Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 66 of 221
Found at i:19162633 original size:26 final size:25
Alignment explanation
Indices: 19162574--19162662 Score: 81
Period size: 27 Copynumber: 3.4 Consensus size: 25
19162564 TGTTTTTGTC
19162574 GAAAAGAAA-AAGAAAAAAGAAGAAAA
1 GAAAAGAAAGAAGAAAAAAG-A-AAAA
* * * *
19162600 TGTAAAGAAAGAGGAAAAAATAAAAG
1 -GAAAAGAAAGAAGAAAAAAGAAAAA
*
19162626 GAACAAGAAAGGAAGAGAAAAGAAAAA
1 GAA-AAGAAA-GAAGAAAAAAGAAAAA
19162653 GAAAAGAAAG
1 GAAAAGAAAG
19162663 TATAAGCGAA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
25 3 0.06
26 15 0.30
27 24 0.48
28 8 0.16
ACGTcount: A:0.72, C:0.01, G:0.24, T:0.03
Consensus pattern (25 bp):
GAAAAGAAAGAAGAAAAAAGAAAAA
Found at i:19162758 original size:20 final size:21
Alignment explanation
Indices: 19162720--19162760 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19162710 GTTTTATATA
*
19162720 TTTAATATATTTAATATTTTT
1 TTTAATATATTTAACATTTTT
*
19162741 TTTAATA-ATTTCACATTTTT
1 TTTAATATATTTAACATTTTT
19162761 AAAAGAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATATATTTAACATTTTT
Found at i:19169614 original size:2 final size:2
Alignment explanation
Indices: 19169607--19169636 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19169597 ATTGATTTCA
*
19169607 CT CT CT CT CT CT CT CT CT TT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19169637 TTTTAGATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:19179370 original size:20 final size:22
Alignment explanation
Indices: 19179319--19179375 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 22
19179309 CCAAAACATT
19179319 AAATCATAAA-CTCTAAATCTC
1 AAATCATAAACCTCTAAATCTC
19179340 AAATC-TCAAACCTC-AAAT-TC
1 AAATCAT-AAACCTCTAAATCTC
*
19179360 TAATCATAAACC-CTAA
1 AAATCATAAACCTCTAA
19179376 GTTTTAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
19 1 0.03
20 14 0.45
21 13 0.42
22 3 0.10
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
AAATCATAAACCTCTAAATCTC
Found at i:19179405 original size:21 final size:21
Alignment explanation
Indices: 19179381--19179425 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
19179371 CCTAAGTTTT
*
19179381 AAACCTTGAA-TCTAAAACTTC
1 AAACCTTGAACACT-AAACTTC
*
19179402 AAACTTTGAACACTAAACTTC
1 AAACCTTGAACACTAAACTTC
19179423 AAA
1 AAA
19179426 TCCTACACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (21 bp):
AAACCTTGAACACTAAACTTC
Found at i:19181797 original size:27 final size:27
Alignment explanation
Indices: 19181766--19181851 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 27
19181756 GACTTTTATG
19181766 TCTTCATCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
* *** ***
19181793 TCTTCAT-CAGATAAATTTCTGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
*
19181819 TATT--TCCTGATCTGTTGAAGTTTTT
1 TCTTCATCCTGATCTGTTGAAGTTTTT
19181844 TCTTCATC
1 TCTTCATC
19181852 AGATTGTTTC
Statistics
Matches: 40, Mismatches: 16, Indels: 6
0.65 0.26 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.38
26 15 0.38
27 9 0.22
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (27 bp):
TCTTCATCCTGATCTGTTGAAGTTTTT
Found at i:19183096 original size:28 final size:28
Alignment explanation
Indices: 19183048--19183108 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
19183038 CCACGTTGCA
19183048 TGCTTGTATTAATGGCTGCTTCCATCACT
1 TGCTTGTATTAATGGCTGCTTCCATCA-T
*
19183077 TGCTTGTGTT-ATGG-TAGCTTCCATCAT
1 TGCTTGTATTAATGGCT-GCTTCCATCAT
19183104 TGCTT
1 TGCTT
19183109 ACATCATCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 7 0.23
28 14 0.47
29 9 0.30
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (28 bp):
TGCTTGTATTAATGGCTGCTTCCATCAT
Found at i:19188237 original size:6 final size:6
Alignment explanation
Indices: 19188226--19188257 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
19188216 AAAAATATTT
19188226 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TA
19188258 TTTTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:19188265 original size:18 final size:17
Alignment explanation
Indices: 19188216--19188296 Score: 63
Period size: 18 Copynumber: 4.4 Consensus size: 17
19188206 ATAAACACAA
19188216 AAAAATATTTTAAAAAT
1 AAAAATATTTTAAAAAT
***
19188233 AAAAATAAAAATAAAAAT
1 AAAAAT-ATTTTAAAAAT
19188251 AAAAATATTTTTAAAATATTTT
1 AAAAATA-TTTTAAAA-A---T
* *
19188273 TAAAATATTTTAAAATT
1 AAAAATATTTTAAAAAT
19188290 AAAAATA
1 AAAAATA
19188297 AAAATAAAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
17 14 0.29
18 19 0.39
19 1 0.02
21 8 0.16
22 7 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAAATATTTTAAAAAT
Found at i:19188283 original size:10 final size:11
Alignment explanation
Indices: 19188252--19188288 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
19188242 AATAAAAATA
19188252 AAAATATTTTT
1 AAAATATTTTT
19188263 AAAATATTTTT
1 AAAATATTTTT
19188274 AAAATA-TTTT
1 AAAATATTTTT
19188284 AAAAT
1 AAAAT
19188289 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:19189169 original size:3 final size:3
Alignment explanation
Indices: 19189152--19189271 Score: 53
Period size: 3 Copynumber: 42.7 Consensus size: 3
19189142 AGATGCAGGA
* **
19189152 AAG AA- AAG AAG -AG AAG AAG -AG AAG -AG AAG AAG GAG AAG AAG GGG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* ** * *
19189196 AAG GAG GCG TAG AAAG AAG AA- AA- AAG AA- AA- AAG AAA AAG -AG
1 AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
19189237 AAG GAG AAG AAG AAG AGG GAG -AG AAGG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AA
19189272 AGGAAAAAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
2 20 0.22
3 64 0.72
4 5 0.06
ACGTcount: A:0.61, C:0.01, G:0.38, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:19189174 original size:13 final size:13
Alignment explanation
Indices: 19189152--19189190 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
19189142 AGATGCAGGA
*
19189152 AAGAAAAGAAGAG
1 AAGAAGAGAAGAG
19189165 AAGAAGAGAAGAG
1 AAGAAGAGAAGAG
19189178 AAGAAGGAGAAGA
1 AAGAA-GAGAAGA
19189191 AGGGGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.71
14 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (13 bp):
AAGAAGAGAAGAG
Found at i:19189229 original size:14 final size:15
Alignment explanation
Indices: 19189206--19189238 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
19189196 AAGGAGGCGT
*
19189206 AGAAAGAAGAAAAA-
1 AGAAAAAAGAAAAAG
19189220 AGAAAAAAGAAAAAG
1 AGAAAAAAGAAAAAG
19189235 AGAA
1 AGAA
19189239 GGAGAAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AGAAAAAAGAAAAAG
Found at i:19189509 original size:12 final size:12
Alignment explanation
Indices: 19189489--19189521 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
19189479 CTATGTCTTA
*
19189489 TTATTTTATTAT
1 TTATGTTATTAT
19189501 TTATGTTATTAT
1 TTATGTTATTAT
19189513 TTATGTTAT
1 TTATGTTAT
19189522 GTACATTCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
TTATGTTATTAT
Found at i:19190170 original size:159 final size:159
Alignment explanation
Indices: 19189697--19190552 Score: 1454
Period size: 159 Copynumber: 5.4 Consensus size: 159
19189687 ATACGAAAAG
* * *
19189697 AAATAAAAAAAAACGAAAATAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATAC
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
* * *
19189762 GAACAAAGGACCAAAATAAGGGGTT-TTTACTAAATTTATA-AAAAAAACACACTAAAATAATAC
66 GAACAAAGGGCCAAAATAA-GGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATAC
* *
19189825 ATTTCAAACATTATGTACTAAAACAATATA
130 ATTTCAAACTTTATGTACTAAAATAATATA
19189855 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
19189920 GAACAAAGGGCCAAAATAAGGGTT-TTTACTAAATTTATATAA-AAACACACACTAAATTAATAC
66 GAACAAAGGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAA-ACACACTAAATTAATAC
*
19189983 ATTTCAAACTTTACGTACTAAAATAATATA
130 ATTTCAAACTTTATGTACTAAAATAATATA
19190013 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
19190078 GAA-ACAAGGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATAC
66 GAACA-AAGGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATAC
19190142 ATTTCAAACTTTATGTACTAAAATAATATA
130 ATTTCAAACTTTATGTACTAAAATAATATA
* * *
19190172 GAATAATAATATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATAC
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
*
19190237 GAATAAAGGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATACA
66 GAACAAAGGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATACA
19190302 TTTCAAACTTTATGTACTAAAATAATATA
131 TTTCAAACTTTATGTACTAAAATAATATA
* *
19190331 AAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATAC
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
*
19190396 GAACAAATGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATACA
66 GAACAAAGGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATACA
*
19190461 TTTCAAA-TATTATGTACTAAAACAATATA
131 TTTCAAACT-TTATGTACTAAAATAATATA
* * *
19190490 AAATAATAAAATATGAAAATAATATATTTTTTGAAAGTAATAAAATCCGAAATTAAGAAAAAT
1 AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAAT
19190553 CTGAAAATAA
Statistics
Matches: 670, Mismatches: 21, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
157 24 0.04
158 213 0.32
159 429 0.64
160 4 0.01
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (159 bp):
AAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
GAACAAAGGGCCAAAATAAGGGTTATTTACTAAATTTATATAAGAAAACACACTAAATTAATACA
TTTCAAACTTTATGTACTAAAATAATATA
Found at i:19190510 original size:16 final size:15
Alignment explanation
Indices: 19190484--19190513 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19190474 GTACTAAAAC
19190484 AATATAAAATAATAA
1 AATATAAAATAATAA
19190499 AATATGAAAATAATA
1 AATAT-AAAATAATA
19190514 TATTTTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATATAAAATAATAA
Found at i:19190553 original size:17 final size:17
Alignment explanation
Indices: 19190531--19190569 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
19190521 TGAAAGTAAT
*
19190531 AAAATCCGAAATTAAGA
1 AAAATCCGAAAATAAGA
*
19190548 AAAATCTGAAAATAAGA
1 AAAATCCGAAAATAAGA
19190565 AAAAT
1 AAAAT
19190570 ACATTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATCCGAAAATAAGA
Found at i:19191378 original size:114 final size:114
Alignment explanation
Indices: 19191178--19191407 Score: 424
Period size: 114 Copynumber: 2.0 Consensus size: 114
