Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 51 of 132
Found at i:14022520 original size:18 final size:18
Alignment explanation
Indices: 14022486--14022549 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
14022476 AGAATATTTT
** *
14022486 TAAATTTAAATAATAAAT
1 TAAATTTAAATTTTAAAA
14022504 TAAATTTAAATTTTAAAA
1 TAAATTTAAATTTTAAAA
* * *
14022522 CATATTTAAATTTAAAAA
1 TAAATTTAAATTTTAAAA
14022540 TAAATTTAAA
1 TAAATTTAAA
14022550 ATGGTTTAGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTTAAATTTTAAAA
Found at i:14022549 original size:42 final size:41
Alignment explanation
Indices: 14022466--14022545 Score: 117
Period size: 42 Copynumber: 2.0 Consensus size: 41
14022456 ACTTTTGTTT
* * *
14022466 ATTTAAATTTAGAATATTTTTAAATTTAAATAATAAATTAA
1 ATTTAAATTTAAAACATATTTAAATTTAAATAATAAATTAA
14022507 ATTTAAATTTTAAAACATATTTAAATTTAAA-AATAAATT
1 ATTTAAA-TTTAAAACATATTTAAATTTAAATAATAAATT
14022546 TAAAATGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 15 0.43
42 20 0.57
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (41 bp):
ATTTAAATTTAAAACATATTTAAATTTAAATAATAAATTAA
Found at i:14023323 original size:208 final size:208
Alignment explanation
Indices: 14022902--14023563 Score: 873
Period size: 208 Copynumber: 3.2 Consensus size: 208
14022892 TTTCAATCCG
* * * *
14022902 CTTCTCAGTATCTCATCAGGATGATAACCATTTTATTGCTTTGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* *
14022967 AGGAAGCTGGGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
* * * * ** * * * *
14023032 GTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATCAGAAAG
131 GTATCTCATCAGGAAGATGACCGCTTCGCTTGTTT-GATCCACTTCTCTGTGTCTCATTAGGAAG
* * * *
14023097 GCGAATTTGGTCCA
195 ACGGATCTGGTTCA
* *
14023111 CTTCTCAGTATCTCATCA-GAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* * * *
14023175 AAGAAGTTGGGGTTCGAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTTA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
*
14023240 GTATCTTATCAGGAAGATGACCGCTTCGCTTAGTTTGATCCACTTCTCTGTGTCTCATTAGGAAG
131 GTATCTCATCAGGAAGATGACCGCTTCGCTT-GTTTGATCCACTTCTCTGTGTCTCATTAGGAAG
14023305 ACGGATCTGGTTCA
195 ACGGATCTGGTTCA
* ** * *
14023319 CTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGACCTGCTTCT-TATATCTCATT
1 CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* ** * * *
14023383 AGGAAGCTGGGGTTCGAAGATTCT-CTCACTTTGAGCCTGATTTTATTGATTTGGTCTTCTTCAC
66 AGGAAGCTGGGGTTCGAAGATT-TGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTC
*
14023447 AGTATCTCATCAAGAAGATGACCG-TATCGCTTGTTTTGATCCACTTCTCCTGTGTCTCATTAGG
130 AGTATCTCATCAGGAAGATGACCGCT-TCGCTTG-TTTGATCCACTTCT-CTGTGTCTCATTAGG
*
14023511 AAGACAGATCTGGTTCA
192 AAGACGGATCTGGTTCA
*
14023528 CTTCTCTGTATCTCATCAGGAAGGTAACCACTTTAT
1 CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTAT
14023564 ATTTTGGATA
Statistics
Matches: 401, Mismatches: 46, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
207 2 0.00
208 281 0.70
209 118 0.29
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.37
Consensus pattern (208 bp):
CTTCTCAGTATCTCATCAGGAAGGTAACCACTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
GTATCTCATCAGGAAGATGACCGCTTCGCTTGTTTGATCCACTTCTCTGTGTCTCATTAGGAAGA
CGGATCTGGTTCA
Found at i:14038977 original size:30 final size:30
Alignment explanation
Indices: 14038904--14039304 Score: 203
Period size: 29 Copynumber: 13.8 Consensus size: 30
14038894 GAAGTTCGTC
* * *
14038904 AAAAATTGAATTTTTGGACA-TTCGGGGGT
1 AAAAATGGAATTTTTGGAAAGTTCGAGGGT
*
14038933 -AAAATGGTAA-TTTTGGAAAGTTCGAGGTT
1 AAAAATGG-AATTTTTGGAAAGTTCGAGGGT
*
14038962 AAAAATAGAATTTTTGG-AAG-TCTGAGGGT
1 AAAAATGGAATTTTTGGAAAGTTC-GAGGGT
* * *
14038991 -AAAATGGTAATTTTAGGAAAATT-TAGGGT
1 AAAAATGG-AATTTTTGGAAAGTTCGAGGGT
* * *
14039020 AAAAATGGAATTTTTGG-ATGTTTGGGGGT
1 AAAAATGGAATTTTTGGAAAGTTCGAGGGT
* * *
14039049 -AAAATGGTGATTTTAGG-AAGTT-TAGGGTT
1 AAAAATGG-AATTTTTGGAAAGTTCGAGGG-T
*
14039078 AAAAATGGAATTTTT-GAAAGTT-TAGTGGT
1 AAAAATGGAATTTTTGGAAAGTTCGAG-GGT
* ** *
14039107 -AAAATGGTAATTTTTGGGAA-TTTTAGAGT
1 AAAAATGG-AATTTTTGGAAAGTTCGAGGGT
*
14039136 CAAAAATGGAATTTTTGGACA-TTCGAGGGT
1 -AAAAATGGAATTTTTGGAAAGTTCGAGGGT
* *
14039166 -AAAATGGTAATTTTGGGAAAGTTTG-GGGTT
1 AAAAATGG-AATTTTTGGAAAGTTCGAGGG-T
* * *
14039196 AAAAA--CAATTTTTGG-AAG-TCCAAGGT
1 AAAAATGGAATTTTTGGAAAGTTCGAGGGT
* *
14039222 -AAAATGGTAGTTTTTAGG-AAGTT-TAGGGT
1 AAAAATGG-AATTTTT-GGAAAGTTCGAGGGT
* *
14039251 CAAAAATGGAATTTTTGGAAATTTAG-GGGT
1 -AAAAATGGAATTTTTGGAAAGTTCGAGGGT
14039281 --AAATGGTAATTTTTGTG-AAGTTCG
1 AAAAATGG-AATTTTTG-GAAAGTTCG
14039305 TGATAATGTA
Statistics
Matches: 290, Mismatches: 46, Indels: 73
0.71 0.11 0.18
Matches are distributed among these distances:
25 4 0.01
26 2 0.01
27 11 0.04
28 77 0.27
29 106 0.37
30 71 0.24
31 19 0.07
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAAGTTCGAGGGT
Found at i:14039062 original size:116 final size:116
Alignment explanation
Indices: 14038901--14039293 Score: 460
Period size: 116 Copynumber: 3.4 Consensus size: 116
14038891 TAGGAAGTTC
*
14038901 GTCAAAAATTGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTT-GGAAAGTTCGAGGTTAAA
1 GTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAAGTT-GAGGTTAAA
*
14038965 AATAGAATTTTTGGAAGTCTGAGGGTAAAATGGTAATTTTAGGAAAATTTAGG
65 AATAGAATTTTTGGAAGTCTCAGGGTAAAATGGTAATTTTAGG-AAATTTAGG
** * * *
14039018 GT-AAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGTGATTTTAGG-AAGTTTAGGGTTAAA
1 GTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAAGTTGA-GGTTAAA
* * * * * *
14039081 AATGGAATTTTTGAAAGT-TTAGTGGTAAAATGGTAATTTTTGGGAATTTTAGA
65 AATAGAATTTTTGGAAGTCTCAG-GGTAAAATGGTAA-TTTTAGGAAATTTAGG
* * *
14039134 GTCAAAAATGGAATTTTTGGACATTCGAGGGTAAAATGGTAATTTTGGGAAAGTTTGGGGTT-AA
1 GTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAAG-TTGAGGTTAAA
* * * *
14039198 AA-ACAATTTTTGGAAGTC-CAAGGTAAAATGGTAGTTTTTAGGAAGTTTAGG
65 AATAGAATTTTTGGAAGTCTCAGGGTAAAATGGTA-ATTTTAGGAAATTTAGG
* **
14039249 GTCAAAAATGGAATTTTTGGAAATTTAGGGGT-AAATGGTAATTTT
1 GTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTT
14039294 TGTGAAGTTC
Statistics
Matches: 234, Mismatches: 33, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
114 13 0.06
115 57 0.24
116 101 0.43
117 54 0.23
118 7 0.03
119 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (116 bp):
GTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAAGTTGAGGTTAAAA
ATAGAATTTTTGGAAGTCTCAGGGTAAAATGGTAATTTTAGGAAATTTAGG
Found at i:14039294 original size:58 final size:58
Alignment explanation
Indices: 14038901--14039302 Score: 365
Period size: 58 Copynumber: 6.9 Consensus size: 58
14038891 TAGGAAGTTC
* * ** *
14038901 GTCAAAAATTGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTT-GGAAAG-TTCGAG
1 GTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTAGG-AAGTTTAG-G
* * * * *
14038959 GTTAAAAATAGAATTTTTGGAAGTCT-GAGGGTAAAATGGTAATTTTAGGAAAATTTAGG
1 GTCAAAAATGGAATTTTTGGAAATTTAG-GGGTAAAATGGTAATTTTAGG-AAGTTTAGG
** * *
14039018 GT-AAAAATGGAATTTTTGGATGTTTGGGGGTAAAATGGTGATTTTAGGAAGTTTAGG
1 GTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTAGGAAGTTTAGG
* * * * *
14039075 GTTAAAAATGGAATTTTT-GAAAGTTTAGTGGTAAAATGGTAATTTTTGGGAATTTTAGA
1 GTCAAAAATGGAATTTTTGGAAA-TTTAGGGGTAAAATGGTAA-TTTTAGGAAGTTTAGG
* * * *
14039134 GTCAAAAATGGAATTTTTGGACA-TTCGAGGGTAAAATGGTAATTTTGGGAAAGTTTGGG
1 GTCAAAAATGGAATTTTTGGAAATTTAG-GGGTAAAATGGTAATTTTAGG-AAGTTTAGG
* * * ** * *
14039193 GTTAAAAA--CAATTTTTGGAAGTCCA-AGGTAAAATGGTAGTTTTTAGGAAGTTTAGG
1 GTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTA-ATTTTAGGAAGTTTAGG
*
14039249 GTCAAAAATGGAATTTTTGGAAATTTAGGGGT-AAATGGTAATTTTTGTGAAGTT
1 GTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTAG-GAAGTT
14039303 CGTGATAATG
Statistics
Matches: 281, Mismatches: 47, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
56 27 0.10
57 34 0.12
58 146 0.52
59 68 0.24
60 6 0.02
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (58 bp):
GTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAATTTTAGGAAGTTTAGG
Found at i:14039342 original size:28 final size:29
Alignment explanation
Indices: 14039309--14039368 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
14039299 AGTTCGTGAT
14039309 AATGTAAATTTTAAAAG-TTTGGGGGCAA
1 AATGTAAATTTTAAAAGTTTTGGGGGCAA
* ** *
14039337 AATGTAACTTTTGGAAGTTTTGGGGTCAA
1 AATGTAAATTTTAAAAGTTTTGGGGGCAA
14039366 AAT
1 AAT
14039369 ATGATTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (29 bp):
AATGTAAATTTTAAAAGTTTTGGGGGCAA
Found at i:14039368 original size:29 final size:29
Alignment explanation
Indices: 14039309--14039386 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
14039299 AGTTCGTGAT
**
14039309 AATGTAAATTTTAAAAG-TTTGGGGGCAA
1 AATGTAAATTTTGGAAGTTTTGGGGGCAA
* *
14039337 AATGTAACTTTTGGAAGTTTTGGGGTCAA
1 AATGTAAATTTTGGAAGTTTTGGGGGCAA
* * *
14039366 AATATGATTTTTGGATAGTTT
1 AATGTAAATTTTGGA-AGTTT
14039387 AGGGACCTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.34
29 22 0.54
30 5 0.12
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (29 bp):
AATGTAAATTTTGGAAGTTTTGGGGGCAA
Found at i:14041318 original size:17 final size:16
Alignment explanation
Indices: 14041298--14041329 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
14041288 CTTTTGTTTA
14041298 TTTAAATTTAGAATATT
1 TTTAAATTTA-AATATT
14041315 TTTAAATTTAAATAT
1 TTTAAATTTAAATAT
14041330 AAATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTAAATTTAAATATT
Found at i:14041324 original size:6 final size:6
Alignment explanation
Indices: 14041315--14041380 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
14041305 TTAGAATATT
* * ** *
14041315 TTTAAA TTTAAA TATAAA TATAAA TTTAAA TTTTAAA -ACATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
**
14041363 TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
14041381 ATGGGTTTAG
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
5 2 0.04
6 38 0.83
7 6 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:14041340 original size:18 final size:17
Alignment explanation
Indices: 14041317--14041380 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
14041307 AGAATATTTT
*
14041317 TAAATTTAAATATAAATA
1 TAAATTTAAATTTAAA-A
14041335 TAAATTTAAATTTTAAAA
1 TAAATTTAAA-TTTAAAA
* *
14041353 CATATTTAAATTTAAAAA
1 TAAATTTAAATTT-AAAA
14041371 TAAATTTAAA
1 TAAATTTAAA
14041381 ATGGGTTTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 3 0.08
18 31 0.79
19 5 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:14041366 original size:42 final size:41
Alignment explanation
Indices: 14041297--14041380 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 41
14041287 ACTTTTGTTT
* * * *
14041297 ATTTAAATTTAGAATATTTTTAAATTTAAATATAAATATAA
1 ATTTAAATTTAAAACATATTTAAATTTAAAAATAAATATAA
*
14041338 ATTTAAATTTTAAAACATATTTAAATTTAAAAATAAATTTAA
1 ATTTAAA-TTTAAAACATATTTAAATTTAAAAATAAATATAA
14041380 A
1 A
14041381 ATGGGTTTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 7 0.19
42 30 0.81
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (41 bp):
ATTTAAATTTAAAACATATTTAAATTTAAAAATAAATATAA
Found at i:14042159 original size:209 final size:207
Alignment explanation
Indices: 14041737--14042392 Score: 859
Period size: 209 Copynumber: 3.1 Consensus size: 207
14041727 TTTCAATCCG
14041737 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* *
14041802 AGGAAGCTGGGGTTCGAAGATTCGCTTACTTTGAGCTTGGTTTCATTGATTTGGCCTTCTTCTCA
66 AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGCCTTCTTCTCA
* * ** * * *
14041867 GTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCA-TATGAAA
131 GTATCTCATCAGGAAGATGAC-GCATCGCTTGTTT-GATCCACTTCTCTGTGTCTCATTA-GGAA
* * * *
14041931 GGCGAATTTGGTCCA
193 GACGGATCTGGTTCA
*
14041946 CTTCTCAGTATCTCATCTA-GAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCAT
1 CTTCTCAGTATCTCATC-AGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCAT
* * * * *
14042010 CAAGAAGTTGGGGTTCGAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTT
65 CAGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGCCTTCTTCTC
* *
14042075 AGTATCTTATCAGGAAGATGATCGCTTCGCTTAGTTTGATCCACTTCTCTGTGTCTCATTAGGAA
130 AGTATCTCATCAGGAAGATGA-CGCATCGCTT-GTTTGATCCACTTCTCTGTGTCTCATTAGGAA
14042140 GACGGATCTGGTTCA
193 GACGGATCTGGTTCA
* * *** * * *
14042155 CTTCTCTGTATCTCATCAGGAAGGTAACTGCTTTATTGCTTCGAGCTGCTTCTTAATATCTCATT
1 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* * * *
14042220 AGGAAGCTGGGGTTCGAAGATTCT-CTCACTTTGAGCCTGATTTTATTGATTTGGTCTTCTTCTC
66 AGGAAGCTGGGGTTCGAAGATT-TGCTCACTTTGAGCTTGGTTTCATTGATTTGGCCTTCTTCTC
* *
14042284 AGTATCTCATCAAGAAGATGACCACATCGCTTGTTTTGATCCACTTCTCTGTGTCTCATTAGGAA
130 AGTATCTCATCAGGAAGATGA-CGCATCGCTTG-TTTGATCCACTTCTCTGTGTCTCATTAGGAA
*
14042349 GACAGATCTGGTTCA
193 GACGGATCTGGTTCA
** *
14042364 CTTCTGTGTATCTCATCAGGAAGGTAACC
1 CTTCTCAGTATCTCATCAGGAAGATAACC
14042393 GCTTTATATT
Statistics
Matches: 394, Mismatches: 46, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
208 2 0.01
209 383 0.97
210 9 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (207 bp):
CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
AGGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGCCTTCTTCTCA
GTATCTCATCAGGAAGATGACGCATCGCTTGTTTGATCCACTTCTCTGTGTCTCATTAGGAAGAC
GGATCTGGTTCA
Found at i:14050548 original size:23 final size:23
Alignment explanation
Indices: 14050518--14050579 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
14050508 TTAGAATTAT
14050518 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
14050541 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
* *
14050564 AATGCGAAAAAATGCA
1 TATGCGAAAATATGCA
14050580 TGTATGTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.23
Consensus pattern (23 bp):
TATGCGAAAATATGCAAATATGC
Found at i:14050590 original size:23 final size:23
Alignment explanation
Indices: 14050519--14050591 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
14050509 TAGAATTATT
14050519 ATGCGAAAATATGCAAATATGCT-
1 ATGCGAAAATATGCAAATATG-TA
*
14050542 ATGCGAAAATATGCAAATATGCA
1 ATGCGAAAATATGCAAATATGTA
* **
14050565 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAATATGCAAATATGTA
14050588 ATGC
1 ATGC
14050592 AAGAAAAGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (23 bp):
ATGCGAAAATATGCAAATATGTA
Found at i:14050598 original size:23 final size:23
Alignment explanation
Indices: 14050536--14050603 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
14050526 AATATGCAAA
* * * **
14050536 TATGCTATGCGAAAATATGCAAA
1 TATGCAATGCGAAAAAAGGCATG
*
14050559 TATGCAATGCGAAAAAATGCATG
1 TATGCAATGCGAAAAAAGGCATG
*
14050582 TATGTAATGC-AAGAAAAGGCAT
1 TATGCAATGCGAA-AAAAGGCAT
