Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 73 of 175
Found at i:21774394 original size:104 final size:106
Alignment explanation
Indices: 21774173--21774403 Score: 296
Period size: 104 Copynumber: 2.2 Consensus size: 106
21774163 AATTTCTAAT
*
21774173 TACATAACTTACATAAATTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
1 TACATAACTTACATAAACTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
* * * *
21774238 AATAACTTACATAATACATAACCTTCCTAACTTACATTATT
66 AATAACTCACATAATACACAACCTTCATAACTTACATTATA
* ** * * *
21774279 TAGATAA--TACATAGCCTACATAACTTACATAACTTACATAACTTACATAACTTCCATAACTTA
1 TACATAACTTACATAAACTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
*
21774342 CATAACTCACATAATACACAA-CTTACATAACTTACA-TA-A
66 AATAACTCACATAATACACAACCTT-CATAACTTACATTATA
21774381 TACATAACTTACAT-AA-TACATAA
1 TACATAACTTACATAAACTACATAA
21774404 AAATATATCA
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
102 13 0.12
103 5 0.05
104 83 0.78
106 6 0.06
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (106 bp):
TACATAACTTACATAAACTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTA
AATAACTCACATAATACACAACCTTCATAACTTACATTATA
Found at i:21777229 original size:21 final size:21
Alignment explanation
Indices: 21777203--21777246 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
21777193 GGTACAAGCA
*
21777203 CATCGATATGTTCTGTTTCAC
1 CATCGATATGTTCTATTTCAC
21777224 CATCGATATGTTCTATTTCAC
1 CATCGATATGTTCTATTTCAC
21777245 CA
1 CA
21777247 CAAATCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (21 bp):
CATCGATATGTTCTATTTCAC
Found at i:21789535 original size:27 final size:26
Alignment explanation
Indices: 21789505--21789555 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
21789495 ATGAAATTCT
*
21789505 TACAAA-CAATATGATTGATTAACAATA
1 TACAAAGCAA-ATGA-TGAATAACAATA
21789532 TACAAAGCAAATGATGAATAACAA
1 TACAAAGCAAATGATGAATAACAA
21789556 ATTAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 10 0.45
28 3 0.14
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (26 bp):
TACAAAGCAAATGATGAATAACAATA
Found at i:21790056 original size:19 final size:19
Alignment explanation
Indices: 21790015--21790052 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
21790005 GAAATCATAC
21790015 TAATAATAAGCCTAAAAAA
1 TAATAATAAGCCTAAAAAA
*
21790034 TAATATTAAGCC-AAAAAA
1 TAATAATAAGCCTAAAAAA
21790052 T
1 T
21790053 TAATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.61, C:0.11, G:0.05, T:0.24
Consensus pattern (19 bp):
TAATAATAAGCCTAAAAAA
Found at i:21791791 original size:44 final size:44
Alignment explanation
Indices: 21791738--21791970 Score: 189
Period size: 44 Copynumber: 5.1 Consensus size: 44
21791728 CCTTTACTTT
* * *
21791738 AATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* *
21791782 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * * *** *
21791826 AATTTGATGCGATCTACTTTACAGTAACTTCAGAGAGATAAGA-TCCTTTATTTT
1 AA--T-CTGC--TCCACTGTA-A-T--C-TCAGGGAGATAAGATTAC-TGGCTTC
** *
21791880 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* *
21791924 AATCTGCTCTACTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
21791968 AAT
1 AAT
21791971 TTGATGCGAT
Statistics
Matches: 145, Mismatches: 32, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
44 98 0.68
45 3 0.02
46 1 0.01
47 4 0.03
48 1 0.01
49 13 0.09
50 1 0.01
51 2 0.01
52 1 0.01
53 3 0.02
54 18 0.12
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:21791944 original size:142 final size:142
Alignment explanation
Indices: 21791688--21792071 Score: 624
Period size: 142 Copynumber: 2.7 Consensus size: 142
21791678 AGATAAGACC
* * * *
21791688 TGATGTGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
* *
21791753 AATCTCAGAGAGATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
21791818 CTGGCTTCAATT
131 CTGGCTTCAATT
* * *
21791830 TGATGCGATCTACTTTACAGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
*
21791895 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
21791960 CTGGCTTCAATT
131 CTGGCTTCAATT
* * * * *
21791972 TGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAAAGCCTTTATTTTAATCTGCTCTACTGT
1 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
*
21792037 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTG
66 AATCTCAGGGAGATAGGATTACTGGCTTCAATCTG
21792072 ATGCGATCTA
Statistics
Matches: 223, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 223 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (142 bp):
TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTGGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAATT
Found at i:21791993 original size:98 final size:98
Alignment explanation
Indices: 21791920--21792169 Score: 302
Period size: 98 Copynumber: 2.6 Consensus size: 98
21791910 GGATTACTGG
* * *
21791920 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATTTGATGCGATCTAC
1 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATCTAC
* *
21791985 TCTGCTGTAACTTCAGAGAGATAAAAGCCTTTA
66 TCTGCTGTAACTTCAGAGAGATAAAAGACTTGA
* * *
21792018 TTTTAATCTGCTCTACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGATGCGATCTAC
1 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATCTAC
* * * * ** *
21792083 TCTACTATAACTTGAGAGAGATAAGATCCTTTA
66 TCTGCTGTAACTTCAGAGAGATAAAAGACTTGA
* * * * * * *
21792116 TTTTAATCCGCTCCACTGTAATATCAAGGAGATAGGATTACTAGCTTCAATCTG
1 CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
21792170 CTCCACTGTA
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
98 137 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (98 bp):
CTTCAATCTGCTCTACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGATGCGATCTAC
TCTGCTGTAACTTCAGAGAGATAAAAGACTTGA
Found at i:21792212 original size:44 final size:44
Alignment explanation
Indices: 21792120--21792215 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 44
21792110 CCTTTATTTT
* * *
21792120 AATCCGCTCCACTGTAATATCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATATCAAGGAGATAAGATTACTAGCTTA
* * * *
21792164 AATCTGCTCCACTGTAATCTCAGGGAGATAAGACTT-GTGGCTTA
1 AATCTGCTCCACTGTAATATCAAGGAGATAAGA-TTACTAGCTTA
21792208 AATCTGCT
1 AATCTGCT
21792216 TCCTTACACT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATATCAAGGAGATAAGATTACTAGCTTA
Found at i:21799452 original size:40 final size:40
Alignment explanation
Indices: 21799404--21799590 Score: 356
Period size: 40 Copynumber: 4.7 Consensus size: 40
21799394 GCAAACACAT
* *
21799404 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21799444 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21799484 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21799524 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21799564 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
21799591 ATCCAATGCT
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:21807842 original size:40 final size:40
Alignment explanation
Indices: 21807795--21808022 Score: 431
Period size: 40 Copynumber: 5.7 Consensus size: 40
21807785 GCAAACACAT
* *
21807795 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21807835 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21807875 TTGCCTTCGGGTC-TAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21807914 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21807954 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21807994 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
21808023 CAATGCTCAT
Statistics
Matches: 185, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
39 39 0.21
40 146 0.79
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:21807905 original size:79 final size:80
Alignment explanation
Indices: 21807795--21808022 Score: 431
Period size: 79 Copynumber: 2.9 Consensus size: 80
21807785 GCAAACACAT
* *
21807795 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
21807860 TATCAACTCGCATAA
66 TATCAACTCGCATAA
21807875 TTGCCTTCGGGTC-TAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
21807939 TATCAACTCGCATAA
66 TATCAACTCGCATAA
21807954 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
21808019 TATC
66 TATC
21808023 CAATGCTCAT
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
79 77 0.53
80 68 0.47
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (80 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAA
Found at i:21808006 original size:119 final size:120
Alignment explanation
Indices: 21807795--21808022 Score: 431
Period size: 119 Copynumber: 1.9 Consensus size: 120
21807785 GCAAACACAT
21807795 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
21807860 TATCAACTCGCATAATTGCCTTCGGGTC-TAGCCCGGATATATCAACTCGCATAA
66 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
21807914 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
21807979 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATC
66 TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATC
21808023 CAATGCTCAT
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
119 91 0.86
120 15 0.14
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (120 bp):
TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:21810095 original size:1 final size:1
Alignment explanation
Indices: 21810089--21810127 Score: 69
Period size: 1 Copynumber: 39.0 Consensus size: 1
21810079 TAGTGCAATT
*
21810089 AAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21810128 TAAAGAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:21828725 original size:40 final size:40
