Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 166 of 343
Found at i:54995607 original size:88 final size:86
Alignment explanation
Indices: 54995407--54995656 Score: 283
Period size: 88 Copynumber: 2.8 Consensus size: 86
54995397 ACCGACATTC
* * *
54995407 AGCCTGCTAGGTTTAAAAGCCCGAAT--TCAT-TCACCAGTATTTCGCCTGCTAGGCTCAAAGCC
1 AGCCTGCTAGG-CTCAAAGCCCGAATAGT-ATCTCACCAGCATTTCGCCTGCTAGGCTCAAAGCC
* *
54995469 CAATA-TCATTTCACTGGCATTAT
64 CAATAGT-ATCTCACCGGCATTAT
* * * * * *
54995492 AGCCTACTAGGCTTGAAAGCCTGAATAGTATCTCACCGGCATTTCGCCTGCTAGGGTCGAAGCCC
1 AGCCTGCTAGGC-TCAAAGCCCGAATAGTATCTCACCAGCATTTCGCCTGCTAGGCTCAAAGCCC
54995557 GAATAGTATCTCACCGGCATTAT
65 -AATAGTATCTCACCGGCATTAT
*
54995580 AGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATTATAGCCTGCTAGGCTCAAAGGC
1 AGCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCAGCATT-TCGCCTGCTAGGCTCAAA-GC
54995645 CCAAATAGTATC
63 CC-AATAGTATC
54995657 GTGCGATATT
Statistics
Matches: 138, Mismatches: 18, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
85 21 0.15
86 2 0.01
87 34 0.25
88 52 0.38
89 16 0.12
90 13 0.09
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (86 bp):
AGCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCAGCATTTCGCCTGCTAGGCTCAAAGCCCA
ATAGTATCTCACCGGCATTAT
Found at i:54995622 original size:45 final size:44
Alignment explanation
Indices: 54995450--54995656 Score: 267
Period size: 45 Copynumber: 4.7 Consensus size: 44
54995440 CCAGTATTTC
* *
54995450 GCCTGCTAGGCTCAAAGCCC-AATA-TCATTTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGT-ATCTCACCGGCATTATA
* * * *
54995493 GCCTACTAGGCTTGAAAGCCTGAATAGTATCTCACCGGCATT-TC
1 GCCTGCTAGGC-TCAAAGCCCGAATAGTATCTCACCGGCATTATA
* *
54995537 GCCTGCTAGGGTCGAAGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
*
54995581 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCAGCATTATA
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTATCTCACCGGCATTATA
*
54995626 GCCTGCTAGGCTCAAAGGCCCAAATAGTATC
1 GCCTGCTAGGCTCAAA-GCCCGAATAGTATC
54995657 GTGCGATATT
Statistics
Matches: 143, Mismatches: 16, Indels: 8
0.86 0.10 0.05
Matches are distributed among these distances:
43 37 0.26
44 32 0.22
45 73 0.51
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (44 bp):
GCCTGCTAGGCTCAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:54996513 original size:47 final size:46
Alignment explanation
Indices: 54996458--54996598 Score: 212
Period size: 47 Copynumber: 3.0 Consensus size: 46
54996448 AAAATTTTCT
* *
54996458 TTAACTAAGTAACTTATCCGAAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAG-AAATTTAACAAGC
54996505 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAG-AAATTTAACAAGC
* *
54996552 TTAAATAAGTAACTTATCC-AGAAATATTAAGAGCAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGA-AAATATTAAGAGAAATTTAACAAGC
54996598 T
1 T
54996599 CTAAATTCAA
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
46 14 0.16
47 74 0.84
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (46 bp):
TTAACTAAGTAACTTATCCGAAAATATTAAGAGAAATTTAACAAGC
Found at i:55003187 original size:43 final size:45
Alignment explanation
Indices: 55003135--55003323 Score: 221
Period size: 45 Copynumber: 4.3 Consensus size: 45
55003125 CTTGCATTTC
*
55003135 GCCTGCTAGGCTCGAAGAC-AG-ATA-TCATTTCACAGGCATTATA
1 GCCTGCTAGGCTCGAAGACTAGAATAGT-ATCTCACAGGCATTATA
* * *
55003178 GCCTGCTAGGCTCGAATACTCGAATAGTATCTCACCA-GCATT-TC
1 GCCTGCTAGGCTCGAAGACTAGAATAGTATCTCA-CAGGCATTATA
* *
55003222 GCCTGCTAGGCTCGAAG-CTTGAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGACTAGAATAGTATCTCACAGGCATTATA
* * *
55003266 GCCTGCTAGGCTCAAAGGCTCA-AATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGACT-AGAATAGTATCTCACAGGCATTATA
55003311 GCCTGCTAGGCTC
1 GCCTGCTAGGCTC
55003324 AGAGGCCCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.01
43 38 0.30
44 35 0.27
45 51 0.40
46 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (45 bp):
GCCTGCTAGGCTCGAAGACTAGAATAGTATCTCACAGGCATTATA
Found at i:55003292 original size:88 final size:87
Alignment explanation
Indices: 55003128--55003323 Score: 252
Period size: 88 Copynumber: 2.2 Consensus size: 87
55003118 TCATTCACTT
* *
55003128 GCATTTCGCCTGCTAGGCTCGAAGACAGATATCATTTCACAGGCATTATAGCCTGCTAGGCTCGA
1 GCATTTCGCCTGCTAGGCTCGAAGACAGATATCATCTCACAGGCATTATAGCCTGCTAGGCTCAA
* *
55003193 ATACTCGAATAGTATCTCACCA
66 AGACTCAAATAGTATCTCACCA
* *
55003215 GCATTTCGCCTGCTAGGCTCGAAG-CTTGAATAGT-ATCTCACTGGCATTATAGCCTGCTAGGCT
1 GCATTTCGCCTGCTAGGCTCGAAGAC-AG-ATA-TCATCTCACAGGCATTATAGCCTGCTAGGCT
* **
55003278 CAAAGGCTCAAATAGTATCTCACTG
63 CAAAGACTCAAATAGTATCTCACCA
*
55003303 GCATTATAGCCTGCTAGGCTC
1 GCATT-TCGCCTGCTAGGCTC
55003324 AGAGGCCCGA
Statistics
Matches: 95, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
86 1 0.01
87 25 0.26
88 54 0.57
89 15 0.16
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (87 bp):
GCATTTCGCCTGCTAGGCTCGAAGACAGATATCATCTCACAGGCATTATAGCCTGCTAGGCTCAA
AGACTCAAATAGTATCTCACCA
Found at i:55003300 original size:45 final size:45
Alignment explanation
Indices: 55003164--55003340 Score: 232
Period size: 45 Copynumber: 4.0 Consensus size: 45
55003154 AGATATCATT
* * **
55003164 TCACAGGCATTATAGCCTGCTAGGCTCGAATACTCGAATAGTATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
** * * *
55003209 TCACCAGCATT-TCGCCTGCTAGGCTCGAA-GCTTGAATAGTATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
*
55003252 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCAAATAGTATC
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
* *
55003297 TCACTGGCATTATAGCCTGCTAGGCTCAGAGGCCCGAATAGTAT
1 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTAT
55003341 TGTGCGATAT
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 21 0.18
44 33 0.28
45 62 0.53
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (45 bp):
TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTATC
Found at i:55004200 original size:47 final size:47
Alignment explanation
Indices: 55004144--55004285 Score: 225
Period size: 47 Copynumber: 3.0 Consensus size: 47
55004134 AAAATTTTCT
* *
55004144 TTAACTAAGTAACTTATCCGAAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
*
55004191 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
*
55004238 TTAACTAAGTAACTTATTC-AGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGA-AAATATTAAGAGCAAATTTAACAAGC
55004284 TT
1 TT
55004286 TAAATTCAAC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
46 14 0.16
47 75 0.84
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGAAAATATTAAGAGCAAATTTAACAAGC
Found at i:55008813 original size:46 final size:46
Alignment explanation
Indices: 55008746--55008920 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
55008736 TGGAACCCGC
* *
55008746 CCATAAGCAAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
55008792 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
55008842 -C-TCA-CGAACTCGGACTTAACTCAACGAGCTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
55008885 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
55008921 ATGCTCAACC
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 56 0.55
47 25 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:55008919 original size:93 final size:93
Alignment explanation
Indices: 55008755--55008924 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
55008745 CCCATAAGCA
* * * *
55008755 AACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55008820 GAGTTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACG
* *
55008848 AACTCGGACTTAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
55008913 GAGTTCGGATGC
66 GAGTTCGGATGC
55008925 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:55011276 original size:21 final size:20
Alignment explanation
Indices: 55011248--55011286 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
55011238 TATTAAAAGG
* *
55011248 TTAATATGGTAAATTAGTTA
1 TTAATATGATAAAATAGTTA
55011268 TTAATTATGATAAAATAGT
1 TTAA-TATGATAAAATAGT
55011287 AAACCAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
TTAATATGATAAAATAGTTA
Found at i:55012904 original size:25 final size:25
Alignment explanation
Indices: 55012875--55012934 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
55012865 CTAGTGATTA
55012875 ATAACAAGAGTTGATAAGCCATGCC
1 ATAACAAGAGTTGATAAGCCATGCC
55012900 ATAACAAGAGTTGATAAGCCATGCC
1 ATAACAAGAGTTGATAAGCCATGCC
55012925 ATAACAAGAG
1 ATAACAAGAG
55012935 AGTTCATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (25 bp):
ATAACAAGAGTTGATAAGCCATGCC
Found at i:55017336 original size:34 final size:34
Alignment explanation
Indices: 55017297--55017409 Score: 120
Period size: 34 Copynumber: 3.3 Consensus size: 34
55017287 ATAAATTTAT
* * *
55017297 ATATATATTCACCTTTGGTTATATCAAACCATAC
1 ATATATATTCACCTTTGATTATACCAAGCCATAC
*
55017331 ATATATATATTCA-CTTTCGATTATACCAAGCTATAC
1 --ATATATATTCACCTTT-GATTATACCAAGCCATAC
** * *
55017367 ATATATAAACACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTTGATTATACCAAGCCATAC
55017401 ATATATATT
1 ATATATATT
55017410 TATGTACTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 32 0.50
35 7 0.11
36 25 0.39
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATATTCACCTTTGATTATACCAAGCCATAC
Found at i:55017336 original size:36 final size:36
Alignment explanation
Indices: 55017295--55017408 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 36
55017285 AAATAAATTT
* * *
55017295 ATATATATATTCACCTTTGGTTATATCAAACCATAC
1 ATATATATATTCACCTTTGATTATACCAAGCCATAC
*
55017331 ATATATATATTCA-CTTTCGATTATACCAAGCTATAC
1 ATATATATATTCACCTTT-GATTATACCAAGCCATAC
* * *
55017367 ATATATA-A-ACACCTTCGATTATGCCAAGCCATAC
1 ATATATATATTCACCTTTGATTATACCAAGCCATAC
55017401 ATATATAT
1 ATATATAT
55017409 TTATGTACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
34 25 0.37
35 8 0.12
36 34 0.51
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (36 bp):
ATATATATATTCACCTTTGATTATACCAAGCCATAC
Found at i:55020063 original size:46 final size:46
Alignment explanation
Indices: 55019916--55020044 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
55019906 TGTAACCCGC
* *
55019916 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
*
55019962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
