Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 70 of 167
Found at i:22246399 original size:30 final size:31
Alignment explanation
Indices: 22246379--22246439 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
22246369 TGTCTTCGTG
22246379 AATTCCTTCTTCTAGATCCA-TCATCCCTGT
1 AATTCCTTCTTCTAGATCCATTCATCCCTGT
22246409 AATTCCTTCTTCTAGATCCA-TCATCCCTGT
1 AATTCCTTCTTCTAGATCCATTCATCCCTGT
22246439 A
1 A
22246440 CGAGTTGACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (31 bp):
AATTCCTTCTTCTAGATCCATTCATCCCTGT
Found at i:22256533 original size:35 final size:34
Alignment explanation
Indices: 22256455--22256533 Score: 79
Period size: 35 Copynumber: 2.3 Consensus size: 34
22256445 ATCACAAATT
*
22256455 AAATAGATTCACAATCGGGCCTTGGCCCATGTCA
1 AAATAGATACACAATCGGGCCTTGGCCCATGTCA
* * * *
22256489 AATACAGATACAGATTCGGG-CTTGAGCCCATTTCA
1 AA-ATAGATACACAATCGGGCCTTG-GCCCATGTCA
22256524 GAAATAGATA
1 -AAATAGATA
22256534 TGCAAATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
34 6 0.17
35 28 0.78
36 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (34 bp):
AAATAGATACACAATCGGGCCTTGGCCCATGTCA
Found at i:22257152 original size:16 final size:18
Alignment explanation
Indices: 22257120--22257153 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
22257110 CGTACAGCTT
22257120 GGCCTTCGTCGATCACAC
1 GGCCTTCGTCGATCACAC
22257138 GGCCTT-GTC-ATCACAC
1 GGCCTTCGTCGATCACAC
22257154 ATGGCGTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.18, C:0.38, G:0.21, T:0.24
Consensus pattern (18 bp):
GGCCTTCGTCGATCACAC
Found at i:22271510 original size:40 final size:40
Alignment explanation
Indices: 22271411--22271561 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
22271401 TGGATGATAA
* * ** * **
22271411 CCGGGCTAAGTCCCGAAGGCATCTGCGTTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
22271451 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
22271490 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
22271530 CCGGGCTATGTCCCGAAGGTATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
22271562 AGCTATATCC
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:22276157 original size:64 final size:64
Alignment explanation
Indices: 22276083--22276238 Score: 285
Period size: 64 Copynumber: 2.4 Consensus size: 64
22276073 AAAAAAATCC
22276083 AAGGTGAAAACCCGCAAAGGGCGCCTTGAGATTTCAAAAAAAAAATAAAAAAAATGGAGAGGCCA
1 AAGG-GAAAACCCGCAAAGGGCGCCTTGAGATTTCAAAAAAAAAATAAAAAAAATGGAGAGGCCA
22276148 AAGGGAAAACCCGCAAAGGGCGCCTTGAGATTTCAAAAAAAAAATAAAAAAAATGGAGAGGCCA
1 AAGGGAAAACCCGCAAAGGGCGCCTTGAGATTTCAAAAAAAAAATAAAAAAAATGGAGAGGCCA
* *
22276212 AAGTGAAAACCCGCAAAGGGCACCTTG
1 AAGGGAAAACCCGCAAAGGGCGCCTTG
22276239 TGACCAAAGG
Statistics
Matches: 89, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
64 85 0.96
65 4 0.04
ACGTcount: A:0.47, C:0.17, G:0.24, T:0.12
Consensus pattern (64 bp):
AAGGGAAAACCCGCAAAGGGCGCCTTGAGATTTCAAAAAAAAAATAAAAAAAATGGAGAGGCCA
Found at i:22277517 original size:206 final size:206
Alignment explanation
Indices: 22277156--22277621 Score: 887
Period size: 206 Copynumber: 2.3 Consensus size: 206
22277146 TCTCAAACAA
* * *
22277156 ATCCAACATGATTTGGTATCCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
1 ATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
22277221 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
22277286 AAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGGCACGTAGCAGATCTAACCTTCAGATGTTTA
131 AAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGGCACGTAGCAGATCTAACCTTCAGATGTTTA
22277351 TACTAAAGCAG
196 TACTAAAGCAG
22277362 ATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
1 ATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
22277427 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
22277492 AAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGGCACGTAGCAGATCTAACCTTCAGATGTTTA
131 AAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGGCACGTAGCAGATCTAACCTTCAGATGTTTA
22277557 TACTAAAGCAG
196 TACTAAAGCAG
* *
22277568 ATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGC
1 ATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGCCATAGC
22277622 AAATTTGACT
Statistics
Matches: 255, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
206 255 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31
Consensus pattern (206 bp):
ATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
AAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGGCACGTAGCAGATCTAACCTTCAGATGTTTA
TACTAAAGCAG
Found at i:22277688 original size:289 final size:289
Alignment explanation
Indices: 22277362--22278062 Score: 1188
Period size: 289 Copynumber: 2.4 Consensus size: 289
22277352 ACTAAAGCAG
* * *
22277362 ATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
1 ATCCAAGATGATTTGGTATCCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
22277427 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
* *
22277492 AAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGGCACGTAGCAGATCTAACCTTCAGATGTTTA
131 AAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACGTAGCAGATCTAACCTTCAGATGTTTA
22277557 TACTAAAGCAGATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGC
196 TACTAAAGCAGATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGC
22277622 AAATTTGACTCTCAGATGTTCTCAAACAA
261 AAATTTGACTCTCAGATGTTCTCAAACAA
22277651 ATCCAAGATGATTTGGTATCCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
1 ATCCAAGATGATTTGGTATCCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
22277716 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
22277781 AAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACGTAGCAGATCTAACCTTCAGATGTTTA
131 AAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACGTAGCAGATCTAACCTTCAGATGTTTA
22277846 TACTAAAGCAGATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGC
196 TACTAAAGCAGATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGC
*
22277911 AGATTTGACTCTCAGATGTTCTCAAACAA
261 AAATTTGACTCTCAGATGTTCTCAAACAA
** ** * * **
22277940 ATCCAAGATGATTTGGTATCCTTGTACTTACAAGGAGTAATTCGAAGGCATAATTGATTTGGCTT
1 ATCCAAGATGATTTGGTATCCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGG-TT
* * * * * * * *
22278005 TT-GCGTGCTTACGCTGAAGCAAATCTAAGATGATTTTGCATCCCTGCATTGGCAGAGA
65 TTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
22278063 GTAGATCGAA
Statistics
Matches: 389, Mismatches: 22, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
289 385 0.99
290 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (289 bp):
ATCCAAGATGATTTGGTATCCTTGTGTTTACAAGGAACAAATCGAAGCCATAGCTGATTTGGTTT
TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
AAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACGTAGCAGATCTAACCTTCAGATGTTTA
TACTAAAGCAGATCCAATATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGC
AAATTTGACTCTCAGATGTTCTCAAACAA
Found at i:22279079 original size:22 final size:20
Alignment explanation
Indices: 22279053--22279228 Score: 74
Period size: 22 Copynumber: 8.2 Consensus size: 20
22279043 GTTNTATATG
22279053 TATTTTCATTATATATATTATT
1 TATTTT-ATTATATAT-TTATT
*
22279075 TATTTTACTATAT-TTTATCTAT
1 TATTTTATTATATATTTA--T-T
*
22279097 TATATTATTATATATTT-TT
1 TATTTTATTATATATTTATT
* *
22279116 AATTTTTATCATATATTTATAT
1 TA-TTTTATTATATATTTAT-T
*
22279138 ATATATTATT-TATATTTATAT
1 -TATTTTATTATATATTTAT-T
*
22279159 TATATGTT-TTAGTACATATTATT
1 TAT-T-TTATTA-TATAT-TTATT
*
22279182 T-TTATATAATATATTATATTATT
1 TATT-T-TATTATA-TAT-TTATT
* *
22279205 CATATTATTATATATTTTATT
1 TATTTTATTATATA-TTTATT
22279226 TAT
1 TAT
22279229 AAAGTTAGTA
Statistics
Matches: 118, Mismatches: 18, Indels: 37
0.68 0.10 0.21
Matches are distributed among these distances:
19 5 0.04
20 18 0.15
21 32 0.27
22 37 0.31
23 21 0.18
24 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (20 bp):
TATTTTATTATATATTTATT
Found at i:22279105 original size:17 final size:16
Alignment explanation
Indices: 22279047--22279213 Score: 58
Period size: 15 Copynumber: 10.6 Consensus size: 16
22279037 CCTTTGGTTN
22279047 TATATGTATTTTCATTAT
1 TATAT-TATTTT-ATTAT
22279065 ATATATTA-TTTATT-T
1 -TATATTATTTTATTAT
22279080 TACTA-TATTTTATCTAT
1 TA-TATTATTTTAT-TAT
*
22279097 TATATTATTATA-TAT
1 TATATTATTTTATTAT
*
22279112 T-T-TTAATTT-TTAT
1 TATATTATTTTATTAT
*
22279125 CATA-TA-TTTA-TAT
1 TATATTATTTTATTAT
22279138 ATATATTA-TTTA-TATT
1 -TATATTATTTTATTA-T
22279154 TATATTATATGTT-TTAGT
1 TATATTAT-T-TTATTA-T
*
22279172 ACATATTATTTT-TATAT
1 -TATATTATTTTAT-TAT
* *
22279189 AATA-TATTATATTAT
1 TATATTATTTTATTAT
22279204 TCATATTATT
1 T-ATATTATT
22279214 ATATATTTTA
Statistics
Matches: 117, Mismatches: 10, Indels: 44
0.68 0.06 0.26
Matches are distributed among these distances:
13 14 0.12
14 11 0.09
15 35 0.30
16 14 0.12
17 21 0.18
18 10 0.09
19 12 0.10
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (16 bp):
TATATTATTTTATTAT
Found at i:22279141 original size:32 final size:34
Alignment explanation
Indices: 22279053--22279222 Score: 108
Period size: 32 Copynumber: 5.2 Consensus size: 34
22279043 GTTNTATATG
* * * *
22279053 TATTTTCATTATATATATTATT-TATTTTA-CTA
1 TATTTTTATCATATATATTATTATATATTATTTA
22279085 TA-TTTTATC-TATTATATTATTATATATT-TTTA
1 TATTTTTATCATA-TATATTATTATATATTATTTA
22279117 -ATTTTTATCATATAT-TTATATATATATTATTTA
1 TATTTTTATCATATATATTAT-TATATATTATTTA
* * * * * * *
22279150 TATTTATATTATATGTTTTAGTACATATTATTTT
1 TATTTTTATCATATATATTATTATATATTATTTA
* * *
22279184 TA-TATAAT-ATATTATATTATT-CATATTATTATA
1 TATTTTTATCATA-TATATTATTATATATTATT-TA
22279217 TATTTT
1 TATTTT
22279223 ATTTATAAAG
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
30 2 0.02
31 19 0.18
32 39 0.36
33 18 0.17
34 27 0.25
35 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (34 bp):
TATTTTTATCATATATATTATTATATATTATTTA
Found at i:22279336 original size:23 final size:22
Alignment explanation
Indices: 22279304--22279369 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 22
22279294 TACCCATTAG
22279304 ATTATTATTATTTTATATATTCTT
