alignment explanation
Indices: 49838617--49838664 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
49838607 TAAGTCTAAG
* *
49838617 AAAATAAAAATAAAACAACT
1 AAAAAAAAAATAAAA-AAAT
49838637 AAAAGAAAAAATAAAAAAAT
1 AAAA-AAAAAATAAAAAAAT
49838657 AAAAAAAA
1 AAAAAAAA
49838665 TCAATAGTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.83, C:0.04, G:0.02, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAATAAAAAAAT
Found at i:49838670 original size:21 final size:21
Alignment explanation
Indices: 49838622--49838664 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49838612 CTAAGAAAAT
*
49838622 AAAAATAAAACAACTAAAAGA
1 AAAAATAAAACAAATAAAAGA
49838643 AAAAATAAAA-AAATAAAA-A
1 AAAAATAAAACAAATAAAAGA
49838662 AAA
1 AAA
49838665 TCAATAGTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 7 0.33
21 10 0.48
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (21 bp):
AAAAATAAAACAAATAAAAGA
Found at i:49840354 original size:44 final size:45
Alignment explanation
Indices: 49840269--49840382 Score: 108
Period size: 44 Copynumber: 2.5 Consensus size: 45
49840259 AAATCGGAAA
* ** * *
49840269 AATAAAAATAAGAATGCAAATAATAATCATAAAAAAACTAAAGAT
1 AATAATAATAAGAATATAAATAAAAATCATAAAAAAACTAAACAT
* *
49840314 AA-AATAATAAGAATATAAATAAAAATCA-ATAATAAGCTAAACAT
1 AATAATAATAAGAATATAAATAAAAATCATA-AAAAAACTAAACAT
*
49840358 AATAATAAAAATG-ATAATAAATAAA
1 AATAATAATAA-GAAT-ATAAATAAA
49840383 GAAGTAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.02
44 35 0.61
45 11 0.19
46 10 0.18
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (45 bp):
AATAATAATAAGAATATAAATAAAAATCATAAAAAAACTAAACAT
Found at i:49840662 original size:17 final size:17
Alignment explanation
Indices: 49840640--49840674 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49840630 GTTTTGTGGA
*
49840640 GGGAAGAAAATAGAAAG
1 GGGAAGAAAAGAGAAAG
*
49840657 GGGAAGAAGAGAGAAAG
1 GGGAAGAAAAGAGAAAG
49840674 G
1 G
49840675 ATGAGGACGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.43, T:0.03
Consensus pattern (17 bp):
GGGAAGAAAAGAGAAAG
Found at i:49850908 original size:30 final size:30
Alignment explanation
Indices: 49850867--49851191 Score: 407
Period size: 30 Copynumber: 10.8 Consensus size: 30
49850857 ATGTATACAT
*
49850867 ATACAAATCAATTCGGTAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
49850897 ATACGAATCAATTCGGCAATGTATATCCAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
49850927 ATACAAATAAATTCGGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
49850957 ATACAAATCAATTAGGTAATGTGTATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
49850987 ATACAAATCAATTCAGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
49851017 ATACAAATAAATTCGACAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * *
49851047 ATACGAATAAATTCAGCAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* * **
49851077 ATACGAATCAATTCGGTAATGTATATTTAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
49851107 ATACAAATCAATTCGGCAATGTATATCTAT
1 ATACAAATCAATTCGGCAATGTATATCCAA
* *
49851137 ATACAAATCAATTTGACAATGTATATCCAA
1 ATACAAATCAATTCGGCAATGTATATCCAA
**
49851167 ATATGAATCAATTCGGCAATGTATA
1 ATACAAATCAATTCGGCAATGTATA
49851192 AAACATATAC
Statistics
Matches: 252, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 252 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (30 bp):
ATACAAATCAATTCGGCAATGTATATCCAA
Found at i:49850969 original size:90 final size:90
Alignment explanation
Indices: 49850857--49851191 Score: 476
Period size: 90 Copynumber: 3.7 Consensus size: 90
49850847 ATCAATATAT
*
49850857 ATGTATA-C-ATATACAAATCAATTCGGTAATGTATATCCAAATACGAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
