Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 72 of 320
Found at i:22294024 original size:27 final size:26
Alignment explanation
Indices: 22293993--22294170 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
22293983 TAAATTGTAC
22293993 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
22294020 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
22294046 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
22294074 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
22294102 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
22294129 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
22294156 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22294171 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:22294109 original size:82 final size:81
Alignment explanation
Indices: 22293994--22294149 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
22293984 AAATTGTACA
* * *
22293994 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
22294058 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22294075 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
22294140 TGCGAGTTGA
65 TGCGAATTGA
22294150 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22294161 original size:82 final size:81
Alignment explanation
Indices: 22293990--22294170 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
22293980 GATTAAATTG
* * *
22293990 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22294055 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22294071 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22294135 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22294153 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22294171 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22321682 original size:36 final size:36
Alignment explanation
Indices: 22321636--22321706 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
22321626 GGCATTGGCC
* *
22321636 ATCTTGAAAAGAAAAGAAGAGTTGTTATTAAAATTA
1 ATCTTAAAAAGAAAAGAAAAGTTGTTATTAAAATTA
*
22321672 ATCTTAAAAAGAAAGGAAAAGTTGTTATTAAAATT
1 ATCTTAAAAAGAAAAGAAAAGTTGTTATTAAAATT
22321707 CCAACGGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (36 bp):
ATCTTAAAAAGAAAAGAAAAGTTGTTATTAAAATTA
Found at i:22336284 original size:17 final size:17
Alignment explanation
Indices: 22336258--22336298 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
22336248 AGAGATGGAA
*
22336258 TCAAGAAATGTTATTTT
1 TCAAGGAATGTTATTTT
22336275 TCAAGGAATGTTATTTT
1 TCAAGGAATGTTATTTT
22336292 TCAAGGA
1 TCAAGGA
22336299 TTCTTATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (17 bp):
TCAAGGAATGTTATTTT
Found at i:22336305 original size:17 final size:17
Alignment explanation
Indices: 22336258--22336305 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
22336248 AGAGATGGAA
* *
22336258 TCAAGAAATGTTATTTT
1 TCAAGGAATCTTATTTT
*
22336275 TCAAGGAATGTTATTTT
1 TCAAGGAATCTTATTTT
*
22336292 TCAAGGATTCTTAT
1 TCAAGGAATCTTAT
22336306 GTGATCTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (17 bp):
TCAAGGAATCTTATTTT
Found at i:22350256 original size:25 final size:25
Alignment explanation
Indices: 22350158--22350262 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
22350148 GACACAACAC
* * *
22350158 AGCTCTTATGAGCATCCCGATA-TT
1 AGCTCTCACGAGCTTCCCGATATTT
* *
22350182 AGGCTCTCACGAGCTTCCTGATACTT
1 A-GCTCTCACGAGCTTCCCGATATTT
* * *
22350208 GGTTCTCACGAGCTTCCCGTTATTT
1 AGCTCTCACGAGCTTCCCGATATTT
* *
22350233 AGCTCTCATGAGCTTCCCAATATTT
1 AGCTCTCACGAGCTTCCCGATATTT
*
22350258 GGCTC
1 AGCTC
22350263 GTAAGAGCTT
Statistics
Matches: 64, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
24 1 0.02
25 61 0.95
26 2 0.03
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (25 bp):
AGCTCTCACGAGCTTCCCGATATTT
Found at i:22350271 original size:50 final size:50
Alignment explanation
Indices: 22350217--22350332 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 50
22350207 TGGTTCTCAC
** * * * *
22350217 GAGCTTCCCGTTATTTAGCTCTCATGAGCTTCCCAATATTTGGCTCGTAA
1 GAGCTTCCCGTTATACAACTCACATGAGCTTCCCAATATATGGCTCGGAA
* * **
22350267 GAGCTTCTCGTTATACAACTCACGTGAGCTTCCCGTTATATGGCTCGGAA
1 GAGCTTCCCGTTATACAACTCACATGAGCTTCCCAATATATGGCTCGGAA
22350317 GAGCTTCCCGTT-TACA
1 GAGCTTCCCGTTATACA
22350333 TGTTTGTATA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
49 4 0.07
50 51 0.93
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (50 bp):
GAGCTTCCCGTTATACAACTCACATGAGCTTCCCAATATATGGCTCGGAA
Found at i:22353580 original size:42 final size:42
Alignment explanation
Indices: 22353472--22353592 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 42
22353462 TAAGATTCCG
* * * * *
22353472 TATAAGACCATATCCGGGATAAGGCCTCGGTATG-TGATTTCA
1 TATAAGACCATATCAGGGATATGGCATTGATATGAT-ATTTCA
* * * *
22353514 TATAAGACCATGTCAAGGACATGGCGTTGATATGATATTTCA
1 TATAAGACCATATCAGGGATATGGCATTGATATGATATTTCA
* * *
22353556 TGTAAGACCATATCGGGGATATGGCATTGAAATGATA
1 TATAAGACCATATCAGGGATATGGCATTGATATGATA
22353593 CTATATGTAT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 62 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
TATAAGACCATATCAGGGATATGGCATTGATATGATATTTCA
Found at i:22370122 original size:13 final size:13
Alignment explanation
Indices: 22370092--22370116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22370082 TCAACCGAGA
22370092 ATGTGTATTCGGT
1 ATGTGTATTCGGT
22370105 ATGTGTATTCGG
1 ATGTGTATTCGG
22370117 CTTGTGAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.32, T:0.44
Consensus pattern (13 bp):
ATGTGTATTCGGT
Found at i:22377305 original size:14 final size:14
Alignment explanation
Indices: 22377286--22377312 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22377276 ATATTTGACT
22377286 TGTTCTTAATTCTA
1 TGTTCTTAATTCTA
22377300 TGTTCTTAATTCT
1 TGTTCTTAATTCT
22377313 TATTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.15, G:0.07, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTCTA
Found at i:22382400 original size:55 final size:55
Alignment explanation
Indices: 22382340--22382461 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 55
22382330 ATGCAAGCCC
* * *
22382340 CACGCCCGTGTTAATTTAACAGGTTCGACCACGGGTGTTAGACACGGGCGTGTCT
1 CACGCCCGTGTTAATTTAACAGGTTCAACCACGGGTCTTAGACACGGGCGTGTCG
* * ** * **
22382395 CACGCCCGTGCTAGTTTCTCAGTTTCAACCACGGGTCTTCTACACGGGCGTGTCG
1 CACGCCCGTGTTAATTTAACAGGTTCAACCACGGGTCTTAGACACGGGCGTGTCG
*
22382450 CACGCCCATGTT
1 CACGCCCGTGTT
22382462 GTTTTGGCAG
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.17, C:0.30, G:0.26, T:0.26
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTAACAGGTTCAACCACGGGTCTTAGACACGGGCGTGTCG
Found at i:22386335 original size:16 final size:16
Alignment explanation
Indices: 22386299--22386329 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22386289 AACATCTCAG
*
22386299 AAAAATAAAGAATACA
1 AAAAATAAAGAAAACA
22386315 AAAAATAAAGAAAAC
1 AAAAATAAAGAAAAC
22386330 CCAAAACTCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAAATAAAGAAAACA
Found at i:22391833 original size:18 final size:18
Alignment explanation
Indices: 22391810--22391848 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
22391800 TCTCGACCTT
22391810 GCTTACTTCATCGCCCTC
1 GCTTACTTCATCGCCCTC
22391828 GCTTACTTCATCGCCCTC
1 GCTTACTTCATCGCCCTC
22391846 GCT
1 GCT
22391849 ATCCTCCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.44, G:0.13, T:0.33
Consensus pattern (18 bp):
GCTTACTTCATCGCCCTC
Found at i:22403710 original size:25 final size:25
Alignment explanation
Indices: 22403682--22403800 Score: 134
Period size: 25 Copynumber: 4.8 Consensus size: 25
22403672 CAGCTCTTAT
*
22403682 GAGCGTCCCGATATTTGGCTCTCAC
1 GAGCTTCCCGATATTTGGCTCTCAC
*
22403707 GAGCTTCCCGATACTTGGCTCTCAC
1 GAGCTTCCCGATATTTGGCTCTCAC
* * * *
22403732 GAGCTTCTCGTTATTTAGCTCTCAT
1 GAGCTTCCCGATATTTGGCTCTCAC
* *
22403757 GAGCTTCCCGAT-TAATGGCTCTC-T
1 GAGCTTCCCGATAT-TTGGCTCTCAC
*
22403781 TAGCTTCCCGATATTTGGCT
1 GAGCTTCCCGATATTTGGCT
22403801 TGCAAGAGCT
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
24 18 0.23
25 61 0.77
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.34
Consensus pattern (25 bp):
GAGCTTCCCGATATTTGGCTCTCAC
Found at i:22403818 original size:74 final size:75
Alignment explanation
Indices: 22403673--22403819 Score: 176
Period size: 74 Copynumber: 2.0 Consensus size: 75
22403663 GACACACCAC
* * *
22403673 AGCTCTTATGAGCGTCCCGATATTTGGCTCTCACGAGCTTCCCGATACTTGGCTCTCACGAGCTT
1 AGCTCTCATGAGCGTCCCGATATATGGCTCTCACGAGCTTCCCGATACTTGGCTCTCAAGAGCTT
22403738 CTCGTTATTT
66 CTCGTTATTT
* ** *
22403748 AGCTCTCATGAGCTTCCCGAT-TAATGGCTCTC-TTAGCTTCCCGATATTTGGCT-TGCAAGAGC
1 AGCTCTCATGAGCGTCCCGATAT-ATGGCTCTCACGAGCTTCCCGATACTTGGCTCT-CAAGAGC
22403810 TT-TCCGTTAT
64 TTCT-CGTTAT
22403820 ACAACTTACA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
73 2 0.03
74 33 0.53
75 27 0.44
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (75 bp):
AGCTCTCATGAGCGTCCCGATATATGGCTCTCACGAGCTTCCCGATACTTGGCTCTCAAGAGCTT
CTCGTTATTT
Found at i:22416655 original size:17 final size:16
Alignment explanation
Indices: 22416635--22416680 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
22416625 TATTTATCTA
22416635 ATTATATTTCTATTATT
1 ATTATATTTCTATT-TT
22416652 ATTATATTTCTA-TTT
1 ATTATATTTCTATTTT
*
22416667 ATTGTATTTCTATT
1 ATTATATTTCTATT
22416681 CCTATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 13 0.48
16 2 0.07
17 12 0.44
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (16 bp):
ATTATATTTCTATTTT
Found at i:22416944 original size:26 final size:25
Alignment explanation
Indices: 22416915--22416973 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
22416905 ATATTATTTA
*
22416915 TTTTTATCGTTTTACCTATTTTAAAC
1 TTTTTATC-TATTACCTATTTTAAAC
* * *
22416941 TTTTATATCTATTACTTGTTTTAAAG
1 TTTT-TATCTATTACCTATTTTAAAC
22416967 TTTTTAT
1 TTTTTAT
22416974 ATTGTTTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.11
26 21 0.75
27 4 0.14
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.61
Consensus pattern (25 bp):
TTTTTATCTATTACCTATTTTAAAC
Found at i:22424054 original size:45 final size:45
Alignment explanation
Indices: 22424005--22424090 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
22423995 GAAGCAAACT
* * *
22424005 GAAAATTACAGATCTTATCTCTATTTATCGGCTATGGAGCATATC
1 GAAAATGACAGATCTTATCTCCATGTATCGGCTATGGAGCATATC
* * *
22424050 GAAAATGGCGGGTCTTATCTCCATGTATCGGCTATGGAGCA
1 GAAAATGACAGATCTTATCTCCATGTATCGGCTATGGAGCA
22424091 GATTTTAGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (45 bp):
GAAAATGACAGATCTTATCTCCATGTATCGGCTATGGAGCATATC
Found at i:22424216 original size:133 final size:133
Alignment explanation
Indices: 22424062--22424360 Score: 420
Period size: 133 Copynumber: 2.2 Consensus size: 133
22424052 AAATGGCGGG
* *
22424062 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAAGTAGCA
