Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 42 of 173
Found at i:11420857 original size:89 final size:89
Alignment explanation
Indices: 11420732--11420906 Score: 235
Period size: 89 Copynumber: 2.0 Consensus size: 89
11420722 CGGTGTCTAG
* * * *
11420732 TTAGGGTTTAGGGTTTAAATTGATTAGTGTGTTTTAATTTATATATTGAATAATGTTTAAGGGTT
1 TTAGGGTTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAAGGGTT
11420797 AGGGGTT-AGGGATTTAGGGTTGGA
66 AGGGGTTAAGGG-TTTAGGGTTGGA
* * * * *
11420821 TTAGGGTTTAGGATTTAGATTAATTAGTTTTTTTTAATTTATATATTAAATAGGGTTTAGGGGTT
1 TTAGGGTTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAAGGGTT
* *
11420886 AGTGGTTAAGGGTTTGGGGTT
66 AGGGGTTAAGGGTTTAGGGTT
11420907 TAGGATTAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
89 70 0.95
90 4 0.05
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (89 bp):
TTAGGGTTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAGGTTTAAGGGTT
AGGGGTTAAGGGTTTAGGGTTGGA
Found at i:11423316 original size:43 final size:44
Alignment explanation
Indices: 11423255--11423357 Score: 147
Period size: 43 Copynumber: 2.4 Consensus size: 44
11423245 AAAGTGTGAA
* *
11423255 AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTT-AT
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTTCAT
*
11423298 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTTTTCAT
1 AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTTCAT
*
11423342 ATAAA-CGCTGCTAAAG
1 A-AAAGCGCCGCTAAAG
11423358 TTAGCGGCGC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
43 38 0.70
44 13 0.24
45 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
AAAAGCGCCGCTAAAGGTCATGATCTTTAGCGACGTTTGTTCAT
Found at i:11424042 original size:29 final size:31
Alignment explanation
Indices: 11423995--11424058 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 31
11423985 CTGCAAGTCC
*
11423995 AATTATAAACTTTGAAC-AAA-AAAATT-AA
1 AATTATAAAATTTGAACAAAAGAAAATTGAA
11424023 AATTATAAATATTTGAACAAAAGAAAATTGAA
1 AATTATAAA-ATTTGAACAAAAGAAAATTGAA
11424055 AATT
1 AATT
11424059 CAGTGATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 9 0.29
29 7 0.23
30 3 0.10
31 6 0.19
32 6 0.19
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (31 bp):
AATTATAAAATTTGAACAAAAGAAAATTGAA
Found at i:11434319 original size:28 final size:28
Alignment explanation
Indices: 11434287--11434382 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 28
11434277 TGACTTTCGA
*
11434287 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
11434315 CACTAAGTGTGCGAGTTTAATT-T----
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
11434338 -ACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
11434365 CACTAAGTGTGTGAGTTT
1 CACTAAGTGTGCGAGTTT
11434383 GATTATTGAG
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
22 20 0.34
23 1 0.02
27 1 0.02
28 37 0.63
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:11434344 original size:22 final size:22
Alignment explanation
Indices: 11434316--11434357 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
11434306 ATTGTAAAGC
11434316 ACTAAGTGTGCGAGTTTAATTT
1 ACTAAGTGTGCGAGTTTAATTT
11434338 ACTAAGTGTGCGAGTTTAAT
1 ACTAAGTGTGCGAGTTTAAT
11434358 GGTAAAGCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (22 bp):
ACTAAGTGTGCGAGTTTAATTT
Found at i:11434363 original size:50 final size:50
Alignment explanation
Indices: 11434288--11434382 Score: 163
Period size: 50 Copynumber: 1.9 Consensus size: 50
11434278 GACTTTCGAC
*
11434288 ACTAAGTGTGCGAATTTAATTGTAAAGCACTAAGTGTGCGAGTTTAATTT
1 ACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTT
* *
11434338 ACTAAGTGTGCGAGTTTAATGGTAAAGCACTAAGTGTGTGAGTTT
1 ACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTT
11434383 GATTATTGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.35
Consensus pattern (50 bp):
ACTAAGTGTGCGAATTTAATGGTAAAGCACTAAGTGTGCGAGTTTAATTT
Found at i:11435240 original size:23 final size:23
Alignment explanation
Indices: 11435168--11435432 Score: 118
Period size: 23 Copynumber: 11.2 Consensus size: 23
11435158 GCTACCCAAA
*
11435168 TTGTCATATATATGCTGTCCAAATTT
1 TTGT-ATATACATGCTGT-CAAA-TT
* * * *
11435194 TTGATGTAAAAATGCTGTCCAATT
1 TTG-TATATACATGCTGTCAAATT
*
11435218 TTGTATATACATGCTGTTAAATT
1 TTGTATATACATGCTGTCAAATT
*
11435241 TTGTGTATA-AGTGCTGTCCAAATT
1 TTGTATATACA-TGCTGT-CAAATT
* * * *
11435265 GGTGTATGT--ATGCTGCCTAATTT
1 -TTGTATATACATGCTGTC-AAATT
*
11435288 TTGGTGA-AT-CAATGCTGTCCAATT
1 TT-GT-ATATAC-ATGCTGTCAAATT
*
11435312 TTGTATATACATGCTGTTAAATT
1 TTGTATATACATGCTGTCAAATT
*
11435335 TTGTGTATA-AGTGCTGTCCAAATT
1 TTGTATATACA-TGCTGT-CAAATT
* * *
11435359 GTTGTATGT--ATGCTGCCTAATTT
1 -TTGTATATACATGCTGTC-AAATT
*
11435382 TTGGTGA-AT-CAATGCTGTCCAATT
1 TT-GT-ATATAC-ATGCTGTCAAATT
* *
11435406 TTGTATACACATGCTGTTAAATT
1 TTGTATATACATGCTGTCAAATT
11435429 TTGT
1 TTGT
11435433 GTGTAAGTGC
Statistics
Matches: 182, Mismatches: 36, Indels: 45
0.69 0.14 0.17
Matches are distributed among these distances:
22 9 0.05
23 100 0.55
24 31 0.17
25 28 0.15
26 13 0.07
27 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (23 bp):
TTGTATATACATGCTGTCAAATT
Found at i:11435278 original size:46 final size:46
Alignment explanation
Indices: 11435163--11435549 Score: 267
Period size: 46 Copynumber: 8.1 Consensus size: 46
11435153 TTTATGCTAC
* * *
11435163 CCAAATT-GTCATATATATGCTGTCCAAATTTTTGATGTAAAAATGCTGT
1 CCAAATTGGT-ATATATATGCTGT-TAAA-TTTTG-TGTATAAGTGCTGT
* * *
11435212 CCAATTTTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGT
1 CCAAATTGGTATATATATGCTGTTAAATTTTGTGTATAAGTGCTGT
* * * * *
11435258 CCAAATTGGTGTATGTATGCTGCCTAATTTTTGGTGAATCAA-TGCTGT
1 CCAAATTGGTATATATATGCTG-TTAAATTTT-GTGTAT-AAGTGCTGT
* * *
11435306 CCAATTTTGTATATACATGCTGTTAAATTTTGTGTATAAGTGCTGT
1 CCAAATTGGTATATATATGCTGTTAAATTTTGTGTATAAGTGCTGT
* * * * * *
11435352 CCAAATTGTTGTATGTATGCTGCCTAATTTTTGGTGAATCAA-TGCTGT
1 CCAAATTGGTATATATATGCTG-TTAAATTTT-GTGTAT-AAGTGCTGT
* * * * *
11435400 CCAATTTTGTATACACATGCTGTTAAATTTTGTGTGTAAGTGCTGT
1 CCAAATTGGTATATATATGCTGTTAAATTTTGTGTATAAGTGCTGT
* * * * * *
11435446 CCAAATTGGTATATGTATGCTGCCTAATTTTTGGTGAAAAAAAAATGCTGT
1 CCAAATTGGTATATATATGCTG-TTAAATTTT-GTG---TATAAGTGCTGT
* ** * * *
11435497 CCAATTTTATATATATATGCTGCTCAATTTTTGATGTATAAGAGCTGT
1 CCAAATTGGTATATATATGCTG-TTAAATTTTG-TGTATAAGTGCTGT
11435545 CCAAA
1 CCAAA
11435550 CAGGGTAGAT
Statistics
Matches: 260, Mismatches: 63, Indels: 31
0.73 0.18 0.09
Matches are distributed among these distances:
45 4 0.02
46 83 0.32
47 40 0.15
48 72 0.28
49 22 0.08
50 3 0.01
51 36 0.14
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (46 bp):
CCAAATTGGTATATATATGCTGTTAAATTTTGTGTATAAGTGCTGT
Found at i:11435309 original size:94 final size:95
Alignment explanation
Indices: 11435178--11435549 Score: 543
Period size: 94 Copynumber: 3.9 Consensus size: 95
11435168 TTGTCATATA
* * *
11435178 TATGCTGTCCAAATTTTTGATGTAA-AAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
1 TATGCTG-CCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTT
11435242 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
65 TGTGTATAAGTGCTGTCCAAATTGGTGTATG
*
11435273 TATGCTGCCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
1 TATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
*
11435337 GTGTATAAGTGCTGTCCAAATTGTTGTATG
66 GTGTATAAGTGCTGTCCAAATTGGTGTATG
* *
11435367 TATGCTGCCTAATTTTTGGTG-AATCAATGCTGTCCAATTTTGTATACACATGCTGTTAAATTTT
1 TATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
* *
11435431 GTGTGTAAGTGCTGTCCAAATTGGTATATG
66 GTGTATAAGTGCTGTCCAAATTGGTGTATG
* * * * *
11435461 TATGCTGCCTAATTTTTGGTGAAAAAAAAATGCTGTCCAATTTTATATATATATGCTGCTCAATT
1 TATGCTGCCTAATTTTTGGTG--AAATAAATGCTGTCCAATTTTGTATATACATGCTG-TTAAAT
*
11435526 TTTGATGTATAAGAGCTGTCCAAA
63 TTTG-TGTATAAGTGCTGTCCAAA
11435550 CAGGGTAGAT
Statistics
Matches: 254, Mismatches: 17, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
93 2 0.01
94 191 0.75
95 7 0.03
97 29 0.11
98 8 0.03
99 17 0.07
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (95 bp):
TATGCTGCCTAATTTTTGGTGAAATAAATGCTGTCCAATTTTGTATATACATGCTGTTAAATTTT
GTGTATAAGTGCTGTCCAAATTGGTGTATG
Found at i:11437026 original size:6 final size:5
Alignment explanation
Indices: 11437002--11437066 Score: 62
Period size: 5 Copynumber: 12.4 Consensus size: 5
11436992 CATTCATTCT
*
11437002 TTTTA TTTTA TTTTA TTTTA TTTT- TATTTA TTTGA TTATT- TGTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TT-TTA T-TTTA
11437048 TCATTTA TTTTA TTTTA TT
1 T--TTTA TTTTA TTTTA TT
11437067 CCGTTATTCT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
4 1 0.02
5 41 0.80
6 4 0.08
7 5 0.10
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:11445941 original size:31 final size:31
Alignment explanation
Indices: 11445906--11446010 Score: 115
Period size: 31 Copynumber: 3.4 Consensus size: 31
11445896 AACATTAAAT
*
11445906 TTAATTTAATATTTATCTTGATAATATTTTC
1 TTAATTTAATATTTATCTTGATAATATTTTA
* * * **
11445937 TTAATTTAATATTAAT-GTGA-GATATTAAA
1 TTAATTTAATATTTATCTTGATAATATTTTA
* *
11445966 TGTGATTTAATATTTATCTTGATAGTATTTTA
1 T-TAATTTAATATTTATCTTGATAATATTTTA
11445998 TTAATTTAATATT
1 TTAATTTAATATT
11446011 ATGTGAATAA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
29 6 0.11
30 16 0.28
31 29 0.51
32 6 0.11
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (31 bp):
