Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold400
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: 2847997
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 10 of 17
Found at i:1418982 original size:12 final size:12
Alignment explanation
Indices: 1418965--1418998 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1418955 TTTGCATTTT
**
1418965 TGTCATAACCCA
1 TGTCATAAAACA
1418977 TGTCATAAAACA
1 TGTCATAAAACA
1418989 TGTCATAAAA
1 TGTCATAAAA
1418999 TTTCTAGCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (12 bp):
TGTCATAAAACA
Found at i:1419281 original size:32 final size:32
Alignment explanation
Indices: 1419240--1419340 Score: 175
Period size: 32 Copynumber: 3.2 Consensus size: 32
1419230 TTTTATCACC
*
1419240 AAGTTCTTGATCTTGGGGGAACATTATTCTTA
1 AAGTTCTTGATCTTGGGGGTACATTATTCTTA
1419272 AAGTTCTTGATCTTGGGGGTACATTATTCTTA
1 AAGTTCTTGATCTTGGGGGTACATTATTCTTA
* *
1419304 AAGTTCTTGATCTTGGGGGTACATTCTGCTTA
1 AAGTTCTTGATCTTGGGGGTACATTATTCTTA
1419336 AAGTT
1 AAGTT
1419341 TGGATTCATG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (32 bp):
AAGTTCTTGATCTTGGGGGTACATTATTCTTA
Found at i:1420415 original size:26 final size:26
Alignment explanation
Indices: 1420379--1420428 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
1420369 TTTAATTGTC
1420379 GGGGATACTCCAACCTTACTTTTCGA
1 GGGGATACTCCAACCTTACTTTTCGA
1420405 GGGGATACTCCAACCTTACTTTTC
1 GGGGATACTCCAACCTTACTTTTC
1420429 TTCAAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (26 bp):
GGGGATACTCCAACCTTACTTTTCGA
Found at i:1422118 original size:26 final size:26
Alignment explanation
Indices: 1422082--1422131 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
1422072 TTTAATTGTC
1422082 GGGGATACTCCAACCTCACTTTTCGA
1 GGGGATACTCCAACCTCACTTTTCGA
*
1422108 GGGGATACTCCAACCTTACTTTTC
1 GGGGATACTCCAACCTCACTTTTC
1422132 TTCAAAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (26 bp):
GGGGATACTCCAACCTCACTTTTCGA
Found at i:1424452 original size:13 final size:13
Alignment explanation
Indices: 1424434--1424523 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
1424424 TCAAACAATT
1424434 TGTATCGATACAA
1 TGTATCGATACAA
1424447 TGTATCGATACATAA
1 TGTATCGATAC--AA
1424462 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1424479 TATATCGATACATAA
1 TGTATCGATAC--AA
1424494 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1424511 TGTATCGCTACAA
1 TGTATCGATACAA
1424524 AGCTATTGCC
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 33 0.53
15 4 0.06
17 4 0.06
19 21 0.34
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1424471 original size:19 final size:19
Alignment explanation
Indices: 1424447--1424509 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1424437 ATCGATACAA
1424447 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
1424466 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
1424479 TATATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
1424498 TGTATCGATACA
1 TGTATCGATACA
1424510 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1424474 original size:32 final size:32
Alignment explanation
Indices: 1424433--1424522 Score: 162
Period size: 32 Copynumber: 2.8 Consensus size: 32
1424423 TTCAAACAAT
1424433 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
1424465 TTGTATCGATACAATATATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
1424497 TTGTATCGATACAATGTATCGCTACA
1 TTGTATCGATACAATGTATCGATACA
1424523 AAGCTATTGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 55 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:1424579 original size:13 final size:13
Alignment explanation
Indices: 1424561--1424588 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1424551 CATTTTTCAA
1424561 TGTATCGATACAT
1 TGTATCGATACAT
1424574 TGTATCGATACAT
1 TGTATCGATACAT
1424587 TG
1 TG
1424589 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1424585 original size:33 final size:33
Alignment explanation
Indices: 1424541--1424606 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1424531 GCCAAGGAAA
**
1424541 TGTATCAATACATTTTTCAATGTATCGATACAT
1 TGTATCAATACATTGATCAATGTATCGATACAT
* **
1424574 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCAATACATTGATCAATGTATCGATACAT
1424607 CTAGGAAGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (33 bp):
TGTATCAATACATTGATCAATGTATCGATACAT
Found at i:1426969 original size:51 final size:49
Alignment explanation
Indices: 1426924--1427093 Score: 177
Period size: 51 Copynumber: 3.4 Consensus size: 49
1426914 AATTTTTCAT
*
1426924 AATCGGGGGTACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC-AA-TTTCCAC
* * * * *
1426975 AATCGGGGATACTCCAACTCTGATTTTTTTTTCGAAACAC---TTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACAATTTCCAC
* * * *
1427021 AATCGGGGATACTCCCACACCGGTTTTATTTTCAAAACACCAATTTTCTAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACA-CAA-TTTCCAC
1427072 AATCGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
1427094 TTATTTTCGA
Statistics
Matches: 97, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
46 39 0.40
47 1 0.01
51 53 0.55
52 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (49 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACAATTTCCAC
Found at i:1427053 original size:46 final size:46
Alignment explanation
Indices: 1426924--1427060 Score: 132
Period size: 46 Copynumber: 2.9 Consensus size: 46
1426914 AATTTTTCAT
* * *
1426924 AATCGGGGGTACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCCAC
1 AATCGGGGATACTCCAACACCGATTTTATTTTC-AAAACAC-----TTCCAC
* * * *
1426975 AATCGGGGATACTCCAACTCTGATTTTTTTTTCGAAACACTTCCAC
1 AATCGGGGATACTCCAACACCGATTTTATTTTCAAAACACTTCCAC
* *
1427021 AATCGGGGATACTCCCACACCGGTTTTATTTTCAAAACAC
1 AATCGGGGATACTCCAACACCGATTTTATTTTCAAAACAC
1427061 CAATTTTCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 40 0.55
51 29 0.40
52 4 0.05
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (46 bp):
AATCGGGGATACTCCAACACCGATTTTATTTTCAAAACACTTCCAC
Found at i:1427162 original size:79 final size:78
Alignment explanation
Indices: 1427072--1427358 Score: 441
Period size: 79 Copynumber: 3.6 Consensus size: 78
1427062 AATTTTCTAT
1427072 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGCTTTATTCCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GCTTTATTCCTAAAA
1427137 TATTGATTTCTCAC
65 TATTGATTTCTCAC
**
1427151 AATCGAAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GCTTTATTCCTAAAA
1427216 TATTGATTTCTCAC
65 TATTGATTTCTCAC
* * * *
1427230 AATCGGGGATACTCCAACCCCGTTATTTCCGAGCGGATACTCCAACCCCGATTTTATTCCCAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-CTTTATTCCTAAAA
*
1427295 TATTAATTTCTCAC
65 TATTGATTTCTCAC
* * *
1427309 AATCGGGGATACTCCAATCTCGTTATTTTC-ATGGGGATACTCCAATCCCG
1 AATCGGGGATACTCCAACCCCGTTATTTTCGA-GGGGATACTCCAACCCCG
1427359 TTATTTTTGA
Statistics
Matches: 191, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
78 2 0.01
79 189 0.99
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (78 bp):
AATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGCTTTATTCCTAAAAT
ATTGATTTCTCAC
Found at i:1427352 original size:107 final size:107
Alignment explanation
Indices: 1427234--1427465 Score: 281
Period size: 107 Copynumber: 2.2 Consensus size: 107
1427224 TCTCACAATC
* **
1427234 GGGGATACTCCAACCCCGTTATTTCCGAGCGGATACTCCAACCCCGATTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCCGAGCGGATACTCCAACCCCGATTTTATTCCCAAAACACC
* * * *
1427299 AA-TTTCTCACAA-TCGGGGATACTCCAA-TCTCGTTATTTTCAT
66 AATTTTCT-ACAATTAGGGG-TACTCCAACCCT-GTTATTTCCAA
* ** * * **
1427341 GGGGATACTCCAATCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACC
1 GGGGATACTCCAACCCCGTTATTTCCGAGCGGATACTCCAACCCCGATTTTATTCCCAAAACACC
*
1427406 AATTTTCTATAATTAGGGGTACTCCAACCCTGTTATTTCCAA
66 AATTTTCTACAATTAGGGGTACTCCAACCCTGTTATTTCCAA
1427448 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1427466 ATTTTATTTC
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
107 94 0.89
108 12 0.11
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGTTATTTCCGAGCGGATACTCCAACCCCGATTTTATTCCCAAAACACC
AATTTTCTACAATTAGGGGTACTCCAACCCTGTTATTTCCAA
Found at i:1427353 original size:28 final size:28
Alignment explanation
Indices: 1427313--1427381 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
1427303 TCTCACAATC
*
1427313 GGGGATACTCCAATCTCGTTA-TTTTCA
1 GGGGATACTCCAATCCCGTTATTTTTCA
*
1427340 TGGGGATACTCCAATCCCGTTATTTTTGA
1 -GGGGATACTCCAATCCCGTTATTTTTCA
1427369 GGGGATACTCCAA
1 GGGGATACTCCAA
1427382 CCCTGATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 33 0.87
29 5 0.13
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (28 bp):
GGGGATACTCCAATCCCGTTATTTTTCA
Found at i:1427429 original size:79 final size:79
Alignment explanation
Indices: 1427341--1427510 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 79
1427331 TTATTTTCAT
*** * *
1427341 GGGGATACTCCAATCCC-GTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACAC
1 GGGG-TACTCCAA-CCCTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
*
1427405 CAA-TTTTCTATAATTA
64 CAATTTTTC-ATAATCA
* * *
1427421 GGGGTACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAGAACATCG
1 GGGGTACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
1427486 ATTTTTCATAATCA
66 ATTTTTCATAATCA
1427500 GGGGTACTCCA
1 GGGGTACTCCA
1427511 GCCCCGTCGT
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.04
79 67 0.85
80 9 0.11
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (79 bp):
GGGGTACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
ATTTTTCATAATCA
Found at i:1427510 original size:186 final size:186
Alignment explanation
Indices: 1427158--1427510 Score: 444
Period size: 186 Copynumber: 1.9 Consensus size: 186
1427148 CACAATCGAA
* * ***
1427158 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAATATTGAT
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAACACCAAT
* *
1427223 TTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGCGGATACTCCAACCCCGATTTTATT
66 TTCTCACAATAGGGGATACTCCAACCCCGTTATTTCCAAGCGGATACTCCAACCCCGATTTTATT
* *
1427288 CCCAAAATATTAATTTCTCACAATCGGGGATACTCCAATCTCGTTATTTTCATGGG
131 CCCAAAACATCAATTTCTCACAATCGGGGATACTCCAATCTCGTTATTTTCATGGG
* * * * *
1427344 GATACTCCAATCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATT-TTCAAAACACCAA
1 GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCT-AAAACACCAA
* * *
1427408 TTT-TCTATAATTAGGGG-TACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGATTTT
65 TTTCTC-ACAA-TAGGGGATACTCCAACCCCGTTATTTCCAAGCGGATACTCCAACCCCGATTTT
* * * * *
1427471 ATTTCCAGAACATCGATTTTTCATAATCAGGGG-TACTCCA
128 ATTCCCAAAACATCAATTTCTCACAATC-GGGGATACTCCA
1427511 GCCCCGTCGT
Statistics
Matches: 141, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
185 3 0.02
186 129 0.91
187 9 0.06
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (186 bp):
GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAACACCAAT
TTCTCACAATAGGGGATACTCCAACCCCGTTATTTCCAAGCGGATACTCCAACCCCGATTTTATT
CCCAAAACATCAATTTCTCACAATCGGGGATACTCCAATCTCGTTATTTTCATGGG
Found at i:1432248 original size:14 final size:14
Alignment explanation
Indices: 1432229--1432259 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1432219 TTTTTGGGGG
1432229 GGTTTTTTTTT-CT
1 GGTTTTTTTTTACT
1432242 GGTTTTTTTTTACT
1 GGTTTTTTTTTACT
1432256 GGTT
1 GGTT
1432260 CAATTGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.03, C:0.06, G:0.19, T:0.71
Consensus pattern (14 bp):
GGTTTTTTTTTACT
Found at i:1432604 original size:37 final size:36
Alignment explanation
Indices: 1432554--1432663 Score: 184
Period size: 37 Copynumber: 3.0 Consensus size: 36
1432544 GGATTCATCA
*
1432554 AACAAGAAACCAAGTCATGGAAATATAAGAGTGCATT
1 AACAAG-AACCAAGTCATGGAAATATAAAAGTGCATT
1432591 AACAAGAAGCCAAGTCATGGAAATATAAAAGTGCATT
1 AACAAGAA-CCAAGTCATGGAAATATAAAAGTGCATT
1432628 AACAAGGAACCAAGTCATGGAAATATAAAAGTGCAT
1 AACAA-GAACCAAGTCATGGAAATATAAAAGTGCAT
1432664 CACTAGAAAC
Statistics
Matches: 70, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
36 2 0.03
37 65 0.93
38 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (36 bp):
AACAAGAACCAAGTCATGGAAATATAAAAGTGCATT
Found at i:1438671 original size:5 final size:5
Alignment explanation
Indices: 1438656--1438687 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
1438646 AGCTTCTTCT
1438656 CCTTGG CCTTG CCTTG CCTTG CCTTG CCTTG C
1 CCTT-G CCTTG CCTTG CCTTG CCTTG CCTTG C
1438688 TAAATGCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.00, C:0.41, G:0.22, T:0.38
Consensus pattern (5 bp):
CCTTG
Found at i:1439183 original size:18 final size:19
Alignment explanation
Indices: 1439138--1439205 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 19
1439128 AAAATTAATA
1439138 ATTTATATATTTATATCAT
1 ATTTATATATTTATATCAT
*
1439157 ATTTATATATTT-TATTAT
1 ATTTATATATTTATATCAT
* **
1439175 A-TTAT-TATATATAAAAT
1 ATTTATATATTTATATCAT
1439192 ATTT-TATATTTATA
1 ATTTATATATTTATA
1439206 AAAATATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
16 4 0.10
17 10 0.24
18 15 0.37
19 12 0.29
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATATATTTATATCAT
Found at i:1439194 original size:22 final size:19
Alignment explanation
Indices: 1439169--1439238 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
1439159 TTATATATTT
1439169 TATTATATTATTATATATAAAA
1 TATTATA-TATT-TATA-AAAA
*
1439191 TATTTTATATTTATAAAAA
1 TATTATATATTTATAAAAA
* *
1439210 TATTA-ATAATTAATAAATTA
1 TATTATAT-ATTTATAAA-AA
1439230 TATTATATA
1 TATTATATA
1439239 AAATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.05
19 16 0.39
20 11 0.27
21 6 0.15
22 6 0.15
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTATATATTTATAAAAA
Found at i:1439285 original size:11 final size:12
Alignment explanation
Indices: 1439269--1439300 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
1439259 TTCATATTAT
1439269 ATTATATTTT-A
1 ATTATATTTTAA
1439280 ATTATATTTTAA
1 ATTATATTTTAA
1439292 ATTATATTT
1 ATTATATTT
1439301 ACAGAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATATTTTAA
Found at i:1439285 original size:16 final size:19
Alignment explanation
Indices: 1439248--1439287 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 19
1439238 AAAATTTAAA
1439248 ATATTCATATTTTCATATT
1 ATATTCATATTTTCATATT
1439267 ATATT-ATATTTT-A-ATT
1 ATATTCATATTTTCATATT
1439283 ATATT
1 ATATT
1439288 TTAAATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
18 7 0.33
19 5 0.24
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTCATATTTTCATATT
Found at i:1439403 original size:22 final size:20
Alignment explanation
Indices: 1439378--1439429 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
1439368 AAAATATATA
1439378 ATTTTAAATTATCATAAT-AAAT
1 ATTTT-AATTAT--TAATAAAAT
*
1439400 ATTTTTATTATTAATAAAAT
1 ATTTTAATTATTAATAAAAT
*
1439420 ATTTTCATTA
1 ATTTTAATTA
1439430 AATAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 5 0.19
22 5 0.19
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTTAATTATTAATAAAAT
Found at i:1439414 original size:19 final size:19
Alignment explanation
Indices: 1439392--1439456 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 19
1439382 TAAATTATCA
1439392 TAATAAATATTTTTATTAT
1 TAATAAATATTTTTATTAT
*
1439411 TAATAAAATATTTTCATTA-
1 TAAT-AAATATTTTTATTAT
1439430 -AATAAAT-TTATTTA-TAT
1 TAATAAATATT-TTTATTAT
1439447 TAA-AAATATT
1 TAATAAATATT