19191168 CACTTATCAG
*
19191178 CTAATGCAACTGAAGGAGAGTTGATGTGCGCTGCTCGAGCGTATATCATGCATATTATAGGGGGA
1 CTAATGCAACTGAAGGAGAGTTGATGTGCGCTGCTCGAGCGTACATCATGCATATTATAGGGGGA
19191243 GTACTGATGCCCAGTTCAAACAATAACAAGGTTCATATCATGTACTTAC
66 GTACTGATGCCCAGTTCAAACAATAACAAGGTTCATATCATGTACTTAC
* *
19191292 CTAATGCCACTGAAGGTGAGTTGATGTGCGCTGCTCGAGCGTACATCATGCATATTATAGGGGGA
1 CTAATGCAACTGAAGGAGAGTTGATGTGCGCTGCTCGAGCGTACATCATGCATATTATAGGGGGA
*
19191357 GTACTGATGCTCAGTTCAAACAATAACAAGGTTCATATCATGTACTTAC
66 GTACTGATGCCCAGTTCAAACAATAACAAGGTTCATATCATGTACTTAC
19191406 CT
1 CT
19191408 CTATTAGCTG
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 112 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (114 bp):
CTAATGCAACTGAAGGAGAGTTGATGTGCGCTGCTCGAGCGTACATCATGCATATTATAGGGGGA
GTACTGATGCCCAGTTCAAACAATAACAAGGTTCATATCATGTACTTAC
Found at i:19193946 original size:76 final size:76
Alignment explanation
Indices: 19193866--19194007 Score: 207
Period size: 76 Copynumber: 1.9 Consensus size: 76
19193856 ATAGTTTTTT
19193866 ACTAAAAATAATACTAACTAACAATAATAATTAGGG-TTTTACTAGA-AATAATAACTAACAATA
1 ACTAAAAATAATACTAACTAA-AATAATAATTAGGGTTTTTACTA-ATAATAATAACTAACAATA
19193929 ATATAGTGTAAAA
64 ATATAGTGTAAAA
* * ** *
19193942 ACTAACAATCATACTAACTAAAATAATAATTAGGGTTTTTACTAATCCTAATAACTAACCATAAT
1 ACTAAAAATAATACTAACTAAAATAATAATTAGGGTTTTTACTAATAATAATAACTAACAATAAT
19194007 A
66 A
19194008 ATAATATTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
75 15 0.25
76 44 0.75
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (76 bp):
ACTAAAAATAATACTAACTAAAATAATAATTAGGGTTTTTACTAATAATAATAACTAACAATAAT
ATAGTGTAAAA
Found at i:19194040 original size:41 final size:40
Alignment explanation
Indices: 19193846--19194056 Score: 127
Period size: 40 Copynumber: 5.3 Consensus size: 40
19193836 CTAACACAAT
* * *
19193846 AATAATAATAATAGTTTTTTACTAAAAATAATACTAACTAA
1 AATAATAATTAGAG-TTTTTACTAACAATAATACTAACTAA
*
19193887 CAATAATAATTAG-GGTTTTACTAGA-AAT-A-A-TAACTAA
1 -AATAATAATTAGAGTTTTTACTA-ACAATAATACTAACTAA
* **** *
19193924 CAATAAT-A-TAGTGTAAAAACTAACAATCATACTAACTAA
1 -AATAATAATTAGAGTTTTTACTAACAATAATACTAACTAA
* *
19193963 AATAATAATTAGGGTTTTTACTAATC-CTAATAACTAACCATAA
1 AATAATAATTAGAGTTTTTACTAA-CAATAAT-ACTAA-C-TAA
* *
19194006 TAATAAT-ATTA-ATTTTTTACTAACAATAATACTAAGTAA
1 -AATAATAATTAGAGTTTTTACTAACAATAATACTAACTAA
*
19194045 CAATAATTATTA
1 -AATAATAATTA
19194057 ATAACTAAAC
Statistics
Matches: 134, Mismatches: 20, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
35 4 0.03
36 9 0.07
37 15 0.11
38 8 0.06
39 18 0.13
40 28 0.21
41 14 0.10
42 25 0.19
43 7 0.05
44 6 0.04
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (40 bp):
AATAATAATTAGAGTTTTTACTAACAATAATACTAACTAA
Found at i:19195598 original size:39 final size:39
Alignment explanation
Indices: 19195555--19195640 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
19195545 CATCCACGTG
*
19195555 ATAATTTATATGTATGTCATATCAGTAAAGATAATAAAT
1 ATAATTTACATGTATGTCATATCAGTAAAGATAATAAAT
19195594 ATAATTTACATGTATGTCATATCAGTAAAGATAATAAAT
1 ATAATTTACATGTATGTCATATCAGTAAAGATAATAAAT
19195633 ATTAATTT
1 A-TAATTT
19195641 TCTATCCATT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 39 0.87
40 6 0.13
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (39 bp):
ATAATTTACATGTATGTCATATCAGTAAAGATAATAAAT
Found at i:19202363 original size:16 final size:16
Alignment explanation
Indices: 19202342--19202374 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19202332 AACAACCATA
19202342 ATTGACATTAATAATT
1 ATTGACATTAATAATT
19202358 ATTGACATTAATAATT
1 ATTGACATTAATAATT
19202374 A
1 A
19202375 ATATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTGACATTAATAATT
Found at i:19202578 original size:17 final size:16
Alignment explanation
Indices: 19202558--19202603 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
19202548 TATATATGTA
19202558 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
*
19202575 TAATAATTATTAAAAT
1 TAATAAATATTAAAAT
19202591 CT-ATAAA-ATTAAA
1 -TAATAAATATTAAA
19202604 TTTTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:19202590 original size:16 final size:17
Alignment explanation
Indices: 19202558--19202590 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19202548 TATATATGTA
19202558 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
19202575 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
19202591 CTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:19202791 original size:34 final size:34
Alignment explanation
Indices: 19202752--19202816 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
19202742 TACTAACACA
19202752 TAATATAACAATATATTATAATGTATTAGTAAGG
1 TAATATAACAATATATTATAATGTATTAGTAAGG
*
19202786 TAATATAATAATATATTATAATGTATTAGTA
1 TAATATAACAATATATTATAATGTATTAGTA
19202817 TTACTAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.42
Consensus pattern (34 bp):
TAATATAACAATATATTATAATGTATTAGTAAGG
Found at i:19203440 original size:18 final size:17
Alignment explanation
Indices: 19203419--19203481 Score: 58
Period size: 18 Copynumber: 3.5 Consensus size: 17
19203409 TTAAATACTT
19203419 TTTTTAATTTTTATAACA
1 TTTTTAATTTTTATAA-A
19203437 TTTTTCAA-TTTTATAAA
1 TTTTT-AATTTTTATAAA
19203454 TTATTTAGACTTTTTA-AAA
1 TT-TTTA-A-TTTTTATAAA
*
19203473 TTTATAATT
1 TTTTTAATT
19203482 ATATATTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
16 2 0.05
17 5 0.13
18 20 0.51
19 7 0.18
20 5 0.13
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTTAATTTTTATAAA
Found at i:19204255 original size:8 final size:8
Alignment explanation
Indices: 19204233--19204273 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
19204223 GGGTAAAAAC
*
19204233 AAAATGAT
1 AAAATAAT
*
19204241 AATATAAT
1 AAAATAAT
19204249 AAAATAAT
1 AAAATAAT
*
19204257 AAAGTAAT
1 AAAATAAT
19204265 AAAATAAT
1 AAAATAAT
19204273 A
1 A
19204274 GTAATCGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (8 bp):
AAAATAAT
Found at i:19206329 original size:94 final size:94
Alignment explanation
Indices: 19206191--19207205 Score: 1061
Period size: 94 Copynumber: 10.8 Consensus size: 94
19206181 ATTTGACTTT
* * * * * * * *
19206191 ATCTGGCTCCACTGCATCCTT-AGGGAGATGAGATTTGTCGTTGTAGTTTCAATCTGTTCC-ACT
1 ATCTTGCTCCACTGCA-ACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTG-ACCTACT
* * *
19206254 ACAACTTCAGAGGTATAGGATTTGTAGCTTT
64 GCAACTTCAGGGGTATAGGATTTGTAGCTTC
* * * * * * *
19206285 ATCTTGCTCTATTGCAACTACATGGAGATAAGATTTGCCATTGTAGTTTCATTC-GACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
*
19206349 AACTTCAGGGGTATAGGATTTGTAGTTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTC
* *
19206378 ATCTTGTTCGACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
* *
19206443 AACTTTAGGGGTATAGGATTTGTAGCTCC
66 AACTTCAGGGGTATAGGATTTGTAGCTTC
* * * * * *
19206472 ATCTTGCTCCACTACTACTTCAAGGAGATAAGATTCACCGTTGTAGTTTCATT-TCGACCTACTA
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCT-GACCTACTG
19206536 CAACTTCAGGGGTATAGGATTTGTAGCTTC
65 CAACTTCAGGGGTATAGGATTTGTAGCTTC
**** * * * *
19206566 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAATTGTAGTTTCATTTTGACCAATTGG
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
*
19206631 AACTTCAGAGGTATAGGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTC
* *** * *
19206660 ATCTTGCTCCATTATGACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCCGACCCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
* * *
19206725 AATTTTAGGGGTATAGGATTTGTAGCTCC
66 AACTTCAGGGGTATAGGATTTGTAGCTTC
* * * * * * *
19206754 ATCTTGTTCCATTACAACTTCAAGGAGATAATATTTGCCATTGTAATTTCATTCTGACCTACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
* * *
19206819 AACTTCAAGGGTATAGGACTTATAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTC
* * * * * * *
19206848 ATCTTGCTCTACTGCATCTTTAGGGAGATAAGATTCGTCGTTGTAGTTTCAATCCAT-TCC-ACT
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTC-ATTC-TGACCTACT
* * *
19206911 GTAACTTTAGGGATATAGGATTTGTAGCTTC
64 GCAACTTCAGGGGTATAGGATTTGTAGCTTC
* ** * *
19206942 ATCTTGCTCCACTGCATCTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCCAACCCACTGT
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
*
19207007 AACTTCTGGGGTATAGGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTC
* * * * * ** * ** *
19207036 ATCTTACTCCACTGCATCTTTAGGAAGATAAGATTCTCCGCTGTAGTTTTATTCCAACCTACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
* * *
19207101 AACTTTAGAGGTATAGGATTTGTAGTTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTC
* * * * * * * ** *
19207130 ATCTTGCTCCATTGCATCTTTAAGGAGATAAGATTCGCCACTATAGTTTTATTCCAACCCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
*
19207195 AACTTTAGGGG
66 AACTTCAGGGG
19207206 GACTAGAATT
Statistics
Matches: 779, Mismatches: 133, Indels: 18
0.84 0.14 0.02
Matches are distributed among these distances:
92 2 0.00
93 88 0.11
94 682 0.88
95 6 0.01
96 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (94 bp):
ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTACTGC
AACTTCAGGGGTATAGGATTTGTAGCTTC
Found at i:19206443 original size:50 final size:49
Alignment explanation
Indices: 19206297--19207012 Score: 158
Period size: 50 Copynumber: 15.2 Consensus size: 49
19206287 CTTGCTCTAT
* *
19206297 TGCAACTACATGGAGATAAGATTTGCCATTGTAGTTTCATTC-GACCCAC
1 TGCAACTTCAGGGAGATAAGA-TTGCCATTGTAGTTTCATTCTGACCCAC
* * ** *
19206346 TACAACTTCAGGG-GTATAGGA-T----TTGTAGTTTCA-TCTTGTTCGAC
1 TGCAACTTCAGGGAG-ATAAGATTGCCATTGTAGTTTCATTC-TGACCCAC
*
19206390 TGCAACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCTGACCTAC
1 TGCAACTTCAGGGAGATAAGATT-GCCATTGTAGTTTCATTCTGACCCAC
* * * *
19206440 TGCAACTTTAGGG-GTATAGGA-T----TTGTAGCTCCA-TCTTG-CTCCAC
1 TGCAACTTCAGGGAG-ATAAGATTGCCATTGTAGTTTCATTC-TGAC-CCAC
* * * * * *
19206484 TACTACTTCAAGGAGATAAGATTCACCGTTGTAGTTTCATT-TCGACCTAC
1 TGCAACTTCAGGGAGATAAGATT-GCCATTGTAGTTTCATTCT-GACCCAC
* * *
19206534 TACAACTTCAGGG-GTATAGGA-T----TTGTAGCTTCA-TCTTG-CTCCAC
1 TGCAACTTCAGGGAG-ATAAGATTGCCATTGTAGTTTCATTC-TGAC-CCAC
*** * * *
19206578 TGCAACTTCAGGGAGATAAGATTTATAATTGTAGTTTCATTTTGACCAAT
1 TGCAACTTCAGGGAGATAAGA-TTGCCATTGTAGTTTCATTCTGACCCAC
* * * * *
19206628 TGGAACTTCAGAGG-TATAGGA-T----TTGTAGCTTCA-TCTTG-CTCCAT
1 TGCAACTTCAG-GGAGATAAGATTGCCATTGTAGTTTCATTC-TGAC-CCAC
*** *
19206672 TATGACTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCCGACCCAC
1 TGCAACTTCAGGGAGATAAGATT-GCCATTGTAGTTTCATTCTGACCCAC
* * * * * ** *
19206722 TGCAATTTTAGGG-GTATAGGA-T----TTGTAGCTCCA-TCTTGTTCCAT
1 TGCAACTTCAGGGAG-ATAAGATTGCCATTGTAGTTTCATTC-TGACCCAC
* * * * *
19206766 TACAACTTCAAGGAGATAATATTTGCCATTGTAATTTCATTCTGACCTAC
1 TGCAACTTCAGGGAGATAAGA-TTGCCATTGTAGTTTCATTCTGACCCAC
* * * * *
19206816 TGCAACTTCAAGG-G-TATAG---GAC-TTATAGCTTCA-TCTTG-CTCTAC
1 TGCAACTTCAGGGAGATA-AGATTGCCATTGTAGTTTCATTC-TGAC-CCAC
* * * * * * *
19206860 TGCATCTTTAGGGAGATAAGATTCGTCGTTGTAGTTTCAATC-CATTCCAC
1 TGCAACTTCAGGGAGATAAGATT-GCCATTGTAGTTTCATTCTGA-CCCAC
* * * * *
19206910 TGTAACTTTAGGGATATAGGA-T----TTGTAGCTTCA-TCTTG-CTCCAC
1 TGCAACTTCAGGGAGATAAGATTGCCATTGTAGTTTCATTC-TGAC-CCAC
* **
19206954 TGCATCTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCCAACCCAC
1 TGCAACTTCAGGGAGATAAGATT-GCCATTGTAGTTTCATTCTGACCCAC
*
19207004 TGTAACTTC
1 TGCAACTTC
19207013 TGGGGTATAG
Statistics
Matches: 477, Mismatches: 107, Indels: 165
0.64 0.14 0.22
Matches are distributed among these distances:
42 2 0.00
43 27 0.06
44 188 0.39
45 14 0.03
46 4 0.01
47 1 0.00
48 4 0.01
49 27 0.06
50 192 0.40
51 18 0.04
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (49 bp):
TGCAACTTCAGGGAGATAAGATTGCCATTGTAGTTTCATTCTGACCCAC
Found at i:19206954 original size:44 final size:44
Alignment explanation
Indices: 19206905--19207059 Score: 116
Period size: 44 Copynumber: 3.4 Consensus size: 44
19206895 TTCAATCCAT
* *
19206905 TCCACTGTAACTTTAGGGATATAGGATTTGTAGCTTCATCTTGC
1 TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTAC
* * * * * **
19206949 TCCACTGCATCTTCAGGGAGATAAGATTCGCCATTGTAGTTTCATTCCAAC
1 TCCACTGCAACTTTAGGGATATAGGA-T-----TTGTAGCTTCA-TCTTAC
* *
19207000 -CCACTGTAACTTCT-GGGGTATAGGATTTGTAGCTTCATCTTAC
1 TCCACTGCAACTT-TAGGGATATAGGATTTGTAGCTTCATCTTAC
*
19207043 TCCACTGCATCTTTAGG
1 TCCACTGCAACTTTAGG
19207060 AAGATAAGAT
Statistics
Matches: 81, Mismatches: 20, Indels: 20
0.67 0.17 0.17
Matches are distributed among these distances:
43 5 0.06
44 43 0.53
45 1 0.01
49 1 0.01
50 28 0.35
51 3 0.04
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (44 bp):
TCCACTGCAACTTTAGGGATATAGGATTTGTAGCTTCATCTTAC
Found at i:19214088 original size:16 final size:18
Alignment explanation
Indices: 19214063--19214106 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
19214053 TGGTAAAAAC
*
19214063 AAAATGATAAT-A-TAAT
1 AAAATAATAATAAGTAAT
19214079 AAAATAATAATAAAGTAAT
1 AAAATAATAAT-AAGTAAT
19214098 AAAATAATA
1 AAAATAATA
19214107 GTAATTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 10 0.42
18 1 0.04
19 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATAATAATAAGTAAT
Found at i:19216916 original size:20 final size:21
Alignment explanation
Indices: 19216879--19216930 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
19216869 ATTTCAACCA
19216879 ATATAATAATAAACAATA-AT
1 ATATAATAATAAACAATATAT
* **
19216899 ATATGATAATAATTAATATAT
1 ATATAATAATAAACAATATAT
19216920 ATATATATAAT
1 ATATA-ATAAT
19216931 GTTCTACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 15 0.58
21 6 0.23
22 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (21 bp):
ATATAATAATAAACAATATAT
Found at i:19217290 original size:7 final size:7
Alignment explanation
Indices: 19217278--19217316 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
19217268 ATAACATCAA
19217278 TAGTAAT
1 TAGTAAT
19217285 TAGTAAT
1 TAGTAAT
19217292 TAGTAAT
1 TAGTAAT
19217299 TAGTAATT
1 TAGTAA-T
19217307 TAGTATAT
1 TAGTA-AT
19217315 TA
1 TA
19217317 AAATGTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 20 0.67
8 9 0.30
9 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (7 bp):
TAGTAAT
Found at i:19218493 original size:17 final size:18
Alignment explanation
Indices: 19218450--19218496 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
19218440 TTTAAACTTT
* *
19218450 AAAATTAAAAAATATTAA
1 AAAAATAAAAAACATTAA
*
19218468 AAATTATAAAAAACA-TAA
1 AAA-AATAAAAAACATTAA
19218486 AAAAATAAAAA
1 AAAAATAAAAA
19218497 TAAAATTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 8 0.33
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAAACATTAA
Found at i:19221157 original size:141 final size:135
Alignment explanation
Indices: 19220974--19221383 Score: 511
Period size: 141 Copynumber: 3.0 Consensus size: 135
19220964 CGGAGGAAAT
* * *
19220974 GCAGAATGTCCGC-TTCAAAGTTAAG-AGACCTCAAGAACTACGAACTAAAGAGCTCAAACCACA
1 GCAGAATGTCCACATT-GAAGTTAAGCA-ACCTCAAGAACTACGAACCAAAGAGCTCAAACCACA
* * * *
19221037 GATATCTTTTGCAGCAGAGCAGCATAAGAAATCTAAAATGGCGACAGAAAGTTCTCAAATGCCAC
64 GATATCTTTTGCAACAGAACAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCAC
19221102 AACTAAC
129 AACTAAC
19221109 GCAGAATGTCCACATTGAAGTTAAGCAACCTCAACCTCAAGAACTACGAACCAAAGAGCTCAAAC
1 GCAGAATGTCCACATTGAAGTTAAG------CAACCTCAAGAACTACGAACCAAAGAGCTCAAAC
* * * * * * * *
19221174 CGCAGACATCTTTTGCAACAGAACCGCATGAGAAATCAAAAATGGAAATAGGAAGTTCTGAAATG
60 CACAGATATCTTTTGCAACAGAACAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATG
*
19221239 CCACAACTAAT
125 CCACAACTAAC
* * * *
19221250 GCAGAATGTCCACATTGAAGTTAAGCAACCTGAAGATCTACGAACCAAAAAGCTCGAACCACAGA
1 GCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCACAGA
* * *
19221315 TGTCTTTTGCAAAAGAACCA-CATAAGAAATCAAAAATGGCAACAGAAAGTTCTCACATGCCACA
66 TATCTTTTGCAACAGAA-CAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCACA
19221379 ACTAA
130 ACTAA
19221384 TGCCAATGGA
Statistics
Matches: 235, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
135 112 0.48
136 3 0.01
141 119 0.51
142 1 0.00
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (135 bp):
GCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCACAGA
TATCTTTTGCAACAGAACAGCATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCACAA
CTAAC
Found at i:19221365 original size:135 final size:135
Alignment explanation
Indices: 19220971--19221386 Score: 523
Period size: 135 Copynumber: 3.0 Consensus size: 135
19220961 TTTCGGAGGA
* * *
19220971 AATGCAGAATGTCCGC-TTCAAAGTTAAG-AGACCTCAAGAACTACGAACTAAAGAGCTCAAACC
1 AATGCAGAATGTCCACATT-GAAGTTAAGCA-ACCTCAAGAACTACGAACCAAAGAGCTCAAACC
* * * *
19221034 ACAGATATCTTTTGCAGCAG-AGCAGCATAAGAAATCTAAAATGGCGACAGAAAGTTCTCAAATG
64 ACAGATATCTTTTGCAACAGAACCA-CATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATG
19221098 CCACAACT
128 CCACAACT
*
19221106 AACGCAGAATGTCCACATTGAAGTTAAGCAACCTCAACCTCAAGAACTACGAACCAAAGAGCTCA
1 AATGCAGAATGTCCACATTGAAGTTAAG------CAACCTCAAGAACTACGAACCAAAGAGCTCA
* * * * * * * *
19221171 AACCGCAGACATCTTTTGCAACAGAACCGCATGAGAAATCAAAAATGGAAATAGGAAGTTCTGAA
60 AACCACAGATATCTTTTGCAACAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAA
19221236 ATGCCACAACT
125 ATGCCACAACT
* * * *
19221247 AATGCAGAATGTCCACATTGAAGTTAAGCAACCTGAAGATCTACGAACCAAAAAGCTCGAACCAC
1 AATGCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCAC
* * *
19221312 AGATGTCTTTTGCAAAAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCACATGCCA
66 AGATATCTTTTGCAACAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCA
19221377 CAACT
131 CAACT
19221382 AATGC
1 AATGC
19221387 CAATGGAATC
Statistics
Matches: 240, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
135 119 0.50
136 2 0.01
141 116 0.48
142 3 0.01
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (135 bp):
AATGCAGAATGTCCACATTGAAGTTAAGCAACCTCAAGAACTACGAACCAAAGAGCTCAAACCAC
AGATATCTTTTGCAACAGAACCACATAAGAAATCAAAAATGGCAACAGAAAGTTCTCAAATGCCA
CAACT
Found at i:19236947 original size:12 final size:12
Alignment explanation
Indices: 19236930--19236957 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19236920 AATTTACTAA
19236930 AAAGTTAAAATT
1 AAAGTTAAAATT
19236942 AAAGTTAAAATT
1 AAAGTTAAAATT
19236954 AAAG
1 AAAG
19236958 AAATCAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (12 bp):
AAAGTTAAAATT
Found at i:19238388 original size:21 final size:21
Alignment explanation
Indices: 19238364--19238421 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
19238354 AGAAGTCCGG
19238364 GTTGTATCGGTAGAACCCAGA
1 GTTGTATCGGTAGAACCCAGA
*
19238385 GTTGTATTGGTAGAACCCAGA
1 GTTGTATCGGTAGAACCCAGA
*
19238406 GTTGTATCGATAGAAC
1 GTTGTATCGGTAGAAC
19238422 TCCCAGTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (21 bp):
GTTGTATCGGTAGAACCCAGA
Found at i:19241637 original size:24 final size:23
Alignment explanation
Indices: 19241610--19241682 Score: 55
Period size: 24 Copynumber: 3.2 Consensus size: 23
19241600 AATTGAAGTT
19241610 AAGCTGCTAGAAATATATGTGGAC
1 AAGCTGC-AGAAATATATGTGGAC
** *
19241634 AAGC--CACCAATA-AT-TGCATTC
1 AAGCTGCAGAAATATATGTGGA--C
19241655 AAGCTGCCAGAAATATATGTGGAC
1 AAGCTG-CAGAAATATATGTGGAC
19241679 AAGC
1 AAGC
19241683 CACCAGATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
19 3 0.08
20 2 0.06
21 10 0.28
22 1 0.03
24 15 0.42
25 2 0.06
26 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (23 bp):
AAGCTGCAGAAATATATGTGGAC
Found at i:19241649 original size:45 final size:45
Alignment explanation
Indices: 19241577--19241687 Score: 143
Period size: 45 Copynumber: 2.4 Consensus size: 45
19241567 AAAAACACAC
* * * *
19241577 TATATTGTGGACAAGTCACTAGCAATTGAAGTT-AAGCTGCTAGAAA
1 TATA-TGTGGACAAGCCACCAACAATTGAA-TTCAAGCTGCCAGAAA
* *
19241623 TATATGTGGACAAGCCACCAATAATTGCATTCAAGCTGCCAGAAA
1 TATATGTGGACAAGCCACCAACAATTGAATTCAAGCTGCCAGAAA
19241668 TATATGTGGACAAGCCACCA
1 TATATGTGGACAAGCCACCA
19241688 GATATGCAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.03
45 52 0.90
46 4 0.07
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (45 bp):
TATATGTGGACAAGCCACCAACAATTGAATTCAAGCTGCCAGAAA
Found at i:19241688 original size:24 final size:24
Alignment explanation
Indices: 19241618--19241689 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
19241608 TTAAGCTGCT
19241618 AGAAATATATGTGGACAAGCCACC
1 AGAAATATATGTGGACAAGCCACC
* **
19241642 ---AATA-AT-TGCATTCAAGCTGCC
1 AGAAATATATGTGGA--CAAGCCACC
19241663 AGAAATATATGTGGACAAGCCACC
1 AGAAATATATGTGGACAAGCCACC
19241687 AGA
1 AGA
19241690 TATGCAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
19 3 0.09
20 2 0.06
21 11 0.31
24 14 0.40
25 2 0.06
26 3 0.09
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (24 bp):
AGAAATATATGTGGACAAGCCACC
Found at i:19241997 original size:39 final size:39
Alignment explanation
Indices: 19241925--19241999 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
