Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 29 of 210
Found at i:10374945 original size:17 final size:17
Alignment explanation
Indices: 10374918--10374950 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10374908 TCACTACATT
10374918 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
10374936 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
10374951 TAAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:10375694 original size:3 final size:3
Alignment explanation
Indices: 10375686--10375731 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
10375676 CAAACTCACC
10375686 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
10375732 CCTTAGCCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10383562 original size:29 final size:30
Alignment explanation
Indices: 10383529--10383588 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
10383519 TATACATTTT
10383529 AATAATTCTAATGA-TTTTT-AATTTTTAAA
1 AATAATTCTAAT-ATTTTTTGAATTTTTAAA
* *
10383558 AATAATTTTTATATTTTTTGAATTTTTAAA
1 AATAATTCTAATATTTTTTGAATTTTTAAA
10383588 A
1 A
10383589 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 1 0.04
29 15 0.56
30 11 0.41
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (30 bp):
AATAATTCTAATATTTTTTGAATTTTTAAA
Found at i:10383592 original size:17 final size:17
Alignment explanation
Indices: 10383561--10383605 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
10383551 TTTTAAAAAT
* * *
10383561 AATTTTTATATTTTTTG
1 AATTTTTAAAATTTTTA
10383578 AATTTTTAAAATTTTTA
1 AATTTTTAAAATTTTTA
*
10383595 AAATTTTAAAA
1 AATTTTTAAAA
10383606 AATTAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
AATTTTTAAAATTTTTA
Found at i:10391460 original size:34 final size:34
Alignment explanation
Indices: 10391422--10391496 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
10391412 TCTGCAGTAG
*
10391422 AAAAACCCTAGAGTTATTATGTTATTATTTTTTA
1 AAAAACACTAGAGTTATTATGTTATTATTTTTTA
*
10391456 AAAAACATTAGAGTTATTATGTTATTATTTTTTA
1 AAAAACACTAGAGTTATTATGTTATTATTTTTTA
10391490 AAAAACA
1 AAAAACA
10391497 TTAAGTTTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (34 bp):
AAAAACACTAGAGTTATTATGTTATTATTTTTTA
Found at i:10391497 original size:34 final size:34
Alignment explanation
Indices: 10391430--10391503 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
10391420 AGAAAAACCC
10391430 TAGAGTTATTATGTTATTATTTTTTAAAAAACAT
1 TAGAGTTATTATGTTATTATTTTTTAAAAAACAT
10391464 TAGAGTTATTATGTTATTATTTTTTAAAAAACAT
1 TAGAGTTATTATGTTATTATTTTTTAAAAAACAT
10391498 TA-AGTT
1 TAGAGTT
10391504 TCATAGATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 4 0.10
34 36 0.90
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (34 bp):
TAGAGTTATTATGTTATTATTTTTTAAAAAACAT
Found at i:10393023 original size:15 final size:15
Alignment explanation
Indices: 10393005--10393059 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
10392995 ATAAAATGAT
*
10393005 AAGAAAAGAAGAAGA
1 AAGAAAAGAAAAAGA
*
10393020 AAG-AACGCAAAAAGA
1 AAGAAAAG-AAAAAGA
*
10393035 AA-TAAAGAAAAAGAA
1 AAGAAAAGAAAAAG-A
10393050 AAGAAAAGAA
1 AAGAAAAGAA
10393060 CGTGTGTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
14 9 0.28
15 17 0.53
16 6 0.19
ACGTcount: A:0.75, C:0.04, G:0.20, T:0.02
Consensus pattern (15 bp):
AAGAAAAGAAAAAGA
Found at i:10395125 original size:72 final size:71
Alignment explanation
Indices: 10394990--10395133 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 71
10394980 GTTCAGTAGG
*
10394990 CCATACATACATATGTCACGGACTTAGATTTTTTCCACACAATTCGTGCAGCCTTAGGTAGTTTA
1 CCATACATACATATGTCACGGACTTAGATTTTTTCCACACAATTCGTGCAGCCTTAGGCAGTTTA
10395055 TTCGCT
66 TTCGCT
* *
10395061 CCATACATACATATGTCATGGACTTAGATTTTTTTCCACACGATTCGTGCAGCCTTAGGCAGTTT
1 CCATACATACATATGTCACGGACTTAGA-TTTTTTCCACACAATTCGTGCAGCCTTAGGCAGTTT
*
10395126 ATTTGCT
65 ATTCGCT
10395133 C
1 C
10395134 AAAAAATGCC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
71 27 0.40
72 41 0.60
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (71 bp):
CCATACATACATATGTCACGGACTTAGATTTTTTCCACACAATTCGTGCAGCCTTAGGCAGTTTA
TTCGCT
Found at i:10404247 original size:20 final size:20
Alignment explanation
Indices: 10404209--10404251 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
10404199 TTACCCCAAA
*
10404209 CTCTCAAACCTTTTCACTTTC
1 CTCTCAAACATTTTCAC-TTC
*
10404230 CTCTCAAA-ATTTTTACTTC
1 CTCTCAAACATTTTCACTTC
10404249 CTC
1 CTC
10404252 CCACTTCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (20 bp):
CTCTCAAACATTTTCACTTC
Found at i:10407057 original size:2 final size:2
Alignment explanation
Indices: 10407050--10407082 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10407040 TGTAGTACTT
*
10407050 TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10407083 TTTAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:10407550 original size:14 final size:14
Alignment explanation
Indices: 10407531--10407559 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10407521 TCAGGATGTA
10407531 TGCATCCTTTTAGC
1 TGCATCCTTTTAGC
10407545 TGCATCCTTTTAGC
1 TGCATCCTTTTAGC
10407559 T
1 T
10407560 CCAATTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (14 bp):
TGCATCCTTTTAGC
Found at i:10414831 original size:10 final size:10
Alignment explanation
Indices: 10414818--10414852 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10414808 AAAAGAATGA
10414818 AAAATAAAAG
1 AAAATAAAAG
10414828 AAAATTAAAAG
1 AAAA-TAAAAG
*
10414839 AACATAAAAG
1 AAAATAAAAG
10414849 AAAA
1 AAAA
10414853 GAATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.77, C:0.03, G:0.09, T:0.11
Consensus pattern (10 bp):
AAAATAAAAG
Found at i:10418177 original size:20 final size:19
Alignment explanation
Indices: 10418134--10418182 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
10418124 GGATCATGTT
*
10418134 GATTAATTAAGTAAAATAA
1 GATTAATTAAGTAAAACAA
*
10418153 GATTAATTAAGATAAAACAT
1 GATTAATTAAG-TAAAACAA
*
10418173 TATTAATTAA
1 GATTAATTAA
10418183 TTTTAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (19 bp):
GATTAATTAAGTAAAACAA
Found at i:10420042 original size:17 final size:17
Alignment explanation
Indices: 10420009--10420042 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10419999 TTTTATTTAT
* *
10420009 CAAAATAATACAAAAAA
1 CAAAAAAATAAAAAAAA
10420026 CAAAAAAATAAAAAAAA
1 CAAAAAAATAAAAAAAA
10420043 GTTACTGGAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (17 bp):
CAAAAAAATAAAAAAAA
Found at i:10420122 original size:27 final size:28
Alignment explanation
Indices: 10420079--10420150 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
10420069 GGTGGAGGGG
* * *
10420079 CTGCCACAGGTGACACCAG-TGGTGCCA
1 CTGCCACAGGCGGCACCAGATGATGCCA
* * *
10420106 GTGGCAGAGGCGGCACC-GATGATGCCA
1 CTGCCACAGGCGGCACCAGATGATGCCA
10420133 CTGCCACAGGCGGCACCA
1 CTGCCACAGGCGGCACCA
10420151 CTCCCCTTAT
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.22, C:0.33, G:0.33, T:0.11
Consensus pattern (28 bp):
CTGCCACAGGCGGCACCAGATGATGCCA
Found at i:10420223 original size:4 final size:4
Alignment explanation
Indices: 10420214--10420275 Score: 52
Period size: 4 Copynumber: 13.5 Consensus size: 4
10420204 TGGAAAGGAG
10420214 AAGA AAGA AAGA AAGAA AAGGA AAGGA GAAGA AAGA AAGAA ATAGA AAGGA
1 AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA AAG-A A-AGA AA-GA
10420265 GAAGA AAGA AA
1 -AAGA AAGA AA
10420276 AAGAAAAGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
4 25 0.49
5 19 0.37
6 7 0.14
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:10420240 original size:28 final size:28
Alignment explanation
Indices: 10420205--10420283 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
10420195 AAAAGGAGAT
10420205 GGAAAGGAGAAGAAAGAAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAA
*
10420233 GGAAAGGAGAAGAAAGAAAG--A-AATA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAA
10420258 -GAAAGGAGAAGAAAG-AA-AAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAA
10420283 G
1 G
10420284 AGAAGAAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
23 2 0.04
24 16 0.36
25 6 0.13
26 1 0.02
28 20 0.44
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (28 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAA
Found at i:10420247 original size:20 final size:20
Alignment explanation
Indices: 10420214--10420290 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
10420204 TGGAAAGGAG
10420214 AAGAAA-GA-AAGAAAGAAA
1 AAGAAAGGAGAAGAAAGAAA
*
10420232 AGGAAAGGAGAAGAAAGAAAGAA
1 AAGAAAGGAGAAGAAAG--A-AA
10420255 ATAGAAAGGAGAAGAAAGAAA
1 A-AGAAAGGAGAAGAAAGAAA
*
10420276 AAGAAAAGAGAAGAA
1 AAGAAAGGAGAAGAA
10420291 GAAGAGGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.10
19 2 0.04
20 20 0.40
21 3 0.06
22 2 0.04
23 3 0.06
24 15 0.30
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (20 bp):
AAGAAAGGAGAAGAAAGAAA
Found at i:10420249 original size:24 final size:24
Alignment explanation
Indices: 10420218--10420275 Score: 100
Period size: 24 Copynumber: 2.4 Consensus size: 24
10420208 AAGGAGAAGA
10420218 AAGAAAGAAAGAAA-AGGAAAGGAG
1 AAGAAAGAAAGAAATA-GAAAGGAG
10420242 AAGAAAGAAAGAAATAGAAAGGAG
1 AAGAAAGAAAGAAATAGAAAGGAG
10420266 AAGAAAGAAA
1 AAGAAAGAAA
10420276 AAGAAAAGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 32 0.97
25 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (24 bp):
AAGAAAGAAAGAAATAGAAAGGAG
Found at i:10420260 original size:10 final size:9
Alignment explanation
Indices: 10420214--10420295 Score: 51
Period size: 10 Copynumber: 8.4 Consensus size: 9
10420204 TGGAAAGGAG
10420214 AAGAAAG-A
1 AAGAAAGAA
10420222 AAGAAAGAA
1 AAGAAAGAA
*
10420231 AAGGAAAGGAG
1 AA-GAAA-GAA
10420242 AAGAAAG-A
1 AAGAAAGAA
10420250 AAGAAATAGAA
1 AAG-AA-AGAA
*
10420261 AGGAGAAGAA
1 AAGA-AAGAA
*
10420271 AGAAAAAGAA
1 A-AGAAAGAA
10420281 AAGAGAAGAA
1 AAGA-AAGAA
10420291 GAAGA
1 -AAGA
10420296 GGGAAGGAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 17
0.72 0.07 0.21
Matches are distributed among these distances:
8 10 0.17
9 8 0.14
10 27 0.47
11 13 0.22
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (9 bp):
AAGAAAGAA
Found at i:10421015 original size:306 final size:303
Alignment explanation
Indices: 10420652--10421413 Score: 1064
Period size: 304 Copynumber: 2.5 Consensus size: 303
10420642 AAAAATTATA
10420652 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAGTA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAGTA
* *
10420717 AAATTAGAAAATATGATATTTTTTAAAGTAATAAAATGT-GGAGAAAACAATACGAACAAAGGGC
66 AAATTAGAAAATATGATATTTTTTAAAGTAATAAAAT-TCGG-GAAAAAAATATGAACAAAGGGC
* *
10420781 CGAAGTAAGGGTTTTTTTACTAAATTAAAAAAACAGAAATAATTAAAACATTTCAAACATAATGT
129 CGAAATAAGGGTTTTTTTACTAAATTAAAAAAA-AGAAATAATTAAAACATTTCAAACATAATAT
