Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 209 of 211
Found at i:64889881 original size:18 final size:18
Alignment explanation
Indices: 64889854--64889894 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
64889844 TTTCTCTTTT
* *
64889854 ATATGTATATGTATATAG
1 ATATGAATATGGATATAG
*
64889872 ATATGAATATGGATATGG
1 ATATGAATATGGATATAG
64889890 ATATG
1 ATATG
64889895 TAAAAACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (18 bp):
ATATGAATATGGATATAG
Found at i:64901028 original size:32 final size:33
Alignment explanation
Indices: 64900967--64901052 Score: 90
Period size: 32 Copynumber: 2.7 Consensus size: 33
64900957 TTTGTGTGGT
* * *
64900967 TAATTAGAATTTTC-AAAAATTTGAGAGAGACC
1 TAATTAAAATTTTCTAAAATTTTCAGAGAGACC
*
64900999 TAATTAAAATTTTCTAAAATTTTCA-AGAGAGC
1 TAATTAAAATTTTCTAAAATTTTCAGAGAGACC
*
64901031 -AA-TAAAATTATCTACAAATTTT
1 TAATTAAAATTTTCTA-AAATTTT
64901053 AGGGGGCCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 11 0.23
31 9 0.19
32 19 0.40
33 8 0.17
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (33 bp):
TAATTAAAATTTTCTAAAATTTTCAGAGAGACC
Found at i:64906105 original size:30 final size:30
Alignment explanation
Indices: 64906069--64906131 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
64906059 ATTTATTTTA
* *
64906069 TTGTTAATTTTGTTATTATTTTA-AAGACAT
1 TTGTTAATTCTGTTATTACTTTAGAAG-CAT
64906099 TTGTTAATTCTGTTATTACTTTAGAAGCAT
1 TTGTTAATTCTGTTATTACTTTAGAAGCAT
64906129 TTG
1 TTG
64906132 CTAGTTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (30 bp):
TTGTTAATTCTGTTATTACTTTAGAAGCAT
Found at i:64906246 original size:63 final size:63
Alignment explanation
Indices: 64906177--64906299 Score: 237
Period size: 63 Copynumber: 2.0 Consensus size: 63
64906167 TATGCATATT
64906177 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
*
64906240 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTATTATTTTTG
1 TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTG
64906300 TTATATTATA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.57
Consensus pattern (63 bp):
TTTTAAAGTTTATTTTCAATTTGCTGAGAAATATGTATTTTGATGTTTTTAGTATTTTTGATA
Found at i:64906348 original size:12 final size:12
Alignment explanation
Indices: 64906318--64906351 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
64906308 TATATTTTTT
64906318 AAAATT-ATATA
1 AAAATTAATATA
64906329 AAAA-TAATATA
1 AAAATTAATATA
64906340 AAAATTAATATA
1 AAAATTAATATA
64906352 GTAGGACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.62
12 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:64934009 original size:124 final size:123
Alignment explanation
Indices: 64933747--64934214 Score: 480
Period size: 118 Copynumber: 3.9 Consensus size: 123
64933737 CTCGGACTCA
* *
64933747 GTCAATCCAAGTTCAAATCATTTCCGGTTTGGATCA--TTCAGGTTTGGGTTATTAACTTTTTAT
1 GTCAATCCAAGTTCAAATCATTTCCGATTTGGATCATTTTCAGGTTCGGGTTATTAACTTTTTAT
** * * *
64933810 GATGGATCAGGTTTGAGTTC-TAGTTAAT--ATTGGATTCTCGGGTTCGGGTCAGTTTG
66 GATCAATCAGGTTTGAGTTCGGA-TTAATCGATTGGATTCTTGGGTTCAGGTCAGTTTG
* * * *
64933866 GTCAATCCAAGTTCGAATCATTTCCGATTTGGATCATTTTCGGGTCCGGGTTATTAGCTTTTTAT
1 GTCAATCCAAGTTCAAATCATTTCCGATTTGGATCATTTTCAGGTTCGGGTTATTAACTTTTTAT
** * * *
64933931 TTTCAATCAGGTTTGAGTTCGGATTATTCGGATTGGATCCTTGAGTTCAGGTCAGTTTG
66 GATCAATCAGGTTTGAGTTCGGATTAATC-GATTGGATTCTTGGGTTCAGGTCAGTTTG
* * *
64933990 GTCAATCCAAGTTCAAATCATTTCCGGTTTGGATCATTTTTCAGGTTGGGGTTATTGAC-TTTT-
1 GTCAATCCAAGTTCAAATCATTTCCGATTTGGATCA-TTTTCAGGTTCGGGTTATTAACTTTTTA
* *
64934053 T-ATC---GA-GATTGAGTTCAGG-TTAATTCGATTGGATTCTTGGGTTCAGGTCA-TTTCG
65 TGATCAATCAGGTTTGAGTTC-GGATTAA-TCGATTGGATTCTTGGGTTCAGGTCAGTTT-G
* ** * * *
64934108 GTCAATCCAATTTCAAATCATTT-TTAGTTTGGATTATTTTCAAGTTCGGGTTATTAATTTTTTA
1 GTCAATCCAAGTTCAAATCATTTCCGA-TTTGGATCATTTTCAGGTTCGGGTTATTAACTTTTTA
* * *
64934172 TGATCAATCAGGGTTAGAGTTCGGGTTAACCGGATTGGATTCT
65 TGATCAATCA-GGTTTGAGTTCGGATTAATC-GATTGGATTCT
64934215 CGGGCTCGGA
Statistics
Matches: 286, Mismatches: 42, Indels: 36
0.79 0.12 0.10
Matches are distributed among these distances:
117 21 0.07
118 69 0.24
119 40 0.14
120 3 0.01
121 43 0.15
122 3 0.01
123 2 0.01
124 65 0.23
125 40 0.14
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (123 bp):
GTCAATCCAAGTTCAAATCATTTCCGATTTGGATCATTTTCAGGTTCGGGTTATTAACTTTTTAT
GATCAATCAGGTTTGAGTTCGGATTAATCGATTGGATTCTTGGGTTCAGGTCAGTTTG
Found at i:64934181 original size:242 final size:239
Alignment explanation
Indices: 64933747--64934211 Score: 566
Period size: 242 Copynumber: 1.9 Consensus size: 239
64933737 CTCGGACTCA
*
64933747 GTCAATCCAAGTTCAAATCATTTCCGGTTTGGATCATTCAGGTTTGGGTTATTAACTTTTTATGA
1 GTCAATCCAAGTTCAAATCATTTCCGGTTTGGATCATTCAGGTTGGGGTTATTAACTTTTTATGA
*
64933812 TGGATCAGGTTTGAGTTCTAGTTAATATTGGATTCTCGGGTTCGGGTCAGTTTGGTCAATCCAAG
66 -GGA--A-G-TTGAGTTCTAGTTAATATTGGATTCTCGGGTTCAGGTCAGTTTGGTCAATCCAAG
* * ** * **
64933877 TTCGAATCATTTCCGATTTGGATCATTTTCGGGTCCGGGTTATTAGCTTTTTATTTTCAATCA-G
126 TTCAAATCATTTCAGATTTGGATCATTTTCAAGTCCGGGTTATTAACTTTTTATGATCAATCAGG
* **
64933941 GTTTGAGTTCGGATTATTCGGATTGGATCCTTGAGTTCAGGTCAGTTTG
191 GTTAGAGTTCGGATTAACCGGATTGGATCCTTGAGTTCAGGTCAGTTTG
*
64933990 GTCAATCCAAGTTCAAATCATTTCCGGTTTGGATCATTTTTCAGGTTGGGGTTATTGACTTTTTA
1 GTCAATCCAAGTTCAAATCATTTCCGGTTTGGATCA---TTCAGGTTGGGGTTATTAACTTTTTA
*
64934055 TCGA-G-A-TTGAGTTC-AGGTTAATTCGATTGGATTCTTGGGTTCAGGTCA-TTTCGGTCAATC
63 T-GAGGAAGTTGAGTTCTA-GTTAA-T--ATTGGATTCTCGGGTTCAGGTCAGTTT-GGTCAATC
* * * * *
64934115 CAATTTCAAATCATTTTTAG-TTTGGATTATTTTCAAGTTCGGGTTATTAATTTTTTATGATCAA
122 CAAGTTCAAATCA-TTTCAGATTTGGATCATTTTCAAGTCCGGGTTATTAACTTTTTATGATCAA
*
64934179 TCAGGGTTAGAGTTCGGGTTAACCGGATTGGAT
186 TCAGGGTTAGAGTTCGGATTAACCGGATTGGAT
64934212 TCTCGGGCTC
Statistics
Matches: 191, Mismatches: 20, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
238 1 0.01
239 13 0.07
240 1 0.01
241 3 0.02
242 80 0.42
243 65 0.34
245 1 0.01
246 25 0.13
247 2 0.01
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.42
Consensus pattern (239 bp):
GTCAATCCAAGTTCAAATCATTTCCGGTTTGGATCATTCAGGTTGGGGTTATTAACTTTTTATGA
GGAAGTTGAGTTCTAGTTAATATTGGATTCTCGGGTTCAGGTCAGTTTGGTCAATCCAAGTTCAA
ATCATTTCAGATTTGGATCATTTTCAAGTCCGGGTTATTAACTTTTTATGATCAATCAGGGTTAG
AGTTCGGATTAACCGGATTGGATCCTTGAGTTCAGGTCAGTTTG
Found at i:64938862 original size:6 final size:6
Alignment explanation
Indices: 64938841--64938876 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
64938831 TCCTCCGCGC
* *
64938841 CCTCTA CCCCTA CCTCTC CCTCTA CCTCTA CCTCTA
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA
64938877 TTAGCTGATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.14, C:0.56, G:0.00, T:0.31
Consensus pattern (6 bp):
CCTCTA
Found at i:64938863 original size:18 final size:18
Alignment explanation
Indices: 64938840--64938875 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
64938830 TTCCTCCGCG
64938840 CCCTCTACCCCTACCTCT
1 CCCTCTACCCCTACCTCT
*
64938858 CCCTCTACCTCTACCTCT
1 CCCTCTACCCCTACCTCT
64938876 ATTAGCTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.58, G:0.00, T:0.31
Consensus pattern (18 bp):
CCCTCTACCCCTACCTCT
Found at i:64941053 original size:32 final size:32
Alignment explanation
Indices: 64941017--64941080 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
64941007 ATTACACGAT
*
64941017 AAGTATAAATATATGCCCGATCAAGGTAAAGG
1 AAGTATAAATATATGCCCGAACAAGGTAAAGG
**
64941049 AAGTATAAATATATGTTCGAACAAGGTAAAGG
1 AAGTATAAATATATGCCCGAACAAGGTAAAGG
64941081 TTTTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.23
Consensus pattern (32 bp):
AAGTATAAATATATGCCCGAACAAGGTAAAGG
Found at i:64945758 original size:22 final size:22
Alignment explanation
Indices: 64945711--64945771 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
64945701 CAATAACAAC
* *
64945711 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
64945733 AAAATGGTAGCAAAATAGAGAG-
1 AAAATAGTAGCAAAATA-AGAGT
* *
64945755 AAAACAATAG-AAAATAA
1 AAAATAGTAGCAAAATAA
64945772 TATTTAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 6 0.19
22 22 0.69
23 3 0.09
ACGTcount: A:0.61, C:0.07, G:0.16, T:0.16
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:64958395 original size:13 final size:13
Alignment explanation
Indices: 64958348--64958431 Score: 60
Period size: 13 Copynumber: 5.7 Consensus size: 13
64958338 TTTAAGTACC
64958348 AAATTAAATATTA
1 AAATTAAATATTA
*
64958361 AAATCAAATTTATGTA
1 AAATTAAA--TAT-TA
64958377 TTAAATTAAATATTA
1 --AAATTAAATATTA
64958392 AAATTAAACTTATGTACA
1 AAATTAAA--TAT-T--A
*
64958410 AAATTAAACATTA
1 AAATTAAATATTA
64958423 AAATTAAAT
1 AAATTAAAT
64958432 TTAGATACCA
Statistics
Matches: 57, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
13 24 0.42
15 9 0.16
16 8 0.14
18 16 0.28
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (13 bp):
AAATTAAATATTA
Found at i:64958445 original size:31 final size:31
Alignment explanation
Indices: 64958338--64958446 Score: 139
Period size: 31 Copynumber: 3.5 Consensus size: 31
64958328 TATCATTCTG
* *
64958338 TTTAAGTACCAAATTAAATATTAAAATCAAA
1 TTTATGTACCAAATTAAATATTAAAATTAAA
**
64958369 TTTATGTATTAAATTAAATATTAAAATTAAA
1 TTTATGTACCAAATTAAATATTAAAATTAAA
* * *
64958400 CTTATGTACAAAATTAAACATTAAAATTAAA