1 ATTA-TATTATTTTATATATT-TT
* *
22279328 CTTATATTATATTATATATTTT
1 ATTATATTATTTTATATATTTT
*
22279350 ATTACATATATTTTAT-TATT
1 ATTATAT-TATTTTATATATT
22279370 ATATGATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 11 0.31
23 22 0.61
24 3 0.08
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATATTATTTTATATATTTT
Found at i:22279358 original size:14 final size:14
Alignment explanation
Indices: 22279341--22279367 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22279331 ATATTATATT
22279341 ATATATTTTATTAC
1 ATATATTTTATTAC
22279355 ATATATTTTATTA
1 ATATATTTTATTA
22279368 TTATATGATT
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:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATATTTTATTAC
Found at i:22279368 original size:17 final size:17
Alignment explanation
Indices: 22279348--22279399 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
22279338 ATTATATATT
22279348 TTATTACATATATTTTA
1 TTATTACATATATTTTA
22279365 TTATT--ATATGATTTATA
1 TTATTACATAT-ATTT-TA
22279382 TTATTACATAT-TTTTA
1 TTATTACATATATTTTA
22279398 TT
1 TT
22279400 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 15 0.48
19 4 0.13
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATTACATATATTTTA
Found at i:22279370 original size:34 final size:33
Alignment explanation
Indices: 22279332--22279399 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
22279322 ATTCTTCTTA
* *
22279332 TATTATATTATATATTTTATTACATATATTTTAT
1 TATTATATGATATATATTATTACATAT-TTTTAT
*
22279366 TATTATATGATTTATATTATTACATATTTTTAT
1 TATTATATGATATATATTATTACATATTTTTAT
22279399 T
1 T
22279400 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (33 bp):
TATTATATGATATATATTATTACATATTTTTAT
Found at i:22279383 original size:14 final size:13
Alignment explanation
Indices: 22279330--22279385 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
22279320 ATATTCTTCT
22279330 TATA-TTATATTA
1 TATATTTATATTA
22279342 TATATTT-TATTACA
1 TATATTTATATT--A
22279356 TATATTTTATTATTA
1 TATA-TTTA-TATTA
22279371 TATGATTTATATTA
1 TAT-ATTTATATTA
22279385 T
1 T
22279386 TACATATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 8 0.22
13 2 0.05
14 11 0.30
15 11 0.30
16 1 0.03
17 4 0.11
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (13 bp):
TATATTTATATTA
Found at i:22279556 original size:22 final size:23
Alignment explanation
Indices: 22279518--22279561 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
22279508 TACTATTTTT
22279518 CTTATATACTAAGTTAT-TATAC
1 CTTATATACTAAGTTATATATAC
*
22279540 CTTATAATA-TAATTTATATATA
1 CTTAT-ATACTAAGTTATATATA
22279562 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (23 bp):
CTTATATACTAAGTTATATATAC
Found at i:22287719 original size:27 final size:27
Alignment explanation
Indices: 22287660--22287719 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
22287650 AGCTGCTAGA
*
22287660 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAGTAAATGTGGCAAAGCCACCAAT
* * **
22287687 ATCAGTAATTGTGGCATCGCCACCAAT
1 AACAGTAAATGTGGCAAAGCCACCAAT
22287714 AACAGT
1 AACAGT
22287720 GAATATGACA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (27 bp):
AACAGTAAATGTGGCAAAGCCACCAAT
Found at i:22287913 original size:27 final size:27
Alignment explanation
Indices: 22287882--22287994 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 27
22287872 CATAATCATT
* * * **
22287882 ATTTTATCATACAAGGGTATTATGGTC
1 ATTTTACCATACAGGGGCATTACAGTC
*
22287909 ATTTTACCCTACAGGGGCATTACAGTC
1 ATTTTACCATACAGGGGCATTACAGTC
*
22287936 ATTTTACCCTACAGGGGCATTACAGTC
1 ATTTTACCATACAGGGGCATTACAGTC
* * * *
22287963 ATTTCACCATACAGGGGTATTTCAGTA
1 ATTTTACCATACAGGGGCATTACAGTC
22287990 ATTTT
1 ATTTT
22287995 GTAAACTAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTTACCATACAGGGGCATTACAGTC
Found at i:22288027 original size:27 final size:27
Alignment explanation
Indices: 22287948--22288036 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
22287938 TTTACCCTAC
* * * *
22287948 AGGGGCATTACAGTCATTTCACCATAC-
1 AGGGGTATTTCAGTAATTTCA-CAAACT
***
22287975 AGGGGTATTTCAGTAATTTTGTAAACT
1 AGGGGTATTTCAGTAATTTCACAAACT
22288002 AGGGGTATTTC-GATAATTTCACAAACT
1 AGGGGTATTTCAG-TAATTTCACAAACT
22288029 -GGGGTATT
1 AGGGGTATT
22288037 AATGACCCAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
26 12 0.24
27 38 0.76
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (27 bp):
AGGGGTATTTCAGTAATTTCACAAACT
Found at i:22288263 original size:17 final size:18
Alignment explanation
Indices: 22288241--22288276 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
22288231 TTTATCCGTG
22288241 TGGGCCCACA-AGCCCAT
1 TGGGCCCACACAGCCCAT
22288258 TGGGCCCACACAGCCCAT
1 TGGGCCCACACAGCCCAT
22288276 T
1 T
22288277 TCGGCCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.22, C:0.42, G:0.22, T:0.14
Consensus pattern (18 bp):
TGGGCCCACACAGCCCAT
Found at i:22288282 original size:19 final size:17
Alignment explanation
Indices: 22288243--22288284 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
22288233 TATCCGTGTG
*
22288243 GGCCCACAAGCCCATTG
1 GGCCCACAAGCCCATTC
22288260 GGCCCACACAGCCCATTTC
1 GGCCCACA-AGCCCA-TTC
22288279 GGCCCA
1 GGCCCA
22288285 TCGAGGCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 8 0.36
18 6 0.27
19 8 0.36
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.12
Consensus pattern (17 bp):
GGCCCACAAGCCCATTC
Found at i:22294526 original size:15 final size:15
Alignment explanation
Indices: 22294506--22294535 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22294496 CTAATTATTG
22294506 CTGGGTTGTTGGTTA
1 CTGGGTTGTTGGTTA
22294521 CTGGGTTGTTGGTTA
1 CTGGGTTGTTGGTTA
22294536 ATTGTTGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.40, T:0.47
Consensus pattern (15 bp):
CTGGGTTGTTGGTTA
Found at i:22297509 original size:76 final size:77
Alignment explanation
Indices: 22297382--22297606 Score: 285
Period size: 76 Copynumber: 3.0 Consensus size: 77
22297372 CGATTTATTT
* * *
22297382 AACTAGTGTTGGGG-GCAACTCATTGTTGGTAAATTCAACTAGTGCTAGGCACACATTTGATATC
1 AACTAGTGCTGGGGCGCAACTCATTGTCGGTAAATTCAACTAGTGCTGGGCACACATTTGATATC
*
22297446 GTCGGTTTACCC
66 GTCAGTTTACCC
* *
22297458 AACTAGTG-TGGGGCGCAACTCATTATCGGTACATTCAACTAGTGCTGGGCACACATTTGATATC
1 AACTAGTGCTGGGGCGCAACTCATTGTCGGTAAATTCAACTAGTGCTGGGCACACATTTGATATC
* **
22297522 GTTAGTTTACTT
66 GTCAGTTTACCC
* * ** * *
22297534 GACTAGTGCT-AGGCGCAACTCATTGTCGGTTTATTCAACTAGTGCTGAGCACACTTTTGATATC
1 AACTAGTGCTGGGGCGCAACTCATTGTCGGTAAATTCAACTAGTGCTGGGCACACATTTGATATC
*
22297598 ATCAGTTTA
66 GTCAGTTTA
22297607 TCCGATTAGC
Statistics
Matches: 130, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
75 5 0.04
76 124 0.95
77 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (77 bp):
AACTAGTGCTGGGGCGCAACTCATTGTCGGTAAATTCAACTAGTGCTGGGCACACATTTGATATC
GTCAGTTTACCC
Found at i:22297575 original size:36 final size:36
Alignment explanation
Indices: 22297368--22297580 Score: 115
Period size: 36 Copynumber: 5.7 Consensus size: 36
22297358 ATGTATGTAT
* * * *
22297368 TTGTCGATTTATTTAACTAGTGTTGGGGGCAACTCA
1 TTGTCGGTTTATTCAACTAGTGCTGGGCGCAACTCA
* ** * * * *
22297404 TTGTTGGTAAATTCAACTAGTGCTAGGCACACATTTGA
1 TTGTCGGTTTATTCAACTAGTGCTGGGCGCA-A-CTCA
**
22297442 TATCGTCGGTTTACCCAACTAGTG-TGGGGCGCAACTCA
1 T-T-GTCGGTTTATTCAACTAGTGCT-GGGCGCAACTCA
* ** * * *
22297480 TTATCGGTACATTCAACTAGTGCTGGGCACACATTTGA
1 TTGTCGGTTTATTCAACTAGTGCTGGGCGCA-A-CTCA
** * *
22297518 TATCGTTAGTTTACTT-GACTAGTGCTAGGCGCAACTCA
1 T-T-GTCGGTTTA-TTCAACTAGTGCTGGGCGCAACTCA
22297556 TTGTCGGTTTATTCAACTAGTGCTG
1 TTGTCGGTTTATTCAACTAGTGCTG
22297581 AGCACACTTT
Statistics
Matches: 123, Mismatches: 42, Indels: 24
0.65 0.22 0.13
Matches are distributed among these distances:
35 2 0.02
36 59 0.48
37 5 0.04
38 12 0.10
39 5 0.04
40 38 0.31
41 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.34
Consensus pattern (36 bp):
TTGTCGGTTTATTCAACTAGTGCTGGGCGCAACTCA
Found at i:22300208 original size:5 final size:5
Alignment explanation
Indices: 22300200--22300290 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
22300190 ATATATAGTG
* * *
22300200 TATAA TATAA TTTACA AATAA -A-AA TAT-A TAGTAA TATAA -ATTA TATAA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA
* *
22300248 TATAA TATAA -AAATA TATAA TATAA TGT-A TATAA TATAA TATA
1 TATAA TATAA TATA-A TATAA TATAA TATAA TATAA TATAA TATA
22300291 TAAAAAAAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 2 0.03
4 13 0.19
5 45 0.66
6 8 0.12
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:22300297 original size:37 final size:36
Alignment explanation
Indices: 22300217--22300296 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 36
22300207 TAATTTACAA
22300217 ATAAAAATATATAGTAATATAAATTATATAATATAAT
1 ATAAAAA-ATATAGTAATATAAATTATATAATATAAT
22300254 AT-AAAAATATA-TAATAT-AATGTATATAATATAAT
1 ATAAAAAATATAGTAATATAAAT-TATATAATATAAT
22300288 ATATAAAAA
1 ATA-AAAAA
22300297 AAGTATTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
33 3 0.08
34 21 0.52
35 5 0.12
36 9 0.22
37 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (36 bp):
ATAAAAAATATAGTAATATAAATTATATAATATAAT
Found at i:22300354 original size:10 final size:10
Alignment explanation
Indices: 22300341--22300370 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
22300331 ATAAAAATTC
22300341 ATAAATAAAT
1 ATAAATAAAT
22300351 ATAAATAAAT
1 ATAAATAAAT
22300361 ATAATATAAA
1 ATAA-ATAAA
22300371 ATATGTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:22300368 original size:15 final size:14
Alignment explanation
Indices: 22300341--22300370 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
22300331 ATAAAAATTC
22300341 ATAAATAAATATAA
1 ATAAATAAATATAA
22300355 ATAAATATAATATAA
1 ATAAATA-AATATAA
22300370 A
1 A
22300371 ATATGTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATAAATAAATATAA
Found at i:22300431 original size:97 final size:93
Alignment explanation
Indices: 22300210--22300432 Score: 208
Period size: 97 Copynumber: 2.3 Consensus size: 93