*
49850920 TATCCATATACAAATAAATTCGGCA
66 TATCTATATACAAATAAATTCGGCA
* * * * *
49850945 ATGTATATCTATATACAAATCAATTAGGTAATGTGTATCCAAATACAAATCAATTCAGCAATGTA
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
*
49851010 TATCTATATACAAATAAATTCGACA
66 TATCTATATACAAATAAATTCGGCA
* * * * * *
49851035 ATGTATATCCAAATACGAATAAATTCAGCAATGTATATCCAAATACGAATCAATTCGGTAATGTA
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
* * *
49851100 TATTTAAATACAAATCAATTCGGCA
66 TATCTATATACAAATAAATTCGGCA
* * *
49851125 ATGTATATCTATATACAAATCAATTTGACAATGTATATCCAAATATGAATCAATTCGGCAATGTA
1 ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
49851190 TA
66 TA
49851192 AAACATATAC
Statistics
Matches: 215, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 7 0.03
89 1 0.00
90 207 0.96
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.31
Consensus pattern (90 bp):
ATGTATATCTATATACAAATCAATTCGGCAATGTATATCCAAATACGAATCAATTCGGCAATGTA
TATCTATATACAAATAAATTCGGCA
Found at i:49854214 original size:20 final size:20
Alignment explanation
Indices: 49854147--49854214 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
49854137 TTTTTTAGCT
*
49854147 TTTTTAAAAA-TATTTCTAA
1 TTTTTAAAAATTATTTTTAA
* *
49854166 TTTTTTTTAAATATTAATTTTGAA
1 ---TTTTTAAAAATT-ATTTTTAA
*
49854190 ATTTTAAAAATTATTTTTAA
1 TTTTTAAAAATTATTTTTAA
49854210 TTTTT
1 TTTTT
49854215 CTGAGAGAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 11 0.30
21 10 0.27
22 9 0.24
23 1 0.03
24 6 0.16
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTTAA
Found at i:49869187 original size:3 final size:3
Alignment explanation
Indices: 49869181--49869290 Score: 125
Period size: 3 Copynumber: 37.0 Consensus size: 3
49869171 CTTCTCTTAC
* * * * * *
49869181 TAT TAT TTT TAT CAT TACT CAT -AT TAT TAT T-T TAT TTT TAC TAC
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
49869225 TAC TAC 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
49869273 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
49869291 CATCATCATC
Statistics
Matches: 95, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
2 4 0.04
3 89 0.94
4 2 0.02
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:49869194 original size:24 final size:24
Alignment explanation
Indices: 49869165--49869213 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
49869155 CTAATCATTA
*
49869165 TTATCACTT-CTCTTACTATTATTT
1 TTATCA-TTACTCATACTATTATTT
*
49869189 TTATCATTACTCATATTATTATTT
1 TTATCATTACTCATACTATTATTT
49869213 T
1 T
49869214 ATTTTTACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATCATTACTCATACTATTATTT
Found at i:49873891 original size:44 final size:44
Alignment explanation
Indices: 49873822--49873909 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
49873812 AAGGCCCAAT
* * *
49873822 CGGCCCAAAACAGTTCCTAGTCCAACATTACAAAATTAAACAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
* * * *
49873866 CGGCCCAAAACGGTCCCTGGCCCAACACTACAAAGTTAAGCAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
49873910 AAAACCCTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.15
Consensus pattern (44 bp):
CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
Found at i:49874843 original size:3 final size:3
Alignment explanation
Indices: 49874837--49874873 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
49874827 TTTTTATATG
49874837 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
49874874 AGGAATTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:49879664 original size:52 final size:51
Alignment explanation
Indices: 49879579--49879752 Score: 172
