Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold189
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: 2243555
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 9 of 9
Found at i:2121412 original size:21 final size:21
Alignment explanation
Indices: 2121388--2121467 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
2121378 AGATTAAATT
2121388 TATATGTATAAATATAAAAAA
1 TATATGTATAAATATAAAAAA
* * *
2121409 TATATGTATTAATATATAAAT
1 TATATGTATAAATATAAAAAA
*
2121430 TAT-TGTATAGAAATATAAAATA
1 TATATGTAT--AAATATAAAAAA
*
2121452 TATATTTATAATATAT
1 TATATGTATAA-ATAT
2121468 TATTGATATT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.11
21 23 0.49
22 15 0.32
23 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
TATATGTATAAATATAAAAAA
Found at i:2131528 original size:5 final size:5
Alignment explanation
Indices: 2131518--2131544 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
2131508 AACGACAACT
2131518 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
2131545 CTCTCTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:2131551 original size:2 final size:2
Alignment explanation
Indices: 2131544--2131589 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
2131534 TTTCTTTTCT
2131544 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC GTC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC -TC
2131587 TC T
1 TC T
2131590 TTCTACCCTG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.00, C:0.48, G:0.02, T:0.50
Consensus pattern (2 bp):
TC
Found at i:2134123 original size:2 final size:2
Alignment explanation
Indices: 2134118--2134148 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2134108 TCTCTCTCTC
2134118 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2134149 TAGATAATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2135283 original size:21 final size:21
Alignment explanation
Indices: 2135225--2135271 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2135215 TATTGAAAGT
* * **
2135225 TGCATTTTTTCATCCAAAAAA
1 TGCATTCTTTCATTCAACCAA
2135246 TGCATTCTTTCATTCAACCAA
1 TGCATTCTTTCATTCAACCAA
2135267 TGCAT
1 TGCAT
2135272 CATTTTATTC
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:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (21 bp):
TGCATTCTTTCATTCAACCAA
Found at i:2140206 original size:19 final size:18
Alignment explanation
Indices: 2140180--2140217 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
2140170 AATTATATAA
2140180 ATAAAAA-TTAATAACATT
1 ATAAAAATTTAATAA-ATT
2140198 ATAATAAATTTAATAAATT
1 ATAA-AAATTTAATAAATT
2140217 A
1 A
2140218 AATTTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAATTTAATAAATT
Found at i:2141472 original size:12 final size:12
Alignment explanation
Indices: 2141433--2141480 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
2141423 TAATTTAAGT
2141433 ATTTAATTATAA
1 ATTTAATTATAA
**
2141445 ATTTTTTTA-AA
1 ATTTAATTATAA
2141456 GATTTAATTATAA
1 -ATTTAATTATAA
*
2141469 ATTTAATAATAA
1 ATTTAATTATAA
2141481 TATATGAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
11 2 0.07
12 25 0.86
13 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
ATTTAATTATAA
Found at i:2141560 original size:25 final size:26
Alignment explanation
Indices: 2141532--2141586 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
2141522 TTAGTGGCAT
* **
2141532 AAAATAACAG-AAAATTGGTTGTAAA
1 AAAATAAAAGCAAAATTCATTGTAAA
2141557 AAAA-AAAAGCAAAATTCATTGTAAA
1 AAAATAAAAGCAAAATTCATTGTAAA
2141582 AAAAT
1 AAAAT
2141587 TGAGTGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 4 0.16
25 21 0.84
ACGTcount: A:0.62, C:0.05, G:0.11, T:0.22
Consensus pattern (26 bp):
AAAATAAAAGCAAAATTCATTGTAAA
Found at i:2148014 original size:23 final size:24
Alignment explanation
Indices: 2147998--2148096 Score: 99
Period size: 24 Copynumber: 4.0 Consensus size: 24
2147988 TAAATATTAT
2147998 TTTTTTTATTTATTAAAAATGATA
1 TTTTTTTATTTATTAAAAATGATA
*
2148022 TTTTTTTATTTATAAAAAATGATAA
1 TTTTTTTATTTATTAAAAATGAT-A
* * *
2148047 TTTTTTTTTATTTGTAAAAAATGATG
1 --TTTTTTTATTTATTAAAAATGATA
* * * *
2148073 GTTTATTATTTTTTAAAATTGATA
1 TTTTTTTATTTATTAAAAATGATA
2148097 ATTAATTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
24 40 0.63
25 1 0.02
27 22 0.35
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (24 bp):
TTTTTTTATTTATTAAAAATGATA
Found at i:2148027 original size:27 final size:26
Alignment explanation
Indices: 2147997--2148071 Score: 109
Period size: 24 Copynumber: 2.9 Consensus size: 26
2147987 ATAAATATTA
*
2147997 TTTTTTTTATTTATTAAAAATGATA-
1 TTTTTTTTATTTATAAAAAATGATAT
2148022 -TTTTTTTATTTATAAAAAATGATAAT
1 TTTTTTTTATTTATAAAAAATGAT-AT
*
2148048 TTTTTTTTATTTGTAAAAAATGAT
1 TTTTTTTTATTTATAAAAAATGAT
2148072 GGTTTATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
24 22 0.49
25 1 0.02
27 22 0.49
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.57
Consensus pattern (26 bp):
TTTTTTTTATTTATAAAAAATGATAT
Found at i:2148056 original size:51 final size:51
Alignment explanation
Indices: 2147997--2148109 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
2147987 ATAAATATTA
* * *
2147997 TTTTTTTTATTTATTAAAAATGATATTTTTTTATTTATAAAAAATGATAAT
1 TTTTTTTTATTTATAAAAAATGATAGTTTATTATTTATAAAAAATGATAAT
* * * * *
2148048 TTTTTTTTATTTGTAAAAAATGATGGTTTATTATTTTTTAAAATTGATAAT
1 TTTTTTTTATTTATAAAAAATGATAGTTTATTATTTATAAAAAATGATAAT
**
2148099 TAATTTTTATT
1 TTTTTTTTATT
2148110 ACAAATAAAG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (51 bp):
TTTTTTTTATTTATAAAAAATGATAGTTTATTATTTATAAAAAATGATAAT
Found at i:2153785 original size:14 final size:14
Alignment explanation
Indices: 2153766--2153794 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2153756 TATAGACATA
2153766 GATATTAGATATAT
1 GATATTAGATATAT
2153780 GATATTAGATATAT
1 GATATTAGATATAT
2153794 G
1 G
2153795 GGGTTTAACC
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:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (14 bp):
GATATTAGATATAT
Found at i:2156409 original size:12 final size:12
Alignment explanation
Indices: 2156392--2156422 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2156382 TTGTACACTT
2156392 ACTAAATTATAA
1 ACTAAATTATAA
2156404 ACTAAATTATAA
1 ACTAAATTATAA
*
2156416 AATAAAT
1 ACTAAAT
2156423 GAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (12 bp):
ACTAAATTATAA
Found at i:2169531 original size:4 final size:4
Alignment explanation
Indices: 2169524--2169569 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
2169514 AAAAAAATTG
* *
2169524 AGAA AGAA AGAG AGAA AGAA GGAA AG-A A-AA AGAA A-AA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
2169569 A
1 A
2169570 AAAATTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 7 0.20
4 28 0.80
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:2170205 original size:22 final size:21
Alignment explanation
Indices: 2170180--2170220 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
2170170 GGGAGAGAAG
2170180 GAAAAAAAAGAGAGAAAAAAAA
1 GAAAAAAAAGAGA-AAAAAAAA
*
2170202 GAAAAGAAAGAGAAAAAAA
1 GAAAAAAAAGAGAAAAAAA
2170221 GAGACAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
GAAAAAAAAGAGAAAAAAAAA
Found at i:2170217 original size:16 final size:15
Alignment explanation
Indices: 2170182--2170235 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 15
2170172 GAGAGAAGGA
2170182 AAAAAAAGAGAGAAA-
1 AAAAAAAGAGA-AAAG
*
2170197 AAAAAGAAAAGAAAGAG
1 AAAAA-AAGAGAAA-AG
2170214 AAAAAAAGAGACAAAG
1 AAAAAAAGAGA-AAAG
2170230 AAAAAA
1 AAAAAA
2170236 TTTATCGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 7 0.21
16 19 0.58
17 7 0.21
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAGAAAAG
Found at i:2170229 original size:22 final size:20
Alignment explanation
Indices: 2170190--2170232 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 20
2170180 GAAAAAAAAG
2170190 AGAGAAAAAAAAGAAAAGAA
1 AGAGAAAAAAAAGAAAAGAA
2170210 AGAGAAAAAAAGAGACAAAGAA
1 AGAGAAAAAAA-AGA-AAAGAA
2170232 A
1 A
2170233 AAATTTATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 3 0.14
22 7 0.33
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (20 bp):
AGAGAAAAAAAAGAAAAGAA
Found at i:2171348 original size:16 final size:17
Alignment explanation
Indices: 2171321--2171361 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
2171311 ATTTTTAAAT
2171321 AAATTTTA-TTAATT-A
1 AAATTTTATTTAATTAA
*
2171336 TAATTTTATTTAATTAA
1 AAATTTTATTTAATTAA
2171353 AAATTTTAT
1 AAATTTTAT
2171362 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 6 0.27
17 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTTTATTTAATTAA
Found at i:2174265 original size:3 final size:3
Alignment explanation
Indices: 2174259--2174290 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2174249 ATTCCCATGA
2174259 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
2174291 AGGTGAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:2175311 original size:47 final size:46
Alignment explanation
Indices: 2175260--2175403 Score: 139
Period size: 47 Copynumber: 3.1 Consensus size: 46
2175250 TTTTTAAAAA
* * *
2175260 TAATTTATAACTTTTGCACGAATAAAGTTATAAACCTTCTGTACAAT
1 TAATTTATAATTTTTACAC-AATAAAGTTACAAACCTTCTGTACAAT
* ** *
2175307 TAATTTGTAATTTTTACACAGATAAAGTTACAAATATTTCTCATA-AA-
1 TAATTTATAATTTTTACACA-ATAAAGTTACAAA-CCTTCT-GTACAAT
* * *
2175354 CAATTTATTATTTTTACACAAATAAAGTTACAAACCTTCCGTACAAT
1 TAATTTATAATTTTTACAC-AATAAAGTTACAAACCTTCTGTACAAT
2175401 TAA
1 TAA
2175404 CACACTAGTA
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
45 2 0.03
46 6 0.08
47 59 0.78
48 7 0.09
49 2 0.03
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (46 bp):
TAATTTATAATTTTTACACAATAAAGTTACAAACCTTCTGTACAAT
Found at i:2175838 original size:3 final size:3
Alignment explanation
Indices: 2175830--2175861 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2175820 ATTTATTTAC
2175830 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
2175862 GGTTTCGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2176252 original size:3 final size:3
Alignment explanation
Indices: 2176246--2176280 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
2176236 TAATAATGAT
2176246 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
2176281 AAAGCCCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:2177796 original size:21 final size:20
Alignment explanation
Indices: 2177772--2177810 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2177762 ATATTTAATT
2177772 AAATTAAAAAATTACATTAAC
1 AAATTAAAAAATTA-ATTAAC
*
2177793 AAATTAAAATATTAATTA
1 AAATTAAAAAATTAATTA
2177811 TATGTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTAAAAAATTAATTAAC
Found at i:2177926 original size:23 final size:23
Alignment explanation
Indices: 2177863--2177940 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
2177853 TTAATAAAAT
* *
2177863 AAAAAATAATATTTAATTAAATTTA
1 AAAAAATAACATTTAA--AAAATTA
* *
2177888 TAAAAATTTACA-TTAAAAAATTA
1 -AAAAAATAACATTTAAAAAATTA
** *
2177911 AAAAAATAACATTTAAGGAATGA
1 AAAAAATAACATTTAAAAAATTA
2177934 AAAAAAT
1 AAAAAAT
2177941 TATTATTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
22 9 0.21
23 21 0.50
25 4 0.10
26 8 0.19
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAAAATAACATTTAAAAAATTA
Found at i:2178394 original size:121 final size:119
Alignment explanation
Indices: 2178230--2178586 Score: 400
Period size: 122 Copynumber: 2.9 Consensus size: 119
2178220 AAAAAATATT
* *
2178230 ATTATAATAAAAAACGTTTTTTAATTTAAAATTTTTTACTTTTAAAAATATAATAATTAATATTT
1 ATTATAATAAAAAAC-CTTTTT-ATTTAAAATTTTTTATTTTTAAAAA-ATAATAATTAATATTT
* *
2178295 CAATTTGTTAATGTAAATTTTTAAACTCAATTAAATATTATTTATTATTTTATT-CAAA
63 -AATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTT-TTATTTTATTAAAAA
2178353 ATTATAATAAAAAACCTTTTTATTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA-ATTT
1 ATTATAATAAAAAACCTTTTTATTTAAAATTTTTTA-TTTT-TAAAAA-ATAATAATTAATATTT
* * *
2178417 TATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAA
63 AATTTGTTAATGTAA-ATTTTTAAACTTAATTAAATATTATTTTT-ATTTTATTAAAAA
* * * *
2178476 ATAATAATAATAAACCCTTTTTATTTTTTTTAAATTTTTTATTATT--AAAA-AATAATTAATAT
1 ATTATAATAA-AAAACCTTTTTA----TTTAAAATTTTTTATTTTTAAAAAATAATAATTAATA-
* *
2178538 TTTAATTTGTTAATATAAATTTCTTTAAAGTTAATTAAATATTATTTTT
60 TTTAATTTGTTAATGTAAA-TT-TTTAAACTTAATTAAATATTATTTTT
2178587 TATTAAAAAT
Statistics
Matches: 204, Mismatches: 16, Indels: 26
0.83 0.07 0.11
Matches are distributed among these distances:
121 31 0.15
122 53 0.26
123 46 0.23
124 32 0.16
125 25 0.12
126 1 0.00
127 3 0.01
128 13 0.06
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (119 bp):
ATTATAATAAAAAACCTTTTTATTTAAAATTTTTTATTTTTAAAAAATAATAATTAATATTTAAT
TTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAAA
Found at i:2178622 original size:125 final size:120
Alignment explanation
Indices: 2178281--2178637 Score: 280
Period size: 125 Copynumber: 2.9 Consensus size: 120
2178271 TTAAAAATAT
* * * * * *
2178281 AATAATTAATATTTCAATTTGTTAATGTAAATT-TTTAAACTCAATTAAATATTATTTATTATTT
1 AATAATTAA-ATTT-TATTTGTTAATATAATTTCTTTAAAGTTAATTAAATATTATTT-TTATAT
** * * * *
2178345 TATTCAAAATTATAATAAAAAAC-CTTTTT--A--TTTAAAATTTTTTATTTTTATAAAAACA
63 TATAAAAAATAATAATAATAAACACTTTTTAAATTTTTTAAATTTTTTA---TTAT-TAAA-A
* * * *
2178403 TAATAATTAAATTTTATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTT
1 -AATAATTAAATTTTATTTGTTAATATAATTTCTTTAAAGTTAATTAAATATTATTTTT-ATATT
* **
2178468 ATTAAAAAATAATAATAATAAACCCTTTTTATTTTTTTTAAATTTTTTATTATTAAAA
64 A-TAAAAAATAATAATAATAAACACTTTTTAAATTTTTTAAATTTTTTATTATTAAAA
2178526 AATAATTAATATTTTAATTTGTTAATATAAATTTCTTTAAAGTTAATTAAATATTATTTTT-TAT
1 AATAATTAA-ATTTT-ATTTGTTAATAT-AATTTCTTTAAAGTTAATTAAATATTATTTTTATAT
* * ** *
2178590 TA-AAAATAATGAGTTAATACATTATTATTTTTTAAATTTTTTAAATTT
63 TATAAAA-AAT-A-ATAATA-ATAAACACTTTTTAAATTTTTTAAATTT
2178638 AATTAATTTA
Statistics
Matches: 196, Mismatches: 23, Indels: 28
0.79 0.09 0.11
Matches are distributed among these distances:
121 22 0.11
122 44 0.22
123 37 0.19
124 25 0.13
125 55 0.28
128 13 0.07
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (120 bp):
AATAATTAAATTTTATTTGTTAATATAATTTCTTTAAAGTTAATTAAATATTATTTTTATATTAT
AAAAAATAATAATAATAAACACTTTTTAAATTTTTTAAATTTTTTATTATTAAAA
Found at i:2178999 original size:39 final size:39
Alignment explanation
Indices: 2178886--2179046 Score: 103
Period size: 38 Copynumber: 4.2 Consensus size: 39
2178876 TTTAAAGTTA
* * * *
2178886 ATTAAAATCTAAAAGATAT-AGGTAATATATAATTTTTTT
1 ATTAAAATTTAAAAAATATGA-CTAATATATAAATTTTTT
* * * * * * *
2178925 ATTATATTTTGAAAGATATTAGTAAT-TATAGATTTTTT
1 ATTAAAATTTAAAAAATATGACTAATATATAAATTTTTT
*
2178963 ATTAAAATTTAAAAAATGTGACTAATATATAAA-TTTTT
1 ATTAAAATTTAAAAAATATGACTAATATATAAATTTTTT
* * * * * * *
2179001 GTTCAAATTCAAAAGATATGATTGATATATGAATTTTATT
1 ATTAAAATTTAAAAAATATGACTAATATATAAATTTT-TT
*
2179041 TTTAAA
1 ATTAAA
2179047 TAAATATAAT
Statistics
Matches: 94, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
38 59 0.63
39 28 0.30
40 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (39 bp):
ATTAAAATTTAAAAAATATGACTAATATATAAATTTTTT
Found at i:2182763 original size:70 final size:70
Alignment explanation
Indices: 2182684--2182965 Score: 365
Period size: 70 Copynumber: 4.0 Consensus size: 70
2182674 TCAACCAACT
* *
2182684 TTTCTTTTTT-TT-TAACCAAAAGAAATTTGATTCTTATG-TATAATTCATGCATTAGTCTAATC
1 TTTCTTTTTTCTTATAA--AAAAG-AATCTGATTCTCA-GATATAATTCATGCATTAGTCTAATC
*
2182746 CTTGTAGTC
62 CTTGCAGTC
2182755 TTTCTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
1 TTTCTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
*
2182820 CAGCC
66 CAGTC
* * * * * *
2182825 TTTCTTTTTTCCTATAATAAAGAATCTGATTCTTAGATATAATTTATGCATTAATATAATCCTTG
1 TTTCTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
2182890 CAGTC
66 CAGTC
* * *
2182895 TTTCTTGTTTT-TTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTTTAATCCTT
1 TTTCTT-TTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTT
*
2182959 GAAGTC
65 GCAGTC
2182965 T
1 T
2182966 GACATTTACA
Statistics
Matches: 187, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
69 1 0.01
70 162 0.87
71 19 0.10
72 2 0.01
73 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (70 bp):
TTTCTTTTTTCTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTG
CAGTC
Found at i:2182855 original size:140 final size:141
Alignment explanation
Indices: 2182702--2182959 Score: 405
Period size: 140 Copynumber: 1.8 Consensus size: 141
2182692 TTTTTAACCA
* * * *
2182702 AAAGAAATTTGATTCTTATG-TATAATTCATGCATTAGTCTAATCCTTGTAGTCTTTCTT-TTTT
1 AAAGAAATCTGATTCTTA-GATATAATTCATGCATTAATATAATCCTTGCAGTCTTTCTTGTTTT
* *
2182765 CTTATAAAAAAGAATCTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGCCTTTCT
65 -TTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGCCTTTCT
2182830 TTTTTCCTATAAT
129 TTTTTCCTATAAT
*
2182843 AAAG-AATCTGATTCTTAGATATAATTTATGCATTAATATAATCCTTGCAGTCTTTCTTGTTTTT
1 AAAGAAATCTGATTCTTAGATATAATTCATGCATTAATATAATCCTTGCAGTCTTTCTTGTTTTT
*
2182907 TATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTTTAATCCTTG
66 TATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTG
2182960 AAGTCTGACA
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
139 1 0.01
140 98 0.92
141 8 0.07
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (141 bp):
AAAGAAATCTGATTCTTAGATATAATTCATGCATTAATATAATCCTTGCAGTCTTTCTTGTTTTT
TATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGCCTTTCTTT
TTTCCTATAAT
Found at i:2183023 original size:94 final size:93
Alignment explanation
Indices: 2182890--2183151 Score: 411
Period size: 94 Copynumber: 2.8 Consensus size: 93
2182880 ATAATCCTTG
* *
2182890 CAGTCTTTCTTGTTTTT-TATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTTTAA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAGAATTCGATTCTCAAATATAATTCATGCATTAGTTTAA
2182954 TCCTTGAAGTCTGACATTTACAATCAAT
66 TCCTTGAAGTCTGACATTTACAATCAAT
* * *
2182982 CAGTCTTTCTTTTTTTTTCTATAAAAAAGAATTCGACTCTCAGATATAATTCATGTATTAGTTTA
1 CAGTCTTTC-TTTTTTTTCTATAAAAAAGAATTCGATTCTCAAATATAATTCATGCATTAGTTTA
*
2183047 ATCCTTGTAGTCTGACATTTACAATCAAT
65 ATCCTTGAAGTCTGACATTTACAATCAAT
* * *
2183076 TAGTCTTTCTTTTTTTTCTATAAAAAAGAATTCGATTCTCAAATATAATTCCTGCATTAGTATAA
1 CAGTCTTTCTTTTTTTTCTATAAAAAAGAATTCGATTCTCAAATATAATTCATGCATTAGTTTAA
*
2183141 T-CTTGCAGTCT
66 TCCTTGAAGTCT
2183152 TTCTTTTTTC
Statistics
Matches: 155, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
92 18 0.12
93 59 0.38
94 78 0.50
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.43
Consensus pattern (93 bp):
CAGTCTTTCTTTTTTTTCTATAAAAAAGAATTCGATTCTCAAATATAATTCATGCATTAGTTTAA
TCCTTGAAGTCTGACATTTACAATCAAT
Found at i:2183169 original size:69 final size:70
Alignment explanation
Indices: 2183077--2183361 Score: 423
Period size: 70 Copynumber: 4.1 Consensus size: 70
2183067 ACAATCAATT
* * * *
2183077 AGTCTTTCTTTTTTTTCTATAAAAAAGAAT-TCGATTCTCAAATATAATTCCTGCATTAGTATAA
1 AGTCTTTC-TTTTTTCCTATAAAAAAGAATCT-GATTCTCAAATATAATTCATACATTAGTCTAA
2183141 T-CTTGC
64 TCCTTGC
*
2183147 AGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCAGATATAATTCATACATTAGTCTAATC
1 AGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCAAATATAATTCATACATTAGTCTAATC
2183212 CTTGC
66 CTTGC
* *
2183217 AGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTTAGATATAATTCATACATTAGTCTAATC
1 AGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCAAATATAATTCATACATTAGTCTAATC
2183282 CTTGC
66 CTTGC
* * *
2183287 AGTCTTTCTTTTTT-TTAATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAAT
1 AGTCTTTCTTTTTTCCT-ATAAAAAAGAATCTGATTCTCAAATATAATTCATACATTAGTCTAAT
*
2183351 CCTTGT
65 CCTTGC
2183357 AGTCT
1 AGTCT
2183362 GACATTTACA
Statistics
Matches: 200, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
69 50 0.25
70 150 0.75
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.43
Consensus pattern (70 bp):
AGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTCTCAAATATAATTCATACATTAGTCTAATC
CTTGC
Found at i:2183332 original size:396 final size:388
Alignment explanation
Indices: 2182722--2183539 Score: 1327
Period size: 396 Copynumber: 2.1 Consensus size: 388
2182712 GATTCTTATG
* *
2182722 TATAATTCATGCATTAGTCTAATCCTTGTAGTCTTTCTTTTTTCTTATAAAAAAGAATCTGATTC
1 TATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTC
* *
2182787 TCAGATATAATTCATGCATTAGTCTAATCCTTGCAGCCTTTCTTTTTTCCTATAATAAAGAATCT
66 TCAGATATAATTCATACATTAGTCTAATCCTTGCAGCCTTTCTTTTTTCCTATAAAAAAGAATCT
* *
2182852 GATTCTTAGATATAATTTATGCATTAATATAATCCTTGCAGTCTTTCTTGTTTTTTATAAAAAAG
131 GATTCTTAGATATAATTCATACATTAATATAATCCTTGCAGTCTTTCTTGTTTTTTATAAAAAAG
*
2182917 AATCCGATTCTCAAATATAATTCATGCATTAGTTTAATCCTTGAAGTCTGACATTTACAATCAAT
196 AATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATCAAT
* * *
2182982 CAGTCTTTCTTTTTTTTTCTATAAAAAAGAATTCGACTCTCAGATATAATTCATGTATTAGTTTA
261 CAGTCTTTC--TTTTTTTCTATAAAAAAGAATTCGACTCTCAGATATAATTCATGCAGTAGTCTA
*
2183047 ATCCTTGTAGTCTGACATTTACAATCAATTAGTCTTTCTTTTTTTTCTATAAAAAAGAAT-TCGA
324 AT-CTTGTAGTCTGACATTTACAATCAATTA-----AC-TTTTTTTCTATAAAAAAGAATCT-GA
2183111 TTCTCAAA
381 TTCTCAAA
* *
2183119 TATAATTCCTGCATTAGTATAAT-CTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTC
1 TATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTC
*
2183183 TCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCT
66 TCAGATATAATTCATACATTAGTCTAATCCTTGCAGCCTTTCTTTTTTCCTATAAAAAAGAATCT
