Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 15 of 318
Found at i:5693006 original size:22 final size:22
Alignment explanation
Indices: 5692963--5693007 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5692953 TGGTTAGGGG
* *
5692963 TTAGGGGTTAAGAGTTAGGGAT
1 TTAGGGGTTAAGACTTAAGGAT
*
5692985 TTAGGGGTTATGACTTAAGGAT
1 TTAGGGGTTAAGACTTAAGGAT
5693007 T
1 T
5693008 CAAGGGTCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.36, T:0.36
Consensus pattern (22 bp):
TTAGGGGTTAAGACTTAAGGAT
Found at i:5693342 original size:19 final size:18
Alignment explanation
Indices: 5693313--5693366 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
5693303 GGACCAAATT
*
5693313 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
5693331 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
5693350 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
5693367 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:5693420 original size:47 final size:48
Alignment explanation
Indices: 5693351--5693449 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
5693341 AAAAATGAAA
*
5693351 TAAAAACACTAAAATTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
5693399 TAAAAA-ACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
5693446 TAAA
1 TAAA
5693450 CAAAACTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (48 bp):
TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
Found at i:5693790 original size:16 final size:15
Alignment explanation
Indices: 5693769--5693808 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
5693759 TGGTTGAAAT
5693769 ATTTATTCCCCTCCAA
1 ATTTATTCCCCTCC-A
*
5693785 ATTTATTCCCCTTCA
1 ATTTATTCCCCTCCA
5693800 ATTT-TTCCC
1 ATTTATTCCC
5693809 ATACCCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTATTCCCCTCCA
Found at i:5698227 original size:43 final size:43
Alignment explanation
Indices: 5698179--5698387 Score: 319
Period size: 43 Copynumber: 4.9 Consensus size: 43
5698169 GCTTTTATCA
* * *
5698179 AAAGCGTCGCTAAAGATCATGTTTTTTAGCGGCGTTTGTGGTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
* * **
5698222 AAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
*
5698265 AAAGCGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
*
5698308 AAGGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
* *
5698351 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
5698388 TGCCTCATAA
Statistics
Matches: 153, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 153 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
Found at i:5699124 original size:21 final size:20
Alignment explanation
Indices: 5699100--5699147 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
5699090 TTTGATTATT
*
5699100 TAATTTTAAAATATTATAAAA
1 TAATTTCAAAATATT-TAAAA
*
5699121 TAATTATCAAATTATTTAAAA
1 TAATT-TCAAAATATTTAAAA
*
5699142 AAATTT
1 TAATTT
5699148 ATTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATTTCAAAATATTTAAAA
Found at i:5707844 original size:17 final size:18
Alignment explanation
Indices: 5707808--5707845 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5707798 TATCATTCTT
*
5707808 TTATTTTGATTGAGGGTA
1 TTATTTTGATTCAGGGTA
*
5707826 TTATTTTG-TTCATGGTA
1 TTATTTTGATTCAGGGTA
5707843 TTA
1 TTA
5707846 CCTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (18 bp):
TTATTTTGATTCAGGGTA
Found at i:5710558 original size:75 final size:75
Alignment explanation
Indices: 5710385--5710560 Score: 235
Period size: 75 Copynumber: 2.3 Consensus size: 75
5710375 AAGCCACGTT
* * * * * * *
5710385 AGGGAGTGGCGGAGGAGGAGGGGAAGCTGAAGATGAATTATTTACGGTAGAAGATGGAGATATGG
1 AGGGAGTGGCGGAGGGGGAGGGGGAGCTGAAAACGAATTATTTACAGAAGAAGATGGAGATATAG
5710450 CTGAGAATGG
66 CTGAGAATGG
* * *
5710460 AGGGAGTGGGGGAGGGGGAGGGGGAGCTGAAAACGAATTCTTTACAGAAGAAGATGGAGATGTAG
1 AGGGAGTGGCGGAGGGGGAGGGGGAGCTGAAAACGAATTATTTACAGAAGAAGATGGAGATATAG
*
5710525 CTGAGGATGG
66 CTGAGAATGG
* *
5710535 AGGGAGTGGTGGTGGGGGAGGGGGAG
1 AGGGAGTGGCGGAGGGGGAGGGGGAG
5710561 ACTGGCACAA
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 88 1.00
ACGTcount: A:0.29, C:0.05, G:0.49, T:0.16
Consensus pattern (75 bp):
AGGGAGTGGCGGAGGGGGAGGGGGAGCTGAAAACGAATTATTTACAGAAGAAGATGGAGATATAG
CTGAGAATGG
Found at i:5715275 original size:22 final size:22
Alignment explanation
Indices: 5715250--5715303 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
5715240 ATTTAAGAAT
5715250 AAATTAAAAATTATAA-TGATTA
1 AAATTAAAAA-TATAATTGATTA
*
5715272 AAATTCAAAATATAATTGATTA
1 AAATTAAAAATATAATTGATTA
*
5715294 AAATTTAAAA
1 AAATTAAAAA
5715304 CATTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATTAAAAATATAATTGATTA
Found at i:5721259 original size:47 final size:47
Alignment explanation
Indices: 5721150--5721260 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
5721140 CCGGGATAAG
*
5721150 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
5721197 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
5721244 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
5721261 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:5722032 original size:4 final size:4
Alignment explanation
Indices: 5722023--5722060 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
5722013 CCCTTTTCTA
5722023 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
5722061 ACGTTTGCTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:5722666 original size:18 final size:18
Alignment explanation
Indices: 5722626--5722676 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
5722616 ATTTTCCTTC
* *
5722626 TCTGTTTCGTTTCA-TAT
1 TCTGTTTCTTTTTATTAT
5722643 TCTG-TTCTTTCTTATTAT
1 TCTGTTTCTTT-TTATTAT
*
5722661 TTTGTTTCTTTTTATT
1 TCTGTTTCTTTTTATT
5722677 TGTTTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 5 0.18
17 6 0.21
18 11 0.39
19 6 0.21
ACGTcount: A:0.10, C:0.14, G:0.08, T:0.69
Consensus pattern (18 bp):
TCTGTTTCTTTTTATTAT
Found at i:5722860 original size:14 final size:15
Alignment explanation
Indices: 5722833--5722878 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
5722823 ACTCTATTTA
5722833 ATTAATATAAAATAAT
1 ATTAATAT-AAATAAT
5722849 ATTAATAT-AATAAT
1 ATTAATATAAATAAT
*
5722863 ATTTACT-TAAATAAT
1 A-TTAATATAAATAAT
5722878 A
1 A
5722879 AGTAAACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 8 0.30
15 11 0.41
16 8 0.30
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAATATAAATAAT
Found at i:5737191 original size:29 final size:31
Alignment explanation
Indices: 5737127--5737196 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 31
5737117 AAAATTTTAA
* *
5737127 GTATATATTTGAACCACAATTAGAGTTGCAT
1 GTATATAATTGAACCACAATTAGAATTGCAT
* * *
5737158 ATATATAATTGCACCA-AATTATAATT-CAT
1 GTATATAATTGAACCACAATTAGAATTGCAT
*
5737187 GTATACAATT
1 GTATATAATT
5737197 ACACATTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
29 11 0.34
30 8 0.25
31 13 0.41
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (31 bp):
GTATATAATTGAACCACAATTAGAATTGCAT
Found at i:5741086 original size:23 final size:24
Alignment explanation
Indices: 5741050--5741097 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
5741040 AAACATATAT
5741050 TTTTATACATTAAAAATTATTTAAA
1 TTTTATACATTAAAAATT-TTTAAA
*
5741075 TTTTAT-CA-TAAATATTTTTAAA
1 TTTTATACATTAAAAATTTTTAAA
5741097 T
1 T
5741098 GATTATCCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 7 0.32
24 2 0.09
25 6 0.27
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTATACATTAAAAATTTTTAAA
Found at i:5741103 original size:23 final size:23
Alignment explanation
Indices: 5741060--5741104 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5741050 TTTTATACAT
*
5741060 TAAAAATTATTTAAATTTTATCA
1 TAAAAATTATTTAAATATTATCA
*
5741083 TAAATATT-TTTAAATGATTATC
1 TAAAAATTATTTAAAT-ATTATC
5741105 CTTCAAAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
TAAAAATTATTTAAATATTATCA
Found at i:5741510 original size:12 final size:12
Alignment explanation
Indices: 5741480--5741504 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5741470 TCTTTTACAC
5741480 ACCAAAATATAA
1 ACCAAAATATAA
5741492 ACCAAAATATAA
1 ACCAAAATATAA
5741504 A
