Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 115 of 185
Found at i:36056429 original size:29 final size:29
Alignment explanation
Indices: 36056397--36056466 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
36056387 GGTCGTCACC
36056397 ATCCCTTTTCATAATT-GATAGCCAAAGCT
1 ATCCCTTTTCAT-ATTCGATAGCCAAAGCT
* ** *
36056426 ATCCCATTTCATATTCGATAATCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCAAAGCT
*
36056455 ACCCCTTTTCAT
1 ATCCCTTTTCAT
36056467 TAGTCGATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCAAAGCT
Found at i:36056443 original size:116 final size:117
Alignment explanation
Indices: 36056239--36056481 Score: 337
Period size: 116 Copynumber: 2.1 Consensus size: 117
36056229 TGGGTTAAAT
* * *
36056239 GATGGTCGTAACCGTCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCC
1 GATGGTTGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCC
* * * ** *
36056304 GAAGCTATCCCTTTTCATATTCGATAGCCAAAGCTATTCCTTTTCA-TATTC
66 AAAGCTATCCCATTTCATATTCGATAACCAAAGCTACCCCTTTTCATTAGTC
**
36056355 GATGGTTGTCACCATCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCATAATTGATAGC
1 GATGGTTGTCACCATCCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGC
* *
36056419 CAAAGCTATCCCATTTCATATTCGATAATCGAAGCTACCCCTTTTCATTAGTC
65 CAAAGCTATCCCATTTCATATTCGATAACCAAAGCTACCCCTTTTCATTAGTC
*
36056472 GATGATTGTC
1 GATGGTTGTC
36056482 GATACACCGT
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
116 96 0.86
117 15 0.14
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (117 bp):
GATGGTTGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAATAAATAGCC
AAAGCTATCCCATTTCATATTCGATAACCAAAGCTACCCCTTTTCATTAGTC
Found at i:36056461 original size:87 final size:88
Alignment explanation
Indices: 36056310--36056475 Score: 212
Period size: 87 Copynumber: 1.9 Consensus size: 88
36056300 AGCCGAAGCT
* * ** * * *
36056310 ATCCCTTTTCATATTCGATAGCCAAAGCTATTCCTTTTCATATTCGATGGTTGTCACCATCCCTT
1 ATCCCTTTTCATATTCGATAGCCAAAGCTATCCCATTTCATATTCGATAATCGTAACCACCCCTT
*
36056375 TTCA-TAGTTGATGGTCGTCACC
66 TTCATTAGTCGATGGTCGTCACC
*
36056397 ATCCCTTTTCATAATT-GATAGCCAAAGCTATCCCATTTCATATTCGATAATCG-AAGCTACCCC
1 ATCCCTTTTCAT-ATTCGATAGCCAAAGCTATCCCATTTCATATTCGATAATCGTAA-CCACCCC
36056460 TTTTCATTAGTCGATG
64 TTTTCATTAGTCGATG
36056476 ATTGTCGATA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
86 1 0.01
87 55 0.82
88 11 0.16
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (88 bp):
ATCCCTTTTCATATTCGATAGCCAAAGCTATCCCATTTCATATTCGATAATCGTAACCACCCCTT
TTCATTAGTCGATGGTCGTCACC
Found at i:36058265 original size:51 final size:51
Alignment explanation
Indices: 36058206--36058302 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
36058196 AAGAAAATAG
36058206 TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGTGGATA
1 TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGTGGATA
*
36058257 TATGATGGTGGGTAGAAGTATTGATGACTAGTGATAATGGAATGGT
1 TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGT
36058303 TGGCTAAGAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.32, C:0.02, G:0.34, T:0.32
Consensus pattern (51 bp):
TATGATGGTGGGTAGAAGTATTAATGACTAGTGATAATGGAATGGTGGATA
Found at i:36075546 original size:12 final size:12
Alignment explanation
Indices: 36075529--36075557 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
36075519 TGCTCGCTTA
36075529 GTTTCGGTAATT
1 GTTTCGGTAATT
36075541 GTTTCGGTAATT
1 GTTTCGGTAATT
36075553 GTTTC
1 GTTTC
36075558 TTTTCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (12 bp):
GTTTCGGTAATT
Found at i:36085095 original size:62 final size:62
Alignment explanation
Indices: 36084964--36085098 Score: 198
Period size: 62 Copynumber: 2.2 Consensus size: 62
36084954 CACGAATTGT
* * ** *
36084964 TGTAACTTTTTTATGCTATAGAATTTAACATATAGATTACGGCATATAAGCTAATGACATTA
1 TGTAACTTTTTTATGCTATAAAATTTAACATATAGATTACAGCATATAAGCTAACAACATCA
** *
36085026 TCCAACTTTTTTATGCTATAAAATTTAACATATAGATTATAGCATATAAGCTAACAACATCA
1 TGTAACTTTTTTATGCTATAAAATTTAACATATAGATTACAGCATATAAGCTAACAACATCA
36085088 TGTAACTTTTT
1 TGTAACTTTTT
36085099 GTTAATGTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (62 bp):
TGTAACTTTTTTATGCTATAAAATTTAACATATAGATTACAGCATATAAGCTAACAACATCA
Found at i:36085349 original size:56 final size:54
Alignment explanation
Indices: 36085288--36085441 Score: 175
Period size: 55 Copynumber: 2.8 Consensus size: 54
36085278 TAATATTATA
* *
36085288 TATTATTTTTATTAATTCATATTTTAATAATAATCATATTAAGA-ATGTTATTAAAT
1 TATTATTTTTATTAATT-ATA-TTTAATAATAATCATATTAA-ATATATGATTAAAT
** **
36085344 TATTATTTTTTAAAAATTATATTTAATAATAATTGTATTAAATATATGATTAAAT
1 TATTA-TTTTTATTAATTATATTTAATAATAATCATATTAAATATATGATTAAAT
* *
36085399 TATTTATTTTTATTAAATTATATTTAATTATAATCCTATTAAA
1 TA-TTATTTTTATT-AATTATATTTAATAATAATCATATTAAA
36085442 ATTTAATAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.01
55 36 0.43
56 36 0.43
57 10 0.12
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (54 bp):
TATTATTTTTATTAATTATATTTAATAATAATCATATTAAATATATGATTAAAT
Found at i:36085636 original size:16 final size:16
Alignment explanation
Indices: 36085615--36085648 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
36085605 ATTAATTGTT
36085615 GTTCTATTCCATTACA
1 GTTCTATTCCATTACA
36085631 GTTCTATTCCATTACA
1 GTTCTATTCCATTACA
36085647 GT
1 GT
36085649 GAACCAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.44
Consensus pattern (16 bp):
GTTCTATTCCATTACA
Found at i:36086235 original size:4 final size:4
Alignment explanation
Indices: 36086226--36086255 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
36086216 ACGAACCCCT
36086226 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GT
1 GTAG GTAG GTAG GTAG GTAG GTAG GTAG GT
36086256 GTAATCCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (4 bp):
GTAG
Found at i:36087231 original size:21 final size:20
Alignment explanation
Indices: 36087182--36087233 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
36087172 AAAAAAATAT
*
36087182 AAACTTAAA-AATTTTTTAA
1 AAACTTAAATAATATTTTAA
36087201 AAA-TTAAAATAATAATTTTAA
1 AAACTT-AAATAAT-ATTTTAA
36087222 AAACTTAAATAA
1 AAACTTAAATAA
36087234 GTTCATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.07
19 6 0.21
20 3 0.11
21 15 0.54
22 2 0.07
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACTTAAATAATATTTTAA
Found at i:36087903 original size:37 final size:37
Alignment explanation
Indices: 36087853--36087927 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
36087843 GCTTATTTGA
36087853 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
1 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
36087890 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
1 GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
36087927 G
1 G
36087928 AAAACCCCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (37 bp):
GTCTGATTTCACAACCTAAATTCCATGAGAAGAAACG
Found at i:36090386 original size:17 final size:17
Alignment explanation
Indices: 36090364--36090397 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36090354 CAACTGCGGT
*
36090364 TGAAATAGGTGGGCAGG
1 TGAAATAAGTGGGCAGG
36090381 TGAAATAAGTGGGCAGG
1 TGAAATAAGTGGGCAGG
36090398 AAAGCATGAT
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:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (17 bp):
TGAAATAAGTGGGCAGG
Found at i:36091076 original size:9 final size:9
Alignment explanation
Indices: 36091001--36091078 Score: 54
Period size: 10 Copynumber: 8.4 Consensus size: 9
36090991 TCTAAAATTT
36091001 AAATT-TAA
1 AAATTATAA
*
36091009 AAATACATAA
1 AAAT-TATAA
36091019 AAATTA-AA
1 AAATTATAA
36091027 AAATTATTAA
1 AAATTA-TAA
*
36091037 AATTTATAA
1 AAATTATAA
36091046 AAATATATGAA
1 AAAT-TAT-AA
* *
36091057 ATACTCA-AA
1 A-AATTATAA
36091066 AAATTATAA
1 AAATTATAA
36091075 AAAT
1 AAAT
36091079 ATATTGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
8 15 0.28
9 16 0.30
10 17 0.31
11 4 0.07
12 2 0.04
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (9 bp):
AAATTATAA
Found at i:36091855 original size:31 final size:31
Alignment explanation
Indices: 36091814--36091887 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
36091804 TTAACGGTAT
** *
36091814 AGTGACTAAAATTGATTACTTATCTAATGAG
1 AGTGACTAAAATTGACAACTTATCTAATAAG
* *
36091845 AGTGATTAAAATTGACAACTTATTTAATAAG
1 AGTGACTAAAATTGACAACTTATCTAATAAG
36091876 AGTGACTAAAAT
1 AGTGACTAAAAT
36091888 AACAAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (31 bp):
AGTGACTAAAATTGACAACTTATCTAATAAG
Found at i:36099698 original size:55 final size:55
Alignment explanation
Indices: 36099586--36099696 Score: 145
Period size: 54 Copynumber: 2.0 Consensus size: 55
36099576 GGATAAGAAT
* * *
36099586 AATAAAAATGGAGAAATGAAAAATATTTGAAAGATGTGGTTTTCTCCGAAATAAA
1 AATAAAAATGGAGAAATGAAAAACATTTGAAAGATATGGTTTTCTCCAAAATAAA
* **
36099641 AATAAAAATGG-GGAATGGGAAACATTTGGAAA-ATATGGTTTTCTCCAAAATAAA
1 AATAAAAATGGAGAAATGAAAAACATTT-GAAAGATATGGTTTTCTCCAAAATAAA
36099695 AA
1 AA
36099697 ATGACCTGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
54 34 0.69
55 15 0.31
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (55 bp):
AATAAAAATGGAGAAATGAAAAACATTTGAAAGATATGGTTTTCTCCAAAATAAA
Found at i:36107860 original size:23 final size:23
Alignment explanation
Indices: 36107829--36107886 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
36107819 ACGATGTTGG
*
36107829 TATCATGATACCAAGGAATAGGA
1 TATCGTGATACCAAGGAATAGGA
*
36107852 TATCGTGATACCAATGAATAGGA
1 TATCGTGATACCAAGGAATAGGA
*
36107875 TATTGTGATACC
1 TATCGTGATACC
36107887 TCAGACAGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (23 bp):
TATCGTGATACCAAGGAATAGGA
Found at i:36113189 original size:98 final size:98
Alignment explanation
Indices: 36113010--36113206 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
36113000 GTACAATAAA
* * *
36113010 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACCCCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
36113075 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
36113108 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