* *
2183248 GATTCTTAGATATAATTCATACATTAGTCTAATCCTTGCAGTCTTTCTT-TTTTTTAATAAAAAA
131 GATTCTTAGATATAATTCATACATTAATATAATCCTTGCAGTCTTTCTTGTTTTTT-ATAAAAAA
*
2183312 GAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTAGTCTGACATTTACAATCAA
195 GAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATCAA
* *
2183377 TTAGTCTTTCTTTTTTTCTATAAAAAAGAATTCGATTCTCAGATATAATTCATGCAGTAGTCTAA
260 TCAGTCTTTCTTTTTTTCTATAAAAAAGAATTCGACTCTCAGATATAATTCATGCAGTAGTCTAA
*
2183442 TCTTGTAGTCTGACATTTACAATCAATTAACTTTTTTTCTATAAAAAAGAATCTGATTCTCAAC
325 TCTTGTAGTCTGACATTTACAATCAATTAACTTTTTTTCTATAAAAAAGAATCTGATTCTCAAA
*
2183506 TATAATTCATGCATTAGTCTAATCCTTACAGTCT
1 TATAATTCATGCATTAGTCTAATCCTTGCAGTCT
2183540 AACATTTACA
Statistics
Matches: 395, Mismatches: 23, Indels: 15
0.91 0.05 0.03
Matches are distributed among these distances:
387 51 0.13
388 11 0.03
393 28 0.07
394 52 0.13
395 6 0.02
396 226 0.57
397 21 0.05
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (388 bp):
TATAATTCATGCATTAGTCTAATCCTTGCAGTCTTTCTTTTTTCCTATAAAAAAGAATCTGATTC
TCAGATATAATTCATACATTAGTCTAATCCTTGCAGCCTTTCTTTTTTCCTATAAAAAAGAATCT
GATTCTTAGATATAATTCATACATTAATATAATCCTTGCAGTCTTTCTTGTTTTTTATAAAAAAG
AATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATCAAT
CAGTCTTTCTTTTTTTCTATAAAAAAGAATTCGACTCTCAGATATAATTCATGCAGTAGTCTAAT
CTTGTAGTCTGACATTTACAATCAATTAACTTTTTTTCTATAAAAAAGAATCTGATTCTCAAA
Found at i:2183402 original size:91 final size:91
Alignment explanation
Indices: 2183289--2183685 Score: 452
Period size: 91 Copynumber: 4.4 Consensus size: 91
2183279 ATCCTTGCAG
2183289 TCTTTCTTTTTTT-TAATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCC
1 TCTTTCTTTTTTTCT-ATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCC
*
2183353 TTGTAGTCTGACATTTACAATCAATTA
65 TTGCAGTCTGACATTTACAATCAATTA
* * *
2183380 GTCTTTCTTTTTTTCTATAAAAAAGAATTCGATTCTCAGATATAATTCATGCAGTAGTCTAAT-C
1 -TCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCC
*
2183444 TTGTAGTCTGACATTTACAATCAATTA
65 TTGCAGTCTGACATTTACAATCAATTA
* * *
2183471 ----ACTTTTTTTCTATAAAAAAGAATCTGATTCTCAACTATAATTCATGCATTAGTCTAATCCT
1 TCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCT
* * * *
2183532 TACAGTCTAACATTTACAATCAGTCAA
66 TGCAGTCTGACATTTACAATCAAT-TA
* * ** * *
2183559 CTTTTATTTTTTTTTCTAT-AAAAA-AAT-TAATTTTCAGATATAATTCATGCATTAGTCTAATC
1 -TCTT-TCTTTTTTTCTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATC
* *
2183621 CTTGCAGTTTGATATTTACAATCAATTA
64 CTTGCAGTCTGACATTTACAATCAATTA
* *
2183649 ACTTTTCTTTTTTTTTTCCATAAAAAAGAATCCGATT
1 TC-TTTC---TTTTTTTCTATAAAAAAGAATCCGATT
2183686 TTAAGATATA
Statistics
Matches: 257, Mismatches: 32, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
86 52 0.20
87 22 0.09
88 1 0.00
89 1 0.00
90 3 0.01
91 80 0.31
92 70 0.27
93 11 0.04
94 14 0.05
95 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.43
Consensus pattern (91 bp):
TCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCT
TGCAGTCTGACATTTACAATCAATTA
Found at i:2183640 original size:178 final size:178
Alignment explanation
Indices: 2183294--2183659 Score: 515
Period size: 178 Copynumber: 2.1 Consensus size: 178
2183284 TGCAGTCTTT
**
2183294 CTTTTTTTTAATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGTAG
1 CTTTTTTTTAATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAG
* * * *
2183359 TCTGACATTTACAATCAATTAGTCTTTCTTTTTTTCTATAAAAAAGAATTCGATTCTCAGATATA
66 TCTAACATTTACAATCAATAACTCTTTCTTTTTTTCTATAAAAAAGAATTCAATTCTCAGATATA
*
2183424 ATTCATGCAGTAGTCTAATCTTGTAGTCTGACATTTACAATCAATTAA
131 ATTCATGCAGTAGTCTAATCTTGCAGTCTGACATTTACAATCAATTAA
* *
2183472 CTTTTTTTCT-ATAAAAAAGAATCTGATTCTCAACTATAATTCATGCATTAGTCTAATCCTTACA
1 CTTTTTTT-TAATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACA
* * * *
2183536 GTCTAACATTTACAATCAGTCAACTTTTATTTTTTTTTCTAT-AAAAA-AATT-AATTTTCAGAT
65 GTCTAACATTTACAATCAAT-AACTCTT-TCTTTTTTTCTATAAAAAAGAATTCAATTCTCAGAT
* * *
2183598 ATAATTCATGCATTAGTCTAATCCTTGCAGTTTGATATTTACAATCAATTAA
128 ATAATTCATGCAGTAGTCTAAT-CTTGCAGTCTGACATTTACAATCAATTAA
2183650 CTTTTCTTTT
1 CTTTT-TTTT
2183660 TTTTTTCCAT
Statistics
Matches: 167, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
177 30 0.18
178 112 0.67
179 13 0.08
180 12 0.07
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.43
Consensus pattern (178 bp):
CTTTTTTTTAATAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTACAG
TCTAACATTTACAATCAATAACTCTTTCTTTTTTTCTATAAAAAAGAATTCAATTCTCAGATATA
ATTCATGCAGTAGTCTAATCTTGCAGTCTGACATTTACAATCAATTAA
Found at i:2183708 original size:22 final size:21
Alignment explanation
Indices: 2183683--2183728 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
2183673 AAAGAATCCG
* * *
2183683 ATTTTAAGATATAATCACATTT
1 ATTTTAAAATAGAATC-CATGT
2183705 ATTTTAAAATAGAATCCATGT
1 ATTTTAAAATAGAATCCATGT
2183726 ATT
1 ATT
2183729 AGTTCATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (21 bp):
ATTTTAAAATAGAATCCATGT
Found at i:2184635 original size:123 final size:121
Alignment explanation
Indices: 2184327--2184688 Score: 462
Period size: 123 Copynumber: 2.9 Consensus size: 121
2184317 TATTATTTTT
*
2184327 AATAAAAAATAATATTTAATTAAATTTAAAAAAATTTATATTAACAAATTAAAATATTAATTATT
1 AATAAAAAATAATATTTAATTAAATTT--AAAAATTTACATTAACAAATTAAAATATTAATTATT
* *** * *
2184392 -TTTTAATAATACAAAATTTTAAA-TAAAAATAAAAAGAGTTTATTATTATTATTTTTTAATAA
64 ATTTT--TTATA-AAAATAAAAAATTTAAAATAAAAAG-GTTT-TTATTA-TAATTTTTAATAA
* *
2184454 AATTAAAAATAATATTTAATTAAATTTTAAAAAATTACATTAACAAATTAAAAT-TTAATTATTA
1 AATAAAAAATAATATTTAATTAAA-TTTAAAAATTTACATTAACAAATTAAAATATTAATTATTA
2184518 TGTTTTTATAAAAATAAAAAATTTCAAAATAAAAAGGTTTTTATTATAATTTTTAATAA
65 T-TTTTTATAAAAATAAAAAATTT-AAAATAAAAAGGTTTTTATTATAATTTTTAATAA
* *
2184577 AATAAAAAATAATATTTAATTCAGTTTAAAAATTTACATTAACAAATTAAAATATTAATTATTAT
1 AATAAAAAATAATATTTAATTAAATTTAAAAATTTACATTAACAAATTAAAATATTAATTATTAT
* * *
2184642 ATTTT-TAAAAATAAAAAATTTAAATTAAAAAAGTTTTTTATTATAAT
66 TTTTTATAAAAATAAAAAATTTAAAAT-AAAAAGGTTTTTATTATAAT
2184689 AATATTTTTA
Statistics
Matches: 212, Mismatches: 16, Indels: 20
0.85 0.06 0.08
Matches are distributed among these distances:
120 4 0.02
121 35 0.17
122 32 0.15
123 44 0.21
124 14 0.07
125 18 0.08
126 36 0.17
127 26 0.12
128 3 0.01
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (121 bp):
AATAAAAAATAATATTTAATTAAATTTAAAAATTTACATTAACAAATTAAAATATTAATTATTAT
TTTTTATAAAAATAAAAAATTTAAAATAAAAAGGTTTTTATTATAATTTTTAATAA
Found at i:2185021 original size:22 final size:23
Alignment explanation
Indices: 2184978--2185031 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
2184968 AATAATGATA
2184978 AAATTTTTTAATTTCTTAAATGT
1 AAATTTTTTAATTTCTTAAATGT
* * *
2185001 TATTTTTTTAATTTGTT-AATGT
1 AAATTTTTTAATTTCTTAAATGT
2185023 AAATTTTTT
1 AAATTTTTT
2185032 CAAATTTAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.63
Consensus pattern (23 bp):
AAATTTTTTAATTTCTTAAATGT
Found at i:2185028 original size:23 final size:23
Alignment explanation
Indices: 2184957--2185031 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
2184947 GAATAGAGAG
* *
2184957 TTTTTT-ATTTGAATAATGATAAAA
1 TTTTTTAATTTG-TTAATG-TAAAT
* *
2184981 TTTTTTAATTTCTTAAATGT-TAT
1 TTTTTTAATTTGTT-AATGTAAAT
2185004 TTTTTTAATTTGTTAATGTAAAT
1 TTTTTTAATTTGTTAATGTAAAT
2185027 TTTTT
1 TTTTT
2185032 CAAATTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 5 0.12
23 21 0.50
24 8 0.19
25 8 0.19
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTTTTAATTTGTTAATGTAAAT
Found at i:2185163 original size:24 final size:22
Alignment explanation
Indices: 2185113--2185177 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
2185103 AATATATAAT
*
2185113 TAATATTTTAATTT-GTT-AATA
1 TAAT-TTTTAATTTAATTAAATA
2185134 TAATTTTTTAAATTTAATTAAATA
1 TAA-TTTTT-AATTTAATTAAATA
* *
2185158 TTATTTTTAATTTTATTAAA
1 TAATTTTTAATTTAATTAAA
2185178 AAATAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.19
22 17 0.46
23 7 0.19
24 6 0.16
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TAATTTTTAATTTAATTAAATA
Found at i:2185164 original size:110 final size:113
Alignment explanation
Indices: 2185006--2185287 Score: 347
Period size: 110 Copynumber: 2.5 Consensus size: 113
2184996 AATGTTATTT
* * * *
2185006 TTTTAATTTGTTAATGTAAATTTTTTCAAATTTAATTAAATATCATTTTTTATTTTATTAAGAAG
1 TTTTAATTTGTTAATATAAATTTTTT-AAATTTAATTAAATATTATTTTTTATTTTATTAAAAAA
* *
2185071 TAATAATAAAAAATACTTTTT-ATTT-TTATAAAAATAT-ATAATTAATA
65 TAATAATAAAAAACACTTTTTAATTTATT-TAAAAATATAAAAATTAATA
*
2185118 TTTTAATTTGTTAATAT-AATTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAAT
1 TTTTAATTTGTTAATATAAATTTTTTAAATTTAATTAAATATTATTTTTTATTTTATTAAAAAAT
* * *** * *
2185182 AATAATAATAAACCCTTTTTAATTTAATTTTTTATTTTAAAAATTAATA
66 AATAATAAAAAACACTTTTTAATTT-ATTTAAAAATATAAAAATTAATA
* * *
2185231 TTTTAATTTATTAATATAAAATTTTTAAAAATTAATTAAATATTATTTTTTATTTTA
1 TTTTAATTTGTTAATAT-AAATTTTTTAAATTTAATTAAATATTATTTTTTATTTTA
2185288 AAATAATAAT
Statistics
Matches: 146, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
110 52 0.36
111 12 0.08
112 20 0.14
113 27 0.18
115 35 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (113 bp):
TTTTAATTTGTTAATATAAATTTTTTAAATTTAATTAAATATTATTTTTTATTTTATTAAAAAAT
AATAATAAAAAACACTTTTTAATTTATTTAAAAATATAAAAATTAATA
Found at i:2185306 original size:32 final size:30
Alignment explanation
Indices: 2185253--2185318 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 30
2185243 AATATAAAAT
* *
2185253 TTTTAAAAATTAATTAAATATTATTTTTTA
1 TTTTAAAAAATAATTAAATATTATTATTTA
2185283 TTTTAAAATAATAATTAATATATTATTATTTA
1 TTTTAAAA-AATAATTAA-ATATTATTATTTA
2185315 TTTT
1 TTTT
2185319 TTTAAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 8 0.25
31 8 0.25
32 16 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTAAAAAATAATTAAATATTATTATTTA
Found at i:2185323 original size:115 final size:115
Alignment explanation
Indices: 2185105--2185342 Score: 279
Period size: 115 Copynumber: 2.1 Consensus size: 115
2185095 TTTATAAAAA
* * * *
2185105 TATATAATTAATATTTTAATTTGTTAATATAATTTTTTAAATTTAATTAAATATTATTTTTAATT
1 TATAAAATTAATATTTTAATTTATTAATATAATTTTTAAAAATTAATTAAATATTATTTTTAATT
*
2185170 TTATTAAAAAATAATAATAATAAACCCTTTTTAATTT-AATTTT-TTATTT
66 TTA-TAAAAAATAATAATAATAAACCATTTTTAATTTAAATTTTATTATTT
*
2185219 TA-AAAATTAATATTTTAATTTATTAATATAAAATTTTTAAAAATTAATTAAATATTATTTTTTA
1 TATAAAATTAATATTTTAATTTATTAATAT--AATTTTTAAAAATTAATTAAATATTATTTTTAA
* * ** **
2185283 TTTTA-AAATAATAATTAAT-ATATTATTATTTATTTTTTTAAATTTTATTATTT
64 TTTTATAAAAAATAA-TAATAATA-AACCATTT-TTAATTTAAATTTTATTATTT
2185336 TATAAAA
1 TATAAAA
2185343 AGCAATGAGA
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
113 36 0.35
114 10 0.10
115 40 0.38
116 6 0.06
117 8 0.08
118 4 0.04
