Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 153 of 295
Found at i:52120868 original size:47 final size:48
Alignment explanation
Indices: 52120805--52121029 Score: 391
Period size: 49 Copynumber: 4.7 Consensus size: 48
52120795 ATGATAGTAT
52120805 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
52120852 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
*
52120899 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
52120948 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
52120997 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
52121030 CCCGAAGGGC
Statistics
Matches: 174, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
47 80 0.46
49 90 0.52
50 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
Found at i:52120974 original size:96 final size:95
Alignment explanation
Indices: 52120805--52121029 Score: 389
Period size: 96 Copynumber: 2.3 Consensus size: 95
52120795 ATGATAGTAT
52120805 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
52120870 ATGAATGTGAAAGTG-TATATATGTGATAA
66 ATGAATGTGAAAGTGATATATATGTGATAA
*
52120899 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
*
52120964 TGATGAATGTGAAAGTGTATATATATGTGATAG
64 TGATGAATGTGAAAGTG-ATATATATGTGATAA
52120997 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
52121030 CCCGAAGGGC
Statistics
Matches: 124, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
94 33 0.27
96 46 0.37
98 41 0.33
99 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (95 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGATATATATGTGATAA
Found at i:52121200 original size:35 final size:37
Alignment explanation
Indices: 52121146--52121222 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 37
52121136 CCGAGCTCTA
* *
52121146 AAGACCCGATGACTACGTGTGG-GATTTTGTCC-GGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52121181 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52121218 AAGAC
1 AAGAC
52121223 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 20 0.54
36 9 0.24
37 8 0.22
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52123121 original size:43 final size:43
Alignment explanation
Indices: 52123072--52123174 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
52123062 TTGGTTTTCA
52123072 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
* *
52123115 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
52123158 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
52123175 TTGAAATGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.22, C:0.15, G:0.37, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
Found at i:52123194 original size:29 final size:29
Alignment explanation
Indices: 52123156--52123226 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
52123146 GTTGTGAGAT
* *
52123156 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
52123185 TGGCATTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
52123214 TGGCACTAAGTGT
1 TGGCACTAAGTGT
52123227 ACGTGGTTGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:52123680 original size:35 final size:36
Alignment explanation
Indices: 52123619--52123765 Score: 188
Period size: 39 Copynumber: 3.9 Consensus size: 36
52123609 GAGTTACTAA
52123619 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGT
1 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGT
52123656 ATCCGGGCTAAGT-CGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTG---T
* *
52123694 ATCCGGGCTAAGTCCGAGGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTCCGAAGAGCATTCATGCTA--G-TGT
*
52123733 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTA
1 ATCCGGGCTAAG-TCCGAAGAGCATTCATGCTA
52123766 CTGATATATC
Statistics
Matches: 99, Mismatches: 3, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
35 21 0.21
37 13 0.13
38 14 0.14
39 29 0.29
40 19 0.19
41 1 0.01
42 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (36 bp):
ATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGTGT
Found at i:52123761 original size:40 final size:40
Alignment explanation
Indices: 52123540--52123834 Score: 304
Period size: 40 Copynumber: 7.5 Consensus size: 40
52123530 TCGAATGATG
* *
52123540 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
52123580 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
52123620 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG---TA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
52123657 TCCGGGCTAAGT--CGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
52123695 TCCGGGCTAAGT-CCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
52123734 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTACTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
52123774 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
52123814 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
52123835 TAATCATGCT
Statistics
Matches: 215, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
35 21 0.10
37 13 0.06
38 14 0.07
39 36 0.17
40 113 0.53
41 18 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:52127241 original size:25 final size:25
Alignment explanation
Indices: 52127213--52127291 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
52127203 CTAATGGCCG
52127213 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
52127238 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
52127260 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
52127285 ATGTGAT
1 ATGTGAT
52127292 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:52127263 original size:47 final size:48
Alignment explanation
Indices: 52127200--52127424 Score: 368
Period size: 47 Copynumber: 4.7 Consensus size: 48
52127190 ATGATAGTAT
52127200 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
52127247 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
52127294 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
*
52127342 GGCCCTAATTGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA-AG
1 GG-CCTAA-TGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAA
52127392 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
52127425 CCCGAAGGGC
Statistics
Matches: 171, Mismatches: 1, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
47 80 0.47
48 24 0.14
49 26 0.15
50 41 0.24
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
Found at i:52127594 original size:35 final size:37
Alignment explanation
Indices: 52127540--52127616 Score: 113
Period size: 35 Copynumber: 2.1 Consensus size: 37
52127530 CCGAGCTCTA
* *
52127540 AAGACCCGATGACTACGTGTGG-G-TTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
52127575 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
52127612 AAGAC
1 AAGAC
52127617 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 20 0.54
36 1 0.03
37 16 0.43
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:52132188 original size:22 final size:22
Alignment explanation
Indices: 52132163--52132206 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
52132153 AACAGGGTCA
52132163 CACGCCCATGTGGACCACAAGG
1 CACGCCCATGTGGACCACAAGG
*
52132185 CACGCCCGTGTGGACCACAAGG
1 CACGCCCATGTGGACCACAAGG
52132207 GCACACCCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.30, T:0.09
Consensus pattern (22 bp):
CACGCCCATGTGGACCACAAGG
Found at i:52132215 original size:23 final size:22
Alignment explanation
Indices: 52132171--52132219 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
52132161 CACACGCCCA
*
52132171 TGTGGACCACAAGGCACGCCCG
1 TGTGGACCACAAGGCACACCCG
52132193 TGTGGACCACAAGGGCACACCCG
1 TGTGGACCACAA-GGCACACCCG
52132216 TGTG
1 TGTG
52132220 TCATCAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.22, C:0.33, G:0.33, T:0.12
Consensus pattern (22 bp):
TGTGGACCACAAGGCACACCCG
Found at i:52144282 original size:30 final size:28
Alignment explanation
Indices: 52144248--52144340 Score: 109
Period size: 30 Copynumber: 3.2 Consensus size: 28
52144238 GGAGGAACTG
52144248 TCTGGTGGCTATGCACACAAAATATCTGTT
1 TCTGGTGGC-ATGC-CACAAAATATCTGTT
* *
52144278 TCTGGTGGCCTGCCAC-ATATATCTG-T
1 TCTGGTGGCATGCCACAAAATATCTGTT
*
52144304 TCTGGTGGCACTGCCACATAAATATCTGTA
1 TCTGGTGGCA-TGCCACA-AAATATCTGTT
52144334 TCTGGTG
1 TCTGGTG
52144341 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.19
27 14 0.26
28 3 0.06
29 11 0.20
30 16 0.30
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
TCTGGTGGCATGCCACAAAATATCTGTT
Found at i:52144304 original size:27 final size:29
Alignment explanation
Indices: 52144248--52144340 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 29
52144238 GGAGGAACTG
*
52144248 TCTGGTGGCTA-TGCACACAAAATATCTGTT
1 TCTGGTGGC-ACTGC-CACATAATATCTGTT
52144278 TCTGGTGGC-CTGCCACAT-ATATCTG-T
1 TCTGGTGGCACTGCCACATAATATCTGTT
*
52144304 TCTGGTGGCACTGCCACATAAATATCTGTA
1 TCTGGTGGCACTGCCACAT-AATATCTGTT
52144334 TCTGGTG
1 TCTGGTG
52144341 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
26 10 0.18
27 16 0.29
28 4 0.07
29 10 0.18
30 16 0.29
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (29 bp):
TCTGGTGGCACTGCCACATAATATCTGTT
Found at i:52144359 original size:56 final size:57
Alignment explanation
Indices: 52144248--52144365 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 57
52144238 GGAGGAACTG
* *
52144248 TCTGGTGGCTATGCACACAAAATATCTGTTTCTGGTGGCCTGCCACATATATCTGT-
1 TCTGGTGGCTATGCACACAAAATATCTGTATCTGGTGACCTGCCACATATATCTGTA
* *
52144304 TCTGGTGGC-ACTGC-CACATAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTA
1 TCTGGTGGCTA-TGCACACA-AAATATCTGTATCTGGTGAC-CTGCCACATATATCTGTA
52144361 TCTGG
1 TCTGG