36113173 CCTTTAAAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
36113206 A
1 A
36113207 TAATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:36114916 original size:13 final size:15
Alignment explanation
Indices: 36114887--36114924 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
36114877 TTTCTAATTT
36114887 TTTTGGGCCATTGTA
1 TTTTGGGCCATTGTA
36114902 -TTTGGGCCA-TGTA
1 TTTTGGGCCATTGTA
36114915 TTTTGGGCCA
1 TTTTGGGCCA
36114925 CCTTATCTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.13, C:0.16, G:0.29, T:0.42
Consensus pattern (15 bp):
TTTTGGGCCATTGTA
Found at i:36115348 original size:44 final size:43
Alignment explanation
Indices: 36115248--36115533 Score: 190
Period size: 44 Copynumber: 6.7 Consensus size: 43
36115238 CTTGAGTCTA
** * * * *
36115248 CTCCACTGCAACTTCAGGGAGATTAAG-TC-CCGATGTGATCTA
1 CTCCACTGCAACTTCAGGGAGA-TAAGATCTGTGGTTTAATCTG
* * *
36115290 CTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTATAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTT-TAATCTG
* *
36115334 CTCCACTGCAACTTCAGGGAAATAGGAT-TGTCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGT-GG-TTTAATCTG
* * * * *** *
36115378 TTCCGCTGCAACTTCAGGGAGATAAGA-CT-AGATACGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTAATCTG
* * * * **
36115419 CT-CTCTGCATCTTCAGAGAGATAAGATCTGAGGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGTGG-TTTAATCTG
** * *
36115462 CTCCACTATAACTTCAGGGAGATAGGAT-TATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATCTGT-GG-TTTAATCTG
*
36115506 CTCCACCGCAACTTCAGGGAGATAAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGAT
36115534 TTGCCATCTT
Statistics
Matches: 185, Mismatches: 48, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
40 21 0.11
41 12 0.06
42 25 0.14
43 13 0.07
44 112 0.61
45 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGATCTGTGGTTTAATCTG
Found at i:36115487 original size:128 final size:129
Alignment explanation
Indices: 36115248--36115532 Score: 410
Period size: 128 Copynumber: 2.2 Consensus size: 129
36115238 CTTGAGTCTA
* * **
36115248 CTCCACTGCAACTTCAGGGAGATTAAGTCCCGATGTGATCTACTCTACTGCAACTTCAGAGAGAT
1 CTCCACTGCAACTTCAGGGAGA-TAAGACCAGATACGATCTACTCTACTGCAACTTCAGAGAGAT
* * * *
36115313 AAGATCTGTGGTTATAATCCGCTCCACTGCAACTTCAGGGAAATAGGATTGTCGGCTTTAATCTG
65 AAGATCTGAGGTTATAATCCACTCCACTACAACTTCAGGGAAATAGGATTATCGGCTTTAATCTG
* * * *
36115378 TTCCGCTGCAACTTCAGGGAGATAAGACTAGATACGATCTACTCT-CTGCATCTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACCAGATACGATCTACTCTACTGCAACTTCAGAGAGATA
* * *
36115442 AGATCTGAGGTTTTAATCCACTCCACTATAACTTCAGGGAGATAGGATTATCGGCTTTAATCTG
66 AGATCTGAGGTTATAATCCACTCCACTACAACTTCAGGGAAATAGGATTATCGGCTTTAATCTG
*
36115506 CTCCACCGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
36115533 TTTGCCATCT
Statistics
Matches: 137, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
128 99 0.72
129 18 0.13
130 20 0.15
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAAGACCAGATACGATCTACTCTACTGCAACTTCAGAGAGATA
AGATCTGAGGTTATAATCCACTCCACTACAACTTCAGGGAAATAGGATTATCGGCTTTAATCTG
Found at i:36115620 original size:45 final size:45
Alignment explanation
Indices: 36115462--36115620 Score: 112
Period size: 45 Copynumber: 3.6 Consensus size: 45
36115452 TTTTAATCCA
* * ** ** * *
36115462 CTCCACTATAACTTCAGGGAGATAGGA-TTATCGGCTTTAATCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
** *
36115506 CTCCACCGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
1 CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
* **
36115551 C-CTCACTGA-AACTTCA-AGAGGATAAGACTTGCTTTGCTT-AGTCTG
1 CTC-CACT-ACAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTG
*
36115596 CTCCACTACAACTTTAGGGAGATAA
1 CTCCACTACAACTTCAGGGAGATAA
36115621 AACTAGATGC
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
44 27 0.30
45 56 0.63
46 6 0.07
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (45 bp):
CTCCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
Found at i:36127366 original size:98 final size:98
Alignment explanation
Indices: 36127187--36127383 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
36127177 GTACAATAAA
* *
36127187 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
36127252 CCTCTAGAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
36127285 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* * *
36127350 CCTTTAAAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
36127383 A
1 A
36127384 TAATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:36128393 original size:19 final size:19
Alignment explanation
Indices: 36128369--36128415 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
36128359 AGCCAAAATT
*
36128369 AAAACCAAATTTCATTTCA
1 AAAACCAAATTTCATTTAA
* **
36128388 AAAACC-TATTTTTTTTAA
1 AAAACCAAATTTCATTTAA
36128406 AAAACCAAAT
1 AAAACCAAAT
36128416 CTTTCAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAACCAAATTTCATTTAA
Found at i:36131482 original size:23 final size:23
Alignment explanation
Indices: 36131454--36131497 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36131444 TTCTTTTATT
36131454 TTTATTATTTTAAAT-ATAAAATA
1 TTTATT-TTTTAAATAATAAAATA
*
36131477 TTTATTTTTTATATAATAAAA
1 TTTATTTTTTAAATAATAAAA
36131498 ATTAAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATTTTTTAAATAATAAAATA
Found at i:36132369 original size:23 final size:22
Alignment explanation
Indices: 36132338--36132390 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
36132328 TTTTTTAAAA
*
36132338 TTTTAAAAAAATAATTTAATGAT
1 TTTTTAAAAAATAATTTAAT-AT
* *
36132361 TTTTTAAAAAATATTTTTATAT
1 TTTTTAAAAAATAATTTAATAT
36132383 TTTTTAAA
1 TTTTTAAA
36132391 TTTTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTTAAAAAATAATTTAATAT
Found at i:36132376 original size:22 final size:23
Alignment explanation
Indices: 36132330--36132390 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
36132320 TTTAATTATT
* *
36132330 TTTTAA-AATTTTAAAAAAATAA
1 TTTTAATATTTTTTAAAAAATAA
36132352 -TTTAATGATTTTTTAAAAAAT-A
1 TTTTAAT-ATTTTTTAAAAAATAA
*
36132374 TTTTTATATTTTTTAAA
1 TTTTAATATTTTTTAAA
36132391 TTTTTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.15
22 11 0.33
23 17 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TTTTAATATTTTTTAAAAAATAA
Found at i:36144800 original size:23 final size:23
Alignment explanation
Indices: 36144772--36144815 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36144762 TTCTTTTATT
36144772 TTTATTATTTTAAAT-ATAAAATA
1 TTTATT-TTTTAAATAATAAAATA
*
36144795 TTTATTTTTTATATAATAAAA
1 TTTATTTTTTAAATAATAAAA
36144816 ATTAAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATTTTTTAAATAATAAAATA
Found at i:36145689 original size:22 final size:21
Alignment explanation
Indices: 36145659--36145709 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 21
36145649 TTTTTTAAAA
36145659 TTTTAAAAAATAATTTAATGATT
1 TTTTAAAAAAT-ATTTAAT-ATT
*
36145682 TTTTAAAAAATATTTTATATT
1 TTTTAAAAAATATTTAATATT
36145703 TTTTAAA
1 TTTTAAA
36145710 TTTTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 10 0.37
22 6 0.22
23 11 0.41
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTAAAAAATATTTAATATT
Found at i:36149223 original size:22 final size:23
Alignment explanation
Indices: 36149170--36149225 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
36149160 TTTAATTAAA
* * *
36149170 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
36149193 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
36149215 ATTAAAATTAA
1 ATTAAAATTAA
36149226 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:36149238 original size:16 final size:16
Alignment explanation
Indices: 36149201--36149240 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
36149191 TTAATAAAAT
* *
36149201 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
36149217 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
36149233 TAAAATTA
1 TAAAATTA
36149241 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:36149310 original size:66 final size:66
Alignment explanation
Indices: 36149229--36149427 Score: 331
Period size: 66 Copynumber: 3.1 Consensus size: 66
36149219 AAATTAATTG
*
36149229 TTAGTAAAATTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
36149294 A
66 A
36149295 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
36149360 A
66 A
*
36149361 TTAGTAAATTTATC-AA--ATT-A---TTAATTGTATTAATTGTTGTAACAAAATCTAACATTTG
1 TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
36149419 A
66 A
36149420 TTAGTAAA
1 TTAGTAAA
36149428 ACAAACTTGA
Statistics
Matches: 131, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
59 46 0.35
62 1 0.01
63 3 0.02
65 2 0.02
66 79 0.60
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (66 bp):
TTAGTAAATTTATCAAATTATTAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTG
A
Found at i:36149531 original size:22 final size:24
Alignment explanation
Indices: 36149491--36149534 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36149481 AAATAAACTT
36149491 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
36149515 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
36149535 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:36150389 original size:20 final size:20
Alignment explanation
Indices: 36150364--36150413 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
36150354 AAGGAGCCAA
*
36150364 TAAATCAATTTGATTAAAAT
1 TAAATCAAATTGATTAAAAT
36150384 TAAATCAAATTGATTAAAAT
1 TAAATCAAATTGATTAAAAT
* *
36150404 CAAATAAAAT
1 TAAATCAAAT
36150414 AAGATAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAATCAAATTGATTAAAAT
Found at i:36153860 original size:59 final size:59
Alignment explanation
Indices: 36153741--36153852 Score: 145
Period size: 59 Copynumber: 1.9 Consensus size: 59
36153731 TTATGAAACA
* * * * * *
36153741 AAATCAAAATCAATTTTGTTAAATGACAGGACTAAATCCCGAAACTAAATTATATAATT
1 AAATCAAAATAAAATCTATTAAACGACAGGAATAAATCCCGAAACTAAATTATATAATT
*
36153800 AAATCAAAATAAAATCTATTAAACGACGGGAATAAATCCCGAAA-TAGAATTAT
1 AAATCAAAATAAAATCTATTAAACGACAGGAATAAATCCCGAAACTA-AATTAT