1 TTTATGTACCAAATTAAATATTAAAATTAAA
64958431 TTTA-GATACCAAATTA
1 TTTATG-TACCAAATTA
64958447 TATACTAAGT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
30 1 0.01
31 66 0.99
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (31 bp):
TTTATGTACCAAATTAAATATTAAAATTAAA
Found at i:64958884 original size:112 final size:115
Alignment explanation
Indices: 64958676--64958898 Score: 292
Period size: 112 Copynumber: 2.0 Consensus size: 115
64958666 TTATTTTTGA
* *
64958676 TGCTATGGCATTTTTAAGAAGACTACTTGTTTAAAATTGGAAATCAAGGAAGTTAATTTCTCTTT
1 TGCTATGGCATTTTCAAGAAGACTACTTGTTTAAAATTGGAAATCAA-GAAGTTAATTGCTCTTT
* * *
64958741 GCTTTGATTTCATGGAAAACCCAAATTGACTTCTTATATGAAAGCCGCAGT
65 GCTTTGATTCCATGGAAAACCCAAATCGACTTATTATATGAAAGCCGCAGT
* *
64958792 TGCTATGGCATTTTCAAG-AGATTTCTTGTTTAAAATTGGAAA-C-A-AAGTTAATTGCTCTTTG
1 TGCTATGGCATTTTCAAGAAGACTACTTGTTTAAAATTGGAAATCAAGAAGTTAATTGCTCTTTG
* * ** *
64958853 TTTTAGCTTCCATGGAAAATTCAAATCGACTTATTATTTGAAAGCC
66 CTTT-GATTCCATGGAAAACCCAAATCGACTTATTATATGAAAGCC
64958899 TCGCTAACTC
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
111 19 0.20
112 34 0.36
113 1 0.01
114 1 0.01
115 22 0.23
116 17 0.18
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (115 bp):
TGCTATGGCATTTTCAAGAAGACTACTTGTTTAAAATTGGAAATCAAGAAGTTAATTGCTCTTTG
CTTTGATTCCATGGAAAACCCAAATCGACTTATTATATGAAAGCCGCAGT
Found at i:64984518 original size:12 final size:12
Alignment explanation
Indices: 64984501--64984532 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
64984491 CGAACAAATC
*
64984501 ATGATGATCATG
1 ATGATGATCACG
64984513 ATGATGATCACG
1 ATGATGATCACG
64984525 ATGATGAT
1 ATGATGAT
64984533 GATCATAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (12 bp):
ATGATGATCACG
Found at i:64988321 original size:21 final size:20
Alignment explanation
Indices: 64988297--64988337 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
64988287 CTTTATATTA
*
64988297 AGTTGAGTGAAATGAAATTTG
1 AGTTGAATGAAAT-AAATTTG
*
64988318 AGTTGAATTAAATAAATTTG
1 AGTTGAATGAAATAAATTTG
64988338 TTCAAGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (20 bp):
AGTTGAATGAAATAAATTTG
Found at i:64989799 original size:21 final size:22
Alignment explanation
Indices: 64989766--64989812 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
64989756 TTTTAAAAGG
*
64989766 AAAATGATAGTGACATAACATT
1 AAAAGGATAGTGACATAACATT
64989788 AAAAGGAT-GTGACATAACATT
1 AAAAGGATAGTGACATAACATT
64989809 AAAA
1 AAAA
64989813 TGCGTGCACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.23
Consensus pattern (22 bp):
AAAAGGATAGTGACATAACATT
Found at i:64994883 original size:31 final size:32
Alignment explanation
Indices: 64994796--64994883 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 32
64994786 AATTGAACTT
* *
64994796 TTAAAAGAAAAA-TTT--AATAGTCTAGTGAC
1 TTAAAATAAAAACTTTCAAATAGTTTAGTGAC
* *
64994825 TTAAAAATAAAAACTTTCAAGTTGTTTAGTGAC
1 TT-AAAATAAAAACTTTCAAATAGTTTAGTGAC
* *
64994858 TT-AAATGAGAACTTTCAAATAGTTTA
1 TTAAAATAAAAACTTTCAAATAGTTTA
64994884 ATAATCATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 2 0.04
30 9 0.19
31 23 0.49
33 13 0.28
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (32 bp):
TTAAAATAAAAACTTTCAAATAGTTTAGTGAC
Found at i:64995623 original size:11 final size:11
Alignment explanation
Indices: 64995609--64995656 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
64995599 TGAAAAAGTG
*
64995609 ATTTTGAAATT
1 ATTTTTAAATT
64995620 ATTTTTAAA--
1 ATTTTTAAATT
64995629 ATTTTTAAATT
1 ATTTTTAAATT
*
64995640 TTTTTTAAATT
1 ATTTTTAAATT
64995651 -TTTTTA
1 ATTTTTA
64995657 TCGAAATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 9 0.27
10 6 0.18
11 18 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
ATTTTTAAATT
Found at i:64995654 original size:20 final size:20
Alignment explanation
Indices: 64995609--64995653 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
64995599 TGAAAAAGTG
*
64995609 ATTTTGAAATTATTTTTAAA
1 ATTTTTAAATTATTTTTAAA
*
64995629 ATTTTTAAATT-TTTTTTAA
1 ATTTTTAAATTATTTTTAAA
64995648 ATTTTT
1 ATTTTT
64995654 TTATCGAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
ATTTTTAAATTATTTTTAAA
Found at i:64995728 original size:30 final size:30
Alignment explanation
Indices: 64995671--64995728 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
64995661 AATGTTCTTT
* *
64995671 TAAAAATTTATTTTAATATAATTTTTAATG
1 TAAAAATATATTTTAATATAATATTTAATG
*
64995701 TAAAAATATATATTTAA-ATTATATTTAA
1 TAAAAATATAT-TTTAATATAATATTTAA
64995729 ATCCGTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (30 bp):
TAAAAATATATTTTAATATAATATTTAATG
Found at i:65000445 original size:57 final size:55
Alignment explanation
Indices: 65000338--65000446 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 55
65000328 ATTGAATCTT
* *
65000338 AAATTTGAGTGTAACACGGATTAAAATTGAAAATTGACCATTATTGTATAAATTA
1 AAATTTGAGTGTAACAAGGATTAAAATTGAAAATTGACCATTATTCTATAAATTA
* *
65000393 AAATTTGAGTGTAGCATGAGGATTAAAATTGAAAATTTACCATT-TTACTATAAA
1 AAATTTGAGTGTAACA--AGGATTAAAATTGAAAATTGACCATTATT-CTATAAA
65000447 ATGCAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
55 15 0.32
56 2 0.04
57 30 0.64
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (55 bp):
AAATTTGAGTGTAACAAGGATTAAAATTGAAAATTGACCATTATTCTATAAATTA
Found at i:65002777 original size:6 final size:6
Alignment explanation
Indices: 65002766--65002790 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
65002756 CATAATATAC
65002766 ACATAT ACATAT ACATAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT A
65002791 TATGATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:65009923 original size:25 final size:25
Alignment explanation
Indices: 65009889--65009939 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
65009879 GAGAAGTAAT
65009889 TGGTTCTTTGACACAAAACGGAACA
1 TGGTTCTTTGACACAAAACGGAACA
*
65009914 TGGTTCTTTGATACAAAACGGAACA
1 TGGTTCTTTGACACAAAACGGAACA
65009939 T
1 T
65009940 ATTCGCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (25 bp):
TGGTTCTTTGACACAAAACGGAACA
Found at i:65015158 original size:166 final size:166
Alignment explanation
Indices: 65014877--65015183 Score: 436
Period size: 166 Copynumber: 1.8 Consensus size: 166
65014867 CAAAGACGTG
* * * *
65014877 ATAGATGACAATCAAAGATGGATATAGATAAAAATCCAAGAGCGAAAATAAGATTTTAAGCATTC
1 ATAGATGACAAACAAAGATGAATACAGATAAAAATCCAAGAGCGAAAATAAGATTTTAAACATTC
* * * * * * *
65014942 AGCACACCATATTTCAATGCATTGATCTAGTATGCAAAAATTATAACACATAATTTAATAAGTCG
66 AACACACCATATTTCAATACATAGATCTAGTATGCAAAAATTAGAACACATAATTCAATAAGCCA
*
65015007 ACGAACAAAGACATTCAAGATGCTATAGTTCAATAC
131 ACAAACAAAGACATTCAAGATGCTATAGTTCAATAC
* * **
65015043 ATAGATGACAAACAAAGATGAATGCAGATCAAAATCCAAGAGC-AAAGATGTGATTTTAAACATT
1 ATAGATGACAAACAAAGATGAATACAGATAAAAATCCAAGAGCGAAA-ATAAGATTTTAAACATT
* *
65015107 CAACACACCATATTTCGATACATAGATCTAGTATGCAAAATTTAGAACACATAATTCAATAAGCC
65 CAACACACCATATTTCAATACATAGATCTAGTATGCAAAAATTAGAACACATAATTCAATAAGCC
65015172 AACAAACAAAGA
130 AACAAACAAAGA
65015184 TGAATATAAG
Statistics
Matches: 122, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
165 3 0.02
166 119 0.98
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (166 bp):
ATAGATGACAAACAAAGATGAATACAGATAAAAATCCAAGAGCGAAAATAAGATTTTAAACATTC
AACACACCATATTTCAATACATAGATCTAGTATGCAAAAATTAGAACACATAATTCAATAAGCCA
ACAAACAAAGACATTCAAGATGCTATAGTTCAATAC
Found at i:65015382 original size:61 final size:64
Alignment explanation
Indices: 65015308--65015434 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
65015298 ACAAGTTCTA
* *
65015308 AAACACTCAACAT-GCCATATTACAATACATT-CAAAAGCAATTCAGAAATAG-CTTGAAACCC
1 AAACACTCAACATGGCCATAGTACAATACATTAAAAAAGCAATTCAGAAATAGACTTGAAACCC
* * * *
65015369 AAACACTCAACATGGCTATAGTACAATACATTAAAAAAAGCAATTTAGAAATGGATTTGAAACCC
1 AAACACTCAACATGGCCATAGTACAATACATT-AAAAAAGCAATTCAGAAATAGACTTGAAACCC
65015434 A
1 A
65015435 CTTGTGGTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
61 13 0.23
62 16 0.29
64 17 0.30
65 10 0.18
ACGTcount: A:0.47, C:0.20, G:0.10, T:0.22
Consensus pattern (64 bp):
AAACACTCAACATGGCCATAGTACAATACATTAAAAAAGCAATTCAGAAATAGACTTGAAACCC
Found at i:65016137 original size:31 final size:31
Alignment explanation
Indices: 65016089--65016147 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
65016079 AAATAGTCAC
* *
65016089 TAAATTATTTAAAAGTTTTCATTTAAGCTAT
1 TAAACTATTCAAAAGTTTTCATTTAAGCTAT
*
65016120 TAAACTATTCAAAAGTTTTTATTTAAGC
1 TAAACTATTCAAAAGTTTTCATTTAAGC
65016148 CACTGGGCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (31 bp):
TAAACTATTCAAAAGTTTTCATTTAAGCTAT
Found at i:65023157 original size:25 final size:25
Alignment explanation
Indices: 65023101--65023165 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
65023091 GGACACACCA
*
65023101 CAGCTCGTATGAGCTTCTCGATTTG
1 CAGCTCGTATGAGCTTATCGATTTG
*
65023126 CAACTCGTGA-GAGCTTATCGATTCT-
1 CAGCTCGT-ATGAGCTTATCGATT-TG
65023151 CAGCTCGTATGAGCT
1 CAGCTCGTATGAGCT
65023166 AACTGATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 1 0.03
25 31 0.91
26 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTATCGATTTG
Found at i:65025623 original size:12 final size:12
Alignment explanation
Indices: 65025608--65025642 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
