Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 165 of 206
Found at i:49975128 original size:27 final size:28
Alignment explanation
Indices: 49975076--49975128 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
49975066 GAAATAATTT
* *
49975076 AAATTGATTATGTTAATAATTTAAGTGC
1 AAATTAATTATGTTAATAATTAAAGTGC
*
49975104 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAATTATGTTAATAATTAAAGT
49975129 ATGAATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (28 bp):
AAATTAATTATGTTAATAATTAAAGTGC
Found at i:49978651 original size:15 final size:15
Alignment explanation
Indices: 49978612--49978668 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
49978602 TTGGAGAAAT
*
49978612 TAAAAT-AAAATTAA
1 TAAAATAAAAATAAA
**
49978626 TAACCTAAAAATTAAA
1 TAAAATAAAAA-TAAA
* *
49978642 TCAAATAAAAATAAC
1 TAAAATAAAAATAAA
49978657 TAAAATAAAAAT
1 TAAAATAAAAAT
49978669 TTGTATCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 4 0.12
15 18 0.55
16 11 0.33
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAATAAAAATAAA
Found at i:49986762 original size:49 final size:50
Alignment explanation
Indices: 49986645--49986765 Score: 140
Period size: 50 Copynumber: 2.4 Consensus size: 50
49986635 AGAGGTCCCC
* * *
49986645 TGTAAGACCATGTCTGGGACATGGCATGGGCACTGATAGTAGAACTGCCA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCAATGACAGGAGAACTGCCA
* * *
49986695 TGTAAGACCATATCTGGGATATGGCATTGGCAAT-ACAGGA-AACAT-CCTA
1 TGTAAGACCATGTCTGGGACATGGCATGGGCAATGACAGGAGAAC-TGCC-A
*
49986744 TGTAAGACCATGTTTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
49986766 CGTTTTGGCA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
48 5 0.08
49 25 0.42
50 30 0.50
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATGGGCAATGACAGGAGAACTGCCA
Found at i:49989227 original size:12 final size:12
Alignment explanation
Indices: 49989210--49989234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49989200 TAACCCCCAA
49989210 TAAAAATTATTT
1 TAAAAATTATTT
49989222 TAAAAATTATTT
1 TAAAAATTATTT
49989234 T
1 T
49989235 CAACCCAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAAAAATTATTT
Found at i:49995828 original size:14 final size:15
Alignment explanation
Indices: 49995809--49995841 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
49995799 ACACAATAAT
*
49995809 AGAAAGAAA-AAGAA
1 AGAAAGAAAGAAAAA
49995823 AGAAAGAAAGAAAAA
1 AGAAAGAAAGAAAAA
49995838 AGAA
1 AGAA
49995842 GGCTCTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAGAAAGAAAAA
Found at i:50006336 original size:47 final size:47
Alignment explanation
Indices: 50006285--50006385 Score: 123
Period size: 47 Copynumber: 2.1 Consensus size: 47
50006275 AATTTTACAA
** * *
50006285 ACAAGCTTTCAATACACATAGTAGTGGAT-AAGTCACTAAAATCCCAG
1 ACAAGCTGCCAATACACATAGTAGTGG-TCAAGCCACCAAAATCCCAG
* **
50006332 ACAAGCTGCCAATACACATAGTTGTGGTCAAGCCACCAAAATTGCAG
1 ACAAGCTGCCAATACACATAGTAGTGGTCAAGCCACCAAAATCCCAG
50006379 ACAAGCT
1 ACAAGCT
50006386 ACTGAAACGC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
46 1 0.02
47 45 0.98
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.21
Consensus pattern (47 bp):
ACAAGCTGCCAATACACATAGTAGTGGTCAAGCCACCAAAATCCCAG
Found at i:50007116 original size:11 final size:11
Alignment explanation
Indices: 50007102--50007141 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
50007092 TTGGTGAGAC
*
50007102 GGTGGTGCTAT
1 GGTGGTGATAT
*
50007113 GGTGGTGGTAT
1 GGTGGTGATAT
50007124 GGTGGTGATAT
1 GGTGGTGATAT
50007135 GGTGGTG
1 GGTGGTG
50007142 TTTCAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.10, C:0.03, G:0.53, T:0.35
Consensus pattern (11 bp):
GGTGGTGATAT
Found at i:50007323 original size:72 final size:73
Alignment explanation
Indices: 50007240--50007386 Score: 260
Period size: 73 Copynumber: 2.0 Consensus size: 73
50007230 AAAGAGAGAA
* *
50007240 AAGATGAAAC-AAAAAAAAAGGAGAAAAGATGGGAGAGAGGGGTGGACGGTTACAAGGTCAAACT
1 AAGATCAAACAAAAAAAAAAGGAGAAAAGATGGGAGAGAGGGGTGGACCGTTACAAGGTCAAACT
50007304 CATCAAAC
66 CATCAAAC
*
50007312 AAGATCAAACAAAAAAAAAAGGAGAAAAGATTGGAGAGAGGGGTGGACCGTTACAAGGTCAAACT
1 AAGATCAAACAAAAAAAAAAGGAGAAAAGATGGGAGAGAGGGGTGGACCGTTACAAGGTCAAACT
50007377 CATCAAAC
66 CATCAAAC
50007385 AA
1 AA
50007387 TGCATTCAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 9 0.13
73 62 0.87
ACGTcount: A:0.50, C:0.12, G:0.27, T:0.12
Consensus pattern (73 bp):
AAGATCAAACAAAAAAAAAAGGAGAAAAGATGGGAGAGAGGGGTGGACCGTTACAAGGTCAAACT
CATCAAAC
Found at i:50015371 original size:3 final size:3
Alignment explanation
Indices: 50015363--50015412 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
50015353 TCAAAAAGGC
50015363 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
50015411 TC
1 TC
50015413 TCCCTCGTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:50030305 original size:5 final size:5
Alignment explanation
Indices: 50030295--50030376 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
50030285 ACCTTCCTTT
* * * *
50030295 TTTTA TTTTA -TTTA GTTAATA TTTTTA TATTA TTTTA TATTA TTTTC
1 TTTTA TTTTA TTTTA -TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA
* *
50030342 TTTTC TTTT- TATTTA TTTTTA TTTTA TCTTA TTTT
1 TTTTA TTTTA T-TTTA -TTTTA TTTTA TTTTA TTTT
50030377 GCTTTTCTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
4 5 0.08
5 44 0.72
6 7 0.11
7 5 0.08
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:50030361 original size:16 final size:17
Alignment explanation
Indices: 50030342--50030382 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
50030332 TATTATTTTC
50030342 TTTTCTTTTTAT-TTAT
1 TTTTCTTTTTATCTTAT
*
50030358 TTTT-ATTTTATCTTAT
1 TTTTCTTTTTATCTTAT
*
50030374 TTTGCTTTT
1 TTTTCTTTT
50030383 CTTTATTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 6 0.30
16 11 0.55
17 3 0.15
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTTATCTTAT
Found at i:50030362 original size:31 final size:32
Alignment explanation
Indices: 50030316--50030382 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
50030306 TTAGTTAATA
* *
50030316 TTTTTATATTATTTTATATTATTTTCTTTT-C
1 TTTTTATATTATTTTATATTATCTTATTTTGC
*
50030347 TTTTTAT-TTATTTTTATTTTATCTTATTTTGC
1 TTTTTATATTA-TTTTATATTATCTTATTTTGC
50030379 TTTT
1 TTTT
50030383 CTTTATTGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 3 0.10
31 23 0.74
32 5 0.16
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.76
Consensus pattern (32 bp):
TTTTTATATTATTTTATATTATCTTATTTTGC
Found at i:50030608 original size:19 final size:19
Alignment explanation
Indices: 50030562--50030608 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
50030552 ATGATACTCG
* *
50030562 TTTAGTATTATTCTTTTTA
1 TTTAGTATTATTATTTTCA
*
50030581 GTTAGTATTATTATTTTCA
1 TTTAGTATTATTATTTTCA
*
50030600 TTTATTATT
1 TTTAGTATT
50030609 TTCCTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTAGTATTATTATTTTCA
Found at i:50037374 original size:19 final size:19
Alignment explanation
Indices: 50037350--50037390 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
50037340 CATATGCTTG
50037350 TGTATGGCACACGGTCCTA
1 TGTATGGCACACGGTCCTA
50037369 TGTATGGCACACGGTCCTA
1 TGTATGGCACACGGTCCTA
50037388 TGT
1 TGT
50037391 CTAACCGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (19 bp):
TGTATGGCACACGGTCCTA
Found at i:50040630 original size:26 final size:27
Alignment explanation
Indices: 50040579--50040640 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
50040569 AAAGATTGTT
*
50040579 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATAACCAAAATACCCTCGAAGGGTA
* *
50040606 AAATAACCAAAATACCCTTG-GGGGTA
1 AAATAACCAAAATACCCTCGAAGGGTA
*
50040632 AAATTACCA
1 AAATAACCA
50040641 TTTTACCGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 13 0.42
27 18 0.58
ACGTcount: A:0.45, C:0.21, G:0.16, T:0.18
Consensus pattern (27 bp):
AAATAACCAAAATACCCTCGAAGGGTA
Found at i:50048048 original size:16 final size:17
Alignment explanation
Indices: 50048021--50048052 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50048011 ATAAGTATTG
50048021 TATTACAACAATTAAAC
1 TATTACAACAATTAAAC
50048038 TATTA-AACAATTAAA
1 TATTACAACAATTAAA
50048053 TAACACAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (17 bp):
TATTACAACAATTAAAC
Found at i:50051796 original size:42 final size:41
Alignment explanation
Indices: 50051749--50051832 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
50051739 TTCTGAGGTG
* * *
50051749 TGATTTCGTGTAAGACCATGTCTAGGACATTGGCATCGTATA
1 TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCG-ATA
* *
50051791 TGATTTCATATAAGACCCTGTTTAGGACAGTGGCATCGATA
1 TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATA
50051832 T
1 T
50051833 CTGATAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 4 0.11
42 33 0.89
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (41 bp):
TGATTTCATATAAGACCATGTCTAGGACAGTGGCATCGATA
Found at i:50058191 original size:26 final size:26
Alignment explanation
Indices: 50058131--50058193 Score: 117
Period size: 26 Copynumber: 2.4 Consensus size: 26
50058121 CTACCTACAG
*
50058131 TAGTTTCAAAATATCATAACATATAT
1 TAGTTTCAGAATATCATAACATATAT
50058157 TAGTTTCAGAATATCATAACATATAT
1 TAGTTTCAGAATATCATAACATATAT
50058183 TAGTTTCAGAA
1 TAGTTTCAGAA
50058194 CACTTACAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.43, C:0.11, G:0.08, T:0.38
Consensus pattern (26 bp):
TAGTTTCAGAATATCATAACATATAT
Found at i:50059645 original size:20 final size:20
Alignment explanation