TTAATTTAATATTTATCTTGATAATATTTTA
Found at i:11445977 original size:61 final size:60
Alignment explanation
Indices: 11445899--11446016 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 60
11445889 CAAATTTAAC
* *
11445899 ATTAAATTTAATTTAATATTTATCTTGATAATATTTTCTTAATTTAATATTAATGTGAGAT
1 ATTAAATGTAATTTAATATTTATCTTGATAATATTTTATTAATTTAATATT-ATGTGAGAT
* *
11445960 ATTAAATGTGATTTAATATTTATCTTGATAGTATTTTATTAATTTAATATTATGTGA
1 ATTAAATGTAATTTAATATTTATCTTGATAATATTTTATTAATTTAATATTATGTGA
11446017 ATAATTTCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
60 6 0.11
61 47 0.89
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (60 bp):
ATTAAATGTAATTTAATATTTATCTTGATAATATTTTATTAATTTAATATTATGTGAGAT
Found at i:11447724 original size:112 final size:110
Alignment explanation
Indices: 11447526--11447726 Score: 248
Period size: 112 Copynumber: 1.8 Consensus size: 110
11447516 TGCCTCCCCT
*
11447526 ATTTTTGAATTTTAGCTTCAAATTTTCATGTCTCAAGACAATGCAACCATGTCTCGAAACTTGAC
1 ATTTTTGAATTTTAGCTTCAAATTTTCATGTCCCAAGACAAT-CAACCATGTCTCGAAACTTGAC
*
11447591 CCATATGTCTTGAGACAATGTACCATGTGTCGAAACCTTGGACTAA
65 CCATATGTCTTGAAACAATGTACCATGTGTCGAAACCTTGGACTAA
* * * *
11447637 ATTTTTGGTATTTTAGCTTC-GATGTTTTATGTCCCAAGACAAT-AATGCCATGTCTCGAAATTT
1 ATTTTT-GAATTTTAGCTTCAAAT-TTTCATGTCCCAAGACAATCAA--CCATGTCTCGAAA-CT
*
11447700 TGTGCCC-TATGTCTTGAAAC-ATGTACC
61 TG-ACCCATATGTCTTGAAACAATGTACC
11447727 CAGAAATGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
110 2 0.03
111 8 0.10
112 49 0.64
113 15 0.19
114 3 0.04
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (110 bp):
ATTTTTGAATTTTAGCTTCAAATTTTCATGTCCCAAGACAATCAACCATGTCTCGAAACTTGACC
CATATGTCTTGAAACAATGTACCATGTGTCGAAACCTTGGACTAA
Found at i:11448452 original size:274 final size:274
Alignment explanation
Indices: 11447957--11448506 Score: 967
Period size: 274 Copynumber: 2.0 Consensus size: 274
11447947 TTTTATACGG
* *
11447957 ATTTTACTTATGCAGTCTATACCGTACCACAAGGCCCAGAGGCCCCTGCACCCCTAGTTACAACC
1 ATTTTACTTATGCAGCCTATACCGTACCACAAGGCCCAGAGGCCCCTACACCCCTAGTTACAACC
*
11448022 CTAGTCCAATATTTTGCTTATTATGGATCTAAGATGGACTGTAACCTTTGCCCTCATAGATCCCC
66 CTAGTCCAATATTTTGCTTATTATGGATCTAAGATGGACTGCAACCTTTGCCCTCATAGATCCCC
*
11448087 TTTCTTGCCTATTGTATTTTATTTTAACAGGAATTTGGGTTACACAATTTCTAACATAAACCATA
131 TATCTTGCCTATTGTATTTTATTTTAACAGGAATTTGGGTTACACAATTTCTAACATAAACCATA
*
11448152 CATTCAACTTAGGAAATTGCATCACAAATCCAAATCAAAAGTATTTCAAAGTCCCAAAATAAGCC
196 CATTAAACTTAGGAAATTGCATCACAAATCCAAATCAAAAGTATTTCAAAGTCCCAAAATAAGCC
*
11448217 AAAACTTTCCAAAT
261 AAAACTTGCCAAAT
* * **
11448231 ATTTTGCTTATGCAGCCTATATCGTACCGTAAGGCCCAGAGGTCCCC-ACACCCCTAGTTACAAC
1 ATTTTACTTATGCAGCCTATACCGTACCACAAGGCCCAGAGG-CCCCTACACCCCTAGTTACAAC
* *
11448295 CCTAGTCCAATATTTTGCTTATTATGGATCTACGATGGACTGCAACCTTTGCCCTTATAGATCCC
65 CCTAGTCCAATATTTTGCTTATTATGGATCTAAGATGGACTGCAACCTTTGCCCTCATAGATCCC
*
11448360 CTATCTTGCCTATTTTATTTTATTTTAACAGGAATTTGGGTTACACAATTTCTAACATAAACCAT
130 CTATCTTGCCTATTGTATTTTATTTTAACAGGAATTTGGGTTACACAATTTCTAACATAAACCAT
11448425 ACATTAAACTTAGGAAATTGCATCACAAATCCAAATCAAAAGTATTTCAAAGTCCCAAAATAAGC
195 ACATTAAACTTAGGAAATTGCATCACAAATCCAAATCAAAAGTATTTCAAAGTCCCAAAATAAGC
11448490 CAAAACTTGCCAAAT
260 CAAAACTTGCCAAAT
11448505 AT
1 AT
11448507 ACTCAACATA
Statistics
Matches: 262, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
274 258 0.98
275 4 0.02
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (274 bp):
ATTTTACTTATGCAGCCTATACCGTACCACAAGGCCCAGAGGCCCCTACACCCCTAGTTACAACC
CTAGTCCAATATTTTGCTTATTATGGATCTAAGATGGACTGCAACCTTTGCCCTCATAGATCCCC
TATCTTGCCTATTGTATTTTATTTTAACAGGAATTTGGGTTACACAATTTCTAACATAAACCATA
CATTAAACTTAGGAAATTGCATCACAAATCCAAATCAAAAGTATTTCAAAGTCCCAAAATAAGCC
AAAACTTGCCAAAT
Found at i:11452494 original size:19 final size:20
Alignment explanation
Indices: 11452462--11452500 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
11452452 TACTCTTAAA
* *
11452462 AAAGAATTAGAATATAATTT
1 AAAGAATTAAAATAGAATTT
11452482 AAAG-ATTAAAATAGAATTT
1 AAAGAATTAAAATAGAATTT
11452501 TTTTTGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.33
Consensus pattern (20 bp):
AAAGAATTAAAATAGAATTT
Found at i:11453070 original size:30 final size:30
Alignment explanation
Indices: 11453036--11453098 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
11453026 GCATTTTTCC
*
11453036 TTTCTCATATCA-ACAC-TTTCTTTCTTTCTT
1 TTTCTCAT-TCATACACATGTC-TTCTTTCTT
11453066 TTTCTCATTCATTACACATGTCTTCTTTCTT
1 TTTCTCATTCA-TACACATGTCTTCTTTCTT
11453097 TT
1 TT
11453099 CAATTTGCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.10
30 8 0.28
31 15 0.52
32 3 0.10
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTCTCATTCATACACATGTCTTCTTTCTT
Found at i:11455109 original size:19 final size:17
Alignment explanation
Indices: 11455075--11455113 Score: 60
Period size: 19 Copynumber: 2.2 Consensus size: 17
11455065 TATTATTTAT
11455075 TATATTTTATTTTTAAA
1 TATATTTTATTTTTAAA
11455092 TATACTTTTATATTTTAAA
1 TATA-TTTTAT-TTTTAAA
11455111 TAT
1 TAT
11455114 GTAATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTTATTTTTAAA
Found at i:11462540 original size:213 final size:213
Alignment explanation
Indices: 11462173--11462600 Score: 856
Period size: 213 Copynumber: 2.0 Consensus size: 213
11462163 ATTTTGAACG
11462173 TGACATATAGTCACTATGTGGTGTGTAAGGATGAACGGAGATGGTGTGTAGAGGATGGGGGTAGG
1 TGACATATAGTCACTATGTGGTGTGTAAGGATGAACGGAGATGGTGTGTAGAGGATGGGGGTAGG
11462238 AAATTTGCATCTGTATTTGATATGATTTGTATTTGACATATCCTGTTTCTGTTTCTGTATCTGAC
66 AAATTTGCATCTGTATTTGATATGATTTGTATTTGACATATCCTGTTTCTGTTTCTGTATCTGAC
11462303 TTTGAGAATTATTTGAATACTGAGAACTCGAATACTTGTCTTGTATTTTTTGCTATTTGAATACA
131 TTTGAGAATTATTTGAATACTGAGAACTCGAATACTTGTCTTGTATTTTTTGCTATTTGAATACA
11462368 TAAGTTGCACACTGAGTA
196 TAAGTTGCACACTGAGTA
11462386 TGACATATAGTCACTATGTGGTGTGTAAGGATGAACGGAGATGGTGTGTAGAGGATGGGGGTAGG
1 TGACATATAGTCACTATGTGGTGTGTAAGGATGAACGGAGATGGTGTGTAGAGGATGGGGGTAGG
11462451 AAATTTGCATCTGTATTTGATATGATTTGTATTTGACATATCCTGTTTCTGTTTCTGTATCTGAC
66 AAATTTGCATCTGTATTTGATATGATTTGTATTTGACATATCCTGTTTCTGTTTCTGTATCTGAC
11462516 TTTGAGAATTATTTGAATACTGAGAACTCGAATACTTGTCTTGTATTTTTTGCTATTTGAATACA
131 TTTGAGAATTATTTGAATACTGAGAACTCGAATACTTGTCTTGTATTTTTTGCTATTTGAATACA
11462581 TAAGTTGCACACTGAGTA
196 TAAGTTGCACACTGAGTA
11462599 TG
1 TG
11462601 TAAACTCATT
Statistics
Matches: 215, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 215 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (213 bp):
TGACATATAGTCACTATGTGGTGTGTAAGGATGAACGGAGATGGTGTGTAGAGGATGGGGGTAGG
AAATTTGCATCTGTATTTGATATGATTTGTATTTGACATATCCTGTTTCTGTTTCTGTATCTGAC
TTTGAGAATTATTTGAATACTGAGAACTCGAATACTTGTCTTGTATTTTTTGCTATTTGAATACA
TAAGTTGCACACTGAGTA
Found at i:11465215 original size:20 final size:20
Alignment explanation
Indices: 11465190--11465233 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
11465180 CTAAACTTTT
11465190 AATCCAACACTTTACAATTC
1 AATCCAACACTTTACAATTC
*
11465210 AATCCAACACTTTACAATTG
1 AATCCAACACTTTACAATTC
11465230 AATC
1 AATC
11465234 AAACCCAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (20 bp):
AATCCAACACTTTACAATTC
Found at i:11476098 original size:35 final size:35
Alignment explanation
Indices: 11476007--11476098 Score: 80
Period size: 35 Copynumber: 2.6 Consensus size: 35
11475997 ACATGCAATT
* * * * *
11476007 TTATCTCGGTATTCCCAAGTTCCAGTGTTTAAAAA
1 TTATCTAGGGATTCCTAGGTTCCAGTGTCTAAAAA
* * *
11476042 TTATCCTA-AGATTGTCT-GGTTCCAGTGTCTAAAAC
1 TTAT-CTAGGGATT-CCTAGGTTCCAGTGTCTAAAAA
11476077 TTATCTAGGGATTCCTAGGTTC
1 TTATCTAGGGATTCCTAGGTTC
11476099 TGACAAGGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
34 5 0.12
35 35 0.81
36 3 0.07
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (35 bp):
TTATCTAGGGATTCCTAGGTTCCAGTGTCTAAAAA
Found at i:11477621 original size:63 final size:64
Alignment explanation
Indices: 11477418--11477663 Score: 243
Period size: 64 Copynumber: 3.9 Consensus size: 64
11477408 TGCAGGGGTC
*
11477418 ACACG-GGAGTGTG-TCTAGGCCGTGTAACTCACTGATTATAAAATACGGATCACACAGGCC-AA
1 ACACGAGGAGTGTGTTC-AGGCCGTGTAACTCACTGATTA-AAAATACGGATCACACGGGCCAAA
11477480 G
64 G
* * * * * * * *
11477481 AACAC-AGGCGTGTGTGCAGGCTGTGTAACTAACTAATTAAAAAATACAGATCATACGGGCCAAG
1 -ACACGAGGAGTGTGTTCAGGCCGTGTAACTCACTGATT-AAAAATACGGATCACACGGGCCAAA
11477545 G
64 G
* * * *
11477546 ATA-TAGGAGTGTGTTCAGGCCATGTAACTCACTGATTACAAATACGGATCACACGGGCCAAAG
1 ACACGAGGAGTGTGTTCAGGCCGTGTAACTCACTGATTAAAAATACGGATCACACGGGCCAAAG
* * * **
11477609 ACACGAGG-GTGTGTCCAGGTCGTGTAACTCATTGATTACAAAATAAAGATCACAC
1 ACACGAGGAGTGTGTTCAGGCCGTGTAACTCACTGATTA-AAAATACGGATCACAC
11477664 AAGCAAAGGA
Statistics
Matches: 146, Mismatches: 29, Indels: 14
0.77 0.15 0.07
Matches are distributed among these distances:
63 50 0.34
64 92 0.63
65 4 0.03
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (64 bp):
ACACGAGGAGTGTGTTCAGGCCGTGTAACTCACTGATTAAAAATACGGATCACACGGGCCAAAG
Found at i:11477652 original size:127 final size:128
Alignment explanation
Indices: 11477423--11477660 Score: 324
Period size: 127 Copynumber: 1.9 Consensus size: 128
11477413 GGGTCACACG
*
11477423 GGAGTGTGTCTAGGCCGTGTAACTCACTGATTATAAAATACGGATCACACAGGCCAAGAACACAG
1 GGAGTGTGTCTAGGCCATGTAACTCACTGATTATAAAATACGGATCACACAGGCCAAGAACACAG
* *
11477488 GCGTGTGTGCAGGCTGTGTAACTAACTAATTAAAAAATACAGATCATACGGGCCAAGGATATA
