Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 66 of 333
Found at i:19892240 original size:209 final size:209
Alignment explanation
Indices: 19891880--19892326 Score: 804
Period size: 209 Copynumber: 2.1 Consensus size: 209
19891870 CCATGTCTTG
* * *
19891880 ACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAAATCACCAATGCCATGCCTTGGCATGGTCTTAC
*
19891945 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGACTTACATGATTTCCT
* *
19892010 TGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATACCCGTATCTTTCCAA
131 TGCCTTATAGAACTTATCAATGACATGCCTTGGCATGGTCTTACATGATACCCGTATCTTACCAA
19892075 ATGCCATGTTCCAA
196 ATGCCATGTTCCAA
19892089 ACATGGTCTTACATGGTATCCTTGTCTTATGAAATCACCAATGCCATGCCTTGGCATGGTCTTAC
1 ACATGGTCTTACATGGTATCCTTGTCTTATGAAATCACCAATGCCATGCCTTGGCATGGTCTTAC
*
19892154 ATTGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGACTTACATGATTTCCT
66 ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGACTTACATGATTTCCT
* *
19892219 TGCCTTATAGAACTTATCAATGACATGCCTTGGCATGGTCTTACATGATATCCTTATCTTACCAA
131 TGCCTTATAGAACTTATCAATGACATGCCTTGGCATGGTCTTACATGATACCCGTATCTTACCAA
19892284 ATGCCATGTTCCAA
196 ATGCCATGTTCCAA
*
19892298 ACATGGTCTTACATGGTATCATTGTCTTA
1 ACATGGTCTTACATGGTATCCTTGTCTTA
19892327 CCAAAATGCC
Statistics
Matches: 228, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
209 228 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (209 bp):
ACATGGTCTTACATGGTATCCTTGTCTTATGAAATCACCAATGCCATGCCTTGGCATGGTCTTAC
ATGGGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGACTTACATGATTTCCT
TGCCTTATAGAACTTATCAATGACATGCCTTGGCATGGTCTTACATGATACCCGTATCTTACCAA
ATGCCATGTTCCAA
Found at i:19892305 original size:47 final size:48
Alignment explanation
Indices: 19892252--19892374 Score: 203
Period size: 48 Copynumber: 2.6 Consensus size: 48
19892242 CATGCCTTGG
*
19892252 CATGGTCTTACATGATATCCTTATCTTACC-AAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAAATGCCATGTTCCAAA
* *
19892299 CATGGTCTTACATGGTATCATTGTCTTACCAAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAAATGCCATGTTCCAAA
*
19892347 CATGGTCTTACATGGTATCCTTTTCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
19892375 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
47 27 0.39
48 43 0.61
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (48 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAAATGCCATGTTCCAAA
Found at i:19892724 original size:28 final size:28
Alignment explanation
Indices: 19892684--19892743 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
19892674 ACTTAACTTA
19892684 TTCTCATCAAACTATGCTAGTCAATACT
1 TTCTCATCAAACTATGCTAGTCAATACT
19892712 TTCTCATCAAACTATGCTAGTCAATACT
1 TTCTCATCAAACTATGCTAGTCAATACT
19892740 TTCT
1 TTCT
19892744 TGTTATCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (28 bp):
TTCTCATCAAACTATGCTAGTCAATACT
Found at i:19894187 original size:18 final size:18
Alignment explanation
Indices: 19894161--19894197 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
19894151 CTTCGCCCAT
* *
19894161 TGCAGTAACAGTAATCAG
1 TGCAATAACAGTAAGCAG
19894179 TGCAATAACAGTAAGCAG
1 TGCAATAACAGTAAGCAG
19894197 T
1 T
19894198 ATGCAAGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.22
Consensus pattern (18 bp):
TGCAATAACAGTAAGCAG
Found at i:19894553 original size:27 final size:27
Alignment explanation
Indices: 19894521--19894708 Score: 206
Period size: 27 Copynumber: 7.0 Consensus size: 27
19894511 AAACATACAT
*
19894521 CACATAGGGGCAAAACTGTCATTTTAC
1 CACATAAGGGCAAAACTGTCATTTTAC
19894548 CACATAAGGGCAAAA-TCGTCATTTTA-
1 CACATAAGGGCAAAACT-GTCATTTTAC
* * *
19894574 -ACACAAGGG-AAAAATAGTCATTTTGC
1 CACATAAGGGCAAAACT-GTCATTTTAC
* *
19894600 CACATAAGGGTAAAACCGTCATTTTAC
1 CACATAAGGGCAAAACTGTCATTTTAC
* *
19894627 CACATAAGGCCAAAACTGTCATTTTAT
1 CACATAAGGGCAAAACTGTCATTTTAC
* *
19894654 CACATAAGTGCAAAA-TCGTCATTTTAA
1 CACATAAGGGCAAAACT-GTCATTTTAC
* *
19894681 CACATAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACTGTCATTTTAC
19894708 C
1 C
19894709 TTACAGGGGT
Statistics
Matches: 135, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
24 4 0.03
25 17 0.13
26 2 0.01
27 108 0.80
28 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (27 bp):
CACATAAGGGCAAAACTGTCATTTTAC
Found at i:19894661 original size:54 final size:53
Alignment explanation
Indices: 19894521--19894708 Score: 236
Period size: 54 Copynumber: 3.5 Consensus size: 53
19894511 AAACATACAT
*
19894521 CACATAGGGGCAAAACTGTCATTTTACCACATAAGGGCAAAATCGTCATTTTA
1 CACATAAGGGCAAAACTGTCATTTTACCACATAAGGGCAAAATCGTCATTTTA
* * * * *
19894574 -ACACAAGGG-AAAAATAGTCATTTTGCCACATAAGGGTAAAACCGTCATTTTA
1 CACATAAGGGCAAAACT-GTCATTTTACCACATAAGGGCAAAATCGTCATTTTA
* * *
19894626 CCACATAAGGCCAAAACTGTCATTTTATCACATAAGTGCAAAATCGTCATTTTAA
1 -CACATAAGGGCAAAACTGTCATTTTACCACATAAGGGCAAAATCGTCATTTT-A
* *