Indices: 50059620--50059662 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
50059610 TTTCTGGTAC
*
50059620 CACTAAAAACTGGGCTGTTA
1 CACTAAAAAATGGGCTGTTA
*
50059640 CACTAAAAAATGGGTTGTTA
1 CACTAAAAAATGGGCTGTTA
50059660 CAC
1 CAC
50059663 CACTATCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (20 bp):
CACTAAAAAATGGGCTGTTA
Found at i:50061525 original size:20 final size:18
Alignment explanation
Indices: 50061500--50061548 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
50061490 AGCCATACAC
50061500 TAAAATCAAAGACATTAAAA
1 TAAAATCAAA-AC-TTAAAA
*
50061520 TAAAATTAATAACTTAAAA
1 TAAAATCAA-AACTTAAAA
*
50061539 TTAAATCAAA
1 TAAAATCAAA
50061549 TAAAAATAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 13 0.52
20 10 0.40
21 1 0.04
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (18 bp):
TAAAATCAAAACTTAAAA
Found at i:50068026 original size:22 final size:21
Alignment explanation
Indices: 50068001--50068041 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
50067991 GGATGATATG
50068001 TATGTAGATGATTATTATATCA
1 TATGTAGATGA-TATTATATCA
**
50068023 TATGTTTATGATATTATAT
1 TATGTAGATGATATTATAT
50068042 GAGATGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.51
Consensus pattern (21 bp):
TATGTAGATGATATTATATCA
Found at i:50068048 original size:21 final size:22
Alignment explanation
Indices: 50068008--50068048 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
50067998 ATGTATGTAG
*
50068008 ATGATTATTATATCATATGTTT
1 ATGATTATTATATCAGATGTTT
*
50068030 ATGA-TATTATATGAGATGT
1 ATGATTATTATATCAGATGT
50068049 ATGTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (22 bp):
ATGATTATTATATCAGATGTTT
Found at i:50071262 original size:2 final size:2
Alignment explanation
Indices: 50071255--50071310 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
50071245 NNNNNNNNNN
*
50071255 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
50071297 GT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT
50071311 TCCTCCTCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50074321 original size:108 final size:108
Alignment explanation
Indices: 50074126--50074527 Score: 590
Period size: 101 Copynumber: 3.8 Consensus size: 108
50074116 AAAAATATTT
* *
50074126 TTTGGGTGCTGGCCTGTCAATGGCCGGTACCCAGTACAATTTCAAAAAAAAA-T-ATTTTTTTTC
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTTTTTTC
*
50074189 GTGTCAGAATCAGATATCAATATACGAAAAAAGTAAAAAAAAA
66 GTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAAAAA
* * *
50074232 TTTGAGTACTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAATTTCTTTTTTTTTC
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTTTTTTC
* * *
50074297 GTGTTAGAATCAAATATCAGTATACG-----A--AAAAAAAAT
66 GTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAAAAA
* * * *
50074333 TTTGGGTGTTGGTCTGTCAATGGCCGGCACCCAGTGCAATTTCAAAAAAAAATTCCTTTTTTTTC
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTTTTTTC
*
50074398 GTGTCAGAATCAGATATCAGTATCCGAAAAAAGTAAAAAAAAA
66 GTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAAAAA
50074441 -TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTATTTTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTT-TTTTT
*
50074505 CGTGTCAGAATCAGATATTAGTA
65 CGTGTCAGAATCAGATATCAGTA
50074528 ATAACTTTTT
Statistics
Matches: 261, Mismatches: 25, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
101 89 0.34
103 1 0.00
106 49 0.19
107 55 0.21
108 67 0.26
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (108 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTTTTTTC
GTGTCAGAATCAGATATCAGTATACGAAAAAAGTAAAAAAAAA
Found at i:50074428 original size:209 final size:207
Alignment explanation
Indices: 50074125--50074527 Score: 655
Period size: 209 Copynumber: 1.9 Consensus size: 207
50074115 AAAAAATATT
*
50074125 TTTTGGGTGCTGGCCTGTCAATGGCCGGTACCCAGTACAATTTCAAAAAAAAATATTTTTTTTCG
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATATTTTTTTTCG
50074190 TGTCAGAATCAGATATCAATATACGAAAAAAGTAAAAAAAAATTTGAGTACTGGCCTGTCAATGG
66 TGTCAGAATCAGATATCAATATACGAAAAAAGTAAAAAAAAA-TTGAGTACTGGCCTGTCAATGG
* *
50074255 CCGGCACCCAGTACAATTTCAAAAAAAATTTCTTTT-TTTTTCGTGTTAGAATCAAATATCAGTA
130 CCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTATTTTTCGTGTCAGAATCAAATATCAGTA
50074319 TACGAAAAAAAAA
195 TACGAAAAAAAAA
* * * *
50074332 TTTTGGGTGTTGGTCTGTCAATGGCCGGCACCCAGTGCAATTTCAAAAAAAAATTCCTTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAA-T-ATTTTTTTT
* * * *
50074397 CGTGTCAGAATCAGATATCAGTATCCGAAAAAAGTAAAAAAAAATTGGGTGCTGGCCTGTCAATG
64 CGTGTCAGAATCAGATATCAATATACGAAAAAAGTAAAAAAAAATTGAGTACTGGCCTGTCAATG
* *
50074462 GCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTATTTTTCGTGTCAGAATCAGATATTAGT
129 GCCGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTATTTTTCGTGTCAGAATCAAATATCAGT
50074527 A
194 A
50074528 ATAACTTTTT
Statistics
Matches: 180, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
207 49 0.27
208 56 0.31
209 75 0.42
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (207 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTCAAAAAAAAATATTTTTTTTCG
TGTCAGAATCAGATATCAATATACGAAAAAAGTAAAAAAAAATTGAGTACTGGCCTGTCAATGGC
CGGCACCCAGTACAATTTCAAAAAAAAATTCTTTTATTTTTCGTGTCAGAATCAAATATCAGTAT
ACGAAAAAAAAA
Found at i:50076832 original size:13 final size:13
Alignment explanation
Indices: 50076814--50076840 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50076804 GAATTGATTC
50076814 ACAAATCATGCCT
1 ACAAATCATGCCT
50076827 ACAAATCATGCCT
1 ACAAATCATGCCT
50076840 A
1 A
50076841 TGTGATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAAATCATGCCT
Found at i:50082806 original size:51 final size:51
Alignment explanation
Indices: 50082677--50082919 Score: 235
Period size: 50 Copynumber: 4.8 Consensus size: 51
50082667 TATCATTCGA
* * * * * *
50082677 TACACGTAGTAGCCTTCATATAGTACTACACACGTGATCA--AACTTTTCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCCGG
* * *
50082727 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGA
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
* * * *
50082778 TACACATAGCAGCCTGCACGTAGTACTACACACGTGATCGA--AGCTATCCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATTA-ATATCCGG
* * * * * *
50082829 TACGCATAGTAGCTTGCACATAGTACTACACATGCGACCTTTTAT-TCCGG
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
* *
50082879 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
50082920 CACTTTCACT
Statistics
Matches: 156, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
50 77 0.49
51 75 0.48
52 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
TACACATAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
Found at i:50082815 original size:101 final size:101
Alignment explanation
Indices: 50082674--50082915 Score: 306
Period size: 101 Copynumber: 2.4 Consensus size: 101
50082664 TATTATCATT
* * * * * *
50082674 CGATACACGTAGTAGCCTTCATATAGTACTACACACGTGATC-AAACTTTTCGGTTCACGTAGTA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATAGTA
*
50082738 GCCTGCACATAGTACTACACACGTGACCATTAATATC
66 GCCTGCACATAGTACTACACACGCGACCATTAAT-TC
* * * * * *
50082775 CGATACACATAGCAGCCTGCACGTAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATAGTA
* * * *
50082840 GCTTGCACATAGTACTACACATGCGACCTTTTATTC
66 GCCTGCACATAGTACTACACACGCGACCATTAATTC
*
50082876 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGA
50082916 CCATCACTTT
Statistics
Matches: 119, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
101 74 0.62
102 45 0.38
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACATAGTA
GCCTGCACATAGTACTACACACGCGACCATTAATTC
Found at i:50084298 original size:10 final size:10
Alignment explanation
Indices: 50084283--50084307 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50084273 AAGAAAGGGT
50084283 TTTTTTTTTG
1 TTTTTTTTTG
50084293 TTTTTTTTTG
1 TTTTTTTTTG
50084303 TTTTT
1 TTTTT
50084308 ACATCTAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:50085990 original size:24 final size:24
Alignment explanation
Indices: 50085946--50085991 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
50085936 TTTTTAAATC
*
50085946 TAAAAAATAAAGAGACTAAATTCT
1 TAAAAAATAAAGACACTAAATTCT
*
50085970 TAAAAATATAAATACAC-AAATT
1 TAAAAA-ATAAAGACACTAAATT
50085992 AAATTTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
TAAAAAATAAAGACACTAAATTCT
Found at i:50086640 original size:22 final size:24
Alignment explanation
Indices: 50086615--50086670 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
50086605 ATAATTTTCA
*
50086615 ATATTATTATA-AATACA-TATTT
1 ATATTATTATATAATAAATTATTT
50086637 ATATTTAATTATATAATAAATTATTT
1 ATA-TT-ATTATATAATAAATTATTT
50086663 ACTATTAT
1 A-TATTAT
50086671 AATTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 3 0.11
23 2 0.07
24 6 0.21
25 7 0.25
26 8 0.29
27 2 0.07
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTATTATATAATAAATTATTT
Found at i:50086685 original size:28 final size:26
Alignment explanation
Indices: 50086620--50086674 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 26
50086610 TTTCAATATT
*
50086620 ATTATA-AATACA-TATTTATATTTA
1 ATTATATAATAAATTATTTATATTTA
50086644 ATTATATAATAAATTATTTACTATTATA
1 ATTATATAATAAATTATTTA-TATT-TA
50086672 ATT
1 ATT
50086675 TTATTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 5 0.19
26 6 0.23
27 4 0.15
28 5 0.19
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTATATAATAAATTATTTATATTTA
Found at i:50086690 original size:18 final size:18
Alignment explanation