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (115 bp):
TATAAAATTAATATTTTAATTTATTAATATAATTTTTAAAAATTAATTAAATATTATTTTTAATT
TTATAAAAAATAATAATAATAAACCATTTTTAATTTAAATTTTATTATTT
Found at i:2185491 original size:3 final size:3
Alignment explanation
Indices: 2185483--2185523 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2185473 TCACTTATCC
*
2185483 CAT CAT CAT TAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
2185524 GATTAGGTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
CAT
Found at i:2190529 original size:7 final size:7
Alignment explanation
Indices: 2190517--2190546 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
2190507 CCTACCCTAC
2190517 TCCATAG
1 TCCATAG
2190524 TCCATAG
1 TCCATAG
2190531 TCCATAG
1 TCCATAG
*
2190538 CCCATAG
1 TCCATAG
2190545 TC
1 TC
2190547 AATACTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (7 bp):
TCCATAG
Found at i:2190788 original size:11 final size:11
Alignment explanation
Indices: 2190772--2190805 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
2190762 TCAAATTTTA
2190772 TTCATTTGCAT
1 TTCATTTGCAT
2190783 TTCATTTGCAT
1 TTCATTTGCAT
*
2190794 TGCAGTTTGCAT
1 TTCA-TTTGCAT
2190806 GGAAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (11 bp):
TTCATTTGCAT
Found at i:2190974 original size:84 final size:84
Alignment explanation
Indices: 2190833--2191088 Score: 512
Period size: 84 Copynumber: 3.0 Consensus size: 84
2190823 TGTCTCTGTG
2190833 AAGGAATTAGGAAAGGATGCTCCTTTAAGTTTTCTGTTTTTTTGTTGGTTCAATTACTGTAATTC
1 AAGGAATTAGGAAAGGATGCTCCTTTAAGTTTTCTGTTTTTTTGTTGGTTCAATTACTGTAATTC
2190898 TTGATTTCAAAGAAATGTT
66 TTGATTTCAAAGAAATGTT
2190917 AAGGAATTAGGAAAGGATGCTCCTTTAAGTTTTCTGTTTTTTTGTTGGTTCAATTACTGTAATTC
1 AAGGAATTAGGAAAGGATGCTCCTTTAAGTTTTCTGTTTTTTTGTTGGTTCAATTACTGTAATTC
2190982 TTGATTTCAAAGAAATGTT
66 TTGATTTCAAAGAAATGTT
2191001 AAGGAATTAGGAAAGGATGCTCCTTTAAGTTTTCTGTTTTTTTGTTGGTTCAATTACTGTAATTC
1 AAGGAATTAGGAAAGGATGCTCCTTTAAGTTTTCTGTTTTTTTGTTGGTTCAATTACTGTAATTC
2191066 TTGATTTCAAAGAAATGTT
66 TTGATTTCAAAGAAATGTT
2191085 AAGG
1 AAGG
2191089 TTCCTGAGAT
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 172 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (84 bp):
AAGGAATTAGGAAAGGATGCTCCTTTAAGTTTTCTGTTTTTTTGTTGGTTCAATTACTGTAATTC
TTGATTTCAAAGAAATGTT
Found at i:2192369 original size:2 final size:2
Alignment explanation
Indices: 2192362--2192425 Score: 74
Period size: 2 Copynumber: 32.0 Consensus size: 2
2192352 AAACCTAATC
* * *
2192362 AT AT AT AT AT AT AT TT TT AT AT AT TT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
2192404 TT AC AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
2192426 GAGTGCATCA
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:2194987 original size:2 final size:2
Alignment explanation
Indices: 2194975--2195014 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2194965 TAGTGAAGTA
* *
2194975 AT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2195015 CTTTAGTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2200048 original size:12 final size:11
Alignment explanation
Indices: 2200031--2200240 Score: 103
Period size: 11 Copynumber: 19.9 Consensus size: 11
2200021 TTTATATTTG
2200031 ATAATTTTTAAT
1 ATAA-TTTTAAT
2200043 ATAATTTT--T
1 ATAATTTTAAT
2200052 ATAATATTTAAT
1 ATAAT-TTTAAT
2200064 ATAATTTTAAT
1 ATAATTTTAAT
** *
2200075 AATTTTTTTTGAT
1 -A-TAATTTTAAT
2200088 ATAATTTT-A-
1 ATAATTTTAAT
2200097 ATAATGTTT--T
1 ATAAT-TTTAAT
* *
2200107 AT-ATATTATT
1 ATAATTTTAAT
*
2200117 A-AATTTAAAT
1 ATAATTTTAAT
*
2200127 ATAATTTGAAT
1 ATAATTTTAAT
*
2200138 AT--TTATAAT
1 ATAATTTTAAT
*
2200147 ATAATTTT--G
1 ATAATTTTAAT
*
2200156 GTAATATTT-AT
1 ATAAT-TTTAAT
2200167 AATAATTTTAAT
1 -ATAATTTTAAT
* *
2200179 A-ACTTTTGAT
1 ATAATTTTAAT
*
2200189 ATAATTTTGAT
1 ATAATTTTAAT
*
2200200 A-ATTTTTAAT
1 ATAATTTTAAT
2200210 ATAATTTTAAT
1 ATAATTTTAAT
2200221 A-ATATTTT-AT
1 ATA-ATTTTAAT
2200231 ATAATTTTAA
1 ATAATTTTAA
2200241 CAACTTTGAA
Statistics
Matches: 153, Mismatches: 23, Indels: 45
0.69 0.10 0.20
Matches are distributed among these distances:
8 2 0.01
9 24 0.16
10 45 0.29
11 57 0.37
12 18 0.12
13 7 0.05
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (11 bp):
ATAATTTTAAT
Found at i:2200055 original size:21 final size:21
Alignment explanation
Indices: 2200031--2200623 Score: 173
Period size: 21 Copynumber: 28.2 Consensus size: 21
2200021 TTTATATTTG
2200031 ATAATTTTTAATATAATTTTT
1 ATAATTTTTAATATAATTTTT
* *
2200052 ATAATATTTAATATAATTTTA
1 ATAATTTTTAATATAATTTTT
* *
2200073 ATAATTTTTTTTGATATAATTTTA
1 ATAA---TTTTTAATATAATTTTT
*
2200097 ATAATGTTTT-ATAT-ATTATT
1 ATAAT-TTTTAATATAATTTTT
* **
2200117 A-AA-TTTAAATATAATTTGA
1 ATAATTTTTAATATAATTTTT
* *
2200136 AT-ATTTATAATATAATTTTG
1 ATAATTTTTAATATAATTTTT
* * *
2200156 GTAATATTT-ATAATAATTTTA
1 ATAATTTTTAAT-ATAATTTTT
* * *
2200177 ATAACTTTTGATATAATTTTG
1 ATAATTTTTAATATAATTTTT
*
2200198 ATAATTTTTAATATAATTTTA
1 ATAATTTTTAATATAATTTTT
*
2200219 ATAATATTTT-ATATAATTTTA
1 ATAAT-TTTTAATATAATTTTT
* * * *
2200240 ACAACTTTGAATAT-CTTTTGT
1 ATAATTTTTAATATAATTTT-T
* * *
2200261 -TAATATTTGAA-ATGATTTTG
1 ATAAT-TTTTAATATAATTTTT
** *
2200281 ATAACATATAATATAAATTTTTT
1 ATAATTTTTAATAT-AA-TTTTT
2200304 ATGTAATTTTGATAACATTATACATTTTT
1 A--TAATTTT--T-A-A-TATA-ATTTTT
* *
2200333 AATAATCTTTAATATAA--ATT
1 -ATAATTTTTAATATAATTTTT
** *
2200353 AGTAACATTTAATATAATTTTG
1 A-TAATTTTTAATATAATTTTT
* *
2200375 ATAATTTTTTATATAATTTTA
1 ATAATTTTTAATATAATTTTT
*
2200396 ATAATCTTTT-ATA-AGTTTTT
1 ATAAT-TTTTAATATAATTTTT
* ** * *
2200416 GTTAACCTTTAGTA-AA-ATTT
1 -ATAATTTTTAATATAATTTTT
*
2200436 -TAA-TTTTAATA-ATATTTGAT
1 ATAATTTTTAATATA-ATTT-TT
* * **
2200456 ATAA-TTTTAATAATCACTAAT
1 ATAATTTTTAAT-ATAATTTTT
* *
2200477 ATTATTTTT--GATAATCTTTAAT
1 ATAATTTTTAATATAAT-TTT--T
* ** *
2200499 ATAA-TGTTGGTA-ACATTTTA
1 ATAATTTTTAATATA-ATTTTT
**
2200519 ATAAACTTT--TATAATTTTT
1 ATAATTTTTAATATAATTTTT
* *
2200538 AT-ATTTTTGATATAATTTTG
1 ATAATTTTTAATATAATTTTT
*
2200558 ATAATTTTT-ATATAATTTTA
1 ATAATTTTTAATATAATTTTT
** *
2200578 ATAATTTTTGTTATAATTTTG
1 ATAATTTTTAATATAATTTTT
2200599 AT-ATCTTTTAATATAATTTTT
1 ATAAT-TTTTAATATAATTTTT
2200620 ATAA
1 ATAA
2200624 ACTTTTGTAA
Statistics
Matches: 426, Mismatches: 90, Indels: 111
0.68 0.14 0.18
Matches are distributed among these distances:
17 10 0.02
18 12 0.03
19 21 0.05
20 99 0.23
21 192 0.45
22 34 0.08
23 12 0.03
24 20 0.05
25 5 0.01
26 1 0.00
27 1 0.00
28 7 0.02
29 7 0.02
30 5 0.01
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (21 bp):
ATAATTTTTAATATAATTTTT
Found at i:2200147 original size:104 final size:101
Alignment explanation
Indices: 2200026--2200212 Score: 254
Period size: 104 Copynumber: 1.8 Consensus size: 101
2200016 AGATATTTAT
* * *
2200026 ATTTGATAATTTTTAATATAATTTTTATAATATTTA-ATATAATTTTAATAATTTTTTTTGATAT
1 ATTTGATAATTTATAATATAATTTTGATAATATTTATA-ATAATTTTAATAA---CTTTTGATAT
2200090 AATTTTAATAATGTTTT-ATATATTATTAAATTTAAATATA
62 AATTTTAATAAT-TTTTAATATATTATTAAATTTAAATATA
*
2200130 ATTTGA-ATATTTATAATATAATTTTGGTAATATTTATAATAATTTTAATAACTTTTGATATAAT
1 ATTTGATA-ATTTATAATATAATTTTGATAATATTTATAATAATTTTAATAACTTTTGATATAAT
*
2200194 TTTGATAATTTTTAATATA
65 TTTAATAATTTTTAATATA
2200213 ATTTTAATAA
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
100 4 0.05
101 25 0.33
103 1 0.01
104 44 0.59
105 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (101 bp):
ATTTGATAATTTATAATATAATTTTGATAATATTTATAATAATTTTAATAACTTTTGATATAATT
TTAATAATTTTTAATATATTATTAAATTTAAATATA
Found at i:2200539 original size:9 final size:9
Alignment explanation
Indices: 2200525--2200623 Score: 63
Period size: 9 Copynumber: 9.9 Consensus size: 9
2200515 TTTAATAAAC
2200525 TTTTATAAT
1 TTTTATAAT
*
2200534 TTTTATATT
1 TTTTATAAT
2200543 TTTGATATAAT
1 TTT--TATAAT
*
2200554 TTTGATAATT
1 TTTTATAA-T
2200564 TTTATATAAT
1 TTT-TATAAT
*
2200574 TTTAATAATTT
1 TTTTATAA--T
2200585 TTGTTATAAT
1 TT-TTATAAT
* *
2200595 TTTGATATCT
1 TTTTATA-AT
2200605 TTTAATATAAT
1 TTT--TATAAT
2200616 TTTTATAA
1 TTTTATAA
2200624 ACTTTTGTAA
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
9 28 0.40
10 15 0.21
11 19 0.27
12 8 0.11
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:2200551 original size:20 final size:20
Alignment explanation
Indices: 2200528--2200618 Score: 112
Period size: 20 Copynumber: 4.5 Consensus size: 20
2200518 AATAAACTTT
*
2200528 TATAATTTTTATATTTTTGA
1 TATAATTTTGATATTTTTGA
2200548 TATAATTTTGATAATTTTT-A
1 TATAATTTTGAT-ATTTTTGA
* *
2200568 TATAATTTTAATAATTTTTGT
1 TATAATTTTGAT-ATTTTTGA
*
2200589 TATAATTTTGATATCTTTTAA
1 TATAATTTTGATAT-TTTTGA
2200610 TATAATTTT
1 TATAATTTT
2200619 TATAAACTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
20 32 0.52
21 30 0.48
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (20 bp):
TATAATTTTGATATTTTTGA
Found at i:2200556 original size:11 final size:11
Alignment explanation
Indices: 2200528--2200640 Score: 82
Period size: 11 Copynumber: 10.8 Consensus size: 11
2200518 AATAAACTTT
2200528 TATAATTTT--
1 TATAATTTTGA
*
2200537 TATATTTTTGA
1 TATAATTTTGA
2200548 TATAATTTTG-
1 TATAATTTTGA
*
2200558 -ATAATTTTTA
1 TATAATTTTGA
2200568 TATAATTTT-A
1 TATAATTTTGA
*
2200578 -ATAATTTTTGT
1 TATAA-TTTTGA
2200589 TATAATTTTGA
1 TATAATTTTGA
* *
2200600 TAT-CTTTTAA
1 TATAATTTTGA
*
2200610 TATAATTTTTA
1 TATAATTTTGA
2200621 TA-AACTTTTG-
1 TATAA-TTTTGA
2200631 TAATAATTTT
1 T-ATAATTTT
2200641 CATAACCTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
9 20 0.24
10 16 0.19
11 41 0.49
12 6 0.07
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (11 bp):
TATAATTTTGA
Found at i:2200730 original size:20 final size:22
Alignment explanation
Indices: 2200689--2200746 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
2200679 GATAACATTT
2200689 ATAATTGTTTTAATAATCTTGG
1 ATAATTGTTTTAATAATCTTGG
2200711 ATAATT-TTTTAA-AA-CTTTGG
1 ATAATTGTTTTAATAATC-TTGG
**
2200731 A-AATAATTTTAATAAT
1 ATAATTGTTTTAATAAT
2200747 TTTTGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.13
20 13 0.42
21 8 0.26
22 6 0.19
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (22 bp):
ATAATTGTTTTAATAATCTTGG
Found at i:2200783 original size:21 final size:21
Alignment explanation
Indices: 2200736--2200783 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2200726 TTTGGAAATA
* * *
2200736 ATTTTAATAATTTTTGATATG
1 ATTTTGATAAATTTTAATATG
*
2200757 ATTTTGATAAATTTTAATTTG
1 ATTTTGATAAATTTTAATATG
2200778 ATTTTG
1 ATTTTG
2200784 TGATTTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.58
Consensus pattern (21 bp):
ATTTTGATAAATTTTAATATG
Found at i:2200841 original size:20 final size:20
Alignment explanation