* * *
10420846 ACTAAAATAATGTAAAA-AATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCG
193 ACTAAAATAAAGTAAAATAATAAAACACAAAAATAAT-TATTTTTATTGAAAGTAATAAAATTCG
10420910 GG-AAAAAATACGAGCAAAGGGCCGAAATAAGGGATTTTTTTA-AATT
257 GGAAAAAAATACGAGCAAAGGGCCGAAATAAGGG-TTTTTTTACAATT
*
10420956 TATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATTA
1 TATTTAAAAAACACACTAAA-TTA-ATAAATTTCAAACATAATGTACTAAAATAATGTAAAA-TA
*
10421021 G-AAAATTAGAAAATA-G-TTTTTTTTAAAGTAATAAAATTCGGGAAAAAAATATGAACAAAGGG
63 GTAAAATTAGAAAATATGATATTTTTTAAAGTAATAAAATTCGGGAAAAAAATATGAACAAAGGG
* ** * ** *
10421083 CCGAAATAAGGGTTTTTTTACTAATTTTTTTAAAAAATACTTAATTAATACATTTCAAACATAAT
128 CCGAAATAAGGGTTTTTTTACTAA--ATTAAAAAAAAGAAATAATTAAAACATTTCAAACATAAT
10421148 ATACTAAAATAAAGTAAAATAATAAAACACAAAAATAATTATTTTTATTGAAAGTAATAAAATTC
191 ATACTAAAATAAAGTAAAATAATAAAACACAAAAATAATTATTTTTATTGAAAGTAATAAAATTC
10421213 GGGAAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTACTAATT
256 GGGAAAAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTAC-AATT
* * * * * * *
10421262 T-TTTTAAAAA-ATACTTAATTAATACATTTCAAACATAATATACTAAAATAAAGTAAAATAATA
1 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAGTA
* * *
10421325 AAA-CACAAAA-ATAATTATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATATGAACAAAGG
66 AAATTAGAAAATATGA-TA-TTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATATGAACAAAGG
10421388 GCCGAAATAA-GG-TTTTTTACTAAATT
127 GCCGAAATAAGGGTTTTTTTACTAAATT
10421414 TTTTTGAAGT
Statistics
Matches: 412, Mismatches: 29, Indels: 36
0.86 0.06 0.08
Matches are distributed among these distances:
300 1 0.00
301 7 0.02
302 39 0.09
303 47 0.11
304 142 0.34
305 71 0.17
306 102 0.25
307 3 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (303 bp):
TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAGTA
AAATTAGAAAATATGATATTTTTTAAAGTAATAAAATTCGGGAAAAAAATATGAACAAAGGGCCG
AAATAAGGGTTTTTTTACTAAATTAAAAAAAAGAAATAATTAAAACATTTCAAACATAATATACT
AAAATAAAGTAAAATAATAAAACACAAAAATAATTATTTTTATTGAAAGTAATAAAATTCGGGAA
AAAAATACGAGCAAAGGGCCGAAATAAGGGTTTTTTTACAATT
Found at i:10421418 original size:153 final size:155
Alignment explanation
Indices: 10420654--10421417 Score: 980
Period size: 153 Copynumber: 5.0 Consensus size: 155
10420644 AAATTATATA
* * * *
10420654 TTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAGTAAA
1 TTTAAAAAACATACTTAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
10420719 ATTA-GAAAAT-ATGATATTTT-TT-AAAGTAATAAAATGT-GGAGAAAACAATACGAACAAAGG
66 A-TACGAAAATAATTAT-TTTTATTGAAAGTAATAAAAT-TCGG-GAAAAAAATACGAACAAAGG
*
10420779 GCCGAAGTAAGGGTTTTTTTACTAAA---
127 GCCGAAATAAGGGTTTTTTTACTAAATTT
* * ** *
10420805 TTAAAAAAACAGAAATAATTAAAACATTTCAAACATAATGTACTAAAATAATGTAAAA-AATAAA
1 TTTAAAAAACATACTTAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
*
10420869 ATACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGG-AAAAAATACGAGCAAAGGGCC
66 ATACGAAAATAAT-TATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCC
*
10420933 GAAATAAGGGATTTTTT--TAAATTT
130 GAAATAAGGGTTTTTTTACTAAATTT
* * * * * *
10420957 ATTTAAAAAACACACTAAATTTATTTAAATTTCAAACATAATGTACTAAAATAATGTAAAATTAG
1 -TTTAAAAAACATACTTAA-TTA-ATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT
* *
10421022 AAAATTA-GAAAAT-AGT-TTTTT-TT-AAAGTAATAAAATTCGGGAAAAAAATATGAACAAAGG
63 AAAA-TACGAAAATAATTATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGG
10421082 GCCGAAATAAGGGTTTTTTTACT-AATTT
127 GCCGAAATAAGGGTTTTTTTACTAAATTT
* * *
10421110 TTTTAAAAA-ATACTTAATTAATACATTTCAAACATAATATACTAAAATAAAGTAAAATAATAAA
1 TTTAAAAAACATACTTAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* * *
10421174 ACACAAAAATAATTATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAGCAAAGGGCCG
66 ATACGAAAATAATTATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCG
10421239 AAATAAGGGTTTTTTTACT-AATTT
131 AAATAAGGGTTTTTTTACTAAATTT
* * *
10421263 TTTTAAAAA-ATACTTAATTAATACATTTCAAACATAATATACTAAAATAAAGTAAAATAATAAA
1 TTTAAAAAACATACTTAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* * *
10421327 ACACAAAAATAATTATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATATGAACAAAGGGCCG
66 ATACGAAAATAATTATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCG
10421392 AAATAA-GG-TTTTTTACTAAATTT
131 AAATAAGGGTTTTTTTACTAAATTT
10421415 TTT
1 TTT
10421418 TGAAGTTGCA
Statistics
Matches: 547, Mismatches: 43, Indels: 45
0.86 0.07 0.07
Matches are distributed among these distances:
148 1 0.00
149 50 0.09
150 17 0.03
151 129 0.24
152 63 0.12
153 234 0.43
154 5 0.01
155 35 0.06
156 11 0.02
157 2 0.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (155 bp):
TTTAAAAAACATACTTAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
ATACGAAAATAATTATTTTTATTGAAAGTAATAAAATTCGGGAAAAAAATACGAACAAAGGGCCG
AAATAAGGGTTTTTTTACTAAATTT
Found at i:10423068 original size:18 final size:18
Alignment explanation
Indices: 10423045--10423084 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
10423035 TCCCAAACCA
10423045 GAGCCCGAGCCAAAGCCC
1 GAGCCCGAGCCAAAGCCC
* *
10423063 GAGCCCGAGCCAGATCCC
1 GAGCCCGAGCCAAAGCCC
10423081 GAGC
1 GAGC
10423085 AGTCATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.42, G:0.30, T:0.03
Consensus pattern (18 bp):
GAGCCCGAGCCAAAGCCC
Found at i:10426630 original size:23 final size:21
Alignment explanation
Indices: 10426577--10426631 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
10426567 ACTAAAAATA
*
10426577 ATAACTAACAATAACAATAAT
1 ATAACTAAAAATAACAATAAT
* *
10426598 ATAATGTAAAAACTAACAATCAT
1 ATAA-CTAAAAA-TAACAATAAT
10426621 ACTAACTAAAA
1 A-TAACTAAAA
10426632 TAATAATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 4 0.15
22 5 0.19
23 15 0.56
24 3 0.11
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.24
Consensus pattern (21 bp):
ATAACTAAAAATAACAATAAT
Found at i:10431061 original size:34 final size:35
Alignment explanation
Indices: 10431014--10431108 Score: 95
Period size: 34 Copynumber: 2.7 Consensus size: 35
10431004 AATTTTCGGG
* * *
10431014 CATATTTCGGATCA-AAGTATCATATTTTCATAA-A
1 CATATATCAGATCAGAA-TATCATATTTTCAGAACA
* *
10431048 CATATATCAGATCAGAATGTCATGTTTTCAGAAGCA
1 CATATATCAGATCAGAATATCATATTTTCAGAA-CA
* *
10431084 CATATATCATATCAGAATGTCATAT
1 CATATATCAGATCAGAATATCATAT
10431109 CAGACTAGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
34 25 0.49
35 2 0.04
36 24 0.47
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (35 bp):
CATATATCAGATCAGAATATCATATTTTCAGAACA
Found at i:10431107 original size:20 final size:20
Alignment explanation
Indices: 10431048--10431108 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
10431038 TTTTCATAAA
*
10431048 CATATATCAGATCAGAATGT
1 CATATATCATATCAGAATGT
* *
10431068 CATGT-T--T-TCAGAA-GCA
1 CATATATCATATCAGAATG-T
10431084 CATATATCATATCAGAATGT
1 CATATATCATATCAGAATGT
10431104 CATAT
1 CATAT
10431109 CAGACTAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 12
0.64 0.11 0.26
Matches are distributed among these distances:
15 1 0.03
16 10 0.33
17 1 0.03
19 2 0.07
20 15 0.50
21 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (20 bp):
CATATATCATATCAGAATGT
Found at i:10438212 original size:5 final size:5
Alignment explanation
Indices: 10438202--10438229 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
10438192 AACTTTGGCA
10438202 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
10438230 AGGATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:10438260 original size:5 final size:5
Alignment explanation
Indices: 10438252--10438277 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10438242 TATATATTTT
10438252 AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA A
10438278 TTAAAACAAG
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):
AAATA
Found at i:10438988 original size:12 final size:13
Alignment explanation
Indices: 10438956--10438989 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10438946 TATAACTATT
*
10438956 ATTTTATTATTAA
1 ATTTTGTTATTAA
10438969 ATTTTGTTATTAA
1 ATTTTGTTATTAA
10438982 A-TTTGTTA
1 ATTTTGTTA
10438990 CTATTTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
ATTTTGTTATTAA
Found at i:10440420 original size:29 final size:29
Alignment explanation
Indices: 10440383--10440446 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
10440373 GATAATCACA
10440383 TGTGAGTTAGCAAATCGCAACCTATCATT
1 TGTGAGTTAGCAAATCGCAACCTATCATT
* *
10440412 TGTGTGTTAGCAAATCGCAACCTATCGTT
1 TGTGAGTTAGCAAATCGCAACCTATCATT
10440441 TGTGAG
1 TGTGAG
10440447 ATTACTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (29 bp):
TGTGAGTTAGCAAATCGCAACCTATCATT
Found at i:10443824 original size:92 final size:92
Alignment explanation
Indices: 10443666--10443837 Score: 231
Period size: 92 Copynumber: 1.9 Consensus size: 92
10443656 TACCCTTAAC
* ** * *
10443666 AAAGTATTGATACTTTGCAAAAATTATTGATACCCTTACCTGGTATCGATACCAATTTGAGTTTC
1 AAAGTATCGATACTTTGCAAAAATTATCAATACCCTTA-CTGGTATCGATACCAATTTAAGGTTC
*
10443731 AATGTTTTGGAAAATTGAACAAAAATAA
65 AATGCTTTGGAAAATTGAACAAAAATAA
* *
10443759 AAAGTATCGATACCTTT-CAAAATTTATCAATACCCTGT-CTGGTATCGATACCGATTTAAGGTT
1 AAAGTATCGATA-CTTTGCAAAAATTATCAATACCCT-TACTGGTATCGATACCAATTTAAGGTT
10443822 CAATGCTTTGGAAAAT
64 CAATGCTTTGGAAAAT
10443838 AAAAAAAATG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 37 0.54
93 27 0.39
94 5 0.07
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (92 bp):
AAAGTATCGATACTTTGCAAAAATTATCAATACCCTTACTGGTATCGATACCAATTTAAGGTTCA
ATGCTTTGGAAAATTGAACAAAAATAA
Found at i:10450901 original size:37 final size:37
Alignment explanation
Indices: 10450849--10450919 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
10450839 GAGGTGTGTG
10450849 GGGTTAGATGGGTATTTAATACCCTATATGGTGTGCA
1 GGGTTAGATGGGTATTTAATACCCTATATGGTGTGCA
* *
10450886 GGGTTGGATGTGTATTTAATACCCTATATGGTGT
1 GGGTTAGATGGGTATTTAATACCCTATATGGTGT
10450920 ATAGGGATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.38
Consensus pattern (37 bp):
GGGTTAGATGGGTATTTAATACCCTATATGGTGTGCA
Found at i:10464663 original size:24 final size:25
Alignment explanation
Indices: 10464621--10464672 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
10464611 TAACTTTTTA
10464621 TACTAATATTATAACTT-AATTAAT
1 TACTAATATTATAACTTAAATTAAT
*
10464645 TACTAATTATTCTAA-TTAAAATTAAT
1 TACTAA-TATTATAACTT-AAATTAAT
10464671 TA
1 TA
10464673 ACTTAACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.33
25 7 0.29
26 9 0.38
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (25 bp):
TACTAATATTATAACTTAAATTAAT
Found at i:10474803 original size:7 final size:6
Alignment explanation
Indices: 10474791--10474833 Score: 52
Period size: 7 Copynumber: 6.8 Consensus size: 6
10474781 TATATAGCCG
10474791 AAAATA CAAAATA TAAAAT- AAAATA AAAATA AAAATA CAAAAT
