Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 68 of 325
Found at i:24089194 original size:27 final size:27
Alignment explanation
Indices: 24089155--24089223 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
24089145 TTTATACAAA
24089155 TAATTCGGTTAATTTAGTTAATTC-AGG
1 TAATTCGGTTAATTTAGTTAATTCGA-G
* ** *
24089182 TAATTCGGGTAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTTAGTTAATTCGAG
24089209 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
24089224 TATATTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTTAGTTAATTCGAG
Found at i:24092263 original size:20 final size:20
Alignment explanation
Indices: 24092238--24092275 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24092228 ATGAGGTTTA
24092238 AAAAATGGGTTAAAAACCAC
1 AAAAATGGGTTAAAAACCAC
24092258 AAAAATGGGTTAAAAACC
1 AAAAATGGGTTAAAAACC
24092276 CCATTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAAATGGGTTAAAAACCAC
Found at i:24106666 original size:46 final size:46
Alignment explanation
Indices: 24106615--24106706 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
24106605 AAATAATTTC
24106615 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
1 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
*
24106661 TATATAAACTCAATTTCGAAAGTTTTTGCTAAAAAGCAACAAACCA
1 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
24106707 AAAATATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (46 bp):
TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
Found at i:24107842 original size:31 final size:31
Alignment explanation
Indices: 24107807--24107883 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 31
24107797 ATATTTTAAC
*
24107807 ATTTATATTAAAAAAAATTTATTATTAATAT
1 ATTTATATTAAAAAAAATTTATTATTAAAAT
* *
24107838 ATTTATAATTGTAATAAATATTTATTATTAAAAT
1 ATTTAT-A-T-TAAAAAAAATTTATTATTAAAAT
*
24107872 ATTAATATTAAA
1 ATTTATATTAAA
24107884 TATTTTCAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 9 0.24
32 2 0.05
33 2 0.05
34 25 0.66
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
ATTTATATTAAAAAAAATTTATTATTAAAAT
Found at i:24107843 original size:15 final size:15
Alignment explanation
Indices: 24107823--24107888 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
24107813 ATTAAAAAAA
24107823 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
24107838 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
24107857 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
24107872 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
24107885 ATTT
1 ATTT
24107889 TCAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:24107938 original size:16 final size:16
Alignment explanation
Indices: 24107907--24107943 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
24107897 ATGTGAATAA
24107907 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
24107923 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
24107939 TATTA
1 TATTA
24107944 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:24107995 original size:22 final size:22
Alignment explanation
Indices: 24107955--24108010 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
24107945 AATAAAATTG
*
24107955 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
24107975 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
24107997 TATTAATAATTTAT
1 AAATAATAAATTAT
24108011 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:24112019 original size:5 final size:5
Alignment explanation
Indices: 24112011--24112036 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24112001 ATTATAACAC
24112011 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
24112037 AGTACCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:24112557 original size:9 final size:9
Alignment explanation
Indices: 24112545--24112576 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
24112535 ATAATCTCTA
24112545 TATATTTAT
1 TATATTTAT
24112554 TATATTTAT
1 TATATTTAT
*
24112563 TGTATTTAT
1 TATATTTAT
24112572 TATAT
1 TATAT
24112577 GTAGTAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (9 bp):
TATATTTAT
Found at i:24112670 original size:24 final size:26
Alignment explanation
Indices: 24112640--24112698 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 26
24112630 TTAATATGTA
24112640 TATATTATGTAAATATTTT-A-ATAT
1 TATATTATGTAAATATTTTCATATAT
*
24112664 TATATTA--TATATATTTTCATATAT
1 TATATTATGTAAATATTTTCATATAT
24112688 TATATATATGT
1 TATAT-TATGT
24112699 TTTTAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 9 0.31
23 1 0.03
24 16 0.55
25 2 0.07
27 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (26 bp):
TATATTATGTAAATATTTTCATATAT
Found at i:24112680 original size:22 final size:22
Alignment explanation
Indices: 24112652--24112722 Score: 92
Period size: 22 Copynumber: 3.2 Consensus size: 22
24112642 TATTATGTAA
24112652 ATATTTTAATATTATATTATAT
1 ATATTTTAATATTATATTATAT
24112674 ATATTTTCATATATTATA-TATAT
1 ATATTTT-A-ATATTATATTATAT
* *
24112697 GT-TTTTAATATTATATTTTAT
1 ATATTTTAATATTATATTATAT
24112718 ATATT
1 ATATT
24112723 ATTATGTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.19
21 6 0.14
22 13 0.31
23 7 0.17
24 8 0.19
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (22 bp):
ATATTTTAATATTATATTATAT
Found at i:24112727 original size:17 final size:18
Alignment explanation
Indices: 24112664--24112752 Score: 80
Period size: 17 Copynumber: 4.9 Consensus size: 18
24112654 ATTTTAATAT
24112664 TATATTATATATATTTTCA
1 TATATTATATATATTTT-A
24112683 TATATTATATATATGTTT-
1 TATATTATATATAT-TTTA
*
24112701 T-TAATAT-TATATTTTA
1 TATATTATATATATTTTA
24112717 TATATTATTATGTATATTTT-
1 TATATTA-TA--TATATTTTA
24112737 TAGTA-TATATATATTT
1 TA-TATTATATATATTT
24112753 GTGAAGTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
15 3 0.05
16 6 0.10
17 16 0.27
18 2 0.03
19 16 0.27
20 7 0.12
21 10 0.17
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATTATATATATTTTA
Found at i:24112737 original size:35 final size:36
Alignment explanation
Indices: 24112669--24112748 Score: 110
Period size: 35 Copynumber: 2.2 Consensus size: 36
24112659 AATATTATAT
*
24112669 TATATATATTTTCATATATTATATATATGTTTTTAA
1 TATATATATTTTCATATATTATATATATATTTTTAA
* *
24112705 TAT-TATATTTT-ATATATTATTATGTATATTTTTAG
1 TATATATATTTTCATATATTA-TATATATATTTTTAA
24112740 TATATATAT
1 TATATATAT
24112749 ATTTGTGAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 8 0.21
35 23 0.59
36 8 0.21
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (36 bp):
TATATATATTTTCATATATTATATATATATTTTTAA
Found at i:24112988 original size:15 final size:16
Alignment explanation
Indices: 24112964--24113013 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
24112954 ATCATTTCTA
*
24112964 ATGTACATGTATATAT
1 ATGTATATGTATATAT
*
24112980 -TGTATATGTTTATAT
1 ATGTATATGTATATAT
*
24112995 ATATATTATGTATATAT
1 ATGTA-TATGTATATAT
24113012 AT
1 AT
24113014 ACTTTCAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 13 0.46
16 3 0.11
17 12 0.43
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (16 bp):
ATGTATATGTATATAT
Found at i:24113673 original size:15 final size:15
Alignment explanation
Indices: 24113655--24113688 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24113645 TTTATACTAT
*
24113655 GTATATATATATTTA
1 GTATATATATATTCA
*
24113670 GTATGTATATATTCA
1 GTATATATATATTCA
24113685 GTAT
1 GTAT
24113689 TATTATGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (15 bp):
GTATATATATATTCA
Found at i:24113695 original size:21 final size:20
Alignment explanation
Indices: 24113635--24113695 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 20
24113625 TCCTAATATA
24113635 TATATATTCAT-TTATACTATG
1 TATATATTCATATTAT--TATG
*
24113656 TATATA-T-ATATTTAGTATG
1 TATATATTCATA-TTATTATG
24113675 TATATATTCAGTATTATTATG
1 TATATATTCA-TATTATTATG
24113696 CGTGTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
19 12 0.36
20 2 0.06
21 17 0.52
22 2 0.06
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.52
Consensus pattern (20 bp):
TATATATTCATATTATTATG
Found at i:24117562 original size:16 final size:16
Alignment explanation
Indices: 24117541--24117576 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
24117531 GTATGACTAA
24117541 CATTCATTTATGCATT
1 CATTCATTTATGCATT
*
24117557 CATTCATTTATTCATT
1 CATTCATTTATGCATT
24117573 CATT
1 CATT
24117577 GCATATCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
CATTCATTTATGCATT
Found at i:24125025 original size:42 final size:40
Alignment explanation
Indices: 24124972--24125050 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 40
24124962 ATGCTTGAAG
*
24124972 AAAAAAAATCAAGATGAAAACCCAAAAATGGCATCTTAAA
1 AAAAAAAATCAAGATGAAAACCCAAAAAGGGCATCTTAAA
* * *
24125012 AAAAAAGAGATCAAGGTGAAAACCCGAAAAGGGCGTCTT
1 AAAAAA-A-ATCAAGATGAAAACCCAAAAAGGGCATCTT
24125051 GGTTAACACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 6 0.18
41 1 0.03
42 26 0.79
ACGTcount: A:0.53, C:0.15, G:0.18, T:0.14
Consensus pattern (40 bp):
AAAAAAAATCAAGATGAAAACCCAAAAAGGGCATCTTAAA
Found at i:24125975 original size:68 final size:74
Alignment explanation
Indices: 24125853--24126035 Score: 225
Period size: 68 Copynumber: 2.6 Consensus size: 74
24125843 TATTTCTGTT
* * ** * *
24125853 TTCAAAATTCGACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAAAAGTTGAGGTATTTTC-A-
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAAAGCTGAGGTAATTTCAAT
24125916 A-T-T-TTG
66 ATTCTATTG
* * *
24125922 TT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAAAGCTGAGGTAATTTCAAT
*
24125986 ATTCTATTT
66 ATTCTATTG
*
24125995 TTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
24126036 GGCTCACATG
Statistics
Matches: 97, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