22300200 TATAATATAA
* *
22300210 TTTACAAATAAAAATAT-ATAGTAATATAAATTATATAATATAATATAAAAATATATAATATAAT
1 TTTACATATAAAAATATAAT-GTAATAAAAATTATATAATATAATATAAAAATATATAATATAAT
22300274 GTATATAATATAATATATAAAAAAAGTAT
65 GTATATAATATAATATATAAAAAAAGTAT
*
22300303 TATGATAGATAGT-AAAATATAATATGTAATAAAAATTCATA-AATA-AATATAAATAA-ATATA
1 T-T--TACATA-TAAAAATAT-A-ATGTAATAAAAATT-ATATAATATAATATAAA-AATATATA
*
22300364 ATATAAAATATGTATACTAATAATAATA-ATGAAACAAA-TAT
58 ATAT---A-ATGTATA-TAAT-ATAATATAT-AAAAAAAGTAT
*
22300405 TTTACATATAAAAATATAATGAAATAAA
1 TTTACATATAAAAATATAATGTAATAAA
22300433 TAATATACTA
Statistics
Matches: 107, Mismatches: 6, Indels: 30
0.75 0.04 0.21
Matches are distributed among these distances:
93 1 0.01
94 1 0.01
96 11 0.10
97 27 0.25
98 19 0.18
99 17 0.16
100 1 0.01
101 8 0.07
102 10 0.09
103 12 0.11
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (93 bp):
TTTACATATAAAAATATAATGTAATAAAAATTATATAATATAATATAAAAATATATAATATAATG
TATATAATATAATATATAAAAAAAGTAT
Found at i:22302053 original size:12 final size:12
Alignment explanation
Indices: 22302036--22302061 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22302026 AAATAAATAT
22302036 TTATTTATTTTC
1 TTATTTATTTTC
22302048 TTATTTATTTTC
1 TTATTTATTTTC
22302060 TT
1 TT
22302062 TTGTTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTATTTTC
Found at i:22303512 original size:56 final size:56
Alignment explanation
Indices: 22303452--22303717 Score: 334
Period size: 56 Copynumber: 4.8 Consensus size: 56
22303442 TCCCAGACAG
* * * **
22303452 GGTCTTACTCGCACACATATATTGGAGTCACATATCGATGCCAACGTATAAAACGC
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATAAAACAT
* * *
22303508 GGTCTTACTCACACACATATATCGGGATCACATATTGATGCCAACATATAAAACAT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATAAAACAT
* * *
22303564 GGTCTTACTCGCACAGATATATCAGAATCACATATCGATGCCAACATATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATAAAACAT
* * * *** **
22303620 GGTCTTACTTGCACATATATATCGGAATCACATATTGATGTTGATGTATAAAACAT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATAAAACAT
* * *
22303676 GGTCTTTCTCGCACACATATATCAGAATCACATGTCGATGCC
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCC
22303718 TCATATACAT
Statistics
Matches: 178, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 178 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACATATAAAACAT
Found at i:22303624 original size:112 final size:110
Alignment explanation
Indices: 22303421--22303717 Score: 378
Period size: 112 Copynumber: 2.6 Consensus size: 110
22303411 TCTTACATGT
* * * ** *
22303421 AATCACATATTGATGCCACTATCCCAGACAGGGTCTTACTCGCACACATATATTGGAGTCACATA
1 AATCACATATTGATGCCACTAT--AAAACATGGTCTTACTCGCACACATATATCAGAATCACATA
*
22303486 TCGATGCCAACGTATAAAACGCGGTCTTACTCACACACATATATCGG
64 TCGATGCCAACATATAAAACGCGGTCTTACTCACACACATATATCGG
* *
22303533 GATCACATATTGATGCCAACATATAAAACATGGTCTTACTCGCACAGATATATCAGAATCACATA
1 AATCACATATTGATGCC-AC-TATAAAACATGGTCTTACTCGCACACATATATCAGAATCACATA
* ** *
22303598 TCGATGCCAACATATAAAACGTGGTCTTACTTGCACATATATATCGG
64 TCGATGCCAACATATAAAACGCGGTCTTACTCACACACATATATCGG
** * * *
22303645 AATCACATATTGATGTTGATGTATAAAACATGGTCTTTCTCGCACACATATATCAGAATCACATG
1 AATCACATATTGATG-CCA-CTATAAAACATGGTCTTACTCGCACACATATATCAGAATCACATA
22303710 TCGATGCC
64 TCGATGCC
22303718 TCATATACAT
Statistics
Matches: 161, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
112 156 0.97
113 2 0.01
114 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (110 bp):
AATCACATATTGATGCCACTATAAAACATGGTCTTACTCGCACACATATATCAGAATCACATATC
GATGCCAACATATAAAACGCGGTCTTACTCACACACATATATCGG
Found at i:22305522 original size:20 final size:21
Alignment explanation
Indices: 22305476--22305522 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
22305466 TCTTTTGGTA
*
22305476 TTCATGATATATGTGATTGAG
1 TTCATGATATATGTAATTGAG
* *
22305497 AT-ATGATAT-TGTAATTTAG
1 TTCATGATATATGTAATTGAG
22305516 TTCATGA
1 TTCATGA
22305523 ATGGTTTTGG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 9 0.43
20 11 0.52
21 1 0.05
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (21 bp):
TTCATGATATATGTAATTGAG
Found at i:22306070 original size:26 final size:26
Alignment explanation
Indices: 22306041--22306096 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
22306031 TGATACAAAT
22306041 TGATAATGGGTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAAATGCTCCA
*
22306067 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGCTCCA
22306093 TGAT
1 TGAT
22306097 GCGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGCTCCA
Found at i:22313074 original size:26 final size:26
Alignment explanation
Indices: 22313045--22313100 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
22313035 TGATACAAAT
22313045 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22313071 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22313097 TGAT
1 TGAT
22313101 GCGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22322440 original size:142 final size:142
Alignment explanation
Indices: 22322184--22322473 Score: 562
Period size: 142 Copynumber: 2.0 Consensus size: 142
22322174 CCTCTACTTC
22322184 AATTATGCTCTTCAATTAAATCCTTTAACATCTAAAACTCATATTAATCAACTTTTGCAATTAAG
1 AATTATGCTCTTCAATTAAATCCTTTAACATCTAAAACTCATATTAATCAACTTTTGCAATTAAG
22322249 TCCTAATAGGCAAATTAGACACGCAATTCATGAAATTTTCTATCGATATTCTAACACATGCATCT
66 TCCTAATAGGCAAATTAGACACGCAATTCATGAAATTTTCTATCGATATTCTAACACATGCATCT
22322314 AATCACTCAATA
131 AATCACTCAATA
*
22322326 AATTATGCTCTTCAATTAAATCCTTTAACATCTAAAACTCATATTTATCAACTTTTGCAATTAAG
1 AATTATGCTCTTCAATTAAATCCTTTAACATCTAAAACTCATATTAATCAACTTTTGCAATTAAG
*
22322391 TCCTAATAGGCAAATTAGACATGCAATTCATGAAATTTTCTATCGATATTCTAACACATGCATCT
66 TCCTAATAGGCAAATTAGACACGCAATTCATGAAATTTTCTATCGATATTCTAACACATGCATCT
22322456 AATCACTCAATA
131 AATCACTCAATA
22322468 AATTAT
1 AATTAT
22322474 AAAAATTAAT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 146 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (142 bp):
AATTATGCTCTTCAATTAAATCCTTTAACATCTAAAACTCATATTAATCAACTTTTGCAATTAAG
TCCTAATAGGCAAATTAGACACGCAATTCATGAAATTTTCTATCGATATTCTAACACATGCATCT
AATCACTCAATA
Found at i:22327205 original size:33 final size:33
Alignment explanation
Indices: 22327168--22327238 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
22327158 CACCGCCCCT
*
22327168 TCAGCAGGAGCTGGCGCATTGCTCTCTACATCA
1 TCAGCAGGAGCTGGCCCATTGCTCTCTACATCA
22327201 TCAGCAGGAGCTGGCCCATTGCTCTCTACATCA
1 TCAGCAGGAGCTGGCCCATTGCTCTCTACATCA
22327234 TCAGC
1 TCAGC
22327239 CACAGCTGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (33 bp):
TCAGCAGGAGCTGGCCCATTGCTCTCTACATCA
Found at i:22327246 original size:33 final size:33
Alignment explanation
Indices: 22327168--22327247 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
22327158 CACCGCCCCT
* *
22327168 TCAGCAGGAGCTGGCGCATTGCTCTCTACATCA
1 TCAGCAGCAGCTGGCCCATTGCTCTCTACATCA
*
22327201 TCAGCAGGAGCTGGCCCATTGCTCTCTACATCA
1 TCAGCAGCAGCTGGCCCATTGCTCTCTACATCA
22327234 TCAGCCA-CAGCTGG
1 TCAG-CAGCAGCTGG
22327248 ATCGAGATCC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 42 0.95
34 2 0.05
ACGTcount: A:0.21, C:0.33, G:0.24, T:0.23
Consensus pattern (33 bp):
TCAGCAGCAGCTGGCCCATTGCTCTCTACATCA
Found at i:22329967 original size:24 final size:24
Alignment explanation
Indices: 22329940--22329987 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
22329930 TTCTCTTTAT
*
22329940 TTTTGGATTTTGGAATTGGTGTTC
1 TTTTGCATTTTGGAATTGGTGTTC
22329964 TTTTGCATTTTGGAATTGGTGTTC
1 TTTTGCATTTTGGAATTGGTGTTC
22329988 CAATATTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.06, G:0.27, T:0.54
Consensus pattern (24 bp):
TTTTGCATTTTGGAATTGGTGTTC
Found at i:22343072 original size:30 final size:30
Alignment explanation
Indices: 22343036--22343096 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
22343026 CACAGACTGG
*
22343036 CACATGGGCGTGTGGCCTGCCCGTGTGGAT
1 CACATGGGCGTGTGCCCTGCCCGTGTGGAT
*
22343066 CACATGGGCGTGTGCCCTGCCTGTGTGGAT
1 CACATGGGCGTGTGCCCTGCCCGTGTGGAT
22343096 C
1 C
22343097 CTGAAAACTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.10, C:0.28, G:0.38, T:0.25
Consensus pattern (30 bp):
CACATGGGCGTGTGCCCTGCCCGTGTGGAT
Found at i:22343972 original size:12 final size:12
Alignment explanation
Indices: 22343941--22343972 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22343931 TTTTTTCACC
22343941 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
22343953 TTCTTTTTCTTT
1 TTTTTTTTCTTT
22343965 TTTTTTTT
1 TTTTTTTT
22343973 TGAGAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:22344871 original size:51 final size:41
Alignment explanation
Indices: 22344826--22344916 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
22344816 AATAAACACA
*
22344826 AATAATAATGAAAATTAAGGGGTTATAACTTGATTAGAAAC
1 AATAATAAAGAAAATTAAGGGGTTATAACTTGATTAGAAAC
22344867 AATAATAAAGAAAATTAAGGGGTTATAACTTGATTAGAAAC
1 AATAATAAAGAAAATTAAGGGGTTATAACTTGATTAGAAAC
*
22344908 AATCATAAA
1 AATAATAAA
22344917 TCTTTCAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.52, C:0.05, G:0.15, T:0.27
Consensus pattern (41 bp):
AATAATAAAGAAAATTAAGGGGTTATAACTTGATTAGAAAC
Found at i:22345015 original size:8 final size:8
Alignment explanation
Indices: 22345002--22345041 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
22344992 AAAAAGAACG
22345002 ATAAAATA
1 ATAAAATA
22345010 ATAAAATA
1 ATAAAATA
22345018 AT--AATA
1 ATAAAATA
22345024 AT--AATA
1 ATAAAATA
22345030 ATAAAATA
1 ATAAAATA
22345038 ATAA
1 ATAA
22345042 TAAACTCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.40
8 18 0.60
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (8 bp):
ATAAAATA
Found at i:22345028 original size:17 final size:17
Alignment explanation
Indices: 22345002--22345044 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
22344992 AAAAAGAACG
22345002 ATAA-AATAATAA-AATA
1 ATAATAATAATAATAA-A
22345018 ATAATAATAATAATAAA
1 ATAATAATAATAATAAA
22345035 ATAATAATAA