55020008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55020045 TGCTCAATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:55025378 original size:15 final size:15
Alignment explanation
Indices: 55025358--55025391 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
55025348 AACTCTTTAC
*
55025358 ATTTTTGGTTAATAA
1 ATTTTTGATTAATAA
*
55025373 ATTTTTGATTGATAA
1 ATTTTTGATTAATAA
55025388 ATTT
1 ATTT
55025392 CTTACGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (15 bp):
ATTTTTGATTAATAA
Found at i:55027240 original size:34 final size:34
Alignment explanation
Indices: 55027201--55027313 Score: 145
Period size: 34 Copynumber: 3.3 Consensus size: 34
55027191 ATAAATGAAT
* * *
55027201 ATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
55027235 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 --ATATATATTCACCTTCGATTATACCAAGCCATAC
* *
55027271 ATATATAATCACCTTCGATTATGCCAAGCCATAC
1 ATATATATTCACCTTCGATTATACCAAGCCATAC
55027305 ATATATATT
1 ATATATATT
55027314 TATGTACTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
34 38 0.57
36 29 0.43
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (34 bp):
ATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:55027240 original size:36 final size:36
Alignment explanation
Indices: 55027199--55027312 Score: 160
Period size: 36 Copynumber: 3.2 Consensus size: 36
55027189 AAATAAATGA
* * *
55027199 ATATATATATTCACCTTCGGTTATATCAAACCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
* *
55027235 ATATATATATTCACTTTCGATTATACCAAGCTATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
*
55027271 ATATATA-A-TCACCTTCGATTATGCCAAGCCATAC
1 ATATATATATTCACCTTCGATTATACCAAGCCATAC
55027305 ATATATAT
1 ATATATAT
55027313 TTATGTACTT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 30 0.43
35 1 0.01
36 38 0.55
ACGTcount: A:0.37, C:0.21, G:0.06, T:0.36
Consensus pattern (36 bp):
ATATATATATTCACCTTCGATTATACCAAGCCATAC
Found at i:55029159 original size:43 final size:43
Alignment explanation
Indices: 55028947--55029148 Score: 262
Period size: 43 Copynumber: 4.7 Consensus size: 43
55028937 ATATCGTACA
* * *
55028947 ATGCCATCGTCCCAGACATGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * * **
55028990 ATGCC-ACTGTCCTAGATGGGGTCTTACAAATAATCACATATCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCACATATCG
* * *
55029033 ATGCCAACGTCCCAAACGTGGTCTTATAGGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
55029076 ATGCCAACGTCCCAGACATGGTTTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
55029119 ATGCCAACGTCCTAGACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
55029149 CACACACATA
Statistics
Matches: 134, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 131 0.98
44 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:55029921 original size:28 final size:26
Alignment explanation
Indices: 55029864--55029915 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
55029854 CAATTATTAT
*
55029864 ATTAACATTATTTAATATATGAAAAA
1 ATTAACATTATTTAAAATATGAAAAA
*
55029890 ATTAACCATTGTTATAAAATATGAAA
1 ATTAA-CATTATT-TAAAATATGAAA
55029916 CCATTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 6 0.27
28 11 0.50
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (26 bp):
ATTAACATTATTTAAAATATGAAAAA
Found at i:55030982 original size:31 final size:31
Alignment explanation
Indices: 55030944--55031017 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
55030934 CGGTTATTGT
55030944 GCCGAAGCCTTTTCATAAATCATATCACTGG
1 GCCGAAGCCTTTTCATAAATCATATCACTGG
*
55030975 GCCGAAGCCTTTTCATAAATCATATCATTGG
1 GCCGAAGCCTTTTCATAAATCATATCACTGG
55031006 GCCGAAGCCTTT
1 GCCGAAGCCTTT
55031018 ACTGTAAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (31 bp):
GCCGAAGCCTTTTCATAAATCATATCACTGG
Found at i:55031088 original size:42 final size:42
Alignment explanation
Indices: 55031041--55031132 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
55031031 TGGCCCTTAG
* ** *
55031041 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
55031083 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
55031125 GCCCATTT
1 GCCCATTT
55031133 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:55031354 original size:26 final size:26
Alignment explanation
Indices: 55031277--55031451 Score: 255
Period size: 26 Copynumber: 6.8 Consensus size: 26
55031267 CCTCTTTAAT
55031277 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
55031302 AACTGGGGCA-AAGCCCTTTCCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
55031327 AACTGGGGCATAAGCCCCTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
55031353 AACTGGGGCATAAGCTATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
55031379 AACTGGGGCATAAGCCATTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
55031405 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
55031431 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
55031452 GCACTTCCTC
Statistics
Matches: 135, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 32 0.24
26 103 0.76
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:55032354 original size:27 final size:27
Alignment explanation
Indices: 55032254--55032341 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
55032244 GGGCATATTC
* * *
55032254 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACG
55032281 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
55032308 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
55032335 GTC-CTTT
1 GTCACTTT
55032342 TTACCTAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
26 4 0.07
27 48 0.84
28 5 0.09
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACG
Found at i:55032438 original size:27 final size:27
Alignment explanation
Indices: 55032404--55032682 Score: 106
Period size: 27 Copynumber: 10.3 Consensus size: 27
55032394 ATCTACAAAC
55032404 CAAGGGTATTTCAGTAATTTTGTAAAG
1 CAAGGGTATTTCAGTAATTTTGTAAAG
*
55032431 CAATGGTATTTCCA-TAATTTT-TAGAAAG
1 CAAGGGTATTT-CAGTAATTTTGT--AAAG
* * *
55032459 TCAAGGGTATTTCTGTAACTTTGTAAAT
1 -CAAGGGTATTTCAGTAATTTTGTAAAG
* ** * *
55032487 CAGGGGTATTTTGGTAATTTTATAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAG
** * ***
55032514 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAG
* ** **
55032540 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCAGTAATTTTGTAAAG
* * * *
55032567 CCAGTGGTATTTTAGCAA-TTT-TACAG
1 CAAG-GGTATTTCAGTAATTTTGTAAAG
** * *
55032593 ACTAA-GGTATTTTGGTAATTTTACT-AAT
1 -C-AAGGGTATTTCAGTAATTTT-GTAAAG
* ** *
55032621 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAG
* *
55032648 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAG
*
55032675 CGAGGGTA
1 CAAGGGTA
55032683 AAATAGTAAT
Statistics
Matches: 201, Mismatches: 36, Indels: 30
0.75 0.13 0.11
Matches are distributed among these distances:
25 2 0.01
26 19 0.09
27 150 0.75
28 12 0.06
29 17 0.08
30 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAG
Found at i:55032505 original size:56 final size:54
Alignment explanation
Indices: 55032404--55032668 Score: 166
Period size: 54 Copynumber: 4.9 Consensus size: 54
55032394 ATCTACAAAC
* * ***
55032404 CAAGGGTATTTCAGTAATTTTGTAAAGCAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTTTGGTAATTTTTAGAAA-T
* * * *
55032460 CAAGGGTATTTCTGTAACTTTGTAAATCAGGGGTATTTTGGTAA-TTTTATAAAT
1 CAAGGGTATTTCAGTAA-TTTGTAAACCAGTGGTATTTTGGTAATTTTTAGAAAT
** * ** *
55032514 TGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAA-TTTTACAAA-
1 CAAGGGTATTTCAGTAATTT-GTAAACCAGTGGTATTTTGGTAATTTTTAGAAAT
* * * * * **
55032567 CCAGTGGTATTTTAGCAATTT-TACAGACTA-AGGTATTTTGGTAA-TTTTACTAAT
1 CAAG-GGTATTTCAGTAATTTGTA-A-ACCAGTGGTATTTTGGTAATTTTTAGAAAT
* ** *
55032621 CGAGGGTATTTTGGTAATTTTGTAAACCAAG-GGTATTTTAGTAATTTT
1 CAAGGGTATTTCAGTAA-TTTGTAAACC-AGTGGTATTTTGGTAATTTT
55032669 GTAAATCGAG
Statistics
Matches: 168, Mismatches: 31, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
52 1 0.01
53 40 0.24
54 78 0.46
55 13 0.08
56 36 0.21
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTGTAAACCAGTGGTATTTTGGTAATTTTTAGAAAT
Found at i:55032549 original size:54 final size:53
Alignment explanation
Indices: 55032490--55032682 Score: 210
Period size: 54 Copynumber: 3.6 Consensus size: 53
55032480 TGTAAATCAG
* * *
55032490 GGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCA
* * * * * *
55032543 GTGGTATTTTGGTAATTTTACAAA-CCAGTGGTATTTTAGCAATTTTACAGACTA
1 G-GGTATTTTGGTAATTTTATAAATCGAG-GGTATTTTGGTAATTTTACAAACCA
* **
55032597 AGGTATTTTGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTA-TAAATCGAGGGTATTTTGGTAATTTTACAAACC-A
* *
55032651 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTA
55032683 AAATAGTAAT
Statistics
Matches: 113, Mismatches: 21, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
53 42 0.37
54 71 0.63
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAACCA
Found at i:55032631 original size:80 final size:80
Alignment explanation
Indices: 55032518--55032668 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
55032508 ATAAATTGAG
55032518 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACC-AGTGGTATTTTAG
1 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACCAAG-GGTATTTTAG
55032582 CAATTTTACAGACTAA
65 CAATTTTACAGACTAA
* * * * **
55032598 GGTATTTTGGTAATTTTACTAATCGAG-GGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGTATTTCGGTAATTTCAC-AAACCAGTGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
55032662 TAATTTT
65 CAATTTT
55032669 GTAAATCGAG
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 55 0.89
81 7 0.11
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (80 bp):
GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGC
AATTTTACAGACTAA
Found at i:55032689 original size:27 final size:27
Alignment explanation
Indices: 55032660--55032763 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
55032650 AGGGTATTTT
* *
55032660 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55032687 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
55032714 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
55032741 GGTAATTCTATAAATCGACGGTA
1 AGTAATTCTGTAAATCGAGGGTA
55032764 CTTTGGTAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:55032692 original size:54 final size:54
Alignment explanation
Indices: 55032598--55032776 Score: 153
Period size: 54 Copynumber: 3.3 Consensus size: 54