52144366 AAGCCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
55 5 0.09
56 36 0.67
57 13 0.24
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (57 bp):
TCTGGTGGCTATGCACACAAAATATCTGTATCTGGTGACCTGCCACATATATCTGTA
Found at i:52144421 original size:1 final size:1
Alignment explanation
Indices: 52144406--52144459 Score: 90
Period size: 1 Copynumber: 54.0 Consensus size: 1
52144396 CGTTACTTGG
* *
52144406 TTTTTTGTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
52144460 GTGTGGGTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.04, T:0.96
Consensus pattern (1 bp):
T
Found at i:52146368 original size:39 final size:40
Alignment explanation
Indices: 52146291--52146397 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
52146281 TAGCTCCTCG
* * *
52146291 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
52146331 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
52146370 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
52146398 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:52146438 original size:41 final size:39
Alignment explanation
Indices: 52146337--52146517 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
52146327 CTCATTCAAT
* * * *
52146337 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTATAACTCGCACAAAG
*
52146377 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTA-TAACTCGCACAAAG
* *
52146417 GCCTTCGCGGACTTAACCCGGAATAATAACTCGCACAAAT
1 GCCTTCG-GGACTTAACCCGGAATTATAACTCGCACAAAG
* ** * *
52146457 ACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAACCCGGAAT-TA-TAAC-TCGCACAAAG
*
52146497 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
52146518 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
38 5 0.04
39 12 0.10
40 72 0.62
41 28 0.24
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (39 bp):
GCCTTCGGGACTTAACCCGGAATTATAACTCGCACAAAG
Found at i:52146477 original size:80 final size:79
Alignment explanation
Indices: 52146337--52146517 Score: 201
Period size: 80 Copynumber: 2.3 Consensus size: 79
52146327 CTCATTCAAT
* * *
52146337 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-ATT
1 GCCTTCGGGACTTAACCCGGA-TATAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATA-T
*
52146401 AGT-A-TCTCGCACAAA
64 AGTCACT-TAGCACAAA
**
52146416 GGCCTTCGCGGACTTAACCCGGA-ATAATAACTCGCACAAATACCTTC-GGATCTTAGTCCGGAT
1 -GCCTTCG-GGACTTAACCCGGATATAA-AACTCGCACAAATACCTTCGGGA-CTTAACCCGGAT
52146479 ATAGTCACTTAGCACAAA
62 ATAGTCACTTAGCACAAA
*
52146497 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
52146518 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 13
0.81 0.06 0.12
Matches are distributed among these distances:
79 19 0.22
80 44 0.50
81 24 0.27
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
GCCTTCGGGACTTAACCCGGATATAAAACTCGCACAAATACCTTCGGGACTTAACCCGGATATAG
TCACTTAGCACAAA
Found at i:52173444 original size:27 final size:27
Alignment explanation
Indices: 52173367--52173478 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
52173357 AGCATGGCTG
* *
52173367 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* * *
52173393 CCAGATATAGATAATCGTGGCAGAGCTA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
52173421 CCATAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
52173448 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
52173475 CCAG
1 CCAG
52173479 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 8 0.11
27 46 0.66
28 16 0.23
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:52173467 original size:54 final size:54
Alignment explanation
Indices: 52173371--52173477 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
52173361 TGGCTGCCAG
* * * *
52173371 AACAGATAATGTGACAGAGTCACCAGATATAGATAATCGTGGCAGAGCTACCAT
1 AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAT
* * *
52173425 AACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCA
1 AACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
52173478 GGACGCTTCC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
54 27 0.60
55 18 0.40
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (54 bp):
AACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAT
Found at i:52179078 original size:24 final size:23
Alignment explanation
Indices: 52178978--52179078 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 23
52178968 CCCTATAATT
* * *
52178978 GGAAGCTCAAATAGAGCCATTTCA
1 GGAAGCTCATA-AGAGCCATATCG
*
52179002 GGAAGCTCATAAAGAGCC-TATCT
1 GGAAGCTCAT-AAGAGCCATATCG
* ** * *
52179025 GGAAGCTTATCCGCGCTATATAACG
1 GGAAGCTCATAAGAGCCATAT--CG
52179050 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCAT-ATCG
52179074 GGAAG
1 GGAAG
52179079 TTTACAAAGA
Statistics
Matches: 58, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
22 3 0.05
23 15 0.26
24 22 0.38
25 16 0.28
26 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.20
Consensus pattern (23 bp):
GGAAGCTCATAAGAGCCATATCG
Found at i:52179126 original size:24 final size:24
Alignment explanation
Indices: 52179075--52179126 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
52179065 CCATAATCGG
* * *
52179075 GAAGTTTACAAAGAACCATAAGAG
1 GAAGTTCACAAAGAACCATAACAA
* *
52179099 GAAGTTCACAAATAACCATATCAA
1 GAAGTTCACAAAGAACCATAACAA
52179123 GAAG
1 GAAG
52179127 CTCCAGACAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (24 bp):
GAAGTTCACAAAGAACCATAACAA
Found at i:52179150 original size:24 final size:23
Alignment explanation
Indices: 52179123--52179177 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
52179113 ACCATATCAA
*
52179123 GAAGCTCCAGACAGCCAATATCGG
1 GAAGCTCAAGACA-CCAATATCGG
* * * *
52179147 GAAGTTCAAGAGATCATTATCGG
1 GAAGCTCAAGACACCAATATCGG
52179170 GAAGCTCA
1 GAAGCTCA
52179178 CAAAGAGCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (23 bp):
GAAGCTCAAGACACCAATATCGG
Found at i:52182376 original size:19 final size:20
Alignment explanation
Indices: 52182352--52182398 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
52182342 ATTGTTTAGA
52182352 TATTGTATAA-ATTTTATT-T
1 TATTGT-TAATATTTTATTAT
*
52182371 TATTGTTAATTTTTTATTAT
1 TATTGTTAATATTTTATTAT
52182391 TATT-TTAA
1 TATTGTTAA
52182399 ACACATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TATTGTTAATATTTTATTAT
Found at i:52182591 original size:12 final size:12
Alignment explanation
Indices: 52182561--52182593 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
52182551 TATATATTTT
52182561 AAAATT-ATATA
1 AAAATTAATATA
52182572 AAAA-TAATATA
1 AAAATTAATATA
52182583 AAAATTAATAT
1 AAAATTAATAT
52182594 TGGCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:52193447 original size:17 final size:17
Alignment explanation
Indices: 52193425--52193458 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52193415 CCATTTTTGC
52193425 CACCCAAATCATCATAT
1 CACCCAAATCATCATAT
52193442 CACCCAAATCATCATAT
1 CACCCAAATCATCATAT
52193459 ATCTACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (17 bp):
CACCCAAATCATCATAT
Found at i:52193616 original size:10 final size:10
Alignment explanation
Indices: 52193583--52193623 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
52193573 CATAATATAC
52193583 CATTTCTAAA
1 CATTTCTAAA
* *
52193593 CA--TGTAAG
1 CATTTCTAAA
52193601 CATTTCTAAA
1 CATTTCTAAA
52193611 CATTTCTAAA
1 CATTTCTAAA
52193621 CAT
1 CAT
52193624 GTAAGCATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.24
10 19 0.76
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.37
Consensus pattern (10 bp):
CATTTCTAAA
Found at i:52211477 original size:40 final size:40
Alignment explanation
Indices: 52211428--52211635 Score: 226
Period size: 40 Copynumber: 5.2 Consensus size: 40
52211418 CAGAATTTAA
* *
52211428 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52211468 CCGGTTATAGTAACTCGCGCAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
52211508 CCGGATTTAGTAACTCGCTCCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
52211547 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GAATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
52211587 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACATAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
52211628 CCGGATAT
1 CCGGATAT
52211636 CATTCGAATA
Statistics
Matches: 141, Mismatches: 20, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.23
40 79 0.56
41 27 0.19
42 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:52211560 original size:79 final size:79
Alignment explanation
Indices: 52211424--52211635 Score: 236
Period size: 79 Copynumber: 2.7 Consensus size: 79
52211414 CCTTCAGAAT
* *
52211424 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCGCA
1 TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
52211489 AATGCCTTCGGGAC
66 AATGCCTTCGGGAC
* * *
52211503 TTAACCCGGATTTAG-TAACTCGCTCCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGC
1 TTAA-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGC
*
52211565 ACAAATGCCTTC-GAATC
63 ACAAATGCCTTCGGGA-C
* * * *
52211582 TTAGTCCGGATATAG-TCACTTAGCACAAAAGCCTTCGGGACATAGCCCGGATAT
1 TTA-ACCGGATATAGCT-AC-TCGCTCAAATGCCTTCGGGACATAGCCCGGATAT
52211636 CATTCGAATA
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
78 3 0.03
79 52 0.47
80 44 0.40
81 11 0.10
82 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
TTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:52218000 original size:15 final size:15
Alignment explanation
Indices: 52217960--52217997 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
52217950 TGATTTTTGG
52217960 ATTAAATTGAATAGA
1 ATTAAATTGAATAGA
*
52217975 ATGAAAGTTGAAT-GA
1 ATTAAA-TTGAATAGA
52217990 ATTAAATT