36153853 TTGATTAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.04
59 43 0.96
ACGTcount: A:0.50, C:0.13, G:0.10, T:0.27
Consensus pattern (59 bp):
AAATCAAAATAAAATCTATTAAACGACAGGAATAAATCCCGAAACTAAATTATATAATT
Found at i:36153916 original size:83 final size:83
Alignment explanation
Indices: 36153800--36154016 Score: 237
Period size: 83 Copynumber: 2.6 Consensus size: 83
36153790 TTATATAATT
* * *
36153800 AAATCAAAATAAAATC-TATTAAACGACGGGAATAAATCCCGAAATAGAATTATTTGA-TTAAGT
1 AAATC-AAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAATTATTTAATTTAA-T
** *
36153863 CT-TTCTTTGGAAACAAAACA
64 -TATAATTTGAAAACAAAACA
* * * * *
36153883 ATATCGAATAAAATCTTGTTAAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGA-ATTATTTAATTTAATT
*
36153948 ATAATTTGAAAACAAAATA
65 ATAATTTGAAAACAAAACA
* *
36153967 AAATCAAAT-AAATTTTGTTAAACGGCGGGAATAAATCCCAAAATA-AATTA
1 AAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAATTA
36154017 GTCATTCAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
81 3 0.03
82 10 0.09
83 65 0.59
84 29 0.26
85 4 0.04
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (83 bp):
AAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAATAGAATTATTTAATTTAATTA
TAATTTGAAAACAAAACA
Found at i:36155062 original size:11 final size:10
Alignment explanation
Indices: 36155014--36155061 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
36155004 CATCTGGACC
*
36155014 TTTTTTTCAAT
1 TTTTTTTC-TT
**
36155025 TTTTTTTCAA
1 TTTTTTTCTT
36155035 TTTTTTTCTT
1 TTTTTTTCTT
36155045 TTTTTTTCTT
1 TTTTTTTCTT
36155055 TTTTTTT
1 TTTTTTT
36155062 TGAAGTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 26 0.76
11 8 0.24
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:36161751 original size:43 final size:43
Alignment explanation
Indices: 36161693--36161838 Score: 184
Period size: 43 Copynumber: 3.4 Consensus size: 43
36161683 ACGTTTTACC
* * *
36161693 CACAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTAT
1 CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAT
* * * *
36161736 CACAAACGCCACTAAAGAGCATCACCTTTAGCGGCACTTTTTTT
1 CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCAC-TTTTAT
* *
36161780 CACAAACGCCGCTAAAAAACATGATCTTTAGCGGCACTTTTAT
1 CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAT
**
36161823 CACAAATTCCGCTAAA
1 CACAAACGCCGCTAAA
36161839 AGTACTGTTC
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 50 0.57
44 37 0.43
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (43 bp):
CACAAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTTAT
Found at i:36161839 original size:43 final size:43
Alignment explanation
Indices: 36161693--36161861 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
36161683 ACGTTTTACC
* * *
36161693 CACAAACGCCGCTAAAGAACATGACCTTTAACGACGCTTTTAT
1 CACAAACGCCGCTAAAAAACATGACCTTTAACGGCACTTTTAT
* * * * * *
36161736 CACAAACGCCACTAAAGAGCATCACCTTTAGCGGCACTTTTTTT
1 CACAAACGCCGCTAAAAAACATGACCTTTAACGGCAC-TTTTAT
* *
36161780 CACAAACGCCGCTAAAAAACATGATCTTTAGCGGCACTTTTAT
1 CACAAACGCCGCTAAAAAACATGACCTTTAACGGCACTTTTAT
** * **
36161823 CACAAATTCCGCTAAAAGTAC-TGTTCTTTAACGGCACTT
1 CACAAACGCCGCTAAAA-AACATGACCTTTAACGGCACTT
36161862 ATTAAAAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
43 67 0.63
44 39 0.37
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (43 bp):
CACAAACGCCGCTAAAAAACATGACCTTTAACGGCACTTTTAT
Found at i:36164445 original size:9 final size:9
Alignment explanation
Indices: 36164431--36164596 Score: 103
Period size: 9 Copynumber: 18.6 Consensus size: 9
36164421 AGTATAATTG
36164431 AGTTATGTA
1 AGTTATGTA
36164440 AGTTATGATA
1 AGTTATG-TA
* * *
36164450 TGATATAT-
1 AGTTATGTA
*
36164458 ATTTATGT-
1 AGTTATGTA
*
36164466 A-TTATGTG
1 AGTTATGTA
36164474 AGTTATGTA
1 AGTTATGTA
36164483 AGTTATGATA
1 AGTTATG-TA
* * *
36164493 TGATATAT-
1 AGTTATGTA
*
36164501 A-TATATATA
1 AGT-TATGTA
36164510 AGTTAT-TA
1 AGTTATGTA
36164518 AGTTATGTA
1 AGTTATGTA
36164527 AGTTATGTA
1 AGTTATGTA
36164536 AGTTATGTA
1 AGTTATGTA
* *
36164545 TGTTATGTG
1 AGTTATGTA
*
36164554 AGTTATGCA
1 AGTTATGTA
36164563 AGTTATGATA
1 AGTTATG-TA
* *
36164573 TGATATATATA
1 AG-T-TATGTA
36164584 AGTTAT-TA
1 AGTTATGTA
36164592 AGTTA
1 AGTTA
36164597 AGATCCAAAG
Statistics
Matches: 124, Mismatches: 22, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
7 6 0.05
8 26 0.21
9 69 0.56
10 16 0.13
11 4 0.03
12 3 0.02
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
AGTTATGTA
Found at i:36164647 original size:18 final size:18
Alignment explanation
Indices: 36164624--36164658 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36164614 TAATTCTTTA
36164624 AAGTTATGTAAATTATGT
1 AAGTTATGTAAATTATGT
*
36164642 AAGTTATGTAAGTTATG
1 AAGTTATGTAAATTATG
36164659 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (18 bp):
AAGTTATGTAAATTATGT
Found at i:36166900 original size:23 final size:23
Alignment explanation
Indices: 36166869--36166915 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
36166859 TTCAAACAAT
*
36166869 AAACACTAAGCCCTAAGCCCCTA
1 AAACACTAAACCCTAAGCCCCTA
*
36166892 AAACCCTAAACCCTAAGCCCCTA
1 AAACACTAAACCCTAAGCCCCTA
36166915 A
1 A
36166916 CCCCTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.40, G:0.06, T:0.13
Consensus pattern (23 bp):
AAACACTAAACCCTAAGCCCCTA
Found at i:36166902 original size:30 final size:29
Alignment explanation
Indices: 36166868--36166931 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
36166858 TTTCAAACAA
36166868 TAAACACTAAG-CCCTAAGCCCCTAAAACCC
1 TAAACACTAAGCCCCTAA-CCCCT-AAACCC
* *
36166898 TAAACCCTAAGCCCCTAACCCCTAAACTC
1 TAAACACTAAGCCCCTAACCCCTAAACCC
36166927 TAAAC
1 TAAAC
36166932 TTTAAACCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 10 0.32
30 15 0.48
31 6 0.19
ACGTcount: A:0.39, C:0.41, G:0.05, T:0.16
Consensus pattern (29 bp):
TAAACACTAAGCCCCTAACCCCTAAACCC
Found at i:36166929 original size:7 final size:7
Alignment explanation
Indices: 36166868--36167061 Score: 108
Period size: 7 Copynumber: 27.6 Consensus size: 7
36166858 TTTCAAACAA
*
36166868 TAAACAC
1 TAAACCC
*
36166875 TAAGCCC
1 TAAACCC
*
36166882 TAAGCCCC
1 TAA-ACCC
36166890 TAAAACCC
1 T-AAACCC
36166898 TAAACCC
1 TAAACCC
*
36166905 TAAGCCCC
1 TAA-ACCC
*
36166913 TAACCCC
1 TAAACCC
*
36166920 TAAACTC
1 TAAACCC
**
36166927 TAAACTT
1 TAAACCC
*
36166934 TAAACCA
1 TAAACCC
36166941 TAAAACCC
1 T-AAACCC
* *
36166949 TAAGCTC
1 TAAACCC
36166956 T-AACCC
1 TAAACCC
36166962 ATAAA-CC
1 -TAAACCC
*
36166969 T-ACCCC
1 TAAACCC
*
36166975 TAAACCG
1 TAAACCC
*
36166982 TAAACAC
1 TAAACCC
*
36166989 TAAACTC
1 TAAACCC
*
36166996 TTAACCC
1 TAAACCC
* *
36167003 TAAATCA
1 TAAACCC
*
36167010 TAAATCC
1 TAAACCC
*
36167017 TAAACCT
1 TAAACCC
36167024 TAAACCC
1 TAAACCC
**
36167031 TAAACTA
1 TAAACCC
36167038 TAAA-CC
1 TAAACCC
*
36167044 TACACCC
1 TAAACCC
36167051 TAAACCC
1 TAAACCC
36167058 TAAA
1 TAAA
36167062 TATATTACAA
Statistics
Matches: 142, Mismatches: 36, Indels: 18
0.72 0.18 0.09
Matches are distributed among these distances:
5 1 0.01
6 10 0.07
7 107 0.75
8 22 0.15
9 2 0.01
ACGTcount: A:0.42, C:0.36, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:36166946 original size:22 final size:22
Alignment explanation
Indices: 36166921--36166966 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
36166911 CCTAACCCCT
* *
36166921 AAACTCTAAACTTTAAACCATA
1 AAACCCTAAACTCTAAACCATA
* *
36166943 AAACCCTAAGCTCTAACCCATA
1 AAACCCTAAACTCTAAACCATA
36166965 AA
1 AA
36166967 CCTACCCCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (22 bp):
AAACCCTAAACTCTAAACCATA
Found at i:36167052 original size:20 final size:21
Alignment explanation
Indices: 36167017--36167055 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
36167007 TCATAAATCC
36167017 TAAACCTTAAACCCTAAACTA
1 TAAACCTTAAACCCTAAACTA
*
36167038 TAAACC-TACACCCTAAAC
1 TAAACCTTAAACCCTAAAC
36167056 CCTAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACTA
Found at i:36167249 original size:14 final size:15
Alignment explanation
Indices: 36167232--36167275 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
36167222 AATAAACCCC
36167232 AAACTAC-AAACTCT
1 AAACTACAAAACTCT
*
36167246 AAACCACAAAAC-CT
1 AAACTACAAAACTCT
36167260 AAACT-CAAAACTCT
1 AAACTACAAAACTCT
36167274 AA
1 AA
36167276 TCCCAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACTACAAAACTCT
Found at i:36167282 original size:14 final size:14
Alignment explanation
Indices: 36167239--36167283 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
36167229 CCCAAACTAC
36167239 AAACTCTAAACCACA
1 AAACTCTAAACC-CA
*
36167254 AAAC-CTAAACTCA
1 AAACTCTAAACCCA
*
36167267 AAACTCTAATCCCA
1 AAACTCTAAACCCA
36167281 AAA
1 AAA
36167284 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 6 0.23
14 16 0.62
15 4 0.15
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACTCTAAACCCA
Found at i:36167539 original size:40 final size:40
Alignment explanation
Indices: 36167450--36167527 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
36167440 CAACTTTTTA
*
36167450 CGGTGTTTTGCTAAAAGCGCCGCTAATGCTCGACCTATAG
1 CGGTGTTTTTCTAAAAGCGCCGCTAATGCTCGACCTATAG
* * * *
36167490 CGGCGTTTTTC-AACAAGGGCCGCTAATTCTCGATCTAT
1 CGGTGTTTTTCTAA-AAGCGCCGCTAATGCTCGACCTAT
36167528 TATGGTGTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 2 0.06
40 30 0.94
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (40 bp):
CGGTGTTTTTCTAAAAGCGCCGCTAATGCTCGACCTATAG
Found at i:36167797 original size:154 final size:155
Alignment explanation
Indices: 36167395--36168023 Score: 619
Period size: 154 Copynumber: 4.1 Consensus size: 155
36167385 TGATAAAAAT
* * * * * * *
36167395 GCCGCTAATGCCACAAAATCTCAACAACAAACGGCATTGTTTT-CTCAAC-TTTTTACGGTGTTT
1 GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTT
* * * * * *
36167458 TGCTAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAACAAGGGCCGCTAATTCTCGA
66 TCCAAAAAGAGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCGACAAGCGCCGCTAATTCTCGA
** * *
36167523 TCTATTATGGTGTTTTTAAAAAAAGC
131 TCTATTGCGGCGTTTTT-TAAAAAGC
** * * *
36167549 ATCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGTG-T