14050604 TGATTTTTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (23 bp):
TATGCAATGCGAAAAAAGGCATG
Found at i:14054618 original size:24 final size:26
Alignment explanation
Indices: 14054571--14054646 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 26
14054561 TTCGGGGTTA
14054571 AAATGGTAATTTTGGGAAAGTTTAGT
1 AAATGGTAATTTTGGGAAAGTTTAGT
*
14054597 AAATGG-AATTTT-TGAAAGTTTAAGGGT
1 AAATGGTAATTTTGGGAAAGTTT-A--GT
*
14054624 AAAATGGTAATTTTAGGAAAGTT
1 -AAATGGTAATTTTGGGAAAGTT
14054647 CAGGGTCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 8 0.19
25 7 0.17
26 6 0.14
27 2 0.05
28 6 0.14
29 6 0.14
30 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.37
Consensus pattern (26 bp):
AAATGGTAATTTTGGGAAAGTTTAGT
Found at i:14054685 original size:59 final size:59
Alignment explanation
Indices: 14054505--14055030 Score: 345
Period size: 59 Copynumber: 9.0 Consensus size: 59
14054495 TTTGATGCCA
** * * * * * *
14054505 GGGGTAAAATTCTAATTTTTAGG-AAGTTCGAGGTTAAAAAATAGAATTTTTGGACA-TTCG
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTTC-AGGGTCAAAAATGGAATTTTTAGA-AGTTTG
* * *
14054565 GGGTTAAAATGGTAATTTTGGGAAAGTTTA--GT---AAATGGAATTTTT-GAAAGTTTA
1 GGGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTAG-AAGTTTG
* * * *
14054619 AGGGTAAAATGGTAATTTTAGGAAAGTTCAGGGTCAAAAATGGAATTTTTAGAAGTCTA
1 GGGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTG
* * *
14054678 AGGGTAAAATGGTAATATTTGGG-AAGTT-TGGAGTCAAAAATGGAATTTTTAGACA-TTCG
1 GGGGTAAAATGGTAAT-TTTGGGAAAGTTCAGG-GTCAAAAATGGAATTTTTAGA-AGTTTG
** * *
14054737 GGGGTAAAATGGTAATTTTGGGAAAGTTTGGGGTC-AAAATAGAATTTTTGGAAGTTTG
1 GGGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTG
** * * * *
14054795 GGGGTAAAATGGTAATTTTTAGCAAGTTCAAGGTGAAAAATGGAATTTTTGGACA-TTTG
1 GGGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTAGA-AGTTTG
* * * * * * * *
14054854 GGGGTAGAATGGTAATTATGGGAATGTTCGGGGTCAAAAATAGAATTTTTGGAA-ATTC
1 GGGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTG
* * * * * * * * **
14054912 GAGGTAAAGTGGTAATTTTTGTG-AAGTTC-GAGTGCAATAATGTAAATTTTGGAAAGTTCA
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTTCAGGGT-CAAAAATGGAATTTTTAG-AAGTTTG
*
14054972 GGGGTCAAAAT-GTAATTCTT-GGAAAGTTTAAGGGTCAAAATAT-G-ATTTTTAGACAGTTT
1 GGGGT-AAAATGGTAATT-TTGGGAAAG-TTCAGGGTCAAAA-ATGGAATTTTTAGA-AGTTT
14055031 AAGGACCTTC
Statistics
Matches: 370, Mismatches: 68, Indels: 56
0.75 0.14 0.11
Matches are distributed among these distances:
53 2 0.01
54 41 0.11
56 2 0.01
57 5 0.01
58 88 0.24
59 166 0.45
60 51 0.14
61 10 0.03
62 5 0.01
ACGTcount: A:0.34, C:0.05, G:0.27, T:0.34
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTAGAAGTTTG
Found at i:14054839 original size:117 final size:117
Alignment explanation
Indices: 14054620--14055031 Score: 390
Period size: 117 Copynumber: 3.5 Consensus size: 117
14054610 GAAAGTTTAA
* * * *
14054620 GGGTAAAATGGTAATTTTAGGAAAGTTCAGGGTCAAAAATGGAATTTTTAGAAGTCTAAGGGTAA
1 GGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATAGAATTTTTAGAAGTTTAGGGGTAA
* ** * *
14054685 AATGGTAATATTTGGGAAGTT-TGGAGTCAAAAATGGAATTTTTAGACATTCGG
66 AATGGTAAT-TTTTGGAAGTTCAAG-GTGAAAAATGGAATTTTTGGACATTCGG
** * *
14054738 GGGTAAAATGGTAATTTTGGGAAAGTTTGGGGTC-AAAATAGAATTTTTGGAAGTTTGGGGGTAA
1 GGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATAGAATTTTTAGAAGTTTAGGGGTAA
* *
14054802 AATGGTAATTTTTAGCAAGTTCAAGGTGAAAAATGGAATTTTTGGACATTTGG
66 AATGGTAATTTTT-GGAAGTTCAAGGTGAAAAATGGAATTTTTGGACATTCGG
* * * * * * * *
14054855 GGGTAGAATGGTAATTATGGGAATGTTCGGGGTCAAAAATAGAATTTTTGGAA-ATTCGAGGTAA
1 GGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATAGAATTTTTAGAAGTTTAGGGGTAA
* * * * * * *
14054919 AGTGGTAATTTTTGTGAAGTTCGA-GTGCAATAATGTAAATTTTGGAAAGTTCAG
66 AATGGTAATTTTTG-GAAGTTCAAGGTG-AAAAATGGAATTTTTGGACA-TTCGG
*
14054973 GGGTCAAAAT-GTAATTCTT-GGAAAGTTTAAGGGTC-AAAATATG-ATTTTTAGACAGTTTA
1 GGGT-AAAATGGTAATT-TTGGGAAAG-TTCAGGGTCAAAAATA-GAATTTTTAGA-AGTTTA
14055032 AGGACCTTCT
Statistics
Matches: 243, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
116 7 0.03
117 138 0.57
118 82 0.34
119 14 0.06
120 2 0.01
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (117 bp):
GGGTAAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATAGAATTTTTAGAAGTTTAGGGGTAA
AATGGTAATTTTTGGAAGTTCAAGGTGAAAAATGGAATTTTTGGACATTCGG
Found at i:14054964 original size:176 final size:174
Alignment explanation
Indices: 14054541--14055034 Score: 501
Period size: 176 Copynumber: 2.8 Consensus size: 174
14054531 TTCGAGGTTA
*
14054541 AAAAATAGAATTTTTGGACATTCGGGGTTAAAATGGTAATTTTGGGAAAGTTTAGT---AAATGG
1 AAAAATAGAATTTTTGGACATTCGGGG-TAAAATGGTAATTTTGGGAAAGTTGAGTGCAAAAT-G
* * *
14054603 AATTTTTGAAAGTTTAAGGGTAAAATGGTAA-TTTTAGGAAAGTTCAGGGTCAAAAATGGAATTT
64 AATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGGAAAGTTCAAGGTCAAAAATGGAATTT
* *
14054667 TTAGAAGTCTAAGGGTAAAATGGTAATATTTGGGAAGTTTGGAGTC
129 TTAGAAGTCTAAGGGTAAAATGGTAATATATGGGAAGTTCGGAGTC
* * *
14054713 AAAAATGGAATTTTTAGACATTCGGGGGTAAAATGGTAATTTTGGGAAAGTTTG-GGGTCAAAAT
1 AAAAATAGAATTTTTGGACATTC-GGGGTAAAATGGTAATTTTGGGAAAG-TTGAGTG-CAAAAT
* * *
14054777 AGAATTTTTGGAAGTTTGGGGGTAAAATGGTAATTTTTA-GCAAGTTCAAGGTGAAAAATGGAAT
63 -GAATTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGGAAAGTTCAAGGTCAAAAATGGAAT
* * ** * *
14054841 TTTTGGACA-TTTGGGGGTAGAATGGTAAT-TATGGGAATGTTCGGGGTC
127 TTTTAGA-AGTCTAAGGGTAAAATGGTAATATATGGGAA-GTTCGGAGTC
* * * *
14054889 AAAAATAGAATTTTTGGAAATTCGAGGTAAAGTGGTAATTTTTGTG-AAGTTCGAGTGCAATAAT
1 AAAAATAGAATTTTTGGACATTCGGGGTAAAATGGTAA-TTTTGGGAAAGTT-GAGTGCAA-AAT
* * * *
14054953 GTAAATTTTGGAAAGTTCAGGGGTCAAAAT-GTAATTCTT-GGAAAGTTTAAGGGTCAAAATAT-
63 G-AATTTTTGG-AAGTTTAGGGGT-AAAATGGTAATTTTTAGGAAAGTTCAA-GGTCAAAA-ATG
*
14055015 G-ATTTTTAGACAGTTTAAGG
123 GAATTTTTAGA-AGTCTAAGG
14055035 ACCTTCTAGG
Statistics
Matches: 266, Mismatches: 36, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
172 44 0.17
173 6 0.02
174 2 0.01
175 28 0.11
176 124 0.47
177 42 0.16
178 18 0.07
179 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (174 bp):
AAAAATAGAATTTTTGGACATTCGGGGTAAAATGGTAATTTTGGGAAAGTTGAGTGCAAAATGAA
TTTTTGGAAGTTTAGGGGTAAAATGGTAATTTTTAGGAAAGTTCAAGGTCAAAAATGGAATTTTT
AGAAGTCTAAGGGTAAAATGGTAATATATGGGAAGTTCGGAGTC
Found at i:14054969 original size:30 final size:30
Alignment explanation
Indices: 14054950--14055012 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
14054940 CGAGTGCAAT
14054950 AATGTAAATT-TTGGAAAGTTCAGGGGTCAA
1 AATGT-AATTCTTGGAAAGTTCAGGGGTCAA
* *
14054980 AATGTAATTCTTGGAAAGTTTAAGGGTCAA
1 AATGTAATTCTTGGAAAGTTCAGGGGTCAA
14055010 AAT
1 AAT
14055013 ATGATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 4 0.13
30 26 0.87
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (30 bp):
AATGTAATTCTTGGAAAGTTCAGGGGTCAA
Found at i:14055030 original size:30 final size:30
Alignment explanation
Indices: 14054963--14055034 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
14054953 GTAAATTTTG
* * * *
14054963 GAAAGTTCAGGGGTCAAAATGTAATTCTTG
1 GAAAGTTTAAGGGTCAAAATATAATTCTTA
* *
14054993 GAAAGTTTAAGGGTCAAAATATGATTTTTA
1 GAAAGTTTAAGGGTCAAAATATAATTCTTA
*
14055023 GACAGTTTAAGG
1 GAAAGTTTAAGG
14055035 ACCTTCTAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (30 bp):
GAAAGTTTAAGGGTCAAAATATAATTCTTA
Found at i:14056155 original size:3 final size:3
Alignment explanation
Indices: 14056140--14056181 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
14056130 GACTGCCTTT
* *
14056140 TTA TTA TTT TTA TTA TTA TCA TTA TTA TTA TTGA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
14056182 GATACTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14056378 original size:6 final size:6
Alignment explanation
Indices: 14056351--14056420 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
14056341 GACTTTGTTT
* * *
14056351 ATTTAA ATTTAGA A--TAA TTTTAA ATTTAA ATATAA ATTTAA A-ATAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
14056397 ATTT-A ATCTTAA A-ATAA ATTTAA A
1 ATTTAA AT-TTAA ATTTAA ATTTAA A
14056421 ATGGATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 31 0.63
7 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:14056389 original size:29 final size:28
Alignment explanation
Indices: 14056354--14056422 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
14056344 TTTGTTTATT
* *
14056354 TAAATTTAGAATAATTTTAAAT-TTAAATA
1 TAAATTTAAAATAAATTT-AATCTTAAA-A
14056383 TAAATTTAAAATAAATTTAATCTTAAAA
1 TAAATTTAAAATAAATTTAATCTTAAAA
14056411 TAAATTTAAAAT
1 TAAATTTAAAAT
14056423 GGATTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAATCTTAAAA
Found at i:14056390 original size:18 final size:17
Alignment explanation
Indices: 14056351--14056420 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
14056341 GACTTTGTTT
*
14056351 ATTTAAATTTAGAATAA
1 ATTTAAATTTAAAATAA
*
14056368 TTTTAAATTT-AAAT--
1 ATTTAAATTTAAAATAA
14056382 A--TAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
14056397 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
14056414 ATTTAAA
1 ATTTAAA
14056421 ATGGATTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
15 1 0.02
16 6 0.14
17 23 0.53
18 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:14056422 original size:11 final size:12
Alignment explanation
Indices: 14056371--14056402 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
14056361 AGAATAATTT
14056371 TAAATTTAAATA
1 TAAATTTAAATA
14056383 TAAATTTAAA-A
1 TAAATTTAAATA
14056394 TAAATTTAA
1 TAAATTTAA
14056403 TCTTAAAATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:14068659 original size:23 final size:23
Alignment explanation
Indices: 14068629--14068674 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
14068619 TTAGAATTAT
14068629 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
14068652 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGC
14068675 AATATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (23 bp):
TATGCGAAAATATGCAAATATGC
Found at i:14068683 original size:23 final size:23
Alignment explanation
Indices: 14068633--14068690 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
14068623 AATTATTATG
* *
14068633 CGAAAATATGCAAATATGCTATG
1 CGAAAATATGCAAATATGCAATA
14068656 CGAAAATATGCAAATATGCAATA
1 CGAAAATATGCAAATATGCAATA
* *
14068679 TGAAAAAATGCA
1 CGAAAATATGCA
14068691 TGTATGTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (23 bp):
CGAAAATATGCAAATATGCAATA
Found at i:14072671 original size:30 final size:30
Alignment explanation
Indices: 14072627--14073108 Score: 277
Period size: 30 Copynumber: 16.5 Consensus size: 30
14072617 TGCCAGGGGC
14072627 AAAATGGTAATTTTTAGGAAGTTCGA-GGTAA
1 AAAATGGTAATTTTT-GGAAGTTCGAGGGT-A
14072658 AAAATGG-AATTTTTGGACA-TTCGAGGGT-
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGTA
* *
14072686 AAAATGGTAATTTTGGGAAAGTT-TAGGGTTA
1 AAAATGGTAATTTTTGG-AAGTTCGAGGG-TA
* **
14072717 AAAATGG-AATTTTTGGTAGTTTAAGGGT-
1 AAAATGGTAATTTTTGGAAGTTCGAGGGTA
*
14072745 -AAATGGTAATTTTGGGAAAGTAT-G-GGGTCA
1 AAAATGGTAATTTTTGG-AAGT-TCGAGGGT-A
** * *
14072775 AAAAT-AAAATTTTTGGATGTTCGGGGGT-
1 AAAATGGTAATTTTTGGAAGTTCGAGGGTA
* * * *
14072803 AAAATGCTAATTTTGGGAAAGTTTGAGGTTA
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGTA
* *
14072834 AAAATAG-AATTTTTGGAAG-CCTGAGGGT-
1 AAAATGGTAATTTTTGGAAGTTC-GAGGGTA
* * *
14072862 AAAATTGTAATTTTGGGAAAGTTCGA-GGTC
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGTA
* * * *
14072892 AAAATAG-AATTTTTGAAAGTTTGGGGGT-
1 AAAATGGTAATTTTTGGAAGTTCGAGGGTA
** *
14072920 AAAATGGTTTTTTTTGGAAGTT-TAGGGTGA
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT-A
*
14072950 AAAATGG-AATTTTTGGACA-TTTG-GGGT-
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGTA
*
14072977 AAAATGGTAATTTTGGGAAAGTTCG-GGGTCA
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGT-A
* *
14073008 AAAATGG-AATTTTTGGAAATTC-AAGGT-
1 AAAATGGTAATTTTTGGAAGTTCGAGGGTA
* *
14073035 AAAAT-GTAATTTTTGTGAAGCTCGAGGGCA
1 AAAATGGTAATTTTTG-GAAGTTCGAGGGTA
* * * *
14073065 ATAAT-GTAAATTTTGGAAAGTTCAAGGGTC
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGTA
14073095 AAAAT-GTAATTTTT
1 AAAATGGTAATTTTT
14073109 TAAAAGTTAA
Statistics
Matches: 351, Mismatches: 59, Indels: 83
0.71 0.12 0.17
Matches are distributed among these distances:
26 1 0.00
27 26 0.07
28 61 0.17
29 115 0.33
30 117 0.33
31 31 0.09
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTCGAGGGTA
Found at i:14072697 original size:59 final size:59
Alignment explanation
Indices: 14072627--14073107 Score: 414
Period size: 58 Copynumber: 8.2 Consensus size: 59
14072617 TGCCAGGGGC
* * *
14072627 AAAATGGTAATTTTTAGG-AAGTTCGAGGTAAAAAATGGAATTTTTGGACATTCGAGGGT
1 AAAATGGTAA-TTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * * **
14072686 AAAATGGTAATTTTGGGAAAGTT-TAGGGTTAAAAATGGAATTTTTGGTAGTTTAAGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGA-GGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* ** ** *
14072745 -AAATGGTAATTTTGGGAAAGTAT-GGGGTCAAAAATAAAATTTTTGGATGTTCGGGGGT
1 AAAATGGTAATTTTGGGAAAGT-TCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * * **
14072803 AAAATGCTAATTTTGGGAAAGTTTGAGGTTAAAAATAGAATTTTTGG-AAGCCTGAGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTC-GAGGGT
* * * *
14072862 AAAATTGTAATTTTGGGAAAGTTCGAGGTC-AAAATAGAATTTTT-GAAAGTTTGGGGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTCGAGGGT
** * * * * *
14072920 AAAATGGTTTTTTTTGG-AAGTT-TAGGGTGAAAAATGGAATTTTTGGACATTTG-GGGT
1 AAAATGGTAATTTTGGGAAAGTTCGA-GGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* *
14072977 AAAATGGTAATTTTGGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTC-AAGGT
1 AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
* * * * * * *
14073035 AAAAT-GTAATTTTTGTG-AAGCTCGAGGGCAATAATGTAAATTTTGGAAAGTTCAAGGGT
1 AAAATGGTAA-TTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAA-TTCGAGGGT
14073094 CAAAAT-GTAATTTT
1 -AAAATGGTAATTTT
14073108 TTAAAAGTTA
Statistics
Matches: 344, Mismatches: 60, Indels: 36
0.78 0.14 0.08
Matches are distributed among these distances:
56 1 0.00
57 57 0.17
58 152 0.44
59 125 0.36
60 9 0.03
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTTGGGAAAGTTCGAGGTCAAAAATGGAATTTTTGGAAATTCGAGGGT
Found at i:14072876 original size:87 final size:86
Alignment explanation
Indices: 14072782--14073086 Score: 230
Period size: 87 Copynumber: 3.5 Consensus size: 86
14072772 TCAAAAATAA
* * *
14072782 AATTTTTGGATGTTCGGGGGTAAAATGCTAATTTTGGGAAAGTTTGAGGTTAAAAATAGAATTTT
1 AATTTTTGGAAGTTC-GGGGTAAAATG-TAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTT
* *
14072847 TGGAAGCCTGAGGGT-AAAATTGT
64 TGGAAG-CTGAGGGTGAAAAATGG
* * * * **