1 ATAATAATAA
22345045 ACTCAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.16
17 19 0.76
18 2 0.08
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAATAATAATAATAAA
Found at i:22345055 original size:3 final size:3
Alignment explanation
Indices: 22345002--22345044 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
22344992 AAAAAGAACG
22345002 ATA A-A ATA ATA A-A ATA ATA ATA ATA ATA ATA A-A ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22345045 ACTCAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.16
3 31 0.84
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:22345055 original size:23 final size:20
Alignment explanation
Indices: 22344953--22345044 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
22344943 TAAATTGAAG
22344953 AAAA-AATAATAATAATAAT
1 AAAATAATAATAATAATAAT
* * * *
22344972 AAAACAACAAAAACAA-AATT
1 AAAATAATAATAATAATAA-T
* **
22344992 AAAAAGAACGATAA-AATAAT
1 -AAAATAATAATAATAATAAT
22345012 AAAATAATAATAATAATAAT
1 AAAATAATAATAATAATAAT
22345032 AAAATAATAATAA
1 AAAATAATAATAA
22345045 ACTCAATAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
19 16 0.27
20 31 0.53
21 12 0.20
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAATAATAATAATAATAAT
Found at i:22345140 original size:22 final size:22
Alignment explanation
Indices: 22345092--22345132 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22345082 TGATAATAGT
*
22345092 AAAAATAAAAAAATACGAAAGA
1 AAAAAGAAAAAAATACGAAAGA
22345114 AAAAAGAAAAAAATA-GAAA
1 AAAAAGAAAAAAATACGAAA
22345133 TAGCAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.07
Consensus pattern (22 bp):
AAAAAGAAAAAAATACGAAAGA
Found at i:22345149 original size:16 final size:16
Alignment explanation
Indices: 22345113--22345164 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
22345103 AATACGAAAG
*
22345113 AAAAAAGAAAAAAA-T
1 AAAATAGAAAAAAATT
* *
22345128 AGAAATAGCAAAAATTT
1 A-AAATAGAAAAAAATT
*
22345145 AAAATATAAAAAAATT
1 AAAATAGAAAAAAATT
22345161 AAAA
1 AAAA
22345165 ATATAAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
15 1 0.03
16 26 0.90
17 2 0.07
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAATAGAAAAAAATT
Found at i:22345157 original size:17 final size:17
Alignment explanation
Indices: 22345137--22345170 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22345127 TAGAAATAGC
*
22345137 AAAAATTTAAAATATAA
1 AAAAATTAAAAATATAA
22345154 AAAAATTAAAAATATAA
1 AAAAATTAAAAATATAA
22345171 GTATAAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAATTAAAAATATAA
Found at i:22345221 original size:22 final size:20
Alignment explanation
Indices: 22345203--22345254 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
22345193 AATTAATTAG
22345203 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAATA
*
22345223 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAATA
22345245 TAAAATAAAA
1 TAAAATAAAA
22345255 CTGGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATA
Found at i:22350312 original size:27 final size:27
Alignment explanation
Indices: 22350274--22350325 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
22350264 GTGTGAGAAT
22350274 GATTCTTCTTCTGCCTTCAATGCTAAG
1 GATTCTTCTTCTGCCTTCAATGCTAAG
*
22350301 GATTCTTCTTCTTCCTTCAATGCTA
1 GATTCTTCTTCTGCCTTCAATGCTA
22350326 TTTTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.27, G:0.12, T:0.44
Consensus pattern (27 bp):
GATTCTTCTTCTGCCTTCAATGCTAAG
Found at i:22352127 original size:25 final size:25
Alignment explanation
Indices: 22352098--22352150 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
22352088 ACTATCCTCC
22352098 AAGGTATTTTGTAATAAAGCTCACT
1 AAGGTATTTTGTAATAAAGCTCACT
22352123 AAGGTATTTTGTAATAAAGCTCACT
1 AAGGTATTTTGTAATAAAGCTCACT
22352148 AAG
1 AAG
22352151 TTATCTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (25 bp):
AAGGTATTTTGTAATAAAGCTCACT
Found at i:22352368 original size:5 final size:5
Alignment explanation
Indices: 22352358--22352394 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
22352348 CCTGTTGTAA
22352358 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TA
22352395 AATATTTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:22358349 original size:22 final size:22
Alignment explanation
Indices: 22358321--22358377 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
22358311 TAAAGGTTAA
22358321 GACACTAAAGCCTGGGTGTCGT
1 GACACTAAAGCCTGGGTGTCGT
22358343 GACACTAAAGCCTGGGTGTCGT
1 GACACTAAAGCCTGGGTGTCGT
22358365 GACACTAAAGCCT
1 GACACTAAAGCCT
22358378 AACGAGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.28, T:0.21
Consensus pattern (22 bp):
GACACTAAAGCCTGGGTGTCGT
Found at i:22358611 original size:17 final size:19
Alignment explanation
Indices: 22358591--22358629 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
22358581 AGGTTAGATC
22358591 TATTTTTC-CA-TTTTCTT
1 TATTTTTCACATTTTTCTT
22358608 TATTTTTCTACATTTTTCTT
1 TATTTTTC-ACATTTTTCTT
22358628 TA
1 TA
22358630 ATTAAAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
19 2 0.11
20 9 0.47
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTTTTCACATTTTTCTT
Found at i:22361559 original size:16 final size:16
Alignment explanation
Indices: 22361538--22361575 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
22361528 AGATTTTTGG
22361538 AATTAAAAGTGAAAAA
1 AATTAAAAGTGAAAAA
* *
22361554 AATT-AAATTTAAAAA
1 AATTAAAAGTGAAAAA
22361569 AATTAAA
1 AATTAAA
22361576 GAGTATAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (16 bp):
AATTAAAAGTGAAAAA
Found at i:22365635 original size:5 final size:5
Alignment explanation
Indices: 22365618--22365651 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
22365608 TAAGTAAATG
22365618 TTATA TTATTA TTATA TTATA TTATA TTATA TTA
1 TTATA TTA-TA TTATA TTATA TTATA TTATA TTA
22365652 CTATAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:22366900 original size:24 final size:24
Alignment explanation
Indices: 22366873--22366922 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
22366863 TGAACCATGG
22366873 GTTCATGAAATGGTTATTAATATA
1 GTTCATGAAATGGTTATTAATATA
*
22366897 GTTCATGAAATGGTTATTGATATA
1 GTTCATGAAATGGTTATTAATATA
22366921 GT
1 GT
22366923 GAGATGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (24 bp):
GTTCATGAAATGGTTATTAATATA
Found at i:22373414 original size:30 final size:30
Alignment explanation
Indices: 22373380--22373438 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
22373370 CACCTCAAAG
22373380 GTGAATGGGAGGCGAGAGACCCCAAACTGT
1 GTGAATGGGAGGCGAGAGACCCCAAACTGT
22373410 GTGAATGGGAGGCGAGAGACCCCAAACTG
1 GTGAATGGGAGGCGAGAGACCCCAAACTG
22373439 ATCAACTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.37, T:0.12
Consensus pattern (30 bp):
GTGAATGGGAGGCGAGAGACCCCAAACTGT
Found at i:22377643 original size:39 final size:40
Alignment explanation
Indices: 22377598--22377769 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
22377588 GCTCCTCGTT
* * *
22377598 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
22377638 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
22377677 CGAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
22377717 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
22377757 CAAATGCCTTCGG
1 CAAATGCCTTCGG
22377770 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.30
40 78 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:22377698 original size:40 final size:39
Alignment explanation
Indices: 22377600--22377822 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
22377590 TCCTCGTTCA
* * * *
22377600 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
22377639 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
22377678 GAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
22377718 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
22377758 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
22377799 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
22377823 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
39 40 0.26
40 103 0.66
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:22377831 original size:41 final size:41
Alignment explanation
Indices: 22377754--22377831 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
22377744 TTTGTATCTC
* * *
22377754 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
22377795 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
22377832 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:22395259 original size:44 final size:45
Alignment explanation
Indices: 22395067--22395751 Score: 408
Period size: 44 Copynumber: 15.2 Consensus size: 45
22395057 TCGTGGCGAG
* * * *
22395067 TCTTATCTCCCTAAAGTTGCAATGGAGTAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * * * * * *
22395112 TTTTATCTCTCTGAAGTTGCAATAGAGCAAATTAAAGTTA-CAAT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * *
22395156 TC-TATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * * *
22395200 TCTTATCTCTCTGAAGTTGTAGTAGAACAGATTGAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * * *
22395244 TCTTATCTCACTGAAGTTGTAGCGGAGCATATTGGAA-TTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGTTAGCAAA
* *
22395288 TCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * * *
22395333 TCTTATTTCCCTGAAG-TGTAGTGGAACAAATTAAAGCTACAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTAGCAAA
* * * * *
22395383 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAGCTAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * * *
22395428 CCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAACTACAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-----T-GAAGTTAGCAAA
* * * * *
22395479 TCTTATCCCCCTAAAGTTGCAGCGGAGTAGATT-AA---AACTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGC-AAA
* * * * * * *
22395521 TCCTATAC-CTCTGAAGTTGCAATAGGTCAGACTAAATCT--AGCGTGGCGAA
1 TCTTAT-CTCCCTGAAGTTGCAGT-GG--AG-C-AGAT-TGAAG-TTAGCAAA
* *