66 GCGTGTGTCCAGGCTGTGTAACTAACTAATTAAAAAATAAAGATCATACGGGCCAAGGATATA
* *
11477551 GGAGTGTGT-TCAGGCCATGTAACTCACTGATTA-CAAATACGGATCACACGGGCCAA-AGACAC
1 GGAGTGTGTCT-AGGCCATGTAACTCACTGATTATAAAATACGGATCACACAGGCCAAGA-ACAC
* * * *
11477613 GAGG-GTGTGTCCAGG-TCGTGTAACTCATTGATTACAAAATAAAGATCA
64 -AGGCGTGTGTCCAGGCT-GTGTAACTAACTAATTAAAAAATAAAGATCA
11477661 CACAAGCAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
126 2 0.02
127 62 0.64
128 33 0.34
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (128 bp):
GGAGTGTGTCTAGGCCATGTAACTCACTGATTATAAAATACGGATCACACAGGCCAAGAACACAG
GCGTGTGTCCAGGCTGTGTAACTAACTAATTAAAAAATAAAGATCATACGGGCCAAGGATATA
Found at i:11480338 original size:18 final size:18
Alignment explanation
Indices: 11480298--11480332 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11480288 CCATAAAGTT
11480298 CGCCCGTGTGGGCCCACA
1 CGCCCGTGTGGGCCCACA
11480316 CGCCCGTGT-GGCCCACA
1 CGCCCGTGTGGGCCCACA
11480333 TGGCCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.46, G:0.31, T:0.11
Consensus pattern (18 bp):
CGCCCGTGTGGGCCCACA
Found at i:11483880 original size:27 final size:27
Alignment explanation
Indices: 11483850--11483928 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 27
11483840 GGAACTGTTT
11483850 CTTCAGAGTTCGCTATACGTACTATTC
1 CTTCAGAGTTCGCTATACGTACTATTC
* * *
11483877 CTTCAAAGTTC-ATCATATGTACTATTC
1 CTTCAGAGTTCGCT-ATACGTACTATTC
* *
11483904 CTTCAGA-TTTGCCATACGTACTATT
1 CTTCAGAGTTCGCTATACGTACTATT
11483929 TGTTCAAAGT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
26 14 0.33
27 28 0.67
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.39
Consensus pattern (27 bp):
CTTCAGAGTTCGCTATACGTACTATTC
Found at i:11484130 original size:27 final size:28
Alignment explanation
Indices: 11484092--11484153 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 28
11484082 CATGAAGGCG
* * *
11484092 TTCC-TTTCCATAGATCGTTACAAAGGT
1 TTCCATTTCCATAGATCGCTACAAACGC
*
11484119 TTCCATTT-CATAGATTGCTACAAACGC
1 TTCCATTTCCATAGATCGCTACAAACGC
11484146 TTCCATTT
1 TTCCATTT
11484154 TATGTTGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (28 bp):
TTCCATTTCCATAGATCGCTACAAACGC
Found at i:11486846 original size:10 final size:10
Alignment explanation
Indices: 11486831--11486856 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11486821 TTTAATATTT
11486831 TATTTTTAAA
1 TATTTTTAAA
11486841 TATTTTTAAA
1 TATTTTTAAA
11486851 TATTTT
1 TATTTT
11486857 ATAAGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:11488862 original size:20 final size:19
Alignment explanation
Indices: 11488829--11488866 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11488819 TATAGTACAA
11488829 ATAATAATTAAAATGATTTC
1 ATAATAATTAAAAT-ATTTC
11488849 ATAATTAATT-AAATATTT
1 ATAA-TAATTAAAATATTT
11488867 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
ATAATAATTAAAATATTTC
Found at i:11491928 original size:21 final size:21
Alignment explanation
Indices: 11491904--11491945 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11491894 TTCTTAGTTA
11491904 AATTACTTAGTTAATTTTTAG
1 AATTACTTAGTTAATTTTTAG
11491925 AATTACTTAGTTAATTTTTAG
1 AATTACTTAGTTAATTTTTAG
11491946 TTTTTAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
AATTACTTAGTTAATTTTTAG
Found at i:11496785 original size:21 final size:21
Alignment explanation
Indices: 11496759--11496799 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
11496749 ATACCTGGTA
11496759 AAAGGTATCGATACTTTTTGG
1 AAAGGTATCGATACTTTTTGG
*
11496780 AAAGGTATTGATACTTTTTG
1 AAAGGTATCGATACTTTTTG
11496800 TAAATCATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (21 bp):
AAAGGTATCGATACTTTTTGG
Found at i:11497035 original size:22 final size:24
Alignment explanation
Indices: 11497010--11497053 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11497000 AATTTGTTCA
11497010 ACTTTAACTT-TTAT-TCAAAAAC
1 ACTTTAACTTGTTATATCAAAAAC
*
11497032 ACTTTAATTTGTTATATCAAAA
1 ACTTTAACTTGTTATATCAAAA
11497054 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAACTTGTTATATCAAAAAC
Found at i:11499667 original size:20 final size:20
Alignment explanation
Indices: 11499642--11499679 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11499632 TGAACAAGAA
*
11499642 GAAATGGTAGATCAAACTTC
1 GAAATGATAGATCAAACTTC
11499662 GAAATGATAGATCAAACT
1 GAAATGATAGATCAAACT
11499680 ATACGGCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (20 bp):
GAAATGATAGATCAAACTTC
Found at i:11503487 original size:19 final size:19
Alignment explanation
Indices: 11503463--11503499 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11503453 GGTATAATTT
11503463 CTGTTCCGACCAGGTAATA
1 CTGTTCCGACCAGGTAATA
11503482 CTGTTCCGACCAGGTAAT
1 CTGTTCCGACCAGGTAAT
11503500 TCGAAGATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (19 bp):
CTGTTCCGACCAGGTAATA
Found at i:11505468 original size:15 final size:15
Alignment explanation
Indices: 11505448--11505488 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
11505438 CAAAACCCAT
11505448 AACACCAACCTTCAA
1 AACACCAACCTTCAA
*
11505463 AACACCAAAC--CAA
1 AACACCAACCTTCAA
*
11505476 AACACCCACCTTC
1 AACACCAACCTTC
11505489 CTCCATAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
13 11 0.52
15 10 0.48
ACGTcount: A:0.46, C:0.44, G:0.00, T:0.10
Consensus pattern (15 bp):
AACACCAACCTTCAA
Found at i:11511869 original size:18 final size:20
Alignment explanation
Indices: 11511846--11511886 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
11511836 GAAATATTTG
*
11511846 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
11511864 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
11511884 TTT
1 TTT
11511887 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:11511917 original size:12 final size:12
Alignment explanation
Indices: 11511887--11511919 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11511877 TATATATTTT
11511887 AAAATT-ATATA
1 AAAATTAATATA
11511898 AAAA-TAATATA
1 AAAATTAATATA
11511909 AAAATTAATAT
1 AAAATTAATAT
11511920 GGGCGGGATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:11521164 original size:19 final size:19
Alignment explanation
Indices: 11521107--11521179 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
11521097 TCAGTACTTG
* *
11521107 ATTTCATTTCCCAAT-TCAC
1 ATTTCATTTCTC-ATCTCAT
* *
11521126 ATCTCATTTCATCATTTCAT
1 ATTTCATTTC-TCATCTCAT
11521146 ATTTCATTTCTCATCTCAT
1 ATTTCATTTCTCATCTCAT
*
11521165 A-TTCATTTCTTATCT
1 ATTTCATTTCTCATCT
11521180 TTGCCATCTC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
18 13 0.28
19 20 0.43
20 13 0.28
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCATTTCTCATCTCAT
Found at i:11530572 original size:22 final size:22
Alignment explanation
Indices: 11530547--11530588 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
11530537 TATTTTCTTC
11530547 CTTA-TTATTCTATTTTAATTAT
1 CTTAGTTATT-TATTTTAATTAT
11530569 CTTAGTTATTTATTTTAATT
1 CTTAGTTATTTATTTTAATT
11530589 TTTTTTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.64
Consensus pattern (22 bp):
CTTAGTTATTTATTTTAATTAT
Found at i:11532427 original size:5 final size:5
Alignment explanation
Indices: 11532419--11532443 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11532409 CAAAAATTGA
11532419 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
11532444 ACATAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:11537921 original size:30 final size:31
Alignment explanation
Indices: 11537877--11537955 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 31
11537867 GCTTATATAC
*
11537877 TAAATATAATAATAAAATAATA-ATATCTTAT
1 TAAA-ATAATAATAAAATAATATATATCTAAT
* *
11537908 TAAAATATTAATAAAATAATATTTATCTAAT
1 TAAAATAATAATAAAATAATATATATCTAAT
*
11537939 T-AAATAATCATAAAATA
1 TAAAATAATAATAAAATA
11537956 TTAAAATATG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 30 0.71
31 12 0.29
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAATAATAATAAAATAATATATATCTAAT
Found at i:11559144 original size:68 final size:68
Alignment explanation
Indices: 11559028--11559473 Score: 538
Period size: 68 Copynumber: 6.6 Consensus size: 68
11559018 AGCCTATAAG
* * **
11559028 AGTGTAAGACTATAGTTGAGCTATGGCAACATATGAAGTCCGTTAGGACAATAAACATGGCATCA
1 AGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGCCAGGACAATAAACATGGCATCA
11559093 TAT
66 TAT
* * * *
11559096 AATGTAATACCATAGTTTGGCTATGGCAACATATGAAGTCCGTCAGGACAATAAACATGGCATCA
1 AGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGCCAGGACAATAAACATGGCATCA
11559161 TATT
66 TA-T
* * * ** *
11559165 A-TGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTTCGCCAGGATAATAAACTTAACACCA
1 AGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGCCAGGACAATAAACATGGCATCA
11559229 TAT
66 TAT
* * * * * *
11559232 AGTGTAAGATCATAGCTGGGCTATGGCAACATATGAAGTCCGCCAGGACCATTAATATGGTATCA
1 AGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGCCAGGACAATAAACATGGCATCA
11559297 TAT
66 TAT
* * * * *
11559300 AGTGTAAGACTATAGTTGGGCTAT-GCTACCATATGAAGTCCACCAAGATAATAAACATGGCATC
1 AGTGTAAGACCATAGTTGGGCTATGGC-AACATATGAAGTCCGCCAGGACAATAAACATGGCATC
*
11559364 AAAT
65 ATAT
* * * *
11559368 AGTGTAAGACCATAGCTGGGCTATGGAAACATCTGAAGTCCGCCAGGACAATAAACATGACATCA
1 AGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGCCAGGACAATAAACATGGCATCA
*
11559433 TGT
66 TAT
* * * *
11559436 AGT-TAAGATCATAGTTAGGCTATTGCAACAAATGAAGT