19894681 CACATAAGGGCAAAACAGTTATTTTACC
1 CACATAAGGGCAAAACTGTCATTTTACC
19894709 TTACAGGGGT
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
51 5 0.04
52 40 0.36
54 61 0.54
55 6 0.05
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (53 bp):
CACATAAGGGCAAAACTGTCATTTTACCACATAAGGGCAAAATCGTCATTTTA
Found at i:19894731 original size:27 final size:26
Alignment explanation
Indices: 19894696--19894787 Score: 96
Period size: 27 Copynumber: 3.5 Consensus size: 26
19894686 AAGGGCAAAA
* * *
19894696 CAGTTATTTTACCTTACAGGGGTATTA
1 CAGTCATTTTACC-TATAGGGGTATTT
* *
19894723 CGGTCATTTTATCCTATA-GGATATTT
1 CAGTCATTTTA-CCTATAGGGGTATTT
*
19894749 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTA-CCTATAGGGGTATTT
19894776 CAGTCATTTTAC
1 CAGTCATTTTAC
19894788 AAGTAAATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
26 22 0.41
27 30 0.56
28 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.42
Consensus pattern (26 bp):
CAGTCATTTTACCTATAGGGGTATTT
Found at i:19905905 original size:46 final size:46
Alignment explanation
Indices: 19905855--19906027 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
19905845 TGTTTGGGCA
* *
19905855 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
19905901 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
19905948 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
19905994 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
19906028 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 61 0.58
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:19906010 original size:93 final size:93
Alignment explanation
Indices: 19905851--19906022 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
19905841 AGGATGTTTG
* * *
19905851 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
19905916 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
19905944 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
19906009 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
19906023 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:19922669 original size:32 final size:34
Alignment explanation
Indices: 19922633--19922697 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
19922623 TAACAGTGGT
*
19922633 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
19922665 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
19922698 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:19924441 original size:26 final size:26
Alignment explanation
Indices: 19924411--19924518 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
19924401 TGAAATTCCC
19924411 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19924437 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
**
19924463 ATCATTAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19924489 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19924515 ATCA
1 ATCA
19924519 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19929617 original size:32 final size:34
Alignment explanation
Indices: 19929579--19929643 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 34
19929569 TAACAGTGGT
*
19929579 ACTGGGCCAGAGCCCC-T-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
19929611 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
19929644 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 14 0.50
33 1 0.04
34 13 0.46
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:19931503 original size:26 final size:26
Alignment explanation
Indices: 19931473--19931579 Score: 205
Period size: 26 Copynumber: 4.1 Consensus size: 26
19931463 TGAAATTCCC
19931473 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19931499 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
19931525 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19931551 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
19931577 ATC
1 ATC
19931580 TATTTGTATC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:19940902 original size:27 final size:27
Alignment explanation
Indices: 19940841--19940992 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
19940831 TAAATTGTAC
* *
19940841 AGCACTAAGTGTGCGAGTTGGAATATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
19940869 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
19940896 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
19940923 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
19940951 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
19940978 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19940993 GACTTAATAT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 70 0.62
28 43 0.38
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:19940907 original size:55 final size:55
Alignment explanation
Indices: 19940841--19940992 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
19940831 TAAATTGTAC