22395571 TTTTATCTCCCTGAAGTTGCAAAT-GAGCAGATTGAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGTTAGCAAA
* **
22395615 TCTTACCTCCCTGAAGTTATAGTGGAGCAGATTGAAGTTA-CAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * **
22395659 TCTTATCTCCCTAAAGTTGCAATGGAGCAGATT-AAAAT-G--AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
* * * * * *
22395700 TATTATCTCCCTGAAGTTACAGTAGAACCGATTGAAGTTA-CTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
22395744 TCTTATCT
1 TCTTATCT
22395752 TTCAAAAGTT
Statistics
Matches: 502, Mismatches: 94, Indels: 89
0.73 0.14 0.13
Matches are distributed among these distances:
40 1 0.00
41 29 0.06
42 22 0.04
43 46 0.09
44 173 0.34
45 126 0.25
46 3 0.01
47 7 0.01
48 1 0.00
49 2 0.00
50 36 0.07
51 51 0.10
52 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAA
Found at i:22395302 original size:133 final size:131
Alignment explanation
Indices: 22395095--22395460 Score: 385
Period size: 133 Copynumber: 2.7 Consensus size: 131
22395085 GCAATGGAGT
* * * * * * *
22395095 AGATTGAAGATAGCAAATTTTATCTCTCTGAAGTTGCAATAGAGCAAATTAAAGTTACAATTCTA
1 AGATTGAAGTTA-CAAATCTTATCTCACTGAAGTTGTAGTGGAGCAAATTAAAGTTACAAATCTA
* *
22395160 TCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAG
65 TCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAG-TGTAGTAG
22395225 AAC
129 AAC
* * *
22395228 AGATTGAAGTTACAAATCTTATCTCACTGAAGTTGTAGCGGAGCATATTGGAA-TTACAAATCTC
1 AGATTGAAGTTACAAATCTTATCTCACTGAAGTTGTAGTGGAGCAAATT-AAAGTTACAAATCT-
* * *
22395292 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTGTAGTGG
64 ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTGTAGTAG
22395357 AAC
129 AAC
* * * *
22395360 AAATTAAAGCTACAAGTTACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGAA-TAAAGCTAG
1 AGATT---G----AAGTTACAAATCTTATCTCACTGAAGTTGTAGTGGAGCA-AATTAAAGTTA-
* * * *
22395424 CAAACCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
57 CAAATC-TATCTCCCTGAAGTTGCAGTAGAGCAGATT
22395461 AAAACTACAA
Statistics
Matches: 195, Mismatches: 25, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
132 53 0.27
133 66 0.34
135 1 0.01
138 2 0.01
139 39 0.20
140 33 0.17
141 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (131 bp):
AGATTGAAGTTACAAATCTTATCTCACTGAAGTTGTAGTGGAGCAAATTAAAGTTACAAATCTAT
CTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGTGTAGTAGAA
C
Found at i:22395399 original size:95 final size:96
Alignment explanation
Indices: 22395281--22395514 Score: 335
Period size: 95 Copynumber: 2.4 Consensus size: 96
22395271 CATATTGGAA
* * *
22395281 TTACAAATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAACCTTATTTCCCTG
* *
22395346 AAG-TGTAGTGGAACAAATTAAAGCTACAAG
66 AAGTTGCAGTGGAACAAATTAAAACTACAAG
* * * *
22395376 TTACAAACCTTATCTCCCTGAAGTTGTAGTGGAGCAGAATAAAGCTAGCAAACCTTATTTCCCTG
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAACCTTATTTCCCTG
*
22395441 AAGTTGCAGTGGAACAGATTAAAACTACAAG
66 AAGTTGCAGTGGAACAAATTAAAACTACAAG
* * * *
22395472 TTACAAATCTTATCCCCCTAAAGTTGCAGCGGAGTAGATTAAA
1 TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
22395515 ACTAAATCCT
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
95 61 0.50
96 60 0.50
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (96 bp):
TTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGATAGCAAACCTTATTTCCCTG
AAGTTGCAGTGGAACAAATTAAAACTACAAG
Found at i:22396871 original size:36 final size:36
Alignment explanation
Indices: 22396824--22396903 Score: 151
Period size: 36 Copynumber: 2.2 Consensus size: 36
22396814 CTATATGACG
22396824 TCGTTTTGGGCTTAATTTTCAGACACCAAAACGACA
1 TCGTTTTGGGCTTAATTTTCAGACACCAAAACGACA
*
22396860 TCGTTTTGGGCTTAATTTTCAGACACCAAAACGACG
1 TCGTTTTGGGCTTAATTTTCAGACACCAAAACGACA
22396896 TCGTTTTG
1 TCGTTTTG
22396904 ACACAATTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (36 bp):
TCGTTTTGGGCTTAATTTTCAGACACCAAAACGACA
Found at i:22398274 original size:18 final size:19
Alignment explanation
Indices: 22398251--22398298 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
22398241 GATTCAAAAT
22398251 AGCAAA-AAAATAAATTTA
1 AGCAAATAAAATAAATTTA
*
22398269 AGCAAATAAAGTAAATTT-
1 AGCAAATAAAATAAATTTA
*
22398287 -GTAAATAAAATA
1 AGCAAATAAAATA
22398299 TTTTAAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 10 0.38
18 6 0.23
19 10 0.38
ACGTcount: A:0.62, C:0.04, G:0.08, T:0.25
Consensus pattern (19 bp):
AGCAAATAAAATAAATTTA
Found at i:22398285 original size:19 final size:18
Alignment explanation
Indices: 22398251--22398286 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
22398241 GATTCAAAAT
22398251 AGCAAAAAAATAAATTTA
1 AGCAAAAAAATAAATTTA
*
22398269 AGCAAATAAAGTAAATTT
1 AGCAAA-AAAATAAATTT
22398287 GTAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (18 bp):
AGCAAAAAAATAAATTTA
Found at i:22398535 original size:13 final size:13
Alignment explanation
Indices: 22398517--22398541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22398507 AAAGTCTGTT
22398517 TTTGGTTGTAGTA
1 TTTGGTTGTAGTA
22398530 TTTGGTTGTAGT
1 TTTGGTTGTAGT
22398542 GACTAATTAT
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:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (13 bp):
TTTGGTTGTAGTA
Found at i:22398620 original size:23 final size:23
Alignment explanation
Indices: 22398592--22398666 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
22398582 TAGATTTTTC
*
22398592 TTAAATATTATGAATAAATAATT
1 TTAAATATTATCAATAAATAATT
*
22398615 TTAAATATTATTAATAAATAATT
1 TTAAATATTATCAATAAATAATT
*
22398638 TTAAATATTATCATTAAATAATT
1 TTAAATATTATCAATAAATAATT
*
22398661 TAAAAT
1 TTAAAT
22398667 TTAAATCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (23 bp):
TTAAATATTATCAATAAATAATT
Found at i:22398680 original size:18 final size:19
Alignment explanation
Indices: 22398657--22398700 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
22398647 ATCATTAAAT
*
22398657 AATTTAAAATT-TAAATCA
1 AATTTAAAATTAAAAATCA
*
22398675 AATTT-AAATTAAAAATTA
1 AATTTAAAATTAAAAATCA
22398693 AATTTAAA
1 AATTTAAA
22398701 CTAATTACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 15 0.68
19 2 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTAAAATTAAAAATCA
Found at i:22399193 original size:19 final size:19
Alignment explanation
Indices: 22399169--22399206 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
22399159 AATTTTTAGT
22399169 TTTTATGATATAAAA-AATA
1 TTTTAT-ATATAAAATAATA
*
22399188 TTTTATATTTAAAATAATA
1 TTTTATATATAAAATAATA
22399207 AAAATAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTTATATATAAAATAATA
Found at i:22403740 original size:22 final size:22
Alignment explanation
Indices: 22403715--22403759 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22403705 AATATTAAAT
22403715 ATTTATTCTTGTAATTTAATCA
1 ATTTATTCTTGTAATTTAATCA
22403737 ATTTATTCTTGTAATTTAATCA
1 ATTTATTCTTGTAATTTAATCA
22403759 A
1 A
22403760 GTAATACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTATTCTTGTAATTTAATCA
Found at i:22408528 original size:8 final size:8
Alignment explanation
Indices: 22408499--22408556 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
22408489 ATAATTTTTT
22408499 TATATAAAA
1 TATA-AAAA
*
22408508 -ATAAAAT
1 TATAAAAA
22408515 TA-AAAAA
1 TATAAAAA
*
22408522 TATAAAAC
1 TATAAAAA
22408530 TATAAAAA
1 TATAAAAA
*
22408538 CACTAAAAA
1 TA-TAAAAA
22408547 TATAAAAA
1 TATAAAAA
22408555 TA
1 TA
22408557 AATATTTCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
7 9 0.22
8 24 0.60
9 7 0.17
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (8 bp):
TATAAAAA
Found at i:22408537 original size:17 final size:16
Alignment explanation
Indices: 22408499--22408554 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
22408489 ATAATTTTTT
*
22408499 TATATAAAA-ATAAAA
1 TATAAAAAATATAAAA
22408514 T-TAAAAAATATAAAA
1 TATAAAAAATATAAAA
22408529 CTATAAAAACACTA-AAAA
1 -TATAAAAA-A-TATAAAA
22408547 TATAAAAA
1 TATAAAAA
22408555 TAAATATTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 6 0.17
15 7 0.20
16 1 0.03
17 14 0.40
18 5 0.14
19 2 0.06
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.23
Consensus pattern (16 bp):
TATAAAAAATATAAAA
Found at i:22409151 original size:3 final size:3
Alignment explanation
Indices: 22409138--22409187 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
22409128 GTTTAAAAAG
* * * *
22409138 AGA AAA AGA AGA AGT AGA AGA AG- AGG AGA AGA AGA AGA AGA GGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
22409185 AGA
1 AGA
22409188 GAAAAAATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:22409162 original size:23 final size:23
Alignment explanation
Indices: 22409135--22409193 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 23
22409125 AGGGTTTAAA
22409135 AAGAGAAAAAGAAGAAGTA-GAAG
1 AAGAGAAAAAGAAGAAG-AGGAAG
22409158 AAGAGGAGAAGAAGAAGAAGAGGAAG
1 AAGA-GA-AA-AAGAAGAAGAGGAAG
22409184 AAGAGAAAAA
1 AAGAGAAAAA
22409194 ATAGAGATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 6 0.19
24 4 0.12
25 5 0.16
26 17 0.53
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (23 bp):
AAGAGAAAAAGAAGAAGAGGAAG
Found at i:22410205 original size:30 final size:31
Alignment explanation
Indices: 22410130--22410205 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
22410120 ATATTAATCG
* *
22410130 GTGACTGTTTTGTCACTTTTTGATAACCTTA
1 GTGACTGTTTTGTCACTTTTTCATAACATTA
* *
22410161 GTGACTGCTATGTCACTTTTTCA-AA-ATTAA
1 GTGACTGTTTTGTCACTTTTTCATAACATT-A
22410191 GTGACTGTTTTGTCA
1 GTGACTGTTTTGTCA
22410206 GCTACCTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 2 0.05
30 16 0.42
31 20 0.53
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (31 bp):
GTGACTGTTTTGTCACTTTTTCATAACATTA
Found at i:22418886 original size:21 final size:21
Alignment explanation
Indices: 22418862--22418903 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22418852 TTGAATTAAG
22418862 TGAATTAAAATATTA-TATGAT
1 TGAATTAAAATA-TAGTATGAT
*
22418883 TGAATTAATATATAGTATGAT
1 TGAATTAAAATATAGTATGAT
22418904 AAATGTTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (21 bp):