68 50 0.52
69 3 0.03
70 1 0.01
71 1 0.01
72 1 0.01
73 4 0.04
74 37 0.38
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (74 bp):
TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAAAAGCTGAGGTAATTTCAAT
ATTCTATTG
Found at i:24126229 original size:171 final size:164
Alignment explanation
Indices: 24125924--24126236 Score: 412
Period size: 171 Copynumber: 1.9 Consensus size: 164
24125914 CAATTTTGTT
*
24125924 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAAATT
** * *
24125989 CTATTTTTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGTTGAGGTA
66 CTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTA
*
24126054 TTTTCAGTTTCTGTTTTTTTAATTTATATTTTTC
131 TTTTCAATTTCTGTTTTTTTAATTTATATTTTTC
* * * * * *
24126088 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTCATATGTTGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAAAA
* * *
24126153 TCTGCTTTTAAGTTTCAAAAAACCAACTCATATTGCG-GAGGTGAGTTGAGCCTTGGCTCACGTG
64 T-T-CTATT---TTTC-AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
24126217 CTGAGCTATTTTCAATTTCT
123 CTGAGCTATTTTCAATTTCT
24126237 ACTTTAATGT
Statistics
Matches: 126, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
164 39 0.31
166 18 0.14
167 1 0.01
168 4 0.03
171 46 0.37
172 18 0.14
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (164 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAAATT
CTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGCTA
TTTTCAATTTCTGTTTTTTTAATTTATATTTTTC
Found at i:24127364 original size:21 final size:21
Alignment explanation
Indices: 24127334--24127384 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
24127324 CCACCGGAAA
24127334 TCCCCTTCTCCCCACTCTCC-TT
1 TCCCC-TCTCCCCACTC-CCATT
*
24127356 TCCCCTCTCCCCTCTCCCATT
1 TCCCCTCTCCCCACTCCCATT
*
24127377 TCCTCTCT
1 TCCCCTCT
24127385 TCTTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.04, C:0.59, G:0.00, T:0.37
Consensus pattern (21 bp):
TCCCCTCTCCCCACTCCCATT
Found at i:24128195 original size:24 final size:26
Alignment explanation
Indices: 24128166--24128222 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 26
24128156 CTAATATGTA
24128166 TATATTATGTAAATATTTT-A-ATAT
1 TATATTATGTAAATATTTTCATATAT
*
24128190 TATATTA--TATATATTTTCATATAT
1 TATATTATGTAAATATTTTCATATAT
24128214 TATA-TATGT
1 TATATTATGT
24128223 TTTTAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 9 0.32
23 3 0.11
24 15 0.54
25 1 0.04
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTATGTAAATATTTTCATATAT
Found at i:24128203 original size:35 final size:35
Alignment explanation
Indices: 24128164--24128273 Score: 96
Period size: 42 Copynumber: 2.9 Consensus size: 35
24128154 TCCTAATATG
24128164 TATATATTATGTAAATATTTTAATATTATATTATA
1 TATATATTATGTAAATATTTTAATATTATATTATA
* * *
24128199 TATATTTTCATATATTATATATGTTTTTAATATTATATTTTA
1 TATATATT-ATGTA--A-ATA---TTTTAATATTATATTATA
*
24128241 TATATTATTATGTATAT-TTTTAATATATATATT
1 TATA-TATTATGTAAATATTTTAATAT-TATATT
24128274 TGTGAAGTAT
Statistics
Matches: 60, Mismatches: 6, Indels: 17
0.72 0.07 0.20
Matches are distributed among these distances:
35 16 0.27
36 10 0.17
38 1 0.02
39 5 0.08
42 25 0.42
43 3 0.05
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (35 bp):
TATATATTATGTAAATATTTTAATATTATATTATA
Found at i:24128251 original size:17 final size:17
Alignment explanation
Indices: 24128190--24128251 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
24128180 ATTTTAATAT
24128190 TATATTATATATATTTTCA
1 TATATTAT-TATATTTT-A
24128209 TATATTA-TATATGTTT-
1 TATATTATTATAT-TTTA
*
24128225 T-TAATATTATATTTTA
1 TATATTATTATATTTTA
24128241 TATATTATTAT
1 TATATTATTAT
24128252 GTATATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 7 0.19
16 7 0.19
17 13 0.35
18 3 0.08
19 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATTATTATATTTTA
Found at i:24128286 original size:35 final size:34
Alignment explanation
Indices: 24128195--24128274 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 34
24128185 AATATTATAT
*
24128195 TATATATATTTTCATATATTATATATGTTTTTAA
1 TATATATATTTTCATATATTATATATATTTTTAA
24128229 TAT-TATATTTT-ATATATTATTATGTATATTTTTAA
1 TATATATATTTTCATATATTA-TA--TATATTTTTAA
24128264 TATATATATTT
1 TATATATATTT
24128275 GTGAAGTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
32 8 0.20
33 10 0.24
34 3 0.07
35 13 0.32
36 7 0.17
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (34 bp):
TATATATATTTTCATATATTATATATATTTTTAA
Found at i:24129208 original size:15 final size:15
Alignment explanation
Indices: 24129190--24129223 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24129180 TTTATACTAT
*
24129190 GTATATATATATTTA
1 GTATATATATATTCA
*
24129205 GTATGTATATATTCA
1 GTATATATATATTCA
24129220 GTAT
1 GTAT
24129224 TATTATGCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.12, T:0.50
Consensus pattern (15 bp):
GTATATATATATTCA
Found at i:24129209 original size:19 final size:21
Alignment explanation
Indices: 24129168--24129216 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
24129158 TAATATGTAT
*
24129168 TGTATATATTTATTTATACTA
1 TGTATATATATATTTATACTA
*
24129189 TGTATATATATA-TT-TAGTA
1 TGTATATATATATTTATACTA
24129208 TGTATATAT
1 TGTATATAT
24129217 TCAGTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 13 0.50
20 2 0.08
21 11 0.42
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (21 bp):
TGTATATATATATTTATACTA
Found at i:24129476 original size:34 final size:34
Alignment explanation
Indices: 24129423--24129488 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
24129413 TACTATCGCA
**
24129423 CGTATATTGTTAATGTTTTA-TATATTGTCTATTT
1 CGTATATTGTTAACCTTTTATTAT-TTGTCTATTT
*
24129457 CGTATATTTTTAACCTTTTATTATTTGTCTAT
1 CGTATATTGTTAACCTTTTATTATTTGTCTAT
24129489 CCCGAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 25 0.89
35 3 0.11
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (34 bp):
CGTATATTGTTAACCTTTTATTATTTGTCTATTT
Found at i:24133797 original size:3 final size:3
Alignment explanation
Indices: 24133767--24134094 Score: 140
Period size: 3 Copynumber: 108.7 Consensus size: 3
24133757 TAATTTAATA
* * * *
24133767 TAT TTT TAT TACT TAT TAT T-T TAC TAT TAT TGT CTAA TA- TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * *
24133812 TAT CAC TAT TAT TAT TAC TCT TAT T-T TCAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * *
24133857 TAT TAT TAT TAT TATT TAT T-T TCT T-T T-T TAC TAT TGT TAT TAGT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * * *
24133901 GACC TAT TAC TAT TCT TAT TAG CA- TAC TAT TAT T-T CCTAT T-T TA-
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT --TAT TAT TAT
* * * * * *
24133945 TAT TAT TAT TGT TAT CAA CAT ATAT TAT TAT CAT TAAT GTAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T-AT -TAT TAT TAT
** *
24133993 TCCC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCCT T-T TAT TATT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TA-T
* * * * * **
24134040 TAT TAT CAA TA- TAT TAT TAT TAT TAT TAT TGT TAT TGT TGT TAT TGC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
24134087 TAT TAT TA
1 TAT TAT TA
24134095 CCACCTTATT
Statistics
Matches: 243, Mismatches: 58, Indels: 48
0.70 0.17 0.14
Matches are distributed among these distances:
2 22 0.09
3 194 0.80
4 25 0.10
5 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:24133805 original size:39 final size:38
Alignment explanation
Indices: 24133755--24133873 Score: 138
Period size: 36 Copynumber: 3.2 Consensus size: 38
24133745 AATTAAATTA
* *
24133755 ATTAATTTAATATATTTTTATTACTTATTATT-TTACT
1 ATTATTTTAATATATTATTATTACTTATTATTATTACT
*
24133792 ATTATTGTCTAATATATTATTATCAC-TATTATTATTACT
1 ATTATT-T-TAATATATTATTATTACTTATTATTATTACT
* * *
24133831 CTTATTTTCAT-TATTATTATTA-TTATTATTATTATT
1 ATTATTTTAATATATTATTATTACTTATTATTATTACT
24133867 ATTATTT
1 ATTATTT
24133874 ATTTTCTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
36 28 0.40
37 8 0.11
38 9 0.13
39 25 0.36
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (38 bp):
ATTATTTTAATATATTATTATTACTTATTATTATTACT
Found at i:24134207 original size:17 final size:17
Alignment explanation
Indices: 24134185--24134218 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24134175 TTTTATTATC
24134185 ATTATTACTATCATATT
1 ATTATTACTATCATATT
*
24134202 ATTATTACTATTATATT
1 ATTATTACTATCATATT
24134219 TTCATCTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTATTACTATCATATT
Found at i:24137234 original size:14 final size:13
Alignment explanation
Indices: 24137201--24137238 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
24137191 CAAAAAATCA
*
24137201 TTTTTTAATAAAT
1 TTTTTTAAAAAAT
24137214 TTTTTTAAAAAAT
1 TTTTTTAAAAAAT
24137227 TTTATTTAAAAA
1 TTT-TTTAAAAA
24137239 TAATTAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTTTAAAAAAT
Found at i:24137361 original size:15 final size:16
Alignment explanation
Indices: 24137341--24137370 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24137331 GATGAGTTCA
24137341 AAATTA-AAAAAATAG
1 AAATTATAAAAAATAG
24137356 AAATTATAAAAAATA
1 AAATTATAAAAAATA
24137371 TTAATAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAATTATAAAAAATAG
Found at i:24140426 original size:40 final size:40
Alignment explanation
Indices: 24140382--24140531 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
24140372 GTGTTTTTAG
*
24140382 TCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* * * *
24140422 TCTGCTCCACTATTGCTTAGGGAAATAAGATCTGTGGT-TG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGCGA
*
24140462 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
* *
24140502 TCTACTCCATTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