* *
22424127 AGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAGGTAG-AAAGGAAACAGACTGAAAATTA
66 AGAGAGCAGGTTGAAGATAAAAGTCTTATCTTCCTGAGATAGCAAA-GAAACAGACTGAAAATTA
*
22424191 TAGA
130 CAGA
* * * *
22424195 TCTTATCTCTATGTATTGGCTATGGAGCAGATTTTAGCCACCGGTATTATCTCTCTGAAGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAAGTAGCA
* * * **
22424260 AGAGAGCAGGTTGAAGATAAAAGTCTTCTTTTCTTGAGATAGCAAAGAAGTAGACTGAAAATTAC
66 AGAGAGCAGGTTGAAGATAAAAGTCTTATCTTCCTGAGATAGCAAAGAAACAGACTGAAAATTAC
22424325 AGA
131 AGA
* ** *
22424328 TCTTATCTCCTTGTATCAACTATGGAACAGATT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATT
22424361 GAAAATGGAG
Statistics
Matches: 145, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
133 142 0.98
134 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (133 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAAGTAGCA
AGAGAGCAGGTTGAAGATAAAAGTCTTATCTTCCTGAGATAGCAAAGAAACAGACTGAAAATTAC
AGA
Found at i:22424498 original size:44 final size:44
Alignment explanation
Indices: 22424416--22424499 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
22424406 TTAGCCATCG
* *
22424416 GCCTTATCTTTCTGAGGTAGCAAGAGAGCAGGTCGAAAATACAA
1 GCCTTATCTTTCTGAGATAGCAAGAGAGCAGCTCGAAAATACAA
22424460 GCCTTATC-TTCTTGAGATAGCAAG-GAAGCAGACT-GAAAAT
1 GCCTTATCTTTC-TGAGATAGCAAGAG-AGCAG-CTCGAAAAT
22424500 TACAGATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
43 4 0.11
44 30 0.86
45 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (44 bp):
GCCTTATCTTTCTGAGATAGCAAGAGAGCAGCTCGAAAATACAA
Found at i:22424514 original size:178 final size:178
Alignment explanation
Indices: 22424195--22424515 Score: 489
Period size: 178 Copynumber: 1.8 Consensus size: 178
22424185 AAATTATAGA
* * * *
22424195 TCTTATCTCTATGTATTGGCTATGGAGCAGATTTTAGCCACCGGTATTATCTCTCTGAAGTAGCA
1 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACCGGCATTATCTCTCTGAAGTAGCA
* * * * * *
22424260 AGAGAGCAGGTTGAAGATAAAAGTCTTCTTTTCTTGAGATAGCAAAGAAGTAGACTGAAAATTAC
66 AGAGAGCAGGTCGAAAATAAAAGCCTTATCTTCTTGAGATAGCAAAGAAGCAGACTGAAAATTAC
22424325 AGATCTTATCTCCTTGTATCAACTATGGAACAGATTGAAAATGGAGAG
131 AGATCTTATCTCCTTGTATCAACTATGGAACAGATTGAAAATGGAGAG
* * * *
22424373 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCATCGGCCTTATCTTTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACCGGCATTATCTCTCTGAAGTAGCA
* *
22424438 AGAGAGCAGGTCGAAAATACAAGCCTTATCTTCTTGAGATAGCAAGGAAGCAGACTGAAAATTAC
66 AGAGAGCAGGTCGAAAATAAAAGCCTTATCTTCTTGAGATAGCAAAGAAGCAGACTGAAAATTAC
*
22424503 AGATTTTATCTCC
131 AGATCTTATCTCC
22424516 CTAAACAGTA
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
178 126 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (178 bp):
TCTTATCTCCATGTATCGACTATGGAGCAGATTTTAGCCACCGGCATTATCTCTCTGAAGTAGCA
AGAGAGCAGGTCGAAAATAAAAGCCTTATCTTCTTGAGATAGCAAAGAAGCAGACTGAAAATTAC
AGATCTTATCTCCTTGTATCAACTATGGAACAGATTGAAAATGGAGAG
Found at i:22424824 original size:44 final size:44
Alignment explanation
Indices: 22424512--22424830 Score: 147
Period size: 44 Copynumber: 7.2 Consensus size: 44
22424502 CAGATTTTAT
* * * *
22424512 CTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAG
1 CTCCCTAAGCAGTAGTGGAACAGATCGAAGACAGTGAGCCTTAA
* * * * * * * *
22424556 CCCCCTAAGTAGTAG-GGTAATAG-GCTGAA-A-ATTACAGATCTTAT
1 CTCCCTAAGCAGTAGTGG-AACAGATC-GAAGACAGT-GAG-CCTTAA
* * * *
22424600 CTCCTTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAGCCTTAA
1 CTCCCTAAGCAGTAGTGGAACAGATCGAAGACAGTGAGCCTTAA
* * * ** *
22424644 CCCCCTAAGCAGTAG-GGTAACAG-GCTGAA-A-ATTGTAGATATTAT
1 CTCCCTAAGCAGTAGTGG-AACAGATC-GAAGACAGTG-AG-CCTTAA
* * *
22424688 CTCCTTAAGCAGTAGTGGACCAGATCGAAGACGGTGAGCCTTAA
1 CTCCCTAAGCAGTAGTGGAACAGATCGAAGACAGTGAGCCTTAA
* * ** * * * *
22424732 CCCCCTAAGCAGTAG-GGTAACAG-GCGGGGA-ATTACAGATCTTAT
1 CTCCCTAAGCAGTAGTGG-AACAGATCGAAGACAGT-GAG-CCTTAA
* *
22424776 CTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAA
1 CTCCCTAAGCAGTAGTGGAACAGATCGAAGACAGTGAGCCTTAA
22424820 CTCCCTAAGCA
1 CTCCCTAAGCA
22424831 ATAAGGTAAC
Statistics
Matches: 189, Mismatches: 64, Indels: 44
0.64 0.22 0.15
Matches are distributed among these distances:
42 4 0.02
43 20 0.11
44 140 0.74
45 20 0.11
46 5 0.03
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (44 bp):
CTCCCTAAGCAGTAGTGGAACAGATCGAAGACAGTGAGCCTTAA
Found at i:22424878 original size:88 final size:88
Alignment explanation
Indices: 22424492--22424878 Score: 567
Period size: 88 Copynumber: 4.4 Consensus size: 88
22424482 AGGAAGCAGA
* * *
22424492 CTGAAAATTACAGATTTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAGC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
* *
22424557 CCCCTAAGTAGTAGGGTAATAGG
66 CCCCTAAGCAGTAGGGTAACAGG
* *
22424580 CTGAAAATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
22424645 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAGG
** * * *
22424668 CTGAAAATTGTAGATATTATCTCCTTAAGCAGTAGTGGACCAGATCGAAGACGGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
22424733 CCCCTAAGCAGTAGGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAGG
* ** * *
22424756 CGGGGAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAAC
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
* * *
22424821 TCCCTAAGCAATAAGGTAACAGG
66 CCCCTAAGCAGTAGGGTAACAGG
* * *
22424844 CTAAAAATTACAGATCTTATCCCCCTAAGTAGTAG
1 CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
22424879 AGAAACTAAC
Statistics
Matches: 267, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 267 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (88 bp):
CTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAAC
CCCCTAAGCAGTAGGGTAACAGG
Found at i:22425949 original size:15 final size:15
Alignment explanation
Indices: 22425917--22425962 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
22425907 ATTTATCTAT
22425917 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
22425934 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
22425949 TTGTATTTCTATTT
1 TTATATTTCTATTT
22425963 CTATTCCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:22426234 original size:26 final size:25
Alignment explanation
Indices: 22426204--22426263 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
22426194 TATATTATTT
*
22426204 ATTTTTATCGTTTTACCTATTTTAAA
1 ATTTTTATC-TATTACCTATTTTAAA
* * *
22426230 CTTTTATATCTATTACTTGTTTTAAA
1 ATTTT-TATCTATTACCTATTTTAAA
22426256 ATTTTTAT
1 ATTTTTAT
22426264 ATTGTTTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 3 0.11
26 21 0.75
27 4 0.14
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (25 bp):
ATTTTTATCTATTACCTATTTTAAA
Found at i:22428332 original size:14 final size:14
Alignment explanation
Indices: 22428294--22428336 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
22428284 CAAAATGTAC
22428294 AATATAATTAAA-T
1 AATATAATTAAATT
22428307 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
22428322 AA-ATAATTTAATT
1 AATATAATTAAATT
22428335 AA
1 AA
22428337 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:22432435 original size:12 final size:12
Alignment explanation
Indices: 22432418--22432444 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
22432408 TACTTATTCT
22432418 TTCTCTATGATA
1 TTCTCTATGATA
22432430 TTCTCTATGATA
1 TTCTCTATGATA
22432442 TTC
1 TTC
22432445 CAATCACCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (12 bp):
TTCTCTATGATA
Found at i:22434630 original size:20 final size:19
Alignment explanation
Indices: 22434595--22434644 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
22434585 TTTGTGATCT
22434595 AAACTCTATCATCCTCTCA
1 AAACTCTATCATCCTCTCA
*
22434614 AAACTCATATTATCCTCTCA
1 AAACTC-TATCATCCTCTCA
22434634 AAACTCTATCA
1 AAACTCTATCA
22434645 AATTCTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (19 bp):
AAACTCTATCATCCTCTCA
Found at i:22437746 original size:22 final size:23
Alignment explanation
Indices: 22437710--22437756 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
22437700 TACTAAAAGT
22437710 TTTCAAAAACAAAATAAAGGTGA
1 TTTCAAAAACAAAATAAAGGTGA
*
22437733 TTTCAAAAAC-AAATATAGGTGA
1 TTTCAAAAACAAAATAAAGGTGA
22437755 TT
1 TT
22437757 ATGTTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.28
Consensus pattern (23 bp):
TTTCAAAAACAAAATAAAGGTGA
Found at i:22454566 original size:48 final size:48
Alignment explanation
Indices: 22454494--22454811 Score: 415
Period size: 48 Copynumber: 6.6 Consensus size: 48
22454484 TATGTGTGTT
* * *
22454494 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
* * * *
22454542 AGTGTAAGACCATCTTTGGAACATGGCATCGACAATATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
* * *
22454590 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
*
22454638 AGTGTAAGACCATGTTTGGAACATGGCATCAG-CA-ATGTAATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACAT-T-ATGAGAGCC
* ** *
22454686 AGTGTAAGACTATGCCTGGAACATGACATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
* ** *
22454734 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTACGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
* *
22454782 AGAGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTTTGGAACATGGCATC
22454812 AACATTGAGA
Statistics
Matches: 235, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
46 2 0.01
47 3 0.01
48 225 0.96
49 3 0.01
50 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGCCACATTATGAGAGCC
Found at i:22454658 original size:96 final size:96
Alignment explanation
Indices: 22454494--22454811 Score: 503
Period size: 96 Copynumber: 3.3 Consensus size: 96
22454484 TATGTGTGTT
* *
22454494 AGTGTAAGACCATGTCTGGGACATGGCATTGGCCACATTATGAGAGCCAGTGTAAGACCATCTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTT
*
22454559 GGAACATGGCATCGACAATATTATGAGAGCC
66 GGAACATGGCATCGACAATGTTATGAGAGCC
*
22454590 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTT
*
22454655 GGAACATGGCATC-AGCAATGTAATGAGAGCC
66 GGAACATGGCATCGA-CAATGTTATGAGAGCC
* * * *
22454686 AGTGTAAGACTATGCCTGGAACATGACATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTT
* *
22454751 GGAACATGGCATCGGCAATGTTACGAGAGCC
66 GGAACATGGCATCGACAATGTTATGAGAGCC
* *
22454782 AGAGTAAGACCATGTTTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
22454812 AACATTGAGA
Statistics
Matches: 201, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
95 1 0.00
96 200 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTTT
GGAACATGGCATCGACAATGTTATGAGAGCC
Found at i:22454853 original size:48 final size:47
Alignment explanation
Indices: 22454535--22454854 Score: 195
Period size: 48 Copynumber: 6.7 Consensus size: 47
22454525 GCCACATTAT
* * * * *
22454535 GAGAGCCAGTGTAAGACCATCTTTGGAACATGGCATCGACAAT-ATTAT
1 GAGAGCCAGTATAAGACCATGTTTGG-ACATGGCATCAACAATGA-GAC
* * * * *
22454583 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAT--TAT
1 GAGAGCCAGTATAAGACCATGT-TTGGACATGGCATC-AACA-ATGAGAC