TGAATTAAAATATAGTATGAT
Found at i:22420737 original size:14 final size:15
Alignment explanation
Indices: 22420700--22420737 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
22420690 ACTAGTAGTA
22420700 GGGATTTTGAGACTT
1 GGGATTTTGAGACTT
*
22420715 GGAGATTTT-AGATTT
1 GG-GATTTTGAGACTT
22420730 GGGATTTT
1 GGGATTTT
22420738 CAATTTAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 9 0.43
16 6 0.29
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.45
Consensus pattern (15 bp):
GGGATTTTGAGACTT
Found at i:22422014 original size:37 final size:37
Alignment explanation
Indices: 22421964--22422042 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
22421954 TTATTACGAA
* * *
22421964 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
22422001 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
22422038 GTCTT
1 GTCTT
22422043 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:22422239 original size:47 final size:47
Alignment explanation
Indices: 22422163--22422336 Score: 215
Period size: 47 Copynumber: 3.7 Consensus size: 47
22422153 CTTCGGGACT
* * * * *
22422163 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
22422210 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* *
22422257 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
22422304 TATCTCATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATACACT-TTCACATTCATCACAT
22422337 AGAATCCTAA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 1 0.01
47 113 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:22422325 original size:94 final size:94
Alignment explanation
Indices: 22422161--22422336 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 94
22422151 CCCTTCGGGA
* * * * *
22422161 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
22422226 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATCCATCACATCGGCCATTAGGC
* * * * *
22422255 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
22422319 TGTTCACATCCATCACAT
66 T-TTCACATCCATCACAT
22422337 AGAATCCTAA
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
93 1 0.01
94 69 0.99
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATCCATCACATCGGCCATTAGGC
Found at i:22429227 original size:47 final size:47
Alignment explanation
Indices: 22429151--22429246 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
22429141 GTTGCAAAAA
* **
22429151 CACCTTATAAGCTTTGGATAGGTTGAAAGCCTAGTCTAAAACACTTT
1 CACCTTATAAGCTTTGGACAGGTCAAAAGCCTAGTCTAAAACACTTT
* *
22429198 CACCTTATAAGCTTTTGACAGGTCAAAAGCCTAGTGTAAAACACTTT
1 CACCTTATAAGCTTTGGACAGGTCAAAAGCCTAGTCTAAAACACTTT
22429245 CA
1 CA
22429247 TATTTAAGGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (47 bp):
CACCTTATAAGCTTTGGACAGGTCAAAAGCCTAGTCTAAAACACTTT
Found at i:22438314 original size:93 final size:93
Alignment explanation
Indices: 22438202--22438372 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
22438192 GCCCCTAAGT
*
22438202 GAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
22438266 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
22438295 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22438360 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22438373 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22438368 original size:46 final size:46
Alignment explanation
Indices: 22438199--22438369 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
22438189 CCCGCCCCTA
* *
22438199 AGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
*
22438244 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCCAT
*
22438292 CA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
22438337 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
22438370 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 7, Indels: 20
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 57 0.53
47 31 0.29
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCCAT
Found at i:22438829 original size:30 final size:30
Alignment explanation
Indices: 22438795--22438854 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22438785 ATTTAATACG
22438795 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
22438825 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
22438855 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:22442868 original size:27 final size:26
Alignment explanation
Indices: 22442824--22442875 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
22442814 CTCGCTGCAA
*
22442824 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
22442851 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
22442876 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:22444254 original size:29 final size:29
Alignment explanation
Indices: 22444212--22444271 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
22444202 TATAGCTTAG
*
22444212 TAAGCTCGTATGCAAGAAATAAGCAACCT
1 TAAGCTCGTATGCAAAAAATAAGCAACCT
22444241 TAAGCTCGTATGCAAAAAATAAGCAACCT
1 TAAGCTCGTATGCAAAAAATAAGCAACCT
22444270 TA
1 TA
22444272 CCATGCATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (29 bp):
TAAGCTCGTATGCAAAAAATAAGCAACCT
Found at i:22452156 original size:40 final size:40
Alignment explanation
Indices: 22452101--22452288 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
22452091 GAGCATTGGA
22452101 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
22452141 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
* * **** * *
22452181 ATATATCCGGGCGAAGGCAATTATGCGAGA-T-TGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGC-A-ATTATGCGAGATG
* *
22452221 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
** *
22452261 ATACGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
22452289 ATGTGTTTGC
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 2 0.02
40 119 0.95
41 2 0.02
42 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
Found at i:22460784 original size:40 final size:40
Alignment explanation
Indices: 22460724--22461710 Score: 1875
Period size: 40 Copynumber: 24.7 Consensus size: 40
22460714 AGCATTGGAT
* *
22460724 TATACCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
* *
22460764 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22460804 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22460844 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22460884 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22460924 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22460964 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461004 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461044 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461084 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461124 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461164 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461204 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461244 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461284 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461324 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461364 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461404 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461444 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461484 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
22461524 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
*
22461564 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
* * *
22461604 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
*
22461644 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
* *
22461684 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
22461711 ATGTGTTTGC
Statistics
Matches: 936, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 936 1.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGGGTTGA
Found at i:22463754 original size:26 final size:26
Alignment explanation
Indices: 22463717--22463774 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
22463707 TGATACAAAT
22463717 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
22463743 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
22463769 TGATAA
1 TGATAA
22463775 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:22466749 original size:40 final size:40
Alignment explanation
Indices: 22466698--22466962 Score: 356
Period size: 40 Copynumber: 6.7 Consensus size: 40
22466688 TTGAATGCTG
* * * *
22466698 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAA
* *
22466738 TCCGGATTAAGTTCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
*
22466778 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
**
22466818 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
22466858 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* * **
22466898 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* *
22466937 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
22466963 AACGAGGAGC
Statistics
Matches: 205, Mismatches: 17, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.17
40 161 0.79
41 9 0.04
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
Found at i:22468973 original size:200 final size:201
Alignment explanation
Indices: 22468630--22469030 Score: 759
Period size: 200 Copynumber: 2.0 Consensus size: 201
22468620 CAGTGCCGGC
*
22468630 AGACTCTCAACCTAATGTTAGTAATCCGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGA
1 AGACTCTCAACCTAATGCTAGTAATCCGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGA
* * *
22468695 ATGATTGGTTTAACCAATACATTCGAACTAATATGGCTGTTCCACACCCTCCATTCCCGACAAAT
66 ATGATTGGTTCAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCAACAAAT
22468760 ACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAATAAGGTCAAATAAG-CCCCAGTTGA
131 ACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAATAAGGTCAAATAAGCCCCCAGTTGA
22468824 CAGAAT
196 CAGAAT
22468830 AGACTCTCAACCTAATGCTAGTAATCCGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGA
1 AGACTCTCAACCTAATGCTAGTAATCCGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGA
22468895 ATGATTGGTTCAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCAACAAAT
66 ATGATTGGTTCAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCAACAAAT
22468960 ACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAATAAGGTCAAATAAGCCCCCAGTTGA
131 ACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAATAAGGTCAAATAAGCCCCCAGTTGA
22469025 CAGAAT
196 CAGAAT
22469031 CCGAAAACAT
Statistics
Matches: 196, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
200 180 0.92
201 16 0.08
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (201 bp):
AGACTCTCAACCTAATGCTAGTAATCCGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGA
ATGATTGGTTCAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCAACAAAT
ACTACCCCCGCACCTACAATACCACCGGTAACGGACCAAATAAGGTCAAATAAGCCCCCAGTTGA
CAGAAT
Found at i:22474460 original size:40 final size:39
Alignment explanation
Indices: 22474429--22474601 Score: 229
Period size: 40 Copynumber: 4.3 Consensus size: 39
22474419 GGACTAAGAT
*
22474429 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
22474469 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
22474509 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCGGGTTAAGTC
* * ** *
22474549 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATCCGGGTTAAGTC
22474589 CCGAAGGCATTTG
1 CCGAAGGCATTTG
22474602 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
40 118 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:22474592 original size:120 final size:120
Alignment explanation
Indices: 22474376--22474601 Score: 278
Period size: 120 Copynumber: 1.9 Consensus size: 120
22474366 TTGAATGCTG
* *
22474376 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
*
22474441 GTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 GTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACTAAA
* * * * **
22474496 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
22474559 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTTG
64 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTTG
22474602 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
119 1 0.01
120 78 0.88
121 10 0.11
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:22474619 original size:40 final size:40
Alignment explanation
Indices: 22474376--22474634 Score: 228
Period size: 40 Copynumber: 6.5 Consensus size: 40
22474366 TTGAATGCTG
* * * *
22474376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTAG-TTAAA
** *
22474416 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-A-TACAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTAGT-TAAA
* * *
22474455 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATA-CTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TAGTTAAA
22474496 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-TTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG-TAGTTAAA
* *
22474536 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAGTTAAA
* ** * * *
22474576 TCCGGGTTATGTCCCGAAGGCATTTGAACGAGGAGCTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAGTTAAA
*
22474616 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22474635 TACGTGATTT
Statistics
Matches: 183, Mismatches: 27, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
39 17 0.09
40 154 0.84
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAGTTAAA
Found at i:22474619 original size:120 final size:120
Alignment explanation
Indices: 22474376--22474634 Score: 276
Period size: 120 Copynumber: 2.2 Consensus size: 120
22474366 TTGAATGCTG
* * *
22474376 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
* **
22474441 GTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 GTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGAACGAGATACTAAA
* * * **
22474496 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
22474559 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTTGAACGAGGA-GCTATA
64 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTTGAACGA-GATACTAAA
*
22474616 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22474635 TACGTGATTT
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
119 16 0.14
120 88 0.76
121 12 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTTGAACGAGATACTAAA
Found at i:22482242 original size:27 final size:28
Alignment explanation
Indices: 22482158--22482255 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
22482148 CATGAGATTG
* * * *
22482158 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
22482187 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
22482215 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
22482242 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
22482256 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:22482266 original size:27 final size:27
Alignment explanation
Indices: 22482186--22482268 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
22482176 TAAATTGTAC
* * *
22482186 AGCACTAAGTGTGCAAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
22482214 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
22482241 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
22482268 A
1 A
22482269 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:22482269 original size:29 final size:27
Alignment explanation
Indices: 22482158--22482269 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
22482148 CATGAGATTG
** * *
22482158 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
22482187 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
22482215 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
22482242 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
22482270 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 26 0.37
29 21 0.30
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:22487410 original size:39 final size:39
Alignment explanation
Indices: 22487246--22487428 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
22487236 TTGAATGCTG
* * * * * *
22487246 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
22487286 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
**
22487326 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
22487366 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
22487405 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22487429 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 37 0.31
40 75 0.62
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:22487448 original size:79 final size:80
Alignment explanation
Indices: 22487282--22487463 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 80
22487272 GCTAAGTGAA
** * * *
22487282 TATATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
22487346 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * *
22487362 TAAATCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
22487426 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
* *
22487441 TATATCC-GGTTAAATCCTGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
22487464 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:22496501 original size:40 final size:40
Alignment explanation
Indices: 22496446--22496669 Score: 288
Period size: 40 Copynumber: 5.5 Consensus size: 40
22496436 TATTCGGATG
22496446 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
22496486 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
22496529 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
22496569 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
22496609 ATATCCGGGTTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
22496649 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
22496670 ATACTTTGGT
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 11 0.07
40 112 0.70
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:22496589 original size:83 final size:80
Alignment explanation
Indices: 22496450--22496669 Score: 284
Period size: 83 Copynumber: 2.7 Consensus size: 80
22496440 CGGATGATAT
* **
22496450 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
22496515 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
22496533 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
22496598 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * * *
22496613 CCGGGTTAAGACCTGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
22496670 ATACTTTGGT
Statistics
Matches: 125, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
79 16 0.13
80 43 0.34
81 2 0.02
83 64 0.51
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:22516436 original size:14 final size:14
Alignment explanation
Indices: 22516398--22516436 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
22516388 TTTTTAACAC
22516398 TATTTTTTCAAAAT
1 TATTTTTTCAAAAT
* * *
22516412 TGTCTTCTCAAAAT
1 TATTTTTTCAAAAT
22516426 TATTTTTTCAA
1 TATTTTTTCAA
22516437 GAACTACTGT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (14 bp):
TATTTTTTCAAAAT
Found at i:22516625 original size:125 final size:126
Alignment explanation
Indices: 22516183--22516831 Score: 795
Period size: 126 Copynumber: 5.2 Consensus size: 126
22516173 TAAGGTCAAG
* * * * * * * *
22516183 CAGGAACTACTGTAGAAAAAGTGCATCCATGTGGAAGGTTTTTT-AGTAATTTTGCTGATAGTGA
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
*
22516247 ATCTTGCTTGAAGTGTTTTTTACACTATTTTTTCAGAATA-C-TCTTCTCAAAATTATTTTTT
66 ATCTTGCTTGAAGTGTTTTTGACACTATTTTTTCA-AA-ACCGTCTTCTCAAAATTATTTTTT
* * * * * * *
22516308 CAAGATCTAC-AGTAGAAAAAAAGTGTCCACGTGGGAGCTTTTTCCTGTAATTTTACTGACAGTG
1 CAGGAACTACTA-TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTG
* * **
22516372 CATCTTGCTTGAAGCGTTTTTAACACTATTTTTTCAAAATTGTCTTCTCAAAATTATTTTTT
65 CATCTTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
* * * * *
22516434 CAAGAACTACTGTAGAAAAAGAGCGTCCACATGGGAGCTTTTTTAAGTAATTTTGTTGACAGTGC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