1 AAAATA -AAAATA -AAAATA AAAATA AAAATA AAAATA -AAAAT
10474834 CCTCTCTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
5 5 0.15
6 12 0.36
7 16 0.48
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:10475288 original size:44 final size:44
Alignment explanation
Indices: 10475181--10475379 Score: 131
Period size: 44 Copynumber: 4.5 Consensus size: 44
10475171 GATCCACTCT
* * * *
10475181 ACTGCAACTTCAGAGAGATAAGATCTATTACTT-TAATCTGTTCC
1 ACTGCAACCTCAGGGAGATAAGAT-TATGACTTCTAATCTGCTCC
* * * * *
10475225 ACTACAACTTCAAGAAGATAGGATTATCGACTTCT-ATCTGCTCC
1 ACTGCAACCTCAGGGAGATAAGATTAT-GACTTCTAATCTGCTCC
* * *
10475269 ACTGCAACCTCAGGGAGATAAGATTTATCATCTTC-GATCT-CCCC
1 ACTGCAACCTCAGGGAGATAAGA-TTATGA-CTTCTAATCTGCTCC
* * * ** * *
10475313 CCTGCAATCTCAGGGGGATAAGA-CCTG-CTTCCTCAGTCTGTTCC
1 ACTGCAACCTCAGGGAGATAAGATTATGACTT-CT-AATCTGCTCC
10475357 ACTGCAACCTCAGGGAGATAAGA
1 ACTGCAACCTCAGGGAGATAAGA
10475380 ACTGATGCGA
Statistics
Matches: 119, Mismatches: 27, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 1 0.01
43 6 0.05
44 95 0.80
45 13 0.11
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
ACTGCAACCTCAGGGAGATAAGATTATGACTTCTAATCTGCTCC
Found at i:10475526 original size:152 final size:154
Alignment explanation
Indices: 10475246--10475550 Score: 445
Period size: 152 Copynumber: 2.0 Consensus size: 154
10475236 AAGAAGATAG
*
10475246 GATTATCGACTTCTATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTCC
1 GATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAG--AAGATTTATCATCTTCGATCTCC
* * * * *
10475311 CCCCTGCAATCTCAGGGGGATAAGACCTGCTTCCTCAGTCTGTTCCACTGCAACCTCAGGGAGAT
64 CCACTGCAACCTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGAT
10475376 AAGAACTGATGCGATCCACTCTATAA
129 AAGAACTGATGCGATCCACTCTATAA
* * *
10475402 GATTATCGTCTTCAATCTGCTTCACTGCAACCTCA-GG-G-AGATTTATCATCTTCGATTTGCCC
1 GATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGAAGATTTATCATCTTCGATCT-CCC
* *
10475464 CACTGCAACCTCAAGGGGATAAGACTTGCTTACTCAGTCTGCTCCCCTGCAACCTCAGGGAGATA
65 CACTGCAACCTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATA
* *
10475529 AGACCTGCTGCGATCCACTCTA
130 AGAACTGATGCGATCCACTCTA
10475551 CTGTAACTTC
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
151 19 0.14
152 81 0.60
154 1 0.01
155 2 0.01
156 32 0.24
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (154 bp):
GATTATCGACTTCAATCTGCTCCACTGCAACCTCAGGGAGAAGATTTATCATCTTCGATCTCCCC
ACTGCAACCTCAAGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGATAA
GAACTGATGCGATCCACTCTATAA
Found at i:10475753 original size:44 final size:44
Alignment explanation
Indices: 10475463--10476406 Score: 306
Period size: 44 Copynumber: 21.6 Consensus size: 44
10475453 TCGATTTGCC
*
10475463 CCACTGCAACCTCAAGGG-GATAAGACTTGCTTACTCAGTCTGCT
1 CCACTGCAACCTC-AGGGAGATAAGACCTGCTTACTCAGTCTGCT
* * * **
10475507 CCCCTGCAACCTCAGGGAGATAAGACCTGC-TGC-GA-TCCACT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCTGCT
* * * ** * * * * *
10475548 CTACTGTAACTTCAAAGAGATAAGATCT-ATTACTTTAATCTACT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTAC-TCAGTCTGCT
* * ** * * * * *
10475592 CTACTACAAATTCAGGGAGATAGGA-TTATCGT-CTTCATTCTGCT
1 CCACTGCAACCTCAGGGAGATAAGACCT-GCTTAC-TCAGTCTGCT
* * ** * *
10475636 CTACTGCAACCTCAGGGAGATAAGA-TTTATCATCTTC-GATCTGCC
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTA-C-TCAG-TCTGCT
* *
10475681 CCACTGCAACCTTA-GGAGGGTAAGACCTGCTTACTCAGTCTGCT
1 CCACTGCAACCTCAGGGA-GATAAGACCTGCTTACTCAGTCTGCT
* * * **
10475725 CCACTGCAACCTCAGGGAGATAAAACCTGC-T-GTGA-TCCACT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCTGCT
* * * * * * * *
10475766 CTACTGTAACTTCAGAGAGATAAGATCT-ATTACTTTAAT-TCGCT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTAC-TCAGTCT-GCT
* * * * * *
10475810 CCACTACAACTTCAGGGAGATAGGA-TTATCGT-CTTC-GATCTGCT
1 CCACTGCAACCTCAGGGAGATAAGACCT-GCTTAC-TCAG-TCTGCT
* ** *
10475854 CCACTGCAACCTCAGGGAGATAAGA-TTTATCATCTTC-GATCTGC-
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTA-C-TCAG-TCTGCT
* *
10475898 CCTACTGAAACCTCAATGG-GATAAGACCTGCTTACTCAGTCTGCT
1 CC-ACTGCAACCTC-AGGGAGATAAGACCTGCTTACTCAGTCTGCT
* * * * **
10475943 CCACTGTAACCTTAGGGAGATAAGACCTGC-TGC-GA-TCCACT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCTGCT
* * * * * * * **
10475984 CTACTGCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCACT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTAC-TCAGTCTGCT
* * * * * * *
10476028 CCACTACAACTTCAGGGAGATAGGA-TTATCGT-CTTCAATCTGCT
1 CCACTGCAACCTCAGGGAGATAAGACCT-GCTTAC-TCAGTCTGCT
* ** * ** * *
10476072 CCACTGCAACCTCAGGGAGATAAGA-TTTATCATCTTTGATATGCC
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTA-CTCAG-TCTGCT
* * *
10476117 CCAATGAAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCTGCT
* * **
10476161 CCACTGCAACCTCAGGGAGATAAGACCTGC-TGC-GA-TCCACT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCTGCT
* * * * * * * *
10476202 CTACTGCAACTTCAGAGAGATAAGATCT-ATTACTTTAATCCGCT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTAC-TCAGTCTGCT
* * * * * * *
10476246 CCACTACAACTTCAGGGAGATAAGA-TTATCGT-CTTCAATCTACT
1 CCACTGCAACCTCAGGGAGATAAGACCT-GCTTAC-TCAGTCTGCT
* * * ** * *
10476290 CCACTGCAACCTGAGGGAGAGAAGA-TTTATCATCTTC-GATCTGCC
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTA-C-TCAG-TCTGCT
*
10476335 CCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCT
1 CCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCTGCT
10476379 CCACTGCAACCTCAGGGAGATAAGACCT
1 CCACTGCAACCTCAGGGAGATAAGACCT
10476407 ACTGCGATCC
Statistics
Matches: 671, Mismatches: 177, Indels: 104
0.70 0.19 0.11
Matches are distributed among these distances:
41 112 0.17
42 5 0.01
43 27 0.04
44 381 0.57
45 131 0.20
46 15 0.02
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
CCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCTGCT
Found at i:10475775 original size:218 final size:218
Alignment explanation
Indices: 10475402--10476535 Score: 1866
Period size: 218 Copynumber: 5.2 Consensus size: 218
10475392 CACTCTATAA
* *
10475402 GATTATCGTCTTCAATCTGCTTCACTGCAACCTCA-GG-G---AGATTTATCATCTTCGATTTGC
1 GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
* * *
10475462 CCCACTGCAACCTCAAGGGGATAAGACTTGCTTACTCAGTCTGCTCCCCTGCAACCTCAGGGAGA
66 CCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
* * *
10475527 TAAGACCTGCTGCGATCCACTCTACTGTAACTTCAAAGAGATAAGATCTATTACTTTAATCTACT
131 TAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACT
* *
10475592 CTACTACAAATTCAGGGAGATAG
196 CCACTACAACTTCAGGGAGATAG
* *
10475615 GATTATCGTCTTCATTCTGCTCTACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
1 GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
*
10475680 CCCACTGCAACCTTAGGAGGG-TAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAG
66 CCCACTGCAACCTCAGG-GGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAG
* * * * *
10475744 ATAAAACCTGCTGTGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTATTACTTTAATTCGC
130 ATAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCAC
10475809 TCCACTACAACTTCAGGGAGATAG
195 TCCACTACAACTTCAGGGAGATAG
*
10475833 GATTATCGTCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
1 GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
* * ** * *
10475898 CCTACTGAAACCTCAATGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGTAACCTTAGGGAGA
66 CCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
10475963 TAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACT
131 TAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACT
10476028 CCACTACAACTTCAGGGAGATAG
196 CCACTACAACTTCAGGGAGATAG
* *
10476051 GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTTGATATGC
1 GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
* *
10476116 CCCAATGAAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
66 CCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
*
10476181 TAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCT
131 TAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACT
*
10476246 CCACTACAACTTCAGGGAGATAA
196 CCACTACAACTTCAGGGAGATAG
* * *
10476269 GATTATCGTCTTCAATCTACTCCACTGCAACCTGAGGGAGAGAAGATTTATCATCTTCGATCTGC
1 GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
10476334 CCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
66 CCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
* * * *
10476399 TAAGACCTACTGCGATCCACTCTATTGCAACTTCAGAGATATAAGATCTGTTACTTTAATCCACT
131 TAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACT
10476464 CCACTACAACTTCAGGGAGATAG
196 CCACTACAACTTCAGGGAGATAG
*
10476487 GATTATCGTCTTCGATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
1 GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT
10476536 TGATTTCGAT
Statistics
Matches: 855, Mismatches: 59, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
213 32 0.04
214 2 0.00
215 1 0.00
217 3 0.00
218 814 0.95
219 3 0.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (218 bp):
GATTATCGTCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTTATCATCTTCGATCTGC
CCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAGGGAGA
TAAGACCTGCTGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCCACT
CCACTACAACTTCAGGGAGATAG
Found at i:10476341 original size:174 final size:173
Alignment explanation
Indices: 10476155--10476532 Score: 415
Period size: 174 Copynumber: 2.2 Consensus size: 173
10476145 GCTTACTCAG
* * * *
10476155 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGC-TGC-GA-TCCACTCTACTGCAACTTCAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCCACTCCACTGCAACCTCAG
* ** * *
10476217 AGAGATAAGATCTATTACTTTAATCCGCTCCACTACAACTTCAGGGAGATAAGATTATCG-T-CT
66 AGAGATAAGA-C--CTACTGCAATCCACTCCACTACAACTTCAGAGAGATAAGA-TAT-GTTACT
* * *
10476280 TCAATCTACTCCACTGCAACCTGAGGGAGAGAAGATTTATCATCTTCGA
126 TCAATCCACTCCACTACAACCTCAGGGAGAGAAGA-TTATCATCTTCGA
* * **
10476329 TCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAACCTCAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCCACTCCACTGCAACCTCAG
* * * * * * * *
10476394 GGAGATAAGACCTACTGCGATCCACTCTATTGCAACTTCAGAGATATAAGATCTGTTACTTTAAT
66 AGAGATAAGACCTACTGCAATCCACTCCACTACAACTTCAGAGAGATAAGATATGTTACTTCAAT
* * * *
10476459 CCACTCCACTACAACTTCAGGGAGATAGGATTATCGTCTTCGA
131 CCACTCCACTACAACCTCAGGGAGAGAAGATTATCATCTTCGA
10476502 TCTGCTCCACTGCAACCTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGA
10476533 TTTTGATTTC
Statistics
Matches: 169, Mismatches: 30, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
172 1 0.01
173 44 0.26
174 94 0.56
175 2 0.01
176 2 0.01
177 26 0.15
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (173 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGACCTGCTTACTCAGTCCACTCCACTGCAACCTCAG