Indices: 50086669--50086714 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
50086659 ATTTACTATT
*
50086669 ATAATTTTATTTTAAATA
1 ATAATTTTATTATAAATA
* * *
50086687 ATAAATTTAATATGAATA
1 ATAATTTTATTATAAATA
50086705 ATAATTTTAT
1 ATAATTTTAT
50086715 ATTCTGAGAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATAATTTTATTATAAATA
Found at i:50086897 original size:2 final size:2
Alignment explanation
Indices: 50086890--50086938 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
50086880 ATCTGTTCTC
50086890 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50086932 AT A- AT AT
1 AT AT AT AT
50086939 GAAATTTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50097844 original size:19 final size:20
Alignment explanation
Indices: 50097821--50097866 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
50097811 TATTTTCAGT
50097821 AATTTATTTAATTTA-AATA
1 AATTTATTTAATTTATAATA
*
50097840 TATTTGA--TAATTTATAATA
1 AATTT-ATTTAATTTATAATA
50097859 AATTTATT
1 AATTTATT
50097867 AGATAGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 7
0.70 0.07 0.23
Matches are distributed among these distances:
18 8 0.38
19 12 0.57
20 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTTATTTAATTTATAATA
Found at i:50098529 original size:30 final size:30
Alignment explanation
Indices: 50098495--50098557 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
50098485 ACTTAACAAG
50098495 CAAATGCCTCTAAAAAT-ATAACAAAATTAA
1 CAAATGCCT-TAAAAATAATAACAAAATTAA
*
50098525 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTTAAAAATAATAACAAAATTAA
50098555 CAA
1 CAA
50098558 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTTAAAAATAATAACAAAATTAA
Found at i:50102609 original size:43 final size:43
Alignment explanation
Indices: 50102561--50102681 Score: 122
Period size: 43 Copynumber: 2.8 Consensus size: 43
50102551 TTTTTGATAA
50102561 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGA-CTT
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATC-T
* *** *
50102604 GTGTTTTTGTGTAAGACC-CTGT-TCGGGACAACGGCGTCGATCT
1 GTGTTTTCGTGTAAGACCAC-GTCT-GGGACGTTGGCATCGATCT
* * *
50102647 GTGATTACATGTAAGACCACGTCTGGGACGTTGGC
1 GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGC
50102682 GTTGTACGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
42 2 0.03
43 56 0.92
44 3 0.05
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATCT
Found at i:50106930 original size:23 final size:23
Alignment explanation
Indices: 50106849--50106926 Score: 111
Period size: 23 Copynumber: 3.4 Consensus size: 23
50106839 AACACATAAC
*
50106849 ATTCTGTAAAGCCTTTGTGGCAC
1 ATTCTGTAAAGCCTTTGTGGCAT
*
50106872 ATTCTGTAAAGCCTTTATGGCAT
1 ATTCTGTAAAGCCTTTGTGGCAT
* * *
50106895 ATTCTGTGATGCCTGTGTGGCAT
1 ATTCTGTAAAGCCTTTGTGGCAT
50106918 ATTCTGTAA
1 ATTCTGTAA
50106927 TGCCCTTGGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (23 bp):
ATTCTGTAAAGCCTTTGTGGCAT
Found at i:50110069 original size:16 final size:17
Alignment explanation
Indices: 50110025--50110069 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
50110015 AATGTGCATT
50110025 CTCAATTTAGATCCTGA
1 CTCAATTTAGATCCTGA
50110042 CTCAATTTAGATCCTGA
1 CTCAATTTAGATCCTGA
50110059 CTCAA-TTAGAT
1 CTCAATTTAGAT
50110070 TTGTGTGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 6 0.21
17 22 0.79
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (17 bp):
CTCAATTTAGATCCTGA
Found at i:50113862 original size:28 final size:29
Alignment explanation
Indices: 50113831--50113898 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 29
50113821 TTTTAGAGTC
*
50113831 TTGCCACAAAGG-CATATTTTGACAGAGA
1 TTGCCACAAAGGTCATATTTTAACAGAGA
* ** *
50113859 TTGCCAGAAAGGTTTTCTTTTAACAGAGA
1 TTGCCACAAAGGTCATATTTTAACAGAGA
*
50113888 TCGCCACAAAG
1 TTGCCACAAAG
50113899 ACTTTTTTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (29 bp):
TTGCCACAAAGGTCATATTTTAACAGAGA
Found at i:50113884 original size:29 final size:28
Alignment explanation
Indices: 50113833--50113987 Score: 96
Period size: 28 Copynumber: 5.5 Consensus size: 28
50113823 TTAGAGTCTT
* * * * *
50113833 GCCACAAAGGCATATTTTGACAGAGATT
1 GCCACAAAGACTTTTTTTAACAGAGATC
* **
50113861 GCCAGAAAGGTTTTCTTTTAACAGAGATC
1 GCCACAAAGACTTT-TTTTAACAGAGATC
* *
50113890 GCCACAAAGACTTTTTTTAACAAAGATA
1 GCCACAAAGACTTTTTTTAACAGAGATC
* * * ** * *
50113918 ACAACAAAGGCTTCCTTTAGCAGAGATA
1 GCCACAAAGACTTTTTTTAACAGAGATC
* **
50113946 GCCATAAA-ACCTCCCTTTTAACAGAGATC
1 GCCACAAAGA-CT-TTTTTTAACAGAGATC
50113975 GCCACAAAGACTT
1 GCCACAAAGACTT
50113988 ACTTTTATGA
Statistics
Matches: 95, Mismatches: 28, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
28 50 0.53
29 44 0.46
30 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (28 bp):
GCCACAAAGACTTTTTTTAACAGAGATC
Found at i:50113992 original size:29 final size:28
Alignment explanation
Indices: 50113873--50113994 Score: 111
Period size: 28 Copynumber: 4.3 Consensus size: 28
50113863 CAGAAAGGTT
*
50113873 TTCTTTTAACAGAGATCGCCACAAAGAC
1 TTCTTTTAACAGAGATAGCCACAAAGAC
* * * * *
50113901 TTTTTTTAACAAAGATAACAACAAAGGC
1 TTCTTTTAACAGAGATAGCCACAAAGAC
* * *
50113929 TTCCTTTAGCAGAGATAGCCATAAA-ACC
1 TTCTTTTAACAGAGATAGCCACAAAGA-C
* *
50113957 TCCCTTTTAACAGAGATCGCCACAAAGAC
1 T-TCTTTTAACAGAGATAGCCACAAAGAC
50113986 TTACTTTTA
1 TT-CTTTTA
50113995 TGAAAATTTC
Statistics
Matches: 70, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
28 42 0.60
29 27 0.39
30 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (28 bp):
TTCTTTTAACAGAGATAGCCACAAAGAC
Found at i:50114268 original size:15 final size:15
Alignment explanation
Indices: 50114248--50114279 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50114238 TGATGCCATA
50114248 GCCTAACCATGGTCT
1 GCCTAACCATGGTCT
50114263 GCCTAACCATGGTCT
1 GCCTAACCATGGTCT
50114278 GC
1 GC
50114280 ACTATATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.34, G:0.22, T:0.25
Consensus pattern (15 bp):
GCCTAACCATGGTCT
Found at i:50115731 original size:43 final size:43
Alignment explanation
Indices: 50115680--50115809 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
50115670 GCTAAATTCT
* * *
50115680 ATGACCTTTAGTGGCGCTTTACTCACAAACGCCGCTATAGACC
1 ATGACCTTTAGCGGCGCTTTACTCACAAACGCCGCTAAAGAAC
* ** *
50115723 ATGGCCTTTAGCGGCGCTTTTGTCACAAACGCCTCTAAAGAAC
1 ATGACCTTTAGCGGCGCTTTACTCACAAACGCCGCTAAAGAAC
* *
50115766 GTGACCTTTAGCGGCGC-TT-CTCGCCAAAACGCCGCTAAA-AAC
1 ATGACCTTTAGCGGCGCTTTACTC-AC-AAACGCCGCTAAAGAAC
50115808 AT
1 AT
50115810 ATCATGCAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.03
42 7 0.10
43 63 0.88
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGACCTTTAGCGGCGCTTTACTCACAAACGCCGCTAAAGAAC
Found at i:50117184 original size:16 final size:16
Alignment explanation
Indices: 50117165--50117199 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
50117155 TTTCCACCGA
*
50117165 CAAATTATAACAAAGG
1 CAAAATATAACAAAGG
50117181 CAAAATATAACAAAGG
1 CAAAATATAACAAAGG
50117197 CAA
1 CAA
50117200 TACCTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.14, G:0.11, T:0.14
Consensus pattern (16 bp):
CAAAATATAACAAAGG
Found at i:50120441 original size:55 final size:54
Alignment explanation
Indices: 50120323--50120478 Score: 242
Period size: 54 Copynumber: 2.9 Consensus size: 54
50120313 GCGAGTAACC
* *
50120323 AAAATTTTTTTTTGTTGGGAGTGAGCGGGATTTTGAATATTTTTTGAGGCTTTT
1 AAAATTTTTTTTTGTTGGGAGTGAGCGAGATTTTGAATATTTTTTGCGGCTTTT
* *
50120377 TAAATTTTTTTTTGTTGGGAGTAAGCGAGATTTTGAATATTTTTTGCGGCGTTTT
1 AAAATTTTTTTTTGTTGGGAGTGAGCGAGATTTTGAATATTTTTTGCGGC-TTTT
*
50120432 AAAAATTTTTTTTGTTGGGAGTGAGC-AGGATTTTGAATATTTTTTGC
1 AAAATTTTTTTTTGTTGGGAGTGAGCGA-GATTTTGAATATTTTTTGC
50120479 TAAAAAACGC
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
54 47 0.51
55 46 0.49
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.49
Consensus pattern (54 bp):
AAAATTTTTTTTTGTTGGGAGTGAGCGAGATTTTGAATATTTTTTGCGGCTTTT
Found at i:50120904 original size:10 final size:10
Alignment explanation
Indices: 50120860--50120920 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
50120850 AAAAATAAAA
50120860 TTTTAAAATC
1 TTTTAAAATC
50120870 TTTTTAAAAT-
1 -TTTTAAAATC
* **
50120880 TTCTAAAAAA
1 TTTTAAAATC
*
50120890 ATTTAAAATC
1 TTTTAAAATC
50120900 TTTTAAAATTC
1 TTTTAAAA-TC
50120911 ATTTTAAAAT
1 -TTTTAAAAT
50120921 TTTAAATCAC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 7 0.17
10 13 0.32
11 12 0.30
12 8 0.20
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTTAAAATC
Found at i:50120922 original size:29 final size:30
Alignment explanation
Indices: 50120853--50120909 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
50120843 ATATTATAAA
50120853 AATAAAATTTTAAAATCTTTTTAAAATTTCT
1 AATAAAA-TTTAAAATCTTTTTAAAATTTCT
*
50120884 AAAAAAATTTAAAATC-TTTTAAAATT
1 AATAAAATTTAAAATCTTTTTAAAATT
50120910 CATTTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 10 0.40
30 9 0.36
31 6 0.24
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
AATAAAATTTAAAATCTTTTTAAAATTTCT
Found at i:50120925 original size:30 final size:30
Alignment explanation
Indices: 50120854--50120926 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
50120844 TATTATAAAA
50120854 ATAAAATTTTAAAATCTTTTTAAAATTTCT
1 ATAAAATTTTAAAATCTTTTTAAAATTTCT
* *
50120884 AAAAAAATTTAAAATC-TTTTAAAA-TTCATT
1 ATAAAATTTTAAAATCTTTTTAAAATTTC--T
*
50120914 TTAAAATTTTAAA
1 ATAAAATTTTAAA
50120927 TCACGAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 3 0.08
29 8 0.22
30 25 0.69
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