1 AGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGT
11559474 TTGACAGGAT
Statistics
Matches: 317, Mismatches: 57, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
67 32 0.10
68 282 0.89
69 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (68 bp):
AGTGTAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGCCAGGACAATAAACATGGCATCA
TAT
Found at i:11573018 original size:26 final size:25
Alignment explanation
Indices: 11572988--11573047 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 25
11572978 TTGTTATTAA
*
11572988 ATTTTAATAAGATTATTATTAAATAT
1 ATTTTAATAA-ATAATTATTAAATAT
11573014 ATTTTAAT--ATAATTATTAAATAT
1 ATTTTAATAAATAATTATTAAATAT
*
11573037 AATTTAATAAA
1 ATTTTAATAAA
11573048 AGTAATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
23 21 0.70
25 1 0.03
26 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTTTAATAAATAATTATTAAATAT
Found at i:11573032 original size:23 final size:23
Alignment explanation
Indices: 11573002--11573074 Score: 101
Period size: 23 Copynumber: 3.1 Consensus size: 23
11572992 TAATAAGATT
*
11573002 ATTATTAAATATATTTTAATATA
1 ATTATTAAATATAATTTAATATA
*
11573025 ATTATTAAATATAATTTAATAAA
1 ATTATTAAATATAATTTAATATA
* *
11573048 AGTAATAATATATAATTTAATATA
1 ATTATTAA-ATATAATTTAATATA
11573072 ATT
1 ATT
11573075 CTATTTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 27 0.63
24 16 0.37
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
ATTATTAAATATAATTTAATATA
Found at i:11573037 original size:13 final size:13
Alignment explanation
Indices: 11573002--11573040 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11572992 TAATAAGATT
11573002 ATTATTAAATAT-
1 ATTATTAAATATA
11573014 ATT-TT-AATATA
1 ATTATTAAATATA
11573025 ATTATTAAATATA
1 ATTATTAAATATA
11573038 ATT
1 ATT
11573041 TAATAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.21
11 5 0.21
12 5 0.21
13 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTATTAAATATA
Found at i:11577293 original size:198 final size:195
Alignment explanation
Indices: 11576853--11577472 Score: 729
Period size: 198 Copynumber: 3.2 Consensus size: 195
11576843 CAAGAAAATG
* *
11576853 GTTGAGGTACCAAAATATGTCAAAAATTAAAGTATAAATATTAAATTTTAAAATTGAGCATATCA
1 GTTGAGGTACCAAAATATGTCAAAAATTAAAGTATAAAGATTAAATTTCAAAATTGAGCATATCA
* *
11576918 TAGGCACCAAATTTGAAATTTGACCAATGTTATATGTAATCTCAAAAAAGAAGTAAAAGGTCGTG
66 TAGGAACCAAATTTGAAATTTGACCATTG-T-TATGTAATCTCAAAAAAGAAGTAAAA-GTCGTG
* * * * *
11576983 TATTTGGACACGTGTACATCAACATTTTAATCAAAACGAAGCATTTAG-GATGACTATGACATTA
128 TATTTGGACA-GTGTACGTCAACATTTTAATCAGAATGAAGTATTTAGTG-TGACTATGACATAA
11577047 TAAAA
191 TAAAA
*
11577052 GTTGAGGTACCAAAACATGTCAAAAATTAAAGTATAAAGATTAAATTTCAAAATTGAGCATATCA
1 GTTGAGGTACCAAAATATGTCAAAAATTAAAGTATAAAGATTAAATTTCAAAATTGAGCATATCA
* * * * *
11577117 TAGGGACCAAATTTGAAATTTGACTATTGTTATGTAATCTCAAAAAACAAAATAAAATGTCATGT
66 TAGGAACCAAATTTGAAATTTGACCATTGTTATGTAATCTCAAAAAA-GAAGTAAAA-GTCGTGT
* *
11577182 ATTTGGACATGTGTATGTCAACATTTTAA-CTAGAATGAAGTATTTAGTGTGACTATGACGTAAT
129 ATTTGGACA-GTGTACGTCAACATTTTAATC-AGAATGAAGTATTTAGTGTGACTATGACATAAT
11577246 AAAA
192 AAAA
* * ** * * *
11577250 GTTGAGGTACCAAATTATATCAAAACGTAAAGTATAGAGATTAAATTTCATATTTGAGCATAAT-
1 GTTGAGGTACCAAAATATGTCAAAAATTAAAGTATAAAGATTAAATTTCAAAATTGAGCAT-ATC
* * * * * * *
11577314 ATACGAACCAAAATTAAAATTTGACCATTATTATATAATCTC---AAAGAAGTAAAAGTTGTATA
65 ATAGGAACCAAATTTGAAATTTGACCATTGTTATGTAATCTCAAAAAAGAAGTAAAAGTCGTGTA
* * *
11577376 TTTGGGTACA-TGTACGTCAACATTTTAATCAGAATGAAATATTTAGAT-T-AGCAATGACATTA
130 TTT-GG-ACAGTGTACGTCAACATTTTAATCAGAATGAAGTATTTAG-TGTGA-CTATGACATAA
11577438 TAAAA
191 TAAAA
*
11577443 GTTGAGGTACCAAATTATGTC-AAAATTAAA
1 GTTGAGGTACCAAAATATGTCAAAAATTAAA
11577473 TCCAGAACTT
Statistics
Matches: 366, Mismatches: 46, Indels: 25
0.84 0.11 0.06
Matches are distributed among these distances:
192 8 0.02
193 74 0.20
194 11 0.03
195 6 0.02
197 18 0.05
198 158 0.43
199 91 0.25
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (195 bp):
GTTGAGGTACCAAAATATGTCAAAAATTAAAGTATAAAGATTAAATTTCAAAATTGAGCATATCA
TAGGAACCAAATTTGAAATTTGACCATTGTTATGTAATCTCAAAAAAGAAGTAAAAGTCGTGTAT
TTGGACAGTGTACGTCAACATTTTAATCAGAATGAAGTATTTAGTGTGACTATGACATAATAAAA
Found at i:11589599 original size:14 final size:14
Alignment explanation
Indices: 11589580--11589607 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11589570 TTTGTTTGGT
11589580 GGAAAATATTTTCC
1 GGAAAATATTTTCC
11589594 GGAAAATATTTTCC
1 GGAAAATATTTTCC
11589608 ACCTTTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:11591794 original size:24 final size:22
Alignment explanation
Indices: 11591754--11591806 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 22
11591744 CAATACGAAA
* *
11591754 AAAATTATTTTTTACCAACTTT
1 AAAATTTTTTTTTACCAAATTT
11591776 AAAATTTTTTTATTAACCAAATTT
1 AAAATTTTTTT-TT-ACCAAATTT
11591800 AAAATTT
1 AAAATTT
11591807 AAATATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 10 0.37
23 2 0.07
24 15 0.56
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATTTTTTTTTACCAAATTT
Found at i:11591813 original size:24 final size:24
Alignment explanation
Indices: 11591767--11591815 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11591757 ATTATTTTTT
* ***
11591767 ACCAACTTTAAAATTTTTTTATTA
1 ACCAAATTTAAAATTTAAATATTA
11591791 ACCAAATTTAAAATTTAAATATTA
1 ACCAAATTTAAAATTTAAATATTA
11591815 A
1 A
11591816 AATTTAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (24 bp):
ACCAAATTTAAAATTTAAATATTA
Found at i:11591817 original size:14 final size:13
Alignment explanation
Indices: 11591794--11591828 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
11591784 TTTATTAACC
11591794 AAATTTAAAATTT
1 AAATTTAAAATTT
11591807 AAATATTAAAATTT
1 AAAT-TTAAAATTT
*
11591821 AATTTTAA
1 AAATTTAA
11591829 GTAAGGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:11592143 original size:26 final size:26
Alignment explanation
Indices: 11592113--11592166 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
11592103 CTCAAACTAG
11592113 AATCTAGATATCAAATTGGTCTCTAT
1 AATCTAGATATCAAATTGGTCTCTAT
* *
11592139 AATCTAGATTTTAAATTGGTCTCTAT
1 AATCTAGATATCAAATTGGTCTCTAT
11592165 AA
1 AA
11592167 ATTTTGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (26 bp):
AATCTAGATATCAAATTGGTCTCTAT
Found at i:11593787 original size:9 final size:9
Alignment explanation
Indices: 11593773--11593803 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11593763 GTTAAACGAA
11593773 TCGAGTTAT
1 TCGAGTTAT
*
11593782 TCGAGTTAA
1 TCGAGTTAT
11593791 TCGAGTTAT
1 TCGAGTTAT
11593800 TCGA
1 TCGA
11593804 AGCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11593874 original size:9 final size:9
Alignment explanation
Indices: 11593857--11593902 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
11593847 TGAGTTTTCA
11593857 AATTCGAAT
1 AATTCGAAT
*
11593866 AACTCGAAT
1 AATTCGAAT
*
11593875 AATTTGAAT
1 AATTCGAAT
11593884 AATTCGAAT
1 AATTCGAAT
11593893 AATTCGAAT
1 AATTCGAAT
11593902 A
1 A
11593903 TCAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11594149 original size:30 final size:31
Alignment explanation
Indices: 11594115--11594174 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
11594105 AAACCTTTTA
*
11594115 TTTTCTCCC-AAAATTTTTACTCCC-TCCCAC
1 TTTTC-CCCTAAAACTTTTACTCCCTTCCCAC
*
11594145 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
11594175 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 18 0.69
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:11595155 original size:27 final size:28
Alignment explanation
Indices: 11595097--11595165 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 28
11595087 AAATTTTAGT
* *
11595097 TTGTTGGATTTTGATATATGTCTTAAAT
1 TTGTTGGATATTGATATATGTCTTAAAC
* * *
11595125 TTGTTAGATATTGAT-TATGTTTTAAGC
1 TTGTTGGATATTGATATATGTCTTAAAC
11595152 TTGTTGGATATTGA
1 TTGTTGGATATTGA
11595166 ATTTATTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.25, C:0.03, G:0.20, T:0.52
Consensus pattern (28 bp):
TTGTTGGATATTGATATATGTCTTAAAC
Found at i:11595181 original size:35 final size:36
Alignment explanation
Indices: 11595133--11595201 Score: 131
Period size: 35 Copynumber: 1.9 Consensus size: 36
11595123 ATTTGTTAGA
11595133 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
11595169 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAA
1 TATTGATTATGTTTTAAGCTTGTTGGATATTGAA
11595202 ATGGTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.88
36 4 0.12
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAAGCTTGTTGGATATTGAATT
Found at i:11596196 original size:39 final size:39
Alignment explanation
Indices: 11596141--11596262 Score: 125
Period size: 39 Copynumber: 3.3 Consensus size: 39
11596131 TTGATACATT
*
11596141 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTAC
1 TATGTGGTGTAATATTATGCACTTGGACAATGTTGTTAC
* ** *
11596180 TATGTGGTGTACTATTA---A-TT--ATGTAT-TTGGATA-
1 TATGTGGTGTAATATTATGCACTTGGA-CAATGTT-GTTAC
11596213 TATGTGGTGTAATATTATGCACTTGGACAATGTTGTTAC
1 TATGTGGTGTAATATTATGCACTTGGACAATGTTGTTAC
11596252 TATGTGGTGTA
1 TATGTGGTGTA
11596263 CCATTAATTA
Statistics
Matches: 64, Mismatches: 9, Indels: 20
0.69 0.10 0.22
Matches are distributed among these distances:
33 19 0.30
34 4 0.06
35 2 0.03
36 2 0.03
37 2 0.03
38 5 0.08
39 30 0.47
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.43