65025598 CGACGGTGAT
*
65025608 AAGAAGAGTAAA
1 AAGAAGAATAAA
*
65025620 AAGAAGAATGAA
1 AAGAAGAATAAA
65025632 AAGAAGAATAA
1 AAGAAGAATAA
65025643 GAAGGAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.09
Consensus pattern (12 bp):
AAGAAGAATAAA
Found at i:65027892 original size:6 final size:6
Alignment explanation
Indices: 65027883--65027918 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
65027873 TTATACAAAT
*
65027883 ATATTA ATATTA ATATTA ATATTA ACATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
65027919 TTTTTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
ATATTA
Found at i:65030123 original size:63 final size:64
Alignment explanation
Indices: 65030039--65030168 Score: 174
Period size: 64 Copynumber: 2.0 Consensus size: 64
65030029 ATTTACACAT
* * * *
65030039 AATATAGGGACTAATACC-AAA-ATTTAACCTTTTTATTAACTAAACTTCCTCTAAACAAGGAAC
1 AATAAAGGGACTAACACCAAAATATTTAA-CATTTTACTAACTAAACTTCCTCTAAACAAGGAAC
* * *
65030102 AATAAAGGGACTAACAGCAAAATATTTAACATTTTACTAACTAATCTTCCTCTAAACAAGGAGC
1 AATAAAGGGACTAACACCAAAATATTTAACATTTTACTAACTAAACTTCCTCTAAACAAGGAAC
65030166 AAT
1 AAT
65030169 CACTAATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
63 15 0.26
64 37 0.64
65 6 0.10
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.28
Consensus pattern (64 bp):
AATAAAGGGACTAACACCAAAATATTTAACATTTTACTAACTAAACTTCCTCTAAACAAGGAAC
Found at i:65034261 original size:12 final size:12
Alignment explanation
Indices: 65034229--65034262 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
65034219 AAAGTTTAAT
65034229 GAATTAATACAG
1 GAATTAATACAG
*
65034241 GAATATAATACGG
1 GAAT-TAATACAG
65034254 GAATTAATA
1 GAATTAATA
65034263 GCCAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (12 bp):
GAATTAATACAG
Found at i:65037053 original size:120 final size:120
Alignment explanation
Indices: 65036896--65037244 Score: 614
Period size: 120 Copynumber: 2.9 Consensus size: 120
65036886 TTTTCAACTT
* *
65036896 AAATTTAT--TTAAAAT-TTTAATATTTAAATCTTGACTCATGGAAAAGGAAATATTACATGATT
1 AAATTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAAATATTACATGATT
*
65036958 TTTTTATTTTCAAGATTAAATAGAAATGCATTTTTTAAAATTATATAAAAATTAA
66 TGTTTATTTTCAAGATTAAATAGAAATGCATTTTTTAAAATTATATAAAAATTAA
*
65037013 AAATTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAAATATTACATGGTT
1 AAATTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAAATATTACATGATT
*
65037078 TGTTTATTTTCAAGATTAAATAGTAATGCATTTTTTAAAATTATATAAAAATTAA
66 TGTTTATTTTCAAGATTAAATAGAAATGCATTTTTTAAAATTATATAAAAATTAA
* *
65037133 AAATTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAAATATTACATTATG
1 AAATTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAAATATTACATGATT
65037198 TGTTTATTTTCAAGATTAAATAGAAATGCATTTTTTAAAATTATATA
66 TGTTTATTTTCAAGATTAAATAGAAATGCATTTTTTAAAATTATATA
65037245 TGTACAAGCA
Statistics
Matches: 220, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
117 8 0.04
119 7 0.03
120 205 0.93
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (120 bp):
AAATTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAAATATTACATGATT
TGTTTATTTTCAAGATTAAATAGAAATGCATTTTTTAAAATTATATAAAAATTAA
Found at i:65037604 original size:3 final size:3
Alignment explanation
Indices: 65037590--65037677 Score: 92
Period size: 3 Copynumber: 29.7 Consensus size: 3
65037580 TAGCTTTTTC
* *
65037590 ATT ATT -TT ATT ATT ATC ATT ATT ATT ATT ATC ATT ATT ATT ATCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * *
65037635 -TT ACT ATT ATT ATT A-T ATTT ATT AAT ATT ATT GTT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT
65037678 GTTTTTTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
2 5 0.07
3 62 0.89
4 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:65038990 original size:120 final size:120
Alignment explanation
Indices: 65038777--65039175 Score: 744
Period size: 120 Copynumber: 3.3 Consensus size: 120
65038767 GGTGTCAACA
65038777 ATATAAAAATTAAAATTTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAA
1 ATATAAAAATTAAAATTTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAA
65038842 ATATTACATTATTTGTTTATTTTCAAGATTAAATAAAAATGCATTTTTTAAAATT
66 ATATTACATTATTTGTTTATTTTCAAGATTAAATAAAAATGCATTTTTTAAAATT
*
65038897 ATATAAAAATTAAAATTTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGAAAAAAGAA
1 ATATAAAAATTAAAATTTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAA
* *
65038962 ATATTACATTATTTGTTTATTTTGAAGATTAAATAGAAATGCATTTTTTAAAATT
66 ATATTACATTATTTGTTTATTTTCAAGATTAAATAAAAATGCATTTTTTAAAATT
65039017 ATATAAAAATTAAAATTTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAA
1 ATATAAAAATTAAAATTTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAA
* *
65039082 ATATTACATGATTTGTTTATTTTCAAGATTAAATATAAATGCATTTTTTAAAATT
66 ATATTACATTATTTGTTTATTTTCAAGATTAAATAAAAATGCATTTTTTAAAATT
*
65039137 ATATAAAAATTAAAATTTTATAATTAAACTATTAAATAT
1 ATATAAAAATTAAAATTTTATAATTAAAATATTAAATAT
65039176 CTCAATGAAA
Statistics
Matches: 271, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 271 1.00
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.42
Consensus pattern (120 bp):
ATATAAAAATTAAAATTTTATAATTAAAATATTAAATATTTAAATCTTGACTCATGGAAAAAGAA
ATATTACATTATTTGTTTATTTTCAAGATTAAATAAAAATGCATTTTTTAAAATT
Found at i:65042388 original size:120 final size:118
Alignment explanation
Indices: 65042230--65042491 Score: 404
Period size: 120 Copynumber: 2.2 Consensus size: 118
65042220 TTTCCAACTT
* * *
65042230 AAATTTAT--TTAAAATTTTAATATTTAAATCTTTACTCATGGAAAAGGAAATATTACATGATTT
1 AAATTTATAATTAAAATATTAATATTTAAACCTTGACTCATGGAAAAGGAAATATTACATGATTT
* *
65042293 GTTTATTTTCAGGATTAAATAGGAACGCATTTTTTAAAATTATAT-AAAAATTAA
66 GTTTATTTTCAAGATTAAATAGAAACGCATTTTTT-AAATTATATAAAAAATT-A
*
65042347 AAATTTATAATTAATATATTAAATATTTAAACCTTGACTCATGGAAAAGGAAATATTACATGATT
1 AAATTTATAATTAAAATATT-AATATTTAAACCTTGACTCATGGAAAAGGAAATATTACATGATT
*
65042412 TGTTTATTTTCAAGATTAAATAGAAATGCATTTTTTAAATTATATAAAAAATTA
65 TGTTTATTTTCAAGATTAAATAGAAACGCATTTTTTAAATTATATAAAAAATTA
*
65042466 TAATTTATAATTAAAATATTAATATT
1 AAATTTATAATTAAAATATTAATATT
65042492 ACATAATTTG
Statistics
Matches: 132, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
117 8 0.06
118 6 0.05
119 36 0.27
120 82 0.62
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (118 bp):
AAATTTATAATTAAAATATTAATATTTAAACCTTGACTCATGGAAAAGGAAATATTACATGATTT
GTTTATTTTCAAGATTAAATAGAAACGCATTTTTTAAATTATATAAAAAATTA
Found at i:65047571 original size:11 final size:10
Alignment explanation
Indices: 65047552--65047586 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
65047542 TATAGTAATA
65047552 TTTTATATTT
1 TTTTATATTT
65047562 TTTTATTATTT
1 TTTTA-TATTT
*
65047573 TTTTGTATTT
1 TTTTATATTT
65047583 TTTT
1 TTTT
65047587 TTAATTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (10 bp):
TTTTATATTT
Found at i:65052185 original size:12 final size:12
Alignment explanation
Indices: 65052168--65052192 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65052158 CGACCTAACA
65052168 ATGCAGTGGTCG
1 ATGCAGTGGTCG
65052180 ATGCAGTGGTCG
1 ATGCAGTGGTCG
65052192 A
1 A
65052193 AGTAGACATG
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:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (12 bp):
ATGCAGTGGTCG
Found at i:65053528 original size:23 final size:21
Alignment explanation
Indices: 65053491--65053540 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
65053481 TAATTCTCAT
*
65053491 AAAAAATCAACAAAACAATTTGA
1 AAAAAATCAACAAAA-AA-TAGA
65053514 AAAAAATCATA-AAAAAATAGA
1 AAAAAATCA-ACAAAAAATAGA
65053535 AAAAAA
1 AAAAAA
65053541 AAAGAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 9 0.36
22 2 0.08
23 13 0.52
24 1 0.04
ACGTcount: A:0.74, C:0.08, G:0.04, T:0.14
Consensus pattern (21 bp):
AAAAAATCAACAAAAAATAGA
Found at i:65053703 original size:16 final size:16
Alignment explanation
Indices: 65053682--65053717 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
65053672 TTTGGTTCGC
65053682 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65053698 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
65053714 TGTA
1 TGTA
65053718 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:65053936 original size:18 final size:18
Alignment explanation
Indices: 65053915--65053950 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
65053905 TTATTATTAA
* *
65053915 ATATATTTTAATTAAAAT
1 ATATAATTTAATAAAAAT
65053933 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
65053951 TCTTATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:65054088 original size:16 final size:16
Alignment explanation
Indices: 65054051--65054092 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
65054041 TTAATCATAT
*
65054051 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
65054067 TT-AAATATATTATAA
1 TTAAAATATATTATAA
65054082 TTAAAATATAT
1 TTAAAATATAT
65054093 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:65054088 original size:156 final size:157
Alignment explanation
Indices: 65053803--65054117 Score: 535
Period size: 156 Copynumber: 2.0 Consensus size: 157
65053793 AGAGGTGTAA
* *
65053803 TAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAT
1 TAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAA
* * * * *
65053868 TATCAGTAGTAAATATTTTAATCATATTTAAAGATAATTATTATTAAATATATTTTAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
65053933 ATATAATTTAATAAAAATTCTT-ATAAT
131 ATATAATTTAAT-AAAATTCTTAATAAT
*
65053960 TAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAA-TTTAATAAGATTATTAA
1 TAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAA
65054024 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
65054089 ATATAATTTAATAAAATTCTTAATAAT
131 ATATAATTTAATAAAATTCTTAATAAT
65054116 TA
1 TA
65054118 ATATTCTTAT
Statistics
Matches: 149, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
155 9 0.06
156 95 0.64
157 45 0.30
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAA
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAAT
Found at i:65054099 original size:14 final size:15
Alignment explanation
Indices: 65054060--65054101 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
65054050 TTTAAACATA
*
65054060 ATTATTATTAAATAT
1 ATTATAATTAAATAT
65054075 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
65054089 A-TATAATTTAATA
1 ATTATAATTAAATA
65054102 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:65054188 original size:120 final size:121
Alignment explanation
Indices: 65054049--65054346 Score: 512
Period size: 120 Copynumber: 2.5 Consensus size: 121
65054039 ATTTAATCAT
*
65054049 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
65054114 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
65054171 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
65054234 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
65054290 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
65054347 TAAAATAATT
Statistics
Matches: 169, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 3 0.02
120 161 0.95
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:65054219 original size:14 final size:15
Alignment explanation
Indices: 65054170--65054221 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
65054160 GTAAAATATA
65054170 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
65054185 TATTAAATATATTAT
1 AATTAAATATATTAT
65054200 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
65054213 AATTTAATA
1 AATTAAATA
65054222 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:65056773 original size:6 final size:6
Alignment explanation
Indices: 65056764--65056804 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
65056754 TTGATGTTGG
*
65056764 GAGGGA GAGGGA GAGGGA TAGGGA GAGGGA GAGGGA GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
65056805 TGGGGTAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.66, T:0.02
Consensus pattern (6 bp):
GAGGGA
Found at i:65057242 original size:4 final size:4
Alignment explanation
Indices: 65057233--65057258 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
65057223 TATTTACATT
65057233 TAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA
65057259 TATTAATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:65058068 original size:19 final size:19
Alignment explanation
Indices: 65058031--65058068 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
65058021 TTTGTCACCA
65058031 TAAATTTGATAGATAAAAAT
1 TAAATTTGA-AGATAAAAAT
65058051 TAAATTTG-AGATTAAAAA
1 TAAATTTGAAGA-TAAAAA
65058069 AATTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 6 0.35
20 8 0.47
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (19 bp):
TAAATTTGAAGATAAAAAT
Found at i:65061064 original size:22 final size:22
Alignment explanation
Indices: 65061015--65061054 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65061005 TTGATTATAT
65061015 TTAAAATA--TTAAATATTTAA
1 TTAAAATAGTTTAAATATTTAA
65061035 TTAAAATAGTTTAAATATTT
1 TTAAAATAGTTTAAATATTT
65061055 TTTATAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
22 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
TTAAAATAGTTTAAATATTTAA
Found at i:65063073 original size:23 final size:23
Alignment explanation
Indices: 65063036--65063094 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 23
65063026 TTTCCTTCCA
65063036 CTTTCCCTCTCTTTCC-TTTCTCT
1 CTTT-CCTCTCTTTCCTTTTCTCT
*
65063059 CTTTCCTCTCATTTCCTTTTTTCT
1 CTTTCCTCTC-TTTCCTTTTCTCT
*
65063083 TTTTCCTCTCTT
1 CTTTCCTCTCTT
65063095 AGAAAACCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.19
23 11 0.34
24 15 0.47
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (23 bp):
CTTTCCTCTCTTTCCTTTTCTCT
Found at i:65063083 original size:22 final size:23
Alignment explanation
Indices: 65063036--65063094 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
65063026 TTTCCTTCCA
65063036 CTTTCCCTCTCTTTCCTTTCTCT
1 CTTTCCCTCTCTTTCCTTTCTCT
*
65063059 CTTT-CCTCTCATTTCCTTT-TTT
1 CTTTCCCTCTC-TTTCCTTTCTCT
*
65063081 CTTTTTCCTCTCTT
1 C-TTTCCCTCTCTT
65063095 AGAAAACCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 9 0.28
23 17 0.53
24 6 0.19
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (23 bp):
CTTTCCCTCTCTTTCCTTTCTCT
Found at i:65068817 original size:39 final size:37
Alignment explanation
Indices: 65068750--65068883 Score: 101
Period size: 39 Copynumber: 3.5 Consensus size: 37
65068740 ACCAGAATGG
* *
65068750 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAG-CCGAAG-AATAGTTGA
* *
65068789 CACCCAGTGTCTCATCGGCAAAGCCGAAGAA-AGTTGG
1 CACCCAGTGCCTCATCGG-AAAGCCGAAGAATAGTTGA
* * * *
65068826 TACCCAGTACCTCATCGAAACTATCCGAAGAAATA-TTGGGA
1 CACCCAGTGCCTCATCGGAA--AGCCGAAG-AATAGTT--GA
*
65068867 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
65068884 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
36 2 0.03
37 19 0.25
38 9 0.12
39 26 0.35
40 4 0.05
41 15 0.20
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGCCGAAGAATAGTTGA
Found at i:65068881 original size:41 final size:37
Alignment explanation
Indices: 65068787--65068884 Score: 90
Period size: 41 Copynumber: 2.5 Consensus size: 37
65068777 AGCAATAGTT
* *
65068787 GACACCCAGTGTCTCATCGGCAAAGCCGAAGAAAGTTG
1 GACACCCAGTGTCTCATC-GAAAAGCCGAAGAAAATTG
* ** *
65068825 G-TACCCAGTACCTCATCGAAACTATCCGAAGAAATATTGG
1 GACACCCAGTGTCTCATCGAAA--AGCCGAAGAAA-ATT-G
65068865 GACACCCAGTGTCTCATCGA
1 GACACCCAGTGTCTCATCGA
65068885 CTCGAGGTCG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
36 3 0.07
37 13 0.28
38 11 0.24
39 2 0.04
40 2 0.04
41 15 0.33
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (37 bp):
GACACCCAGTGTCTCATCGAAAAGCCGAAGAAAATTG
Found at i:65069055 original size:23 final size:24
Alignment explanation
Indices: 65069011--65069056 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
65069001 TTTCTCACAT
* **
65069011 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
65069035 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
65069057 AAATTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:65069987 original size:19 final size:19
Alignment explanation
Indices: 65069942--65069981 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
65069932 TTTGTTTTGT
65069942 TTTTATTT-CTTTACTTTC
1 TTTTATTTACTTTACTTTC
65069960 TTTTATTTACTTTACTTT-
1 TTTTATTTACTTTACTTTC
65069978 TTTT
1 TTTT
65069982 CTTTTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTATTTACTTTACTTTC
Found at i:65073007 original size:2 final size:2
Alignment explanation
Indices: 65073000--65073025 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
65072990 TGACTTTTAT
65073000 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
65073026 ATTAAAGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:65077207 original size:139 final size:141
Alignment explanation
Indices: 65077032--65077294 Score: 354
Period size: 139 Copynumber: 1.9 Consensus size: 141
65077022 GGTTTTTTTT
* * * *
65077032 ATTTTAAAGTGTCACGCCATTAAATTTAATAAAATAATTCTAACGATGTTAACAATCTG-AACTA
1 ATTTTAAAATGTCACACCAATAAATTTAACAAAATAATTCTAACGATGTTAACAAT-TGAAACTA
* * *
65077096 AATTTTTAAAT-AAAAAAA-A-TAAAGTGACTAATTTCTTGAAAAATAAAAGTAGATAAACTAAA
65 AATTTTTAAATAAAAAAAAGAGTAAAGTGACTAAATTATTGAAAAATAAAAATAGATAAACTAAA
65077158 TTTTTTTTAATA
130 TTTTTTTTAATA
* * *
65077170 ATTTTCAAAATGTCACACCAATAAATTTAACATAATAATTTTAACGATGTTAACAATTGAAACTG
1 ATTTT-AAAATGTCACACCAATAAATTTAACAAAATAATTCTAACGATGTTAACAATTGAAACTA
* *
65077235 CATTTTTAAATAAAAAAAAAAGAGTAAAGTGACTAAATTATTGAAAAGTAAAAATAGATA
65 AATTTTTAAAT--AAAAAAAAGAGTAAAGTGACTAAATTATTGAAAAATAAAAATAGATA
65077295 GACCATATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
138 7 0.07
139 59 0.56
142 7 0.07
143 1 0.01
144 32 0.30
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (141 bp):
ATTTTAAAATGTCACACCAATAAATTTAACAAAATAATTCTAACGATGTTAACAATTGAAACTAA
ATTTTTAAATAAAAAAAAGAGTAAAGTGACTAAATTATTGAAAAATAAAAATAGATAAACTAAAT
TTTTTTTAATA
Found at i:65078439 original size:22 final size:23
Alignment explanation
Indices: 65078414--65078458 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
65078404 ACATGCAAAA
*
65078414 TAAA-ATAAAATAGGAAAAAAGT
1 TAAATATAAAAGAGGAAAAAAGT
* *
65078436 TAAATTTAAGAGAGGAAAAAAGT
1 TAAATATAAAAGAGGAAAAAAGT
65078459 ATTAGGTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.18, T:0.20
Consensus pattern (23 bp):
TAAATATAAAAGAGGAAAAAAGT
Found at i:65079007 original size:13 final size:13
Alignment explanation