1 GCCGCTAATGCCACTAAAGCT-CAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTT
* * * * *
36167613 TTCCAAAAA-AGCGCAACTAATGCTCAATCTATAGCGGCATTTTTCGACAAGCGCTGCTAATTTT
65 TTCCAAAAAGAGC-C-GCTAATGCTCGATCTATAGCGGCGTTTTTCGACAAGCGCCGCTAATTCT
*
36167677 CGATTTATTGCGGCGTTTTTTAAAAAGC
128 CGATCTATTGCGGCGTTTTTTAAAAAGC
* * * * *
36167705 GCCGCTAAT-ACATTAAAGCTCAACAATAAACGGCGTCGTTTTGCTCAACTTTTTTGTGGCGTTT
1 GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTT
* * * * * *
36167769 TCCAAAAAGAGCTGCTAATGCTCGATCTATAGTGCCGTTTTTC-A-AATGGCACCTCTAATGCTC
66 TCCAAAAAGAGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCGACAA--GCGCCGCTAATTCTC
* * * *
36167832 GATCTACTGCAGTGTTTTTCAAAAAGC
129 GATCTATTGCGGCGTTTTTTAAAAAGC
* * **
36167859 GCCGCTAATGCCACTAAAGCTCAACAACAAACGATGT-GTTTTGCTAAACTTTTTTGCATCGTTT
1 GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTT
** ** * * * * *
36167923 TCTGAAAAGTA-CCGCTAATGCTTTATCTATAGCGGTGTTTTTTGAAAAGCGCCGCTAATGCTTG
66 TCCAAAAAG-AGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCGACAAGCGCCGCTAATTCTCG
*
36167987 ATCTATAGCGGCGTTTTTTAAAAAGC
130 ATCTATTGCGGCGTTTTTTAAAAAGC
36168013 GCCGCTAATGC
1 GCCGCTAATGC
36168024 TCGATCTATA
Statistics
Matches: 384, Mismatches: 78, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
152 2 0.01
153 1 0.00
154 218 0.57
155 62 0.16
156 34 0.09
157 67 0.17
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (155 bp):
GCCGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTGCTCAACTTTTTTGCGGCGTTT
TCCAAAAAGAGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCGACAAGCGCCGCTAATTCTCGA
TCTATTGCGGCGTTTTTTAAAAAGC
Found at i:36167867 original size:40 final size:38
Alignment explanation
Indices: 36167764--36167869 Score: 97
Period size: 40 Copynumber: 2.7 Consensus size: 38
36167754 TTTTTTGTGG
* * *
36167764 CGTTTTCCAAAAAGAGCTGCTAATGCTCGATCTATAGT
1 CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGT
** * *
36167802 GCCGTTTTTCAAATGGCACCTCTAATGCTCGATCTACTGCAGT
1 --CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTA-T--AGT
36167845 -GTTTTTCAAAAAGCGCCGCTAATGC
1 CGTTTTTCAAAAAGCGCCGCTAATGC
36167870 CACTAAAGCT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
40 48 0.92
41 1 0.02
43 3 0.06
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (38 bp):
CGTTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGT
Found at i:36167978 original size:40 final size:40
Alignment explanation
Indices: 36167918--36168063 Score: 204
Period size: 40 Copynumber: 3.7 Consensus size: 40
36167908 TTTTTTGCAT
* ** *
36167918 CGTTTTCTGAAAAGTACCGCTAATGCTTTATCTATAGCGG
1 CGTTTTTTGAAAAGCGCCGCTAATGCTTGATCTATAGCGG
*
36167958 TGTTTTTTGAAAAGCGCCGCTAATGCTTGATCTATAGCGG
1 CGTTTTTTGAAAAGCGCCGCTAATGCTTGATCTATAGCGG
* * *
36167998 CGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGCAG
1 CGTTTTTTGAAAAGCGCCGCTAATGCTTGATCTATAGCGG
*
36168038 CG-TTTTTCAAAAGCGCCGCTAATGCT
1 CGTTTTTTGAAAAGCGCCGCTAATGCT
36168064 CGACCTTTTA
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 23 0.24
40 73 0.76
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (40 bp):
CGTTTTTTGAAAAGCGCCGCTAATGCTTGATCTATAGCGG
Found at i:36168001 original size:308 final size:309
Alignment explanation
Indices: 36167414--36168021 Score: 715
Period size: 308 Copynumber: 2.0 Consensus size: 309
36167404 GCCACAAAAT
* * * * *
36167414 CTCAACAACAAACGGCATTGTTTTCTCAACTTTTTACGGTGTTTTGCTAAAAGCGCCGCTAATGC
1 CTCAACAACAAACGGCATCGTTTTCTCAACTTTTTACGGCGTTTTCCAAAAAGAGCCGCTAATGC
* * * * **
36167479 TCGACCTATAGCGGCGTTTTTCAACAAGGGCCGCTAATTCTCGATCTATTATGGTGTTTTTAAAA
66 TCGACCTATAGCGCCGTTTTTCAACAAGGACCGCTAATGCTCGATCTACTACAGTGTTTTTAAAA
* *
36167544 AAAGCATCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTCAACTTTTTTGCG
131 AAAGCACCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTAAACTTTTTTGCG
* * * *
36167609 GTGTTTCCAAAAAAGCGCAACTAATGCTCAATCTATAGCGGCATTTTTCGACAAGCGCTGCTAAT
196 ATGTTTCCAAAAAAGCACAACTAATGCTCAATCTATAGCGGCATTTTTCGAAAAGCGCCGCTAAT
* * *
36167674 TTTCGATTTATTGCGGCGTTTTTTAAAAAGCGCCGCTAATACATTAAAG
261 CTTCGATCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATACATTAAAG
* * ** *
36167723 CTCAACAATAAACGGCGTCGTTTTGCTCAACTTTTTTGTGGCGTTTTCCAAAAAGAGCTGCTAAT
1 CTCAACAACAAACGGCATCGTTTT-CTCAAC-TTTTTACGGCGTTTTCCAAAAAGAGCCGCTAAT
* * * * *
36167788 GCTCGATCTATAGTGCCGTTTTTCAA-ATGGCACCTCTAATGCTCGATCTACTGCAGTGTTTTT-
64 GCTCGACCTATAGCGCCGTTTTTCAACAAGG-ACCGCTAATGCTCGATCTACTACAGTGTTTTTA
* * * * *
36167851 CAAAAAGCGCCGCTAATGCCACTAAAGCT-CAACAACAAACGATGT-GTTTTGCTAAACTTTTTT
128 AAAAAAGCACCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTAAACTTTTTT
* ** * ** ** ** *
36167914 GC-ATCGTTTTCTGAAAAGTACCGCTAATGCTTTATCTATAGCGGTGTTTTTTGAAAAGCGCCGC
193 GCGAT-GTTTCCAAAAAAGCACAACTAATGCTCAATCTATAGCGGCATTTTTCGAAAAGCGCCGC
36167978 TAATGCTT-GATCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAAT
257 TAAT-CTTCGATCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAAT
36168022 GCTCGATCTA
Statistics
Matches: 248, Mismatches: 46, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
307 1 0.00
308 102 0.41
309 36 0.15
310 35 0.14
311 74 0.30
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (309 bp):
CTCAACAACAAACGGCATCGTTTTCTCAACTTTTTACGGCGTTTTCCAAAAAGAGCCGCTAATGC
TCGACCTATAGCGCCGTTTTTCAACAAGGACCGCTAATGCTCGATCTACTACAGTGTTTTTAAAA
AAAGCACCGCTAATGCCACTAAAGCTAAAAAAACAAACGACGTCGTTTTGCTAAACTTTTTTGCG
ATGTTTCCAAAAAAGCACAACTAATGCTCAATCTATAGCGGCATTTTTCGAAAAGCGCCGCTAAT
CTTCGATCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAATACATTAAAG
Found at i:36168083 original size:39 final size:39
Alignment explanation
Indices: 36167934--36168083 Score: 158
Period size: 40 Copynumber: 3.8 Consensus size: 39
36167924 CTGAAAAGTA
** ** *
36167934 CCGCTAATGCTTTATCTATAGCGGTGTTTTTTGAAAAGCG
1 CCGCTAATGCTCGATCTATAGCGG-CATTTTTAAAAAGCG
* *
36167974 CCGCTAATGCTTGATCTATAGCGGCGTTTTTTAAAAAGCG
1 CCGCTAATGCTCGATCTATAGCGGC-ATTTTTAAAAAGCG
* * *
36168014 CCGCTAATGCTCGATCTATAGCAGCGTTTTTCAAAAGCG
1 CCGCTAATGCTCGATCTATAGCGGCATTTTTAAAAAGCG
* *
36168053 CCGCTAATGCTCGACCTTTTA-CGGCATTTTT
1 CCGCTAATGCTCGATC-TATAGCGGCATTTTT
36168084 TTCATAAACG
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.36
40 62 0.64
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (39 bp):
CCGCTAATGCTCGATCTATAGCGGCATTTTTAAAAAGCG
Found at i:36168502 original size:11 final size:11
Alignment explanation
Indices: 36168486--36168510 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36168476 GCGGTTATTG
36168486 TATTTATTGTA
1 TATTTATTGTA
36168497 TATTTATTGTA
1 TATTTATTGTA
36168508 TAT
1 TAT
36168511 AAAGGGACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:36169127 original size:21 final size:21
Alignment explanation
Indices: 36169088--36169127 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36169078 TTCATTTAAA
* *
36169088 AATATAAATGATATAGAATAT
1 AATATAAATCAAATAGAATAT
*
36169109 AATATAAATCAAATGGAAT
1 AATATAAATCAAATAGAAT
36169128 TACTGATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (21 bp):
AATATAAATCAAATAGAATAT
Found at i:36169168 original size:21 final size:21
Alignment explanation
Indices: 36169135--36169175 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36169125 AATTACTGAT
* *
36169135 AAAAGTTCTATATCTCTATAG
1 AAAAGTTCGATATATCTATAG
*
36169156 AAAAGTTGGATATATCTATA
1 AAAAGTTCGATATATCTATA
36169176 TAATCAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (21 bp):
AAAAGTTCGATATATCTATAG
Found at i:36169252 original size:19 final size:19
Alignment explanation
Indices: 36169228--36169286 Score: 91
Period size: 19 Copynumber: 3.1 Consensus size: 19
36169218 ATATCTATGG
36169228 ATTAATAATAATCTATATA
1 ATTAATAATAATCTATATA
*
36169247 ATTAATAATACTCTATATA
1 ATTAATAATAATCTATATA
*
36169266 GATAAATAATAATCTATATA
1 -ATTAATAATAATCTATATA
36169286 A
1 A
36169287 CATAATCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAATAATAATCTATATA
Found at i:36169254 original size:16 final size:16
Alignment explanation
Indices: 36169233--36169300 Score: 50
Period size: 14 Copynumber: 3.9 Consensus size: 16
36169223 TATGGATTAA
36169233 TAATAATCTATATAAT
1 TAATAATCTATATAAT
36169249 TAATAATACTCTATATAGAT
1 TAAT-A-A-TCTATATA-AT
36169269 AAATAATAATCTATATAA-
1 ---TAATAATCTATATAAT
*
36169287 -CATAATCTATATAA
1 TAATAATCTATATAA
36169301 CAAAGTAAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
14 13 0.30
16 4 0.09
17 1 0.02
18 1 0.02
19 9 0.20
20 10 0.23
21 1 0.02
22 1 0.02
23 4 0.09
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.38
Consensus pattern (16 bp):
TAATAATCTATATAAT
Found at i:36169275 original size:20 final size:19
Alignment explanation
Indices: 36169231--36169286 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
36169221 TCTATGGATT
*
36169231 AATAATAATCTATATAATT
1 AATAATAATCTATATAATA
*
36169250 AATAATACTCTATATAGATA
1 AATAATAATCTATATA-ATA
36169270 AATAATAATCTATATAA
1 AATAATAATCTATATAA
36169287 CATAATCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATAATCTATATAATA
Found at i:36169293 original size:14 final size:14
Alignment explanation
Indices: 36169274--36169302 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
36169264 TAGATAAATA
36169274 ATAATCTATATAAC
1 ATAATCTATATAAC
36169288 ATAATCTATATAAC
1 ATAATCTATATAAC
36169302 A
1 A
36169303 AAGTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:36170367 original size:7 final size:7
Alignment explanation
Indices: 36170357--36170395 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
36170347 TTATTGAGCT
36170357 TATAATA
1 TATAATA
36170364 TATAATA
1 TATAATA
36170371 TATAATA
1 TATAATA
36170378 TATAATA
1 TATAATA
36170385 TATAATA
1 TATAATA
36170392 TATA
1 TATA
36170396 TTAGATGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:36170482 original size:58 final size:56
Alignment explanation
Indices: 36170418--36170542 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 56
36170408 ATATTAATTC
*
36170418 TATTATATATTTATCAATTCTATTATATATATTCTAATATATATTAGTATTAGAAT-TTA
1 TATTATATATTTATCAATT-TATT-TATATATT-TAATATATAATA-TATTAGAATATTA
* * *