1 ATTAAATT
52217998 TGATTATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 12 0.60
16 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (15 bp):
ATTAAATTGAATAGA
Found at i:52226081 original size:35 final size:35
Alignment explanation
Indices: 52226042--52226236 Score: 248
Period size: 35 Copynumber: 5.5 Consensus size: 35
52226032 TATATGAACC
52226042 TTGTATAATT-GGCCATATGTGATGATATATTGAAT
1 TTGTAT-ATTCGGCCATATGTGATGATATATTGAAT
*
52226077 TTGTATATTCGGCCATGTGTGATGATATATTGAAT
1 TTGTATATTCGGCCATATGTGATGATATATTGAAT
*
52226112 TTGTATATTCGGCTATATGTGATGATATATTGAAT
1 TTGTATATTCGGCCATATGTGATGATATATTGAAT
** * *
52226147 TTGTATATTCGGTTATATGTGAGGATATTTTGAATT
1 TTGTATATTCGGCCATATGTGATGATATATTGAA-T
* * *
52226183 TTGTATAATCAGCCATATGTGATGATATAATGAACT
1 TTGTATATTCGGCCATATGTGATGATATATTGAA-T
* * *
52226219 TGGTATATCCGGTCATAT
1 TTGTATATTCGGCCATAT
52226237 AGGTAAGTAT
Statistics
Matches: 139, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
34 3 0.02
35 94 0.68
36 42 0.30
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (35 bp):
TTGTATATTCGGCCATATGTGATGATATATTGAAT
Found at i:52229484 original size:28 final size:28
Alignment explanation
Indices: 52229419--52229569 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
52229409 GAGATTGGCG
* * * *
52229419 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
52229448 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
52229476 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
52229504 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
52229532 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
52229559 CTGAGTGTGCG
1 CTAAGTGTGCG
52229570 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:52238211 original size:17 final size:17
Alignment explanation
Indices: 52238189--52238227 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
52238179 CGAATTGGGT
*
52238189 CATGTAGTACCCACGGG
1 CATGTAGGACCCACGGG
* *
52238206 CATGTAGGCCCCATGGG
1 CATGTAGGACCCACGGG
52238223 CATGT
1 CATGT
52238228 GGGCCTCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (17 bp):
CATGTAGGACCCACGGG
Found at i:52238232 original size:17 final size:17
Alignment explanation
Indices: 52238198--52238232 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
52238188 TCATGTAGTA
52238198 CCCACGGGCATGTAGGC
1 CCCACGGGCATGTAGGC
* *
52238215 CCCATGGGCATGTGGGC
1 CCCACGGGCATGTAGGC
52238232 C
1 C
52238233 TCACACGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.34, G:0.37, T:0.14
Consensus pattern (17 bp):
CCCACGGGCATGTAGGC
Found at i:52243422 original size:3 final size:3
Alignment explanation
Indices: 52243414--52243465 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
52243404 GTTTTTCTTC
* *
52243414 AAT AAT AAT CAAT AAT AAT AAT AAT AAT AAT AAT GAT GAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
52243460 AAT AAT
1 AAT AAT
52243466 GAAGGTCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:52246740 original size:6 final size:6
Alignment explanation
Indices: 52246729--52246786 Score: 61
Period size: 6 Copynumber: 10.3 Consensus size: 6
52246719 TTATCCTTTC
* *
52246729 TTTCAT TTTCAT TTTCAT TTTCA- -ATCGT TTTCAT TTTCAT TTTCA-
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
*
52246774 -ATCAT TTTCAT TT
1 TTTCAT TTTCAT TT
52246787 GATTTGCTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 5 0.12
6 37 0.88
ACGTcount: A:0.19, C:0.17, G:0.02, T:0.62
Consensus pattern (6 bp):
TTTCAT
Found at i:52246759 original size:22 final size:22
Alignment explanation
Indices: 52246731--52246786 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
52246721 ATCCTTTCTT
52246731 TCATTTTCATTTTCATTTTCAA
1 TCATTTTCATTTTCATTTTCAA
*
52246753 TCGTTTTCATTTTCATTTTCAA
1 TCATTTTCATTTTCATTTTCAA
52246775 TCATTTTCATTT
1 TCATTTTCATTT
52246787 GATTTGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.20, C:0.18, G:0.02, T:0.61
Consensus pattern (22 bp):
TCATTTTCATTTTCATTTTCAA
Found at i:52248798 original size:28 final size:28
Alignment explanation
Indices: 52248757--52248867 Score: 143
Period size: 28 Copynumber: 3.9 Consensus size: 28
52248747 CATACATGCT
* * *
52248757 TATGGCCCACTAGGCTCAATCTCATTCA
1 TATGGCCCATTAGGCCCAATCACATTCA
* *
52248785 TATGGCCAATTAGGCCCAATCACATTTA
1 TATGGCCCATTAGGCCCAATCACATTCA
*
52248813 TGTGGCCCATTAGGCCCAATTCACATTCA
1 TATGGCCCATTAGGCCCAA-TCACATTCA
52248842 TATGG-CCATTAGGCCCAAATCACATT
1 TATGGCCCATTAGGCCC-AATCACATT
52248868 TACGGTCATG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
28 58 0.81
29 14 0.19
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TATGGCCCATTAGGCCCAATCACATTCA
Found at i:52248819 original size:56 final size:57
Alignment explanation
Indices: 52248759--52248869 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
52248749 TACATGCTTA
* *
52248759 TGGCCCACTAGGCTCAA-TCTCATTCATATGGCCAATTAGGCCC-AATCACATTTATG
1 TGGCCCACTAGGCCCAATTCACATTCATATGGCC-ATTAGGCCCAAATCACATTTATG
*
52248815 TGGCCCATTAGGCCCAATTCACATTCATATGGCCATTAGGCCCAAATCACATTTA
1 TGGCCCACTAGGCCCAATTCACATTCATATGGCCATTAGGCCCAAATCACATTTA
52248870 CGGTCATGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
56 24 0.48
57 26 0.52
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (57 bp):
TGGCCCACTAGGCCCAATTCACATTCATATGGCCATTAGGCCCAAATCACATTTATG
Found at i:52260057 original size:42 final size:43
Alignment explanation
Indices: 52260008--52260113 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 43
52259998 TATGTGTTAT
* * * *
52260008 CATGTAAGACCACGTCTGGGACATTGGTATC-GTACTTGATTT
1 CATGTAAGACCACGTCTGGGACAGTGGCATCAATACTTGATTA
* * *
52260050 CGTGTAAGACC-CTGTCTAGGACAGTGGCATCAATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATCAATACTTGATTA
*
52260093 CATGTAAGACCACGTTTGGGA
1 CATGTAAGACCACGTCTGGGA
52260114 TGTTGGCATT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.02
42 25 0.49
43 24 0.47
44 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATCAATACTTGATTA
Found at i:52260344 original size:29 final size:29
Alignment explanation
Indices: 52260293--52260348 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
52260283 ACAAGTGATG
*
52260293 ATATGTGACAAATGTATTAGAAAATATGCA
1 ATATGTGACAAATGAATTAG-AAATATGCA
*
52260323 ATATGTG-CAAATGAATTGGAAATATG
1 ATATGTGACAAATGAATTAGAAATATG
52260349 TGATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 10 0.42
30 7 0.29
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (29 bp):
ATATGTGACAAATGAATTAGAAATATGCA
Found at i:52260354 original size:28 final size:30
Alignment explanation
Indices: 52260291--52260354 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
52260281 GAACAAGTGA
*
52260291 TGATATGTGACAAATGTATTAGAAAATATG
1 TGATATGTGACAAATGAATTAGAAAATATG
** *
52260321 CAATATGTG-CAAATGAATT-GGAAATATG
1 TGATATGTGACAAATGAATTAGAAAATATG
52260349 TGATAT
1 TGATAT
52260355 ATATATATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 12 0.43
29 9 0.32
30 7 0.25
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (30 bp):
TGATATGTGACAAATGAATTAGAAAATATG
Found at i:52264079 original size:19 final size:19
Alignment explanation
Indices: 52264044--52264081 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
52264034 CGTGTGGGTC
*
52264044 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTAGGCCCA
52264063 CACG-GCCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
52264082 ACGTGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.21, C:0.45, G:0.24, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:52267479 original size:16 final size:15
Alignment explanation
Indices: 52267458--52267487 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52267448 GAATGAAGTA
52267458 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
52267474 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
52267488 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:52270596 original size:15 final size:15
Alignment explanation
Indices: 52270564--52270598 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52270554 ATGATATTGC
* *
52270564 ATCTTGGATTTGTTT
1 ATCTTGGATTTCTGT
52270579 ATCTTGGATTTCTGT
1 ATCTTGGATTTCTGT
52270594 ATCTT
1 ATCTT
52270599 AGACTTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.17, T:0.57
Consensus pattern (15 bp):
ATCTTGGATTTCTGT
Found at i:52272658 original size:80 final size:80
Alignment explanation
Indices: 52272525--52272685 Score: 286
Period size: 80 Copynumber: 2.0 Consensus size: 80
52272515 CATGGAGAAG
* *
52272525 ACATGGCTAGGGTTTTTCAAGTTTCCAAGCTCGATTGTAAGTCCGTTCGAGCCCCGTTTTTAATG
1 ACATGGCTAGGGTTTTTCAAGCTGCCAAGCTCGATTGTAAGTCCGTTCGAGCCCCGTTTTTAATG
52272590 ATTTTTATGTTTTTA
66 ATTTTTATGTTTTTA
* *
52272605 ACATGGCTAGGGTTTTTCAAGCTGCTAAGCTCGATTGTAAGTCCGTTCTAGCCCCGTTTTTAATG
1 ACATGGCTAGGGTTTTTCAAGCTGCCAAGCTCGATTGTAAGTCCGTTCGAGCCCCGTTTTTAATG
52272670 ATTTTTATGTTTTTA
66 ATTTTTATGTTTTTA
52272685 A
1 A
52272686 AATCCTCGTA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (80 bp):
ACATGGCTAGGGTTTTTCAAGCTGCCAAGCTCGATTGTAAGTCCGTTCGAGCCCCGTTTTTAATG
ATTTTTATGTTTTTA
Found at i:52274297 original size:24 final size:24
Alignment explanation
Indices: 52274265--52274325 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
52274255 AAAATCCAAT
* * *
52274265 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
52274289 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
52274313 GCACTATGTGTGC
1 GCACTATGTGTGC
52274326 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:52276594 original size:12 final size:14
Alignment explanation
Indices: 52276579--52276610 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