1439457 CAAAATTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.10
17 11 0.28
18 7 0.18
19 4 0.10
20 13 0.33
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATAAATATTTTTATTAT
Found at i:1439981 original size:16 final size:16
Alignment explanation
Indices: 1439962--1440043 Score: 62
Period size: 16 Copynumber: 5.2 Consensus size: 16
1439952 GCAAGTTCCA
1439962 GTTCAGGCTCGTTCGG
1 GTTCAGGCTCGTTCGG
* *
1439978 GTTCTGG-TAGGTTCGG
1 GTTCAGGCT-CGTTCGG
* *
1439994 GTTCGGGCTCATTCGG
1 GTTCAGGCTCGTTCGG
* *
1440010 ATTC-GAGCTC-ATCGG
1 GTTCAG-GCTCGTTCGG
*
1440025 GTTCAGGCTCGTTCAG
1 GTTCAGGCTCGTTCGG
1440041 GTT
1 GTT
1440044 TGGGCTTATT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
15 13 0.25
16 37 0.73
17 1 0.02
ACGTcount: A:0.10, C:0.22, G:0.35, T:0.33
Consensus pattern (16 bp):
GTTCAGGCTCGTTCGG
Found at i:1440049 original size:47 final size:48
Alignment explanation
Indices: 1439988--1440081 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 48
1439978 GTTCTGGTAG
* *
1439988 GTTCGGGTTCGGGCTCATTCGGATTCGAGCTCA-TCGGGTTCAGGCTC
1 GTTCAGGTTCGGGCTCATTCGGATTCGAGCTCATTCGAGTTCAGGCTC
* * *
1440035 GTTCAGGTTTGGGCTTATTCGGATTCGAGCTTATTCGAGTTCAGGCT
1 GTTCAGGTTCGGGCTCATTCGGATTCGAGCTCATTCGAGTTCAGGCT
1440082 TTTTCGAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 29 0.71
48 12 0.29
ACGTcount: A:0.13, C:0.21, G:0.32, T:0.34
Consensus pattern (48 bp):
GTTCAGGTTCGGGCTCATTCGGATTCGAGCTCATTCGAGTTCAGGCTC
Found at i:1440082 original size:16 final size:15
Alignment explanation
Indices: 1440046--1440101 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 15
1440036 TTCAGGTTTG
1440046 GGCTTATTCG-GATTC
1 GGCTTATTCGAG-TTC
1440061 GAGCTTATTCGAGTTC
1 G-GCTTATTCGAGTTC
*
1440077 AGGCTTTTTCGAGTTC
1 -GGCTTATTCGAGTTC
1440093 GGCCTTATT
1 GG-CTTATT
1440102 TAGGTTCGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
15 3 0.09
16 30 0.86
17 2 0.06
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (15 bp):
GGCTTATTCGAGTTC
Found at i:1440514 original size:23 final size:24
Alignment explanation
Indices: 1440488--1440535 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1440478 AATTAATATT
1440488 TAAAAAATTT-AAAATATATTTAA
1 TAAAAAATTTAAAAATATATTTAA
* *
1440511 TAAAATATTTAAAAATCTATTTAA
1 TAAAAAATTTAAAAATATATTTAA
1440535 T
1 T
1440536 CTTAACTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAAAAATTTAAAAATATATTTAA
Found at i:1442730 original size:164 final size:165
Alignment explanation
Indices: 1442368--1442979 Score: 880
Period size: 164 Copynumber: 3.7 Consensus size: 165
1442358 TATTAATTCC
* * * * *
1442368 ATTTAATTTTATTTATTTCTGAAAATACTATTTCGTATCCTAATAGAAGCCCGAAAGAGTACGAA
1 ATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCCCGAAAAAATACGAA
* * *
1442433 AGG-TTTTTTTGAAATCTTTTATACCCCTATGGATGCCTATAGGAATATAAAAGATTAGAAAAAA
66 AGGTTTTTTTTGAAATCTTTTATACCCCTACGGATACCCATAGGAATATAAAAGATTAGAAAAAA
*
1442497 AGATATTAGAATTTATCT-TGATAATACCAATTTA
131 AGATATTAGAATTTATCTCTAATAATACCAATTTA
* ** *
1442531 ATTTAATTTTATTTATTTTTGAAAATACCATTTCGTACCCTAATGGAAGCTTGAAAAAATATGAA
1 ATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCCCGAAAAAATACGAA
1442596 AGG-TTTTTTTGAAATCTTTTATACCCCTACGGATACCCATAGGAA-ATAAAAGATTAGAAAAAA
66 AGGTTTTTTTTGAAATCTTTTATACCCCTACGGATACCCATAGGAATATAAAAGATTAG-AAAAA
* *
1442659 AAGGATATTAGAATTTATCTCT-ATAATTCTAATTTA
130 AA-GATATTAGAATTTATCTCTAATAATACCAATTTA
* * * *
1442695 ATTTAATTTAATTTATTTTTGAAACTACTATTTCGTATCCTAATGGAAGCCCGAAAGAATACGAA
1 ATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCCCGAAAAAATACGAA
* * * *
1442760 AGGTTTTTTTTGAAATCTTTTATACCTCTACGGATGCCTATAGGAATATAAAAGATTAGAAACAA
66 AGGTTTTTTTTGAAATCTTTTATACCCCTACGGATACCCATAGGAATATAAAAGATTAGAAAAAA
1442825 AGATATTAGAATTTATC-CTAATAATACCAATTTA
131 AGATATTAGAATTTATCTCTAATAATACCAATTTA
* * *
1442859 ATTTAATTTTATTTATTTTTAAAAATACCATTTTGTATCCTAATGGAAG-CCTAAAAGAATACGA
1 ATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCCCGAAAA-AATACGA
* * *
1442923 AAGGTTTTTTTTGAAAT-TTTTATACCCCTGCGTATACCCATAGAAATATAAAAGATT
65 AAGGTTTTTTTTGAAATCTTTTATACCCCTACGGATACCCATAGGAATATAAAAGATT
1442980 TAAAAATGAT
Statistics
Matches: 401, Mismatches: 41, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
162 12 0.03
163 146 0.36
164 185 0.46
165 46 0.11
166 12 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (165 bp):
ATTTAATTTTATTTATTTTTGAAAATACCATTTCGTATCCTAATGGAAGCCCGAAAAAATACGAA
AGGTTTTTTTTGAAATCTTTTATACCCCTACGGATACCCATAGGAATATAAAAGATTAGAAAAAA
AGATATTAGAATTTATCTCTAATAATACCAATTTA
Found at i:1442964 original size:328 final size:328
Alignment explanation
Indices: 1442368--1442979 Score: 1014
Period size: 328 Copynumber: 1.9 Consensus size: 328
1442358 TATTAATTCC
* *
1442368 ATTTAATTTTATTTATTTCTGAAAATACTATTTCGTATCCTAATAGAAGCCCGAAAGAGTACGAA
1 ATTTAATTTAATTTATTTCTGAAAATACTATTTCGTATCCTAATAGAAGCCCGAAAGAATACGAA
*
1442433 AGGTTTTTTTGAAATCTTTTATACCCCTATGGATGCCTATAGGAATATAAAAGATTAGAAAAAAA
66 AGGTTTTTTTGAAATCTTTTATACCCCTACGGATGCCTATAGGAATATAAAAGATTAGAAAAAAA
* * *
1442498 GATATTAGAATTTATCTTGATAATACCAATTTAATTTAATTTTATTTATTTTTGAAAATACCATT
131 GATATTAGAATTTATCCTAATAATACCAATTTAATTTAATTTTATTTATTTTTAAAAATACCATT
* *
1442563 TCGTACCCTAATGGAAGCTTGAAAAAATATGAAAGGTTTTTTTGAAATCTTTTATACCCCTACGG
196 TCGTACCCTAATGGAAGCCTGAAAAAATACGAAAGGTTTTTTTGAAATCTTTTATACCCCTACGG
*
1442628 ATACCCATAGGAA-ATAAAAGATTAGAAAAAAAAGGATATTAGAATTTATCTCTATAATTCTAAT
261 ATACCCATAGAAATATAAAAGATTAGAAAAAAAAGGATATTAGAATTTATCTCTATAATTCTAAT
1442692 TTA
326 TTA
* * *
1442695 ATTTAATTTAATTTATTTTTGAAACTACTATTTCGTATCCTAATGGAAGCCCGAAAGAATACGAA
1 ATTTAATTTAATTTATTTCTGAAAATACTATTTCGTATCCTAATAGAAGCCCGAAAGAATACGAA
* *
1442760 AGGTTTTTTTTGAAATCTTTTATACCTCTACGGATGCCTATAGGAATATAAAAGATTAGAAACAA
66 AGG-TTTTTTTGAAATCTTTTATACCCCTACGGATGCCTATAGGAATATAAAAGATTAGAAAAAA
1442825 AGATATTAGAATTTATCCTAATAATACCAATTTAATTTAATTTTATTTATTTTTAAAAATACCAT
130 AGATATTAGAATTTATCCTAATAATACCAATTTAATTTAATTTTATTTATTTTTAAAAATACCAT
* * *
1442890 TTTGTATCCTAATGGAAGCCT-AAAAGAATACGAAAGGTTTTTTTTGAAAT-TTTTATACCCCTG
195 TTCGTACCCTAATGGAAGCCTGAAAA-AATACGAAAGG-TTTTTTTGAAATCTTTTATACCCCTA
*
1442953 CGTATACCCATAGAAATATAAAAGATT
258 CGGATACCCATAGAAATATAAAAGATT
1442980 TAAAAATGAT
Statistics
Matches: 263, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
327 67 0.25
328 174 0.66
329 22 0.08
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (328 bp):
ATTTAATTTAATTTATTTCTGAAAATACTATTTCGTATCCTAATAGAAGCCCGAAAGAATACGAA
AGGTTTTTTTGAAATCTTTTATACCCCTACGGATGCCTATAGGAATATAAAAGATTAGAAAAAAA
GATATTAGAATTTATCCTAATAATACCAATTTAATTTAATTTTATTTATTTTTAAAAATACCATT
TCGTACCCTAATGGAAGCCTGAAAAAATACGAAAGGTTTTTTTGAAATCTTTTATACCCCTACGG
ATACCCATAGAAATATAAAAGATTAGAAAAAAAAGGATATTAGAATTTATCTCTATAATTCTAAT
TTA
Found at i:1445710 original size:16 final size:15
Alignment explanation
Indices: 1445683--1445712 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
1445673 ATGTTAATTT
1445683 TATATTCTATTCTAC
1 TATATTCTATTCTAC
1445698 TATATTGCTATTCTA
1 TATATT-CTATTCTA
1445713 AGTGTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (15 bp):
TATATTCTATTCTAC
Found at i:1459574 original size:27 final size:26
Alignment explanation
Indices: 1459543--1459596 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
1459533 AATTTGATTT
*
1459543 TAAATTTTAAATTA-TTTTATATTATAA
1 TAAATTAT-AATTATTTTTATATT-TAA
*
1459570 TAAATTATATTTATTTTTATATTTAA
1 TAAATTATAATTATTTTTATATTTAA
1459596 T
1 T
1459597 TAACTTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TAAATTATAATTATTTTTATATTTAA
Found at i:1459648 original size:31 final size:30
Alignment explanation
Indices: 1459613--1459713 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
1459603 ATTGCTTTTT
1459613 ATATAAATAAGAAAGTTAATTTTTATTTCTC
1 ATATAAATAAGAAA-TTAATTTTTATTTCTC
*** * * *
1459644 ATATAATATATTTAATTAACTTATTACTTTTTT
1 ATATAA-ATAAGAAATTAA-TTTTTA-TTTCTC
*
1459677 ATACAAATAAGAAAATTAATTTTTATTTCTC
1 ATATAAATAAG-AAATTAATTTTTATTTCTC
*
1459708 GTATAA
1 ATATAA
1459714 TATATTAATT
Statistics
Matches: 51, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
31 18 0.35
32 18 0.35
33 15 0.29
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.48
Consensus pattern (30 bp):
ATATAAATAAGAAATTAATTTTTATTTCTC
Found at i:1459655 original size:63 final size:64
Alignment explanation
Indices: 1459587--1459723 Score: 224
Period size: 64 Copynumber: 2.2 Consensus size: 64
1459577 TATTTATTTT
* * *
1459587 TATATTTAATTAACTTATTGC-TTTTTATATAAATAAGAAAGTTAATTTTTATTTCTCATATAA
1 TATATTTAATTAACTTATTACTTTTTTATACAAATAAGAAAATTAATTTTTATTTCTCATATAA
*
1459650 TATATTTAATTAACTTATTACTTTTTTATACAAATAAGAAAATTAATTTTTATTTCTCGTATAA
1 TATATTTAATTAACTTATTACTTTTTTATACAAATAAGAAAATTAATTTTTATTTCTCATATAA
1459714 TATA-TTAATT
1 TATATTTAATT
1459724 CATAGTTAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
63 26 0.38
64 43 0.62
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.51
Consensus pattern (64 bp):
TATATTTAATTAACTTATTACTTTTTTATACAAATAAGAAAATTAATTTTTATTTCTCATATAA
Found at i:1460758 original size:3 final size:3
Alignment explanation
Indices: 1460750--1460794 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
1460740 TGTGTGTATC
1460750 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1460795 TTAAAAACAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1466014 original size:2 final size:2
Alignment explanation
Indices: 1466007--1466043 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1465997 TAAGAAAGAA
1466007 AT 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 AT A
1466044 CATGTGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1467324 original size:17 final size:18
Alignment explanation
Indices: 1467276--1467325 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
1467266 AACATATTTA
*
1467276 ATTTATATAATTTATTTAT
1 ATTTA-ATAATTTATATAT
*
1467295 TTTTAA-AATTT-TAATAT
1 ATTTAATAATTTAT-ATAT
1467312 ATTTAATAATTTAT
1 ATTTAATAATTTAT
1467326 GCTTACATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
16 1 0.04
17 13 0.52
18 6 0.24
19 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATAATTTATATAT
Found at i:1472440 original size:23 final size:25
Alignment explanation
Indices: 1472407--1472452 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1472397 AATAAAAATT
1472407 AGCCATCAA-TTTTGACAAACAACA
1 AGCCATCAATTTTTGACAAACAACA
1472431 AGCCA-CAATTTTTGACAAACAA
1 AGCCATCAATTTTTGACAAACAA
1472453 AAAGGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.46, C:0.24, G:0.09, T:0.22
Consensus pattern (25 bp):
AGCCATCAATTTTTGACAAACAACA
Found at i:1472471 original size:27 final size:27
Alignment explanation
Indices: 1472416--1472505 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
1472406 TAGCCATCAA
* *
1472416 TTTTGACAAACAACAA-G--CCACAAT
1 TTTTGACAAACAAAAAGGAACCACCAT
1472440 TTTTGACAAACAAAAAGGAACCACCAT
1 TTTTGACAAACAAAAAGGAACCACCAT
* * *
1472467 TTTTGACAAATACAAAGTAACCACCAT
1 TTTTGACAAACAAAAAGGAACCACCAT
1472494 TTTTGACAAACA
1 TTTTGACAAACA
1472506 CAGAGGGTGG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
24 15 0.26
25 1 0.02
27 41 0.72
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (27 bp):
TTTTGACAAACAAAAAGGAACCACCAT
Found at i:1474405 original size:21 final size:22
Alignment explanation
Indices: 1474379--1474424 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
1474369 ATCTGTTTAA
* *
1474379 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGTGGAGTACT
1474400 ACTCCACCTGCTGTGGAGTACT
1 ACTCCACCTGCTGTGGAGTACT
1474422 ACT
1 ACT
1474425 TGTCTGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (22 bp):
ACTCCACCTGCTGTGGAGTACT
Found at i:1482393 original size:27 final size:29
Alignment explanation
Indices: 1482340--1482393 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
1482330 GGTTACCACT
1482340 GACTTGTGGGCTTTGAAAAGGGTGCCATC
1 GACTTGTGGGCTTTGAAAAGGGTGCCATC
1482369 GACTTGTGGGC-TT-AAAAGGGTGCCA
1 GACTTGTGGGCTTTGAAAAGGGTGCCA
1482394 CAGAGTTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 12 0.48
28 2 0.08
29 11 0.44
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (29 bp):
GACTTGTGGGCTTTGAAAAGGGTGCCATC
Found at i:1482409 original size:27 final size:27
Alignment explanation
Indices: 1482355--1482414 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
1482345 GTGGGCTTTG
* *
1482355 AAAAGGGTGCCATCGACTTGTGGGCTT
1 AAAAGGGTGCCATCGACTTATGGACTT
*
1482382 AAAAGGGTGCCA-CAGAGTTATGGACTT
1 AAAAGGGTGCCATC-GACTTATGGACTT
1482409 AAAAGG
1 AAAAGG
1482415 AAAAAGAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCATCGACTTATGGACTT
Found at i:1482420 original size:34 final size:34
Alignment explanation
Indices: 1482382--1482611 Score: 259
Period size: 34 Copynumber: 6.7 Consensus size: 34
1482372 TTGTGGGCTT
* * *
1482382 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
*
1482416 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGAA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
*
1482450 AAAAGAGTGCCACTGAGTTGTGGGCTTTAAAAAGGA
1 AAAAGAGTGCCACAGAGTTGTGGGC-TT-AAAAGGA
* *
1482486 AAAAGAGTGCCACAGACTTGTGGGCTTTAAAGAGA
1 AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAG-GA
* * * * *
1482521 AGAAAG-GTACCACGGAGTTATGGACTTAGAAGG-
1 A-AAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
*
1482554 AAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACAGAGTTGTGGGC-TTAAAAGGA
*
1482589 AAAA-AGGTGCCACGGAGTTGTGG
1 AAAAGA-GTGCCACAGAGTTGTGG
1482612 ACTTTTGAAG
Statistics
Matches: 165, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
32 4 0.02
33 16 0.10
34 66 0.40
35 46 0.28
36 33 0.20
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGA
Found at i:1482562 original size:104 final size:103
Alignment explanation
Indices: 1482382--1482616 Score: 303
Period size: 104 Copynumber: 2.3 Consensus size: 103
1482372 TTGTGGGCTT
* * * * * *
1482382 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAA
1 AAAAAGGTGCCACAGAGTTGTGGACTTTAAAGGAAAAAGAGTACCACAGAGTTATGGACTTAAAA
* *
1482447 GAAAAAAGAGTGCCACTGAGTTGTGGGCTTTAAAAAGG
66 GAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
* * *
1482485 AAAAAGAGTGCCACAGACTTGTGGGCTTTAAAGAGAAGAAAG-GTACCACGGAGTTATGGACTTA
1 AAAAAG-GTGCCACAGAGTTGTGGACTTTAAAG-GAA-AAAGAGTACCACAGAGTTATGGACTTA
* *
1482549 GAAG-GAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
63 AAAGAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
*
1482589 AAAAAGGTGCCACGGAGTTGTGGACTTT
1 AAAAAGGTGCCACAGAGTTGTGGACTTT
1482617 TGAAGGTTGC
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
103 24 0.21
104 61 0.54
105 24 0.21
106 4 0.04
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.20
Consensus pattern (103 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTTAAAGGAAAAAGAGTACCACAGAGTTATGGACTTAAAA
GAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
Found at i:1482575 original size:68 final size:68
Alignment explanation
Indices: 1482382--1482615 Score: 319
Period size: 68 Copynumber: 3.4 Consensus size: 68
1482372 TTGTGGGCTT
* *
1482382 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAAA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1482446 AGA
66 AGA
* * * *
1482449 AAAAAGAGTGCCACTGAGTTGTGGGCTTTAAAAAGGAAAAAGAGTGCCACAGACTTGTGGGCTTT
1 AAAAAG-GTGCCACGGAGTTATGGAC-TT-AAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1482514 AAAGAGA
63 AAA-AGA
* * *
1482521 AGAAAGGTACCACGGAGTTATGGACTTAGAAGG-AAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-AA