1 A
5741505 TTAAAACAAA
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:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (12 bp):
ACCAAAATATAA
Found at i:5742272 original size:12 final size:14
Alignment explanation
Indices: 5742236--5742266 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5742226 CCTACACTCT
*
5742236 TATAGATTTAAAAA
1 TATATATTTAAAAA
5742250 TATATATTTAAAAA
1 TATATATTTAAAAA
5742264 TAT
1 TAT
5742267 TTTTAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (14 bp):
TATATATTTAAAAA
Found at i:5746963 original size:11 final size:11
Alignment explanation
Indices: 5746948--5746986 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
5746938 ATTTTCTCCC
5746948 TATTTTGCTAT
1 TATTTTGCTAT
* *
5746959 CATTTTACTAT
1 TATTTTGCTAT
*
5746970 TATATTGCTAT
1 TATTTTGCTAT
5746981 TATTTT
1 TATTTT
5746987 ATTGTTATTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:5747035 original size:12 final size:11
Alignment explanation
Indices: 5747016--5747046 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
5747006 TATATAAAAT
5747016 TTATTTTATTA
1 TTATTTTATTA
5747027 TTAATTTTATTA
1 TT-ATTTTATTA
5747039 TTATTTTA
1 TTATTTTA
5747047 AAGGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:5747063 original size:30 final size:30
Alignment explanation
Indices: 5747027--5747086 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
5747017 TATTTTATTA
*
5747027 TTAATTTTATTATTATTTTAAAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
5747057 TTAATTTTGTTATTATTTTAGAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
5747087 CTTATTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:5749172 original size:28 final size:28
Alignment explanation
Indices: 5749140--5749202 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
5749130 TCCCATATTA
*
5749140 ATGGGGTATAGGAAAAGTTTCATAATTT
1 ATGGGGTATAGGAAAAGTTTCATAACTT
* *
5749168 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTTTCATAACTT
5749196 ATGGGGT
1 ATGGGGT
5749203 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.30, T:0.35
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTTTCATAACTT
Found at i:5752085 original size:23 final size:23
Alignment explanation
Indices: 5752055--5752139 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
5752045 GCTTTACTGA
5752055 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
*
5752078 TCAGGCACCTCT-TGTGTCGTA--
1 TCAGGCA-CTTTATGTGTCGTATT
* **
5752099 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
5752121 T-AGGCACTTTATGTGTCGT
1 TCAGGCACTTTATGTGTCGT
5752140 CTACTGATCA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
20 1 0.02
21 30 0.59
22 1 0.02
23 16 0.31
24 3 0.06
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:5753355 original size:23 final size:23
Alignment explanation
Indices: 5753325--5753371 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
5753315 TCCCAGTATA
5753325 ATCATTTTTCCTTTGATTTCGCC
1 ATCATTTTTCCTTTGATTTCGCC
5753348 ATCATTTTTCCTTTGATTTCGCC
1 ATCATTTTTCCTTTGATTTCGCC
5753371 A
1 A
5753372 ATTTGGAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.15, C:0.26, G:0.09, T:0.51
Consensus pattern (23 bp):
ATCATTTTTCCTTTGATTTCGCC
Found at i:5761071 original size:12 final size:12
Alignment explanation
Indices: 5761054--5761078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5761044 TAGAACCAAC
5761054 AGTTCATTATCT
1 AGTTCATTATCT
5761066 AGTTCATTATCT
1 AGTTCATTATCT
5761078 A
1 A
5761079 ATGGATTTTT
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:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (12 bp):
AGTTCATTATCT
Found at i:5761196 original size:33 final size:33
Alignment explanation
Indices: 5761157--5761222 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
5761147 GGAAGACTAT
5761157 TGGATCAAATGGCAAAGACATTATTGAGAAAAA
1 TGGATCAAATGGCAAAGACATTATTGAGAAAAA
* *
5761190 TGGATCAAATGGCAAAGATATTTTTGAGAAAAA
1 TGGATCAAATGGCAAAGACATTATTGAGAAAAA
5761223 AGATGGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.47, C:0.08, G:0.21, T:0.24
Consensus pattern (33 bp):
TGGATCAAATGGCAAAGACATTATTGAGAAAAA
Found at i:5761300 original size:12 final size:12
Alignment explanation
Indices: 5761283--5761307 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5761273 AAGATATATG
5761283 GTCATGAAATAA
1 GTCATGAAATAA
5761295 GTCATGAAATAA
1 GTCATGAAATAA
5761307 G
1 G
5761308 AATTAAGTGA
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:0.08, G:0.20, T:0.24
Consensus pattern (12 bp):
GTCATGAAATAA
Found at i:5761410 original size:9 final size:9
Alignment explanation
Indices: 5761398--5761458 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
5761388 CGAAATATGG
5761398 AAGAATTGA
1 AAGAATTGA
5761407 AAGAATTGA
1 AAGAATTGA
5761416 AAGAATTG-
1 AAGAATTGA
*
5761424 -A-AA-TGG
1 AAGAATTGA
5761430 AAGAATTGA
1 AAGAATTGA
5761439 AAGAATTGA
1 AAGAATTGA
5761448 AAGAATTGA
1 AAGAATTGA
5761457 AA
1 AA
5761459 TCTTAGATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
5 2 0.04
6 2 0.04
7 2 0.04
8 2 0.04
9 39 0.83
ACGTcount: A:0.56, C:0.00, G:0.23, T:0.21
Consensus pattern (9 bp):
AAGAATTGA
Found at i:5761432 original size:32 final size:32
Alignment explanation
Indices: 5761394--5761459 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
5761384 CTTCCGAAAT
5761394 ATGGAAGAATTGAAAGAATTGAAAGAATTGAA
1 ATGGAAGAATTGAAAGAATTGAAAGAATTGAA
5761426 ATGGAAGAATTGAAAGAATTGAAAGAATTGAA
1 ATGGAAGAATTGAAAGAATTGAAAGAATTGAA
5761458 AT
1 AT
5761460 CTTAGATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.23
Consensus pattern (32 bp):
ATGGAAGAATTGAAAGAATTGAAAGAATTGAA
Found at i:5779634 original size:21 final size:22
Alignment explanation
Indices: 5779596--5779636 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5779586 AAACATAAGC
*
5779596 AAATTTTCAAAAATAGTTTATA
1 AAATTTTCAAAAAAAGTTTATA
5779618 AAATTTT-AAAAAAAGTTTA
1 AAATTTTCAAAAAAAGTTTA
5779637 ATATTAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
AAATTTTCAAAAAAAGTTTATA
Found at i:5779788 original size:15 final size:16
Alignment explanation
Indices: 5779770--5779802 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5779760 ATTTTTGTAT
*
5779770 TATTTT-AATATTAAA
1 TATTTTAAAGATTAAA
5779785 TATTTTAAAGATTAAA
1 TATTTTAAAGATTAAA
5779801 TA
1 TA
5779803 AATTCTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
TATTTTAAAGATTAAA
Found at i:5787495 original size:29 final size:29
Alignment explanation
Indices: 5787453--5787508 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
5787443 GTGAAAGCAT
*
5787453 ATATCTGACATTAGAATATAAATCCATCC
1 ATATCTGACATTAGAATATAAAACCATCC
* * *
5787482 ATATCTTACGTTAGCATATAAAACCAT
1 ATATCTGACATTAGAATATAAAACCAT
5787509 TAATATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (29 bp):
ATATCTGACATTAGAATATAAAACCATCC
Found at i:5818565 original size:23 final size:23
Alignment explanation
Indices: 5818537--5818644 Score: 83
Period size: 23 Copynumber: 4.5 Consensus size: 23
5818527 TAATATTCCG
5818537 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
**
5818560 GGTGTGTTTGGGAGGGTTATATGATACT
1 GGTGTGTTTGGGTTGG--ATAT--T-CT
* * *
5818588 GGTGTGTTTTGG-AGGATTATACT
1 GGTGTGTTTGGGTTGGA-TATTCT
* * *
5818611 GGTGTGTTTTGGTTGGACATTTT
1 GGTGTGTTTGGGTTGGATATTCT
5818634 GGTGTGTTTGG
1 GGTGTGTTTGG
5818645 ATGGAATCCG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
23 41 0.60
24 3 0.04
25 5 0.07
26 3 0.04
27 3 0.04
28 13 0.19
ACGTcount: A:0.12, C:0.04, G:0.39, T:0.45
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:5818861 original size:21 final size:22
Alignment explanation
Indices: 5818812--5818918 Score: 105
Period size: 21 Copynumber: 5.0 Consensus size: 22
5818802 GCTATACTGA
* *
5818812 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTGTGTGTCGTA-T
*
5818835 TCAGGCACATTGTGTGTCGTAT
1 TCAGGCACCTTGTGTGTCGTAT
*
5818857 T-AGGCACCTCGTGTGTCGT-T
1 TCAGGCACCTTGTGTGTCGTAT
* * *
5818877 TCAGGCACCTCGTGTATCAT-T
1 TCAGGCACCTTGTGTGTCGTAT
*
5818898 TCAGGCA-CTTATGTGTCGTAT
1 TCAGGCACCTTGTGTGTCGTAT
5818919 ACTGATCAGG
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