19241915 GTTGTATGTG
* * *
19241925 TACAAGCAATCAATATACGTTTCAGTCAATGGCATGTTA
1 TACAAGCAATCAATATACGATACAATCAATGGCATGTTA
* * *
19241964 TACATGCAATCAATATAGGATACAATCAGTGGCATG
1 TACAAGCAATCAATATACGATACAATCAATGGCATG
19242000 CTATTTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (39 bp):
TACAAGCAATCAATATACGATACAATCAATGGCATGTTA
Found at i:19242729 original size:12 final size:11
Alignment explanation
Indices: 19242711--19242758 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
19242701 GTTAAGAAGG
19242711 AAGAAAAGAAA
1 AAGAAAAGAAA
*
19242722 AAGTAAAAGTAA
1 AAG-AAAAGAAA
19242734 AAGAAAAGAGAAA
1 AAG-AAA-AGAAA
*
19242747 AAGAAATGAAA
1 AAGAAAAGAAA
19242758 A
1 A
19242759 GTATTTACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 8 0.26
12 16 0.52
13 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:19242737 original size:18 final size:18
Alignment explanation
Indices: 19242711--19242759 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
19242701 GTTAAGAAGG
*
19242711 AAGAAAAGAAAA-AGTAA
1 AAGAAAAGAAAAGAGAAA
19242728 AAGTAAAAGAAAAGAGAAA
1 AAG-AAAAGAAAAGAGAAA
*
19242747 AAGAAATGAAAAG
1 AAGAAAAGAAAAG
19242760 TATTTACGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 3 0.11
18 18 0.64
19 7 0.25
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.06
Consensus pattern (18 bp):
AAGAAAAGAAAAGAGAAA
Found at i:19242751 original size:6 final size:6
Alignment explanation
Indices: 19242714--19242752 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
19242704 AAGAAGGAAG
* *
19242714 AAAAGA AAAAGT AAAAGT AAAAGA AAAGAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA-AGA AAAAGA AA
19242753 TGAAAAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:19242907 original size:18 final size:17
Alignment explanation
Indices: 19242884--19242917 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19242874 AAGTGAGAAG
19242884 AAAAGAAGAGAATGAAAT
1 AAAAGAAGAGAA-GAAAT
*
19242902 AAAAGAGGAGAAGAAA
1 AAAAGAAGAGAAGAAA
19242918 AAGGATGACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (17 bp):
AAAAGAAGAGAAGAAAT
Found at i:19253976 original size:29 final size:30
Alignment explanation
Indices: 19253942--19254005 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
19253932 ACTTATTTTA
19253942 TTGTTAATTTTG-TATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
19253971 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
19254001 TTGTT
1 TTGTT
19254006 TGTTAAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.23, C:0.02, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:19260509 original size:26 final size:26
Alignment explanation
Indices: 19260447--19260509 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
19260437 CATTAGGGCG
* ** *
19260447 TAGCAGGCTTCGTGCCGGTGTATATT
1 TAGCAGGCTTCATGCCAATATATATT
* **
19260473 TAACAAACTTCATGCCAATATATATT
1 TAGCAGGCTTCATGCCAATATATATT
19260499 TAGCAGGCTTC
1 TAGCAGGCTTC
19260510 GTGCTGGTGT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (26 bp):
TAGCAGGCTTCATGCCAATATATATT
Found at i:19273093 original size:22 final size:23
Alignment explanation
Indices: 19273050--19273094 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
19273040 CTTTTTACCT
*
19273050 TATTTATATTAACATATGCTTAA
1 TATTTATATTAACATATACTTAA
19273073 TATTT-TATTAAACAT-TACTTAA
1 TATTTATATT-AACATATACTTAA
19273095 CATATTCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (23 bp):
TATTTATATTAACATATACTTAA
Found at i:19281054 original size:26 final size:24
Alignment explanation
Indices: 19280995--19281057 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 24
19280985 ATAACCTAAA
19280995 AAATAATAAGAAAGGAAATAAAAGT
1 AAATAATAA-AAAGGAAATAAAAGT
*
19281020 AAATAAATAAATAA-GAAATGAGAAATT
1 AAAT-AATAAA-AAGGAAAT-A-AAAGT
19281047 AAATAATAAAA
1 AAATAATAAAA
19281058 TATATATCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 11 0.33
26 14 0.42
27 8 0.24
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (24 bp):
AAATAATAAAAAGGAAATAAAAGT
Found at i:19284937 original size:3 final size:3
Alignment explanation
Indices: 19284924--19284954 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
19284914 TAATGATTAA
19284924 ATG AT- ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
19284955 AATATGTACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:19293570 original size:18 final size:17
Alignment explanation
Indices: 19293549--19293587 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
19293539 AATTACAAAA
19293549 AAAATT-AAAATAATTTTT
1 AAAATTCAAAAT-A-TTTT
19293567 AAAATTCAAAATATTTT
1 AAAATTCAAAATATTTT
19293584 AAAA
1 AAAA
19293588 AATTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 7 0.35
19 5 0.25
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTCAAAATATTTT
Found at i:19293570 original size:19 final size:18
Alignment explanation
Indices: 19293547--19293613 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
19293537 AAAATTACAA
19293547 AAAAAATTAAAATAATTTT
1 AAAAAATTAAAAT-ATTTT
*
19293566 -TAAAATTCAAAATATTTT
1 AAAAAATT-AAAATATTTT
* *
19293584 AAAAAATTATAAAAATATT
1 AAAAAATTA-AAATATTTT
*
19293603 AAAAAAATAAA
1 AAAAAATTAAA
19293614 GAATATATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 14 0.35
19 26 0.65
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAAATTAAAATATTTT
Found at i:19293610 original size:11 final size:11
Alignment explanation
Indices: 19293574--19293611 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
19293564 TTTAAAATTC
*
19293574 AAAATATTTTA
1 AAAATATTATA
19293585 AAAA-ATTATA
1 AAAATATTATA
*
19293595 AAAATATTAAA
1 AAAATATTATA
19293606 AAAATA
1 AAAATA
19293612 AAGAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATATTATA
Found at i:19293621 original size:20 final size:20
Alignment explanation
Indices: 19293574--19293621 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
19293564 TTTAAAATTC
* *
19293574 AAAATATTTTAAAAAATTAT
1 AAAATATATTAAAAAAATAT
19293594 AAAA-ATATTAAAAAAATA-
1 AAAATATATTAAAAAAATAT
19293612 AAGAATATAT
1 AA-AATATAT
19293622 AATTTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.08
19 14 0.58
20 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATATATTAAAAAAATAT
Found at i:19293641 original size:23 final size:24
Alignment explanation
Indices: 19293592--19293649 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 24
19293582 TTAAAAAATT
* *
19293592 ATAAAAATATTAAAAAAATAAAGA
1 ATAATAATTTTAAAAAAATAAAGA
*
19293616 ATATATAATTTTAAAAGAA-AAA-A
1 ATA-ATAATTTTAAAAAAATAAAGA
*
19293639 ATAATCATTTT
1 ATAATAATTTT
19293650 TGGGACTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 7 0.24
23 4 0.14
24 6 0.21
25 12 0.41
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
ATAATAATTTTAAAAAAATAAAGA
Found at i:19293872 original size:26 final size:23
Alignment explanation
Indices: 19293830--19293876 Score: 67
Period size: 26 Copynumber: 1.9 Consensus size: 23
19293820 TTTTCTAAAT
19293830 TTAACTCGAACAATTTCATTTGA
1 TTAACTCGAACAATTTCATTTGA
19293853 TTAATCTCGAATCAAATTTCATTT
1 TTAA-CTCGAA-C-AATTTCATTT
19293877 TACTTTCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 6 0.29
25 1 0.05
26 10 0.48
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (23 bp):
TTAACTCGAACAATTTCATTTGA
Found at i:19314018 original size:19 final size:20
Alignment explanation
Indices: 19313986--19314029 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
19313976 ATAAGGATGA
*
19313986 GAAATGGAAAATGAAAT-GT
1 GAAATAGAAAATGAAATGGT
*
19314005 GAAATAGAATATGAAATGGT
1 GAAATAGAAAATGAAATGGT
19314025 GAAAT
1 GAAAT
19314030 TGGTTGTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (20 bp):
GAAATAGAAAATGAAATGGT
Found at i:19322580 original size:39 final size:39
Alignment explanation
Indices: 19322500--19322580 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
19322490 TAATTTAAAC
* * *
19322500 AAACGCCGCAATAGGTAAGCAATAGCGGTGCTCTTTCTA
1 AAACACCGCAATAGATAAGCAATAGCGGCGCTCTTTCTA
* * *
19322539 AAACACCGCAATAGATCGAGCATTAGCGGCGCT-TTTGTA
1 AAACACCGCAATAGAT-AAGCAATAGCGGCGCTCTTTCTA
19322578 AAA
1 AAA
19322581 GCTCCACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
39 22 0.63
40 13 0.37
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (39 bp):
AAACACCGCAATAGATAAGCAATAGCGGCGCTCTTTCTA
Found at i:19323179 original size:15 final size:14
Alignment explanation
Indices: 19323161--19323194 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
19323151 GGTATTAGTA
*
19323161 GTTTAGGGATTATGG
1 GTTTAAGGATTAT-G
19323176 GTTTAAGGATTATG
1 GTTTAAGGATTATG
19323190 GTTTA
1 GTTTA
19323195 TTATTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (14 bp):
GTTTAAGGATTATG
Found at i:19323221 original size:14 final size:15
Alignment explanation
Indices: 19323204--19323242 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
19323194 ATTATTTATT
19323204 GTTTAAGGGTT-GGG
1 GTTTAAGGGTTAGGG
19323218 GTTTAAGGGTTAGGG
1 GTTTAAGGGTTAGGG
19323233 GTTT-AGGGTT
1 GTTTAAGGGTT
19323243 TATAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (15 bp):
GTTTAAGGGTTAGGG
Found at i:19323251 original size:14 final size:14
Alignment explanation
Indices: 19323234--19323272 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
19323224 GGGTTAGGGG
19323234 TTTAGGGTTTATAA
1 TTTAGGGTTTATAA
* * *
19323248 TTTATGTTTTATGA
1 TTTAGGGTTTATAA
19323262 TTTAGGGTTTA
1 TTTAGGGTTTA
19323273 AAGGATAAGG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (14 bp):
TTTAGGGTTTATAA
Found at i:19323313 original size:22 final size:22
Alignment explanation
Indices: 19323256--19323314 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
19323246 AATTTATGTT
*
19323256 TTATGATTTAGGGTTTAAAGGA
1 TTATGGTTTAGGGTTTAAAGGA
* * *
19323278 TAAGGGTTAAGGGTTT-AAGGA
1 TTATGGTTTAGGGTTTAAAGGA
19323299 TTATGGTTTATGGGTT
1 TTATGGTTTA-GGGTT
19323315 ATGTTTTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (22 bp):
TTATGGTTTAGGGTTTAAAGGA
Found at i:19323348 original size:21 final size:22
Alignment explanation
Indices: 19323319--19323379 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
19323309 TGGGTTATGT
*
19323319 TTTAAGTGTT-GGGGTTTAAAG
1 TTTAGGTGTTAGGGGTTTAAAG
*
19323340 TTTAGGTGTTAGGGG-TTAAGG
1 TTTAGGTGTTAGGGGTTTAAAG
* *
19323361 GTTAGGGGTTAGGGGTTTA
1 TTTAGGTGTTAGGGGTTTA