22516499 ATCCTGCTTGAAGTATTTTTGACACTATTTTTTCAGAACCGTCTTCTTAAAATTATTTTTT
66 ATCTTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
* *
22516560 -AGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAATGC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
22516624 ATCATGCTTGAAGCGTTTTTGACACTAATTTTTTTACAACCGTCTTCTCAAAATTATTTTTT
66 ATCTTGCTTGAAGTGTTTTTGACACT-ATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
* * * * * *
22516686 CAGGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGCCTTTTTCAGTAATTTTGCTGATAATGC
1 CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * *
22516751 ATCTTGTTTGAAGTGTTTTTGACATTATCTTTTCAAAACCGTCTTCTCAACATTAATTTTT
66 ATCTTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
* *
22516812 CAGAAAGTACTATAGAAAAA
1 CAGGAACTACTATAGAAAAA
22516832 AAAACAAAAC
Statistics
Matches: 449, Mismatches: 68, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
124 1 0.00
125 114 0.25
126 254 0.57
127 80 0.18
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
CAGGAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCTTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
Found at i:22517516 original size:16 final size:16
Alignment explanation
Indices: 22517495--22517527 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22517485 AAATTCATTT
*
22517495 TTTAAAATCTAATAAA
1 TTTAAAAGCTAATAAA
22517511 TTTAAAAGCTAATAAA
1 TTTAAAAGCTAATAAA
22517527 T
1 T
22517528 AATAATGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (16 bp):
TTTAAAAGCTAATAAA
Found at i:22519446 original size:21 final size:21
Alignment explanation
Indices: 22519421--22519462 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22519411 TCTGTCCAAT
22519421 TTTAAAACTTATAAACATATC
1 TTTAAAACTTATAAACATATC
22519442 TTTAAAACTTATAAACATATC
1 TTTAAAACTTATAAACATATC
22519463 CTGAATATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTAAAACTTATAAACATATC
Found at i:22520804 original size:47 final size:49
Alignment explanation
Indices: 22520735--22520948 Score: 196
Period size: 47 Copynumber: 4.6 Consensus size: 49
22520725 TAAGGTACCG
* *
22520735 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCAT-ATCTC-AAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCA
* * *
22520782 ATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCA
* * * * *
22520830 ATG-CATGTCCCAGACAT-GTCTTATACTGGGTTA-CGTCTCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCA
* * ** * * *
22520876 ATG-TATATCTTAGACGT-GTCTTACACTAGCTC-TCGTCTC-AATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAA-GCCA
22520922 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
22520949 TTGAATCTCA
Statistics
Matches: 133, Mismatches: 27, Indels: 13
0.77 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 58 0.44
47 60 0.45
48 14 0.11
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCGAAGCCA
Found at i:22533189 original size:38 final size:38
Alignment explanation
Indices: 22533140--22533221 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
22533130 ATTTGTCAAT
22533140 TTAAAG-AGCGTCGTACTTGTCTGAGTAAGTCGTTTAC
1 TTAAAGCAGCGTCGTACTTGTCTGAGTAAGTCGTTTAC
22533177 TTAAAGCAGCGTCGTACTTGTCTGAGTAAGTCGTTTAC
1 TTAAAGCAGCGTCGTACTTGTCTGAGTAAGTCGTTTAC
22533215 TTAAAGC
1 TTAAAGC
22533222 CATAATTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 6 0.14
38 38 0.86
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (38 bp):
TTAAAGCAGCGTCGTACTTGTCTGAGTAAGTCGTTTAC
Found at i:22533404 original size:28 final size:28
Alignment explanation
Indices: 22533373--22533452 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 28
22533363 ACTGACCGAT
22533373 CTCGCACACATAGTGCTCGGTTGA-AGAA
1 CTCGCACACATAGTGCTCGGTT-ACAGAA
* ** * *
22533401 CTCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACATAGTG-CTCGGTTACAGAA
22533430 CTCGCACACATAGTGCTCGGTTA
1 CTCGCACACATAGTGCTCGGTTA
22533453 ACGGAATTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 21 0.50
29 21 0.50
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (28 bp):
CTCGCACACATAGTGCTCGGTTACAGAA
Found at i:22533692 original size:43 final size:43
Alignment explanation
Indices: 22533631--22533766 Score: 218
Period size: 43 Copynumber: 3.2 Consensus size: 43
22533621 CCTTGCTCGA
** *
22533631 ATCACCGGCATTAAGCCTGCTAGGCACGAAGACCCGAATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
* *
22533674 ATCACCGGTACGAAGCCTGCTAGGCACGAAGGCCCGGATACAT
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
22533717 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAC
1 ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
22533760 ATCACCG
1 ATCACCG
22533767 AGTTTTATGC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 85 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:22535687 original size:48 final size:48
Alignment explanation
Indices: 22535627--22535732 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
22535617 CGGCCACAAT
* *
22535627 ATATACACATCTCATACATATTTCACATTAGCAATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCAATTCGGCTTTACCAC
*
22535675 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACACTAGCAATTCGGCTTTACCAC
* *
22535723 ACATATATAT
1 ATATACATAT
22535733 ATTTATCTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACACTAGCAATTCGGCTTTACCAC
Found at i:22538828 original size:17 final size:18
Alignment explanation
Indices: 22538783--22538830 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
22538773 CAGCAATTAC
22538783 TTAAT-TTTTAAAAAAAA
1 TTAATATTTTAAAAAAAA
* **
22538800 TTAAAAAATTAAAAAAAA
1 TTAATATTTTAAAAAAAA
22538818 -TAATATTTTAAAA
1 TTAATATTTTAAAA
22538831 TATTTTTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAATATTTTAAAAAAAA
Found at i:22541442 original size:18 final size:19
Alignment explanation
Indices: 22541419--22541458 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
22541409 TGGAAACATC
*
22541419 ATAATAAATT-TAAGAGGG
1 ATAATAAATTATAAGAGAG
22541437 ATAATAAATTATAAGAGAG
1 ATAATAAATTATAAGAGAG
22541456 ATA
1 ATA
22541459 TGTAGAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (19 bp):
ATAATAAATTATAAGAGAG
Found at i:22545097 original size:14 final size:14
Alignment explanation
Indices: 22545066--22545103 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
22545056 TTCAACTAAT
22545066 ATAATA-ATAAACA
1 ATAATATATAAACA
22545079 ATAATATATAAA-A
1 ATAATATATAAACA
22545092 ATTAATATATAA
1 A-TAATATATAA
22545104 TGTACTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATATATAAACA
Found at i:22545274 original size:227 final size:233
Alignment explanation
Indices: 22544977--22545583 Score: 699
Period size: 240 Copynumber: 2.5 Consensus size: 233
22544967 AATAAAAAGT
* * * * *
22544977 ATGATATGATATAACATTGTATAATATAGTAAGGGGCTAACTTTCAAATGTACAAAAAGTATAAG
1 ATGATATGATATAACATTATATAATATAGTAA-GTGTTAACTTTCAAATGTACGAAAAGTATAGG
*
22545042 GACTTAGAGCATATTTCAACTAATATAATAATAAACAATAATATATAAAAATTAATATATAATGT
65 GACTTAGAGCATATTTCAACTAATATAATAATAAACAATAATATATAAAAATTAATATATAATAT
* * *
22545107 ACT-ATTATTATATTATAGATTATAATAAAAGATATAGTATTACATGATATTATAATGTTTAATC
130 A-TAACTATTATATTATAGATTATAAAAAAAGATATAGTATTACATGATATTATAATGTTAAATC
22545171 ATTGATG-TATATATAAACTATTAATACATTATATACTAC
194 ATTGATGATATATATAAACTATTAATACATTATATACTAC
* * *
22545210 ATGATATGATATAGCATTATAT-A-ATA-T-AGT-TTAACATTCAAATGTATGAAAAGTATAGGG
1 ATGATATGATATAACATTATATAATATAGTAAGTGTTAACTTTCAAATGTACGAAAAGTATAGGG
* * * *
22545270 ACTTAAAACCTATTTCAACTAGTATAATAATAAACAATAATGTATAATAATTAATATGTAATTAA
66 ACTTAGAGCATATTTCAACTAATATAATAATAAACAATAA--TAT-ATAA--AA-AT-TAA-T-A
* *
22545335 CTATTATTATATATAACTATTATATTATATATTATAAAAAAAGATATAGTATTGCATGATATTAT
122 -TA-TA--ATATATAACTATTATATTATAGATTATAAAAAAAGATATAGTATTACATGATATTAT
* * * * *
22545400 AATGTTAAATTATTGATGAATATATATAAATTATTAATATATTGTATACTAT
183 AATGTTAAATCATTGATG-ATATATATAAACTATTAATACATTATATACTAC
*
22545452 ATGATATTATATAACATTATATAATATAGTACGAGTGTTAACTTTCAAATGTACGAATAA-TATA
1 ATGATATGATATAACATTATATAATATAGTA--AGTGTTAACTTTCAAATGTACGAA-AAGTATA
* * * *
22545516 GAGACTTAGAGCATATTTTTAACCACTATAATAATAAACAATAATATATGATAATAATTAATATA
63 GGGACTTAGAGCATA-TTTCAACTAATATAATAATAAACAATAATATAT-A-AA-AATTAATATA
22545581 TAA
124 TAA
22545584 CTGTTGTAGA
Statistics
Matches: 312, Mismatches: 34, Indels: 49
0.79 0.09 0.12
Matches are distributed among these distances:
227 61 0.20
228 1 0.00
229 4 0.01
230 5 0.02
231 3 0.01
232 3 0.01
233 22 0.07
234 3 0.01
235 1 0.00
236 1 0.00
237 2 0.01
238 2 0.01
239 1 0.00
240 67 0.21
242 50 0.16
243 3 0.01
244 4 0.01
245 2 0.01
246 3 0.01
247 5 0.02
248 8 0.03
249 34 0.11
250 27 0.09
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (233 bp):
ATGATATGATATAACATTATATAATATAGTAAGTGTTAACTTTCAAATGTACGAAAAGTATAGGG
ACTTAGAGCATATTTCAACTAATATAATAATAAACAATAATATATAAAAATTAATATATAATATA
TAACTATTATATTATAGATTATAAAAAAAGATATAGTATTACATGATATTATAATGTTAAATCAT
TGATGATATATATAAACTATTAATACATTATATACTAC
Found at i:22546253 original size:21 final size:23
Alignment explanation
Indices: 22546204--22546254 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
22546194 GAAAAATAAT
22546204 TTTTTTTAAAAGAGAAATTTTAG
1 TTTTTTTAAAAGAGAAATTTTAG
** *
22546227 ACTTTTTAAAATA-AAA-TTTAG
1 TTTTTTTAAAAGAGAAATTTTAG
22546248 TTTTTTT
1 TTTTTTT
22546255 GTCGTTTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 10 0.43
22 3 0.13
23 10 0.43
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (23 bp):
TTTTTTTAAAAGAGAAATTTTAG
Found at i:22546254 original size:22 final size:24
Alignment explanation
Indices: 22546203--22546254 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 24
22546193 AGAAAAATAA
22546203 TTTTTTTTAAAAGAGAAATTTTAG
1 TTTTTTTTAAAAGAGAAATTTTAG
** *
22546227 -ACTTTTTAAAATA-AAA-TTTAG
1 TTTTTTTTAAAAGAGAAATTTTAG
22546248 TTTTTTT
1 TTTTTTT
22546255 GTCGTTTTAA
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 5 0.23
22 7 0.32
23 10 0.45
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.54
Consensus pattern (24 bp):
TTTTTTTTAAAAGAGAAATTTTAG
Done.