55032588 TACAGACTAA
* *** * * *
55032598 GGTATTTTGGTAATTTTACT-AATCGAGGGTATTTTGGTAATTTTGTAAACCAAG
1 GGTATTTTGGTAATTTT-GTAAATCGAGGGTAAAATAGTAATTCTATAAACCAAG
* * *
55032652 GGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAG
1 GGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAACCAAG
**** * ** * * *
55032706 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAC
1 GGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAACCAAG
*
55032760 GGTACTTTGGTAATTTT
1 GGTATTTTGGTAATTTT
55032777 ACAATTTGAG
Statistics
Matches: 100, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
53 1 0.01
54 99 0.99
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAACCAAG
Found at i:55032771 original size:27 final size:27
Alignment explanation
Indices: 55032598--55032774 Score: 131
Period size: 27 Copynumber: 6.6 Consensus size: 27
55032588 TACAGACTAA
* *
55032598 GGTATTTTGGTAATTTTACT-AATCGAG
1 GGTAATTTGGTAATTCTA-TAAATCGAG
* * * * *
55032625 GGTATTTTGGTAATTTTGTAAACCAAG
1 GGTAATTTGGTAATTCTATAAATCGAG
* * * *
55032652 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTAATTTGGTAATTCTATAAATCGAG
** *
55032679 GGTAAAATAGTAATTCTATAAATCGAG
1 GGTAATTTGGTAATTCTATAAATCGAG
*** *
55032706 GGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAATTTGGTAATTCTATAAATCGAG
*** *
55032733 GGTAAAACGGTAATTCTATAAATCGAC
1 GGTAATTTGGTAATTCTATAAATCGAG
*
55032760 GGTACTTTGGTAATT
1 GGTAATTTGGTAATT
55032775 TTACAATTTG
Statistics
Matches: 129, Mismatches: 20, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 128 0.99
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.36
Consensus pattern (27 bp):
GGTAATTTGGTAATTCTATAAATCGAG
Found at i:55032788 original size:54 final size:54
Alignment explanation
Indices: 55032661--55032763 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 54
55032651 GGGTATTTTA
* * *
55032661 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGACGGTAAAACG
*
55032715 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGACGGTA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGACGGTA
55032764 CTTTGGTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGACGGTAAAACG
Found at i:55035991 original size:33 final size:33
Alignment explanation
Indices: 55035961--55036212 Score: 303
Period size: 33 Copynumber: 7.7 Consensus size: 33
55035951 TTTCCTTTTA
55035961 AAATGGTATACACAAAGTATACCTAACCTTTCC
1 AAATGGTATACACAAAGTATACCTAACCTTTCC
* * * * * *
55035994 AAGT-GTAAACATAAAGTGTACATAACCTTTTC
1 AAATGGTATACACAAAGTATACCTAACCTTTCC
*
55036026 AAATGGTATGCACAAAGTATACCTAACCTTTCC
1 AAATGGTATACACAAAGTATACCTAACCTTTCC
* * * * *
55036059 AAGT-GTACACACAAAGTGTACATAACCTTTTC
1 AAATGGTATACACAAAGTATACCTAACCTTTCC
*
55036091 AAATGGTATACACAAAGTATACCTAACATTTCC
1 AAATGGTATACACAAAGTATACCTAACCTTTCC
* * * * * *
55036124 AAGT-GTACATACAAAGTGTACATAACCTTTTC
1 AAATGGTATACACAAAGTATACCTAACCTTTCC
*
55036156 AAATGGTATACACAAAGTATACCTAATCTTTCC
1 AAATGGTATACACAAAGTATACCTAACCTTTCC
55036189 AAATGGTATACACAAAGTATACCT
1 AAATGGTATACACAAAGTATACCT
55036213 TTCCTTTTCA
Statistics
Matches: 177, Mismatches: 39, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
32 77 0.44
33 100 0.56
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (33 bp):
AAATGGTATACACAAAGTATACCTAACCTTTCC
Found at i:55036010 original size:65 final size:65
Alignment explanation
Indices: 55035922--55036206 Score: 426
Period size: 65 Copynumber: 4.4 Consensus size: 65
55035912 GTGTACGTTT
* * * ** *
55035922 CTTTCCGAGTGGTACACACAAAGTATTCATTTCCTTTTAAAATGGTATACACAAAGTATACCTAA
1 CTTTCCAAGT-GTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAA
55035987 C
65 C
* * *
55035988 CTTTCCAAGTGTAAACATAAAGTGTACATAACCTTTTCAAATGGTATGCACAAAGTATACCTAAC
1 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
55036053 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
1 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
* * *
55036118 ATTTCCAAGTGTACATACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAT
1 CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
* *
55036183 CTTTCCAAATGGTATACACAAAGT
1 CTTTCCAAGT-GTACACACAAAGT
55036207 ATACCTTTCC
Statistics
Matches: 199, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
65 179 0.90
66 20 0.10
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.30
Consensus pattern (65 bp):
CTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAATGGTATACACAAAGTATACCTAAC
Found at i:55036257 original size:29 final size:29
Alignment explanation
Indices: 55036215--55036284 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
55036205 GTATACCTTT
* * *
55036215 CCTTTTCACATTCAATTGCTGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
55036244 CCTTTTCACATTCAATAGCCGAAACTATC
1 CCTTTTCACATTCAATAGCCGAAACTATC
55036273 CCTTTTCACATT
1 CCTTTTCACATT
55036285 ATACATACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (29 bp):
CCTTTTCACATTCAATAGCCGAAACTATC
Found at i:55044467 original size:27 final size:27
Alignment explanation
Indices: 55044383--55044469 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
55044373 ATTTCCATTA
* * * * *
55044383 TAAGATAATCCTAATAGACCTCCGATC
1 TAAGATCATCCTAATGGGCTTCCCATC
* * *
55044410 TAAGATCATCCTGACGGGCTT-CCATAT
1 TAAGATCATCCTAATGGGCTTCCCAT-C
55044437 TAAGATCATCCTAATGGGCTTCCCATC
1 TAAGATCATCCTAATGGGCTTCCCATC
55044464 TAAGAT
1 TAAGAT
55044470 TGTCCTGGCA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 3 0.06
27 40 0.85
28 4 0.09
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
TAAGATCATCCTAATGGGCTTCCCATC
Found at i:55046822 original size:70 final size:70
Alignment explanation
Indices: 55046709--55046850 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 70
55046699 ATATTAAACT
55046709 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTGGATTACTCACGCAAGCTATCTA
1 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTGGATTACTCACGCAAGCTATCTA
55046774 ACTCA
66 ACTCA
*
55046779 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTGGATTGCTCACGCAAGCTATCTA
1 AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTGGATTACTCACGCAAGCTATCTA
55046844 ACTCA
66 ACTCA
55046849 AG
1 AG
55046851 TTTGCTCATA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (70 bp):
AGGATATATGGGACTAATTTGCTCACACAAGCTATAATTTCTGGATTACTCACGCAAGCTATCTA
ACTCA
Found at i:55049154 original size:20 final size:18
Alignment explanation
Indices: 55049129--55049167 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
55049119 TATATGATAT
55049129 ATATTAAGTTAATAAAGTAA
1 ATATTAAG-TAATAAA-TAA
55049149 ATATTAAGTAATAAATAA
1 ATATTAAGTAATAAATAA
55049167 A
1 A
55049168 GAAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
ATATTAAGTAATAAATAA
Found at i:55052306 original size:49 final size:49
Alignment explanation
Indices: 55052090--55052420 Score: 395
Period size: 49 Copynumber: 6.8 Consensus size: 49
55052080 TGAGGTCGCA
* ** * * *
55052090 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * **
55052141 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
55052191 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-G----G
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
55052235 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* *
55052284 TGTGTAGTACTAAGTGCAGGCTACTACTTGTACCGGATAATTGG-CAACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTC-ACG
* * * *
55052333 TGTGTAGCACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * * *
55052382 TGTTTAGTACTATGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATA
55052421 GCTTTGGCTA
Statistics
Matches: 247, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
44 42 0.17
45 1 0.00
48 2 0.01
49 125 0.51
50 45 0.18
51 32 0.13
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:55064696 original size:20 final size:20
Alignment explanation
Indices: 55064673--55064727 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
55064663 ATTTTCTTAC
55064673 CATTCCATTTACTTACTTTA
1 CATTCCATTTACTTACTTTA
* *
55064693 CATTTCATTTACTTACTTTC
1 CATTCCATTTACTTACTTTA
*
55064713 CATTCCATTCACTTA
1 CATTCCATTTACTTA
55064728 GCATTAGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (20 bp):
CATTCCATTTACTTACTTTA
Found at i:55066614 original size:16 final size:16
Alignment explanation
Indices: 55066576--55066614 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
55066566 ATGTATCAGT
* *
55066576 AAAAGCCGAAATGCTG
1 AAAAGCTGAAATGCCG
55066592 AAAAGCTGAAATGCCG
1 AAAAGCTGAAATGCCG
55066608 AAAAGCT
1 AAAAGCT
55066615 AAAAGTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.13
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:55066884 original size:29 final size:28
Alignment explanation
Indices: 55066829--55066949 Score: 125
Period size: 29 Copynumber: 4.2 Consensus size: 28
55066819 ATAAGCATGA
* * *
55066829 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
55066857 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
55066886 ATATACAGGTGATTTAGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
** * *
55066915 ATACGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
55066943 AGATAAA
1 ATATAAA
55066950 GGCATGTGAA
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 29 0.38
29 47 0.62
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:55068484 original size:35 final size:35
Alignment explanation
Indices: 55068445--55068519 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
55068435 AAACATCGGG
55068445 TTAATTATTAAACTAACTAAAACTTCAAAAAATTC
1 TTAATTATTAAACTAACTAAAACTTCAAAAAATTC
* *
55068480 TTAATTATTAAACTAACTAAAACTTCATAAAATTT
1 TTAATTATTAAACTAACTAAAACTTCAAAAAATTC
55068515 TTAAT
1 TTAAT
55068520 CCAAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (35 bp):
TTAATTATTAAACTAACTAAAACTTCAAAAAATTC
Found at i:55070066 original size:46 final size:46
Alignment explanation
Indices: 55069999--55070170 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
55069989 AACCCGCCCC
*
55069999 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
55070045 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
55070093 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
55070138 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55070171 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:55070111 original size:93 final size:93
Alignment explanation