19323380 GCGTTTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
TTTAGGTGTTAGGGGTTTAAAG
Found at i:19323351 original size:7 final size:7
Alignment explanation
Indices: 19323341--19323377 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
19323331 GGTTTAAAGT
*
19323341 TTAGGTG
1 TTAGGGG
19323348 TTAGGGG
1 TTAGGGG
*
19323355 TTAAGGG
1 TTAGGGG
19323362 TTAGGGG
1 TTAGGGG
19323369 TTAGGGG
1 TTAGGGG
19323376 TT
1 TT
19323378 TAGCGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.49, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:19323435 original size:142 final size:142
Alignment explanation
Indices: 19323224--19323521 Score: 395
Period size: 142 Copynumber: 2.1 Consensus size: 142
19323214 TGGGGTTTAA
* * * *
19323224 GGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTTAGGGTTTAAAGGATAAGGGTTAAG
1 GGGTTAGGGGTTTAGCGTTTATAATTTATGTTTTATGATTCAAGATTTAAAGGATAAGGGTTAAG
* * * * **
19323289 GGTTTAAGGATTATGGTTTATGGGTTATGTTTTAAGTGTTGGGGTTTAAAGTTTAGGTGTTAGGG
66 GGTTTAAGGATTATGGTTTATGGGTTATGGTTTAAGGGTTAGGGATTAAAGTTTAGGTGTTAAAG
19323354 GTTAAGGGTTAG
131 GTTAAGGGTTAG
**
19323366 GGGTTAGGGGTTTAGCGTTTATAATTTATGTTTTATGATTCAAGATTTAGGGGAT-AGGAGTT-A
1 GGGTTAGGGGTTTAGCGTTTATAATTTATGTTTTATGATTCAAGATTTAAAGGATAAGG-GTTAA
* * * * *
19323429 GAGGTTTAGGGATTATGGTTTATGGTTTGTGGTTTAAGGGTTAGGGATTGAGGTTTAGGTGTTAA
65 G-GGTTTAAGGATTATGGTTTATGGGTTATGGTTTAAGGGTTAGGGATTAAAGTTTAGGTGTTAA
19323494 AGGTTAAGGGTTAG
129 AGGTTAAGGGTTAG
19323508 GGGTTTA-GGGTTTA
1 GGG-TTAGGGGTTTA
19323522 TAGTTCATGT
Statistics
Matches: 136, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
141 5 0.04
142 128 0.94
143 3 0.02
ACGTcount: A:0.23, C:0.01, G:0.35, T:0.41
Consensus pattern (142 bp):
GGGTTAGGGGTTTAGCGTTTATAATTTATGTTTTATGATTCAAGATTTAAAGGATAAGGGTTAAG
GGTTTAAGGATTATGGTTTATGGGTTATGGTTTAAGGGTTAGGGATTAAAGTTTAGGTGTTAAAG
GTTAAGGGTTAG
Found at i:19323499 original size:135 final size:138
Alignment explanation
Indices: 19323220--19323608 Score: 425
Period size: 135 Copynumber: 2.8 Consensus size: 138
19323210 GGGTTGGGGT
* * **
19323220 TTAAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTTAGGGTTTAAAGGATAAGG-G
1 TTAAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTCAAGGTTTAGGGGAT-AGGAG
* * * * * *
19323284 TTA-AGGGTTTAAGGATTATGGTTTATGGGTTATGTTTTAAGTGTTGGGGTTTAAAGTTTAGGTG
65 TTAGA-GGTTTAGGGATTATGGTTTATGGGTTGTGGTTTAAGGGTTAGGG--T--AGTTGAGGTG
*
19323348 TTAGGGGTTAAGGG
125 TTAGGGGTTAAAGG
* * *
19323362 TTAGGGGTTAGGGGTTTAGCGTTTATAATTTATGTTTTATGATTCAAGATTTAGGGGATAGGAGT
1 TTAAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTCAAGGTTTAGGGGATAGGAGT
* *
19323427 TAGAGGTTTAGGGATTATGGTTTATGGTTTGTGGTTTAAGGGTTAGGG-A-TTGAGGT-TTAGGT
66 TAGAGGTTTAGGGATTATGGTTTATGGGTTGTGGTTTAAGGGTTAGGGTAGTTGAGGTGTTAGGG
19323489 GTTAAAGG
131 GTTAAAGG
* *
19323497 TTAAGGGTTAGGGGTTTAGGGTTTATAGTTCATGTTTTATGATTC-AGTGTTTAGGGGATA-GAG
1 TTAAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTCAAG-GTTTAGGGGATAGGA-
* * * * * *
19323560 GATAGGGGTTTAGGCG-TTATGGTTTAAGGGTTGGGGTTTTAGGTTTAGG
64 GTTAGAGGTTTAGG-GATTATGGTTTATGGGTTGTGGTTTAAGGGTTAGG
19323609 TGTTAGCAGT
Statistics
Matches: 214, Mismatches: 28, Indels: 17
0.83 0.11 0.07
Matches are distributed among these distances:
134 4 0.02
135 104 0.49
136 7 0.03
137 1 0.00
141 3 0.01
142 94 0.44
143 1 0.00
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.41
Consensus pattern (138 bp):
TTAAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTCAAGGTTTAGGGGATAGGAGT
TAGAGGTTTAGGGATTATGGTTTATGGGTTGTGGTTTAAGGGTTAGGGTAGTTGAGGTGTTAGGG
GTTAAAGG
Found at i:19323647 original size:135 final size:129
Alignment explanation
Indices: 19323303--19323648 Score: 303
Period size: 135 Copynumber: 2.6 Consensus size: 129
19323293 TAAGGATTAT
* * * *
19323303 GGTTTATGGGTTATGTTTTAAGTGTTGGGGTTTAAAGTTTAGGTGTTAGGGGTTAAGGGTTA-GG
1 GGTTTA-GGGTTATGGTTTAAGGGTTGGGGTTTAAGGTTTAGGTGTTA-GAGTTAAGGGTTAGGG
* *
19323367 ---GGTTAGGGGTTTAGCGTTTATAATTTATGTTTTATGATTCAAGATTTAGGGGATAGGAGTTA
64 TTAGGTTA-GGGTTTAGCGTTTATAATTCATGTTTTATGATTCAAGATTTAGGGGATAGGAGATA
19323429 GA
128 GA
* * * * *
19323431 GGTTTAGGGATTATGGTTTATGGTTTGTGGTTTAAGGGTTAGG-GATT-GAGGTTTAGGTGTTAA
1 GGTTTAGGG-TTATGGTTTAAGGGTTGGGGTTTAAGGTTTAGGTG-TTAGA-GTTAAGG-GTT-A
* * * *
19323494 AGGTTAAGGGTTAGGGGTTTAGGGTTTATAGTTCATGTTTTATGATTC-AGTGTTTAGGGGATA-
61 GGGTT-A-GGTTA-GGGTTTAGCGTTTATAATTCATGTTTTATGATTCAAG-ATTTAGGGGATAG
*
19323557 GAGGATAGG
122 GA-GATAGA
* *
19323566 GGTTTAGGCGTTATGGTTTAAGGGTTGGGGTTTTAGGTTTAGGTGTTAGCAGTTAAGGGATATGG
1 GGTTTAGG-GTTATGGTTTAAGGGTTGGGGTTTAAGGTTTAGGTGTTAG-AGTTAAGGGTTA-GG
19323631 GTTTATGGTTTAGGGTTT
63 G-TTA-GG-TTAGGGTTT
19323649 TAGGTTTTGG
Statistics
Matches: 174, Mismatches: 24, Indels: 33
0.75 0.10 0.14
Matches are distributed among these distances:
126 1 0.01
127 10 0.06
128 37 0.21
129 1 0.01
130 2 0.01
134 5 0.03
135 103 0.59
136 14 0.08
137 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.36, T:0.41
Consensus pattern (129 bp):
GGTTTAGGGTTATGGTTTAAGGGTTGGGGTTTAAGGTTTAGGTGTTAGAGTTAAGGGTTAGGGTT
AGGTTAGGGTTTAGCGTTTATAATTCATGTTTTATGATTCAAGATTTAGGGGATAGGAGATAGA
Found at i:19323647 original size:142 final size:138
Alignment explanation
Indices: 19323217--19323647 Score: 380
Period size: 142 Copynumber: 3.1 Consensus size: 138
19323207 TAAGGGTTGG
* **
19323217 GGTTTAAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTTAGGGTTTAAAGGATA-A
1 GGTTT-AGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTCA-GGTTTAGGGGATAGA
* * * * * * *
19323281 GGGTTAAGGGTTTAAGGATTATGGTTTATGGGTT-ATGTTTTAAGTGTTGGGGTTTAAAGTTTAG
64 -GGTTAGGGGTTT-AGGGTTATGGTTTATGGGTTGAGGTTTTAGGT-TTAGGGATTAGAGTTTAG
*
19323345 GTGT-TAGGGGTTAA
126 G-GTAT-GGGTTTAA
* * *
19323359 GGGTTAGGGGTTAGGGGTTTAGCGTTTATAATTTATGTTTTATGATTCAAGATTTAGGGGATAG-
1 GGTTTA-GGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTC-AGGTTTAGGGGATAGA
* * * * *
19323423 GAGTTAGAGGTTTAGGGATTATGGTTTATGGTTTGTGGTTTAAGGGTTAGGGATT-GAGGTTTA-
64 G-GTTAGGGGTTTAGGG-TTATGGTTTATGGGTTGAGGTTTTAGGTTTAGGGATTAGA-GTTTAG
*
19323486 GG--T--GTTAAA
126 GGTATGGGTTTAA
* * *
19323495 GGTTAAGGGTTAGGGGTTTAGGGTTTATAGTTCATGTTTTATGATTCAGTGTTTAGGGGATAGAG
1 GGTTTAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTCAG-GTTTAGGGGATAGAG
* * * *
19323560 GATAGGGGTTTAGGCGTTATGGTTTAAGGGTTGGGGTTTTAGGTTTAGGTG-TTAGCAGTTAAGG
65 GTTAGGGGTTTAGG-GTTATGGTTTATGGGTTGAGGTTTTAGGTTTAGG-GATTAG-AGTTTAGG
*
19323624 GATATGGGTTTAT
127 G-TATGGGTTTAA
19323637 GGTTTAGGGTT
1 GGTTTAGGGTT
19323648 TTAGGTTTTG
Statistics
Matches: 233, Mismatches: 37, Indels: 38
0.76 0.12 0.12
Matches are distributed among these distances:
134 2 0.01
135 92 0.39
136 16 0.07
137 3 0.01
139 1 0.00
140 2 0.01
141 7 0.03
142 103 0.44
143 7 0.03
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.41
Consensus pattern (138 bp):
GGTTTAGGGTTAGGGGTTTAGGGTTTATAATTTATGTTTTATGATTCAGGTTTAGGGGATAGAGG
TTAGGGGTTTAGGGTTATGGTTTATGGGTTGAGGTTTTAGGTTTAGGGATTAGAGTTTAGGGTAT
GGGTTTAA
Found at i:19326296 original size:8 final size:9
Alignment explanation
Indices: 19326275--19326309 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
19326265 CAATGCAATA
*
19326275 CCCCCACTG
1 CCCCCACCG
19326284 CCCCCACCG
1 CCCCCACCG
19326293 CCCCCACCG
1 CCCCCACCG
19326302 CCCCCACC
1 CCCCCACC
19326310 ATATGTTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.11, C:0.77, G:0.09, T:0.03
Consensus pattern (9 bp):
CCCCCACCG
Found at i:19326517 original size:28 final size:27
Alignment explanation
Indices: 19326486--19326550 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
19326476 ATTATGTTTG
*
19326486 ATTA-GTTTATTCGGTTTAATGTGAATAA
1 ATTATGTTT-TTCGATTTAAT-TGAATAA
*
19326514 ATTATCGATTTTCGATTTAATTGAATAA
1 ATTAT-GTTTTTCGATTTAATTGAATAA
19326542 ATTATGTTT
1 ATTATGTTT
19326551 GATTAGTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.09
28 16 0.50
29 10 0.31
30 3 0.09
ACGTcount: A:0.32, C:0.05, G:0.14, T:0.49
Consensus pattern (27 bp):
ATTATGTTTTTCGATTTAATTGAATAA
Found at i:19326550 original size:66 final size:66
Alignment explanation
Indices: 19326464--19326611 Score: 224
Period size: 66 Copynumber: 2.2 Consensus size: 66
19326454 ATATATTAGA
* *
19326464 TTAATTGAATAAATTATGTTTGATTAGTTTATTCGGTTTAATGTGAATAAATTATCGATTTTCGA
1 TTAATTGAATAAATTATGTTTGATTAGTTTATTCGATTTAATGTGAATAAATTATCAATTTTCGA
19326529 T
66 T
* * * **
19326530 TTAATTGAATAAATTATGTTTGATTAGTTTATTTGATTTTATGTGAATAAATTGTCAATTTTTTA
1 TTAATTGAATAAATTATGTTTGATTAGTTTATTCGATTTAATGTGAATAAATTATCAATTTTCGA
19326595 T
66 T
*
19326596 TTAATTTAATAAATTA
1 TTAATTGAATAAATTA
19326612 CTGATTTTAT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 74 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (66 bp):
TTAATTGAATAAATTATGTTTGATTAGTTTATTCGATTTAATGTGAATAAATTATCAATTTTCGA
T
Found at i:19326990 original size:18 final size:18
Alignment explanation
Indices: 19326969--19327093 Score: 121
Period size: 18 Copynumber: 6.9 Consensus size: 18
19326959 AAATTAATAT
19326969 ATAATTTACATAACTTAC
1 ATAATTTACATAACTTAC
* * *
19326987 ATAAATATATATCAA-AT-C
1 AT-AATTTACAT-AACTTAC
* *
19327005 AAAATTTACATAACTTAT
1 ATAATTTACATAACTTAC
*
19327023 ATAATTTACATAACTCAC
1 ATAATTTACATAACTTAC
*
19327041 ATAACTTACATAACTTA-
1 ATAATTTACATAACTTAC
*
19327058 ATAACTATATCATAACTTAC
1 ATAA-TTTA-CATAACTTAC
19327078 ATAATTTACATAACTT
1 ATAATTTACATAACTT
19327094 TAGAGAATTA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
16 2 0.02
17 12 0.14
18 44 0.52
19 20 0.24
20 6 0.07
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATTTACATAACTTAC
Found at i:19327035 original size:9 final size:9
Alignment explanation
Indices: 19327010--19327093 Score: 107
Period size: 9 Copynumber: 9.2 Consensus size: 9
19327000 AAATCAAAAT
19327010 TTACATAAC
1 TTACATAAC
* *
19327019 TTATATAAT
1 TTACATAAC
19327028 TTACATAAC
1 TTACATAAC
*
19327037 TCACATAAC
1 TTACATAAC
19327046 TTACATAAC
1 TTACATAAC
19327055 TTA-ATAAC
1 TTACATAAC
19327063 TATATCATAAC
1 T-TA-CATAAC
*
19327074 TTACATAAT
1 TTACATAAC
19327083 TTACATAAC
1 TTACATAAC
19327092 TT
1 TT
19327094 TAGAGAATTA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
8 6 0.09
9 50 0.78
10 2 0.03
11 6 0.09
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (9 bp):
TTACATAAC
Found at i:19327162 original size:9 final size:9
Alignment explanation
Indices: 19327150--19327228 Score: 65