14072870 AATTTTGGGAAAGTTCGAGGTCAAAATAG-AATTTT-TGAAAGTTTGGGGGT-AAAATGGTTTTT
1 AATTTTTGG-AAGTTCGGGGT-AAAAT-GTAATTTTGGGAAAGTTTGGGGTTAAAAATGG-AATT
* *
14072932 TTTGGAAGTTTAGGGTGAAAAATGG
62 TTTGGAAGCTGAGGGTGAAAAATGG
* * *
14072957 AATTTTTGGACA-TTTGGGGTAAAATGGTAATTTTGGGAAAGTTCGGGGTCAAAAATGGAATTTT
1 AATTTTTGGA-AGTTCGGGGTAAAAT-GTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTT
** * * *
14073021 TGGAAATTCAAGGT--AAAATGT
64 TGGAAGCTGAGGGTGAAAAATGG
* *
14073042 AATTTTTGTGAAGCTCGAGGGCAATAATGTAAATTTT-GGAAAGTT
1 AATTTTTG-GAAGTTCG-GGGTAA-AATGT-AATTTTGGGAAAGTT
14073087 CAAGGGTCAA
Statistics
Matches: 173, Mismatches: 30, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
85 21 0.12
86 29 0.17
87 78 0.45
88 34 0.20
89 10 0.06
90 1 0.01
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.35
Consensus pattern (86 bp):
AATTTTTGGAAGTTCGGGGTAAAATGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTG
GAAGCTGAGGGTGAAAAATGG
Found at i:14073115 original size:30 final size:30
Alignment explanation
Indices: 14072994--14073151 Score: 107
Period size: 30 Copynumber: 5.4 Consensus size: 30
14072984 TAATTTTGGG
* * **
14072994 AAAGTTC-GGGGTCAAAAATGGAATTTTTGG
1 AAAGTTCAAGGGTC-AAAATGTAATTTTTTA
14073024 AAA-TTCAA-GGT-AAAATGTAATTTTTGT-
1 AAAGTTCAAGGGTCAAAATGTAATTTTT-TA
* * * * **
14073051 GAAGCTCGAGGG-CAATAATGTAAATTTTGG
1 AAAGTTCAAGGGTCAA-AATGTAATTTTTTA
14073081 AAAGTTCAAGGGTCAAAATGTAATTTTTTA
1 AAAGTTCAAGGGTCAAAATGTAATTTTTTA
* *
14073111 AAAGTT-AAGGGGTCAAAATATGA-TTTTTA
1 AAAGTTCAA-GGGTCAAAATGTAATTTTTTA
14073140 AACAGTTCAAGG
1 AA-AGTTCAAGG
14073152 ACCTTTTAGG
Statistics
Matches: 101, Mismatches: 16, Indels: 22
0.73 0.12 0.16
Matches are distributed among these distances:
27 15 0.15
28 3 0.03
29 20 0.20
30 58 0.57
31 5 0.05
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (30 bp):
AAAGTTCAAGGGTCAAAATGTAATTTTTTA
Found at i:14074291 original size:3 final size:3
Alignment explanation
Indices: 14074276--14074323 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
14074266 GACTGCCTTT
* *
14074276 TTA TTA TTT TTA TTA TTA TCA TTA TTA TTA TTA TTA TTGA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
14074322 TT
1 TT
14074324 GATACTATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14074332 original size:19 final size:19
Alignment explanation
Indices: 14074278--14074337 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
14074268 CTGCCTTTTT
* * *
14074278 ATTATTTTTATTATTA-TC
1 ATTATTATTATTACTATTG
*
14074296 ATTATTATTATTATTATTG
1 ATTATTATTATTACTATTG
*
14074315 ATTATTATTGA-TACTATTT
1 ATTATTATT-ATTACTATTG
14074334 ATTA
1 ATTA
14074338 AATAAGTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 15 0.42
19 20 0.56
20 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
ATTATTATTATTACTATTG
Found at i:14074519 original size:6 final size:6
Alignment explanation
Indices: 14074492--14074561 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
14074482 GACTTTGTTT
* * *
14074492 ATTTAA ATTTAGA A--TAA TTTTAA ATTTAA ATATAA ATTTAA A-ATAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
14074538 ATTT-A ATCTTAA A-ATAA ATTTAA A
1 ATTTAA AT-TTAA ATTTAA ATTTAA A
14074562 ATGGATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 31 0.63
7 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:14074530 original size:29 final size:28
Alignment explanation
Indices: 14074495--14074563 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
14074485 TTTGTTTATT
* *
14074495 TAAATTTAGAATAATTTTAAAT-TTAAATA
1 TAAATTTAAAATAAATTT-AATCTTAAA-A
14074524 TAAATTTAAAATAAATTTAATCTTAAAA
1 TAAATTTAAAATAAATTTAATCTTAAAA
14074552 TAAATTTAAAAT
1 TAAATTTAAAAT
14074564 GGATTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAATCTTAAAA
Found at i:14074531 original size:18 final size:17
Alignment explanation
Indices: 14074492--14074561 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
14074482 GACTTTGTTT
*
14074492 ATTTAAATTTAGAATAA
1 ATTTAAATTTAAAATAA
*
14074509 TTTTAAATTT-AAAT--
1 ATTTAAATTTAAAATAA
14074523 A--TAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
14074538 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
14074555 ATTTAAA
1 ATTTAAA
14074562 ATGGATTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
15 1 0.02
16 6 0.14
17 23 0.53
18 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:14074563 original size:11 final size:12
Alignment explanation
Indices: 14074512--14074543 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
14074502 AGAATAATTT
14074512 TAAATTTAAATA
1 TAAATTTAAATA
14074524 TAAATTTAAA-A
1 TAAATTTAAATA
14074535 TAAATTTAA
1 TAAATTTAA
14074544 TCTTAAAATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:14077754 original size:6 final size:6
Alignment explanation
Indices: 14077734--14077803 Score: 65
Period size: 6 Copynumber: 12.0 Consensus size: 6
14077724 ATCGGGCCCT
* * * *
14077734 TTTAAA TTT-AT TTTAAA TTTAGA TTT-AT TTTAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
14077780 TTTAAA TTT-AT TTTCAAA TTTAAA
1 TTTAAA TTTAAA TTT-AAA TTTAAA
14077804 AAAAAAAAGC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
5 11 0.22
6 35 0.70
7 4 0.08
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:14077759 original size:17 final size:17
Alignment explanation
Indices: 14077734--14077803 Score: 78
Period size: 17 Copynumber: 4.4 Consensus size: 17
14077724 ATCGGGCCCT
14077734 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
14077751 TTTAGATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
14077768 TTT-GA---A-TTTAAA
1 TTTAAATTTATTTTAAA
14077780 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
14077798 TTTAAA
1 TTTAAA
14077804 AAAAAAAAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
12 9 0.20
13 2 0.04
16 3 0.07
17 22 0.49
18 9 0.20
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:14079778 original size:29 final size:28
Alignment explanation
Indices: 14079660--14079785 Score: 126
Period size: 28 Copynumber: 4.4 Consensus size: 28
14079650 TTGGCATCGA
* * *
14079660 AACTTCTAAAATTTACATTTTTACCCTA
1 AACTTCCAAAAATTACATTTTTACCCTG
* **
14079688 AAATTCCAAAAATTACATTTTTACCCCC
1 AACTTCCAAAAATTACATTTTTACCCTG
** * **
14079716 AAAATCTAAAAATCCCATTTTTGACCCTG
1 AACTTCCAAAAATTACATTTTT-ACCCTG
14079745 AAACTTCCAAAAATTACATTTTTACCCTCG
1 -AACTTCCAAAAATTACATTTTTACCCT-G
14079775 AACTTCCAAAA
1 AACTTCCAAAA
14079786 TTTCGTTTTA
Statistics
Matches: 79, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
28 41 0.52
29 20 0.25
30 18 0.23
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.33
Consensus pattern (28 bp):
AACTTCCAAAAATTACATTTTTACCCTG
Found at i:14079959 original size:29 final size:29
Alignment explanation
Indices: 14079898--14079959 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
14079888 AAATTTTTCC
*
14079898 AAAATTACCATTTTGCCTCCGAGAGTCCC
1 AAAATTACCATTTTGCCTCCGAGAGTCCA
14079927 AAAATTACCATTTTGCC-CCTGAGTA-TCCA
1 AAAATTACCATTTTGCCTCC-GAG-AGTCCA
14079956 AAAA
1 AAAA
14079960 GTCTCATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 2 0.07
29 27 0.90
30 1 0.03
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.27
Consensus pattern (29 bp):
AAAATTACCATTTTGCCTCCGAGAGTCCA
Found at i:14086018 original size:50 final size:49
Alignment explanation
Indices: 14085964--14086114 Score: 176
Period size: 49 Copynumber: 3.1 Consensus size: 49
14085954 TGTACCTCAG
* **
14085964 AGACACGACGGGAAAGATCTAAAGCCGTAACGGCGGATCCAGTACCACGA
1 AGACACGAAGGGAAAGATCT-AAGCCGCGACGGCGGATCCAGTACCACGA
* * * * *
14086014 AGACATGAAGGGAAAGATCTAAGCCGCGATGACGGACCCAGTACTACGA
1 AGACACGAAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACGA
* * * * *
14086063 AGACAGGAAGAGAAAGATCTAAGCTGCGACAGCAGATCCAGTACCACGA
1 AGACACGAAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACGA
14086112 AGA
1 AGA
14086115 TTTGAAGGGA
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
49 66 0.79
50 18 0.21
ACGTcount: A:0.38, C:0.23, G:0.28, T:0.11
Consensus pattern (49 bp):
AGACACGAAGGGAAAGATCTAAGCCGCGACGGCGGATCCAGTACCACGA
Found at i:14087027 original size:205 final size:205
Alignment explanation
Indices: 14086518--14087529 Score: 1523
Period size: 204 Copynumber: 4.9 Consensus size: 205
14086508 TACCAACTCA
* * * * * * *
14086518 ATGTGAACAGATCTTTGAACCCCAGCTTCCTGATGACATACTGAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
*
14086583 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* * * * * * * *
14086648 AAGCGAATTGAAACAAGTGAGGCGGTCACCTTCCTGATGAGATACAGAGAAGTATACCAACTC--
130 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
* *
14086711 A---AGGCTCA
195 ACCCACGCTCG
* * * *
14086719 AAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
* *
14086784 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTATAGAG
65 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
14086849 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
130 AAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
14086914 ACCCACGCTCG
195 ACCCACGCTCG
14086925 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
** *
14086990 TGGTTAGCTTTTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAGA
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
14087055 AGC-GATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
131 AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
*
14087119 CCCACGCTTG
196 CCCACGCTCG
14087129 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
1 ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
14087194 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
66 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
* *
14087259 AGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
131 AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
*
14087324 CCAACGCTCG
196 CCCACGCTCG
** *
14087334 ATGTGAGCAAATCTTCGAACCCCTAGCTTTTTGATGAGATACTGAGAAGCAGGTCTAAGCAATAA
1 ATGTGAGCAAATCTTCGAA-CCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * * *
14087399 AGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATTCGTCTTCCTGATGAAACACAGA
64 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
* ** * * * * *
14087464 GAAGTGGATCAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACAGAGAAGAAGGCCAAGTCA
129 GAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCA
14087529 A
194 A
14087530 TGAAACCAGA
Statistics
Matches: 746, Mismatches: 56, Indels: 12
0.92 0.07 0.01
Matches are distributed among these distances:
200 3 0.00
201 167 0.22
203 1 0.00
204 200 0.27
205 192 0.26
206 29 0.04
207 154 0.21
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (205 bp):
ATGTGAGCAAATCTTCGAACCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAA
TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGA
AGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
CCCACGCTCG
Found at i:14087294 original size:409 final size:408
Alignment explanation
Indices: 14086518--14087529 Score: 1546
Period size: 409 Copynumber: 2.5 Consensus size: 408
14086508 TACCAACTCA
* * * * * * *
14086518 ATGTGAACAGATCTTTGAACCCCAGCTTCCTGATGACATACTGAGAGGCAGGGCGAAGTAATAAA
1 ATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
*
14086583 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* * * * *
14086648 AAGCGAATTGAAACAAGTGAGGCGGTCACCTTCCTGATGAGATACAGAGAAGTATACCAACTC--
131 AAGCG-ATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAA
*
14086711 AAGGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAA
195 AACGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAA
14086776 GCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAG
260 GCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAG
* * * *
14086841 GTATAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGAC
325 ATACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGAC
*
14086906 CAAATCAAACCCACGCTCG
390 CAAATCAAACCAACGCTCG
14086925 ATGTGAGCAAATCTTCGAA-CCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
1 ATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
** *
14086989 ATGGTTAGCTTTTTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGGTACAGAG
66 ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
* *
14087054 AAGCGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA
131 AAGCGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAA
** * * * *
14087119 CCCACGCTTGATGTGAGCAAATCTTCGAACCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCG
196 ---ACGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCG
14087183 AAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATG
258 AAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATG
14087248 AGATACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAG
323 AGATACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAG
14087313 ACCAAATCAAACCAACGCTCG
388 ACCAAATCAAACCAACGCTCG
** *
14087334 ATGTGAGCAAATCTTCGAACCCCTAGCTTTTTGATGAGATACTGAGAAGCAGGTCTAAGCAATAA
1 ATGTGAGCAAATCTTCGAACCCC-AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * * *
14087399 AGTGGTTAGCTTCCTGATGAGATACGGAGAAGTGAACCAAATTCGTCTTCCTGATGAAACACAGA
65 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGA
* ** * * *
14087464 GAAGTGGATCAAAACAAGTGATGTGGTCATCTTCCTGATGAGATACAGAGAAGAAGGCCAAGTCA
130 GAAG-CGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCA
14087529 A
194 A
14087530 TGAAACCAGA
Statistics
Matches: 548, Mismatches: 49, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
405 50 0.09
406 107 0.20
407 17 0.03
409 194 0.35
410 28 0.05
411 99 0.18
412 53 0.10
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (408 bp):
ATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAA
ATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAG
AAGCGATTGAAACAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGAAGAAGACCAAATCAAA
ACGCTCAAAGTGAGCAAATCTTCGAACCCTAACTTCCTGATGAGATACAGAGAAGCAGATCGAAG
CAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGA
TACAGAGAAGCAGATTGAAACAAACGATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACC
AAATCAAACCAACGCTCG
Found at i:14087316 original size:86 final size:85
Alignment explanation
Indices: 14087153--14087319 Score: 219
Period size: 86 Copynumber: 2.0 Consensus size: 85
14087143 TCGAACCCAG
* * * *
14087153 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACT
1 CTTCCTGATGAGATACAGAGAAGCAGATCGAAACAATAAAATGGTCAGCTTCCTGATGAGATACT
**
14087218 GAGAAGTGGACCAAATTCGT
66 GAGAAGAAGACCAAATTCGT
* ** *
14087238 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAA-ACGATGCGGTCATCTTCCTGATGAGATA
1 CTTCCTGATGAGATACAGAGAAGCAGATCGAAACAATAAAAT--GGTCAGCTTCCTGATGAGATA
14087302 CTGAGAAGAAGACCAAAT
64 CTGAGAAGAAGACCAAAT
14087320 CAAACCAACG