Indices: 55070004--55070174 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
55069994 GCCCCTAAGT
* *
55070004 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55070069 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
55070097 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55070162 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55070175 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55070830 original size:22 final size:22
Alignment explanation
Indices: 55070788--55070831 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
55070778 CTATCATAAA
**
55070788 ATCAAAATACACAAATTTCACC
1 ATCAAAATACACAAAGGTCACC
55070810 ATCAAAATACACAAAGGTCACC
1 ATCAAAATACACAAAGGTCACC
55070832 TATGGGTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (22 bp):
ATCAAAATACACAAAGGTCACC
Found at i:55072176 original size:23 final size:24
Alignment explanation
Indices: 55072150--55072197 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
55072140 AACTACTTGA
55072150 AATTCC-ATACACAACATCTGAGC
1 AATTCCAATACACAACATCTGAGC
55072173 AATTCCAATACACAACATCTGAGC
1 AATTCCAATACACAACATCTGAGC
55072197 A
1 A
55072198 TGTCTTCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (24 bp):
AATTCCAATACACAACATCTGAGC
Found at i:55077468 original size:46 final size:46
Alignment explanation
Indices: 55077401--55077572 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
55077391 AACCCGCCCC
*
55077401 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
55077447 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
55077495 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
55077540 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
55077573 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:55077518 original size:93 final size:93
Alignment explanation
Indices: 55077406--55077576 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
55077396 GCCCCTAAGT
* *
55077406 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55077471 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
55077499 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
55077564 CGAGTTCGGATGC
66 CGAGTTCGGATGC
55077577 TCAACCATCT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:55080072 original size:30 final size:30
Alignment explanation
Indices: 55080038--55080096 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
55080028 AAGAAAATCG
* *
55080038 AATAAAGAAATCTAAGATAGAA-AAACCCAT
1 AATAAAGAAATCCAAAATA-AAGAAACCCAT
55080068 AATAAAGAAATCCAAAATAAAGAAACCCA
1 AATAAAGAAATCCAAAATAAAGAAACCCA
55080097 AGATACGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.63, C:0.15, G:0.08, T:0.14
Consensus pattern (30 bp):
AATAAAGAAATCCAAAATAAAGAAACCCAT
Found at i:55080088 original size:15 final size:15
Alignment explanation
Indices: 55080038--55080097 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
55080028 AAGAAAATCG
* *
55080038 AATAAAGAAATCTAA
1 AATAAAGAAACCCAA
* *
55080053 GATAGAA-AAACCCAT
1 AATA-AAGAAACCCAA
*
55080068 AATAAAGAAATCCAA
1 AATAAAGAAACCCAA
55080083 AATAAAGAAACCCAA
1 AATAAAGAAACCCAA
55080098 GATACGATAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.63, C:0.15, G:0.08, T:0.13
Consensus pattern (15 bp):
AATAAAGAAACCCAA
Found at i:55083157 original size:49 final size:49
Alignment explanation
Indices: 55083104--55083421 Score: 466
Period size: 49 Copynumber: 6.5 Consensus size: 49
55083094 CTGGTACGCA
* * * *
55083104 TAGTAGCCTACACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
55083153 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
55083202 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
55083251 TAGTAGCCTGCACTTAGTACT--ACAC---ACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * *
55083295 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATCATCTGTTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * *
55083345 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
55083396 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
55083422 TACGACCTTA
Statistics
Matches: 247, Mismatches: 14, Indels: 14
0.90 0.05 0.05
Matches are distributed among these distances:
44 40 0.16
46 4 0.02
47 4 0.02
49 118 0.48
50 44 0.18
51 36 0.15
52 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:55089729 original size:55 final size:55
Alignment explanation
Indices: 55089665--55089777 Score: 217
Period size: 55 Copynumber: 2.1 Consensus size: 55
55089655 AATCCTAGAC
*
55089665 CATGCATCCAAAAAAACTCAAACCTAAGAAAAAAGGAACAAAAGTTAATAAATGA
1 CATGCATCCAAAAAAACTCAAACCTAAGAAAAAAGAAACAAAAGTTAATAAATGA
55089720 CATGCATCCAAAAAAACTCAAACCTAAGAAAAAAGAAACAAAAGTTAATAAATGA
1 CATGCATCCAAAAAAACTCAAACCTAAGAAAAAAGAAACAAAAGTTAATAAATGA
55089775 CAT
1 CAT
55089778 ATGAAGGCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.58, C:0.17, G:0.10, T:0.15
Consensus pattern (55 bp):
CATGCATCCAAAAAAACTCAAACCTAAGAAAAAAGAAACAAAAGTTAATAAATGA
Found at i:55095818 original size:14 final size:15
Alignment explanation
Indices: 55095785--55095825 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
55095775 CTAATTTCCT
*
55095785 TAAACCCTAAA-CTC
1 TAAACCCTAAACCCC
55095799 TAAACCCTAAACCCC
1 TAAACCCTAAACCCC
*
55095814 T-AACCCTTAACC
1 TAAACCCTAAACC
55095826 TTTAACTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCTAAACCCC
Found at i:55095874 original size:7 final size:7
Alignment explanation
Indices: 55095864--55095950 Score: 66
Period size: 7 Copynumber: 12.0 Consensus size: 7
55095854 CCTATACACA
*
55095864 CCTAAAT
1 CCTAAAC
55095871 CCTAAAC
1 CCTAAAC
55095878 CCTAAAC
1 CCTAAAC
55095885 CCTATAAC
1 CCTA-AAC
*
55095893 CTGTAAAC
1 C-CTAAAC
*
55095901 CCTTAAC
1 CCTAAAC
* *
55095908 TCTTAACC
1 -CCTAAAC
55095916 CCTAAAC
1 CCTAAAC
*
55095923 CCTAAGC
1 CCTAAAC
* *
55095930 CATAAAA
1 CCTAAAC
*
55095937 CATAAAC
1 CCTAAAC
55095944 CCTAAAC
1 CCTAAAC
55095951 TTCTACCCTT
Statistics
Matches: 62, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
7 48 0.77
8 12 0.19
9 2 0.03
ACGTcount: A:0.41, C:0.36, G:0.02, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:55095883 original size:14 final size:15
Alignment explanation
Indices: 55095854--55095927 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 15
55095844 TCCCCTAAGA
*
55095854 CCTATACACACCTAAAT
1 CCTATA-AC-CCTAAAC
55095871 CCTA-AACCCTAAAC
1 CCTATAACCCTAAAC
*
55095885 CCTATAACCTGTAAAC
1 CCTATAACC-CTAAAC
* *
55095901 CCT-TAACTCTTAACC
1 CCTATAAC-CCTAAAC
55095916 CCTA-AACCCTAA
1 CCTATAACCCTAA
55095928 GCCATAAAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
14 14 0.29
15 20 0.42
16 10 0.21
17 4 0.08
ACGTcount: A:0.38, C:0.38, G:0.01, T:0.23
Consensus pattern (15 bp):
CCTATAACCCTAAAC
Found at i:55095888 original size:38 final size:38
Alignment explanation
Indices: 55095846--55095935 Score: 89
Period size: 38 Copynumber: 2.4 Consensus size: 38
55095836 AACCCATGTC
*
55095846 CCCTAAGACCTATACACACC-TAAATCCTAAACCCTAAA
1 CCCTAAGACCTATAAAC-CCTTAAATCCTAAACCCTAAA
* * * *
55095884 CCCTATA-ACCTGTAAACCCTTAACTCTTAACCCCTAAA
1 CCCTA-AGACCTATAAACCCTTAAATCCTAAACCCTAAA
55095922 CCCTAAG-CC-ATAAA
1 CCCTAAGACCTATAAA
55095936 ACATAAACCC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
36 4 0.09
37 5 0.12
38 33 0.77
39 1 0.02
ACGTcount: A:0.39, C:0.37, G:0.03, T:0.21
Consensus pattern (38 bp):
CCCTAAGACCTATAAACCCTTAAATCCTAAACCCTAAA
Found at i:55096304 original size:14 final size:15
Alignment explanation
Indices: 55096259--55096309 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
55096249 ATGCCTATGG
* *
55096259 CCATTAAACTTTAAA
1 CCATAAAACCTTAAA
*
55096274 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
*
55096289 CCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
55096303 CCTTAAA
1 CCATAAA
55096310 TATTAAACCC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:55096490 original size:38 final size:38
Alignment explanation
Indices: 55096448--55096533 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 38
55096438 GGTTTAAGGT
* *
55096448 TTTAGAGGTTATAGTTTAGTCTTTATGGTTTTTT-AGGG
1 TTTAG-GGTTATAGATTAGTCTTTATGATTTTTTGAGGG
* *
55096486 TTTAGGGGTTATAGATTAGTGTTTATGATTTTTTGGGGG
1 TTTA-GGGTTATAGATTAGTCTTTATGATTTTTTGAGGG
55096525 TTTAGGGTT
1 TTTAGGGTT
55096534 TTAGGGATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 34 0.81
39 8 0.19
ACGTcount: A:0.17, C:0.01, G:0.30, T:0.51
Consensus pattern (38 bp):
TTTAGGGTTATAGATTAGTCTTTATGATTTTTTGAGGG
Found at i:55096666 original size:41 final size:41
Alignment explanation
Indices: 55096550--55096720 Score: 170
Period size: 41 Copynumber: 4.2 Consensus size: 41
55096540 ATTATATGAC
* ** * *
55096550 TTTTAGCGGCATTTTGACCACAAACGCCATTATTGCTTTATT
1 TTTTAGCGGCATTTT-ACCAAAAACGCCGCTATTGCTCTGTT
* * *
55096592 TTTTAGCGGCGTTTT---AAAAACACCGCTATTGCTCTGGT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
*
55096630 TTTTAGCGGCATTTTACCAAAAACGCCGCTAATGCTCTGTT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
* ** * * *
55096671 TTTTAGTGGTGTTTTACCAAAAATGCCGCTATTACTCT-AT
1 TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
55096711 TTTTAGCGGC
1 TTTTAGCGGC
55096721 GTTATTGCTC
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
38 30 0.29
40 9 0.09
41 52 0.50
42 14 0.13
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCATTTTACCAAAAACGCCGCTATTGCTCTGTT
Found at i:55096685 original size:79 final size:80
Alignment explanation
Indices: 55096550--55096720 Score: 195
Period size: 79 Copynumber: 2.1 Consensus size: 80
55096540 ATTATATGAC
* * * *
55096550 TTTTAGCGGCATTTTGACCACAAACGCCATTATTGCTTTATTTTTTAGCGGCGTTTTA-AAAACA
1 TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTACAAAA-A
* *
55096614 -CCGCTATTGCTCTGGT
65 GCCGCTATTACTCT-AT
* * * *
55096630 TTTTAGCGGCATTTT-ACCAAAAACGCCGCTAATGCTCTGTTTTTTAGTGGTGTTTTACCAAAAA
1 TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTA-CAAAAA
55096694 TGCCGCTATTACTCTAT
65 -GCCGCTATTACTCTAT
55096711 TTTTAGCGGC
1 TTTTAGCGGC
55096721 GTTATTGCTC
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
79 34 0.44
80 16 0.21
81 15 0.19
82 12 0.16
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.39
Consensus pattern (80 bp):
TTTTAGCGGCATTTTGACCAAAAACGCCACTAATGCTCTATTTTTTAGCGGCGTTTTACAAAAAG
CCGCTATTACTCTAT
Found at i:55096731 original size:23 final size:23