1482585 AAGA
65 AAGA
*
1482589 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGGAGTTATGGACTT
1482616 TTGAAGGTTG
Statistics
Matches: 146, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
67 5 0.03
68 70 0.48
69 10 0.07
70 33 0.23
71 20 0.14
72 8 0.05
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (68 bp):
AAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAA
AGA
Found at i:1482691 original size:30 final size:29
Alignment explanation
Indices: 1482590--1482731 Score: 141
Period size: 28 Copynumber: 4.9 Consensus size: 29
1482580 TTAAAAAGAA
* * * *
1482590 AAAAGGTGCCACGGAGTTGTGGACTTTTG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGG
1482619 --AAGGTTGCCACT-AGCTTGTGGGCTTTGG
1 AAAAGG-TGCCACTGA-CTTGTGGGCTTTGG
* * *
1482647 AAAAGATACCACTGACTTGTGGGCTTCGG
1 AAAAGGTGCCACTGACTTGTGGGCTTTGG
*
1482676 AAAATGGTGCCACTGACTTGTGGGCTTTTG
1 AAAA-GGTGCCACTGACTTGTGGGCTTTGG
1482706 --AAGGTTGCCACTGACTTGTGGGCTTT
1 AAAAGG-TGCCACTGACTTGTGGGCTTT
1482732 TGACAGGGTG
Statistics
Matches: 95, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.07
28 40 0.42
29 23 0.24
30 25 0.26
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (29 bp):
AAAAGGTGCCACTGACTTGTGGGCTTTGG
Found at i:1484196 original size:19 final size:16
Alignment explanation
Indices: 1484169--1484208 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
1484159 ATCCGGACCC
*
1484169 TTTTTGTTGTT-TTTG
1 TTTTTTTTGTTGTTTG
1484184 TTTTTTTTGGTTGTTTG
1 TTTTTTTT-GTTGTTTG
1484201 TTTTTTTT
1 TTTTTTTT
1484209 CCTTCTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 3 0.14
17 12 0.55
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (16 bp):
TTTTTTTTGTTGTTTG
Found at i:1484227 original size:23 final size:24
Alignment explanation
Indices: 1484201--1484245 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
1484191 TGGTTGTTTG
*
1484201 TTTTTTTTC-CTTCT-TTTTTTTC
1 TTTTTTCTCTCTTCTATTTTTTTC
1484223 TTTTTTCTCTCTTCTATTTTTTT
1 TTTTTTCTCTCTTCTATTTTTTT
1484246 TTACGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 5 0.25
24 7 0.35
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTTTCTCTCTTCTATTTTTTTC
Found at i:1486503 original size:21 final size:22
Alignment explanation
Indices: 1486474--1486519 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1486464 TGTTCAGAGA
** *
1486474 AGTAGTACTCCGCAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1486496 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
1486517 AGT
1 AGT
1486520 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:1488462 original size:27 final size:26
Alignment explanation
Indices: 1488402--1488492 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 26
1488392 CCACCCTCTC
*
1488402 TGTTTGTCAAAAATGGTGGTTACTTTT
1 TGTTTGTCAAAAATAGTGGTT-CTTTT
*
1488429 GTATTTGTCAAAAATAGTGGTTCCTTTT
1 -TGTTTGTCAAAAATAGTGGTT-CTTTT
* * *
1488457 TGTTTGTCGAAAATTGTGG--CTTGT
1 TGTTTGTCAAAAATAGTGGTTCTTTT
1488481 TGTTTGTCAAAA
1 TGTTTGTCAAAA
1488493 TTGATGGCTA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 15 0.27
27 16 0.29
28 24 0.44
ACGTcount: A:0.23, C:0.09, G:0.22, T:0.46
Consensus pattern (26 bp):
TGTTTGTCAAAAATAGTGGTTCTTTT
Found at i:1488488 original size:24 final size:24
Alignment explanation
Indices: 1488456--1488501 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
1488446 TGGTTCCTTT
1488456 TTGTTTGTCGAAAATTG-TGGCTTG
1 TTGTTTGTC-AAAATTGATGGCTTG
1488480 TTGTTTGTCAAAATTGATGGCT
1 TTGTTTGTCAAAATTGATGGCT
1488502 AATTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.46
Consensus pattern (24 bp):
TTGTTTGTCAAAATTGATGGCTTG
Found at i:1493976 original size:27 final size:27
Alignment explanation
Indices: 1493946--1494018 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
1493936 AAAAGCCACC
* *
1493946 CTTTGTGTTTGTCGAAAATGGTGGTTA
1 CTTTGTGTTTGTCAAAAATGGTAGTTA
* * *
1493973 CTTTGTATTTTTCAAAAATGGTAGTTC
1 CTTTGTGTTTGTCAAAAATGGTAGTTA
*
1494000 CTTTTTGTTTGTCAAAAAT
1 CTTTGTGTTTGTCAAAAAT
1494019 TATGAAAAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATGGTAGTTA
Found at i:1495218 original size:21 final size:21
Alignment explanation
Indices: 1495180--1495221 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1495170 CAGACAAGTA
* * *
1495180 ATACTCCACAGCAGGTGGAGT
1 ATACTCCAAAACAAGTGGAGT
1495201 ATACTCCAAAACAAGTGGAGT
1 ATACTCCAAAACAAGTGGAGT
1495222 TTCTATAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (21 bp):
ATACTCCAAAACAAGTGGAGT
Found at i:1500203 original size:50 final size:50
Alignment explanation
Indices: 1500130--1500351 Score: 311
Period size: 50 Copynumber: 4.5 Consensus size: 50
1500120 AGTTGCTTAG
** *
1500130 AGTCAACAATTATAGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * *
1500180 AGTTAACAGTTACGGTCACCTCTCTCGATTGTTAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * * *
1500230 AGTCAATAATTACAGCCACCTTTCTCGATTGTC-AAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* **
1500279 AGTCAACAATTATGACCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
*
1500329 AGTCAACAATTACGATCACCTCT
1 AGTCAACAATTACGGTCACCTCT
1500352 TTTGCACTCA
Statistics
Matches: 151, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
49 44 0.29
50 107 0.71
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
Found at i:1500349 original size:99 final size:100
Alignment explanation
Indices: 1500130--1500351 Score: 322
Period size: 99 Copynumber: 2.2 Consensus size: 100
1500120 AGTTGCTTAG
* * * * *
1500130 AGTCAACAATTATAGTCACCTCTCTCTATTGTCAAAGGTTGGTGAAGAATAGTTAACAGTTACGG
1 AGTCAACAATTACAGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGA
* *
1500195 TCACCTCTCTCGATTGTTAAAGGTTGGTGAAGAAT
66 CCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * * *
1500230 AGTCAATAATTACAGCCACCTTTCTCGATTGTC-AAGGTTGGTGAAGAATAGTCAACAATTATGA
1 AGTCAACAATTACAGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGA
1500294 CCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
66 CCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1500329 AGTCAACAATTAC-GATCACCTCT
1 AGTCAACAATTACAG-TCACCTCT
1500352 TTTGCACTCA
Statistics
Matches: 107, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
98 1 0.01
99 78 0.73
100 28 0.26
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (100 bp):
AGTCAACAATTACAGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGA
CCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
Found at i:1504774 original size:49 final size:50
Alignment explanation
Indices: 1504669--1504790 Score: 174
Period size: 49 Copynumber: 2.5 Consensus size: 50
1504659 AGTTGCTTAG
* * * *
1504669 AGTCAACAATTATGGCCACTTTTCTCTATTGTCAAAAGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
* *
1504719 AGTCAACAATTACGACCACCTCTCTCGATTGTC-AAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
*
1504768 AGTCAACAATTACGGTCACCTCT
1 AGTCAACAATTACGGCCACCTCT
1504791 TTTGCACCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 36 0.56
50 28 0.44
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
Found at i:1506249 original size:97 final size:94
Alignment explanation
Indices: 1506078--1506258 Score: 238
Period size: 97 Copynumber: 1.9 Consensus size: 94
1506068 AGATGACTAA
* * * * *
1506078 TAAATAAAAAACATATAAGAGAGATGTATGACTCTTAATTACTTAAGCATGATGAAATTTTCTCA
1 TAAAAAAAAAACATAAAAGAGAAATGTATGACCCTTAATTACTTAACCATGATGAAATTTTCTCA
*
1506143 CTAATGAAATTATGGGATGATTAACAAAT
66 CTAAAGAAATTATGGGATGATTAACAAAT
* *
1506172 TAAAAAAAAAACATAAAATAGAGAAAGTGTATGACCCTTAATTACTTAACCAT-ATGGAATTTTT
1 TAAAAAAAAAACAT-AAA-AGAGAAA-TGTATGACCCTTAATTACTTAACCATGATGAAATTTTC
*
1506236 TCCATTAAAGAAATTATGGGATG
63 T-CACTAAAGAAATTATGGGATG
1506259 TAAAGACTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
94 13 0.18
95 2 0.03
96 16 0.22
97 43 0.58
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (94 bp):
TAAAAAAAAAACATAAAAGAGAAATGTATGACCCTTAATTACTTAACCATGATGAAATTTTCTCA
CTAAAGAAATTATGGGATGATTAACAAAT
Found at i:1510676 original size:16 final size:16
Alignment explanation
Indices: 1510657--1510714 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 16
1510647 ATTGTTAGTT
1510657 TTTATTTATATATTTA
1 TTTATTTATATATTTA
*
1510673 TTTATTTATA-ATATA
1 TTTATTTATATATTTA
* *
1510688 ATTA-ATA-ATATTTA
1 TTTATTTATATATTTA
1510702 TTT-TTTAT-TATTT
1 TTTATTTATATATTT
1510715 TATATTTAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
13 1 0.03
14 15 0.45
15 7 0.21
16 10 0.30
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTTATATATTTA
Found at i:1510697 original size:53 final size:50
Alignment explanation
Indices: 1510625--1510722 Score: 144
Period size: 53 Copynumber: 1.9 Consensus size: 50
1510615 TATTGTTTGA
*
1510625 TTATAATATAATTAATAATA-TTATTGTTAGTTTTTATTTATATATTTATTTAT
1 TTATAATATAATTAATAATATTTATT-TT--TTATTATTT-TATATTTATTTAT
1510678 TTATAATATAATTAATAATATTTATTTTTTATTATTTTATATTTA
1 TTATAATATAATTAATAATATTTATTTTTTATTATTTTATATTTA
1510723 AAACTAATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
50 8 0.19
51 8 0.19
53 22 0.51
54 5 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (50 bp):
TTATAATATAATTAATAATATTTATTTTTTATTATTTTATATTTATTTAT
Found at i:1511615 original size:15 final size:15
Alignment explanation
Indices: 1511591--1511622 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1511581 TGAATAGTTA
1511591 TAACAAATATAAAAT
1 TAACAAATATAAAAT
*
1511606 TAACATATATAAAAT
1 TAACAAATATAAAAT
1511621 TA
1 TA
1511623 TTCAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TAACAAATATAAAAT
Found at i:1517836 original size:79 final size:78
Alignment explanation
Indices: 1517700--1518252 Score: 671
Period size: 79 Copynumber: 7.0 Consensus size: 78
1517690 ATATGTCCCA
* * * * * * *
1517700 ATGAGAAATTTAATATTTTGGAGATAATAAT-GGGGTGGGAGTATCCCCTTGAAAATAATGGGGT
1 ATGA-AAAATTAATA-TTTAGAAATAA-AATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGT
* *
1517764 TGGAGTATCCCTGGTT
63 TGGAGTATCCCCGATT
* ** * *
1517780 TTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTGAAGTATCCCCTCGGAAATAACGGGGTT
1 ATGAAAAATTAAT-ATTTA-GAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
1517844 GGAGTATCCCCGATT
64 GGAGTATCCCCGATT
* *
1517859 ATGAGAATTTAATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
1 ATGAAAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
*
1517924 GAGTATCCCTGATT
65 GAGTATCCCCGATT
* *
1517938 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
1 ATGAAAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
1518003 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* ** * * * *
1518017 GTGAAAAATCGATGATTTAGAAATAAAATCGGGATTGGTGTATCCACTCGGAAATAACGTGGTTG
1 ATGAAAAATTAAT-ATTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
1518082 GAGTATCCCCGATT
65 GAGTATCCCCGATT
* * * * *
1518096 ATGAGAAATTAATATTTTAGAAATAAGATCGGGGTTAGAGTATTCCCTCGAAAATAACGGGGTTG
1 ATGAAAAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
*
1518161 GAGTATCCTCGATT
65 GAGTATCCCCGATT
* * *
1518175 AT-AAGAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAGAAATAACGAGGTT
1 ATGAA-AAATTAATA-TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
1518239 GGAGTATCCCCGAT
64 GGAGTATCCCCGAT
1518253 GATTAACGAG
Statistics
Matches: 409, Mismatches: 56, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
78 8 0.02
79 393 0.96
80 8 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (78 bp):
ATGAAAAATTAATATTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGG
AGTATCCCCGATT
Found at i:1518129 original size:237 final size:236
Alignment explanation
Indices: 1517700--1518252 Score: 831
Period size: 237 Copynumber: 2.3 Consensus size: 236
1517690 ATATGTCCCA
* * * * * * *
1517700 ATGAGAAATTTAATATTTTGGAGATAATAATGGGGTGGGAGTATCCCCTTGAAAATAATGGGGTT
1 ATGAGAAA-TTAATATTTTAGAAATAA-AACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
* * * *
1517765 GGAGTATCCCTGGTTTTGAAAAATCGATGATTAGGAAATAAAATCGGGATTGAAGTATCCCCTCG
64 GGAGTATCCCCGATTGTGAAAAATCGATGATTAGGAAATAAAATCGGGATTGAAGTATCCACTCG
*
1517830 GAAATAACGGGGTTGGAGTATCCCCGATTATGAGAATTTAATATTTTAGAAATAAAATCGGGGTT
129 GAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGGGGTT
* *
1517895 GGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCC-CTGATT
194 AGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTC-GATT
1517938 ATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAA-CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
**
1518003 GAGTATCCCCGATTGTGAAAAATCGATGATTTA-GAAATAAAATCGGGATTGGTGTATCCACTCG
65 GAGTATCCCCGATTGTGAAAAATCGATGA-TTAGGAAATAAAATCGGGATTGAAGTATCCACTCG
* *
1518067 GAAATAACGTGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAGATCGGGGTT
129 GAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGGGGTT
*
1518132 AGAGTATTCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATT
194 AGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATT
* * * *
1518175 ATAAGAAATTAATATTTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCAGAAATAACGAGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAA-CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTG
1518240 GAGTATCCCCGAT
65 GAGTATCCCCGAT
1518253 GATTAACGAG
Statistics
Matches: 288, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
236 2 0.01
237 274 0.95
238 12 0.04
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (236 bp):
ATGAGAAATTAATATTTTAGAAATAAAACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGG
AGTATCCCCGATTGTGAAAAATCGATGATTAGGAAATAAAATCGGGATTGAAGTATCCACTCGGA
AATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTAG
AGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATT
Found at i:1518375 original size:51 final size:51
Alignment explanation
Indices: 1518264--1518548 Score: 320
Period size: 51 Copynumber: 5.5 Consensus size: 51
1518254 ATTAACGAGA
* * **
1518264 TTGGTGTATCCCCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAATCGGAG
1 TTGGAGTATCCCCGATTGTG-GAAAATTGGTG-TTTTAAAAATAAAATCGGAG
* * * * *
1518317 TTGGAGTATCCCTGATTATAGAAAATTGGTGTTTTGAAAATAAAA-CTGGGG
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAAAAATAAAATC-GGAG
* * * * *
1518368 TTAGAGTATACCCAATTGTGGAAAATTGGTGTTTCAAAAATAAAATCAGAG
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAAAAATAAAATCGGAG
* *
1518419 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAATCAGAG
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAAAAATAAAATCGGAG
* * * * *
1518470 TTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGG
1 TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAAAAATAAAATCGGAG
* * *
1518521 TTGGAGTACCCCCGATTATGAAAAATTG
1 TTGGAGTATCCCCGATTGTGGAAAATTG
1518549 AGAAACTTAA
Statistics
Matches: 198, Mismatches: 32, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
50 1 0.01
51 170 0.86
52 11 0.06
53 16 0.08
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTAAAAATAAAATCGGAG
Found at i:1518911 original size:15 final size:15
Alignment explanation
Indices: 1518893--1518922 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1518883 ATATCAAATT
1518893 TTGAAAAATCACCCC
1 TTGAAAAATCACCCC
1518908 TTGAAAAATCACCCC
1 TTGAAAAATCACCCC
1518923 GGACTCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
TTGAAAAATCACCCC
Found at i:1520936 original size:13 final size:13
Alignment explanation
Indices: 1520918--1520943 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1520908 ACAAATATCC