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 3 0.04
85 32 0.46
86 35 0.50
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAGCAGATCGAAACAATAAAATGGTCAGCTTCCTGATGAGATACT
GAGAAGAAGACCAAATTCGT
Found at i:14089723 original size:28 final size:29
Alignment explanation
Indices: 14089703--14089889 Score: 102
Period size: 29 Copynumber: 6.5 Consensus size: 29
14089693 TTGGCCCTGA
*
14089703 AACTTCTAAAAATTACATTTGTACCCTCG
1 AACTTCCAAAAATTACATTTGTACCCTCG
* *
14089732 AACTTCCAAAAATTACATTAT-TGCCC-CTA
1 AACTTCCAAAAATTACATT-TGTACCCTC-G
* * * * **
14089761 AAATTCCAAATATTCCATTTTTGACCCTAA
1 AACTTCCAAAAATTACATTTGT-ACCCTCG
* *
14089791 AACTTCC-AAAATTACATTT-TACCCCCA
1 AACTTCCAAAAATTACATTTGTACCCTCG
* * *
14089818 AACTTCC-AAAATTCCATTTTTGACCC-CAA
1 AACTTCCAAAAATTACATTTGT-ACCCTC-G
* *
14089847 AACTTTCAAAAATTACTATTT-TACTCTCG
1 AACTTCCAAAAATTAC-ATTTGTACCCTCG
*
14089876 GA-TGTCCAAAAATT
1 AACT-TCCAAAAATT
14089890 CCGTTTTTGA
Statistics
Matches: 126, Mismatches: 20, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
27 23 0.18
28 6 0.05
29 73 0.58
30 20 0.16
31 4 0.03
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (29 bp):
AACTTCCAAAAATTACATTTGTACCCTCG
Found at i:14089729 original size:29 final size:28
Alignment explanation
Indices: 14089672--14089868 Score: 139
Period size: 29 Copynumber: 6.8 Consensus size: 28
14089662 AAGGGTCCTT
* * * *
14089672 AAACTGTCAAAAAAATATATTTTGGCCCTG
1 AAACT-TC-AAAAATTACATTTTGACCCTA
*
14089702 AAACTTCTAAAAATTACA-TTTGTACCCTC
1 AAACTTC-AAAAATTACATTTTG-ACCCTA
* *
14089731 GAACTTCCAAAAATTACATTATTGCCCCTA
1 AAACTT-CAAAAATTACATT-TTGACCCTA
* *
14089761 AAA-TTCCAAATATTCCATTTTTGACCCTA
1 AAACTT-CAAAAATTACA-TTTTGACCCTA
* **
14089790 AAACTTCCAAAATTACATTTT-ACCCCC
1 AAACTTCAAAAATTACATTTTGACCCTA
* * *
14089817 AAACTTCCAAAATTCCATTTTTGACCCCA
1 AAACTTCAAAAATTACA-TTTTGACCCTA
14089846 AAACTTTCAAAAATTACTATTTT
1 AAAC-TTCAAAAATTAC-ATTTT
14089869 ACTCTCGGAT
Statistics
Matches: 136, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
27 20 0.15
28 12 0.09
29 69 0.51
30 31 0.23
31 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.34
Consensus pattern (28 bp):
AAACTTCAAAAATTACATTTTGACCCTA
Found at i:14089843 original size:56 final size:57
Alignment explanation
Indices: 14089732--14089870 Score: 190
Period size: 57 Copynumber: 2.4 Consensus size: 57
14089722 TGTACCCTCG
* * *
14089732 AACTTCCAAAAATTACATTATTGCCCCTAAAATTCCAAATATTCCATTTTTGACCCTAA
1 AACTTCC-AAAATTACATT-TTACCCCCAAAATTCCAAATATTCCATTTTTGACCCCAA
*
14089791 AACTTCCAAAATTACATTTTACCCCCAAACTTCCAAA-ATTCCATTTTTGACCCCAA
1 AACTTCCAAAATTACATTTTACCCCCAAAATTCCAAATATTCCATTTTTGACCCCAA
*
14089847 AACTTTCAAAAATTACTATTTTAC
1 AAC-TTCCAAAATTAC-ATTTTAC
14089871 TCTCGGATGT
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
56 21 0.29
57 27 0.37
58 18 0.25
59 7 0.10
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (57 bp):
AACTTCCAAAATTACATTTTACCCCCAAAATTCCAAATATTCCATTTTTGACCCCAA
Found at i:14128615 original size:15 final size:16
Alignment explanation
Indices: 14128597--14128626 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14128587 ACTAAACCCC
14128597 AAAAACCCA-AAAATA
1 AAAAACCCACAAAATA
14128612 AAAAACCCACAAAAT
1 AAAAACCCACAAAAT
14128627 GTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.23, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAAACCCACAAAATA
Found at i:14128831 original size:24 final size:24
Alignment explanation
Indices: 14128770--14128832 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
14128760 TAGAGTAATA
* *
14128770 AGAGTTTTACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
14128794 GGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
14128818 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
14128833 GATTATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.25
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:14170320 original size:30 final size:29
Alignment explanation
Indices: 14170275--14170653 Score: 156
Period size: 29 Copynumber: 12.8 Consensus size: 29
14170265 ATGCCCGAGG
* *
14170275 AAAAATGATAATTTTTAGGAAGTTCGAGGTT
1 AAAAAT-AGAATTTTT-GGAAGTTCGAGGGT
* *
14170306 AAAAATTGAATTTTTGGACA-TTCGGGGGT
1 AAAAATAGAATTTTTGGA-AGTTCGAGGGT
* * * * *
14170335 -AAAATGGTAATTTTAGGAAAGTTTGAAGTT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
*
14170365 AAAAATAGAATTTTTGGAAGTTTGAGGGT
1 AAAAATAGAATTTTTGGAAGTTCGAGGGT
* * *
14170394 -AAAATAGTAATTTTAGGAAAATTTG-GGGT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
* * *
14170423 AAAAATGGAATTTTTGGATGTT-TAGGGGT
1 AAAAATAGAATTTTTGGAAGTTCGA-GGGT
* * * **
14170452 -AAAATGGTAACTTTGGGAA-TATTTAGGGTT
1 AAAAATAG-AATTTTTGGAAGT-TCGAGGG-T
* **
14170482 AAAAATGGAATTTTTGGAAGTTTAAGGGT
1 AAAAATAGAATTTTTGGAAGTTCGAGGGT
* *
14170511 -AAAATAGTAATTTTGGGAAAGTTTG-GGGTT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGG-T
* * *
14170541 AAAAATGGAATTTTTGGACA-TTTGAGGAT
1 AAAAATAGAATTTTTGGA-AGTTCGAGGGT
* *
14170570 -AAAATGGTAATTTTGGGAAAGTTC-AGGGT
1 AAAAATAG-AATTTTTGG-AAGTTCGAGGGT
* * *
14170599 CAAAAATGGAATTTTTGGAAATT-TAGGGGT
1 -AAAAATAGAATTTTTGGAAGTTCGA-GGGT
*
14170629 -AAAATGGTAATTTTTGTGAAGTTCG
1 AAAAATAG-AATTTTTG-GAAGTTCG
14170654 TGATAATGTA
Statistics
Matches: 276, Mismatches: 40, Indels: 64
0.73 0.11 0.17
Matches are distributed among these distances:
28 44 0.16
29 109 0.39
30 90 0.33
31 33 0.12
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (29 bp):
AAAAATAGAATTTTTGGAAGTTCGAGGGT
Found at i:14170320 original size:58 final size:57
Alignment explanation
Indices: 14170256--14170382 Score: 139
Period size: 59 Copynumber: 2.2 Consensus size: 57
14170246 GATTAAATGT
* *
14170256 AATTTTTGGATGCCCGAGGAAAAATGATAATTTTTAGG-AAGTTCGAGGTTAAAAATTG
1 AATTTTTGGAT-CCCGAGGAAAAATGATAA-TTTTAGGAAAGTTCGAAGTTAAAAATAG
* * * * * *
14170314 AATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAGGAAAGTTTGAAGTTAAAAATAG
1 AATTTTTGG--ATCCCGAGGAAAAATGATAATTTTAGGAAAGTTCGAAGTTAAAAATAG
14170373 AATTTTTGGA
1 AATTTTTGGA
14170383 AGTTTGAGGG
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
57 1 0.02
58 16 0.28
59 39 0.67
60 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (57 bp):
AATTTTTGGATCCCGAGGAAAAATGATAATTTTAGGAAAGTTCGAAGTTAAAAATAG
Found at i:14170346 original size:59 final size:58
Alignment explanation
Indices: 14170276--14170642 Score: 384
Period size: 59 Copynumber: 6.2 Consensus size: 58
14170266 TGCCCGAGGA
* * * ***
14170276 AAAATGATAATTTTTAGG-AAGTTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGT
1 AAAATGGTAA-TTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGA-ATTTAAGGGT
* * *
14170335 AAAATGGTAATTTTAGGAAAGTTTGAAGTTAAAAATAGAATTTTTGGAAGTTTGAGGGT
1 AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGAA-TTTAAGGGT
* * * * *
14170394 AAAATAGTAATTTTAGGAAAATTTG-GGGTAAAAATGGAATTTTTGGATGTTTAGGGGT
1 AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGA-ATTTAAGGGT
* *
14170452 AAAATGGTAACTTTGGGAATA-TTT-AGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGT
1 AAAATGGTAATTTTAGGAA-AGTTTGA-GGTTAAAAATGGAATTTTTGGAA-TTTAAGGGT
* * * * *
14170511 AAAATAGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGAGGAT
1 AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGA-ATTTAAGGGT
* * * *
14170570 AAAATGGTAATTTTGGGAAAG-TTCAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTAGGAAAGTTTGA-GGTTAAAAATGGAATTTTTGG-AATTTAAGGGT
14170629 AAAATGGTAATTTT
1 AAAATGGTAATTTT
14170643 TGTGAAGTTC
Statistics
Matches: 264, Mismatches: 32, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
58 56 0.21
59 206 0.78
60 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.35
Consensus pattern (58 bp):
AAAATGGTAATTTTAGGAAAGTTTGAGGTTAAAAATGGAATTTTTGGAATTTAAGGGT
Found at i:14170412 original size:117 final size:116
Alignment explanation
Indices: 14170287--14170739 Score: 451
Period size: 117 Copynumber: 3.9 Consensus size: 116
14170277 AAATGATAAT
* * *
14170287 TTTTAGG-AAGTTCGAGGTTAAAAATTGAATTTTTGGACATTCGGGGGTAAAATGGTAATTTTAG
1 TTTTAGGAAAGTTCG-GGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGG
* *
14170351 GAAAGTTT-GAAGTTAAAAATAGAATTTTTGGAAGTTTGAGGGTAAAATAGTAA
65 GAAAGTTTAG-GGTTAAAAATGGAATTTTTGGAAGTTT-AGGGTAAAATAGTAA
* * * ** * *
14170404 TTTTAGGAAAATTTGGGGTAAAAATGGAATTTTTGGATGTTTAGGGGTAAAATGGTAACTTTGGG
1 TTTTAGGAAAGTTCGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGGG
14170469 AATA-TTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGTAAAATAGTAA
66 AA-AGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTT-AGGGTAAAATAGTAA
* * * *
14170521 TTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTTGAGGATAAAATGGTAATTTTGG
1 TTTTAGGAAAG-TTCGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGG
* * * *
14170586 GAAAGTTCAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTAA
65 GAAAGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTA-GGGTAAAATAGTAA
* * * * * *
14170639 TTTTTGTG-AAGTTC--G-TGATAATGTAAATTTTGGAAAATTTGGGGGTCAAAAT-GTAACTTT
1 TTTTAG-GAAAGTTCGGGTTAAAAATGGAATTTTTGG-ACATTTGGGGGT-AAAATGGTAA-TTT
* *
14170699 T-GGAAAGTTTGGGGGTCAAAATAT-G-ATTTTTGGATAGTTTA
62 TGGGAAAGTTT-AGGGTTAAAA-ATGGAATTTTTGGA-AGTTTA
14170740 AGGACCTTTT
Statistics
Matches: 284, Mismatches: 39, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
114 14 0.05
115 31 0.11
116 24 0.08
117 109 0.38
118 105 0.37
119 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.36
Consensus pattern (116 bp):
TTTTAGGAAAGTTCGGGTTAAAAATGGAATTTTTGGACATTTGGGGGTAAAATGGTAATTTTGGG
AAAGTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAGGGTAAAATAGTAA
Found at i:14170651 original size:59 final size:59
Alignment explanation
Indices: 14170276--14170707 Score: 368
Period size: 59 Copynumber: 7.4 Consensus size: 59
14170266 TGCCCGAGGA
* * * **
14170276 AAAATGATAATTTTTAGG-AAGTTC-GAGGTTAAAAATTGAATTTTTGGACATTCGGGGGT
1 AAAATGGTAATTTTT-GGAAAGTTCAG-GGTTAAAAATGGAATTTTTGGAAATTTAGGGGT
* * * * *
14170335 AAAATGGTAATTTTAGGAAAGTT-TGAAGTTAAAAATAGAATTTTTGGAAGTTT-GAGGGT
1 AAAATGGTAATTTTTGGAAAGTTCAG-GGTTAAAAATGGAATTTTTGGAAATTTAG-GGGT
* * * * * **
14170394 AAAATAGTAATTTTAGGAAAATT-TGGGGTAAAAATGGAATTTTTGGATGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTCAGGGTTAAAAATGGAATTTTTGGAAATTTAGGGGT
* * * * *
14170452 AAAATGGTAACTTTGGGAATA-TTTAGGGTTAAAAATGGAATTTTTGGAAGTTTAAGGGT
1 AAAATGGTAATTTTTGGAA-AGTTCAGGGTTAAAAATGGAATTTTTGGAAATTTAGGGGT
* * ** * *
14170511 AAAATAGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGACATTT-GAGGAT
1 AAAATGGTAATTTTTGGAAAGTTCAGGGTTAAAAATGGAATTTTTGGAAATTTAG-GGGT
* *
14170570 AAAATGGTAATTTTGGGAAAGTTCAGGGTCAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTCAGGGTTAAAAATGGAATTTTTGGAAATTTAGGGGT
* * * * *
14170629 AAAATGGTAATTTTTGTG-AAGTTC---G-TGATAATGTAAATTTTGGAAAATTTGGGGGT
1 AAAATGGTAATTTTTG-GAAAGTTCAGGGTTAAAAATGGAATTTTTGG-AAATTTAGGGGT
*
14170685 CAAAAT-GTAACTTTTGGAAAGTT
1 -AAAATGGTAATTTTTGGAAAGTT
14170708 TGGGGGTCAA
Statistics
Matches: 319, Mismatches: 41, Indels: 29
0.82 0.11 0.07
Matches are distributed among these distances:
55 14 0.04
56 26 0.08
57 5 0.02
58 49 0.15
59 223 0.70
60 2 0.01
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGAAAGTTCAGGGTTAAAAATGGAATTTTTGGAAATTTAGGGGT
Found at i:14170693 original size:30 final size:30
Alignment explanation
Indices: 14170658--14170720 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
14170648 AGTTCGTGAT
14170658 AATGTAAATTTTGGAAAATTTGGGGGTCAA
1 AATGTAAATTTTGGAAAATTTGGGGGTCAA
* *
14170688 AATGTAACTTTTGGAAAGTTTGGGGGTCAA
1 AATGTAAATTTTGGAAAATTTGGGGGTCAA
14170718 AAT
1 AAT
14170721 ATGATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (30 bp):
AATGTAAATTTTGGAAAATTTGGGGGTCAA
Found at i:14170730 original size:30 final size:30
Alignment explanation
Indices: 14170666--14170738 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
14170656 ATAATGTAAA
* *
14170666 TTTTGGAAAATTTGGGGGTCAAAATGTAAC
1 TTTTGGAAAGTTTGGGGGTCAAAATATAAC
* *
14170696 TTTTGGAAAGTTTGGGGGTCAAAATATGAT
1 TTTTGGAAAGTTTGGGGGTCAAAATATAAC
*
14170726 TTTTGGATAGTTT
1 TTTTGGAAAGTTT
14170739 AAGGACCTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.40
Consensus pattern (30 bp):
TTTTGGAAAGTTTGGGGGTCAAAATATAAC
Found at i:14172686 original size:18 final size:18
Alignment explanation
Indices: 14172661--14172705 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
14172651 TTTTAAATTT
*
14172661 AAATTTAAATTTTAAAAC
1 AAATTTAAATTTAAAAAC
* *
14172679 ATATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAC
14172697 AAATTTAAA
1 AAATTTAAA
14172706 ATGGGTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTAAATTTAAAAAC
Found at i:14173435 original size:209 final size:209
Alignment explanation
Indices: 14173075--14173525 Score: 584
Period size: 209 Copynumber: 2.2 Consensus size: 209
14173065 CTTGTTTCAA
* *
14173075 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTTGACCTACTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* * *
14173140 CATCAGGAAGCTACGGTTCGAAGATTCGCTTACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
66 CATCAAGAAGCTACGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
**
14173205 CTCTGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCTGCTTCTCCGTATCTCATC-A
131 CTCTGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
* *
14173269 GAAAGGC-GAATTTGG
196 G-AAGACAG-ATCTGG
* *
14173284 TCCACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCAATATCT
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
* ** * * *
14173349 CATCAAGAAGTTGGGGTTCAAAGATTTGCTCATTTTGAGCTTGGCTTCATTGATTTGGCCTTCTT
66 CATCAAGAAGCTACGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
* * * * * * ** * *
14173414 CT-TAGTATCTTATTAGGAAGATGGCCGCTTCGCTTGTTTTGATCCACTTCTCTGTGTCTCATCA
131 CTCT-GTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCA
14173478 AGAAGACAGATCTGG
195 AGAAGACAGATCTGG
* * *
14173493 TTCACTTCTCTGTATCTCATCAGGAAGGTAACC
1 TCCACTTCTCAGTATCTCATCAGGAAGATAACC
14173526 GCTTTATATT
Statistics
Matches: 209, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
208 1 0.00
209 205 0.98
210 3 0.01
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.36
Consensus pattern (209 bp):
TCCACTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTACTTCGACCTACTTCTCAATATCT
CATCAAGAAGCTACGGTTCAAAGATTCGCTCACTTTGAGCTTGGCTTCACTGATTTGGCCTTCTT
CTCTGTATCTCATCAGGAAGATGACAGCATCACTTGTTTCAATCCACTTCTCCGTATCTCATCAA
GAAGACAGATCTGG
Found at i:14183827 original size:23 final size:23
Alignment explanation
Indices: 14183797--14183892 Score: 104
Period size: 23 Copynumber: 4.2 Consensus size: 23
14183787 ACTCGTGATA
*
14183797 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATATTTTC
*