20 10 0.14
21 41 0.57
22 2 0.03
23 19 0.26
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.37
Consensus pattern (22 bp):
TCAGGCACCTTGTGTGTCGTAT
Found at i:5820050 original size:46 final size:46
Alignment explanation
Indices: 5820000--5820149 Score: 131
Period size: 46 Copynumber: 3.1 Consensus size: 46
5819990 TAATTGGACC
5820000 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTAGGCT
1 ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTAGGCT
* * ** * * * *
5820046 ATGGCATCAGAGATGTGTGATTACGTGCTTCCATATAAGACCATATCTGGGAT
1 ATGGCATC--A-A--TGTGA-TATGTG-ATCTGTGTAAGACCATAGCTAGGCT
* *
5820099 ATGGCATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGCTAGGCT
1 ATGGCATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTAGGCT
5820145 ATGGC
1 ATGGC
5820150 TACGGTGTGT
Statistics
Matches: 78, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
46 29 0.37
47 5 0.06
48 6 0.08
49 1 0.01
51 6 0.08
52 5 0.06
53 26 0.33
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (46 bp):
ATGGCATCAATGTGATATGTGATCTGTGTAAGACCATAGCTAGGCT
Found at i:5820158 original size:46 final size:48
Alignment explanation
Indices: 5820010--5820186 Score: 130
Period size: 46 Copynumber: 3.6 Consensus size: 48
5820000 ATGGCATCAA
*
5820010 TGTGATATGTGA-TCTGTGTAAGACCATAGCTAGGCTATGGCATCAGAGATG
1 TGTGATATGTGATTC-GTGTAAGACCATAGCTAGGCTATGGC-T-AGCG-TG
* * * * * * * * *
5820061 TGTGATTACGTGCTTCCATATAAGACCATATCTGGGATATGGC-ATC-AG
1 TGTGA-TATGTGATT-CGTGTAAGACCATAGCTAGGCTATGGCTAGCGTG
*
5820109 TGTGATATGTGATTCGTGTAAGACCATGGCTAGGCTATGGCTA-CGGTG
1 TGTGATATGTGATTCGTGTAAGACCATAGCTAGGCTATGGCTAGC-GTG
*
5820157 TGTGATATGTGACTAT-GTGCAAGACCATAG
1 TGTGATATGTGA-T-TCGTGTAAGACCATAG
5820187 TTTTACTATG
Statistics
Matches: 97, Mismatches: 21, Indels: 18
0.71 0.15 0.13
Matches are distributed among these distances:
46 22 0.23
47 8 0.08
48 19 0.20
49 13 0.13
50 2 0.02
51 5 0.05
52 5 0.05
53 22 0.23
54 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGATATGTGATTCGTGTAAGACCATAGCTAGGCTATGGCTAGCGTG
Found at i:5822883 original size:46 final size:46
Alignment explanation
Indices: 5822816--5823161 Score: 421
Period size: 46 Copynumber: 7.5 Consensus size: 46
5822806 GGGTATTACA
*
5822816 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * *
5822862 AAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
5822908 AAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
5822954 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* **
5823000 AAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATGA-CGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * * * * *
5823045 GAAT-TAATAAGACCATCGTTGAAAGATACCATGGCAATATAACATG
1 AAATGT-GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
**** * *
5823091 AAATAAACAAGACAATGGTTGAAAGATACCATGGCAATC-TGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-CATGATATG
* *
5823136 AAAATGAGTAAGACCATAGTTGAAAG
1 -AAATGTGTAAGACCATGGTTGAAAG
5823162 GCACTATGGC
Statistics
Matches: 259, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.00
45 35 0.14
46 223 0.86
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:5823191 original size:137 final size:137
Alignment explanation
Indices: 5822824--5823195 Score: 336
Period size: 137 Copynumber: 2.7 Consensus size: 137
5822814 CAAAATGTGT
* ** * * * *
5822824 AAGACCATGGTTGAAAGATACCATGGCAACATTATATG-AAATGTGTAAGACCATGGTTGAAAAA
1 AAGACAATGGTTGAAAGATACCATGGCAACAGGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
* * * * * *** * * * *
5822888 TACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACATGATAT
65 CACCATAGCAACATGACA-AGAATAAATAAGACCATCGTTGAAAGATACCATGGCAACATAACAT
****
5822953 GAAATGTGT
129 GAAATAAAC
* * * * * *
5822962 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACAATGGTTGAAAGATACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
** * *
5823027 ACCATAGCAACATGACGGGAATTAATAAGACCATCGTTGAAAGATACCATGGCAATATAACATGA
66 ACCATAGCAACATGACAAGAATAAATAAGACCATCGTTGAAAGATACCATGGCAACATAACATGA
5823092 AATAAAC
131 AATAAAC
* *
5823099 AAGACAATGGTTGAAAGATACCATGGCAATC-TGACAGAAAATGAGTAAGACCATAGTTGAAAGG
1 AAGACAATGGTTGAAAGATACCATGGCAA-CAGGACAGAAAATGAGTAAGACCATAGTTGAAAGA
* * * *
5823163 CACTATGGCATCATGTCAA-AGATAAATAAGACC
65 CACCATAGCAACATGACAAGA-ATAAATAAGACC
5823196 GTGGATGGGA
Statistics
Matches: 194, Mismatches: 37, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
136 1 0.01
137 119 0.61
138 74 0.38
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (137 bp):
AAGACAATGGTTGAAAGATACCATGGCAACAGGACAGAAAATGAGTAAGACCATAGTTGAAAGAC
ACCATAGCAACATGACAAGAATAAATAAGACCATCGTTGAAAGATACCATGGCAACATAACATGA
AATAAAC
Found at i:5823543 original size:24 final size:24
Alignment explanation
Indices: 5823516--5823563 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
5823506 GTAAGAGAAT
5823516 GATATGTTTCATGACATGTACATA
1 GATATGTTTCATGACATGTACATA
5823540 GATATGTTTCATGACATGTACATA
1 GATATGTTTCATGACATGTACATA
5823564 TATGATTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (24 bp):
GATATGTTTCATGACATGTACATA
Found at i:5824540 original size:16 final size:16
Alignment explanation
Indices: 5824519--5824549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5824509 GATATTTTAA
5824519 TATATTATATTAATAT
1 TATATTATATTAATAT
*
5824535 TATATTATGTTAATA
1 TATATTATATTAATA
5824550 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:5824645 original size:17 final size:16
Alignment explanation
Indices: 5824618--5824651 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
5824608 GTTGAAAAAG
*
5824618 AGAAAAAAAAAGGGAA
1 AGAAAAAAAAAGAGAA
5824634 AGAAAAATAAAAGAGAA
1 AGAAAAA-AAAAGAGAA
5824651 A
1 A
5824652 ACTAAAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AGAAAAAAAAAGAGAA
Found at i:5827179 original size:52 final size:52
Alignment explanation
Indices: 5827100--5827270 Score: 288
Period size: 52 Copynumber: 3.2 Consensus size: 52
5827090 TACTTCTGAT
5827100 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
5827153 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
** *
5827205 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
5827257 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
5827271 GCTACACTTA
Statistics
Matches: 113, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
52 95 0.84
53 18 0.16
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:5827278 original size:37 final size:37
Alignment explanation
Indices: 5827234--5827379 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
5827224 GATAGCTTTA
5827234 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
5827271 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
5827308 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
5827345 GCTACACTTATCTGATCAAG-GAC-AAGAGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
5827380 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 10 0.10
36 2 0.02
37 92 0.88
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:5833153 original size:33 final size:37
Alignment explanation
Indices: 5833073--5833153 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 37
5833063 ACTAATTACA
5833073 AATATTTAATTGTTATATTTAAATATTTAAAATATATT
1 AATATTT-ATTGTTATATTTAAATATTTAAAATATATT
* *
5833111 -TTATATATTG-TA-A-TTAAAT-TTTATAAATA-ATT
1 AATATTTATTGTTATATTTAAATATTTA-AAATATATT
5833143 AATATTTATTG
1 AATATTTATTG
5833154 CTTGAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
32 7 0.19
33 19 0.51
34 1 0.03
35 2 0.05
36 4 0.11
37 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (37 bp):
AATATTTATTGTTATATTTAAATATTTAAAATATATT
Found at i:5834304 original size:8 final size:8
Alignment explanation
Indices: 5834291--5834323 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
5834281 CAAAACTTTC
5834291 AAATACAT
1 AAATACAT
5834299 AAATACAT
1 AAATACAT
5834307 AAATACAT
1 AAATACAT
5834315 AAA-ACAT
1 AAATACAT
5834322 AA
1 AA
5834324 TATCATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.24
8 19 0.76
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.21
Consensus pattern (8 bp):
AAATACAT
Found at i:5834535 original size:14 final size:16