24140532 TTGTAATCTT
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 83 0.88
41 3 0.03
42 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
Found at i:24140519 original size:80 final size:80
Alignment explanation
Indices: 24140381--24140532 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 80
24140371 TGTGTTTTTA
* * *
24140381 GTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAA
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCACTACTGCTTAGGGAA
24140446 ATAAGATCTGTGGTT
66 ATAAGATCTGTGGTT
* * *
24140461 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCATTACTGCTTAGGGAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCACTACTGCTTAGGGAA
24140526 ATAAGAT
66 ATAAGAT
24140533 TGTAATCTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (80 bp):
GTCTGCTCCACTACTACTTAGGGAGATAAGACTTAATGCGATCTACTCCACTACTGCTTAGGGAA
ATAAGATCTGTGGTT
Found at i:24140788 original size:130 final size:129
Alignment explanation
Indices: 24140503--24140790 Score: 323
Period size: 132 Copynumber: 2.2 Consensus size: 129
24140493 TTAATGCGAT
* * ** *
24140503 CTACTCCATTACTGCTTAGGGAGATAAGATTGTAATCTTCGATCTATTCCACTGTTTCCCAGGGA
1 CTACTCCATTACTGCTTAGGGAGATAAGATTGTAATCCTCAATCTATTCCACTGAATCACAGGGA
*
24140568 AGTAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGTGAGGTAAAATCCGCCGTCTTCAAC
66 AGTAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAAC
* *
24140632 CTACTCCATTATTTCTTAGGGAGATAAGATCTGTAATCCTCAATCTATTCCACTGCCAAAT-ACA
1 CTACTCCATTACTGCTTAGGGAGATAAGAT-TGTAATCCTCAATCTATTCCACTG---AATCACA
** * * * * **
24140696 GGG-AGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGTGGT-TT
62 GGGAAG-TAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTT
**
24140759 C-GT
126 CAAC
* *
24140762 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTACTCCATTACTGCTTAGGGAGATAAGA
24140791 CTTGATGCGA
Statistics
Matches: 132, Mismatches: 22, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
129 28 0.21
130 47 0.36
131 5 0.04
132 51 0.39
133 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (129 bp):
CTACTCCATTACTGCTTAGGGAGATAAGATTGTAATCCTCAATCTATTCCACTGAATCACAGGGA
AGTAGAACTACCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCCGCCGTCTTCAAC
Found at i:24149827 original size:14 final size:14
Alignment explanation
Indices: 24149808--24149839 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
24149798 ACAATAATAC
24149808 TATATATAAATGTA
1 TATATATAAATGTA
*
24149822 TATATATATATGTA
1 TATATATAAATGTA
24149836 TATA
1 TATA
24149840 ATAGAAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (14 bp):
TATATATAAATGTA
Found at i:24149945 original size:19 final size:17
Alignment explanation
Indices: 24149921--24149963 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
24149911 AATTAAAGTA
*
24149921 ATAAAAAATAATACTATAT
1 ATAAAAAAT-ATA-TATAC
*
24149940 ATAAAATATATATATAC
1 ATAAAAAATATATATAC
24149957 ATAAAAA
1 ATAAAAA
24149964 TTACACTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 3 0.14
19 8 0.38
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAAAATATATATAC
Found at i:24149947 original size:17 final size:17
Alignment explanation
Indices: 24149925--24149962 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
24149915 AAAGTAATAA
*
24149925 AAAATA-ATACTATATAT
1 AAAATATATA-TATACAT
24149942 AAAATATATATATACAT
1 AAAATATATATATACAT
24149959 AAAA
1 AAAA
24149963 ATTACACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATATATATACAT
Found at i:24150197 original size:3 final size:3
Alignment explanation
Indices: 24150184--24150269 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
24150174 AGAGGCATAT
24150184 ATA AT- ATA ATA ATA AT- ATA A-A A-A ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
24150228 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24150270 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 13 0.19
3 46 0.68
4 7 0.10
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:24150210 original size:18 final size:18
Alignment explanation
Indices: 24150189--24150269 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
24150179 CATATATAAT
24150189 ATAATAATAATATAAAAA
1 ATAATAATAATATAAAAA
* *
24150207 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-ATAAAAA
*
24150228 ATAATAATAATATAAATA
1 ATAATAATAATATAAAAA
*
24150246 ATAGTAA-AA-ATAATAAA
1 ATAATAATAATATAA-AAA
24150263 ATAATAA
1 ATAATAA
24150270 AACAAAGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 4 0.08
17 10 0.19
18 18 0.34
19 5 0.09
20 5 0.09
21 11 0.21
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
ATAATAATAATATAAAAA
Found at i:24150623 original size:22 final size:23
Alignment explanation
Indices: 24150597--24150647 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
24150587 TAACCTTTTT
24150597 TCCAAAAAAACAAAAAAA-CACC
1 TCCAAAAAAACAAAAAAACCACC
*
24150619 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAACCACC
24150641 TCCAAAA
1 TCCAAAA
24150648 CAAAGAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (23 bp):
TCCAAAAAAACAAAAAAACCACC
Found at i:24150625 original size:21 final size:22
Alignment explanation
Indices: 24150601--24150697 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 22
24150591 CTTTTTTCCA
24150601 AAAAAACAAAAAAA-CACCTCC
1 AAAAAACAAAAAAACCACCTCC
*
24150622 AAAAAACAAAAAAACCTCCTCC
1 AAAAAACAAAAAAACCACCTCC
**
24150644 --AAAACAAAGAACAATCCTTCTCC
1 AAAAAACAAA-AA-AA-CCACCTCC
*
24150667 AAAAAAC-CAAAAACCTACC-CC
1 AAAAAACAAAAAAACC-ACCTCC
*
24150688 CAAAAACAAA
1 AAAAAACAAA
24150698 GTCTTGAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 15
0.73 0.08 0.18
Matches are distributed among these distances:
20 8 0.13
21 26 0.43
22 12 0.20
23 9 0.15
24 1 0.02
25 5 0.08
ACGTcount: A:0.60, C:0.31, G:0.01, T:0.08
Consensus pattern (22 bp):
AAAAAACAAAAAAACCACCTCC
Found at i:24150978 original size:20 final size:21
Alignment explanation
Indices: 24150929--24150978 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
24150919 AGGATTATTC
24150929 TTTG-TTTTGGAGGAGGTTTT
1 TTTGTTTTTGGAGGAGGTTTT
*
24150949 TTTGTTTTTTGGAGG-TGTTTT
1 TTTG-TTTTTGGAGGAGGTTTT
24150970 TTTGTTTTT
1 TTTGTTTTT
24150979 TTGGAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 9 0.33
22 9 0.33
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (21 bp):
TTTGTTTTTGGAGGAGGTTTT
Found at i:24150983 original size:22 final size:22
Alignment explanation
Indices: 24150933--24150979 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
24150923 TTATTCTTTG
24150933 TTTTGGAGGAGGTTTTTTTGTT
1 TTTTGGAGGAGGTTTTTTTGTT
*
24150955 TTTTGGAGG-TGTTTTTTTGTT
1 TTTTGGAGGAGGTTTTTTTGTT
24150976 TTTT
1 TTTT
24150980 TGGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.06, C:0.00, G:0.28, T:0.66
Consensus pattern (22 bp):
TTTTGGAGGAGGTTTTTTTGTT
Found at i:24151324 original size:3 final size:3
Alignment explanation
Indices: 24151310--24151383 Score: 54
Period size: 3 Copynumber: 25.3 Consensus size: 3
24151300 GAGCTTTGTT
24151310 TTA TTA TT- TTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA TGTA TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A T-TA T-TA
24151357 TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24151384 ATATGCCCTC
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
2 12 0.20
3 40 0.67
4 6 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:24151341 original size:18 final size:18
Alignment explanation
Indices: 24151311--24151387 Score: 86
Period size: 18 Copynumber: 4.2 Consensus size: 18
24151301 AGCTTTGTTT
24151311 TATTATT-TTATTATTTA
1 TATTATTATTATTATTTA
*
24151328 TATTATTATTATTATTTC
1 TATTATTATTATTATTTA
*
24151346 TCATGTATATATTATTTTTTA
1 T-AT-TAT-TATTATTATTTA
24151367 TATTATTATTA-TATTATA
1 TATTATTATTATTATT-TA
24151385 TAT
1 TAT
24151388 GCCCTCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
17 10 0.20
18 20 0.39
19 5 0.10
20 5 0.10
21 11 0.22
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TATTATTATTATTATTTA
Found at i:24151625 original size:18 final size:19
Alignment explanation
Indices: 24151589--24151647 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
24151579 ACTATTACTA
*
24151589 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
24151609 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
24151626 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
24151644 TTAT
1 TTAT
24151648 TACTTTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 12 0.35
18 14 0.41
19 2 0.06
20 6 0.18
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:24151629 original size:17 final size:18
Alignment explanation
Indices: 24151589--24151644 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 18
24151579 ACTATTACTA
*
24151589 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATA-TT
*
24151609 TTATGTATA-TATATATT
1 TTATATATAGTATATATT
24151626 TTATATATAGTAT-TATT
1 TTATATATAGTATATATT
24151643 TT
1 TT
24151645 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 16 0.50
18 8 0.25
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (18 bp):
TTATATATAGTATATATT
Found at i:24151743 original size:12 final size:12
Alignment explanation
Indices: 24151726--24151755 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24151716 GTATTTCTAT
24151726 TATATACATATA
1 TATATACATATA
*
24151738 TATATACATTTA
1 TATATACATATA
24151750 TATATA
1 TATATA
24151756 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:24162966 original size:44 final size:44
Alignment explanation
Indices: 24162786--24163356 Score: 331
Period size: 44 Copynumber: 12.9 Consensus size: 44
24162776 TCATTAAAGT
* * * *
24162786 AGATCTTGTCTTCATGTATT-GACGTGAAGCAGATTGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGA-GTGAAGTAGATCGAAGATAGC