Indices: 2200804--2200840 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2200794 AACTTTAATA
*
2200804 TAAATTTGATAACTTTTTGG
1 TAAAGTTGATAACTTTTTGG
2200824 TAAAGTTGATAA-TTTTT
1 TAAAGTTGATAACTTTTT
2200841 TTATATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (20 bp):
TAAAGTTGATAACTTTTTGG
Found at i:2200883 original size:21 final size:22
Alignment explanation
Indices: 2200797--2200872 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 22
2200787 TTTTAATAAC
* *
2200797 TTTAATATAAATTTGATAACTT
1 TTTAATATAATTTTGATAGCTT
** * **
2200819 TTTGGTA-AA-GTTGATAATTT
1 TTTAATATAATTTTGATAGCTT
*
2200839 TTTTATATAATTTTGATAGC-T
1 TTTAATATAATTTTGATAGCTT
2200860 TTTAATATAATTT
1 TTTAATATAATTT
2200873 GGTATCTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
20 14 0.33
21 17 0.40
22 11 0.26
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (22 bp):
TTTAATATAATTTTGATAGCTT
Found at i:2200904 original size:21 final size:21
Alignment explanation
Indices: 2200880--2200967 Score: 99
Period size: 21 Copynumber: 4.2 Consensus size: 21
2200870 TTTGGTATCT
2200880 TTTTGATAATATTTAAAATAA
1 TTTTGATAATATTTAAAATAA
* **
2200901 TTTTGAT-ATAGTTATTATAA
1 TTTTGATAATATTTAAAATAA
*
2200921 TTATGATAAT-TTTAAATATAA
1 TTTTGATAATATTTAAA-ATAA
**
2200942 TTTTGATAATATTTATTATAA
1 TTTTGATAATATTTAAAATAA
2200963 TTTTG
1 TTTTG
2200968 GAGACCTTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 19 0.35
21 31 0.57
22 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TTTTGATAATATTTAAAATAA
Found at i:2200928 original size:41 final size:42
Alignment explanation
Indices: 2200883--2200964 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 42
2200873 GGTATCTTTT
2200883 TGATAATATTTAAA-ATAATTTTGAT-ATAGTTATTATAATTA
1 TGATAAT-TTTAAATATAATTTTGATAATAGTTATTATAATTA
*
2200924 TGATAATTTTAAATATAATTTTGATAATATTTATTATAATT
1 TGATAATTTTAAATATAATTTTGATAATAGTTATTATAATT
2200965 TTGGAGACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
40 6 0.16
41 18 0.47
42 14 0.37
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (42 bp):
TGATAATTTTAAATATAATTTTGATAATAGTTATTATAATTA
Found at i:2201102 original size:22 final size:21
Alignment explanation
Indices: 2201074--2201124 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
2201064 ATATACCTCT
*
2201074 TATAATTTTGGATAAAC-CTTAA
1 TATAATTTTGG-T-AACTATTAA
*
2201096 TATAATTATGGTAACTATTAA
1 TATAATTTTGGTAACTATTAA
2201117 TATAATTT
1 TATAATTT
2201125 AATAACCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 12 0.48
22 10 0.40
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (21 bp):
TATAATTTTGGTAACTATTAA
Found at i:2201155 original size:21 final size:21
Alignment explanation
Indices: 2201113--2201166 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
2201103 ATGGTAACTA
*
2201113 TTAATATAA-TTTAATAACCT
1 TTAATATAATTTTAAAAACCT
* *
2201133 TTCATATAATTTTAAAAATCT
1 TTAATATAATTTTAAAAACCT
*
2201154 TTAATAAAATTTT
1 TTAATATAATTTT
2201167 TGACAACTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAATATAATTTTAAAAACCT
Found at i:2201291 original size:34 final size:34
Alignment explanation
Indices: 2201248--2201329 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
2201238 AATAATAATA
*
2201248 ATTGTTGACTAAATTGGTAATTTGATTGTTTGAC-
1 ATTGTTGACTAAATTGGTAATTTGATGGTTTG-CT
* * *
2201282 ATTGTTGACTTAATTGTTAATTTGGTGGTTTGCT
1 ATTGTTGACTAAATTGGTAATTTGATGGTTTGCT
2201316 ATTGTTGACTAAAT
1 ATTGTTGACTAAAT
2201330 GGCCAAAAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 1 0.02
34 41 0.98
ACGTcount: A:0.24, C:0.06, G:0.21, T:0.49
Consensus pattern (34 bp):
ATTGTTGACTAAATTGGTAATTTGATGGTTTGCT
Found at i:2201711 original size:19 final size:19
Alignment explanation
Indices: 2201687--2201724 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2201677 ATTGATTGTC
*
2201687 TAGGCATTGTTCACATATA
1 TAGGCACTGTTCACATATA
2201706 TAGGCACTGTTCACATATA
1 TAGGCACTGTTCACATATA
2201725 CGGCTATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (19 bp):
TAGGCACTGTTCACATATA
Found at i:2205190 original size:21 final size:21
Alignment explanation
Indices: 2205129--2205239 Score: 84
Period size: 21 Copynumber: 5.2 Consensus size: 21
2205119 TAACTTTTAA
2205129 AATAATTTTGATAAT-TTATG-
1 AATAATTTTGATAATATT-TGT
* *
2205149 ATTTGATTTT-ATAAATATTTGT
1 A-ATAATTTTGAT-AATATTTGT
* * *
2205171 AATAGTTTTGATAATTTTTGAA
1 AATAATTTTGATAATATTTG-T
* *
2205193 AATAATTTCGATAATAATTGT
1 AATAATTTTGATAATATTTGT
* *
2205214 AATAATTTTAATAATATTCGT
1 AATAATTTTGATAATATTTGT
2205235 AATAA
1 AATAA
2205240 AAATCAACTA
Statistics
Matches: 69, Mismatches: 16, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
20 3 0.04
21 45 0.65
22 21 0.30
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.49
Consensus pattern (21 bp):
AATAATTTTGATAATATTTGT
Found at i:2207721 original size:6 final size:6
Alignment explanation
Indices: 2207706--2207745 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
2207696 ATACTAGTAT
* *
2207706 TACT-A TACTAA TACTAA TAGTAA TACTAA AACTAA TACTA
1 TACTAA TACTAA TACTAA TACTAA TACTAA TACTAA TACTA
2207746 TTTTTTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.33
Consensus pattern (6 bp):
TACTAA
Found at i:2208948 original size:34 final size:34
Alignment explanation
Indices: 2208905--2208974 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
2208895 ATTGTTAGGC
2208905 TCGGATATGTAGTTCAAATATTTCTCTTTTTGCA
1 TCGGATATGTAGTTCAAATATTTCTCTTTTTGCA
2208939 TCGGATATGTAGTTCAAATATTTCTCTTTTTGCA
1 TCGGATATGTAGTTCAAATATTTCTCTTTTTGCA
2208973 TC
1 TC
2208975 TCCTGACAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (34 bp):
TCGGATATGTAGTTCAAATATTTCTCTTTTTGCA
Found at i:2213669 original size:2 final size:2
Alignment explanation
Indices: 2213625--2213659 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2213615 TATGACCACA
2213625 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2213660 AGAATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2214745 original size:2 final size:2
Alignment explanation
Indices: 2214733--2214780 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
2214723 CAATCGTGCA
* * *
2214733 AT AT AT TT AT AT ACT AT AT AT TT AT AT AT A- AT AT AT TT AT AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2214775 AT AT AT
1 AT AT AT
2214781 TTTATATTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:2214753 original size:15 final size:14
Alignment explanation
Indices: 2214733--2214792 Score: 86
Period size: 15 Copynumber: 4.2 Consensus size: 14
2214723 CAATCGTGCA
2214733 ATATATTTATATACT
1 ATATATTTATATA-T
2214748 ATATATTTATATAT
1 ATATATTTATATAT
2214762 AATATATTTATATAT
1 -ATATATTTATATAT
*
2214777 ATAT-TTTATATTT
1 ATATATTTATATAT
2214790 ATA
1 ATA
2214793 CATAAATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
13 11 0.26
14 5 0.12
15 27 0.63
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATATTTATATAT
Found at i:2214777 original size:19 final size:19
Alignment explanation
Indices: 2214733--2214802 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
2214723 CAATCGTGCA
* *
2214733 ATATATTTAT-ATACTATAT
1 ATATATATATAATA-TATTT
*
2214752 ATTTATATATAATATATTT
1 ATATATATATAATATATTT
**
2214771 ATATATATATTTTATATTT
1 ATATATATATAATATATTT
* *
2214790 ATACATAAATAAT
1 ATATATATATAAT
2214803 GAATCATTGA
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
19 37 0.93
20 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATATATATAATATATTT
Found at i:2215239 original size:2 final size:2
Alignment explanation
Indices: 2215234--2215259 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2215224 CCTCACACAC
2215234 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2215260 TCGTTGGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2215947 original size:20 final size:20
Alignment explanation
Indices: 2215924--2215962 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2215914 AGAATTTTTG
*
2215924 TTTTTAAAACTATATTTAAA
1 TTTTTAAAAATATATTTAAA
*
2215944 TTTTTAAAAATATTTTTAA
1 TTTTTAAAAATATATTTAA
2215963 TTATGATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAAAATATATTTAAA
Found at i:2216070 original size:14 final size:14
Alignment explanation
Indices: 2216053--2216082 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2216043 TTAATATTTA
*
2216053 AAAATTTTAAAAAT
1 AAAATTATAAAAAT
2216067 AAAATTATAAAAAT
1 AAAATTATAAAAAT
2216081 AA
1 AA
2216083 TTTTTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATTATAAAAAT
Found at i:2220031 original size:2 final size:2
Alignment explanation
Indices: 2220024--2220056 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2220014 ATAATACAAC
*
2220024 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2220057 GTGTTACATT
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2224026 original size:17 final size:17
Alignment explanation
Indices: 2224004--2224061 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
2223994 TAAAATTTTT
2224004 AAATCATTTTCGAATTC
1 AAATCATTTTCGAATTC
*
2224021 AAATCA-TTTCGAGTTC
1 AAATCATTTTCGAATTC
* *
2224037 AAGTCATTTTAG-ATTC
1 AAATCATTTTCGAATTC
*
2224053 AGATCATTT
1 AAATCATTT
2224062 CAAATTCGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
16 24 0.71
17 10 0.29
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (17 bp):
AAATCATTTTCGAATTC
Found at i:2224032 original size:16 final size:16
Alignment explanation
Indices: 2224004--2224068 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
2223994 TAAAATTTTT
2224004 AAATCATTTTCGAATTC
1 AAATCA-TTTCGAATTC
*
2224021 AAATCATTTCGAGTTC
1 AAATCATTTCGAATTC
* *
2224037 AAGTCATTT-TAGATTC
1 AAATCATTTCGA-ATTC
* *
2224053 AGATCATTTCAAATTC
1 AAATCATTTCGAATTC
2224069 GAATTAATCG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.79
17 7 0.18
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (16 bp):
AAATCATTTCGAATTC
Found at i:2224894 original size:16 final size:17
Alignment explanation
Indices: 2224875--2224908 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2224865 CATTTCAAAT
2224875 TCGAATCATTTT-GAGC
1 TCGAATCATTTTCGAGC
*
2224891 TCGAGTCATTTTCGAGC
1 TCGAATCATTTTCGAGC
2224908 T
1 T
2224909 TGGATCGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (17 bp):
TCGAATCATTTTCGAGC
Found at i:2225242 original size:5 final size:5
Alignment explanation
Indices: 2225234--2225259 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2225224 ATTTGCAGAG
2225234 GAAAA GAAAA GAAAA GAAAA GAAAA G
1 GAAAA GAAAA GAAAA GAAAA GAAAA G
2225260 CATAACACCA
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:2225473 original size:68 final size:67
Alignment explanation
Indices: 2225382--2225544 Score: 220
Period size: 68 Copynumber: 2.4 Consensus size: 67
2225372 ACTAGTCACG
* * * *