Period size: 52 Copynumber: 3.3 Consensus size: 51
49879569 TGGATACATG
*
49879579 ACACCCC-AATTTTTTTAAT-TGATAAAGGGGGTGTCAACCATTAGTGTTCCA
1 ACACCCCAAATTTTTTTAATCTGA-AAA-AGGGTGTCAACCATTAGTGTTCCA
** *** * *
49879630 GTACCCCAAATTTTTTTAATCTGGAAAAAGGGTGTCGGTCATTAATGTCCCA
1 ACACCCCAAATTTTTTTAATCT-GAAAAAGGGTGTCAACCATTAGTGTTCCA
* * * *
49879682 ACACCCAAAATTTTTTTAATCTTAAAAAGGGGTGCCAACCATCAGTGTTCCA
1 ACACCCCAAATTTTTTTAATCTGAAAAA-GGGTGTCAACCATTAGTGTTCCA
49879734 ACACCCCAAAAATTTTTTT
1 ACACCCC--AAATTTTTTT
49879753 GTCTATAAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
51 10 0.10
52 71 0.73
53 4 0.04
54 12 0.12
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (51 bp):
ACACCCCAAATTTTTTTAATCTGAAAAAGGGTGTCAACCATTAGTGTTCCA
Found at i:49879797 original size:104 final size:104
Alignment explanation
Indices: 49879586--49879803 Score: 244
Period size: 104 Copynumber: 2.1 Consensus size: 104
49879576 ATGACACCCC
* * * **
49879586 AATTTTTTTAATTGATAAAGGGGGTGTCAACCATTAGTGTTCCAGTACCCCAAATTTTTTTAATC
1 AATTTTTTTAATTGATAAAAGGGGTGCCAACCATCAGTGTTCCAACACCCCAAATTTTTTTAATC
* *
49879651 TGGAAAAAGGGTGTCGGTCATTAATGTCCCAACACCCAA
66 TAGAAAAAAGGTGTCGGTCATTAATGTCCCAACACCCAA
*
49879690 AATTTTTTTAATCTTA-AAAAGGGGTGCCAACCATCAGTGTTCCAACACCCCAAAAATTTTTTT-
1 AATTTTTTTAAT-TGATAAAAGGGGTGCCAACCATCAGTGTTCCAACACCCC--AAATTTTTTTA
* * * * * *
49879753 GTCTATAAAAAAGGTGTTGG-CTATTAGTGTCTCAACACCTAA
63 ATCTAGAAAAAAGGTGTCGGTC-ATTAATGTCCCAACACCCAA
*
49879795 ATTTTTTTT
1 AATTTTTTT
49879804 TTATTTTGGA
Statistics
Matches: 95, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
104 43 0.45
105 42 0.44
106 10 0.11
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (104 bp):
AATTTTTTTAATTGATAAAAGGGGTGCCAACCATCAGTGTTCCAACACCCCAAATTTTTTTAATC
TAGAAAAAAGGTGTCGGTCATTAATGTCCCAACACCCAA
Found at i:49888746 original size:6 final size:7
Alignment explanation
Indices: 49888728--49888755 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
49888718 AATTGCTTCC
49888728 ATTTTTT
1 ATTTTTT
49888735 ATTTTTT
1 ATTTTTT
49888742 ATTTTTT
1 ATTTTTT
49888749 ATTTTTT
1 ATTTTTT
49888756 TGCTTTGGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
ATTTTTT
Found at i:49889543 original size:17 final size:17
Alignment explanation
Indices: 49889523--49889555 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
49889513 AAATTTATAA
*
49889523 ATAAAATATTCAAAAAT
1 ATAAAACATTCAAAAAT
49889540 ATAAAACATTCAAAAA
1 ATAAAACATTCAAAAA
49889556 AAATTAATCA
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:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAACATTCAAAAAT
Found at i:49889782 original size:26 final size:26
Alignment explanation
Indices: 49889746--49889797 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
49889736 AGATAAACTG
49889746 TGTAAAACAACATTGTCCCCTCATCT
1 TGTAAAACAACATTGTCCCCTCATCT
49889772 TGTAAAACAACATTGTCCCCTCATCT
1 TGTAAAACAACATTGTCCCCTCATCT
49889798 CCTTTCCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (26 bp):
TGTAAAACAACATTGTCCCCTCATCT
Found at i:49891432 original size:29 final size:28
Alignment explanation
Indices: 49891390--49891445 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
49891380 TACCTAATAC
*
49891390 CTTGTTCAATAATTCAGGAGGGTTGGCCA
1 CTTGGTCAATAATTCAGGA-GGTTGGCCA
* *
49891419 CTTGGTCATTAATTGAGGAGGTTGGCC
1 CTTGGTCAATAATTCAGGAGGTTGGCC
49891446 GTGTGGTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.32
Consensus pattern (28 bp):
CTTGGTCAATAATTCAGGAGGTTGGCCA
Found at i:49894519 original size:21 final size:22
Alignment explanation
Indices: 49894495--49894550 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