14183820 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATATTTTC
* ** *
14183843 GCATTGCATATTTGCACATTTTC
1 GCATTACATACATGCATATTTTC
**
14183866 GCA-TAGCATATTTGCATATTTTC
1 GCATTA-CATACATGCATATTTTC
14183889 GCAT
1 GCAT
14183893 AATAATTCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
22 1 0.02
23 63 0.98
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (23 bp):
GCATTACATACATGCATATTTTC
Found at i:14192411 original size:209 final size:209
Alignment explanation
Indices: 14192024--14192474 Score: 591
Period size: 209 Copynumber: 2.2 Consensus size: 209
14192014 AATATAAAGC
* * * *
14192024 GGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCTGTCTTCTTGATGAGACACAGAGAA
1 GGTTACCTTCCTGATGAGATACTGAGAAGTGGACCAAATCTGCCTTCTTGATGAGACACAGAGAA
** *
14192089 GTGGATCAAAACAAGCGAAGCGGCCATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAATG
66 GCAGATCAAAACAAGCGAAGCGGCAATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAATG
* * *
14192154 AAGCCAAGCTCAAAATGAGCAAATCTTTGAACCCCAACTTCTTGATGAGATATTGAGAAGCAGGT
131 AAGCCAAGCTCAAAATAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAGGT
* *
14192219 CGAAGTAATAAAAT
196 CAAAGCAATAAAAT
* * *
14192233 GGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAAT-TCGCCTT-TCTGATGAGATACGGAG
1 GGTTACCTTCCTGATGAGATACTGAGAAGTGGACCAAATCT-GCCTTCT-TGATGAGACACAGAG
** * * * * * * * *
14192296 AAGCAGATTGAAACAAGTGATGCTGTAATCTTCCTGATGAGATACTGAGAAGAAGGCCAAATCAG
64 AAGCAGATCAAAACAAGCGAAGCGGCAATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAA
* * * * *
14192361 TGAAGCCAAGCTCAAAGTAAGCGAATCTTCGAACCCTAGCTTCCTGATGAGATATTGAGAAGTAG
129 TGAAGCCAAGCTCAAAATAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAG
14192426 GTCAAAGCAATAAAAT
194 GTCAAAGCAATAAAAT
*
14192442 GGTTATCTTCCTGATGAGATACTGAGAAGTGGA
1 GGTTACCTTCCTGATGAGATACTGAGAAGTGGA
14192475 TTGAAACAAG
Statistics
Matches: 209, Mismatches: 31, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
208 2 0.01
209 207 0.99
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (209 bp):
GGTTACCTTCCTGATGAGATACTGAGAAGTGGACCAAATCTGCCTTCTTGATGAGACACAGAGAA
GCAGATCAAAACAAGCGAAGCGGCAATCTTCCTAATAAGATACTAAGAAGAAGGCCAAATCAATG
AAGCCAAGCTCAAAATAAGCAAATCTTCGAACCCCAACTTCCTGATGAGATATTGAGAAGCAGGT
CAAAGCAATAAAAT
Found at i:14192887 original size:16 final size:15
Alignment explanation
Indices: 14192861--14192891 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
14192851 TTTAAAATTT
14192861 AAATTTAAATTTAAA
1 AAATTTAAATTTAAA
14192876 AAATTCTAAATTTAAA
1 AAATT-TAAATTTAAA
14192892 TAAACAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTTAAATTTAAA
Found at i:14192900 original size:22 final size:21
Alignment explanation
Indices: 14192854--14192900 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
14192844 AATATGTTTT
*
14192854 AAAATTTAAATTTAAATTTAA
1 AAAATTTAAATTTAAATTAAA
14192875 AAAATTCTAAATTTAAA-TAAA
1 AAAATT-TAAATTTAAATTAAA
14192896 CAAAA
1 -AAAA
14192901 GTCCAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATTTAAATTTAAATTAAA
Found at i:14194838 original size:30 final size:29
Alignment explanation
Indices: 14194798--14195229 Score: 144
Period size: 30 Copynumber: 14.8 Consensus size: 29
14194788 AAAGGTCCTT
*
14194798 AAACTATCCAAAAATCATATTTTGACCCCC
1 AAACTTTCCAAAAATCATATTTT-ACCCCC
* * *
14194828 AAACTTTCCAAAAGTTACATTTTGACCCCC
1 AAACTTTCCAAAAATCATATTTT-ACCCCC
* * ** * *
14194858 AAATTTTCC-AAAAT-TTACATTA-TCAC
1 AAACTTTCCAAAAATCATATTTTACCCCC
* * * *
14194884 GAAC-TTCACAAAAATTACCATTTTACCCCT
1 AAACTTTC-CAAAAATCA-TATTTTACCCCC
*
14194914 AAA-TTTCCAAAAATTCCAT-TTTTGA-CCCT
1 AAACTTTCCAAAAA-T-CATATTTT-ACCCCC
* * * * * *
14194943 GAACTTTCCCAAAATTACCATTTTATCCTC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
14194973 AAA-TGTCCAAAAATTCCAT-TTTTAACCCC
1 AAACTTTCCAAAAA-T-CATATTTTACCCCC
* * *
14195002 AAACTTTCCCAAAATTACTATTTTACCCCT
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
14195032 AAAC-TTCCAAAAATTCCAT-TTTTAACCCT
1 AAACTTTCCAAAAA-T-CATATTTTACCCCC
* * * * *
14195061 AAACATTCCCAAAGTTACCATTTTACCCCC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
*
14195091 AAAC-ATCCAAAAATTCCAT-TTTTA-CCCC
1 AAACTTTCCAAAAA-T-CATATTTTACCCCC
* * * *
14195119 AAATTTTCCTAAAATTACTATTTTACCCTC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
14195149 AAAC-TTCCAAAAATTC-TATTTTTAACCTC
1 AAACTTTCCAAAAA-TCATA-TTTTACCCCC
* * *
14195178 AAACTTTCCTAAAATTACCATTTTACCCCC
1 AAACTTTCCAAAAATCA-TATTTTACCCCC
* *
14195208 GAA-TGTCCAAAAATTCA-ATTTT
1 AAACTTTCCAAAAA-TCATATTTT
14195230 TAACCTCGAA
Statistics
Matches: 293, Mismatches: 74, Indels: 72
0.67 0.17 0.16
Matches are distributed among these distances:
25 3 0.01
26 5 0.02
27 7 0.02
28 22 0.08
29 122 0.42
30 129 0.44
31 5 0.02
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
AAACTTTCCAAAAATCATATTTTACCCCC
Found at i:14194926 original size:29 final size:29
Alignment explanation
Indices: 14194816--14195222 Score: 243
Period size: 29 Copynumber: 13.9 Consensus size: 29
14194806 CAAAAATCAT
* *
14194816 ATTTTGACCCCCAAACTTTCCAAAAGTTA-C
1 ATTTT-ACCCCTAAA-TTTCCAAAAATTACC
* *
14194846 ATTTTGACCCCCAAATTTTCCAAAATTTA-C
1 ATTTT-ACCCCTAAA-TTTCCAAAAATTACC
* * * *
14194876 A--TTATCAC-GAACTTCACAAAAATTACC
1 ATTTTACCCCTAAATTTC-CAAAAATTACC
14194903 ATTTTACCCCTAAATTTCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* *
14194931 ATTTTTGA-CCCTGAACTTTCCCAAAATTACC
1 A-TTTT-ACCCCT-AAATTTCCAAAAATTACC
* *
14194962 ATTTTA-TCCTCAAATGTCCAAAAATT-CC
1 ATTTTACCCCT-AAATTTCCAAAAATTACC
* *
14194990 ATTTTTAACCCC-AAACTTTCCCAAAATTACT
1 A-TTTT-ACCCCTAAA-TTTCCAAAAATTACC
*
14195021 ATTTTACCCCTAAACTTCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* * * *
14195049 ATTTTTAACCCTAAACATTCCCAAAGTTACC
1 A-TTTTACCCCTAAA-TTTCCAAAAATTACC
* **
14195080 ATTTTACCCCCAAACATCCAAAAATT-CC
1 ATTTTACCCCTAAATTTCCAAAAATTACC
* *
14195108 ATTTTTACCCC-AAATTTTCCTAAAATTACT
1 A-TTTTACCCCTAAA-TTTCCAAAAATTACC
* *
14195138 ATTTTA-CCCTCAAACTTCCAAAAATT-CT
1 ATTTTACCCCT-AAATTTCCAAAAATTACC
* *
14195166 ATTTTTA-ACCTCAAACTTTCCTAAAATTACC
1 A-TTTTACCCCT-AAA-TTTCCAAAAATTACC
** *
14195197 ATTTTACCCCCGAATGTCCAAAAATT
1 ATTTTACCCCTAAATTTCCAAAAATT
14195223 CAATTTTTAA
Statistics
Matches: 300, Mismatches: 50, Indels: 55
0.74 0.12 0.14
Matches are distributed among these distances:
25 3 0.01
26 10 0.03
27 5 0.02
28 22 0.07
29 134 0.45
30 112 0.37
31 14 0.05
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.34
Consensus pattern (29 bp):
ATTTTACCCCTAAATTTCCAAAAATTACC
Found at i:14195232 original size:59 final size:57
Alignment explanation
Indices: 14194894--14195260 Score: 421
Period size: 59 Copynumber: 6.2 Consensus size: 57
14194884 GAACTTCACA
* * *
14194894 AAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCCTGAACTTTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCC-AAACTTTCCC
* *
14194953 AAAATTACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTAACCCCAAACTTTCCC
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTAA-CCCAAACTTTCCC
* * *
14195012 AAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACATTCCC
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCC-AAACTTTCCC
* * * * *
14195071 AAAGTTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTTACCCCAAATTTTCCT
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACCCAAACTTTCCC
* * * *
14195129 AAAATTACTATTTTACCCTCAAACTTCCAAAAATTCTATTTTTAACCTCAAACTTTCCT
1 AAAATTACCATTTTACCCCCAAA-TTCCAAAAATTCCATTTTTAACC-CAAACTTTCCC
* * * *
14195188 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTAACCTCGAAC-TTCCTA
1 AAAATTACCATTTTACCCCCAAAT-TCCAAAAATTCCATTTTTAACC-CAAACTTTCC-C
*
14195247 AAAATTATCATTTT
1 AAAATTACCATTTT
14195261 TCCTCGGGCA
Statistics
Matches: 269, Mismatches: 32, Indels: 14
0.85 0.10 0.04
Matches are distributed among these distances:
58 57 0.21
59 208 0.77
60 4 0.01
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (57 bp):
AAAATTACCATTTTACCCCCAAATTCCAAAAATTCCATTTTTAACCCAAACTTTCCC
Found at i:14195245 original size:117 final size:117
Alignment explanation
Indices: 14194885--14195249 Score: 493
Period size: 117 Copynumber: 3.1 Consensus size: 117
14194875 CATTATCACG
* * * * *
14194885 AACTTCACAAAAATTACCATTTTACCCCTAAATTTCCAAAAATTCCATTTTTGACCCTGAACTTT
1 AACTTC-CTAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACTTT
* *
14194950 CCCAAAATTACCATTTTATCCTCAAATGTCCAAAAATTCCATTTTTAACCCCA
65 CCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
* *
14195003 AACTTTCCCAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACATT
1 AAC-TTCCTAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACTTT
* **
14195068 CCCAAAGTTACCATTTTACCCCCAAACATCCAAAAATTCCATTTTT-ACCCCA
65 CCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
* *
14195120 AATTTTCCTAAAATTACTATTTTA-CCCTCAAACTTCCAAAAATTCTATTTTTAA-CCTCAAACT
1 AA-CTTCCTAAAATTACTATTTTACCCCT-AAACTTCCAAAAATTCCATTTTTAACCCT-AAACT
* * * * *
14195183 TTCCTAAAATTACCATTTTACCCCCGAATGTCCAAAAATTCAATTTTTAACCTCG
63 TTCCCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
14195238 AACTTCCTAAAA
1 AACTTCCTAAAA
14195250 ATTATCATTT
Statistics
Matches: 218, Mismatches: 24, Indels: 11
0.86 0.09 0.04
Matches are distributed among these distances:
116 7 0.03
117 106 0.49
118 102 0.47
119 3 0.01
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (117 bp):
AACTTCCTAAAATTACTATTTTACCCCTAAACTTCCAAAAATTCCATTTTTAACCCTAAACTTTC
CCAAAATTACCATTTTACCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
Found at i:14195265 original size:29 final size:29
Alignment explanation
Indices: 14195124--14195266 Score: 70
Period size: 29 Copynumber: 4.9 Consensus size: 29
14195114 ACCCCAAATT
* *
14195124 TTCCT-AAAATTA-CTATTTTACCCTCAAAC
1 TTCCTAAAAATTATC-ATTTT-TCCTCGAAC
* *
14195153 TTCC-AAAAATTCT-ATTTTTAACCTCAAAC
1 TTCCTAAAAATTATCATTTTT--CCTCGAAC
* * *
14195182 TTTCCT-AAAATTACCATTTTACCCCCGAA-
1 -TTCCTAAAAATTATCATTTT-TCCTCGAAC
14195211 TGTCC-AAAAA-T-TCAATTTTTAACCTCGAAC
1 T-TCCTAAAAATTATC-ATTTTT--CCTCGAAC
14195241 TTCCTAAAAATTATCATTTTTCCTCG
1 TTCCTAAAAATTATCATTTTTCCTCG
14195267 GGCATCCAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 34
0.66 0.08 0.26
Matches are distributed among these distances:
27 1 0.01
28 12 0.14
29 39 0.45
30 21 0.24
31 12 0.14
32 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (29 bp):
TTCCTAAAAATTATCATTTTTCCTCGAAC
Found at i:14199432 original size:23 final size:23
Alignment explanation
Indices: 14199402--14199495 Score: 102
Period size: 22 Copynumber: 4.2 Consensus size: 23
14199392 ACTCGTGATA
*
14199402 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCATATTTTC
*
14199425 GCATTACATACATGCCT-TTTTC
1 GCATTACATACATGCATATTTTC
* **
14199447 GCATTGCATATTTGCATATTTTC
1 GCATTACATACATGCATATTTTC
* **
14199470 GCA-TGCATATTTGCATATTTTC
1 GCATTACATACATGCATATTTTC
14199492 GCAT
1 GCAT
14199496 AATAATTCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
22 40 0.62
23 24 0.38
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (23 bp):
GCATTACATACATGCATATTTTC
Found at i:14199447 original size:22 final size:23
Alignment explanation
Indices: 14199402--14199473 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
14199392 ACTCGTGATA
*
14199402 GCATTACATACATGCATTTTTTC
1 GCATTACATACATGCACTTTTTC
14199425 GCATTACATACATGC-CTTTTTC
1 GCATTACATACATGCACTTTTTC
* **
14199447 GCATTGCATATTTGCA-TATTTTC
1 GCATTACATACATGCACT-TTTTC
14199470 GCAT
1 GCAT
14199474 GCATATTTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.44
23 24 0.56
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (23 bp):
GCATTACATACATGCACTTTTTC
Found at i:14202586 original size:21 final size:20
Alignment explanation
Indices: 14202550--14202608 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
14202540 ACTTAGTCAA
14202550 TTTGTTATTTTCTTTTTATT
1 TTTGTTATTTTCTTTTTATT
*
14202570 TTTGTTTATATTT-TTTTTATAA
1 TTTG-TTAT-TTTCTTTTTAT-T
*
14202592 GTTGTTATTTTCTTTTT
1 TTTGTTATTTTCTTTTT
14202609 GACTAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 7 0.21
21 20 0.61
22 6 0.18
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTGTTATTTTCTTTTTATT
Found at i:14220244 original size:30 final size:30
Alignment explanation
Indices: 14220199--14220272 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 30
14220189 ATGCCCGAGG
14220199 AAAAATGGTAATTTTTAGGA-AGTTCGAGGTC
1 AAAAATGGTAATTTTT-GGACA-TTCGAGGTC
*
14220230 AAAAATTG-AATTTTTGGACATTCGAGGGT-
1 AAAAATGGTAATTTTTGGACATTCGA-GGTC
*
14220259 -AAAATGGTAGTTTT
1 AAAAATGGTAATTTT
14220273 GGGAAAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
28 6 0.16
29 13 0.35
30 11 0.30
31 7 0.19
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAAATGGTAATTTTTGGACATTCGAGGTC
Found at i:14220358 original size:29 final size:29
Alignment explanation
Indices: 14220255--14220562 Score: 120
Period size: 29 Copynumber: 10.6 Consensus size: 29
14220245 GGACATTCGA
*
14220255 GGGT-AAAATGGTAGTTTTGGGAAAGTTTG
1 GGGTAAAAATGG-AATTTTGGGAAAGTTTG
* * * * *
14220284 ATGTTAAAAATAGAATTTT-TGTAA-TTCTG
1 -GGGTAAAAATGGAATTTTGGGAAAGTT-TG
* * *
14220313 AGGGT-AAAATAGTAATTTTAGGAAAATTTG
1 -GGGTAAAAAT-GGAATTTTGGGAAAGTTTG
* **
14220343 GGGTAAAAATGGAATTTT-TG-ATTTTTG
1 GGGTAAAAATGGAATTTTGGGAAAGTTTG
** * **
14220370 GGGGCAAAATGGTGATTTTGGGAAAGTTCA
1 GGGTAAAAATGG-AATTTTGGGAAAGTTTG
* *
14220400 GGGTTAAAATGGAATTTTTGG-AAGTTTAG
1 GGGTAAAAATGGAATTTTGGGAAAGTTT-G
**
14220429 GGGT-AAAATCTAATTTTGGGAAAGTTTG
1 GGGTAAAAATGGAATTTTGGGAAAGTTTG
* * ***
14220457 GGGTTAAAAATGAAATTTTTGG-AAGTCCA
1 GGG-TAAAAATGGAATTTTGGGAAAGTTTG
* * * *
14220486 AGGT-AAAATGGTATTTTTTAGG-AAGTTTA
1 GGGTAAAAATGG-A-ATTTTGGGAAAGTTTG
* *
14220515 GAGTAAAAAATGGAATTTTTGGAAA-TTTAG
1 GGGT-AAAAATGGAATTTTGGGAAAGTTT-G
14220545 GGGT-AAAATGGTAATTTT
1 GGGTAAAAATGG-AATTTT
14220563 TGTGAAGTTC
Statistics
Matches: 207, Mismatches: 51, Indels: 41
0.69 0.17 0.14
Matches are distributed among these distances:
27 21 0.10
28 44 0.21
29 78 0.38
30 49 0.24
31 15 0.07
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.36
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTGGGAAAGTTTG
Found at i:14220409 original size:57 final size:58
Alignment explanation
Indices: 14220200--14220562 Score: 272
Period size: 58 Copynumber: 6.2 Consensus size: 58
14220190 TGCCCGAGGA
* * * * * * *
14220200 AAAATGGTAATTTTTAGG-AAGTTCGAGGTCAAAAATTGAATTTTTGGACA-TTCGAGGGT
1 AAAATGGTAA-TTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTT-GA-ATTTTGGGGGT
* ** * * *
14220259 AAAATGGTAGTTTTGGGAAAGTTTGATGTTAAAAATAGAATTTTTGTAATTCTGAGGGT
1 AAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTG-AATTTTGGGGGT
* * * * *
14220318 AAAATAGTAATTTTAGGAAAATTTGGGG-TAAAAATGGAATTTTTGATTTTTGGGGGC