Alignment explanation
Indices: 5834495--5834535 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
5834485 TTTTTCCTTT
5834495 CCTTTATATTTTTCTC
1 CCTTTATATTTTTCTC
*
5834511 CCTTTCT-TTTTT-TC
1 CCTTTATATTTTTCTC
5834525 CCTTT-TATTTT
1 CCTTTATATTTT
5834536 GCCGCCCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 1 0.04
14 11 0.48
15 5 0.22
16 6 0.26
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.68
Consensus pattern (16 bp):
CCTTTATATTTTTCTC
Found at i:5836451 original size:21 final size:23
Alignment explanation
Indices: 5836421--5836466 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
5836411 ATTTGAAATG
5836421 TTTTATAATATATAT-TTTTAAA
1 TTTTATAATATATATATTTTAAA
5836443 TTTTA-AATATATATATTTTAAA
1 TTTTATAATATATATATTTTAAA
5836465 TT
1 TT
5836467 ATTTTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTATAATATATATATTTTAAA
Found at i:5836482 original size:35 final size:35
Alignment explanation
Indices: 5836421--5836501 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 35
5836411 ATTTGAAATG
5836421 TTTTATAATATATATTTTTAAATTTTAAATATATATA
1 TTTTA-AATATATATTTTTAAATTTTAAATAT-TATA
*
5836458 TTTTAAAT-TAT-TTTTTAAAATTTTAAATATTATT
1 TTTTAAATATATATTTTT-AAATTTTAAATATTATA
5836492 TTTTAAATAT
1 TTTTAAATAT
5836502 TAAATATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
34 16 0.39
35 17 0.41
36 3 0.07
37 5 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTTAAATATATATTTTTAAATTTTAAATATTATA
Found at i:5836492 original size:22 final size:22
Alignment explanation
Indices: 5836457--5836517 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 22
5836447 AAATATATAT
5836457 ATTTT-AA-ATTATTTTTTAAA
1 ATTTTAAATATTATTTTTTAAA
5836477 ATTTTAAATATTATTTTTT-AA
1 ATTTTAAATATTATTTTTTAAA
*
5836498 ATATTAAATA-TATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
5836518 TAATATAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 13 0.35
21 14 0.38
22 10 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTAAATATTATTTTTTAAA
Found at i:5836522 original size:22 final size:21
Alignment explanation
Indices: 5836460--5836523 Score: 87
Period size: 20 Copynumber: 3.0 Consensus size: 21
5836450 TATATATATT
*
5836460 TTAAAT-TATTTTTTAAAATT
1 TTAAATATATTTTTTAAAATA
5836480 TTAAATATTATTTTTT-AAATA
1 TTAAATA-TATTTTTTAAAATA
5836501 TTAAATATATTTTTTAATAATA
1 TTAAATATATTTTTTAA-AATA
5836523 T
1 T
5836524 AGAACATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
20 14 0.36
21 12 0.31
22 13 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTAAATATATTTTTTAAAATA
Found at i:5836663 original size:8 final size:7
Alignment explanation
Indices: 5836651--5836698 Score: 53
Period size: 8 Copynumber: 6.6 Consensus size: 7
5836641 AAATAAGGAT
5836651 AAAAAAG
1 AAAAAAG
5836658 TAAAAAAG
1 -AAAAAAG
5836666 -AAAAAG
1 AAAAAAG
5836672 AAAAAAG
1 AAAAAAG
*
5836679 AAAGAAGG
1 AAA-AAAG
5836687 AAAAAAG
1 AAAAAAG
5836694 TAAAA
1 -AAAA
5836699 GGGTGCTAGC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.17
7 12 0.34
8 17 0.49
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:5836669 original size:7 final size:7
Alignment explanation
Indices: 5836651--5836698 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
5836641 AAATAAGGAT
5836651 AAAAAAG
1 AAAAAAG
5836658 TAAAAAAG
1 -AAAAAAG
5836666 -AAAAAG
1 AAAAAAG
5836672 AAAAAAG
1 AAAAAAG
*
5836679 AAAGAAGG
1 AAA-AAAG
5836687 AAAAAAG
1 AAAAAAG
*
5836694 TAAAA
1 AAAAA
5836699 GGGTGCTAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
6 6 0.17
7 16 0.46
8 13 0.37
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:5836700 original size:14 final size:13
Alignment explanation
Indices: 5836653--5836700 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 13
5836643 ATAAGGATAA
*
5836653 AAAAGTAAAAAAG
1 AAAAGGAAAAAAG
*
5836666 AAAAAGAAAAAAG
1 AAAAGGAAAAAAG
5836679 AAAGAAGGAAAAAAG
1 -AA-AAGGAAAAAAG
5836694 TAAAAGG
1 -AAAAGG
5836701 GTGCTAGCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 11 0.38
14 6 0.21
15 12 0.41
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (13 bp):
AAAAGGAAAAAAG
Found at i:5837945 original size:15 final size:15
Alignment explanation
Indices: 5837925--5837956 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5837915 CTGACCAAGA
5837925 AGCAGAAAGCTGAAG
1 AGCAGAAAGCTGAAG
5837940 AGCAGAAAGCTGAAG
1 AGCAGAAAGCTGAAG
5837955 AG
1 AG
5837957 ACCCAGCAGA
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:0.47, C:0.12, G:0.34, T:0.06
Consensus pattern (15 bp):
AGCAGAAAGCTGAAG
Found at i:5852685 original size:27 final size:27
Alignment explanation
Indices: 5852611--5852686 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 27
5852601 AAAGGTATAG
*
5852611 ATATTTAATTAAGAAAAAAAAATCTCAA
1 ATATTTAATTAA-ATAAAAAAATCTCAA
*
5852639 ATA-CTAATTAAATATTAAAAAA-CTCAA
1 ATATTTAATTAAATA--AAAAAATCTCAA
5852666 ATATTTAATTACAATAAAAAA
1 ATATTTAATTA-AATAAAAAA
5852687 TTAATATCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 2 0.05
27 20 0.49
28 15 0.37
29 4 0.10
ACGTcount: A:0.61, C:0.08, G:0.01, T:0.30
Consensus pattern (27 bp):
ATATTTAATTAAATAAAAAAATCTCAA
Found at i:5852715 original size:23 final size:24
Alignment explanation
Indices: 5852655--5852719 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
5852645 ATTAAATATT
**
5852655 AAAAAACTCAAATATTTAATTACA
1 AAAAAACTCAAATATCAAATTACA
* *
5852679 ATAAAAAAT-TAATATCAAATTA-A
1 A-AAAAACTCAAATATCAAATTACA
5852702 AAAAAACTCAAATATCAA
1 AAAAAACTCAAATATCAA
5852720 TTTCAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 6 0.18
23 10 0.30
24 11 0.33
25 6 0.18
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAAAACTCAAATATCAAATTACA
Found at i:5860767 original size:21 final size:21
Alignment explanation
Indices: 5860742--5860810 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
5860732 TATAATGATT
5860742 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
5860763 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
5860783 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
5860803 ATTATTAT
1 ATTATTAT
5860811 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:5860823 original size:15 final size:14
Alignment explanation
Indices: 5860797--5860827 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
5860787 TATGGTTTTA
5860797 TATTAGATTATTAT
1 TATTAGATTATTAT
5860811 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
5860826 TA
1 TA
5860828 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:5861148 original size:14 final size:15
Alignment explanation
Indices: 5861129--5861157 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5861119 ATAAAGCATA
5861129 AAAAGAAACA-AAAC
1 AAAAGAAACAGAAAC
5861143 AAAAGAAACAGAAAC
1 AAAAGAAACAGAAAC
5861158 GAAGCAGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.14, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAACAGAAAC
Found at i:5884543 original size:32 final size:32
Alignment explanation
Indices: 5884505--5884569 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
5884495 AAATCTTTTG
5884505 TATTTAGGATAAGTATCCTCATTTCAAACATT
1 TATTTAGGATAAGTATCCTCATTTCAAACATT
*
5884537 TATTTAGGATAAGTATCCTTATTTCAAACATT
1 TATTTAGGATAAGTATCCTCATTTCAAACATT
5884569 T
1 T
5884570 GTAAGTTTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (32 bp):
TATTTAGGATAAGTATCCTCATTTCAAACATT
Found at i:5890434 original size:18 final size:18
Alignment explanation
Indices: 5890411--5890503 Score: 168
Period size: 18 Copynumber: 5.2 Consensus size: 18
5890401 CCCAACTACT
*
5890411 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
5890429 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
5890447 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
5890465 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
5890483 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
5890501 GTA
1 GTA
5890504 AACGGTCGTA
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 72 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:5900919 original size:23 final size:24
Alignment explanation
Indices: 5900859--5900919 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