Alignment explanation
Indices: 21828688--21828913 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
21828678 GCTACTCGTT
* *
21828688 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
21828728 CAAATGCCTTCGGGACTTAACCCGGATTTCGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
21828768 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
21828808 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
21828848 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
21828889 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21828914 CATCATTCAA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21834360 original size:50 final size:50
Alignment explanation
Indices: 21834288--21834527 Score: 257
Period size: 50 Copynumber: 4.7 Consensus size: 50
21834278 TTTGTACTGT
* * **
21834288 CAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
* * *
21834338 CCATGCCATGTCCTAGACATGGTCTTACGA-GGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATATCGGTGC
* * * *
21834388 CAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
* * * *
21834438 CAATGCCATGTCTCAGACATAGTCTTAAATGGGACCTCTCATAATCTTAATGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATC-----GGTGC
**
21834494 CAATGCCATGTCCCAGGTATGGTCTTACATGGGA
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA
21834528 TCTTATTCCC
Statistics
Matches: 157, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 121 0.77
51 2 0.01
56 33 0.21
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGC
Found at i:21838542 original size:50 final size:50
Alignment explanation
Indices: 21838429--21838677 Score: 227
Period size: 50 Copynumber: 4.9 Consensus size: 50
21838419 GACATTGGGG
**
21838429 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC---ACCGA
* *
21838480 GGTTATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 -G--ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * *
21838533 GATGAGAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * * * *
21838583 TATGAGAGCTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-A
* * * ** * *
21838632 CAGGAAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21838678 TGTTATTATC
Statistics
Matches: 167, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 39 0.23
50 82 0.49
52 2 0.01
53 3 0.02
54 6 0.04
56 34 0.20
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:21839250 original size:28 final size:30
Alignment explanation
Indices: 21839217--21839291 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 30
21839207 GGTGATAACA
*
21839217 TATATATATATATATATTATTAATATTAT-T
1 TATATATATATATA-ATAATTAATATTATAT
* *
21839247 TATAAATAT-TATAATAATTTATATTATAT
1 TATATATATATATAATAATTAATATTATAT
*
21839276 TAT-TAT-GATATAATAA
1 TATATATATATATAATAA
21839292 AACATTATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
28 22 0.58
29 8 0.21
30 8 0.21
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (30 bp):
TATATATATATATAATAATTAATATTATAT
Found at i:21840599 original size:16 final size:16
Alignment explanation
Indices: 21840578--21840609 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21840568 GTTTTGTTGC
*
21840578 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
21840594 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
21840610 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:21840891 original size:51 final size:51
Alignment explanation
Indices: 21840833--21841027 Score: 252
Period size: 51 Copynumber: 3.8 Consensus size: 51
21840823 GATACCAGTT
* *
21840833 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTA
* *
21840884 CACATAGTAGCCTGCACATAGTACTACACACGTGATCA-AAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCCGGTA
* * ** *
21840935 CGCATAGTAGCCTGCACATAGTACTACACATGCAACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTA
* *
21840985 CACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
21841028 TTCAATTTCA
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.03
50 39 0.32
51 78 0.63
52 1 0.01
53 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTA
Found at i:21841014 original size:101 final size:102
Alignment explanation
Indices: 21840835--21841019 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
21840825 TACCAGTTCA
** *
21840835 CATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACATAGTAGCCTACA
21840900 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
* * *
21840937 CATAGTAGCCTGCACATAGTACTACACATGCAACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGCAACC-ATCACTATCCGATACACATAGTAGCCTAC
21841000 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
21841020 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACATAGTAGCCTACA
CATAGTACTACACACGTGATCAAAGCTATCCGGTACG
Found at i:21841042 original size:101 final size:102
Alignment explanation
Indices: 21840829--21841053 Score: 267
Period size: 101 Copynumber: 2.2 Consensus size: 102
21840819 TAATGATACC
**
21840829 AGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACATAGTAG
1 AGTTCACATAGTAGCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACATAGTAG
* * *
21840894 CCTGCACATAGTACTACACACGTGATCAAAGCTATCC
66 CCTACACATAGTACTACACACGTGACCAAAGCTATCA
* * * * * *
21840931 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCAACCTATCA-T-TCTGGTACACGTAGTA
1 AGTTCACATAGTAGCCTGCACATAGTACTACACATGCAACC-ATCACTATCCGATACACATAGTA
* *
21840994 GCCTACACATAGTACTACACACGTGACCATCA-CTTTCA
65 GCCTACACATAGTACTACACACGTGACCA-AAGCTATCA
* * *
21841032 ATTTCACATAGTGGCCTACACA
1 AGTTCACATAGTAGCCTGCACA
21841054 CAGTCCATGC
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
101 60 0.59
102 38 0.37
103 4 0.04
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (102 bp):
AGTTCACATAGTAGCCTGCACATAGTACTACACATGCAACCATCACTATCCGATACACATAGTAG
CCTACACATAGTACTACACACGTGACCAAAGCTATCA
Found at i:21857263 original size:27 final size:26
Alignment explanation
Indices: 21857233--21857301 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
21857223 GTTATGATCG
*
21857233 AAATATCCCCATAGGGTAGAATGACCA
1 AAATA-CCCCATAGGGTAAAATGACCA
**
21857260 AAATACCCCCATAGGGTAAAATGACTG
1 AAATA-CCCCATAGGGTAAAATGACCA
21857287 AAATACCCCTATAGG
1 AAATACCCC-ATAGG
21857302 AGATGAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.11
27 33 0.89
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (26 bp):
AAATACCCCATAGGGTAAAATGACCA
Found at i:21859457 original size:24 final size:25
Alignment explanation
Indices: 21859430--21859476 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
21859420 ACTGGTCATA
*
21859430 GAGAGAATTGAGGA-AGGATATTTG
1 GAGAGAATTGAGGAGAGAATATTTG
*
21859454 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAGAGAATATT
21859477 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (25 bp):
GAGAGAATTGAGGAGAGAATATTTG
Found at i:21870358 original size:30 final size:30
Alignment explanation
Indices: 21870310--21870381 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 30
21870300 ATGGGCATAT
** * *
21870310 GGAGCTGAATTAATGCATGAATATGTTTAA
1 GGAGCTGAATGGAGGCATGAATATATTTAA
* * *
21870340 GGAGCTGAATGGAGGCATGCATGTATTTAG
1 GGAGCTGAATGGAGGCATGAATATATTTAA
*
21870370 GGAGCTAAATGG
1 GGAGCTGAATGG
21870382 GGATGCTAGA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.28
Consensus pattern (30 bp):
GGAGCTGAATGGAGGCATGAATATATTTAA
Found at i:21876973 original size:15 final size:15
Alignment explanation
Indices: 21876961--21876990 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21876951 CGTATTTCTT
*
21876961 TCAAATTTTTTTCAC
1 TCAAAATTTTTTCAC
21876976 TCAAAATTTTTTCAC
1 TCAAAATTTTTTCAC
21876991 GAATGAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (15 bp):
TCAAAATTTTTTCAC
Found at i:21876988 original size:26 final size:26
Alignment explanation
Indices: 21876940--21876989 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
21876930 TTTGCTTGAT
**
21876940 TTTTTTTCACTCGTATTTCTTTCAAA
1 TTTTTTTCACTCAAATTTCTTTCAAA
21876966 TTTTTTTCACTCAAAATTT-TTTCA
1 TTTTTTTCACTC-AAATTTCTTTCA
21876990 CGAATGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 17 0.81
27 4 0.19
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.58
Consensus pattern (26 bp):
TTTTTTTCACTCAAATTTCTTTCAAA
Found at i:21877450 original size:21 final size:21
Alignment explanation
Indices: 21877424--21877466 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21877414 GCCACATGAA
**
21877424 GCCATAATGATGTTCACACAT
1 GCCATAAACATGTTCACACAT
21877445 GCCATAAACATGTTCACACAT
1 GCCATAAACATGTTCACACAT
21877466 G
1 G
21877467 GAATTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (21 bp):
GCCATAAACATGTTCACACAT
Found at i:21879031 original size:19 final size:19
Alignment explanation
Indices: 21879007--21879043 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21878997 GCAGATCATT
21879007 AAACAAAGATGCATTTAAA
1 AAACAAAGATGCATTTAAA
21879026 AAACAAAGATGCATTTAA
1 AAACAAAGATGCATTTAA
21879044 CAAATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.22
Consensus pattern (19 bp):
AAACAAAGATGCATTTAAA
Found at i:21883794 original size:21 final size:21
Alignment explanation
Indices: 21883770--21883842 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
21883760 AGGTGAATAG
*
21883770 CCTCATTGTGGAGGTAAACGT
1 CCTCATTGTGGAGGTAAACGA
* *** *
21883791 CCTCGTTGTGGTTCTAAGCGA
1 CCTCATTGTGGAGGTAAACGA
* * *
21883812 GCTCGTTGTGGAGGTGAACGA
1 CCTCATTGTGGAGGTAAACGA
21883833 CCTCATTGTG
1 CCTCATTGTG
21883843 CTCTCCCCTC
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.30