1520918 ATGTATCGATACA
1 ATGTATCGATACA
1520931 ATGTATCGATACA
1 ATGTATCGATACA
1520944 TGGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1523913 original size:21 final size:21
Alignment explanation
Indices: 1523868--1523914 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1523858 TCAATTTCAA
* *
1523868 CAGGAAACAAGAGCCAACATT
1 CAGGAAACAAGAGACAACATC
1523889 CAGGAAACAAG-GACAAGCATC
1 CAGGAAACAAGAGACAA-CATC
1523910 CAGGA
1 CAGGA
1523915 TTTAGGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.47, C:0.23, G:0.23, T:0.06
Consensus pattern (21 bp):
CAGGAAACAAGAGACAACATC
Found at i:1529569 original size:25 final size:24
Alignment explanation
Indices: 1529519--1529579 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
1529509 ACAAGCGATT
*
1529519 AATAAAAA-CAAAATTATTAATATAA
1 AATAAAAATC-AAATTATCAATAT-A
1529544 AATAAAAATCAAATTATCAAGT-TA
1 AATAAAAATCAAATTATCAA-TATA
*
1529568 AATGAAAATCAA
1 AATAAAAATCAA
1529580 TCTTACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 12 0.38
25 18 0.56
26 2 0.06
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.26
Consensus pattern (24 bp):
AATAAAAATCAAATTATCAATATA
Found at i:1538285 original size:21 final size:21
Alignment explanation
Indices: 1538259--1538332 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
1538249 CTTTATACCT
*
1538259 AAAAAAAATTAAAAACACAAA
1 AAAAAAAATTAAAAAAACAAA
*
1538280 AAAAAACATTAAAAAAACAAA
1 AAAAAAAATTAAAAAAACAAA
*
1538301 AAAAACTAA-TAAACAAATAGCAAA
1 AAAAA-AAATTAAA-AAA-A-CAAA
1538325 AAAAAAAA
1 AAAAAAAA
1538333 CAGAAAAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 28 0.64
22 4 0.09
23 3 0.07
24 9 0.20
ACGTcount: A:0.80, C:0.09, G:0.01, T:0.09
Consensus pattern (21 bp):
AAAAAAAATTAAAAAAACAAA
Found at i:1538324 original size:24 final size:20
Alignment explanation
Indices: 1538259--1538329 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
1538249 CTTTATACCT
* *
1538259 AAAAAAA-ATTAAAAACACAA
1 AAAAAAACAATAAAAAAAC-A
*
1538279 AAAAAAACATTAAAAAAACA
1 AAAAAAACAATAAAAAAACA
1538299 AAAAAAACTAATAAACAAATAGCA
1 AAAAAAAC-AATAAA-AAA-A-CA
1538323 AAAAAAA
1 AAAAAAA
1538330 AAACAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
20 16 0.36
21 15 0.34
22 3 0.07
23 1 0.02
24 9 0.20
ACGTcount: A:0.79, C:0.10, G:0.01, T:0.10
Consensus pattern (20 bp):
AAAAAAACAATAAAAAAACA
Found at i:1540405 original size:20 final size:21
Alignment explanation
Indices: 1540365--1540408 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
1540355 TTAAGTATAG
1540365 ATGTTTTTCAAGCAAAAAAATA
1 ATGTTTTTCAAG-AAAAAAATA
*
1540387 ATGTTTTTCAAG-TAAAAATA
1 ATGTTTTTCAAGAAAAAAATA
1540407 AT
1 AT
1540409 TCAAAGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (21 bp):
ATGTTTTTCAAGAAAAAAATA
Found at i:1540522 original size:13 final size:13
Alignment explanation
Indices: 1540504--1540561 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1540494 CACACCTAGA
1540504 TGTATCGATACAT
1 TGTATCGATACAT
1540517 TGTATCGATACATGTTCT
1 TGTATCGATACA-----T
*
1540535 TGGTATTGATACAT
1 T-GTATCGATACAT
1540549 TGTATCGATACAT
1 TGTATCGATACAT
1540562 GTTTTTGGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 23 0.62
14 2 0.05
18 2 0.05
19 10 0.27
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1540551 original size:32 final size:32
Alignment explanation
Indices: 1540505--1540580 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
1540495 ACACCTAGAT
1540505 GTATCGATACATTGTATCGATACATGTTCTTG
1 GTATCGATACATTGTATCGATACATGTTCTTG
* *
1540537 GTATTGATACATTGTATCGATACATGTTTTTG
1 GTATCGATACATTGTATCGATACATGTTCTTG
1540569 GTATCGATACAT
1 GTATCGATACAT
1540581 ATTGAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.42
Consensus pattern (32 bp):
GTATCGATACATTGTATCGATACATGTTCTTG
Found at i:1540574 original size:19 final size:18
Alignment explanation
Indices: 1540518--1540580 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1540508 TCGATACATT
1540518 GTATCGATACATGTTCTTG
1 GTATCGATACATGTT-TTG
*
1540537 GTATTGATACA----TT-
1 GTATCGATACATGTTTTG
1540550 GTATCGATACATGTTTTTG
1 GTATCGATACATG-TTTTG
1540569 GTATCGATACAT
1 GTATCGATACAT
1540581 ATTGAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
14 2 0.06
18 2 0.06
19 22 0.61
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (18 bp):
GTATCGATACATGTTTTG
Found at i:1540666 original size:20 final size:20
Alignment explanation
Indices: 1540643--1540693 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1540633 CGATGCATTG
1540643 TATCGACACATGATGAATTA
1 TATCGACACATGATGAATTA
* *
1540663 TATCGACACATGGTGAATTG
1 TATCGACACATGATGAATTA
*
1540683 TATCGATACAT
1 TATCGACACAT
1540694 TGAACCCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGACACATGATGAATTA
Found at i:1541192 original size:35 final size:36
Alignment explanation
Indices: 1541122--1541193 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
1541112 CTAAGTAATT
**
1541122 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
1541158 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
1541193 G
1 G
1541194 GTTTCTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGGGA
Found at i:1541205 original size:32 final size:34
Alignment explanation
Indices: 1541122--1541207 Score: 113
Period size: 36 Copynumber: 2.5 Consensus size: 34
1541112 CTAAGTAATT
**
1541122 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGG
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATA-GG
1541157 AGAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGG
1 -GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGG
*
1541191 GAG-GTTTCTATCTTAGC
1 GAGAGGTTCTATCTTAGC
1541208 TTTAAAAGAC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
32 13 0.28
33 3 0.06
34 2 0.04
35 8 0.17
36 21 0.45
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (34 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAGG
Found at i:1541681 original size:85 final size:84
Alignment explanation
Indices: 1541482--1541697 Score: 222
Period size: 84 Copynumber: 2.6 Consensus size: 84
1541472 AAGCTGATAA
* * * * * *
1541482 GTAAATAAAGGATGAAAGAGTTGACTGGGATTGAACTGATAAGTCAACAAAGGGTAAAGGATTTA
1 GTAAACAAAAGATGAAAGAGTTAACTGAGATTAAACTGATAAGTCAACAAAGGGTAAAAGATTTA
*
1541547 CCCGAGACTAAGCCACCAG
66 CCCAAGACTAAGCCACCAG
** * *
1541566 GTAAACAAGGGATGAAAGAGTTGACTGAGATTAAACTGATAAATCAACAAAGGGTAAAAAGATTT
1 GTAAACAAAAGATGAAAGAGTTAACTGAGATTAAACTGATAAGTCAACAAAGGGT-AAAAGATTT
* *** *
1541631 ACCCAAGATTGAATTGA-TAG
65 ACCCAAGACT-AAGCCACCAG
*
1541651 GTAAACAAAAGAT-AAAGTAGTTAA-TCGAGATTAAACCGATAAGTCAA
1 GTAAACAAAAGATGAAAG-AGTTAACT-GAGATTAAACTGATAAGTCAA
1541698 TGAGAGATGA
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
84 55 0.50
85 53 0.48
86 3 0.03
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.21
Consensus pattern (84 bp):
GTAAACAAAAGATGAAAGAGTTAACTGAGATTAAACTGATAAGTCAACAAAGGGTAAAAGATTTA
CCCAAGACTAAGCCACCAG
Found at i:1542097 original size:87 final size:83
Alignment explanation
Indices: 1541848--1542100 Score: 253
Period size: 85 Copynumber: 3.0 Consensus size: 83
1541838 GTTTACTGAG
* * * * *
1541848 GACTGAGCCGATAGGTCACC-GAGGAGATAAGAGGTTTACCGAGGACT-CAACTGACAGGTAAAT
1 GACTGAGCAGATAGGTCACCATAGG-GATAAGAGGTTTACCAAGGACTAC-GCTGACAGGTAAAC
*
1541911 ACAGAGATAAAGGTTGAACGTA
64 A-AGAGATAAAGGTTG-ACGGA
* * * * *
1541933 GACTGATCTA-ACAGGTCACCATAGGGAAAAGGGGTTTACCAAGGACTGA-GCTGACGGGTAAAC
1 GACTGAGC-AGATAGGTCACCATAGGGATAAGAGGTTTACCAAGGACT-ACGCTGACAGGTAAAC
*
1541996 AATAAGATAAAGGTTGACGGGA
64 AA-GAGATAAAGGTTGAC-GGA
*
1542018 GACTGAGCAGATAGGTCACCATAGGTGATAAGAAGGTTTACCAAGGACTACGCCGACAGGTAAAC
1 GACTGAGCAGATAGGTCACCATAGG-GATAAG-AGGTTTACCAAGGACTACGCTGACAGGTAAAC
*
1542083 AAGGAGATGAAGGTTGAC
64 AA-GAGATAAAGGTTGAC
1542101 CAGAGATTGA
Statistics
Matches: 137, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
84 4 0.03
85 82 0.60
86 9 0.07
87 42 0.31
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.17
Consensus pattern (83 bp):
GACTGAGCAGATAGGTCACCATAGGGATAAGAGGTTTACCAAGGACTACGCTGACAGGTAAACAA
GAGATAAAGGTTGACGGA
Found at i:1542118 original size:42 final size:43
Alignment explanation
Indices: 1541869--1542343 Score: 209
Period size: 42 Copynumber: 11.1 Consensus size: 43
1541859 TAGGTCACCG
* * * * *
1541869 AGGAGATAAGAGGTTTACC-GAGGACTCAACTGACAGGTAAATAC
1 AGGAGATAA-AGGTTGACCAGA-GACTGAGCTGACAGGTAAACAT
* * * * *
1541913 A-GAGATAAAGGTTGAAC-GTAGACTGATCTAACAGGTCACCAT
1 AGGAGATAAAGGTTGACCAG-AGACTGAGCTGACAGGTAAACAT
* *
1541955 AGG-GA-AAAGGGGTTTACCA-AGGACTGAGCTGACGGGTAAACAAT
1 AGGAGATAAA--GGTTGACCAGA-GACTGAGCTGACAGGTAAAC-AT
** * * * *
1541999 A--AGATAAAGGTTGACGGGAGACTGAGCAGATAGGTCACCAT
1 AGGAGATAAAGGTTGACCAGAGACTGAGCTGACAGGTAAACAT
* * *
1542040 AGGTGATAAGAAGGTTTACCA-AGGACT-ACGCCGACAGGTAAACA-
1 AGGAGAT-A-AAGGTTGACCAGA-GACTGA-GCTGACAGGTAAACAT
* * * *
1542084 AGGAGATGAAGGTTGACCAGAGATTGAGCTGACAGGTAAATAC
1 AGGAGATAAAGGTTGACCAGAGACTGAGCTGACAGGTAAACAT
* * * * * *
1542127 A-GAGATGAAGGTTGAAC-GTAGACTGATCTAACAGGTCACCAT
1 AGGAGATAAAGGTTGACCAG-AGACTGAGCTGACAGGTAAACAT
* *
1542169 AGG-GA-AAAGGGGTTTACCA-AGGACTGAGCTGACGGGTAAACAAT
1 AGGAGATAAA--GGTTGACCAGA-GACTGAGCTGACAGGTAAAC-AT
** * * * *
1542213 A--AGATAAAGGTTGACGGGAGACTGAGCAGATAGGTCACCAT
1 AGGAGATAAAGGTTGACCAGAGACTGAGCTGACAGGTAAACAT
* * *
1542254 AGGTGATAAAAAGGTTTACCA-AGGACT-ACGCCGACAGGTAAACA-
1 AGGAGAT--AAAGGTTGACCAGA-GACTGA-GCTGACAGGTAAACAT
* * * *
1542298 AGGAGATGAAGGTTGACCAGAGATTGAGCTGACAGGTCACCAT
1 AGGAGATAAAGGTTGACCAGAGACTGAGCTGACAGGTAAACAT
1542341 AGG
1 AGG
1542344 TGTAAAAGGG
Statistics
Matches: 316, Mismatches: 77, Indels: 77
0.67 0.16 0.16
Matches are distributed among these distances:
41 12 0.04
42 155 0.49
43 72 0.23
44 30 0.09
45 47 0.15
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.18
Consensus pattern (43 bp):
AGGAGATAAAGGTTGACCAGAGACTGAGCTGACAGGTAAACAT
Found at i:1542122 original size:129 final size:127
Alignment explanation
Indices: 1541979--1542227 Score: 290
Period size: 129 Copynumber: 1.9 Consensus size: 127
1541969 TACCAAGGAC
* *
1541979 TGAGCTGACGGGTAAACA-ATAAGATAAAGGTTG-ACGGGAGACTGAGC-AGATAGGTCACCATA
1 TGAGCTGACAGGTAAACACA-AAGATAAAGGTTGAAC-GGAGACTGAGCTA-ACAGGTCACCATA
* * *
1542041 GGTGATAAGAAGGTTTACCAAGGACT-ACGCCGACAGGTAAACAAGGAGATGAAGGTTGACCAGA
63 GG-GAAAAG-AGGTTTACCAAGGACTGA-GCCGACAGGTAAACAAGAAGATAAAGGTTGACCAGA
1542105 GAT
125 GAT
* * * * *
1542108 TGAGCTGACAGGTAAATACAGAGATGAAGGTTGAACGTAGACTGATCTAACAGGTCACCATAGGG
1 TGAGCTGACAGGTAAACACAAAGATAAAGGTTGAACGGAGACTGAGCTAACAGGTCACCATAGGG
* * * *
1542173 AAAAGGGGTTTACCAAGGACTGAGCTGACGGGTAAACAATAAGATAAAGGTTGAC
66 AAAAGAGGTTTACCAAGGACTGAGCCGACAGGTAAACAAGAAGATAAAGGTTGAC
1542228 GGGAGACTGA
Statistics
Matches: 102, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
127 42 0.41
128 6 0.06
129 50 0.49
130 4 0.04
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.18
Consensus pattern (127 bp):
TGAGCTGACAGGTAAACACAAAGATAAAGGTTGAACGGAGACTGAGCTAACAGGTCACCATAGGG
AAAAGAGGTTTACCAAGGACTGAGCCGACAGGTAAACAAGAAGATAAAGGTTGACCAGAGAT
Found at i:1542270 original size:214 final size:214
Alignment explanation
Indices: 1541898--1542334 Score: 856
Period size: 214 Copynumber: 2.0 Consensus size: 214
1541888 GAGGACTCAA
1541898 CTGACAGGTAAATACAGAGATAAAGGTTGAACGTAGACTGATCTAACAGGTCACCATAGGGAAAA
1 CTGACAGGTAAATACAGAGATAAAGGTTGAACGTAGACTGATCTAACAGGTCACCATAGGGAAAA
1541963 GGGGTTTACCAAGGACTGAGCTGACGGGTAAACAATAAGATAAAGGTTGACGGGAGACTGAGCAG
66 GGGGTTTACCAAGGACTGAGCTGACGGGTAAACAATAAGATAAAGGTTGACGGGAGACTGAGCAG
*
1542028 ATAGGTCACCATAGGTGATAAGAAGGTTTACCAAGGACTACGCCGACAGGTAAACAAGGAGATGA
131 ATAGGTCACCATAGGTGATAAAAAGGTTTACCAAGGACTACGCCGACAGGTAAACAAGGAGATGA
1542093 AGGTTGACCAGAGATTGAG
196 AGGTTGACCAGAGATTGAG
*
1542112 CTGACAGGTAAATACAGAGATGAAGGTTGAACGTAGACTGATCTAACAGGTCACCATAGGGAAAA
1 CTGACAGGTAAATACAGAGATAAAGGTTGAACGTAGACTGATCTAACAGGTCACCATAGGGAAAA
1542177 GGGGTTTACCAAGGACTGAGCTGACGGGTAAACAATAAGATAAAGGTTGACGGGAGACTGAGCAG
66 GGGGTTTACCAAGGACTGAGCTGACGGGTAAACAATAAGATAAAGGTTGACGGGAGACTGAGCAG
1542242 ATAGGTCACCATAGGTGATAAAAAGGTTTACCAAGGACTACGCCGACAGGTAAACAAGGAGATGA
131 ATAGGTCACCATAGGTGATAAAAAGGTTTACCAAGGACTACGCCGACAGGTAAACAAGGAGATGA
1542307 AGGTTGACCAGAGATTGAG
196 AGGTTGACCAGAGATTGAG
1542326 CTGACAGGT
1 CTGACAGGT
1542335 CACCATAGGT
Statistics
Matches: 221, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
214 221 1.00
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.18
Consensus pattern (214 bp):
CTGACAGGTAAATACAGAGATAAAGGTTGAACGTAGACTGATCTAACAGGTCACCATAGGGAAAA
GGGGTTTACCAAGGACTGAGCTGACGGGTAAACAATAAGATAAAGGTTGACGGGAGACTGAGCAG
ATAGGTCACCATAGGTGATAAAAAGGTTTACCAAGGACTACGCCGACAGGTAAACAAGGAGATGA
AGGTTGACCAGAGATTGAG
Found at i:1542310 original size:87 final size:84
Alignment explanation
Indices: 1542114--1542367 Score: 264
Period size: 87 Copynumber: 3.0 Consensus size: 84
1542104 AGATTGAGCT
* * *
1542114 GACAGGTAAATACAGAGATGAAGGTTGAACGTAGACTGATCTA-ACAGGTCACCATAGG-GA-AA
1 GACAGGTAAACA-AGAGATGAAGGTTG-ACGGAGACTGAGC-AGACAGGTCACCATAGGTGATAA
* *
1542176 AGGGGTTTACCAAGGACTGAGCT
63 AAGGGTTTACCAAGGACT-AGCC
* * * *
1542199 GACGGGTAAACAATAAGATAAAGGTTGACGGGAGACTGAGCAGATAGGTCACCATAGGTGATAAA
1 GACAGGTAAACAA-GAGATGAAGGTTGAC-GGAGACTGAGCAGACAGGTCACCATAGGTGATAAA
*
1542264 AAGGTTTACCAAGGACTACGCC
64 AGGGTTTACCAAGGACTA-GCC
* * *
1542286 GACAGGTAAACAAGGAGATGAAGGTTGACCAGAGATTGAGCTGACAGGTCACCATAGGTG-TAAA
1 GACAGGTAAACAA-GAGATGAAGGTTGA-CGGAGACTGAGCAGACAGGTCACCATAGGTGATAAA
* *
1542350 AGGGTTTACTAGGGACTA
64 AGGGTTTACCAAGGACTA
1542368 ACTTGATAGG
Statistics
Matches: 141, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
84 4 0.03
85 44 0.31
86 22 0.16
87 70 0.50
88 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.19
Consensus pattern (84 bp):
GACAGGTAAACAAGAGATGAAGGTTGACGGAGACTGAGCAGACAGGTCACCATAGGTGATAAAAG
GGTTTACCAAGGACTAGCC
Found at i:1542661 original size:85 final size:85
Alignment explanation
Indices: 1542448--1542662 Score: 243
Period size: 85 Copynumber: 2.5 Consensus size: 85
1542438 ACAGGTAAAT
* * * *
1542448 AAAGAAATAAAGGTTGATTGGAGACTGAACTGACAAGTCACCATAAGAGTAAGGGGTTTACTAAG
1 AAAGAGATAAAGGTTGATCGGAGACTGAGCTGACAGGTCACCATAAGAGTAAGGGGTTTACTAAG
** *
1542513 GACTTAGCTGATAGGAAAAT
66 GACAGAGCTGATAGGAAAAC
* * * * * *
1542533 AAAGAGATAAAGGTTTACCGAAGACTAAGCTAACAGGTTACCATAAG-GATAAGGGGTTTACTAA
1 AAAGAGATAAAGGTTGATCGGAGACTGAGCTGACAGGTCACCATAAGAG-TAAGGGGTTTACTAA
* *
1542597 GGACAGAGCTGATGGGTAAAC
65 GGACAGAGCTGATAGGAAAAC
* * * *
1542618 AATGAGATGAAGGTTGATCGGAGACTGAGTTGATAGGTCACCATA
1 AAAGAGATAAAGGTTGATCGGAGACTGAGCTGACAGGTCACCATA
1542663 GGTGATAAAA
Statistics
Matches: 104, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
84 1 0.01
85 103 0.99
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (85 bp):
AAAGAGATAAAGGTTGATCGGAGACTGAGCTGACAGGTCACCATAAGAGTAAGGGGTTTACTAAG
GACAGAGCTGATAGGAAAAC
Found at i:1542939 original size:172 final size:170
Alignment explanation
Indices: 1542709--1543405 Score: 611
Period size: 172 Copynumber: 4.1 Consensus size: 170
1542699 GTAAACGATA
* * ** *
1542709 AGATAAAGGTTGACCGAAGATTGAGTTGACAAA-TCACCATAAATGTAAAAACATTTACTAAGGA
1 AGATAAAGGTTGACCAAAGATTGAGTTGA-AAAGTCACCATAAGTGTAAAAGGATTTACTAGGGA
* *
1542773 CTAAGCCAACAGGTAAACAAGGGATGAAAGGTTGACCGAGGACTAAGCCAATAGGTCACTGAGGG
65 CTAAGCCAACAGGTAAACAAGGGATG-AAGGTTGACCAAGGACTAAGCCGATAGGTCACTGAGGG
* *
1542838 GATAAAGGGGTTTACAGGGGACTAAGTTAATAGGTAAACCAA-G
129 GATAAAGGGGTTTACA-GGGACTAAGCTAACAGGTAAA-CAAGG