* * * * * * *
24162830 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAGGAT-GC
1 AGATCTTGTCTTCCTATATTG-GAGTGAAGTAGATCGAAGATAGC
* * * * * *
24162873 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGT
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * * *
24162918 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGC
1 AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
* * * *
24162962 AGATCCTATCTTTCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * * * *
24163005 AGATCTTGTCTTCCCATATT-GATGGCGAAGTATATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGGA--GTGAAGTAGATCGAAGATAGC
* * * * *
24163050 AGATCTTGTATTCATGTATTTGTGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
* * * * * * *
24163094 AGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAATAT-GC
1 AGATCTTGTCTTCCTATATTG-GAGTGAAGTAGATCGAAGATAGC
* * * *
24163137 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAA-AAAGC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCG-AAGATAGC
* * *
24163182 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
1 AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
* * ** *
24163226 ATG-TCCTATCTTCCTATATTAATAG-GAAGT-GAATCCAAGAT-GC
1 A-GATCTTGTCTTCCTATATT-GGAGTGAAGTAG-ATCGAAGATAGC
* * * * * *
24163269 AGATCTTGTCTTCCCATACTGGTGGTTAAGTAGATTGAAGATTGC
1 AGATCTTGTCTTCCTATATTGG-AGTGAAGTAGATCGAAGATAGC
* * * * *
24163314 AGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGAT
1 AGATCTTGTCTTCCTATA-TTGG-AGTGAAGTAGATCGAAGAT
24163357 GGCAAATTTT
Statistics
Matches: 388, Mismatches: 113, Indels: 50
0.70 0.21 0.09
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 79 0.20
44 204 0.53
45 84 0.22
46 18 0.05
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
AGATCTTGTCTTCCTATATTGGAGTGAAGTAGATCGAAGATAGC
Found at i:24163018 original size:132 final size:132
Alignment explanation
Indices: 24162781--24163356 Score: 837
Period size: 132 Copynumber: 4.3 Consensus size: 132
24162771 TGAAGTCATT
* * * *
24162781 AAAGTAGATCTTGTCTTCATGTATTGACGTGAAGCAGATTGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
*
24162846 TATTGATAGGAAGTGGATCCAGGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
24162911 AG
131 AG
* * * *
24162913 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTTCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
* * * *
24162978 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGATGGCGAAGTATATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
24163043 AG
131 AG
* * *
24163045 AAAGCAGATCTTGTATTCATGTATTTGTGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
*
24163110 TATTGATAGGAAGTGGATCCAATATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
*
24163175 AA
131 AG
*
24163177 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCATGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
* * * ** * *
24163242 TATTAATAGGAAGTGAATCCAAGATGCAGATCTTGTCTTCCCATACTGGTGGTTAAGTAGATTGA
66 TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
24163307 AG
131 AG
** * * * * *
24163309 ATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGAT
1 AAAGCAGATCTTGTCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGAT
24163357 GGCAAATTTT
Statistics
Matches: 398, Mismatches: 44, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
132 378 0.95
133 5 0.01
134 15 0.04
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
TATTGATAGGAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGC
AG
Found at i:24163478 original size:134 final size:136
Alignment explanation
Indices: 24163299--24163603 Score: 499
Period size: 136 Copynumber: 2.3 Consensus size: 136
24163289 GGTGGTTAAG
*
24163299 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGGCAAA
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAA-ATGGCAAA
* *
24163363 TTTTACCTCTCTG-ATC-ACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGC
65 TTTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGC
24163426 AGTGGAA
130 AGTGGAA
* * *
24163433 TAGATTGAATATTACAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAAATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAAATGGCAAAT
*
24163498 TTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCA
66 TTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCA
24163563 GTGGAA
131 GTGGAA
* *
24163569 TAGATTGAAGATTGCAGATCCTGCCTTCCTATATT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATT
24163604 GGTAGGAAGT
Statistics
Matches: 157, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
134 68 0.43
135 5 0.03
136 84 0.54
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (136 bp):
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAAATGGCAAAT
TTTACCTCCCTGTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCACTGTATCTGGCA
GTGGAA
Found at i:24163816 original size:40 final size:39
Alignment explanation
Indices: 24163764--24163915 Score: 169
Period size: 40 Copynumber: 3.7 Consensus size: 39
24163754 AAGATTACAA
*
24163764 TCTTATCTCCCTAAGCAGTAGTAGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGT-GAGCAGATCGCATTAAG
*** *
24163804 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATAAAACTACAG
1 TCTTATCTCCCTAAGCAGTAGT-GAGCAGATCGCATTA-AG
* * *
24163845 ATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTG-AGCAGATCGCATTAAG
*
24163886 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGCAGTAGT-GAGCAGA
24163916 CTAAAAACAC
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
40 57 0.62
41 6 0.07
42 29 0.32
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (39 bp):
TCTTATCTCCCTAAGCAGTAGTGAGCAGATCGCATTAAG
Found at i:24163858 original size:82 final size:82
Alignment explanation
Indices: 24163759--24163921 Score: 249
Period size: 82 Copynumber: 2.0 Consensus size: 82
24163749 GATCGAAGAT
* * *
24163759 TACAATCTTATCTCCCTAAGCAGTAGT-AGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGT
1 TACAATCTTATCTCCCTAAGCAATAGTGA-AGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGT
24163823 AGTGGAGCAGA-TAAAAC
65 AGTGGAGCAGACTAAAAC
* *
24163840 TACAGATCTTATTTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGT
1 TACA-ATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGT
24163905 AGTGGAGCAGACTAAAA
65 AGTGGAGCAGACTAAAA
24163922 ACACAAATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
81 4 0.05
82 64 0.86
83 6 0.08
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (82 bp):
TACAATCTTATCTCCCTAAGCAATAGTGAAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTA
GTGGAGCAGACTAAAAC
Found at i:24164433 original size:21 final size:22
Alignment explanation
Indices: 24164398--24164447 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
24164388 TTGTTCTTTA
*
24164398 TTTTGGAGGAGGTTTTTTTGTT
1 TTTTGGAGGAGGTTTTTTTATT
*
24164420 TTTTGGAGG-TGTTTTTTTATT
1 TTTTGGAGGAGGTTTTTTTATT
24164441 TTTTGGA
1 TTTTGGA
24164448 AAAAAGGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (22 bp):
TTTTGGAGGAGGTTTTTTTATT
Found at i:24164789 original size:3 final size:3
Alignment explanation
Indices: 24164775--24164848 Score: 54
Period size: 3 Copynumber: 25.3 Consensus size: 3
24164765 GAGCTTTGTT
24164775 TTA TTA TT- TTA TTA TT- TATA TTA TTA TTA TTA TT- TCTCA TGTA TATA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-T-A T-TA T-TA
24164822 TTA TT- TT- TTA -TA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24164849 ATATGCCCTC
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
2 12 0.20
3 40 0.67
4 6 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:24164806 original size:18 final size:18
Alignment explanation
Indices: 24164776--24164852 Score: 86
Period size: 18 Copynumber: 4.2 Consensus size: 18
24164766 AGCTTTGTTT
24164776 TATTATT-TTATTATTTA
1 TATTATTATTATTATTTA
*
24164793 TATTATTATTATTATTTC
1 TATTATTATTATTATTTA
*
24164811 TCATGTATATATTATTTTTTA
1 T-AT-TAT-TATTATTATTTA
24164832 TATTATTATTA-TATTATA
1 TATTATTATTATTATT-TA
24164850 TAT
1 TAT
24164853 GCCCTCTCCA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
17 10 0.20
18 20 0.39
19 5 0.10
20 5 0.10
21 11 0.22
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
TATTATTATTATTATTTA
Found at i:24165034 original size:18 final size:18
Alignment explanation
Indices: 24164977--24165034 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
24164967 ACCCCTATTG
24164977 TTATTACTT-TATTTTT-
1 TTATTACTTATATTTTTA
* *
24164993 GTATT-CTAATATATTATTA
1 TTATTACT--TATATTTTTA
*
24165012 ATATTACTTATATTTTTA
1 TTATTACTTATATTTTTA
24165030 TTATT
1 TTATT
24165035 TTTGCTATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
15 2 0.06
16 4 0.12
17 1 0.03
18 19 0.59
19 4 0.12
20 2 0.06
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTACTTATATTTTTA
Found at i:24165037 original size:45 final size:47
Alignment explanation
Indices: 24164985--24165077 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 47
24164975 TGTTATTACT
*
24164985 TTATTTTTG-TATTCTAATA-TATTATTA-ATATTACT-TATATTTTTA
1 TTATTTTTGCTA-TC-AATATTACTATTATATATTACTGTATATTTTTA
* *
24165030 TTATTTTTGCTATCACTATTACTATTATATATTAGTGTATATTTTTA
1 TTATTTTTGCTATCAATATTACTATTATATATTACTGTATATTTTTA
24165077 T
1 T
24165078 GTATATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
44 3 0.07
45 18 0.44
46 9 0.22
47 11 0.27
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.60
Consensus pattern (47 bp):
TTATTTTTGCTATCAATATTACTATTATATATTACTGTATATTTTTA
Found at i:24165090 original size:18 final size:19
Alignment explanation
Indices: 24165054--24165110 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 19
24165044 ACTATTACTA
*
24165054 TTATATATTAGTGTATATTT
1 TTATATA-TAGTATATATTT
*
24165074 TTATGTATA-TATATA-TT