*
19940841 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
19940896 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
19940951 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
19940993 GACTTAATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 23 0.26
55 64 0.74
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:19940955 original size:82 final size:82
Alignment explanation
Indices: 19940841--19940992 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
19940831 TAAATTGTAC
* *
19940841 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
19940906 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
19940923 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
19940988 GTGCG
66 GTGCG
19940993 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:19948994 original size:27 final size:27
Alignment explanation
Indices: 19948933--19949084 Score: 214
Period size: 27 Copynumber: 5.6 Consensus size: 27
19948923 TAAATTGTAC
* *
19948933 AGCACTAAGTGTGCGAGTTGGAATATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
19948961 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
19948988 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
19949015 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
19949043 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
19949070 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19949085 GACTTAATAT
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
27 70 0.62
28 43 0.38
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:19948999 original size:55 final size:55
Alignment explanation
Indices: 19948933--19949084 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
19948923 TAAATTGTAC
*
19948933 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
19948988 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
19949043 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
19949085 GACTTAATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 23 0.26
55 64 0.74
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:19949047 original size:82 final size:82
Alignment explanation
Indices: 19948933--19949084 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
19948923 TAAATTGTAC
* *
19948933 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
19948998 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
19949015 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
19949080 GTGCG
66 GTGCG
19949085 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGAATATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:19955556 original size:28 final size:28
Alignment explanation
Indices: 19955514--19955574 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
19955504 AATGACCAAA
* *
19955514 ATACCCCTGAGGGGTAAAAATTACTATT
1 ATACCCCTAAGGGGTAAAAATGACTATT
* * **
19955542 CTACCCCTAATGGGTGGAAATGACTATT
1 ATACCCCTAAGGGGTAAAAATGACTATT
19955570 ATACC
1 ATACC
19955575 TTAGAAGTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (28 bp):
ATACCCCTAAGGGGTAAAAATGACTATT
Found at i:19970608 original size:54 final size:54
Alignment explanation
Indices: 19970539--19970652 Score: 185
Period size: 54 Copynumber: 2.1 Consensus size: 54
19970529 CAAAATGGTA
19970539 ATTT-TACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* * *
19970592 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGT
1 ATTTCTACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
*
19970646 AATTCTA
1 ATTTCTA
19970653 TAACTTATCC
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
53 4 0.07
54 52 0.93
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
ATTTCTACCTCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:19970653 original size:27 final size:26
Alignment explanation
Indices: 19970535--19970652 Score: 155
Period size: 27 Copynumber: 4.4 Consensus size: 26
19970525 GGGGCAAAAT
* *
19970535 GGTAATTTTACCTCACAAGGGTATCTC
1 GGTAATTCTACCT-ACAAGGGTATTTC
*
19970562 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTA-CCTACAAGGGTATTTC
*
19970589 GGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACC-TACAAGGGTATTTC
*
19970616 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTA-CCTACAAGGGTATTTC
19970643 GGTAATTCTA
1 GGTAATTCTA
19970653 TAACTTATCC
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
26 2 0.02
27 74 0.91
28 5 0.06
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.36
Consensus pattern (26 bp):
GGTAATTCTACCTACAAGGGTATTTC
Found at i:19971676 original size:28 final size:27
Alignment explanation
Indices: 19971644--19971723 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
19971634 TAGAATACTT
*
19971644 TAGTTTACCAAAGTTACCAAAATACCTC
1 TAGTTT-CCAAAATTACCAAAATACCTC
**
19971672 TAGTTTGTAAAATTACCAAAATACC-C
1 TAGTTTCCAAAATTACCAAAATACCTC
* **
19971698 TTGGTTTGTAAAATTACCAAAATACC