Consensus pattern (21 bp):
CCTCATTGTGGAGGTAAACGA
Found at i:21884400 original size:19 final size:18
Alignment explanation
Indices: 21884359--21884397 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
21884349 ACTTTTTTTA
* *
21884359 CAATTTTTTTTTCAACTT
1 CAATTTTTCTTTCAACCT
*
21884377 CAATTTTTCTTTCAGCCT
1 CAATTTTTCTTTCAACCT
21884395 CAA
1 CAA
21884398 ATTGTTGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.03, T:0.51
Consensus pattern (18 bp):
CAATTTTTCTTTCAACCT
Found at i:21887493 original size:24 final size:25
Alignment explanation
Indices: 21887466--21887513 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
21887456 ATTATACACT
*
21887466 ACACACACATA-CAATTTAATTAAA
1 ACACACAAATACCAATTTAATTAAA
*
21887490 ACACATAAATACTCAATTTAATTA
1 ACACACAAATAC-CAATTTAATTA
21887514 CACGAACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
26 11 0.55
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (25 bp):
ACACACAAATACCAATTTAATTAAA
Found at i:21902753 original size:29 final size:29
Alignment explanation
Indices: 21902706--21903046 Score: 412
Period size: 29 Copynumber: 11.8 Consensus size: 29
21902696 ATCGATTAAA
* ** *
21902706 GAAAAGGAATGGTTTCGACCATTGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
21902735 GAAAAGGGATGGTGACGACCATCAAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* * *
21902764 GAGAAGGGATAGTGACGACCATCGAATAA
1 GAAAAGGGATGGTGACGACCATCGAATAT
** **
21902793 GAAAAGGGATGGTTTCGACCATAAAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* * *
21902822 GGAAAGGGATGGTGATGACCATCGAATAA
1 GAAAAGGGATGGTGACGACCATCGAATAT
** * *
21902851 GAAAAGGGATGGTTTCGACTATCTAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* *
21902880 GAAAAGGGATGGTAACAACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
21902909 GAAAAGGGATGGTGACGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
*
21902938 GAAAAGGGATGGTGACGACCATCAAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* *
21902967 GAAAAGGAAAGGTGACGACCATCGAATAT
1 GAAAAGGGATGGTGACGACCATCGAATAT
* * *
21902996 GAAATGGGATGGTGACAACCATCGAATAC
1 GAAAAGGGATGGTGACGACCATCGAATAT
* **
21903025 GTAAAGGGATGGTTTCGACCAT
1 GAAAAGGGATGGTGACGACCAT
21903047 TGTTTAGCAC
Statistics
Matches: 261, Mismatches: 51, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 261 1.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (29 bp):
GAAAAGGGATGGTGACGACCATCGAATAT
Found at i:21904461 original size:42 final size:41
Alignment explanation
Indices: 21904410--21904492 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 41
21904400 ATATTTTATT
*
21904410 TTATTTTTTAGTAATTTATTAGAATAAGGGAATTATTTTCCC
1 TTATCTTTTAGTAATTTATTAGAATAA-GGAATTATTTTCCC
*
21904452 TTATCTTTTAGTAGTTTATTAGAATAAGGAATTATTTTCCC
1 TTATCTTTTAGTAATTTATTAGAATAAGGAATTATTTTCCC
21904493 AATTAGGTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 14 0.36
42 25 0.64
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAATTTATTAGAATAAGGAATTATTTTCCC
Found at i:21911985 original size:40 final size:40
Alignment explanation
Indices: 21911792--21912015 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
21911782 TTGAATGATG
* * * *
21911792 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
21911832 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21911872 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21911912 TCCGGGTTTAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21911952 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
21911993 -CCGGGCT--GTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21912016 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
38 16 0.10
39 1 0.01
40 141 0.84
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21914194 original size:18 final size:17
Alignment explanation
Indices: 21914168--21914215 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
21914158 ATAATAAGAA
21914168 AACATTTTGAAATTGAAT
1 AACATTTTGAAA-TGAAT
*
21914186 AACAATTTGTAAATGAAT
1 AACATTTTG-AAATGAAT
*
21914204 AATATTTTGAAA
1 AACATTTTGAAA
21914216 ACAAACGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (17 bp):
AACATTTTGAAATGAAT
Found at i:21926886 original size:18 final size:19
Alignment explanation
Indices: 21926865--21926903 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
21926855 TACTAAGAAA
21926865 CTAT-GATATAGCAAA-AAT
1 CTATAGATAT-GCAAACAAT
21926883 CTATAGATATGCAAACAAT
1 CTATAGATATGCAAACAAT
21926902 CT
1 CT
21926904 TGGGTAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (19 bp):
CTATAGATATGCAAACAAT
Found at i:21927819 original size:26 final size:26
Alignment explanation
Indices: 21927785--21927850 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
21927775 AAACTCTTTT
*
21927785 AAAAGAAAACTCAAGAGAA-ATTCTTA
1 AAAAGAAAACTCAAGAGAAGA-ACTTA
*
21927811 AAAAGAAAACTCAAGATAAGAACTTA
1 AAAAGAAAACTCAAGAGAAGAACTTA
21927837 AAAAGAAAACTCAA
1 AAAAGAAAACTCAA
21927851 AGATCATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 36 0.97
27 1 0.03
ACGTcount: A:0.62, C:0.12, G:0.11, T:0.15
Consensus pattern (26 bp):
AAAAGAAAACTCAAGAGAAGAACTTA
Found at i:21942162 original size:12 final size:12
Alignment explanation
Indices: 21942142--21942171 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21942132 TTCTTTTTGC
21942142 TTTTC-AAGGCT
1 TTTTCAAAGGCT
21942153 TTTTCAAAGGCT
1 TTTTCAAAGGCT
21942165 TTTTCAA
1 TTTTCAA
21942172 TTTCTCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.23, C:0.17, G:0.13, T:0.47
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:21942267 original size:6 final size:5
Alignment explanation
Indices: 21942222--21942279 Score: 57
Period size: 5 Copynumber: 11.4 Consensus size: 5
21942212 TTGCCTCTCA
* *
21942222 TTTCT TTT-T ATTTCAT TTTCT TTTCT TCTC- TTGCT TTTCTT TTTCT
1 TTTCT TTTCT -TTTC-T TTTCT TTTCT TTTCT TTTCT TTTC-T TTTCT
21942268 TTTCT TTTCT TT
1 TTTCT TTTCT TT
21942280 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 3 0.07
5 31 0.70
6 9 0.20
7 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTCT
Found at i:21942267 original size:20 final size:19
Alignment explanation
Indices: 21942237--21942289 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
21942227 TTTTATTTCA
21942237 TTTTCTTTTCTTCTCTTGC
1 TTTTCTTTTCTTCTCTTGC
*
21942256 TTTTC-TTT-TTCT-TTTC
1 TTTTCTTTTCTTCTCTTGC
*
21942272 TTTTCTTTGTTTTCTCTT
1 TTTTCTTT-TCTTCTCTT
21942290 TACAAGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
18 4 0.14
19 9 0.31
20 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTCTTCTCTTGC
Found at i:21942284 original size:25 final size:25
Alignment explanation
Indices: 21942222--21942286 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
21942212 TTGCCTCTCA
* *
21942222 TTTCTTTTTATTTCATTTTCTTTTCT
1 TTTCTTTGT-TTTCTTTTTCTTTTCT
*
21942248 TCTC-TTGCTTTTCTTTTTCTTTTCT
1 TTTCTTTG-TTTTCTTTTTCTTTTCT
21942273 TTTCTTTGTTTTCT
1 TTTCTTTGTTTTCT
21942287 CTTTACAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
25 26 0.79
26 7 0.21
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.75
Consensus pattern (25 bp):
TTTCTTTGTTTTCTTTTTCTTTTCT
Found at i:21943214 original size:19 final size:18
Alignment explanation
Indices: 21943179--21943242 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
21943169 TAACTCGATT
*
21943179 TTTTTTTCACTTCTTTTTC
1 TTTTTTTCA-TTTTTTTTC
*
21943198 TTTTTTTCGATTTTTTTTT
1 TTTTTTTC-ATTTTTTTTC
* * *
21943217 TATTTTTTAATTTCTTCTC
1 T-TTTTTTCATTTTTTTTC
21943236 TTTTTTT
1 TTTTTTT
21943243 TAAATCCAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 6 0.16
19 24 0.65
20 7 0.19
ACGTcount: A:0.08, C:0.12, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTTCATTTTTTTTC
Found at i:21951597 original size:40 final size:40
Alignment explanation
Indices: 21951539--21951765 Score: 400
Period size: 40 Copynumber: 5.7 Consensus size: 40
21951529 AGCATTGGAT
21951539 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
21951579 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
21951619 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
21951659 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
21951699 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
21951739 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
21951766 ATGTGTTTGC
Statistics
Matches: 177, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:21955967 original size:50 final size:50
Alignment explanation
Indices: 21955864--21956443 Score: 709
Period size: 50 Copynumber: 11.5 Consensus size: 50
21955854 TGTGAGCAAG
* * * *
21955864 TGTAAGACCATGTCTGGGACATGGCATTGACATCATTGAGATTATGAGCGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGGTCCCA
* * *
21955920 TGTAAGACCATGTCTGAGACATGGCGTTTGTACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
*
21955970 TGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
*
21956020 TGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
*
21956070 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
**
21956120 TGTAAGACCATGTCTGGGACATGGCGTTGGCACTC-AGATGAGAGGTTTCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCAC-CGAGATGAGAGGTCCCA
* * *
21956170 TGTAAGACCATGTCTAGGACATGACGTTGGCACTGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* *
21956220 TGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCTCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * *
21956270 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-GAATCAAAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG-ATGAGAGGTCCCA