1 TTATATATAGTATATATTT
24165091 TTATATATAGTAT-TATTT
1 TTATATATAGTATATATTT
24165109 TT
1 TT
24165111 TATTACTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 12 0.38
18 12 0.38
19 2 0.06
20 6 0.19
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (19 bp):
TTATATATAGTATATATTT
Found at i:24165212 original size:12 final size:12
Alignment explanation
Indices: 24165195--24165224 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24165185 GTATTTCTAT
24165195 TATATACATATA
1 TATATACATATA
*
24165207 TATATACATTTA
1 TATATACATATA
24165219 TATATA
1 TATATA
24165225 GTATTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATACATATA
Found at i:24169534 original size:28 final size:29
Alignment explanation
Indices: 24169503--24169595 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
24169493 GCAGCCAAGT
*
24169503 TGAGAGATGAAGAGCCTTGATGAAAGA-A
1 TGAGAGACGAAGAGCCTTGATGAAAGAGA
* *
24169531 TGAGAGACGAAGAGCTTTGATAAAAGAGA
1 TGAGAGACGAAGAGCCTTGATGAAAGAGA
* * *
24169560 TGAGAGACGAAGAGTCTAGATGAAAGGGA
1 TGAGAGACGAAGAGCCTTGATGAAAGAGA
*
24169589 TGTGAGA
1 TGAGAGA
24169596 GGGATTTTCA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 24 0.44
29 31 0.56
ACGTcount: A:0.42, C:0.06, G:0.34, T:0.17
Consensus pattern (29 bp):
TGAGAGACGAAGAGCCTTGATGAAAGAGA
Found at i:24169572 original size:29 final size:28
Alignment explanation
Indices: 24169503--24169573 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
24169493 GCAGCCAAGT
* *
24169503 TGAGAGATGAAGAGCCTTGATGAAAGAA
1 TGAGAGACGAAGAGCCTTGATAAAAGAA
*
24169531 TGAGAGACGAAGAGCTTTGATAAAAGAGA
1 TGAGAGACGAAGAGCCTTGATAAAAGA-A
24169560 TGAGAGACGAAGAG
1 TGAGAGACGAAGAG
24169574 TCTAGATGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 24 0.62
29 15 0.38
ACGTcount: A:0.44, C:0.07, G:0.34, T:0.15
Consensus pattern (28 bp):
TGAGAGACGAAGAGCCTTGATAAAAGAA
Found at i:24171207 original size:18 final size:18
Alignment explanation
Indices: 24171186--24171224 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24171176 ATTTTTTTAG
*
24171186 TTTTTA-AATTTTTAATT
1 TTTTTATAATTTCTAATT
24171203 TTTTTATAATTTCTAATT
1 TTTTTATAATTTCTAATT
24171221 TTTT
1 TTTT
24171225 AGTTTTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTATAATTTCTAATT
Found at i:24171223 original size:26 final size:25
Alignment explanation
Indices: 24171177--24171230 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
24171167 TGAAACTTGA
* *
24171177 TTTTTTTAGTTTTTAAATTTTTAAT
1 TTTTTTTAATTTCTAAATTTTTAAT
* *
24171202 TTTTTTATAATTTCTAATTTTTTAGT
1 TTTTTT-TAATTTCTAAATTTTTAAT
24171228 TTT
1 TTT
24171231 GAACTCATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTTTTTAATTTCTAAATTTTTAAT
Found at i:24174639 original size:32 final size:32
Alignment explanation
Indices: 24174602--24174673 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
24174592 CGATGGTTGT
24174602 GACGACAACGATCCGGCGACCGACAGATGGTC
1 GACGACAACGATCCGGCGACCGACAGATGGTC
* * ****
24174634 GACGACAATGGTTTTTCGACCGACAGATGGTC
1 GACGACAACGATCCGGCGACCGACAGATGGTC
*
24174666 GGCGACAA
1 GACGACAA
24174674 TAATTCTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.26, G:0.31, T:0.15
Consensus pattern (32 bp):
GACGACAACGATCCGGCGACCGACAGATGGTC
Found at i:24175274 original size:12 final size:12
Alignment explanation
Indices: 24175253--24175303 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
24175243 TGACGTGGCA
*
24175253 GAGGAGGACGAT
1 GAGGATGACGAT
* *
24175265 GAGGAAGACGAA
1 GAGGATGACGAT
*
24175277 GATGATGACGAT
1 GAGGATGACGAT
*
24175289 GACGATGACGAT
1 GAGGATGACGAT
24175301 GAG
1 GAG
24175304 CTATATGGCG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.37, C:0.10, G:0.41, T:0.12
Consensus pattern (12 bp):
GAGGATGACGAT
Found at i:24175289 original size:6 final size:6
Alignment explanation
Indices: 24175259--24175302 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
24175249 GGCAGAGGAG
* * * *
24175259 GACGAT GAGGAA GACGAA GATGAT GACGAT GACGAT GACGAT GA
1 GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GA
24175303 GCTATATGGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.36, T:0.14
Consensus pattern (6 bp):
GACGAT
Found at i:24175575 original size:16 final size:16
Alignment explanation
Indices: 24175546--24175586 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
24175536 TCAAATTCAA
*
24175546 AACTTAAATTTAGTTC
1 AACTTAAATATAGTTC
*
24175562 AACTTCAATATAGTTC
1 AACTTAAATATAGTTC
24175578 AACTTAAAT
1 AACTTAAAT
24175587 TCAAAACTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (16 bp):
AACTTAAATATAGTTC
Found at i:24184514 original size:2 final size:2
Alignment explanation
Indices: 24184507--24184535 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24184497 GACCAATTAT
24184507 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
24184536 TAATTATAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:24191554 original size:15 final size:15
Alignment explanation
Indices: 24191532--24191579 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
24191522 TTTTTTAAGA
24191532 TTACATTTTAATCAC
1 TTACATTTTAATCAC
* *
24191547 TTATATTTGAAAT-A-
1 TTACATTT-TAATCAC
24191561 TTACATTTTAATCAC
1 TTACATTTTAATCAC
24191576 TTAC
1 TTAC
24191580 GTTATCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
13 3 0.12
14 8 0.31
15 12 0.46
16 3 0.12
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (15 bp):
TTACATTTTAATCAC
Found at i:24195789 original size:35 final size:37
Alignment explanation
Indices: 24195745--24195815 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
24195735 AGAACAACTA
*
24195745 AATTATACAAAAC-ATAAAGAAATCATGACACTGGTT
1 AATTATACAAAACTAAAAAGAAATCATGACACTGGTT
24195781 AATT-TACAAAACTTAAAAAGAAATCATGACACTGG
1 AATTATACAAAAC-TAAAAAGAAATCATGACACTGG
24195816 AAGCTATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 8 0.25
36 4 0.12
37 20 0.62
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (37 bp):
AATTATACAAAACTAAAAAGAAATCATGACACTGGTT
Found at i:24198015 original size:14 final size:14
Alignment explanation
Indices: 24197977--24198009 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24197967 CAATTAACTG
24197977 AAAATTAATTTTTT
1 AAAATTAATTTTTT
24197991 AAAATTAATTTTTT
1 AAAATTAATTTTTT
*
24198005 TAAAT
1 AAAAT
24198010 ACATTTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
AAAATTAATTTTTT
Found at i:24203646 original size:39 final size:39
Alignment explanation
Indices: 24203603--24203703 Score: 139
Period size: 39 Copynumber: 2.6 Consensus size: 39
24203593 ATCGTGATCT
* *
24203603 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACG
* *
24203642 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACG
* * *
24203681 GAAGCCCGGAGGCTAACTGAAGC
1 GAAGCCCGAAAGCTAACTAAAGC
24203704 TCATCAGAGC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAAGCTAACTAAAGCACATAAGTGCTAAACG
Found at i:24203685 original size:21 final size:21
Alignment explanation
Indices: 24203622--24203685 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
24203612 AATCTAGCTA
24203622 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
** *
24203643 AAGC-CCGAAG-GCT-AACTG
1 AAGCACATAAGTGCTAAACGG
24203661 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
24203682 AAGC
1 AAGC
24203686 CCGGAGGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
AAGCACATAAGTGCTAAACGG
Found at i:24207500 original size:25 final size:26
Alignment explanation
Indices: 24207468--24207543 Score: 111
Period size: 25 Copynumber: 3.0 Consensus size: 26
24207458 AACTATATTA
24207468 TTATTATTTTTTATTTTAAGTTTTTC
1 TTATTATTTTTTATTTTAAGTTTTTC
* * *
24207494 TTA-TATTATTTATTTTAAATTGTT-
1 TTATTATTTTTTATTTTAAGTTTTTC
24207518 TTATTATTTTTTATTTTAAGTTTTTC
1 TTATTATTTTTTATTTTAAGTTTTTC
24207544 ACGTATTATG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
24 3 0.07
25 36 0.86
26 3 0.07
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.71
Consensus pattern (26 bp):
TTATTATTTTTTATTTTAAGTTTTTC
Found at i:24207522 original size:50 final size:50
Alignment explanation
Indices: 24207468--24207562 Score: 154
Period size: 50 Copynumber: 1.9 Consensus size: 50
24207458 AACTATATTA
** *
24207468 TTATTATTTTTTATTTTAAGTTTTTCTTATATTATTTATTTTAAATTGTT
1 TTATTATTTTTTATTTTAAGTTTTTCACATATTATGTATTTTAAATTGTT
*
24207518 TTATTATTTTTTATTTTAAGTTTTTCACGTATTATGTATTTTAAA
1 TTATTATTTTTTATTTTAAGTTTTTCACATATTATGTATTTTAAA
24207563 CTATTATCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 41 1.00
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.66
Consensus pattern (50 bp):
TTATTATTTTTTATTTTAAGTTTTTCACATATTATGTATTTTAAATTGTT
Found at i:24207550 original size:25 final size:24
Alignment explanation
Indices: 24207472--24207561 Score: 81
Period size: 25 Copynumber: 3.6 Consensus size: 24
24207462 ATATTATTAT
* *
24207472 TATTTTTTATTTTAAGTTTTTCTTA
1 TATTATTTATTTTAAGTTTTTC-AA
* * *
24207497 TATTATTTATTTTAAATTGTTTTAT
1 TATTATTTATTTTAAGTT-TTTCAA
* *
24207522 TATTTTTTATTTTAAGTTTTTCACG
1 TATTATTTATTTTAAGTTTTTCA-A
*
24207547 TATTATGTATTTTAA
1 TATTATTTATTTTAA
24207562 ACTATTATCC
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
24 4 0.08
25 45 0.87
26 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (24 bp):
TATTATTTATTTTAAGTTTTTCAA
Found at i:24207644 original size:27 final size:28
Alignment explanation
Indices: 24207591--24207717 Score: 102
Period size: 28 Copynumber: 4.5 Consensus size: 28
24207581 ATTTTAAAGG
24207591 TTATTTATTTTAAA--ATTTTTATATATA
1 TTATTTATTTTAAATTATTTTT-TATATA
*
24207618 TTATTTATTTTGAATTATTTTTTTATATA
1 TTATTTATTTTAAATTA-TTTTTTATATA
* * * *
24207647 TATCTTTTATTTTTAAACTA--TTTTGTACA
1 T-T-ATTTA-TTTTAAATTATTTTTTATATA
*
24207676 TTATTTATTTTAAATT-TCTTTTTACATA