36170477 T-TTATATATTTTATTAATTTATTTATATATTTTATTTATAATATATTAGAATATTA
1 TATTATATA-TTTATCAATTTATTTATATATTTAATATATAATATATTAGAATATTA
36170533 TATT-TATATT
1 TATTATATATT
36170543 ATATTTATAT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
55 11 0.19
56 17 0.29
57 10 0.17
58 11 0.19
59 10 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (56 bp):
TATTATATATTTATCAATTTATTTATATATTTAATATATAATATATTAGAATATTA
Found at i:36170491 original size:13 final size:13
Alignment explanation
Indices: 36170473--36170516 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
36170463 AGTATTAGAA
36170473 TTTATTTATATAT
1 TTTATTTATATAT
36170486 TTTA--T-TA-A-
1 TTTATTTATATAT
36170494 TTTATTTATATAT
1 TTTATTTATATAT
36170507 TTTATTTATA
1 TTTATTTATA
36170517 ATATATTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
8 4 0.15
9 1 0.04
10 3 0.12
11 3 0.12
12 1 0.04
13 14 0.54
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTATTTATATAT
Found at i:36170497 original size:21 final size:21
Alignment explanation
Indices: 36170471--36170512 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
36170461 TTAGTATTAG
36170471 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
36170492 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
36170513 TATAATATAT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTTATTTATATATTTTATT
Found at i:36170523 original size:24 final size:24
Alignment explanation
Indices: 36170422--36170552 Score: 87
Period size: 24 Copynumber: 5.5 Consensus size: 24
36170412 TAATTCTATT
*
36170422 ATATATTTATCA-ATTCTA-TTAT-
1 ATATATTTAT-ATATTTTATTTATA
* *
36170444 ATATATTCTAATATATATTAGTATTAGA
1 ATATATT-T-ATATATTTTA-T-TTATA
*
36170472 ATTTATTTATATATTTTA--T-TA
1 ATATATTTATATATTTTATTTATA
*
36170493 ATTTATTTATATATTTTATTTATA
1 ATATATTTATATATTTTATTTATA
* *
36170517 ATATA-TTAGAATATTATATTTATA
1 ATATATTTA-TATATTTTATTTATA
*
36170541 TTATATTTATAT
1 ATATATTTATAT
36170553 TACTTATCTA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
21 19 0.22
22 8 0.09
23 6 0.07
24 31 0.36
25 3 0.03
26 9 0.10
27 4 0.05
28 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATATATTTATATATTTTATTTATA
Found at i:36170552 original size:11 final size:11
Alignment explanation
Indices: 36170472--36170554 Score: 63
Period size: 11 Copynumber: 7.9 Consensus size: 11
36170462 TAGTATTAGA
36170472 ATTTAT-TTAT
1 ATTTATATTAT
*
36170482 ATATTTTATTA-
1 AT-TTATATTAT
36170493 ATTTAT-TTAT
1 ATTTATATTAT
36170503 A--TAT-TT-T
1 ATTTATATTAT
*
36170510 ATTTATAATAT
1 ATTTATATTAT
*
36170521 ATTAGAATATTAT
1 ATT--TATATTAT
36170534 ATTTATATTAT
1 ATTTATATTAT
36170545 ATTTATATTA
1 ATTTATATTA
36170555 CTTATCTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
7 2 0.03
8 5 0.09
9 6 0.10
10 7 0.12
11 26 0.45
12 3 0.05
13 9 0.16
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:36175692 original size:23 final size:23
Alignment explanation
Indices: 36175661--36175713 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
36175651 ACCTACTTTC
* *
36175661 TTACTGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGAGATA
36175684 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
36175707 TTACAGT
1 TTACAGT
36175714 TATTTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:36190854 original size:31 final size:29
Alignment explanation
Indices: 36190798--36190863 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 29
36190788 AGTATGTACC
*
36190798 AGTATATATTTACAAAATAAGAATGTATA
1 AGTATATATTTACAAAATAAAAATGTATA
*
36190827 TGTATATATTTACAAAAATAAAAAATGTATA
1 AGTATATATTTAC-AAAAT-AAAAATGTATA
36190858 AGTATA
1 AGTATA
36190864 CATGTACTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 12 0.38
30 5 0.16
31 15 0.47
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.35
Consensus pattern (29 bp):
AGTATATATTTACAAAATAAAAATGTATA
Found at i:36190863 original size:29 final size:28
Alignment explanation
Indices: 36190801--36190863 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
36190791 ATGTACCAGT
* *
36190801 ATATATTTACAAAATAAGAATGTATATG
1 ATATATTTACAAAATAAAAATGTATAAG
36190829 TATATATTTACAAAAATAAAAAATGTATAAG
1 -ATATATTTAC-AAAAT-AAAAATGTATAAG
36190860 -TATA
1 ATATA
36190864 CATGTACTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.47
30 5 0.17
31 11 0.37
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (28 bp):
ATATATTTACAAAATAAAAATGTATAAG
Found at i:36191262 original size:16 final size:16
Alignment explanation
Indices: 36191241--36191273 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36191231 GTTAGAAAAA
*
36191241 ATTATAAAATATATAT
1 ATTATAAAATACATAT
36191257 ATTATAAAATACATAT
1 ATTATAAAATACATAT
36191273 A
1 A
36191274 AATAATATAA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATAAAATACATAT
Found at i:36192837 original size:44 final size:44
Alignment explanation
Indices: 36192755--36192867 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 44
36192745 AAGACTTGTA
* * *
36192755 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAGAAAGATCTACTT
* * *
36192799 TCTTTGATCTACTTCA-CGCCAGTACGTGAAGAAAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAGTACGGGAAG-AAAGATCTACTT
* *
36192843 TCTTCAATCTACTCCACCACCAGTA
1 TCTTCGATCTACTTCACCACCAGTA
36192868 TGGGGAGATA
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
43 12 0.21
44 38 0.67
45 7 0.12
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTACTTCACCACCAGTACGGGAAGAAAGATCTACTT
Found at i:36193158 original size:44 final size:43
Alignment explanation
Indices: 36193039--36193365 Score: 231
Period size: 44 Copynumber: 7.3 Consensus size: 43
36193029 CTACCAATAT
* * * * * *
36193039 AGGAAGACAGGACCTACTATCTTTGATCTCCTTCACGCTAGTAC
1 AGGAAGACAAGATCTA-TTTCTTTGATCTACTTCACACCAGTAC
* * * * * * *
36193083 ATGAAGACAGGATCTGTTTTCTTCGACCTACTCCACCACCAGTAT
1 AGGAAGACAAGATCT-ATTTCTTTGATCTACTTCA-CACCAGTAC
* * *
36193128 AGGGAGACAAGATCTATTTCTTTGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTATTTCTTTGATCTACTTCACACCAGTAC
* * * *
36193171 ATGAAGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTAT
1 AGGAAGACAAGATCT-ATTTCTTTGATCTACTTCA-CACCAGTAC
* * * *
36193216 AGGGAGACAAGATCTGTTGACTTTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTATT-TCTTTGATCTACTTCACACCAGTAC
** * * * *
36193260 ATAAAGACAAGATCTGATTTTTCCTTCGATCTGCTTCGCCACCAGTAT
1 AGGAAGACAAGATCT-A--TTT-CTTTGATCTACTTC-ACACCAGTAC
* * * * *
36193308 GGGAAGGCAAGATCTGTATCTTTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTATTTCTTTGATCTACTTCACACCAGTAC
*
36193351 ATGAAGACAAGATCT
1 AGGAAGACAAGATCT
36193366 GCTTTTTCCT
Statistics
Matches: 214, Mismatches: 59, Indels: 21
0.73 0.20 0.07
Matches are distributed among these distances:
43 38 0.18
44 91 0.43
45 53 0.25
47 14 0.07
48 18 0.08
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
AGGAAGACAAGATCTATTTCTTTGATCTACTTCACACCAGTAC
Found at i:36193172 original size:88 final size:90
Alignment explanation
Indices: 36193056--36193431 Score: 469
Period size: 91 Copynumber: 4.2 Consensus size: 90
36193046 CAGGACCTAC
* * * *
36193056 TATCTTTGATCTCCTTCACGCTAGTACATGAAGACAGGATCTG-TTTT-CTTCGACCTACTCCAC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTTCCTTCGATCTACTCCAC
*
36193119 CACCAGTATAGGGAGACAAGATCTA
66 CACCAGTATAGGGAGACAAGATCTG
* * * *
36193144 TTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTG-CTTT-CTTTGATCTACTCCAC
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTTCCTTCGATCTACTCCAC
36193207 CACCAGTATAGGGAGACAAGATCTG
66 CACCAGTATAGGGAGACAAGATCTG
* * *
36193232 T-TGACTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGATTTTTCCTTCGATCTGCTT
1 TAT--CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTTTCCTTCGATCTACTC
* *
36193296 CGCCACCAGTAT-GGGAAGGCAAGATCTG
63 CACCACCAGTATAGGG-AGACAAGATCTG
* * *
36193324 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCG
1 TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTTTCCTTCGATCTACTCCA
* *
36193389 CCACCAGTAT-GGGAAGGCGAGATCTG
65 CCACCAGTATAGGG-AGACAAGATCTG
*
36193415 TATATTTGATCTACTTC
1 TATCTTTGATCTACTTC
36193432 GCTACCAATA
Statistics
Matches: 260, Mismatches: 21, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
87 1 0.00
88 80 0.31
89 38 0.15
91 107 0.41
92 33 0.13
93 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (90 bp):
TATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTTCCTTCGATCTACTCCAC
CACCAGTATAGGGAGACAAGATCTG
Found at i:36193240 original size:45 final size:44
Alignment explanation
Indices: 36193087--36193454 Score: 215
Period size: 44 Copynumber: 8.2 Consensus size: 44
36193077 TAGTACATGA
* * *
36193087 AGACAGGATCTGTTTTCTTCGACCTACTCCACCACCAGTATAGGG
1 AGACAAGATCTG-TTTCTTTGATCTACTCCACCACCAGTATAGGG
* * * * * * *
36193132 AGACAAGATCTATTTCTTTGATCTACTTCA-CGCCAATACATGA
1 AGACAAGATCTGTTTCTTTGATCTACTCCACCACCAGTATAGGG
36193175 AGACAAGATCTGCTTTCTTTGATCTACTCCACCACCAGTATAGGG
1 AGACAAGATCTG-TTTCTTTGATCTACTCCACCACCAGTATAGGG
* * * * ***
36193220 AGACAAGATCTGTTGACTTTGATCTACTTCA-CGCCAGTACATAA
1 AGACAAGATCTGTT-TCTTTGATCTACTCCACCACCAGTATAGGG
* * * *
36193264 AGACAAGATCTGATTTTTCCTTCGATCTGCTTCGCCACCAGTAT-GGG
1 AGACAAGATCTG---TTT-CTTTGATCTACTCCACCACCAGTATAGGG
* * * * * * *
36193311 AAGGCAAGATCTGTATCTTTGATCTACTTCA-CGCCAGTACATGA
1 -AGACAAGATCTGTTTCTTTGATCTACTCCACCACCAGTATAGGG
* * * *
36193355 AGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTAT-GGG
1 AGACAAGATCTG---TTT-CTTTGATCTACTCCACCACCAGTATAGGG
* * * * * * * * *
36193402 AAGGCGAGATCTGTATATTTGATCTACTTCGCTACCAATATAGGA
1 -AGACAAGATCTGTTTCTTTGATCTACTCCACCACCAGTATAGGG
36193447 AGACAAGA
1 AGACAAGA
36193455 CCTGCTGCTT
Statistics
Matches: 244, Mismatches: 62, Indels: 35
0.72 0.18 0.10
Matches are distributed among these distances:
43 37 0.15
44 93 0.38
45 50 0.20
46 2 0.01
47 27 0.11
48 35 0.14
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
AGACAAGATCTGTTTCTTTGATCTACTCCACCACCAGTATAGGG
Found at i:36193319 original size:48 final size:47
Alignment explanation
Indices: 36193267--36193415 Score: 162
Period size: 48 Copynumber: 3.2 Consensus size: 47
36193257 TACATAAAGA
36193267 CAAGATCTGATTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGG
1 CAAGATCTG-TTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGG
* * * * * *** *
36193315 CAAGATCTG--TAT-CTTTGATCTACTTC-ACGCCAGTACATGAAGA
1 CAAGATCTGTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGG
36193358 CAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGG
1 CAAGATCTG-TTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGG
*
36193406 CGAGATCTGT
1 CAAGATCTGT
36193416 ATATTTGATC
Statistics
Matches: 77, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
43 20 0.26
44 12 0.16
45 2 0.03
46 2 0.03
47 13 0.17
48 28 0.36
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (47 bp):
CAAGATCTGTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGG
Found at i:36193358 original size:180 final size:179
Alignment explanation
Indices: 36193059--36193431 Score: 479
Period size: 180 Copynumber: 2.1 Consensus size: 179
36193049 GACCTACTAT
* * * *
36193059 CTTTGATCTCCTTCACGCTAGTACATGAAGACAGGATCTGTTTTCTTCGACCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGTTTTCTTCGACCTACTCCACCACCA
*
36193124 GTATAGGGAGACAAGATCTATTTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-
66 GTATAGGGAGACAAGATCTATATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
*
36193188 TTT-CTTTGATCTACTCCACCACCAGTATAGGG-AGACAAGATCTGT-TGA
131 TTTCCTTCGATCTACTCCACCACCAGTAT-GGGAAGACAAGATCTGTAT-A
* * * *
36193236 CTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGATTTTTCCTTCGATCTGCTTCGCCA
1 CTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTG--TTTT-CTTCGACCTACTCCACCA
* * *
36193301 CCAGTAT-GGGAAGGCAAGATCTGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
63 CCAGTATAGGG-AGACAAGATCTATATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATC
* * * * *
36193365 TGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTATA
127 TGC-TTTTCCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTATA
36193419 -TTTGATCTACTTC
1 CTTTGATCTACTTC
36193432 GCTACCAATA
Statistics
Matches: 169, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
177 36 0.21
179 7 0.04
180 73 0.43
182 19 0.11
183 33 0.20
184 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (179 bp):
CTTTGATCTACTTCACGCCAGTACATAAAGACAAGATCTGTTTTCTTCGACCTACTCCACCACCA
GTATAGGGAGACAAGATCTATATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT
TTTCCTTCGATCTACTCCACCACCAGTATGGGAAGACAAGATCTGTATA
Found at i:36194724 original size:17 final size:17
Alignment explanation
Indices: 36194702--36194740 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
36194692 AACTCAAATC
36194702 CCCTTTGGTCTAAAGCG
1 CCCTTTGGTCTAAAGCG
36194719 CCCTTTGGTCTAAAGCG
1 CCCTTTGGTCTAAAGCG
36194736 CCCTT
1 CCCTT
36194741 AGCCTCTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (17 bp):
CCCTTTGGTCTAAAGCG
Found at i:36194852 original size:47 final size:47
Alignment explanation
Indices: 36194754--36194853 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
36194744 CTCTCCATTT
* * * * * ***
36194754 TTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTAGTCTCTTT
1 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTAGTCCCACC
* *
36194801 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTAGTCCCACC
36194848 TTTTTT
1 TTTTTT
36194854 AAGCAGAGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.13, C:0.27, G:0.15, T:0.45
Consensus pattern (47 bp):
TTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTAGTCCCACC
Found at i:36197573 original size:19 final size:20
Alignment explanation
Indices: 36197549--36197588 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
36197539 AAAGGTTTTT
* *
36197549 AATGCATATG-ATGCAATGA
1 AATGCAAATGCATGAAATGA
36197568 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
36197588 A
1 A
36197589 TGCGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:36199975 original size:16 final size:16
Alignment explanation
Indices: 36199954--36199986 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36199944 GTTAGAAAAA
*
36199954 ATTATAAAATATATAT
1 ATTATAAAATACATAT
36199970 ATTATAAAATACATAT
1 ATTATAAAATACATAT
36199986 A
1 A
36199987 AATAATATAA
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:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATAAAATACATAT
Found at i:36200729 original size:7 final size:7
Alignment explanation
Indices: 36200713--36200742 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
36200703 CAATGAAAAT
36200713 AATA-AA
1 AATAGAA
36200719 AATAGAA
1 AATAGAA
36200726 AATAGAA
1 AATAGAA
36200733 AATAGAA
1 AATAGAA
36200740 AAT
1 AAT
36200743 CCCTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (7 bp):
AATAGAA
Found at i:36208961 original size:14 final size:15
Alignment explanation
Indices: 36208931--36208963 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36208921 CCACGGATCA
*
36208931 AATCATTGGTGCCGG
1 AATCATTGGTACCGG
36208946 AATCATTGG-ACCGG
1 AATCATTGGTACCGG
36208960 AATC
1 AATC
36208964 TCAAACCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (15 bp):
AATCATTGGTACCGG
Found at i:36211501 original size:19 final size:20
Alignment explanation
Indices: 36211455--36211510 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
36211445 CTAGGGCTCG
36211455 TGGCACACGAAGTGCAT-AC
1 TGGCACACGAAGTGCATCAC
* *
36211474 TAGCGCACGAAGTGCATCA-
1 TGGCACACGAAGTGCATCAC
*
36211493 TGGCACACGAGGTGCATC
1 TGGCACACGAAGTGCATC
36211511 GTAGCGTATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.29, C:0.27, G:0.29, T:0.16
Consensus pattern (20 bp):
TGGCACACGAAGTGCATCAC
Found at i:36214819 original size:25 final size:26
Alignment explanation
Indices: 36214785--36214879 Score: 102
Period size: 28 Copynumber: 3.5 Consensus size: 26
36214775 AACCTGATCT
*
36214785 ACAGCTTGTGTGAGCA-GCCAATATC
1 ACAGCTTGTGTGAGCATGCAAATATC
*
36214810 ACAGCTTGTGTGAGCAAATTCAAATATC
1 ACAGCTTGTGTGAGC--ATGCAAATATC
* *
36214838 ATAGCTTGTGTGAGCAAATTCAAATATC
1 ACAGCTTGTGTGAGC--ATGCAAATATC
*
36214866 ACAGCATGTGTGAG
1 ACAGCTTGTGTGAG
36214880 AAAATTGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
25 15 0.24
27 1 0.02
28 46 0.74
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (26 bp):
ACAGCTTGTGTGAGCATGCAAATATC
Found at i:36214844 original size:28 final size:28
Alignment explanation
Indices: 36214804--36214885 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
36214794 GTGAGCAGCC
36214804 AATATCACAGCTTGTGTGAGCAAATTCA
1 AATATCACAGCTTGTGTGAGCAAATTCA
*
36214832 AATATCATAGCTTGTGTGAGCAAATTCA
1 AATATCACAGCTTGTGTGAGCAAATTCA
* *
36214860 AATATCACAGCATGTGTGAGAAAATT
1 AATATCACAGCTTGTGTGAGCAAATT
36214886 GAATAATTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (28 bp):
AATATCACAGCTTGTGTGAGCAAATTCA
Found at i:36216712 original size:40 final size:40
Alignment explanation
Indices: 36216646--36217064 Score: 408
Period size: 40 Copynumber: 10.5 Consensus size: 40
36216636 AATTACTGAA
* * **
36216646 TGATTGTACATATGTGCCCCTGTTTGTACTTTGGTACCAT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* *
36216686 TAATTGCACATATGTGCCCCAT-TTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCC-TGTTTGTACTTTGGTACCCC
* * * *
36216726 TAAATGGACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* ** *
36216766 TGATTACACATACGTGCCCCTGTTTGTACTTCAGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * * * * *
36216806 TGATTACACGTATGTGCTCTTATTTGTACTTCGGCACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * * *
36216846 TGATTGCACATACATGCTCTTATTTGTACTTCGGCACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * * * *
36216886 TGATTGCACATACGTGCTCCTATTTGTACTTTGGCATCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
*
36216926 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
36216966 TGAATGCACATACGTGCTCATGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* ** * * *
36217006 TGAATGCACATACGTGCCATTGCTTGTACTTCGGTACACC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
* * *
36217046 TGGTTGCACTTTCGTGCCC
1 TGATTGCACATACGTGCCC
36217065 TGGTTATACT
Statistics
Matches: 327, Mismatches: 50, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.00
40 325 0.99
41 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:36216765 original size:20 final size:19
Alignment explanation
Indices: 36216742--36216804 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
36216732 GACATACGTG
36216742 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTC-GTA
* ** * *
36216762 CCCCTGATTACACATACGTG
1 CCCCTGTTTGTAC-TTCGTA
36216782 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTC-GTA
36216802 CCC
1 CCC
36216805 TTGATTACAC
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.16, C:0.35, G:0.16, T:0.33
Consensus pattern (19 bp):
CCCCTGTTTGTACTTCGTA
Found at i:36216872 original size:120 final size:119
Alignment explanation
Indices: 36216646--36217042 Score: 452
Period size: 120 Copynumber: 3.3 Consensus size: 119
36216636 AATTACTGAA
* * * * * *
36216646 TGATTGTACATATGTGCCCCTGTTTGTACTTTGGTACCATTAATTGCACATATGTGCCCCATTTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTGCCCTA-TTT
* * * *
36216711 GTACTTTGGTACCCCTAAATGGACATACGTGCCCCTGTTTGTACTTCGGTACCCC
65 GTACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
* * * * *
36216766 TGATTACACATACGTGCCCCTGTTTGTACTTCAGTACCCTTGATTACACGTATGTGCTCTTATTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTGC-CCTATTT
* * * * * * *
36216831 GTACTTCGGCACCCCTGATTGCACATACATGCTCTTATTTGTACTTCGGCACCCC
65 GTACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
* * * * * * *
36216886 TGATTGCACATACGTGCTCCTATTTGTACTTTGGCATCCTTGATTGCACATACGTGCCCCTGTTT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTG-CCCTATTT
* *
36216951 GTACTTTGGTACCCTTGAATGCACATACGTGCTCATGTTTGTACTTTGGTACCCC
65 GTACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
* ** *
36217006 TGAATGCACATACGTGCCATTGCTTGTACTTCGGTAC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
36217043 ACCTGGTTGC
Statistics
Matches: 224, Mismatches: 51, Indels: 4
0.80 0.18 0.01
Matches are distributed among these distances:
120 221 0.99
121 3 0.01
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (119 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCTTGATTGCACATATGTGCCCTATTTG