Alignment explanation
Indices: 55096700--55096752 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
55096690 AAAATGCCGC
* *
55096700 TATTACTCTATTTTTAGCGGCGT
1 TATTGCTCTATTTTAAGCGGCGT
*
55096723 TATTGCTCTGTTTTAAGCGGCGT
1 TATTGCTCTATTTTAAGCGGCGT
*
55096746 TTTTGCT
1 TATTGCT
55096753 AAAAAGCCGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (23 bp):
TATTGCTCTATTTTAAGCGGCGT
Found at i:55099252 original size:31 final size:31
Alignment explanation
Indices: 55099208--55099286 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
55099198 TTTAACGATT
55099208 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* * *
55099239 ATTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
55099270 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
55099287 ACTGTAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:55099357 original size:42 final size:42
Alignment explanation
Indices: 55099310--55099401 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
55099300 TGGCCCATAG
* *** *
55099310 GCCCATTTCAATATCACATGTAATGTTAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
55099352 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGTAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
55099394 GCCCATTT
1 GCCCATTT
55099402 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:55099589 original size:26 final size:26
Alignment explanation
Indices: 55099546--55099643 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
55099536 TCTCTTTAAT
55099546 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* **
55099571 ACCTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
55099597 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
55099623 AACTGGGGCGTAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
55099644 GCACTTCCTC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
25 9 0.14
26 54 0.86
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:55099619 original size:52 final size:51
Alignment explanation
Indices: 55099546--55099643 Score: 160
Period size: 52 Copynumber: 1.9 Consensus size: 51
55099536 TCTCTTTAAT
* *
55099546 AACTGGGGCAAAGCCCTTTTCGGTAACCTGGGGCATAAGCCCTTTTCAATA
1 AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
*
55099597 AACTAGGGCATAAGCCCTTTTCGGTAAACTGGGGCGTAAGCCCTTTT
1 AACTAGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
55099644 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
51 9 0.21
52 34 0.79
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (51 bp):
AACTAGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:55100476 original size:27 final size:27
Alignment explanation
Indices: 55100446--55100510 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
55100436 GGGCATATTC
*
55100446 GTCATTTTACGCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
55100473 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCCTACAGGGGCTTTACG
*
55100500 GTCTTTTTACC
1 GTCATTTTACC
55100511 TAATAGGGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCTTTACG
Found at i:55100594 original size:27 final size:27
Alignment explanation
Indices: 55100564--55100766 Score: 117
Period size: 27 Copynumber: 7.4 Consensus size: 27
55100554 GTAAATCTAC
55100564 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTGT
* *
55100591 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACTAAGGGTATTTC-AGTAATTTTGT
* * *
55100617 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAACT-AAGGGTATTTCAGTAATTTTGT
* ** **
55100647 AAA-TCAGGGGTATTTTGGTAATTTTAC
1 AAACT-AAGGGTATTTCAGTAATTTTGT
* * * **
55100674 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAACTAAGGGTATTTCAGTAATTTTGT
* *
55100701 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTGT
* * *** *
55100728 AAATTGAGGGTAAAACAGTAATTGTGT
1 AAACTAAGGGTATTTCAGTAATTTTGT
55100755 AAA-TCAAGGGTA
1 AAACT-AAGGGTA
55100767 AAATAGTAAT
Statistics
Matches: 136, Mismatches: 32, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
26 2 0.01
27 109 0.80
28 8 0.06
29 16 0.12
30 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTGT
Found at i:55100712 original size:54 final size:54
Alignment explanation
Indices: 55100541--55100766 Score: 193
Period size: 54 Copynumber: 4.1 Consensus size: 54
55100531 TTTTATCCTA
* * * *
55100541 CAAGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTGTAAAC
* * * * * * *
55100595 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-TTAAGGGTATTTCAGTAATTTTGTAAAC
* * * **
55100651 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTGTAAAC
* ** * *** * *
55100705 CAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACAGTAATTGTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTGTAAAC
55100759 CAAGGGTA
1 CAAGGGTA
55100767 AAATAGTAAT
Statistics
Matches: 134, Mismatches: 34, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
54 83 0.62
55 16 0.12
56 35 0.26
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:55100767 original size:27 final size:27
Alignment explanation
Indices: 55100717--55100928 Score: 246
Period size: 27 Copynumber: 7.9 Consensus size: 27
55100707 AGGGTATTTT
* *
55100717 AGTAATTTTGTAAATTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
55100744 AGTAATTGTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
55100771 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
55100798 GGTAATTTTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
55100825 GGTAATTCTATAAGTCGAGAGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
55100852 GGTAATTATGTAAATCG-GGGATAAAAC
1 AGTAATTCTGTAAATCGAGGG-TAAAAC
* *
55100879 AGTAATTATGTAAATCGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
55100906 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
55100929 CTTTGGTAAT
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 158 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:55100939 original size:81 final size:81
Alignment explanation
Indices: 55100717--55100928 Score: 273
Period size: 81 Copynumber: 2.6 Consensus size: 81
55100707 AGGGTATTTT
* * * * * *
55100717 AGTAATTTTGTAAATTGAGGGTAAAACAGTAATTGTGTAAATCAAGGGTAAAATAGTAATTCTGT
1 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGT
55100782 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * * *
55100798 GGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAGTCGAGAGTAAAACGGTAATTATGT
1 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGT
55100863 AAATCG-GGGATAAAAC
66 AAATCGAGGG-TAAAAC
* * *
55100879 AGTAATTATGTAAATCGGGGGTAAAACGGTAATTCTGTAAATCGGGGGTA
1 AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
55100929 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 3 0.03
81 107 0.97
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.28
Consensus pattern (81 bp):
AGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTATGT
AAATCGAGGGTAAAAC
Found at i:55100955 original size:27 final size:27
Alignment explanation
Indices: 55100934--55101023 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
55100924 GGGTACTTTG
*
55100934 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
55100961 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * * *
55100988 ATATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
55101015 GTAATTTTA
1 GTAATTTTA
55101024 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:55103844 original size:43 final size:43
Alignment explanation
Indices: 55103797--55103917 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 43
55103787 CCTTGATTGA
*
55103797 GATTTACGTATAAGACCATGTCTGGGACATCGGCATC-GTATCT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATAT-T
* * **
55103840 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCAATATT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATATT
* * * *
55103882 GAATTACATATAAGACCACGTCTGGGACGTCGGCAT
1 GATTTACGTATAAGACCATGTCTGGGACATCGGCAT
55103918 TGTACTTGTT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (43 bp):
GATTTACGTATAAGACCATGTCTGGGACATCGGCATCAATATT
Found at i:55106706 original size:10 final size:10
Alignment explanation
Indices: 55106693--55106731 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
55106683 ATATATGAAT
55106693 ATATCATGGC
1 ATATCATGGC
55106703 ATATCATGTGC
1 ATATCATG-GC
55106714 ATATCATGGC
1 ATATCATGGC
55106724 ATATCATG
1 ATATCATG
55106732 TACAAATCAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:55106719 original size:21 final size:21
Alignment explanation
Indices: 55106693--55106732 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
55106683 ATATATGAAT
55106693 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
55106714 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
55106733 ACAAATCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:55106740 original size:21 final size:21
Alignment explanation
Indices: 55106695--55106740 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
55106685 ATATGAATAT
* *
55106695 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGTACAA
55106716 ATCATGGCATATCATGTACAA
1 ATCATGGCATATCATGTACAA
55106737 ATCA
1 ATCA
55106741 GTATCACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ATCATGGCATATCATGTACAA
Found at i:55117695 original size:27 final size:27
Alignment explanation
Indices: 55117657--55117709 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
55117647 AGTCATACAT
* *
55117657 CTCATAAGGGCATAATAGTTATTTTAC
1 CTCAAAAGGGCATAATAGTCATTTTAC
55117684 CTCAAAAGGGCATAATAGTCATTTTA
1 CTCAAAAGGGCATAATAGTCATTTTA
55117710 TCAATTTGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (27 bp):
CTCAAAAGGGCATAATAGTCATTTTAC
Found at i:55124812 original size:40 final size:39
Alignment explanation
Indices: 55124657--55124820 Score: 240
Period size: 39 Copynumber: 4.2 Consensus size: 39
55124647 GAAGGCACTC
* *
55124657 GTGCTGGTGTTATATCCGGGC-AAAGTCTCGCAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
*
55124695 GTGCTGGTATTATATCCGGGCTAAAGTCCCACAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
55124734 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
1 GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
* * * *
55124773 GTGTTGGTATTATATCCGAGCTTAAAGTCCTGCATGCTTT
1 GTGCTGGTATTATATCCGGGC-TAAAGTCCCGCAGGCTTT
*
55124813 GTGGTGGT
1 GTGCTGGT
55124821 GATTGGATTT
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 20 0.17