52276569 GTGAGAACAC
52276579 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
52276591 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
52276605 ATGTGT
1 ATGTGT
52276611 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:52276758 original size:101 final size:101
Alignment explanation
Indices: 52276627--52276808 Score: 294
Period size: 101 Copynumber: 1.8 Consensus size: 101
52276617 TGGTTGTAGG
*
52276627 TCACGTGTGTAGTACTAAGTGCAGTGTACTACATGTACCAGATAGTTAGGTCCCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGTGTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
*
52276692 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
66 TAAGTGCAAGCTACTATGCGTACCCGACAACTTCGA
* * *
52276728 TCACGTGTGTAGTACTAAGTGCAG-GCTACTACGTGTATCAGATGGTTAGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGTG-TACTACATGTACCAGATAGTTAGGTCACATGTGTAGTA
*
52276792 CTAAGTTCAAGCTACTA
65 CTAAGTGCAAGCTACTA
52276809 CATGTGCCGG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
100 1 0.01
101 73 0.99
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGTGTACTACATGTACCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCGACAACTTCGA
Found at i:52276855 original size:49 final size:50
Alignment explanation
Indices: 52276576--52276857 Score: 244
Period size: 50 Copynumber: 5.6 Consensus size: 50
52276566 ATTGTGAGAA
* * ** ***
52276576 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTGTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGG-T-TAGGT
* *
52276628 CACGTGTGTAGTACTAAGTGCAGTG-TACTACATGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAG-GCTACTACATGTACCAGATGGTTAGGT
* *** * *** * *
52276678 CCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGA-TGGTTAGGT
* * *
52276729 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
* * * * *
52276779 CACATGTGTAGTACTAAGTTCAAGCTACTACATGTGCCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
* * *
52276828 CGCATGTGTAGAACTATGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
52276858 TCGTACCAGA
Statistics
Matches: 184, Mismatches: 43, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
49 29 0.16
50 80 0.43
51 41 0.22
52 33 0.18
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
Found at i:52279591 original size:50 final size:50
Alignment explanation
Indices: 52279486--52279715 Score: 241
Period size: 50 Copynumber: 4.6 Consensus size: 50
52279476 CTGATATGCA
* * * * *
52279486 TAGTAGCTTGCACTTAGTACTACACATGCGACC-AACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
52279535 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * * * * * * *
52279585 TAGTAGCCGGCACTTACTACTACACACGTGATCGAAGTCAT-TAAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGA-TACACG
* * * * *
52279636 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACG
52279686 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
52279716 TACTCACAAT
Statistics
Matches: 148, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
49 32 0.22
50 79 0.53
51 37 0.25
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:52283272 original size:15 final size:14
Alignment explanation
Indices: 52283252--52283296 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
52283242 TATGATATTG
52283252 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
52283266 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
52283281 TAATCTTGGTTTTCT
1 T-ATCTTGGATTTCT
52283296 T
1 T
52283297 GTTATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 1 0.04
15 25 0.96
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:52286084 original size:50 final size:50
Alignment explanation
Indices: 52285965--52286248 Score: 236
Period size: 50 Copynumber: 5.6 Consensus size: 50
52285955 ATTGTGAGAA
* * ** *
52285965 CACATGTGTAGTACTATGTGCAGGCTACTATGT-TTTTAAGATGGTTGTAGGT
1 CACATGTGTAGTACTAAGTGCAGACTACTATGTGTACT-AGATAG-T-TAGGT
* *
52286017 CACGTGTTTAGTACTAAGTGCAGACTACTATGTGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGACTACTATGTGTACTAGATAGTTAGGT
* * * ** * * * *
52286067 CCCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGACTACTATGTGTACTAGA-TAGTTAGGT
* * *
52286118 CACGTGTGTAGTACTAAGTGCA-AGCTACTACGTGTA-TCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGA-CTACTATGTGTACT-AGATAGTTAGGT
* * * *
52286168 CACGTGTGTAGTACTAAGTGCA-AGCTACTACGTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGA-CTACTATGTGTACTAGATAGTTAGGT
* * *
52286217 CGCATGTATAGTACTAAGTGCAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGACTACTATG
52286249 CATACCAGAT
Statistics
Matches: 189, Mismatches: 37, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
49 29 0.15
50 86 0.46
51 38 0.20
52 34 0.18
53 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGACTACTATGTGTACTAGATAGTTAGGT
Found at i:52286151 original size:28 final size:28
Alignment explanation
Indices: 52286119--52286202 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
52286109 AACTTCGATC
52286119 ACGTGTGTAGTACTAAGTGCAAGCTACT
1 ACGTGTGTAGTACTAAGTGCAAGCTACT
* ** *
52286147 ACGTGTATCAG-A-T--G-GTTAGGT-C-
1 ACGTGTGT-AGTACTAAGTGCAAGCTACT
52286169 ACGTGTGTAGTACTAAGTGCAAGCTACT
1 ACGTGTGTAGTACTAAGTGCAAGCTACT
52286197 ACGTGT
1 ACGTGT
52286203 ACCAGATTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.20
23 2 0.05
24 4 0.10
25 2 0.05
26 4 0.10
27 2 0.05
28 14 0.35
29 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAAGCTACT
Found at i:52286153 original size:101 final size:101
Alignment explanation
Indices: 52286016--52286197 Score: 278
Period size: 101 Copynumber: 1.8 Consensus size: 101
52286006 TGGTTGTAGG
* * *
52286016 TCACGTGTTTAGTACTAAGTGCAGACTACTATGTGTA-CTAGATAGTTAGGTCCCATGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATC-AGATAGTTAGGTCACATGTGTAGTA
*
52286080 CTAAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
65 CTAAGTGCAAGCTACTATGCGTACCCGACAACTTCGA
* *
52286117 TCACGTGTGTAGTACTAAGTGCA-AGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAGA-CTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTA
52286181 CTAAGTGCAAGCTACTA
65 CTAAGTGCAAGCTACTA
52286198 CGTGTACCAG
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 1 0.01
101 71 0.97
102 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATCAGATAGTTAGGTCACATGTGTAGTAC
TAAGTGCAAGCTACTATGCGTACCCGACAACTTCGA
Found at i:52292558 original size:43 final size:43
Alignment explanation
Indices: 52292401--52292559 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 43
52292391 ATATGGTTAT
** *
52292401 CGTGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGA-TTA
* * *
52292445 CGTGTAAGACCATGTCTGGGATGTTGGCATCG-TACTTGATTT
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTA
* *
52292487 CGTGTAAGACTCTA--TTTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGAC-C-ACGTCTGGGA-TGTTGGCATCGATATTTGATTA
*
52292530 CATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGATGTTGGCAT
52292560 TGTACAAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 34 0.36
44 30 0.32
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTA
Found at i:52292781 original size:29 final size:29
Alignment explanation
Indices: 52292730--52292785 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
52292720 ACAAGTGATG
*
52292730 ATATGTGACAAATGTATGAGAAAATATGCA
1 ATATGTGACAAATGAATGAG-AAATATGCA
52292760 ATATGTG-CAAATGAATTG-GAAATATG
1 ATATGTGACAAATGAA-TGAGAAATATG
52292786 TGATATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 7 0.29
29 8 0.33
30 9 0.38
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (29 bp):
ATATGTGACAAATGAATGAGAAATATGCA
Found at i:52292791 original size:28 final size:30
Alignment explanation
Indices: 52292728--52292791 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
52292718 GAACAAGTGA
*
52292728 TGATATGTGACAAATGTATGAGAAAATATG
1 TGATATGTGACAAATGAATGAGAAAATATG
**
52292758 CAATATGTG-CAAATGAATTG-G-AAATATG
1 TGATATGTGACAAATGAA-TGAGAAAATATG
52292786 TGATAT
1 TGATAT
52292792 ATATATGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 11 0.39
29 8 0.29
30 9 0.32
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (30 bp):
TGATATGTGACAAATGAATGAGAAAATATG
Found at i:52295574 original size:20 final size:20
Alignment explanation
Indices: 52295549--52295586 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52295539 GACTAAACTG
*
52295549 AAAACTCAGGAAATTTTTAC
1 AAAACTCAGAAAATTTTTAC
*
52295569 AAAACTTAGAAAATTTTT
1 AAAACTCAGAAAATTTTT
52295587 GCTATAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (20 bp):
AAAACTCAGAAAATTTTTAC
Found at i:52309938 original size:42 final size:42
Alignment explanation
Indices: 52309847--52309938 Score: 98
Period size: 42 Copynumber: 2.1 Consensus size: 42
52309837 CCTAGGACGT
*
52309847 TGGCATCGATTTGAGATTTACCTGTAAGACCATGTCTGGGACA
1 TGGCATCGATTT-AGATTTACATGTAAGACCATGTCTGGGACA
* * *
52309890 TCGGCATCGTATTT-GATTT-CATGTAAGATCTTGTTTGGGACA
1 T-GGCATCG-ATTTAGATTTACATGTAAGACCATGTCTGGGACA
52309932 GTGGCAT
1 -TGGCAT
52309939 TGTAAGAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
42 24 0.57
43 7 0.17
44 7 0.17
45 4 0.10
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (42 bp):
TGGCATCGATTTAGATTTACATGTAAGACCATGTCTGGGACA
Found at i:52321060 original size:49 final size:49
Alignment explanation
Indices: 52320987--52321173 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
52320977 GCCAAAGCTA
* *
52320987 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
* * *
52321036 ACTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAG
** * * * *
52321086 TCTAATACACGTAGTGGCCTGCACTTAGTACTATACACGTGATC-ACAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