* * * * * **
21956320 CGTAAGACCGTGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
* * * * * * * * **
21956370 TGTAAAACCATATCTAGGATATGGCATTGGCA--GTACAGGAAACATCCCA
1 TGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATGAGAGGTCCCA
*
21956419 TGTAAGACCATGTCTCGGACATGGC
1 TGTAAGACCATGTCTGGGACATGGC
21956444 TTTTGCATGT
Statistics
Matches: 460, Mismatches: 59, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
48 1 0.00
49 32 0.07
50 395 0.86
51 1 0.00
53 3 0.01
55 1 0.00
56 27 0.06
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
Found at i:21962570 original size:28 final size:27
Alignment explanation
Indices: 21962534--21962613 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
21962524 CATGCAGTAG
* *
21962534 CAGTTTGGGCTTGAGCCCTATACAGCAA
1 CAGTGTGGGCTT-AGCCCAATACAGCAA
*
21962562 CAGTGTGGGCCTTAGCCCAATACAGTAA
1 CAGTGTGGG-CTTAGCCCAATACAGCAA
**
21962590 CAGTGTGGGCCTTAAACCAATACA
1 CAGTGTGGG-CTTAGCCCAATACA
21962614 ATAACAGTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 43 0.93
29 3 0.07
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.23
Consensus pattern (27 bp):
CAGTGTGGGCTTAGCCCAATACAGCAA
Found at i:21962618 original size:28 final size:28
Alignment explanation
Indices: 21962560--21962621 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
21962550 CCTATACAGC
** *
21962560 AACAGTGTGGGCCTTAGCCCAATACAGT
1 AACAGTGTGGGCCTTAAACCAATACAAT
21962588 AACAGTGTGGGCCTTAAACCAATACAAT
1 AACAGTGTGGGCCTTAAACCAATACAAT
21962616 AACAGT
1 AACAGT
21962622 ACAATGCAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (28 bp):
AACAGTGTGGGCCTTAAACCAATACAAT
Found at i:21962758 original size:26 final size:26
Alignment explanation
Indices: 21962729--21962788 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
21962719 ACCAATATCA
* * * *
21962729 CAGCAAAGGTGCCAGTAATAATGACG
1 CAGCAAAGGTACCAATAACAATAACG
*
21962755 CAGCAAAGGTACCAATAACATTAACG
1 CAGCAAAGGTACCAATAACAATAACG
21962781 CAGCAAAG
1 CAGCAAAG
21962789 CCGCTAGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.13
Consensus pattern (26 bp):
CAGCAAAGGTACCAATAACAATAACG
Found at i:21963008 original size:27 final size:27
Alignment explanation
Indices: 21962978--21963066 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
21962968 GAGTTGTAAT
21962978 AGTCATTTTACCCTAT-GAGGGTATTTC
1 AGTCATTTTACCC-ATCGAGGGTATTTC
21963005 AGTCATTTTACCCATCGAGGGTATTTC
1 AGTCATTTTACCCATCGAGGGTATTTC
* * * *
21963032 GGTCATCTTACCCATCCAAGGTATTTC
1 AGTCATTTTACCCATCGAGGGTATTTC
21963059 AGTCATTT
1 AGTCATTT
21963067 GTCCACAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (27 bp):
AGTCATTTTACCCATCGAGGGTATTTC
Found at i:21969073 original size:24 final size:25
Alignment explanation
Indices: 21969027--21969088 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
21969017 AAATAAGAAT
*
21969027 AAAT-AATAAAACAAATGACAAT-AA
1 AAATAAATAAAA-AAAGGACAATAAA
* *
21969051 GAATAAATAAAAAAAGGATAATAAA
1 AAATAAATAAAAAAAGGACAATAAA
*
21969076 AAATATATAAAAA
1 AAATAAATAAAAA
21969089 TAATAATAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (25 bp):
AAATAAATAAAAAAAGGACAATAAA
Found at i:21970287 original size:18 final size:18
Alignment explanation
Indices: 21970264--21970306 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
21970254 AATTTTTGTC
21970264 ATAAAATAATTAACTTTT
1 ATAAAATAATTAACTTTT
*
21970282 ATAAAATAATTAATTTTT
1 ATAAAATAATTAACTTTT
21970300 ATTAAAA
1 A-TAAAA
21970307 ATTTGAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAATAATTAACTTTT
Found at i:21985353 original size:32 final size:32
Alignment explanation
Indices: 21985312--21985378 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
21985302 GAACCATTAG
*
21985312 TATAATATCGGATACTTAGGAATTTCACACAC
1 TATAATATCGGATACTTAGGAATCTCACACAC
* *
21985344 TATAATATCGGATACTTGGGAGTCTCACACAC
1 TATAATATCGGATACTTAGGAATCTCACACAC
21985376 TAT
1 TAT
21985379 GTGCTAACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (32 bp):
TATAATATCGGATACTTAGGAATCTCACACAC
Found at i:21990563 original size:15 final size:15
Alignment explanation
Indices: 21990523--21990563 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
21990513 ATCTATATAA
*
21990523 TCAAATTTAACTCAT
1 TCAAATTTAATTCAT
21990538 TCAAATTTAATTCTAT
1 TCAAATTTAATTC-AT
21990554 TC-AATTTAAT
1 TCAAATTTAAT
21990564 CCAAAAATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (15 bp):
TCAAATTTAATTCAT
Found at i:22005729 original size:21 final size:22
Alignment explanation
Indices: 22005705--22005752 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
22005695 GTTCGGGATC
*
22005705 GCACTCTGGTGCCTCTA-AATT
1 GCACTCTGATGCCTCTATAATT
* *
22005726 GCACTTTGATGCCTCTATATTT
1 GCACTCTGATGCCTCTATAATT
22005748 GCACT
1 GCACT
22005753 ACAGTTCCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.38
Consensus pattern (22 bp):
GCACTCTGATGCCTCTATAATT
Found at i:22015877 original size:40 final size:40
Alignment explanation
Indices: 22015793--22015976 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
22015783 TTGAATGCTG
* * * *
22015793 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
22015832 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
22015873 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
22015913 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
22015953 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22015977 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:22015930 original size:80 final size:81
Alignment explanation
Indices: 22015793--22015973 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
22015783 TTGAATGCTG
* *
22015793 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
22015857 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
22015873 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
22015934 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
22015953 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
22015974 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:22025482 original size:50 final size:50
Alignment explanation
Indices: 22025371--22025617 Score: 248
Period size: 50 Copynumber: 4.8 Consensus size: 50
22025361 ATTTGGATAA
*
22025371 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
22025427 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
22025477 AGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
22025527 AGA-ACTCCCATGTAAGACCATATATGGGATATGTCATTGGCA--GTACAAG
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* * *
22025576 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22025618 TGTTATTATC
Statistics
Matches: 164, Mismatches: 24, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 37 0.23
50 82 0.50
53 3 0.02
55 1 0.01
56 40 0.24
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:22027716 original size:20 final size:21
Alignment explanation
Indices: 22027673--22027716 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22027663 CGTAAGCATG
*
22027673 TAGAAATTATATGTGAACCTT
1 TAGAAATTATATGTCAACCTT
*
22027694 TAGAAATTATATG-CAATCTT
1 TAGAAATTATATGTCAACCTT
22027714 TAG
1 TAG
22027717 TTGCTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
TAGAAATTATATGTCAACCTT
Found at i:22030804 original size:33 final size:34
Alignment explanation
Indices: 22030740--22030806 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
22030730 AGTAGTTATG
*
22030740 CAGTATCAGTCTGGGCCTGAACCCTATACAGTAA
1 CAGTATCAGTCTGGGCCTGAACCCTAAACAGTAA
* *
22030774 CAGTAT-AGTGTGGGCCT-TACCCTAAAACAGTAA
1 CAGTATCAGTCTGGGCCTGAACCCT-AAACAGTAA
22030807 TAATGTGGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 5 0.17
33 18 0.62
34 6 0.21
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (34 bp):
CAGTATCAGTCTGGGCCTGAACCCTAAACAGTAA
Found at i:22030816 original size:28 final size:28
Alignment explanation
Indices: 22030772--22030854 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
22030762 CCTATACAGT
22030772 AACAGT-ATAGTGTGGGCCTTA-CCCTAA
1 AACAGTAATAGTGTGGGCCTTAGCCC-AA
* *
22030799 AACAGTAATAATGTGGGCCTTAGCCCAT
1 AACAGTAATAGTGTGGGCCTTAGCCCAA
22030827 AACAGTAATAGTGTGGGCCTTAGCCCAA
1 AACAGTAATAGTGTGGGCCTTAGCCCAA
22030855 TACAATAACC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 6 0.12
28 41 0.82
29 3 0.06
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (28 bp):
AACAGTAATAGTGTGGGCCTTAGCCCAA
Found at i:22036933 original size:29 final size:28
Alignment explanation
Indices: 22036892--22036946 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
22036882 GTGTGGAAGT
*
22036892 AAAAAAATAAATTGAGATTAAAAAAAGA
1 AAAAAAACAAATTGAGATTAAAAAAAGA
*
22036920 AAAACAAACAAATTGTGATTAAAAAAA
1 AAAA-AAACAAATTGAGATTAAAAAAA
22036947 AGTCTGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.69, C:0.04, G:0.09, T:0.18
Consensus pattern (28 bp):
AAAAAAACAAATTGAGATTAAAAAAAGA
Found at i:22038123 original size:12 final size:12
Alignment explanation
Indices: 22038101--22038172 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
22038091 AAGAGTGTGT
*
22038101 GAAAAAAGAAAA
1 GAAAGAAGAAAA
*
22038113 GAAAGATGAAAAA
1 GAAAGAAG-AAAA
*
22038126 GAAA-AAGAAATT
1 GAAAGAAGAAA-A
*
22038138 GAAAGAAAAAAA
1 GAAAGAAGAAAA
*
22038150 GAAAGTGAGAAAA
1 GAAAG-AAGAAAA
22038163 -AAAG-AGAAAA
1 GAAAGAAGAAAA
22038173 AGAATTTCTA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
10 6 0.12
11 3 0.06
12 21 0.44
13 18 0.38
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.06