5900849 ATATATAAAC
5900859 ATTTATTTTA-ATATTTTTAACAT
1 ATTTATTTTATATATTTTTAACAT
* *
5900882 ATTTAATTTATTATATTTTTTA-A-
1 ATTTATTTTA-TATATTTTTAACAT
5900905 ATTTATTTTTATATA
1 ATTTA-TTTTATATA
5900920 ATAGACTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 18 0.56
24 5 0.16
25 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTTATTTTATATATTTTTAACAT
Found at i:5905711 original size:15 final size:15
Alignment explanation
Indices: 5905691--5905720 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5905681 GTTGTTGTTG
5905691 TTTTTTTT-TTTTTC
1 TTTTTTTTCTTTTTC
5905705 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
5905720 T
1 T
5905721 GATTTGAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:5926652 original size:37 final size:37
Alignment explanation
Indices: 5926591--5926773 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
5926581 TACGTATGAT
* *
5926591 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
5926626 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
5926663 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
5926700 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
5926737 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
5926774 TAAAGCTATC
Statistics
Matches: 140, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 128 0.91
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:5926816 original size:52 final size:52
Alignment explanation
Indices: 5926737--5927063 Score: 417
Period size: 52 Copynumber: 6.5 Consensus size: 52
5926727 TAAGTGTAGC
* * * **
5926737 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCACT-TGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
5926790 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
5926842 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * ** *
5926888 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
5926940 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
5926986 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
5927038 CACTTTCCACTTGTCACTTGATCAGA
1 CACTTTTCACTTGTCACTTGATCAGA
5927064 AGTACTCAAA
Statistics
Matches: 243, Mismatches: 19, Indels: 25
0.85 0.07 0.09
Matches are distributed among these distances:
46 83 0.34
49 1 0.00
52 149 0.61
53 10 0.04
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:5926859 original size:46 final size:46
Alignment explanation
Indices: 5926787--5927043 Score: 318
Period size: 46 Copynumber: 5.3 Consensus size: 46
5926777 AGCTATCACT
* *
5926787 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
5926832 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
* * **
5926878 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGC
*
5926930 TACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
*
5926976 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGC
*
5927028 TATTACTTATCACTTT
1 TATCACTTATCACTTT
5927044 CCACTTGTCA
Statistics
Matches: 186, Mismatches: 13, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
45 12 0.06
46 85 0.46
48 2 0.01
50 2 0.01
52 85 0.46
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
Found at i:5926878 original size:98 final size:98
Alignment explanation
Indices: 5926737--5927043 Score: 506
Period size: 98 Copynumber: 3.1 Consensus size: 98
5926727 TAAGTGTAGC
* * * ** * *
5926737 CACTTATCACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
5926802 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
5926835 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
** *
5926900 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
5926933 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
*
5926998 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
5927031 TACTTATCACTTT
1 CACTTATCACTTT
5927044 CCACTTGTCA
Statistics
Matches: 194, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 194 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:5926914 original size:150 final size:146
Alignment explanation
Indices: 5926744--5927063 Score: 491
Period size: 150 Copynumber: 2.1 Consensus size: 146
5926734 AGCCACTTAT
* *
5926744 CACTCTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTT
1 CACT-TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTT
*
5926809 GATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC-T-TTGTCACTTGATCAGATAAGTATAGC
59 GATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGATAAGTATAGC
5926872 CGAAGCTATTACTTATCACTTTC
124 CGAAGCTATTACTTATCACTTTC
5926895 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
*
5926960 TAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGA
66 TAAGTATAGCCGAAGCTATCACTTATCAC-TT---CTTGTCACTTGATCAGATAAGTATAGCCGA
5927025 AGCTATTACTTATCACTTTC
127 AGCTATTACTTATCACTTTC
5927045 CACTTGTCACTTGATCAGA
1 CACTTGTCACTTGATCAGA
5927064 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 4, Indels: 13
0.90 0.02 0.07
Matches are distributed among these distances:
144 43 0.27
146 1 0.01
147 1 0.01
150 110 0.69
151 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (146 bp):
CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
TAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGATAAGTATAGCCGAAGCT
ATTACTTATCACTTTC
Found at i:5936222 original size:21 final size:21
Alignment explanation
Indices: 5936197--5936249 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
5936187 CGTTGTTTCT
*
5936197 AATCTCACCGCTACAGTATCA
1 AATCTCACCGCTACAGTAACA
*
5936218 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACA
5936239 AATCTCACCGC
1 AATCTCACCGC
5936250 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACA
Found at i:5936464 original size:15 final size:15
Alignment explanation
Indices: 5936444--5936475 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
5936434 TGGGTAGATC
5936444 CATTTTTAACAAAAT
1 CATTTTTAACAAAAT
5936459 CATTTTTAACAAAAT
1 CATTTTTAACAAAAT
5936474 CA
1 CA
5936476 AACATCCCAT
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:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (15 bp):
CATTTTTAACAAAAT
Found at i:5938916 original size:8 final size:8
Alignment explanation
Indices: 5938903--5938931 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
5938893 CAAATTGAAA
5938903 AAAAAAAG
1 AAAAAAAG
5938911 AAAAAAAG
1 AAAAAAAG
5938919 AAAAAAAG
1 AAAAAAAG
5938927 AAAAA
1 AAAAA
5938932 GGAAAGCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:5955177 original size:17 final size:18
Alignment explanation
Indices: 5955155--5955188 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
5955145 TAAAATAAAT
*
5955155 TCTTCTGTATC-CATTTA
1 TCTTCTCTATCTCATTTA
5955172 TCTTCTCTATCTCATTT
1 TCTTCTCTATCTCATTT
5955189 TAAGTTCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.15, C:0.26, G:0.03, T:0.56
Consensus pattern (18 bp):
TCTTCTCTATCTCATTTA
Found at i:5957038 original size:23 final size:22
Alignment explanation
Indices: 5957002--5957044 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
5956992 TTAATTTTAA
* *
5957002 AAAATTTAATATTTTTATTTTT
1 AAAATTTAAAATTTATATTTTT
5957024 AAAATTTCAAAATTTATATTT
1 AAAATTT-AAAATTTATATTT
5957045 AACTGTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
AAAATTTAAAATTTATATTTTT
Found at i:5973421 original size:46 final size:44
Alignment explanation
Indices: 5973317--5973424 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
5973307 TGTCTTTGAC
** * * *
5973317 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
5973361 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
5973407 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
5973425 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:5974313 original size:9 final size:9
Alignment explanation
Indices: 5974299--5974333 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
5974289 TTCTATTCTG
5974299 TTTCTTTTC
1 TTTCTTTTC
*
5974308 TTTCTTTTT
1 TTTCTTTTC
*
5974317 TTTCTATTC
1 TTTCTTTTC
5974326 TTTCTTTT
1 TTTCTTTT
5974334 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:5974326 original size:18 final size:19
Alignment explanation