* * * *
1542881 AGATGAAGGTTGACCAGAA-ATTGAGCTGAAAAGTCACCATAGGTGTAAAAGGATTTACTGGGGA
1 AGATAAAGGTTGACCA-AAGATTGAGTTGAAAAGTCACCATAAGTGTAAAAGGATTTACTAGGGA
** * * * * * * *
1542945 CTAAGCTGATAGATAAACAAAGGAT-ATAGGGTTAATCAAAGACTAAGCCGATAGGTCACTAAGG
65 CTAAGCCAACAGGTAAACAAGGGATGA-A-GGTTGACCAAGGACTAAGCCGATAGGTCACTGAGG
* * ** *
1543009 GGATAAAAGGTTTTATTGGGGACTAAGCCAACAGGTAAACAAGG
128 GGATAAAGGGGTTTA-CAGGGACTAAGCTAACAGGTAAACAAGG
* * * * * * * *
1543053 AGATAAAGGTTGACCAAAGACTAAGTTGACAGGTCGCCATAGGTGTAAAGGGTTTTAC-AGGGGA
1 AGATAAAGGTTGACCAAAGATTGAGTTGAAAAGTCACCATAAGTGTAAAAGGATTTACTA-GGGA
* * * * * * * * *
1543117 TTGAGCCGATAGGTAAACAAGGAGATGAAGGTTGACC-CGAGACTAGGCTGACAAGTCACCAT-A
65 CTAAGCCAACAGGTAAACAAGG-GATGAAGGTTGACCAAG-GACTAAGCCGATAGGTCA-C-TGA
* * ** *
1543180 GGTG-TAAAGTGAATTACTAGGGACTGAGCTAACAGGTAAACAAGG
126 GGGGATAAAGGGGTTTAC-AGGGACTAAGCTAACAGGTAAACAAGG
* * * * * *
1543225 AGATAAAGGTTGACTAAAGATTGAGTTGATAGGTCACCGTAAGTGTAAGAGGATTTA-TCGGGGA
1 AGATAAAGGTTGACCAAAGATTGAGTTGAAAAGTCACCATAAGTGTAAAAGGATTTACT-AGGGA
* * * * * *
1543289 CTAAGACAACAGGTGAACAAGTGATGAAGGTTTGATCAAGGACTAAGTCGATAGGTCACCGAGGG
65 CTAAGCCAACAGGTAAACAAGGGATGAAGG-TTGACCAAGGACTAAGCCGATAGGTCACTGAGGG
* *
1543354 GATAAAGGGGTTTACCAGGGACTAAGCCAACAGGAAAACAAGG
129 GATAAAGGGGTTTA-CAGGGACTAAGCTAACAGGTAAACAAGG
1543397 AGATAAAGG
1 AGATAAAGG
1543406 CTGATCGGAG
Statistics
Matches: 412, Mismatches: 92, Indels: 42
0.75 0.17 0.08
Matches are distributed among these distances:
170 1 0.00
171 22 0.05
172 374 0.91
173 13 0.03
174 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (170 bp):
AGATAAAGGTTGACCAAAGATTGAGTTGAAAAGTCACCATAAGTGTAAAAGGATTTACTAGGGAC
TAAGCCAACAGGTAAACAAGGGATGAAGGTTGACCAAGGACTAAGCCGATAGGTCACTGAGGGGA
TAAAGGGGTTTACAGGGACTAAGCTAACAGGTAAACAAGG
Found at i:1543077 original size:258 final size:255
Alignment explanation
Indices: 1542770--1543586 Score: 758
Period size: 258 Copynumber: 3.2 Consensus size: 255
1542760 CATTTACTAA
* * * *
1542770 GGACTAAGCCAACAGGTAAACAAGG-GATGAAAGGTTGACCGAGGACTAAGCCAATAGGTCACTG
1 GGACTAAGCCAACAGGTAAACAAGGAGAT-AAAGGTTGACCAAAGACTAAGTCGATAGGTCACTG
**
1542834 AGGGGATAAAGGGGTTTACAGGGGACTAAGTTAATAGGTAAACCAA-GAGATGAAGGTTGACCAG
65 AGGGGATAAAGGGGTTTACAGGGGACTAAGCCAATAGGTAAA-CAAGGAGATGAAGGTTGACCAG
* * * * * *
1542898 AAATTGAGCTGAAAAGTCACCATAGGTGTAAAAGGATTTACTGGGGACTAAGCTGATAGATAAAC
129 AGACTGAGCTGAAAAGTCACCATAGGTGTAAAAGGAATTACTAGGGACTGAGCTGATAGGTAAAC
* *
1542963 AAAGGATATAGGGTTAATCAAAGACTAAGCCGATAGGTCACTAAGGGGATAAAAGGTTTTATTGG
194 -AAGGATATAGGGTTAA-CAAAGACTAAGCTGATAGGTCACTAA-GGGATAAAAGGATTTATTGG
* * *
1543028 GGACTAAGCCAACAGGTAAACAAGGAGATAAAGGTTGACCAAAGACTAAGTTGACAGGTCGCCAT
1 GGACTAAGCCAACAGGTAAACAAGGAGATAAAGGTTGACCAAAGACTAAGTCGATAGGTC-AC-T
* * * * * *
1543093 -AGGTG-TAAAGGGTTTTACAGGGGATTGAGCCGATAGGTAAACAAGGAGATGAAGGTTGACCCG
64 GAGGGGATAAAGGGGTTTACAGGGGACTAAGCCAATAGGTAAACAAGGAGATGAAGGTTGACCAG
* * *
1543156 AGACT-AGGCTGACAAGTCACCATAGGTGT-AAAGTGAATTACTAGGGACTGAGCTAACAGGTAA
129 AGACTGA-GCTGAAAAGTCACCATAGGTGTAAAAG-GAATTACTAGGGACTGAGCTGATAGGTAA
* * * * * * * *
1543219 ACAAGGAGATAAAGGTTGACTAAAGATTGAGTTGATAGGTCACCGTAAGTG-TAAGAGGATTTAT
192 ACAAGGATAT-AGGGTTAAC-AAAGACTAAGCTGATAGGTCA-C-TAAGGGATAAAAGGATTTAT
*
1543283 CGG
253 TGG
* * * * * * *
1543286 GGACTAAGACAACAGGTGAACAA-GTGATGAAGGTTTGATCAAGGACTAAGTCGATAGGTCACCG
1 GGACTAAGCCAACAGGTAAACAAGGAGATAAAGG-TTGACCAAAGACTAAGTCGATAGGTCACTG
* * * * * *
1543350 AGGGGATAAAGGGGTTTACCA-GGGACTAAGCCAACAGGAAAACAAGGAGATAAAGGCTGATCGG
65 AGGGGATAAAGGGGTTTA-CAGGGGACTAAGCCAATAGGTAAACAAGGAGATGAAGGTTGACCAG
* ** *
1543414 AGACTGAGC--AAACAGGTCACCATAGGTGTAAAGGGGCTTACCAGGGACTGAGCTGATAGGTAA
129 AGACTGAGCTGAAA-A-GTCACCATAGGTGTAAAAGGAATTACTAGGGACTGAGCTGATAGGTAA
* ** * * * * *
1543477 ATAAGAGATGGAGGGTTAAACAAGGACTCAA-CTGACAGGTCATCAAAGGGATAAAAGGGTTTAC
192 ACAAG-GATATAGGGTT-AACAAAGACT-AAGCTGATAGGTCA-CTAAGGGATAAAAGGATTTAT
*
1543541 TAG
253 TGG
* * * * * *
1543544 GGACTGAGCCGATAGGTAAATAAAGAGATGAAGGTTGACCAAA
1 GGACTAAGCCAACAGGTAAACAAGGAGATAAAGGTTGACCAAA
1543587 AAATAAATTA
Statistics
Matches: 445, Mismatches: 91, Indels: 46
0.76 0.16 0.08
Matches are distributed among these distances:
256 2 0.00
257 34 0.08
258 374 0.84
259 31 0.07
260 4 0.01
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.19
Consensus pattern (255 bp):
GGACTAAGCCAACAGGTAAACAAGGAGATAAAGGTTGACCAAAGACTAAGTCGATAGGTCACTGA
GGGGATAAAGGGGTTTACAGGGGACTAAGCCAATAGGTAAACAAGGAGATGAAGGTTGACCAGAG
ACTGAGCTGAAAAGTCACCATAGGTGTAAAAGGAATTACTAGGGACTGAGCTGATAGGTAAACAA
GGATATAGGGTTAACAAAGACTAAGCTGATAGGTCACTAAGGGATAAAAGGATTTATTGG
Found at i:1543684 original size:85 final size:85
Alignment explanation
Indices: 1543595--1543762 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
1543585 AAAAATAAAT
* * * *
1543595 TAACAAGTCACGACAAGTG-TAAAGGGTTTA-CCAGGTACCGAGCCGACAGGAAAACAAGGAGAT
1 TAACAAGTCACCACAAG-GATAAAGGGTTTATCCAGG-ACCAAGCCGACAAGAAAACAAGAAGAT
* *
1543658 AAAGGTTGACTATAGATTGAGC
64 AAAGGTAGACTAGAGATTGAGC
* * * * * *
1543680 TAACAAGTCACCATAAGGATAAGGGGTTTATCGAGGACTAAGCCGACAAGTAAACAATAAGATAA
1 TAACAAGTCACCACAAGGATAAAGGGTTTATCCAGGACCAAGCCGACAAGAAAACAAGAAGATAA
1543745 AGGTAGACTAGAGATTGA
66 AGGTAGACTAGAGATTGA
1543763 TAGATAGGTC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 1 0.01
85 64 0.93
86 4 0.06
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (85 bp):
TAACAAGTCACCACAAGGATAAAGGGTTTATCCAGGACCAAGCCGACAAGAAAACAAGAAGATAA
AGGTAGACTAGAGATTGAGC
Found at i:1543907 original size:86 final size:85
Alignment explanation
Indices: 1542611--1544105 Score: 480
Period size: 86 Copynumber: 17.4 Consensus size: 85
1542601 AGAGCTGATG
* * * * *
1542611 GGTAAACAATGAGATGAAGGTTGATCGGAGACTGAGTTGATAGGTCACCATAGGTGATAAAAAGG
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTG-TAAAAGGG
* ** * * *
1542676 TTTATCGAAGATTGAGCCGATA
64 TTTATTGGGGACTAAGCCAATA
* * * **** ** **
1542698 GGTAAACGATA-AGATAAAGGTTGACC-GAAGATTGAGTTGACAAATCACCATAAATGTAAAAAC
1 GGTAAAC-A-AGAGATGAAGGTTGACCAG-AGACTAAGTTGATTGGTCACCATAGGTGTAAAAGG
* * ** *
1542761 ATTTACTAAGGACTAAGCCAACA
63 GTTTATTGGGGACTAAGCCAATA
* *** * * *
1542784 GGTAAACAAGGGATGAAAGGTTGACC-GAGGACTAAGCCAATAGGTCA-C-TGAGGGGATAAAGG
1 GGTAAACAAGAGATG-AAGGTTGACCAGA-GACTAAGTTGATTGGTCACCAT-AGGTG-TAAAAG
** **
1542846 GGTTTACAGGGGACTAAGTTAATA
62 GGTTTATTGGGGACTAAGCCAATA
* * * * *** *
1542870 GGTAAACCAAGAGATGAAGGTTGACCAGAAATTGAGCTGAAAAGTCACCATAGGTGTAAAAGGAT
1 GGTAAA-CAAGAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAGGGT
* **
1542935 TTACTGGGGACTAAGCTGATA
65 TTATTGGGGACTAAGCCAATA
* * * * ** * * *
1542956 GATAAACAA-AGGAT-ATAGGGTTAATCAAAGACTAAGCCGATAGGTCACTA-AGGGGATAAAAG
1 GGTAAACAAGA-GATGA-A-GGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTG-TAAAAG
* *
1543018 GTTTTATTGGGGACTAAGCCAACA
62 GGTTTATTGGGGACTAAGCCAATA
* * ** *
1543042 GGTAAACAAGGAGATAAAGGTTGACCAAAGACTAAGTTGACAGGTCGCCATAGGTGT-AAAGGGT
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAGGG-
** * * *
1543106 TTTACAGGGGATTGAGCCGATA
64 TTTATTGGGGACTAAGCCAATA
* * * *** *
1543128 GGTAAACAAGGAGATGAAGGTTGACCCGAGACTAGGCTGACAAGTCACCATAGGTGT-AAAGTGA
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAG-GG
* * * * * *
1543192 ATTACTAGGGACTGAGCTAACA
64 TTTATTGGGGACTAAGCCAATA
* * * * * * * * * *
1543214 GGTAAACAAGGAGATAAAGGTTGACTAAAGATTGAGTTGATAGGTCACCGTAAGTGTAAGAGGAT
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAGGGT
* * *
1543279 TTATCGGGGACTAAGACAACA
65 TTATTGGGGACTAAGCCAATA
* * * * * * * *
1543300 GGTGAACAAGTGATGAAGGTTTGATCA-AGGACTAAGTCGATAGGTCACC-GAGGGGATAAAGGG
1 GGTAAACAAGAGATGAAGG-TTGACCAGA-GACTAAGTTGATTGGTCACCATAGGTG-TAAAAGG
*** *
1543363 GTTTACCAGGGACTAAGCCAACA
63 GTTTATTGGGGACTAAGCCAATA
* * * * * * *** ** * *
1543386 GGAAAACAAGGAGATAAAGGCTGATCGGAGACTGAGCAAACAGGTCACCATAGGTGTAAAGGGGC
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAGGGT
*** * **
1543451 TTACCAGGGACTGAGCTGATA
65 TTATTGGGGACTAAGCCAATA
* * * * * ** * *
1543472 GGTAAATAAGAGATGGAGGGTTAAACA-AGGACTCAA-CTGACAGGTCATCAAAGG-GATAAAAG
1 GGTAAACAAGAGAT-GAAGGTTGACCAGA-GACT-AAGTTGATTGGTCACCATAGGTG-TAAAAG
* * * *
1543534 GGTTTACTAGGGACTGAGCCGATA
62 GGTTTATTGGGGACTAAGCCAATA
* * * * * * *** * * *
1543558 GGTAAATAAAGAGATGAAGGTTGACCAAAAAATAAATTAACAAGTCACGACAAGTGT-AAAGGGT
1 GGTAAA-CAAGAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAGGGT
*** * ** * *
1543622 TTACCAGGTACCGAGCCGACA
65 TTATTGGGGACTAAGCCAATA
* * * * * * * * *** * *
1543643 GGAAAACAAGGAGATAAAGGTTGACTATAGATTGAGCTAACAAGTCACCATAAG-G-ATAAGGGG
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTA-AAAGGG
* * * *
1543706 TTTATCGAGGACTAAGCCGACA
64 TTTATTGGGGACTAAGCCAATA
* * * * * * * * * *
1543728 AGTAAACAATAAGATAAAGGTAGACTAGAGATTGA-TAGATAGGTCACCATAGGTGACAAAAGGG
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTG-TAAAAGGG
* * * * *
1543792 TTCATCGAGGACTGAA-CCGACA
64 TTTATTGGGGACT-AAGCCAATA
* * * * *
1543814 AGAAAACAAGGAGATGAAGGTTAATCAGAGACTAAGTTGATTGGTCGCCATAGGTGTAAAAGGGT
1 GGTAAACAA-GAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAGGGT
* *
1543879 TTATTGGGGACTAAGTCGATA
65 TTATTGGGGACTAAGCCAATA
* * * * * ** ** * * *
1543900 GGTAAACAAGTGATTAAGGGTTGACTAGGGACTAGGCCGACAGGTCACC-GAGGGGATAAAGGGG
1 GGTAAACAAGAGATGAA-GGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTG-TAAAAGGG
* * * * *
1543964 TTCACTGGGGACTGAGCCTACA
64 TTTATTGGGGACTAAGCCAATA
* * * *
1543986 GGTAAATAAAGAGATGAAAGTTGACCAGAGCCTGAGTTGATAT-GTCACCATAGGTGT-AAAGGG
1 GGTAAA-CAAGAGATGAAGGTTGACCAGAGACTAAGTTGAT-TGGTCACCATAGGTGTAAAAGGG
* *
1544049 TTTATCGGGGACTAAACCAATA
64 TTTATTGGGGACTAAGCCAATA
*
1544071 GGTAAACAAGAGATGAAGGTTGACCAAAGACTAAG
1 GGTAAACAAGAGATGAAGGTTGACCAGAGACTAAG
1544106 CTAATAGGTT
Statistics
Matches: 1062, Mismatches: 295, Indels: 105
0.73 0.20 0.07
Matches are distributed among these distances:
84 43 0.04
85 197 0.19
86 693 0.65
87 124 0.12
88 4 0.00
89 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (85 bp):
GGTAAACAAGAGATGAAGGTTGACCAGAGACTAAGTTGATTGGTCACCATAGGTGTAAAAGGGTT
TATTGGGGACTAAGCCAATA
Found at i:1544347 original size:85 final size:84
Alignment explanation
Indices: 1543027--1544372 Score: 377
Period size: 86 Copynumber: 15.8 Consensus size: 84
1543017 GGTTTTATTG
* * * * *
1543027 GGGACTAAGCCAACAGGTAAACAAGGAGATA-AAGGTTGACCAAAGACTAAGTTGACAGGTCGCC
1 GGGACTGAGCCAACAGGAAAACAAAGAGA-AGAAGGTTGACCAGAGACTAAGTTGACAGGTCACC
* *
1543091 ATAGGTGTAAAGGGTTTTA-CA
65 AAAGG-ATAAAGGG-TTTACCA
* * * * * * * * * *
1543112 GGGGATTGAGCCGATAGGTAAACAAGGAGATGAAGGTTGACCCGAGACTAGGCTGACAAGTCACC
1 -GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGGTTGACCAGAGACTAAGTTGACAGGTCACC
* * ** *
1543177 ATAGGTGTAAAGTGAATTACTA
65 AAAGG-ATAAAG-GGTTTACCA
* * * * * * * *
1543199 GGGACTGAGCTAACAGGTAAACAAGGAGATA-AAGGTTGACTAAAGATTGAGTTGATAGGTCACC
1 GGGACTGAGCCAACAGGAAAACAAAGAGA-AGAAGGTTGACCAGAGACTAAGTTGACAGGTCACC
* * * *
1543263 GTAAGTG-TAAGAGGATTTATCG
65 -AAAG-GATAA-AGGGTTTACCA
* * ** * * * * *
1543285 GGGACTAAGACAACAGGTGAAC-AAGTGATGAAGGTTTGATCA-AGGACTAAGTCGATAGGTCAC
1 GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGG-TTGACCAGA-GACTAAGTTGACAGGTCAC
**
1543348 CGAGGGGATAAAGGGGTTTACCA
64 C-AAAGGATAAA-GGGTTTACCA
* * * * * * ***
1543371 GGGACTAAGCCAACAGGAAAACAAGGAGATA-AAGGCTGATCGGAGACTGAGCAAACAGGTCACC
1 GGGACTGAGCCAACAGGAAAACAAAGAGA-AGAAGGTTGACCAGAGACTAAGTTGACAGGTCACC
* * *
1543435 ATAGGTGTAAAGGGGCTTACCA
65 AAAGG-ATAAA-GGGTTTACCA
** * * * * * * * *
1543457 GGGACTGAGCTGATAGGTAAA-TAAGAGATGGAGGGTTAAACA-AGGACTCAA-CTGACAGGTCA
1 GGGACTGAGCCAACAGGAAAACAAAGAGA-AGAAGGTTGACCAGA-GACT-AAGTTGACAGGTCA
* *
1543519 TCAAAGGGATAAAAGGGTTTACTA
63 CCAAA-GGAT-AAAGGGTTTACCA
* * * * * * * * * * * *
1543543 GGGACTGAGCCGATAGGTAAATAAAGAGATGAAGGTTGACCAAAAAATAAATTAACAAGTCACGA
1 GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGGTTGACCAGAGACTAAGTTGACAGGTCACCA
1543608 CAAGTG-TAAAGGGTTTACCA
66 -AAG-GATAAAGGGTTTACCA
* * * * * * * * * * *
1543628 GGTACCGAGCCGACAGGAAAACAAGGAGATA-AAGGTTGACTATAGATTGAGCTAACAAGTCACC
1 GGGACTGAGCCAACAGGAAAACAAAGAGA-AGAAGGTTGACCAGAGACTAAGTTGACAGGTCACC
* *
1543692 ATAAGGATAAGGGGTTTATC-
65 A-AAGGATAAAGGGTTTACCA
* * * * * * * * * *
1543712 GAGGACTAAGCCGACAAGTAAACAATA-AGATA-AAGGTAGACTAGAGATTGA-TAGATAGGTCA
1 G-GGACTGAGCCAACAGGAAAACAA-AGAGA-AGAAGGTTGACCAGAGACTAAGTTGACAGGTCA
* * * *
1543774 CCATAGGTGACAAAAGGGTTCATC-
63 CCA-AAG-GA-TAAAGGGTTTACCA
* * * * * * * ** *
1543798 GAGGACTGAACCGACAAGAAAACAAGGAGATGAAGGTTAATCAGAGACTAAGTTGATTGGTCGCC
1 G-GGACTGAGCCAACAGGAAAACAAAGAGAAGAAGGTTGACCAGAGACTAAGTTGACAGGTCACC
* * ***
1543863 ATAGGTGTAAAAGGGTTTATTG
65 AAAGG-AT-AAAGGGTTTACCA
* * * * * * ** * * * **
1543885 GGGACTAAGTCGATAGGTAAAC-AAGTGATTAAGGGTTGACTAGGGACTAGGCCGACAGGTCACC
1 GGGACTGAGCCAACAGGAAAACAAAGAGAAGAA-GGTTGACCAGAGACTAAGTTGACAGGTCACC
** * **
1543949 GAGGGGATAAAGGGGTTCACTG
65 -AAAGGATAAA-GGGTTTACCA
* * * * * * * * *
1543971 GGGACTGAGCCTACAGGTAAATAAAGAGATGAAAGTTGACCAGAGCCTGAGTTGATATGTCACCA
1 GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGGTTGACCAGAGACTAAGTTGACAGGTCACCA
* * * *
1544036 TAGGTGTAAAGGGTTTATCG
66 AAGG-ATAAAGGGTTTACCA
* * * * * * * * * * *
1544056 GGGACTAAACCAATAGGTAAAC-AAGAGATGAAGGTTGACCAAAGACTAAGCTAATAGGTTAACA
1 GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGGTTGACCAGAGACTAAGTTGACAGGTCACCA
*
1544120 TAAGAATAAAGGGTTTACC-
66 -AAGGATAAAGGGTTTACCA
* * ** * * * *
1544139 GAGGACTAAACTGACA-AATAAATAAAGA-AATGAAGGTT-ATC-GAAGACTAAGTTAACAGGTC
1 G-GGACTGAGCCAACAGGA-AAACAAAGAGAA-GAAGGTTGACCAG-AGACTAAGTTGACAGGTC
** *
1544200 ATTATAGGATAAAGGGTTTACCA
62 ACCAAAGGATAAAGGGTTTACCA
* **
1544223 GGGACTGAGCCAACAGGAAAATAAAGAGAAGAAGGTTGACTGGAGACTAAGTTGACAGGTCACCA
1 GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGGTTGACCAGAGACTAAGTTGACAGGTCACCA
* *
1544288 CAAGGATAAGGGGTTTACCG
66 -AAGGATAAAGGGTTTACCA
* * ** * * * *
1544308 GGGATTGAGCCGATGGGTAAACAATGAGATG-AGGCTTGACCAGAGACTGAA-CTGACAGGTCAC
1 GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGG-TTGACCAGAGACT-AAGTTGACAGGTCAC
1544371 CA
64 CA
1544373 TAGGTGACAA
Statistics
Matches: 939, Mismatches: 264, Indels: 115
0.71 0.20 0.09
Matches are distributed among these distances:
83 43 0.05
84 120 0.13
85 255 0.27
86 466 0.50
87 54 0.06
88 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.29, T:0.19
Consensus pattern (84 bp):
GGGACTGAGCCAACAGGAAAACAAAGAGAAGAAGGTTGACCAGAGACTAAGTTGACAGGTCACCA
AAGGATAAAGGGTTTACCA
Found at i:1544673 original size:86 final size:87
Alignment explanation
Indices: 1543768--1544678 Score: 295
Period size: 86 Copynumber: 10.7 Consensus size: 87
1543758 ATTGATAGAT
* * * * * * * *
1543768 AGGTCACCATAGGTGACAAAAGGGTTCATCGAG-GACTGAACCGACAAGAAAACAAGGAGATGAA
1 AGGTCACCATAGGTG-TAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGAA
* * *
1543832 GGTTAATCAGAGACTAAGTTGAT
65 GGTTAATCGGAGACTAAGCTGAA
* * ** * * * * * *
1543855 TGGTCGCCATAGGTGTAAAAGGGTTTATTG-GGGACTAAGTCGATAGGTAAACAAGTG--ATTAA
1 AGGTCACCATAGGTGTAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAG-GAAATGAA
* * * * *
1543917 GGGTTGACTAGG-GACTAGGCCGAC
65 -GGTT-AATCGGAGACTAAGCTGAA
* * * * * * * * * *
1543941 AGGTCACC-GAGGGGATAAAGGGGTTCACTG-GGGACTGAGCCTACAGGTAAATAAAGAGATGAA
1 AGGTCACCATAGGTG-TAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGAA
* * * * * * * *
1544004 AGTTGACCAGAGCCTGAGTTGAT
65 GGTTAATCGGAGACTAAGCTGAA
* * * * * * *
1544027 ATGTCACCATAGGTGT-AAAGGGTTTATCG-GGGACTAAACCAATAGGTAAACAA-GAGATGAAG
1 AGGTCACCATAGGTGTAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGAAG
* * **
1544089 GTTGACCAAAGACTAAGCT-AA
66 GTTAATCGGAGACTAAGCTGAA
* * * ** * * ** ** * *
1544110 TAGGTTAACATAAGAAT-AAAGGGTTTACCGAG-GACTAAACTGACAAATAAATAAAGAAATGAA
1 -AGGTCACCATAGGTGTAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGAA
* *
1544173 GGTT-ATCGAAGACTAAG-TTAA
65 GGTTAATCGGAGACTAAGCTGAA
** * * * * *
1544194 CAGGTCATTATAGG-AT-AAAGGGTTTACC-AGGGACTGAGCCAACAGGAAAATAAAGAGAA-GA
1 -AGGTCACCATAGGTGTAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGA-AATGA
* * *
1544255 AGGTTGA-CTGGAGACTAAGTTGAC
64 AGGTTAATC-GGAGACTAAGCTGAA
* * * * * * ** * *
1544279 AGGTCACCACAAG-G-ATAAGGGGTTTACCG-GGGATTGAGCCGATGGGTAAACAATGAGATG-A
1 AGGTCACCATAGGTGTA-AAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGAA
* * * *
1544340 GGCTTGACCAGAGACTGAA-CTGAC
65 GG-TTAATCGGAGACT-AAGCTGAA
* * ** * * * *
1544364 AGGTCACCATAGGTGACAAAAGGGTTTACCGAG-GACTAAGCTGATAGGTAAACGAGGAGATAAA
1 AGGTCACCATAGGTG-TAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGAA
* * * * *
1544428 CGTTGACCGAAGACTGAGCT-AA
65 GGTTAATCGGAGACTAAGCTGAA
** * * * * *
1544450 CAATTCACCATAGGTCTAAAGGGGTTTACCG-GTGACTGAGCCAACAGGTAAATAAGG-ATTGAA
1 -AGGTCACCATAGGTGTAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATG-A
* * *
1544513 AGGTTAATTGGGGACTAAGCTGAC
64 AGGTTAATCGGAGACTAAGCTGAA
* * * * *
1544537 AGGTCACCA-A-GTGGATAAAGGTGTTTACC-AGAGATTGAGCCAATAAGTAAAAAAGGAAATGA
1 AGGTCACCATAGGTGTA-AAAGG-GTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGA
*
1544599 AGGTTCATCGGAGACTAAGCTGAA
64 AGGTTAATCGGAGACTAAGCTGAA
* ***
1544623 AGGTCACCATAGGTGTAAAAGGGTTTACTGAG-GACTGAGTTGACAGGTAAACAAGG
1 AGGTCACCATAGGTGTAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGG
1544679 GGTAAAGGGT
Statistics
Matches: 611, Mismatches: 171, Indels: 85
0.70 0.20 0.10
Matches are distributed among these distances:
82 2 0.00
83 42 0.07
84 111 0.18
85 117 0.19
86 235 0.38
87 96 0.16
88 8 0.01
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (87 bp):
AGGTCACCATAGGTGTAAAAGGGTTTACCGAGAGACTGAGCCAACAGGTAAACAAGGAAATGAAG
GTTAATCGGAGACTAAGCTGAA
Found at i:1544694 original size:258 final size:257
Alignment explanation
Indices: 1544127--1544678 Score: 591
Period size: 258 Copynumber: 2.2 Consensus size: 257
1544117 ACATAAGAAT
* ** * * * * * * * *
1544127 AAAGGGTTTACCGAGGACTAAACTGACAAATAAATAAAGAAATGAAGGTT-ATCGAAGACTAAGT
1 AAAGGGTTTACCGAGGACTAAGCTGACAGGTAAACAAGGAGATAAACGTTGACCGAAGACTGAGC
** ** *
1544191 TAACAGGTCATTATAGG-ATAAAGGGTTTACCAGGGACTGAGCCAACAGGAAAATAAAGAGAAGA
66 TAACAATTCACCATAGGTCTAAAGGGTTTACCAGGGACTGAGCCAACAGGAAAATAAAGAGAAGA
* * * * *
1544255 AGGTTGACTGGAGACTAAGTTGACAGGTCACCACAAGGATAAGGGGTTTACCGGGGATTGAGCCG
131 AGGTTAACTGGAGACTAAGCTGACAGGTCACCACAAGGATAAGGGGTTTACCAGAGATTGAGCCA
** * * * * *
1544320 ATGGGTAAACAATGAGATGAGGCTTGACCAGAGACTGAACTGACAGGTCACCATAGGTGACA
196 ATAAGTAAAAAAGGAAATGAGGCTTCACCAGAGACTGAACTGAAAGGTCACCATAGGTGACA
* *
1544382 AAAGGGTTTACCGAGGACTAAGCTGATAGGTAAACGAGGAGATAAACGTTGACCGAAGACTGAGC
1 AAAGGGTTTACCGAGGACTAAGCTGACAGGTAAACAAGGAGATAAACGTTGACCGAAGACTGAGC
*
1544447 TAACAATTCACCATAGGTCTAAAGGGGTTTACC-GGTGACTGAGCCAACAGGTAAAT-AAG-GAT
66 TAACAATTCACCATAGGTCTAAA-GGGTTTACCAGG-GACTGAGCCAACAGGAAAATAAAGAGA-
* * * * *
1544509 TGAAAGGTTAATTGGGGACTAAGCTGACAGGTCACCA-AGTGGATAAAGGTGTTTACCAGAGATT
128 AG-AAGGTTAACTGGAGACTAAGCTGACAGGTCACCACA-AGGAT-AAGGGGTTTACCAGAGATT
* *
1544573 GAGCCAATAAGTAAAAAAGGAAATGAAGG-TTCATCGGAGACT-AAGCTGAAAGGTCACCATAGG
190 GAGCCAATAAGTAAAAAAGGAAATG-AGGCTTCACCAGAGACTGAA-CTGAAAGGTCACCATAGG
*
1544636 TG-TA
253 TGACA
* * *
1544640 AAAGGGTTTACTGAGGACTGAGTTGACAGGTAAACAAGG
1 AAAGGGTTTACCGAGGACTAAGCTGACAGGTAAACAAGG
1544679 GGTAAAGGGT
Statistics
Matches: 243, Mismatches: 44, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
255 40 0.16
256 26 0.11
257 11 0.05
258 99 0.41
259 64 0.26
260 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.20
Consensus pattern (257 bp):
AAAGGGTTTACCGAGGACTAAGCTGACAGGTAAACAAGGAGATAAACGTTGACCGAAGACTGAGC
TAACAATTCACCATAGGTCTAAAGGGTTTACCAGGGACTGAGCCAACAGGAAAATAAAGAGAAGA
AGGTTAACTGGAGACTAAGCTGACAGGTCACCACAAGGATAAGGGGTTTACCAGAGATTGAGCCA
ATAAGTAAAAAAGGAAATGAGGCTTCACCAGAGACTGAACTGAAAGGTCACCATAGGTGACA
Found at i:1544977 original size:83 final size:83
Alignment explanation
Indices: 1544863--1545042 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 83
1544853 AGGTTGACTA
* * * * ** *
1544863 AAGACTAAGCTGACAGGTCTCTACAAGGATAAGGGGTTTATCGAAGACTGAGCCAACA-AGTAAA
1 AAGACTGAGCTGACAAGTCACCACAAGGATAA-GGACTTACCGAAGACTGAGCCAA-AGAGTAAA
1544927 CAATGAGATAAAGGTTAACC
64 CAATGAGATAAAGGTTAACC
* * * *
1544947 -AGACTGAGCTGACAAGTCACCATAAGGATAAGGACTTACCGAGGACTGAGTCAAAGGGTAAACA
1 AAGACTGAGCTGACAAGTCACCACAAGGATAAGGACTTACCGAAGACTGAGCCAAAGAGTAAACA
*
1545011 ATGAGATAAAGGTTGACC
66 ATGAGATAAAGGTTAACC
1545029 AGAGACTGAGCTGA
1 A-AGACTGAGCTGA
1545043 TTGGTTACCA
Statistics
Matches: 81, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 1 0.01
82 42 0.52
83 26 0.32
84 12 0.15
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (83 bp):
AAGACTGAGCTGACAAGTCACCACAAGGATAAGGACTTACCGAAGACTGAGCCAAAGAGTAAACA
ATGAGATAAAGGTTAACC
Found at i:1545481 original size:85 final size:84
Alignment explanation
Indices: 1545303--1548840 Score: 1046
Period size: 85 Copynumber: 41.5 Consensus size: 84
1545293 TTGAACCGAT
* * * * * * * *
1545303 AGGTAAATAAAGAGAAGAAGGTT-AATCG-AGACTAAACTAAAAGGTCACCATGGGTATAAAGGG
1 AGGTAAACAAAGAGATGAAGGTTGACT-GAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGG
* * * *
1545366 TTTACTAGGGACTAAATCGAT
65 TTTACGA-GGACTGAGTCGAC
* * * * *
1545387 AGGTTAACAAAGAGATGAAGGTTGACTGAAGACTGAA-TTGATAGGTTACCATAGGAATAAGGGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACT-AAGCTGACAGGTCACCATAGGTATAAGGGG
1545451 TTTATCGAGGACTGAGTCGAC
65 TTTA-CGAGGACTGAGTCGAC
* * * * *
1545472 AGGTAAACAATA-AGATGAATGTTGA-TCGGAGACTAAGTTGACAGGTCAACATAGGTATAAAAG
1 AGGTAAACAA-AGAGATGAAGGTTGACT-GAAGACTAAGCTGACAGGTCACCATAGGTAT-AAGG
* * *
1545535 GGTTTACTAGGGACTAAGTCGCC
63 GGTTTACGA-GGACTGAGTCGAC
* * * * * * * *
1545558 AAGTAAAC-GAGGGATAAAAGGCTAATCATG--GACTAAGTTGACAGGTTACCGA-AGGGCTATA
1 AGGTAAACAAAGAGAT-GAAGGTTGA-C-TGAAGACTAAGCTGACAGGTCACC-ATA-GG-TATA
* * *
1545619 A-GGGTTTATCAAGGACTAAG-CTGAT
60 AGGGGTTTA-CGAGGACTGAGTC-GAC
* * * * * *
1545644 AGGTAAAC-AAGAAGGTAAAGGTT-AGTTAGAGACTAAGCTAACAAGTCACCATAGGTGATAAAG
1 AGGTAAACAAAG-AGATGAAGGTTGACTGA-AGACTAAGCTGACAGGTCACCATAGGT-AT-AAG
*** *
1545707 TAATTTACCGGGGACTGAGTCGAC
62 GGGTTTA-CGAGGACTGAGTCGAC
* * * * *
1545731 AGGTAAACAAAGAGATAAAGGTTGACTGGAGATTAAGCTGACAGGTCACCATATGTATAAAGAGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTAT-AAGGGG
* **
1545796 TTTACCGGGGGTTGAGTCGAC
65 TTTA-CGAGGACTGAGTCGAC
* * * * * * * * *
1545817 AGGTAAAC-AAGGGTTGAAGGGTTGGC-CAAGGACTAAGATGACAGCTCACCAAGAGGATAAAAA
1 AGGTAAACAAAGAGATGAA-GGTTGACTGAA-GACTAAGCTGACAGGTCACC-ATAGG-TATAAG
* * * *
1545880 GGG-TTACCGAGGATTGAGCCAATA
62 GGGTTTA-CGAGGACTGAGTCGA-C
* * * * * * * *
1545904 AGG-AAATAAGGAAATGAAGGTTGATTGGAGACTAAGCTGACAGGTCATCATAGGTGTAAAGGAG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTAT-AAGGGG
* *
1545968 TTTACTAAGGACTGAG-CTGAT
65 TTTAC-GAGGACTGAGTC-GAC
* * * ** * * * *
1545989 AGGTAAA-TAAGGGATGAAGGGTTGATTGGGGACTAAGCAGACAGGTCAACGT-GGAGATAAAGG
1 AGGTAAACAAAGAGATGAA-GGTTGACTGAAGACTAAGCTGACAGGTCACCATAGG-TAT-AAGG
* * *
1546052 GGTTTATC-AGAAACTAAG-CAGAT
63 GGTTTA-CGAG-GACTGAGTC-GAC
* * * * * * *
1546075 AGGTGAACAAAGAGATGAAGGATGACCGAAGACTGAGTTGACAAGTCACCATAGGTATAAAGGGT
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGGT
* * *
1546140 TTACTG-GGATTGAGCCGAT
66 TTAC-GAGGACTGAGTCGAC
* * * * * * *
1546159 AGGTAGACAAAGAGATGAAGATTGATTGAAGACTAAGCTAACAAGTCACCATAGGGAAAAGGGGT
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGGT
1546224 TTACTGAGGACTGAG-CTGA-
66 TTAC-GAGGACTGAGTC-GAC
* * * * * * *
1546243 AGGGTAAATAATGAGATAAAGGTTGAC-CAGAGACTGAGTTGACAGGTCACCATAGGGATAAGGG
1 A-GGTAAACAAAGAGATGAAGGTTGACTGA-AGACTAAGCTGACAGGTCACCATAGGTATAAGGG
* *
1546307 GTTTATTGAGGACTGAGCCGAC
64 GTTTA-CGAGGACTGAGTCGAC
* * * * *
1546329 AGGTAAATAATGAGAT-AATGGTTGATTGGAA-ACTGAGTTGACAGGTCACCATAGGTGATAAAG
1 AGGTAAACAAAGAGATGAA-GGTTGACT-GAAGACTAAGCTGACAGGTCACCATAGGT-AT-AAG
* *
1546392 GGGTTTACTAGGGA-TGGAGTCAAC
62 GGGTTTACGA-GGACT-GAGTCGAC
* * * * * * * *
1546416 AGGTAAACAAAAAGATGAAGGATGTCCGAAGACTGAGCCGACAGGTCACCATACGTGTAAGAGGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAG-GGG
* *
1546481 TTT-CTGGGGACTGAGTTGAC
65 TTTAC-GAGGACTGAGTCGAC
* * * * * *
1546501 AGGTAAATAAGGAGATGAAGGTTGACT-AGAGATTGAGCTAACAGGTCACCATAGGTGTAAGGGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGA-AGACTAAGCTGACAGGTCACCATAGGTATAA-GGG
*
1546565 GTTTACTGAGGACTAAGAT-GAC
64 GTTTAC-GAGGACTGAG-TCGAC
* * * * ** * * * * *
1546587 AAGT--ACACAGGGATGAAGAATTGA-TCGGGGATTAAGTTGATAGGTCACCGAGAAG-ATAAAG
1 AGGTAAACAAAGAGATGAAG-GTTGACT-GAAGACTAAGCTGACAGGTCACC-ATAGGTAT-AAG
* * *
1546648 GGGTTTATCGGGGACT-AGGCTGAT
62 GGGTTTA-CGAGGACTGAGTC-GAC
* * * ** * * * * ** *
1546672 AGGTAAATAAGGAAAAAAAGGTTAACCG-AGACTAAACTAACAGGTCACCATAGGCGTAAAGGGT
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGGT
* * * *
1546736 TTACCAAGGACTAAGCCAAC
66 TTA-CGAGGACTGAGTCGAC
* * * ** *
1546756 AAGTAAACAAAGAGATGAAGGTTAAC-AAGAGACTAAGCTGATTGGTCACCATAGGGATAAGGGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGA-AGACTAAGCTGACAGGTCACCATAGGTATAAGGGG
* *
1546820 TTTACCAAGGACTGAGCCGAC
65 TTTA-CGAGGACTGAGTCGAC
* * * * * * * * *
1546841 GGGTAAAC-AATAGTTGAATGTTAACT-AGAGACTAAACTGACAAGTCACCATAGGTGTATTGGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGA-AGACTAAGCTGACAGGTCACCATAGGTATA-AGGG
* * * *
1546904 GTTTATTGGGGACTAAGTCGAT
64 GTTTA-CGAGGACTGAGTCGAC
* * * * ** * * *
1546926 AGGTAAATAAAG-GATAAAGTGTTAACT-AGGGACTAAGCCAATAGGTCACCGA-AGGGATAAAA
1 AGGTAAACAAAGAGATGAAG-GTTGACTGA-AGACTAAGCTGACAGGTCACC-ATAGGTAT-AAG
* *
1546988 GGGTTTACTAGGGACTAAG-CTGAC
62 GGGTTTACGA-GGACTGAGTC-GAC
* * * * * * * * *
1547012 AAGTAAACAAGGA-AGTAAAGGTTGGCCGAAGACTAAGCT-AGCATGCCACCATAGGTGTAAAGG
1 AGGTAAACAAAGAGA-TGAAGGTTGACTGAAGACTAAGCTGA-CAGGTCACCATAGGTATAAGGG
* * *
1547075 GTTTACCAAGGACTGAGCCTAC
64 GTTTA-CGAGGACTGAGTCGAC
* * * * * * * **
1547097 AAGTAAACAAGGAAATGAAGGTTGACT-AGAGACTGAGTTGATAGGTAACCATAGGTGATAAATC
1 AGGTAAACAAAGAGATGAAGGTTGACTGA-AGACTAAGCTGACAGGTCACCATAGGT-AT-AAGG
* * * * *
1547161 AGTTTACTATAGACTGAGCCGAT
63 GGTTTACGA-GGACTGAGTCGAC
** * * * * * **
1547184 AATTAAAC-AAGAAGATGATGGTTGACTGGAGACTAAGTTGACAAGTCACCATAGGTGTAAAGCA
1 AGGTAAACAAAG-AGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTAT-AAGGG
* *
1547248 GTTTCCTAGGATCTGAG-CTGAC
64 GTTTACGAGGA-CTGAGTC-GAC
* ** * * * *
1547270 AGGTAAACAAGGAGATGAAGGTTGACCAAAGATTGAG-TAGACAGGTCACCATAGCTCTAAGGGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCT-GACAGGTCACCATAGGTATAAGGGG
*
1547334 TTTATCGAGGACTAAGAT-GAC
65 TTTA-CGAGGACTGAG-TCGAC
* * * * * ***
1547355 AGGTGAA-TAAGGGATGAAAGGTTGA-TCGAAGACCAAGCT-AGTAGGTCTTGA-ATGG-ATAAG
1 AGGTAAACAAAGAGATG-AAGGTTGACT-GAAGACTAAGCTGA-CAGGTCACCATA-GGTATAA-
*
1547415 GGGGTTTACCGAGGACTGAGTCGAT
61 GGGGTTTA-CGAGGACTGAGTCGAC
* * * * * * * * * *
1547440 AGGTAAACAAGGAAATAAAGGTTGATTAAAGACTGAGCAGATAAGTTACCATAGG--T-----G-
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGGT
* * *
1547497 TT--GGGGACTGAGCCAAC
66 TTACGAGGACTGAGTCGAC
* * * * ** *
1547514 AGGTAAAC-AAGGGATGAAGGGTTAACTGAGGACTAAGCTGACAAGTCACCATAGGTGCAAAGGG
1 AGGTAAACAAAGAGATGAA-GGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGG
* * * *
1547578 TTTACCAAGGACAGAGCCAAC
65 TTTA-CGAGGACTGAGTCGAC
* * * * * * *
1547599 AGGTAAAC-AAGAAGATGAAAGTTGACTGAAGACTAAGTTGACAGGTTACCACAAGTGTAAAGGG
1 AGGTAAACAAAG-AGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGG
* * *
1547663 TTTACTAGGGATTGAGCCGAC
65 TTTACGA-GGACTGAGTCGAC
* * * * *
1547684 AGGTAAACAAGGTGATGAAGGTTGACCGAAGACTAAGCTGACAGGTCACCATAAGG-ATAACGGA
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCAT-AGGTATAAGGGG
* *
1547748 TTTACCAGGGACTAAG-CTGAC
65 TTTACGA-GGACTGAGTC-GAC
* * * ** * * * * * *
1547769 GGGTAAATAATA-AGATAAAGGTAAACT-AGAGGCTGAGCAGATAGATCACCCATAAGTGATAAA
1 AGGTAAACAA-AGAGATGAAGGTTGACTGA-AGACTAAGCTGACAGGTCA-CCATAGGT-AT-AA
* * * *
1547832 GGGCTTTATCGGGGACTGAGCCGAG
61 GGGGTTTA-CGAGGACTGAGTCGAC
* * * * * * *
1547857 AGGAAAATAAGGAGATGAAGGTTGACTGGAGACTAAGCTGAAAGGTCACTATAAGTGTA-AAGAG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCAT-AG-GTATAAGGG
* *
1547921 GTTTATCTAGGACTGAG-CTGAG
64 GTTTA-CGAGGACTGAGTC-GAC
* * ** * * *
1547943 AGGTAAACAAAG-GATTAAAGGTTGATTGGGGACT-AGGTCGACAGG-CTACTA-AGGGGATAAA
1 AGGTAAACAAAGAGA-TGAAGGTTGACTGAAGACTAAGCT-GACAGGTC-ACCATA-GGTAT-AA
* *
1548004 GGGGTTTACTTG-GGACTGTGTCGAT
61 GGGGTTTAC--GAGGACTGAGTCGAC
* * * * * * * *
1548029 AGGCAAATAATGAGATGATGGTCGATTAGAA-ACTAAGCTGATAGGTCACCATAGGTGTAAGGGG
1 AGGTAAACAAAGAGATGAAGGTTGACT-GAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGG
* * * *
1548093 -TTACCAATGATTAAG-CTGAC
65 TTTA-CGAGGACTGAGTC-GAC
* ** * * * * *
1548113 AGGTAAACAAA-AGATGAATGTTGACCAAAAACTGAGCTGACAGGTCAACGTAGGGATAAGGGGT
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGGT
* * * * *
1548177 TTACCAAGGATTGAGCCAAT
66 TTA-CGAGGACTGAGTCGAC
* * * * * * * *
1548197 AGGTAAATAAGGAGATAAAGGTTTA-TGGGAGACTGAGCTGATAGGTCACCATAGGTGTAAGGGG
1 AGGTAAACAAAGAGATGAAGGTTGACT-GAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGG
* *
1548261 CTTACTG-GGACTGAGCCGAC
65 TTTAC-GAGGACTGAGTCGAC
* * * * * * *
1548281 AGGAAAAAAAAAAGATAAAGGTTGACTGATGACTAAGCTGACAAGTCACCATAAGG-ATAAAGGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCAT-AGGTATAAGGGG
* * * * *
1548345 TTTATCAAGGACTAAGCCAAT
65 TTTA-CGAGGACTGAGTCGAC
* * * * * * *
1548366 GGGTAAATAATA-AGAT-AAGGGTT-AATCAAAGGCTGAGCTGATAGGTCACCATAGGTGATAAA
1 AGGTAAACAA-AGAGATGAA-GGTTGACT-GAAGACTAAGCTGACAGGTCACCATAGGT-AT-AA
*
1548428 GGGGTTTACCGGGGACTGAG-CTGAC
61 GGGGTTTA-CGAGGACTGAGTC-GAC
* ** * ** * * * * * **
1548453 AAGTAAATGAGGAGAT-AAAATTGATTGAAGATTGAGTTGACAGGTCACCATAGGTGTAAAAAGG
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTAT-AAGGGG
* * ** *
1548517 TTTATTGGGGACTGAACCTAC
65 TTTA-CGAGGACTGAGTCGAC
* * * ** * **
1548538 TGGTAAAC-AAGGGTTGAAGGTTGA-TCGGGGACTAAGCTGATAGGTCACCGA-AGAAATAAAGG
1 AGGTAAACAAAGAGATGAAGGTTGACT-GAAGACTAAGCTGACAGGTCACC-ATAGGTAT-AAGG
* ** * * * *
1548600 GGTTCATTAAGAACTAAGCCGAT
63 GGTTTA-CGAGGACTGAGTCGAC
* * * * * * **
1548623 AAGTAAAC-AAGAAGATAAAAGTTGACTGAAGACTGAGCTGATAGGTCACTATAGGTGCAACGGG
1 AGGTAAACAAAG-AGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAA-GGG
* * *
1548687 GTTTACCAGGAACTAAG-CTGAT
64 GTTTACGAGG-ACTGAGTC-GAC
* * * ** * * * * *
1548709 AGGTAAACAATG-GATGAAAGGTTAACCGGGGATTAAGCTGATAGATCACCGAT-GGGATAAAAG
1 AGGTAAACAAAGAGATG-AAGGTTGACTGAAGACTAAGCTGACAGGTCACC-ATAGGTAT-AAGG
* *
1548772 GGTTTATCGAGGACTAAGTCGAT
63 GGTTTA-CGAGGACTGAGTCGAC
* * * * * *
1548795 AAGTAAACAAGGAGATGAAGCTTGACTGGAGACTAATCTGATAGGT
1 AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGT
1548841 TACTATAGAT
Statistics
Matches: 2561, Mismatches: 680, Indels: 424
0.70 0.19 0.12
Matches are distributed among these distances:
73 6 0.00
74 47 0.02
77 2 0.00
78 1 0.00
81 1 0.00
82 4 0.00
83 39 0.02
84 325 0.13
85 989 0.39
86 782 0.31
87 293 0.11
88 67 0.03
89 5 0.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (84 bp):
AGGTAAACAAAGAGATGAAGGTTGACTGAAGACTAAGCTGACAGGTCACCATAGGTATAAGGGGT