49894485 ATATTTAATA
49894495 AATTTTAAATTTT-CCTAAATC
1 AATTTTAAATTTTACCTAAATC
*
49894516 AATTTTAAATTTTTACCTAAATG
1 AATTTTAAA-TTTTACCTAAATC
49894539 AAGTTTTAAATT
1 AA-TTTTAAATT
49894551 AAATGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 9 0.29
22 4 0.13
23 11 0.35
24 7 0.23
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (22 bp):
AATTTTAAATTTTACCTAAATC
Found at i:49897027 original size:26 final size:26
Alignment explanation
Indices: 49896978--49897027 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
49896968 CTACACTGAT
* *
49896978 CAGAGTTTAAGTGGAAAACTAAAAAA
1 CAGAGTTTAACTGGAAAACGAAAAAA
49897004 CAGAGTTTAACTAGGAAAA-GAAAA
1 CAGAGTTTAACT-GGAAAACGAAAA
49897028 GCTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.54, C:0.08, G:0.20, T:0.18
Consensus pattern (26 bp):
CAGAGTTTAACTGGAAAACGAAAAAA
Found at i:49898353 original size:14 final size:11
Alignment explanation
Indices: 49898320--49898345 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49898310 TATATATTTT
49898320 AAAATAATATA
1 AAAATAATATA
49898331 AAAATAATATA
1 AAAATAATATA
49898342 AAAA
1 AAAA
49898346 ATTTAATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATATA
Found at i:49899400 original size:30 final size:30
Alignment explanation
Indices: 49899364--49899421 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
49899354 CACAGGCAGG
*
49899364 CACATGGGCGTGTGGCCAGCCCGTGTGGCT
1 CACATGGGCGTGTGCCCAGCCCGTGTGGCT
*
49899394 CACATGGGCGTGTGCCCAGGCCGTGTGG
1 CACATGGGCGTGTGCCCAGCCCGTGTGG
49899422 AAATGCCCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.10, C:0.29, G:0.41, T:0.19
Consensus pattern (30 bp):
CACATGGGCGTGTGCCCAGCCCGTGTGGCT
Found at i:49900522 original size:34 final size:35
Alignment explanation
Indices: 49900478--49900544 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
49900468 CAGTAAAATG
*
49900478 TTTTCCGTAAAATGAATT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
* *
49900512 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
49900545 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:49900523 original size:20 final size:20
Alignment explanation
Indices: 49900494--49900532 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49900484 GTAAAATGAA
*
49900494 TTCTGGAAAATGTTTTACTT
1 TTCTGGAAAATGATTTACTT
*
49900514 TTCTGTAAAATGATTTACT
1 TTCTGGAAAATGATTTACT
49900533 GGAAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (20 bp):
TTCTGGAAAATGATTTACTT
Found at i:49902484 original size:36 final size:36
Alignment explanation
Indices: 49902437--49902508 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
49902427 TCAATTGTAA
49902437 CAAAAGTAGTAATTGAGGAAAAAAAACTTATCCATT
1 CAAAAGTAGTAATTGAGGAAAAAAAACTTATCCATT
49902473 CAAAAGTAGTAATTGAGGAAAAAAAACTTATCCATT
1 CAAAAGTAGTAATTGAGGAAAAAAAACTTATCCATT
49902509 TGCTCATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (36 bp):
CAAAAGTAGTAATTGAGGAAAAAAAACTTATCCATT
Found at i:49904127 original size:3 final size:3
Alignment explanation
Indices: 49904121--49904193 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
49904111 TCTTGATGAA
49904121 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
*
49904169 TTT TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
49904194 GTGTGTGAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:49904719 original size:46 final size:45
Alignment explanation
Indices: 49904669--49904759 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
49904659 AAAGCCTTAG
*
49904669 TGGCAAATTTTTCTAGG-AAGCCTTTATGGCGAGTTACCTGAAAATC
1 TGGCAAATTATT-T-GGAAAGCCTTTATGGCGAGTTACCTGAAAATC
*