ATAAAATTTTAAAATCTTTTTAAAATTTCT
Found at i:50120927 original size:29 final size:30
Alignment explanation
Indices: 50120853--50120928 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 30
50120843 ATATTATAAA
50120853 AATAAAATTTTAAAATCTTTTTAAAATTTCT
1 AATAAAATTTT-AAATCTTTTTAAAATTTCT
* *
50120884 AAAAAAATTTAAAATC-TTTTAAAA-TTCAT
1 AATAAAATTTTAAATCTTTTTAAAATTTC-T
**
50120913 TTTAAAATTTTAAATC
1 AATAAAATTTTAAATC
50120929 ACGAAAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 3 0.08
29 21 0.55
30 5 0.13
31 9 0.24
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.45
Consensus pattern (30 bp):
AATAAAATTTTAAATCTTTTTAAAATTTCT
Found at i:50122225 original size:41 final size:41
Alignment explanation
Indices: 50122168--50122275 Score: 180
Period size: 41 Copynumber: 2.6 Consensus size: 41
50122158 AGATTTTATT
*
50122168 ATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGGTACGAAC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAAC
*
50122209 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAAC
* *
50122250 ATTCGCGGCGCCTTTTCAAAAACGCC
1 ATTAGCGGCGCTTTTTCAAAAACGCC
50122276 ACTATAGACC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACGAAC
Found at i:50123452 original size:12 final size:12
Alignment explanation
Indices: 50123437--50123478 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
50123427 TTTGAATGAA
50123437 GGAGTGAATCAT
1 GGAGTGAATCAT
*
50123449 GGAGTG-ATTAGT
1 GGAGTGAATCA-T
50123461 GGGAGTGAATCAT
1 -GGAGTGAATCAT
50123474 GGAGT
1 GGAGT
50123479 TTGAGGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 3 0.12
12 12 0.48
13 7 0.28
14 3 0.12
ACGTcount: A:0.29, C:0.05, G:0.40, T:0.26
Consensus pattern (12 bp):
GGAGTGAATCAT
Found at i:50124669 original size:27 final size:27
Alignment explanation
Indices: 50124586--50124727 Score: 155
Period size: 27 Copynumber: 5.3 Consensus size: 27
50124576 GTAATGGGCC
*
50124586 TAAAATGACCG-AATACCCTCGATGGT
1 TAAAATGACCGAAATACCCTCGATGGG
* * *
50124612 TAAAATGATCGAAAAACCCT-GAAGGG
1 TAAAATGACCGAAATACCCTCGATGGG
* * **
50124638 TAAAATTATCGAAATACTGTCGATGGG
1 TAAAATGACCGAAATACCCTCGATGGG
*
50124665 TAAAAT-AGCCAAAATACCCTCGATGGG
1 TAAAATGA-CCGAAATACCCTCGATGGG
* *
50124692 TAAAACGACCGAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGATGGG
50124719 TAAAATGAC
1 TAAAATGAC
50124728 TGTTATACCC
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
26 31 0.33
27 63 0.66
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGATGGG
Found at i:50125132 original size:30 final size:31
Alignment explanation
Indices: 50125083--50125141 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
50125073 ACTGCATTGT
* *
50125083 ACTGTTTATTGTATTGGGCTAAGGCCCACTC
1 ACTGTTTACTGTACTGGGCTAAGGCCCACTC
*
50125114 ACTG-TTACTGTACTGGGCTTAGGCCCAC
1 ACTGTTTACTGTACTGGGCTAAGGCCCAC
50125142 ACTGTACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.19, C:0.25, G:0.24, T:0.32
Consensus pattern (31 bp):
ACTGTTTACTGTACTGGGCTAAGGCCCACTC
Found at i:50132731 original size:26 final size:26
Alignment explanation
Indices: 50132667--50132799 Score: 164
Period size: 26 Copynumber: 5.2 Consensus size: 26
50132657 AGGGCTGATC
* *
50132667 TTTTAGATATGCCAC-AAGACTTTCA
1 TTTTAGATATGCCACAAAGGCTTCCA
50132692 TTATT-GAT-TAGCCACAAAGGCTTCCA
1 TT-TTAGATAT-GCCACAAAGGCTTCCA
* *
50132718 TTTTAGATACGCCACAAAGGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTCCA
* *
50132744 TTATAGATATGCCACAAAGGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTCCA
*
50132770 TTTTAGATATGCCACAAAGGCTTTCA
1 TTTTAGATATGCCACAAAGGCTTCCA
50132796 TTTT
1 TTTT
50132800 CTGATATGTT
Statistics
Matches: 94, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.01
25 12 0.13
26 81 0.86
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (26 bp):
TTTTAGATATGCCACAAAGGCTTCCA
Found at i:50132764 original size:52 final size:52
Alignment explanation
Indices: 50132667--50132797 Score: 187
Period size: 52 Copynumber: 2.5 Consensus size: 52
50132657 AGGGCTGATC
* *
50132667 TTTTAGATATGCCAC-AAGACTTTCATTATTGATTAGCCACAAAGGCTTCCA
1 TTTTAGATATGCCACAAAGGCTTTCATTATAGATTAGCCACAAAGGCTTCCA
* *
50132718 TTTTAGATACGCCACAAAGGC-TTCTATTATAGA-TATGCCACAAAGGCTTCTA
1 TTTTAGATATGCCACAAAGGCTTTC-ATTATAGATTA-GCCACAAAGGCTTCCA
50132770 TTTTAGATATGCCACAAAGGCTTTCATT
1 TTTTAGATATGCCACAAAGGCTTTCATT
50132798 TTCTGATATG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
51 19 0.27
52 49 0.69
53 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.34
Consensus pattern (52 bp):
TTTTAGATATGCCACAAAGGCTTTCATTATAGATTAGCCACAAAGGCTTCCA
Found at i:50143064 original size:18 final size:17
Alignment explanation
Indices: 50143036--50143070 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50143026 ATTATTAAGA
*
50143036 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
50143053 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
50143071 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:50143325 original size:16 final size:16
Alignment explanation
Indices: 50143304--50143352 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
50143294 TTGATTTGCT
50143304 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
50143320 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
50143336 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
50143352 A
1 A
50143353 ATACAACGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.22, C:0.37, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:50148690 original size:23 final size:23
Alignment explanation
Indices: 50148664--50148709 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50148654 GTATCAATCA
50148664 ATCCCATT-ATTAAAACATAGTTT
1 ATCCCATTCA-TAAAACATAGTTT
*
50148687 ATCCCATTCATCAAACATAGTTT
1 ATCCCATTCATAAAACATAGTTT
50148710 TATTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (23 bp):
ATCCCATTCATAAAACATAGTTT
Found at i:50151377 original size:18 final size:18
Alignment explanation
Indices: 50151354--50151398 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
50151344 TGAAATAACG
50151354 GTTCACAT-GAAAGAAACA
1 GTTCACATAG-AAGAAACA
*
50151372 GTTCACATAGAAGAAGCA
1 GTTCACATAGAAGAAACA
*
50151390 GCTCACATA
1 GTTCACATA
50151399 AAATAGTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (18 bp):
GTTCACATAGAAGAAACA
Found at i:50152058 original size:22 final size:22
Alignment explanation
Indices: 50152031--50152078 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
50152021 TAACATACAG
*
50152031 GGTTTGTATGTCAATCAACATA
1 GGTTTGTATCTCAATCAACATA
* *
50152053 GGTTTGTATCTCATTCAACGTA
1 GGTTTGTATCTCAATCAACATA
50152075 GGTT
1 GGTT
50152079 CGCATATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (22 bp):
GGTTTGTATCTCAATCAACATA
Found at i:50152088 original size:22 final size:22
Alignment explanation
Indices: 50152045--50152112 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
50152035 TGTATGTCAA
* * *
50152045 TCAACATAGGTTTGTATCTCAT
1 TCAACATAGGTTCGCATATCAT
*
50152067 TCAACGTAGGTTCGCATATCAT
1 TCAACATAGGTTCGCATATCAT
* * *
50152089 GT-ATCATAGGTCCACATATCAT
1 -TCAACATAGGTTCGCATATCAT
50152111 TC
1 TC
50152113 TTAACAGGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (22 bp):
TCAACATAGGTTCGCATATCAT
Found at i:50152140 original size:23 final size:23
Alignment explanation
Indices: 50152114--50152157 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
50152104 ATATCATTCT
*
50152114 TAACAGGTTTCACAAATCATAAA
1 TAACAGGGTTCACAAATCATAAA
* *
50152137 TAACAGGGTTCGCATATCATA
1 TAACAGGGTTCACAAATCATA
50152158 CATAGGGGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (23 bp):
TAACAGGGTTCACAAATCATAAA
Found at i:50152320 original size:38 final size:38
Alignment explanation
Indices: 50152251--50152343 Score: 125
Period size: 38 Copynumber: 2.5 Consensus size: 38
50152241 TGGTTTGCAC
* * *
50152251 ATAGGTA-GGGCTCACACATCACATACAGGGTTCAAAA
1 ATAGGTAGGGGTTCGCACATCAAATACAGGGTTCAAAA
* * *
50152288 ATAGGTAGGGGTTCGCACCTCAAATACAGGGTTCACAT
1 ATAGGTAGGGGTTCGCACATCAAATACAGGGTTCAAAA
50152326 ATAGGTAGGGGTTCGCAC
1 ATAGGTAGGGGTTCGCAC
50152344 TTGAGTAGGG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
37 7 0.14
38 42 0.86
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (38 bp):
ATAGGTAGGGGTTCGCACATCAAATACAGGGTTCAAAA
Found at i:50152478 original size:17 final size:18
Alignment explanation
Indices: 50152435--50152479 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
50152425 ACAAAGGGAA
* *
50152435 GGTTCGCACTATGGTAGG
1 GGTTAGCACAATGGTAGG
*
50152453 GGTTTGCACAATGGTA-G
1 GGTTAGCACAATGGTAGG
50152470 GGTTAGCACA
1 GGTTAGCACA
50152480 TGGCTTGGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.27
Consensus pattern (18 bp):
GGTTAGCACAATGGTAGG
Found at i:50152567 original size:23 final size:22
Alignment explanation
Indices: 50152535--50152609 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 22
50152525 TTATGTGATA
* *
50152535 GGGTTTACATATTAAAAAAATAG
1 GGGTTCACATATT-ACAAAATAG
*
50152558 GGGTTCACATGTTTACAAAATAG
1 GGGTTCACAT-ATTACAAAATAG
**
50152581 GGGTTCGTATATCTACAAAATAG
1 GGGTTCACATAT-TACAAAATAG
50152604 GGGTTC
1 GGGTTC
50152610 GTATATTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
22 1 0.02
23 41 0.93
24 2 0.05
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (22 bp):
GGGTTCACATATTACAAAATAG
Found at i:50152602 original size:46 final size:46
Alignment explanation
Indices: 50152551--50152669 Score: 141
Period size: 46 Copynumber: 2.6 Consensus size: 46
50152541 ACATATTAAA