Period size: 9 Copynumber: 9.0 Consensus size: 9
19327140 TATATCATAT
19327150 CATAACTTA
1 CATAACTTA
*
19327159 CATAACTCA
1 CATAACTTA
*
19327168 CATAACTCA
1 CATAACTTA
*
19327177 CATAACTTG
1 CATAACTTA
19327186 CATAA--TA
1 CATAACTTA
*
19327193 CATAA-ATA
1 CATAACTTA
* * *
19327201 TATATCATA
1 CATAACTTA
19327210 TCATAACTTA
1 -CATAACTTA
19327220 CATAACTTA
1 CATAACTTA
19327229 ATTATACTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
7 6 0.10
8 5 0.09
9 41 0.71
10 6 0.10
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:19332992 original size:42 final size:43
Alignment explanation
Indices: 19332945--19333027 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
19332935 CTTCACAATC
19332945 GTCGCTAAA-AAC-GGTACTTTTAGCGGCGTTTGTGAAAAAAAT
1 GTCGCTAAAGAACAGGTAC-TTTAGCGGCGTTTGTGAAAAAAAT
** * *
19332987 GTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAAAAAA
1 GTCGCTAAAGAACAGGTACTTTAGCGGCGTTTGTGAAAAAA
19333028 GGCGCTGCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.26
43 23 0.66
44 3 0.09
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (43 bp):
GTCGCTAAAGAACAGGTACTTTAGCGGCGTTTGTGAAAAAAAT
Found at i:19333014 original size:43 final size:43
Alignment explanation
Indices: 19332963--19333296 Score: 454
Period size: 43 Copynumber: 7.7 Consensus size: 43
19332953 AAACGGTACT
* ** *
19332963 TTTAGCGGCGTTTGTGAAAAAAATGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
19333006 TTTAGCGGCGTTTGTGAAAAAAGGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAA-GCGCCGCTAAAGGTCATGTTC
* *
19333050 TTTAGTGGTGTTTGTGATAAAAG-GACCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCG-CCGCTAAAGGTCATGTTC
* *
19333093 TTTAGTGGCGTTTGTGATAAAAGCGCCGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
19333136 TTTAGTGGTGTTTGTGATAAAAGCGCTGTTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
19333179 TTTAGCGGCGATTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
19333222 TTTAGCGGCGATTGTGATAAAAGCGCCCGCTACAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCG-CCGCTAAAGGTCATGTTC
* *
19333266 TTTAGCGGCGTTTTTTATAAAAGCGCCGCTA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTA
19333297 TAGAACATGA
Statistics
Matches: 264, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.00
43 187 0.71
44 76 0.29
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:19333314 original size:173 final size:173
Alignment explanation
Indices: 19332992--19333318 Score: 478
Period size: 173 Copynumber: 1.9 Consensus size: 173
19332982 AAAATGTCGC
* *
19332992 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAAAAAAGGCGCTGCTAAAGGTCATGTTCTTTAGTG
1 TAAAGGTCATGTTCTTTAGCGGCGATTGTGAAAAAAGGCGCTGCTAAAGGTCATGTTCTTTAGCG
* * * *
19333057 GTGTTTGTGATAAAAGGACCGCTAAAGGTCATGTTCTTTAGTGGCGTTTGTGATAAAAGCGCCGT
66 GCGATTGTGATAAAAGGACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
** **
19333122 TAAAGGTCATGTTCTTTAGTGGTGTTTGTGATAAAAGCGCTGT
131 TAAAGAACATGACCTTTAGTGGTGTTTGTGATAAAAGCGCTGT
*
19333165 TAAAGGTCATGTTCTTTAGCGGCGATTGTGATAAAAGTGC-C-GCTAAAGGTCATGTTCTTTAGC
1 TAAAGGTCATGTTCTTTAGCGGCGATTGTGAAAAAAG-GCGCTGCTAAAGGTCATGTTCTTTAGC
* * * *
19333228 GGCGATTGTGATAAAAGCGCCCGCTACAGGTCATGTTCTTTAGCGGCGTTTTTTATAAAAGCGCC
65 GGCGATTGTGATAAAAG-GACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCC
*
19333293 GCTATAGAACATGACCTTTAGTGGTG
129 GCTAAAGAACATGACCTTTAGTGGTG
19333319 CTTCTCTTTA
Statistics
Matches: 136, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
172 36 0.26
173 98 0.72
174 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (173 bp):
TAAAGGTCATGTTCTTTAGCGGCGATTGTGAAAAAAGGCGCTGCTAAAGGTCATGTTCTTTAGCG
GCGATTGTGATAAAAGGACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
TAAAGAACATGACCTTTAGTGGTGTTTGTGATAAAAGCGCTGT
Found at i:19337821 original size:54 final size:54
Alignment explanation
Indices: 19337739--19337841 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
19337729 ACATCGAACC
19337739 TCGATGTCGTGACAACGGAAAACTGTCAAGGATGTCACAACACAAAACCCAACA
1 TCGATGTCGTGACAACGGAAAACTGTCAAGGATGTCACAACACAAAACCCAACA
* *
19337793 TCGATGTTGTGACAACGGAAAACTGTCAAGGATGTCGCAACACAAAACC
1 TCGATGTCGTGACAACGGAAAACTGTCAAGGATGTCACAACACAAAACC
19337842 ATTGTCTCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (54 bp):
TCGATGTCGTGACAACGGAAAACTGTCAAGGATGTCACAACACAAAACCCAACA
Found at i:19352264 original size:8 final size:8
Alignment explanation
Indices: 19352251--19352276 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
19352241 TGATTTCTCA
19352251 TTATTTCT
1 TTATTTCT
19352259 TTATTTCT
1 TTATTTCT
19352267 TTATTTCT
1 TTATTTCT
19352275 TT
1 TT
19352277 TCAGTTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (8 bp):
TTATTTCT
Found at i:19352745 original size:27 final size:27
Alignment explanation
Indices: 19352644--19352745 Score: 159
Period size: 27 Copynumber: 3.8 Consensus size: 27
19352634 ATTCTCTTCG
* *
19352644 TAGATTGCCACAAAGGCTTCATTTTCA
1 TAGATTGCCACAAAGGCTTCCTTATCA
*
19352671 TAGATTGCCACAAAAGCTTCCTTATCA
1 TAGATTGCCACAAAGGCTTCCTTATCA
*
19352698 TAGATTTCCACAAAGGCTTCCTTATCA
1 TAGATTGCCACAAAGGCTTCCTTATCA
*
19352725 TAGATTACCACAAAGGCTTCC
1 TAGATTGCCACAAAGGCTTCC
19352746 ATTTTCTTGT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.30
Consensus pattern (27 bp):
TAGATTGCCACAAAGGCTTCCTTATCA
Found at i:19368758 original size:45 final size:45
Alignment explanation
Indices: 19368709--19368869 Score: 182
Period size: 45 Copynumber: 3.6 Consensus size: 45
19368699 ATAGTACTTT
*
19368709 GTGAAATCGGCACATAGCAACCACCTTTAT-ACTCAATGGT-TCCGG
1 GTGAAATCAGCACATAGCAACCACCTTTATAAC-CAATGGTATCC-G
* *
19368754 GTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCCG
1 GTGAAATCAGCACATAGCAACCACCTTTATAACCAATGGTATCCG
* ** * ** *
19368799 ATGAAATCAGCACATAGCAACCACCTTTATTTCCATTAATATCTG
1 GTGAAATCAGCACATAGCAACCACCTTTATAACCAATGGTATCCG
* *
19368844 GTGGAATCAGCACATAGCATCCACCT
1 GTGAAATCAGCACATAGCAACCACCT
19368870 ATATTTCCAA
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
45 96 0.95
46 5 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
GTGAAATCAGCACATAGCAACCACCTTTATAACCAATGGTATCCG
Found at i:19368852 original size:90 final size:90
Alignment explanation
Indices: 19368710--19368873 Score: 224
Period size: 90 Copynumber: 1.8 Consensus size: 90
19368700 TAGTACTTTG
* **
19368710 TGAAATCGGCACATAGCAACCACCTTTATACTCAATGGTTCCGGGTGAAATCAGCACATAGCAAC
1 TGAAATCAGCACATAGCAACCACCTTTATACTCAATAATTCCGGGTGAAATCAGCACATAGCAAC
19368775 CACCTATATAACCATTGGTATCCGA
66 CACCTATATAACCATTGGTATCCGA
* * * *
19368800 TGAAATCAGCACATAGCAACCACCTTTAT-TTCCATTAATAT-CTGGTGGAATCAGCACATAGCA
1 TGAAATCAGCACATAGCAACCACCTTTATACT-CAATAAT-TCCGGGTGAAATCAGCACATAGCA
*
19368863 TCCACCTATAT
64 ACCACCTATAT
19368874 TTCCAACAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 1 0.02
90 62 0.97
91 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (90 bp):
TGAAATCAGCACATAGCAACCACCTTTATACTCAATAATTCCGGGTGAAATCAGCACATAGCAAC
CACCTATATAACCATTGGTATCCGA
Found at i:19368875 original size:45 final size:45
Alignment explanation
Indices: 19368709--19368888 Score: 175
Period size: 45 Copynumber: 4.0 Consensus size: 45
19368699 ATAGTACTTT
* * * * **
19368709 GTGAAATCGGCACATAGCAACCACCTTTA-TACTCAATGGT-TCCGG
1 GTGAAATCAGCACATAGCAACCACCTATATTTC-CATTAATATCC-G
** **
19368754 GTGAAATCAGCACATAGCAACCACCTATATAACCATTGGTATCCG
1 GTGAAATCAGCACATAGCAACCACCTATATTTCCATTAATATCCG
* * *
19368799 ATGAAATCAGCACATAGCAACCACCTTTATTTCCATTAATATCTG
1 GTGAAATCAGCACATAGCAACCACCTATATTTCCATTAATATCCG
* * **
19368844 GTGGAATCAGCACATAGCATCCACCTATATTTCCAACAATATCCG
1 GTGAAATCAGCACATAGCAACCACCTATATTTCCATTAATATCCG
19368889 ACCCATTCTA
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
45 110 0.96
46 5 0.04
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (45 bp):
GTGAAATCAGCACATAGCAACCACCTATATTTCCATTAATATCCG
Found at i:19373047 original size:40 final size:41
Alignment explanation
Indices: 19372990--19373078 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
19372980 TTATACCCTA
* * * **
19372990 AATTGCACTTTCGTGCCCTTA-TTGTACTTCGGTACACCTG
1 AATTGCACTTACATGCCCCTATTTGTACTTAAGTACACCTG
*
19373030 AATTGCACTTACATGCCCCTATTTGTACTTAAGTACCCCTG
1 AATTGCACTTACATGCCCCTATTTGTACTTAAGTACACCTG
19373071 AATTGCAC
1 AATTGCAC
19373079 ATACGTACCT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 18 0.43
41 24 0.57
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (41 bp):
AATTGCACTTACATGCCCCTATTTGTACTTAAGTACACCTG
Found at i:19373087 original size:21 final size:21
Alignment explanation
Indices: 19373021--19373087 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
19373011 TTGTACTTCG
*
19373021 GTACACCTGAATTGCACTTAC
1 GTACCCCTGAATTGCACTTAC
* * * * *
19373042 ATGCCCCT-ATTTGTACTTAA
1 GTACCCCTGAATTGCACTTAC
*
19373062 GTACCCCTGAATTGCACATAC
1 GTACCCCTGAATTGCACTTAC
19373083 GTACC
1 GTACC
19373088 TTTGCTTACA
Statistics
Matches: 33, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (21 bp):
GTACCCCTGAATTGCACTTAC
Found at i:19374065 original size:29 final size:29
Alignment explanation
Indices: 19374010--19374068 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
19374000 GTGTGTCCTT
* *
19374010 ATTTTGAATGCTCGTGTCCTAGTCGTGTG
1 ATTTCGAATGCTCGTGTCCTAGCCGTGTG
19374039 ATTTCGAATGCTCGTGT-CTCAGCCGTGTG
1 ATTTCGAATGCTCGTGTCCT-AGCCGTGTG
19374068 A
1 A
19374069 GGCACACGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.37
Consensus pattern (29 bp):
ATTTCGAATGCTCGTGTCCTAGCCGTGTG
Found at i:19375325 original size:15 final size:15
Alignment explanation
Indices: 19375307--19375337 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19375297 TAACAAGAGA
19375307 GGGTCATTCAAGCCT
1 GGGTCATTCAAGCCT
19375322 GGGTCATTCAAGCCT
1 GGGTCATTCAAGCCT
19375337 G
1 G
19375338 CTGAAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (15 bp):
GGGTCATTCAAGCCT
Found at i:19379542 original size:19 final size:20
Alignment explanation
Indices: 19379504--19379547 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
19379494 TTTAAAAGGT
* *
19379504 TAAAAGTGTAATTTAGTAAA
1 TAAAAGTGTAATATAATAAA
19379524 TAAAAGT-TAATATAATAAA
1 TAAAAGTGTAATATAATAAA
19379543 -AAAAG
1 TAAAAG
19379548 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (20 bp):
TAAAAGTGTAATATAATAAA
Found at i:19380354 original size:40 final size:39
Alignment explanation
Indices: 19380293--19380419 Score: 128