* *
52321134 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 --TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACA
52321174 TGCGACCTCA
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 38 0.34
50 40 0.35
51 32 0.28
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG
Found at i:52323245 original size:15 final size:15
Alignment explanation
Indices: 52323189--52323253 Score: 73
Period size: 15 Copynumber: 4.4 Consensus size: 15
52323179 TAAAGATAAC
*
52323189 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52323203 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
52323218 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
52323233 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
52323248 AAGAAA
1 AAGAAA
52323254 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
14 11 0.26
15 29 0.67
16 3 0.07
ACGTcount: A:0.63, C:0.14, G:0.14, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52323255 original size:30 final size:31
Alignment explanation
Indices: 52323189--52323257 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 31
52323179 TAAAGATAAC
*
52323189 AAGAAAACC-GAATAAAGAAATCCAAGATAG
1 AAGAAACCCAGAATAAAGAAATCCAAGATAG
52323219 AA-AAACCCAGAATAAAGAAATCC-AGAATA-
1 AAGAAACCCAGAATAAAGAAATCCAAG-ATAG
52323248 AAGAAACCCA
1 AAGAAACCCA
52323258 AGATACGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 9 0.26
30 26 0.74
ACGTcount: A:0.61, C:0.17, G:0.13, T:0.09
Consensus pattern (31 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATAG
Found at i:52330430 original size:8 final size:8
Alignment explanation
Indices: 52330417--52330446 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
52330407 AGTCCCTGTT
52330417 TCACAAAA
1 TCACAAAA
52330425 TCACAAAA
1 TCACAAAA
52330433 TCACAAAA
1 TCACAAAA
52330441 TACACA
1 T-CACA
52330447 TAATTTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:52331619 original size:18 final size:18
Alignment explanation
Indices: 52331596--52331640 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
52331586 AGCCCAACTC
52331596 GCTCGATGATTTCATACG
1 GCTCGATGATTTCATACG
*
52331614 GCTCGATGATTTCATACT
1 GCTCGATGATTTCATACG
*
52331632 GCCCGATGA
1 GCTCGATGA
52331641 ACCTCGGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.31
Consensus pattern (18 bp):
GCTCGATGATTTCATACG
Found at i:52337665 original size:8 final size:8
Alignment explanation
Indices: 52337652--52337681 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
52337642 AGTCCCTACT
52337652 TCACAAAA
1 TCACAAAA
52337660 TCACAAAA
1 TCACAAAA
52337668 TCACAAAA
1 TCACAAAA
52337676 TACACA
1 T-CACA
52337682 TAATTTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:52338918 original size:48 final size:48
Alignment explanation
Indices: 52338826--52339097 Score: 269
Period size: 48 Copynumber: 5.7 Consensus size: 48
52338816 TCGACACCAG
* * *
52338826 GTCCCAGACATGGTCTTACACTAGCT-TACATGTCGAGGGCGATGCCAT
1 GTCCCAAACATGGTCTTACACTAGCTCT-CATATCGAGGTCGATGCCAT
* * ** * *
52338874 GTCCCAGACATGGTCTTACACTACCTCTCATATAAATGTTGATGCCAT
1 GTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGTCGATGCCAT
* * * *
52338922 GTTCCAAACATGATCTTACACTGGCTCACATATCGAGGTCGATGCCAT
1 GTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGTCGATGCCAT
* * ** * * **
52338970 GTCCTAGACATGGTCTTACACTAGCTCTCATATATATGTCAATGTGAT
1 GTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGTCGATGCCAT
* *
52339018 GTTCCAAACATGGTCTTACACTAGCTCACATATCGAGG-CTGATGCCAT
1 GTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGTC-GATGCCAT
* * * *
52339066 GTTCCAAACATGGCCTTACACTGGCTCACATA
1 GTCCCAAACATGGTCTTACACTAGCTCTCATA
52339098 ACCCTAGTAT
Statistics
Matches: 181, Mismatches: 41, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
47 1 0.01
48 179 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
GTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGTCGATGCCAT
Found at i:52338998 original size:96 final size:94
Alignment explanation
Indices: 52338833--52339097 Score: 350
Period size: 96 Copynumber: 2.8 Consensus size: 94
52338823 CAGGTCCCAG
* * *
52338833 ACATGGTCTTACACTAGCTTACATGTCGAGGGCGATGCCATGTCCCAGACATGGTCTTACACTAC
1 ACATGGTCTTACACTAGCTCACATATCGA-GGCGATGCCATGT-CCAGACATGGTCTTACACTAG
**
52338898 CTCTCATATAAATGTTGATGCCATGTTCCAA
64 CTCTCATATAAATGTCAATGCCATGTTCCAA
* *
52338929 ACATGATCTTACACTGGCTCACATATCGAGGTCGATGCCATGTCCTAGACATGGTCTTACACTAG
1 ACATGGTCTTACACTAGCTCACATATCGAGG-CGATGCCATGTCC-AGACATGGTCTTACACTAG
* **
52338994 CTCTCATATATATGTCAATGTGATGTTCCAA
64 CTCTCATATAAATGTCAATGCCATGTTCCAA
* * *
52339025 ACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTTCCAAACATGGCCTTACACTGG
1 ACATGGTCTTACACTAGCTCACATATCGAGGC-GATGCCATG-TCCAGACATGGTCTTACACTAG
*
52339090 CTCACATA
64 CTCTCATA
52339098 ACCCTAGTAT
Statistics
Matches: 149, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
95 5 0.03
96 141 0.95
97 3 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (94 bp):
ACATGGTCTTACACTAGCTCACATATCGAGGCGATGCCATGTCCAGACATGGTCTTACACTAGCT
CTCATATAAATGTCAATGCCATGTTCCAA
Found at i:52351358 original size:93 final size:93
Alignment explanation
Indices: 52351230--52351400 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
52351220 GCCCATAAGT
* * *
52351230 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
52351295 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
* *
52351323 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
*
52351388 CGAGTTCGGATGC
66 CAAGTTCGGATGC
52351401 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:52351389 original size:46 final size:46
Alignment explanation
Indices: 52351222--52351397 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
52351212 TGTAACCCGC
* * * *
52351222 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
52351268 CCATAAGTGAAATCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
52351318 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
52351361 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52351398 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:52358922 original size:93 final size:92
Alignment explanation
Indices: 52358810--52358979 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
52358800 GCCCATAAGT
* *
52358810 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
52358875 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
52358902 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52358967 CGAGTTCGGATGC
65 CGAGTTCGGATGC
52358980 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 6 0.08
93 68 0.92
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:52358976 original size:46 final size:46
Alignment explanation
Indices: 52358802--52358976 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
52358792 ATGTAACCGC
* * *
52358802 CCATAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
52358847 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
52358897 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
52358940 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
52358977 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 16 0.15
46 49 0.45
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:52362391 original size:29 final size:31
Alignment explanation
Indices: 52362336--52362416 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 31
52362326 AATGGTCAAT
* * * * *
52362336 TTTA-AATAGTTGAATGATCAAATTGTAACA
1 TTTACAATAATTGAGTGACCAAAGTGTAAAA
52362366 TTT-C-ATAATTGAGTGACCAAAGTGTAAAA
1 TTTACAATAATTGAGTGACCAAAGTGTAAAA
*
52362395 TTTACTAATAATTGAGTAACCA
1 TTTAC-AATAATTGAGTGACCA
52362417 TGATTGCAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
29 23 0.56
30 4 0.10
32 14 0.34
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.35
Consensus pattern (31 bp):
TTTACAATAATTGAGTGACCAAAGTGTAAAA
Found at i:52362517 original size:21 final size:20
Alignment explanation
Indices: 52362467--52362518 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
52362457 CTCTTAATTT
52362467 AATTAAACTTCTAATTTAGCTA
1 AATTAAA-TT-TAATTTAGCTA
* *
52362489 AA-AAAATTTAATTATAGTTA
1 AATTAAATTTAATT-TAGCTA
52362509 AATTAAATTT
1 AATTAAATTT
52362519 CTTGTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.20
20 9 0.36
21 9 0.36
22 2 0.08
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTAAATTTAATTTAGCTA
Found at i:52365877 original size:16 final size:16
Alignment explanation
Indices: 52365856--52365886 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52365846 TGGGTGTTTC
52365856 AATAAAATATAAAATA
1 AATAAAATATAAAATA
*
52365872 AATAAATTATAAAAT
1 AATAAAATATAAAAT
52365887 TTAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAATATAAAATA
Found at i:52370506 original size:19 final size:21
Alignment explanation
Indices: 52370462--52370509 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
52370452 TTATTACATC
52370462 AAATATTATATATTAATAAATTT
1 AAATATTATATATTAAT--ATTT
52370485 AAATATTATATATT-AT-TTT
1 AAATATTATATATTAATATTT
52370504 AAATAT
1 AAATAT
52370510 CATAAAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.36
22 2 0.08
23 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATTATATATTAATATTT
Found at i:52372519 original size:19 final size:19
Alignment explanation
Indices: 52372491--52372539 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
52372481 AATTGGGTTC
* *
52372491 AAAAAATAATTTACTTGAG
1 AAAAATTAATTTAATTGAG
*
52372510 AAAAATTAATTTAATTGAT
1 AAAAATTAATTTAATTGAG
*
52372529 TAAAATTAATT
1 AAAAATTAATT
52372540 AAATAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (19 bp):