* *
50152551 AAAATAGGGGTTCACATGTTTACAAAATAGGGGTTCG-TATATCTAC
1 AAAATAGGGGTTCGCATGTTTATAAAATAGGGGTTCGCT-TATCTAC
* * * * * *
50152597 AAAATAGGGGTTCGTATATTTATAAAGTAGGTGTTCGCTTGTTTAC
1 AAAATAGGGGTTCGCATGTTTATAAAATAGGGGTTCGCTTATCTAC
*
50152643 AAAGTAGGGGTTCGCATGTTTATAAAA
1 AAAATAGGGGTTCGCATGTTTATAAAA
50152670 CAAGGGTTTA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 59 0.98
47 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.34
Consensus pattern (46 bp):
AAAATAGGGGTTCGCATGTTTATAAAATAGGGGTTCGCTTATCTAC
Found at i:50152610 original size:23 final size:23
Alignment explanation
Indices: 50152551--50152656 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
50152541 ACATATTAAA
** *
50152551 AAAATAGGGGTTCACATGTTTAC
1 AAAATAGGGGTTCGTATATTTAC
*
50152574 AAAATAGGGGTTCGTATATCTAC
1 AAAATAGGGGTTCGTATATTTAC
*
50152597 AAAATAGGGGTTCGTATATTTAT
1 AAAATAGGGGTTCGTATATTTAC
* * *
50152620 AAAGTAGGTGTTCGCT-TGTTTAC
1 AAAATAGGGGTTCG-TATATTTAC
*
50152643 AAAGTAGGGGTTCG
1 AAAATAGGGGTTCG
50152657 CATGTTTATA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
23 70 0.99
24 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.33
Consensus pattern (23 bp):
AAAATAGGGGTTCGTATATTTAC
Found at i:50152657 original size:23 final size:23
Alignment explanation
Indices: 50152555--50152724 Score: 110
Period size: 23 Copynumber: 7.4 Consensus size: 23
50152545 ATTAAAAAAA
* * *
50152555 TAGGGGTTCACATGTTTACAAAA
1 TAGGGGTTCGCTTGTTTACAAAG
* * *
50152578 TAGGGGTTCG-TATATCTACAAAA
1 TAGGGGTTCGCT-TGTTTACAAAG
* *
50152601 TAGGGGTTCG-TATATTTATAAAG
1 TAGGGGTTCGCT-TGTTTACAAAG
*
50152624 TAGGTGTTCGCTTGTTTACAAAG
1 TAGGGGTTCGCTTGTTTACAAAG
* * *
50152647 TAGGGGTTCGCATGTTTATAAAA
1 TAGGGGTTCGCTTGTTTACAAAG
* * ** * **
50152670 CAAGGGTTTACATGTTTGTAAAG
1 TAGGGGTTCGCTTGTTTACAAAG
* *
50152693 TAGGGGTTTGCTTATTTACAAAG
1 TAGGGGTTCGCTTGTTTACAAAG
*
50152716 CAGGGGTTC
1 TAGGGGTTC
50152725 ACAAATCATA
Statistics
Matches: 116, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
23 115 0.99
24 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.35
Consensus pattern (23 bp):
TAGGGGTTCGCTTGTTTACAAAG
Found at i:50152677 original size:69 final size:69
Alignment explanation
Indices: 50152534--50152724 Score: 184
Period size: 69 Copynumber: 2.8 Consensus size: 69
50152524 ATTATGTGAT
* * * * * * * *
50152534 AGGGTTTACATATTAAAAAAATAGGGGTTCACATGTTTACAAAATAGGGGTTCGTATATCTACAA
1 AGGGTTCACATATTTATAAAGTAGGGGTTCGCTTGTTTACAAAGTAGGGGTTCGCATATCTACAA
*
50152599 AATA
66 AACA
* ** * * * *
50152603 GGGGTTCGTATATTTATAAAGTAGGTGTTCGCTTGTTTACAAAGTAGGGGTTCGCATGTTTATAA
1 AGGGTTCACATATTTATAAAGTAGGGGTTCGCTTGTTTACAAAGTAGGGGTTCGCATATCTACAA
50152668 AACA
66 AACA
* * * * * *
50152672 AGGGTTTACATGTTTGTAAAGTAGGGGTTTGCTTATTTACAAAGCAGGGGTTC
1 AGGGTTCACATATTTATAAAGTAGGGGTTCGCTTGTTTACAAAGTAGGGGTTC
50152725 ACAAATCATA
Statistics
Matches: 96, Mismatches: 26, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
69 96 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (69 bp):
AGGGTTCACATATTTATAAAGTAGGGGTTCGCTTGTTTACAAAGTAGGGGTTCGCATATCTACAA
AACA
Found at i:50188806 original size:24 final size:24
Alignment explanation
Indices: 50188764--50188815 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
50188754 AATCAAATTC
** *
50188764 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
50188788 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
50188812 AAAT
1 AAAT
50188816 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:50193636 original size:16 final size:16
Alignment explanation
Indices: 50193615--50193645 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50193605 ATCGGGTTGA
50193615 GAAAATTAATTAATTG
1 GAAAATTAATTAATTG
50193631 GAAAATTAATTAATT
1 GAAAATTAATTAATT
50193646 AAATTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:50195606 original size:16 final size:16
Alignment explanation
Indices: 50195582--50195622 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
50195572 TGGTTGGGTG
*
50195582 AATGAAATAGGGCTGT
1 AATGGAATAGGGCTGT
*
50195598 AATGGAATAGGGTTGT
1 AATGGAATAGGGCTGT
*
50195614 AATTGAATA
1 AATGGAATA
50195623 AAGTTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.29, T:0.29
Consensus pattern (16 bp):
AATGGAATAGGGCTGT
Found at i:50195867 original size:60 final size:58
Alignment explanation
Indices: 50195803--50195936 Score: 182
Period size: 57 Copynumber: 2.3 Consensus size: 58
50195793 TTTTAATAAG
* *
50195803 ATTATTATTAAATATATTTTAATAAAATAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATATATTTTAAT--AA-AATAATAAATAATTTAATAACATTCTTAACATA
* * *
50195863 ATTATTATTAAATAAAATTTAATAAAATAATAAATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATATATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
50195921 ATTATTATTAAA-ATAT
1 ATTATTATTAAATATAT
50195937 GAATTAATAA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 24 0.36
58 21 0.32
60 21 0.32
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAATATATTTTAATAAAATAATAAATAATTTAATAACATTCTTAACATA
Found at i:50195964 original size:58 final size:58
Alignment explanation
Indices: 50195803--50195949 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 58
50195793 TTTTAATAAG
* * * *
50195803 ATTATTATTAAATATATTTTAATAAAATAAT-AATAA-ATAATTTAATCATATTTTAACATA
1 ATTATTATTAAATAAAATTTAATAAAACAATAAATAATATAA--TAA-CAT-TCTTAACATA
* * *
50195863 ATTATTATTAAATAAAATTTAATAAAATAATAAATAATTTAATAACATTCTTAATATA
1 ATTATTATTAAATAAAATTTAATAAAACAATAAATAATATAATAACATTCTTAACATA
*
50195921 ATTATTATTAAAATATGAA-TTAATAAAAC
1 ATTATTATT-AAATA-AAATTTAATAAAAC
50195950 CCATAATATA
Statistics
Matches: 76, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
58 17 0.22
59 17 0.22
60 34 0.45
61 5 0.07
62 3 0.04
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (58 bp):
ATTATTATTAAATAAAATTTAATAAAACAATAAATAATATAATAACATTCTTAACATA
Found at i:50197145 original size:28 final size:28
Alignment explanation
Indices: 50197068--50197178 Score: 106
Period size: 28 Copynumber: 4.1 Consensus size: 28
50197058 GTGTTTATCG
* * *
50197068 TATTATTTCGCACTTTGGTGCTTATCGT
1 TATTATTTTGCACTTTGGTGCTTATTGA
* * * *
50197096 TGTAAAATTTGCACTTTAGTGCTTATTGA
1 TAT-TATTTTGCACTTTGGTGCTTATTGA
50197125 TATTATTTTGCACTTTGGTGCTTATTG-
1 TATTATTTTGCACTTTGGTGCTTATTGA
*
50197152 --TTA-TTTGCACTTT-GTGCTTAGTGA
1 TATTATTTTGCACTTTGGTGCTTATTGA
50197176 TAT
1 TAT
50197179 ATGATATGTG
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
23 9 0.13
24 10 0.15
25 3 0.04
26 1 0.01
28 23 0.34
29 21 0.31
ACGTcount: A:0.19, C:0.13, G:0.18, T:0.50
Consensus pattern (28 bp):
TATTATTTTGCACTTTGGTGCTTATTGA
Found at i:50202524 original size:15 final size:15
Alignment explanation
Indices: 50202504--50202535 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50202494 TATGGGTTTT
50202504 AAATTGGTTTTTGAA
1 AAATTGGTTTTTGAA
*
50202519 AAATTGGTTTTTTAA
1 AAATTGGTTTTTGAA
50202534 AA
1 AA
50202536 TGATTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (15 bp):
AAATTGGTTTTTGAA
Found at i:50214725 original size:22 final size:22
Alignment explanation
Indices: 50214663--50214748 Score: 118
Period size: 22 Copynumber: 3.9 Consensus size: 22
50214653 ATTGTTCAAA
* **
50214663 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
50214685 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
50214707 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * *
50214729 CATGAGGGTTTAGTTCGTTA
1 CATGAGAGCTTAGTACGTTA
50214749 AATGAACAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:50230290 original size:21 final size:22
Alignment explanation
Indices: 50230261--50230307 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
50230251 CAGAAGGAGT
*
50230261 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
50230283 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
50230304 GAGT
1 GAGT
50230308 TTGAGTAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:50233371 original size:7 final size:6
Alignment explanation
Indices: 50233357--50233386 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
50233347 TTGTGAGCTT
50233357 TTAAAA TTAAAAA TTAAAA TTAAAA TTAAA
1 TTAAAA TT-AAAA TTAAAA TTAAAA TTAAA
50233387 CTGATAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:50233493 original size:24 final size:23
Alignment explanation
Indices: 50233465--50233517 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 23
50233455 TATTTAGTAT
*
50233465 TAAATATTTTTATAATATAAAATA
1 TAAATATTTTAATAATAT-AAATA
50233489 TAAATATTTTAATAATATAAATA
1 TAAATATTTTAATAATATAAATA
50233512 TAAATA
1 TAAATA
50233518 ATGATTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATATTTTAATAATATAAATA
Found at i:50236936 original size:48 final size:48
Alignment explanation
Indices: 50236849--50236941 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
50236839 CTCAGTCTCA
* *
50236849 TGATTCTTCAGCTGATGTTGGGACTGGGACGGGTAATCTTCCAGCTTG
1 TGATTCTTCAGCTAATGTTGGGACTGGGACGAGTAATCTTCCAGCTTG
* ** *
50236897 TGATTCTTCAGTTAATGTTGGGACTGGGTTGAGTGATCTTCCAGC
1 TGATTCTTCAGCTAATGTTGGGACTGGGACGAGTAATCTTCCAGC
50236942 AGTGCATGAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.17, C:0.17, G:0.30, T:0.35
Consensus pattern (48 bp):
TGATTCTTCAGCTAATGTTGGGACTGGGACGAGTAATCTTCCAGCTTG
Found at i:50239093 original size:12 final size:13
Alignment explanation
Indices: 50239073--50239100 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50239063 TAAGAAAAAG
50239073 TTTTAAAAAATAA
1 TTTTAAAAAATAA
50239086 TTTTAAAAAATAA
1 TTTTAAAAAATAA