2225382 ATATTATAATTGAAATTAGTTTTTATATTTTAATTTAATATAATCAAATCTTTATACTATTAATC
1 ATATTATAGTTGAATTTAGTTTTTATAATTTAATTTAATATAATCAAATCTTTATACCATTAATC
2225447 TC
66 TC
* * * *
2225449 TATATTATAGTTGAATTTAATTTTTATAATTTAATTTGATATAATCAAATCTTTGTACCATTCAT
1 -ATATTATAGTTGAATTTAGTTTTTATAATTTAATTTAATATAATCAAATCTTTATACCATTAAT
2225514 CTC
65 CTC
* *
2225517 -TAGTATAGTTGAATTTAGTTTTCATAAT
1 ATATTATAGTTGAATTTAGTTTTTATAAT
2225545 CAATAACTCT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 25 0.30
68 59 0.70
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (67 bp):
ATATTATAGTTGAATTTAGTTTTTATAATTTAATTTAATATAATCAAATCTTTATACCATTAATC
TC
Found at i:2226754 original size:156 final size:154
Alignment explanation
Indices: 2226373--2226759 Score: 458
Period size: 156 Copynumber: 2.5 Consensus size: 154
2226363 CCTACTTTTG
* * * *
2226373 GCATAAAAGCATCTCAATGACAACTTAGGACTCAATTTTAAAAAAATTACGAAAATGCTCATAAA
1 GCATAAAAGCATCTCAATGACAACTTAAGACTCAATTTTAAAAAAATTATGAAAATACTCTTAAA
* *
2226438 GTAAACTTTCAGCATGAAAATATCTCAATAACTCTAAAGGACTTAAAAATGATCGTAAATAGAAC
66 -TATACTTTCAGCATGAAAATATCTCAATAACTCTAAAAGACTTAAAAATGATCGTAAATAGAAC
*
2226503 GAACCTATCCTAAATGCACACCTTT
130 GAACCTATCCTAAATACACACCTTT
* * *
2226528 GACATAAAAGCAT-TCCAATGACAACTTAAGACTCAATTTTAGAAAAATTATGAAAAGACTTTTG
1 G-CATAAAAGCATCT-CAATGACAACTTAAGACTCAATTTTAAAAAAATTATGAAAATACTCTT-
* * * *
2226592 AAATATACATTTGA-CATGAAAATAT-TCAGGTAATTTTAAAAGACCTT-AAAATGATCGTAAAT
63 AAATATAC-TTTCAGCATGAAAATATCTCA-ATAACTCTAAAAGA-CTTAAAAATGATCGTAAAT
* * *
2226654 GGGACTAACCTATCCTAAATACACACCTTT
125 AGAACGAACCTATCCTAAATACACACCTTT
* *** * *
2226684 AGCATAAAAGCATCTCAATGACAACCTAAGACTTGGTTCTAAAAAAATTATGCAAATACTCTTAA
1 -GCATAAAAGCATCTCAATGACAACTTAAGACTCAATTTTAAAAAAATTATGAAAATACTCTTAA
2226749 GATATACTTTC
65 -ATATACTTTC
2226760 GAAAGTATCC
Statistics
Matches: 196, Mismatches: 27, Indels: 18
0.81 0.11 0.07
Matches are distributed among these distances:
155 10 0.05
156 174 0.89
157 12 0.06
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (154 bp):
GCATAAAAGCATCTCAATGACAACTTAAGACTCAATTTTAAAAAAATTATGAAAATACTCTTAAA
TATACTTTCAGCATGAAAATATCTCAATAACTCTAAAAGACTTAAAAATGATCGTAAATAGAACG
AACCTATCCTAAATACACACCTTT
Found at i:2230433 original size:16 final size:16
Alignment explanation
Indices: 2230400--2230435 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
2230390 AAAAAGCTAA
**
2230400 AACCCAAATGAGTTCG
1 AACCCAAATGAGCCCG
2230416 AACCCAAATGAGCCCG
1 AACCCAAATGAGCCCG
2230432 AACC
1 AACC
2230436 TAAACCTACC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.33, G:0.17, T:0.11
Consensus pattern (16 bp):
AACCCAAATGAGCCCG
Found at i:2230764 original size:14 final size:15
Alignment explanation
Indices: 2230726--2230759 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
2230716 TAAAATCTCT
2230726 AAAAAGAGAATCTAA
1 AAAAAGAGAATCTAA
2230741 AAAAAGAGAATCTAA
1 AAAAAGAGAATCTAA
2230756 AAAA
1 AAAA
2230760 CAGAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.71, C:0.06, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAAAGAGAATCTAA
Found at i:2238712 original size:25 final size:24
Alignment explanation
Indices: 2238679--2238729 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2238669 AAAGTTAATG
*
2238679 ATTTTAAAAAGTTAAATCATTTAGA
1 ATTTAAAAAAGTT-AATCATTTAGA
2238704 ATTTAAAAAAGTTAATCATTTAGA
1 ATTTAAAAAAGTTAATCATTTAGA
2238728 AT
1 AT
2238730 CCGTAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (24 bp):
ATTTAAAAAAGTTAATCATTTAGA
Found at i:2241153 original size:14 final size:14
Alignment explanation
Indices: 2241136--2241170 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2241126 TTTAACATGC
*
2241136 AAATTAATTATTTT
1 AAATTAATTATTTA
*
2241150 AAATAAATTATTTA
1 AAATTAATTATTTA
2241164 AAATTAA
1 AAATTAA
2241171 AATAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTAATTATTTA
Found at i:2241179 original size:22 final size:22
Alignment explanation
Indices: 2241154--2241195 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2241144 TATTTTAAAT
* * *
2241154 AAATTATTTAAAATTAAAATAA
1 AAATAATTAAAAAATAAAATAA
2241176 AAATAATTAAAAAATAAAAT
1 AAATAATTAAAAAATAAAAT
2241196 TTTAACTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAATTAAAAAATAAAATAA
Found at i:2241613 original size:7 final size:7
Alignment explanation
Indices: 2241598--2241808 Score: 57
Period size: 7 Copynumber: 29.3 Consensus size: 7
2241588 TTCCTAATTT
*
2241598 TTTGAGG
1 TTTGGGG
2241605 TTTGGGG
1 TTTGGGG
* *
2241612 TTTGAGA
1 TTTGGGG
*
2241619 TTTAGGG
1 TTTGGGG
2241626 TTTGGAGG
1 TTTGG-GG
2241634 TTTAGGGG
1 TTT-GGGG
*
2241642 TTTAGGG
1 TTTGGGG
*
2241649 TTTAGAGG
1 TTT-GGGG
**
2241657 -TTGTAG
1 TTTGGGG
* *
2241663 TTCGAGG
1 TTTGGGG
2241670 TTTAGGGG
1 TTT-GGGG
* *
2241678 TTTAGCG
1 TTTGGGG
*
2241685 TTTAGGAG
1 TTT-GGGG
2241693 TTTGGGG
1 TTTGGGG
* *
2241700 TTTAGAG
1 TTTGGGG
*
2241707 TTTAGGG
1 TTTGGGG
*
2241714 TTTGAGG
1 TTTGGGG
*
2241721 TTTAGGG
1 TTTGGGG
**
2241728 TTTAGGAT
1 TTT-GGGG
**
2241736 TTTAAGG
1 TTTGGGG
*
2241743 -TTAGGG
1 TTTGGGG
*
2241749 TTTAGGG
1 TTTGGGG
***
2241756 TTTAAAG
1 TTTGGGG
*
2241763 TTTAGGG
1 TTTGGGG
*
2241770 TTTAGGG
1 TTTGGGG
*
2241777 TTTGAGG
1 TTTGGGG
2241784 TTTGGGG
1 TTTGGGG
2241791 TTTGAGGG
1 TTTG-GGG
*
2241799 ATTGTGGG
1 TTTG-GGG
2241807 TT
1 TT
2241809 GCCGAGTTTA
Statistics
Matches: 148, Mismatches: 47, Indels: 17
0.70 0.22 0.08
Matches are distributed among these distances:
6 7 0.05
7 102 0.69
8 37 0.25
9 2 0.01
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.42
Consensus pattern (7 bp):
TTTGGGG
Found at i:2241688 original size:51 final size:49
Alignment explanation
Indices: 2241610--2241732 Score: 133
Period size: 51 Copynumber: 2.4 Consensus size: 49
2241600 TGAGGTTTGG
* * *
2241610 GGTTTGAGATTTAGGGTTTGGAG-GTTTAGGGGTTTAGGGTTTAGAGGTTGTA
1 GGTTCGAGGTTTAGGGTTT--AGCGTTTAGGAGTTTAGGGTTTAGA-GTT-TA
*
2241662 -GTTCGAGGTTTAGGGGTTTAGCGTTTAGGAGTTTGGGGTTTAGAGTTTA
1 GGTTCGAGGTTTA-GGGTTTAGCGTTTAGGAGTTTAGGGTTTAGAGTTTA
*
2241711 GGGTTTGAGGTTTAGGGTTTAG
1 -GGTTCGAGGTTTAGGGTTTAG
2241733 GATTTTAAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
49 2 0.03
50 13 0.21
51 41 0.66
52 6 0.10
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (49 bp):
GGTTCGAGGTTTAGGGTTTAGCGTTTAGGAGTTTAGGGTTTAGAGTTTA
Found at i:2241724 original size:21 final size:21
Alignment explanation
Indices: 2241619--2241849 Score: 161
Period size: 21 Copynumber: 10.8 Consensus size: 21
2241609 GGGTTTGAGA
2241619 TTTAGGGTTTGGAGGTTTAGGGG
1 TTTAGGGTTT-GAGGTTTA-GGG
2241642 TTTAGGGTTTAGAGGTTGTA--G
1 TTTAGGGTTT-GAGGTT-TAGGG
* * *
2241663 -TTCGAGGTTTAGGGGTTTAGCG
1 TTTAG-GGTTT-GAGGTTTAGGG
* *
2241685 TTTAGGAGTTTGGGGTTTAGAG
1 TTTAGG-GTTTGAGGTTTAGGG
2241707 TTTAGGGTTTGAGGTTTAGGG
1 TTTAGGGTTTGAGGTTTAGGG
* *
2241728 TTTAGGATTTTAAGG-TTAGGG
1 TTTAGG-GTTTGAGGTTTAGGG
* *
2241749 TTTAGGGTTTAAAGTTTAGGG
1 TTTAGGGTTTGAGGTTTAGGG
*
2241770 TTTAGGGTTTGAGGTTTGGGG
1 TTTAGGGTTTGAGGTTTAGGG
** *
2241791 TTTGAGGGATTGTG-GGTTGCCGAG
1 TTT-AGGG-TT-TGAGGTT-TAGGG
*
2241815 TTTA-AGTTT-AGGTTTAGGG
1 TTTAGGGTTTGAGGTTTAGGG
* *
2241834 TTTAGGGGTTCAGGTT
1 TTTAGGGTTTGAGGTT
2241850 CCAGGGTTCG
Statistics
Matches: 170, Mismatches: 23, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
19 6 0.04
20 19 0.11
21 77 0.45
22 29 0.17
23 30 0.18
24 9 0.05
ACGTcount: A:0.16, C:0.02, G:0.40, T:0.41
Consensus pattern (21 bp):
TTTAGGGTTTGAGGTTTAGGG
Found at i:2241765 original size:14 final size:14
Alignment explanation
Indices: 2241604--2241779 Score: 112
Period size: 14 Copynumber: 12.3 Consensus size: 14
2241594 ATTTTTTGAG
*
2241604 GTTTGGGGTTT-GA
1 GTTTAGGGTTTAGA
*
2241617 GATTTAGGGTTTGGA
1 G-TTTAGGGTTTAGA
*
2241632 GGTTTAGGGGTTTAGG
1 -GTTTA-GGGTTTAGA
2241648 GTTTAGAGG-TT-GTA
1 GTTTAG-GGTTTAG-A
* *
2241662 G-TTCGAGGTTTAGGG
1 GTTTAG-GGTTTA-GA
*
2241677 GTTTAGCGTTTAGGA
1 GTTTAGGGTTTA-GA
*
2241692 GTTTGGGGTTTAGA
1 GTTTAGGGTTTAGA
2241706 GTTTAGGGTTT-GA
1 GTTTAGGGTTTAGA
2241719 GGTTTAGGGTTTAGGA
1 -GTTTAGGGTTTA-GA
* * *
2241735 TTTTAAGG-TTAGG
1 GTTTAGGGTTTAGA
*
2241748 GTTTAGGGTTTAAA
1 GTTTAGGGTTTAGA
*
2241762 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGA
2241776 GTTT
1 GTTT
2241780 GAGGTTTGGG
Statistics
Matches: 128, Mismatches: 21, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
13 17 0.13
14 60 0.47
15 37 0.29
16 14 0.11
ACGTcount: A:0.17, C:0.01, G:0.40, T:0.42
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:2241785 original size:14 final size:14
Alignment explanation
Indices: 2241598--2241798 Score: 98
Period size: 14 Copynumber: 14.0 Consensus size: 14
2241588 TTCCTAATTT
*
2241598 TTTGAGGTTTGGGG
1 TTTGAGGTTTAGGG
*
2241612 TTTGAGATTTAGGG
1 TTTGAGGTTTAGGG
2241626 TTTGGAGGTTTAGGGG
1 TTT-GAGGTTTA-GGG
2241642 TTT-AGGGTTTAGAGG
1 TTTGA-GGTTTAG-GG
*
2241657 -TTGTA-G-TTCGAGG
1 TTTG-AGGTTTAG-GG
* *
2241670 TTTAGGGGTTTAGCG
1 TTT-GAGGTTTAGGG
*
2241685 TTT-AGGAGTTTGGGG
1 TTTGA-G-GTTTAGGG
2241700 TTT-AGAGTTTAGGG
1 TTTGAG-GTTTAGGG
2241714 TTTGAGGTTTAGGG
1 TTTGAGGTTTAGGG
*
2241728 TTT-AGGATTTTAAGG
1 TTTGAGG--TTTAGGG
*
2241743 TTAG-GGTTTAGGG
1 TTTGAGGTTTAGGG
* *
2241756 TTTAAAGTTTAGGG
1 TTTGAGGTTTAGGG
2241770 TTT-AGGGTTT-GAGG
1 TTTGA-GGTTTAG-GG
*
2241784 TTTGGGGTTTGAGGG
1 TTTGAGGTTT-AGGG
2241799 ATTGTGGGTT
Statistics
Matches: 146, Mismatches: 19, Indels: 43
0.70 0.09 0.21
Matches are distributed among these distances:
13 19 0.13
14 71 0.49
15 45 0.31
16 11 0.08
ACGTcount: A:0.16, C:0.01, G:0.41, T:0.41
Consensus pattern (14 bp):
TTTGAGGTTTAGGG
Found at i:2241991 original size:7 final size:7
Alignment explanation
Indices: 2241981--2242044 Score: 85
Period size: 7 Copynumber: 8.9 Consensus size: 7
2241971 TTCGGGGTTC
2241981 GGGGGGA
1 GGGGGGA
2241988 GGGGGGA
1 GGGGGGA
2241995 GGTGGGGA
1 GG-GGGGA
2242003 GGGGCGGA
1 GGGG-GGA
2242011 GGGGGG-
1 GGGGGGA
2242017 GGGGGGCA
1 GGGGGG-A
2242025 GGGGGGA
1 GGGGGGA
*
2242032 GGGGTGA
1 GGGGGGA
2242039 GGGGGG
1 GGGGGG
2242045 GGAGAGCGCG
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
6 6 0.12
7 25 0.49
8 20 0.39
ACGTcount: A:0.11, C:0.03, G:0.83, T:0.03
Consensus pattern (7 bp):
GGGGGGA
Found at i:2242020 original size:29 final size:28
Alignment explanation
Indices: 2241981--2242046 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 28
2241971 TTCGGGGTTC
2241981 GGGGGGAGGGGGG-AGGTGGGGAGGGGCGGA
1 GGGGGG-GGGGGGCAGG-GGGGAGGGG-GGA
*
2242011 GGGGGGGGGGGGCAGGGGGGAGGGGTGA
1 GGGGGGGGGGGGCAGGGGGGAGGGGGGA
2242039 GGGGGGGG
1 GGGGGGGG
2242047 AGAGCGCGCG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.29
29 15 0.44
30 9 0.26
ACGTcount: A:0.11, C:0.03, G:0.83, T:0.03
Consensus pattern (28 bp):
GGGGGGGGGGGGCAGGGGGGAGGGGGGA