AAAAATTAATTTAATTGAG
Found at i:52374067 original size:119 final size:119
Alignment explanation
Indices: 52373856--52374207 Score: 551
Period size: 119 Copynumber: 3.0 Consensus size: 119
52373846 CCATTTGTGA
* * * *
52373856 TGCCTCCGGTAGGGCAGGTACATTGCTAGCTGGATTGGTAGATCACGACATGCAAATATGTGTAA
1 TGCCTCCGGTAGGGTAGGTACATTGCTAACTGGATTGGCAGATCACGACATGCAGATATGTGTAA
* *
52373921 GACCATGTGGTAGCGATCCATGGCATCATATGACAATGAAAATATTCATGGTGT
66 GACCATGTGGTAGAGACCCATGGCATCATATGACAATGAAAATATTCATGGTGT
* * * *
52373975 TGCCTTCGGTAGGGTAGGTACATTGCTAACTGGACTGACAGATCACGACATGCTGATATGTGTAA
1 TGCCTCCGGTAGGGTAGGTACATTGCTAACTGGATTGGCAGATCACGACATGCAGATATGTGTAA
*
52374040 GACCATGTGGTAGAGACCCGTGGCATCATATGACAATGAAAATATTCATGGTGT
66 GACCATGTGGTAGAGACCCATGGCATCATATGACAATGAAAATATTCATGGTGT
** * *
52374094 TGCCTCCGACAAGGTAGGTACATTGTTAACTGGATTGGCAGATCACGACATGCAGATATGTGTAA
1 TGCCTCCGGTAGGGTAGGTACATTGCTAACTGGATTGGCAGATCACGACATGCAGATATGTGTAA
* *
52374159 GACCATGTGGTAGAGACCCATGACATCATATGATAATGAAAATATTCAT
66 GACCATGTGGTAGAGACCCATGGCATCATATGACAATGAAAATATTCAT
52374208 ATGAAAATAT
Statistics
Matches: 211, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 211 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (119 bp):
TGCCTCCGGTAGGGTAGGTACATTGCTAACTGGATTGGCAGATCACGACATGCAGATATGTGTAA
GACCATGTGGTAGAGACCCATGGCATCATATGACAATGAAAATATTCATGGTGT
Found at i:52376010 original size:21 final size:21
Alignment explanation
Indices: 52375981--52376024 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
52375971 TTTGTGTATC
*
52375981 CATCGATATTTCAAATAAATT
1 CATCAATATTTCAAATAAATT
*
52376002 CATCAATATTTCAAATATATT
1 CATCAATATTTCAAATAAATT
52376023 CA
1 CA
52376025 ATGGGTGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (21 bp):
CATCAATATTTCAAATAAATT
Found at i:52376089 original size:26 final size:26
Alignment explanation
Indices: 52376053--52376104 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
52376043 ATGAGAAGAT
52376053 ATGAATAATAAAATCAGTTATTACAC
1 ATGAATAATAAAATCAGTTATTACAC
52376079 ATGAATAATAAAATCAGTTATTACAC
1 ATGAATAATAAAATCAGTTATTACAC
52376105 GTATCCTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (26 bp):
ATGAATAATAAAATCAGTTATTACAC
Found at i:52379749 original size:27 final size:27
Alignment explanation
Indices: 52379709--52379820 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
52379699 AGGAAGCGTC
*
52379709 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
52379736 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
52379763 CTGGTGGCTTTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
52379791 CTGGTGACTCTGTCAC-ATTATATGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
52379817 CTGG
1 CTGG
52379821 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 47 0.65
28 17 0.24
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:52379817 original size:54 final size:54
Alignment explanation
Indices: 52379709--52379820 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
52379699 AGGAAGCGTC
* * *
52379709 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATATGTT
* * *
52379763 CTGGTGGCTTTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATATGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATATGTT
52379817 CTGG
1 CTGG
52379821 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATATGTT
Found at i:52380903 original size:11 final size:10
Alignment explanation
Indices: 52380875--52380908 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
52380865 AGCCTGTAAG
52380875 TATTCTGAAT
1 TATTCTGAAT
*
52380885 TTTTCTGAAT
1 TATTCTGAAT
52380895 ATATTCTGAAT
1 -TATTCTGAAT
52380906 TAT
1 TAT
52380909 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:52387681 original size:27 final size:27
Alignment explanation
Indices: 52387573--52387687 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
52387563 TTGAGGAAGC
*
52387573 GTTCTGGTGGCTATGCCACAATTATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
**
52387600 AATCTGGTGGCTCTGCCACATATT-TCT
1 GTTCTGGTGGCTCTGCCACA-ATTATCT
* *
52387627 GTCCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCACAATTATCT
* *
52387654 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTCTGCCACAATTATCT
52387681 GTTCTGG
1 GTTCTGG
52387688 AAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 50 0.67
28 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (27 bp):
GTTCTGGTGGCTCTGCCACAATTATCT
Found at i:52391962 original size:55 final size:54
Alignment explanation
Indices: 52391853--52392104 Score: 196
Period size: 55 Copynumber: 4.7 Consensus size: 54
52391843 AGGGTTTAAG
* * *
52391853 GATACCGTGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTA-AA-GCAAA
1 GATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-G-TTCTATAAGGCAAA
* * * * *
52391908 GAAATCACGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGCAAA
* * * * * *
52391963 GGTCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
* * * * * *
52392016 GCTACCTTGTAAGACCATGTCAAGACATGGCAATGGTAAGTT-T-CAA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
* * * *
52392065 GATACCATGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
52392105 GTACTCGTGT
Statistics
Matches: 160, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
49 38 0.24
52 4 0.03
53 47 0.29
54 10 0.06
55 61 0.38
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
Found at i:52392317 original size:16 final size:16
Alignment explanation
Indices: 52392296--52392326 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52392286 ATAAATTTGA
52392296 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
52392312 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
52392327 AGTTAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:52399550 original size:55 final size:53
Alignment explanation
Indices: 52399429--52399682 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
52399419 ATTAGGGTTT
* * *
52399429 AAGGATACCGTGTAAGACCATG-CAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGCTACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-G-TTCATAAGGC
** * *
52399483 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * * *
52399538 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
*
52399591 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCAT-AAGGC
* * * *
52399640 AAGGATACCATGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
52399683 GTACCCGTGT
Statistics
Matches: 173, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
49 40 0.23
51 1 0.01
52 8 0.05
53 44 0.25
54 27 0.16
55 49 0.28
56 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (53 bp):
AAGGCTACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:52399634 original size:108 final size:109
Alignment explanation
Indices: 52399439--52399684 Score: 305
Period size: 108 Copynumber: 2.3 Consensus size: 109
52399429 AAGGATACCG
*
52399439 TGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCAT
1 TGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
*
52399504 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
52399548 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATG-CAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
* * * *
52399610 ATGTCAAGACATGGCAATGGTAAGTTTC-AAAAGG---A--TACCA
64 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
*
52399650 TGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 TGTAAGACCATG-CAAGGCATGGCAATTGGTAAGGT
52399685 ACCCGTGTAT
Statistics
Matches: 120, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
102 31 0.26
103 2 0.02
104 1 0.01
107 8 0.07
108 48 0.40
109 19 0.16
110 11 0.09
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (109 bp):
TGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:52406877 original size:47 final size:48
Alignment explanation
Indices: 52406740--52406919 Score: 137
Period size: 47 Copynumber: 3.9 Consensus size: 48
52406730 CACATAGTAA
* * * * *
52406740 GATGCCAATGCCATATCCTAGATATGATCTTACATGGGATCACAGATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCAAATATC
* **
52406788 GAAGCCAATAGCC---T---AG-CTATGGTCTTACATGATGTTTC--ATATC
1 GATGCCAAT-GCCATATCCCAGAC-ATGGTCTTACATG--GGATCAAATATC
* * * *
52406831 GATGCCAATGCCATATCCTAGATAT-TTGTTACATGGGATCAAATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCAAATATC
*
52406878 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCA
52406920 CACATAACCC
Statistics
Matches: 101, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
42 3 0.03
43 26 0.26
45 7 0.07
46 1 0.01
47 35 0.35
48 26 0.26
49 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCAAATATC
Found at i:52410298 original size:29 final size:27
Alignment explanation
Indices: 52410280--52410349 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
52410270 ATATTAAGTC
52410280 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
52410307 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
52410335 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
52410350 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:52410343 original size:28 final size:28
Alignment explanation
Indices: 52410280--52410377 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
52410270 ATATTAAGTC
*
52410280 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
52410307 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52410335 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
52410364 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52410378 CGAAATCAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52418106 original size:29 final size:27