49904715 TGGCATATTATTTGGAAAGCCTTTATGGCGAGTTACCTGAAAATC
1 TGGCAAATTATTTGGAAAGCCTTTATGGCGAGTTACCTGAAAATC
49904760 CTATATGGCG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
44 2 0.05
45 30 0.71
46 10 0.24
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (45 bp):
TGGCAAATTATTTGGAAAGCCTTTATGGCGAGTTACCTGAAAATC
Found at i:49904842 original size:25 final size:26
Alignment explanation
Indices: 49904730--49904919 Score: 81
Period size: 25 Copynumber: 7.5 Consensus size: 26
49904720 TATTATTTGG
* *
49904730 AAAGCCTTTATGGCG-AGTTACCTGA
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * * **
49904755 AAATCCTATATGGCGTA-TTATTTGA
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * * *
49904780 AAATCCT-TAGTGGCGAATTTATCTGG
1 AAAGCCTAT-GTGGCGAAGTTACCTGA
* *
49904806 AAAGCATTTGTGGC-AAGTTACCTGA
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * ** *
49904831 AAAGCCTATGTGGTGTA-TTATTTGG
1 AAAGCCTATGTGGCGAAGTTACCTGA
* * * *
49904856 GAAGCCT-TAGTGGTGAATTTATCT-A
1 AAAGCCTAT-GTGGCGAAGTTACCTGA
* *
49904881 GAAAGCCTTTGTGGC-AAGTTACCTAA
1 -AAAGCCTATGTGGCGAAGTTACCTGA
49904907 AAAGCCTATGTGG
1 AAAGCCTATGTGG
49904920 TGTATTATTT
Statistics
Matches: 126, Mismatches: 29, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
24 2 0.02
25 88 0.70
26 34 0.27
27 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (26 bp):
AAAGCCTATGTGGCGAAGTTACCTGA
Found at i:49904936 original size:25 final size:26
Alignment explanation
Indices: 49904831--49904938 Score: 71
Period size: 25 Copynumber: 4.3 Consensus size: 26
49904821 AGTTACCTGA
* * *
49904831 AAAGCCTATGTGGTGTA-TTATTTGG
1 AAAGCCTATGTGGTGAAGTTATCTAG
* *
49904856 GAAGCCT-TAGTGGTGAATTTATCTAG
1 AAAGCCTAT-GTGGTGAAGTTATCTAG
* * * *
49904882 AAAGCCTTTGTGG-CAAGTTACCTAA
1 AAAGCCTATGTGGTGAAGTTATCTAG
* *
49904907 AAAGCCTATGTGGTGTA-TTATTTAG
1 AAAGCCTATGTGGTGAAGTTATCTAG
*
49904932 GAAGCCT
1 AAAGCCT
49904939 TAATGGCGAA
Statistics
Matches: 63, Mismatches: 16, Indels: 8
0.72 0.18 0.09
Matches are distributed among these distances:
24 1 0.02
25 44 0.70
26 17 0.27
27 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (26 bp):
AAAGCCTATGTGGTGAAGTTATCTAG
Found at i:49905064 original size:76 final size:75
Alignment explanation
Indices: 49904722--49905042 Score: 410
Period size: 76 Copynumber: 4.2 Consensus size: 75
49904712 ATCTGGCATA
* * * * * * ** *
49904722 TTATTTGGAAAGCCTTTATGGCGAGTTACCTGAAAATCCTATATGGCGTATTATTTGAAAATCCT
1 TTATCTGGAAAG-CTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCT
49904787 TAGTGGCGAAT
65 TAGTGGCGAAT
* *
49904798 TTATCTGGAAAGCATTTGTGGCAAGTTACCTGAAAAGCCTATGTGGTGTATTATTTGGGAAGCCT
1 TTATCTGGAAAGC-TTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCT
*
49904863 TAGTGGTGAAT
65 TAGTGGCGAAT
* * *
49904874 TTATCTAGAAAGCCTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGTGTATTATTTAGGAAGCCT
1 TTATCTGGAAAG-CTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCT
*
49904939 TAATGGCGAAT
65 TAGTGGCGAAT
* *
49904950 TTATCTGGCAAACCTTTGTGG-AGAGTTACCTAAAAAGCCAATGTGGCGTATTATTTGGGAAGCC
1 TTATCTGG-AAAGCTTTGTGGCA-AGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCC
* *
49905014 TTAGTGGCTAAG
64 TTAGTGGCGAAT
49905026 TTATCTGGAAAGCTTTG
1 TTATCTGGAAAGCTTTG
49905043 GTAGTAAGTC
Statistics
Matches: 217, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
75 10 0.05
76 203 0.94
77 4 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (75 bp):
TTATCTGGAAAGCTTTGTGGCAAGTTACCTAAAAAGCCTATGTGGCGTATTATTTGGGAAGCCTT
AGTGGCGAAT
Found at i:49905145 original size:24 final size:24
Alignment explanation
Indices: 49905094--49905146 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