39 72 0.63
40 23 0.20
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.34
Consensus pattern (39 bp):
GTGCTGGTATTATATCCGGGCTAAAGTCCCGCAGGCTTT
Found at i:55126571 original size:21 final size:23
Alignment explanation
Indices: 55126531--55126573 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
55126521 CACCCCTGGC
55126531 CTGACCACGGCCTCTCGGTGGCCG
1 CTGACCAC-GCCTCTCGGTGGCCG
55126555 CTGACCAC-CCT-TCGGTGGC
1 CTGACCACGCCTCTCGGTGGC
55126574 TGTACATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
24 8 0.42
ACGTcount: A:0.09, C:0.42, G:0.30, T:0.19
Consensus pattern (23 bp):
CTGACCACGCCTCTCGGTGGCCG
Found at i:55128887 original size:27 final size:27
Alignment explanation
Indices: 55128855--55128907 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
55128845 AGTCATACAT
* *
55128855 CTCATAAGGGCATAATAGTCATTTTAC
1 CTCATAAGGGCATAACAATCATTTTAC
*
55128882 CTCATAGGGGCATAACAATCATTTTA
1 CTCATAAGGGCATAACAATCATTTTA
55128908 TCAATTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (27 bp):
CTCATAAGGGCATAACAATCATTTTAC
Found at i:55139688 original size:27 final size:27
Alignment explanation
Indices: 55139656--55139709 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
55139646 ACCACCTAAT
* *
55139656 TGATAAAATGACTATTACGCCCCTATG
1 TGATAAAATAACTAGTACGCCCCTATG
* *
55139683 TGATAAAATAACTGGTATGCCCCTATG
1 TGATAAAATAACTAGTACGCCCCTATG
55139710 AGATGAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (27 bp):
TGATAAAATAACTAGTACGCCCCTATG
Found at i:55139784 original size:5 final size:5
Alignment explanation
Indices: 55139774--55139807 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
55139764 TTATTATTAT
55139774 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC ATGA
1 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC ATGA
55139808 TGCATGATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (5 bp):
ATGAC
Found at i:55139823 original size:12 final size:12
Alignment explanation
Indices: 55139778--55139825 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 12
55139768 TATTATATGA
55139778 CATGACATGA--
1 CATGACATGATG
55139788 CATGACATGA--
1 CATGACATGATG
55139798 CATGACATGATG
1 CATGACATGATG
* *
55139810 CATGATATGTTG
1 CATGACATGATG
55139822 CATG
1 CATG
55139826 GGGATGGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 20 0.59
12 14 0.41
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (12 bp):
CATGACATGATG
Found at i:55161116 original size:33 final size:33
Alignment explanation
Indices: 55161079--55161148 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
55161069 TGAATAACAT
* * *
55161079 AGTATCGGCATAGTCTGGGCCAAAGCCCTATTC
1 AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
* *
55161112 AGTATCAGTACAGTCTGGGCCTAAGCCCTATAC
1 AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
55161145 AGTA
1 AGTA
55161149 GCAGTGTGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (33 bp):
AGTATCAGCACAGTCTGGGCCAAAGCCCTATAC
Found at i:55161175 original size:28 final size:27
Alignment explanation
Indices: 55161117--55161176 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
55161107 TATTCAGTAT
* * *
55161117 CAGTACAGTCTGGGCCTAAGCCCTATA
1 CAGTACAGTCTGAGCCTAAACCCAATA
* *
55161144 CAGTAGCAGTGTGAGCCTAAACCCAATG
1 CAGTA-CAGTCTGAGCCTAAACCCAATA
55161172 CAGTA
1 CAGTA
55161177 ACAATACAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (27 bp):
CAGTACAGTCTGAGCCTAAACCCAATA
Found at i:55161335 original size:27 final size:27
Alignment explanation
Indices: 55161311--55161382 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
55161301 AGGAAAGCTG
55161311 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
* * * *
55161338 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGAAACAGTAAATGTGGCAAAGCCA
*
55161365 CCAGTAAA-AGTGAATGTG
1 CCAG-AAACAGTAAATGTG
55161383 ACATAGTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
27 35 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGTAAATGTGGCAAAGCCA
Found at i:55161387 original size:27 final size:26
Alignment explanation
Indices: 55161323--55161397 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 26
55161313 AGAAACAGTA
* **
55161323 AATGTGGCAAAGCCACCAGTATCAGT
1 AATGTGGCATAGCCACCAGTAAAAGT
55161349 AATTGTGGCATAGCCACCAGTAAAAGT
1 AA-TGTGGCATAGCCACCAGTAAAAGT
* *
55161376 GAATGTGACATAGTCACCAGTA
1 -AATGTGGCATAGCCACCAGTA
55161398 CAAAACTTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.05
27 38 0.90
28 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
AATGTGGCATAGCCACCAGTAAAAGT
Found at i:55161556 original size:26 final size:26
Alignment explanation
Indices: 55161523--55161629 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 26
55161513 TCATACAAAA
* *
55161523 CATA-AGGGCATAATTGTCATTTTAC
1 CATACAGGGCATTATGGTCATTTTAC
* *
55161548 CATACAGGGGTATTATGGTCACTTTAC
1 CATACA-GGGCATTATGGTCATTTTAC
* * *
55161575 CCTACAAGGGCTTTACGGTCATTTTAC
1 CATAC-AGGGCATTATGGTCATTTTAC
* * *
55161602 CCTACAGGGACATTACGGTCTTTTTAC
1 CATACAGGG-CATTATGGTCATTTTAC
55161629 C
1 C
55161630 TATTAGGGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
25 4 0.06
26 5 0.07
27 57 0.85
28 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (26 bp):
CATACAGGGCATTATGGTCATTTTAC
Found at i:55161568 original size:27 final size:27
Alignment explanation
Indices: 55161538--55161642 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
55161528 GGGCATAATT
* *
55161538 GTCATTTTACCATACAGGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
55161565 GTCACTTTACCCTACAAGGGCT-TTACG
1 GTCATTTTACCCTAC-AGGGGTATTACG
**
55161592 GTCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
55161619 GTCTTTTTA-CCTATTAGGGGTATT
1 GTCATTTTACCCTA-CAGGGGTATT
55161643 TTAGTCATTT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
26 8 0.12
27 51 0.80
28 5 0.08
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:55161690 original size:27 final size:27
Alignment explanation
Indices: 55161660--55161725 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
55161650 TTTCATCCTA
* *
55161660 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAAATCTACAAAC
* *
55161687 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAAATCTACAAAC
*
55161714 CAATGGTATTTT
1 CAAGGGTATTTT
55161726 TATAATTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAAATCTACAAAC
Found at i:55161731 original size:27 final size:27
Alignment explanation
Indices: 55161680--55161888 Score: 100
Period size: 27 Copynumber: 7.7 Consensus size: 27
55161670 TTGGTAAATC
55161680 TACAAACCAAGGGTA-TTTTAGTAATTT
1 TACAAACCAAGGGTATTTTTA-TAATTT
*
55161707 TACAAACCAATGGTATTTTTATAATTT
1 TACAAACCAAGGGTATTTTTATAATTT
** * *
55161734 TTGAAAGTCAAGGGTATTTTTGTAATTT
1 TACAAA-CCAAGGGTATTTTTATAATTT
** ***
55161762 T-CTAAATTAAGGGTATTTCGGTAATTT
1 TAC-AAACCAAGGGTATTTTTATAATTT
* * * ** * *
55161789 CACAAATCAGGGGTATTTTGGTAACTC
1 TACAAACCAAGGGTATTTTTATAATTT
* * * **
55161816 TACAAATCGAGGGTGTTTTGGTAATTT
1 TACAAACCAAGGGTATTTTTATAATTT
* * *
55161843 TACAAGTCGAA-GGTATTTTGATAATTT
1 TACAA-ACCAAGGGTATTTTTATAATTT
** * *
55161870 TGTAAACTAATGGTATTTT
1 TACAAACCAAGGGTATTTT
55161889 GGTAATTCTA
Statistics
Matches: 144, Mismatches: 32, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 3 0.02
27 112 0.78
28 29 0.20
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTTTATAATTT
Found at i:55161735 original size:28 final size:28
Alignment explanation
Indices: 55161680--55161762 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
55161670 TTGGTAAATC
55161680 TACAAACCAAGGGTA-TTTTAGTAA-TTT
1 TACAAACCAAGGGTATTTTTA-TAATTTT
*
55161707 TACAAACCAATGGTATTTTTATAATTTT
1 TACAAACCAAGGGTATTTTTATAATTTT
** *
55161735 TGA-AAGTCAAGGGTATTTTTGTAATTTT
1 T-ACAAACCAAGGGTATTTTTATAATTTT
55161763 CTAAATTAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
27 17 0.35
28 30 0.62
29 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.43
Consensus pattern (28 bp):
TACAAACCAAGGGTATTTTTATAATTTT
Found at i:55161914 original size:27 final size:27
Alignment explanation
Indices: 55161890--55161959 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
55161880 TGGTATTTTG
55161890 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
55161917 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* * *
55161944 ATAATGCTAGCCTACA
1 GTAATTCTACCCTACA
55161960 AATATGAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:55164540 original size:27 final size:27
Alignment explanation
Indices: 55164474--55164544 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 27
55164464 CCTAATTGAC
*
55164474 AAAATGACTATTATGCCTCTGTGTGAT
1 AAAATGACTATTATGCCCCTGTGTGAT
55164501 -AAATGACTATTATGCCCCTGTGTGAT
1 AAAATGACTATTATGCCCCTGTGTGAT
* *
55164527 AAAATGGCTGTTATGCCC
1 AAAATGACTATTATGCCC
55164545 TATTAGATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 25 0.62
27 15 0.38
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (27 bp):
AAAATGACTATTATGCCCCTGTGTGAT
Found at i:55169098 original size:14 final size:15
Alignment explanation
Indices: 55169079--55169111 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
55169069 TTAAACTCTT
55169079 AAAA-CCTAAGCCCA
1 AAAACCCTAAGCCCA
*
55169093 AAAACCCTAAGCCTA
1 AAAACCCTAAGCCCA
55169108 AAAA
1 AAAA
55169112 ATAAACCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.55, C:0.30, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAACCCTAAGCCCA
Found at i:55176661 original size:95 final size:96
Alignment explanation
Indices: 55176529--55176718 Score: 292
Period size: 95 Copynumber: 2.0 Consensus size: 96
55176519 CAAAATTTCA
* * *
55176529 AGATAAGGTCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCACTGATATGAGACCCCGTATA
1 AGATAAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCCCATATA
*
55176594 AGACCATATCTAGGATATGGCA-TGGCATCG
66 AGACCATATCTAGGACATGGCATTGGCATCG
* * *
55176624 AGATGAGGTCCCGTATAAGACCATGTGTGGGACATGGCATCGGCACCGATATGAGACCCCATGTA
1 AGATAAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCCCATATA
* *
55176689 AGACCATGTCTTGGACATGGCATTGGCATC
66 AGACCATATCTAGGACATGGCATTGGCATC
55176719 AATATGTGTG
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
95 78 0.92
96 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (96 bp):
AGATAAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAGACCCCATATA
AGACCATATCTAGGACATGGCATTGGCATCG
Found at i:55176724 original size:48 final size:48
Alignment explanation
Indices: 55176538--55176724 Score: 225
Period size: 48 Copynumber: 3.9 Consensus size: 48
55176528 AAGATAAGGT
*
55176538 CCCGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CTGATATGAGAC
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCATC-GATATGAGAC
* * * * **
55176586 CCCGTATAAGACCATATCTAGGATATGGCAT-GGCATCGAGATGAGGT
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAC
* *
55176633 CCCGTATAAGACCATGTGTGGGACATGGCATCGGCACCGATATGAGAC
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAC
* * * * *
55176681 CCCATGTAAGACCATGTCTTGGACATGGCATTGGCATCAATATG
1 CCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATG
55176725 TGTGTAAGTA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
47 38 0.33
48 77 0.67
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (48 bp):
CCCGTATAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAC
Found at i:55176994 original size:48 final size:48
Alignment explanation
Indices: 55176923--55177228 Score: 274
Period size: 48 Copynumber: 6.5 Consensus size: 48
55176913 TGAGATCCCG
*
55176923 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAC
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCAC
* * * *
55176971 TGTAAGACCATGTTTGGGACATGGCATCGATGTTGATATGTGAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCAC
* * * * * *
55177019 TGTAAGACCAAGTCTAGGACATGGCATC-AGCATTGATATGTGTGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CGTTGATATGTGAGCCAC
* * ***
55177067 TGTAAGACCATGTCTGGGACATGGCATCGACGCTGATATGAGA-TTTC
1 TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCAC
* * ***
55177114 -GTAGAAGACCATGTCTGGGACATGGCATCGACGCTGATATGAGA-TTTC
1 TGT--AAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCAC
* * *
55177162 -GTAGAAGACCATGTCTGGGATATGGCATCGA---T-ATGTG-GATCCA-
1 TGT--AAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCAC
55177205 TGTAAGACCATGTCTGGGACATGG
1 TGTAAGACCATGTCTGGGACATGG
55177229 ATTTGGCACT
Statistics
Matches: 224, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
42 20 0.09
43 2 0.01
44 6 0.03
45 1 0.00
46 2 0.01
47 2 0.01
48 190 0.85
49 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACGTTGATATGTGAGCCAC
Found at i:55177086 original size:96 final size:95
Alignment explanation
Indices: 55176912--55177228 Score: 305
Period size: 96 Copynumber: 3.4 Consensus size: 95
55176902 ACCATGGTTA
** * * * *
55176912 ATGAGATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCACTGTAAG
1 ATGAGATGTCGTGTAAGACCATGTCTGGGACATGGCATCAGC-TTGATATGTGTGCTAGTGTAAG
* *
55176977 ACCATGTTTGGGACATGGCATCGATGTTGAT
65 ACCATGTCTGGGACATGGCATCGATGCTGAT
* * *
55177008 ATGTGA-GTCAGTGTAAGACCAAGTCTAGGACATGGCATCAGCATTGATATGTGTGCTAGTGTAA
1 ATGAGATGTC-GTGTAAGACCATGTCTGGGACATGGCATCAGC-TTGATATGTGTGCTAGTGTAA
*
55177072 GACCATGTCTGGGACATGGCATCGACGCTGAT
64 GACCATGTCTGGGACATGGCATCGATGCTGAT
* * * *
55177104 ATGAGATTTCGTAG-AAGACCATGTCTGGGACATGGCATCGACGC-TGATATGAGAT-TTCGTAG
1 ATGAGATGTCGT-GTAAGACCATGTCTGGGACATGGCATC-A-GCTTGATATGTG-TGCTAGT-G
*
55177166 -AAGACCATGTCTGGGATATGGCATCGA---T-AT
61 TAAGACCATGTCTGGGACATGGCATCGATGCTGAT
* * *
55177196 GTG-GAT-CCATGTAAGACCATGTCTGGGACATGG
1 ATGAGATGTCGTGTAAGACCATGTCTGGGACATGG
55177229 ATTTGGCACT
Statistics
Matches: 189, Mismatches: 24, Indels: 22
0.80 0.10 0.09
Matches are distributed among these distances:
89 1 0.01
90 23 0.12
91 3 0.02
92 4 0.02
93 1 0.01
95 1 0.01
96 148 0.78
97 6 0.03
98 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (95 bp):
ATGAGATGTCGTGTAAGACCATGTCTGGGACATGGCATCAGCTTGATATGTGTGCTAGTGTAAGA
CCATGTCTGGGACATGGCATCGATGCTGAT
Found at i:55177187 original size:144 final size:139
Alignment explanation
Indices: 55176916--55177228 Score: 341
Period size: 144 Copynumber: 2.2 Consensus size: 139
55176906 TGGTTAATGA
* * * *
55176916 GATCCCGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCACTGTAAGACCA
1 GATCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCTGATATGAGAGCCACTGTAAGACCA
* * * *
55176981 TGTTTGGGACATGGCATCGATGTTGATATGTGAGTCAGTGTAAGACCAAGTCTAGGACATGGCAT
66 TGTCTGGGACATGGCATCGACGCTGATATGAGAGTCAGTGTAAGACCAAGTCTAGGACATGGCAT
55177046 CAGCATTGATATG
131 C-G-A-T-ATATG
* ***
55177059 TG-TGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGCTGATATGAGA-TTTC-GTAGAAG
1 -GAT-CCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCTGATATGAGAGCCACTGT--AAG
* * * *
55177121 ACCATGTCTGGGACATGGCATCGACGCTGATATGAGATTTC-GTAG-AAGACCATGTCTGGGATA
62 ACCATGTCTGGGACATGGCATCGACGCTGATATGAGA-GTCAGT-GTAAGACCAAGTCTAGGACA
*
55177184 TGGCATCGATATGTG
125 TGGCATCGATATATG
55177199 GATCCA-TGTAAGACCATGTCTGGGACATGG
1 GATCCAGTGTAAGACCATGTCTGGGACATGG
55177229 ATTTGGCACT
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
138 24 0.17
139 3 0.02
140 5 0.03
141 1 0.01
142 3 0.02
143 3 0.02
144 103 0.71
145 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.27
Consensus pattern (139 bp):
GATCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGCTGATATGAGAGCCACTGTAAGACCA
TGTCTGGGACATGGCATCGACGCTGATATGAGAGTCAGTGTAAGACCAAGTCTAGGACATGGCAT
CGATATATG
Found at i:55192244 original size:9 final size:9
Alignment explanation
Indices: 55192223--55192252 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
55192213 ATCTGTCCCA
55192223 TGAATCA-T
1 TGAATCATT
55192231 TGAATCATT
1 TGAATCATT
55192240 TGAATCATT
1 TGAATCATT
55192249 TGAA
1 TGAA
55192253 CAAACTGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (9 bp):
TGAATCATT
Found at i:55193468 original size:16 final size:17
Alignment explanation
Indices: 55193443--55193477 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
55193433 ATAGTAACGA
*
55193443 TATCCGTCTTAGGT-TT
1 TATCCCTCTTAGGTATT
55193459 TATCCCTCTTAGGTATT
1 TATCCCTCTTAGGTATT
55193476 TA
1 TA
55193478 GGGGATTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.17, C:0.20, G:0.14, T:0.49
Consensus pattern (17 bp):
TATCCCTCTTAGGTATT
Found at i:55195902 original size:10 final size:10
Alignment explanation
Indices: 55195891--55195927 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
55195881 ATTTAAAGAG
55195891 ATAAATAA-A
1 ATAAATAATA
55195900 GATAAA-AATA
1 -ATAAATAATA
55195910 ATAAATAATA
1 ATAAATAATA
55195920 ATAAATAA
1 ATAAATAA
55195928 AAGTCTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
ATAAATAATA
Found at i:55199384 original size:183 final size:184
Alignment explanation
Indices: 55199075--55199442 Score: 666
Period size: 183 Copynumber: 2.0 Consensus size: 184
55199065 ACGGGTTTCT
*
55199075 TCTAGTCATAAACTATAAAAACCTGCCAGAAGCAAATAAAAGAAAATTTTAATAATTTAAGAAAA
1 TCTAGTCATAAACTATAAAAACCTGCCAGAAGAAAATAAAAGAAAATTTTAATAATTTAAGAAAA
*
55199140 AATAAATTTAAATTGCAATAAAATTAAATGGCTAAAGTAATAAAAATTAAGTGTTCCTAATATCT
66 AATAAATTTAAATTGCAATAAAAATAAATGGCTAAAGTAATAAAAATTAAGTGTTCCTAATATCT
** *
55199205 TAGTCGCCGGCAATGGTACGAAAAACTTGATGCACGTGATAAGTTTTATATTTA
131 TAGTCGCCGGCAACAGTACCAAAAACTTGATGCACGTGATAAGTTTTATATTTA
* *
55199259 TCTAGTCATAAACTAT-AAAACTTGCCAGAAGAAAATAAAAGAAAATTTTAATAATTTAAGCAAA
1 TCTAGTCATAAACTATAAAAACCTGCCAGAAGAAAATAAAAGAAAATTTTAATAATTTAAGAAAA
55199323 AATAAATTTAAATTGCAATAAAAATAAATGGCTAAAGTAATAAAAATTAAGTGTTCCTAATATCT
66 AATAAATTTAAATTGCAATAAAAATAAATGGCTAAAGTAATAAAAATTAAGTGTTCCTAATATCT
55199388 TAGTCGCCGGCAACAGTACCAAAAACTTGATGCACGTGATAAGTTTTATATTTA
131 TAGTCGCCGGCAACAGTACCAAAAACTTGATGCACGTGATAAGTTTTATATTTA
55199442 T
1 T
55199443 GATTGATTGT
Statistics
Matches: 177, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
183 161 0.91
184 16 0.09
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (184 bp):
TCTAGTCATAAACTATAAAAACCTGCCAGAAGAAAATAAAAGAAAATTTTAATAATTTAAGAAAA
AATAAATTTAAATTGCAATAAAAATAAATGGCTAAAGTAATAAAAATTAAGTGTTCCTAATATCT
TAGTCGCCGGCAACAGTACCAAAAACTTGATGCACGTGATAAGTTTTATATTTA
Found at i:55201650 original size:67 final size:67
Alignment explanation
Indices: 55201528--55201681 Score: 249
Period size: 67 Copynumber: 2.3 Consensus size: 67
55201518 GAGGAAGCGT
55201528 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGATGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGATGACTTCGTCACAA
55201593 TA
66 TA
* * *
55201595 TCTGGCAGCCTTGCTGCAATCTGGTGGCCT-AGC-CATAATATCTGTATCTGGTGACTTCGTCAC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACAT-ATATCTGT-TCTGATGACTTCGTCAC
55201658 AATA
64 AATA
55201662 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
55201682 TTTTGTGGTG
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
65 3 0.04
66 10 0.12
67 68 0.84
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCACCACATATATCTGTTCTGATGACTTCGTCACAA
TA
Found at i:55205414 original size:27 final size:27
Alignment explanation
Indices: 55205395--55205551 Score: 181
Period size: 27 Copynumber: 5.8 Consensus size: 27
55205385 ATTACCAAAG
*
55205395 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * **
55205422 TA-CCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
55205448 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
** *
55205475 TACCCTTAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
55205502 TACCCTCGATTTACAAAAATTACTGTTT
1 TACCCTCGATTTAC-AGAATTACCATTT
*
55205530 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
55205552 TAAAATACCA
Statistics
Matches: 114, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.20
27 67 0.59
28 24 0.21
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:55205452 original size:53 final size:54
Alignment explanation
Indices: 55205395--55205553 Score: 212
Period size: 54 Copynumber: 2.9 Consensus size: 54
55205385 ATTACCAAAG
*
55205395 TACCCTCGATTTACAGAATTACCGTTTTA-CCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTATTT
* * * *
55205448 TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTATTT
* * * * *
55205502 TACCCTCGATTTACAAAAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTAC-AGAATTACCGTTTTACCCTTGATTTATAGAATTACTA
55205554 AAATACCATT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 27 0.30
54 34 0.38
55 29 0.32
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTTGATTTATAGAATTACTATTT
Found at i:55205551 original size:82 final size:80
Alignment explanation
Indices: 55205403--55205551 Score: 217
Period size: 82 Copynumber: 1.8 Consensus size: 80