1 AAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGAATTTTGGGGGT
* ** * *
14220375 AAAATGGTGATTTTGGGAAAGTTCAGGGTT-AAAATGGAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTT-GAATTTTGGGGGT
* * * ****
14220433 AAAAT-CTAATTTTGGGAAAGTTTGGGGTTAAAAATGAAATTTTTGGAA-GTCCAAGGT
1 AAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTT-GAATTTTGGGGGT
* * * * * * *
14220490 AAAATGGTATTTTTTAGG-AAGTTTAGAGTAAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTA-ATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTT-GAATTTTGGGGGT
14220549 AAAATGGTAATTTT
1 AAAATGGTAATTTT
14220563 TGTGAAGTTC
Statistics
Matches: 243, Mismatches: 52, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
57 73 0.30
58 89 0.37
59 81 0.33
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
AAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGAATTTTGGGGGT
Found at i:14220476 original size:173 final size:173
Alignment explanation
Indices: 14220255--14220644 Score: 400
Period size: 173 Copynumber: 2.2 Consensus size: 173
14220245 GGACATTCGA
* ** * * * *
14220255 GGGTAAAATGGTAGTTTTGGGAAAGTTTGATGTTAAAAAT-AGAATTTTTGTAATTCTGAGGGTA
1 GGGTAAAAT-GTAATTTTGGGAAAGTTTGGGGTTAAAAATGAGAATTTTTGGAAGTC-CAAGGTA
* * ** *
14220319 AAATAGTA-ATTTTAGGAAAATTTGGGGT-AAAAATGGAATTTTT-GATTTTTGGGGGCAAAATG
64 AAATAGTATATTTTAGG-AAATTTAGAGTAAAAAATGGAATTTTTGGAAATTTAGGGGCAAAATG
* * *
14220381 GTGA-TTTTGGGAAAGTTCAGGGTTAAAATGGAATTTTTGG-AAGTTTAG
128 GTAATTTTTGGG-AAGTTC---GTGAAAATGGAAATTTTGGAAAGTTTAG
*
14220429 GGGTAAAATCTAATTTTGGGAAAGTTTGGGGTTAAAAATGA-AATTTTTGGAAGTCCAAGGTAAA
1 GGGTAAAATGTAATTTTGGGAAAGTTTGGGGTTAAAAATGAGAATTTTTGGAAGTCCAAGGTAAA
* * * *
14220493 ATGGTATTTTTTAGGAAGTTTAGAGTAAAAAATGGAATTTTTGGAAATTTAGGGGTAAAATGGTA
66 ATAGTATATTTTAGGAAATTTAGAGTAAAAAATGGAATTTTTGGAAATTTAGGGGCAAAATGGTA
* * * *
14220558 ATTTTTGTGAAGTTCGTGATAATGTAAATTTTGGAAAGTTTGG
131 ATTTTTGGGAAGTTCGTGAAAATGGAAATTTTGGAAAGTTTAG
*
14220601 GGGTCAAAATGTAACTTTT-GGAAAGTTTAGGGGTCAAAATATGA
1 GGGT-AAAATGTAA-TTTTGGGAAAGTTT-GGGGTTAAAA-ATGA
14220645 TTTTTGGATA
Statistics
Matches: 180, Mismatches: 26, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
171 15 0.08
172 31 0.17
173 77 0.43
174 47 0.26
175 10 0.06
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (173 bp):
GGGTAAAATGTAATTTTGGGAAAGTTTGGGGTTAAAAATGAGAATTTTTGGAAGTCCAAGGTAAA
ATAGTATATTTTAGGAAATTTAGAGTAAAAAATGGAATTTTTGGAAATTTAGGGGCAAAATGGTA
ATTTTTGGGAAGTTCGTGAAAATGGAAATTTTGGAAAGTTTAG
Found at i:14220563 original size:29 final size:29
Alignment explanation
Indices: 14220314--14220662 Score: 172
Period size: 30 Copynumber: 12.1 Consensus size: 29
14220304 GTAATTCTGA
* *
14220314 GGGTAAAATAGTAATTTTAGGAAAATTT-G
1 GGGTAAAATGGTAATTTTTGG-AAATTTAG
** *
14220343 GGGTAAAAATGG-AATTTTT-GATTTTTGG
1 GGGT-AAAATGGTAATTTTTGGAAATTTAG
* * * *
14220371 GGGCAAAATGGTGATTTTGGGAAAGTTCAG
1 GGGTAAAATGGTAATTTTTGGAAA-TTTAG
* *
14220401 GGTTAAAATGG-AATTTTTGGAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGAAATTTAG
* *
14220429 GGGTAAAAT-CTAATTTTGGGAAAGTTT-G
1 GGGTAAAATGGTAATTTTTGGAAA-TTTAG
* * **
14220457 GGGTTAAAAAT-GAAATTTTTGGAAGTCCA-
1 GGG-T-AAAATGGTAATTTTTGGAAATTTAG
* * *
14220486 AGGTAAAATGGTATTTTTTAGGAAGTTTA-
1 GGGTAAAATGGTAATTTTT-GGAAATTTAG
*
14220515 GAGTAAAAAATGG-AATTTTTGGAAATTTAG
1 GGGT--AAAATGGTAATTTTTGGAAATTTAG
* *
14220545 GGGTAAAATGGTAATTTTTGTG-AAGTT-C
1 GGGTAAAATGGTAATTTTTG-GAAATTTAG
* * * *
14220573 GTG-ATAAT-GTAAATTTTGGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGAAA-TTTAG
*
14220601 GGGTCAAAAT-GTAACTTTTGGAAAGTTTAG
1 GGGT-AAAATGGTAATTTTTGGAAA-TTTAG
* * *
14220631 GGGTCAAAAT-ATGATTTTTGGATAGTTTAG
1 GGGT-AAAATGGTAATTTTTGGA-AATTTAG
14220661 GG
1 GG
14220663 ACCTTTTGGG
Statistics
Matches: 245, Mismatches: 52, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.00
26 11 0.04
27 22 0.09
28 55 0.22
29 57 0.23
30 91 0.37
31 8 0.03
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.36
Consensus pattern (29 bp):
GGGTAAAATGGTAATTTTTGGAAATTTAG
Found at i:14220571 original size:59 final size:58
Alignment explanation
Indices: 14220200--14220630 Score: 271
Period size: 58 Copynumber: 7.4 Consensus size: 58
14220190 TGCCCGAGGA
* * * *
14220200 AAAATGGTAATTTTTAGG-AAG-TTCGAGGTCAAAAATTGAATTTTTGGACA-TTCGAGGGT
1 AAAATGGTAATTTTT-GGAAAGTTTAGA-GT-AAAAATGGAATTTTTGGAAATTTAG-GGGT
* * * *
14220259 AAAATGGTAGTTTTGGGAAAGTTT-GATGTTAAAAATAGAATTTTT-GTAATTCT-GAGGGT
1 AAAATGGTAATTTTTGGAAAGTTTAGA-G-TAAAAATGGAATTTTTGGAAATT-TAG-GGGT
* * * * * ** * *
14220318 AAAATAGTAATTTTAGGAAAATTTGGGGTAAAAATGGAATTTTT-GATTTTTGGGGGC
1 AAAATGGTAATTTTTGGAAAGTTTAGAGTAAAAATGGAATTTTTGGAAATTTAGGGGT
* * * * * *
14220375 AAAATGGTGATTTTGGGAAAGTTCAGGGTTAAAATGGAATTTTTGGAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGAAAGTTTAGAGTAAAAATGGAATTTTTGGAAATTTAGGGGT
* * * * * * ** *
14220433 AAAAT-CTAATTTTGGGAAAGTTTGGGGTTAAAAATGAAATTTTTGGAAGTCCA-AGGT
1 AAAATGGTAATTTTTGGAAAGTTTAGAG-TAAAAATGGAATTTTTGGAAATTTAGGGGT
*
14220490 AAAATGGTATTTTTTAGG-AAGTTTAGAGTAAAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAATGGTAATTTTT-GGAAAGTTTAGAGT-AAAAATGGAATTTTTGGAAATTTAGGGGT
* * * * * *
14220549 AAAATGGTAATTTTTGTG-AAG-TT--CGTGATAATGTAAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTG-GAAAGTTTAGAGTAAAAATGGAATTTTTGGAAA-TTTAGGGGT
*
14220605 CAAAAT-GTAACTTTTGGAAAGTTTAG
1 -AAAATGGTAATTTTTGGAAAGTTTAG
14220631 GGGTCAAAAT
Statistics
Matches: 298, Mismatches: 54, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
55 17 0.06
56 22 0.07
57 75 0.25
58 95 0.32
59 84 0.28
60 5 0.02
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGAAAGTTTAGAGTAAAAATGGAATTTTTGGAAATTTAGGGGT
Found at i:14221838 original size:10 final size:10
Alignment explanation
Indices: 14221816--14221844 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
14221806 TTAAAAATAG
14221816 TATTATT-AT
1 TATTATTGAT
14221825 TATTATTGAT
1 TATTATTGAT
14221835 TATTATTGAT
1 TATTATTGAT
14221845 ACTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.37
10 12 0.63
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (10 bp):
TATTATTGAT
Found at i:14223375 original size:209 final size:209
Alignment explanation
Indices: 14222988--14223434 Score: 583
Period size: 209 Copynumber: 2.1 Consensus size: 209
14222978 TTTCAATCCG
14222988 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* *
14223053 AAGAAGCTGGGGTTCGAAGATTCACTTACTTTGAGCTTGGCTTCATTGATTTGGCCTTCTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGCTTGGCTTCATTGAGTTGGCCTTCTTCTCA
* ** *
14223118 GTATCTCATCAAGAGGATGACAGCATCACTTATTTCAATCTGCTTCTCTGTATCTCATCAGAAAG
131 GTATCTCATCAAGAAGATGACAGCATCACTTATTTCAATCCACTTCTCTATATCTCATCAGAAAG
* *
14223183 GC-GAATTTGGTCCA
196 ACAG-ATCTGGTCCA
* *
14223197 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTTCTTCGACCTGCTTCTCAATATCTCATC
1 CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
* ** * *
14223262 AAGAAGTTGGGGTTCGAAGATTTGCTCATTTTGAGCTTGGCTTCATTGAGTTGGCCTTCTTCTTA
66 AAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGCTTGGCTTCATTGAGTTGGCCTTCTTCTCA
* * * ** * * ** * *
14223327 GTATCTTATTAGGAAGATGATC-GTTTCGCTTGTTTTGATCCACTTCTCTATGTCTCATCAGGAA
131 GTATCTCATCAAGAAGATGA-CAGCATCACTTATTTCAATCCACTTCTCTATATCTCATCAGAAA
*
14223391 GACAGATCTGGTTCA
195 GACAGATCTGGTCCA
** * *
14223406 CTTCTTTGTATCTCATTAGGAAGGTAACC
1 CTTCTCAGTATCTCATCAGGAAGATAACC
14223435 GCTTTATATT
Statistics
Matches: 205, Mismatches: 31, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
209 203 0.99
210 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (209 bp):
CTTCTCAGTATCTCATCAGGAAGATAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATC
AAGAAGCTGGGGTTCGAAGATTCACTCACTTTGAGCTTGGCTTCATTGAGTTGGCCTTCTTCTCA
GTATCTCATCAAGAAGATGACAGCATCACTTATTTCAATCCACTTCTCTATATCTCATCAGAAAG
ACAGATCTGGTCCA
Found at i:14231601 original size:23 final size:23
Alignment explanation
Indices: 14231575--14231636 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
14231565 TTAGAATTAT
*
14231575 TATGCGAAAATATGCAAATATGC
1 TATGCGAAAATATGCAAATATGA
14231598 TATGCGAAAATATGCAAATATGA
1 TATGCGAAAATATGCAAATATGA
* *
14231621 AATGCGAAAAAATGCA
1 TATGCGAAAATATGCA
14231637 TGTATGTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (23 bp):
TATGCGAAAATATGCAAATATGA
Found at i:14231647 original size:23 final size:23
Alignment explanation
Indices: 14231576--14231648 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
14231566 TAGAATTATT
14231576 ATGCGAAAATATGCAAATATGCT-
1 ATGCGAAAATATGCAAATATG-TA
*
14231599 ATGCGAAAATATGCAAATATGAA
1 ATGCGAAAATATGCAAATATGTA
* **
14231622 ATGCGAAAAAATGCATGTATGTA
1 ATGCGAAAATATGCAAATATGTA
14231645 ATGC
1 ATGC
14231649 AAGAAAAGGC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (23 bp):
ATGCGAAAATATGCAAATATGTA
Found at i:14231655 original size:23 final size:23
Alignment explanation
Indices: 14231616--14231660 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14231606 AATATGCAAA
*
14231616 TATGAAATGCGAAAAAATGCATG
1 TATGAAATGCGAAAAAAGGCATG
*
14231639 TATGTAATGC-AAGAAAAGGCAT
1 TATGAAATGCGAA-AAAAGGCAT
14231661 TGATTTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.47, C:0.09, G:0.22, T:0.22
Consensus pattern (23 bp):
TATGAAATGCGAAAAAAGGCATG
Found at i:14235589 original size:59 final size:56
Alignment explanation
Indices: 14235515--14235821 Score: 248
Period size: 59 Copynumber: 5.3 Consensus size: 56
14235505 TTCGATGCCA
* *
14235515 GGGGTAAAATGGTAATTTTTAGG-AAGTTTAAGGTTAAAAATAGAATTTTTGGATATTC
1 GGGGTAAAATGGTAA-TTTT-GGAAAGTTT-AGGTCAAAAATGGAATTTTTGGATATTC
* *
14235573 GGGGTTAAAATGGTAATTTTGGGAAAGTTTAGG----ACATGGAATTTTTGGA-AGTTTA
1 GGGG-TAAAATGGTAATTTT-GGAAAGTTTAGGTCAAAAATGGAATTTTTGGATA--TTC
* * * * * ** * *
14235628 AGGGTAAAATGGTAATTTTAGGTAAGTATGGGTCAAGAATAAAATTTTTGGATGTTT
1 GGGGTAAAATGGTAATTTT-GGAAAGTTTAGGTCAAAAATGGAATTTTTGGATATTC
* * * * *
14235685 GAGGGTAAAATGGTAATTTTTGGCAAGTTCAAGGTGAAAAATGGAATTTTTGGACATTTG
1 G-GGGTAAAATGGTAA-TTTTGGAAAGTT-TAGGTCAAAAATGGAATTTTTGGATA-TTC
* * *
14235745 GGGGTAGAATGGTAATTATGGGAAAGTTTGAGGTCAAAAATGGAATTTTTGGAAATTC
1 GGGGTAAAATGGTAATT-TTGGAAAGTTT-AGGTCAAAAATGGAATTTTTGGATATTC
*
14235803 GAGGTAAAATGGTAATTTT
1 GGGGTAAAATGGTAATTTT
14235822 TGTGAAGTTC
Statistics
Matches: 197, Mismatches: 37, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
53 1 0.01
54 38 0.19
55 5 0.03
57 3 0.02
58 64 0.32
59 83 0.42
60 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGGAAAGTTTAGGTCAAAAATGGAATTTTTGGATATTC
Found at i:14235832 original size:29 final size:28
Alignment explanation
Indices: 14235517--14235886 Score: 190
Period size: 29 Copynumber: 12.8 Consensus size: 28
14235507 CGATGCCAGG
**
14235517 GGTAAAATGGTAATTTTTAGGAAGTTTAA
1 GGTAAAATGGTAATTTTT-GGAAGTTCGA
* *
14235546 GGTTAAAAATAG-AATTTTTGGATA-TTCGG
1 GG-T-AAAATGGTAATTTTTGGA-AGTTCGA
* *
14235575 GGTTAAAATGGTAATTTTGGGAAAGTT-TA
1 GG-TAAAATGGTAATTTTTGG-AAGTTCGA
* **
14235604 GG--ACATGG-AATTTTTGGAAGTTTAA
1 GGTAAAATGGTAATTTTTGGAAGTTCGA
*
14235629 GGGTAAAATGGTAATTTTAGGTAAGTAT-G-
1 -GGTAAAATGGTAATTTTTGG-AAGT-TCGA
** * *
14235658 GGTCAAGAAT-AAAATTTTTGGATGTTTGA
1 GGT-AA-AATGGTAATTTTTGGAAGTTCGA
*
14235687 GGGTAAAATGGTAATTTTTGGCAAGTTCAA
1 -GGTAAAATGGTAATTTTTGG-AAGTTCGA
* * *
14235717 GGTGAAAAATGG-AATTTTTGGACATTTGGG
1 GGT--AAAATGGTAATTTTTGGA-AGTTCGA
* * * *
14235747 GGTAGAATGGTAATTATGGGAAAGTTTGA
1 GGTAAAATGGTAATTTTTGG-AAGTTCGA
*
14235776 GGTCAAAAATGG-AATTTTTGGAAATTCGA
1 GGT--AAAATGGTAATTTTTGGAAGTTCGA
14235805 GGTAAAATGGTAATTTTTGTGAAGTTCGA
1 GGTAAAATGGTAATTTTTG-GAAGTTCGA
* * *
14235834 GTGCAATAAT-GTAAATTTTGGAAAGTTCAGG
1 G-GTAA-AATGGTAATTTTTGG-AAGTTC-GA
14235865 GGTCAAAAT-GTAATTTTTGGAA
1 GGT-AAAATGGTAATTTTTGGAA
14235887 TTTTTAAGGG
Statistics
Matches: 263, Mismatches: 44, Indels: 68
0.70 0.12 0.18
Matches are distributed among these distances:
24 5 0.02
25 9 0.03
26 7 0.03
27 8 0.03
28 35 0.13
29 90 0.34
30 82 0.31
31 27 0.10
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (28 bp):
GGTAAAATGGTAATTTTTGGAAGTTCGA
Found at i:14235853 original size:58 final size:58
Alignment explanation
Indices: 14235515--14235886 Score: 248
Period size: 58 Copynumber: 6.4 Consensus size: 58
14235505 TTCGATGCCA
** * * *
14235515 GGGGTAAAATGGTAATTTTTAGG-AAGTTTAAG-GTTAAAAATAGAATTTTTGGATATTC
1 GGGGTAAAATGGTAATTTTT-GGAAAGTTCGAGTG-CAAAAATGGAATTTTTGGAAATTC
* * * * *
14235573 GGGGTTAAAATGGTAATTTTGGGAAAGTT-TAG-G---ACATGGAATTTTTGGAAGTTTA
1 GGGG-TAAAATGGTAATTTTTGGAAAGTTCGAGTGCAAAAATGGAATTTTTGGAA-ATTC
* * * * * ** ** *
14235628 AGGGTAAAATGGTAATTTTAGGTAAGTAT-GGGT-CAAGAATAAAATTTTTGGATGTTT
1 GGGGTAAAATGGTAATTTTTGGAAAGT-TCGAGTGCAAAAATGGAATTTTTGGAAATTC
* * * *
14235685 GAGGGTAAAATGGTAATTTTTGGCAAGTTCAAGGTG-AAAAATGGAATTTTTGGACATTTG
1 G-GGGTAAAATGGTAATTTTTGGAAAGTTCGA-GTGCAAAAATGGAATTTTTGGA-AATTC
* * * *
14235745 GGGGTAGAATGGTAATTATGGGAAAGTTTGAG-GTCAAAAATGGAATTTTTGGAAATTC
1 GGGGTAAAATGGTAATTTTTGGAAAGTTCGAGTG-CAAAAATGGAATTTTTGGAAATTC
* * * *
14235803 GAGGTAAAATGGTAATTTTTGTG-AAGTTCGAGTGCAATAATGTAAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAATTTTTG-GAAAGTTCGAGTGCAAAAATGGAATTTTTGGAAA-TTC
14235862 AGGGGTCAAAAT-GTAATTTTTGGAA
1 -GGGGT-AAAATGGTAATTTTTGGAA
14235887 TTTTTAAGGG
Statistics
Matches: 246, Mismatches: 47, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
54 35 0.14
55 7 0.03
57 4 0.02
58 92 0.37
59 85 0.35
60 18 0.07
61 5 0.02
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (58 bp):
GGGGTAAAATGGTAATTTTTGGAAAGTTCGAGTGCAAAAATGGAATTTTTGGAAATTC
Found at i:14235898 original size:30 final size:30
Alignment explanation
Indices: 14235612--14235925 Score: 136
Period size: 30 Copynumber: 10.7 Consensus size: 30
14235602 TAGGACATGG
*
14235612 AATTTTTGG-AAGTTTAAGGGT-AAAATGGT
1 AATTTTTGGAAAGTTCAAGGGTCAAAAT-GT
* * * **
14235641 AATTTTAGGTAAG-T-ATGGGTCAAGAATAA
1 AATTTTTGGAAAGTTCAAGGGTCAA-AATGT
* **
14235670 AATTTTTGG-ATGTTTGAGGGT-AAAATGGT
1 AATTTTTGGAAAGTTCAAGGGTCAAAAT-GT
* * *
14235699 AATTTTTGGCAAGTTCAA-GGTGAAAAATGG
1 AATTTTTGGAAAGTTCAAGGGT-CAAAATGT
* *** *
14235729 AATTTTTGGACA-TTTGGGGGT-AGAATGGT
1 AATTTTTGGAAAGTTCAAGGGTCAAAAT-GT
* * ** *
14235758 AATTATGGGAAAGTTTGA-GGTCAAAAATGG
1 AATTTTTGGAAAGTTCAAGGGTC-AAAATGT
*
14235788 AATTTTTGGAAA-TTCGA-GGT-AAAATGGT
1 AATTTTTGGAAAGTTCAAGGGTCAAAAT-GT
* *
14235816 AATTTTTGTG-AAGTTCGAGTG-CAATAATGT
1 AATTTTTG-GAAAGTTCAAGGGTCAA-AATGT
* *
14235846 AAATTTTGGAAAGTTCAGGGGTCAAAATGT
1 AATTTTTGGAAAGTTCAAGGGTCAAAATGT
** * *
14235876 AATTTTTGGAATTTTTAAGGGTCAAAATAT
1 AATTTTTGGAAAGTTCAAGGGTCAAAATGT
* * *
14235906 GATTTTTAGACAGTTCAAGG
1 AATTTTTGGAAAGTTCAAGG
14235926 ACCTTTTAGG
Statistics
Matches: 215, Mismatches: 48, Indels: 43
0.70 0.16 0.14
Matches are distributed among these distances:
27 5 0.02