* * *
22454631 GAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCAATGTA-AT
1 GAGAGCCAGTATAAGACCATGTTTGG-ACATGGCATCAACAATG-AGAC
* * ** * ** * *
22454679 GAGAGCCAGTGTAAGACTATGCCTGGAACATGACATCGGCCACAT--TAT
1 GAGAGCCAGTATAAGACCATGTTTGG-ACATGGCATC-AACA-ATGAGAC
* ** **
22454727 GAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTAC
1 GAGAGCCAGTATAAGACCATGTTTGG-ACATGGCATCAACAATGAGAC
*
22454775 GAGAGCCAG-AGTAAGACCATGTTTGGGACATGGCATCAACATTGAGAC
1 GAGAGCCAGTA-TAAGACCATGTTT-GGACATGGCATCAACAATGAGAC
* *
22454823 GAGAGCTAGTATAAGACCATGTTAGAGACATG
1 GAGAGCCAGTATAAGACCATGTTTG-GACATG
22454855 ACATTGGCCT
Statistics
Matches: 230, Mismatches: 26, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
46 4 0.02
47 10 0.04
48 202 0.88
49 10 0.04
50 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (47 bp):
GAGAGCCAGTATAAGACCATGTTTGGACATGGCATCAACAATGAGAC
Found at i:22454854 original size:144 final size:144
Alignment explanation
Indices: 22454535--22454863 Score: 385
Period size: 144 Copynumber: 2.3 Consensus size: 144
22454525 GCCACATTAT
* * * * * * *
22454535 GAGAGCCAGTGTAAGACCAT-CTTTGGAACATGGCATCGACAATATTATGAGAGCCAGTGTAAGA
1 GAGAGCCAGTATAAGACCATGC-CTAGAACATGACATCGGCCACATTATGAGAGCCAGTGTAAGA
* * * *
22454599 CCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTGTAAGACCATGTTTGGAACATGG
65 CCATGTCTGGAACATGGCATCGACAACATTACGAGAGCCAGAGTAAGACCATGTTTGGAACATGG
* *
22454664 CATCAGCAATGTAAT
130 CATCAACAATGTAAC
* * *
22454679 GAGAGCCAGTGTAAGACTATGCCTGGAACATGACATCGGCCACATTATGAGAGCCAGTGTAAGAC
1 GAGAGCCAGTATAAGACCATGCCTAGAACATGACATCGGCCACATTATGAGAGCCAGTGTAAGAC
* * ** *
22454744 CATGTTTGGAACATGGCATCGGCAATGTTACGAGAGCCAGAGTAAGACCATGTTTGGGACATGGC
66 CATGTCTGGAACATGGCATCGACAACATTACGAGAGCCAGAGTAAGACCATGTTTGGAACATGGC
*
22454809 ATCAACATTG-AGAC
131 ATCAACAATGTA-AC
* * *
22454823 GAGAGCTAGTATAAGACCATG-TTAGAGACATGACATTGGCC
1 GAGAGCCAGTATAAGACCATGCCTAGA-ACATGACATCGGCC
22454864 TCGACATGTA
Statistics
Matches: 158, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
143 4 0.03
144 153 0.97
145 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (144 bp):
GAGAGCCAGTATAAGACCATGCCTAGAACATGACATCGGCCACATTATGAGAGCCAGTGTAAGAC
CATGTCTGGAACATGGCATCGACAACATTACGAGAGCCAGAGTAAGACCATGTTTGGAACATGGC
ATCAACAATGTAAC
Found at i:22454908 original size:144 final size:142
Alignment explanation
Indices: 22454535--22454917 Score: 373
Period size: 144 Copynumber: 2.7 Consensus size: 142
22454525 GCCACATTAT
* * * * * * * *
22454535 GAGAGCCAGTGTAAGACCAT-CTTTGGAACATGGCATCGACAATATTATGAGAGCCAGTGTAAGA
1 GAGAGCCAGTATAAGACCATGC-CTAGAACATGACATCGGCCACATCATGAGAGCCAGTGTAAGA
* * *
22454599 CCATGTCTGGGACATGGCATCGACCACA-TTATGAGAGCCAGTGTAAGACCATGTTTGGAACATG
65 CCATGTCT-GGACATGGCATCG-GCA-ATTTACGAGAGCCAGAGTAAGACCATGTTTGGAACATG
* *
22454663 GCATCAGCAATGTAAT
127 GCATCAACAATGTAAC
* * * *
22454679 GAGAGCCAGTGTAAGACTATGCCTGGAACATGACATCGGCCACATTATGAGAGCCAGTGTAAGAC
1 GAGAGCCAGTATAAGACCATGCCTAGAACATGACATCGGCCACATCATGAGAGCCAGTGTAAGAC
* *
22454744 CATGTTTGGAACATGGCATCGGCAATGTTACGAGAGCCAGAGTAAGACCATGTTTGGGACATGGC
66 CATGTCTGG-ACATGGCATCGGCAAT-TTACGAGAGCCAGAGTAAGACCATGTTTGGAACATGGC
*
22454809 ATCAACATTG-AGAC
129 ATCAACAATGTA-AC
* * * * *
22454823 GAGAGCTAGTATAAGACCATG-TTAGAGACATGACATTGGCCTCGA-CATGTA-AGCTAGTGTAA
1 GAGAGCCAGTATAAGACCATGCCTAGA-ACATGACATCGGCCAC-ATCATG-AGAGCCAGTGTAA
* **
22454885 GACCATGCCTGAGACATTTCATCGGCAATTTAC
63 GACCATGTCTG-GACATGGCATCGGCAATTTAC
22454918 CCTCTTGTGT
Statistics
Matches: 203, Mismatches: 27, Indels: 19
0.82 0.11 0.08
Matches are distributed among these distances:
142 1 0.00
143 12 0.06
144 186 0.92
145 4 0.02
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (142 bp):
GAGAGCCAGTATAAGACCATGCCTAGAACATGACATCGGCCACATCATGAGAGCCAGTGTAAGAC
CATGTCTGGACATGGCATCGGCAATTTACGAGAGCCAGAGTAAGACCATGTTTGGAACATGGCAT
CAACAATGTAAC
Found at i:22462483 original size:48 final size:48
Alignment explanation
Indices: 22462409--22462582 Score: 197
Period size: 48 Copynumber: 3.6 Consensus size: 48
22462399 TATGTGTGTT
* * *
22462409 AGTGTAAGACCATGTCTAGG-ACATGGCATTGGTCACATTATGAGAGCC
1 AGTGTAAGACCATGT-TTGGAACATGGCATCGGACACATTATGAGAGCC
* * * * * **
22462457 AATGTAAGATCATCTTTGGAACATGGCATCGAAAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGACACATTATGAGAGCC
* * * * *
22462505 AGTGTAAGACCATGTCTGGGACATTGCATCGGCCACATTATAAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGACACATTATGAGAGCC
22462553 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTTTGGAACATGGCATC
22462583 AGCAATGTTT
Statistics
Matches: 100, Mismatches: 25, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
47 3 0.03
48 97 0.97
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGACACATTATGAGAGCC
Found at i:22462573 original size:96 final size:96
Alignment explanation
Indices: 22462409--22462632 Score: 297
Period size: 96 Copynumber: 2.3 Consensus size: 96
22462399 TATGTGTGTT
* * * * *
22462409 AGTGTAAGACCATGTCTAGGACATGGCATTGGTCACATTATGAGAGCCAATGTAAGATCATCTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATAAGAGCCAATGTAAGACCATCTTT
22462474 GGAACATGGCATC-GAAAATGTTATGAGAGCC
66 GGAACATGGCATCAG-AAATGTTATGAGAGCC
* * *
22462505 AGTGTAAGACCATGTCTGGGACATTGCATCGGCCACATTATAAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATAAGAGCCAATGTAAGACCATCTTT
* * *
22462570 GGAACATGGCATCAGCAATGTTTTGAGAGCG
66 GGAACATGGCATCAGAAATGTTATGAGAGCC
** *
22462601 AAAGTAAGACCATATCTTGGGACATGGCATCG
1 AGTGTAAGACCATGTC-TGGGACATGGCATCG
22462633 ACATTGAGAC
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
96 96 0.86
97 15 0.14
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATAAGAGCCAATGTAAGACCATCTTT
GGAACATGGCATCAGAAATGTTATGAGAGCC
Found at i:22462599 original size:48 final size:47
Alignment explanation
Indices: 22462446--22462632 Score: 185
Period size: 48 Copynumber: 3.9 Consensus size: 47
22462436 ATTGGTCACA
* * *
22462446 TTATGAGAGCCAATGTAAGATCATCTTTGGAACATGGCATCGAAAATG
1 TTATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCG-CAATG
* * * * * **
22462494 TTATGAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCGGCCACA
1 TTATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATC-GCAATG
* *
22462542 TTATAAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCAATG
1 TTATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATC-GCAATG
* * * * *
22462590 TTTTGAGAGCGAAAGTAAGACCATATCTTGGGACATGGCATCG
1 TTATGAGAGCCAATGTAAGACCATGT-TTGGAACATGGCATCG
22462633 ACATTGAGAC
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
48 97 0.87
49 15 0.13
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (47 bp):
TTATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGCAATG
Found at i:22468592 original size:26 final size:26
Alignment explanation
Indices: 22468543--22468594 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22468533 AAATATGCAT
**
22468543 ACAATATTACAAAATATATGTAACAA
1 ACAATATTACAAAATATACATAACAA
22468569 ACAATATTA-AAATATATACATAACAA
1 ACAATATTACAAA-ATATACATAACAA
22468595 CAAAAGTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.27
Consensus pattern (26 bp):
ACAATATTACAAAATATACATAACAA
Found at i:22469438 original size:11 final size:11
Alignment explanation
Indices: 22469424--22469448 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
22469414 AAATTTTAGA
22469424 TTTTTTTTGTT
1 TTTTTTTTGTT
22469435 TTTTTTTTGTT
1 TTTTTTTTGTT
22469446 TTT
1 TTT
22469449 ATATCTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:22478294 original size:17 final size:17
Alignment explanation
Indices: 22478272--22478313 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
22478262 GCTATTTGGT
*
22478272 AATTTTCCATTCTTCTC
1 AATTTTCAATTCTTCTC
22478289 AATTTTCAATTCTTCTC
1 AATTTTCAATTCTTCTC
22478306 AATTTTCA
1 AATTTTCA
22478314 CTCGATCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTTTCAATTCTTCTC
Found at i:22480692 original size:48 final size:48
Alignment explanation
Indices: 22480628--22481005 Score: 350
Period size: 48 Copynumber: 7.9 Consensus size: 48
22480618 TAAATTGCCA
* * * *
22480628 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCG
* * * * ***
22480676 ATGACATGTCCTAGACATGGTCTTAAACTAGCTCTCATAAT-GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAACGCCG
* * * *
22480724 TTGCCGTGTCCCAGACATGGTCTTACACTAGCAT-ACATATCGACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATCAACGCCG
* * * *
22480772 ATGCCATCTCCCAGACATGGTTTTACACTAGCGCACCTATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCG
* ** *
22480820 ATGCCATGTCCC-GAACATGGTCTTACACTAGCGCACATATTGACACCG
1 ATGCCATGTCCCAG-ACATGGTCTTACACTAGCTCACATATCAACGCCG
* * * *
22480868 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACCTATCAACACCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCG
* * * * * **
22480916 ATGCCGTTTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCG
* * * *
22480964 ATACCATGTTCCAAACATGGTCTTACACTGGCAT-ACATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TCACATATCA
22481006 CCCAATGTCA
Statistics
Matches: 269, Mismatches: 54, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
47 3 0.01
48 262 0.97
49 4 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAACGCCG
Found at i:22480888 original size:144 final size:143
Alignment explanation
Indices: 22480625--22480992 Score: 439
Period size: 144 Copynumber: 2.6 Consensus size: 143
22480615 AGGTAAATTG
* * * * *
22480625 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGACATGTCCTAG
1 CCAATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCC-AA
* * * *** * *
22480690 ACATGGTCTTAAACTAGCTCTCATAATGTGGCCGTTGCCGTGTCCCAGACATGGTCTTACACTAG
65 ACATGGTCTTACACTAGCGCACATAATGACACCGATGCCATGTCCCAGACATGGTCTTACACTAG
* *
22480755 CATACATATCGACA
130 CACACATATCAACA
* * * * * * *
22480769 CCGATGCCATCTCCCAGACATGGTTTTACACTAGCGCACCTATCAACGCCGATGCCATGTCCCGA
1 CCAATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGT-CCAA
*
22480834 ACATGGTCTTACACTAGCGCACATATTGACACCGATGCCATGTCCCAGACATGGTCTTACACTAG
65 ACATGGTCTTACACTAGCGCACATAATGACACCGATGCCATGTCCCAGACATGGTCTTACACTAG
*
22480899 CACACCTATCAACA
130 CACACATATCAACA
* * * * * *
22480913 CCAATGCCGTTTCCCAGACATGGTCTTACACTGGCTCTCATAACATTGCCGATACCATGTTCCAA
1 CCAATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATG-TCCAA
22480978 ACATGGTCTTACACT
65 ACATGGTCTTACACT
22480993 GGCATACATA
Statistics
Matches: 186, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
144 183 0.98
145 3 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (143 bp):
CCAATGCCATCTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCAAA
CATGGTCTTACACTAGCGCACATAATGACACCGATGCCATGTCCCAGACATGGTCTTACACTAGC
ACACATATCAACA
Found at i:22488485 original size:48 final size:48
Alignment explanation
Indices: 22488431--22488698 Score: 220
Period size: 48 Copynumber: 5.6 Consensus size: 48
22488421 AAATTGCTGG
* * *