TTACGAGGACTGAGTCGAC
Found at i:1546322 original size:43 final size:43
Alignment explanation
Indices: 1546272--1546398 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 43
1546262 AGGTTGACCA
1546272 GAGACTGAGTTGACAGGTCACCATAGGGATAAGGGGTTTATT-
1 GAGACTGAGTTGACAGGTCACCATAGGGATAAGGGGTTTATTG
** * * * *
1546314 GAGGACTGAGCCGACAGGT-A-AATAATGAGATAA-TGGTTGATTG
1 GA-GACTGAGTTGACAGGTCACCAT-A-GGGATAAGGGGTTTATTG
*
1546357 GAAACTGAGTTGACAGGTCACCATAGGTGATAAAGGGGTTTA
1 GAGACTGAGTTGACAGGTCACCATAGG-GAT-AAGGGGTTTA
1546399 CTAGGGATGG
Statistics
Matches: 63, Mismatches: 13, Indels: 15
0.69 0.14 0.16
Matches are distributed among these distances:
41 2 0.03
42 25 0.40
43 27 0.43
44 4 0.06
45 5 0.08
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.24
Consensus pattern (43 bp):
GAGACTGAGTTGACAGGTCACCATAGGGATAAGGGGTTTATTG
Found at i:1546461 original size:172 final size:170
Alignment explanation
Indices: 1545298--1548506 Score: 732
Period size: 172 Copynumber: 18.9 Consensus size: 170
1545288 GGGGTTTGAA
* * * * * * * * *
1545298 CCGATAGGTAAATAAAGAGAAGAAGGTTAATCGAGACTAAACTAAAAGGTCACCATGGGT-ATAA
1 CCGACAGGTAAATAAAGAGATGAAGGTTGATTGAAACTGAGCTAACAGGTCACCATAGGTGATAA
** * * * * *
1545362 A-GGGTTTACT-AGGGACT-AAATCGATAGGTTAACAAAGAGATGAAGGTTGACTGAAGACTGAA
66 AGGGGTTTACTGA-GGACTGAGCTC-AAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTGAG
* * *
1545424 TTGATAGGTTACCATAGGAATAAGGGGTTTA-TCGAGGACTGAG
129 TTGACAGGTCACCATAGGGATAAGGGGTTTACT-G-GGACTGAG
* * * * * * * * *
1545467 TCGACAGGTAAACAATA-AGATGAATGTTGATCGGAGACTAAGTTGACAGGTCAACATAGGT-AT
1 CCGACAGGTAAATAA-AGAGATGAAGGTTGAT-TGAAACTGAGCTAACAGGTCACCATAGGTGAT
* * * * * * * * * * *
1545530 AAAAGGGTTTACT-AGGGACTAAGTCGCCAA-GTAAAC-GAGGGATAAAAGGCTAATC-ATGGAC
64 AAAGGGGTTTACTGA-GGACTGAG-CTCAAAGGTAAACAAAGAGAT-GAAGGATGACCGA-AGAC
* * ** *
1545591 TAAGTTGACAGGTTACCGA-AGGGCTATAA-GGGTTTATCAAGGACTAAG
125 TGAGTTGACAGGTCACC-ATAGGG--ATAAGGGGTTTA-CTGGGACTGAG
* * * * * * * *
1545639 CTGATAGGTAAA-CAAGAAGGTAAAGGTT-AGTTAGAGACTAAGCTAACAAGTCACCATAGGTGA
1 CCGACAGGTAAATAAAG-AGATGAAGGTTGA-TT-GAAACTGAGCTAACAGGTCACCATAGGTGA
*** * * * * * * * * *
1545702 TAAAGTAATTTACCGGGGACTGAG-TCGACAGGTAAACAAAGAGATAAAGGTTGACTGGAGATTA
63 TAAAGGGGTTTACTGAGGACTGAGCTC-AAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTG
* * * * * **
1545766 AGCTGACAGGTCACCATATGTATAAAGAGGTTTACCGGGGGTTGAG
127 AGTTGACAGGTCACCATAGGGAT-AAGGGGTTTA-CTGGGACTGAG
* * * * *** * * * *
1545812 TCGACAGGTAAA-CAAGGGTTGAAGGGTTG-GCCAAGGACTAAGATGACAGCTCACCA-AGAG-G
1 CCGACAGGTAAATAAAGAGATGAA-GGTTGATTGAA--ACTGAGCTAACAGGTCACCATAG-GTG
* * * * * * * ** *
1545873 ATAAAAAGGG-TTACCGAGGATTGAGC-CAATAAGG-AAATAAGGAAATGAAGGTTGATTGGAGA
62 AT-AAAGGGGTTTACTGAGGACTGAGCTC-A-AAGGTAAACAAAGAGATGAAGGATGACCGAAGA
* * * * *
1545935 CTAAGCTGACAGGTCATCATAGGTG-TAAAGGAGTTTACTAAGGACTGAG
124 CTGAGTTGACAGGTCACCATAGG-GAT-AAGGGGTTTACT-GGGACTGAG
* * * ** * * * *
1545984 CTGATAGGTAAAT-AAGGGATGAAGGGTTGATTGGGGACTAAGC-AGACAGGTCAACGT-GGAGA
1 CCGACAGGTAAATAAAGAGATGAA-GGTTGATT-GAAACTGAGCTA-ACAGGTCACCATAGGTGA
* * * ** * *
1546046 TAAAGGGGTTTA-TCAGAAACTAAGCAGATAGGTGAACAAAGAGATGAAGGATGACCGAAGACTG
63 TAAAGGGGTTTACTGAG-GACTGAGCTCAAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTG
* * * *
1546110 AGTTGACAAGTCACCATAGGTATAAAGGGTTTACTGGGATTGAG
127 AGTTGACAGGTCACCATAGGGATAAGGGGTTTACTGGGACTGAG
* * * * * *
1546154 CCGATAGGTAGACAAAGAGATGAAGATTGATTGAAGACTAAGCTAACAAGTCACCATAGG-GA-A
1 CCGACAGGTAAATAAAGAGATGAAGGTTGATTGAA-ACTGAGCTAACAGGTCACCATAGGTGATA
* * * * * *
1546217 AAGGGGTTTACTGAGGACTGAGCTGAAGGGTAAATAATGAGATAAAGGTTGACC-AGAGACTGAG
65 AAGGGGTTTACTGAGGACTGAGCTCAAAGGTAAACAAAGAGATGAAGGATGACCGA-AGACTGAG
*
1546281 TTGACAGGTCACCATAGGGATAAGGGGTTTATTGAGGACTGAG
129 TTGACAGGTCACCATAGGGATAAGGGGTTTACTG-GGACTGAG
* * *
1546324 CCGACAGGTAAATAATGAGAT-AATGGTTGATTGGAAACTGAGTTGACAGGTCACCATAGGTGAT
1 CCGACAGGTAAATAAAGAGATGAA-GGTTGATT-GAAACTGAGCTAACAGGTCACCATAGGTGAT
* *
1546388 AAAGGGGTTTACT-AGGGA-TGGAG-TCAACAGGTAAACAAAAAGATGAAGGATGTCCGAAGACT
64 AAAGGGGTTTACTGA-GGACT-GAGCTCAA-AGGTAAACAAAGAGATGAAGGATGACCGAAGACT
** *
1546450 GAGCCGACAGGTCACCATACGTG-TAAGAGGGTTT-CTGGGGACTGAG
126 GAGTTGACAGGTCACCATA-GGGATAAG-GGGTTTACT-GGGACTGAG
** * * * *
1546496 TTGACAGGTAAATAAGGAGATGAAGGTTGACTAGAGATTGAGCTAACAGGTCACCATAGGTG-TA
1 CCGACAGGTAAATAAAGAGATGAAGGTTGA-TTGAAACTGAGCTAACAGGTCACCATAGGTGATA
* * * * * * * * ** * *
1546560 AGGGGGTTTACTGAGGACTAAGATGACAA-GT--ACACAGGGATGAAGAATTGATCGGGGATTAA
65 AAGGGGTTTACTGAGGACTGAGCTCA-AAGGTAAACAAAGAGATGAAGGA-TGACCGAAGACTGA
* * * *
1546622 GTTGATAGGTCACC-GAGAAGATAAAGGGGTTTATCGGGGACT-AGG
128 GTTGACAGGTCACCATAG-GGAT-AAGGGGTTTA-CTGGGACTGA-G
* * * * ** * ** * * * *
1546667 CTGATAGGTAAATAAGGAAAAAAAGGTTAACCGAGACTAAACTAACAGGTCACCATAGGCG-TAA
1 CCGACAGGTAAATAAAGAGATGAAGGTTGATTGAAACTGAGCTAACAGGTCACCATAGGTGATAA
** * * * * * *
1546731 A-GGGTTTACCAAGGACTAAGC-CAACAAGTAAACAAAGAGATGAAGG-TTAACAAGAGACTAAG
66 AGGGGTTTACTGAGGACTGAGCTCAA-AGGTAAACAAAGAGATGAAGGATGACCGA-AGACTGAG
* ** **
1546793 CTGATTGGTCACCATAGGGATAAGGGGTTTACCAAGGACTGAG
129 TTGACAGGTCACCATAGGGATAAGGGGTTTA-CTGGGACTGAG
* * * * * * * * * * * *
1546836 CCGACGGGTAAA-CAATAGTTGAATGTTAACTAGAGACTAAACTGACAAGTCACCATAGGTG-TA
1 CCGACAGGTAAATAAAGAGATGAAGGTTGA-TTGAAACTGAGCTAACAGGTCACCATAGGTGATA
** * * * * * * * * * * *
1546899 TTGGGGTTTATTGGGGACTAAG-TCGATAGGTAAATAAAG-GATAAAGTG-TTAACTAGGGACTA
65 AAGGGGTTTACTGAGGACTGAGCTC-AAAGGTAAACAAAGAGATGAAG-GATGACCGA-AGACTG
*** * * *
1546961 AGCCAATAGGTCACCGA-AGGGATAAAAGGGTTTACTAGGGACTAAG
127 AGTTGACAGGTCACC-ATAGGGAT-AAGGGGTTTACT-GGGACTGAG
* * * * * *** * * * *
1547007 CTGACAAGTAAACAAGGA-AGTAAAGGTTGGCCGAAGACTAAGCTAGCATGCCACCATAGGTG-T
1 CCGACAGGTAAATAAAGAGA-TGAAGGTTGATTGAA-ACTGAGCTAACAGGTCACCATAGGTGAT
** * * * *
1547070 AAA-GGGTTTACCAAGGACTGAGC-CTACAA-GTAAACAAGGAAATGAAGGTTGA-CTAGAGACT
64 AAAGGGGTTTACTGAGGACTGAGCTC-A-AAGGTAAACAAAGAGATGAAGGATGACCGA-AGACT
* * *** **
1547131 GAGTTGATAGGTAACCATAGGTGATAAATCAGTTTACTATAGACTGAG
126 GAGTTGACAGGTCACCATAGG-GAT-AAGGGGTTTACT-GGGACTGAG
* ** * * * * * * * *
1547179 CCGATAATTAAA-CAAGAAGATGATGGTTGACTGGAGACTAAGTTGACAAGTCACCATAGGTG-T
1 CCGACAGGTAAATAAAG-AGATGAAGGTTGA-TTGAAACTGAGCTAACAGGTCACCATAGGTGAT
** * * * * * * *
1547242 AAAGCAGTTTCCT-AGGATCTGAGCTGACAGGTAAACAAGGAGATGAAGGTTGACCAAAGATTGA
64 AAAGGGGTTTACTGAGGA-CTGAGCTCAAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTGA
* *** *
1547306 GTAGACAGGTCACCATAGCTCTAAGGGGTTTA-TCGAGGACTAAG
128 GTTGACAGGTCACCATAGGGATAAGGGGTTTACT-G-GGACTGAG
** * * * ** ** *** *
1547350 ATGACAGGTGAAT-AAGGGATGAAAGGTTGATCGAAGACCAAGCTAGTAGGTCTTGA-ATG-GAT
1 CCGACAGGTAAATAAAGAGATG-AAGGTTGATTGAA-ACTGAGCTAACAGGTCACCATAGGTGAT
* * * * * * * ***
1547412 AAGGGGGTTTACCGAGGACTGAG-TCGATAGGTAAACAAGGAAATAAAGGTTGATTAAAGACTGA
64 AAAGGGGTTTACTGAGGACTGAGCTC-AAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTGA
** * * * *
1547476 GCAGATAAGTTACCATA-GG-T-----G-TT--GGGGACTGAG
128 GTTGACAGGTCACCATAGGGATAAGGGGTTTACTGGGACTGAG
* * * * * * * * * *
1547509 CCAACAGGTAAA-CAAGGGATGAAGGGTTAACTGAGGACTAAGCTGACAAGTCACCATAGGTG-C
1 CCGACAGGTAAATAAAGAGATGAA-GGTTGATTGA-AACTGAGCTAACAGGTCACCATAGGTGAT
** * * * * *
1547572 AAA-GGGTTTACCAAGGACAGAGC-CAACAGGTAAAC-AAGAAGATGAAAGTTGACTGAAGACTA
64 AAAGGGGTTTACTGAGGACTGAGCTCAA-AGGTAAACAAAG-AGATGAAGGATGACCGAAGACTG
* * * * *
1547634 AGTTGACAGGTTACCACAAGTG-TAAAGGGTTTACTAGGGATTGAG
127 AGTTGACAGGTCACCA-TAGGGATAAGGGGTTTACT-GGGACTGAG
* * * ** * * *
1547679 CCGACAGGTAAACAAGGTGATGAAGGTTGACCGAAGACTAAGCTGACAGGTCACCATAAG-GAT-
1 CCGACAGGTAAATAAAGAGATGAAGGTTGATTGAA-ACTGAGCTAACAGGTCACCATAGGTGATA
* * * * * ** * * * * * *
1547742 AACGGATTTAC-CAGGGACTAAGCTGACGGGTAAATAATA-AGATAAAGG-TAAACTAGAGGCTG
65 AAGGGGTTTACTGA-GGACTGAGCTCAAAGGTAAACAA-AGAGATGAAGGATGACCGA-AGACTG
** * * * * *
1547804 AGCAGATAGATCACCCATAAGTGATAAAGGGCTTTATCGGGGACTGAG
127 AGTTGACAGGTCA-CCAT-AGGGAT-AAGGGGTTTA-CTGGGACTGAG
* * * * * * * *
1547852 CCGAGAGGAAAATAAGGAGATGAAGGTTGACTGGAGACTAAGCTGAA-AGGTCACTATAAGTG-T
1 CCGACAGGTAAATAAAGAGATGAAGGTTGA-TTGAAACTGAGCT-AACAGGTCACCATAGGTGAT
* * * * * ** **
1547915 AAAGAGGTTTATCT-AGGACTGAGCTGAGAGGTAAACAAAG-GATTAAAGGTTGATTGGGGACT-
64 AAAGGGGTTTA-CTGAGGACTGAGCTCAAAGGTAAACAAAGAGA-TGAAGGATGACCGAAGACTG
* * *
1547977 AGGTCGACAGG-CTACTA-AGGGGATAAAGGGGTTTACTTGGGACTGTG
127 A-GTTGACAGGTC-ACCATA-GGGAT-AAGGGGTTTAC-TGGGACTGAG
* * * * * * * * *
1548024 TCGATAGGCAAATAATGAGATGATGGTCGATTAGAAACTAAGCTGATAGGTCACCATAGGTG-T-
1 CCGACAGGTAAATAAAGAGATGAAGGTTGATT-GAAACTGAGCTAACAGGTCACCATAGGTGATA
** * * * * * * * * * *
1548087 AAGGGG-TTACCAATGATTAAGCTGACAGGTAAACAAA-AGATGAATGTTGACCAAAAACTGAGC
65 AAGGGGTTTACTGAGGACTGAGCTCAAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTGAGT
* * ** *
1548150 TGACAGGTCAACGTAGGGATAAGGGGTTTACCAAGGATTGAG
130 TGACAGGTCACCATAGGGATAAGGGGTTTA-CTGGGACTGAG
* * * * * * * * *
1548192 CCAATAGGTAAATAAGGAGATAAAGGTTTATGGGAGACTGAGCTGATAGGTCACCATAGGTG-T-
1 CCGACAGGTAAATAAAGAGATGAAGGTTGAT-TGAAACTGAGCTAACAGGTCACCATAGGTGATA
* * * * * * * * * *
1548255 AAGGGGCTTACTG-GGACTGAGC-CGACAGGAAAAAAAAAAGATAAAGGTTGACTGATGACTAAG
65 AAGGGGTTTACTGAGGACTGAGCTC-AAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTGAG
* * * * ** *
1548318 CTGACAAGTCACCATAAGGATAAAGGGTTTATCAAGGACTAAG
129 TTGACAGGTCACCATAGGGATAAGGGGTTTA-CTGGGACTGAG
* ** * * * *
1548361 CCAATGGGTAAATAATA-AGAT-AAGGGTT-AATCAAAGGCTGAGCTGATAGGTCACCATAGGTG
1 CCGACAGGTAAATAA-AGAGATGAA-GGTTGATTGAAA--CTGAGCTAACAGGTCACCATAGGTG
* * * ** * * ** *
1548423 ATAAAGGGGTTTACCGGGGACTGAGCTGACAA-GTAAATGAGGAGAT-AA-AATTGATTGAAGAT
62 ATAAAGGGGTTTACTGAGGACTGAGCTCA-AAGGTAAACAAAGAGATGAAGGA-TGACCGAAGAC
1548485 TGAGTTGACAGGTCACCATAGG
125 TGAGTTGACAGGTCACCATAGG
1548507 TGTAAAAAGG
Statistics
Matches: 2242, Mismatches: 614, Indels: 366
0.70 0.19 0.11
Matches are distributed among these distances:
158 5 0.00
159 97 0.04
160 6 0.00
161 3 0.00
162 2 0.00
163 1 0.00
166 1 0.00
167 5 0.00
168 107 0.05
169 339 0.15
170 453 0.20
171 353 0.16
172 564 0.25
173 249 0.11
174 53 0.02
175 4 0.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (170 bp):
CCGACAGGTAAATAAAGAGATGAAGGTTGATTGAAACTGAGCTAACAGGTCACCATAGGTGATAA
AGGGGTTTACTGAGGACTGAGCTCAAAGGTAAACAAAGAGATGAAGGATGACCGAAGACTGAGTT
GACAGGTCACCATAGGGATAAGGGGTTTACTGGGACTGAG
Found at i:1546524 original size:257 final size:255
Alignment explanation
Indices: 1546106--1546578 Score: 609
Period size: 257 Copynumber: 1.8 Consensus size: 255
1546096 ATGACCGAAG
* * * * *
1546106 ACTGAGTTGACAAGTCACCATAGGTATAAAGGGTTTACTGGGATTGAGCCGATAGGTAGACAAAG
1 ACTGAGTTGACAAGTCACCATAGGTATAAAGGGTTTACTGGGATGGAGCCAACAGGTAAACAAAA
* *
1546171 AGATGAAGATTGATTGAAGACTAAGCTAACAAGTCACCATAGGGAAAAGGGGTTTACTGAGGACT
66 AGATGAAGATTGATCGAAGACTAAGCCAACAAGTCACCATAGGGAAAAGGGGTTTACTGAGGACT
* * *
1546236 GAGCTGAAGGGTAAATAATGAGATAAAGGTTGACCAGAGACTGAGTTGACAGGTCACCATAGG-G
131 GAGCTGAAGGGTAAATAAGGAGATAAAGGTTGACCAGAGACTGAGCTAACAGGTCACCATAGGTG
*
1546300 ATAA-GGGGTTTATTGAGGACTGAGCCGACAGGTAAATAATGAGATAATGGTTGATTGGAA
196 -TAAGGGGGTTTACTGAGGACTGAGCCGACAGGTAAATAATGAGATAATGGTTGATTGGAA
* *
1546360 ACTGAGTTGACAGGTCACCATAGGTGATAAAGGGGTTTACTAGGGATGGAGTCAACAGGTAAACA
1 ACTGAGTTGACAAGTCACCATAGGT-ATAAA-GGGTTTACT-GGGATGGAGCCAACAGGTAAACA
* * * * *
1546425 AAAAGATGAAGGA-TG-TCCGAAGACTGAGCCGACAGGTCACCATACGTG-TAAGAGGGTTT-CT
63 AAAAGATGAA-GATTGAT-CGAAGACTAAGCCAACAAGTCACCATA-GGGAAAAG-GGGTTTACT
* * * * *
1546486 GGGGACTGAGTTGACA-GGTAAATAAGGAGATGAAGGTTGACTAGAGATTGAGCTAACAGGTCAC
124 GAGGACTGAGCTGA-AGGGTAAATAAGGAGATAAAGGTTGACCAGAGACTGAGCTAACAGGTCAC
1546550 CATAGGTGTAAGGGGGTTTACTGAGGACT
188 CATAGGTGTAAGGGGGTTTACTGAGGACT
1546579 AAGATGACAA
Statistics
Matches: 186, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
254 24 0.13
255 5 0.03
256 10 0.05
257 119 0.64
258 28 0.15
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.22
Consensus pattern (255 bp):
ACTGAGTTGACAAGTCACCATAGGTATAAAGGGTTTACTGGGATGGAGCCAACAGGTAAACAAAA
AGATGAAGATTGATCGAAGACTAAGCCAACAAGTCACCATAGGGAAAAGGGGTTTACTGAGGACT
GAGCTGAAGGGTAAATAAGGAGATAAAGGTTGACCAGAGACTGAGCTAACAGGTCACCATAGGTG
TAAGGGGGTTTACTGAGGACTGAGCCGACAGGTAAATAATGAGATAATGGTTGATTGGAA
Found at i:1547223 original size:87 final size:85
Alignment explanation
Indices: 1547059--1547295 Score: 262
Period size: 87 Copynumber: 2.8 Consensus size: 85
1547049 CTAGCATGCC
* * *
1547059 ACCATAGGTGTAAAG-GGTTTACCAAGGACTGAGCCTACAAGTAAACAAGGAA-ATGAAGGTTGA
1 ACCATAGGTGTAAAGCAGTTTACTAA-GACTGAGCCGACAAGTAAACAA-GAAGATGAAGGTTGA
* * *
1547122 CTAGAGACTGAGTTGATAGGTA
64 CTAGAGACTAAGTTGACAAGTA
* * * *
1547144 ACCATAGGTGATAAATCAGTTTACTATAGACTGAGCCGATAATTAAACAAGAAGATGATGGTTGA
1 ACCATAGGTG-TAAAGCAGTTTACTA-AGACTGAGCCGACAAGTAAACAAGAAGATGAAGGTTGA
* *
1547209 CTGGAGACTAAGTTGACAAGTC
64 CTAGAGACTAAGTTGACAAGTA
* * * * *
1547231 ACCATAGGTGTAAAGCAGTTTCCTAGGATCTGAGCTGACAGGTAAACAAGGAGATGAAGGTTGAC
1 ACCATAGGTGTAAAGCAGTTTACTAAGA-CTGAGCCGACAAGTAAACAAGAAGATGAAGGTTGAC
1547296 CAAAGATTGA
Statistics
Matches: 126, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
85 12 0.10
86 50 0.40
87 63 0.50
88 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (85 bp):
ACCATAGGTGTAAAGCAGTTTACTAAGACTGAGCCGACAAGTAAACAAGAAGATGAAGGTTGACT
AGAGACTAAGTTGACAAGTA
Found at i:1548365 original size:169 final size:168
Alignment explanation
Indices: 1548064--1548453 Score: 431
Period size: 169 Copynumber: 2.3 Consensus size: 168
1548054 TTAGAAACTA
** * * * * *
1548064 AGCTGATAGGTCACCATAGGTGTAAGGGGTTACCAATGATTAAGCTGACAGGTAAACAAAAGATG
1 AGCTGATAGGTCACCATAGGTGTAAGGGGTTACCAGGGACTGAGCTGACAGGAAAAAAAAAGATA
* * * * * * * *
1548129 AATGTTGACCAAAAACTGAGCTGACAGGTCAACGTAGGGATAAGGGGTTTACCAAGGATTGAGCC
66 AAGGTTGACCAAAAACTAAGCTGACAAGTCAACATAAGGATAAAGGGTTTACCAAGGACTAAGCC
* * ***
1548194 AATAGGTAAATAAGGAGATAAAGGTTTATGGGAGACTG
131 AATAGGTAAATAAGAAGATAAAGGTTAATCAAAGACTG
* *
1548232 AGCTGATAGGTCACCATAGGTGTAAGGGGCTTA-CTGGGACTGAGCCGACAGGAAAAAAAAAAGA
1 AGCTGATAGGTCACCATAGGTGTAAGGGG-TTACCAGGGACTGAGCTGACAGG-AAAAAAAAAGA
** ** * *
1548296 TAAAGGTTGACTGATGACTAAGCTGACAAGTCACCATAAGGATAAAGGGTTTATCAAGGACTAAG
64 TAAAGGTTGACCAAAAACTAAGCTGACAAGTCAACATAAGGATAAAGGGTTTACCAAGGACTAAG
* * * *
1548361 CCAATGGGTAAATAATAAGATAAGGGTTAATCAAAGGCTG
129 CCAATAGGTAAATAAGAAGATAAAGGTTAATCAAAGACTG
*
1548401 AGCTGATAGGTCACCATAGGTGATAAAGGGGTTTACCGGGGACTGAGCTGACA
1 AGCTGATAGGTCACCATAGGTG-T-AAGGGG-TTACCAGGGACTGAGCTGACA
1548454 AGTAAATGAG
Statistics
Matches: 182, Mismatches: 35, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
168 42 0.23
169 115 0.63
170 1 0.01
171 9 0.05
172 15 0.08
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.21
Consensus pattern (168 bp):
AGCTGATAGGTCACCATAGGTGTAAGGGGTTACCAGGGACTGAGCTGACAGGAAAAAAAAAGATA
AAGGTTGACCAAAAACTAAGCTGACAAGTCAACATAAGGATAAAGGGTTTACCAAGGACTAAGCC
AATAGGTAAATAAGAAGATAAAGGTTAATCAAAGACTG
Found at i:1548797 original size:172 final size:171
Alignment explanation
Indices: 1548539--1548848 Score: 406
Period size: 172 Copynumber: 1.8 Consensus size: 171
1548529 TGAACCTACT
* * * * *
1548539 GGTAAACAAGGGTTGAAGGTTGATCGGGGACTAAGCTGATAGGTCACCGAAGAAATAAAGGGGTT
1 GGTAAACAAGGGATGAAGGTTAACCGGGGACTAAGCTGATAGATCACCGAAGAAATAAAAGGGTT
* *
1548604 CATTAAGAACTAAGCCGATAAGTAAACAAGAAGATAAAAG-TTGACTGAAGACTGAGCTGATAGG
66 CATCAAGAACTAAGCCGATAAGTAAACAAGAAGAT-AAAGCTTGACTGAAGACTAAGCTGATAGG
1548668 TCACTATAGGTGCAACGGGGTTTACCAGGAACTAAGCTGATA
130 TCACTATAGGTGCAACGGGGTTTACCAGGAACTAAGCTGATA
* * * **
1548710 GGTAAACAATGGATGAAAGGTTAACCGGGGATTAAGCTGATAGATCACCGATGGGATAAAAGGGT