Consensus pattern (39 bp):
TATGTGGTGTAATATTATGCACTTGGACAATGTTGTTAC
Found at i:11596258 original size:72 final size:72
Alignment explanation
Indices: 11596141--11596284 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
11596131 TTGATACATT
*
11596141 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACTATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
11596206 TTGGATA
66 TTGGATA
*
11596213 TATGTGGTGTAATATTATGCACTTGGACAATGTTGTTACTATGTGGTGTACCATTAATTATGTAT
1 TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
11596278 TTGGATA
66 TTGGATA
11596285 ATATTATTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (72 bp):
TATGTGGTGTAATATTATGCACTTGGACAATGTTCTTACTATGTGGTGTACCATTAATTATGTAT
TTGGATA
Found at i:11596494 original size:14 final size:14
Alignment explanation
Indices: 11596475--11596502 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11596465 ACAATTTTTT
11596475 AATATATATTAATA
1 AATATATATTAATA
11596489 AATATATATTAATA
1 AATATATATTAATA
11596503 TATGTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATATATTAATA
Found at i:11596576 original size:32 final size:33
Alignment explanation
Indices: 11596535--11596619 Score: 102
Period size: 32 Copynumber: 2.6 Consensus size: 33
11596525 AACTTTTCCG
* *
11596535 GAAAATATTTT-CAGGAAATCTGCCAAACAGCA
1 GAAAATATTTTACAGCAAATCTACCAAACAGCA
* *
11596567 GAAAATATTTTACA-CAGATTTACCAAACAGCA
1 GAAAATATTTTACAGCAAATCTACCAAACAGCA
* *
11596599 GAAAATATTTTCCAGTAAATC
1 GAAAATATTTTACAGCAAATC
11596620 ATTTTACAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
32 38 0.88
33 5 0.12
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCTACCAAACAGCA
Found at i:11596637 original size:20 final size:20
Alignment explanation
Indices: 11596612--11596651 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11596602 AATATTTTCC
*
11596612 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11596632 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11596652 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11596657 original size:34 final size:35
Alignment explanation
Indices: 11596600--11596666 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
11596590 CAAACAGCAG
*
11596600 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11596635 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11596667 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11596658 original size:14 final size:14
Alignment explanation
Indices: 11596635--11596674 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11596625 ACAGAAAAGT
*
11596635 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
11596649 AAATCATTTTACGG
1 AAAACATTTTACAG
11596663 AAAACATTTTAC
1 AAAACATTTTAC
11596675 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:11597236 original size:41 final size:42
Alignment explanation
Indices: 11597146--11597245 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 42
11597136 TTGCAATTTC
* * *
11597146 TCCACAGCTCGTATGAGCAACATCGTGTAGCTAACATCCTGA
1 TCCATAGCTCGTGTGAGCAACATCGTATAGCTAACATCCTGA
11597188 -CCTATAGCTCGTGTGAGCAGA-AT-GTATAGCTAACAT-CTCGA
1 TCC-ATAGCTCGTGTGAGCA-ACATCGTATAGCTAACATCCT-GA
*
11597229 TCCATAGCTTGTGTGAG
1 TCCATAGCTCGTGTGAG
11597246 AAGACCTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
40 2 0.04
41 29 0.58
42 18 0.36
43 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (42 bp):
TCCATAGCTCGTGTGAGCAACATCGTATAGCTAACATCCTGA
Found at i:11598165 original size:20 final size:22
Alignment explanation
Indices: 11598142--11598183 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
11598132 TTTGGTGTTT
11598142 TGAAA-GTGCTTTTAAC-CATG
1 TGAAATGTGCTTTTAACACATG
11598162 TGAAATGTGCTTTTAACACATG
1 TGAAATGTGCTTTTAACACATG
11598184 GGCACCCCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 5 0.25
21 11 0.55
22 4 0.20
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (22 bp):
TGAAATGTGCTTTTAACACATG
Found at i:11599691 original size:19 final size:20
Alignment explanation
Indices: 11599669--11599714 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
11599659 TTAATTTAAG
*
11599669 TAATTTAGTTTAATT-ACCT
1 TAATTTAGCTTAATTAACCT
* *
11599688 TAATTTCGCTTAATTAACTT
1 TAATTTAGCTTAATTAACCT
11599708 TAATTTA
1 TAATTTA
11599715 ATTTTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (20 bp):
TAATTTAGCTTAATTAACCT
Found at i:11607437 original size:45 final size:45
Alignment explanation
Indices: 11607336--11607519 Score: 212
Period size: 45 Copynumber: 4.1 Consensus size: 45
11607326 AATAATAACA
* * * *
11607336 GATACACGGTGG-ATCAGCACATAGC-ACCACCCTTATAGTCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
* ** * * *
11607379 GATACTCAATGGAATCAGCACATAGTAACCACCTTCATAATCAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
*
11607424 -AGTACCCGGTGGAATCAACACACAGCAACCACCTTTATAATCAAT
1 GA-TACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
* *
11607469 GATACCTGGTGGAATCAGCACACAGCAACCACCTTTATAATAAAT
1 GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
*
11607514 GGTACC
1 GATACC
11607520 TGGTACACGT
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
43 9 0.08
44 13 0.11
45 96 0.81
46 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.22
Consensus pattern (45 bp):
GATACCCGGTGGAATCAGCACACAGCAACCACCTTTATAATCAAT
Found at i:11614055 original size:28 final size:26
Alignment explanation
Indices: 11614031--11614111 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
11614021 TTGTAAAACT
11614031 TAATAA-AAAATCATAGAAATATAAAAA
1 TAATAACAAAAT-ATAGAAA-ATAAAAA
*
11614058 TCATAACAAAATATAGAAAATAAGATAA
1 TAATAACAAAATATAGAAAATAA-A-AA
* * * *
11614086 AAATTACAAAA-AAAGATAATAAAAA
1 TAATAACAAAATATAGAAAATAAAAA
11614111 T
1 T
11614112 TATTTATGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
25 2 0.05
26 5 0.11
27 22 0.50
28 15 0.34
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (26 bp):
TAATAACAAAATATAGAAAATAAAAA
Found at i:11615362 original size:31 final size:31
Alignment explanation
Indices: 11615298--11615362 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
11615288 AAAAAAATAT
* *
11615298 ATTTTTTTCATAATTTTCTATATTTTTTGTA
1 ATTTTTTTCATAATTTTCTATATTATTTATA
* *
11615329 ATTTTTTTTATCATTTT-TATAATTATTTATA
1 ATTTTTTTCATAATTTTCTAT-ATTATTTATA
11615360 ATT
1 ATT
11615363 ATTATTATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (31 bp):
ATTTTTTTCATAATTTTCTATATTATTTATA
Found at i:11615531 original size:27 final size:25
Alignment explanation
Indices: 11615491--11615567 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 25
11615481 AGTTTTTCTG
* *
11615491 ATTTTTTATTAATTTTTATATTTAT
1 ATTTTCTAATAATTTTTATATTTAT
*
11615516 AATTTTCTAAATAATTTTTATAATGGTAT
1 -ATTTTCT-AATAATTTTTAT-AT-TTAT
* *
11615545 GTTTTCTATTAATTTTTATATTT
1 ATTTTCTAATAATTTTTATATTT
11615568 TTTTAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
25 1 0.02
26 8 0.19
27 22 0.52
28 8 0.19
29 3 0.07
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (25 bp):
ATTTTCTAATAATTTTTATATTTAT
Found at i:11617285 original size:24 final size:21
Alignment explanation
Indices: 11617248--11617304 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
11617238 TATTTATAAA
11617248 ATTTTTTTAT-AATTTTGTATGT
1 ATTTTTTTATAAATTTTG--TGT
11617270 ATTTTTTTATAGAATTTTGTGT
1 ATTTTTTTATA-AATTTTGTGT
*
11617292 ATTTTTATATAAA
1 ATTTTTTTATAAA
11617305 AAAAGCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.06
22 23 0.72
24 7 0.22
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (21 bp):
ATTTTTTTATAAATTTTGTGT
Found at i:11634872 original size:16 final size:17
Alignment explanation
Indices: 11634851--11634891 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
11634841 TTAATTTTAT
11634851 ATAAAAATTA-TAAAAA
1 ATAAAAATTATTAAAAA
11634867 ATAAAAATTATTTAAAAA
1 ATAAAAATTA-TTAAAAA
11634885 ATAAAAA
1 ATAAAAA
11634892 GTTCTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.43
18 13 0.57
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAAAATTATTAAAAA
Found at i:11634904 original size:19 final size:18
Alignment explanation
Indices: 11634851--11634906 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
11634841 TTAATTTTAT
11634851 ATAAAAA-T-TATAAAAA
1 ATAAAAATTATATAAAAA
*
11634867 ATAAAAATTATTTAAAAA
1 ATAAAAATTATATAAAAA
*
11634885 ATAAAAAGTTCTATATAAAA
1 ATAAAAA-TTATATA-AAAA
11634905 AT
1 AT
11634907 TCTAGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 7 0.21
17 1 0.03
18 14 0.42
19 5 0.15
20 6 0.18
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAAAAATTATATAAAAA
Found at i:11642565 original size:20 final size:20
Alignment explanation
Indices: 11642511--11642566 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
11642501 TGAAAAAATC
** *
11642511 AAAGTATCGATACCCTTAGT
1 AAAGTATCGATACTTTTAAT
* * *
11642531 TAAGTATTGACACTTTTAAT
1 AAAGTATCGATACTTTTAAT
11642551 AAAGTATCGATACTTT
1 AAAGTATCGATACTTT
11642567 ATCAGGGTAT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (20 bp):
AAAGTATCGATACTTTTAAT
Found at i:11643452 original size:28 final size:28
Alignment explanation
Indices: 11643408--11643477 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
11643398 AGAGGGCACT
*
11643408 GAAGTGCATTAACAGAATAGAACAACACC
1 GAAGTGC-TTATCAGAATAGAACAACACC
*
11643437 -AATGTGCTTATCAGAATAGAGCAACACC