Period size: 40 Copynumber: 3.2 Consensus size: 39
19380283 AATTATACAT
* * * *
19380293 TGAATTGCACTTACGTACCCCTGTTGTACTTCGATACCCC
1 TGAATTGCACTTATGTGCCCCTATTGTACTT-GGTACCCC
* * *
19380333 TGAATTGCACTTATATGCCCCTATTTTTCTGTGGTACCCC
1 TGAATTGCACTTATGTGCCCCTATTGTACT-TGGTACCCC
* *
19380373 TAAATTGCACTTTTGTGCCCCTATATGTACTTTGGTACCCC
1 TGAATTGCACTTATGTGCCCCTAT-TGTAC-TTGGTACCCC
*
19380414 CGAATT
1 TGAATT
19380420 ACACATACGT
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
40 52 0.74
41 17 0.24
42 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (39 bp):
TGAATTGCACTTATGTGCCCCTATTGTACTTGGTACCCC
Found at i:19380413 original size:20 final size:21
Alignment explanation
Indices: 19380364--19380413 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
19380354 TATTTTTCTG
19380364 TGGTACCCCTAAATTGCACTT
1 TGGTACCCCTAAATTGCACTT
* * * *
19380385 TTGTGCCCCTATA-TGTACTT
1 TGGTACCCCTAAATTGCACTT
19380405 TGGTACCCC
1 TGGTACCCC
19380414 CGAATTACAC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (21 bp):
TGGTACCCCTAAATTGCACTT
Found at i:19386493 original size:21 final size:21
Alignment explanation
Indices: 19386469--19386509 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
19386459 TTTCCAAGAA
19386469 ATTAATGGGAAATCAACAAAT
1 ATTAATGGGAAATCAACAAAT
19386490 ATTAATGGGAAATCAACAAA
1 ATTAATGGGAAATCAACAAA
19386510 CATAAATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.22
Consensus pattern (21 bp):
ATTAATGGGAAATCAACAAAT
Found at i:19388040 original size:51 final size:52
Alignment explanation
Indices: 19387958--19388177 Score: 188
Period size: 51 Copynumber: 4.3 Consensus size: 52
19387948 TATGAACACG
* *
19387958 TGTGTAGTACTAAGTGCAGGTTACTACGTGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATAATGGTCACA
* * * * *
19388009 T-TGATAGTACTATGTGCAGGCTACTATGTGTACCGGATTGCCT--TGGTCACG
1 TGTG-TAGTACTATGTGCAGGCTACTACGTGTATCGGATAG-ATAATGGTCACA
* * * ** * *
19388060 TGTGTAGTA-TATGTCCAGGCTACTATGTGAATC-GA-A-ATGCTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGAT-AATGGTCACA
**
19388109 TGTGTAGTACTATGTGTTGGCTACTACGTGTATCGGAT-GATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATAATGGTCACA
* *
19388160 TGGGTGGTACTATGTGCA
1 TGTGTAGTACTATGTGCA
19388178 AACCACTGAA
Statistics
Matches: 132, Mismatches: 26, Indels: 22
0.73 0.14 0.12
Matches are distributed among these distances:
46 1 0.01
49 18 0.14
50 42 0.32
51 62 0.47
52 8 0.06
53 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.33
Consensus pattern (52 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGATAATGGTCACA
Found at i:19388086 original size:50 final size:50
Alignment explanation
Indices: 19387954--19388146 Score: 185
Period size: 50 Copynumber: 3.8 Consensus size: 50
19387944 TACCTATGAA
* * * * * *
19387954 CACGTGTGTAGTACTAAGTGCAGGTTACTACGTGTATC-GATAGATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATTGCT--TGAT
* * *
19388005 CACAT-TGATAGTACTATGTGCAGGCTACTATGTGTACCGGATTGCCTTGGT
1 CACGTGTG-TAGTACTATGTGCAGGCTACTATGTGTATCGGATTG-CTTGAT
* * * *
19388056 CACGTGTGTAGTA-TATGTCCAGGCTACTATGTGAATCGAAATGCTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATTGCTTGAT
** *
19388105 CACGTGTGTAGTACTATGTGTTGGCTACTACGTGTATCGGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGAT
19388147 GATAATGGTC
Statistics
Matches: 116, Mismatches: 21, Indels: 11
0.78 0.14 0.07
Matches are distributed among these distances:
49 18 0.16
50 48 0.41
51 43 0.37
52 6 0.05
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATTGCTTGAT
Found at i:19395782 original size:27 final size:27
Alignment explanation
Indices: 19395751--19395928 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
19395741 TAAATTGTAC
19395751 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
19395778 TGCACTAAGTGTACGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19395804 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
19395832 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
19395860 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
19395887 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
19395914 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19395929 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:19395865 original size:82 final size:81
Alignment explanation
Indices: 19395752--19395907 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
19395742 AAATTGTACA
* *
19395752 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTA-GCACTAAGTG
19395816 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
19395833 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTG
*
19395898 TGCGAGTTGA
65 TGCGAATTGA
19395908 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19395919 original size:82 final size:81
Alignment explanation
Indices: 19395748--19395928 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
19395738 GATTAAATTG
* *
19395748 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
19395813 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
19395829 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAATGAATACGAT-GCACT
* **
19395893 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19395911 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19395929 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19399075 original size:51 final size:50
Alignment explanation
Indices: 19398999--19399223 Score: 197
Period size: 51 Copynumber: 4.4 Consensus size: 50
19398989 TACCTATGAA
* *
19398999 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TTGATAGATAATGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGAT--TGGT
* * * * *
19399050 CACATTTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGGCCTTGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAG-ATTGGT
* * * * * *
19399101 C-CTGTGTGTAGTACTATATGCAGGCTACTACGTGAACTGGAAAGCTTGAT
1 CAC-ATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGATTGGT
* * *
19399151 CACGTGTGTAGTACTATGTGTAGGCTACTACCTGTA-TCGGAT-GATAATGGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACT-GGATAGAT--TGGT
* *
19399202 CACATGGGTGGTACTATGTGCA
1 CACATGTGTAGTACTATGTGCA
19399224 AACCACCGAA
Statistics
Matches: 140, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
49 3 0.02
50 39 0.28
51 93 0.66
52 4 0.03
53 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGATTGGT
Found at i:19399192 original size:101 final size:101
Alignment explanation
Indices: 19399003--19399193 Score: 242
Period size: 101 Copynumber: 1.9 Consensus size: 101
19398993 TATGAACACA
* * * * *
19399003 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTGATAGATAATGGTCACATTTGTAGTACTATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGAATGGAAAGAT-ATGATCACATGTGTAGTACTATG
**
19399068 TGCAGGCTACTATGTGTACCGGATGGCCTTGGTCCTG
65 TGCAGGCTACTACCTGTACCGGATGGCCTTGGTCCTG
* *
19399105 TGTGTAGTACTATA-TGCAGGCTACTACGTGAACTGGAAAGCT-TGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTA-AGTGCAGGCTACTACGTGAA-TGGAAAGATATGATCACATGTGTAGTACTAT
* *
19399168 GTGTAGGCTACTACCTGTATCGGATG
64 GTGCAGGCTACTACCTGTACCGGATG
19399194 ATAATGGTCA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
101 40 0.53
102 29 0.38
103 7 0.09
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGAATGGAAAGATATGATCACATGTGTAGTACTATGT
GCAGGCTACTACCTGTACCGGATGGCCTTGGTCCTG
Found at i:19400549 original size:17 final size:17
Alignment explanation
Indices: 19400522--19400563 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
19400512 AAAGTTTAGG
19400522 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
19400540 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
19400555 GAGGGAAAT
1 G-GGGAAAT
19400564 TAAATAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 6 0.27
18 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:19405387 original size:79 final size:79
Alignment explanation
Indices: 19405278--19405539 Score: 343
Period size: 79 Copynumber: 3.3 Consensus size: 79
19405268 TACTCGTTCA
* * *
19405278 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGACTTAACCCGGA
19405342 TTTAGTAACTCGCACC
64 TTTAGTAACTCGCACC
**
19405358 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCAAAACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGACTTAACCCGGAT
19405422 TTAGTAACTCGCACC
65 TTAGTAACTCGCACC
**
19405437 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGA-CTTAACCCGGAT
* * * *
19405501 ATGGTCACTTAGCA-C
65 TTAGTAAC-TCGCACC
*
19405516 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19405540 CATCATTCGA
Statistics
Matches: 163, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
78 1 0.01
79 134 0.82
80 28 0.17
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGACTTAACCCGGATT
TAGTAACTCGCACC
Found at i:19405532 original size:119 final size:120
Alignment explanation
Indices: 19405276--19405539 Score: 324
Period size: 119 Copynumber: 2.2 Consensus size: 120
19405266 GCTACTCGTT
*
19405276 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
19405340 GATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
*** * * *
19405395 CAAATGCCTTCAAAACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * * *
19405458 GAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCA-CTTAGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGT-ATC-TAGCA
19405515 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19405540 CATCATTCGA
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 36 0.30
119 75 0.61
120 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:19405539 original size:40 final size:40
Alignment explanation
Indices: 19405257--19405539 Score: 301
Period size: 40 Copynumber: 7.1 Consensus size: 40
19405247 CGGAATTTAA
** *
19405257 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19405297 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19405337 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *** *
19405376 CCGGA-ATTAGTATCTCGCACAAATGCCTTCAAAACTTAAC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19405416 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
19405455 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
19405495 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
19405535 CCGGA
1 CCGGA
19405540 CATCATTCGA
Statistics
Matches: 201, Mismatches: 32, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.01