22488431 TGCCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAATGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCGCTCATATCAATGTCGA
* **
22488479 TGCCATGTCCCAGACATGGTCTTACA-TTG-GCTC-TCAT-AATGTGGCCTT
1 TGCCATGTCCCAGACATGGTCTTACACTAGCGCTCAT-ATCAATGT---CGA
* * * * * * * * *
22488527 TACCGTGTCCCAGACATAGTCCTGCACTAGCGCACATATCGACGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCGCTCATATCAATGTCGA
* * * *
22488575 TACCATGTCCCAGACATGATCTTACACTAGCGCACTTATCAATGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCGCTCATATCAATGTCGA
* * * * * * *
22488623 TGCCATGTCCCGGACATGGTCTTACAATGGCTCTCATAACATTGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTAGCGCTCATATCAATGTCGA
* *
22488671 TGCCATGTACCAAACATGGTCTTACACT
1 TGCCATGTCCCAGACATGGTCTTACACT
22488699 GGCACACATA
Statistics
Matches: 171, Mismatches: 41, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
45 6 0.04
46 4 0.02
47 2 0.01
48 149 0.87
49 2 0.01
50 5 0.03
51 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
TGCCATGTCCCAGACATGGTCTTACACTAGCGCTCATATCAATGTCGA
Found at i:22488707 original size:144 final size:144
Alignment explanation
Indices: 22488433--22488710 Score: 367
Period size: 144 Copynumber: 1.9 Consensus size: 144
22488423 ATTGCTGGTG
* * *
22488433 CCATGTCCCAGACATGGTCTTACACTAGCACTCGTCTCAATGTCGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGATCTTACACTAGCACACGTATCAATGTCGATGCCATGTCCCAGACATGG
* ** ** * * * * *
22488498 TCTTACATTGGCTCTCATAATGTGGCCTTTACCGTGTCCCAGACATAGTCCTGCACTAGCGCACA
66 TCTTACAATGGCTCTCATAACATGGCCGATACCATGTACCAAACATAGTCCTACACTAGCACACA
22488563 TATCGACGCCGATA
131 TATCGACGCCGATA
* * *
22488577 CCATGTCCCAGACATGATCTTACACTAGCGCACTTATCAATGTCGATGCCATGTCCCGGACATGG
1 CCATGTCCCAGACATGATCTTACACTAGCACACGTATCAATGTCGATGCCATGTCCCAGACATGG
* * * * *
22488642 TCTTACAATGGCTCTCATAACATTGCCGATGCCATGTACCAAACATGGTCTTACACTGGCACACA
66 TCTTACAATGGCTCTCATAACATGGCCGATACCATGTACCAAACATAGTCCTACACTAGCACACA
22488707 TATC
131 TATC
22488711 ACCCAATGTC
Statistics
Matches: 113, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
144 113 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (144 bp):
CCATGTCCCAGACATGATCTTACACTAGCACACGTATCAATGTCGATGCCATGTCCCAGACATGG
TCTTACAATGGCTCTCATAACATGGCCGATACCATGTACCAAACATAGTCCTACACTAGCACACA
TATCGACGCCGATA
Found at i:22492245 original size:29 final size:30
Alignment explanation
Indices: 22492185--22492246 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
22492175 GATTTAAAAT
*
22492185 CTATTATTTTACCAAACGCAACAATTACCA
1 CTATTATTTTACCAAACGCAACAACTACCA
* * *
22492215 CTATT-TTTTACTAAACGCAACTACTATCA
1 CTATTATTTTACCAAACGCAACAACTACCA
22492244 CTA
1 CTA
22492247 CTCTGATGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (30 bp):
CTATTATTTTACCAAACGCAACAACTACCA
Found at i:22498369 original size:20 final size:21
Alignment explanation
Indices: 22498344--22498382 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22498334 CTGCACTTTG
22498344 GAAAAATT-TTAAAATTTCGT
1 GAAAAATTCTTAAAATTTCGT
*
22498364 GAAAAATTCTTAAAGTTTC
1 GAAAAATTCTTAAAATTTC
22498383 CAATTAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (21 bp):
GAAAAATTCTTAAAATTTCGT
Found at i:22498800 original size:30 final size:31
Alignment explanation
Indices: 22498738--22498801 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
22498728 AGTTTGAAAA
* *
22498738 TTTCCTAATTACAATTGAACTATAGCTTTCT
1 TTTCCAAATTACAATTGAACTATAGCTCTCT
* * *
22498769 TTTCCAAATTA-AATTGAATTTTTGCTCTCT
1 TTTCCAAATTACAATTGAACTATAGCTCTCT
22498799 TTT
1 TTT
22498802 TCCCTATTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (31 bp):
TTTCCAAATTACAATTGAACTATAGCTCTCT
Found at i:22502466 original size:26 final size:26
Alignment explanation
Indices: 22502430--22502485 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
22502420 TAAAATTCCA
*
22502430 ATCATGAAACATTTACCTAGCCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
22502456 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
22502482 ATCA
1 ATCA
22502486 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:22505561 original size:19 final size:18
Alignment explanation
Indices: 22505537--22505575 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22505527 GTTAGTTTAC
*
22505537 ATAAATTATTAAAAAAAAT
1 ATAAA-TATCAAAAAAAAT
*
22505556 ATAAATATCAATAAAAAT
1 ATAAATATCAAAAAAAAT
22505574 AT
1 AT
22505576 TTTCTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATATCAAAAAAAAT
Found at i:22505638 original size:25 final size:25
Alignment explanation
Indices: 22505580--22505632 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
22505570 AAATATTTTC
** *
22505580 TAAAATTAAATATTTTAATTAATAA
1 TAAAATTAAATATAATAATAAATAA
22505605 TAAAATTAAATATAATAATAAATAA
1 TAAAATTAAATATAATAATAAATAA
22505630 TAA
1 TAA
22505633 GTTTAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATTAAATATAATAATAAATAA
Found at i:22507184 original size:10 final size:10
Alignment explanation
Indices: 22507171--22507195 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22507161 TTAAAAAAAA
22507171 ATAAAATATT
1 ATAAAATATT
22507181 ATAAAATATT
1 ATAAAATATT
22507191 ATAAA
1 ATAAA
22507196 GGTCATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAATATT
Found at i:22511838 original size:154 final size:154
Alignment explanation
Indices: 22511558--22511865 Score: 562
Period size: 154 Copynumber: 2.0 Consensus size: 154
22511548 AATCATCCCC
22511558 ATTCTGCAGAAAATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATGT
1 ATTCTGCAGAAAATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATGT
* * * *
22511623 CTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTGAAGAATGTAAAATTC
66 CTACTACCATATAAAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAAAACGTAAAATTC
22511688 AAGCCTAAAATCAGTGAAATCAAT
131 AAGCCTAAAATCAGTGAAATCAAT
* *
22511712 ATTCTGCAGAATATAAGATAAAATAAAAACTATACACCACAGAATGCTATCAAAGGTATCAATGT
1 ATTCTGCAGAAAATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATGT
22511777 CTACTACCATATAAAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAAAACGTAAAATTC
66 CTACTACCATATAAAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAAAACGTAAAATTC
22511842 AAGCCTAAAATCAGTGAAATCAAT
131 AAGCCTAAAATCAGTGAAATCAAT
22511866 CTATCTTACT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
154 148 1.00
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (154 bp):
ATTCTGCAGAAAATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATGT
CTACTACCATATAAAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAAAACGTAAAATTC
AAGCCTAAAATCAGTGAAATCAAT
Found at i:22512915 original size:8 final size:8
Alignment explanation
Indices: 22512904--22512977 Score: 78
Period size: 8 Copynumber: 8.9 Consensus size: 8
22512894 ATATTAAATA
22512904 TTAAATTT
1 TTAAATTT
*
22512912 TTAAGTTT
1 TTAAATTT
*
22512920 TTAAGTTT
1 TTAAATTT
22512928 TT-AATTT
1 TTAAATTT
22512935 TTAAATTT
1 TTAAATTT
*
22512943 TTAATTTTT
1 TTAA-ATTT
22512952 TTAAAGATTT
1 TT-AA-ATTT
22512962 TTATAATTT
1 TTA-AATTT
22512971 TTAAATT
1 TTAAATT
22512978 AACATATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
7 6 0.11
8 30 0.53
9 13 0.23
10 8 0.14
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (8 bp):
TTAAATTT
Found at i:22512923 original size:23 final size:23
Alignment explanation
Indices: 22512897--22512946 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
22512887 AACTAAAATA
*
22512897 TTAAATATTAAATTTTTAAGTTT
1 TTAAATATTAAATTTTTAAATTT
* * *
22512920 TTAAGTTTTTAATTTTTAAATTT
1 TTAAATATTAAATTTTTAAATTT
22512943 TTAA
1 TTAA
22512947 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTAAATATTAAATTTTTAAATTT
Found at i:22512947 original size:15 final size:15
Alignment explanation
Indices: 22512904--22512951 Score: 78
Period size: 15 Copynumber: 3.1 Consensus size: 15
22512894 ATATTAAATA
22512904 TTAAATTTTTAAGTTT
1 TTAAATTTTTAA-TTT
*
22512920 TTAAGTTTTTAATTT
1 TTAAATTTTTAATTT
22512935 TTAAATTTTTAATTT
1 TTAAATTTTTAATTT
22512950 TT
1 TT
22512952 TTAAAGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:22512951 original size:23 final size:23
Alignment explanation
Indices: 22512907--22512952 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22512897 TTAAATATTA
*
22512907 AATTTTTAAGTTTTTAAGTTTTT
1 AATTTTTAAATTTTTAAGTTTTT
*
22512930 AATTTTTAAATTTTTAATTTTTT
1 AATTTTTAAATTTTTAAGTTTTT
22512953 TAAAGATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (23 bp):
AATTTTTAAATTTTTAAGTTTTT
Found at i:22513227 original size:14 final size:14
Alignment explanation
Indices: 22513200--22513260 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
22513190 TTAAAAGTTA
*
22513200 GTTTTAGGGCTTGGG
1 GTTTAAGGG-TTGGG
*
22513215 GTTTAAGGATTGGG
1 GTTTAAGGGTTGGG
*
22513229 GTTT-AGGTGTTGTG
1 GTTTAAGG-GTTGGG
*
22513243 GTTTAAGGGTTGGA
1 GTTTAAGGGTTGGG
22513257 GTTT
1 GTTT
22513261 TAAAGGTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 3 0.08
14 25 0.66
15 10 0.26
ACGTcount: A:0.13, C:0.02, G:0.43, T:0.43
Consensus pattern (14 bp):
GTTTAAGGGTTGGG
Found at i:22513307 original size:58 final size:60
Alignment explanation
Indices: 22513227--22513361 Score: 143
Period size: 65 Copynumber: 2.2 Consensus size: 60
22513217 TTAAGGATTG
* *
22513227 GGGTTTAGGTGTTGTGGTTTAAGG-G-TTGGAGTTTTAAAGGTTTATGATTTGAGATTTA
1 GGGTTTAGGTGTTGTGGATTAAGGTGTTTAGAGTTTTAAAGGTTTATGATTTGAGATTTA
* *
22513285 GGGTTTAGGGTGTTG-GGATTAAGGTTTATCGTTTATAGTTTTAAGGGTTTATGATTTGAGATTT
1 GGGTTTA-GGTGTTGTGGATTAAGG----T-GTTTAGAGTTTTAAAGGTTTATGATTTGAGATTT
22513349 A
60 A
*
22513350 GGGTCT-GGTGTT
1 GGGTTTAGGTGTT
22513362 TAAAGAGTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
58 15 0.23
59 7 0.11
63 6 0.09
64 1 0.02
65 35 0.55
ACGTcount: A:0.19, C:0.01, G:0.34, T:0.45
Consensus pattern (60 bp):
GGGTTTAGGTGTTGTGGATTAAGGTGTTTAGAGTTTTAAAGGTTTATGATTTGAGATTTA
Found at i:22513349 original size:22 final size:22
Alignment explanation
Indices: 22513259--22513353 Score: 74
Period size: 21 Copynumber: 4.4 Consensus size: 22
22513249 GGGTTGGAGT
*
22513259 TTTAAAGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
* * *
22513281 TTT-AGGGTTTAGGGTGTTGGGA
1 TTTAAGGGTTTATGAT-TTGAGA
* *
22513303 -TTAA-GGTTTATCG-TTTATAGT
1 TTTAAGGGTTTAT-GATTT-GAGA
22513324 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
22513346 TTT-AGGGT
1 TTTAAGGGT
22513354 CTGGTGTTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
20 2 0.04
21 24 0.43
22 20 0.36
23 10 0.18
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGGGTTTATGATTTGAGA
Found at i:22513405 original size:66 final size:66
Alignment explanation
Indices: 22513315--22513439 Score: 196
Period size: 66 Copynumber: 1.9 Consensus size: 66
22513305 AAGGTTTATC
* * * * *
22513315 GTTTATAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTCTGGTGTTTAAAGAGTTATTAATTAG
1 GTTTATAGTTTTAAGAGTTTATGATTAGAGATTTAGGATCTGGGGGTTAAAGAGTTATTAATTAG