49905084 TGTTTAAGTG
* *
49905094 GCGAGTTGTTAGTCTGCCTTTATG
1 GCGAGTTGTTAGTCCGCCTTTATA
* *
49905118 GCGAGTTGTTAGTCCGCTTTTGTA
1 GCGAGTTGTTAGTCCGCCTTTATA
49905142 GCGAG
1 GCGAG
49905147 ATCTAGGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.13, C:0.17, G:0.32, T:0.38
Consensus pattern (24 bp):
GCGAGTTGTTAGTCCGCCTTTATA
Found at i:49918784 original size:16 final size:17
Alignment explanation
Indices: 49918753--49918792 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
49918743 TAAATAACAT
*
49918753 ATTCAAAAATATAAAAC
1 ATTCAAAAATAAAAAAC
49918770 ATTCAAAAA-AAAAAAC
1 ATTCAAAAATAAAAAAC
*
49918786 AATCAAA
1 ATTCAAA
49918793 TTAAGTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.17
Consensus pattern (17 bp):
ATTCAAAAATAAAAAAC
Found at i:49920304 original size:19 final size:21
Alignment explanation
Indices: 49920260--49920303 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
49920250 AGATATGATT
49920260 AATTAAATAAAACTAATGTAAAA
1 AATTAAATAAAACTAA--TAAAA
49920283 AATTAAATAAAACTAA-AAAA
1 AATTAAATAAAACTAATAAAA
49920303 A
1 A
49920304 TAATCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
23 16 0.76
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (21 bp):
AATTAAATAAAACTAATAAAA
Found at i:49921500 original size:13 final size:14
Alignment explanation
Indices: 49921475--49921503 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
49921465 AAATTCAACC
49921475 TAATTTATTTATAT
1 TAATTTATTTATAT
49921489 TAATTT-TTTATAT
1 TAATTTATTTATAT
49921502 TA
1 TA
49921504 TCTTATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATTTATTTATAT
Found at i:49921536 original size:25 final size:23
Alignment explanation
Indices: 49921508--49921563 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
49921498 ATATTATCTT
49921508 ATATAAAAATAAATTTAAAAATATA
1 ATAT-AAAATAAA-TTAAAAATATA
*
49921533 ATATATAATAAATTAAAAATAT-
1 ATATAAAATAAATTAAAAATATA
49921555 AT-TAAAATA
1 ATATAAAATA
49921564 TGTTGTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 6 0.21
22 2 0.07
23 10 0.34
24 7 0.24
25 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (23 bp):
ATATAAAATAAATTAAAAATATA
Found at i:49926093 original size:2 final size:2
Alignment explanation
Indices: 49926086--49926114 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49926076 ATAAATCTTT
49926086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
49926115 CAATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49926444 original size:15 final size:15
Alignment explanation
Indices: 49926424--49926479 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
49926414 CTTGATAAAC
49926424 TGAAAAATTAAGTGT
1 TGAAAAATTAAGTGT
* *
49926439 TGAAAAAATAGGTGT
1 TGAAAAATTAAGTGT
*
49926454 T-AAAAATTGAAGTAT
1 TGAAAAATT-AAGTGT
*
49926469 TGAAAATTTAA
1 TGAAAAATTAA
49926480 ATACTGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 6 0.18
15 21 0.64
16 6 0.18
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (15 bp):
TGAAAAATTAAGTGT
Found at i:49932030 original size:9 final size:8
Alignment explanation
Indices: 49932018--49932069 Score: 54
Period size: 9 Copynumber: 6.5 Consensus size: 8
49932008 AAAAGTGGCA
49932018 AAAAATGAT
1 AAAAAT-AT
49932027 AAAAATAT
1 AAAAATAT
*
49932035 -AAATTAT
1 AAAAATAT
49932042 AATAAATAT
1 AA-AAATAT
*
49932051 AAATATA-
1 AAAAATAT
49932058 AAAAATAT
1 AAAAATAT
49932066 AAAA
1 AAAA
49932070 TTTTGTAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
7 12 0.33
8 11 0.31
9 13 0.36
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (8 bp):
AAAAATAT
Found at i:49932043 original size:15 final size:15
Alignment explanation