50239099 TT
1 TT
50239101 CAAATCGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTTAAAAAATAA
Found at i:50241369 original size:108 final size:108
Alignment explanation
Indices: 50241179--50241373 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 108
50241169 TTTTCTTTGC
*
50241179 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACTCGGTTACT
1 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
*
50241244 CAGCCCAACATACTCCTAATTTATTATATTTATATATATATTT
66 CAGCCCAACACACTCCTAATTTATTATATTTATATATATATTT
* * * * *
50241287 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGATAGCCAAGTACCCTACCCCGGTTACT
1 TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
*
50241352 CAGCCCAACACATTCCTAATTT
66 CAGCCCAACACACTCCTAATTT
50241374 TTTTTTGTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 79 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (108 bp):
TTAAGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCCCAACCCGGTTACT
CAGCCCAACACACTCCTAATTTATTATATTTATATATATATTT
Found at i:50246442 original size:21 final size:21
Alignment explanation
Indices: 50246418--50246458 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50246408 TCGCATGCTG
*
50246418 ACCCATTTTGTCTTCAAATTC
1 ACCCATTTTGCCTTCAAATTC
* *
50246439 ACCCTTTTTGCCTTTAAATT
1 ACCCATTTTGCCTTCAAATT
50246459 TCCTTTTGCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.05, T:0.46
Consensus pattern (21 bp):
ACCCATTTTGCCTTCAAATTC
Found at i:50250795 original size:43 final size:43
Alignment explanation
Indices: 50250746--50250831 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
50250736 TCATATTTCA
50250746 TTTCTCATCTCATAATCATTTCTCATATTT-TCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTAT-CATTTCAATAT
* * * *
50250789 TTTCTCATCTCGTATTCATTTCTCGTCTTTATCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTATCATTTCAATAT
50250832 CAATTATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 37 0.97
44 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.02, T:0.52
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATATTTATCATTTCAATAT
Found at i:50253608 original size:44 final size:44
Alignment explanation
Indices: 50253417--50253609 Score: 242
Period size: 44 Copynumber: 4.4 Consensus size: 44
50253407 ATACCCGTAA
* * *
50253417 AAATTAGATTCATTGCACCAAACTTGGAACCAACTTTGTAATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * * *
50253461 AAATTAGATTCATTGTAACAAACTTGGCACCAACTTTGTACTTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * * *
50253505 AAATTAGATTAATTAGAACAAACTTGAAACAAACTTTGTCATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * *
50253549 CAATTAGATTCATTGGAACAAACTTGGAACAAACTTTCTAATAT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* *
50253593 AAATTATATACATTGGA
1 AAATTAGATTCATTGGA
50253610 GTAAATTAGC
Statistics
Matches: 127, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 127 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (44 bp):
AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
Found at i:50255539 original size:26 final size:26
Alignment explanation
Indices: 50255510--50255566 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
50255500 ATCCTCTCTT
50255510 GAGCCATATAACAGG-AAGCTCACAAA
1 GAGCCAT-TAACAGGAAAGCTCACAAA
* *
50255536 GAGCCATTAATAGGAAAGCTCATAAA
1 GAGCCATTAACAGGAAAGCTCACAAA
50255562 GAGCC
1 GAGCC
50255567 TTTCAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (26 bp):
GAGCCATTAACAGGAAAGCTCACAAA
Found at i:50255800 original size:65 final size:65
Alignment explanation
Indices: 50255719--50255868 Score: 255
Period size: 65 Copynumber: 2.3 Consensus size: 65
50255709 AGAGCCATAT
50255719 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
* * *
50255784 CAGGACGCTCACAAAGAGTTGCATTTGTGTCTGCAATATATGCAGGATCATAACCGATCATAAAA
1 CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
* *
50255849 TAGGACACTCACAAAGAGCT
1 CAGGACGCTCACAAAGAGCT
50255869 ACGGTAGTCC
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (65 bp):
CAGGACGCTCACAAAGAGCTGCATTTGTGTCTGCAACATATGCAGGATCACAACCGATCATAAAA
Found at i:50256888 original size:30 final size:31
Alignment explanation
Indices: 50256828--50256889 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
50256818 TTATTTAATT
*
50256828 AATTATCATCTTTTATTTTTTTTCACTTTCC
1 AATTATCATCTTTTATTTATTTTCACTTTCC
* *
50256859 AATT-TCATCCTTTTCTTTATTTT-ATTTTCC
1 AATTATCAT-CTTTTATTTATTTTCACTTTCC
50256889 A
1 A
50256890 TGGATGGATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (31 bp):
AATTATCATCTTTTATTTATTTTCACTTTCC
Found at i:50259426 original size:41 final size:41
Alignment explanation
Indices: 50259376--50259535 Score: 284
Period size: 41 Copynumber: 3.9 Consensus size: 41
50259366 CACTGCACTT
* *
50259376 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACTGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
50259417 AGCCTGCTAGACTTAAAGTTTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
50259458 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
50259499 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC
50259536 ATAAACCTGA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:50266058 original size:23 final size:23
Alignment explanation
Indices: 50266023--50266067 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50266013 TGGAGTATAA
* *
50266023 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
50266046 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
50266068 TATACAAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:50273979 original size:41 final size:41
Alignment explanation
Indices: 50273905--50274078 Score: 199
Period size: 41 Copynumber: 4.3 Consensus size: 41
50273895 AAAACGCGGC
* * * *
50273905 AAAAGGT-AGGCAATAGCGGA-ATTTCTCACATAAACACCAC
1 AAAAGGTAAGGCAATAGC-GACGTTTTTCCCATAAACACCAT
* * * **
50273945 AAAAGGTAAGGCAGTAGCGACGTTTTTCCTATAAACGCTGT
1 AAAAGGTAAGGCAATAGCGACGTTTTTCCCATAAACACCAT
* * *
50273986 AAAAGGTAAGGCAATAGCGATGTTTTCCCCATAAACACCGT
1 AAAAGGTAAGGCAATAGCGACGTTTTTCCCATAAACACCAT
* *
50274027 AAAAGGTAAGGCAATAGCAACGTTTTTCCCATAAACGCCAT
1 AAAAGGTAAGGCAATAGCGACGTTTTTCCCATAAACACCAT
50274068 AAAAGGTAAGG
1 AAAAGGTAAGG
50274079 AAAACGCCGT
Statistics
Matches: 112, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.08
41 103 0.92
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (41 bp):
AAAAGGTAAGGCAATAGCGACGTTTTTCCCATAAACACCAT
Found at i:50274183 original size:44 final size:44
Alignment explanation
Indices: 50274134--50274237 Score: 136
Period size: 44 Copynumber: 2.4 Consensus size: 44
50274124 ATGATACAAA
* * *
50274134 CCGATTCCATTTTCTTTCTCAAATGATAACATTTTATGTCTCCC
1 CCGATTCCCTTTTCTTTCGCAAACGATAACATTTTATGTCTCCC
** * *
50274178 CCGATTCCCTTTTCTTTCGCAAACGATGCCGTTTTATTTCTCCC
1 CCGATTCCCTTTTCTTTCGCAAACGATAACATTTTATGTCTCCC
*
50274222 CCAATTCCCTTTTCTT
1 CCGATTCCCTTTTCTT
50274238 CCCTAATTCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.17, C:0.32, G:0.08, T:0.43
Consensus pattern (44 bp):
CCGATTCCCTTTTCTTTCGCAAACGATAACATTTTATGTCTCCC
Found at i:50274245 original size:18 final size:18
Alignment explanation
Indices: 50274214--50274255 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
50274204 TGCCGTTTTA
*
50274214 TTTCTCCCCCAATTCCCT
1 TTTCTTCCCCAATTCCCT
*
50274232 TTTCTTCCCTAATTCCCT
1 TTTCTTCCCCAATTCCCT
50274250 TTTCTT
1 TTTCTT
50274256 TCTCAGCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTCTTCCCCAATTCCCT
Found at i:50276683 original size:16 final size:16
Alignment explanation
Indices: 50276662--50276693 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50276652 AATTTTAATA
50276662 TTGGTGATATGAATGC
1 TTGGTGATATGAATGC
50276678 TTGGTGATATGAATGC
1 TTGGTGATATGAATGC
50276694 ATTTTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.31, T:0.38
Consensus pattern (16 bp):
TTGGTGATATGAATGC
Found at i:50276771 original size:20 final size:20
Alignment explanation
Indices: 50276731--50276768 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50276721 TTCTATGAAC
50276731 TTTTTATATTTTGAATTTTA
1 TTTTTATATTTTGAATTTTA
*
50276751 TTTTTA-ATTTTTAATTTT
1 TTTTTATATTTTGAATTTT
50276769 TATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTTATATTTTGAATTTTA
Found at i:50276776 original size:16 final size:16
Alignment explanation
Indices: 50276751--50276788 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50276741 TTGAATTTTA
*
50276751 TTTT-TAATTTTTAAT
1 TTTTATAATTTTAAAT
50276766 TTTTATAATTTTAAAT
1 TTTTATAATTTTAAAT
50276782 TATTTAT
1 T-TTTAT
50276789 TAATGTAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 11 0.55
17 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATAATTTTAAAT
Found at i:50276841 original size:16 final size:17
Alignment explanation
Indices: 50276816--50276849 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
50276806 CTATGTTAAA
50276816 TTTTATTTTTATAATTT
1 TTTTATTTTTATAATTT
50276833 TTTTA-TTTTATAATTT
1 TTTTATTTTTATAATTT
50276849 T
1 T
50276850 AAATTTAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTATAATTT
Found at i:50283088 original size:28 final size:27
Alignment explanation
Indices: 50283057--50283111 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
50283047 TATTTTAAAT
*
50283057 TTTAAATTTAAATTCATTAATTTTTATA
1 TTTAAATTTAAATTCA-AAATTTTTATA
** *
50283085 TTTAGTTTTAAATTTAAAATTTTTATA
1 TTTAAATTTAAATTCAAAATTTTTATA
50283112 GAAAATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTAAATTTAAATTCAAAATTTTTATA
Found at i:50283105 original size:35 final size:35