22513380 T
66 T
*
22513381 GTTTATAGTTTTAAGAGTTTATGATTAGAGATTTAGGATCTGGGGGTTAAAGGGTTATT
1 GTTTATAGTTTTAAGAGTTTATGATTAGAGATTTAGGATCTGGGGGTTAAAGAGTTATT
22513440 GATTTAAGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.26, C:0.02, G:0.27, T:0.45
Consensus pattern (66 bp):
GTTTATAGTTTTAAGAGTTTATGATTAGAGATTTAGGATCTGGGGGTTAAAGAGTTATTAATTAG
T
Found at i:22514054 original size:40 final size:40
Alignment explanation
Indices: 22514010--22514235 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
22514000 GCATTTTTAA
*
22514010 AAAAACGTCGCTAATGCTCGATCTTTAGCGGCGCTTTCTT
1 AAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTT
* *
22514050 AAAAACGCTGCTAATGCTCAGATCTTTAGCTGCGCTTTCTT
1 AAAAACGCCGCTAATGCTC-GATCTTTAGCGGCGCTTTCTT
* * * * *
22514091 AAAAACGTCACTAGTGCTCGATCTTTAGCAGCGCTTTCTC
1 AAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTT
*
22514131 AAAAACGCCGCTAATGCTTAGATCTTTAGCGGCGCTTTCTT
1 AAAAACGCCGCTAATGC-TCGATCTTTAGCGGCGCTTTCTT
* *
22514172 AAAAACGCCGCTAATGCTCAATCTTTAGCGGC-CTTTTTTT
1 AAAAACGCCGCTAATGCTCGATCTTTAGCGGCGC-TTTCTT
* * * *
22514212 AAAAGCGCCACTAATACTCAATCT
1 AAAAACGCCGCTAATGCTCGATCT
22514236 ATTAATTTTT
Statistics
Matches: 162, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 89 0.55
41 72 0.44
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (40 bp):
AAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTTCTT
Found at i:22514074 original size:41 final size:41
Alignment explanation
Indices: 22514010--22514207 Score: 264
Period size: 41 Copynumber: 4.9 Consensus size: 41
22514000 GCATTTTTAA
22514010 AAAAACG-TCGCTAATGCTC-GATCTTTAGCGGCGCTTTCTT
1 AAAAACGCT-GCTAATGCTCAGATCTTTAGCGGCGCTTTCTT
*
22514050 AAAAACGCTGCTAATGCTCAGATCTTTAGCTGCGCTTTCTT
1 AAAAACGCTGCTAATGCTCAGATCTTTAGCGGCGCTTTCTT
* * * *
22514091 AAAAACG-TCACTAGTGCTC-GATCTTTAGCAGCGCTTTCTC
1 AAAAACGCT-GCTAATGCTCAGATCTTTAGCGGCGCTTTCTT
* *
22514131 AAAAACGCCGCTAATGCTTAGATCTTTAGCGGCGCTTTCTT
1 AAAAACGCTGCTAATGCTCAGATCTTTAGCGGCGCTTTCTT
*
22514172 AAAAACGCCGCTAATGCTCA-ATCTTTAGCGGC-CTTT
1 AAAAACGCTGCTAATGCTCAGATCTTTAGCGGCGCTTT
22514208 TTTTAAAAGC
Statistics
Matches: 141, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
39 4 0.03
40 63 0.45
41 74 0.52
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (41 bp):
AAAAACGCTGCTAATGCTCAGATCTTTAGCGGCGCTTTCTT
Found at i:22514226 original size:81 final size:81
Alignment explanation
Indices: 22514010--22514235 Score: 312
Period size: 81 Copynumber: 2.8 Consensus size: 81
22514000 GCATTTTTAA
*
22514010 AAAAACGTCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCTGCTAATGCTCAGATCT
1 AAAAACGTCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATCT
*
22514075 TTAGCTGCGCTTTCTT
66 TTAGCGGCGCTTTCTT
* * * * *
22514091 AAAAACGTCACTAGTGCTCGATCTTTAGCAGCGCTTTCTCAAAAACGCCGCTAATGCTTAGATCT
1 AAAAACGTCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATCT
22514156 TTAGCGGCGCTTTCTT
66 TTAGCGGCGCTTTCTT
* * * * * *
22514172 AAAAACGCCGCTAATGCTCAATCTTTAGCGGC-CTTTTTTTAAAAGCGCCACTAATACTCA-ATC
1 AAAAACGTCGCTAATGCTCGATCTTTAGCGGCGC-TTTCTTAAAAACGCCGCTAATGCTCAGATC
22514235 T
65 T
22514236 ATTAATTTTT
Statistics
Matches: 126, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 5 0.04
81 121 0.96
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (81 bp):
AAAAACGTCGCTAATGCTCGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCAGATCT
TTAGCGGCGCTTTCTT
Found at i:22515861 original size:26 final size:24
Alignment explanation
Indices: 22515831--22515880 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
22515821 AAATAAAAAA
*
22515831 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
22515857 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
22515881 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:22515887 original size:12 final size:12
Alignment explanation
Indices: 22515870--22515921 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
22515860 TAAAAACATA
22515870 AAAACAAATATT
1 AAAACAAATATT
22515882 AAAACAAATA--
1 AAAACAAATATT
*
22515892 AAAA-TAATATT
1 AAAACAAATATT
* *
22515903 AAAACAATTCTT
1 AAAACAAATATT
22515915 AAAACAA
1 AAAACAA
22515922 TACACAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 4 0.12
12 21 0.64
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (12 bp):
AAAACAAATATT
Found at i:22515907 original size:21 final size:21
Alignment explanation
Indices: 22515851--22515909 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
22515841 ATAATAAATC
*
22515851 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
22515871 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
22515893 AAATAATATTAAAACAA
1 AAATAATATTAAAACAA
22515910 TTCTTAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 3 0.09
21 19 0.58
22 11 0.33
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:22519223 original size:25 final size:25
Alignment explanation
Indices: 22519195--22519244 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22519185 ACTCAACTTA
22519195 CATGAGC-TTCCCATTATTCAGCTCG
1 CATGAGCTTTCCCA-TATTCAGCTCG
*
22519220 CATGAGCTTTCCGATATTCAGCTCG
1 CATGAGCTTTCCCATATTCAGCTCG
22519245 TATTAGCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (25 bp):
CATGAGCTTTCCCATATTCAGCTCG
Found at i:22519421 original size:37 final size:38
Alignment explanation
Indices: 22519371--22519452 Score: 139
Period size: 37 Copynumber: 2.2 Consensus size: 38
22519361 ATATGAGTTC
22519371 AATATGAACTATTAATGGTATTTACATGAAATACATG-
1 AATATGAACTATTAATGGTATTTACATGAAATACATGA
* *
22519408 AATATGAACTATTACTGGTATTTACATGATATACATGA
1 AATATGAACTATTAATGGTATTTACATGAAATACATGA
22519446 AATATGA
1 AATATGA
22519453 TTATTTGATG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
37 35 0.83
38 7 0.17
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (38 bp):
AATATGAACTATTAATGGTATTTACATGAAATACATGA
Found at i:22537873 original size:15 final size:15
Alignment explanation
Indices: 22537839--22537869 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22537829 TGCCACTGTC
22537839 TTATTTTTTATATAT
1 TTATTTTTTATATAT
22537854 TTATTTTTTA-ATAT
1 TTATTTTTTATATAT
22537868 TT
1 TT
22537870 TATTATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTATTTTTTATATAT
Found at i:22549053 original size:51 final size:51
Alignment explanation
Indices: 22548956--22549078 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 51
22548946 CGCGCTACCG
* * *
22548956 AAGAGACGCCAAATC-GTTATCTGTCCTGATCTTGAGCTCTCTGCCGCTAC
1 AAGAGACGCCAAATCTGTTATCTGTCCGGATCCTGAGCTCTCCGCCGCTAC
22549006 AAGAGACGCCAAATCTGTTATC-GTTCTCGGATCCT-AGCTCTCCGCCGCTAC
1 AAGAGACGCCAAATCTGTTATCTG-TC-CGGATCCTGAGCTCTCCGCCGCTAC
22549057 -AGAGACGCCAAATCTGTTATCT
1 AAGAGACGCCAAATCTGTTATCT
22549079 TCGATCTGCC
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
50 37 0.56
51 23 0.35
52 6 0.09
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (51 bp):
AAGAGACGCCAAATCTGTTATCTGTCCGGATCCTGAGCTCTCCGCCGCTAC
Found at i:22549201 original size:42 final size:44
Alignment explanation
Indices: 22549139--22549772 Score: 503
Period size: 42 Copynumber: 15.0 Consensus size: 44
22549129 TATCTCTCTT
22549139 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
* * *
22549183 GTCGCTA-AG-GACGCCAAATTTGCTATCTTCGATCTGCTCT-C
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
** * *
22549224 TACGCTAC-GAGATGCCAAATCTGTTATCTTCGATATGCTCTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
22549267 GCCGCTACAAGAGACGCCAAATCTGTTATCTTCCGATCTGC-CTCC
1 GCCGCTAC-AGAGACGCCAAATCTGTTATCTT-CGATCTGCTCTCC
** *
22549312 TTCGC-ACAGAGATGCCAAATCTGTT-TCTTCGATCTGCTCTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
* * *
22549354 GCCGCTATAGAGACTCCAAA-C-GTCTATC-TC-AACT-CTCTCC
1 GCCGCTACAGAGACGCCAAATCTGT-TATCTTCGATCTGCTCTCC
* * *
22549394 GCCG-TACAGAGATGTCAAA-CTGTTATC-TCGATCTGCTTTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
* * *
22549435 GCCACTACAGAGATGCCAAATC----ATCTTCAATCTGCTCTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
* * * * **
22549475 GCCGCTATAGAAATGCCAAATC-----TCTTCG-TCTACTCTTT
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
*
22549513 GCCGCTACAGAGATGCCAAA--TG-TATC-TCGAT-TGCTCTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
*
22549552 GCCG-TATA-AGA-GCCAAATCTG-TATCTTGATCGATCTGACTTCTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATC-T--TCGATCTG-C-TCTCC
*
22549597 GCCGCTACAGAGACGCCAATATCTGTCTTTCTTCAGTATCTGATCTTGCTCTC
1 GCCGCTACAGAGACGCCAA-ATCTGT-TATCTTC-G-ATCTG--C-T-CTC-C
*
22549650 GCCGCTACAGAGATGCCAAATCTGTTATCTTCGA-CTG--CTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
* * *
22549691 GTCGCTATAGAGACGCCAAATCT-TTATC-TCGATCTACTCT-C
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
*
22549732 GCCG-TACAGAGACGCCAAATC---TATCTTCGAT-TTCTCTCC
1 GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
22549771 GC
1 GC
22549773 AAAACGTAAA
Statistics
Matches: 487, Mismatches: 57, Indels: 97
0.76 0.09 0.15
Matches are distributed among these distances:
36 6 0.01
37 3 0.01
38 43 0.09
39 50 0.10
40 72 0.15
41 53 0.11
42 95 0.20
43 42 0.09
44 9 0.02
45 37 0.08
46 10 0.02
47 3 0.01
48 10 0.02
49 7 0.01
50 7 0.01
51 12 0.02
52 9 0.02
53 19 0.04
ACGTcount: A:0.22, C:0.31, G:0.17, T:0.29
Consensus pattern (44 bp):
GCCGCTACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCC
Found at i:22549294 original size:129 final size:127
Alignment explanation
Indices: 22548991--22549352 Score: 398
Period size: 129 Copynumber: 2.7 Consensus size: 127
22548981 CTGATCTTGA
*
22548991 GCTCTCTGCCGCTACAAGAGACGCCAAATCTGTTATCGTTCTCGGATCCTAGCTCTCCGCCGCTA
1 GCTCTCTGCCGCTACAAGAGACGCCAAATCTGTTATC--T-TC-GAT-CT-GCTCTCCGTCGCTA
* *
22549056 CAGAGACGCCAAATCTGTTATCTTCGATCTGCCTCCCTCCTCGCCTCGCTACGAGTCTGCCAATC
60 CAGAGACGCCAAATCTG-TATCTTCGATCTG-CT--CT-CT---CACGCTACGAGTATGCCAATC
22549121 TGTTATTTTAT
117 TGTTATTTTAT
22549132 -CTCTCTTGCCGCTAC-AGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTA-AG-G
1 GCTCTC-TGCCGCTACAAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAG
*
22549193 ACGCCAAATTTGCTATCTTCGATCTGCTCTCT-ACGCTACGAG-ATGCCAAATCTGTTATCTTCG
65 ACGCCAAATCTG-TATCTTCGATCTGCTCTCTCACGCTACGAGTATGCC-AATCTGTTAT-TT--
22549256 ATAT
125 -TAT
* *
22549260 GCTCTCCGCCGCTACAAGAGACGCCAAATCTGTTATCTTCCGATCTGC-CTCCTTCGC-ACAGAG
1 GCTCTCTGCCGCTACAAGAGACGCCAAATCTGTTATCTT-CGATCTGCTCTCCGTCGCTACAGAG
* *
22549323 ATGCCAAATCTGTTTCTTCGATCTGCTCTC
65 ACGCCAAATCTGTATCTTCGATCTGCTCTC
22549353 CGCCGCTATA
Statistics
Matches: 200, Mismatches: 10, Indels: 34
0.82 0.04 0.14
Matches are distributed among these distances:
123 4 0.02
124 19 0.09
125 2 0.01
128 14 0.07
129 57 0.28
130 19 0.09
131 2 0.01
132 25 0.12
133 2 0.01
134 13 0.06
135 2 0.01
136 3 0.01
137 2 0.01
138 1 0.00
140 26 0.13
141 9 0.05
ACGTcount: A:0.20, C:0.33, G:0.17, T:0.30
Consensus pattern (127 bp):