1 TTATTTATTTTAAATTAT-TTTTTATATA
*
24207704 TTATTTATCTTAAA
1 TTATTTATTTTAAA
24207718 CTCTTTTATA
Statistics
Matches: 79, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
26 8 0.10
27 17 0.22
28 20 0.25
29 16 0.20
30 6 0.08
31 4 0.05
32 8 0.10
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
TTATTTATTTTAAATTATTTTTTATATA
Found at i:24207701 original size:26 final size:26
Alignment explanation
Indices: 24207591--24207858 Score: 153
Period size: 26 Copynumber: 10.2 Consensus size: 26
24207581 ATTTTAAAGG
24207591 TTATTTATTTTAAAATTT-TTATATATA
1 TTATTTATTTT-AAATTTCTT-TATATA
*
24207618 TTATTTATTTTGAATTATTTTTTTATATA
1 TTATTTATTTT-AA--ATTTCTTTATATA
* * * *
24207647 TATCTTTTATTTTTAAACTAT-TTTGTACA
1 T-T-ATTTA-TTTTAAA-TTTCTTTATATA
*
24207676 TTATTTATTTTAAATTTCTTTTTACATA
1 TTATTTATTTTAAATTTC--TTTATATA
* *
24207704 TTATTTATCTTAAA-CTCTTT-TATA
1 TTATTTATTTTAAATTTCTTTATATA
* *
24207728 -T-GTTATTTTAAAGTGTC-TTATATA
1 TTATTTATTTTAAA-TTTCTTTATATA
* * *
24207752 TTATCTATTTTAAATTGCTTTGTATA
1 TTATTTATTTTAAATTTCTTTATATA
* * *
24207778 TTATCTATTTT-AATCTGTTTATATA
1 TTATTTATTTTAAATTTCTTTATATA
* * *
24207803 TTATTTATTTTAAA-ATGTTT-TATG
1 TTATTTATTTTAAATTTCTTTATATA
* *
24207827 GTATTTACTTTAAATTGT-TTTATATA
1 TTATTTATTTTAAATT-TCTTTATATA
24207853 TTATTT
1 TTATTT
24207859 TGTTTTGTTT
Statistics
Matches: 188, Mismatches: 33, Indels: 41
0.72 0.13 0.16
Matches are distributed among these distances:
22 9 0.05
23 3 0.02
24 24 0.13
25 36 0.19
26 44 0.23
27 19 0.10
28 19 0.10
29 19 0.10
30 5 0.03
31 6 0.03
32 4 0.02
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (26 bp):
TTATTTATTTTAAATTTCTTTATATA
Found at i:24207857 original size:50 final size:48
Alignment explanation
Indices: 24207675--24207858 Score: 158
Period size: 50 Copynumber: 3.7 Consensus size: 48
24207665 TATTTTGTAC
* * * * *
24207675 ATTATTTATTTTAAATTTCTTTTTACATATTATTTATCTTAAACTCTTTT
1 ATTATTTATTTTAAA-TT-GTTTTATATATTATTTATTTTAAAATGTTTT
* * * *
24207725 A-TATGTTATTTTAAAGTGTCTTATATATTATCTATTTTAAATTGCTTTGTAT
1 ATTAT-TTATTTTAAATTGTTTTATATATTATTTATTTTAAAATG--TT-T-T
*
24207777 ATTATCTATTTT-AATCTG-TTTATATATTATTTATTTTAAAATGTTTT
1 ATTATTTATTTTAAAT-TGTTTTATATATTATTTATTTTAAAATGTTTT
*
24207824 ATGGTATTTACTTTAAATTGTTTTATATATTATTT
1 AT--TATTTATTTTAAATTGTTTTATATATTATTT
24207859 TGTTTTGTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 22
0.74 0.10 0.15
Matches are distributed among these distances:
47 3 0.03
48 21 0.19
49 16 0.15
50 30 0.28
51 25 0.23
52 10 0.09
53 3 0.03
ACGTcount: A:0.29, C:0.06, G:0.05, T:0.60
Consensus pattern (48 bp):
ATTATTTATTTTAAATTGTTTTATATATTATTTATTTTAAAATGTTTT
Found at i:24211560 original size:15 final size:17
Alignment explanation
Indices: 24211529--24211563 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
24211519 CTACACGTGG
24211529 TAATTTTATTTTAGTTT
1 TAATTTTATTTTAGTTT
24211546 TAATTTT-TTTT-GTTT
1 TAATTTTATTTTAGTTT
24211561 TAA
1 TAA
24211564 AATATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 4 0.22
17 7 0.39
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TAATTTTATTTTAGTTT
Found at i:24214538 original size:21 final size:21
Alignment explanation
Indices: 24214512--24214552 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24214502 ATCTGCTCAA
* *
24214512 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
24214533 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
24214553 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:24230173 original size:22 final size:21
Alignment explanation
Indices: 24230133--24230186 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
24230123 GTGTTTGAGG
* * *
24230133 TCTCGAAACAATTGTTCTTAGA
1 TCTCGAGACAAGTGGTCTT-GA
*
24230155 TCTCGAGACAAGTGGTCTTTA
1 TCTCGAGACAAGTGGTCTTGA
24230176 TCTCGAGACAA
1 TCTCGAGACAA
24230187 AAGAACATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (21 bp):
TCTCGAGACAAGTGGTCTTGA
Found at i:24237173 original size:46 final size:45
Alignment explanation
Indices: 24237120--24237292 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 45
24237110 TTTGGGATCT
24237120 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*** * *
24237166 GAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCC
* * *
24237213 GAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCC
*
24237259 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24237293 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.61
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCC
Found at i:24244013 original size:20 final size:20
Alignment explanation
Indices: 24243970--24244015 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
24243960 ACTGTTTTGT
*
24243970 TATGGG-CCAATTGTATTGA
1 TATGGGCCCAATTGTATTAA
* *
24243989 GATGGGCCCAATTGTGTTAA
1 TATGGGCCCAATTGTATTAA
24244009 TATGGGC
1 TATGGGC
24244016 AAGGCCCAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (20 bp):
TATGGGCCCAATTGTATTAA
Found at i:24249420 original size:19 final size:20
Alignment explanation
Indices: 24249393--24249439 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
24249383 CGAATACGCC
*
24249393 AACAAAAGCTCG-AAAGCTG
1 AACAGAAGCTCGAAAAGCTG
*
24249412 AACAGAAGCTCGTAAAAGTTG
1 AACAGAAGCTCG-AAAAGCTG
24249433 AACAGAA
1 AACAGAA
24249440 AGTAAAACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.17, G:0.21, T:0.13
Consensus pattern (20 bp):
AACAGAAGCTCGAAAAGCTG
Found at i:24253717 original size:20 final size:21
Alignment explanation
Indices: 24253692--24253742 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
24253682 GCAAATTAAT
*
24253692 AGACCTATCCATGGGTTGGG-
1 AGACCTATCCATGGGTCGGGC
24253712 AGACCTATCCATGGGTCGGGC
1 AGACCTATCCATGGGTCGGGC
24253733 AG-CCTATCCA
1 AGACCTATCCA
24253743 GCTAGACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.22
Consensus pattern (21 bp):
AGACCTATCCATGGGTCGGGC
Found at i:24254509 original size:25 final size:25
Alignment explanation
Indices: 24254481--24254532 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
24254471 ATCAAGTGAG
24254481 TATTTTTTATTTCAAAATATTACAT
1 TATTTTTTATTTCAAAATATTACAT
*
24254506 TATTTTTTATTTCAAAATGTTACAT
1 TATTTTTTATTTCAAAATATTACAT
24254531 TA
1 TA
24254533 ATAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (25 bp):
TATTTTTTATTTCAAAATATTACAT
Found at i:24257264 original size:22 final size:22
Alignment explanation
Indices: 24257206--24257264 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
24257196 TAAGTATAAA
24257206 AAAATAAATAAAA-AACATTTGT
1 AAAA-AAATAAAATAACATTTGT
* *
24257228 ATAAAAATATTAATAAC-TTTGT
1 AAAAAAATA-AAATAACATTTGT
24257250 AAAAAGAATAAAATA
1 AAAAA-AATAAAATA
24257265 TAGTTTTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 5 0.17
22 18 0.60
23 7 0.23
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (22 bp):
AAAAAAATAAAATAACATTTGT
Found at i:24263118 original size:23 final size:23
Alignment explanation
Indices: 24263056--24263119 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
24263046 TCGGAATTTT
*
24263056 TCATAACATATAACATATCGAAA
1 TCATATCATATAACATATCGAAA
* *
24263079 TCATATTATTTAACATATC-AAA
1 TCATATCATATAACATATCGAAA
*
24263101 GTCATATCATATATCATAT
1 -TCATATCATATAACATAT
24263120 AACATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 3 0.09
23 31 0.91
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (23 bp):
TCATATCATATAACATATCGAAA
Found at i:24270094 original size:13 final size:15
Alignment explanation
Indices: 24270066--24270094 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24270056 AAATCACTAA
24270066 TAATATTAATTTTTT
1 TAATATTAATTTTTT
24270081 TAAT-TTAATTTTTT
1 TAATATTAATTTTTT
24270095 CAATGAATTA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TAATATTAATTTTTT
Found at i:24270573 original size:22 final size:22
Alignment explanation
Indices: 24270548--24270591 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
24270538 TAGTCATATA
24270548 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * * *
24270570 ATAATTTTTTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
24270592 TATTTAATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:24272607 original size:40 final size:39
Alignment explanation
Indices: 24272552--24272718 Score: 190
Period size: 39 Copynumber: 4.2 Consensus size: 39
24272542 ATTTGATGTG
24272552 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTT-AAGACCCGCAGGCTATATGCTGGAATTA
24272592 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGGCTT-AAGACCCGCAGGCTATATGCTGGAATTA
* * ** *
24272632 TACCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
* * * ** ** *
24272671 TAACCAGACTTAAGGTCCGCAGGCTATGCGCTGGAAATA
1 TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
*
24272710 TGTCCGGGC
1 TATCCGGGC
24272719 AAAAGTCCCA
Statistics
Matches: 114, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 65 0.57
40 49 0.43
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TATCCGGGCTTAAGACCCGCAGGCTATATGCTGGAATTA
Found at i:24275137 original size:21 final size:21
Alignment explanation
Indices: 24275113--24275173 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
24275103 GACACATAAA
**
24275113 GTGCCTAAAACGGTACACGAG
1 GTGCCTAAAACGACACACGAG
* *
24275134 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
24275155 GTGCCTGAAATACGACACA
1 GTGCCT-AAA-ACGACACA
24275174 TAAAGTGCCT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 23 0.72
22 1 0.03
23 8 0.25
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:24275171 original size:23 final size:21
Alignment explanation
Indices: 24275127--24275173 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 21
24275117 CTAAAACGGT
24275127 ACACGAGGTGCCTGATACGAC
1 ACACGAGGTGCCTGATACGAC