AGAGATAAGACCTACTGCAATCCACTCCACTACAACTTCAGAGAGATAAGATATGTTACTTCAAT
CCACTCCACTACAACCTCAGGGAGAGAAGATTATCATCTTCGA
Found at i:10484286 original size:24 final size:24
Alignment explanation
Indices: 10484250--10484305 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
10484240 AGATTTTGTA
* * *
10484250 TTGATGAGTATAATATATTTAGCAT
1 TTGATTAGCATAATAAATTTAGC-T
10484275 TT-ATTAGCATAATAAATTTAGCT
1 TTGATTAGCATAATAAATTTAGCT
10484298 TTGATTAG
1 TTGATTAG
10484306 AATTAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.36, C:0.05, G:0.14, T:0.45
Consensus pattern (24 bp):
TTGATTAGCATAATAAATTTAGCT
Found at i:10500712 original size:50 final size:50
Alignment explanation
Indices: 10500629--10500810 Score: 217
Period size: 50 Copynumber: 3.7 Consensus size: 50
10500619 NNNNNNNNNN
* * **
10500629 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAATCCC
* * * * *
10500679 ACGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCTC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAATCCC
* *
10500729 ATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACATGA-AACATCCC
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGAA-ATCCC
*
10500778 ATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGTAAGACCATGTCTGGGACATGGCATTGGCA
10500811 TGTTATTATC
Statistics
Matches: 113, Mismatches: 17, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
48 3 0.03
49 38 0.34
50 72 0.64
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAATCCC
Found at i:10504064 original size:43 final size:43
Alignment explanation
Indices: 10504016--10504105 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
10504006 TACGAAAGTA
10504016 ACAAGTTTCCCAAGGTTGTATAGTAAGAAAATATAAGGTATTT
1 ACAAGTTTCCCAAGGTTGTATAGTAAGAAAATATAAGGTATTT
10504059 ACAAGTTTCCCAAGGTTGTATAGTAAGAAAATATAAGGTATTT
1 ACAAGTTTCCCAAGGTTGTATAGTAAGAAAATATAAGGTATTT
10504102 ACAA
1 ACAA
10504106 AATCAAACCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (43 bp):
ACAAGTTTCCCAAGGTTGTATAGTAAGAAAATATAAGGTATTT
Found at i:10515322 original size:18 final size:18
Alignment explanation
Indices: 10515299--10515334 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10515289 GAATAAGCTC
10515299 TTCTAATGTTAAGGAGAG
1 TTCTAATGTTAAGGAGAG
10515317 TTCTAATGTTAAGGAGAG
1 TTCTAATGTTAAGGAGAG
10515335 CCTATTTTGA
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:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (18 bp):
TTCTAATGTTAAGGAGAG
Found at i:10518046 original size:12 final size:12
Alignment explanation
Indices: 10518029--10518054 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10518019 ATTTTAATAC
10518029 TTTTATAATATT
1 TTTTATAATATT
10518041 TTTTATAATATT
1 TTTTATAATATT
10518053 TT
1 TT
10518055 AAAGTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTATAATATT
Found at i:10525247 original size:24 final size:24
Alignment explanation
Indices: 10525219--10525264 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10525209 TATTATTAAA
10525219 ATTTT-AATATATTTATTAAATTAT
1 ATTTTGAATATATTT-TTAAATTAT
* *
10525243 ATTTTGAATTTGTTTTTAAATT
1 ATTTTGAATATATTTTTAAATT
10525265 TTACAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTTTGAATATATTTTTAAATTAT
Found at i:10527203 original size:19 final size:17
Alignment explanation
Indices: 10527153--10527197 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
10527143 TTATACGTGT
*
10527153 ATATGTAT-T-TACAAA
1 ATATGTATATATATAAA
10527168 ATATGTATATATATAAA
1 ATATGTATATATATAAA
10527185 AGTATG-ATATATA
1 A-TATGTATATATA
10527198 AGTAAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 8 0.31
16 1 0.04
17 13 0.50
18 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (17 bp):
ATATGTATATATATAAA
Found at i:10528578 original size:3 final size:3
Alignment explanation
Indices: 10528572--10528617 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
10528562 ATTAATCAAT
10528572 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10528618 CATTGTATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10528901 original size:29 final size:30
Alignment explanation
Indices: 10528838--10528902 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
10528828 TACCACATAT
*
10528838 TATTTTATATATTTCTTTATAACTTGTAAA
1 TATTTTATATATTTCTTTATAACTTATAAA
*
10528868 TATTTT-TATATTTTTTTATTTAA-TTATAAA
1 TATTTTATATATTTCTTTA--TAACTTATAAA
10528898 -ATTTT
1 TATTTT
10528903 CTTTATACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 16 0.52
30 12 0.39
31 3 0.10
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (30 bp):
TATTTTATATATTTCTTTATAACTTATAAA
Found at i:10529885 original size:89 final size:90
Alignment explanation
Indices: 10529734--10529913 Score: 353
Period size: 89 Copynumber: 2.0 Consensus size: 90
10529724 TTCTCGTTTG
10529734 ACCCAGATAATCGGAAATCCTTCTCAAAATACATAGGTTTTAAAAGTCAAGAGATAAATTTAATT
1 ACCCAGATAATCGGAAATCCTTCTCAAAATACATAGGTTTTAAAAGTCAAGAGATAAATTTAATT
10529799 TTGATGATTTAAAAT-TTGCACTCT
66 TTGATGATTTAAAATGTTGCACTCT
10529823 ACCCAGATAATCGGAAATCCTTCTCAAAATACATAGGTTTTAAAAGTCAAGAGATAAATTTAATT
1 ACCCAGATAATCGGAAATCCTTCTCAAAATACATAGGTTTTAAAAGTCAAGAGATAAATTTAATT
10529888 TTGATGATTTAAAATGTTGCACTCT
66 TTGATGATTTAAAATGTTGCACTCT
10529913 A
1 A
10529914 ACTTACTGAG
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 80 0.89
90 10 0.11
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (90 bp):
ACCCAGATAATCGGAAATCCTTCTCAAAATACATAGGTTTTAAAAGTCAAGAGATAAATTTAATT
TTGATGATTTAAAATGTTGCACTCT
Found at i:10530330 original size:44 final size:44
Alignment explanation
Indices: 10530282--10530466 Score: 124
Period size: 44 Copynumber: 4.2 Consensus size: 44
10530272 CTCCTGGAGA
*
10530282 AGATAAGATTTGCCGTCTTCAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
** * * * ** *
10530326 AGATAAGACCTGCTATCTTCAACCTGCTCCGCCGCTGCTAAGGG
1 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
* ** **** * *
10530370 AGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAAGATTTGCCATCTTCAATCTGC-T-CCACTACTGCTTAGG-G
* * * *
10530414 AGGTAAGATTCGCCATCTTCTATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
10530458 AGATAAGAT
1 AGATAAGAT
10530467 CTGTTATCTT
Statistics
Matches: 99, Mismatches: 36, Indels: 12
0.67 0.24 0.08
Matches are distributed among these distances:
42 5 0.05
43 4 0.04
44 83 0.84
45 4 0.04
46 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
AGATAAGATTTGCCATCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:10543767 original size:41 final size:43
Alignment explanation
Indices: 10543705--10543797 Score: 163
Period size: 41 Copynumber: 2.2 Consensus size: 43
10543695 TCGCACATAT
10543705 AAAAAAATAGAAAATGAAAAGAAACAGAGAAGAGAAAGAGCACC
1 AAAAAAA-AGAAAATGAAAAGAAACAGAGAAGAGAAAGAGCACC
10543749 AAAAAAAA-AAAA-GAAAAGAAACAGAGAAGAGAAAGAGCACC
1 AAAAAAAAGAAAATGAAAAGAAACAGAGAAGAGAAAGAGCACC
10543790 AAAAAAAA
1 AAAAAAAA
10543798 TGCGAATCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
41 37 0.76
42 4 0.08
43 1 0.02
44 7 0.14
ACGTcount: A:0.71, C:0.09, G:0.18, T:0.02
Consensus pattern (43 bp):
AAAAAAAAGAAAATGAAAAGAAACAGAGAAGAGAAAGAGCACC
Found at i:10545231 original size:6 final size:6
Alignment explanation
Indices: 10545222--10545257 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
10545212 GGAAAATGAA
10545222 AAAATG AAAATG AAAAATG AAAATG AAAAATG AAAA
1 AAAATG AAAATG -AAAATG AAAATG -AAAATG AAAA
10545258 AGTAAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:10545231 original size:7 final size:7
Alignment explanation
Indices: 10545214--10545267 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
10545204 AAAAATATGG
10545214 AAAATGAA
1 AAAATG-A
10545222 AAAATG-
1 AAAATGA
10545228 AAAATGA
1 AAAATGA
10545235 AAAATG-
1 AAAATGA
10545241 AAAATGA
1 AAAATGA
10545248 AAAATGA
1 AAAATGA
10545255 AAAA-GTA
1 AAAATG-A
10545262 AAAATG
1 AAAATG
10545268 GAGAGGCTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 13 0.31
7 22 0.52
8 7 0.17
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAAATGA
Found at i:10545232 original size:14 final size:13
Alignment explanation
Indices: 10545213--10545267 Score: 83
Period size: 13 Copynumber: 4.1 Consensus size: 13
10545203 GAAAAATATG
10545213 GAAAATGAAAAAAT
1 GAAAATG-AAAAAT
10545227 GAAAATGAAAAAT
1 GAAAATGAAAAAT
10545240 GAAAATGAAAAAT
1 GAAAATGAAAAAT
*
10545253 GAAAAAGTAAAAAT
1 GAAAATG-AAAAAT
10545267 G
1 G
10545268 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
13 25 0.64
14 14 0.36
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.15
Consensus pattern (13 bp):
GAAAATGAAAAAT
Found at i:10545239 original size:13 final size:14
Alignment explanation
Indices: 10545203--10545267 Score: 80
Period size: 13 Copynumber: 4.6 Consensus size: 14
10545193 CTTTGAGTCA
10545203 GAAAAATATGGAAAAT
1 GAAAAA-AT-GAAAAT
10545219 GAAAAAATGAAAAT
1 GAAAAAATGAAAAT
10545233 G-AAAAATGAAAAT
1 GAAAAAATGAAAAT
*
10545246 G-AAAAATGAAAAA
1 GAAAAAATGAAAAT
*
10545259 GTAAAAATG
1 GAAAAAATG
10545268 GAGAGGCTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
13 25 0.53
14 14 0.30
15 2 0.04
16 6 0.13
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (14 bp):
GAAAAAATGAAAAT
Found at i:10546890 original size:88 final size:87
Alignment explanation
Indices: 10546793--10547155 Score: 197
Period size: 88 Copynumber: 4.1 Consensus size: 87
10546783 GTAGTGGAGC
*
10546793 AGATCGAAGATGGCGGATTCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTTGGTAATTCT
1 AGATTGAAGATGGCGGATTCTACCTCCCTGAGG-TACAGTGGAGTACATTGAAGTTGGTAATTCT
*
10546858 ATCTCCCTGGTTGGCATTGGAAT
65 ATCTCCCTGGTTGGCAGTGGAAT
** * * * * * * * * **
10546881 AGATTGAAGATTACAGA-TCTTATCTCCCTAAGCAGT--AGTGCAGCAGATCGAAGATGGCGGAT
1 AGATTGAAGATGGCGGATTC-TACCTCCCTGAG--GTACAGTGGAGTACATTGAAGTTGG-TAAT
* * * *
10546943 TTTACCTCCCTGAGGTT-ACAGTGGAGT
62 TCTATCTCCCT--GGTTGGCAGTGGAAT
* * * * * * * * *
10546970 ACATTGAA-A--CCAGTAATTCTACTTCCCTG-TGCAGCAGTGGAATAGATTGAAGATT-GCAGA
1 AGATTGAAGATGGC-G-GATTCTACCTCCCTGAGGTA-CAGTGGAGTACATTGAAG-TTGGTA-A
***** * **
10547030 -TCTTATCTCCCTAACCAGTAGTGGAGC
61 TTC-TATCTCCCTGGTTGGCAGTGGAAT
*
10547057 AGATCGAAGATGGCGGATTCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTTGGTAATTCT
1 AGATTGAAGATGGCGGATTCTACCTCCCTGAGG-TACAGTGGAGTACATTGAAGTTGGTAATTCT
*
10547122 ATCTCCCTGGTTGGCATTGGAAT
65 ATCTCCCTGGTTGGCAGTGGAAT
10547145 AGATTGAAGAT
1 AGATTGAAGAT
10547156 TACAGATCTT
Statistics
Matches: 189, Mismatches: 63, Indels: 46
0.63 0.21 0.15
Matches are distributed among these distances:
85 1 0.01
86 1 0.01
87 32 0.17
88 108 0.57
89 40 0.21
90 7 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (87 bp):
AGATTGAAGATGGCGGATTCTACCTCCCTGAGGTACAGTGGAGTACATTGAAGTTGGTAATTCTA
TCTCCCTGGTTGGCAGTGGAAT
Found at i:10546907 original size:132 final size:132
Alignment explanation