1 GGTAAACAAGGGATG-AAGGTTAACCGGGGACTAAGCTGATAGATCACCGAAGAAATAAAAGGGT
* * * * * * * *
1548775 TTATCGAGGACTAAGTCGATAAGTAAACAAGGAGATGAAGCTTGACTGGAGACTAATCTGATAGG
65 TCATCAAGAACTAAGCCGATAAGTAAACAAGAAGATAAAGCTTGACTGAAGACTAAGCTGATAGG
*
1548840 TTACTATAG
130 TCACTATAG
1548849 ATGAAATGAT
Statistics
Matches: 116, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
171 16 0.14
172 100 0.86
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.22
Consensus pattern (171 bp):
GGTAAACAAGGGATGAAGGTTAACCGGGGACTAAGCTGATAGATCACCGAAGAAATAAAAGGGTT
CATCAAGAACTAAGCCGATAAGTAAACAAGAAGATAAAGCTTGACTGAAGACTAAGCTGATAGGT
CACTATAGGTGCAACGGGGTTTACCAGGAACTAAGCTGATA
Found at i:1549120 original size:81 final size:81
Alignment explanation
Indices: 1548968--1549124 Score: 188
Period size: 81 Copynumber: 1.9 Consensus size: 81
1548958 TGAGGTAAAT
* * * * *
1548968 GTGAATGTCATCTAATGGTGCAGATGCATACAAAATGATATAAATGGAAGCATTAATAAAATCGC
1 GTGAATGTCATCTAATAGTGCAGATGCACACAAAATGATACAAATGCAAGCATAAATAAAATCGC
*
1549033 GGATGCATATGAGGTG
66 GAATGCATATGAGGTG
* * * ** * * *
1549049 GTGAATGTTATCTAATAGTGCGGATGCGCATGAAATGATGCAAATGCAAGCATAAATGAAATGGC
1 GTGAATGTCATCTAATAGTGCAGATGCACACAAAATGATACAAATGCAAGCATAAATAAAATCGC
1549114 GAATGCATATG
66 GAATGCATATG
1549125 GAATGATGCA
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.25
Consensus pattern (81 bp):
GTGAATGTCATCTAATAGTGCAGATGCACACAAAATGATACAAATGCAAGCATAAATAAAATCGC
GAATGCATATGAGGTG
Found at i:1549959 original size:12 final size:11
Alignment explanation
Indices: 1549933--1549958 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1549923 AGCTTCATTC
1549933 TTTTCATTTTT
1 TTTTCATTTTT
1549944 TTTTCATTTTT
1 TTTTCATTTTT
1549955 TTTT
1 TTTT
1549959 TAAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:1550234 original size:16 final size:16
Alignment explanation
Indices: 1550215--1550245 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1550205 TTTTTCATTC
1550215 ATTTTTCATTTTTTTT
1 ATTTTTCATTTTTTTT
*
1550231 ATTTTTTATTTTTTT
1 ATTTTTCATTTTTTT
1550246 ACTATCTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (16 bp):
ATTTTTCATTTTTTTT
Found at i:1553893 original size:12 final size:12
Alignment explanation
Indices: 1553860--1553893 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
1553850 GGATGAGATT
*
1553860 TGGCTAATAATG
1 TGGCTAAAAATG
1553872 TGGCTGAAAAATG
1 TGGCT-AAAAATG
1553885 TGGCTAAAA
1 TGGCTAAAA
1553894 GCAAAAGTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.38, C:0.09, G:0.26, T:0.26
Consensus pattern (12 bp):
TGGCTAAAAATG
Found at i:1557905 original size:155 final size:152
Alignment explanation
Indices: 1557447--1558148 Score: 563
Period size: 155 Copynumber: 4.6 Consensus size: 152
1557437 CCCTAAACCC
** * * *
1557447 TCGGCATAAAAGTGGACCCGGTGATTACCTAGGATTTGGTTCTAAAAAATTACGAAAATGTGCTT
1 TCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTTGGTTCTAAAAAATTACGAAAATG-CCTT
* * * *
1557512 ATGGGTATACTTTCGACATAAAAGTACTCGATACCCCTAAAGGACTTATAAAAGGATTGTAGATG
65 AAGGG-ATACTTTCGACATAAAAGTACCCGATACCCCTAAAGGACTTA-AAAA-GATTATGGATG
1557577 GTATGAACCTATCCTAAATACCCACCT
127 G-ATGAACCTATCCTAAATACCCACCT
* * * * ** * * *
1557604 TCGACATAAAAGCAGACTCGATGATAACCTAAGACTCAGCTCTAAAAAATTA-TAAAATTGCCCC
1 TCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTTGGTTCTAAAAAATTACGAAAA-TG-CCT
* * * *
1557668 TAGGGGATACCTTT-GACGTAAAAGTACCTGATATCCCTAAAGGACTT-AAAAGATTATGGATGG
64 TAAGGGATA-CTTTCGACATAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGATTATGGAT-G
1557731 GATGAACCTATCCTAAATACCCACCT
127 GATGAACCTATCCTAAATACCCACCT
* * * * * *
1557757 TTGGCATTAAAGCAGACCCGGTGACAACTTAGGAGTTGGTTCTAAAAAAACTACGAAAATGCCTT
1 TCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTTGGTTCT-AAAAAATTACGAAAATGCC-T
* * * *
1557822 TAAAGGATACTTTCGACATGAAAGTGCCCGATACCCCTAAAAGACTTAAAAAGATTATGGATGTG
64 TAAGGGATACTTTCGACATAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGATTATGGATG-G
*
1557887 ATGAACCTATTCTAAATACCCACCT
128 ATGAACCTATCCTAAATACCCACCT
* * * * * * * *
1557912 TCGGCATAAAAAC-GAACTCGATGACAAACGAGGA-TTCGATTCTAAAAAAATTAAGAAAATGCC
1 TCGGCATAAAAGCAG-ACCCGGTGATAACCTAGGACTT-GGTTCT-AAAAAATTACGAAAATGCC
* ** * * *
1557975 --------T--TTT-GATATAAAAGTACCTAATACCCCTAAAGGACTTACAAAGGATTTTAGATG
63 TTAAGGGATACTTTCGACATAAAAGTACCCGATACCCCTAAAGGACTTA-AAAAGATTATGGAT-
* *
1558029 GGATGAACCTATCCTAAATACCTACTT
126 GGATGAACCTATCCTAAATACCCACCT
* * * * * * * * * *
1558056 TCGACATAAAAACAGACCCAGTAACAACCTAAGAATTGGTTCTAAAAAAATTATGAAAATACCCC
1 TCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTTGGTTCT-AAAAAATTACGAAAAT-GCCT
* * *
1558121 TAGGGGATACATTCGACGTAAAAGTACC
64 TAAGGGATACTTTCGACATAAAAGTACC
1558149 TAATACTCTT
Statistics
Matches: 435, Mismatches: 83, Indels: 55
0.76 0.14 0.10
Matches are distributed among these distances:
143 28 0.06
144 82 0.19
145 6 0.01
146 1 0.00
153 71 0.16
154 54 0.12
155 92 0.21
156 48 0.11
157 53 0.12
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (152 bp):
TCGGCATAAAAGCAGACCCGGTGATAACCTAGGACTTGGTTCTAAAAAATTACGAAAATGCCTTA
AGGGATACTTTCGACATAAAAGTACCCGATACCCCTAAAGGACTTAAAAAGATTATGGATGGATG
AACCTATCCTAAATACCCACCT
Found at i:1558101 original size:144 final size:143
Alignment explanation
Indices: 1557852--1558115 Score: 327
Period size: 144 Copynumber: 1.8 Consensus size: 143
1557842 AAAGTGCCCG
* * * *
1557852 ATACCCCTAAAAGACTTAAAAAGATTATGGATGTGATGAACCTATTCTAAATACCCACCTTCGGC
1 ATACCCCTAAAAGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGAC
* * * *
1557917 ATAAAAACGAACTCGATGACAAACGAGGATTCGATTCTAAAAAAATTAAGAAAATGCCTTTTGAT
66 ATAAAAACGAACCCGATAACAAACAAGAATTCGATTCTAAAAAAATTAAGAAAATGCCTTTTGAT
1557982 ATAAAAGTACCTA
131 ATAAAAGTACCTA
* * * * *
1557995 ATACCCCTAAAGGACTTACAAAGGATTTTAGATGGGATGAACCTATCCTAAATACCTACTTTCGA
1 ATACCCCTAAAAGACTTA-AAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGA
* * *
1558060 CATAAAAAC-AGACCC-AGTAACAACCTAAGAATT-GGTTCTAAAAAAATTATGAAAAT
65 CATAAAAACGA-ACCCGA-TAACAAAC-AAGAATTCGATTCTAAAAAAATTAAGAAAAT
1558116 ACCCCTAGGG
Statistics
Matches: 101, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
143 19 0.19
144 77 0.76
145 5 0.05
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (143 bp):
ATACCCCTAAAAGACTTAAAAAGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCGAC
ATAAAAACGAACCCGATAACAAACAAGAATTCGATTCTAAAAAAATTAAGAAAATGCCTTTTGAT
ATAAAAGTACCTA
Found at i:1559729 original size:13 final size:13
Alignment explanation
Indices: 1559717--1559759 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1559707 CATTTTTTTC
1559717 CTTTTTTCATTT-
1 CTTTTTTCATTTA
*
1559729 CTTTTTTTATTTA
1 CTTTTTTCATTTA
* *
1559742 TTTTTTTCTTTTA
1 CTTTTTTCATTTA
1559755 CTTTT
1 CTTTT
1559760 CATTTAATTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (13 bp):
CTTTTTTCATTTA
Found at i:1560305 original size:167 final size:165
Alignment explanation
Indices: 1560076--1560633 Score: 506
Period size: 167 Copynumber: 3.4 Consensus size: 165
1560066 AAAATAAGAT
* ** * * * *
1560076 ATAAATTGAATTTTGAAAAACTGATTTAATGGGAGTTTAATAACAATATTAGATGAATTTTAAAA
1 ATAAATT-AATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAA
* * * * *
1560141 ATTTTAAACCGAGAAAAATCTCTCTGAAAAATATTTATGGAGTAGAAAACTCGATTTTTCAAAAA
65 ATTTTAAACCAAGAAAAATC-CTCTGAAAAATATTTACGGAGTAGAAAACTCCATATTTCGAAAA
**
1560206 TAAAGAGATTTTGAAGAAAAAATTCAAAACTCATGAAA
129 T-AAGAGATTTCAAAGAAAAAATTCAAAACTCATGAAA
* *
1560244 ATAAATTAATTTTTAAAAATTGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAA
1 ATAAATTAATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAA
* * ** * * ** *
1560309 TTTTAAATCTATCAAAATCCTCCCGAAGAAA-ATTTACAGAAAAGAAAACTCTATATTTCGAAAA
66 TTTTAAACCAAGAAAAATCCT-CTGAA-AAATATTTACGGAGTAGAAAACTCCATATTTCGAAAA
* * *
1560373 TAGGATAATTTCAAAGAAAAAATTCACAACTCATGAAA
129 TAAGA-GATTTCAAAGAAAAAATTCAAAACTCATGAAA
* * * *
1560411 ATGAAA-GAAATTTT--ATACTCATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAA
1 AT-AAATTAATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAA
** * * *
1560473 ATTAAAAACTAAGAAAAATCCCCTCG-AAAATATTTACGAAGTAGAAAACTCCATATTTCGAAAA
65 ATTTTAAACCAAGAAAAATCCTCT-GAAAAATATTTACGGAGTAGAAAACTCCATATTTCGAAAA
*
1560537 TAAGAGAAATTTCAAAG--AAAA-TCAATAACTCGT-AAA
129 TAAGAG--ATTTCAAAGAAAAAATTCAA-AACTCATGAAA
** * * * * * * *
1560573 ATAGAAGGAAATTTTCAAAACTAATTTAAT-GGTAATTAAATGATAATATTTAAGGAATTTT
1 ATA-AATTAATTTTTAAAAACTGATTTAATATG-AATTAAATAATAATATTTGATGAATTTT
1560634 GGATTAAAAA
Statistics
Matches: 320, Mismatches: 56, Indels: 31
0.79 0.14 0.08
Matches are distributed among these distances:
161 1 0.00
162 10 0.03
163 21 0.07
164 35 0.11
165 104 0.32
166 5 0.02
167 131 0.41
168 13 0.04
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (165 bp):
ATAAATTAATTTTTAAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAA
TTTTAAACCAAGAAAAATCCTCTGAAAAATATTTACGGAGTAGAAAACTCCATATTTCGAAAATA
AGAGATTTCAAAGAAAAAATTCAAAACTCATGAAA
Found at i:1561915 original size:44 final size:45
Alignment explanation
Indices: 1561863--1561954 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 45
1561853 TATTTTCGTT
*
1561863 TCCTTGGTTTATTA-ATTTTTCTTTTCTTTTTGCTCTCTCTTTTC
1 TCCTTGGTTTATTATATTTTTCTTTTCATTTTGCTCTCTCTTTTC
* *
1561907 TCCTTGGTTTATTATTTTTTTTCTTTTCATTTTGCTCTCTTTTTTC
1 TCCTTGGTTTATTA-TATTTTTCTTTTCATTTTGCTCTCTCTTTTC
1561953 TC
1 TC
1561955 TTTCCTCTGT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 14 0.33
46 29 0.67
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (45 bp):
TCCTTGGTTTATTATATTTTTCTTTTCATTTTGCTCTCTCTTTTC
Found at i:1562398 original size:27 final size:27
Alignment explanation
Indices: 1562354--1562415 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
1562344 AAGTCTGAGC
* * * *
1562354 GAAAGTTCATTTGGGGAGTTTAAGAGT
1 GAAAGTTCATCTGAGGAGTCTAAGAAT
*
1562381 GAAAGTTCATCTGAGGAGTCTGAGAAT
1 GAAAGTTCATCTGAGGAGTCTAAGAAT
1562408 GAAAGTTC
1 GAAAGTTC
1562416 GTCGTCTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (27 bp):
GAAAGTTCATCTGAGGAGTCTAAGAAT
Found at i:1562500 original size:21 final size:20
Alignment explanation
Indices: 1562456--1562496 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1562446 TGATGATGAT
*
1562456 AGTGCTGATGAACTTGAAAA
1 AGTGCTGATGAACTCGAAAA
1562476 AGTGCTGATGAACTCGAAAA
1 AGTGCTGATGAACTCGAAAA
1562496 A
1 A
1562497 AGTGAAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.22
Consensus pattern (20 bp):
AGTGCTGATGAACTCGAAAA
Found at i:1571810 original size:56 final size:58
Alignment explanation
Indices: 1571749--1571882 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 58
1571739 TAATTTGATA
1571749 ATTTGCATCATTG-AATA-TGAGGTTGGAATTTACAGCATGATAGTTGATCATTTTCC
1 ATTTGCATCATTGAAATATTGAGGTTGGAATTTACAGCATGATAGTTGATCATTTTCC
*
1571805 ATTTGCATCATTTGTGATAAATATTTTTTAGGTTGGAATTTACAGCATGATAGTTGATCATTTTC
1 ATTTGCATCA--T-TG--AAATA---TTGAGGTTGGAATTTACAGCATGATAGTTGATCATTTTC
1571870 C
58 C
*
1571871 ATTTGTATCATT
1 ATTTGCATCATT
1571883 TGTGATAAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
56 10 0.15
58 1 0.02
59 2 0.03
62 4 0.06
63 1 0.02
64 1 0.02
66 47 0.71
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (58 bp):
ATTTGCATCATTGAAATATTGAGGTTGGAATTTACAGCATGATAGTTGATCATTTTCC
Found at i:1571843 original size:66 final size:66
Alignment explanation
Indices: 1571768--1571893 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
1571758 ATTGAATATG
1571768 AGGTTGGAATTTACAGCATGATAGTTGATCATTTTCCATTTGCATCATTTGTGATAAATATTTTT
1 AGGTTGGAATTTACAGCATGATAGTTGATCATTTTCCATTTGCATCATTTGTGATAAATATTTTT
1571833 T
66 T
*
1571834 AGGTTGGAATTTACAGCATGATAGTTGATCATTTTCCATTTGTATCATTTGTGATAAATA
1 AGGTTGGAATTTACAGCATGATAGTTGATCATTTTCCATTTGCATCATTTGTGATAAATA
1571894 CTTTGTATCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (66 bp):
AGGTTGGAATTTACAGCATGATAGTTGATCATTTTCCATTTGCATCATTTGTGATAAATATTTTT
T
Found at i:1571906 original size:32 final size:32
Alignment explanation
Indices: 1571877--1571937 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
1571867 TTCCATTTGT
1571877 ATCATTTGTGATAAATACTTTGTATCATTTAC
1 ATCATTTGTGATAAATACTTTGTATCATTTAC
* *
1571909 ATCATTTGTGATATATATTTTGTATCATT
1 ATCATTTGTGATAAATACTTTGTATCATT
1571938 AAAGCAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.51
Consensus pattern (32 bp):
ATCATTTGTGATAAATACTTTGTATCATTTAC
Found at i:1578304 original size:21 final size:20
Alignment explanation
Indices: 1578280--1578346 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
1578270 CATTATTATA
1578280 TAAAAATAATTATATATAAAT
1 TAAAAATAATTATATAT-AAT
* *
1578301 TAAATATAATTTTATATAAT
1 TAAAAATAATTATATATAAT
** *
1578321 TTTAAATTATTATATA-AAT
1 TAAAAATAATTATATATAAT
1578340 ATAAAAA
1 -TAAAAA
1578347 CAAATTTATT
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
19 3 0.08
20 18 0.50
21 15 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAAAATAATTATATATAAT
Found at i:1578322 original size:10 final size:10
Alignment explanation
Indices: 1578285--1578336 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
1578275 TTATATAAAA
1578285 ATAATTATAT
1 ATAATTATAT
*
1578295 ATAAATTAAAT
1 AT-AATTATAT
*
1578306 ATAATTTTAT
1 ATAATTATAT
* *
1578316 ATAATTTTAA
1 ATAATTATAT
*
1578326 ATTATTATAT
1 ATAATTATAT
1578336 A
1 A
1578337 AATATAAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATAATTATAT
Found at i:1579470 original size:8 final size:8
Alignment explanation
Indices: 1579457--1579485 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1579447 ATTTTTCTTC
1579457 AAAATATA
1 AAAATATA
1579465 AAAATATA
1 AAAATATA
1579473 AAAATA-A
1 AAAATATA
1579480 AAAATA
1 AAAATA
1579486 AAATTATGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATATA
Found at i:1579633 original size:24 final size:25
Alignment explanation
Indices: 1579586--1579643 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
1579576 AACTTTAATT
* *
1579586 TTATATTAATAATATATTATTTAAA
1 TTATATTAATAAAATATTAATTAAA
*
1579611 TTAT-TTAATAAAATTTTAATTAAA
1 TTATATTAATAAAATATTAATTAAA
1579635 TTAATATTA
1 TT-ATATTA
1579644 TTTAATACGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 19 0.68
25 6 0.21
26 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTATATTAATAAAATATTAATTAAA
Found at i:1579646 original size:20 final size:19
Alignment explanation
Indices: 1579585--1579648 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
1579575 TAACTTTAAT
* *
1579585 TTTATATTAATAATATATTA
1 TTTAAATTAATTA-ATATTA
* **
1579605 TTTAAATTATTTAATAAAA
1 TTTAAATTAATTAATATTA
*
1579624 TTTTAATTAAATTAATATTA
1 TTTAAATT-AATTAATATTA
1579644 TTTAA
1 TTTAA
1579649 TACGTAATAT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
19 11 0.33
20 22 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAATTAATTAATATTA
Found at i:1580595 original size:4 final size:4
Alignment explanation
Indices: 1580586--1580611 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1580576 ATAATCTTTA
1580586 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
1580612 AATCTTGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:1581158 original size:3 final size:3
Alignment explanation
Indices: 1581150--1581184 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1581140 CTCTTACCCA
1581150 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1581185 AGATTGATGT
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:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.