Indices: 5974299--5974338 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
5974289 TTCTATTCTG
*
5974299 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
5974317 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
5974336 TTT
1 TTT
5974339 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:5974367 original size:19 final size:19
Alignment explanation
Indices: 5974343--5974385 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
5974333 TGTTTTATGT
5974343 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
5974362 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
5974381 ATATA
1 ATATA
5974386 AAACATAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:5974381 original size:24 final size:24
Alignment explanation
Indices: 5974349--5974413 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
5974339 ATGTATATAT
5974349 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATATA-TAATCA
* *
5974373 ATAATATAATATAAAACATAATCA
1 ATAATATAATATAATATATAATCA
* *
5974397 TTACTATAATATAATAT
1 ATAATATAATATAATAT
5974414 TTTTTTAACA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATATAATATAATATATAATCA
Found at i:5974413 original size:5 final size:5
Alignment explanation
Indices: 5974342--5974386 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
5974332 TTGTTTTATG
5974342 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA
5974387 AACATAATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 23 0.64
6 8 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:5979569 original size:46 final size:44
Alignment explanation
Indices: 5979465--5979572 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
5979455 TGTCTTTGAC
** * * *
5979465 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
5979509 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
5979555 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
5979573 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:5980462 original size:9 final size:9
Alignment explanation
Indices: 5980448--5980482 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
5980438 TTCTATTCTG
5980448 TTTCTTTTC
1 TTTCTTTTC
*
5980457 TTTCTTTTT
1 TTTCTTTTC
*
5980466 TTTCTATTC
1 TTTCTTTTC
5980475 TTTCTTTT
1 TTTCTTTT
5980483 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:5980475 original size:18 final size:19
Alignment explanation
Indices: 5980448--5980487 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
5980438 TTCTATTCTG
*
5980448 TTTCTTTTCTTTCTTTT-T
1 TTTCTATTCTTTCTTTTGT
5980466 TTTCTATTCTTTCTTTTGT
1 TTTCTATTCTTTCTTTTGT
5980485 TTT
1 TTT
5980488 ATGTATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTCTATTCTTTCTTTTGT
Found at i:5980504 original size:5 final size:5
Alignment explanation
Indices: 5980491--5980563 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
5980481 TTGTTTTATG
5980491 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
5980539 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
5980564 TTTTTTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:5980516 original size:19 final size:19
Alignment explanation
Indices: 5980492--5980534 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
5980482 TGTTTTATGT
5980492 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
5980511 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
5980530 ATATA
1 ATATA
5980535 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:5980544 original size:24 final size:25
Alignment explanation
Indices: 5980498--5980562 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
5980488 ATGTATATAT
* *
5980498 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
5980522 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
5980547 TTACTATAATATAATA
1 ATAATATAATATAATA
5980563 TTTTTTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:5981293 original size:41 final size:41
Alignment explanation
Indices: 5981248--5981326 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
5981238 TTGTTGAGTC
5981248 AACTTGTCCAATGATTTTGTTTGAACTGATACCCTAGATAG
1 AACTTGTCCAATGATTTTGTTTGAACTGATACCCTAGATAG
*
5981289 AACTTGTCCAATGATTTTGTTTGAACTGGTACCCTAGA
1 AACTTGTCCAATGATTTTGTTTGAACTGATACCCTAGA
5981327 CAAAACTTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (41 bp):
AACTTGTCCAATGATTTTGTTTGAACTGATACCCTAGATAG
Found at i:5982685 original size:15 final size:15
Alignment explanation
Indices: 5982667--5982705 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5982657 AGAATTAAAT
5982667 AAAATGATTATTATA
1 AAAATGATTATTATA
* *
5982682 AAAATGAATATTCTA
1 AAAATGATTATTATA
5982697 AAAAT-ATTA
1 AAAATGATTA
5982706 GTTTTGAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (15 bp):
AAAATGATTATTATA
Found at i:5991303 original size:6 final size:6
Alignment explanation
Indices: 5991294--5991323 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
5991284 TGCTTGGGTT
5991294 TGGCTG TGGCTG TGGCTG TGGCTG TGGCTG
1 TGGCTG TGGCTG TGGCTG TGGCTG TGGCTG
5991324 CCTTCCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
TGGCTG
Found at i:5991636 original size:25 final size:25
Alignment explanation
Indices: 5991587--5991637 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
5991577 ATACTTTTAC
* *
5991587 AAATATTAAATTATTTTTCTTTTCA
1 AAATATTAAATTATTTTTATGTTCA
5991612 AAATAATTAAA-TATTTTTATGTTCA
1 AAAT-ATTAAATTATTTTTATGTTCA
5991637 A
1 A
5991638 TTAAAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (25 bp):
AAATATTAAATTATTTTTATGTTCA
Found at i:6002845 original size:15 final size:16
Alignment explanation
Indices: 6002809--6002845 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
6002799 GATTTGAAAC
6002809 TAATA-TATTAATTTT
1 TAATATTATTAATTTT
6002824 TAA-ATTATTAA-TTT
1 TAATATTATTAATTTT
6002838 TAATATTA
1 TAATATTA
6002846 CAATCAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATATTATTAATTTT
Found at i:6003413 original size:15 final size:15
Alignment explanation
Indices: 6003390--6003431 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
6003380 ACATTAATTC
6003390 AAATAAAAAAATTTA
1 AAATAAAAAAATTTA
* * *
6003405 AAAT-TAAAATTTTT
1 AAATAAAAAAATTTA
6003419 AAATAAAAAAATT
1 AAATAAAAAAATT
6003432 AATTATTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAAAAAATTTA
Found at i:6006318 original size:33 final size:31
Alignment explanation
Indices: 6006271--6006335 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 31
6006261 TTTTCAATTT
*
6006271 TTAAATAAAAAAATAATATATTTTAGTACAC
1 TTAAATAAAAAAATAATATATTTTAATACAC
6006302 TTAAATTATAAAAAATAATATATTTTAATACAC
1 TTAAA-TA-AAAAAATAATATATTTTAATACAC
6006335 T
1 T
6006336 GACAACAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.16
32 2 0.06
33 24 0.77
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (31 bp):
TTAAATAAAAAAATAATATATTTTAATACAC
Found at i:6007897 original size:142 final size:142
Alignment explanation
Indices: 6007641--6007927 Score: 574
Period size: 142 Copynumber: 2.0 Consensus size: 142
6007631 AAATTAGGTC
6007641 TCTTTGCTTTTATTTATAGAAATTTAGTTTCTTTATCTGTTTGATTTGAAAATGCATTCCCAATT
1 TCTTTGCTTTTATTTATAGAAATTTAGTTTCTTTATCTGTTTGATTTGAAAATGCATTCCCAATT
6007706 GGTAACATTGTTAATAGGTTTCCATCAAATACAAATGTGTCATTTTATTATTTAAGAGTCTAATT
66 GGTAACATTGTTAATAGGTTTCCATCAAATACAAATGTGTCATTTTATTATTTAAGAGTCTAATT
6007771 TGAAAATTAAAG
131 TGAAAATTAAAG
6007783 TCTTTGCTTTTATTTATAGAAATTTAGTTTCTTTATCTGTTTGATTTGAAAATGCATTCCCAATT
1 TCTTTGCTTTTATTTATAGAAATTTAGTTTCTTTATCTGTTTGATTTGAAAATGCATTCCCAATT
6007848 GGTAACATTGTTAATAGGTTTCCATCAAATACAAATGTGTCATTTTATTATTTAAGAGTCTAATT
66 GGTAACATTGTTAATAGGTTTCCATCAAATACAAATGTGTCATTTTATTATTTAAGAGTCTAATT
6007913 TGAAAATTAAAG
131 TGAAAATTAAAG
6007925 TCT
1 TCT
6007928 AATTGATAGC
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 145 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (142 bp):
TCTTTGCTTTTATTTATAGAAATTTAGTTTCTTTATCTGTTTGATTTGAAAATGCATTCCCAATT
GGTAACATTGTTAATAGGTTTCCATCAAATACAAATGTGTCATTTTATTATTTAAGAGTCTAATT
TGAAAATTAAAG
Found at i:6011592 original size:16 final size:15
Alignment explanation
Indices: 6011571--6011601 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
6011561 AGCGTTGACA