Indices: 49932020--49932068 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
49932010 AAGTGGCAAA
*
49932020 AAATGATAAAAATAT
1 AAATTATAAAAATAT
49932035 AAATTATAATAAATAT
1 AAATTATAA-AAATAT
49932051 AAA-TATAAAAAATAT
1 AAATTAT-AAAAATAT
49932066 AAA
1 AAA
49932069 ATTTTGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 20 0.65
16 11 0.35
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
AAATTATAAAAATAT
Found at i:49941626 original size:29 final size:29
Alignment explanation
Indices: 49941594--49941649 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
49941584 TATTTACCTT
49941594 ATGTTACACTTTAGTCACTTATGTTTTAA
1 ATGTTACACTTTAGTCACTTATGTTTTAA
**
49941623 ATGTTACGTTTTAGTCACTTATGTTTT
1 ATGTTACACTTTAGTCACTTATGTTTT
49941650 TATTTTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.52
Consensus pattern (29 bp):
ATGTTACACTTTAGTCACTTATGTTTTAA
Found at i:49947098 original size:2 final size:2
Alignment explanation
Indices: 49947091--49947138 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
49947081 TTCTAAGAAC
*
49947091 AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49947133 AT AT AT
1 AT AT AT
49947139 GTACTATAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49958038 original size:15 final size:15
Alignment explanation
Indices: 49958020--49958052 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
49958010 AAAAAAGCTG
49958020 AAAGCAAAATAAAAT
1 AAAGCAAAATAAAAT
*
49958035 AAAGTAAAATAAAAT
1 AAAGCAAAATAAAAT
49958050 AAA
1 AAA
49958053 AGCTAACCTC
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:0.76, C:0.03, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAGCAAAATAAAAT
Found at i:49961357 original size:49 final size:52
Alignment explanation
Indices: 49961303--49961401 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
49961293 AAAAAAACCA
* *
49961303 GTATTTT-TAAAAAAAAA-TTAGTT-CTGGCCATGTAATGGCTGGCACCAGT
1 GTATTTTACAAAAAAAAATTTAGTTGCTGGCCATGTAATGGCCGGCACCAGT
*
49961352 GTATTTTACAAAAAAAAATTTGGTTGCTGGCCATGTAATGGCCGGCACCA
1 GTATTTTACAAAAAAAAATTTAGTTGCTGGCCATGTAATGGCCGGCACCA
49961402 AGTACAATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 7 0.16
50 9 0.20
51 5 0.11
52 23 0.52
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (52 bp):
GTATTTTACAAAAAAAAATTTAGTTGCTGGCCATGTAATGGCCGGCACCAGT
Found at i:49961801 original size:11 final size:11
Alignment explanation
Indices: 49961787--49961827 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
49961777 TGTTTTCTTC
49961787 CTATTTTGCTA
1 CTATTTTGCTA
*
49961798 CTATTTTACTA
1 CTATTTTGCTA
* *
49961809 TTATGTTGCTA
1 CTATTTTGCTA
49961820 CTATTTTG
1 CTATTTTG
49961828 TTGTTGTTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:49962496 original size:105 final size:112
Alignment explanation
Indices: 49962235--49962610 Score: 322
Period size: 105 Copynumber: 3.3 Consensus size: 112
49962225 TGCATACCTC
* * * * *
49962235 TAGCCAGCACTAGTGTA-TTTAAAAAAAAATTTGGGTGCAGGCCATGTAATGGCCGGCACCAAGT
1 TAGCCGGCACCAGTGTATTTTTAAAAAAAATTTGGGTGCTGGCCATGTAATGGCCGGCACCAAGC
*
49962299 ACAATTTTCGGCTCCCAATGCATTTTTTTATTTTATTTTGGAACACTGA
66 ACAATTTTCAGCTCCCAATGCA--TTTTTATTTTATTTTGGAACACTGA
* ** * * * * *
49962348 TGGTTGGCACCAATATATATATATTTTAAAAAAATTTGGGTGCTGGCCAAGTAATGGTC-G-A-C
1 TAGCCGGCACC-A-GTGTAT-T-TTTAAAAAAAATTTGGGTGCTGGCCATGTAATGGCCGGCACC
*
49962410 -A-CACAATTTTCAGCTCCCAATGCA-TTTT-TTTTATTTTGGAACATTGA
62 AAGCACAATTTTCAGCTCCCAATGCATTTTTATTTTATTTTGGAACACTGA
* ** *
49962457 TAGCCGGCACCAGTGTATTTTTAAAAAAAATTTGGGTGCTGGGCATGTAATGGCCTACACCAAGT
1 TAGCCGGCACCAGTGTATTTTTAAAAAAAATTTGGGTGCTGGCCATGTAATGGCCGGCACCAAGC
* * ** * *