Consensus pattern (12 bp):
GAAAGAAGAAAA
Found at i:22038130 original size:24 final size:23
Alignment explanation
Indices: 22038103--22038176 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 23
22038093 GAGTGTGTGA
22038103 AAAAAGAAAAGAAAGATGAAAAAG
1 AAAAAGAAAAGAAAGA-GAAAAAG
* *
22038127 AAAAAGAAATTGAAAGAAAAAAAG
1 AAAAAGAAA-AGAAAGAGAAAAAG
*
22038151 AAAGTGAGAAAA-AAAGAGAAAAAG
1 AAA--AAGAAAAGAAAGAGAAAAAG
22038175 AA
1 AA
22038177 TTTCTAAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
24 31 0.74
25 6 0.14
26 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.05
Consensus pattern (23 bp):
AAAAAGAAAAGAAAGAGAAAAAG
Found at i:22038165 original size:19 final size:19
Alignment explanation
Indices: 22038082--22038165 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
22038072 AAAGAACATG
* ** *
22038082 GAAAAGAAAAAGAGTGTGT
1 GAAAAAAAAAAGAAAGTGA
22038101 GAAAAAAGAAAAGAAAGATGA
1 GAAAAAA-AAAAGAAAG-TGA
* *
22038122 -AAAAGAAAAAGAAATTGA
1 GAAAAAAAAAAGAAAGTGA
*
22038140 -AAGAAAAAAAGAAAGTGA
1 GAAAAAAAAAAGAAAGTGA
22038158 GAAAAAAA
1 GAAAAAAA
22038166 GAGAAAAAGA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
18 18 0.35
19 20 0.38
20 12 0.23
21 2 0.04
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (19 bp):
GAAAAAAAAAAGAAAGTGA
Found at i:22038170 original size:18 final size:17
Alignment explanation
Indices: 22038099--22038171 Score: 83
Period size: 18 Copynumber: 4.0 Consensus size: 17
22038089 AAAAGAGTGT
22038099 GTGAAAAAAGAAAAGAAA
1 GTGAAAAAA-AAAAGAAA
22038117 GATGAAAAAGAAAAAGAAA
1 G-TGAAAAA-AAAAAGAAA
*
22038136 TTGAAAGAAAAAAAGAAA
1 GTGAAA-AAAAAAAGAAA
*
22038154 GTGAGAAAAAAAGAGAAA
1 GTGA-AAAAAAAAAGAAA
22038172 AAGAATTTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
18 28 0.58
19 19 0.40
20 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.22, T:0.07
Consensus pattern (17 bp):
GTGAAAAAAAAAAGAAA
Found at i:22039929 original size:26 final size:26
Alignment explanation
Indices: 22039893--22039943 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
22039883 GGATAAAAAG
22039893 GGGTCGCTAAGTGCAGATTCCCCGAT
1 GGGTCGCTAAGTGCAGATTCCCCGAT
* *
22039919 GGGTTGCTAAGTGCTGATTCCCCGA
1 GGGTCGCTAAGTGCAGATTCCCCGA
22039944 ATTATTGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.25, G:0.31, T:0.25
Consensus pattern (26 bp):
GGGTCGCTAAGTGCAGATTCCCCGAT
Found at i:22039967 original size:42 final size:42
Alignment explanation
Indices: 22039920--22040142 Score: 150
Period size: 43 Copynumber: 5.3 Consensus size: 42
22039910 TTCCCCGATG
* *
22039920 GGTTGCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAAGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAAGT
* * *
22039962 GGTTGCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTATAAAAGT
* * * * * * *
22040005 GGTTTC-AATGTGTTGATTCCCCGTATCACTAAATATAAAGGT
1 GGTTGCTAA-GTGCTGATTCCCCGTATTATTGATTATAAAAGT
* * * *
22040047 GGTTGCTAAGTGTTGATTCCACCGTATCT-TTGATTGTGAAAGC
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTATAAAAGT
* * * * * * *
22040090 GGTTGTTATGTGTTGATTCTCCGTATCACTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTATAAAAGT
22040131 GGTTGCTAAGTG
1 GGTTGCTAAGTG
22040143 TTGAATCCAC
Statistics
Matches: 140, Mismatches: 32, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
41 13 0.09
42 61 0.44
43 66 0.47
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAAGT
Found at i:22040064 original size:85 final size:84
Alignment explanation
Indices: 22039955--22040154 Score: 294
Period size: 85 Copynumber: 2.4 Consensus size: 84
22039945 TTATTGATTC
* * *
22039955 TAAAAGTGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTT-TCAATGTGTT
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGCGGTTGT-AATGTGTT
22040019 GATTCCCCGTATCACTAAAT
65 GATTCCCCGTATCACTAAAT
* *
22040039 ATAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTGATTGTGAAAGCGGTTGTTATGTGTT
1 -TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGCGGTTGTAATGTGTT
* *
22040104 GATTCTCCGTATCACTGAAT
65 GATTCCCCGTATCACTAAAT
* *
22040124 TTAAGGTGGTTGCTAAGTGTTGAATCCACCG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCG
22040155 AGTAACGGAT
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
84 29 0.28
85 75 0.71
86 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (84 bp):
TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGCGGTTGTAATGTGTTG
ATTCCCCGTATCACTAAAT
Found at i:22042958 original size:21 final size:21
Alignment explanation
Indices: 22042929--22042969 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
22042919 TGAAACAACG
*
22042929 AGTTGAATCGGTCTAAAAACC
1 AGTTAAATCGGTCTAAAAACC
22042950 AGTTAAATCGGTCTAAAAAC
1 AGTTAAATCGGTCTAAAAAC
22042970 TGATTGAATT
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:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (21 bp):
AGTTAAATCGGTCTAAAAACC
Found at i:22046409 original size:28 final size:27
Alignment explanation
Indices: 22046346--22046497 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
22046336 ATATTAAGTC
* * *
22046346 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
22046373 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
22046401 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
22046428 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
22046456 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
22046483 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22046498 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:22046430 original size:55 final size:55
Alignment explanation
Indices: 22046346--22046497 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
22046336 ATATTAAGTC
* * *
22046346 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
22046401 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
22046456 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
22046498 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:22051636 original size:16 final size:16
Alignment explanation
Indices: 22051596--22051628 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22051586 TTATAACTAA
22051596 TCTTAATTAATTAATT
1 TCTTAATTAATTAATT
*
22051612 TCTTCATTAATTAATT
1 TCTTAATTAATTAATT
22051628 T
1 T
22051629 TGTAATTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTTAATTAATTAATT
Found at i:22054330 original size:17 final size:17
Alignment explanation
Indices: 22054308--22054340 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
22054298 GACAATGGCA
22054308 TGGTTAGTGAAAACGTT
1 TGGTTAGTGAAAACGTT
22054325 TGGTTAGTGAAAACGT
1 TGGTTAGTGAAAACGT
22054341 GAAGGTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.30, T:0.33
Consensus pattern (17 bp):
TGGTTAGTGAAAACGTT
Found at i:22055032 original size:27 final size:26
Alignment explanation
Indices: 22055001--22055055 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
22054991 TAACTAAAAT
22055001 TAAATTAAATTAGAGAAATATATTAAA
1 TAAATTAAATTAGAG-AATATATTAAA
** *
22055028 TAAATTGGATTTGAGAATATATTAAA
1 TAAATTAAATTAGAGAATATATTAAA
22055054 TA
1 TA
22055056 TTAATGAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (26 bp):
TAAATTAAATTAGAGAATATATTAAA
Found at i:22068849 original size:22 final size:19
Alignment explanation
Indices: 22068818--22068864 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
22068808 AAAGATGATA
22068818 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
22068841 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
22068860 ATTAT
1 ATTAT
22068865 CTACTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:22068860 original size:16 final size:15
Alignment explanation
Indices: 22068820--22068861 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
22068810 AGATGATAAT
22068820 TATTAATATATAATTA
1 TATTAAT-TATAATTA
22068836 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
22068852 TATTAATTAT
1 TATTAATTAT
22068862 TATCTACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:22069477 original size:25 final size:25
Alignment explanation
Indices: 22069417--22069477 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
22069407 CTCTTAAATT
*
22069417 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
22069442 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
22069467 TTAATTAAATT
1 TTAATTAAATT
22069478 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:22070039 original size:76 final size:76
Alignment explanation
Indices: 22069906--22070054 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
22069896 CTTAATGAGA
* *
22069906 AATATAGAGTCTGAAAATTTGCAAGAAATTCTCGAGGAACTTACAGTTCTAAGTTCTAAGTGGAC
1 AATATAGAGTCTGAAAATTTGCAAGAAATTCTCGAGGAACTCACAGTTCCAAGTTCTAAGTGGAC
22069971 TATGTCAAGGG
66 TATGTCAAGGG
*
22069982 AATATAGAGTCTGAAAATTTGCAAGAAATTCTCGAGGAACTCACAGTTCCAATTTCTAAGTGGAC
1 AATATAGAGTCTGAAAATTTGCAAGAAATTCTCGAGGAACTCACAGTTCCAAGTTCTAAGTGGAC
22070047 TATGTCAA
66 TATGTCAA
22070055 AGCAAGAAAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (76 bp):
AATATAGAGTCTGAAAATTTGCAAGAAATTCTCGAGGAACTCACAGTTCCAAGTTCTAAGTGGAC
TATGTCAAGGG
Found at i:22072225 original size:43 final size:43
Alignment explanation
Indices: 22072155--22072237 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
22072145 TAATACCGCT
*
22072155 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTCTACCAC
1 AAACACCGCTAAAGATCATGACCTTTAGCGACGCTTCTACCAC
* *
22072198 AAACACCGTTAAAGATGATGACCTTTAGCGACGCTTCTAC
1 AAACACCGCTAAAGATCATGACCTTTAGCGACGCTTCTAC