Found at i:2242048 original size:16 final size:15
Alignment explanation
Indices: 2241981--2242045 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
2241971 TTCGGGGTTC
2241981 GGGGGGAGGGGGGAG
1 GGGGGGAGGGGGGAG
*
2241996 GTGGGGAGGGGCGGAG
1 GGGGGGAGGGG-GGAG
*
2242012 GGGGGG-GGGGGCA-
1 GGGGGGAGGGGGGAG
*
2242025 GGGGGGAGGGGTGAG
1 GGGGGGAGGGGGGAG
2242040 GGGGGG
1 GGGGGG
2242046 GAGAGCGCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
13 6 0.14
14 7 0.17
15 20 0.48
16 9 0.21
ACGTcount: A:0.11, C:0.03, G:0.83, T:0.03
Consensus pattern (15 bp):
GGGGGGAGGGGGGAG
Found at i:2242155 original size:8 final size:8
Alignment explanation
Indices: 2242115--2242552 Score: 99
Period size: 8 Copynumber: 53.1 Consensus size: 8
2242105 ACCCATTGAT
2242115 AACCCG-A
1 AACCCGAA
2242122 AACCCGAA
1 AACCCGAA
* *
2242130 CACCCGAC
1 AACCCGAA
*
2242138 ATCCCG-A
1 AACCCGAA
2242145 AACCCGAA
1 AACCCGAA
*
2242153 AACCTTTCTGGA
1 AACC---C-GAA
2242165 AACCCGAA
1 AACCCGAA
* *
2242173 ACCCCGGA
1 AACCCGAA
2242181 AACCCGAA
1 AACCCGAA
*
2242189 ATCCCG-A
1 AACCCGAA
2242196 AACCCGATA
1 AACCCGA-A
2242205 TATACCTCG-A
1 -A-ACC-CGAA
*
2242215 CACCCGAA
1 AACCCGAA
*
2242223 AATCCCGTGAT
1 AA-CCC--GAA
2242234 AA-CCG--
1 AACCCGAA
2242239 AACCCGGAA
1 AACCC-GAA
* *
2242248 TACCTCGTAT
1 AACC-CG-AA
2242258 AACCCGAA
1 AACCCGAA
* *
2242266 TACCCGAT
1 AACCCGAA
2242274 AACCCGGAA
1 AACCC-GAA
* *
2242283 ACCCGCGAC
1 AACC-CGAA
*
2242292 ACCCCGGAA
1 AACCC-GAA
2242301 AACCCG-A
1 AACCCGAA
*
2242308 CACCCGAAA
1 AACCCG-AA
*
2242317 AACCGGAA
1 AACCCGAA
* *
2242325 AATTCC-AG
1 AA-CCCGAA
2242333 AACCCGGAA
1 AACCC-GAA
*
2242342 AGCCCGAA
1 AACCCGAA
*
2242350 TACCCGGGGAAA
1 AACCC---G-AA
2242362 AACCCTGAA
1 AACCC-GAA
2242371 AACCCG-A
1 AACCCGAA
*
2242378 AACGCCGAG
1 AAC-CCGAA
2242387 AACCC-AA
1 AACCCGAA
*
2242394 AACCCG-C
1 AACCCGAA
*
2242401 CACCCG-A
1 AACCCGAA
2242408 AACCCG-A
1 AACCCGAA
2242415 AACCCG-A
1 AACCCGAA
2242422 AACCCG-A
1 AACCCGAA
2242429 AACCCG-A
1 AACCCGAA
2242436 AACCCGATA
1 AACCCGA-A
*
2242445 ATATCCGAA
1 A-ACCCGAA
**
2242454 ATGCC-AGA
1 AACCCGA-A
*
2242462 AACCCGATCT
1 AACCCGA--A
*
2242472 AACCCG-C
1 AACCCGAA
2242479 AACCCGAA
1 AACCCGAA
* *
2242487 ACCCCGAC
1 AACCCGAA
2242495 AACCCGGAA
1 AACCC-GAA
* *
2242504 ATCCCGTA
1 AACCCGAA
2242512 AACCCG-A
1 AACCCGAA
2242519 AACCCG-A
1 AACCCGAA
2242526 AACTCGCGAA
1 AAC-C-CGAA
**
2242536 AACCCGCT
1 AACCCGAA
2242544 AACCCGAA
1 AACCCGAA
2242552 A
1 A
2242553 CCCCCAATCG
Statistics
Matches: 316, Mismatches: 68, Indels: 93
0.66 0.14 0.19
Matches are distributed among these distances:
5 2 0.01
6 2 0.01
7 95 0.30
8 105 0.33
9 65 0.21
10 24 0.08
11 9 0.03
12 14 0.04
ACGTcount: A:0.38, C:0.39, G:0.16, T:0.08
Consensus pattern (8 bp):
AACCCGAA
Found at i:2242299 original size:18 final size:17
Alignment explanation
Indices: 2242276--2242312 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
2242266 TACCCGATAA
*
2242276 CCCGGAAACCCGCGACAC
1 CCCGGAAAACC-CGACAC
2242294 CCCGGAAAACCCGACAC
1 CCCGGAAAACCCGACAC
2242311 CC
1 CC
2242313 GAAAAACCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.30, C:0.51, G:0.19, T:0.00
Consensus pattern (17 bp):
CCCGGAAAACCCGACAC
Found at i:2242397 original size:7 final size:7
Alignment explanation
Indices: 2242370--2242555 Score: 138
Period size: 7 Copynumber: 23.9 Consensus size: 7
2242360 AAAACCCTGA
2242370 AAACCCG
1 AAACCCG
2242377 AAACGCCG
1 AAAC-CCG
*
2242385 AGAACCCA
1 A-AACCCG
2242393 AAACCCG
1 AAACCCG
**
2242400 CCACCCG
1 AAACCCG
2242407 AAACCCG
1 AAACCCG
2242414 AAACCCG
1 AAACCCG
2242421 AAACCCG
1 AAACCCG
2242428 AAACCCG
1 AAACCCG
2242435 AAACCCG
1 AAACCCG
*
2242442 ATAATATCCG
1 --AA-ACCCG
*
2242452 AAATGCCAG
1 AAA--CCCG
2242461 AAACCCG
1 AAACCCG
2242468 ATCTAACCCG
1 A---AACCCG
*
2242478 CAACCCG
1 AAACCCG
2242485 AAACCCCG
1 AAA-CCCG
2242493 ACAACCCGG
1 A-AACCC-G
2242502 AAATCCCG
1 AAA-CCCG
2242510 TAAACCCG
1 -AAACCCG
2242518 AAACCCG
1 AAACCCG
2242525 AAACTCGCG
1 AAAC-C-CG
2242534 AAAACCCG
1 -AAACCCG
*
2242542 CTAACCCG
1 -AAACCCG
2242550 AAACCC
1 AAACCC
2242556 CCAATCGCCC
Statistics
Matches: 146, Mismatches: 15, Indels: 36
0.74 0.08 0.18
Matches are distributed among these distances:
7 76 0.52
8 33 0.23
9 23 0.16
10 14 0.10
ACGTcount: A:0.39, C:0.41, G:0.15, T:0.05
Consensus pattern (7 bp):
AAACCCG
Found at i:2242417 original size:21 final size:21
Alignment explanation
Indices: 2242370--2242555 Score: 138
Period size: 24 Copynumber: 8.0 Consensus size: 21
2242360 AAAACCCTGA
*
2242370 AAACCCGAAACGCCGAGAACCCA
1 AAACCCGAAAC-CCGA-AACCCG
**
2242393 AAACCCGCCACCCGAAACCCG
1 AAACCCGAAACCCGAAACCCG
2242414 AAACCCGAAACCCGAAACCCG
1 AAACCCGAAACCCGAAACCCG
* *
2242435 AAACCCGATAATATCCGAAATGCCAG
1 AAACCCG--AA-ACCCGAAA--CCCG
*
2242461 AAACCCGATCTAACCCGCAACCCG
1 AAACCCGA---AACCCGAAACCCG
2242485 AAACCCCGACAACCCGGAAATCCCG
1 AAA-CCCGA-AACCC-GAAA-CCCG
2242510 TAAACCCGAAACCCGAAACTCGCG
1 -AAACCCGAAACCCGAAAC-C-CG
*
2242534 AAAACCCGCTAACCCGAAACCC
1 -AAACCCG-AAACCCGAAACCC
2242556 CCAATCGCCC
Statistics
Matches: 134, Mismatches: 14, Indels: 30
0.75 0.08 0.17
Matches are distributed among these distances:
21 31 0.23
22 5 0.04
23 22 0.16
24 32 0.24
25 24 0.18
26 19 0.14
27 1 0.01
ACGTcount: A:0.39, C:0.41, G:0.15, T:0.05
Consensus pattern (21 bp):
AAACCCGAAACCCGAAACCCG
Found at i:2242521 original size:57 final size:52
Alignment explanation
Indices: 2242361--2242555 Score: 148
Period size: 57 Copynumber: 3.5 Consensus size: 52
2242351 ACCCGGGGAA
**
2242361 AAACCCTGAAAACCCGAAACGCCGAGAACCC-A-AA-ACCCGCCACCCGAAACCCG
1 AAACCC-G-AAACCCGAAAC-CCGA-AACCCGATAATACCCGAAACCCGAAACCCG
* *
2242414 AAACCCGAAACCCGAAACCCGAAACCCGATAATATCCGAAATGCCAGAAACCCG
1 AAACCCGAAACCCGAAACCCGAAACCCGATAATACCCGAAA--CCCGAAACCCG
*
2242468 ATCTAACCCGCAACCCGAAACCCCGACAACCCGGA-AAT-CCCGTAAACCCGAAACCCG
1 A---AACCCGAAACCCGAAA-CCCGA-AACCC-GATAATACCCG-AAACCCGAAACCCG
*
2242525 AAACTCGCGAAAACCCGCTAACCCGAAACCC
1 AAAC-C-CG-AAACCCG-AAACCCGAAACCC
2242556 CCAATCGCCC
Statistics
Matches: 117, Mismatches: 9, Indels: 29
0.75 0.06 0.19
Matches are distributed among these distances:
49 5 0.04
50 5 0.04
51 13 0.11
52 6 0.05
53 6 0.05
54 14 0.12
55 1 0.01
56 7 0.06
57 37 0.32
58 10 0.09
59 11 0.09
60 2 0.02
ACGTcount: A:0.39, C:0.41, G:0.14, T:0.06
Consensus pattern (52 bp):
AAACCCGAAACCCGAAACCCGAAACCCGATAATACCCGAAACCCGAAACCCG
Found at i:2242590 original size:7 final size:7
Alignment explanation
Indices: 2242544--2242605 Score: 52
Period size: 8 Copynumber: 8.3 Consensus size: 7
2242534 AAAACCCGCT
*
2242544 AACCCGA
1 AACCCCA
2242551 AACCCCCA
1 AA-CCCCA
* *
2242559 ATCGCCCC
1 AAC-CCCA
2242567 AACCCCA
1 AACCCCA
2242574 AACCCTCA
1 AACCC-CA
2242582 AACCCCAA
1 AACCCC-A
2242590 AACCCCA
1 AACCCCA
*
2242597 TACCCCA
1 AACCCCA
2242604 AA
1 AA
2242606 ATAACCCCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
7 20 0.45
8 24 0.55
ACGTcount: A:0.39, C:0.53, G:0.03, T:0.05
Consensus pattern (7 bp):
AACCCCA
Found at i:2242606 original size:15 final size:15
Alignment explanation
Indices: 2242544--2243428 Score: 554
Period size: 15 Copynumber: 58.8 Consensus size: 15
2242534 AAAACCCGCT
* *
2242544 AACCCGAAACCCCCA
1 AACCCCAAACCCCAA
* *
2242559 ATCGCCCCAACCCC-A
1 AAC-CCCAAACCCCAA
2242574 AACCCTCAAACCCCAA
1 AACCC-CAAACCCCAA
*
2242590 AACCCCATACCCCAA
1 AACCCCAAACCCCAA
* *
2242605 AA----TAACCCCAT
1 AACCCCAAACCCCAA
*
2242616 CACCCCAAACCCCAA
1 AACCCCAAACCCCAA
*
2242631 AATCCCCAACTCCCTCAA
1 AA-CCCCAA-ACCC-CAA
*
2242649 AATACCC-AACCCTCAA
1 AA-CCCCAAACCC-CAA
* *
2242665 TAACCGCATATACCCAAA
1 -AACCCCA-A-ACCCCAA
2242683 TAACCCCAAACCCCAAAA
1 -AACCCCAAACCCC--AA
2242701 AACTCCCAAAATCCCC-A
1 AAC-CCC-AAA-CCCCAA
2242718 AACCCCAAACCCCATA
1 AACCCCAAACCCCA-A
*
2242734 AACCCCAAAACCCCAT
1 AACCCC-AAACCCCAA
2242750 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
*
2242764 AACCCCCAACCCCAAA
1 AACCCCAAACCCC-AA
* *
2242780 AACCCCACACCCGCTA
1 AACCCCAAACCC-CAA
2242796 AACCCTCAAACCCC-A
1 AACCC-CAAACCCCAA
2242811 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
2242825 AACTCCCAAATCCCCAA
1 AAC-CCCAAA-CCCCAA
*
2242842 ACCCCCAAAACCCC-A
1 AACCCC-AAACCCCAA
2242857 AACCCCTAAA----AA
1 AACCCC-AAACCCCAA
*
2242869 AACCCCAAACCGCCCA
1 AACCCCAAACC-CCAA
*
2242885 AACCCCAAACCCCAT
1 AACCCCAAACCCCAA
2242900 AACCCCAAACCCTC-A
1 AACCCCAAACCC-CAA
*
2242915 AACACCAAACCCCCATA
1 AACCCCAAA-CCCCA-A
** *
2242932 TCCCCCAAATACCC-A
1 AACCCCAAA-CCCCAA
**
2242947 CCCCTCCAAACCCC-A
1 AACC-CCAAACCCCAA
2242962 AA----AAACCTCTCAA
1 AACCCCAAACC-C-CAA
* *
2242975 TACCTCTCCAACCCTC-A
1 AACC-C-CAAACCC-CAA
2242992 AACCCCAATACCCCAAA
1 AACCCCAA-ACCCC-AA
*
2243009 AACCCCAATCCCC--
1 AACCCCAAACCCCAA
2243022 AA-CCCAAACCCC-A
1 AACCCCAAACCCCAA
2243035 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
*
2243049 AACCCCCAACCCC-A
1 AACCCCAAACCCCAA
2243063 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
2243077 AACCCCAAACCCCCCAA
1 AACCCCAAA--CCCCAA
2243094 AGACCCCAAACCCC--
1 A-ACCCCAAACCCCAA
*
2243108 AACCCCCAACCCC-A
1 AACCCCAAACCCCAA
*
2243122 CACCCCAAACCCC-A
1 AACCCCAAACCCCAA
2243136 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
2243150 AACCCCTAAA-CCCAA
1 AACCCC-AAACCCCAA
*
2243165 CACCCCAAACTCCC-A
1 AACCCCAAAC-CCCAA
*
2243180 AACCCCACACCCCAA
1 AACCCCAAACCCCAA
2243195 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
2243209 AACCCCAAAACCCCCAA
1 AACCCC-AAA-CCCCAA
*
2243226 AATCCCAAAACCCC-A
1 AA-CCCCAAACCCCAA
2243241 AACCCCAAACCCTC-A
1 AACCCCAAACCC-CAA
*
2243256 AACCCCAAACCCCCA
1 AACCCCAAACCCCAA
2243271 AACCCCAAACCCC--
1 AACCCCAAACCCCAA
*
2243284 AACCCC-AACCCC-C
1 AACCCCAAACCCCAA
2243297 AACCCCAAACCCCCAA
1 AACCCCAAA-CCCCAA
* *
2243313 ACCCCCAAACCCCCA
1 AACCCCAAACCCCAA
* *
2243328 ACCCCCAACCCCCAAA
1 AACCCCAAACCCC-AA
2243344 AACCACC-AACCCCACA
1 AACC-CCAAACCCCA-A
**
2243360 CCCCCCAAACCCC--
1 AACCCCAAACCCCAA
* *
2243373 CACCCCAAACCCCCTA
1 AACCCCAAA-CCCCAA
2243389 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
2243403 AACCCCAAACCCC-A
1 AACCCCAAACCCCAA
*
2243417 AACCCCAGACCC
1 AACCCCAAACCC
2243429 AGGACCCCGG
Statistics
Matches: 713, Mismatches: 75, Indels: 165
0.75 0.08 0.17
Matches are distributed among these distances:
10 5 0.01
11 11 0.02
12 23 0.03
13 37 0.05
14 166 0.23
15 189 0.27
16 161 0.23
17 68 0.10
18 38 0.05
19 11 0.02
20 4 0.01
ACGTcount: A:0.40, C:0.55, G:0.01, T:0.05
Consensus pattern (15 bp):
AACCCCAAACCCCAA
Found at i:2242620 original size:26 final size:26
Alignment explanation
Indices: 2242582--2242633 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
2242572 CAAACCCTCA
*
2242582 AACCCCAAAACCCCATACCCCAAAAT
1 AACCCCAAAACCCCAAACCCCAAAAT
**
2242608 AACCCCATCACCCCAAACCCCAAAAT
1 AACCCCAAAACCCCAAACCCCAAAAT