Indices: 65078981--65079019 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
65078971 TTGCATGTAT
65078981 TTTATTTATTTAAA
1 TTTATTT-TTTAAA
65078995 TTTATTTTTTAAA
1 TTTATTTTTTAAA
65079008 TTTATATTTTTA
1 TTTAT-TTTTTA
65079020 TCTAAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTTTTTAAA
Found at i:65079971 original size:21 final size:22
Alignment explanation
Indices: 65079926--65079972 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
65079916 TAATAAAATT
*
65079926 ATAATAAAATAATGAGAAAAAA
1 ATAACAAAATAATGAGAAAAAA
65079948 ATAACAAAAT-ATG-GAAAAACA
1 ATAACAAAATAATGAGAAAAA-A
65079969 ATAA
1 ATAA
65079973 TGGTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 8 0.35
22 9 0.39
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.17
Consensus pattern (22 bp):
ATAACAAAATAATGAGAAAAAA
Found at i:65080194 original size:14 final size:14
Alignment explanation
Indices: 65080175--65080235 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
65080165 AAAATAAAAA
*
65080175 TTAAAAAAAGTA-T
1 TTAAAAAAAATATT
65080188 TT-AAAAAAA-ATT
1 TTAAAAAAAATATT
*
65080200 TTAAAATTAAAAAATT
1 TTAAAA--AAAATATT
65080216 TTAAAAAAAATATT
1 TTAAAAAAAATATT
65080230 TTAAAA
1 TTAAAA
65080236 GTATTTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
11 1 0.02
12 9 0.22
13 5 0.12
14 13 0.32
15 4 0.10
16 9 0.22
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
TTAAAAAAAATATT
Found at i:65080202 original size:12 final size:12
Alignment explanation
Indices: 65080175--65080246 Score: 54
Period size: 13 Copynumber: 5.5 Consensus size: 12
65080165 AAAATAAAAA
*
65080175 TTAAAAAAAGTAT
1 TTAAAAAAAAT-T
65080188 TTAAAAAAAATT
1 TTAAAAAAAATT
65080200 TTAAAATTAAAAAATT
1 TT--AA--AAAAAATT
65080216 TTAAAAAAAATAT
1 TTAAAAAAAAT-T
* **
65080229 TTTAAAAGTATT
1 TTAAAAAAAATT
65080241 TTAAAA
1 TTAAAA
65080247 GTGGTGCCCG
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
12 16 0.33
13 19 0.39
14 4 0.08
16 10 0.20
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
TTAAAAAAAATT
Found at i:65080242 original size:41 final size:43
Alignment explanation
Indices: 65080152--65080246 Score: 113
Period size: 41 Copynumber: 2.2 Consensus size: 43
65080142 ACCAAAATTT
*
65080152 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTAAAAAA
1 TATTTT-AAAATTAAAATAAAAATTAAAAAAAATATTTAAAAAA
* ** * *
65080196 AATTTTAAAATT-AAA-AAATTTTAAAAAAAATATTTTAAAAG
1 TATTTTAAAATTAAAATAAAAATTAAAAAAAATATTTAAAAAA
65080237 TATTTTAAAA
1 TATTTTAAAA
65080247 GTGGTGCCCG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 30 0.68
42 3 0.07
43 6 0.14
44 5 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (43 bp):
TATTTTAAAATTAAAATAAAAATTAAAAAAAATATTTAAAAAA
Found at i:65085522 original size:10 final size:8
Alignment explanation
Indices: 65085484--65085524 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
65085474 CTTCATATAC
65085484 ATATATCA
1 ATATATCA
* *
65085492 TTCATTTCA
1 AT-ATATCA
65085501 ATATATCA
1 ATATATCA
65085509 ATATATCA
1 ATATATCA
65085517 ATATATCA
1 ATATATCA
65085525 TGTACCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 22 0.79
9 6 0.21
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATATCA
Found at i:65088064 original size:58 final size:58
Alignment explanation
Indices: 65087974--65088084 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
65087964 TCTAATCAAC
* *
65087974 AAGTGTTAAGTGCAGTAGTAAGACACATTGTATTCTCAGAGAGAACTTAAGTTTGAAT
1 AAGTGTTAAGTGCAGTAATAAGACACATTGTATTCTCAAAGAGAACTTAAGTTTGAAT
* * * *
65088032 AAGTGTTGAGTGTAGTAATAAGACGCATTGTATTCTCAAAGAGAATTTAAGTT
1 AAGTGTTAAGTGCAGTAATAAGACACATTGTATTCTCAAAGAGAACTTAAGTT
65088085 CAAACATTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (58 bp):
AAGTGTTAAGTGCAGTAATAAGACACATTGTATTCTCAAAGAGAACTTAAGTTTGAAT
Found at i:65089839 original size:29 final size:28
Alignment explanation
Indices: 65089807--65089885 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
65089797 TTTATATTTT
65089807 TTTTATAAATTTAAAATTTAAGCTATGTA
1 TTTT-TAAATTTAAAATTTAAGCTATGTA
** * * *
65089836 TTTTTAGTTTTAAAAATTTAATCTGTTTA
1 TTTTTAAATTT-AAAATTTAAGCTATGTA
65089865 TTTTTTAAATTTTAAAATTTA
1 -TTTTTAAA-TTTAAAATTTA
65089886 GATATTAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
28 5 0.12
29 18 0.45
30 14 0.35
31 3 0.08
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTTAAATTTAAAATTTAAGCTATGTA
Found at i:65089870 original size:30 final size:29
Alignment explanation
Indices: 65089806--65089885 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
65089796 GTTTATATTT
*
65089806 TTTTTATAAATTTAAAATTTAAGCTATGTA
1 TTTTTA-AATTTTAAAATTTAAGCTATGTA
* * * *
65089836 TTTTT-AGTTTTAAAAATTTAATCTGTTTA
1 TTTTTAAATTTT-AAAATTTAAGCTATGTA
65089865 TTTTTTAAATTTTAAAATTTA
1 -TTTTTAAATTTTAAAATTTA
65089886 GATATTAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 4 0.10
29 14 0.34
30 18 0.44
31 5 0.12
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (29 bp):
TTTTTAAATTTTAAAATTTAAGCTATGTA
Found at i:65100770 original size:3 final size:3
Alignment explanation
Indices: 65100762--65100787 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65100752 TTTTAACAGG
65100762 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
65100788 CCAATGTAGA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:65106723 original size:21 final size:21
Alignment explanation
Indices: 65106699--65106738 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
65106689 AGGAATTTGA
65106699 AAAAACAAATGATA-TTTTTAG
1 AAAAA-AAATGATAGTTTTTAG
*
65106720 AAAAAAAGTGATAGTTTTT
1 AAAAAAAATGATAGTTTTT
65106739 TTTAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (21 bp):
AAAAAAAATGATAGTTTTTAG
Found at i:65107972 original size:29 final size:30
Alignment explanation
Indices: 65107918--65107981 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
65107908 ATCTTAAAAT
* *
65107918 TATACATTAATTTTAGTTTAATGTGTAATTG
1 TATACATGAATTTTAATTT-ATGTGTAATTG
*
65107949 TATACATGAATTTTAATTT-TGTGTAATTT
1 TATACATGAATTTTAATTTATGTGTAATTG
65107978 TATA
1 TATA
65107982 TATCAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 13 0.43
31 17 0.57
ACGTcount: A:0.33, C:0.03, G:0.11, T:0.53
Consensus pattern (30 bp):
TATACATGAATTTTAATTTATGTGTAATTG
Found at i:65112337 original size:16 final size:15
Alignment explanation
Indices: 65112287--65112344 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
65112277 TGGGTCCGTC
*
65112287 ATTTTGAGTTTAATT
1 ATTTTGAGTTTAATA
* * * *
65112302 GTTTTGTGTCTAAATC
1 ATTTTGAGT-TTAATA
65112318 ATTTTGAGTTTATATA
1 ATTTTGAGTTTA-ATA
65112334 ATTTTGAGTTT
1 ATTTTGAGTTT
65112345 GAACAGTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
15 9 0.27
16 24 0.73
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (15 bp):
ATTTTGAGTTTAATA
Found at i:65120606 original size:24 final size:24
Alignment explanation
Indices: 65120579--65120644 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
65120569 TTTGATATAT
*
65120579 ATAGATTAATTTTTAATAATAGAA
1 ATAGATTAATTTTTAATAAAAGAA
* *
65120603 ATAGATGGAATTTTTAACAAAAGAA
1 ATAGAT-TAATTTTTAATAAAAGAA
* * *
65120628 TTAGATTACTCTTTAAT
1 ATAGATTAATTTTTAAT
65120645 TTGACGTATA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (24 bp):
ATAGATTAATTTTTAATAAAAGAA
Found at i:65121793 original size:100 final size:100
Alignment explanation
Indices: 65121630--65121815 Score: 248
Period size: 100 Copynumber: 1.9 Consensus size: 100
65121620 AGAGGTCATC
* * * * *
65121630 ATCATTATCGATATTTTAATATCTGTTAAATCCATAATCACGATACCCTTGACTAAGACTATAT-
1 ATCAGTATCGATATTCTAATATCTGTTAAATCCACAATCACAATACCCTTAACTAAGACTATATG
* * *
65121694 TAAAAGTAAAAAGGAAGAGAAAAGAAGAAAGGATTT
66 T-AAAGCAAAAAAGAAAAGAAAAGAAGAAAGGATTT
* * **
65121730 ATCAGTATCGATATTCTAATATTTGTTAAATCCACAATCACAATATCCTTAACTAAGGTTATATG
1 ATCAGTATCGATATTCTAATATCTGTTAAATCCACAATCACAATACCCTTAACTAAGACTATATG
65121795 TAAAGCAAAAAAGAAAAGAAA
66 TAAAGCAAAAAAGAAAAGAAA
65121816 GAAAAAAAGA
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 72 0.99
101 1 0.01
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.29
Consensus pattern (100 bp):
ATCAGTATCGATATTCTAATATCTGTTAAATCCACAATCACAATACCCTTAACTAAGACTATATG
TAAAGCAAAAAAGAAAAGAAAAGAAGAAAGGATTT
Found at i:65121909 original size:84 final size:86
Alignment explanation
Indices: 65121817--65121989 Score: 197
Period size: 86 Copynumber: 2.0 Consensus size: 86
65121807 GAAAAGAAAG
* * *
65121817 AAAAAAAG-AGA-GGATACCATCAATATTAATATCCTAATATATGTTAAATCCGCAATTATGATA
1 AAAAAAAGAAGAGGGATACCATCAATATTAATATCCTAATATATGTTAAATACGCAATCACGATA
* *
65121880 CACTTGACTAAGGCTATATGT
66 CACTTCACTAAAGCTATATGT
* ** * * * * *
65121901 AAAAAAAGAAGAGGGGTGTCATCAATATTGATGTTCTAATATTTGTTAAATATGCAATCACGATA
1 AAAAAAAGAAGAGGGATACCATCAATATTAATATCCTAATATATGTTAAATACGCAATCACGATA
* *
65121966 CTCTTCATTAAAGCTATATGT
66 CACTTCACTAAAGCTATATGT
65121987 AAA
1 AAA
65121990 GCAAAAAAGA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
84 8 0.11
85 3 0.04
86 61 0.85
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (86 bp):
AAAAAAAGAAGAGGGATACCATCAATATTAATATCCTAATATATGTTAAATACGCAATCACGATA
CACTTCACTAAAGCTATATGT
Found at i:65131321 original size:21 final size:21
Alignment explanation
Indices: 65131288--65131327 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