22072238 AACCAACGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
AAACACCGCTAAAGATCATGACCTTTAGCGACGCTTCTACCAC
Found at i:22076348 original size:21 final size:21
Alignment explanation
Indices: 22076292--22076353 Score: 69
Period size: 17 Copynumber: 3.1 Consensus size: 21
22076282 CACATACACC
22076292 AATGCATACAAAATAAAAACTT
1 AATGC-TACAAAATAAAAACTT
* *
22076314 AACGCTAC---A-GAAAACTT
1 AATGCTACAAAATAAAAACTT
22076331 AATGCTACAAAATAAAAACTT
1 AATGCTACAAAATAAAAACTT
22076352 AA
1 AA
22076354 GCTTCCAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
17 14 0.44
18 1 0.03
20 1 0.03
21 12 0.38
22 4 0.12
ACGTcount: A:0.56, C:0.16, G:0.06, T:0.21
Consensus pattern (21 bp):
AATGCTACAAAATAAAAACTT
Found at i:22078427 original size:13 final size:14
Alignment explanation
Indices: 22078396--22078586 Score: 50
Period size: 14 Copynumber: 13.4 Consensus size: 14
22078386 ACTAGTTAAT
*
22078396 CTAAACCCTAAACC
1 CTAAACCATAAACC
* *
22078410 ATAAACC-TAAACT
1 CTAAACCATAAACC
* * *
22078423 TTAAAACCCTAAGCC
1 CT-AAACCATAAACC
*
22078438 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
22078452 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* * *
22078467 C-CAGCCTTTAAACC
1 CTAAACC-ATAAACC
* *
22078481 ATAAACCAAAAACC
1 CTAAACCATAAACC
* ** *
22078495 ATAGCCCCTAAACC
1 CTAAACCATAAACC
*
22078509 CATAATCCATAAACC
1 C-TAAACCATAAACC
*
22078524 TTAAA--ATAGTAACTC
1 CTAAACCATA--AAC-C
* *
22078539 CTAAACCTTAAACT
1 CTAAACCATAAACC
* *
22078553 CTAAACCGTATACC
1 CTAAACCATAAACC
*
22078567 CTAAACCAAAAACC
1 CTAAACCATAAACC
*
22078581 TTAAAC
1 CTAAAC
22078587 TATGGGATAA
Statistics
Matches: 126, Mismatches: 38, Indels: 26
0.66 0.20 0.14
Matches are distributed among these distances:
12 3 0.02
13 9 0.07
14 75 0.60
15 37 0.29
17 2 0.02
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.20
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:22080248 original size:102 final size:102
Alignment explanation
Indices: 22080126--22080326 Score: 267
Period size: 102 Copynumber: 2.0 Consensus size: 102
22080116 AGTGATTCGA
** * * * * *
22080126 GGAATCAGTACTTAGCAACCCCTTTCACATTTAAGATAAGGTGGGACCAGCACTTAGCAACCACC
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATAAGATGGAACCAGCACTTAACAACCACC
*
22080191 AATGATTCGAGGAACCAGCACTTAGCAACCCCTTGGG
66 AATGAATCGAGGAACCAGCACTTAGCAACCCCTTGGG
** * *
22080228 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATACTATGGAATCAGCACTTAATAACCACC
1 GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATAAGATGGAACCAGCACTTAACAACCACC
* * *
22080293 AATGAATCGGGGAATCAGCACTTAGTAACCCCTT
66 AATGAATCGAGGAACCAGCACTTAGCAACCCCTT
22080327 TATATTCAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
102 84 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (102 bp):
GGAATCAACACTTAGCAACCCCCTTCACATTTAAAATAAGATGGAACCAGCACTTAACAACCACC
AATGAATCGAGGAACCAGCACTTAGCAACCCCTTGGG
Found at i:22092399 original size:39 final size:40
Alignment explanation
Indices: 22092299--22092522 Score: 239
Period size: 39 Copynumber: 5.7 Consensus size: 40
22092289 TTGAATGATG
*
22092299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
22092338 ATCCGGACCAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
22092379 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
22092418 TCCGGGCTAAG-GCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
22092457 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
22092496 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22092523 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
39 73 0.46
40 71 0.45
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:22092504 original size:79 final size:80
Alignment explanation
Indices: 22092299--22092522 Score: 244
Period size: 79 Copynumber: 2.8 Consensus size: 80
22092289 TTGAATGATG
* * * * *
22092299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCT-AAGTGACAATATCCGGACCAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAA-TTACTATATCCGGGCTAAGACCCGAAGGCAT
* *
22092362 TTGTGCGAGATACTAAT
64 TTGTGCAAGATACTAAA
* *
22092379 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-GCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGA-ATTACTATA-TCCGGGCTAAGACCCGAAGGCAT
*
22092440 TTGTGCAAGTTACTAAA
64 TTGTGCAAGATACTAAA
* * * *
22092457 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
22092522 G
66 G
22092523 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
78 36 0.30
79 53 0.43
80 32 0.26
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAATTACTATATCCGGGCTAAGACCCGAAGGCATTT
GTGCAAGATACTAAA
Found at i:22097168 original size:21 final size:21
Alignment explanation
Indices: 22097142--22097191 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
22097132 ATTGTTGGGA
* *
22097142 AGGAAGTTATTGTTGCAGAAG
1 AGGAAGTTATTGCTGAAGAAG
*
22097163 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTATTGCTGAAGAAG
*
22097184 AAGAAGTT
1 AGGAAGTT
22097192 GCTAAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.26
Consensus pattern (21 bp):
AGGAAGTTATTGCTGAAGAAG
Found at i:22097172 original size:18 final size:18
Alignment explanation
Indices: 22097151--22097186 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22097141 AAGGAAGTTA
*
22097151 TTGTTGCAGAAGAGGAAG
1 TTGTTGCAGAAGAAGAAG
*
22097169 TTGTTGCTGAAGAAGAAG
1 TTGTTGCAGAAGAAGAAG
22097187 AAGTTGCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.36, T:0.25
Consensus pattern (18 bp):
TTGTTGCAGAAGAAGAAG
Found at i:22109112 original size:25 final size:25
Alignment explanation
Indices: 22109078--22109146 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
22109068 TGTACATATA
* *
22109078 TGCTTACACGAGTTGTGAATAAGTG
1 TGCTCACACGAGCTGTGAATAAGTG
22109103 TGCTCACACGAGCTGTGAATAAGTG
1 TGCTCACACGAGCTGTGAATAAGTG
* *
22109128 TGCTCACACAAGCTATGAA
1 TGCTCACACGAGCTGTGAA
22109147 AATGGGCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAATAAGTG
Found at i:22114292 original size:35 final size:35
Alignment explanation
Indices: 22114241--22114307 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
22114231 ACAATCAGTA
22114241 TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
1 TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
* * * * *
22114276 TACAGTAACAGTATCAGTGTGGGCCTTAGCCC
1 TACAGAAACAGAATCAGTCTAGGCCTGAGCCC
22114308 AATACGATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (35 bp):
TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
Found at i:22116845 original size:27 final size:28
Alignment explanation
Indices: 22116766--22116985 Score: 163
Period size: 27 Copynumber: 8.1 Consensus size: 28
22116756 AGGGGCATTA
* *
22116766 CGGTCATTTTACCCTA-C-AGGGGTAATT
1 CGGTAATTTTACCCTATCGA-GGGTATTT
* * **
22116793 CGGTCATTTTA-CCTATCAAGAATATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
*
22116820 CGGTCATTTTA-CCTATCGAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
** * *
22116847 CAATAATTTTACCCT-TTGAGGGTATAT
1 CGGTAATTTTACCCTATCGAGGGTATTT
* *
22116874 CGATAATTTTACCCT-TTGAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
* * *
22116901 CGATAATTTCACCAT-TCGAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
*
22116928 TGGTAATTTTACCCT-TCGAGGGTATTTT
1 CGGTAATTTTACCCTATCGAGGGTA-TTT
* * * *
22116956 C-ATAATTTTATCTTAT-AAGGGTATTT
1 CGGTAATTTTACCCTATCGAGGGTATTT
22116982 CGGT
1 CGGT
22116986 CATTCTAGTA
Statistics
Matches: 161, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
26 8 0.05
27 145 0.90
28 8 0.05
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.41
Consensus pattern (28 bp):
CGGTAATTTTACCCTATCGAGGGTATTT
Found at i:22116920 original size:81 final size:81
Alignment explanation
Indices: 22116835--22116983 Score: 203
Period size: 81 Copynumber: 1.8 Consensus size: 81
22116825 ATTTTACCTA
* *
22116835 TCGAGGGTATTTCAATAATTTTACCCTTTGAGGGTA-TATCGATAATTTTACCCTT-TGAGGGTA
1 TCGAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTATC-ATAATTTTA-CCTTATAAGGGTA
22116898 TTTCGATAATTTCACCAT
64 TTTCGATAATTTCACCAT
*** * *
22116916 TCGAGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTCATAATTTTATCTTATAAGGGTATT
1 TCGAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTATCATAATTTTACCTTATAAGGGTATT
22116981 TCG
66 TCG
22116984 GTCATTCTAG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
80 3 0.05
81 53 0.90
82 3 0.05
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (81 bp):
TCGAGGGTATTTCAATAATTTTACCCTTCGAGGGTATTATCATAATTTTACCTTATAAGGGTATT
TCGATAATTTCACCAT
Found at i:22118505 original size:25 final size:25
Alignment explanation
Indices: 22118453--22118506 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
22118443 TGAACCTTTG
*
22118453 ACCTCCTTACCAAACCTGTGATGTC
1 ACCTCCTTACCAAACCTGTGATGCC
* *
22118478 ACCTCCTTGCCACACCTGTG-TCGCC
1 ACCTCCTTACCAAACCTGTGAT-GCC
22118503 ACCT
1 ACCT
22118507 TTCCACTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.19, C:0.43, G:0.13, T:0.26
Consensus pattern (25 bp):
ACCTCCTTACCAAACCTGTGATGCC
Found at i:22121577 original size:40 final size:40
Alignment explanation
Indices: 22121521--22121701 Score: 265
Period size: 40 Copynumber: 4.5 Consensus size: 40
22121511 AATTATAGAA
22121521 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
22121561 TGAATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* * * *
22121601 TGAATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
*
22121641 T-AACTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
1 TGAA-TGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