Alignment explanation
Indices: 52418088--52418157 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
52418078 ATATTAAGTC
52418088 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
52418115 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
52418143 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
52418158 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:52418151 original size:28 final size:28
Alignment explanation
Indices: 52418088--52418185 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
52418078 ATATTAAGTC
*
52418088 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
52418115 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52418143 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
52418172 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52418186 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52423562 original size:48 final size:48
Alignment explanation
Indices: 52423401--52423616 Score: 218
Period size: 48 Copynumber: 4.5 Consensus size: 48
52423391 AATGCTGATA
* *
52423401 CCATGTCCCGGACATGGTCTTACACTGGCTCTCATACATCAGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGATG
* * * * * ** ** *
52423451 CCATGTCACACACATGGTCTTACATTGACACAT-ATAACAATACCGACG
1 CCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGAGGCCGATG
* * * * *
52423499 CGATGTTCCAAACATGGTCTTACACTGGCTCGCATATTGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATG
* * *
52423547 CTATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCGGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATG
52423595 CCATGTCCCAGACATGGTCTTA
1 CCATGTCCCAGACATGGTCTTA
52423617 GTCTAGCACA
Statistics
Matches: 131, Mismatches: 33, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
48 100 0.76
49 2 0.02
50 28 0.21
51 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGATG
Found at i:52425944 original size:13 final size:13
Alignment explanation
Indices: 52425926--52425954 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52425916 GGTTGTTTAT
52425926 TAAACTAATTAAC
1 TAAACTAATTAAC
52425939 TAAACTAATTAAC
1 TAAACTAATTAAC
52425952 TAA
1 TAA
52425955 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:52428908 original size:6 final size:6
Alignment explanation
Indices: 52428876--52428920 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
52428866 AATAAAATTG
* * *
52428876 AAATGA AAATAA AAATAA AAAGAA AAAGAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAA
52428921 GATAAGAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (6 bp):
AAATAA
Found at i:52434330 original size:13 final size:13
Alignment explanation
Indices: 52434312--52434340 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52434302 GGTTGTTTAT
52434312 TAAACTAATTAAC
1 TAAACTAATTAAC
52434325 TAAACTAATTAAC
1 TAAACTAATTAAC
52434338 TAA
1 TAA
52434341 TTAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:52438288 original size:48 final size:48
Alignment explanation
Indices: 52438226--52438320 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
52438216 ACGATGTCTC
* * *
52438226 ATATCGATGGCAATGCCATTTCCCAGATATGGTCTTACATGGGATCAA
1 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAA
* *
52438274 ATATTGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
1 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
52438321 CACATAACCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (48 bp):
ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAA
Found at i:52440890 original size:17 final size:18
Alignment explanation
Indices: 52440868--52440902 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52440858 AGGAGTTGAG
52440868 AAAAGAA-AAAGTGAAAA
1 AAAAGAAGAAAGTGAAAA
*
52440885 AAAAGAAGAAATTGAAAA
1 AAAAGAAGAAAGTGAAAA
52440903 CGAGTGTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.17, T:0.09
Consensus pattern (18 bp):
AAAAGAAGAAAGTGAAAA
Found at i:52440936 original size:18 final size:19
Alignment explanation
Indices: 52440915--52440953 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
52440905 AGTGTGAGAG
*
52440915 AGAAATCGAGGTTGAA-AA
1 AGAAATCGAGATTGAAGAA
*
52440933 AGAAATTGAGATTGAAGAA
1 AGAAATCGAGATTGAAGAA
52440952 AG
1 AG
52440954 GAAAGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.51, C:0.03, G:0.28, T:0.18
Consensus pattern (19 bp):
AGAAATCGAGATTGAAGAA
Found at i:52440973 original size:12 final size:12
Alignment explanation
Indices: 52440956--52440986 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52440946 GAAGAAAGGA
52440956 AAGAAAATGAAC
1 AAGAAAATGAAC
*
52440968 AAGAAAATGATC
1 AAGAAAATGAAC
52440980 AAGAAAA
1 AAGAAAA
52440987 AGTGATGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.68, C:0.06, G:0.16, T:0.10
Consensus pattern (12 bp):
AAGAAAATGAAC
Found at i:52444731 original size:47 final size:47
Alignment explanation
Indices: 52444680--52444811 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 47
52444670 CACAATCGAT
*
52444680 AAGTACCTATACCATTTCTCGTAGCCAAATCAAGGTAACT-TATC-CCG
1 AAGTACCTATACCATTTC-CGTAGCCAAATCAAGGTAACTCT-TCTCAG
***
52444727 AAGTACCTATACCACGGCCCGTAGCCAAATCAAGGTAACTCTTCTCAG
1 AAGTACCTATACCA-TTTCCGTAGCCAAATCAAGGTAACTCTTCTCAG
*
52444775 AAATACCTATACCATTGTCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATT-TCCGTAGCCAAATCAAGGTA
52444812 TCATGCACAC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
47 37 0.51
48 36 0.49
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.24
Consensus pattern (47 bp):
AAGTACCTATACCATTTCCGTAGCCAAATCAAGGTAACTCTTCTCAG
Found at i:52444801 original size:48 final size:47
Alignment explanation
Indices: 52444683--52444811 Score: 172
Period size: 48 Copynumber: 2.7 Consensus size: 47
52444673 AATCGATAAG
* *
52444683 TACCTATACCATT-TCTCGTAGCCAAATCAAGGTAACTTATCCCGAAG
1 TACCTATACCATTGTC-CGTAGCCAAATCAAGGTAACTTATCCAGAAA
** *
52444730 TACCTATACCACGGCCCGTAGCCAAATCAAGGTAACTCT-TCTCAGAAA
1 TACCTATACCATTGTCCGTAGCCAAATCAAGGTAACT-TATC-CAGAAA
52444778 TACCTATACCATTGTCCGTAGCCAAATCAAGGTA
1 TACCTATACCATTGTCCGTAGCCAAATCAAGGTA
52444812 TCATGCACAC
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
47 34 0.48
48 37 0.52
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.25
Consensus pattern (47 bp):
TACCTATACCATTGTCCGTAGCCAAATCAAGGTAACTTATCCAGAAA
Found at i:52451894 original size:13 final size:13
Alignment explanation
Indices: 52451876--52451900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52451866 TATATTATAT
52451876 GTGTGAAAATTTC
1 GTGTGAAAATTTC
52451889 GTGTGAAAATTT
1 GTGTGAAAATTT
52451901 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:52459385 original size:27 final size:27
Alignment explanation
Indices: 52459337--52459440 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
52459327 GCGAGGCTGC
* *
52459337 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
52459364 CAGATATTGTTGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
52459390 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
52459417 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
52459441 AGACGCTTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.12
27 57 0.84
28 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:52461070 original size:26 final size:26
Alignment explanation
Indices: 52461039--52461146 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
52461029 TGAAATGCCC
*
52461039 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
52461065 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
52461091 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
52461117 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
52461143 ATCA
1 ATCA
52461147 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:52465637 original size:55 final size:53
Alignment explanation
Indices: 52465512--52466016 Score: 457
Period size: 55 Copynumber: 9.5 Consensus size: 53
52465502 AACTTACCAT
* * *
52465512 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGG-ATCCTTTCCTTATAGAACTCATCAA
** * *
52465565 TGCCATACCTTGGCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGATCC-TTTCCTTATAG-AACTCATCAA
* *
52465620 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTTCCTTAT-GAACTCACCAA
1 TGCCATGTCTTGACATGGTCTTACATGG-ATCCTTTCCTTATAGAACTCATCAA
* * *
52465673 TGCCATGCCTTGGCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGATCC-TTTCCTTATAG-AACTCATCAA
* * *
52465728 TGCCATGTCTTGACATGGTCTTACAT-GATTTCCTTGCCTTATAGAACTTATCAC
1 TGCCATGTCTTGACATGGTCTTACATGGA--TCCTTTCCTTATAGAACTCATCAA
* * * * ***
52465782 TGCCATGCCTTGGCATGGTCTTACAT-GA---TATCTTTATCTTACT-A--AA
1 TGCCATGTCTTGACATGGTCTTACATGGATCCTTTCCTTATAGAACTCATCAA
* *** * *
52465828 TGTCATGTTCAAAACATGGTCTTACATGGTATCCTTGT-CTTAT-GAACTGACCAA
1 TGCCATG-TCTTGACATGGTCTTACATGG-ATCCTT-TCCTTATAGAACTCATCAA
* *
52465882 TGCC-TGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACAT-GGATCCTTT-CCTTATAG-AACTCATCAA
*
52465936 TGCCATGTCTTGACATGGTCTTACAT-GATTTCCTTTCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGGA--TCCTTTCCTTATAGAACTCATCAA
*
52465990 TGCCAT-TCCTTGGCATGGTCTTACATG
1 TGCCATGT-CTTGACATGGTCTTACATG
52466017 ATATCCTTAT
Statistics
Matches: 367, Mismatches: 55, Indels: 58
0.76 0.11 0.12
Matches are distributed among these distances:
46 7 0.02
47 14 0.04
48 2 0.01
49 10 0.03
50 1 0.00
51 7 0.02
52 32 0.09
53 84 0.23
54 88 0.24
55 112 0.31
56 10 0.03
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGGATCCTTTCCTTATAGAACTCATCAA
Found at i:52465690 original size:108 final size:108
Alignment explanation
Indices: 52465512--52466016 Score: 663
Period size: 108 Copynumber: 4.7 Consensus size: 108