49962522 ATATTTTTTTGCCTCCCAATGCAATTTT-TTTTACTTTAGG-ACACTGA
66 ACAATTTTCAG-CTCCCAATGCATTTTTATTTTA-TTTTGGAACACTGA
* ** *
49962569 TGGTTGGCATCAGTGTATTTTTTTTAAAAAAAATTTGGGTGC
1 TAGCCGGCACCAGTGTA---TTTTTAAAAAAAATTTGGGTGC
49962611 CAGCCATTAC
Statistics
Matches: 211, Mismatches: 36, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
105 32 0.15
106 1 0.00
107 5 0.02
108 2 0.01
109 27 0.13
110 11 0.05
111 11 0.05
112 28 0.13
113 32 0.15
114 2 0.01
115 26 0.12
116 1 0.00
117 2 0.01
118 31 0.15
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (112 bp):
TAGCCGGCACCAGTGTATTTTTAAAAAAAATTTGGGTGCTGGCCATGTAATGGCCGGCACCAAGC
ACAATTTTCAGCTCCCAATGCATTTTTATTTTATTTTGGAACACTGA
Found at i:49962740 original size:22 final size:20
Alignment explanation
Indices: 49962712--49962751 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
49962702 CTAGCCATGT
49962712 AATGACCCAAAAATTTTTTTTA
1 AATGACCC--AAATTTTTTTTA
49962734 AATGACCCAAATTTTTTT
1 AATGACCCAAATTTTTTT
49962752 AAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (20 bp):
AATGACCCAAATTTTTTTTA
Found at i:49963002 original size:190 final size:188
Alignment explanation
Indices: 49962775--49963141 Score: 524
Period size: 190 Copynumber: 1.9 Consensus size: 188
49962765 TTGTGCCACC
* *
49962775 CCATCAGTGTTCCAAAATTAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCGGCCAT
1 CCATCAATGTTCCAAAATTAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCAT
*
49962840 TACATGGCCAGCACCCAAAATTTTTTCTTTTTAAAAATACACTAGTG-CTGGCTATCAGTGTTCC
66 TACATGGCCAGCA--CAAAATTTTTT-TTTTT-AAAATACACTAGTGTC-GGCCATCAGTGTTCC
* * *
49962904 AAAATAAGAAAAA-TGTATTAGGAGCCGAAAATTGTACTTGGTGCCGGCCATACTGGTGACGG
126 AAAATAAAAAAAATTGCATTAGGAGCCAAAAATTGTACTTGGTGCCGGCCATACTGGTGACGG
* *** *
49962966 CCATCAATGTTCCAAAA-TAAAAAAAATGCATTGGGAGTTGAAAATTATATTTGGTGCCAGCCAT
1 CCATCAATGTTCCAAAATTAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCAT
* * * *
49963030 TACATGGCCAGTACACAATTTTTTTTTTTTAAATACACTAGTGTCGGCCATTAGTGTTCCAAAAT
66 TACATGGCCAGCACAAAATTTTTTTTTTTAAAATACACTAGTGTCGGCCATCAGTGTTCCAAAAT
*
49963095 AAAAAAAATTGCATTGGGAGCCAAAAATTGTACTTGGTGCCGGCCAT
131 AAAAAAAATTGCATTAGGAGCCAAAAATTGTACTTGGTGCCGGCCAT
49963142 TACATGGCCA
Statistics
Matches: 158, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
186 38 0.24
187 41 0.26
188 10 0.06
190 53 0.34
191 16 0.10
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (188 bp):
CCATCAATGTTCCAAAATTAAAAAAAAGGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCCAT
TACATGGCCAGCACAAAATTTTTTTTTTTAAAATACACTAGTGTCGGCCATCAGTGTTCCAAAAT
AAAAAAAATTGCATTAGGAGCCAAAAATTGTACTTGGTGCCGGCCATACTGGTGACGG
Found at i:49963167 original size:112 final size:111
Alignment explanation
Indices: 49962963--49963168 Score: 297
Period size: 112 Copynumber: 1.8 Consensus size: 111
49962953 ATACTGGTGA
*** *
49962963 CGGCCATCAATGTTCCAAAATAAAAAAAATGCATTGGGAGTTGAAAATTATATTTGGTGCCAGCC
1 CGGCCATCAATGTTCCAAAATAAAAAAAATGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCC
* *
49963028 ATTACATGGCCAGTACACAATTTTTTTTTTTTAAATACACTAGTGT
66 ATTACATGGCCAGAACACAATTCTTTTTTTTTAAATACACTAGTGT
* * * *
49963074 CGGCCATTAGTGTTCCAAAATAAAAAAAATTGCATTGGGAGCCAAAAATTGTACTTGGTGCCGGC
1 CGGCCATCAATGTTCCAAAATAAAAAAAA-TGCATTGGGAGCCAAAAATTATACTTGGTGCCAGC
49963139 CATTACATGGCCAGAAC-CAAATTCTTTTTT
65 CATTACATGGCCAGAACAC-AATTCTTTTTT
49963169 AAATACTGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
111 28 0.34
112 55 0.66
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (111 bp):
CGGCCATCAATGTTCCAAAATAAAAAAAATGCATTGGGAGCCAAAAATTATACTTGGTGCCAGCC
ATTACATGGCCAGAACACAATTCTTTTTTTTTAAATACACTAGTGT
Done.