Indices: 10546670--10547525 Score: 1256
Period size: 132 Copynumber: 6.5 Consensus size: 132
10546660 GAGCAGGTTA
* * * *
10546670 ATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTGGTAATTCTATGTCCCTG
1 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTG
* *
10546735 GTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAACCAGTAGTGGAGCAGATCGA
66 GTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
10546800 AG
131 AG
* * *
10546802 ATGGCGGATTCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTTGGTAATTCTATCTCCCTG
1 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTG
* *
10546867 GTTGGCATTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGCAGCAGATCGA
66 GTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
10546932 AG
131 AG
* *
10546934 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAACCAGTAATTCTA-CTTCCCT
1 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATC-TCCCT
* *
10546998 -G-TGCAGCAGTGGAATAGATTGAAGATTGCAGATCTTATCTCCCTAACCAGTAGTGGAGCAGAT
65 GGTTG--GCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
10547061 CGAAG
128 CGAAG
* * *
10547066 ATGGCGGATTCTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGTTGGTAATTCTATCTCCCTG
1 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTG
* *
10547131 GTTGGCATTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGA
66 GTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
10547196 AG
131 AG
* * * *
10547198 ATGGCAGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATTTCCCTG
1 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTG
* ** *
10547263 GTTGGCAGTGGAATAGATTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTAAAGCAGAACGA
66 GTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
10547328 AG
131 AG
* * * *
10547330 ATGACAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
1 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTG
**** * * *
10547395 GGCAACAGTGAAATAGATTGAAGATTACAGATCTTA-CTCCCTAAGCGGTAGTGGAGCAGATCGG
66 GTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
10547459 AG
131 AG
* *
10547461 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTATATTGAAAGC-ACTAA-TCATATCTCCC
1 ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTG-AAGCTAGTAATTC-TATCTCCC
10547524 TG
64 TG
10547526 AAATTGCAGT
Statistics
Matches: 654, Mismatches: 62, Indels: 17
0.89 0.08 0.02
Matches are distributed among these distances:
130 4 0.01
131 79 0.12
132 567 0.87
133 2 0.00
134 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (132 bp):
ATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTG
GTTGGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
AG
Found at i:10547053 original size:44 final size:43
Alignment explanation
Indices: 10547005--10547207 Score: 101
Period size: 44 Copynumber: 4.6 Consensus size: 43
10546995 CCTGTGCAGC
10547005 AGTGGAATAGATTGAAGATTGCAGA-TCTTATCTCCCTAACCAGT
1 AGTGGAATAGATTGAAGATTGCAGATTC-TATCTCCCTAA-CAGT
** * * * * * *
10547049 AGTGGAGCAGATCGAAGATGGCGGATTCTACCTCCCTGA-GGTT
1 AGTGGAATAGATTGAAGATTGCAGATTCTATCTCCCTAACAG-T
* * * **** *
10547092 ACAGTGGAGTACATTGAAG-TTGGTA-ATTCTATCTCCCTGGTTGGC
1 --AGTGGAATAGATTGAAGATT-GCAGATTCTATCTCCCT-AACAGT
* *
10547137 ATTGGAATAGATTGAAGATTACAGA-TCTTATCTCCCTAAGCAGT
1 AGTGGAATAGATTGAAGATTGCAGATTC-TATCTCCCTAA-CAGT
* * *
10547181 AGTGGAACAGATCGAAGATGGCAGATT
1 AGTGGAATAGATTGAAGATTGCAGATT
10547208 TTACCTCTCT
Statistics
Matches: 115, Mismatches: 32, Indels: 23
0.68 0.19 0.14
Matches are distributed among these distances:
42 1 0.01
43 18 0.16
44 75 0.65
45 19 0.17
46 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (43 bp):
AGTGGAATAGATTGAAGATTGCAGATTCTATCTCCCTAACAGT
Found at i:10549048 original size:3 final size:3
Alignment explanation
Indices: 10549042--10549087 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
10549032 ATTAATCAAT
10549042 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10549088 CGTCGATATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10550823 original size:3 final size:3
Alignment explanation
Indices: 10550803--10550875 Score: 62
Period size: 3 Copynumber: 25.3 Consensus size: 3
10550793 ATACATGGTT
* * * * *
10550803 ATA ATA AAA ATA AAA ATA ATA ATT ATA ATA ATA AAA ATA ATA AT- ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
10550850 ATA AT- ACA ATA ATA ATA TTA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10550876 AAAGAAAACC
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
2 4 0.08
3 49 0.92
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10557930 original size:21 final size:21
Alignment explanation
Indices: 10557904--10557948 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
10557894 CGATGTTGCA
* *
10557904 ACACAGATTGAGGGTTTCACG
1 ACACAGACTGAGGGTGTCACG
10557925 ACACAGACTGAGGGTGTCACG
1 ACACAGACTGAGGGTGTCACG
10557946 ACA
1 ACA
10557949 TACCCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.29, T:0.18
Consensus pattern (21 bp):
ACACAGACTGAGGGTGTCACG
Found at i:10565303 original size:8 final size:9
Alignment explanation
Indices: 10565276--10565349 Score: 64
Period size: 9 Copynumber: 8.0 Consensus size: 9
10565266 AAAAAAGTAT
10565276 TTTAAAAATA
1 TTTAAAAA-A
*
10565286 TTT-TAAAA
1 TTTAAAAAA
10565294 -TTAAAAAA
1 TTTAAAAAA
10565302 TTTAAAAAAGTA
1 TTT-AAAAA--A
10565314 TTTAAAAAAA
1 TTT-AAAAAA
*
10565324 TTT-TAAAA
1 TTTAAAAAA
10565332 TTTAAAAAA
1 TTTAAAAAA
10565341 TTTAAAAAA
1 TTTAAAAAA
10565350 AGTATTTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
7 2 0.04
8 12 0.22
9 18 0.33
10 12 0.22
12 10 0.19
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:10565310 original size:39 final size:40
Alignment explanation
Indices: 10565258--10565361 Score: 167
Period size: 39 Copynumber: 2.6 Consensus size: 40
10565248 AAATTAAAAC
* *
10565258 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA-TTA
1 AAAAATTTAAAAAAGTATTTTAAAAAAATTTTAAAATTTA
10565297 AAAAATTTAAAAAAGTA-TTTAAAAAAATTTTAAAATTTA
1 AAAAATTTAAAAAAGTATTTTAAAAAAATTTTAAAATTTA
10565336 AAAAATTTAAAAAAAGTATTTTAAAA
1 AAAAATTT-AAAAAAGTATTTTAAAA
10565362 TTAAAAAACG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
38 17 0.28
39 27 0.45
40 9 0.15
41 7 0.12
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (40 bp):
AAAAATTTAAAAAAGTATTTTAAAAAAATTTTAAAATTTA
Found at i:10565318 original size:12 final size:12
Alignment explanation
Indices: 10565263--10565331 Score: 52
Period size: 12 Copynumber: 5.5 Consensus size: 12
10565253 AAAACAAAAA
10565263 TTAAAAAAAGTAT
1 TTAAAAAAA-TAT
*
10565276 TT-TAAAAATATT
1 TTAAAAAAATA-T
*
10565288 TTAAAATTAAAAAAT
1 TT-AAA--AAAATAT
*
10565303 TTAAAAAAGTAT
1 TTAAAAAAATAT
10565315 TTAAAAAAAT-T
1 TTAAAAAAATAT
10565326 TTAAAA
1 TTAAAA
10565332 TTTAAAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
11 9 0.20
12 22 0.49
13 2 0.04
14 4 0.09
15 3 0.07
16 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
TTAAAAAAATAT
Found at i:10565349 original size:29 final size:31
Alignment explanation
Indices: 10565298--10565369 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
10565288 TTAAAATTAA
*
10565298 AAAATTTAAAAAAGTATTTAAAAA-AATTTT
1 AAAATTTAAAAAAGTATTAAAAAAGAATTTT
*
10565328 AAAATTTAAAAAA-T-TTAAAAAAAGTATTTT
1 AAAATTTAAAAAAGTATT-AAAAAAGAATTTT
10565358 AAAA-TTAAAAAA
1 AAAATTTAAAAAA
10565370 CGGGCCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
28 2 0.05
29 14 0.37
30 22 0.58
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (31 bp):
AAAATTTAAAAAAGTATTAAAAAAGAATTTT
Found at i:10565856 original size:45 final size:44
Alignment explanation
Indices: 10565797--10565887 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
10565787 TTTGGTTCGC
* * *
10565797 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
10565842 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
10565886 TG
1 TG
10565888 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.36
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:10590056 original size:15 final size:16
Alignment explanation
Indices: 10590038--10590072 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10590028 CAGAGAAATA
10590038 AAAAAAAAGAA-AAAG
1 AAAAAAAAGAAGAAAG
*
10590053 AAAAAGAAGAAGAAAG
1 AAAAAAAAGAAGAAAG
10590069 AAAA
1 AAAA
10590073 GTTACCATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAGAAAG
Found at i:10590056 original size:16 final size:17
Alignment explanation
Indices: 10590031--10590072 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
10590021 CAAAAATCAG
*
10590031 AGAAATAAAAAAAAAGA
1 AGAAAGAAAAAAAAAGA
*
10590048 A-AAAG-AAAAAGAAGA
1 AGAAAGAAAAAAAAAGA
10590063 AGAAAGAAAA
1 AGAAAGAAAA
10590073 GTTACCATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 10 0.48
16 7 0.33
17 4 0.19
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
AGAAAGAAAAAAAAAGA
Found at i:10592303 original size:17 final size:18
Alignment explanation
Indices: 10592269--10592310 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
10592259 CAACATCAAT
* *
10592269 AAATATTTAAATATTAAA
1 AAATATTTAAAAAATAAA
10592287 AAAT-TTTAAAAAATAAA
1 AAATATTTAAAAAATAAA
*
10592304 TAATATT
1 AAATATT
10592311 CTAATAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATTTAAAAAATAAA
Found at i:10612689 original size:31 final size:32
Alignment explanation
Indices: 10612651--10612712 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
10612641 NNNNNNNNNN
10612651 AAAGAG-TTTTATTAGGATTCAATTACTCTTT
1 AAAGAGTTTTTATTAGGATTCAATTACTCTTT
10612682 AAAGAGTTTTTATTAGGATTCAATTACTCTT
1 AAAGAGTTTTTATTAGGATTCAATTACTCTT
10612713 GTAATTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 6 0.20
32 24 0.80
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (32 bp):
AAAGAGTTTTTATTAGGATTCAATTACTCTTT
Found at i:10615154 original size:19 final size:17
Alignment explanation
Indices: 10615130--10615171 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
10615120 CGAAAATGCA
*
10615130 AAAATAAATTTAAGAAAAT
1 AAAATAAA-TGAA-AAAAT
10615149 AAAATAAATGAAAAAAT
1 AAAATAAATGAAAAAAT
10615166 AAAATA
1 AAAATA
10615172 CTTTATAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAATAAATGAAAAAAT
Found at i:10615985 original size:23 final size:23
Alignment explanation
Indices: 10615936--10615983 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
10615926 GATTTTCCCG
*
10615936 AAATATTATTACTAAATAATCTT
1 AAATATTATCACTAAATAATCTT
10615959 AAATATTATCACTAAATAAT-TT
1 AAATATTATCACTAAATAATCTT
10615981 AAA
1 AAA
10615984 ATTTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCTT
Found at i:10620596 original size:25 final size:25
Alignment explanation
Indices: 10620565--10620627 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
10620555 TTTTGAACTT
10620565 TATATTATTCATTTTAAATTGTTCAA