24275148 ACACGAGGTGCCTGAAATACGAC
1 ACACGAGGTGCCTG--ATACGAC
24275171 ACA
1 ACA
24275174 TAAAGTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.58
23 10 0.42
ACGTcount: A:0.34, C:0.28, G:0.26, T:0.13
Consensus pattern (21 bp):
ACACGAGGTGCCTGATACGAC
Found at i:24275500 original size:15 final size:15
Alignment explanation
Indices: 24275475--24275532 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
24275465 TCATATATAT
24275475 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
24275491 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
24275506 AATAATTTCAATCAA
1 TATAAATTCAATCAA
24275521 TATAAATTCAAT
1 TATAAATTCAAT
24275533 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:24275894 original size:42 final size:42
Alignment explanation
Indices: 24275831--24275912 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 42
24275821 TTCTTTTGTT
*
24275831 TCTTTAGTTTATATAATATAAT-ATA-ATTAAAACATAAAATA
1 TCTTTAGTTTATATAATATAATAATATACT-AAACATAAAATA
24275872 TCTTTA-TTATATAATAATATAATAATATACTAAACATAAAA
1 TCTTTAGTT-TAT-ATAATATAATAATATACTAAACATAAAA
24275913 AAAAATCTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 2 0.06
41 9 0.25
42 10 0.28
43 13 0.36
44 2 0.06
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (42 bp):
TCTTTAGTTTATATAATATAATAATATACTAAACATAAAATA
Found at i:24281326 original size:24 final size:25
Alignment explanation
Indices: 24281270--24281320 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24281260 TAAATTGTGT
*
24281270 TAGGTTTTTTTTTTTAAATTCTAGC
1 TAGGTTTTTTTTTTAAAATTCTAGC
24281295 TAGGTTTTTTTTTTAAAATTCTAGC
1 TAGGTTTTTTTTTTAAAATTCTAGC
24281320 T
1 T
24281321 TGTTTTAGGT
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:0.22, C:0.08, G:0.12, T:0.59
Consensus pattern (25 bp):
TAGGTTTTTTTTTTAAAATTCTAGC
Found at i:24282788 original size:39 final size:39
Alignment explanation
Indices: 24282691--24282818 Score: 184
Period size: 39 Copynumber: 3.3 Consensus size: 39
24282681 GCTTAAAGAC
* * **
24282691 CCGCAGGCTATATGCTGGAATTATATCCGGGCTTAAAGAC
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTT-AAGGT
* *
24282731 CCACAGGCTATATGCTGGAATTATACCCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
*
24282770 CCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGT
1 CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
24282809 CCGCAGGCTA
1 CCGCAGGCTA
24282819 CGCGCTGGAA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 49 0.61
40 31 0.39
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTATATGCTGGAATTATAACCGGACTTAAGGT
Found at i:24282826 original size:39 final size:39
Alignment explanation
Indices: 24282744--24282828 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
24282734 CAGGCTATAT
* * *
24282744 GCTGGAATTATACCCGGACTTAAGGTCCGCAGGCTATGT
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
24282783 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
1 GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
24282822 GCTGGAA
1 GCTGGAA
24282829 ATATGTCCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
GCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTACGC
Found at i:24283889 original size:54 final size:54
Alignment explanation
Indices: 24283807--24283914 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
24283797 TTTATTGTGT
*
24283807 ATGTTTTTAAAATATTAAATTTTGAATCAGTAACTCTTCATAACTCACCCTGGC
1 ATGTTTTTAAAATATTAAATTTTGAATCAGTAACTCTTCATAACCCACCCTGGC
24283861 ATGTTTTTAAAATATTAAATTTTGAATCAGTAACTCTTCATAACCCACCCTGGC
1 ATGTTTTTAAAATATTAAATTTTGAATCAGTAACTCTTCATAACCCACCCTGGC
24283915 GACGGACACG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.38
Consensus pattern (54 bp):
ATGTTTTTAAAATATTAAATTTTGAATCAGTAACTCTTCATAACCCACCCTGGC
Found at i:24284485 original size:18 final size:18
Alignment explanation
Indices: 24284448--24284485 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
24284438 GTTCACCTCT
*
24284448 TTTCTTAGTATTTATTAG
1 TTTCTTAGTATTTATGAG
24284466 TTTC-TAGTATTATATGAG
1 TTTCTTAGTATT-TATGAG
24284484 TT
1 TT
24284486 GTGGGTGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (18 bp):
TTTCTTAGTATTTATGAG
Found at i:24285159 original size:6 final size:6
Alignment explanation
Indices: 24285136--24285173 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
24285126 TTTTTAACTA
24285136 ATAATT ATAAATT A-AATT ATAATT ATAATT ATAATT AT
1 ATAATT AT-AATT ATAATT ATAATT ATAATT ATAATT AT
24285174 CACAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
6 20 0.67
7 5 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:24289095 original size:18 final size:19
Alignment explanation
Indices: 24289059--24289097 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
24289049 ACTAAATAAT
24289059 AAAATATAATAATTATTTA
1 AAAATATAATAATTATTTA
24289078 AAAATAT-AT-ATTACTTTA
1 AAAATATAATAATTA-TTTA
24289096 AA
1 AA
24289098 TTTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATAATAATTATTTA
Found at i:24290226 original size:5 final size:5
Alignment explanation
Indices: 24290216--24290240 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24290206 TGCTTATGAT
24290216 ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG
24290241 TGATGCATGT
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:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:24295880 original size:25 final size:24
Alignment explanation
Indices: 24295858--24295904 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
24295848 TCGAAAAATG
24295858 AAAAAAAAATACATGCTACAAAAGC
1 AAAAAAAAAT-CATGCTACAAAAGC
* *
24295883 AAACAAAAATCGTGCTACAAAA
1 AAAAAAAAATCATGCTACAAAA
24295905 ATAGACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.62, C:0.17, G:0.09, T:0.13
Consensus pattern (24 bp):
AAAAAAAAATCATGCTACAAAAGC
Found at i:24297231 original size:27 final size:26
Alignment explanation
Indices: 24297198--24297278 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
24297188 TGTCATAATG
24297198 ATATATACACAATATGGTATTAAGAAT
1 ATATATACACAATATGGTATTAA-AAT
* *
24297225 ATATATATACAATATAGTATTTAAAA-
1 ATATATACACAATATGGTA-TTAAAAT
* * *
24297251 ATATATACATAAGATGGTATAAAAAT
1 ATATATACACAATATGGTATTAAAAT
24297277 AT
1 AT
24297279 GTACATGGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 5 0.11
26 17 0.38
27 19 0.42
28 4 0.09
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35
Consensus pattern (26 bp):
ATATATACACAATATGGTATTAAAAT
Found at i:24298031 original size:3 final size:3
Alignment explanation
Indices: 24298025--24298065 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
24298015 AAACATAAGC
* *
24298025 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
24298066 TTATAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24300031 original size:75 final size:78
Alignment explanation
Indices: 24299903--24300350 Score: 413
Period size: 76 Copynumber: 5.8 Consensus size: 78
24299893 GCAAATCATT
*
24299903 AATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
24299968 G-AA-GGA-CAGA
66 GAAACAGATAAAA
* *
24299978 AATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACACACCTCTCGCAATATGAGTTGA--TTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
24300041 GAAACATATAAAA
66 GAAACAGATAAAA
* * * * *
24300054 AATTGACAATATCTCGGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATGAGTTGA--TTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
24300117 GAAAACAGAAATTGGAGAAAACAGA
66 G-AAACAG--A-T------AA-A-A
* * * * * **
24300142 AATTGAAATTACCTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAGTATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
24300207 CAAACAG-T----
66 GAAACAGATAAAA
* * * * *
24300215 AATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACATCTCGTAATATGAGTTGA-TTTTTT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
24300279 G-AACA-ATCCAAAA
66 GAAACAGAT--AAAA
* * *
24300292 AATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCCATATGAGTTGAT
1 AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
24300351 CTTTGGAACA
Statistics
Matches: 301, Mismatches: 47, Indels: 47
0.76 0.12 0.12
Matches are distributed among these distances:
71 5 0.02
72 4 0.01
73 54 0.18
74 2 0.01
75 56 0.19
76 59 0.20
77 57 0.19
79 1 0.00
80 1 0.00
85 1 0.00
86 2 0.01
87 1 0.00
88 49 0.16
89 6 0.02
90 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (78 bp):
AATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GAAACAGATAAAA
Found at i:24300143 original size:164 final size:161
Alignment explanation
Indices: 24299973--24300277 Score: 432
Period size: 164 Copynumber: 1.9 Consensus size: 161
24299963 TTTTTGAAGG
* * *
24299973 ACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACACACCTCTCGCAATATGAGTTGATT
1 ACAGAAATTAAAAATACCTCAGCATGTCCTAAGGCTCAACACACCTATCGCAATATGAGTTGATT
* * * * *
24300038 TTTGAAACATATA-AAAAATTGACAATATCTCGGCGTGTCCCGAGGCTCAACTCACATCTCGCAA
66 TTTG--ACA-A-ACAAAAATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACATCTCGCAA
24300102 TATGAGTTGATTTTTGAAAACAGAAATTGGAGAAA
127 TATGAGTTGATTTTTGAAAACAGAAATTGGAGAAA
* * * *
24300137 ACAGAAATTGAAATTACCTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAGTATGAGTTGATT
1 ACAGAAATTAAAAATACCTCAGCATGTCCTAAGGCTCAACACACCTATCGCAATATGAGTTGATT
** *
24300202 TTTGACAAACAGTAATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACATCTCGTAATATG
66 TTTGACAAACAAAAATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACATCTCGCAATATG
24300267 AGTTGATTTTT
131 AGTTGATTTTT
24300278 TGAACAATCC
Statistics
Matches: 125, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
160 1 0.01
161 59 0.47
162 3 0.02
164 62 0.50
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (161 bp):