Alignment explanation
Indices: 50283037--50283102 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
50283027 TAATTGCGTT
50283037 ATTAATTTGTTATTTTAAATTTTAAATTTAAATTC
1 ATTAATTTGTTATTTTAAATTTTAAATTTAAATTC
*
50283072 ATTAATTT-TTATATTT-AGTTTTAAATTTAAA
1 ATTAATTTGTTAT-TTTAAATTTTAAATTTAAA
50283103 ATTTTTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.58
Consensus pattern (35 bp):
ATTAATTTGTTATTTTAAATTTTAAATTTAAATTC
Found at i:50287705 original size:818 final size:818
Alignment explanation
Indices: 50286130--50287762 Score: 2890
Period size: 818 Copynumber: 2.0 Consensus size: 818
50286120 CCTTCTTCAC
50286130 TATTATGGTGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
1 TATTATGGTGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
* * *
50286195 AATGTGCTAATTTATTTGTAAAGTTTTCATTCATTCATGAATATACCTTTAGTTACAACTTTTGA
66 AAGGTGCTAATTTATCTGTAAAGTTTCCATTCATTCATGAATATACCTTTAGTTACAACTTTTGA
* * * *
50286260 TAATGTTGTATATTATGTTTAGGTTCCTATACAAATTGAATTCTTATTGTTGTAATAAGAGTTAT
131 TAATATTGTACATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGAGTTAT
* *
50286325 CCAGAAGGATCAATTGCTGAAGGTTACTTGGCAGAGGAGTGTATGACTTTCTGCTCTAGATATTT
196 CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTATATGACTTTCTGCTCTAGATATTT
*
50286390 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATGCTGGGTTCACTAATCATAACTTAG
261 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCACTAATCATAACTTAG
* * *
50286455 CCAAAACTTATCTATTTCGAAGTTGTGGAGAACCAATCGGTAAAGTTGAAATTTCACACTTACAT
326 CCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGGTAAAGTTGAAATTGCACACTTAAAT
* *
50286520 GATAAATCTTGGGTACAAGCACATCGATATGTTCTTTTTCACCACGATTCAGTTGAACTATTACG
391 GATAAATCTTGGGTACAAACACATCGATATGTTCTTTTTCACCACGATTCAGTTGAACAATTACG
50286585 CAAGTAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
456 CAAGTAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
* *
50286650 CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAATATTAGTACATC
521 CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAAGATTACTACATC
*
50286715 GAGAGATTCATAAGTTATTGACAGAATCTTTTCATGAATGGTTAAGGCAAACGGTATGCAACTGA
586 GAAAGATTCATAAGTTATTGACAGAATCTTTTCATGAATGGTTAAGGCAAACGGTATGCAACTGA
*
50286780 AGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTTGATT
651 AGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
* * *
50286845 CAATAGGTTTGGAGTGGAAAGGATGTCAATGACGAAGTTAAATGGTTTTCCCAAGGTCCAAATAG
716 CAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCAAATAA
*
50286910 AGTAGTAAAAAGATATATTGTCTTCCTCATTAATGGAT
781 AGTAGTAAAAAGATATATTGCCTTCCTCATTAATGGAT
* * * *
50286948 TATTATGGTGTACTTGTTAATCCATCTCCCTCATGAAGCAAAACTTGGTGGACCGGTTTTCTATC
1 TATTATGGTGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
* * *
50287013 GAGGTGCTAATTTATCTGTATAGTTTCCATTCATTCATGAATTTACCTTTAGTTACAACTTTTGA
66 AAGGTGCTAATTTATCTGTAAAGTTTCCATTCATTCATGAATATACCTTTAGTTACAACTTTTGA
* *
50287078 TAATATTGTACATCATGTTTAGGTTCCTATGCAAATTGAATTATTATTGTTGTAATAAGTGTTAT
131 TAATATTGTACATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGAGTTAT
50287143 CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTATATGACTTTCTGCTCTAGATATTT
196 CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTATATGACTTTCTGCTCTAGATATTT
50287208 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCACTAATCATAACTTAG
261 AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCACTAATCATAACTTAG
*
50287273 TCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGGTAAAGTTGAAATTGCACACTTAAAT
326 CCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGGTAAAGTTGAAATTGCACACTTAAAT
*
50287338 GATAAATCTTGGGTACAAACACATCGATATGTTCTTTTTCACCACGATTCAGTTGAACAATTGCG
391 GATAAATCTTGGGTACAAACACATCGATATGTTCTTTTTCACCACGATTCAGTTGAACAATTACG
*
50287403 CAAGTAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCACGTAATC
456 CAAGTAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
* * *
50287468 CACTTTTTAAATTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAAGATTACTTCATC
521 CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAAGATTACTACATC
50287533 GAAAGATTCATAAGTTATTGACAGAATCTTTTCATGAATGGTT-AGGACAAACGGTATGCAACTG
586 GAAAGATTCATAAGTTATTGACAGAATCTTTTCATGAATGGTTAAGG-CAAACGGTATGCAACTG
50287597 AAGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGAT
650 AAGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGAT
**
50287662 TCAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCTGAATA
715 TCAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCAAATA
50287727 AAGTAGTAAAAAGATATATTGCCTTCCTCATTAATG
780 AAGTAGTAAAAAGATATATTGCCTTCCTCATTAATG
50287763 AATTCAGGTT
Statistics
Matches: 774, Mismatches: 40, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
817 3 0.00
818 771 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (818 bp):
TATTATGGTGCACTTGCTAATCCATCTCCCTCATGAAACAAAACTTGGTGGACCGGTTTTCTACC
AAGGTGCTAATTTATCTGTAAAGTTTCCATTCATTCATGAATATACCTTTAGTTACAACTTTTGA
TAATATTGTACATCATGTTTAGGTTCCTATACAAATTGAATTATTATTGTTGTAATAAGAGTTAT
CCAGAAGGATCAATTACTGAAGGTTACTTGGCAGAGGAGTATATGACTTTCTGCTCTAGATATTT
AGAAGATGTTGAAACAAGACTGAATAGAGCAAGTAGAAATACTGGGTTCACTAATCATAACTTAG
CCAAAACTTATCTATTTCGAAGTTATGGAGAACCAATCGGTAAAGTTGAAATTGCACACTTAAAT
GATAAATCTTGGGTACAAACACATCGATATGTTCTTTTTCACCACGATTCAGTTGAACAATTACG
CAAGTAAGTTTTAGAATTTGATAAATATTCATCTTTTTAATTTTTTATCTTCTAACCAAGTAATC
CACATTTTAAAGTGAGTACAAACAAGTCTTGAGATCTCATTCACGCTCCCGAAGATTACTACATC
GAAAGATTCATAAGTTATTGACAGAATCTTTTCATGAATGGTTAAGGCAAACGGTATGCAACTGA
AGCTTTCATTGACAAATAATAATGTTTTCGTATAACATTTATAATTAATCAATTTACTTTCGATT
CAATAGGTTTGGAGTGGAAAGGACGTCAATGACGAAGTTAAATGGCTTTCCCAAGGTCCAAATAA
AGTAGTAAAAAGATATATTGCCTTCCTCATTAATGGAT
Found at i:50301081 original size:14 final size:14
Alignment explanation
Indices: 50301058--50301095 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
50301048 TATGATGAAA
*
50301058 GAAAAGAGAAGTAG
1 GAAAAGAGAAATAG
*
50301072 GAAAAAAGAAATAG
1 GAAAAGAGAAATAG
50301086 GAAAAGAGAA
1 GAAAAGAGAA
50301096 CAAAAGATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (14 bp):
GAAAAGAGAAATAG
Found at i:50308984 original size:20 final size:20
Alignment explanation
Indices: 50308938--50308986 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
50308928 ATCATGGTCT
50308938 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
* *
50308957 TCT-TTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
50308977 TTGCTTACTT
1 TTGCTTACTT
50308987 AAATAACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.59
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:50309314 original size:50 final size:50
Alignment explanation
Indices: 50309189--50309368 Score: 188
Period size: 50 Copynumber: 3.6 Consensus size: 50
50309179 GATAATAACA
* *
50309189 TGCCAAAGCCATGTCCCAGACATGGTCTTACAGGGGATGTT-TCCTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-GTTCTCATAT-CGG
* * * *
50309238 TACCAATGTCATATCCCAGATC-TGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGA-CATGGTCTTACAGGGGAGTTCTCATATCGG
* * ** *
50309288 TGCCTATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGAGTTCTCATATCGG
* *
50309338 TGCCAACGCTATGTCCCAGACATGGTCTTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC
50309369 GTTGGACCTC
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
48 4 0.04
49 36 0.33
50 68 0.63
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGAGTTCTCATATCGG
Found at i:50316152 original size:27 final size:29
Alignment explanation
Indices: 50316114--50316169 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
50316104 GACTGAGAGC
*
50316114 ACAAAGT-AAAAAA-AAAAATACAAACTA
1 ACAAAGTAAAAAAATAAAAATAAAAACTA
50316141 ACAAAGTAAAAAAATAAAAATAAAAACTA
1 ACAAAGTAAAAAAATAAAAATAAAAACTA
50316170 TCTTCCTGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
28 6 0.23
29 13 0.50
ACGTcount: A:0.75, C:0.09, G:0.04, T:0.12
Consensus pattern (29 bp):
ACAAAGTAAAAAAATAAAAATAAAAACTA
Found at i:50318667 original size:24 final size:25
Alignment explanation
Indices: 50318605--50318670 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
50318595 ATAATTTTCA
* *
50318605 AAAGCACAGTCT-ATTTTTCTTCTC
1 AAAGCCCAGTCTAATTTGTCTTCTC
* *
50318629 AAAGTCCAAAT-TAATTTGT-TTCTC
1 AAAG-CCCAGTCTAATTTGTCTTCTC
50318653 AAAGCCCAGTCTAATTTG
1 AAAGCCCAGTCTAATTTG
50318671 GTTTAAAACA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 4 0.12
24 21 0.64
25 8 0.24
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (25 bp):
AAAGCCCAGTCTAATTTGTCTTCTC
Found at i:50328243 original size:24 final size:23
Alignment explanation
Indices: 50328203--50328252 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
50328193 GTTTGATTGT
*
50328203 TAAAATAAATAGGAATAAGTAAAA
1 TAAAATAAATAGAAAT-AGTAAAA
*
50328227 TAAAATAAAATA-AAATATTAAAA
1 TAAAAT-AAATAGAAATAGTAAAA
50328250 TAA
1 TAA
50328253 TTGGAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 9 0.39
25 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (23 bp):
TAAAATAAATAGAAATAGTAAAA
Found at i:50333414 original size:10 final size:8
Alignment explanation
Indices: 50333390--50333416 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
50333380 ATCATCCATT
50333390 TCAATATA
1 TCAATATA
50333398 TCAATATA
1 TCAATATA
50333406 TCAATATA
1 TCAATATA
50333414 TCA
1 TCA
50333417 TGTGCCATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (8 bp):
TCAATATA
Found at i:50333698 original size:21 final size:21
Alignment explanation
Indices: 50333666--50333773 Score: 130
Period size: 21 Copynumber: 5.1 Consensus size: 21