* *
22121681 TGAATGCACTTCCGTGCCCCT
1 TGAATGCACATACGTGCCCCT
22121702 GTTTATCTCC
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.31
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
Found at i:22121600 original size:20 final size:20
Alignment explanation
Indices: 22121537--22121602 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
22121527 CACATACGTG
*
22121537 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
** * * *
22121557 CCCCTGAATGCACAT-GCGTG
1 CCCCTGTTTGTACTTCG-GTA
22121577 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
22121597 CCCCTG
1 CCCCTG
22121603 AATGCACATA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 1 0.03
20 31 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.35, G:0.20, T:0.32
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:22121700 original size:20 final size:20
Alignment explanation
Indices: 22121521--22121702 Score: 55
Period size: 20 Copynumber: 9.1 Consensus size: 20
22121511 AATTATAGAA
* *
22121521 TGAATGCACATACGTGCCCC
1 TGAATGCACTTCCGTGCCCC
* * * *
22121541 T-ATTTGTACTTCGGTACCCC
1 TGA-ATGCACTTCCGTGCCCC
* *
22121561 TGAATGCACATGCGTGCCCC
1 TGAATGCACTTCCGTGCCCC
** * * *
22121581 TGTTTGTACTTCGGTACCCC
1 TGAATGCACTTCCGTGCCCC
* ** *
22121601 TGAATGCACATATGTGCCCT
1 TGAATGCACTTCCGTGCCCC
** * * *
22121621 TGTTTGTACTTCAGTACCCC
1 TGAATGCACTTCCGTGCCCC
* *
22121641 T-AACTGCACATACGTGCCCC
1 TGAA-TGCACTTCCGTGCCCC
* * ** *
22121661 T-ATTTGTACTTTGGTACCCC
1 TGA-ATGCACTTCCGTGCCCC
22121681 TGAATGCACTTCCGTGCCCC
1 TGAATGCACTTCCGTGCCCC
22121701 TG
1 TG
22121703 TTTATCTCCA
Statistics
Matches: 104, Mismatches: 53, Indels: 10
0.62 0.32 0.06
Matches are distributed among these distances:
19 1 0.01
20 101 0.97
21 2 0.02
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.31
Consensus pattern (20 bp):
TGAATGCACTTCCGTGCCCC
Found at i:22130077 original size:22 final size:22
Alignment explanation
Indices: 22130049--22130091 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22130039 CAGTGTTATC
22130049 AGTGGCAGTTTATCTACAAATT
1 AGTGGCAGTTTATCTACAAATT
*
22130071 AGTGGCAGTTTATCTATAAAT
1 AGTGGCAGTTTATCTACAAAT
22130092 CAATGGTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (22 bp):
AGTGGCAGTTTATCTACAAATT
Found at i:22130791 original size:21 final size:21
Alignment explanation
Indices: 22130767--22130808 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22130757 TGATTTTAAA
22130767 ATTAAATCTATTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
* *
22130788 ATTATATCTGTTTATTTCAAC
1 ATTAAATCTATTTATTTCAAC
22130809 TCATGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTAAATCTATTTATTTCAAC
Found at i:22131259 original size:26 final size:26
Alignment explanation
Indices: 22131219--22131273 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
22131209 CATTTCATCA
*
22131219 TCTCTCATTCATCCATTCTTCTCTATTT
1 TCTCTCATT-ATCCATTCTTC-CAATTT
22131247 TCTCTCATT-TCCATTCTTCCAATTT
1 TCTCTCATTATCCATTCTTCCAATTT
22131272 TC
1 TC
22131274 AAGAGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (26 bp):
TCTCTCATTATCCATTCTTCCAATTT
Found at i:22133439 original size:50 final size:50
Alignment explanation
Indices: 22133364--22133606 Score: 251
Period size: 50 Copynumber: 4.9 Consensus size: 50
22133354 CATTTGGGTA
*
22133364 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* * * *
22133414 AAGAGGTCTCATGTAAGACCATGTCTGTGACATGGCTTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* * * *
22133464 GAGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
* ** * * * *
22133514 GAGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGCAGTAC-A-A-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGAT
* ** *
22133563 AAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
22133607 GTTATTATCA
Statistics
Matches: 162, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 35 0.22
50 123 0.76
51 2 0.01
52 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGAT
Found at i:22133953 original size:25 final size:25
Alignment explanation
Indices: 22133923--22133977 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
22133913 ACTTGTAAAC
22133923 TTATTAAGCTTTATGCTTACTTCTT
1 TTATTAAGCTTTATGCTTACTTCTT
22133948 TTATTAAGCTTTATGCTTACTTCTT
1 TTATTAAGCTTTATGCTTACTTCTT
22133973 TTATT
1 TTATT
22133978 TATTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.58
Consensus pattern (25 bp):
TTATTAAGCTTTATGCTTACTTCTT
Found at i:22158544 original size:13 final size:13
Alignment explanation
Indices: 22158528--22158564 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
22158518 GTTGATATCG
22158528 ATGATATATGTAC
1 ATGATATATGTAC
22158541 ATGATATATGTAC
1 ATGATATATGTAC
22158554 ATGATATATGT
1 ATGATATATGT
22158565 TTAAGGGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (13 bp):
ATGATATATGTAC
Found at i:22168138 original size:35 final size:35
Alignment explanation
Indices: 22168087--22168153 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
22168077 ACAACCAGTA
22168087 TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
1 TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
* * * * *
22168122 TACAGTAACAGTATCAGTGTGGGCCTTAGCCC
1 TACAGAAACAGAATCAGTCTAGGCCTGAGCCC
22168154 AATACGATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.24
Consensus pattern (35 bp):
TACAGAAACAGAATCAGTCTAGGCCTGAGCCCTTT
Found at i:22169223 original size:13 final size:13
Alignment explanation
Indices: 22169202--22169236 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
22169192 TAAATGCTCC
*
22169202 AATTCAGCTGATT
1 AATTAAGCTGATT
22169215 AATTAAGCTGATT
1 AATTAAGCTGATT
*
22169228 ACTTAAGCT
1 AATTAAGCT
22169237 TGAAGAGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (13 bp):
AATTAAGCTGATT
Found at i:22170650 original size:27 final size:27
Alignment explanation
Indices: 22170584--22170652 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
22170574 GGGGCATTAG
* *
22170584 GGTCATTTTACCCTA-CAGGGGTAATTC
1 GGTCATTTTA-CCTATCAAGGATAATTC
* *
22170611 GATCATTTTACCTATCAAGGATATTTC
1 GGTCATTTTACCTATCAAGGATAATTC
22170638 GGTCATTTTACCTAT
1 GGTCATTTTACCTAT
22170653 TGAGGGTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
26 4 0.11
27 32 0.89
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (27 bp):
GGTCATTTTACCTATCAAGGATAATTC
Found at i:22170662 original size:27 final size:27
Alignment explanation
Indices: 22170632--22170802 Score: 182
Period size: 27 Copynumber: 6.3 Consensus size: 27
22170622 CTATCAAGGA
* *
22170632 TATTTCGGTCATTTTA-CCTATTGAGGG
1 TATTTCGATAATTTTACCCT-TTGAGGG
*
22170659 TATTTCAATAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* * *
22170686 TATATCGATAATTTTTCCCTTTGAGGT
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
22170713 TATTTCGATAATTTCACCCTTCGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* *
22170740 TATTTTGGTAATTTTACCCTTTGAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
* * *** *
22170767 TATTTTGGTAATTTTATATTTTAAGGG
1 TATTTCGATAATTTTACCCTTTGAGGG
22170794 TATTTCGAT
1 TATTTCGAT
22170803 CATTCTAATA
Statistics
Matches: 121, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
27 118 0.98
28 3 0.02
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTTGAGGG
Found at i:22170687 original size:81 final size:82
Alignment explanation
Indices: 22170602--22170768 Score: 180
Period size: 81 Copynumber: 2.1 Consensus size: 82
22170592 TACCCTACAG
* * * * *
22170602 GGGTAAT-TCGATCA-TTTTACCTATCAAGGATATTTCGGTCATTTTA-CCTATTGAGGGTATTT
1 GGGTAATATCGATAATTTTTACCT-TCAAGGATATTTCGATAATTTCACCCT-TCGAGGGTATTT
22170664 CAATAATTTTACCCTTTGA
64 CAATAATTTTACCCTTTGA
* ** * **
22170683 GGGT-ATATCGATAATTTTTCCCTTTGAGGTTATTTCGATAATTTCACCCTTCGAGGGTATTTTG
1 GGGTAATATCGATAATTTTTACCTTCAAGGATATTTCGATAATTTCACCCTTCGAGGGTATTTCA
*
22170747 GTAATTTTACCCTTTGA
66 ATAATTTTACCCTTTGA
22170764 GGGTA
1 GGGTA
22170769 TTTTGGTAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
80 2 0.03
81 58 0.83
82 10 0.14
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.43
Consensus pattern (82 bp):
GGGTAATATCGATAATTTTTACCTTCAAGGATATTTCGATAATTTCACCCTTCGAGGGTATTTCA
ATAATTTTACCCTTTGA
Found at i:22172346 original size:25 final size:25
Alignment explanation
Indices: 22172309--22172363 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
22172299 TGAACCTTTG
*
22172309 ACCTCCTTACCACACCTGTGACGCC
1 ACCTTCTTACCACACCTGTGACGCC
* *
22172334 ACCTTCTTGCCACACCTGTGTCGCC
1 ACCTTCTTACCACACCTGTGACGCC
22172359 ACCTT
1 ACCTT
22172364 TCCACTACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.16, C:0.45, G:0.13, T:0.25
Consensus pattern (25 bp):
ACCTTCTTACCACACCTGTGACGCC
Found at i:22175591 original size:40 final size:40
Alignment explanation
Indices: 22175536--22175715 Score: 229
Period size: 40 Copynumber: 4.5 Consensus size: 40
22175526 ATTATAGAAT
22175536 GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCA
1 GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCA
* * *
22175576 GAATGCACATGCGTGCCCCTGTTTGTACTTCGGTACCCCT
1 GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCA
* * * * *
22175616 TAATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCCTA
1 GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCC-A
*
22175657 -AATGCACATACGTGCCCCTATTTGTACGTT-GGTACCCCT
1 GAATGCACATACGTGCCCCTATTTGTAC-TTCGGTACCCCA
* *
22175696 GAATGCACTTCCGTGCCCCT
1 GAATGCACATACGTGCCCCT
22175716 GTTTATCTCC
Statistics
Matches: 121, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 119 0.98