28 25 0.12
29 63 0.29
30 107 0.50
31 15 0.07
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
AATTTTTGGAAAGTTCAAGGGTCAAAATGT
Found at i:14237036 original size:3 final size:3
Alignment explanation
Indices: 14237028--14237089 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
14237018 TTCGACTGCC
* ** *
14237028 TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA AGA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
14237076 GTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
14237090 GATACTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:14237299 original size:18 final size:17
Alignment explanation
Indices: 14237286--14237329 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
14237276 ATTTTAAATT
*
14237286 TAAATATAAATTTAAAA
1 TAAATTTAAATTTAAAA
14237303 TAAATTT-AATCTTAAAA
1 TAAATTTAAAT-TTAAAA
*
14237320 TAATTTTAAA
1 TAAATTTAAA
14237330 ATGGATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:14237304 original size:29 final size:28
Alignment explanation
Indices: 14237263--14237331 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
14237253 TTTGTTTATT
** *
14237263 TAAATTTTGAATAATTTTAAAT-TTAAATA
1 TAAATTTAAAATAAATTT-AATCTTAAA-A
14237292 TAAATTTAAAATAAATTTAATCTTAAAA
1 TAAATTTAAAATAAATTTAATCTTAAAA
*
14237320 TAATTTTAAAAT
1 TAAATTTAAAAT
14237332 GGATTTAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.43
29 20 0.57
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAATCTTAAAA
Found at i:14237307 original size:11 final size:12
Alignment explanation
Indices: 14237280--14237311 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
14237270 TGAATAATTT
14237280 TAAATTTAAATA
1 TAAATTTAAATA
14237292 TAAATTTAAA-A
1 TAAATTTAAATA
14237303 TAAATTTAA
1 TAAATTTAA
14237312 TCTTAAAATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:14240195 original size:11 final size:11
Alignment explanation
Indices: 14240179--14240271 Score: 62
Period size: 12 Copynumber: 8.1 Consensus size: 11
14240169 AGCCCTTTTA
*
14240179 ATTTTAGATTT
1 ATTTTAAATTT
14240190 ATTTTAAATTT
1 ATTTTAAATTT
*
14240201 GAATTTAAATTT
1 -ATTTTAAATTT
* *
14240213 AAATTT-ATTTT
1 -ATTTTAAATTT
* *
14240224 AAATTTGAATTT
1 -ATTTTAAATTT
*
14240236 AAATTTAAATTT
1 -ATTTTAAATTT
14240248 ATTTTAAATTT
1 ATTTTAAATTT
*
14240259 GAATTTAAATTT
1 -ATTTTAAATTT
14240271 A
1 A
14240272 AATTTGTTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
11 31 0.44
12 40 0.56
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (11 bp):
ATTTTAAATTT
Found at i:14240205 original size:6 final size:6
Alignment explanation
Indices: 14240192--14240276 Score: 111
Period size: 6 Copynumber: 14.5 Consensus size: 6
14240182 TTAGATTTAT
* * *
14240192 TTTAAA TTTGAA TTTAAA TTTAAA TTT-AT TTTAAA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
14240239 TTTAAA TTT-AT TTTAAA TTTGAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
14240277 GTTTTCATAT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
5 8 0.12
6 59 0.88
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:14240208 original size:29 final size:29
Alignment explanation
Indices: 14240175--14240281 Score: 187
Period size: 29 Copynumber: 3.7 Consensus size: 29
14240165 ACCGAGCCCT
* *
14240175 TTTAATTTTAGATTTATTTTAAATTTGAA
1 TTTAAATTTAAATTTATTTTAAATTTGAA
14240204 TTTAAATTTAAATTTATTTTAAATTTGAA
1 TTTAAATTTAAATTTATTTTAAATTTGAA
14240233 TTTAAATTTAAATTTATTTTAAATTTGAA
1 TTTAAATTTAAATTTATTTTAAATTTGAA
*
14240262 TTTAAATTTAAATTTGTTTT
1 TTTAAATTTAAATTTATTTT
14240282 CATATTTAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTAAATTTAAATTTATTTTAAATTTGAA
Found at i:14241090 original size:18 final size:19
Alignment explanation
Indices: 14241050--14241095 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
14241040 ATTAAATATT
*
14241050 TTTGATAAAAATAATAAATA
1 TTTGA-AAAAATAATAAAAA
14241070 TTT-AAAAAATAA-AAGAAA
1 TTTGAAAAAATAATAA-AAA
14241088 TTTGAAAA
1 TTTGAAAA
14241096 GACTTATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 2 0.09
18 13 0.57
19 5 0.22
20 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
TTTGAAAAAATAATAAAAA
Found at i:14249737 original size:24 final size:24
Alignment explanation
Indices: 14249678--14249738 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
14249668 GAGTAATAAG
* * **
14249678 AGTTTGACTCAAACAAATAAACGG
1 AGTTTAACTGAAACAAATAAACAA
*
14249702 AGTTTAATTGAAACAAATAAACAA
1 AGTTTAACTGAAACAAATAAACAA
14249726 AGTTTAACTGAAA
1 AGTTTAACTGAAA
14249739 GATTATTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.51, C:0.11, G:0.13, T:0.25
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAACAA
Found at i:14264655 original size:22 final size:18
Alignment explanation
Indices: 14264627--14264671 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
14264617 CCCATTTTCC
14264627 TAAAATAGCCCAACACCCAAAA
1 TAAAATA-CCCAA-A-CC-AAA
14264649 TAAAATACCCAAACCAAA
1 TAAAATACCCAAACCAAA
14264667 TAAAA
1 TAAAA
14264672 CCCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 1 0.04
21 5 0.22
22 7 0.30
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAATACCCAAACCAAA
Found at i:14281243 original size:29 final size:28
Alignment explanation
Indices: 14281197--14281711 Score: 225
Period size: 29 Copynumber: 17.6 Consensus size: 28
14281187 GATTAAATGC
* *
14281197 AATTTTTGGATGCTCGAGGTAAAATGGT
1 AATTTTTGGAAGTTCGAGGTAAAATGGT
* *
14281225 AATCTTTAGGAAGTTCGAGGTCAAAAATTG-
1 AAT-TTTTGGAAGTTCGAGGT--AAAATGGT
*
14281255 AATTTTTGGACA-TTCGGGGGTAAAATGGT
1 AATTTTTGGA-AGTTC-GAGGTAAAATGGT
* * *
14281284 AATTTTGGGAAAGTTTGAGGTTAAAAATAG-
1 AATTTTTGG-AAGTTCGAGG-T-AAAATGGT
14281314 AATTTTTGGAAG-TCTGAGGGTAAAATGGT
1 AATTTTTGGAAGTTC-GA-GGTAAAATGGT
* * * * *
14281343 AATTTTAGGAAAATTTGGGGTAAAAAT-GA
1 AATTTTTGG-AAGTTCGAGGT-AAAATGGT
* * *
14281372 AATTTTTGGATGTTTGGGGGTAAAATGGT
1 AATTTTTGGAAG-TTCGAGGTAAAATGGT
* *
14281401 GATTTTGGGAAGTTC-AGGGTTAAAAATGG-
1 AATTTTTGGAAGTTCGA-GG-T-AAAATGGT
*
14281430 AATTTTTGGAAGTTTAAGTTTAGGTAAAATGGT
1 AATTTTTGGAAG-TT-CG---AGGTAAAATGGT
* *
14281463 AATTTTTGGGAAGTT-TAGTTAAAAATGG-
1 AATTTTT-GGAAGTTCGAGGT-AAAATGGT
*
14281491 AATTTTTGGATGTTCGAGGGTAAAATGGT
1 AATTTTTGGAAGTTCGA-GGTAAAATGGT
* * *
14281520 AA-TTTAGGAAAGTTTGGGGTTAAAAATGG-
1 AATTTTTGG-AAGTTCGAGG-T-AAAATGGT
* *
14281549 AATTTTTGGAAGTCCAAGGTAAAATGGT
1 AATTTTTGGAAGTTCGAGGTAAAATGGT
* *
14281577 AGTTTTTAGGAAGTT-TAGGGTCAAAAATGG-
1 AATTTTT-GGAAGTTCGA-GGT--AAAATGGT
* *
14281607 AATTTTTTGACA-TTTGAGGATAAAATGGT
1 AATTTTTGGA-AGTTCGAGG-TAAAATGGT
* * *
14281636 AATCTTGGGAAAGTT-TAGGGTCAAAAATGG-
1 AATTTTTGG-AAGTTCGA-GGT--AAAATGGT
* * * *
14281666 AATTTTTGGAAATTTAGTGGTAAAATGAT
1 AATTTTTGG-AAGTTCGAGGTAAAATGGT
14281695 AATTTTTGTGAAGTTCG
1 AATTTTTG-GAAGTTCG
14281712 TGATAATGTA
Statistics
Matches: 369, Mismatches: 64, Indels: 107
0.68 0.12 0.20
Matches are distributed among these distances:
27 13 0.04
28 72 0.20
29 151 0.41
30 81 0.22
31 27 0.07
32 7 0.02
33 10 0.03
34 7 0.02
35 1 0.00
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.36
Consensus pattern (28 bp):
AATTTTTGGAAGTTCGAGGTAAAATGGT
Found at i:14281394 original size:58 final size:58
Alignment explanation
Indices: 14281191--14281800 Score: 457
Period size: 58 Copynumber: 10.4 Consensus size: 58
14281181 AGTCAGGATT
* * * * * *
14281191 AAATGCAATTTTTGGATGCTCGA-GGTAAAATGGTAATCTTTAGG-AAGTTCGAGGTCAA
1 AAATGGAATTTTTGGAAGTTTGAGGGTAAAATGGTAAT-TTTAGGAAAGTTTGGGGT-AA
* * * * *
14281249 AAATTGAATTTTTGGACA-TTCGGGGGTAAAATGGTAATTTTGGGAAAGTTTGAGGTTAA
1 AAATGGAATTTTTGGA-AGTTTGAGGGTAAAATGGTAATTTTAGGAAAGTTTG-GGGTAA
* * *
14281308 AAATAGAATTTTTGGAAGTCTGAGGGTAAAATGGTAATTTTAGGAAAATTTGGGGTAA
1 AAATGGAATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGGAAAGTTTGGGGTAA
* * * * * * *
14281366 AAATGAAATTTTTGGATGTTTGGGGGTAAAATGGTGATTTT-GGGAAGTTCAGGGTTAA
1 AAATGGAATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGGAAAGTT-TGGGGTAA
* * * * *
14281424 AAATGGAATTTTTGGAAGTTTAAGTTTAGGTAAAATGGTAATTTTTGGGAAGTTT-AGTTAA
1 AAATGGAATTTTTGGAAGTTTGAG----GGTAAAATGGTAATTTTAGGAAAGTTTGGGGTAA
* *
14281485 AAATGGAATTTTTGGATGTTCGAGGGTAAAATGGTAA-TTTAGGAAAGTTTGGGGTTAA
1 AAATGGAATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGGAAAGTTTGGGG-TAA
** * * *
14281543 AAATGGAATTTTTGGAAG-TCCAAGGTAAAATGGTAGTTTTTAGG-AAGTTTAGGGTCAA
1 AAATGGAATTTTTGGAAGTTTGAGGGTAAAATGGTA-ATTTTAGGAAAGTTTGGGGT-AA
* * * * *
14281601 AAATGGAATTTTTTGACA-TTTGAGGATAAAATGGTAATCTTGGGAAAGTTTAGGGTCAA
1 AAATGGAATTTTTGGA-AGTTTGAGGGTAAAATGGTAATTTTAGGAAAGTTTGGGGT-AA
* * * * *
14281660 AAATGGAATTTTTGGAAATTT-AGTGGTAAAATGATAATTTTTGTG-AAG-TT--CGTGA
1 AAATGGAATTTTTGGAAGTTTGAG-GGTAAAATGGTAATTTTAG-GAAAGTTTGGGGTAA
* * * *
14281715 TAATGTAAATTTTGGAAAGTTTGGGGGTCAAAAT-GTAACTTTT-GGAAAGTTTGGGGGTCAA
1 AAATGGAATTTTTGG-AAGTTTGAGGGT-AAAATGGTAA-TTTTAGGAAAGTTT-GGGGT-AA
14281776 AATAT-G-ATTTTTGGATAGTTT-AGGG
1 AA-ATGGAATTTTTGGA-AGTTTGAGGG
14281801 ACCTTTTGGG
Statistics
Matches: 446, Mismatches: 72, Indels: 67
0.76 0.12 0.11
Matches are distributed among these distances:
55 14 0.03
56 28 0.06
57 48 0.11
58 145 0.33
59 140 0.31
60 17 0.04
61 28 0.06
62 18 0.04
63 8 0.02
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (58 bp):
AAATGGAATTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTAGGAAAGTTTGGGGTAA
Found at i:14281751 original size:30 final size:30
Alignment explanation
Indices: 14281716--14281796 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
14281706 AGTTCGTGAT
14281716 AATGTAAATTTTGGAAAGTTTGGGGGTCAA
1 AATGTAAATTTTGGAAAGTTTGGGGGTCAA
*
14281746 AATGTAACTTTTGGAAAGTTTGGGGGTCAA
1 AATGTAAATTTTGGAAAGTTTGGGGGTCAA
* * * *
14281776 AATATGATTTTTGGATAGTTT
1 AATGTAAATTTTGGAAAGTTT
14281797 AGGGACCTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.38
Consensus pattern (30 bp):
AATGTAAATTTTGGAAAGTTTGGGGGTCAA
Found at i:14283732 original size:17 final size:16
Alignment explanation
Indices: 14283710--14283757 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
14283700 ACTTTTTTTA
14283710 TTTAAATTTAGAATATT
1 TTTAAATTTA-AATATT
*
14283727 TTTAAATTTAAATATAAA
1 TTTAAATTTAAATAT--T
14283745 TTTAAATTTAAAT
1 TTTAAATTTAAAT
14283758 TTTAAAACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 5 0.18
17 10 0.36
18 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTTAAATTTAAATATT
Found at i:14283736 original size:6 final size:6
Alignment explanation
Indices: 14283727--14283792 Score: 62
Period size: 6 Copynumber: 11.0 Consensus size: 6
14283717 TTAGAATATT
* ** *
14283727 TTTAAA TTTAAA TATAAA TTTAAA TTTAAA TTTTAAA -ACATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
**
14283775 TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
14283793 ATGGGTTTAG
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
5 2 0.04
6 38 0.83
7 6 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:14283758 original size:24 final size:24
Alignment explanation
Indices: 14283727--14283780 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
14283717 TTAGAATATT
*
14283727 TTTAAA-TTTAAATATAAATTTAAA
1 TTTAAATTTTAAA-ACAAATTTAAA
*
14283751 TTTAAATTTTAAAACATATTTAAA
1 TTTAAATTTTAAAACAAATTTAAA
14283775 TTTAAA
1 TTTAAA
14283781 AATAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTAAATTTTAAAACAAATTTAAA
Found at i:14283778 original size:42 final size:41
Alignment explanation
Indices: 14283709--14283792 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 41
14283699 GACTTTTTTT
* * * *
14283709 ATTTAAATTTAGAATATTTTTAAATTTAAATATAAATTTAA
1 ATTTAAATTTAAAACATATTTAAATTTAAAAATAAATTTAA
14283750 ATTTAAATTTTAAAACATATTTAAATTTAAAAATAAATTTAA
1 ATTTAAA-TTTAAAACATATTTAAATTTAAAAATAAATTTAA
14283792 A
1 A
14283793 ATGGGTTTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 7 0.18
42 31 0.82
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (41 bp):
ATTTAAATTTAAAACATATTTAAATTTAAAAATAAATTTAA
Found at i:14288991 original size:29 final size:31
Alignment explanation
Indices: 14288937--14289429 Score: 115
Period size: 29 Copynumber: 16.9 Consensus size: 31
14288927 ATGCTAGGGG
14288937 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
1 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
*
14288968 AAAAATGG-AATTTTT-GGACA-TTCGGGGTT
1 AAAAATGGTAATTTTTAGGA-AGTTCGAGGTT
* *
14288997 -AAAATGGTAA-TTTTGGGAA-----AGTTT
1 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
* ** *
14289021 AGCAAATGG-AATTTTT-GGAAGTTTAAGGGT
1 A-AAAATGGTAATTTTTAGGAAGTTCGAGGTT
*
14289051 -AAAATGGTAA--TTTAGGAAAGTAT-GAGGTC
1 AAAAATGGTAATTTTTAGG-AAGT-TCGAGGTT
** * * *
14289080 AAAAAT-AAAATTTTT-GGATGTTTGAGGGT
1 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
* * *
14289109 -AAAATGGTAA-TTTTGGGAAAGTTTGGGGTT
1 AAAAATGGTAATTTTTAGG-AAGTTCGAGGTT
* *
14289139 AAAAATGG-AATTTTT-GGAAG-TCTAAGGGT
1 AAAAATGGTAATTTTTAGGAAGTTC-GAGGTT
* * * * *
14289168 -AAAATAGTAATATTTGGGAAGTTTG-GAGTC
1 AAAAATGGTAATTTTTAGGAAGTTCGAG-GTT
* *
14289198 AAAAATGG-AATTTTTA-GACA-TTCGGGGGT
1 AAAAATGGTAATTTTTAGGA-AGTTCGAGGTT
* * * * *
14289227 -GAAATGGTAA-TTTTGGGAAAGTTTGGGGTC
1 AAAAATGGTAATTTTTAGG-AAGTTCGAGGTT
* * *
14289257 AAAAATAG-AATTTTTA-GAAGTTTTG-GGGT
1 AAAAATGGTAATTTTTAGGAAG-TTCGAGGTT
* *
14289286 -AAAATGGTAATTTTT-GGTAAGTT-TAGGGTG
1 AAAAATGGTAATTTTTAGG-AAGTTCGA-GGTT
* * *
14289316 AAAAATGG-AATTTTT-GGACA-TTTGGGGGT
1 AAAAATGGTAATTTTTAGGA-AGTTCGAGGTT
* * * * * *
14289345 -AGAATAGTAA-TTATGGGAAAGTTCGGGGTC
1 AAAAATGGTAATTTTTAGG-AAGTTCGAGGTT
* *
14289375 AAAAATAG-AATTTTT-GGAAATTCGAGG-T
1 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
14289403 -AAAATGGTAATTTTT-GTGAAGTTCGAG
1 AAAAATGGTAATTTTTAG-GAAGTTCGAG
14289430 TGCAATAATG
Statistics
Matches: 340, Mismatches: 67, Indels: 112
0.66 0.13 0.22
Matches are distributed among these distances:
24 3 0.01
25 6 0.02
26 10 0.03
27 9 0.03
28 69 0.20
29 103 0.30
30 86 0.25
31 54 0.16
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (31 bp):
AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
Found at i:14289010 original size:28 final size:30
Alignment explanation
Indices: 14288937--14289481 Score: 188
Period size: 30 Copynumber: 18.7 Consensus size: 30
14288927 ATGCTAGGGG
14288937 AAAAATGGTAATTTTTAGGAAGTTCGAGGTT
1 AAAAATGGTAATTTTT-GGAAGTTCGAGGTT
*
14288968 AAAAATGG-AATTTTTGGACA-TTCGGGGTT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* *
14288997 -AAAATGGTAATTTTGGGAA-----AGTTT
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
* ** *
14289021 AGCAAATGG-AATTTTTGGAAGTTTAAGGGT
1 A-AAAATGGTAATTTTTGGAAGTTCGAGGTT
* *
14289051 -AAAATGGTAA-TTTAGGAAAGTAT-GAGGTC
1 AAAAATGGTAATTTTTGG-AAGT-TCGAGGTT
** * * *
14289080 AAAAAT-AAAATTTTTGGATGTTTGAGGGT
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