2242634 CCCCAACTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.48, G:0.00, T:0.08
Consensus pattern (26 bp):
AACCCCAAAACCCCAAACCCCAAAAT
Found at i:2242778 original size:6 final size:7
Alignment explanation
Indices: 2242684--2243428 Score: 639
Period size: 7 Copynumber: 98.7 Consensus size: 7
2242674 ATACCCAAAT
2242684 AACCCCA
1 AACCCCA
2242691 AACCCCAAAA
1 AACCCC---A
2242701 AACTCCCAA
1 AAC-CCC-A
2242710 AATCCCCA
1 AA-CCCCA
2242718 AACCCCA
1 AACCCCA
2242725 AACCCCATA
1 AACCCC--A
2242734 AACCCCAA
1 AACCCC-A
2242742 AACCCCA
1 AACCCCA
2242749 TAACCCCA
1 -AACCCCA
2242757 AACCCCA
1 AACCCCA
*
2242764 AACCCCC
1 AACCCCA
2242771 AACCCCAAA
1 AACCCC--A
2242780 AACCCCA
1 AACCCCA
*
2242787 CACCCGCTA
1 AACCC-C-A
2242796 AACCCTCA
1 AACCC-CA
2242804 AACCCCA
1 AACCCCA
2242811 AACCCCA
1 AACCCCA
2242818 AACCCCA
1 AACCCCA
2242825 AACTCCCA
1 AAC-CCCA
2242833 AATCCCCA
1 AA-CCCCA
2242841 AACCCCCAA
1 AA-CCCC-A
2242850 AACCCCA
1 AACCCCA
2242857 AACCCCTA
1 AACCCC-A
*
2242865 AA---AA
1 AACCCCA
2242869 AACCCCA
1 AACCCCA
2242876 AACCGCCCA
1 AA-C-CCCA
2242885 AACCCCA
1 AACCCCA
2242892 AACCCCA
1 AACCCCA
2242899 TAACCCCA
1 -AACCCCA
2242907 AACCCTCA
1 AACCC-CA
*
2242915 AACACCA
1 AACCCCA
2242922 AACCCCCA
1 AA-CCCCA
*
2242930 TATCCCCCA
1 -A-ACCCCA
*
2242939 AATACCCA
1 AA-CCCCA
**
2242947 CCCCTCCA
1 AACC-CCA
2242955 AACCCCAAAA
1 AACCCC---A
2242965 AACCTCTCA
1 AACC-C-CA
*
2242974 ATACCTCTCC
1 A-ACC-C-CA
2242984 AACCCTCA
1 AACCC-CA
2242992 AACCCCA
1 AACCCCA
2242999 ATACCCCAAA
1 A-ACCCC--A
2243009 AACCCCA
1 AACCCCA
*
2243016 ATCCCC-
1 AACCCCA
2243022 AA-CCCA
1 AACCCCA
2243028 AACCCCA
1 AACCCCA
2243035 AACCCCA
1 AACCCCA
2243042 AACCCCA
1 AACCCCA
*
2243049 AACCCCC
1 AACCCCA
2243056 AACCCCA
1 AACCCCA
2243063 AACCCCA
1 AACCCCA
2243070 AACCCCA
1 AACCCCA
2243077 AACCCCA
1 AACCCCA
2243084 AACCCCCCAA
1 AA--CCCC-A
2243094 AGACCCCA
1 A-ACCCCA
2243102 AACCCC-
1 AACCCCA
*
2243108 AACCCCC
1 AACCCCA
2243115 AACCCCA
1 AACCCCA
*
2243122 CACCCCA
1 AACCCCA
2243129 AACCCCA
1 AACCCCA
2243136 AACCCCA
1 AACCCCA
2243143 AACCCCA
1 AACCCCA
2243150 AACCCCTA
1 AACCCC-A
2243158 AA-CCCA
1 AACCCCA
2243164 ACACCCCA
1 A-ACCCCA
2243172 AACTCCCA
1 AAC-CCCA
2243180 AACCCCA
1 AACCCCA
*
2243187 CACCCCAA
1 AACCCC-A
2243195 AACCCCA
1 AACCCCA
2243202 AACCCCA
1 AACCCCA
2243209 AACCCCAA
1 AACCCC-A
2243217 AACCCCCAA
1 AA-CCCC-A
*
2243226 AATCCCAA
1 AA-CCCCA
2243234 AACCCCA
1 AACCCCA
2243241 AACCCCA
1 AACCCCA
2243248 AACCCTCA
1 AACCC-CA
2243256 AACCCCA
1 AACCCCA
2243263 AACCCCCA
1 AA-CCCCA
2243271 AACCCCA
1 AACCCCA
2243278 AACCCC-
1 AACCCCA
2243284 AACCCC-
1 AACCCCA
*
2243290 AACCCCC
1 AACCCCA
2243297 AACCCCA
1 AACCCCA
2243304 AACCCCCA
1 AA-CCCCA
2243312 AACCCCCA
1 AA-CCCCA
2243320 AACCCCCA
1 AA-CCCCA
*
2243328 ACCCCCA
1 AACCCCA
*
2243335 ACCCCCAAA
1 AACCCC--A
2243344 AACCACC-
1 AACC-CCA
2243351 AACCCCA
1 AACCCCA
*
2243358 CACCCCCCA
1 -A-ACCCCA
2243367 AACCCC-
1 AACCCCA
*
2243373 CACCCCA
1 AACCCCA
2243380 AACCCCCTA
1 AA-CCCC-A
2243389 AACCCCA
1 AACCCCA
2243396 AACCCCA
1 AACCCCA
2243403 AACCCCA
1 AACCCCA
2243410 AACCCCA
1 AACCCCA
2243417 AACCCCA
1 AACCCCA
*
2243424 GACCC
1 AACCC
2243429 AGGACCCCGG
Statistics
Matches: 633, Mismatches: 41, Indels: 128
0.79 0.05 0.16
Matches are distributed among these distances:
4 3 0.00
5 3 0.00
6 30 0.05
7 320 0.51
8 164 0.26
9 83 0.13
10 24 0.04
11 5 0.01
12 1 0.00
ACGTcount: A:0.40, C:0.56, G:0.01, T:0.04
Consensus pattern (7 bp):
AACCCCA
Found at i:2243049 original size:87 final size:81
Alignment explanation
Indices: 2242685--2243423 Score: 564
Period size: 87 Copynumber: 8.6 Consensus size: 81
2242675 TACCCAAATA
* *
2242685 ACCCCAAACCCCAAAAAACTCCC-AA----AATCCCCAAACCCCAAACCCCATAAACCCCAAAAC
1 ACCCCAAACCCCAAAAAAC-CCCAAACCCCAAACCCCAAACCCCAAACCCCAAAAACCCC-AAAC
2242745 CCCATAACCCCAAACCCCAA
64 CCC--AACCCCAAACCCCAA
* *
2242765 ACCCCCAACCCC-AAAAACCCCACACCCGCTAAACCCTCAAACCCCAAACCCC--AAACCCCAAA
1 ACCCCAAACCCCAAAAAACCCCAAACCC-C-AAACCC-CAAACCCCAAACCCCAAAAACCCCAAA
2242827 CTCCCAAATCCCCAAACCCCCAAA
63 C-CCC-AA-CCCCAAA-CCCC-AA
2242851 ACCCCAAACCCCTAAAAAAACCCCAAACCGCCCAAACCCCAAACCCCATAACCCCAAACCCTCAA
1 ACCCCAAACCCC--AAAAAACCCCAAA-C-CCCAAACCCCAAACCCCA-AACCCC-AA-----AA
* * *
2242916 ACACCAAACCCCCATATCCCCCAAATACCCAC
55 ACCCCAAA-CCCCA-A--CCCCAAA-CCCCAA
* *
2242948 CCCTCCAAACCCCAAAAAACCTCTCAATACCTCTCCAACCCTCAAACCCCAATACCCCAAAAACC
1 ACC-CCAAACCCCAAAAAACC-C-CAA-ACC-C-CAAACCC-CAAACCCCAA-ACCCCAAAAACC
*
2243013 CCAATCCCCAA-CCCAAACCCCAA
58 CCAAACCCCAACCCCAAACCCCAA
* *
2243036 ACCCCAAACCCCAAACCCCCAACCCCAAACCCCAAACCCCAAACCCCAAACCCCCCAAAGACCCC
1 ACCCCAAACCCCAAA----AAACCCCAAACCCCAAACCCCAAACCCCAAA--CCCCAAAAACCCC
* *
2243101 AAACCCCAACCCCCAACCCCAC
60 AAACCCCAACCCCAAACCCCAA
2243123 ACCCCAAACCCCAAACCCCAAACCCCAAACCCCTAAA-CCCAACACCCCAAACTCCC--AAACCC
1 ACCCCAAACCCCAAA----AAACCCCAAACCCC-AAACCCCAA-ACCCCAAAC-CCCAAAAACCC
*
2243185 CACACCCCAAAACCCCAAACCCCAA
59 CAAACCCC--AACCCCAAACCCCAA
* * * *
2243210 ACCCCAAAACCCCCAAAATCCCAAAACCCCAAACCCCAAACCCTCAAACCCC-AAACCCCCAAAC
1 ACCCC-AAACCCCAAAAAACCCCAAACCCCAAACCCCAAACCC-CAAACCCCAAAAACCCCAAAC
2243274 CCCAAACCCC-AACCCC-A
64 CCC-AACCCCAAACCCCAA
* * * *
2243291 ACCCCCAACCCC--AAACCCCCAAACCCCCAAACCCCCAACCCCCAACCCCCAAAAACCACC-AA
1 ACCCCAAACCCCAAAAAACCCCAAA-CCCCAAA-CCCCAAACCCCAAACCCCAAAAACC-CCAAA
*
2243353 CCCCACACCCCCCAAACCCC-C
63 CCCCA-A--CCCCAAACCCCAA
**
2243374 ACCCCAAACCCC-CTAAACCCCAAACCCCAAACCCCAAACCCCAAACCCCA
1 ACCCCAAACCCCAAAAAACCCCAAACCCCAAACCCCAAACCCCAAACCCCA
2243424 GACCCAGGAC
Statistics
Matches: 551, Mismatches: 46, Indels: 122
0.77 0.06 0.17
Matches are distributed among these distances:
78 12 0.02
79 22 0.04
80 38 0.07
81 8 0.01
82 27 0.05
83 47 0.09
84 61 0.11
85 31 0.06
86 55 0.10
87 81 0.15
88 38 0.07
89 32 0.06
90 3 0.01
91 6 0.01
92 1 0.00
93 5 0.01
94 8 0.01
96 9 0.02
97 18 0.03
98 25 0.05
99 10 0.02
100 14 0.03
ACGTcount: A:0.40, C:0.56, G:0.00, T:0.04
Consensus pattern (81 bp):
ACCCCAAACCCCAAAAAACCCCAAACCCCAAACCCCAAACCCCAAACCCCAAAAACCCCAAACCC
CAACCCCAAACCCCAA
Found at i:2243443 original size:7 final size:7
Alignment explanation
Indices: 2243024--2243507 Score: 130
Period size: 7 Copynumber: 66.4 Consensus size: 7
2243014 CAATCCCCAA
*
2243024 CCCAAAC
1 CCCAGAC
*
2243031 CCCAAAC
1 CCCAGAC
*
2243038 CCCAAAC
1 CCCAGAC
*
2243045 CCCAAACC
1 CCCAGA-C
2243053 CCCA-AC
1 CCCAGAC
*
2243059 CCCAAAC
1 CCCAGAC
*
2243066 CCCAAAC
1 CCCAGAC
*
2243073 CCCAAAC
1 CCCAGAC
*
2243080 CCCAAACCC
1 CCCAGA--C
2243089 CCCAAAGAC
1 CCC--AGAC
*
2243098 CCCAAAC
1 CCCAGAC
2243105 CCCA-ACC
1 CCCAGA-C
2243112 CCCA-AC
1 CCCAGAC
*
2243118 CCCACAC
1 CCCAGAC
*
2243125 CCCAAAC
1 CCCAGAC
*
2243132 CCCAAAC
1 CCCAGAC
*
2243139 CCCAAAC
1 CCCAGAC
*
2243146 CCCAAAC
1 CCCAGAC
*
2243153 CCCTAAAC
1 CCC-AGAC
* *
2243161 CCAACAC
1 CCCAGAC
*
2243168 CCCAAAC
1 CCCAGAC
*
2243175 TCCCAAAC
1 -CCCAGAC
*
2243183 CCCACAC
1 CCCAGAC
*
2243190 CCCAAAAC
1 CCC-AGAC
*
2243198 CCCAAAC
1 CCCAGAC
*
2243205 CCCAAAC
1 CCCAGAC
*
2243212 CCCAAAACC
1 CCC-AGA-C
*
2243221 CCCAAAATC
1 CCC-AGA-C
* *
2243230 CCAAAAC
1 CCCAGAC
*
2243237 CCCAAAC
1 CCCAGAC
*
2243244 CCCAAAC
1 CCCAGAC
*
2243251 CCTCAAAC
1 CC-CAGAC
*
2243259 CCCAAACC
1 CCCAGA-C
*
2243267 CCCAAAC
1 CCCAGAC
*
2243274 CCCAAAC
1 CCCAGAC
2243281 CCCA-AC
1 CCCAGAC
2243287 CCCA-ACC
1 CCCAGA-C
2243294 CCCA-AC
1 CCCAGAC
*
2243300 CCCAAACC
1 CCCAGA-C
*
2243308 CCCAAACC
1 CCCAGA-C
*
2243316 CCCAAACC
1 CCCAGA-C
2243324 CCCA-ACC
1 CCCAGA-C
2243331 CCCA-ACC
1 CCCAGA-C
*
2243338 CCCAAAAAC
1 CCC--AGAC
2243347 CACCA-AC
1 C-CCAGAC
*
2243354 CCCACACCC
1 CCCAGA--C
*
2243363 CCCAAAC
1 CCCAGAC
*
2243370 CCC-CAC
1 CCCAGAC
*
2243376 CCCAAACC
1 CCCAGA-C
*
2243384 CCCTAAAC
1 CCC-AGAC
*
2243392 CCCAAAC
1 CCCAGAC
*
2243399 CCCAAAC
1 CCCAGAC
*
2243406 CCCAAAC
1 CCCAGAC
*
2243413 CCCAAAC
1 CCCAGAC
2243420 CCCAGA-
1 CCCAGAC
2243426 CCCAGGAC
1 CCCA-GAC
*
2243434 CCCGGAC
1 CCCAGAC
2243441 CCC-GCAC
1 CCCAG-AC
* *
2243448 ACAAGAC
1 CCCAGAC
2243455 CCCAGAC
1 CCCAGAC
2243462 CCCAGAC
1 CCCAGAC
2243469 CCCAGAC
1 CCCAGAC
2243476 CCCAGACC
1 CCCAGA-C
* *
2243484 CCCGGCC
1 CCCAGAC
2243491 CCCAGGA-
1 CCCA-GAC
2243498 CCCAGAC
1 CCCAGAC
2243505 CCC
1 CCC
2243508 CAACCCTAAA
Statistics
Matches: 417, Mismatches: 25, Indels: 70
0.81 0.05 0.14
Matches are distributed among these distances:
6 38 0.09
7 259 0.62
8 84 0.20
9 31 0.07
10 3 0.01
11 2 0.00
ACGTcount: A:0.37, C:0.59, G:0.04, T:0.01
Consensus pattern (7 bp):
CCCAGAC
Found at i:2243495 original size:22 final size:21
Alignment explanation
Indices: 2243029--2243479 Score: 98
Period size: 22 Copynumber: 20.6 Consensus size: 21
2243019 CCCAACCCAA
* * *
2243029 ACCCCAAACCCCAAACCCCAA
1 ACCCCAGACCCCAAGCCCCAG
* *
2243050 ACCCCCA-ACCCCAAACCCCAA
1 A-CCCCAGACCCCAAGCCCCAG
* *
2243071 ACCCCAAACCCCAAACCCCCCAAAG
1 ACCCCAGACCCC-AA-GCCCC--AG
* *
2243096 ACCCCAAACCCCAACCCCCA-
1 ACCCCAGACCCCAAGCCCCAG
* * *
2243116 ACCCCACACCCCAAACCCCAA
1 ACCCCAGACCCCAAGCCCCAG
* * *
2243137 ACCCCAAACCCCAAACCCCTAA
1 ACCCCAGACCCCAAGCCCC-AG
* * * *
2243159 ACCCAACACCCCAAACTCCCAA
1 ACCCCAGACCCCAAGC-CCCAG
* * *
2243181 ACCCCACACCCCAAAACCCCAA
1 ACCCCAGACCCC-AAGCCCCAG
* * *
2243203 ACCCCAAACCCCAAAACCCCCAAA
1 ACCCCAGACCCC--AAGCCCC-AG
* * * *
2243227 ATCCCAAAACCCCAAACCCCAA
1 A-CCCCAGACCCCAAGCCCCAG
* * *
2243249 ACCCTCAAACCCCAAACCCCCAA
1 ACCC-CAGACCCC-AAGCCCCAG
*
2243272 ACCCCAAACCCCAA-CCCCA-
1 ACCCCAGACCCCAAGCCCCAG
* *
2243291 ACCCCCA-ACCCCAAACCCCCAA
1 A-CCCCAGACCCC-AAGCCCCAG
* *
2243313 ACCCCCAAACCCCCAACCCCCA-
1 A-CCCCAGA-CCCCAAGCCCCAG
* *
2243335 ACCCCCAAAAACCACCAA-CCCCAC
1 A-CCCC--AGACC-CCAAGCCCCAG
* * *
2243359 ACCCCCCAAACCCCCA-CCCCAA
1 A--CCCCAGACCCCAAGCCCCAG
* * *
2243381 ACCCCCTAAACCCCAAACCCCAA
1 A-CCCC-AGACCCCAAGCCCCAG
* *
2243404 ACCCCAAACCCCAAACCCCAG
1 ACCCCAGACCCCAAGCCCCAG
*
2243425 A-CCCAGGACCCC-GGACCCC-G
1 ACCCCA-GACCCCAAG-CCCCAG
* *
2243445 CACACAAGACCCC-AGACCCCAG
1 -ACCCCAGACCCCAAG-CCCCAG
2243467 ACCCCAGACCCCA
1 ACCCCAGACCCCA
2243480 GACCCCCGGC
Statistics
Matches: 370, Mismatches: 26, Indels: 67
0.80 0.06 0.14
Matches are distributed among these distances:
19 6 0.02
20 40 0.11
21 103 0.28
22 107 0.29
23 69 0.19
24 17 0.05
25 28 0.08
ACGTcount: A:0.38, C:0.59, G:0.02, T:0.01
Consensus pattern (21 bp):
ACCCCAGACCCCAAGCCCCAG
Found at i:2243519 original size:7 final size:7
Alignment explanation
Indices: 2243509--2243534 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2243499 CCAGACCCCC
2243509 AACCCTA
1 AACCCTA
2243516 AACCCTA
1 AACCCTA
2243523 AACCCTA
1 AACCCTA
2243530 AACCC
1 AACCC
2243535 GAACCCGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.46, G:0.00, T:0.12
Consensus pattern (7 bp):
AACCCTA
Done.