52465502 AACTTACCAT
* * *
52465512 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATACCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTATGAACTCACCAATGCCATGCCTTG
52465577 GCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
*
52465620 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTTCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTATGAACTCACCAATGCCATGCCTTG
52465685 GCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
* * * * * *
52465728 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCACTGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTAT-GAACTCACCAATGCCATGCCTT
* * * *
52465793 GGCATGGTCTTACAT-G-A---TATCTTTAT-CTTACT-A--AA
65 GGCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
* *** *
52465828 TGTCATGTTCAAAACATGGTCTTACATGGTATCCTTGT-CTTATGAACTGACCAATGCC-TGCCT
1 TGCCATG-TCTTGACATGGTCTTACATGGTATCCTT-TCCTTATGAACTCACCAATGCCATGCCT
* *
52465891 TGGCATGGTCTTACATGGGACCTTTACCTTATAGTAACTCATCAA
64 TGGCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
* * * * *
52465936 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAATGCCATTCCTT
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTAT-GAACTCACCAATGCCATGCCTT
52466001 GGCATGGTCTTACATG
65 GGCATGGTCTTACATG
52466017 ATATCCTTAT
Statistics
Matches: 345, Mismatches: 37, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
99 21 0.06
100 21 0.06
101 29 0.08
102 1 0.00
103 4 0.01
104 13 0.04
105 4 0.01
106 2 0.01
107 29 0.08
108 166 0.48
109 55 0.16
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAA
Found at i:52465934 original size:208 final size:210
Alignment explanation
Indices: 52465512--52466030 Score: 733
Period size: 208 Copynumber: 2.5 Consensus size: 210
52465502 AACTTACCAT
* * * * *
52465512 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATGCCATACCTT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATACCTT
* * * ***
52465576 GGCATGGTCTTACATGGAACCTTTTCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCT
66 GGCATGGTCTTACAT-G-A---TATCCTTAT-CTTACTCA-CAATGCCATGTCAAAACATGGTCT
*
52465641 TACGTGGTATCCTTTCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGAACCT
124 TACATGGTATCCTTTCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGAACCT
*
52465706 TTTCCTTATAGTAACTCATCAA
189 TTACCTTATAGTAACTCATCAA
* *
52465728 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCACTGCCATGCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATACCTT
* *
52465793 GGCATGGTCTTACATGATATCTTTATCTTACT-A-AATGTCATGTTCAAAACATGGTCTTACATG
66 GGCATGGTCTTACATGATATCCTTATCTTACTCACAATGCCATG-TCAAAACATGGTCTTACATG
* *
52465856 GTATCCTTGT-CTTATGAACTGACCAATGCC-TGCCTTGGCATGGTCTTACATGGGACCTTTACC
130 GTATCCTT-TCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGAACCTTTACC
52465919 TTATAGTAACTCATCAA
194 TTATAGTAACTCATCAA
* *
52465936 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTTCCTTATAGAACTTATCAATGCCATTCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATACCTT
52466001 GGCATGGTCTTACATGATATCCTTATCTTA
66 GGCATGGTCTTACATGATATCCTTATCTTA
52466031 GTGCCAATGC
Statistics
Matches: 277, Mismatches: 23, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
208 147 0.53
209 43 0.16
210 2 0.01
211 4 0.01
212 7 0.03
215 1 0.00
216 40 0.14
217 33 0.12
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (210 bp):
TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATACCTT
GGCATGGTCTTACATGATATCCTTATCTTACTCACAATGCCATGTCAAAACATGGTCTTACATGG
TATCCTTTCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGAACCTTTACCTT
ATAGTAACTCATCAA
Found at i:52473365 original size:44 final size:41
Alignment explanation
Indices: 52473316--52473414 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
52473306 GAACGATTCT
**
52473316 GCACACTTAGTGCCATCTCAACTAACCGAAGCTAAGTTGGTATC
1 GCACACTTAGTGCCAT-T-AACTAACCGAAGCTAA-TTGAAATC
* * * *
52473360 GCACACTTAGTGCC-TTTAGTAGCCGAAGCTAATTTAAATC
1 GCACACTTAGTGCCATTAACTAACCGAAGCTAATTGAAATC
52473400 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
52473415 AATACTTTCG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
40 19 0.40
41 13 0.27
42 1 0.02
43 1 0.02
44 14 0.29
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (41 bp):
GCACACTTAGTGCCATTAACTAACCGAAGCTAATTGAAATC
Found at i:52477209 original size:39 final size:40
Alignment explanation
Indices: 52477072--52477254 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
52477062 GCTACTCGTT
*
52477072 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
52477112 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
52477152 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCG-A
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
52477190 CAAATGCCTTC-GGATCTTAG-TCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
52477230 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52477255 CATCATTCAA
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
37 2 0.02
38 19 0.16
39 38 0.32
40 58 0.49
41 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:52510413 original size:24 final size:25
Alignment explanation
Indices: 52510384--52510433 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
52510374 AAGGAATTCG
52510384 CACACACACAGTGCTC-TAATCATT
1 CACACACACAGTGCTCTTAATCATT
* *
52510408 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
52510433 C
1 C
52510434 GTTATTACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:52510711 original size:37 final size:36
Alignment explanation
Indices: 52510670--52510739 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
52510660 GCACGGATAT
* *
52510670 ATCACTCACTAATGCTCTTCGGAACTTAGTCCGGTAC
1 ATCACGCACGAATGCTC-TCGGAACTTAGTCCGGTAC
52510707 ATCACGCACGAATGCTCTCGGAACTTAGTCCGG
1 ATCACGCACGAATGCTCTCGGAACTTAGTCCGG
52510740 ATATGGTCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 16 0.52
37 15 0.48
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (36 bp):
ATCACGCACGAATGCTCTCGGAACTTAGTCCGGTAC
Found at i:52510735 original size:36 final size:37
Alignment explanation
Indices: 52510640--52510739 Score: 116
Period size: 37 Copynumber: 2.7 Consensus size: 37
52510630 ATAACACCAT
** * *
52510640 ACGAATGCTCTTCGG-GTTTAG-CACGGATATATCACTC
1 ACGAATGCTCTTCGGAACTTAGTC-CGG-TACATCACGC
*
52510677 ACTAATGCTCTTCGGAACTTAGTCCGGTACATCACGC
1 ACGAATGCTCTTCGGAACTTAGTCCGGTACATCACGC
52510714 ACGAATGCTC-TCGGAACTTAGTCCGG
1 ACGAATGCTCTTCGGAACTTAGTCCGG
52510740 ATATGGTCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
36 16 0.29
37 31 0.56
38 7 0.13
39 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (37 bp):
ACGAATGCTCTTCGGAACTTAGTCCGGTACATCACGC
Found at i:52511123 original size:29 final size:29
Alignment explanation
Indices: 52511084--52511162 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
52511074 CTTAATAATC
*
52511084 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
52511114 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
52511143 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
52511163 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:52511205 original size:43 final size:43
Alignment explanation
Indices: 52511144--52511246 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
52511134 TGCATTTCAA
52511144 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52511187 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
52511230 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
52511247 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:52513155 original size:37 final size:36
Alignment explanation
Indices: 52513105--52513182 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 36
52513095 TTATTACGAA
* *
52513105 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATC-G
*
52513142 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
52513178 GTCTT
1 GTCTT
52513183 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 6 0.16
37 29 0.78
38 2 0.05
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:52513378 original size:47 final size:47
Alignment explanation
Indices: 52513300--52513739 Score: 749
Period size: 47 Copynumber: 9.4 Consensus size: 47
52513290 CCCTTCGGGA
* * * * * * *
52513300 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
52513347 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52513394 CTTA-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52513440 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52513486 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52513533 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52513580 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52513627 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
52513674 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
52513721 CTTATCACATATATACACT
1 CTTATCACATATATACACT
52513740 GTCTTGGCTG
Statistics
Matches: 375, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 91 0.24
47 284 0.76
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:52516277 original size:49 final size:47
Alignment explanation
Indices: 52516163--52516332 Score: 241
Period size: 47 Copynumber: 3.6 Consensus size: 47
52516153 GGGGTGTCAC
52516163 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
52516212 AATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
52516259 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
52516306 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
52516333 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
47 97 0.89
49 12 0.11
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Done.