41 2 0.02
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.31
Consensus pattern (40 bp):
GAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCA
Found at i:22175719 original size:80 final size:80
Alignment explanation
Indices: 22175535--22175719 Score: 257
Period size: 80 Copynumber: 2.3 Consensus size: 80
22175525 AATTATAGAA
* * * *
22175535 TGAATGCACATACGTGCCCCTATTTGTACTTCGGTACCCCAGAATGCACATGCGTGCCCCTGTTT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCAGAATGCACATACGTGCCCCTATTT
22175600 GTACTTCGGTACCCC
66 GTACTTCGGTACCCC
* * *
22175615 TTAATGCACATATGTGCCCTTGTTTGTACTTCAGTACCCCTA-AATGCACATACGTGCCCCTATT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC-AGAATGCACATACGTGCCCCTATT
22175679 TGTACGTT-GGTACCCC
65 TGTAC-TTCGGTACCCC
* *
22175695 TGAATGCACTTCCGTGCCCCTGTTT
1 TGAATGCACATACGTGCCCCTGTTT
22175720 ATCTCCAGTA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 88 0.97
81 3 0.03
ACGTcount: A:0.19, C:0.31, G:0.18, T:0.32
Consensus pattern (80 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCCAGAATGCACATACGTGCCCCTATTT
GTACTTCGGTACCCC
Found at i:22176456 original size:12 final size:12
Alignment explanation
Indices: 22176436--22176465 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
22176426 GTAGTGAGTT
22176436 ACACAGCCTAGC
1 ACACAGCCTAGC
*
22176448 ACACGGCCTAGC
1 ACACAGCCTAGC
22176460 ACACAG
1 ACACAG
22176466 GCATGTGCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.40, G:0.20, T:0.07
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:22181025 original size:22 final size:22
Alignment explanation
Indices: 22180995--22181046 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
22180985 CATCAGTGTT
*
22180995 ATCAATGGCAGTTTATCTACAA
1 ATCAGTGGCAGTTTATCTACAA
*
22181017 ATCAGTGGCAGTTTATCTATAA
1 ATCAGTGGCAGTTTATCTACAA
22181039 ATCAGTGG
1 ATCAGTGG
22181047 TGGCATGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (22 bp):
ATCAGTGGCAGTTTATCTACAA
Found at i:22181740 original size:21 final size:21
Alignment explanation
Indices: 22181716--22181756 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22181706 TGATTTTAAA
*
22181716 ATTAAATCTATTTATTTCAAT
1 ATTAAACCTATTTATTTCAAT
*
22181737 ATTATACCTATTTATTTCAA
1 ATTAAACCTATTTATTTCAA
22181757 CTCATGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAAACCTATTTATTTCAAT
Found at i:22182207 original size:26 final size:26
Alignment explanation
Indices: 22182167--22182221 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
22182157 CATTTCATCA
*
22182167 TCTCTCATTCATCCATTCTTCTCTATTT
1 TCTCTCATT-ATCCATTCTTC-CAATTT
22182195 TCTCTCATT-TCCATTCTTCCAATTT
1 TCTCTCATTATCCATTCTTCCAATTT
22182220 TC
1 TC
22182222 AAGAGAGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 7 0.27
26 10 0.38
28 9 0.35
ACGTcount: A:0.15, C:0.33, G:0.00, T:0.53
Consensus pattern (26 bp):
TCTCTCATTATCCATTCTTCCAATTT
Found at i:22185940 original size:29 final size:28
Alignment explanation
Indices: 22185905--22185982 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
22185895 TCATGAGATT
22185905 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
22185935 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
22185962 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
22185983 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:22186200 original size:174 final size:174
Alignment explanation
Indices: 22185935--22186262 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
22185925 AAATTGTACA
*
22185935 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
22186000 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
22186065 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
22186109 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
22186174 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
22186239 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
22186263 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:22194087 original size:29 final size:28
Alignment explanation
Indices: 22194051--22194128 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
22194041 TCATGAGATT
22194051 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
22194081 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
22194108 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
22194129 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:22194346 original size:174 final size:174
Alignment explanation
Indices: 22194081--22194408 Score: 595
Period size: 174 Copynumber: 1.9 Consensus size: 174
22194071 AAATTGTACA
*
22194081 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
22194146 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATT-AAGGGTGCGACCTTACCGAGTCG
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTT-CATTGAAGGGTGCGACCTTACCGAGTCA
22194210 ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 ATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
22194255 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
22194320 TGTGCGAACCCAATATATATTTTCTATAAATTATTTCATTGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTCATTGAAGGGTGCGACCTTACCGAGTCAA
22194385 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
22194409 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
173 4 0.03
174 144 0.97
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTCATTGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:22203514 original size:43 final size:42
Alignment explanation
Indices: 22203365--22203559 Score: 182
Period size: 42 Copynumber: 4.6 Consensus size: 42
22203355 TAACCATCAC
* ***
22203365 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTACAATC-AAGGAT
* * *
22203408 CCCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 -ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGAT
22203451 ACGG-GGAATCAGCA-TATAGCAAGCC-CCTTAACAATCAAGGAT
1 ACGGTGGAATCAGCACT-TAGCAA-CCACCTT-ACAATCAAGGAT
* * * **
22203493 ACGGTGGAATCAGTACTTAGCAACCACATTAGTAATCAATAAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTTA-CAATCAAGGAT
* *
22203536 TCGG-GGAATCTGCACTTAGCAACC
1 ACGGTGGAATCAGCACTTAGCAACC
22203560 CTTTTTTGAT
Statistics
Matches: 128, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
40 1 0.01
41 20 0.16
42 40 0.31
43 34 0.27
44 33 0.26
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTTACAATCAAGGAT
Found at i:22205355 original size:40 final size:41
Alignment explanation
Indices: 22205276--22205371 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 41
22205266 TGGCGCTAAC
* * *
22205276 GAAAAACGCCACAAAAGGTCAAGCAGTAGTGGCGTTTATGA
1 GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
* *
22205317 GAAAAACGCCGCAACAGGT-AACCAATAGCGGCGTTTATGA
1 GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
*
22205357 GAAAAATGCCACAAA
1 GAAAAACGCCACAAA
22205372 GTATCATTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 30 0.64
41 17 0.36
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (41 bp):
GAAAAACGCCACAAAAGGTCAACCAATAGCGGCGTTTATGA
Found at i:22207621 original size:71 final size:72
Alignment explanation
Indices: 22207465--22207832 Score: 321
Period size: 72 Copynumber: 5.1 Consensus size: 72
22207455 ATTAATTATC
* * * *
22207465 AAGTAAAGTCGTTTATTTAATTATGTGTTTTTAAAAAGGTTGATTTAGTTAAATTTATT-AAGTT
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAA-TT
*
22207529 TTGATCTT
65 TTGATATT
** * *
22207537 AAGCGAAATCGTTTATTTAATTATGTGTTTTTAAAAA-TTTAATTTAGTTCAATTTATTGAATTT
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
22207601 TGATATT
66 TGATATT
* * * * * * * * *
22207608 AAGTAGAACCGTTTATCCAATTATGTATTTTAAAAAAGGCTATTTTAGTTCAATTCATTGAGTTT
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
*
22207673 CGATATT
66 TGATATT
* * * * * * ** *
22207680 AAGTAAAATCGTTTATTCAAGTTATATG-TTTTGAGAAGATTAAATTAATTTGATTTATTGAGTT
1 AAGTAAAATCGTTTATTCAA-TTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATT
22207744 TTGATATT
65 TTGATATT
** * * * * ** *
22207752 AAGTAAAATCGTTTATTCGGTAATATGTTTTT-AGAAGGTTAGTTTAGTTTTTTATTTATTGAAA
1 AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAG--TTCAATTTATTGAAT
*
22207816 TTTGGTATT
64 TTTGATATT
*
22207825 AAATAAAA
1 AAGTAAAA
22207833 CCATTGTTTT
Statistics
Matches: 240, Mismatches: 50, Indels: 11
0.80 0.17 0.04
Matches are distributed among these distances:
71 73 0.30
72 135 0.56
73 32 0.13
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (72 bp):
AAGTAAAATCGTTTATTCAATTATGTGTTTTTAAAAAGGTTAATTTAGTTCAATTTATTGAATTT
TGATATT
Found at i:22208224 original size:36 final size:34
Alignment explanation
Indices: 22208171--22208242 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
22208161 GTATTGAAAA
*
22208171 AATAAACAAAAGAAATAA-CAAATCTTTAATATCTTT
1 AATAAAAAAAAGAAATAATC-AA--TTTAATATCTTT
22208207 AATAAAAAAATAG-AATAATCAATTTAATATCTTT
1 AATAAAAAAA-AGAAATAATCAATTTAATATCTTT
22208241 AA
1 AA
22208243 AATTCAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
34 14 0.42
36 16 0.48
37 3 0.09
ACGTcount: A:0.57, C:0.08, G:0.03, T:0.32
Consensus pattern (34 bp):
AATAAAAAAAAGAAATAATCAATTTAATATCTTT
Found at i:22208620 original size:13 final size:13
Alignment explanation
Indices: 22208598--22208627 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22208588 TATAATTAAA
22208598 AAAGTCAATATTT
1 AAAGTCAATATTT
*
22208611 AAAGTTAATATTT
1 AAAGTCAATATTT
22208624 AAAG
1 AAAG
22208628 ATGATAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (13 bp):
AAAGTCAATATTT
Done.