1 TATATTATTCATTTTAAATT-TTCAA
* * *
10620591 TA-ATTATTTATTTTAAGTTTTCCA
1 TATATTATTCATTTTAAATTTTCAA
10620615 TATATTA-TCATTT
1 TATATTATTCATTT
10620628 CATTTCCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 19 0.59
26 2 0.06
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (25 bp):
TATATTATTCATTTTAAATTTTCAA
Found at i:10620836 original size:16 final size:16
Alignment explanation
Indices: 10620815--10620856 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10620805 TAAATTATTT
10620815 TTTATTATATATA-TAC
1 TTTATTAT-TATAGTAC
*
10620831 TTTATTATTTTAGTAC
1 TTTATTATTATAGTAC
10620847 TTTATT-TTAT
1 TTTATTATTAT
10620857 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATTATTATAGTAC
Found at i:10620906 original size:11 final size:12
Alignment explanation
Indices: 10620879--10620913 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
10620869 CAACTTTTAC
10620879 ATATATTATTAT
1 ATATATTATTAT
10620891 ATATATTATT-T
1 ATATATTATTAT
10620902 ATATATTATTAT
1 ATATATTATTAT
10620914 TGTGTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATATTATTAT
Found at i:10620921 original size:15 final size:15
Alignment explanation
Indices: 10620888--10620930 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10620878 CATATATTAT
10620888 TATATA-TATTATT-
1 TATATATTATTATTG
10620901 TATATATTATTATTG
1 TATATATTATTATTG
*
10620916 TGTATATTATT-TTG
1 TATATATTATTATTG
10620930 T
1 T
10620931 TTTCTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATATATTATTATTG
Found at i:10620921 original size:26 final size:25
Alignment explanation
Indices: 10620874--10620927 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
10620864 TGCTTCAACT
10620874 TTTACATATATTATTATATATATTA
1 TTTACATATATTATTATATATATTA
* * *
10620899 TTTATATATTATTATTGTGTATATTA
1 TTTACATA-TATTATTATATATATTA
10620925 TTT
1 TTT
10620928 TGTTTTCTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTACATATATTATTATATATATTA
Found at i:10622679 original size:16 final size:16
Alignment explanation
Indices: 10622654--10622688 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10622644 TTGTGTTTTG
*
10622654 TTTTGGCTGCATGACA
1 TTTTGACTGCATGACA
*
10622670 TTTTGACTGCATGGCA
1 TTTTGACTGCATGACA
10622686 TTT
1 TTT
10622689 CATCATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (16 bp):
TTTTGACTGCATGACA
Found at i:10623174 original size:19 final size:19
Alignment explanation
Indices: 10623150--10623196 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10623140 TCAACCCCTT
*
10623150 TTTGCATT-CATTTCACGCA
1 TTTGCATTACATTACA-GCA
*
10623169 TTTGCATTACATTACATCA
1 TTTGCATTACATTACAGCA
10623188 TTTGCATTA
1 TTTGCATTA
10623197 AAGTCCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTACAGCA
Found at i:10625231 original size:34 final size:34
Alignment explanation
Indices: 10625193--10625262 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
10625183 GTACAAATAG
*
10625193 TTATTCATAAATTCATATATTCTTTGTATATTCT
1 TTATTCATAAATTCATATATTATTTGTATATTCT
10625227 TTATTCATAAATTCATATATTATTTGTATATTCT
1 TTATTCATAAATTCATATATTATTTGTATATTCT
10625261 TT
1 TT
10625263 GGTACCCACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (34 bp):
TTATTCATAAATTCATATATTATTTGTATATTCT
Found at i:10627860 original size:48 final size:48
Alignment explanation
Indices: 10627761--10627860 Score: 114
Period size: 48 Copynumber: 2.1 Consensus size: 48
10627751 GATCAAGGTG
* * * * *
10627761 AAAACCCGACAAGGGCGCTTTGAGTCTTAAAAAAAAAAGACCAAGGTA
1 AAAACCCGACAAGGGCGCTTTGAGTCTCAAAAAAAAAAAAACAAAGAA
*
10627809 AAAACCCG-CAAAGGGCGCTTTGAGTC-CAAAAAAATAAAAAATAAAGAA
1 AAAACCCGAC-AAGGGCGCTTTGAGTCTCAAAAAAA-AAAAAACAAAGAA
10627857 AAAA
1 AAAA
10627861 GAAAAATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
47 8 0.18
48 36 0.82
ACGTcount: A:0.52, C:0.17, G:0.18, T:0.13
Consensus pattern (48 bp):
AAAACCCGACAAGGGCGCTTTGAGTCTCAAAAAAAAAAAAACAAAGAA
Found at i:10629155 original size:50 final size:50
Alignment explanation
Indices: 10629096--10629705 Score: 435
Period size: 50 Copynumber: 12.2 Consensus size: 50
10629086 TACCCCTGAA
* * * * *
10629096 GTTGTAGTGGGATAGATTGAAGTTATC-ACAGCGAATCTTATTTCCCTGGT
1 GTTGCAGTGGAATAGATTAAAGCTA-CAACAGCGAATCTTACTTCCCTGGT
* * * * **
10629146 GGTGCAGTGGAACAGATTAAAGCTACGACAGCGAATCTTACTTCCCCGAC
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGT
* ** *
10629196 ATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGT
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGT
* **
10629246 GTTGCAGTGGAATAGATTAAAGCTACAACAACGAATCTTACTT-CCTCGAC
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCT-GGT
* * ** * * *
10629296 ATTACAGTTAAATAGATTGAAGCTACAACAGCAAATCTTACTTCCCTGGCA
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGG-T
* * * * **
10629347 GTT-CAGTGGAACAGATTAAAGCTACGACGGCGAATCTTACTTCCCCGAC
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGT
* ** * * * * *
10629396 GTTACAGTTAAACAAATTACAGCTACAACAGCGAATCTTATTTCCCTAGT
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGT
* * * ***
10629446 GGTGCAGTGGAACAGATTAAAGCTACAAC-GATGAATCTTACTT-CCTCAAC
1 GTTGCAGTGGAATAGATTAAAGCTACAACAG-CGAATCTTACTTCCCT-GGT
* ** * * * * * *
10629496 ATTGCAGTTAAACAAATTGAAGCTACAATAGCAAATCTTACTT-CCTCGGC
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCT-GGT
* * * * * * * *
10629546 GTTGCGGCGAAACAGA-TAAAGCTACAACAACAAATCTTACTTCCCCGGC
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGT
* * * * *
10629595 ATTGCAGTGAAATGGATTAAAGCTACAACAACGAATCTTACTTCTC-GAGT
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTG-GT
* * ** * *
10629645 GTTACAGTGGAATAGATTAAAGCAACAACAATGAATCTTACTTCCCTAGC
1 GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGT
*
10629695 ATTGCAGTGGA
1 GTTGCAGTGGA
10629706 GCAGATCGAA
Statistics
Matches: 441, Mismatches: 107, Indels: 24
0.77 0.19 0.04
Matches are distributed among these distances:
49 49 0.11
50 386 0.88
51 6 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (50 bp):
GTTGCAGTGGAATAGATTAAAGCTACAACAGCGAATCTTACTTCCCTGGT
Found at i:10629281 original size:100 final size:100
Alignment explanation
Indices: 10629107--10629690 Score: 694
Period size: 100 Copynumber: 5.8 Consensus size: 100
10629097 TTGTAGTGGG
* * *
10629107 ATAGATTGAAGTTATC-ACAGCGAATCTTATTTCCCTGGTGGTGCAGTGGAACAGATTAAAGCTA
1 ATAGATTGAAGCTA-CAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTA
* *
10629171 CGACAGCGAATCTTACTTCCCCGACATTGCAGTTAA
65 CAACAACGAATCTTACTTCCCCGACATTGCAGTTAA
*
10629207 ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTAC
1 ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAC
* *
10629272 AACAACGAATCTTACTTCCTCGACATTACAGTTAA
66 AACAACGAATCTTACTTCCCCGACATTGCAGTTAA
* *
10629307 ATAGATTGAAGCTACAACAGCAAATCTTACTTCCCTGGCAGTT-CAGTGGAACAGATTAAAGCTA
1 ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGG-TGTTGCAGTGGAACAGATTAAAGCTA
* ** * *
10629371 CGACGGCGAATCTTACTTCCCCGACGTTACAGTTAA
65 CAACAACGAATCTTACTTCCCCGACATTGCAGTTAA
* * * * *
10629407 ACAAATT-ACAGCTACAACAGCGAATCTTATTTCCCTAGTGGTGCAGTGGAACAGATTAAAGCTA
1 ATAGATTGA-AGCTACAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTA
* * * *
10629471 CAACGATGAATCTTACTTCCTCAACATTGCAGTTAA
65 CAACAACGAATCTTACTTCCCCGACATTGCAGTTAA
* * * * * * * *
10629507 ACAAATTGAAGCTACAATAGCAAATCTTACTT-CCTCGGCGTTGCGGCGAAACAGA-TAAAGCTA
1 ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GGTGTTGCAGTGGAACAGATTAAAGCTA
* * *
10629570 CAACAACAAATCTTACTTCCCCGGCATTGCAGTGAA
65 CAACAACGAATCTTACTTCCCCGACATTGCAGTTAA
* * * * * * *
10629606 ATGGATTAAAGCTACAACAACGAATCTTACTTCTC-GAGTGTTACAGTGGAATAGATTAAAGCAA
1 ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTG-GTGTTGCAGTGGAACAGATTAAAGCTA
*
10629670 CAACAATGAATCTTACTTCCC
65 CAACAACGAATCTTACTTCCC
10629691 TAGCATTGCA
Statistics
Matches: 412, Mismatches: 63, Indels: 18
0.84 0.13 0.04
Matches are distributed among these distances:
98 1 0.00
99 81 0.20
100 326 0.79
101 4 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (100 bp):
ATAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGGTGTTGCAGTGGAACAGATTAAAGCTAC
AACAACGAATCTTACTTCCCCGACATTGCAGTTAA
Found at i:10631540 original size:16 final size:16
Alignment explanation
Indices: 10631519--10631560 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10631509 TAAATTATTT
10631519 TTTATTATATATA-TAC
1 TTTATTAT-TATAGTAC
*
10631535 TTTATTATTTTAGTAC
1 TTTATTATTATAGTAC
10631551 TTTATT-TTAT
1 TTTATTATTAT
10631561 TTTTACTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTATTATTATAGTAC
Found at i:10631600 original size:14 final size:13
Alignment explanation
Indices: 10631583--10631631 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
10631573 CAACTTATAC
10631583 ATATATTA-TTAT
1 ATATATTATTTAT
10631595 ATATATTATTTAT
1 ATATATTATTTAT
*
10631608 ATATTATTA-TTGT
1 ATA-TATTATTTAT
*
10631621 GTATATTATTT
1 ATATATTATTT
10631632 TGTTTTCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 13 0.41
13 14 0.44
14 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (13 bp):
ATATATTATTTAT
Found at i:10631608 original size:11 final size:12
Alignment explanation
Indices: 10631583--10631617 Score: 63
Period size: 11 Copynumber: 3.0 Consensus size: 12
10631573 CAACTTATAC
10631583 ATATATTATTAT
1 ATATATTATTAT
10631595 ATATATTATT-T
1 ATATATTATTAT
10631606 ATATATTATTAT
1 ATATATTATTAT
10631618 TGTGTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATATTATTAT
Found at i:10631625 original size:15 final size:15
Alignment explanation
Indices: 10631592--10631634 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
10631582 CATATATTAT
10631592 TATATA-TATTATT-
1 TATATATTATTATTG
10631605 TATATATTATTATTG
1 TATATATTATTATTG
*
10631620 TGTATATTATT-TTG
1 TATATATTATTATTG
10631634 T
1 T
10631635 TTTCTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 10 0.37
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
TATATATTATTATTG
Found at i:10631625 original size:26 final size:27
Alignment explanation
Indices: 10631577--10631631 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
10631567 TTGCTTCAAC
10631577 TTATACATATATTATTATATATATTAT
1 TTATACATATATTATTATATATATTAT
* * *
10631604 TTATATAT-TATTATTGTGTATATTAT
1 TTATACATATATTATTATATATATTAT
10631630 TT
1 TT
10631632 TGTTTTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (27 bp):
TTATACATATATTATTATATATATTAT
Found at i:10632163 original size:102 final size:103
Alignment explanation
Indices: 10631987--10632193 Score: 398
Period size: 102 Copynumber: 2.0 Consensus size: 103
10631977 TTCAAAGTTG
10631987 TGTTTAATATGGTTTAAGTTTTGAGAATCATTTTATTCAAAAGTTTTCAATATAACGCAATACTC
1 TGTTTAATATGGTTTAAGTTTTGAGAATCATTTTATTCAAAAGTTTTCAATATAACGCAATACTC
10632052 GGTATTTGGGATCTTCGAGAGGATTGA-CCTAACGTAT
66 GGTATTTGGGATCTTCGAGAGGATTGACCCTAACGTAT