6011571 AGGAAACAGAGAAATT
1 AGGAAACAG-GAAATT
6011587 AGGAAACAGGAAATT
1 AGGAAACAGGAAATT
6011602 CCGAGATAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.55, C:0.06, G:0.26, T:0.13
Consensus pattern (15 bp):
AGGAAACAGGAAATT
Found at i:6015745 original size:411 final size:411
Alignment explanation
Indices: 6014978--6015807 Score: 1428
Period size: 411 Copynumber: 2.0 Consensus size: 411
6014968 TGACTCTAAT
*
6014978 CTGAAGGTTTTCATTCTCAACTTCAAAATGAGCTGCCTTTGCCAAAAAGTTATGATGATTAGAAG
1 CTGAAGGTTTTCATTCTCAACTTCAAAATGAGCTGCCTTCGCCAAAAAGTTATGATGATTAGAAG
* * * *
6015043 TCATAGTCTCCAATTTTTCAGAACGTTGATCCCTCTCAAGTGTAACTGATTGAAGGTCTGCCTCA
66 TCATAGTCTCCAATTTTTCAGAAAGTTGATCCCTCTCAAGCGTAACCGATTGAAGATCTGCCTCA
* *
6015108 AGATCAGCTACTCTCTTTTCTGACTCCTCCAAATCAGCAGCTAGTGACCCATAATAATTTTCAAG
131 AGATCAGCTACTCTCTTTTCTGACCCCTCCAAATCAGCAGCTACTGACCCATAATAATTTTCAAG
*
6015173 ATTATCAATCTTCTTCTGCAAAGAATTTCTTTCATGATTAGCCTCTGTAATCGCCCTCCCTAACC
196 ATTATCAATCTTCTTCTGCAAAGAATTTCTTTCATGATTAGCCTCTGTAAACGCCCTCCCTAACC
*
6015238 ATTCAATCTTTTCTTCAGGTTCCATGGATTGCATTTGTGAAGGCATGTCGATTCCATCCAAAAGT
261 ATTCAATCTTTTCTTCAGGTTCCATGGATTGCATTTGTGAAGGCATGTCGATTCCATCCAAAAGC
*
6015303 TCCTCCCATTTTTGCACCAAGTGGCTCCTTTCCATTAAGGATTGTTCCAACAGTTCATTTCGTTC
326 TCCTCCCATTTTTGCAACAAGTGGCTCCTTTCCATTAAGGATTGTTCCAACAGTTCATTTCGTTC
* *
6015368 TACCAAACTATAAATCTTGCC
391 TACCAAACTATAAAACTTACC
* *
6015389 CTGAAGGTTTTCATTCTCAACTTCAAATTGAGCTGCCTTCGCC-GAAAGATTATGATGATTAGAA
1 CTGAAGGTTTTCATTCTCAACTTCAAAATGAGCTGCCTTCGCCAAAAAG-TTATGATGATTAGAA
6015453 GTCATAGTCTCCAATTTTTCAGAAAGTTGATCCCTCTCAAGCGTAACCGATTGAAGATCTGCCTC
65 GTCATAGTCTCCAATTTTTCAGAAAGTTGATCCCTCTCAAGCGTAACCGATTGAAGATCTGCCTC
* *
6015518 AAGATCAGCTACTCTCTTTTCTGACCCCTCCAACTCAGCAGCTACTGACCTATAATAATTTTCAA
130 AAGATCAGCTACTCTCTTTTCTGACCCCTCCAAATCAGCAGCTACTGACCCATAATAATTTTCAA
*
6015583 GATTATCAATCTTCTTCTGCAAAGAATTTCTTTCATGATTAGCCTCTGTAAACGCCCTTCCTAAC
195 GATTATCAATCTTCTTCTGCAAAGAATTTCTTTCATGATTAGCCTCTGTAAACGCCCTCCCTAAC
* *
6015648 CATTCAATCTTTTCTTCAGGTTCCATGGATTGCATTTGTGAGGGCATGTTGATTCCATCCAAAAG
260 CATTCAATCTTTTCTTCAGGTTCCATGGATTGCATTTGTGAAGGCATGTCGATTCCATCCAAAAG
* * *
6015713 CTCCTCCCATTTTTGCAACAAGTGGTTCCTTTCCATTAAGGATTGTTCCAGCATTTCATTTCGTT
325 CTCCTCCCATTTTTGCAACAAGTGGCTCCTTTCCATTAAGGATTGTTCCAACAGTTCATTTCGTT
* *
6015778 CTGCCAACCTATAAAACTTACC
390 CTACCAAACTATAAAACTTACC
6015800 CTGAAGGT
1 CTGAAGGT
6015808 CCTCATATTT
Statistics
Matches: 394, Mismatches: 24, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
410 4 0.01
411 390 0.99
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (411 bp):
CTGAAGGTTTTCATTCTCAACTTCAAAATGAGCTGCCTTCGCCAAAAAGTTATGATGATTAGAAG
TCATAGTCTCCAATTTTTCAGAAAGTTGATCCCTCTCAAGCGTAACCGATTGAAGATCTGCCTCA
AGATCAGCTACTCTCTTTTCTGACCCCTCCAAATCAGCAGCTACTGACCCATAATAATTTTCAAG
ATTATCAATCTTCTTCTGCAAAGAATTTCTTTCATGATTAGCCTCTGTAAACGCCCTCCCTAACC
ATTCAATCTTTTCTTCAGGTTCCATGGATTGCATTTGTGAAGGCATGTCGATTCCATCCAAAAGC
TCCTCCCATTTTTGCAACAAGTGGCTCCTTTCCATTAAGGATTGTTCCAACAGTTCATTTCGTTC
TACCAAACTATAAAACTTACC
Found at i:6026442 original size:21 final size:22
Alignment explanation
Indices: 6026416--6026462 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6026406 CTCTGCTCAA
*
6026416 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
6026437 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
6026459 ACTC
1 ACTC
6026463 ACTCCTTCTG
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:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:6031195 original size:17 final size:17
Alignment explanation
Indices: 6031176--6031246 Score: 73
Period size: 16 Copynumber: 4.5 Consensus size: 17
6031166 TATGACATCT
*
6031176 TTTTGTTTTC-TTTTTC
1 TTTTGTTTTCATATTTC
*
6031192 TTTTATTTTCATATTTC
1 TTTTGTTTTCATATTTC
6031209 TTTTG-TTT--T-TTTC
1 TTTTGTTTTCATATTTC
*
6031222 TTTTATTTTCATATTTC
1 TTTTGTTTTCATATTTC
6031239 TTTT-TTTT
1 TTTTGTTTT
6031247 TTTATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
13 8 0.17
14 4 0.09
16 17 0.37
17 17 0.37
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTGTTTTCATATTTC
Found at i:6031222 original size:30 final size:29
Alignment explanation
Indices: 6031181--6031254 Score: 121
Period size: 30 Copynumber: 2.5 Consensus size: 29
6031171 CATCTTTTTG
*
6031181 TTTTCTTTTTCTTTTATTTTCATATTTCT
1 TTTTTTTTTTCTTTTATTTTCATATTTCT
6031210 TTTGTTTTTTTCTTTTATTTTCATATTTCT
1 TTT-TTTTTTTCTTTTATTTTCATATTTCT
*
6031240 TTTTTTTTTTATTTT
1 TTTTTTTTTTCTTTT
6031255 TTTATTTTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 14 0.33
30 28 0.67
ACGTcount: A:0.09, C:0.09, G:0.01, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTTCTTTTATTTTCATATTTCT
Found at i:6031247 original size:17 final size:16
Alignment explanation
Indices: 6031173--6031262 Score: 71
Period size: 17 Copynumber: 5.6 Consensus size: 16
6031163 CCTTATGACA
*
6031173 TCTTTTTGTTTTCTTTT
1 TCTTTTT-TTTTCTATT
*
6031190 TCTTTTATTTTCATATT
1 TCTTTTTTTTTC-TATT
*
6031207 TC-TTTTGTTT-T-TT
1 TCTTTTTTTTTCTATT
*
6031220 TCTTTTATTTTCATATT
1 TCTTTTTTTTTC-TATT
*
6031237 TCTTTTTTTTTTTATT
1 TCTTTTTTTTTCTATT
6031253 T-TTTTATTTT
1 TCTTTT-TTTT
6031263 GTTCCTTAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.07
14 7 0.12
15 4 0.07
16 21 0.36
17 23 0.39
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (16 bp):
TCTTTTTTTTTCTATT
Found at i:6031334 original size:21 final size:20
Alignment explanation
Indices: 6031284--6031344 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
6031274 AATTTTGTCT
*
6031284 TTTTCTTTTTTTTTTACTTTA
1 TTTT-TTTTTTTTTTATTTTA
* *
6031305 TTGATTTTTTTTCTTATTTTA
1 TT-TTTTTTTTTTTTATTTTA
6031326 TTTTGTTTTATTTTTTATT
1 TTTT-TTTT-TTTTTTATT
6031345 ATTAACTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.03
21 22 0.69
22 9 0.28
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTTTTTTATTTTA
Found at i:6031501 original size:36 final size:36
Alignment explanation
Indices: 6031455--6031530 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
6031445 TATATTTGTG
* *
6031455 AAATTAAA-TTTTTATATATTTTAAAAATGTATTTTTT
1 AAATTAAATTTTTTA-AAATTTTAAAAAT-TAATTTTT
*
6031492 AAATT-AATTTTTTAAAATTTTAAATATTAATTTTT
1 AAATTAAATTTTTTAAAATTTTAAAAATTAATTTTT
6031527 AAAT
1 AAAT
6031531 ATTAACCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 11 0.31
36 13 0.37
37 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (36 bp):
AAATTAAATTTTTTAAAATTTTAAAAATTAATTTTT
Found at i:6031526 original size:14 final size:14
Alignment explanation
Indices: 6031509--6031535 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6031499 TTTTTTAAAA
6031509 TTTTAAATATTAAT
1 TTTTAAATATTAAT
6031523 TTTTAAATATTAA
1 TTTTAAATATTAA
6031536 CCATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAAATATTAAT
Found at i:6031535 original size:37 final size:35
Alignment explanation
Indices: 6031393--6031535 Score: 110
Period size: 37 Copynumber: 4.0 Consensus size: 35
6031383 TTTATAATAC
* * *
6031393 TTTTTTAAAATTTTAATTATCATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAATATAATTTTTAAAATTAA
* * * * *
6031427 TTTTTT-TAACTTTAGATATATATTTGTGAAATTAA
1 TTTTTTAAAATTTTAAATATA-ATTTTTAAAATTAA
* * * * *
6031462 ATTTTTATATATTTTAAAAATGTATTTTTTAAATTAA
1 TTTTTTA-AAATTTTAAATAT-AATTTTTAAAATTAA
6031499 TTTTTTAAAATTTTAAATATTAATTTTTAAATATTAA
1 TTTTTTAAAATTTTAAATA-TAATTTTTAAA-ATTAA
6031536 CCATATTTTT
Statistics
Matches: 80, Mismatches: 22, Indels: 11
0.71 0.19 0.10
Matches are distributed among these distances:
33 9 0.11
34 15 0.19
35 6 0.08
36 18 0.22
37 32 0.40
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (35 bp):
TTTTTTAAAATTTTAAATATAATTTTTAAAATTAA
Found at i:6031542 original size:23 final size:23
Alignment explanation
Indices: 6031494--6031535 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
6031484 TATTTTTTAA
*
6031494 ATTAATTTTTTAAAATTTTAAAT
1 ATTAATTTTTTAAAATATTAAAT
6031517 ATTAA-TTTTT-AAATATTAA
1 ATTAATTTTTTAAAATATTAA
6031536 CCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTAATTTTTTAAAATATTAAAT
Found at i:6031920 original size:34 final size:36
Alignment explanation
Indices: 6031861--6031957 Score: 103