TACTTTGGTACCCCTGAATGCACATACGTGCTCATGTTTGTACTTCGGTACCCC
Found at i:36221857 original size:6 final size:6
Alignment explanation
Indices: 36221848--36221873 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36221838 GAATTATAAT
36221848 TGGAAC TGGAAC TGGAAC TGGAAC TG
1 TGGAAC TGGAAC TGGAAC TGGAAC TG
36221874 TAAGTGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (6 bp):
TGGAAC
Found at i:36228282 original size:24 final size:26
Alignment explanation
Indices: 36228229--36228276 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
36228219 TTAGTAATGA
36228229 ATTTGAAAAATATAAAATGTTTTTAG
1 ATTTGAAAAATATAAAATGTTTTTAG
*
36228255 ATTTGACAAAT-T-AAATGTTTTT
1 ATTTGAAAAATATAAAATGTTTTT
36228277 GTATTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTGAAAAATATAAAATGTTTTTAG
Found at i:36229206 original size:10 final size:10
Alignment explanation
Indices: 36229191--36229229 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
36229181 TAGATACAAA
36229191 AAAAAAAAGG
1 AAAAAAAAGG
*
36229201 AAAAAAAAAG
1 AAAAAAAAGG
36229211 AAAAGAAAA-G
1 AAAA-AAAAGG
36229221 AAAAAAAAG
1 AAAAAAAAG
36229230 AAACCTCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 4 0.15
10 18 0.69
11 4 0.15
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGG
Found at i:36234731 original size:31 final size:31
Alignment explanation
Indices: 36234683--36234765 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
36234673 GAAAGCTTTT
* *
36234683 TATGAGAGTTCTCTGTGATAAATAAGCTCCC
1 TATGCGAGCTCTCTGTGATAAATAAGCTCCC
* *
36234714 TATGCGAGCTCTTTGTGATAAATAAGCTCTC
1 TATGCGAGCTCTCTGTGATAAATAAGCTCCC
* *
36234745 TATGTGAGCTCTCTATGATAA
1 TATGCGAGCTCTCTGTGATAA
36234766 GTCTCTGTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (31 bp):
TATGCGAGCTCTCTGTGATAAATAAGCTCCC
Found at i:36234770 original size:13 final size:14
Alignment explanation
Indices: 36234735--36234771 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
36234725 TTTGTGATAA
36234735 ATAAGCTCTCTATG
1 ATAAGCTCTCTATG
*
36234749 -TGAGCTCTCTATG
1 ATAAGCTCTCTATG
36234762 ATAAG-TCTCT
1 ATAAGCTCTCT
36234772 GTGCGTGCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 17 0.85
14 3 0.15
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (14 bp):
ATAAGCTCTCTATG
Found at i:36235124 original size:49 final size:49
Alignment explanation
Indices: 36235048--36235181 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
36235038 AGGGTGGGCT
* * * * * *
36235048 TGAACATATCTTATGCTCCTCAACCATTCTGATAAGTGTGTTAGGTGTG
1 TGAACATATTTTATGTTCTTCAGCCATTCTGATAAGTGTGTTAAGTGCG
*
36235097 TGAACATATTTTATGTTCTTCAGCCATTCTCATAAGTGTGTTAAGTGCG
1 TGAACATATTTTATGTTCTTCAGCCATTCTGATAAGTGTGTTAAGTGCG
* * * * *
36235146 AGAACATATTTTATGTTTTTTAGCCGTTTTGATAAG
1 TGAACATATTTTATGTTCTTCAGCCATTCTGATAAG
36235182 ATAAGCATGT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (49 bp):
TGAACATATTTTATGTTCTTCAGCCATTCTGATAAGTGTGTTAAGTGCG
Found at i:36250864 original size:23 final size:22
Alignment explanation
Indices: 36250838--36250884 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 22
36250828 CTTTCGATCA
36250838 ATATTCA-ATTCAATTCCACACTT
1 ATATTCACATTCAATT--ACACTT
36250861 ATATTCATCATTCAATTACACTT
1 ATATTCA-CATTCAATTACACTT
36250884 A
1 A
36250885 ATCGTTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTCACATTCAATTACACTT
Found at i:36251006 original size:23 final size:23
Alignment explanation
Indices: 36250980--36251100 Score: 165
Period size: 23 Copynumber: 5.3 Consensus size: 23
36250970 ATAAGTGCCA
36250980 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
**
36251003 CACTGATGCGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
*
36251026 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
36251049 CACTGATATGTAGCTGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
36251072 CACT-AAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
36251094 CACTGAT
1 CACTGAT
36251101 TAATAACATT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.24
23 62 0.75
24 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:36251047 original size:46 final size:46
Alignment explanation
Indices: 36250980--36251100 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
36250970 ATAAGTGCCA
* *
36250980 CACTGATATGTAGCCGAAGCTACCACTGATGCGTAGCCATAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
* **
36251026 CACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCTGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
36251072 CACT-AAATGTAGCCGAAGCTACCACTGAT
1 CACTGAAATGTAGCCGAAGCTACCACTGAT
36251101 TAATAACATT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 25 0.36
46 45 0.64
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTAC
Found at i:36256063 original size:21 final size:21
Alignment explanation
Indices: 36256037--36256080 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
36256027 TTTGAGGAAA
36256037 GATTGGTCTTGCCGATTGGAT
1 GATTGGTCTTGCCGATTGGAT
36256058 GATTGGTCTTGCCGATTGGAT
1 GATTGGTCTTGCCGATTGGAT
36256079 GA
1 GA
36256081 CGCTTTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (21 bp):
GATTGGTCTTGCCGATTGGAT
Found at i:36258416 original size:18 final size:18
Alignment explanation
Indices: 36258393--36258429 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36258383 AAGTTGCTGC
36258393 TACAGAAAAGAAAGTTGT
1 TACAGAAAAGAAAGTTGT
* *
36258411 TACAGAAGAGGAAGTTGT
1 TACAGAAAAGAAAGTTGT
36258429 T
1 T
36258430 GCTGAAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.24
Consensus pattern (18 bp):
TACAGAAAAGAAAGTTGT
Found at i:36258922 original size:17 final size:17
Alignment explanation
Indices: 36258900--36258933 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
36258890 GATAAATATA
*
36258900 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
36258917 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
36258934 CATGTTAGTG
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:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:36262133 original size:24 final size:25
Alignment explanation
Indices: 36262078--36262135 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
36262068 ATTTAAAATG
36262078 TAAATTATATTTAAAATAATAATAA
1 TAAATTATATTTAAAATAATAATAA
* *
36262103 TAAATTAT-TTT-TAATAATATTGAA
1 TAAATTATATTTAAAATAATAAT-AA
36262127 TAAATTATA
1 TAAATTATA
36262136 AAATAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 8 0.28
24 13 0.45
25 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TAAATTATATTTAAAATAATAATAA
Found at i:36262900 original size:13 final size:13
Alignment explanation
Indices: 36262882--36262959 Score: 78
Period size: 13 Copynumber: 6.5 Consensus size: 13
36262872 AATTTTAAAT
36262882 TATTTAGTAATAA
1 TATTTAGTAATAA
36262895 TATTTAG-AAT--
1 TATTTAGTAATAA
*
36262905 TATTTAGTGATAA
1 TATTTAGTAATAA
*
36262918 TATTTAGTGATAA
1 TATTTAGTAATAA
36262931 TATTTAG-AAT--
1 TATTTAGTAATAA
* *
36262941 TATTTAATGATAA
1 TATTTAGTAATAA
36262954 TATTTA
1 TATTTA
36262960 AGAAAAATCT
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
10 13 0.24
11 4 0.07
12 5 0.09
13 33 0.60
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (13 bp):
TATTTAGTAATAA
Found at i:36262923 original size:23 final size:23
Alignment explanation
Indices: 36262875--36262924 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
36262865 ATTTTTAAAT
36262875 TTTA-AATTATTTAGTAATAATA
1 TTTAGAATTATTTAGTAATAATA
*
36262897 TTTAGAATTATTTAGTGATAATA
1 TTTAGAATTATTTAGTAATAATA
36262920 TTTAG
1 TTTAG
36262925 TGATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (23 bp):
TTTAGAATTATTTAGTAATAATA
Found at i:36262931 original size:36 final size:36
Alignment explanation
Indices: 36262882--36262959 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
36262872 AATTTTAAAT
*
36262882 TATTTAGTAATAATATTTAGAATTATTTAGTGATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
*
36262918 TATTTAGTGATAATATTTAGAATTATTTAATGATAA
1 TATTTAGTAATAATATTTAGAATTATTTAATGATAA
36262954 TATTTA
1 TATTTA
36262960 AGAAAAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (36 bp):
TATTTAGTAATAATATTTAGAATTATTTAATGATAA
Found at i:36266483 original size:20 final size:20
Alignment explanation
Indices: 36266458--36266497 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
36266448 TAACGGTTGA
36266458 TATCAAGAT-TTTGGCAAGAT
1 TATCAA-ATATTTGGCAAGAT
36266478 TATCAAATATTTGGCAAGAT
1 TATCAAATATTTGGCAAGAT
36266498 CCAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (20 bp):
TATCAAATATTTGGCAAGAT
Found at i:36271129 original size:145 final size:142
Alignment explanation
Indices: 36270903--36271189 Score: 400
Period size: 147 Copynumber: 2.0 Consensus size: 142
36270893 AAATTACTAC
36270903 TTTTCTTAAAAATCAAAATTTTATTTCAAAATAGTTGAAAAAAAATCAAAACATTGTTTTAAAAA
1 TTTTCTTAAAAATCAAAATTTTATTTCAAAATAGTTGAAAAAAAATCAAAACATTGTTTTAAAAA
36270968 ACTTAAACTTTTCCTTTAAAATGACT-AAAAAACAGATTTTTATTTTAAAAATCTAAACTTTCTC
66 ACTTAAACTTTTCCTTTAAAATGACTAAAAAAACAGATTTTTATTTTAAAAATCTAAAC--TCTC
36271032 GTTTTAAAAAAATAT
129 -TTTTAAAAAAATAT
* * ** *
36271047 TTTTCTTAAAGATCAAAGCTTTTATTTTGAAATAGTTGAAAAAAAAAATCAAAACTTTGTTTT-A
1 TTTTCTTAAAAATCAAA-ATTTTATTTCAAAATAGTTG--AAAAAAAATCAAAACATTGTTTTAA
** * * *
36271111 AAATTTTAAAC-TTTCCTTTAAAATGACTAAAAAAAATATATTTTTATTTTTAAAATCTAAACTC
63 AAAACTTAAACTTTTCCTTTAAAATGACT-AAAAAAACAGATTTTTATTTTAAAAATCTAAACTC
36271175 TCTTTTAAAAAAATA
127 TCTTTTAAAAAAATA
36271190 AAAAAGGGGA
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
144 29 0.23
145 38 0.30
146 10 0.08
147 51 0.40
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.40
Consensus pattern (142 bp):
TTTTCTTAAAAATCAAAATTTTATTTCAAAATAGTTGAAAAAAAATCAAAACATTGTTTTAAAAA
ACTTAAACTTTTCCTTTAAAATGACTAAAAAAACAGATTTTTATTTTAAAAATCTAAACTCTCTT
TTAAAAAAATAT
Found at i:36272004 original size:42 final size:42
Alignment explanation
Indices: 36271952--36272294 Score: 454
Period size: 42 Copynumber: 8.2 Consensus size: 42
36271942 ATATACAATA
* * *
36271952 CAATGAAAAGTAAATGGACCTCTACACCTAGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