10632089 TGTTTAATATGGTTTAAGTTTTGAGAATCATTTTATTCAAAAGTTTTCAATATAACGCAATACTC
1 TGTTTAATATGGTTTAAGTTTTGAGAATCATTTTATTCAAAAGTTTTCAATATAACGCAATACTC
10632154 GGTATTTGGGATCTTCGAGAGGATTGAGCCCTAACGTAT
66 GGTATTTGGGATCTTCGAGAGGATTGA-CCCTAACGTAT
10632193 T
1 T
10632194 AGGTTTCAAT
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
102 92 0.89
104 11 0.11
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (103 bp):
TGTTTAATATGGTTTAAGTTTTGAGAATCATTTTATTCAAAAGTTTTCAATATAACGCAATACTC
GGTATTTGGGATCTTCGAGAGGATTGACCCTAACGTAT
Found at i:10637170 original size:22 final size:22
Alignment explanation
Indices: 10637142--10637218 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
10637132 TGATTAAGAT
*
10637142 AATAAAATAAATAAATATAAAA
1 AATAAAATAAATAAATTTAAAA
*
10637164 AATAAAAT-AA-AAATGTTCAAA
1 AATAAAATAAATAAAT-TTAAAA
**
10637185 AATGCAA-AAATAAATTTAATAA
1 AATAAAATAAATAAATTTAA-AA
10637207 AATAAAATAAAT
1 AATAAAATAAAT
10637219 GGAAAAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.09
21 16 0.37
22 19 0.44
23 4 0.09
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (22 bp):
AATAAAATAAATAAATTTAAAA
Found at i:10638102 original size:23 final size:23
Alignment explanation
Indices: 10638072--10638121 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
10638062 GATTTTCCCT
**
10638072 AAATATTATTGCTAAATAATTCA
1 AAATATTATCCCTAAATAATTCA
*
10638095 AAATATTATCCCTAAATAATTTA
1 AAATATTATCCCTAAATAATTCA
10638118 AAAT
1 AAAT
10638122 TTAAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (23 bp):
AAATATTATCCCTAAATAATTCA
Found at i:10641757 original size:114 final size:112
Alignment explanation
Indices: 10641590--10642114 Score: 372
Period size: 114 Copynumber: 4.6 Consensus size: 112
10641580 TAGTGTTCTG
* * * * *
10641590 GTCTTGATGTAT-TTGGCATTAGTGGCGCTTACGAA-CAAACGCTAG-TAATGTATAGTATTAGC
1 GTCTTGATGTATATT-GAATTAGTGGCGCTTA-TAAGAAAACGC-CGCTAAAGTATAGTATTAGC
* * *
10641652 GGCGCTTAGAGGAAGCGCCGCAAAAGATGTTAACCAAAACGCAAAGTTTA
63 GGCGCTTAGTGGAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTTTA
* *
10641702 GTCTTGATGTATATTGCAATTAGTGGCGCTTATAAAGAAAATGCCGCTAATGTATAGTATTAGCG
1 GTCTTGATGTATATTG-AATTAGTGGCGCTTAT-AAGAAAACGCCGCTAAAGTATAGTATTAGCG
* ** * * * * * * * * *
10641767 GCACCGAGCGTTAAACGCTGCAAGACATCTTAATCAAAACGCAGTGTGTTG
64 GCGCTTAGTG-GAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGT-TTA
* *
10641818 GTCCTGATGTATAATAT-AATTAGTGGCG-TT-TAAGGAAAACGCCAG-TAAAGGATAGT-TATA
1 GTCTTGATGTAT-AT-TGAATTAGTGGCGCTTATAA-GAAAACGCC-GCTAAAGTATAGTAT-TA
** * * * * *
10641878 GCAACGTTTGGTGGTAAGCGCCTCAAAATATCTTAACCAAAACGCAGAGTTTG
61 GCGGCGCTTAGTGG-AAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTTTA
* * *
10641931 GTCTTGAGGTGTATTAGAATTAGTGGCGCTTGATGA-AAAACGCCGCTAAAGTATA-TCATTAGC
1 GTCTTGATGTATATT-GAATTAGTGGCGCTT-ATAAGAAAACGCCGCTAAAGTATAGT-ATTAGC
* * * *
10641994 GGTG-TTTGTGGAACGCGCCGC-AAAGTATCTTAACCAAAACACAGTGTTTA
63 GGCGCTTAGTGGAA-GCGCCGCAAAAG-ATCTTAACCAAAACGCAGAGTTTA
** ** ** * *
10642044 GTTCTTGATGTATACCGGAATTAGTGGCGCACATGGGAAAACGCCGCTGAAGCATAGTATTAGCG
1 G-TCTTGATGTATA-TTGAATTAGTGGCGCTTATAAGAAAACGCCGCTAAAGTATAGTATTAGCG
10642109 GCGCTT
64 GCGCTT
10642115 TTACCGAAAC
Statistics
Matches: 322, Mismatches: 63, Indels: 53
0.74 0.14 0.12
Matches are distributed among these distances:
111 1 0.00
112 20 0.06
113 84 0.26
114 154 0.48
115 34 0.11
116 26 0.08
117 2 0.01
118 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (112 bp):
GTCTTGATGTATATTGAATTAGTGGCGCTTATAAGAAAACGCCGCTAAAGTATAGTATTAGCGGC
GCTTAGTGGAAGCGCCGCAAAAGATCTTAACCAAAACGCAGAGTTTA
Found at i:10642238 original size:18 final size:18
Alignment explanation
Indices: 10642217--10642252 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
10642207 TCATTTTATA
10642217 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
10642235 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
10642253 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:10642724 original size:81 final size:82
Alignment explanation
Indices: 10642626--10642777 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 82
10642616 GGATTCGGTG
* * * *
10642626 TCGGGTTAGGCTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTT-T-TATAAAATATGGTTTAA
1 TCGGGTTAGGATTTAGGGTTTAGATTAATTAATATGTTTTAATTTATGTATAAAATAAGGTTT-A
10642689 GGGTTAGGGGTTAGGGAT
65 GGGTTAGGGGTTAGGGAT
* * *
10642707 TCGGGTTAGGATTTAGGGTTTTGATTAATTAATATTTTTTAATTTATGTATTAAATAAGGTTTAG
1 TCGGGTTAGGATTTAGGGTTTAGATTAATTAATATGTTTTAATTTATGTATAAAATAAGGTTTAG
10642772 GGTTAG
66 GGTTAG
10642778 TACAAGTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 40 0.65
82 9 0.15
83 13 0.21
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.45
Consensus pattern (82 bp):
TCGGGTTAGGATTTAGGGTTTAGATTAATTAATATGTTTTAATTTATGTATAAAATAAGGTTTAG
GGTTAGGGGTTAGGGAT
Found at i:10643182 original size:29 final size:28
Alignment explanation
Indices: 10643150--10643204 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
10643140 GGTTTTGACT
*
10643150 TTTACTGTTTGGGGTTTTGGAGTTTAGCA
1 TTTACGGTTTGGGG-TTTGGAGTTTAGCA
* *
10643179 TTTAGGGTTTGGGGTTTGGGGTTTAG
1 TTTACGGTTTGGGGTTTGGAGTTTAG
10643205 GGTTTGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.11, C:0.04, G:0.38, T:0.47
Consensus pattern (28 bp):
TTTACGGTTTGGGGTTTGGAGTTTAGCA
Found at i:10643195 original size:21 final size:21
Alignment explanation
Indices: 10643165--10643211 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10643155 TGTTTGGGGT
10643165 TTTGGAGTTTAGCATTTAGGG
1 TTTGGAGTTTAGCATTTAGGG
* * **
10643186 TTTGGGGTTTGGGGTTTAGGG
1 TTTGGAGTTTAGCATTTAGGG
10643207 TTTGG
1 TTTGG
10643212 TTTTTGAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.02, G:0.43, T:0.45
Consensus pattern (21 bp):
TTTGGAGTTTAGCATTTAGGG
Found at i:10643217 original size:21 final size:21
Alignment explanation
Indices: 10643179--10643230 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
10643169 GAGTTTAGCA
*
10643179 TTTAGGGTTTGGGGTTTGGGG
1 TTTAGGGTTTGGGGTTTGAGG
**
10643200 TTTAGGGTTTGGTTTTTGAGG
1 TTTAGGGTTTGGGGTTTGAGG
*
10643221 TTTAAGGTTT
1 TTTAGGGTTT
10643231 ACAAATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTGGGGTTTGAGG
Found at i:10645421 original size:10 final size:10
Alignment explanation
Indices: 10645406--10645440 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
10645396 GTTATGGGTA
*
10645406 AATTTTAAAT
1 AATTTTATAT
10645416 AATTTTATAT
1 AATTTTATAT
10645426 AATTTTATAT
1 AATTTTATAT
10645436 AATTT
1 AATTT
10645441 CATAATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATTTTATAT
Found at i:10645506 original size:16 final size:16
Alignment explanation
Indices: 10645485--10645520 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
10645475 ATATTTATAA
*
10645485 TTATCGATTTGCAATT
1 TTATCGATTTACAATT
10645501 TTATCGATTTACAATT
1 TTATCGATTTACAATT
10645517 TTAT
1 TTAT
10645521 TTCAATTAAT
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:0.28, C:0.11, G:0.08, T:0.53
Consensus pattern (16 bp):
TTATCGATTTACAATT
Found at i:10646327 original size:9 final size:9
Alignment explanation
Indices: 10646304--10646456 Score: 67
Period size: 9 Copynumber: 17.9 Consensus size: 9
10646294 ATATATTCAT
10646304 TTACATAAC
1 TTACATAAC
10646313 --ACATAAC
1 TTACATAAC
10646320 TTACATAAC
1 TTACATAAC
* *
10646329 CTACTTAA-
1 TTACATAAC
*
10646337 -TATATAAC
1 TTACATAAC
*
10646345 TTGCATAAC
1 TTACATAAC
* *
10646354 TTAAATAAG
1 TTACATAAC
10646363 TTACATAA-
1 TTACATAAC
10646371 TAATACATAA-
1 T--TACATAAC
*
10646381 -TACACAAC
1 TTACATAAC
*
10646389 TTACAT--G
1 TTACATAAC
*
10646396 TGTAAATAA-
1 T-TACATAAC
*
10646405 -TACAGAAC
1 TTACATAAC
10646413 TTACATAAC
1 TTACATAAC
*
10646422 TTACATACC
1 TTACATAAC
* *
10646431 CTACATAAA
1 TTACATAAC
* *
10646440 TTAAATAAG
1 TTACATAAC
10646449 TTACATAA
1 TTACATAA
10646457 TANNNNNNNN
Statistics
Matches: 106, Mismatches: 25, Indels: 26
0.68 0.16 0.17
Matches are distributed among these distances:
7 24 0.23
8 5 0.05
9 70 0.66
10 7 0.07
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:10650914 original size:21 final size:21
Alignment explanation
Indices: 10650888--10650934 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
10650878 CTACAACTTA
* * *
10650888 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAAGCGGCAACGAGAG
*
10650909 AAGCAGAAGCTGCAACGAGAG
1 AAGCAGAAGCGGCAACGAGAG
10650930 AAGCA
1 AAGCA
10650935 TAGTAGGCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.19, G:0.40, T:0.02
Consensus pattern (21 bp):
AAGCAGAAGCGGCAACGAGAG
Found at i:10651356 original size:42 final size:42
Alignment explanation
Indices: 10651304--10651492 Score: 326
Period size: 42 Copynumber: 4.5 Consensus size: 42
10651294 TACTATTTTT
*
10651304 CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
*
10651346 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCACCGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
*
10651388 CATGGTCTTTAGAGGC-TTTTTTTCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
*
10651429 CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
*
10651471 CATAGTCTTTAGCGGCGTTTTT
1 CATGGTCTTTAGCGGCGTTTTT
10651493 GTTTGTAAAC
Statistics
Matches: 138, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
41 38 0.28
42 100 0.72
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (42 bp):
CATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAA
Found at i:10651421 original size:83 final size:83
Alignment explanation
Indices: 10651304--10651492 Score: 315
Period size: 83 Copynumber: 2.3 Consensus size: 83
10651294 TACTATTTTT
*
10651304 CATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
1 CATGGTCTTTAGCGGC-TTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTT
10651369 TCTAAGCACCGCTAAAGAA
65 TCTAAGCACCGCTAAAGAA
* *
10651388 CATGGTCTTTAGAGGCTTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT
1 CATGGTCTTTAGCGGCTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
*
10651453 CTAAGCGCCGCTAAAGAA
66 CTAAGCACCGCTAAAGAA
* *
10651471 CATAGTCTTTAGCGGCGTTTTT
1 CATGGTCTTTAGCGGCTTTTTT
10651493 GTTTGTAAAC
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 84 0.86
84 14 0.14
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (83 bp):
CATGGTCTTTAGCGGCTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
CTAAGCACCGCTAAAGAA
Found at i:10655220 original size:32 final size:31
Alignment explanation
Indices: 10655161--10655222 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
10655151 AAAGTTAATT
*
10655161 TAAATTGGAATTAAAAAATAATCATAAATATC
1 TAAATTGAAATTAAAAAATAA-CATAAATATC
10655193 TAAATTGAAATTAAAATAAATAA-ATAAATA
1 TAAATTGAAATT-AAA-AAATAACATAAATA
10655223 AAACTCACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 18 0.67
33 3 0.11
34 6 0.22