GCTCTCTGCCGCTACAAGAGACGCCAAATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGA
CGCCAAATCTGTATCTTCGATCTGCTCTCTCACGCTACGAGTATGCCAATCTGTTATTTTAT
Found at i:22549413 original size:39 final size:40
Alignment explanation
Indices: 22549345--22549557 Score: 128
Period size: 40 Copynumber: 5.4 Consensus size: 40
22549335 TTTCTTCGAT
*
22549345 CTGCTCTCCGCCGCTATAGAGACT-CCAAACGTCTATCTCAA
1 CTGCTCTCCGCCG-TACAGAGA-TGCCAAACGTCTATCTCAA
* *
22549386 CT-CTCTCCGCCGTACAGAGATGTCAAACTGT-TATCTCGAT
1 CTGCTCTCCGCCGTACAGAGATGCCAAAC-GTCTATCTC-AA
* *
22549426 CTGCTTTCCGCCACTACAGAGATGCCAAA--TC-ATCTTCAA
1 CTGCTCTCCGCC-GTACAGAGATGCCAAACGTCTATC-TCAA
* * *
22549465 TCTGCTCTCCGCCGCTATAGAAATGCCAAATC-TCT-TCGTCTA
1 -CTGCTCTCCGCCG-TACAGAGATGCCAAA-CGTCTATC-TCAA
* * *
22549507 CT-CT-T-TGCCGCTACAGAGATGCCAAA--TGTATCTCGA
1 CTGCTCTCCGCCG-TACAGAGATGCCAAACGTCTATCTCAA
*
22549543 TTGCTCTCCGCCGTA
1 CTGCTCTCCGCCGTA
22549558 TAAGAGCCAA
Statistics
Matches: 136, Mismatches: 20, Indels: 35
0.71 0.10 0.18
Matches are distributed among these distances:
36 6 0.04
37 4 0.03
38 22 0.16
39 28 0.21
40 43 0.32
41 12 0.09
42 21 0.15
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (40 bp):
CTGCTCTCCGCCGTACAGAGATGCCAAACGTCTATCTCAA
Found at i:22549483 original size:121 final size:118
Alignment explanation
Indices: 22549317--22549554 Score: 288
Period size: 121 Copynumber: 2.0 Consensus size: 118
22549307 CCTCCTTCGC
* * *
22549317 ACAGAGATGCCAAATCTGTTTCTTCGATCTGCTCTCCGCCGCTATAGAGACT-CCAAA-CGTCTA
1 ACAGAGATGCCAAATC--TATCTTCAATCTGCTCTCCGCCGCTATAGA-AATGCCAAATC-TCT-
* *
22549380 TC-TCAACTCTCTCCGCCG-TACAGAGATGTCAAACTGTTATCTCGATCTGCTTTCCGCCACT
61 TCGTCAACTCT-T-CGCCGCTACAGAGATGCCAAA-TG-TATCTCGAT-TGCTCTCCGCCACT
22549441 ACAGAGATGCCAAATC-ATCTTCAATCTGCTCTCCGCCGCTATAGAAATGCCAAATCTCTTCGTC
1 ACAGAGATGCCAAATCTATCTTCAATCTGCTCTCCGCCGCTATAGAAATGCCAAATCTCTTCGTC
* *
22549505 TACTCTTTGCCGCTACAGAGATGCCAAATGTATCTCGATTGCTCTCCGCC
66 AACTCTTCGCCGCTACAGAGATGCCAAATGTATCTCGATTGCTCTCCGCC
22549555 GTATAAGAGC
Statistics
Matches: 103, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
117 10 0.10
118 9 0.09
119 6 0.06
120 19 0.18
121 42 0.41
122 1 0.01
124 16 0.16
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.29
Consensus pattern (118 bp):
ACAGAGATGCCAAATCTATCTTCAATCTGCTCTCCGCCGCTATAGAAATGCCAAATCTCTTCGTC
AACTCTTCGCCGCTACAGAGATGCCAAATGTATCTCGATTGCTCTCCGCCACT
Found at i:22549517 original size:38 final size:40
Alignment explanation
Indices: 22549432--22549533 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 40
22549422 CGATCTGCTT
* * *
22549432 TCCGCCACTACAGAGATGCCAAATCATCTTCAATCTGCTC
1 TCCGCCGCTACAGAAATGCCAAATCATCTTCAATCTACTC
* *
22549472 TCCGCCGCTATAGAAATGCCAAATC-TCTTC-GTCTACTC
1 TCCGCCGCTACAGAAATGCCAAATCATCTTCAATCTACTC
** *
22549510 TTTGCCGCTACAGAGATGCCAAAT
1 TCCGCCGCTACAGAAATGCCAAAT
22549534 GTATCTCGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 26 0.49
39 5 0.09
40 22 0.42
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (40 bp):
TCCGCCGCTACAGAAATGCCAAATCATCTTCAATCTACTC
Found at i:22549697 original size:41 final size:41
Alignment explanation
Indices: 22549633--22549753 Score: 151
Period size: 40 Copynumber: 3.0 Consensus size: 41
22549623 CTTTCTTCAG
*
22549633 TATCT-GATCTTGCTCTCGCCGCTACAGAGATGCCAAATCTGT
1 TATCTCGATC-TGCTCTCGCCGCTACAGAGACGCCAAATCT-T
* *
22549675 TATCTTCGA-CTGCTC-CGTCGCTATAGAGACGCCAAATCTT
1 TATC-TCGATCTGCTCTCGCCGCTACAGAGACGCCAAATCTT
*
22549715 TATCTCGATCTACTCTCGCCG-TACAGAGACGCCAAATCT
1 TATCTCGATCTGCTCTCGCCGCTACAGAGACGCCAAATCT
22549754 ATCTTCGATT
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.06
40 27 0.39
41 25 0.36
42 9 0.13
43 2 0.03
44 2 0.03
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (41 bp):
TATCTCGATCTGCTCTCGCCGCTACAGAGACGCCAAATCTT
Found at i:22562021 original size:19 final size:19
Alignment explanation
Indices: 22561997--22562034 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22561987 GAAATGAATA
*
22561997 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
22562016 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
22562035 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:22562949 original size:19 final size:20
Alignment explanation
Indices: 22562916--22562955 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
22562906 GTATATATAT
22562916 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
22562935 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
22562955 A
1 A
22562956 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:22564795 original size:23 final size:25
Alignment explanation
Indices: 22564750--22564803 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
22564740 AACTTTTTTA
*
22564750 AAAAAATTAAAAATTAAATTTAACT
1 AAAAAATTAAAAATTAAATTTAACC
*
22564775 AAAAAA-TAAGAATTAAA-TTAACC
1 AAAAAATTAAAAATTAAATTTAACC
22564798 AAAAAA
1 AAAAAA
22564804 ATATATACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 11 0.41
24 10 0.37
25 6 0.22
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (25 bp):
AAAAAATTAAAAATTAAATTTAACC
Found at i:22564804 original size:24 final size:24
Alignment explanation
Indices: 22564749--22564806 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
22564739 TAACTTTTTT
22564749 AAAAAAATTAAAAATTAAATTTAAC
1 AAAAAAA-TAAAAATTAAATTTAAC
* *
22564774 TAAAAAATAAGAATTAAA-TTAACC
1 AAAAAAATAAAAATTAAATTTAA-C
22564798 AAAAAAATA
1 AAAAAAATA
22564807 TATACATTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 19 0.66
25 6 0.21
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAAAATAAAAATTAAATTTAAC
Found at i:22572036 original size:23 final size:23
Alignment explanation
Indices: 22572006--22572057 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
22571996 GAACTCACCA
*
22572006 CAGCTCGTATGAGCTTACTGATT
1 CAGCTCGTAAGAGCTTACTGATT
*
22572029 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCGTAAGAGCTTACTGATT
22572052 CAGCTC
1 CAGCTC
22572058 ATTGGAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (23 bp):
CAGCTCGTAAGAGCTTACTGATT
Found at i:22572065 original size:23 final size:23
Alignment explanation
Indices: 22572006--22572069 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
22571996 GAACTCACCA
* *
22572006 CAGCTCGTATGAGCTTACTGATT
1 CAGCTCATAAGAGCTTACTGATT
* *
22572029 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCATAAGAGCTTACTGATT
**
22572052 CAGCTCATTGGAGCTTAC
1 CAGCTCATAAGAGCTTAC
22572070 CTTTTAGCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (23 bp):
CAGCTCATAAGAGCTTACTGATT
Found at i:22579656 original size:18 final size:20
Alignment explanation
Indices: 22579618--22579660 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
22579608 AAACTTTTAT
*
22579618 AAAAACTTATAAAATTCATA
1 AAAAACTTATAAAATTAATA
22579638 AAAAACTTAT-AAA-TAATA
1 AAAAACTTATAAAATTAATA
22579656 AAAAA
1 AAAAA
22579661 TTTTCATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 10 0.45
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAAACTTATAAAATTAATA
Found at i:22579691 original size:9 final size:9
Alignment explanation
Indices: 22579487--22579692 Score: 50
Period size: 9 Copynumber: 21.2 Consensus size: 9
22579477 TGGTATAATT
22579487 TTATAAAAA
1 TTATAAAAA
* * *
22579496 TTGTAAGAC
1 TTATAAAAA
*
22579505 TTGTAAAAAA
1 TTAT-AAAAA
22579515 TTCATAAAAA
1 TT-ATAAAAA
*
22579525 CTTATAAATA
1 -TTATAAAAA
*
22579535 TGATAAACAA
1 TTATAAA-AA
* *
22579545 TTATAATAT
1 TTATAAAAA
*
22579554 TTTTAAATAAA
1 TTAT-AA-AAA
22579565 TTAT-AAAA
1 TTATAAAAA
22579573 TTAATAAAACA
1 TT-ATAAAA-A
22579584 -TATAAAACA
1 TTATAAAA-A
22579593 -TACTTAAAATA
1 TTA--TAAAA-A
*
22579604 TT-TAAAACTT
1 TTATAAAA--A
22579614 TTATAAAAA
1 TTATAAAAA
22579623 CTTAT-AAAA
1 -TTATAAAAA
22579632 TTCATAAAAAA
1 TT-AT-AAAAA
22579643 CTTATAAATAA
1 -TTATAAA-AA
22579654 -TA-AAAAA
1 TTATAAAAA
22579661 TTTTCATAAAAA
1 --TT-ATAAAAA
*
22579673 TCTA-ATAAA
1 T-TATAAAAA
22579682 TTATAAAAA
1 TTATAAAAA
22579691 TT
1 TT
22579693 TATAGAATAA
Statistics
Matches: 149, Mismatches: 21, Indels: 54
0.67 0.09 0.24
Matches are distributed among these distances:
7 2 0.01
8 12 0.08
9 57 0.38
10 41 0.28
11 29 0.19
12 8 0.05
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:22579693 original size:30 final size:31
Alignment explanation
Indices: 22579632--22579690 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
22579622 ACTTATAAAA
*
22579632 TTCATAAAAAACTTATAAATAATAAAAAATT
1 TTCATAAAAAACTAATAAATAATAAAAAATT
* *
22579663 TTCATAAAAATCTAATAAATTATAAAAA
1 TTCATAAAAAACTAATAAATAATAAAAA
22579691 TTTATAGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (31 bp):
TTCATAAAAAACTAATAAATAATAAAAAATT
Found at i:22579705 original size:18 final size:18
Alignment explanation
Indices: 22579666--22579707 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
22579656 AAAAATTTTC
*
22579666 ATAAAAATCTAATAAATT
1 ATAAAAATCTAATAAATA
*
22579684 ATAAAAAT-TTATAGAATA
1 ATAAAAATCTAATA-AATA
22579702 ATAAAA
1 ATAAAA
22579708 TAAATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATAAAAATCTAATAAATA
Found at i:22579705 original size:49 final size:49
Alignment explanation
Indices: 22579585--22579707 Score: 128
Period size: 49 Copynumber: 2.5 Consensus size: 49
22579575 AATAAAACAT
* * * *
22579585 ATAAAACATACTTA-AAATATTTAAAACTTTTATAAAAACTTATAAAATTC
1 ATAAAA-A-ACTTATAAATAATAAAAAATTTTATAAAAACTAATAAAATTC
22579635 ATAAAAAACTTATAAATAATAAAAAATTTTCATAAAAATCTAAT-AAATT-
1 ATAAAAAACTTATAAATAATAAAAAATTTT-ATAAAAA-CTAATAAAATTC
*
22579684 AT-AAAAATTTATAGAATAATAAAA
1 ATAAAAAACTTATA-AATAATAAAA
22579708 TAAATATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
48 15 0.23
49 27 0.42
50 18 0.28
51 4 0.06
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (49 bp):
ATAAAAAACTTATAAATAATAAAAAATTTTATAAAAACTAATAAAATTC
Found at i:22579726 original size:20 final size:21
Alignment explanation
Indices: 22579688--22579726 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22579678 TAAATTATAA
22579688 AAATTTATAGAATAATAAAAT
1 AAATTTATAGAATAATAAAAT
22579709 AAATATTAT-GAA-AATAAA
1 AAAT-TTATAGAATAATAAA
22579727 GTATTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (21 bp):
AAATTTATAGAATAATAAAAT
Found at i:22580282 original size:38 final size:37
Alignment explanation
Indices: 22580240--22580314 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
22580230 TATTAGAAAT
* *
22580240 TTTTAT-TTTTTAATAAGTTTTTATGCTGTTTTTATAAG
1 TTTTATATTATTAATAAGTTTTTA-G-AGTTTTTATAAG
*
22580278 TTTTATAATTATTAATAATTTTTTAGAGTTTTTATAA
1 TTTTAT-ATTATTAATAAGTTTTTAGAGTTTTTATAA
22580315 TATTTATCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 16 0.50
39 1 0.03
40 15 0.47
ACGTcount: A:0.29, C:0.01, G:0.08, T:0.61
Consensus pattern (37 bp):
TTTTATATTATTAATAAGTTTTTAGAGTTTTTATAAG
Found at i:22580300 original size:29 final size:29
Alignment explanation