1 GAA-GTGCTTATCAGAATAGAACAACACC
11643465 GAAGTGCTTATCA
1 GAAGTGCTTATCA
11643478 AAACAGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
28 31 0.84
29 6 0.16
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (28 bp):
GAAGTGCTTATCAGAATAGAACAACACC
Found at i:11643485 original size:28 final size:28
Alignment explanation
Indices: 11643430--11643485 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
11643420 CAGAATAGAA
* *
11643430 CAACACCAATGTGCTTATCAGAATAGAG
1 CAACACCAATGTGCTTATCAAAACAGAG
11643458 CAACACCGAA-GTGCTTATCAAAACAGAG
1 CAACACC-AATGTGCTTATCAAAACAGAG
11643486 AGCTCATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 23 0.92
29 2 0.08
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (28 bp):
CAACACCAATGTGCTTATCAAAACAGAG
Found at i:11645534 original size:6 final size:6
Alignment explanation
Indices: 11645525--11645553 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11645515 ACATCTTATA
11645525 TGAATC TGAATC TGAATC TGAATC TGAAT
1 TGAATC TGAATC TGAATC TGAATC TGAAT
11645554 TCTGGGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (6 bp):
TGAATC
Found at i:11648465 original size:28 final size:28
Alignment explanation
Indices: 11648401--11648454 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
11648391 CGATGTGCTA
* *
11648401 AAACCACC-AATAATCAATAATGCAATG
1 AAACTACCAAATAATAAATAATGCAATG
11648428 AAACTACCAAATAATAAATAATGCAAT
1 AAACTACCAAATAATAAATAATGCAAT
11648455 ATAATCGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.20
Consensus pattern (28 bp):
AAACTACCAAATAATAAATAATGCAATG
Found at i:11649995 original size:25 final size:25
Alignment explanation
Indices: 11649967--11650016 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11649957 TTTTACAACC
* *
11649967 TTAGAAAACATACCCCATTTAGAGA
1 TTAGAAAACATAACACATTTAGAGA
**
11649992 TTAGAACTCATAACACATTTAGAGA
1 TTAGAAAACATAACACATTTAGAGA
11650017 ATTTTGTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (25 bp):
TTAGAAAACATAACACATTTAGAGA
Found at i:11658745 original size:19 final size:20
Alignment explanation
Indices: 11658721--11658760 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
11658711 TAATAGGGAC
11658721 TTTTGGAGGGGCTA-AATAT
1 TTTTGGAGGGGCTAGAATAT
11658740 TTTTGGAGGGGCTAGAATAT
1 TTTTGGAGGGGCTAGAATAT
11658760 T
1 T
11658761 CAGCTGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.25, C:0.05, G:0.33, T:0.38
Consensus pattern (20 bp):
TTTTGGAGGGGCTAGAATAT
Found at i:11659417 original size:37 final size:37
Alignment explanation
Indices: 11659313--11659417 Score: 122
Period size: 37 Copynumber: 2.8 Consensus size: 37
11659303 TGTTTTCGGT
* * *
11659313 TGGACTAGCTCTT-CAGAGCAATTGGCATGATATCGAG
1 TGGATTAGCTCTTAC-GAGCAATTGGCATGTTATCGAA
* * *
11659350 TGGATTAGCTCTTATGAGCAACTGGTATGTTATCGAA
1 TGGATTAGCTCTTACGAGCAATTGGCATGTTATCGAA
**
11659387 TGGATTAGCTCTTACGAGTGATTGGCATGTT
1 TGGATTAGCTCTTACGAGCAATTGGCATGTT
11659418 TTGGTTGGAA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (37 bp):
TGGATTAGCTCTTACGAGCAATTGGCATGTTATCGAA
Found at i:11666508 original size:24 final size:24
Alignment explanation
Indices: 11666455--11666508 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
11666445 ACCAGGCTTT
* *
11666455 TAATTATACCATGAGAAATTTGAA
1 TAATTTTACCATGAAAAATTTGAA
*
11666479 TGATTTTACCATGAAAAA-TTGTAA
1 TAATTTTACCATGAAAAATTTG-AA
11666503 TAATTT
1 TAATTT
11666509 GATTGTGGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (24 bp):
TAATTTTACCATGAAAAATTTGAA
Found at i:11673814 original size:6 final size:6
Alignment explanation
Indices: 11673803--11673831 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11673793 TAGTTTCCAA
11673803 AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG
11673832 ATTCATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:11675643 original size:12 final size:12
Alignment explanation
Indices: 11675618--11675654 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
11675608 ATCATCATCA
11675618 TCTTC-TCCTCC
1 TCTTCTTCCTCC
*
11675629 TCTTCTTCTTCC
1 TCTTCTTCCTCC
11675641 TCTTCTTCCTCC
1 TCTTCTTCCTCC
11675653 TC
1 TC
11675655 CTCCTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 5 0.22
12 18 0.78
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (12 bp):
TCTTCTTCCTCC
Found at i:11682755 original size:35 final size:35
Alignment explanation
Indices: 11682714--11682786 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
11682704 TACATAATTA
11682714 ACTAAATTACATAGTATTTACTACAAATTATTTAT
1 ACTAAATTACATAGTATTTACTACAAATTATTTAT
* * * **
11682749 ACTAAATTATATAGTGTTTATTATTAATTATTTAT
1 ACTAAATTACATAGTATTTACTACAAATTATTTAT
11682784 ACT
1 ACT
11682787 TGGTAAATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (35 bp):
ACTAAATTACATAGTATTTACTACAAATTATTTAT
Found at i:11688199 original size:3 final size:3
Alignment explanation
Indices: 11688191--11688216 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11688181 TTCTTATATT
11688191 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
11688217 AGGAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11688428 original size:4 final size:4
Alignment explanation
Indices: 11688419--11688460 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
11688409 AAGCAAAATA
11688419 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
11688461 ATATTTCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:11691163 original size:23 final size:23
Alignment explanation
Indices: 11691137--11691180 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
11691127 TGTCAAATTG
*
11691137 GATTTCTTAATGGGATGAGAATA
1 GATTTCTTAATGGGAAGAGAATA
11691160 GATTTCTTAATGGGAAGAGAA
1 GATTTCTTAATGGGAAGAGAA
11691181 ATGGATAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (23 bp):
GATTTCTTAATGGGAAGAGAATA
Found at i:11692046 original size:28 final size:27
Alignment explanation
Indices: 11692015--11692127 Score: 95
Period size: 28 Copynumber: 4.1 Consensus size: 27
11692005 TTTTAATAAA
*
11692015 TTTATATTTTTTATAATTTATTAGATTT
1 TTTATATTTTTTATAATTTATAAG-TTT
*
11692043 TTTATATTTTATA-ATATTTATAAGTTT
1 TTTATATTTTTTATA-ATTTATAAGTTT
* * *
11692070 TTAACT-TTTTTTATAAGTTTATATGCTT
1 TTTA-TATTTTTTATAA-TTTATAAGTTT
* ** *
11692098 TTAATATTTTTTATTTTTTATAAATTT
1 TTTATATTTTTTATAATTTATAAGTTT
11692125 TTT
1 TTT
11692128 TCTGATTTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
27 25 0.37
28 43 0.63
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATATTTTTTATAATTTATAAGTTT
Found at i:11692061 original size:19 final size:19
Alignment explanation
Indices: 11692018--11692061 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11692008 TAATAAATTT
*
11692018 ATATTTTTTATAATTTATT
1 ATATTTTTTATAATTTATA
* *
11692037 AGATTTTTTATATTTTATA
1 ATATTTTTTATAATTTATA
11692056 ATATTT
1 ATATTT
11692062 ATAAGTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
ATATTTTTTATAATTTATA
Found at i:11694255 original size:40 final size:38
Alignment explanation
Indices: 11694211--11694293 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 38
11694201 TTAAAAATAT
* * *
11694211 TTATAGTAAAAACATTACCATAAATATAATAAATGTTTTA
1 TTATAGTAAAAACA-CA-AATAAATATAATAAATATTTTA
*
11694251 TTATATTAAAAACACAAATAAATATAATAAATATTTTA
1 TTATAGTAAAAACACAAATAAATATAATAAATATTTTA
11694289 TTATA
1 TTATA
11694294 TTACATACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 25 0.64
39 1 0.03
40 13 0.33
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (38 bp):
TTATAGTAAAAACACAAATAAATATAATAAATATTTTA
Found at i:11697984 original size:102 final size:101
Alignment explanation
Indices: 11697802--11698105 Score: 374
Period size: 102 Copynumber: 2.9 Consensus size: 101
11697792 AGGTGAAAAG
* *
11697802 GCTCGATTCCGATGACATGAGCTCCTTCACCTTCACCTTCGTCTACTTCAGGATCCATCGTGTTG
1 GCTCGATTCCGATGAGATGAGCTCCTTCA---T---CTTCGTCTA-TTCAGGCTCCATCGTGTTG
*
11697867 CCATGGCCACCATCCTCCGCTCCAGCGTTAATATAGTTATAAA
59 CCATGGCCACCATCCTCTGCTCCAGCGTTAATATAGTTATAAA
* * *
11697910 GCTCGATTCCGATGAGATGAGCTCCTTCATCTTCCTCTATTACAGGCTCCCTCGTGTTTCCATGG
1 GCTCGATTCCGATGAGATGAGCTCCTTCATCTTCGTCTATT-CAGGCTCCATCGTGTTGCCATGG
* * * *
11697975 CCGCCATCCTCTACACCTGCGTTAATATAGTTATAAA
65 CCACCATCCTCTGCTCCAGCGTTAATATAGTTATAAA
* * * * **
11698012 GCGCGATTCCGATGAGCTCAACTCCTTCATCTTCGTCTATTTCAGGCTCTGTCGTGTTGCCATGG
1 GCTCGATTCCGATGAGATGAGCTCCTTCATCTTCGTCTA-TTCAGGCTCCATCGTGTTGCCATGG
*
11698077 CCACCATCCTCTGCTCCATCGTTAATATA
65 CCACCATCCTCTGCTCCAGCGTTAATATA
11698106 ATTAGGGATG
Statistics
Matches: 171, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
101 2 0.01
102 138 0.81
103 2 0.01
105 1 0.01
108 28 0.16
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.32
Consensus pattern (101 bp):
GCTCGATTCCGATGAGATGAGCTCCTTCATCTTCGTCTATTCAGGCTCCATCGTGTTGCCATGGC
CACCATCCTCTGCTCCAGCGTTAATATAGTTATAAA
Found at i:11703045 original size:51 final size:52
Alignment explanation
Indices: 11702993--11703092 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 52
11702983 AAAAATCAAT
*
11702993 TTTTATATATTATTTTAA-TTTTCTAAATTT-TA-TATTTATATATTATAGAA
1 TTTTATA-ATTATTTTAATTTTTCTAAATTTGAATTATTTATATATTATAGAA
* *
11703043 TTTTATAATTTTTTTAATTTTTTTTAAATTTGAATTATTTATATATTATA
1 TTTTATAATTATTTTAA-TTTTTCTAAATTTGAATTATTTATATATTATA
11703093 TATGATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 9 0.21
50 7 0.16
51 11 0.26
52 1 0.02
53 15 0.35