36271994 CAATGAAAAGTAAATAGACCTCCACACTTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * * * * *
36272036 CAACGAAAAGTAAATAGACCTGCACACTTGAGTCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
36272078 CGATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTAAAT-
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* ** *
36272119 CTAATGAAAAGTGAATGGACCTCCACACCTGGGGTTCTAAATA
1 C-AATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* *
36272162 CAATGAAAAGTGAATGGACCTCCAAACCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
*
36272204 CAATGAAAAGTGAATGGACCTCCACACCTGGGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* * *
36272246 CAATAAAAAGTAAATGGACCTCCACACCCGAGCCTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
36272288 CAATGAA
1 CAATGAA
36272295 TGATTTGAGA
Statistics
Matches: 267, Mismatches: 32, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
41 1 0.00
42 265 0.99
43 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.20
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:36277735 original size:4 final size:4
Alignment explanation
Indices: 36277701--36277753 Score: 52
Period size: 4 Copynumber: 13.2 Consensus size: 4
36277691 TGAATAAACA
* * ** * *
36277701 AATG AGTG AATG GATG AGCG AATG GATG AATG AATG AATG AATG AGTG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
36277749 AATG A
1 AATG A
36277754 TTAAAATTGG
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.42, C:0.02, G:0.34, T:0.23
Consensus pattern (4 bp):
AATG
Found at i:36281031 original size:20 final size:19
Alignment explanation
Indices: 36281005--36281065 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
36280995 TTTAGGTAAT
36281005 TAAATAATTAAATGATAAA
1 TAAATAATTAAATGATAAA
36281024 TGAAAT-A--AAAT-A-AAA
1 T-AAATAATTAAATGATAAA
36281039 TAAATAATTAAATGATAAA
1 TAAATAATTAAATGATAAA
36281058 TTAAATAA
1 -TAAATAA
36281066 AATAAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
14 4 0.11
15 5 0.14
16 1 0.03
17 8 0.23
18 1 0.03
19 5 0.14
20 11 0.31
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
TAAATAATTAAATGATAAA
Found at i:36281045 original size:34 final size:34
Alignment explanation
Indices: 36281005--36281072 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
36280995 TTTAGGTAAT
36281005 TAAATAATTAAATGATAAATGAAATAAAATAAAA
1 TAAATAATTAAATGATAAATGAAATAAAATAAAA
*
36281039 TAAATAATTAAATGATAAATTAAATAAAATAAAA
1 TAAATAATTAAATGATAAATGAAATAAAATAAAA
36281073 CAAGCTTTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (34 bp):
TAAATAATTAAATGATAAATGAAATAAAATAAAA
Found at i:36281059 original size:12 final size:11
Alignment explanation
Indices: 36281010--36281068 Score: 50
Period size: 12 Copynumber: 5.3 Consensus size: 11
36281000 GTAATTAAAT
36281010 AATTAAATGATA
1 AATTAAAT-ATA
*
36281022 AATGAAATA-A
1 AATTAAATATA
* *
36281032 AATAAAATAAA
1 AATTAAATATA
36281043 TAATTAAATGATA
1 -AATTAAAT-ATA
36281056 AATTAAATA-A
1 AATTAAATATA
36281066 AAT
1 AAT
36281069 AAAACAAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 13 0.32
11 3 0.08
12 22 0.55
13 2 0.05
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (11 bp):
AATTAAATATA
Found at i:36282062 original size:25 final size:25
Alignment explanation
Indices: 36282005--36282098 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
36281995 GTTCCGACCC
* *
36282005 ACAACTCTTG-TGAGCATACTGATTT
1 ACAACTCGTGATGAGCATACCGA-TT
* *
36282030 ATAGCTCGTGA-GAGCATACCGATCT
1 ACAACTCGTGATGAGCATACCGAT-T
*
36282055 ACAACTCG-AATGAGCATACCGATT
1 ACAACTCGTGATGAGCATACCGATT
*
36282079 CACAGCTCGT-ATGAGCATAC
1 -ACAACTCGTGATGAGCATAC
36282099 ATGTACAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
24 3 0.05
25 53 0.95
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (25 bp):
ACAACTCGTGATGAGCATACCGATT
Found at i:36285557 original size:153 final size:150
Alignment explanation
Indices: 36285236--36285545 Score: 414
Period size: 153 Copynumber: 2.1 Consensus size: 150
36285226 AAAATCAAAA
36285236 TTTTTTTTAAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAA
1 TTTTTTTTAAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAA
* *
36285301 AAAATCAAAACTTTGTTTTAAAAAATTTAAAATTTTCCTTTAAAATGACTAAAAACAAATTTTTA
66 AAAATCAAAACTTTGTCTT-AAAAATTTAAAACTTTCCTTT-AAATGAC-AAAAACAAATTTTTA
****
36285366 TTTTAAAAATCTAAACTTTCTCT
128 AAAAAAAAATCTAAACTTTCTCT
* * **
36285389 TTTTTTTTAAAAAAAAT-ACTATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAA
1 TTTTTTTTAAAAAAAATCACTACTTTTCTTAAAAATCAAAAC-TTTATTTCAAAATAGTTGAAAA
* *
36285453 AAAAATCAAAACTTTGTCTT-AAAATTTTAAACTTTCCTTT-ACT-A-AAAAACATAATTTTTAA
65 AAAAATCAAAACTTTGTCTTAAAAATTTAAAACTTTCCTTTAAATGACAAAAACA-AATTTTTAA
36285514 AAAAAAAATCTAAACTTTCTCT
129 AAAAAAAATCTAAACTTTCTCT
36285536 TCTTCTTTTT
1 T-TT-TTTTT
36285546 TTTTTTAAAA
Statistics
Matches: 141, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
146 7 0.05
147 28 0.20
148 3 0.02
149 7 0.05
151 18 0.13
152 22 0.16
153 56 0.40
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (150 bp):
TTTTTTTTAAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGTTGAAAAA
AAAATCAAAACTTTGTCTTAAAAATTTAAAACTTTCCTTTAAATGACAAAAACAAATTTTTAAAA
AAAAAATCTAAACTTTCTCT
Found at i:36291227 original size:27 final size:27
Alignment explanation
Indices: 36291191--36291246 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
36291181 TAGCCACATT
36291191 TTGGTGCCGCCTTTTTATTCCCCTCCA
1 TTGGTGCCGCCTTTTTATTCCCCTCCA
36291218 TTGGTGCCGCCTTTTTATTCCCCTCCA
1 TTGGTGCCGCCTTTTTATTCCCCTCCA
36291245 TT
1 TT
36291247 AGCCTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.07, C:0.36, G:0.14, T:0.43
Consensus pattern (27 bp):
TTGGTGCCGCCTTTTTATTCCCCTCCA
Found at i:36291999 original size:4 final size:4
Alignment explanation
Indices: 36291988--36292133 Score: 60
Period size: 4 Copynumber: 36.0 Consensus size: 4
36291978 TTCCTTCCCT
*
36291988 TTTC -TTC TTTC TTT- TTT- TTCTC TTCTCC TTTCC TTTTC TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TT-TC TT-T-C TTT-C -TTTC TTTC TTTC
*
36292034 -TT- TTTC TTTC TTT- TTTC -TTC TTTCC TTT- TTT- TTGT- TTTC CTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TT-TC TTTC TTTC
* * * *
36292077 ATTCC TTTC TTTC TTTC TTTCCC TTTGT TTTC CTTC ATTCC TTTC TTTC
1 -TTTC TTTC TTTC TTTC TTT--C TTT-C TTTC TTTC -TTTC TTTC TTTC
36292126 TTTC TTTC
1 TTTC TTTC
36292134 CCTCTCCTTC
Statistics
Matches: 114, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
3 24 0.21
4 61 0.54
5 19 0.17
6 10 0.09
ACGTcount: A:0.01, C:0.27, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:36292002 original size:31 final size:35
Alignment explanation
Indices: 36291959--36292044 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 35
36291949 TAAAAAGTAC
*
36291959 CTTTTTTTCTTTTTTTTC-C-T-TCCTTCCCTTTT
1 CTTTCTTTCTTTTTTTTCTCTTCTCCTTCCCTTTT
*
36291991 C-TTCTTTCTTTTTTTTCTCTTCTCCTTTCCTTTT
1 CTTTCTTTCTTTTTTTTCTCTTCTCCTTCCCTTTT
*
36292025 CTTTCCTTCTTTTTCTTTCT
1 CTTTCTTTCTTTTT-TTTCT
36292045 TTTTTCTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
31 15 0.33
32 2 0.04
33 1 0.02
34 12 0.26
35 11 0.24
36 5 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (35 bp):
CTTTCTTTCTTTTTTTTCTCTTCTCCTTCCCTTTT
Found at i:36292004 original size:14 final size:13
Alignment explanation
Indices: 36291960--36292066 Score: 72
Period size: 14 Copynumber: 7.5 Consensus size: 13
36291950 AAAAAGTACC
36291960 TTTTTTTCTTT-T
1 TTTTTTTCTTTCT
* * *
36291972 TTTTCCTTCCTTCCC
1 TTTT--TTTCTTTCT
*
36291987 TTTTCTTCTTTCT
1 TTTTTTTCTTTCT
36292000 TTTTTTTCTCTTCT
1 TTTTTTTCT-TTCT
36292014 CCTTTCCTTTTCTTTCCT
1 --TTT--TTTTCTTT-CT
*
36292032 TCTTTTTCTTTCT
1 TTTTTTTCTTTCT
36292045 TTTTTCTTCTTTCCT
1 TTTTT-TTCTTT-CT
36292060 TTTTTTT
1 TTTTTTT
36292067 GTTTTCCTTC
Statistics
Matches: 74, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
12 4 0.05
13 19 0.26
14 25 0.34
15 11 0.15
16 5 0.07
17 2 0.03
18 8 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTTCTTTCT
Found at i:36292013 original size:18 final size:19
Alignment explanation
Indices: 36291990--36292134 Score: 79
Period size: 19 Copynumber: 7.5 Consensus size: 19
36291980 CCTTCCCTTT
36291990 TCTTCTTT-CTTTTTTTTC
1 TCTTCTTTCCTTTTTTTTC
*
36292008 TCTTCTCCTTTCCTTTTCTTTC
1 TC-T-T-CTTTCCTTTTTTTTC
*
36292030 -CTTCTTTTTCTTTCTTTTT-
1 TCTTC-TTTCCTTT-TTTTTC
*
36292049 TCTTCTTTCCTTTTTTTTG
1 TCTTCTTTCCTTTTTTTTC
* * *
36292068 TTTTCCTTCATTCCTTTCTTTC
1 TCTTCTTTCCTT--TTT-TTTC
*
36292090 T-TTCTTTCCCTTTGTTTTC
1 TCTTCTTT-CCTTTTTTTTC
* *
36292109 -CTTCATTCC-TTTCTTTC
1 TCTTCTTTCCTTTTTTTTC
36292126 T-TTCTTTCC
1 TCTTCTTTCC
36292135 CTCTCCTTCT
Statistics
Matches: 98, Mismatches: 15, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
17 13 0.13
18 10 0.10
19 34 0.35
20 12 0.12
21 13 0.13
22 16 0.16
ACGTcount: A:0.01, C:0.28, G:0.01, T:0.69
Consensus pattern (19 bp):
TCTTCTTTCCTTTTTTTTC
Found at i:36292076 original size:23 final size:22
Alignment explanation
Indices: 36292026--36292098 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 22
36292016 TTTCCTTTTC
36292026 TTTCCTTCTTT--TTCTTTCTTT
1 TTTCCTTCTTTCCTT-TTTCTTT
*
36292047 TTT-CTTCTTTCCTTTTTTTTGT
1 TTTCCTTCTTTCCTTTTTCTT-T
*
36292069 TTTCCTTCATTCCTTTCTTTCTTT
1 TTTCCTTCTTTCC-TT-TTTCTTT
36292093 CTTTCC
1 -TTTCC
36292099 CTTTGTTTTC
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 7 0.17
21 8 0.19
22 6 0.14
23 8 0.19
24 3 0.07
25 10 0.24
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.71
Consensus pattern (22 bp):
TTTCCTTCTTTCCTTTTTCTTT
Found at i:36292104 original size:36 final size:36
Alignment explanation
Indices: 36292064--36292136 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
36292054 TTTCCTTTTT
36292064 TTTGTTTTCCTTCATTCCTTTCTTTCTTTCTTTCCC
1 TTTGTTTTCCTTCATTCCTTTCTTTCTTTCTTTCCC
36292100 TTTGTTTTCCTTCATTCCTTTCTTTCTTTCTTTCCC
1 TTTGTTTTCCTTCATTCCTTTCTTTCTTTCTTTCCC
36292136 T
1 T
36292137 CTCCTTCTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.03, C:0.30, G:0.03, T:0.64
Consensus pattern (36 bp):
TTTGTTTTCCTTCATTCCTTTCTTTCTTTCTTTCCC
Done.