Indices: 22580268--22580349 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
22580258 TTTTATGCTG
22580268 TTTTTATAAGTTTTATAATTATTAAT-AAT
1 TTTTTATAAGTTTTATAA-TATTAATCAAT
* * *
22580297 TTTTTA-GAGTTTTTATAATATTTATCCAT
1 TTTTTATAAG-TTTTATAATATTAATCAAT
*
22580326 TTTTTATAA-TATTTATAAAATTAA
1 TTTTTATAAGT-TTTATAATATTAA
22580350 AGAAATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
28 9 0.21
29 33 0.77
30 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTTATAAGTTTTATAATATTAATCAAT
Found at i:22580321 original size:58 final size:54
Alignment explanation
Indices: 22580221--22580436 Score: 145
Period size: 58 Copynumber: 3.8 Consensus size: 54
22580211 TTTTATATTT
* *
22580221 TTTTATAATTATTAGA-AA-TTTTT-ATTTTTTAATAAGTTTTTATGCTGTTTTTATAA
1 TTTTATAATTATTA-ATAATTTTTTAAGTTTTT-ATAA-TATTTAT-CT-TTTTTATAA
22580277 GTTTTATAATTATTAATAATTTTTTAGAGTTTTTATAATATTTATCCATTTTTTATAA
1 -TTTTATAATTATTAATAATTTTTTA-AGTTTTTATAATATTTAT-C-TTTTTTATAA
* * * * * * *
22580335 TATTTATAA-AATTAAAGAAATTTTTAATTATTTTTATTATCTTTATCTTTTATTATTAT
1 T-TTTATAATTATT-AATAATTTTTTAA--GTTTTTATAATATTTATCTTTT-TTA-TAA
* * *
22580394 TTTTATAGTTTATT-ATAATTTTATAAGTATTTATAATATTTAT
1 TTTTATA-ATTATTAATAATTTTTTAAGTTTTTATAATATTTAT
22580437 AAGTTATTAT
Statistics
Matches: 127, Mismatches: 19, Indels: 27
0.73 0.11 0.16
Matches are distributed among these distances:
56 14 0.11
57 25 0.20
58 57 0.45
59 22 0.17
60 9 0.07
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (54 bp):
TTTTATAATTATTAATAATTTTTTAAGTTTTTATAATATTTATCTTTTTTATAA
Found at i:22580390 original size:19 final size:19
Alignment explanation
Indices: 22580368--22580418 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
22580358 TTAATTATTT
**
22580368 TTATTATCTTTATCTTTTA
1 TTATTATCTTTATAGTTTA
*
22580387 TTATTATTTTTATAGTTTA
1 TTATTATCTTTATAGTTTA
*
22580406 TTATAAT-TTTATA
1 TTATTATCTTTATA
22580419 AGTATTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TTATTATCTTTATAGTTTA
Found at i:22580427 original size:56 final size:56
Alignment explanation
Indices: 22580384--22580490 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
22580374 TCTTTATCTT
22580384 TTATTATTATTTTT-ATAGTTTATTATAA-TTTTATAAGTATTTATAATATTTATAAG
1 TTATTA-TATTTTTCA-AGTTTATTATAATTTTTATAAGTATTTATAATATTTATAAG
* * *
22580440 TTATTATATTTTTCAATTTTTTTATAATTTTTATAAGT-TTATATAAAATTT
1 TTATTATATTTTTCAAGTTTATTATAATTTTTATAAGTATT-TATAATATTT
22580491 TAATATTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
55 19 0.42
56 26 0.58
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (56 bp):
TTATTATATTTTTCAAGTTTATTATAATTTTTATAAGTATTTATAATATTTATAAG
Found at i:22580446 original size:19 final size:18
Alignment explanation
Indices: 22580384--22580492 Score: 73
Period size: 19 Copynumber: 5.8 Consensus size: 18
22580374 TCTTTATCTT
*
22580384 TTATTATTATTTT-TATAG
1 TTATTATAATTTTATA-AG
22580402 TTTATTATAATTTTATAAG
1 -TTATTATAATTTTATAAG
22580421 -TATTTATAATATTTATAAG
1 TTA-TTATAAT-TTTATAAG
*
22580440 TTATTAT-ATTTT-TCAATT
1 TTATTATAATTTTAT-AA-G
*
22580458 TTTTTATAATTTTTATAAG
1 TTATTATAA-TTTTATAAG
*
22580477 TTTATATAAAATTTTA
1 -TTAT-TATAATTTTA
22580493 ATATTTTAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
16 1 0.01
17 7 0.10
18 15 0.21
19 27 0.37
20 18 0.25
21 5 0.07
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (18 bp):
TTATTATAATTTTATAAG
Found at i:22580470 original size:10 final size:9
Alignment explanation
Indices: 22580187--22580519 Score: 99
Period size: 9 Copynumber: 35.1 Consensus size: 9
22580177 GATTTTTATA
22580187 TATATATTTT
1 TATA-ATTTT
22580197 T-TAATATTT
1 TATAAT-TTT
*
22580206 TATGA-TTT
1 TATAATTTT
*
22580214 TATATTTTTT
1 TATA-ATTTT
*
22580224 TATAATTAT
1 TATAATTTT
*
22580233 TAGAAATTTT
1 TA-TAATTTT
22580243 TAT--TTTT
1 TATAATTTT
22580250 TAATAAGTTTT
1 T-ATAA-TTTT
**
22580261 TATGCTGTTTT
1 TAT--AATTTT
*
22580272 TATAAGTTT
1 TATAATTTT
22580281 TATAATTATT
1 TATAATT-TT
*
22580291 AATAATTTT
1 TATAATTTT
22580300 T-TAGAGTTTT
1 TATA-A-TTTT
*
22580310 TATAATATT
1 TATAATTTT
*
22580319 TATCCATTTTT
1 TAT--AATTTT
*
22580330 TATAATATT
1 TATAATTTT
* *
22580339 TATAAAATTA
1 TAT-AATTTT
* *
22580349 AAGAAATTTT
1 TA-TAATTTT
*
22580359 TAATTATTTT
1 T-ATAATTTT
* *
22580369 TATTATCTT
1 TATAATTTT
**
22580378 TATCTTTTAT
1 TATAATTT-T
*
22580388 TATTATTTT
1 TATAATTTT
*
22580397 TATAGTTTAT
1 TATAATTT-T
22580407 TATAA-TTT
1 TATAATTTT
*
22580415 TATAAGTATT
1 TATAA-TTTT
*
22580425 TATAATATT
1 TATAATTTT
*
22580434 TATAAGTTAT
1 TATAA-TTTT
22580444 TAT-ATTTT
1 TATAATTTT
*
22580452 TCA-ATTTTTT
1 T-ATA-ATTTT
22580462 TATAATTTT
1 TATAATTTT
*
22580471 TATAAGTTTA
1 TATAA-TTTT
*
22580481 TATAAAATTT
1 TAT-AATTTT
22580491 TA-ATATTTT
1 TATA-ATTTT
*
22580500 AATAATTTT
1 TATAATTTT
*
22580509 AATAATGTTT
1 TATAAT-TTT
22580519 T
1 T
22580520 TATTTTTTGT
Statistics
Matches: 237, Mismatches: 52, Indels: 68
0.66 0.15 0.19
Matches are distributed among these distances:
7 5 0.02
8 23 0.10
9 94 0.40
10 91 0.38
11 24 0.10
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (9 bp):
TATAATTTT
Found at i:22580500 original size:37 final size:36
Alignment explanation
Indices: 22580387--22580522 Score: 118
Period size: 37 Copynumber: 3.7 Consensus size: 36
22580377 TTATCTTTTA
*
22580387 TTATTATTTTTAT-AGTTTATTATAATTTT-ATAAGTAT
1 TTATAATTTTTATAAGTTTATTATAATTTTAAT-A-T-T
* * *
22580424 TTATAATATTTATAAG-TTATTATATTTTTCAATTTTT
1 TTATAATTTTTATAAGTTTATTATAATTTT-AA-TATT
*
22580461 TTATAATTTTTATAAGTTTATATAAAATTTTAATATT
1 TTATAATTTTTATAAGTTTAT-TATAATTTTAATATT
*
22580498 TTAATAATTTTAATAATGTTT-TTAT
1 TT-ATAATTTTTATAA-GTTTATTAT
22580523 TTTTTGTTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
37 46 0.57
38 22 0.27
39 12 0.15
40 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (36 bp):
TTATAATTTTTATAAGTTTATTATAATTTTAATATT
Found at i:22601794 original size:55 final size:55
Alignment explanation
Indices: 22601671--22601798 Score: 134
Period size: 55 Copynumber: 2.3 Consensus size: 55
22601661 TGCGACATGG
* ** * * * *
22601671 CCGTGGTCAAACTTGCCAAAATAACACGGGCGTACGACACGCCCGTGTGGAAGAT
1 CCGTGGTCAAACCTGTTAAAACAACACAGGCGTACGACACGCCCGTGTGCAAGAC
* * *
22601726 CCGTGGGT-GAACCTGTTAAAACAACACAGGCGTGCGACACGCCCGTGT-CTAGTAC
1 CCGT-GGTCAAACCTGTTAAAACAACACAGGCGTACGACACGCCCGTGTGCAAG-AC
22601781 CCGTGGTCAAACCTGTTA
1 CCGTGGTCAAACCTGTTA
22601799 GATTGACACG
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
54 5 0.08
55 51 0.86
56 3 0.05
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.19
Consensus pattern (55 bp):
CCGTGGTCAAACCTGTTAAAACAACACAGGCGTACGACACGCCCGTGTGCAAGAC
Found at i:22606241 original size:13 final size:13
Alignment explanation
Indices: 22606205--22606230 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22606195 CAAAGGGACC
22606205 CGACCGTGTGACA
1 CGACCGTGTGACA
22606218 CGACCGTGTGACA
1 CGACCGTGTGACA
22606231 TGCCTGTGTG
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:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
CGACCGTGTGACA
Found at i:22614191 original size:103 final size:103
Alignment explanation
Indices: 22614067--22614265 Score: 344
Period size: 103 Copynumber: 1.9 Consensus size: 103
22614057 CAACTGCAAC
* *
22614067 TTCAGAGAGATAAGGATTGTGGCTTTGATCTGCTCCACTGCAACTTCAGGGAGACAAGATCTGCT
1 TTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCT
*
22614132 ATCTTCAGTCTGCTCCACTGCAACTTCAGGGCTACAAT
66 ATCTTCAGTCTGCTCCACTACAACTTCAGGGCTACAAT
* * *
22614170 TTCAGAGAGATAAGGTTTGTGGCTTCGATCTACTTCACTGCAACTTCAGGGAGGCAAGATCTGCT
1 TTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCT
22614235 ATCTTCAGTCTGCTCCACTACAACTTCAGGG
66 ATCTTCAGTCTGCTCCACTACAACTTCAGGG
22614266 AGATAAGACT
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 90 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (103 bp):
TTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCCACTGCAACTTCAGGGAGACAAGATCTGCT
ATCTTCAGTCTGCTCCACTACAACTTCAGGGCTACAAT
Found at i:22631468 original size:44 final size:43
Alignment explanation
Indices: 22631387--22631509 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 43
22631377 CAAATTCATC
22631387 CACTGGCATT-TCACCTGCTAGGCTCGAA-GCCCGATATCATTT
1 CACTGGCATTAT-ACCTGCTAGGCTCGAAGGCCCGATATCATTT
* *
22631429 CACTGGCATTATAGCCTACTAGGCTTGAAGGCCCGATATCATTT
1 CACTGGCATTATA-CCTGCTAGGCTCGAAGGCCCGATATCATTT
** * *
22631473 CACCAGCATTATAACATGCTAGGCTCAAAGGCCCGAT
1 CACTGGCATTAT-ACCTGCTAGGCTCGAAGGCCCGAT
22631510 TAGTACCGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 11 0.16
43 14 0.20
44 43 0.62
45 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (43 bp):
CACTGGCATTATACCTGCTAGGCTCGAAGGCCCGATATCATTT
Found at i:22650004 original size:15 final size:14
Alignment explanation
Indices: 22649980--22650010 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
22649970 GAGCTCGGAA
22649980 AGCTTGGAAACCCT
1 AGCTTGGAAACCCT
22649994 AGCTATGGAAACCCT
1 AGCT-TGGAAACCCT
22650009 AG
1 AG
22650011 AAATTTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (14 bp):
AGCTTGGAAACCCT
Found at i:22656446 original size:42 final size:42
Alignment explanation
Indices: 22656375--22656505 Score: 137
Period size: 38 Copynumber: 3.2 Consensus size: 42
22656365 TAGGGTTATT
* *
22656375 TGAGATTACGTATAAGACCATATTTGGGATA-TGGCATCAATA
1 TGAGATT-CGTATAAGACCATAGTTGGGATATTGCCATCAATA
* *
22656417 TGATGATTCGTGTAAGACCATAGTTGGGATATTGCCATCGATA
1 TGA-GATTCGTATAAGACCATAGTTGGGATATTGCCATCAATA
* * * *
22656460 TGAGATTC-CAT---ACCATTGTTGGGATATTGCCACCGATA
1 TGAGATTCGTATAAGACCATAGTTGGGATATTGCCATCAATA
22656498 TGAGATTC
1 TGAGATTC
22656506 TATGTAATAC
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
38 33 0.42
41 1 0.01
42 29 0.37
43 16 0.20
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (42 bp):
TGAGATTCGTATAAGACCATAGTTGGGATATTGCCATCAATA
Found at i:22657307 original size:20 final size:20
Alignment explanation
Indices: 22657282--22657331 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
22657272 CATGGCCTGC
**
22657282 CCACACGGGTGTGTCCCAAG
1 CCACACGGGCCTGTCCCAAG
22657302 CCACACGGGCCTGTCCCAAG
1 CCACACGGGCCTGTCCCAAG
*
22657322 CCACATGGGC
1 CCACACGGGC
22657332 GTGTGGCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.40, G:0.28, T:0.12
Consensus pattern (20 bp):
CCACACGGGCCTGTCCCAAG
Found at i:22660210 original size:40 final size:40
Alignment explanation
Indices: 22660127--22660350 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
22660117 TTGAATGCTG
* * * * * *
22660127 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
22660167 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
22660207 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
22660247 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
22660287 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
22660327 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22660351 TGAACGAGGA
Statistics