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (52 bp):
TTTTATAATTATTTTAATTTTTCTAAATTTGAATTATTTATATATTATAGAA
Found at i:11703121 original size:87 final size:85
Alignment explanation
Indices: 11702966--11703126 Score: 196
Period size: 87 Copynumber: 1.9 Consensus size: 85
11702956 TCAAATACCT
* * **
11702966 TTTTTTTAATTTTTTATAAAAATCAATTTTTATATATTATTTTAATTTTCTAAATTTTATATTTA
1 TTTTTTTAATTTTTTATAAAAATCAATTTTTATATATTATTATAATTTTCTAAATTTTAAATCAA
*
11703031 TATATTATAGAATTTTATAA
66 TATAATATAGAATTTTATAA
* ** * * * *
11703051 TTTTTTTAATTTTTTTTAAATTTGAATTATTTATATATTATATATGATTTTTTACATTTTAAATC
1 TTTTTTTAATTTTTTATAAAAATCAATT-TTTATATATTAT-TATAATTTTCTAAATTTTAAATC
11703116 AATATAATATA
64 AATATAATATA
11703127 TGATATTTAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
85 24 0.39
86 12 0.19
87 26 0.42
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (85 bp):
TTTTTTTAATTTTTTATAAAAATCAATTTTTATATATTATTATAATTTTCTAAATTTTAAATCAA
TATAATATAGAATTTTATAA
Found at i:11728827 original size:23 final size:23
Alignment explanation
Indices: 11728801--11728844 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11728791 ACGCCAGAGA
*
11728801 GTGTAACAAGACAGCATCAAAAT
1 GTGTAACAAGACAGCACCAAAAT
*
11728824 GTGTAACAGGACAGCACCAAA
1 GTGTAACAAGACAGCACCAAA
11728845 GTGCGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (23 bp):
GTGTAACAAGACAGCACCAAAAT
Found at i:11728852 original size:23 final size:23
Alignment explanation
Indices: 11728803--11728852 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
11728793 GCCAGAGAGT
* *
11728803 GTAACAAGACAGCATCAAAATGT
1 GTAACAAGACAGCACCAAAATGC
* *
11728826 GTAACAGGACAGCACCAAAGTGC
1 GTAACAAGACAGCACCAAAATGC
11728849 GTAA
1 GTAA
11728853 ATAGATAGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (23 bp):
GTAACAAGACAGCACCAAAATGC
Found at i:11738509 original size:21 final size:21
Alignment explanation
Indices: 11738442--11738509 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
11738432 AAAAATACAT
*
11738442 AAAAGAGAAAAAGAAAAAAATAC
1 AAAA-AGAAAAAG-AAAAATTAC
** * *
11738465 -AAATTAAAAAG-AAATTTTC
1 AAAAAGAAAAAGAAAAATTAC
11738484 AAAAAAGAAAAAGAAAAATTAC
1 -AAAAAGAAAAAGAAAAATTAC
11738506 AAAA
1 AAAA
11738510 TAATATAGAT
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 5 0.15
21 19 0.58
22 9 0.27
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.13
Consensus pattern (21 bp):
AAAAAGAAAAAGAAAAATTAC
Found at i:11739869 original size:16 final size:15
Alignment explanation
Indices: 11739848--11739895 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
11739838 CTTTTATGAC
11739848 AATTTTTAATTTTTGA
1 AATTTTTAATTTTT-A
11739864 AATTTTATATATTTTTA
1 AATTTT-TA-ATTTTTA
*
11739881 ATTTTTTTAATTTTT
1 A-ATTTTTAATTTTT
11739896 TTATTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 12 0.43
17 6 0.21
18 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
AATTTTTAATTTTTA
Found at i:11739892 original size:25 final size:24
Alignment explanation
Indices: 11739849--11739902 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
11739839 TTTTATGACA
11739849 ATTTTTAATTTTTGAAATTTTATAT
1 ATTTTTAATTTTTGAAATTTT-TAT
** *
11739874 ATTTTTAATTTTTTTAATTTTTTT
1 ATTTTTAATTTTTGAAATTTTTAT
11739898 ATTTT
1 ATTTT
11739903 ATTTTCCCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
ATTTTTAATTTTTGAAATTTTTAT
Found at i:11740568 original size:11 final size:11
Alignment explanation
Indices: 11740527--11740586 Score: 86
Period size: 11 Copynumber: 5.5 Consensus size: 11
11740517 AACTAAATCC
11740527 TTTCTCTC-AA
1 TTTCTCTCAAA
*
11740537 TTTCTCTCTAA
1 TTTCTCTCAAA
11740548 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
11740560 TTCCTCTCAAA
1 TTTCTCTCAAA
11740571 TTTCTCTCAAA
1 TTTCTCTCAAA
11740582 TTTCT
1 TTTCT
11740587 ATTTAAAAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
10 8 0.18
11 27 0.60
12 10 0.22
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:11742436 original size:18 final size:18
Alignment explanation
Indices: 11742413--11742455 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
11742403 TGCCAGGTCC
* *
11742413 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
11742431 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
11742449 GTTTCCT
1 GTATCCT
11742456 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:11742929 original size:49 final size:49
Alignment explanation
Indices: 11742876--11743143 Score: 464
Period size: 49 Copynumber: 5.5 Consensus size: 49
11742866 GTTTATATTA
* *
11742876 ATGTAATAAAATACAAAATAGTTTAATTTGAATATTTTGGTATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
11742925 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
11742974 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
11743023 ATGTAATAAAATACAAAATAGTTTATTTTAAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
11743072 ATTTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
11743121 ATTTAATAAAATACAAAGTAGTT
1 ATGTAATAAAATACAAAATAGTT
11743144 AATATTCTTA
Statistics
Matches: 212, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 212 1.00
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:11746330 original size:124 final size:124
Alignment explanation
Indices: 11745928--11746340 Score: 709
Period size: 126 Copynumber: 3.3 Consensus size: 124
11745918 CCCAAACATG
** * * *
11745928 CTACTGTAGCAAAAATGCATCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCACCCGGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
11745993 TTGAAGCATTTTATATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAAGAC
66 TTGAAGCATTTT-TATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
11746053 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
11746118 TTAAAGCCTTTTTTTATACTATTTGCTCAGAAACGTGAACTCGAAATTATTTTTTCAGGAC
66 TTGAAG-C-ATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
11746179 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
*
11746244 TTGAAGCATTTTTATACTATTTGCTCAGAAATGTCAACTCGAAATTATTTTTTCAGGAC
66 TTGAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
11746303 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
11746341 CTTAATAAAT
Statistics
Matches: 273, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
124 87 0.32
125 66 0.24
126 116 0.42
127 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
TTGAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:11746537 original size:13 final size:13
Alignment explanation
Indices: 11746519--11746552 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
11746509 AAATCCTAAA
*
11746519 AACCCTAAACCTT
1 AACCCTAAACCCT
11746532 AACCCT-AACCCT
1 AACCCTAAACCCT
11746544 AACCCTAAA
1 AACCCTAAA
11746553 AACCCAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:11756385 original size:18 final size:18
Alignment explanation
Indices: 11756362--11756399 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
11756352 AAAATTCACT
11756362 TAACAA-AATACTTATAAA
1 TAACAACAATACTTA-AAA
11756380 TAACAACTAATACTTAAAA
1 TAACAAC-AATACTTAAAA
11756399 T
1 T
11756400 TCATCATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACAACAATACTTAAAA
Found at i:11759270 original size:28 final size:30
Alignment explanation
Indices: 11759238--11759309 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
11759228 CTGGATGGGT
11759238 AACC-TAATATAA-GTCAACTTGTGTGAAC
1 AACCTTAATATAATGTCAACTTGTGTGAAC
* * * *
11759266 AACCTTTATATAATTTCAGCTTGTGTGAGC
1 AACCTTAATATAATGTCAACTTGTGTGAAC
* *
11759296 AACATTGATATAAT
1 AACCTTAATATAAT
11759310 TTAAGATTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
28 4 0.11
29 7 0.19
30 25 0.69
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (30 bp):
AACCTTAATATAATGTCAACTTGTGTGAAC
Found at i:11759291 original size:30 final size:30
Alignment explanation
Indices: 11759255--11759311 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
11759245 TATAAGTCAA
* *
11759255 CTTGTGTGAACAACCTTTATATAATTTCAG
1 CTTGTGTGAACAACATTGATATAATTTCAG
*
11759285 CTTGTGTGAGCAACATTGATATAATTT
1 CTTGTGTGAACAACATTGATATAATTT
11759312 AAGATTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (30 bp):
CTTGTGTGAACAACATTGATATAATTTCAG
Found at i:11760007 original size:22 final size:22
Alignment explanation
Indices: 11759977--11760019 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11759967 ACACCAAAAC
*
11759977 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
11759999 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
11760020 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:11760229 original size:43 final size:43
Alignment explanation
Indices: 11760080--11760349 Score: 312
Period size: 43 Copynumber: 6.3 Consensus size: 43
11760070 TTTTAGAAAT
* *
11760080 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTCCCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
11760122 AAACGCCACTAAAGACCAAGACCTTCAACGGCGCTTTTCCCA-
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
11760164 AAATGCCGCTAAAGACCAAGACCTTCAGCGACGCTATCCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
11760207 AAACGCCGCTAAAGACCAAGACCTTTAACGGCACTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
11760250 AAACGCCGCTATAA-ACCATGACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTA-AAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * * *
11760293 AAACGCCGCTATAGGCCATGACCTTTAGCGACGCTTTTCCTAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
11760336 AAACGCCACTAAAG
1 AAACGCCGCTAAAG
11760350 GCACTTCTAC
Statistics
Matches: 193, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
42 67 0.35
43 124 0.64
44 2 0.01
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:11761805 original size:41 final size:41
Alignment explanation
Indices: 11761747--11761896 Score: 264
Period size: 41 Copynumber: 3.6 Consensus size: 41
11761737 CTTAATTTAA
* * *
11761747 CAGATTCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
11761789 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
11761830 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
11761871 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
11761897 ACGTATAGTC
Statistics
Matches: 105, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 101 0.96
42 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:11761925 original size:82 final size:82
Alignment explanation
Indices: 11761751--11761926 Score: 235
Period size: 82 Copynumber: 2.1 Consensus size: 82
11761741 ATTTAACAGA
* * *
11761751 TTCACCGGCACTTAGCTTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
** * *
11761816 TTTATAACCTGATTCAG
66 CGTATAACCTGAATAAG
* *
11761833 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
** *
11761898 CGTATAGTCTGAATAAT
66 CGTATAACCTGAATAAG
*
11761915 TTCACTGGCACT
1 TTCACCGGCACT
11761927 AAATCCGATT
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGA
CGTATAACCTGAATAAG
Found at i:11766962 original size:13 final size:13
Alignment explanation
Indices: 11766929--11766973 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
11766919 CCTTTATAAG
**
11766929 GGATTCAACTCTT
1 GGATTCAACTCCA
11766942 GGATTTCAACTCCA
1 GGA-TTCAACTCCA
*
11766956 GGATTCAACTCCC
1 GGATTCAACTCCA
11766969 GGATT
1 GGATT
11766974 TCGTATATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (13 bp):
GGATTCAACTCCA
Found at i:11767581 original size:22 final size:22
Alignment explanation
Indices: 11767556--11767598 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11767546 GGAGACCAAT
11767556 TTTAGGGGGGAAAATTAGGGGG
1 TTTAGGGGGGAAAATTAGGGGG
*
11767578 TTTAGGGGGGAAATTTAGGGG
1 TTTAGGGGGGAAAATTAGGGG
11767599 AAAAAAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.49, T:0.26
Consensus pattern (22 bp):
TTTAGGGGGGAAAATTAGGGGG
Found at i:11768059 original size:7 final size:7
Alignment explanation
Indices: 11768049--11768167 Score: 80
Period size: 7 Copynumber: 16.7 Consensus size: 7
11768039 TTATAAAACA
11768049 TAAACCC
1 TAAACCC
11768056 TAAACCCC
1 TAAA-CCC
11768064 T-AACCC
1 TAAACCC
*
11768070 TAAATCC
1 TAAACCC
*
11768077 TAAATCC
1 TAAACCC
* *
11768084 TAAATCT
1 TAAACCC
11768091 TAAACCCC
1 TAAA-CCC
*
11768099 TAAACCT
1 TAAACCC
11768106 TAAA-CC
1 TAAACCC
*
11768112 TCAACCC
1 TAAACCC
*
11768119 TTAAACCA
1 -TAAACCC
*
11768127 TAAACCA
1 TAAACCC
**
11768134 TAAACAA
1 TAAACCC
*
11768141 TAATCCC
1 TAAACCC
11768148 TAAACCC
1 TAAACCC
*
11768155 ATAATCCC
1 -TAAACCC
11768163 TAAAC
1 TAAAC
11768168 TATAATGATA
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
6 8 0.09
7 62 0.69
8 20 0.22
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:11768102 original size:15 final size:15
Alignment explanation
Indices: 11768067--11768111 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
11768057 AAACCCCTAA
*
11768067 CCCTAAATCCTAAA-
1 CCCTAAATCTTAAAC
*
11768081 TCCTAAATCTTAAAC
1 CCCTAAATCTTAAAC
*
11768096 CCCTAAACCTTAAAC
1 CCCTAAATCTTAAAC
11768111 C
1 C
11768112 TCAACCCTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (15 bp):
CCCTAAATCTTAAAC
Found at i:11768151 original size:14 final size:14
Alignment explanation
Indices: 11768120--11768173 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
11768110 CCTCAACCCT
* *
11768120 TAAACCATAAACCA
1 TAAACCATAATCCC
*
11768134 TAAACAATAATCCC
1 TAAACCATAATCCC
11768148 TAAACCCATAATCCC
1 TAAA-CCATAATCCC
*
11768163 TAAACTATAAT
1 TAAACCATAAT
11768174 GATAATTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 21 0.62
15 13 0.38
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:11769186 original size:41 final size:40
Alignment explanation
Indices: 11769120--11769445 Score: 314
Period size: 41 Copynumber: 7.7 Consensus size: 40
11769110 AATATTTTTT
* * *
11769120 GCGGCGCTTTTTCAAAAATGTCGCTAAAGACCAAAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * **
11769161 GTGGCGCTTCTTAAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
11769201 GCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTTT-CAAAAACGCCGCTAAAGACCAGAGCATTA
* *
11769242 GCGACGCTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTA
1 GCGGCGCTTTT-CAAAAACGCCGCTAAAGACCAGAGCATTA
*
11769283 GCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCAGAGCAAGCCTAGAGCATTA
1 GCGGCGCTTTT-CAAAAACGCCGCT--A----A-AG--A-CC-AGAGCATTA
*
11769335 GCGGTGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
11769376 GCGGCGCTTCTTCAAAAACACCGCTAAAGCCCCA-AGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAG-ACCAGAGCATTA
* * *
11769417 GTGGCACTTTTTAAAAAACGCCGCTAAAG
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAG
11769446 GCTCAAAAAC
Statistics
Matches: 243, Mismatches: 25, Indels: 34
0.80 0.08 0.11
Matches are distributed among these distances:
39 2 0.01
40 34 0.14
41 158 0.65
42 7 0.03
43 2 0.01
45 2 0.01
46 1 0.00
47 1 0.00
48 2 0.01
50 2 0.01
51 2 0.01
52 28 0.12
53 2 0.01
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:11769392 original size:93 final size:93
Alignment explanation
Indices: 11769233--11769407 Score: 273
Period size: 93 Copynumber: 1.9 Consensus size: 93
11769223 GCTAAAGACC
11769233 AGAGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAA
1 AGAGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAA
* *
11769298 AAACGCTGCTAAAGCCCAGAGCAAGCCT
66 AAACACCGCTAAAGCCCAGAGCAAGCCT
** *
11769326 AGAGCATTAGCGGTGCTTCTT-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTT-C
1 AGAGCATTAGCGACGCTT-TTCCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTT-TTCC
11769389 AAAAACACCGCTAAAGCCC
64 AAAAACACCGCTAAAGCCC
11769408 CAAGCATTAG
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
93 71 0.95
94 4 0.05
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.18
Consensus pattern (93 bp):
AGAGCATTAGCGACGCTTTTCCAAAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAA
AAACACCGCTAAAGCCCAGAGCAAGCCT
Found at i:11769434 original size:134 final size:134
Alignment explanation
Indices: 11769191--11769445 Score: 388
Period size: 134 Copynumber: 1.9 Consensus size: 134
11769181 CCGCTAAAAA
11769191 TAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGACGCTTTTCCA
1 TAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGACGCTTTTCCA
* * * *
11769256 AAAACGCCGCTAAAGACCAAAGCATTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCAGAGCA
66 AAAACACCGCTAAAGACCAAAGCATTAGCGGCACTTTTCAAAAAACGCCGCTAAAGCCCAGAGCA
11769321 AGCC
131 AGCC
* *
11769325 TAGAGCATTAGCGGTGCTTCTT-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTCTT-
1 TAGAGCATTAGCGGCGCTT-TTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGACGCTT-TTC
* * * *
11769388 CAAAAACACCGCTAAAGCCCCAAGCATTAGTGGCACTTTTTAAAAAACGCCGCTAAAG
64 CAAAAACACCGCTAAAGACCAAAGCATTAGCGGCACTTTTCAAAAAACGCCGCTAAAG
11769446 GCTCAAAAAC
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
134 105 0.96
135 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (134 bp):
TAGAGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCAGAGCATTAGCGACGCTTTTCCA
AAAACACCGCTAAAGACCAAAGCATTAGCGGCACTTTTCAAAAAACGCCGCTAAAGCCCAGAGCA
AGCC
Found at i:11783215 original size:17 final size:17
Alignment explanation
Indices: 11783190--11783222 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
11783180 TAATGATTAA
11783190 AAATCATTAAAAATTATC
1 AAATCATT-AAAATTATC
11783208 AAAT-ATTAAAATTAT
1 AAATCATTAAAATTAT
11783223 ATAAACTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATCATTAAAATTATC
Found at i:11783227 original size:10 final size:10
Alignment explanation
Indices: 11783214--11783298 Score: 61
Period size: 10 Copynumber: 8.5 Consensus size: 10
11783204 TATCAAATAT
11783214 TAAAATTATA
1 TAAAATTATA
*
11783224 TAAACTTATA
1 TAAAATTATA
*
11783234 -AAAATTATTT
1 TAAAATTA-TA
*
11783244 TAAAA-AATA
1 TAAAATTATA
11783253 TAATAAATTATA
1 T-A-AAATTATA
11783265 -AAAATTA-A
1 TAAAATTATA
*
11783273 TAAAATATATT
1 TAAAAT-TATA
*
11783284 TAAAATTTTA
1 TAAAATTATA
11783294 TAAAA
1 TAAAA
11783299 AAATAGTATA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
8 1 0.02
9 19 0.33
10 22 0.38
11 13 0.22
12 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (10 bp):
TAAAATTATA
Found at i:11783278 original size:40 final size:40
Alignment explanation
Indices: 11783208--11783288 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
11783198 AAAAATTATC
* *
11783208 AAATATTAAAATTATATAAACTTATAAAAAT-TATTTTAAA
1 AAATATAAAAATTATATAAAATTATAAAAATATA-TTTAAA
11783248 AAATATAATAAATTATA-AAAATTA-ATAAAATATATTTAAA
1 AAATATAA-AAATTATATAAAATTATA-AAAATATATTTAAA
11783288 A
1 A
11783289 TTTTATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
39 1 0.03
40 25 0.69
41 10 0.28
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (40 bp):
AAATATAAAAATTATATAAAATTATAAAAATATATTTAAA
Done.