50333656 TCGAAAGATG
50333666 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * *
50333687 AACAAAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAGAGCTA
* *
50333708 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
50333729 AACAGAAGCTCGA-AAGAGCTA
1 AACAGAAGCTC-ATAAGAGCTA
50333750 AACAGAAGCTCGA-AAGAGCTA
1 AACAGAAGCTC-ATAAGAGCTA
50333771 AAC
1 AAC
50333774 TGAAAATAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
21 76 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:50333724 original size:42 final size:42
Alignment explanation
Indices: 50333655--50333773 Score: 145
Period size: 42 Copynumber: 2.9 Consensus size: 42
50333645 CCAACAGAAG
*
50333655 CTCGAAAGA--TGAACAGAAGCTCATAAGAGCTAAACAAAAA
1 CTCGAAAGAGCTGAACAGAAGCTCGTAAGAGCTAAACAAAAA
* * * *
50333695 CTC-ATAAGAGTTGAACAGAAGCTCGTAAGAGCTGAACAGAAG
1 CTCGA-AAGAGCTGAACAGAAGCTCGTAAGAGCTAAACAAAAA
* *
50333737 CTCGAAAGAGCTAAACAGAAGCTCGAAAGAGCTAAAC
1 CTCGAAAGAGCTGAACAGAAGCTCGTAAGAGCTAAAC
50333774 TGAAAATAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 7 0.10
42 58 0.87
43 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (42 bp):
CTCGAAAGAGCTGAACAGAAGCTCGTAAGAGCTAAACAAAAA
Found at i:50336644 original size:24 final size:24
Alignment explanation
Indices: 50336617--50336665 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50336607 TCTTAAATTT
50336617 TATATTTTCAATTCACTTATCATG
1 TATATTTTCAATTCACTTATCATG
50336641 TATATTTTCAATTCACTTATCATG
1 TATATTTTCAATTCACTTATCATG
50336665 T
1 T
50336666 TTACACTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (24 bp):
TATATTTTCAATTCACTTATCATG
Found at i:50353870 original size:18 final size:17
Alignment explanation
Indices: 50353827--50353870 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
50353817 TTATTAAATA
* *
50353827 TAATTTAATAAAAATAT
1 TAATTTAATAAAATTCT
50353844 ATAATTTAATAAAATTCT
1 -TAATTTAATAAAATTCT
50353862 TAATATTAA
1 TAAT-TTAA
50353871 ATATTCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATTTAATAAAATTCT
Found at i:50353882 original size:15 final size:15
Alignment explanation
Indices: 50353853--50353885 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50353843 TATAATTTAA
50353853 TAAAATTCTTAATAT
1 TAAAATTCTTAATAT
50353868 TAAATATTCTT-ATAT
1 TAAA-ATTCTTAATAT
50353883 TAA
1 TAA
50353886 TTTTCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAAATTCTTAATAT
Found at i:50353941 original size:120 final size:119
Alignment explanation
Indices: 50353804--50354572 Score: 1228
Period size: 120 Copynumber: 6.4 Consensus size: 119
50353794 TTAATAATAT
50353804 TTTAATATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
50353869 AAATATTCTTATATTAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
50353924 TTTAACATAATTATTATTAAATATAATTTAATAAAACTATATAATTTAATAAAATTATTAATATT
1 TTTAA-ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
50353989 AAATATTCTTATATTAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
50354044 TTTAAATTAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAA-TAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
* *
50354109 AAATATTCTTAAATGAATTTACTAAAATCATAATATATAACACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
50354164 TTTAAAATAATAATTATTAAAAATATAATTTAGTAAAAATCTATAATTTAATAAAATTCTTAATA
1 TTT-AAATAATTATTATT--AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
50354229 TTAAATATTC-T-TA-GAATTTACTAAAATCATAGTATATATATAATACTATAAAATATAA
63 TTAAATATTCTTATATGAATTTACTAAAATC--A-TA-ATATATAATACTATAAAATATAA
*
50354287 TTTAAATTAATTATTTTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAA-TAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
50354352 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
50354407 TTTAAAATAATTATTATTAAATATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTT-AAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
50354472 AAATATTC-T-TA-GAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
50354524 TTTAAATTAATTATTTTTAAATATAATTTAATAAAATTAT-TAATATTAA
1 TTTAAA-TAATTATTATTAAATATAATTTAATAAAAATATATAAT-TTAA
50354573 ATATTCTTAT
Statistics
Matches: 611, Mismatches: 23, Indels: 33
0.92 0.03 0.05
Matches are distributed among these distances:
116 7 0.01
117 78 0.13
118 2 0.00
119 17 0.03
120 333 0.55
121 63 0.10
122 60 0.10
123 36 0.06
124 15 0.02
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (119 bp):
TTTAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:50353967 original size:18 final size:18
Alignment explanation
Indices: 50353944--50353990 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
50353934 TTATTATTAA
50353944 ATATAATTTAATAAAACT
1 ATATAATTTAATAAAACT
*
50353962 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAACT
50353980 AT-TAATATTAA
1 ATATAAT-TTAA
50353991 ATATTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATAAAACT
Found at i:50354175 original size:15 final size:14
Alignment explanation
Indices: 50354155--50354220 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 14
50354145 ATAACACTAT
50354155 AAAATATAATTTAA
1 AAAATATAATTTAA
* *
50354169 AATA-ATAATTATTA
1 AAAATATAATT-TAA
50354183 AAAATATAATTTAGTA
1 AAAATATAATTTA--A
50354199 AAAATCTATAATTTAA
1 AAAA--TATAATTTAA
50354215 TAAAAT
1 -AAAAT
50354221 TCTTAATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
13 6 0.15
14 9 0.22
15 7 0.17
16 6 0.15
17 4 0.10
18 9 0.22
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
AAAATATAATTTAA
Found at i:50354188 original size:16 final size:16
Alignment explanation
Indices: 50354155--50354219 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 16
50354145 ATAACACTAT
50354155 AAAATATAATTTA--A
1 AAAATATAATTTAGTA
* *
50354169 AATA-ATAA-TTATTA
1 AAAATATAATTTAGTA
50354183 AAAATATAATTTAGTA
1 AAAATATAATTTAGTA
*
50354199 AAAATCTATAATTTAATA
1 AAAA--TATAATTTAGTA
50354217 AAA
1 AAA
50354220 TTCTTAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 3 0.07
13 4 0.10
14 7 0.17
15 4 0.10
16 9 0.22
18 14 0.34
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (16 bp):
AAAATATAATTTAGTA
Found at i:50354232 original size:18 final size:18
Alignment explanation
Indices: 50354187--50354232 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
50354177 TTATTAAAAA
*
50354187 TATAATTTAGTAAAAATC
1 TATAATTTAATAAAAATC
*
50354205 TATAATTTAATAAAATTC
1 TATAATTTAATAAAAATC
50354223 T-TAATATTAA
1 TATAAT-TTAA
50354233 ATATTCTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
TATAATTTAATAAAAATC
Found at i:50354475 original size:363 final size:359
Alignment explanation
Indices: 50353810--50354629 Score: 1265
Period size: 363 Copynumber: 2.3 Consensus size: 359
50353800 ATATTTTAAT
50353810 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTATTA-TAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATAT
* *
50353875 TCTTATATTAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTAACATAATTATTA
65 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAACATAATTATTA
* *
50353940 TTAAATATAATTTAATAAAACTATATAATTTAATAAAATTATTAATATTAAATATTCTTATATTA
130 TTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGA
* *
50354005 ATTTTCTAAAATCATAATATATAATACTATAAAATATAATTTAAATTAATTATTATTAAATATAA
195 ATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAA
50354070 TTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAAATGAATTTACTAAA
260 TTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT--A-GAATTTACTAAA
50354135 ATCATAATATATAACACTATAAAATATAATTTAAAATA
322 ATCATAATATATAACACTATAAAATATAATTTAAAATA
* * *
50354173 ATAATTATTAAAAATATAATTTAGTAAAAATCTATAATTTAATAAAATTCTTAATATTAAATATT
1 ATAATTATTATAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATT
50354238 C-T-TA-GAATTTACTAAAATCATAGTATATATATAATACTATAAAATATAATTTAA-ATTAATT
66 CTTATATGAATTTACTAAAATC--A-TA-ATATATAATACTATAAAATATAATTTAACA-TAATT
* *
50354299 ATTTTTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAT
126 ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATATTAAATATTCTTAT
50354364 ATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAT
191 ATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAAT
*
50354429 ATAATTTATTAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAGAATTTACTAA
256 ATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAGAATTTACTAA
*
50354494 AATCATAATATATAATACTATAAAATATAA-TT----T-
321 AATCATAATATATAACACTATAAAATATAATTTAAAATA
*
50354527 A-AATTA--AT---TAT--TTT--T---AA-ATATAATTTAATAAAATTATTAATATTAAATATT
1 ATAATTATTATAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATT
50354578 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
66 CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTA
50354630 TAATCTACTT
Statistics
Matches: 433, Mismatches: 16, Indels: 40
0.89 0.03 0.08
Matches are distributed among these distances:
339 27 0.06
340 35 0.08
341 4 0.01
342 2 0.00
343 15 0.03
344 1 0.00
346 3 0.01
348 3 0.01
351 1 0.00
353 5 0.01
354 1 0.00
355 1 0.00
359 15 0.03
360 42 0.10
361 3 0.01
362 56 0.13
363 219 0.51
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (359 bp):
ATAATTATTATAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATT
CTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAACATAATTATTAT
TAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATATTAAATATTCTTATATGAA
TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTAAATATAAT
TTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTAGAATTTACTAAAATCA
TAATATATAACACTATAAAATATAATTTAAAATA
Done.