Matches: 166, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 157 0.95
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:22660370 original size:80 final size:80
Alignment explanation
Indices: 22660202--22660385 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
22660192 GTGCGAGATA
*
22660202 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGG
** **
22660267 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * *
22660282 TTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGG
*
22660347 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
22660362 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
22660386 TACGTGTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 15 0.16
80 77 0.84
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:22660370 original size:120 final size:120
Alignment explanation
Indices: 22660127--22660385 Score: 267
Period size: 120 Copynumber: 2.2 Consensus size: 120
22660117 TTGAATGCTG
* * * * *
22660127 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATTC
* ** * *
22660192 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAA
* * *
22660247 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * * *
22660309 TTCGTGCGAGTTGTTAAATCCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
63 TTCGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAA
*
22660367 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22660386 TACGTGTTTT
Statistics
Matches: 115, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
119 17 0.15
120 90 0.78
121 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATTC
GTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAA
Found at i:22670850 original size:49 final size:49
Alignment explanation
Indices: 22670782--22670907 Score: 146
Period size: 49 Copynumber: 2.6 Consensus size: 49
22670772 GTTATGTATT
*
22670782 AGTGTAAGACCTGTTTGGGACATGGCATCGACACCGATAAATGAGA-GCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGA-ACGCC
* *** * ** * *
22670831 AGTGTAAGACCTATCTGGGACACAACATCGGCTTCGATATATGAACGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAACGCC
22670880 AGTGTAAGACCTGTCTGGGACATGGCAT
1 AGTGTAAGACCTGTCTGGGACATGGCAT
22670908 TGACTTTGAT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAAATGAACGCC
Found at i:22674713 original size:37 final size:37
Alignment explanation
Indices: 22674663--22674741 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22674653 TTATTACGAA
* * *
22674663 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
22674700 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
22674737 GTCTT
1 GTCTT
22674742 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:22675076 original size:49 final size:47
Alignment explanation
Indices: 22674860--22675365 Score: 799
Period size: 47 Copynumber: 10.7 Consensus size: 47
22674850 CCCTTCGGGA
* * * * * *
22674860 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22674907 CCTGTCACATATATACACTTTCACA-T--T--CATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22674949 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22674996 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22675043 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22675092 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
22675139 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22675188 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22675237 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
22675284 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
22675331 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
22675366 AGAATCCTAA
Statistics
Matches: 435, Mismatches: 14, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
42 34 0.08
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 255 0.59
49 142 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22675082 original size:96 final size:96
Alignment explanation
Indices: 22674860--22675344 Score: 794
Period size: 96 Copynumber: 5.1 Consensus size: 96
22674850 CCCTTCGGGA
* * * * * * *
22674860 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
22674923 ACTTTCACA-T--T--CATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
22674949 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
22675012 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
22675043 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
22675108 ACTTTCACATTCATCACATCGGCCATTGGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
22675139 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTGGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
22675204 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
22675237 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
22675300 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
22675331 CTTATCACATATAT
1 CTTATCACATATAT
22675345 GCATGTTCAC
Statistics
Matches: 372, Mismatches: 11, Indels: 19
0.93 0.03 0.05
Matches are distributed among these distances:
88 1 0.00
89 62 0.17
90 1 0.00
92 1 0.00
94 70 0.19
96 191 0.51
98 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:22678422 original size:42 final size:42
Alignment explanation
Indices: 22678372--22678547 Score: 169
Period size: 42 Copynumber: 4.0 Consensus size: 42
22678362 CTTCATTTTC
** * *
22678372 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
* *
22678415 T-GATGCCATAGCCCAGCAATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
22678456 TCGATGCCATAGCCCAGTTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* *
22678505 TCGATGCCATAGCCTAGCTATGGTCGTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
22678546 TC
1 TC
22678548 TTACTGATGC
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
41 11 0.10
42 60 0.54
43 2 0.02
45 2 0.02
47 1 0.01
48 2 0.02
49 34 0.30
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:22678515 original size:49 final size:49
Alignment explanation
Indices: 22678442--22678625 Score: 175
Period size: 49 Copynumber: 3.8 Consensus size: 49
22678432 AATGGTCTTA
* *
22678442 CACATATTCATATATCGATGCCATAGCCCAGTTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * *
22678492 CACATATCACATATCGATGCCATAGCCTAGCTATGGTCGTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * *
22678540 CACATAT--CTTA-CTGATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATC-GATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * * *
22678587 CATATATCAC--ACCGATGCCATATCCCAAATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTA
22678626 TACGGAAATC
Statistics
Matches: 115, Mismatches: 13, Indels: 15
0.80 0.09 0.10
Matches are distributed among these distances:
45 1 0.01
46 27 0.23
47 34 0.30
48 11 0.10
49 36 0.31
50 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:22678682 original size:31 final size:31
Alignment explanation
Indices: 22678647--22678795 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
22678637 CTTGTCACTT
* *
22678647 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
22678678 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
22678709 GTAACCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
22678740 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
22678771 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
22678796 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:22678876 original size:50 final size:51
Alignment explanation
Indices: 22678771--22678899 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
22678761 CACTGATCAG
* * *
22678771 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
22678822 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
22678872 GTAGCTGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
22678900 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:22683798 original size:20 final size:20
Alignment explanation
Indices: 22683775--22683812 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22683765 TAAAAGTTTT
* *
22683775 AATTTTAATTTTAATTTCAC
1 AATTTAAATTTAAATTTCAC
22683795 AATTTAAATTTAAATTTC
1 AATTTAAATTTAAATTTC
22683813 TTTATATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTAAATTTAAATTTCAC
Found at i:22685452 original size:72 final size:72
Alignment explanation
Indices: 22685335--22685483 Score: 217
Period size: 72 Copynumber: 2.1 Consensus size: 72
22685325 CAAAAAGTCG
* * * * * * *
22685335 ATGTCGTGACACACCAACACCTGTGTCGCGACGTAGCTACCAGTATGCTCTTTTGTAGCCATCTT
1 ATGTCGCGAAACACCAACACCTATGTCGCGACGTAGCAACCAGTATGCTCCTCTGCAGCCATCTT
22685400 CAGGGGT
66 CAGGGGT
* *
22685407 ATGTCGCGAAACACCAACACCTATTTCGTGACGTAGCAACCAGTATGCTCCTCTGCAGCCATCTT
1 ATGTCGCGAAACACCAACACCTATGTCGCGACGTAGCAACCAGTATGCTCCTCTGCAGCCATCTT
22685472 CAGGGGT
66 CAGGGGT
22685479 ATGTC
1 ATGTC
22685484 ATGACACCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (72 bp):
ATGTCGCGAAACACCAACACCTATGTCGCGACGTAGCAACCAGTATGCTCCTCTGCAGCCATCTT
CAGGGGT
Found at i:22690395 original size:17 final size:17
Alignment explanation
Indices: 22690369--22690415 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
22690359 ACTTAACAGA
* **
22690369 AGAGTCTGCCAATCCCT
1 AGAGTTTGCCAAAACCT
22690386 AGAGTTTGCCAAAACCT
1 AGAGTTTGCCAAAACCT
22690403 AGAGTTTGCCAAA
1 AGAGTTTGCCAAA
22690416 TGGAAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (17 bp):
AGAGTTTGCCAAAACCT
Found at i:22692421 original size:49 final size:49
Alignment explanation
Indices: 22692357--22692573 Score: 236
Period size: 49 Copynumber: 4.4 Consensus size: 49
22692347 CTGGTACGCA
*
22692357 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** ** * *
22692406 TAGTAGCTTGCACTTAGTACTACACACGTAACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * * *
22692456 TAATAGACTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* * * *
22692507 TAGTAGCCTGCTCTTAGTACTACACATGCGACCAATAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
22692556 TAGTAGCCTGCACTTAGT
1 TAGTAGCCTGCACTTAGT
22692574 CATAGGAGAG
Statistics
Matches: 134, Mismatches: 31, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 55 0.41
50 44 0.33
51 35 0.26
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:22692473 original size:50 final size:48
Alignment explanation
Indices: 22692364--22692484 Score: 143
Period size: 50 Copynumber: 2.5 Consensus size: 48
22692354 GCATAGTAGC
* ** ** * *
22692364 CTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAG
1 CTGCACTTAGTACTACACACGTAACCAACCATCCGATACACGTAATAG
*
22692412 CTTGCACTTAGTACTACACACGTAACCTAACCATCTGATACACGTAATAG
1 C-TGCACTTAGTACTACACACGTAACC-AACCATCCGATACACGTAATAG
22692462 ACTGCACTTAGTACTACACACGT
1 -CTGCACTTAGTACTACACACGT
22692485 GATCGAAGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
48 1 0.02
49 22 0.35
50 38 0.61
51 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (48 bp):
CTGCACTTAGTACTACACACGTAACCAACCATCCGATACACGTAATAG
Done.