* * *
14289109 -AAAATGGTAATTTTGGGAAAGTTTGGGGTT
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* *
14289139 AAAAATGG-AATTTTTGGAAG-TCTAAGGGT
1 AAAAATGGTAATTTTTGGAAGTTC-GAGGTT
* * * *
14289168 -AAAATAGTAATATTTGGGAAGTTTG-GAGTC
1 AAAAATGGTAAT-TTTTGGAAGTTCGAG-GTT
* * *
14289198 AAAAATGG-AATTTTTAGACA-TTCGGGGGT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* * * * *
14289227 -GAAATGGTAATTTTGGGAAAGTTTGGGGTC
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* * * *
14289257 AAAAATAG-AATTTTTAGAAGTTTTG-GGGT
1 AAAAATGGTAATTTTTGGAAG-TTCGAGGTT
* *
14289286 -AAAATGGTAATTTTTGGTAAGTT-TAGGGTG
1 AAAAATGGTAATTTTTGG-AAGTTCGA-GGTT
* * *
14289316 AAAAATGG-AATTTTTGGACA-TTTGGGGGT
1 AAAAATGGTAATTTTTGGA-AGTTCGAGGTT
* * * * * *
14289345 -AGAATAGTAATTATGGGAAAGTTCGGGGTC
1 AAAAATGGTAATTTTTGG-AAGTTCGAGGTT
* *
14289375 AAAAATAG-AATTTTTGGAAATTCGAGG-T
1 AAAAATGGTAATTTTTGGAAGTTCGAGGTT
*
14289403 -AAAATGGTAATTTTTGTGAAGTTCGA-GTGC
1 AAAAATGGTAATTTTTG-GAAGTTCGAGGT-T
* * *
14289433 AATAAT-GTAAATTTTGGAAAGTTCAGGGGTT
1 AAAAATGGTAATTTTTGG-AAGTTC-GAGGTT
*
14289464 -AAAAT-GTAATTCTTGGAA
1 AAAAATGGTAATTTTTGGAA
14289482 AGTTTAAGGG
Statistics
Matches: 378, Mismatches: 86, Indels: 102
0.67 0.15 0.18
Matches are distributed among these distances:
24 3 0.01
25 10 0.03
26 6 0.02
27 6 0.02
28 58 0.15
29 120 0.32
30 128 0.34
31 45 0.12
32 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (30 bp):
AAAAATGGTAATTTTTGGAAGTTCGAGGTT
Found at i:14289019 original size:59 final size:56
Alignment explanation
Indices: 14288933--14289485 Score: 392
Period size: 59 Copynumber: 9.5 Consensus size: 56
14288923 TTCAATGCTA
* * *
14288933 GGGGAAAAATGGTAATTTTTAGG-AAGTTCGAGGTTAAAAATGGAATTTTTGGACATTC
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTT-GAGGTCAAAAATGGAATTTTTGGA-ATTC
* *
14288991 GGGGTTAAAATGGTAATTTTGGGAAAGTTTA-G-C--AAATGGAATTTTTGGAAGTTTA
1 GGGG-TAAAATGGTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAA--TTC
* * ** * *
14289046 AGGGTAAAATGGTAA-TTTAGGAAAGTATGAGGTCAAAAATAAAATTTTTGGATGTTT
1 GGGGTAAAATGGTAATTTTGGGAAAGT-TGAGGTCAAAAATGGAATTTTTGGA-ATTC
* * *
14289103 GAGGGTAAAATGGTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGAAGTCTA
1 G-GGGTAAAATGGTAATTTTGGGAAAG-TTGAGGTCAAAAATGGAATTTTTGGAA-T-TC
* * *
14289163 AGGGTAAAATAGTAATATTTGGG-AAGTTTG-GAGTCAAAAATGGAATTTTTAGACATTC
1 GGGGTAAAATGGTAAT-TTTGGGAAAG-TTGAG-GTCAAAAATGGAATTTTTGGA-ATTC
* * * * *
14289221 GGGGGTGAAATGGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTAGAAGTTTT
1 -GGGGTAAAATGGTAATTTTGGGAAAG-TTGAGGTCAAAAATGGAATTTTTGGAA--TTC
* * * * *
14289281 GGGGTAAAATGGTAATTTTTGGTAAGTTTAGGGTGAAAAATGGAATTTTTGGACATTTG
1 GGGGTAAAATGGTAATTTTGGGAAAGTTGA-GGTCAAAAATGGAATTTTTGGA-A-TTC
* * * * *
14289340 GGGGTAGAATAGTAATTATGGGAAAGTTCGGGGTCAAAAATAGAATTTTTGGAAATTC
1 GGGGTAAAATGGTAATTTTGGGAAAGTT-GAGGTCAAAAATGGAATTTTTGG-AATTC
* * * * *
14289398 GAGGTAAAATGGTAATTTTTGTG-AAGTTCGA-GTGCAATAATGTAAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAA-TTTTGGGAAAGTT-GAGGT-CAAAAATGGAATTTTTGG-AA-TTC
14289457 AGGGGTTAAAAT-GTAATTCTT-GGAAAGTT
1 -GGGG-TAAAATGGTAATT-TTGGGAAAGTT
14289486 TAAGGGTCAA
Statistics
Matches: 400, Mismatches: 61, Indels: 66
0.76 0.12 0.13
Matches are distributed among these distances:
53 11 0.03
54 29 0.07
55 6 0.01
56 1 0.00
57 5 0.01
58 88 0.22
59 226 0.56
60 28 0.07
61 6 0.01
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGGGAAAGTTGAGGTCAAAAATGGAATTTTTGGAATTC
Found at i:14289035 original size:25 final size:25
Alignment explanation
Indices: 14288998--14289045 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
14288988 TTCGGGGTTA
14288998 AAATGGTAATTTTGGGAAAGTTTAGC
1 AAATGGTAATTTTGGG-AAGTTTAGC
*
14289024 AAATGG-AATTTTTGGAAGTTTA
1 AAATGGTAATTTTGGGAAGTTTA
14289046 AGGGTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (25 bp):
AAATGGTAATTTTGGGAAGTTTAGC
Found at i:14289036 original size:26 final size:24
Alignment explanation
Indices: 14288998--14289045 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 24
14288988 TTCGGGGTTA
14288998 AAATGGTAATTTTGGGAAAGTTTAGC
1 AAATGGTAATTTT-GG-AAGTTTAGC
14289024 AAATGG-AATTTTTGGAAGTTTA
1 AAATGGTAA-TTTTGGAAGTTTA
14289046 AGGGTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.38
Consensus pattern (24 bp):
AAATGGTAATTTTGGAAGTTTAGC
Found at i:14289247 original size:118 final size:117
Alignment explanation
Indices: 14288938--14289497 Score: 536
Period size: 118 Copynumber: 4.8 Consensus size: 117
14288928 TGCTAGGGGA
* * *
14288938 AAAATGGTAATTTTTAGG-AAG-TTCGAGGTTAAAAATGGAATTTTTGGACATTCGGGGTTAAAA
1 AAAATGGTAA-TTTT-GGAAAGTTTGGA-GTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAA
* *
14289001 TGGTAATTTTGGGAAAGTTT--AG-C--AAATGGAATTTTTGGAAGTTTAAGGGT
63 TGGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTAAGGGT
* * ** ** * *
14289051 AAAATGGTAATTTAGGAAAGTAT-GAGGTCAAAAATAAAATTTTTGGATGTTTGAGGGTAAAATG
1 AAAATGGTAATTTTGGAAAGTTTGGA-GTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATG
* * *
14289115 GTAATTTTGGGAAAGTTTGGGGTTAAAAATGGAATTTTTGGAAGTCTAAGGGT
65 GTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTAAGGGT
* * * *
14289168 AAAATAGTAATATTTGGGAAGTTTGGAGTCAAAAATGGAATTTTTAGACATTCGGGGGTGAAATG
1 AAAATGGTAAT-TTTGGAAAGTTTGGAGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATG
* **
14289233 GTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTAGAAGTTTTGGGGT
65 GTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTAAGGGT
* * * *
14289286 AAAATGGTAATTTTTGGTAAGTTTAGG-GTGAAAAATGGAATTTTTGGACATTTGGGGGTAGAAT
1 AAAATGGTAA-TTTTGGAAAGTTT-GGAGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAAT
* * * * **
14289350 AGTAATTATGGGAAAGTTCGGGGTCAAAAATAGAATTTTTGGAAATTCGA-GGT
64 GGTAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTAAGGGT
* * * * * *
14289403 AAAATGGTAATTTTTGTG-AAG-TTCGAGTGCAATAATGTAAATTTTGGAAAGTTCAGGGGTTAA
1 AAAATGGTAA-TTTTG-GAAAGTTTGGAGT-CAAAAATGGAATTTTTGGACA-TTC-GGGGGTAA
*
14289466 AAT-GTAATTCTT-GGAAAGTTTAAGGGTCAAAA
61 AATGGTAATT-TTGGGAAAGTTT-GGGGTCAAAA
14289498 TATGATTTTT
Statistics
Matches: 371, Mismatches: 58, Indels: 30
0.81 0.13 0.07
Matches are distributed among these distances:
111 2 0.01
112 57 0.15
113 11 0.03
114 1 0.00
115 1 0.00
116 4 0.01
117 74 0.20
118 197 0.53
119 24 0.06
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (117 bp):
AAAATGGTAATTTTGGAAAGTTTGGAGTCAAAAATGGAATTTTTGGACATTCGGGGGTAAAATGG
TAATTTTGGGAAAGTTTGGGGTCAAAAATAGAATTTTTGGAAGTTTAAGGGT
Found at i:14289498 original size:30 final size:30
Alignment explanation
Indices: 14289360--14289498 Score: 87
Period size: 30 Copynumber: 4.7 Consensus size: 30
14289350 AGTAATTATG
* *
14289360 GGAAAGTTC-GGGGTCAAAAATAG-AATTTTT
1 GGAAAGTTCAAGGGTC-AAAAT-GTAAATTTT
* *
14289390 GGAAA-TTCGA-GGT-AAAATGGTAATTTTT
1 GGAAAGTTCAAGGGTCAAAAT-GTAAATTTT
* *
14289418 GTG-AAGTTCGAGTG-CAATAATGTAAATTTT
1 G-GAAAGTTCAAGGGTCAA-AATGTAAATTTT
* *
14289448 GGAAAGTTCAGGGGTTAAAATGT-AATTCTT
1 GGAAAGTTCAAGGGTCAAAATGTAAATT-TT
*
14289478 GGAAAGTTTAAGGGTCAAAAT
1 GGAAAGTTCAAGGGTCAAAAT
14289499 ATGATTTTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
27 6 0.07
28 10 0.11
29 17 0.19
30 50 0.57
31 5 0.06
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (30 bp):
GGAAAGTTCAAGGGTCAAAATGTAAATTTT
Found at i:14290634 original size:3 final size:3
Alignment explanation
Indices: 14290626--14290709 Score: 105
Period size: 3 Copynumber: 27.7 Consensus size: 3
14290616 TTCGACTGCC
*
14290626 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** * *
14290674 CTA TTA AGA ATA GTA TTA TTA TTA TTGA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT
14290710 GATACTATTT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
3 68 0.96
4 3 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:14290906 original size:6 final size:6
Alignment explanation
Indices: 14290879--14290948 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
14290869 GACTTTGTTT
* * *
14290879 ATTTAA ATTTAGA A--TAA TTTTAA ATTTAA ATATAA ATTTAA A-ATAA
1 ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
14290925 ATTT-A ATCTTAA A-ATAA ATTTAA A
1 ATTTAA AT-TTAA ATTTAA ATTTAA A
14290949 ATGGATTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
4 1 0.02
5 13 0.27
6 31 0.63
7 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:14290917 original size:29 final size:28
Alignment explanation
Indices: 14290882--14290950 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
14290872 TTTGTTTATT
* *
14290882 TAAATTTAGAATAATTTTAAAT-TTAAATA
1 TAAATTTAAAATAAATTT-AATCTTAAA-A
14290911 TAAATTTAAAATAAATTTAATCTTAAAA
1 TAAATTTAAAATAAATTTAATCTTAAAA
14290939 TAAATTTAAAAT
1 TAAATTTAAAAT
14290951 GGATTTAGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (28 bp):
TAAATTTAAAATAAATTTAATCTTAAAA
Found at i:14290918 original size:18 final size:17
Alignment explanation
Indices: 14290879--14290948 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
14290869 GACTTTGTTT
*
14290879 ATTTAAATTTAGAATAA
1 ATTTAAATTTAAAATAA
*
14290896 TTTTAAATTT-AAAT--
1 ATTTAAATTTAAAATAA
14290910 A--TAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
14290925 ATTT-AATCTTAAAATAA
1 ATTTAAAT-TTAAAATAA
14290942 ATTTAAA
1 ATTTAAA
14290949 ATGGATTTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
12 7 0.16
13 4 0.09
15 1 0.02
16 6 0.14
17 23 0.53
18 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:14290950 original size:11 final size:12
Alignment explanation
Indices: 14290899--14290930 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
14290889 AGAATAATTT
14290899 TAAATTTAAATA
1 TAAATTTAAATA
14290911 TAAATTTAAA-A
1 TAAATTTAAATA
14290922 TAAATTTAA
1 TAAATTTAA
14290931 TCTTAAAATA
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTTAAATA
Found at i:14311094 original size:22 final size:18
Alignment explanation
Indices: 14311069--14311113 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
14311059 CTCATTTTCC
14311069 TAAAATAGCCCAACACCCAAAA
1 TAAAATA-CCCAA-A-CC-AAA
14311091 TAAAATACCCAAACCAAA
1 TAAAATACCCAAACCAAA
14311109 TAAAA
1 TAAAA
14311114 CCCATACCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.35
19 2 0.09
20 1 0.04
21 5 0.22
22 7 0.30
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.11
Consensus pattern (18 bp):
TAAAATACCCAAACCAAA
Found at i:14340881 original size:321 final size:322
Alignment explanation
Indices: 14340244--14340885 Score: 1178
Period size: 322 Copynumber: 2.0 Consensus size: 322
14340234 TCGAGTACTA
*
14340244 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATATGTTAAGTTCATTCAAT
1 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
*
14340309 AATGTGGAACTGGAATTTTTGGTGTAGTGAGAAATTGAAACAACATTGACTCCTTAAAAATTTTT
66 AATGTGGAACTGGAATTTTTGGGGTAGTGAGAAATTGAAACAACATTGACTCCTTAAAAATTTTT
*
14340374 GTAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAATA
131 GTAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAAGA
* * *
14340439 CACATATCATGCCAAGATATATCCTTTGAAGGACATGCATTATAATTTGTAATAGTTCGTTGCCC
196 CACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCC
*
14340504 GTATAGTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGACC
261 GTATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGACC
14340566 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
1 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
* * *
14340631 AATGTGGAACTGGAATTTTTGGGGTGGTGAGAAATTGAAACAACATTGATTCCTTAAAATTTTTT
66 AATGTGGAACTGGAATTTTTGGGGTAGTGAGAAATTGAAACAACATTGACTCCTTAAAAATTTTT
14340696 GTAGAAATTAAATTCAAATTTCGTTTATCT-AAAAAACCCCTGACCTAACTTAGTTATGAAAAGA
131 GTAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAAGA
14340760 CACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCC
196 CACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCC
*
14340825 GTATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACGTTAGTTATGAC
261 GTATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGAC
14340886 TTCTTGTTCC
Statistics
Matches: 309, Mismatches: 11, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
321 154 0.50
322 155 0.50
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (322 bp):
TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
AATGTGGAACTGGAATTTTTGGGGTAGTGAGAAATTGAAACAACATTGACTCCTTAAAAATTTTT
GTAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAAGA
CACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCC
GTATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGACC
Found at i:14350850 original size:320 final size:321
Alignment explanation
Indices: 14350239--14350878 Score: 1158
Period size: 320 Copynumber: 2.0 Consensus size: 321
14350229 TCGAGTACTA
*
14350239 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATATGTTAAGTTCATTCAAT
1 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
*
14350304 AATGTGGAACTGGAATTTTTGGTGTAGTGAGAAATTGAAACACATTGACTCCTTAAAAATTTTTG
66 AATGTGGAACTGGAATTTTTGGGGTAGTGAGAAATTGAAACACATTGACTCCTTAAAAATTTTTG
*
14350369 TAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAATAC
131 TAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAAGAC
* * *
14350434 ACATATCATGCCAAGATATATCCTTTGAAGGACATGCATTATAATTTGTAATAGTTCGTTGCCCG
196 ACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCCG
*
14350499 TATAGTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGACC
261 TATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGACC
14350560 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
1 TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
* * *
14350625 AATGTGGAACTGGAATTTTTGGGGTGGTGAGAAATTGAAACAACATTGATTCCTTAAAATTTTTT
66 AATGTGGAACTGGAATTTTTGGGGTAGTGAGAAATTGAAAC-ACATTGACTCCTTAAAAATTTTT
14350690 GTAGAAATTAAATTCAAATTTCGTTTATCT-AAAAAA-CCCTGACCTAACTTAGTTATGAAAAGA
130 GTAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAAGA
14350753 CACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCC
195 CACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCC
*
14350818 GTATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACGTTAGTTATGAC
260 GTATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGAC
14350879 TTCTTGTTCC
Statistics
Matches: 307, Mismatches: 11, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
320 147 0.48
321 109 0.36
322 51 0.17
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (321 bp):
TATATTCTTTCACATTGTTTAAATTGAAACAAATACCAATATTTTATACGTTAAGTTCATTCAAT
AATGTGGAACTGGAATTTTTGGGGTAGTGAGAAATTGAAACACATTGACTCCTTAAAAATTTTTG
TAGAAATTAAATTCAAATTTCGTTTATCTAAAAAAACCCCTGACCTAACTTAGTTATGAAAAGAC
ACATATCATGCCAAGATATATCCTTTGAAGGACATGCAGTATAATTTGCAATAGTTCATTGCCCG
TATACTAGTTGGTTTCGTTTTGTGTTTTTAGTACTTCGATGCTAGTACATTAGTTATGACC
Done.