55205393 AGTACCCTCG
* * * * * *
55205403 ATTTACAGAATTACCGTTTTACCTTGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATT
1 ATTTACAGAATTACCATTTTACCTCGATTTAAAAAATTACTGTTTTACCCTCGATTTACAAAATT
55205468 ACCATTTTACCCTTA
66 ACCATTTTACCCTTA
*
55205483 ATTTATAGAATTACCATTTTACCCTCGATTTACAAAAATTACTGTTTTACCCTCGATTTACAAAA
1 ATTTACAGAATTACCATTTTA-CCTCGATTTA-AAAAATTACTGTTTTACCCTCGATTTACAAAA
55205548 TTAC
64 TTAC
55205552 TAAAATACCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 19 0.32
81 9 0.15
82 32 0.53
ACGTcount: A:0.32, C:0.19, G:0.07, T:0.42
Consensus pattern (80 bp):
ATTTACAGAATTACCATTTTACCTCGATTTAAAAAATTACTGTTTTACCCTCGATTTACAAAATT
ACCATTTTACCCTTA
Found at i:55205560 original size:27 final size:27
Alignment explanation
Indices: 55205502--55205803 Score: 132
Period size: 27 Copynumber: 11.1 Consensus size: 27
55205492 ATTACCATTT
****
55205502 TACCCTCGATTTACAAAAATTACTGTTT
1 TACCCTCGATTTAC-AAAATTACTAAAA
55205530 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * * *
55205557 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* * ** *
55205584 TACCTTAG-TTTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* **
55205610 TACCACT-GGTTTGTAAAATTACTAAAA
1 TACC-CTCGATTTACAAAATTACTAAAA
* ** **
55205637 TACCC-CTAGTTTGTAAAATTACCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* ** **
55205664 TACCACT-GGTTTGTGAAAA-TACCGAAA
1 TACC-CTCGATTT-ACAAAATTACTAAAA
* * ** *
55205691 TACACTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* *
55205718 TACCCTTGATTTACAAAATTACAAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
55205745 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
55205774 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
55205801 TAC
1 TAC
55205804 TCTTGGTTTG
Statistics
Matches: 219, Mismatches: 40, Indels: 31
0.76 0.14 0.11
Matches are distributed among these distances:
26 26 0.12
27 148 0.68
28 27 0.12
29 18 0.08
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:55205577 original size:82 final size:80
Alignment explanation
Indices: 55205382--55205580 Score: 209
Period size: 82 Copynumber: 2.5 Consensus size: 80
55205372 CTCAATTTGT
* * ** * * * *
55205382 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCTTGATTTATAGAATTACTGTT
1 AAAATTACCAAAATACCATTAATTTACAGAATTACCATTTTACCTCGATTTAAAAAATTACTGTT
*
55205447 TTACCCTCGATTTAT
66 TTACCCTCGATTTAC
* *** * *
55205462 AGAATTACCATTTTACCCTTAATTTATAGAATTACCATTTTACCCTCGATTTACAAAAATTACTG
1 AAAATTACCAAAATACCATTAATTTACAGAATTACCATTTTA-CCTCGATTTA-AAAAATTACTG
55205527 TTTTACCCTCGATTTAC
64 TTTTACCCTCGATTTAC
* ** *
55205544 AAAATTACTAAAATACCATTGGTTTACAAAATTACCA
1 AAAATTACCAAAATACCATTAATTTACAGAATTACCA
55205581 AAATACCTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
80 34 0.36
81 9 0.09
82 52 0.55
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.38
Consensus pattern (80 bp):
AAAATTACCAAAATACCATTAATTTACAGAATTACCATTTTACCTCGATTTAAAAAATTACTGTT
TTACCCTCGATTTAC
Found at i:55205668 original size:54 final size:55
Alignment explanation
Indices: 55205544--55205795 Score: 221
Period size: 54 Copynumber: 4.6 Consensus size: 55
55205534 CTCGATTTAC
* * *
55205544 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATA--CCTTAGTTTGT
1 AAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* * ** *
55205597 AAAATTGCTAAAATACCACTGGTTTGTAAAATTACTAAAATACCCCT-AGTTTGT
1 AAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* ** * * *
55205651 AAAATTACCGAAATACCACTGGTTTGTGAAAA-TACCGAAATA-CACTCAATTTGT
1 AAAATTACCAAAATACCACTGGTTT-ACAAAATTACCAAAATACCCCTCAGTTTGT
* * * * * *
55205705 AAAATTACCAAAATACC-CTTGATTTACAAAATTACAAAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCAC-TGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
* *
55205760 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTAC
1 -AAAATTACCA-AAATACCACTGGTTTACAAAATTAC
55205796 TGAAATACTC
Statistics
Matches: 161, Mismatches: 28, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
53 45 0.28
54 72 0.45
55 15 0.09
56 29 0.18
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (55 bp):
AAAATTACCAAAATACCACTGGTTTACAAAATTACCAAAATACCCCTCAGTTTGT
Found at i:55205736 original size:81 final size:80
Alignment explanation
Indices: 55205544--55205750 Score: 222
Period size: 81 Copynumber: 2.6 Consensus size: 80
55205534 CTCGATTTAC
* * * * *
55205544 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCTTAGTTTGTAAAATTGCTAAA
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAA
**
55205609 ATACCACTGGTTTGT
66 ATACCACTAATTTGT
* ** * *
55205624 AAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCGAAATACCACTGGTTTGTGAAAA-TACC
1 AAAATTACTAAAATACCCTTGA-TTTACAAAATTACCAAAATACC-CTAGTTTGT-AAAATTACC
*
55205687 GAAATA-CACTCAATTTGT
63 AAAATACCACT-AATTTGT
* *
55205705 AAAATTACCAAAATACCCTTGATTTACAAAATTACAAAAATACCCT
1 AAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCT
55205751 TGACTTTCTA
Statistics
Matches: 103, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
80 43 0.42
81 55 0.53
82 5 0.05
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCTTGATTTACAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAA
ATACCACTAATTTGT
Found at i:55205809 original size:27 final size:26
Alignment explanation
Indices: 55205539--55205812 Score: 140
Period size: 27 Copynumber: 10.1 Consensus size: 26
55205529 TTACCCTCGA
55205539 TTTACAAAATTACTAAAATACCATTGG
1 TTTACAAAATTACTAAAATACC-TTGG
* *
55205566 TTTACAAAATTACCAAAATACCTTAG
1 TTTACAAAATTACTAAAATACCTTGG
** * *
55205592 TTTGTAAAATTGCTAAAATACCACTGG
1 TTTACAAAATTACTAAAATACC-TTGG
** * *
55205619 TTTGTAAAATTACTAAAATACCCCTAG
1 TTTACAAAATTACTAAAATA-CCTTGG
** ** *
55205646 TTTGTAAAATTACCGAAATACCACTGG
1 TTTACAAAATTACTAAAATACC-TTGG
** ** ***
55205673 TTTGTGAAAA-TACCGAAATACACTCAA
1 TTT-ACAAAATTACTAAAATAC-CTTGG
** * *
55205700 TTTGTAAAATTACCAAAATACCCTTGA
1 TTTACAAAATTACTAAAATA-CCTTGG
* *
55205727 TTTACAAAATTACAAAAATACCCTTGAC
1 TTTACAAAATTACTAAAATA-CCTTG-G
55205755 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACTA-AAATACC-TTGG
*
55205783 TTTACAAAATTACTGAAATACTCTTGG
1 TTTACAAAATTACTAAAATAC-CTTGG
55205810 TTT
1 TTT
55205813 GTAGATTTAC
Statistics
Matches: 201, Mismatches: 31, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
26 27 0.13
27 139 0.69
28 19 0.09
29 16 0.08
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (26 bp):
TTTACAAAATTACTAAAATACCTTGG
Found at i:55205930 original size:27 final size:27
Alignment explanation
Indices: 55205853--55205930 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
55205843 AAATGACTAA
* * *
55205853 AATACCCCT-AATAGGTAAAAAGACTGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
55205880 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
55205907 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
55205931 AAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:55206719 original size:21 final size:20
Alignment explanation
Indices: 55206638--55206704 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
55206628 GATATGATAT
*
55206638 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
*
55206658 ACATGATATGTATAAAATGC
1 ACATGATATGTATGAAATGC
55206678 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
55206698 ACATGAT
1 ACATGAT
55206705 GTATTACTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:55206799 original size:25 final size:25
Alignment explanation
Indices: 55206754--55206837 Score: 118
Period size: 25 Copynumber: 3.4 Consensus size: 25
55206744 GAGGAAGTGC
55206754 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
**
55206780 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
55206805 AAAAGGGCTTTGCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
55206828 AAAAGAGGCT
1 AAAAG-GGCT
55206838 AGGCCTTTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.09
24 7 0.13
25 31 0.58
26 10 0.19
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:55207029 original size:42 final size:42
Alignment explanation
Indices: 55206970--55207061 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
55206960 TAGTCTCCCA
* ** *
55206970 AAATGGGCTTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
* *
55207012 AAATGGGCTTGCATACATCCATTGACATTACTTGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
55207054 AAATGGGC
1 AAATGGGC
55207062 CTCTGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Found at i:55207123 original size:30 final size:30
Alignment explanation
Indices: 55207089--55207153 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
55207079 TACAGTAAAG
55207089 GCTTCAGCCAAATGAAATGATTTATGAAAA
1 GCTTCAGCCAAATGAAATGATTTATGAAAA
* * * **
55207119 GCTTCGGCCCAGTGCTATGATTTATGAAAA
1 GCTTCAGCCAAATGAAATGATTTATGAAAA
55207149 GCTTC
1 GCTTC
55207154 GGCCCAGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (30 bp):
GCTTCAGCCAAATGAAATGATTTATGAAAA
Found at i:55207154 original size:30 final size:30
Alignment explanation
Indices: 55207105--55207161 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
55207095 GCCAAATGAA
55207105 ATGATTTATGAAAAGCTTCGGCCCAGTGCT
1 ATGATTTATGAAAAGCTTCGGCCCAGTGCT
55207135 ATGATTTATGAAAAGCTTCGGCCCAGT
1 ATGATTTATGAAAAGCTTCGGCCCAGT
55207162 AATCGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (30 bp):
ATGATTTATGAAAAGCTTCGGCCCAGTGCT
Found at i:55219317 original size:16 final size:16
Alignment explanation
Indices: 55219298--55219328 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55219288 ATTGATTTTG
*
55219298 TGCATGACATTCTGCA
1 TGCATGACATACTGCA
55219314 TGCATGACATACTGC
1 TGCATGACATACTGC
55219329 TTGGGATTGG
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:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (16 bp):
TGCATGACATACTGCA
Found at i:55219600 original size:32 final size:32
Alignment explanation
Indices: 55219559--55219637 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
55219549 TGGCATTGAA
* *
55219559 ATGGGCTAGGCCTAACTGATATTGGTTCTGAT-
1 ATGGGCTAGGCCCAACTGATATTGATTCT-ATG
55219591 ATGGGCTAGGCCCAACTGATATTGATTCTATG
1 ATGGGCTAGGCCCAACTGATATTGATTCTATG
55219623 ATGGGCTAGGCCCAA
1 ATGGGCTAGGCCCAA
55219638 TTGAGACTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 2 0.05
32 42 0.95
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATATTGATTCTATG
Done.