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (31 bp):
TAAATTGAAATTAAAAAATAACATAAATATC
Found at i:10655584 original size:31 final size:31
Alignment explanation
Indices: 10655524--10655587 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
10655514 GTTACAAACG
* * **
10655524 GTCATTAAATTATTTGGATGTTTTCATTTAA
1 GTCACTAAATTATTTGAAAATTTTCATTTAA
*
10655555 GTCACTAAATTATTTGAAAATTTTTATTTAA
1 GTCACTAAATTATTTGAAAATTTTCATTTAA
10655586 GT
1 GT
10655588 TATTAATCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.33, C:0.06, G:0.11, T:0.50
Consensus pattern (31 bp):
GTCACTAAATTATTTGAAAATTTTCATTTAA
Found at i:10659778 original size:16 final size:18
Alignment explanation
Indices: 10659744--10659784 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10659734 ATTGATAGTA
10659744 TATAAA-TTGAGAGTATT
1 TATAAATTTGAGAGTATT
10659761 TATAAATTTGA-A-TATT
1 TATAAATTTGAGAGTATT
10659777 TATTAAAT
1 TA-TAAAT
10659785 ATGTATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.27
17 12 0.55
18 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (18 bp):
TATAAATTTGAGAGTATT
Found at i:10660229 original size:32 final size:33
Alignment explanation
Indices: 10660193--10660260 Score: 84
Period size: 36 Copynumber: 2.0 Consensus size: 33
10660183 CAGCCAAATC
10660193 CCAAA-GTCTTTCTGCGATATCCCCTCATCCTT
1 CCAAACGTCTTTCTGCGATATCCCCTCATCCTT
* *
10660225 CCAAATCCTGTCTTTCTTCGATTTCCCCTCATCCTT
1 CCAAA--C-GTCTTTCTGCGATATCCCCTCATCCTT
10660261 TTCGATTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 5 0.17
36 25 0.83
ACGTcount: A:0.16, C:0.38, G:0.07, T:0.38
Consensus pattern (33 bp):
CCAAACGTCTTTCTGCGATATCCCCTCATCCTT
Found at i:10660266 original size:20 final size:20
Alignment explanation
Indices: 10660241--10660281 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
10660231 CCTGTCTTTC
10660241 TTCGATTTCCCCTCATCCTT
1 TTCGATTTCCCCTCATCCTT
10660261 TTCGATTTCCCCTCATCCTT
1 TTCGATTTCCCCTCATCCTT
10660281 T
1 T
10660282 CTTCATCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.10, C:0.39, G:0.05, T:0.46
Consensus pattern (20 bp):
TTCGATTTCCCCTCATCCTT
Found at i:10665340 original size:42 final size:42
Alignment explanation
Indices: 10665276--10665501 Score: 303
Period size: 42 Copynumber: 5.4 Consensus size: 42
10665266 TCCCAAAAAT
* * *
10665276 GCGCCGCTAAAGTACATGGTCTTTAGCGGCATTTTTTTCTAA
1 GCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAA
* *
10665318 GCGTCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTCCTAA
1 GCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAA
* * *
10665360 GCACCAG-TACAGAACA-TGATCTTTAGAGGCGTTTTTTTTCTAA
1 GCGCC-GCTAAAGAACATTG-TCTTTAGCGGCG-TTTTTTTCTAA
10665403 GCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAA
1 GCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAA
* * * *
10665445 GCGTCGCTAAAGAACATGGTCTTTAGAGACGTTTTTTTCTAA
1 GCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAA
10665487 GCGCCGCTAAAGAAC
1 GCGCCGCTAAAGAAC
10665502 TTTTTCAAAG
Statistics
Matches: 161, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.01
42 123 0.76
43 34 0.21
44 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (42 bp):
GCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAA
Found at i:10665431 original size:85 final size:84
Alignment explanation
Indices: 10665279--10665501 Score: 331
Period size: 85 Copynumber: 2.6 Consensus size: 84
10665269 CAAAAATGCG
* * * *
10665279 CCGCTAAAGTACATGGTCTTTAGCGGCATTTTTTTCTAAGCGTCGCTAAAGAACATTGTCTTTAG
1 CCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATTGTCTTTAG
10665344 CGGCGTTTTTTCCTAAGCA
66 CGGCGTTTTTTCCTAAGCA
* *
10665363 CCAG-TACAGAACATGATCTTTAGAGGCGTTTTTTTTCTAAGCGCCGCTAAAGAACATTGTCTTT
1 CC-GCTAAAGAACATGGTCTTTAGAGGCG-TTTTTTTCTAAGCGCCGCTAAAGAACATTGTCTTT
* *
10665427 AGCGGCGTTTTTTTCTAAGCG
64 AGCGGCGTTTTTTCCTAAGCA
* *
10665448 TCGCTAAAGAACATGGTCTTTAGAGACGTTTTTTTCTAAGCGCCGCTAAAGAAC
1 CCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAAC
10665502 TTTTTCAAAG
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
84 48 0.39
85 76 0.61
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (84 bp):
CCGCTAAAGAACATGGTCTTTAGAGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATTGTCTTTAG
CGGCGTTTTTTCCTAAGCA
Found at i:10665512 original size:24 final size:24
Alignment explanation
Indices: 10665478--10665525 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
10665468 TAGAGACGTT
*
10665478 TTTTTCTAAGCGCCGCTAAAGAAC
1 TTTTTCAAAGCGCCGCTAAAGAAC
10665502 TTTTTCAAAGCGCCGCTAAAGAAC
1 TTTTTCAAAGCGCCGCTAAAGAAC
10665526 ATGTGCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (24 bp):
TTTTTCAAAGCGCCGCTAAAGAAC
Found at i:10665544 original size:66 final size:66
Alignment explanation
Indices: 10665436--10665567 Score: 214
Period size: 66 Copynumber: 2.0 Consensus size: 66
10665426 TAGCGGCGTT
* *
10665436 TTTTTCTAAGCGTCGCTAAAGAACATGGTCTTTAGAGACGTTTTTTTCTAAGCGCCGCTAAAGAA
1 TTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGAGACGTTTTTTTCTAAGCGCCGCTAAAGAA
10665501 C
66 C
10665502 TTTTTCAAAGCGCCGCTAAAGAACAT-GTGCTTTAGCAG-CGTTTTTTTCTAAGCGCCGCTAAAG
1 TTTTTCAAAGCGCCGCTAAAGAACATGGT-CTTTAG-AGACGTTTTTTTCTAAGCGCCGCTAAAG
10665565 AAC
64 AAC
10665568 ATGGTCTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
65 2 0.03
66 58 0.94
67 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (66 bp):
TTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGAGACGTTTTTTTCTAAGCGCCGCTAAAGAA
C
Found at i:10665559 original size:42 final size:42
Alignment explanation
Indices: 10665502--10665588 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
10665492 GCTAAAGAAC
10665502 TTTTTCAAAGCGCCGCTAAAGAACAT-GTGCTTTAGCAGCGTT
1 TTTTTCAAAGCGCCGCTAAAGAACATGGT-CTTTAGCAGCGTT
* *
10665544 TTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTT
1 TTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGCAGCGTT
10665586 TTT
1 TTT
10665589 GTTTGTAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (42 bp):
TTTTTCAAAGCGCCGCTAAAGAACATGGTCTTTAGCAGCGTT
Found at i:10665586 original size:108 final size:108
Alignment explanation
Indices: 10665394--10665588 Score: 329
Period size: 108 Copynumber: 1.8 Consensus size: 108
10665384 AGAGGCGTTT
* * *
10665394 TTTTTCTAAGCGCCGCTAAAGAACATTGTCTTTAGCGGCGTTTTTTTCTAAGCGTCGCTAAAGAA
1 TTTTTCAAAGCGCCGCTAAAGAACATTGTCTTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAAGAA
10665459 CATGGTCTTTAGAGACGTTTTTTTCTAAGCGCCGCTAAAGAAC
66 CATGGTCTTTAGAGACGTTTTTTTCTAAGCGCCGCTAAAGAAC
10665502 TTTTTCAAAGCGCCGCTAAAGAACA-TGTGCTTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAAGA
1 TTTTTCAAAGCGCCGCTAAAGAACATTGT-CTTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAAGA
* *
10665566 ACATGGTCTTTAGCGGCGTTTTT
65 ACATGGTCTTTAGAGACGTTTTT
10665589 GTTTGTAAAC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
107 3 0.04
108 78 0.96
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (108 bp):
TTTTTCAAAGCGCCGCTAAAGAACATTGTCTTTAGCAGCGTTTTTTTCTAAGCGCCGCTAAAGAA
CATGGTCTTTAGAGACGTTTTTTTCTAAGCGCCGCTAAAGAAC
Found at i:10666675 original size:31 final size:32
Alignment explanation
Indices: 10666631--10666690 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
10666621 AACTGGTGCC
*
10666631 GCCTAACACCAACCCTCTA-CCCC-TAAATGCT
1 GCCTAACAACAACCCT-TATCCCCTTAAATGCT
*
10666662 GCCTGACAACAACCCTTATCCCCTTAAAT
1 GCCTAACAACAACCCTTATCCCCTTAAAT
10666691 TAACCTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 18 0.72
32 5 0.20
ACGTcount: A:0.30, C:0.42, G:0.07, T:0.22
Consensus pattern (32 bp):
GCCTAACAACAACCCTTATCCCCTTAAATGCT
Found at i:10670710 original size:15 final size:16
Alignment explanation
Indices: 10670685--10670718 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10670675 AATCATTTAA
*
10670685 TTAACTTAATTAATCT
1 TTAACTTAATTAAACT
10670701 TTAA-TTAATTAAACT
1 TTAACTTAATTAAACT
10670716 TTA
1 TTA
10670719 CTCACAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAACTTAATTAAACT
Found at i:10674740 original size:21 final size:21
Alignment explanation
Indices: 10674711--10674751 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
10674701 TCTTTTAATT
* * *
10674711 TTAGTTTAGTTTTCTCTTTTC
1 TTAGGTTAGATTTCTATTTTC
10674732 TTAGGTTAGATTTCTATTTT
1 TTAGGTTAGATTTCTATTTT
10674752 GAGAGATCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63
Consensus pattern (21 bp):
TTAGGTTAGATTTCTATTTTC
Found at i:10679020 original size:39 final size:39
Alignment explanation
Indices: 10678977--10679175 Score: 326
Period size: 39 Copynumber: 5.1 Consensus size: 39
10678967 TTTCTTTGGA
10678977 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
* * * *
10679016 GATAGTATTTGGATATGATTTCCAAAATGAAACTTAGCA
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
10679055 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
* * * *
10679094 GATAGTATTTGGATATGATTTCCAAAATGAAACTTAGCA
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
10679133 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
1 GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
10679172 GATA
1 GATA
10679176 CTACACTTAA
Statistics
Matches: 144, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 144 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (39 bp):
GATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCG
Found at i:10679105 original size:78 final size:78
Alignment explanation
Indices: 10678976--10679175 Score: 400
Period size: 78 Copynumber: 2.6 Consensus size: 78
10678966 ATTTCTTTGG
10678976 AGATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCGGATAGTATTTGGATATGATTTCCAA
1 AGATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCGGATAGTATTTGGATATGATTTCCAA
10679041 AATGAAACTTAGC
66 AATGAAACTTAGC
10679054 AGATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCGGATAGTATTTGGATATGATTTCCAA
1 AGATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCGGATAGTATTTGGATATGATTTCCAA
10679119 AATGAAACTTAGC
66 AATGAAACTTAGC
10679132 AGATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCGGATA
1 AGATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCGGATA
10679176 CTACACTTAA
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 122 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (78 bp):
AGATAGTATTTGGATATGATTTCCAGAACGAAACTCAGCGGATAGTATTTGGATATGATTTCCAA
AATGAAACTTAGC
Found at i:10682447 original size:12 final size:12
Alignment explanation
Indices: 10682430--10682465 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
10682420 ACACAAAGTT
*
10682430 TTTTAAGTATTG
1 TTTTAAGAATTG
10682442 TTTTAAGAATTG
1 TTTTAAGAATTG
*
10682454 TTTTAAGCATTG
1 TTTTAAGAATTG
10682466 ACATAGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.53
Consensus pattern (12 bp):
TTTTAAGAATTG
Done.