65131278 GTGAGTGGAG
65131288 GAGAACAAAAGAAAAAAAAAA
1 GAGAACAAAAGAAAAAAAAAA
* * *
65131309 GAGAAGAAGAGAAGAAAAA
1 GAGAACAAAAGAAAAAAAA
65131328 GGAGAAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.23, T:0.00
Consensus pattern (21 bp):
GAGAACAAAAGAAAAAAAAAA
Found at i:65131353 original size:5 final size:5
Alignment explanation
Indices: 65131343--65131367 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
65131333 AGGAGAGGGC
65131343 GGGAA GGGAA GGGAA GGGAA GGGAA
1 GGGAA GGGAA GGGAA GGGAA GGGAA
65131368 AAAGAAAGAA
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:0.60, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:65134363 original size:27 final size:27
Alignment explanation
Indices: 65134333--65134399 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
65134323 ACCTATGCTA
*
65134333 CCTATTAGATAGGGGTCATTGGTGCCG
1 CCTATTAGATAGGGGTCACTGGTGCCG
*
65134360 CCTATCAGATAGGGGTCACTGGTGCCG
1 CCTATTAGATAGGGGTCACTGGTGCCG
65134387 CCTATTAGATAGG
1 CCTATTAGATAGG
65134400 CACCACACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (27 bp):
CCTATTAGATAGGGGTCACTGGTGCCG
Found at i:65135047 original size:29 final size:29
Alignment explanation
Indices: 65135013--65135072 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
65135003 ATTTAACTTA
65135013 ATTTTAAAATTTAAAAAATAGAAAATTTC
1 ATTTTAAAATTTAAAAAATAGAAAATTTC
65135042 ATTTTAAAATTTAAAAAATAGAAAATTTC
1 ATTTTAAAATTTAAAAAATAGAAAATTTC
65135071 AT
1 AT
65135073 GTAAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTTTAAAATTTAAAAAATAGAAAATTTC
Found at i:65135977 original size:19 final size:19
Alignment explanation
Indices: 65135894--65135977 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 19
65135884 TTTTAAAAAA
* *
65135894 ATTAAATACTAAAATAAAC
1 ATTAAATATTAAAATAAAT
* *
65135913 ATTAAATATCAAACTCAAAT
1 ATTAAATATTAAAAT-AAAT
* * *
65135933 ATCAAAT-TTAAATAAAAAA
1 ATTAAATATTAAA-ATAAAT
*
65135952 ATCAAATATTAAAATAAAT
1 ATTAAATATTAAAATAAAT
65135971 ATTAAAT
1 ATTAAAT
65135978 TCAAATACCA
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
19 36 0.72
20 14 0.28
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (19 bp):
ATTAAATATTAAAATAAAT
Found at i:65135990 original size:13 final size:13
Alignment explanation
Indices: 65135916--65135990 Score: 62
Period size: 13 Copynumber: 5.8 Consensus size: 13
65135906 AATAAACATT
*
65135916 AAATATCAAACTC
1 AAATATCAAATTC
*
65135929 AAATATCAAATTT
1 AAATATCAAATTC
** *
65135942 AAATAAAAAAATC
1 AAATATCAAATTC
* *
65135955 AAATATTAAAAT-
1 AAATATCAAATTC
*
65135967 AAATATTAAATTC
1 AAATATCAAATTC
*
65135980 AAATACCAAAT
1 AAATATCAAAT
65135991 ATTATATATC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
12 11 0.22
13 39 0.78
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATATCAAATTC
Found at i:65142211 original size:19 final size:18
Alignment explanation
Indices: 65142189--65142225 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
65142179 CCTTAAATAT
*
65142189 AAAAAAAAGTAAAATTAC
1 AAAAAAAAATAAAATTAC
*
65142207 AAAAAAAAATCAAATTAC
1 AAAAAAAAATAAAATTAC
65142225 A
1 A
65142226 TAATTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAAAAAAATAAAATTAC
Found at i:65152663 original size:82 final size:81
Alignment explanation
Indices: 65152563--65152723 Score: 250
Period size: 82 Copynumber: 2.0 Consensus size: 81
65152553 AAAACTACCA
** * ** * *
65152563 TTATCTGTTTGTTGATTCAAGTTTGTTGTTCGGAATTTGGTTCCGGGACAAATCTTGCATGCCGA
1 TTATCTGTTTGTTGATTCAAGTTTGTCATTCAGAATCCGGTTCCGGGAC-AATCTTGCATACCAA
65152628 GAAACTAATTCTTTTCG
65 GAAACTAATTCTTTTCG
65152645 TTATCTGTTTGTTGATTCAAGTTTGTCATTCAGAATCCGGTTCCGGGACAATCTTGCATACCAAG
1 TTATCTGTTTGTTGATTCAAGTTTGTCATTCAGAATCCGGTTCCGGGACAATCTTGCATACCAAG
65152710 AAACTAATTCTTTT
66 AAACTAATTCTTTT
65152724 TATTATATTA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
81 28 0.39
82 44 0.61
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (81 bp):
TTATCTGTTTGTTGATTCAAGTTTGTCATTCAGAATCCGGTTCCGGGACAATCTTGCATACCAAG
AAACTAATTCTTTTCG
Found at i:65156413 original size:24 final size:24
Alignment explanation
Indices: 65156363--65156411 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
65156353 CCAAAATATT
*
65156363 TTCAAAATTAATTTCTTTTTTGAAA
1 TTCAAAATTAATTTATTTTTT-AAA
*
65156388 TTCAAATTTAATTTATTTGTTTAA
1 TTCAAAATTAATTTATTT-TTTAA
65156412 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (24 bp):
TTCAAAATTAATTTATTTTTTAAA
Found at i:65156472 original size:18 final size:18
Alignment explanation
Indices: 65156449--65156483 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65156439 ATTAAGAGTG
*
65156449 AGTTTTATTAATATTTTT
1 AGTTTTAATAATATTTTT
*
65156467 AGTTTTAATATTATTTT
1 AGTTTTAATAATATTTT
65156484 AATATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
AGTTTTAATAATATTTTT
Found at i:65156514 original size:8 final size:7
Alignment explanation
Indices: 65156479--65156513 Score: 52
Period size: 7 Copynumber: 4.7 Consensus size: 7
65156469 TTTTAATATT
65156479 ATTTTAA
1 ATTTTAA
65156486 TATTTTTAA
1 -A-TTTTAA
65156495 ATTTTAA
1 ATTTTAA
65156502 ATTTTAA
1 ATTTTAA
65156509 ATTTT
1 ATTTT
65156514 TTACTTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 18 0.69
8 2 0.08
9 6 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (7 bp):
ATTTTAA
Found at i:65161386 original size:23 final size:23
Alignment explanation
Indices: 65161370--65161415 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
65161360 AACAAATTAG
65161370 ACTAATTGAACTAAACACACACA
1 ACTAATTGAACTAAACACACACA
65161393 ACTAATTGAACTAAACACACACA
1 ACTAATTGAACTAAACACACACA
65161416 TGGCAGCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.17
Consensus pattern (23 bp):
ACTAATTGAACTAAACACACACA
Found at i:65161788 original size:8 final size:8
Alignment explanation
Indices: 65161775--65161809 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
65161765 AATCGGATTT
65161775 TTTTTTAA
1 TTTTTTAA
65161783 TTTTTTAA
1 TTTTTTAA
65161791 TTTTTAATAA
1 TTTTT--TAA
65161801 TTTTTTAA
1 TTTTTTAA
65161809 T
1 T
65161810 CAGATTGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.68
10 8 0.32
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTTTTAA
Found at i:65172198 original size:142 final size:140
Alignment explanation
Indices: 65171867--65172218 Score: 363
Period size: 140 Copynumber: 2.5 Consensus size: 140
65171857 AGTGAGCTCA
* * * * * * *
65171867 ACCTGTCAAATGTTACCACTTTGAGCCAACTTAGCTAAT-TTCTGGTTTCGCTGCTACCTATATA
1 ACCTGTTAAACGTCACCACTTTGAACCAACTTAGCTAATGTTCTGGGTTCACTGCTACCCATATA
* * *
65171931 TAGATATGGATATCTTAGACATGATATTACCTGTGCTTCATCACCACTGCCCTTTTTGTTTTCAG
66 TAGATATGGATATCTTACACATGATATTACCTGTGCATCATCACCACTG-CATTTTTGTTTTCAG
**
65171996 GCTCTGGACTC
130 GCTCCAGACTC
* * * *** *
65172007 ATCTGTTAAATGTCACCTCTTTGAACCAACTTAGCTAA-GTTCCACGTTCACTGCTTCCCATATA
1 ACCTGTTAAACGTCACCACTTTGAACCAACTTAGCTAATGTTCTGGGTTCACTGCTACCCATATA
* * * *
65172071 TAGATGA-GGATATCTTACTCATGACTCTTATCTGTGCATCATCACGACTG-ATTGTATTGTTTT
66 TAGAT-ATGGATATCTTACACATGA-TATTACCTGTGCATCATCACCACTGCATT-T-TTGTTTT
* *
65172134 CCGGCTCCAGACTTG
127 CAGGCTCCAGAC-TC
* **
65172149 ACCTGTTACACGTCACCACTTTGAACCAACTTAGC-AATGTTCTGGGTTCACTGCTACCGGTATA
1 ACCTGTTAAACGTCACCACTTTGAACCAACTTAGCTAATGTTCTGGGTTCACTGCTACCCATATA
65172213 TAGATA
66 TAGATA
65172219 CAGATAAATA
Statistics
Matches: 172, Mismatches: 33, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
139 2 0.01
140 72 0.42
141 41 0.24
142 57 0.33
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (140 bp):
ACCTGTTAAACGTCACCACTTTGAACCAACTTAGCTAATGTTCTGGGTTCACTGCTACCCATATA
TAGATATGGATATCTTACACATGATATTACCTGTGCATCATCACCACTGCATTTTTGTTTTCAGG
CTCCAGACTC
Found at i:65174744 original size:116 final size:114
Alignment explanation
Indices: 65174608--65174839 Score: 353
Period size: 116 Copynumber: 2.0 Consensus size: 114
65174598 AAAAAATAAA
* *
65174608 AAAAAATAAACCAATTTAAATTGAATTATCATAAATAATTC-AAAAAATCCAATCT-AACTAACC
1 AAAAAATAAACCAATCTAAATCGAATTATCATAAATAATTCAAAAAAATCCAAT-TGAACTAACC
65174671 AAAG-TTAACCCAAACATATACATTAATATTGGTGAACATTCATTATTTAAAAT
65 -AAGTTTAACCCAAACATAT--ATT-ATATTGGTGAACATTCATTATTTAAAAT
* *
65174724 AAAAAATAAACCAATCTAAATCGAATTGTCATAAATAATTCAAAAAAATTCAATTGAACTAACCA
1 AAAAAATAAACCAATCTAAATCGAATTATCATAAATAATTCAAAAAAATCCAATTGAACTAACCA
*
65174789 AGTTTATCCCAAACATATATTATATTGGTGAACATTCATTATTTAAAAT
66 AGTTTAACCCAAACATATATTATATTGGTGAACATTCATTATTTAAAAT
65174838 AA
1 AA
65174840 GGAAAGTTTT
Statistics
Matches: 108, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
114 30 0.28
115 3 0.03
116 42 0.39
117 33 0.31
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (114 bp):
AAAAAATAAACCAATCTAAATCGAATTATCATAAATAATTCAAAAAAATCCAATTGAACTAACCA
AGTTTAACCCAAACATATATTATATTGGTGAACATTCATTATTTAAAAT
Found at i:65189643 original size:16 final size:17
Alignment explanation
Indices: 65189622--65189653 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65189612 TTATAATCGA
65189622 AATTTAATTT-TAATTT
1 AATTTAATTTATAATTT
65189638 AATTTAATTTATAATT
1 AATTTAATTTATAATT
65189654 ATTTTTTCAT
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTAATTTATAATTT
Found at i:65191580 original size:11 final size:11