39 63 0.31
40 124 0.62
41 12 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:19411587 original size:18 final size:18
Alignment explanation
Indices: 19411564--19411604 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
19411554 TCATCTTTTG
*
19411564 CAATAACTCTTCTGCCTC
1 CAATAACTCTTCTGCCTA
19411582 CAATAACTCTTCTGCCTA
1 CAATAACTCTTCTGCCTA
19411600 CAATA
1 CAATA
19411605 CCCACAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.34, G:0.05, T:0.32
Consensus pattern (18 bp):
CAATAACTCTTCTGCCTA
Found at i:19417884 original size:33 final size:32
Alignment explanation
Indices: 19417825--19417886 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
19417815 ATAAAAAATA
19417825 TTTAACTATAAAAAATTAAAAATAATTATCAT
1 TTTAACTATAAAAAATTAAAAATAATTATCAT
* * *
19417857 TTTAACTAATAAATAATTTAAATTAATTAT
1 TTTAACT-ATAAAAAATTAAAAATAATTAT
19417887 ATAATTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (32 bp):
TTTAACTATAAAAAATTAAAAATAATTATCAT
Found at i:19418123 original size:21 final size:21
Alignment explanation
Indices: 19418099--19418151 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
19418089 TATTGTTTTT
*
19418099 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
*
19418120 AATCTCACAT-CTACAGTAACT
1 AATCTCAC-TGCTACAGTAACC
19418141 AATCTCACTGC
1 AATCTCACTGC
19418152 CATTGCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:19421768 original size:13 final size:13
Alignment explanation
Indices: 19421750--19421776 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19421740 AAAGTTGCCC
19421750 TTATAAAATTGTT
1 TTATAAAATTGTT
19421763 TTATAAAATTGTT
1 TTATAAAATTGTT
19421776 T
1 T
19421777 GTTTTATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTATAAAATTGTT
Found at i:19429500 original size:22 final size:22
Alignment explanation
Indices: 19429437--19429500 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
19429427 CTATTTGCAT
* *
19429437 GTTTAGTGCCTAGGG-TTTATGG
1 GTTTAGTG-TTAGGGTTTTAAGG
*
19429459 GTTTAGAGTTTTAGGGTTTTAAGG
1 GTTT--AGTGTTAGGGTTTTAAGG
19429483 GTTTAGTGTTAGGGTTTT
1 GTTTAGTGTTAGGGTTTT
19429501 GTTAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 17 0.49
23 5 0.14
24 13 0.37
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.47
Consensus pattern (22 bp):
GTTTAGTGTTAGGGTTTTAAGG
Found at i:19429593 original size:33 final size:32
Alignment explanation
Indices: 19429564--19429651 Score: 108
Period size: 34 Copynumber: 2.7 Consensus size: 32
19429554 AATAAATCAA
19429564 GTTTAGGGTTTTTTAACAAATAAATTAAATTAG
1 GTTTAGGGTTTTTTAA-AAATAAATTAAATTAG
**
19429597 GATTTAGATTTTTTTTAAAAATAAATTAAATTAGG
1 G-TTTAG-GGTTTTTTAAAAATAAATTAAATTA-G
19429632 GTTTAGGG--TTTTAAAAATAA
1 GTTTAGGGTTTTTTAAAAATAA
19429652 TTTTGTGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
31 12 0.25
33 1 0.02
34 25 0.52
35 10 0.21
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.43
Consensus pattern (32 bp):
GTTTAGGGTTTTTTAAAAATAAATTAAATTAG
Found at i:19429596 original size:27 final size:27
Alignment explanation
Indices: 19429539--19429601 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
19429529 GGGTTATGGG
*
19429539 TTAGGGATTTTTAAAAATAAATCAAGT
1 TTAGGGATTTTTAAAAATAAATCAAGA
* *
19429566 TTAGGGTTTTTTAACAAATAAATTAA-A
1 TTAGGGATTTTTAA-AAATAAATCAAGA
19429593 TTA-GGATTT
1 TTAGGGATTT
19429602 AGATTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.16
27 16 0.52
28 10 0.32
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (27 bp):
TTAGGGATTTTTAAAAATAAATCAAGA
Found at i:19429610 original size:34 final size:34
Alignment explanation
Indices: 19429572--19429637 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
19429562 AAGTTTAGGG
19429572 TTTTTTAACAAATAAATTAAATTAGGATTTAGATT
1 TTTTTTAA-AAATAAATTAAATTAGGATTTAGATT
*
19429607 TTTTTTAAAAATAAATTAAATTAGGGTTTAG
1 TTTTTTAAAAATAAATTAAATTAGGATTTAG
19429638 GGTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (34 bp):
TTTTTTAAAAATAAATTAAATTAGGATTTAGATT
Found at i:19430019 original size:125 final size:126
Alignment explanation
Indices: 19429746--19430130 Score: 551
Period size: 126 Copynumber: 3.1 Consensus size: 126
19429736 TTTTTTTGTT
* * **
19429746 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGA-TGGTTATGAAAAAATAGTGTCAAAAACACTTC
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACT-GTTCTGAAAAAATAATGTCAAAAATGCTTC
* * *
19429810 AAGCAGGATGCACTGTCAGCAAAAATACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTG
65 AAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTA
*
19429872 CAGTAGTTTCTGAAAAACTAATTTTGAGAAGACTGTTCTGAAAAAATAATGTCAAAAATGCTTCA
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACTGTTCTGAAAAAATAATGTCAAAAATGCTTCA
* * * *
19429937 AGCAGGATGCAGTGTCATCAAAAGTACT-AAAAAAGATCTCATGTGGACGCTCTTTTTCTA
66 AGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTA
* * *
19429997 CAGTAGTTTCTGAAAAAATAATTTTAAGAAGAC-GATTCTAAAAAAATAATGTCAAAAATGTTTC
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACTG-TTCTGAAAAAATAATGTCAAAAATGCTTC
* * * * *
19430061 AAGCAAGATGTACTATCAGCAAAAGTATTGAAAAACGCTCCCATGTGGACGCTCTTTTTCTA
65 AAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTA
19430123 CAGTAGTT
1 CAGTAGTT
19430131 CTTGCTTGGC
Statistics
Matches: 231, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
124 1 0.00
125 109 0.47
126 120 0.52
127 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACTGTTCTGAAAAAATAATGTCAAAAATGCTTCA
AGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTA
Found at i:19439621 original size:29 final size:29
Alignment explanation
Indices: 19439566--19439622 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
19439556 GTAATTTTAG
** **
19439566 CCCATTTCGGTAAATAAAGTTTAAAATGA
1 CCCATTTCCATAAATAAAGTAGAAAATGA
*
19439595 CCCATTTCCATAAATAAAGTAGGAAATG
1 CCCATTTCCATAAATAAAGTAGAAAATG
19439623 GACCTTTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (29 bp):
CCCATTTCCATAAATAAAGTAGAAAATGA
Found at i:19442546 original size:14 final size:14
Alignment explanation
Indices: 19442525--19442566 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
19442515 TCTTTGCTGC
19442525 TCTCAAATTCTTCA
1 TCTCAAATTCTTCA
*
19442539 TGTCAAATTCTTCA
1 TCTCAAATTCTTCA
19442553 TCTCAAATTCTTCA
1 TCTCAAATTCTTCA
19442567 CTAAGCTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.43
Consensus pattern (14 bp):
TCTCAAATTCTTCA
Found at i:19457213 original size:35 final size:35
Alignment explanation
Indices: 19457174--19457253 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
19457164 GCGCTAGCCA
19457174 GATAAACCGATGATCAGTGTGCCCTACACTAGCTG
1 GATAAACCGATGATCAGTGTGCCCTACACTAGCTG
*
19457209 GATAAACCGATGATCGGTGTGCCCTACACTAGCTG
1 GATAAACCGATGATCAGTGTGCCCTACACTAGCTG
19457244 GATAAACCGA
1 GATAAACCGA
19457254 CAATGAGTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (35 bp):
GATAAACCGATGATCAGTGTGCCCTACACTAGCTG
Found at i:19457314 original size:76 final size:76
Alignment explanation
Indices: 19457225--19457416 Score: 215
Period size: 76 Copynumber: 2.5 Consensus size: 76
19457215 CCGATGATCG
* * * ** * * *
19457225 GTGTGCCCTACACTAGCTGGATAAACCGACAATGAGTTGTGCATAGCACTATTTGGGTAAA-CTA
1 GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGCACACAGCACTAGTCGGGTAAATC-A
19457289 ACGATATCAAAT
65 ACGATATCAAAT
** * * *
19457301 GTGTGCCCAACACTAGTTGGATTTACCAACAATGAGTTGCACCCAGCGCTAGTCGGGTAAATCGA
1 GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGCACACAGCACTAGTCGGGTAAATCAA
19457366 CGATATCAAAT
66 CGATATCAAAT
** * *
19457377 GTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGC
1 GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGC
19457417 GCCCAGTGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
76 98 0.99
77 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (76 bp):
GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGCACACAGCACTAGTCGGGTAAATCAA
CGATATCAAAT
Found at i:19457422 original size:76 final size:76
Alignment explanation
Indices: 19457289--19457430 Score: 239
Period size: 76 Copynumber: 1.9 Consensus size: 76
19457279 GGGTAAACTA
* * *
19457289 ACGATATCAAATGTGTGCCCAACACTAGTTGGATTTACCAACAATGAGTTGCACCCAGCGCTAGT
1 ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCACCCAGCGCTAGT
19457354 CGGGTAAATCG
66 CGGGTAAATCG
* *
19457365 ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCGCCCAGTGCTAGT
1 ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCACCCAGCGCTAGT
19457430 C
66 C
19457431 TGATAAACCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (76 bp):
ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCACCCAGCGCTAGT
CGGGTAAATCG
Found at i:19457489 original size:15 final size:16
Alignment explanation
Indices: 19457452--19457489 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
19457442 CAAGTACATA
*
19457452 CATAATTATATCATTT
1 CATAATTATATCAATT
*
19457468 CACAATTAT-TCAATT
1 CATAATTATATCAATT
19457483 CATAATT
1 CATAATT
19457490 CTAATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
CATAATTATATCAATT
Found at i:19462148 original size:57 final size:58
Alignment explanation
Indices: 19462081--19462200 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 58
19462071 TCATTTTCTT
* * * *
19462081 TTTTCTTTTTCATATTAGAGAAAATCACATTCATTTCCAAATG-ATTCCATTTTTCCA
1 TTTTCATTTTCATATTAGAGAAAACCACAATCATTTCCAAATGTATTCCATTTCTCCA
* * * * *
19462138 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTTTCATTTCTCCA
1 TTTTCATTTTCATATTAGAGAAAACCACAATCATTTCCAAATGTATTCCATTTCTCCA
19462196 TTTTC
1 TTTTC
19462201 TCCATTTCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
57 37 0.70
58 16 0.30
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (58 bp):
TTTTCATTTTCATATTAGAGAAAACCACAATCATTTCCAAATGTATTCCATTTCTCCA
Found at i:19463334 original size:36 final size:36
Alignment explanation
Indices: 19463294--19463365 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
19463284 GACAAAAATA
19463294 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
1 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
19463330 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
1 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
19463366 TGGCCTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.33, G:0.14, T:0.11
Consensus pattern (36 bp):
CTACACTAAGGGCACCAGATCCAACATAGAACACAC
Done.