Period size: 34 Copynumber: 2.8 Consensus size: 36
6031851 AATTTTTACA
* *
6031861 ATTTTTTA-AAATTTTAATTAT-TATTTTTAAAATT
1 ATTTTTTATAAACTTTAAATATATATTTTTAAAATT
* * *
6031895 ATTTTTT-T-AACTTTAGATATATATTTGTGAAATT
1 ATTTTTTATAAACTTTAAATATATATTTTTAAAATT
* *
6031929 GTTTTTTATAAATTTTAAATATATATTTT
1 ATTTTTTATAAACTTTAAATATATATTTT
6031958 CAAATTAGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
33 9 0.18
34 24 0.48
35 1 0.02
36 16 0.32
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (36 bp):
ATTTTTTATAAACTTTAAATATATATTTTTAAAATT
Found at i:6031935 original size:35 final size:36
Alignment explanation
Indices: 6031862--6031969 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 36
6031852 ATTTTTACAA
* * *
6031862 TTTTTTA-AAATTTTAATTAT-TATTTTTAAAATTA-
1 TTTTTTATAAACTTTAAATATATA-TTTTCAAATTAG
* *
6031896 TTTTTT-T-AACTTTAGATATATATTTGTGAAATT-G
1 TTTTTTATAAACTTTAAATATATATTT-TCAAATTAG
*
6031930 TTTTTTATAAATTTTAAATATATATTTTCAAATTAG
1 TTTTTTATAAACTTTAAATATATATTTTCAAATTAG
6031966 TTTT
1 TTTT
6031970 GAAATTAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
33 12 0.20
34 20 0.33
35 7 0.12
36 21 0.35
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (36 bp):
TTTTTTATAAACTTTAAATATATATTTTCAAATTAG
Found at i:6032400 original size:26 final size:26
Alignment explanation
Indices: 6032368--6032426 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
6032358 TTTTAAATAC
*
6032368 AATTTTTAAATACATTTAAAAAATCAT
1 AATTTTTAAATA-ATATAAAAAATCAT
* *
6032395 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTAAATAATATAAAAAATCAT
6032421 AATTTT
1 AATTTT
6032427 ATTTTGTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATAATATAAAAAATCAT
Found at i:6032528 original size:20 final size:22
Alignment explanation
Indices: 6032485--6032528 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6032475 ATTTAAAATG
6032485 TTTTATAATATACTTTTTACAA
1 TTTTATAATATACTTTTTACAA
6032507 TTTTA-AATATTA-TTTTTA-AA
1 TTTTATAATA-TACTTTTTACAA
6032527 TT
1 TT
6032529 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATAATATACTTTTTACAA
Found at i:6038280 original size:8 final size:8
Alignment explanation
Indices: 6038267--6038301 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
6038257 GATGTGATAA
6038267 AAAAATTT
1 AAAAATTT
6038275 AAAAATTT
1 AAAAATTT
6038283 AAAAATTT
1 AAAAATTT
6038291 AAAAAATTT
1 -AAAAATTT
6038300 AA
1 AA
6038302 TTTTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAAATTT
Found at i:6038288 original size:16 final size:17
Alignment explanation
Indices: 6038267--6038301 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6038257 GATGTGATAA
6038267 AAAAATTT-AAAAATTT
1 AAAAATTTAAAAAATTT
6038283 AAAAATTTAAAAAATTT
1 AAAAATTTAAAAAATTT
6038300 AA
1 AA
6038302 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATTTAAAAAATTT
Found at i:6041557 original size:3 final size:3
Alignment explanation
Indices: 6041549--6041607 Score: 64
Period size: 3 Copynumber: 19.7 Consensus size: 3
6041539 GAAGAAACCC
* * * * **
6041549 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CGT CTT CCT CTT CAT TTT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
6041597 CAT CAT CAT CA
1 CAT CAT CAT CA
6041608 AATGACAAAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (3 bp):
CAT
Found at i:6041732 original size:18 final size:18
Alignment explanation
Indices: 6041709--6041744 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6041699 TAACAGATCT
6041709 GCAAGTACAAGTTGAACC
1 GCAAGTACAAGTTGAACC
6041727 GCAAGTACAAGTTGAACC
1 GCAAGTACAAGTTGAACC
6041745 TCAATAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (18 bp):
GCAAGTACAAGTTGAACC
Found at i:6042999 original size:26 final size:26
Alignment explanation
Indices: 6042970--6043051 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
6042960 TGGTACAAAT
*
6042970 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
6042996 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
* *
6043022 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGATTAGGTAAATGTTCCA
6043048 TGAT
1 TGAT
6043052 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:6045170 original size:37 final size:37
Alignment explanation
Indices: 6045126--6045207 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
6045116 CACTTGTCCC
6045126 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
6045163 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
6045200 TGATCAGA
1 TGATCAGA
6045208 AGTACTCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.38
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:6057512 original size:15 final size:14
Alignment explanation
Indices: 6057488--6057532 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
6057478 AAGTATAAAA
*
6057488 TATTTATTAATTTT
1 TATTTTTTAATTTT
*
6057502 GTATTTTTTAAATTT
1 -TATTTTTTAATTTT
6057517 TATTTTTGTAATTTT
1 TATTTTT-TAATTTT
6057532 T
1 T
6057533 TTGAATATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:6057534 original size:24 final size:22
Alignment explanation
Indices: 6057492--6057543 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
6057482 ATAAAATATT
*
6057492 TATTAATTTTGTATTTTTTAAA
1 TATTATTTTTGTATTTTTTAAA
* *
6057514 TTTTATTTTTGTAATTTTTTTGAA
1 TATTATTTTTGT-A-TTTTTTAAA
6057538 TATTAT
1 TATTAT
6057544 ACAATATTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 10 0.42
23 1 0.04
24 13 0.54
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (22 bp):
TATTATTTTTGTATTTTTTAAA
Found at i:6077673 original size:21 final size:22
Alignment explanation
Indices: 6077644--6077690 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6077634 CAGAAGGAGT
*
6077644 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6077666 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
6077687 GAGT
1 GAGT
6077691 TTGAGCAGAG
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:6079145 original size:12 final size:12
Alignment explanation
Indices: 6079130--6079289 Score: 76
Period size: 12 Copynumber: 13.3 Consensus size: 12
6079120 CCGCCTTTTG
*
6079130 CTTTGCCTCTGC
1 CTTTGTCTCTGC
* *
6079142 CTTTGGCTCTGT
1 CTTTGTCTCTGC
*
6079154 CTTTTTCTCTGC
1 CTTTGTCTCTGC
* *
6079166 CTCTGTCTCTGT
1 CTTTGTCTCTGC
6079178 CTTT-TGCTCTGC
1 CTTTGT-CTCTGC
* *
6079190 CTCTGTATCTGTC
1 CTTTGTCTCTG-C
* *
6079203 TTTTGT-TCTAC
1 CTTTGTCTCTGC
* *
6079214 CTCTGTCTCTGT
1 CTTTGTCTCTGC
*
6079226 CTTT-TGCTGTGC
1 CTTTGT-CTCTGC
**
6079238 CTCCGTCTCTGC
1 CTTTGTCTCTGC
*
6079250 CTTT-TGGTCTGC
1 CTTTGT-CTCTGC
* *
6079262 CTCTGGCTCTGC
1 CTTTGTCTCTGC
* *
6079274 CTCTATCTCTGC
1 CTTTGTCTCTGC
6079286 CTTT
1 CTTT
6079290 TGCTCTTTCT
Statistics
Matches: 106, Mismatches: 34, Indels: 16
0.68 0.22 0.10
Matches are distributed among these distances:
11 8 0.08
12 91 0.86
13 7 0.07
ACGTcount: A:0.02, C:0.33, G:0.17, T:0.48
Consensus pattern (12 bp):
CTTTGTCTCTGC
Found at i:6079275 original size:24 final size:24
Alignment explanation
Indices: 6079131--6079272 Score: 176
Period size: 24 Copynumber: 5.9 Consensus size: 24
6079121 CGCCTTTTGC
* *
6079131 TTTGCCTCTGCCTTTGGCTCTGTCT
1 TTTG-CTCTGCCTCTGTCTCTGTCT
*
6079156 TTTTCTCTGCCTCTGTCTCTGTCT
1 TTTGCTCTGCCTCTGTCTCTGTCT
*
6079180 TTTGCTCTGCCTCTGTATCTGTCT
1 TTTGCTCTGCCTCTGTCTCTGTCT
* *
6079204 TTTGTTCTACCTCTGTCTCTGTCT
1 TTTGCTCTGCCTCTGTCTCTGTCT
* * *
6079228 TTTGCTGTGCCTCCGTCTCTGCCT
1 TTTGCTCTGCCTCTGTCTCTGTCT
* *
6079252 TTTGGTCTGCCTCTGGCTCTG
1 TTTGCTCTGCCTCTGTCTCTG
6079273 CCTCTATCTC
Statistics
Matches: 100, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
24 97 0.97
25 3 0.03
ACGTcount: A:0.01, C:0.32, G:0.18, T:0.49
Consensus pattern (24 bp):
TTTGCTCTGCCTCTGTCTCTGTCT
Found at i:6079688 original size:18 final size:18
Alignment explanation
Indices: 6079667--6079703 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6079657 ACGGACTCTG
6079667 AGGCTCGGGCTCAGTCTC
1 AGGCTCGGGCTCAGTCTC
* *
6079685 AGGCTCTGTCTCAGTCTC
1 AGGCTCGGGCTCAGTCTC
6079703 A
1 A
6079704 TTATGTTCTT
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:0.14, C:0.32, G:0.27, T:0.27
Consensus pattern (18 bp):
AGGCTCGGGCTCAGTCTC
Done.