Alignment explanation
Indices: 65191560--65191599 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
65191550 GAAAATTATT
65191560 AAATTAAATTTA
1 AAATT-AATTTA
*
65191572 AAATTAATTTT
1 AAATTAATTTA
*
65191583 AATTTAATTTA
1 AAATTAATTTA
65191594 AAATTA
1 AAATTA
65191600 TTAATTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAATTAATTTA
Found at i:65191697 original size:12 final size:13
Alignment explanation
Indices: 65191680--65191711 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
65191670 AAATTTTGTG
65191680 ATAATTATAAT-T
1 ATAATTATAATAT
65191692 ATAATT-TAATAT
1 ATAATTATAATAT
65191704 ATAATTAT
1 ATAATTAT
65191712 CAGTTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 13 0.72
13 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATAATTATAATAT
Found at i:65192945 original size:16 final size:16
Alignment explanation
Indices: 65192926--65192971 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
65192916 TGTTTAATTG
65192926 AAAATTTAAAAAATAAA
1 AAAATTTAAAAAAT-AA
65192943 AAAATTT-AAAAAT-A
1 AAAATTTAAAAAATAA
* *
65192957 GAAATTTATAAAATA
1 AAAATTTAAAAAATA
65192972 TGGTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 6 0.24
17 7 0.28
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATTTAAAAAATAA
Found at i:65193770 original size:14 final size:14
Alignment explanation
Indices: 65193751--65193790 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
65193741 TTGATTGCCA
65193751 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
65193765 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
65193779 GGAAAATGTTTT
1 GTAAAATGTTTT
65193791 ACTTTTCTGT
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:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:65193799 original size:20 final size:20
Alignment explanation
Indices: 65193774--65193813 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
65193764 CGTAAAATGA
*
65193774 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
65193794 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
65193814 AGAAAATATT
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:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:65193803 original size:34 final size:35
Alignment explanation
Indices: 65193759--65193825 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
65193749 CAGTAAAATG
* *
65193759 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
65193793 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
65193826 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:65195160 original size:24 final size:26
Alignment explanation
Indices: 65195106--65195160 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
65195096 CTAATTAATG
65195106 TAAATTAAAATAAGTATCAGATATAA
1 TAAATTAAAATAAGTATCAGATATAA
* *
65195132 AAAATTAGAAT-A-TATCA-ATATCAA
1 TAAATTAAAATAAGTATCAGATAT-AA
65195156 TAAAT
1 TAAAT
65195161 CTGGACAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 4 0.16
24 11 0.44
25 1 0.04
26 9 0.36
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (26 bp):
TAAATTAAAATAAGTATCAGATATAA
Found at i:65195675 original size:15 final size:16
Alignment explanation
Indices: 65195655--65195689 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
65195645 AGAAGTGACA
65195655 TAATAAAATTAA-ATT
1 TAATAAAATTAACATT
65195670 TAATAAAATTAACATT
1 TAATAAAATTAACATT
65195686 TAAT
1 TAAT
65195690 CTAAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAAAATTAACATT
Found at i:65200289 original size:13 final size:13
Alignment explanation
Indices: 65200256--65200295 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
65200246 CCGAAACTTT
*
65200256 AAAAAATTA-TGA
1 AAAAAATTATTCA
*
65200268 AACAAATTATTCA
1 AAAAAATTATTCA
65200281 AAAAAATTATTCA
1 AAAAAATTATTCA
65200294 AA
1 AA
65200296 TTTTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (13 bp):
AAAAAATTATTCA
Found at i:65201483 original size:116 final size:115
Alignment explanation
Indices: 65201263--65201843 Score: 833
Period size: 116 Copynumber: 5.0 Consensus size: 115
65201253 ACTCAAATTG
* * * * * *
65201263 TCTAAATTCTAAATAAAAAGACGAAAATTACGGAACTTTTCAAACAAGTTTTGACACAATATTGT
1 TCTAGATTTTAAAT-AAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACAC-A-A-TGT
* * * *
65201328 CGTATTTTGAATATAACTA-AGCATAGTTGTATTCCATATATATAATAATAATTCA
62 CATACTTTGAATACAACTAGA-CACAGTTGTATTCCATATATAT-ATAATAATTCA
* *
65201383 TCTAGATTTTAAATAAATGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCGTA
1 TCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATA
* * *
65201448 CTTTGAATACAACCAGACACAGTTGTATTCCATATATATGTAAATAATTGA
66 CTTTGAATACAACTAGACACAGTTGTATTCCATATATATAT-AATAATTCA
65201499 TCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATA
1 TCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATA
* *
65201564 CTTTGAATATAACTA-AGCATAGTTGTATTCCATATATATAATAATAATTCA
66 CTTTGAATACAACTAGA-CACAGTTGTATTCCATATATAT-ATAATAATTCA
* * *
65201615 TTTAGATTTTAAATAAATGACGGAAGTCACGGAACTATTCAAACACGTTTTGACACAATGTCATA
1 TCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATA
* * *
65201680 CTTTGAATACAACCAGACACAGTTGTATTCCATATATATGTAAATAATTGA
66 CTTTGAATACAACTAGACACAGTTGTATTCCATATATATAT-AATAATTCA
*
65201731 TCTAGAATTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATA
1 TCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATA
*
65201796 TTTTGAATACAACTAGACACAGTTGTATTCCATATATATATAATAATT
66 CTTTGAATACAACTAGACACAGTTGTATTCCATATATATATAATAATT
65201844 TATGCGTATG
Statistics
Matches: 420, Mismatches: 35, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
115 10 0.02
116 356 0.85
117 4 0.01
118 1 0.00
119 37 0.09
120 12 0.03
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (115 bp):
TCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATA
CTTTGAATACAACTAGACACAGTTGTATTCCATATATATATAATAATTCA
Found at i:65201687 original size:232 final size:232
Alignment explanation
Indices: 65201258--65201843 Score: 980
Period size: 232 Copynumber: 2.5 Consensus size: 232
65201248 TTTAAACTCA
* * * * * *
65201258 AATTG-TCTAAATTCTAAATAAAAAGACGAAAATTACGGAACTTTTCAAACAAGTTTTGACACAA
1 AATTGATCTAGATTTTAAAT-AAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACAC-A
*
65201322 TATTGTCGTATTTTGAATATAACTAAGCATAGTTGTATTCCATATATATAATAATAATTCATCTA
64 -A-TGTCATATTTTGAATATAACTAAGCATAGTTGTATTCCATATATATAATAATAATTCATCTA
*
65201387 GATTTTAAATAAATGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCGTACTTT
127 GATTTTAAATAAATGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATACTTT
65201452 GAATACAACCAGACACAGTTGTATTCCATATATATGTAAAT
192 GAATACAACCAGACACAGTTGTATTCCATATATATGTAAAT
65201493 AATTGATCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAAT
1 AATTGATCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAAT
* *
65201558 GTCATACTTTGAATATAACTAAGCATAGTTGTATTCCATATATATAATAATAATTCATTTAGATT
66 GTCATATTTTGAATATAACTAAGCATAGTTGTATTCCATATATATAATAATAATTCATCTAGATT
*
65201623 TTAAATAAATGACGGAAGTCACGGAACTATTCAAACACGTTTTGACACAATGTCATACTTTGAAT
131 TTAAATAAATGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATACTTTGAAT
65201688 ACAACCAGACACAGTTGTATTCCATATATATGTAAAT
196 ACAACCAGACACAGTTGTATTCCATATATATGTAAAT
*
65201725 AATTGATCTAGAATTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAAT
1 AATTGATCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAAT
* *
65201790 GTCATATTTTGAATACAACT-AGACACAGTTGTATTCCATATATAT-ATAATAATT
66 GTCATATTTTGAATATAACTAAG-CATAGTTGTATTCCATATATATAATAATAATT
65201844 TATGCGTATG
Statistics
Matches: 334, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
231 11 0.03
232 266 0.80
233 1 0.00
234 1 0.00
235 43 0.13
236 12 0.04
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.33
Consensus pattern (232 bp):
AATTGATCTAGATTTTAAATAAAAGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAAT
GTCATATTTTGAATATAACTAAGCATAGTTGTATTCCATATATATAATAATAATTCATCTAGATT
TTAAATAAATGACGGAAGTCACGGAACTATTCAAACAAGTTTTGACACAATGTCATACTTTGAAT
ACAACCAGACACAGTTGTATTCCATATATATGTAAAT
Found at i:65205449 original size:18 final size:20
Alignment explanation
Indices: 65205416--65205456 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
65205406 CTATATTTTA
65205416 ATATTTAAAATATAAATTAT
1 ATATTTAAAATATAAATTAT
*
65205436 ATATTT-AAAT-TAAATTTT
1 ATATTTAAAATATAAATTAT
65205454 ATA
1 ATA
65205457 AATAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTTAAAATATAAATTAT
Found at i:65208975 original size:23 final size:22
Alignment explanation
Indices: 65208931--65208975 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
65208921 ATTTAATTAA
* * *
65208931 TATATTACTTTAATATTTTATT
1 TATATTAATTTAAAATTCTATT
65208953 TATATTATATTTAAAATTCTATT
1 TATATTA-ATTTAAAATTCTATT
65208976 CAAATTAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATTAATTTAAAATTCTATT
Found at i:65216862 original size:33 final size:33
Alignment explanation
Indices: 65216825--65216888 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
65216815 ATTTGTTGTG
*
65216825 TATTAGCTGTAT-ATCACAGCCACGTTGCAAGCC
1 TATTAGCTGTATGAT-ACAGCCACGTCGCAAGCC
*
65216858 TATTAGCTGTGTGATACAGCCACGTCGCAAG
1 TATTAGCTGTATGATACAGCCACGTCGCAAG
65216889 TTTGCTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.27
Consensus pattern (33 bp):