ACAGAAATTAAAAATACCTCAGCATGTCCTAAGGCTCAACACACCTATCGCAATATGAGTTGATT
TTTGACAAACAAAAATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACATCTCGCAATATG
AGTTGATTTTTGAAAACAGAAATTGGAGAAA
Found at i:24300267 original size:73 final size:74
Alignment explanation
Indices: 24300135--24300360 Score: 265
Period size: 77 Copynumber: 3.0 Consensus size: 74
24300125 AAATTGGAGA
* * ** * *
24300135 AAACAGAAATTGAAATTACCTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAGTATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24300200 TTTTTG-AC
66 TTTTTGAAC
* * * * *
24300208 AAACAGTAATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACATCTCGTAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24300273 TTTTTTGAAC
66 -TTTTTGAAC
* * * *
24300283 AATCCAAAAAATTGACAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCCATATGAGTT
1 AA-AC-AGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
24300348 GATCTTTGGAAC
64 GAT-TTTTGAAC
24300360 A
1 A
24300361 GAAATAAAAA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
73 54 0.43
74 6 0.05
75 4 0.03
76 2 0.02
77 61 0.48
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (74 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAC
Found at i:24300267 original size:237 final size:237
Alignment explanation
Indices: 24299840--24300365 Score: 686
Period size: 237 Copynumber: 2.2 Consensus size: 237
24299830 ACGCGAGTCA
* * * **
24299840 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAAACAG-AATTTGCAAATCATTA
1 AGGCTCAACTCACATCTCGCAATATGAGTTGA---TTTTTGAAAACAGAAATTGGCAAAACAGAA
* * * *
24299904 ATTGAAAATACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
63 ATTGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAATATGAGTTGA-TTTTTTG
* * * * *
24299969 AAGGACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACACACCTCTCGCAATATGAGTT
127 AAGAACAGAAATTAAAAATACCACAGCGTGCCCCGAGGCTCAACACACATCTCGCAATATGAGTT
* *
24300034 GA-TTTTTGAAACATAT-AAAAAATTGACAATATCTCGGCGTGTCCCG
192 GATTTTTTG-AACA-ATCAAAAAATTGACAATACCTCAGCGTGTCCCG
*
24300080 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGGAGAAAACAGAAAT
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGG-CAAAACAGAAAT
* *
24300145 TGAAATTACCTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAGTATGAGTTGA-TTTTTGACA
65 TGAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTGA-A
* * * *
24300209 -AACAGTAATTGAAAATACCACAGCGTGCCCCGAGGCTCAACTCACATCTCGTAATATGAGTTGA
129 GAACAGAAATTAAAAATACCACAGCGTGCCCCGAGGCTCAACACACATCTCGCAATATGAGTTGA
24300273 TTTTTTGAACAATCCAAAAAATTGACAATACCTCAGCGTGTCCCG
194 TTTTTTGAACAAT-CAAAAAATTGACAATACCTCAGCGTGTCCCG
* * * *
24300318 AGGCTCAACTCACCTCTCGCCATATGAGTTGATCTTTG-GAACAGAAAT
1 AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAACAGAAAT
24300366 AAAAACATTA
Statistics
Matches: 253, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
236 2 0.01
237 88 0.35
238 75 0.30
239 57 0.23
240 31 0.12
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (237 bp):
AGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGGCAAAACAGAAATT
GAAAATACCTCAGCATGTCCTAAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTGAAGA
ACAGAAATTAAAAATACCACAGCGTGCCCCGAGGCTCAACACACATCTCGCAATATGAGTTGATT
TTTTGAACAATCAAAAAATTGACAATACCTCAGCGTGTCCCG
Found at i:24312679 original size:27 final size:26
Alignment explanation
Indices: 24312646--24312726 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
24312636 TGTCATAATG
24312646 ATATATACACAATATGGTATTAAGAAT
1 ATATATACACAATATGGTATTAA-AAT
* *
24312673 ATATATATACAATATAGTATTTAAAA-
1 ATATATACACAATATGGTA-TTAAAAT
* * *
24312699 ATATATACATAAGATGGTATAAAAAT
1 ATATATACACAATATGGTATTAAAAT
24312725 AT
1 AT
24312727 GTACATGGGA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 5 0.11
26 17 0.38
27 19 0.42
28 4 0.09
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35
Consensus pattern (26 bp):
ATATATACACAATATGGTATTAAAAT
Found at i:24313485 original size:3 final size:3
Alignment explanation
Indices: 24313479--24313513 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
24313469 AAACATAAGC
* *
24313479 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
24313514 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:24338391 original size:3 final size:3
Alignment explanation
Indices: 24338383--24338409 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24338373 GATTGAACAA
24338383 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
24338410 TTTTAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24342851 original size:51 final size:51
Alignment explanation
Indices: 24342791--24343503 Score: 923
Period size: 51 Copynumber: 14.3 Consensus size: 51
24342781 TCTCCACCAC
* * *
24342791 CTCCTCCACCACCCCCGCCATCACCACCTAAGCACCCTTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
*
24342842 CT---CCACCACCCCCACCATCACCACCCAAGCATCCC-TATAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCA-CCCTTACAAGTACAAGT
* *
24342890 CTCCACCTCCACCTCCACCTCCACCATCACCACCCAAGCACCCTTACACGTACAAGT
1 CTCCA---CCA---CCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
*
24342947 CTCCACCA--A-CCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* * * *
24342995 CTCCTCCACCACCTCCACCATCACCACCCAAGCACCCCTACAAGTATAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
*
24343046 CT---CCACCACCCCCACCATCACCACCCAAGCATCCTTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
*
24343094 CTCCACCACCA---CCACCATCACCACCCAAGCACCCCTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* *
24343142 CT---CCTCCACCCCCACCATCACCACCCAAGCATCCTTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* *
24343190 CTCCACCACCACCTCCACCATCACCACCCAAGCACCCCTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
24343241 CT------CCACCCCCACCATCACCACCCAAGCATCCC-TACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCA-CCCTTACAAGTACAAGT
* * *
24343286 CTCCACCCCCACCCCCACCCTCACCACCCAAGCACCCGTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* * * * *
24343337 CTCCACCCCCGCCCCCACCCTCACCGCCCAAGCACCCCTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* *
24343388 CTCCACCCCCACCCCCACCCTCACCACCCAAGCACCCTTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* *
24343439 CTCCACCCCCACCCCCACCCTCACCACCCAAGCACCCTTACAAGTACAAGT
1 CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
*
24343490 CTCCCCCACCACCC
1 CTCCACCACCACCC
24343504 ACTCCAGTCT
Statistics
Matches: 596, Mismatches: 35, Indels: 62
0.86 0.05 0.09
Matches are distributed among these distances:
45 45 0.08
46 3 0.01
48 202 0.34
49 4 0.01
50 4 0.01
51 288 0.48
54 6 0.01
56 3 0.01
57 41 0.07
ACGTcount: A:0.29, C:0.52, G:0.06, T:0.13
Consensus pattern (51 bp):
CTCCACCACCACCCCCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
Found at i:24342899 original size:6 final size:6
Alignment explanation
Indices: 24342890--24342914 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24342880 AAGTACAAGT
24342890 CTCCAC CTCCAC CTCCAC CTCCAC C
1 CTCCAC CTCCAC CTCCAC CTCCAC C
24342915 ATCACCACCC
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:0.16, C:0.68, G:0.00, T:0.16
Consensus pattern (6 bp):
CTCCAC
Found at i:24343093 original size:147 final size:147
Alignment explanation
Indices: 24342794--24343505 Score: 904
Period size: 147 Copynumber: 4.8 Consensus size: 147
24342784 CCACCACCTC
* * * *
24342794 CTCCACCACCCCCGCCATCACCACCTAAGCACCCTTACAAGTACAAG--T-CTCCACCACCCCCA
1 CTCCACCAACCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCCCCA
* *
24342856 CCATCACCACCCAAGCATCCCTATAAGTACAAGTCTCCACCTCCACCTCCACCTCCACCATCACC
66 CCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA---CCA----C-CC-CCACCATCACC
* *
24342921 ACCCAAGCACCCTTACACGTACAAGT
122 ACCCAAGCACCCCTACAAGTACAAGT
*
24342947 CTCCACCAACCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCTCCA
1 CTCCACCAACCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCCCCA
*
24343012 CCATCACCACCCAAGCACCCCTACAAGTATAAGTCTCCACCACCCCCACCATCACCACCCAAGCA
66 CCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCACCCCCACCATCACCACCCAAGCA
* *
24343077 TCCTTACAAGTACAAGT
131 CCCCTACAAGTACAAGT
24343094 CTCCACC-ACCACCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCT---CCACCCCC
1 CTCCACCAACC-CCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCCCC
* *
24343155 ACCATCACCACCCAAGCATCCTTACAAGTACAAGTCTCCACCACCACCTCCACCATCACCACCCA
65 ACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCA-C-CC-CCACCATCACCACCCA
24343220 AGCACCCCTACAAGTACAAGT
127 AGCACCCCTACAAGTACAAGT
* * *
24343241 CTCCA-C--CCCCACCATCACCACCCAAGCATCCCTACAAGTACAAGTCTCCACCCCCACCCCCA
1 CTCCACCAACCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCCCCA
* * * * *
24343303 CCCTCACCACCCAAGCACCCGTACAAGTACAAGTCTCCACCCCCGCCCCCACCCTCACCGCCCAA
66 CCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCA---CCACCCCCACCATCACCACCCAA
24343368 GCACCCCTACAAGTACAAGT
128 GCACCCCTACAAGTACAAGT
* * * * *
24343388 CTCCACCCCCACCCCCACCCTCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCC
1 CTCCA---CCAACCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCC
* * *
24343453 CCACCCTCACCACCCAAGCACCCTTACAAGTACAAGTCTCCCCCACCACCCAC
63 CCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCACC-CCCAC
24343506 TCCAGTCTAC
Statistics
Matches: 509, Mismatches: 30, Indels: 42
0.88 0.05 0.07
Matches are distributed among these distances:
144 87 0.17
145 3 0.01
146 6 0.01
147 209 0.41
148 4 0.01
149 2 0.00
150 6 0.01
151 6 0.01
153 136 0.27
155 1 0.00
156 49 0.10
ACGTcount: A:0.29, C:0.52, G:0.06, T:0.13
Consensus pattern (147 bp):
CTCCACCAACCCCACCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCTCCACCACCCCCA
CCATCACCACCCAAGCACCCCTACAAGTACAAGTCTCCACCACCCCCACCATCACCACCCAAGCA
CCCCTACAAGTACAAGT
Done.