TATTAGCTGTATGATACAGCCACGTCGCAAGCC
Found at i:65219659 original size:29 final size:30
Alignment explanation
Indices: 65219602--65219666 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
65219592 TTGGGATTAT
* * *
65219602 TTGATTCATTTTAATAATACATGGCCTAAA
1 TTGATCCATTTTAATAATACAGGGACTAAA
* *
65219632 TTGATCCA-TTTAATAATAGAGGGACTAAT
1 TTGATCCATTTTAATAATACAGGGACTAAA
65219661 TTGATC
1 TTGATC
65219667 AGGTCCCTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.38
Consensus pattern (30 bp):
TTGATCCATTTTAATAATACAGGGACTAAA
Found at i:65224015 original size:159 final size:159
Alignment explanation
Indices: 65223720--65224195 Score: 596
Period size: 159 Copynumber: 3.0 Consensus size: 159
65223710 AGTGTCGTGT
* * * * * * * *
65223720 GCTCAGATGGGATTTATTTCGATTGATCCATCCAGTCACCTTTAAAAGATGGCTTTCGACATATA
1 GCTCGGATGGGACTTATTTCGATTGATTCATCCAGCCACCTTTAAAAGATGGCATCCAACATATT
* *
65223785 TGGGGTTTGAATCCCAATATCTATA-CAATAAGGGAAAGTTTTAATCATTTGGGTGTATTGAAAA
66 TGGGG-TCGAATCCCAATATCTATACCAA-AAGGGAAACTTTTAATCATTTGGGTGTATTGAAAA
*
65223849 CTCAGAGAATGTGTCGTGGTGCTAAAAATGG
129 CTCAGAGAATGTGTCATGGTGCTAAAAATGG
* ** * * *
65223880 GCTCGGATGGGACTTATTTCGAGTGATTCATTTAGCCACCTTTAAAAGATGACACCCAACAGATT
1 GCTCGGATGGGACTTATTTCGATTGATTCATCCAGCCACCTTTAAAAGATGGCATCCAACATATT
* * * *
65223945 TGGGGTCGAATCCCAATATCTGTACCAAAAGGGAAACTTTTAATCATTTGAGTGTACTGAAAATT
66 TGGGGTCGAATCCCAATATCTATACCAAAAGGGAAACTTTTAATCATTTGGGTGTATTGAAAACT
** * *
65224010 CAGAGAATGTGTCACAGCGCTAAAAATGT
131 CAGAGAATGTGTCATGGTGCTAAAAATGG
* * * * *
65224039 GCTCGAATGGGACTTCTTTCGATTGATTCATCCAACTATCTTTAAAAGATGGCATCCAACATATT
1 GCTCGGATGGGACTTATTTCGATTGATTCATCCAGCCACCTTTAAAAGATGGCATCCAACATATT
* * *
65224104 TGGGGTACGAATCCCAATATCTATACCTAAAGGGAAACTTCTAATCATTTGGGTGTATTG-AAAG
66 TGGGGT-CGAATCCCAATATCTATACCAAAAGGGAAACTTTTAATCATTTGGGTGTATTGAAAAC
*
65224168 TCTAGAGACTGTGTCATGGTGCTAAAAA
130 TC-AGAGAATGTGTCATGGTGCTAAAAA
65224196 AGTGCTTGGA
Statistics
Matches: 267, Mismatches: 46, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
159 139 0.52
160 128 0.48
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (159 bp):
GCTCGGATGGGACTTATTTCGATTGATTCATCCAGCCACCTTTAAAAGATGGCATCCAACATATT
TGGGGTCGAATCCCAATATCTATACCAAAAGGGAAACTTTTAATCATTTGGGTGTATTGAAAACT
CAGAGAATGTGTCATGGTGCTAAAAATGG
Found at i:65233450 original size:101 final size:102
Alignment explanation
Indices: 65233342--65233529 Score: 297
Period size: 102 Copynumber: 1.9 Consensus size: 102
65233332 TTTTAAAGAG
* * * *
65233342 AACTTGAAGCCAGTTGCAAAAACTTTTTTT-AATTTGATGGTCTAATTTTCACCCAAGTCTCTAT
1 AACTTGAAGCCAGTTGCAAAAACTTTTTTTAAATTTAATGATCTAATTTTCACCCAAATCCCTAT
*
65233406 ACTCTTTGAAATTTTGAAATTTTATTTTTTATATGAT
66 ACTCTTTGAAAATTTGAAATTTTATTTTTTATATGAT
* **
65233443 AACTTGAAGTCAGTTGCAAAAACTTTTTTTAAATTTAATGATCTAATTTTGTCCCAAATCCCTAT
1 AACTTGAAGCCAGTTGCAAAAACTTTTTTTAAATTTAATGATCTAATTTTCACCCAAATCCCTAT
65233508 ACTCTTTGAAAATTTGAAATTT
66 ACTCTTTGAAAATTTGAAATTT
65233530 AATCCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 29 0.37
102 49 0.63
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (102 bp):
AACTTGAAGCCAGTTGCAAAAACTTTTTTTAAATTTAATGATCTAATTTTCACCCAAATCCCTAT
ACTCTTTGAAAATTTGAAATTTTATTTTTTATATGAT
Found at i:65234190 original size:12 final size:12
Alignment explanation
Indices: 65234173--65234197 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65234163 AAGACACACA
65234173 TAATCAATAAAT
1 TAATCAATAAAT
65234185 TAATCAATAAAT
1 TAATCAATAAAT
65234197 T
1 T
65234198 TCATCCAAAA
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATCAATAAAT
Found at i:65235008 original size:30 final size:31
Alignment explanation
Indices: 65234935--65235008 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
65234925 ATGTTAATGG
* *
65234935 GTGACTGTTTTGTCACTTTTTGATAATGTTA
1 GTGACTGATTTGTCACTTTTTGATAAAGTTA
* *
65234966 GTAACTGATTTGTCA-TTTTT-CTAAAGTTGA
1 GTGACTGATTTGTCACTTTTTGATAAAGTT-A
*
65234996 GTGACTGCTTTGT
1 GTGACTGATTTGT
65235009 TATTGAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 6 0.17
30 17 0.47
31 13 0.36
ACGTcount: A:0.20, C:0.11, G:0.20, T:0.49
Consensus pattern (31 bp):
GTGACTGATTTGTCACTTTTTGATAAAGTTA
Found at i:65239367 original size:15 final size:14
Alignment explanation
Indices: 65239347--65239390 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 14
65239337 AAATTTTTTA
65239347 AAAAATATAAATATT
1 AAAAATATAAAT-TT
65239362 AAAAATAATCAAATTT
1 AAAAAT-AT-AAATTT
65239378 AAAAATATAAATT
1 AAAAATATAAATT
65239391 ACAAATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 8 0.30
16 10 0.37
17 4 0.15
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAATATAAATTT
Found at i:65242703 original size:29 final size:29
Alignment explanation
Indices: 65242670--65242727 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
65242660 TTTGACTCTT
65242670 TTTAATAATATAAAG-ACTAAATTGATCCA
1 TTTAATAATA-AAAGCACTAAATTGATCCA
* *
65242699 TTTAATAATAGAAGCATTAAATTGATCCA
1 TTTAATAATAAAAGCACTAAATTGATCCA
65242728 GATTCTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (29 bp):
TTTAATAATAAAAGCACTAAATTGATCCA
Found at i:65243616 original size:35 final size:35
Alignment explanation
Indices: 65243577--65243651 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
65243567 AAAATGCCGC
* * *
65243577 ATAGGCATTTGACAAAAATCGGAATACAGTTATAA
1 ATAGGCAATTGACAAAAATCAGAATACACTTATAA
* * *
65243612 ATAGGTAATTGACAAAAATTAGAATATACTTATAA
1 ATAGGCAATTGACAAAAATCAGAATACACTTATAA
65243647 ATAGG
1 ATAGG
65243652 GGTATTCACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (35 bp):
ATAGGCAATTGACAAAAATCAGAATACACTTATAA
Found at i:65248594 original size:2 final size:2
Alignment explanation
Indices: 65248587--65248620 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
65248577 CCCGGTTGAA
* *
65248587 AT AT AT AT GT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65248621 TATGAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65248606 original size:14 final size:14
Alignment explanation
Indices: 65248587--65248620 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
65248577 CCCGGTTGAA
65248587 ATATATATGTATAT
1 ATATATATGTATAT
65248601 ATATATATGTATAT
1 ATATATATGTATAT
65248615 ATATAT
1 ATATAT
65248621 TATGAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
ATATATATGTATAT
Found at i:65249018 original size:18 final size:19
Alignment explanation
Indices: 65248984--65249019 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65248974 GTATCAAAAT
*
65248984 TTTAATCTTTGAATTTGAC
1 TTTAATATTTGAATTTGAC
65249003 TTTAATATTT-AATTTGA
1 TTTAATATTTGAATTTGA
65249020 TACCTGATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTAATATTTGAATTTGAC
Found at i:65253155 original size:15 final size:15
Alignment explanation
Indices: 65253131--65253182 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
65253121 ATATGGATAT
*
65253131 TTTTAAATAATGTAA
1 TTTTATATAATGTAA
*
65253146 TTTTGTATAATGTAA
1 TTTTATATAATGTAA
65253161 TTTTTATATAATGTAA
1 -TTTTATATAATGTAA
65253177 TTTTAT
1 TTTTAT
65253183 TTGATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
TTTTATATAATGTAA
Found at i:65253165 original size:16 final size:16
Alignment explanation
Indices: 65253129--65253180 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
65253119 GGATATGGAT
*
65253129 ATTTTTAAATAATGTA
1 ATTTTTATATAATGTA
*
65253145 A-TTTTGTATAATGTA
1 ATTTTTATATAATGTA
65253160 ATTTTTATATAATGTA
1 ATTTTTATATAATGTA
65253176 ATTTT
1 ATTTT
65253181 ATTTGATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
ATTTTTATATAATGTA
Found at i:65259825 original size:21 final size:20
Alignment explanation
Indices: 65259801--65259877 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
65259791 GTCTAATTCA
65259801 AATTTTTATAATTTTTTTAAT
1 AATTTTTATAATTTTTTT-AT
* *
65259822 AATTTTTATAA-GTTTATAT
1 AATTTTTATAATTTTTTTAT
*
65259841 CAATTTTAAT-ATTTTTTTCAT
1 -AATTTTTATAATTTTTTT-AT
*
65259862 AATTTTTATTATTTTT
1 AATTTTTATAATTTTT
65259878 AAAGTAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.07
20 24 0.52
21 19 0.41
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (20 bp):
AATTTTTATAATTTTTTTAT
Found at i:65259968 original size:10 final size:9
Alignment explanation
Indices: 65259801--65259969 Score: 80
Period size: 9 Copynumber: 18.2 Consensus size: 9
65259791 GTCTAATTCA
65259801 AATTTTTAT
1 AATTTTTAT
65259810 AATTTTTTTAAT
1 AA--TTTTT-AT
65259822 AATTTTTAT
1 AATTTTTAT
*
65259831 AAGTTTATAT
1 AA-TTTTTAT
*
65259841 CAATTTTAAT
1 -AATTTTTAT
*
65259851 ATTTTTTTCAT
1 A-ATTTTT-AT
65259862 AATTTTTAT
1 AATTTTTAT
*
65259871 TATTTTTA-
1 AATTTTTAT
* **
65259879 AAGTAATAT
1 AATTTTTAT
*
65259888 -GTTTTT-T
1 AATTTTTAT
**
65259895 AATTTAAAT
1 AATTTTTAT
**
65259904 -ATTGTAAAT
1 AATT-TTTAT
65259913 AATTTTTATT
1 AATTTTTA-T
65259923 AA-TTTTAT
1 AATTTTTAT
65259931 AATTTATTAT
1 AATTT-TTAT
65259941 -ATTTTTAT
1 AATTTTTAT
*
65259949 AATATTTAT
1 AATTTTTAT
65259958 AAGTTTTTAT
1 AA-TTTTTAT
65259968 AA
1 AA
65259970 AAAGAAATTA
Statistics
Matches: 121, Mismatches: 22, Indels: 33
0.69 0.12 0.19
Matches are distributed among these distances:
7 1 0.01
8 19 0.16
9 44 0.36
10 43 0.36
11 10 0.08
12 4 0.03
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Done.