1 -TAGTTTCCAAAATTACCAAAATACC
19971724 CATGTAGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 40 0.85
28 6 0.13
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TAGTTTCCAAAATTACCAAAATACCTC
Found at i:19971687 original size:27 final size:27
Alignment explanation
Indices: 19971657--19971724 Score: 111
Period size: 27 Copynumber: 2.5 Consensus size: 27
19971647 TTTACCAAAG
19971657 TTACCAAAATA-CCTCTAGTTTGTAAAA
1 TTACCAAAATACCCT-TAGTTTGTAAAA
*
19971684 TTACCAAAATACCCTTGGTTTGTAAAA
1 TTACCAAAATACCCTTAGTTTGTAAAA
19971711 TTACCAAAATACCC
1 TTACCAAAATACCC
19971725 ATGTAGGGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 36 0.92
28 3 0.08
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
TTACCAAAATACCCTTAGTTTGTAAAA
Found at i:19971739 original size:27 final size:27
Alignment explanation
Indices: 19971709--19972092 Score: 437
Period size: 27 Copynumber: 14.3 Consensus size: 27
19971699 TGGTTTGTAA
* *
19971709 AATTACCAAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
19971736 AATTATTGAAATACCCTTGTTGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
19971763 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19971790 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
19971817 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19971844 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19971871 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19971898 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19971925 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19971952 AATTGCCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*** * * *
19971979 AATTATTAAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
19972006 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
19972033 AAATACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
19972060 AATTACCGAGATA-ACCTTTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
19972086 AATTACC
1 AATTACC
19972093 ATTTTGCCCC
Statistics
Matches: 306, Mismatches: 51, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
26 17 0.06
27 289 0.94
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:19972352 original size:24 final size:24
Alignment explanation
Indices: 19972320--19972367 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
19972310 CAGATTACCA
**
19972320 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
19972343 AAAAGAGGCTAGGCCTCCAGTTATT
1 AAAAG-GGCTAGGCCTCCAGTTATT
19972368 TGATAAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 7 0.33
25 9 0.43
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:19974599 original size:42 final size:42
Alignment explanation
Indices: 19974540--19974639 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
19974530 TTATTATCAC
* * *
19974540 AAGTCAGTGAGTTACACGGCCTACGGCACAGCCGTGTGTCAT
1 AAGTCAGTGAGTTACACGGCCTACGACACAACCGTGTGACAT
* * *
19974582 AAGTCAGTGAGTTACACGGCCTGCGACACAACTGTGTGACCT
1 AAGTCAGTGAGTTACACGGCCTACGACACAACCGTGTGACAT
* *
19974624 AACTTAGTGAGTTACA
1 AAGTCAGTGAGTTACA
19974640 TGGTTTAAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (42 bp):
AAGTCAGTGAGTTACACGGCCTACGACACAACCGTGTGACAT
Found at i:19977543 original size:23 final size:23
Alignment explanation
Indices: 19977513--19977560 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
19977503 AAAATTTAGA
19977513 GTTAATTTTGAGATGTCTGTTAT
1 GTTAATTTTGAGATGTCTGTTAT
19977536 GTTAATTTTGAGATGTCTGTTAT
1 GTTAATTTTGAGATGTCTGTTAT
19977559 GT
1 GT
19977561 CTATAAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.04, G:0.23, T:0.52
Consensus pattern (23 bp):
GTTAATTTTGAGATGTCTGTTAT
Found at i:19978261 original size:45 final size:45
Alignment explanation
Indices: 19978197--19978287 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
19978187 TGGGAAGGGT
19978197 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
1 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
19978242 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
1 AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
19978287 A
1 A
19978288 TTAATCTTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.54, C:0.07, G:0.13, T:0.26
Consensus pattern (45 bp):
AAAATGGTCATTTGGTAAATAAAGTAAAATAACTAAAAGAATTAC
Found at i:19980790 original size:432 final size:432
Alignment explanation
Indices: 19979987--19980855 Score: 1666
Period size: 432 Copynumber: 2.0 Consensus size: 432
19979977 GGTTCGGGAC
19979987 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACA
1 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACA
*
19980052 CTTGTGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
66 CCTGTGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
19980117 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAGTGTGAAAACTAG
131 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAGTGTGAAAACTAG
* *
19980182 TGGGTATACTAACTTGGCCACATGGCCGACCACACACATGTGTGTCTAGGCCGTGTGCAAGGCTA
196 TGGGTATACTAACTTGGCCACACGGCCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
19980247 ACTTGAATTTCTAATTATTTCCAGGGGACACACGGTCGAACAACAAGCCCGTGTGCTCAACTGTG
261 ACTTGAATTTCTAATTATTTCCAGGGGACACACGGTCGAACAACAAGCCCGTGTGCTCAACTGTG
19980312 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
326 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
19980377 AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
391 AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
*
19980419 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACG
1 TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACA
*
19980484 CCTGTGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACGCCTGTGTGGTGTGAAAACAGGG
66 CCTGTGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
19980549 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAGTGTGAAAACTAG
131 CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAGTGTGAAAACTAG
*
19980614 TGGGTATACTAACTTGGCCACACGGTCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
196 TGGGTATACTAACTTGGCCACACGGCCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
19980679 ACTTGAATTTCTAATTATTTCCAGGGGACACACGGTCGAACAACAAGCCCGTGTGCTCAACTGTG
261 ACTTGAATTTCTAATTATTTCCAGGGGACACACGGTCGAACAACAAGCCCGTGTGCTCAACTGTG
**
19980744 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCGTCACCCATAATGGTCTACCTTGCAAACTCA
326 TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
19980809 AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
391 AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
19980851 TAAAC
1 TAAAC
19980856 AAATTATGCC
Statistics
Matches: 429, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
432 429 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (432 bp):
TAAACTGATAACATTTGAAAACTTTGGGAAACTTAGAAAATTTTCTTGAATACAGAGGTCACACA
CCTGTGTGAATAGGCCGTGTGCCTCATACGGCCATCAGACACACCTGTGTGGTGTGAAAACAGGG
CATACATACTGACTTGCCTCACATGGCCGAGGACATGTCCGTGTGCCAGGCAGTGTGAAAACTAG
TGGGTATACTAACTTGGCCACACGGCCGACCACACACATGTGTGTCTAGGCCGTGTACAAGGCTA
ACTTGAATTTCTAATTATTTCCAGGGGACACACGGTCGAACAACAAGCCCGTGTGCTCAACTGTG
TAAATGTAAATAGGCCATTTGCAAGGCCAATTTCACCACCCATAATGGTCTACCTTGCAAACTCA
AAATGTGGCACCAATTCATACACAAAAAGGCAGCCCAAAACA
Found at i:19981175 original size:12 final size:13
Alignment explanation
Indices: 19981157--19981188 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
19981147 ATATATACAC
19981157 CATAAGCACATAT
1 CATAAGCACATAT
19981170 -ATAAGCACATAT
1 CATAAGCACATAT
19981182 CATAAGC
1 CATAAGC
19981189 GAAACTCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.47, C:0.22, G:0.09, T:0.22
Consensus pattern (13 bp):
CATAAGCACATAT
Found at i:19985205 original size:13 final size:12
Alignment explanation
Indices: 19985189--19985222 Score: 50
Period size: 12 Copynumber: 2.7 Consensus size: 12
19985179 TCAGATTTTT
19985189 TTTTCTTTTCGAA
1 TTTT-TTTTCGAA
19985202 TTTTTTTTTCGAA
1 -TTTTTTTTCGAA
19985215 TTTTTTTT
1 TTTTTTTT
19985223 GACTTGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 8 0.40
14 4 0.20
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.74
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:19985205 original size:17 final size:17
Alignment explanation
Indices: 19985172--19985210 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19985162 CATTAAACAC
*
19985172 TTTTTTTTCAGATTTTT
1 TTTTTTTTCAGAATTTT
19985189 TTTTCTTTTC-GAATTTT
1 TTTT-TTTTCAGAATTTT
19985206 TTTTT
1 TTTTT
19985211 CGAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.70
18 5 0.25
ACGTcount: A:0.10, C:0.08, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTTTTTCAGAATTTT
Found at i:19985209 original size:12 final size:13
Alignment explanation
Indices: 19985188--19985222 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
19985178 TTCAGATTTT
19985188 TTTTTCTTTTCGAA
1 TTTTT-TTTTCGAA
19985202 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
19985215 TTTTTTTT
1 TTTTTTTT
19985223 GACTTGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.11, C:0.09, G:0.06, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:19985222 original size:17 final size:18
Alignment explanation
Indices: 19985172--19985211 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
19985162 CATTAAACAC
19985172 TTTT-TTTTCAGATTTTT
1 TTTTCTTTTCAGATTTTT
19985189 TTTTCTTTTC-GAATTTTT
1 TTTTCTTTTCAG-ATTTTT
19985207 TTTTC
1 TTTTC
19985212 GAATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTTCTTTTCAGATTTTT
Found at i:19987056 original size:30 final size:30
Alignment explanation
Indices: 19986971--19987067 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
19986961 TAAACTAAAA
* * *
19986971 TGAGCTAAGCTTTAGTTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * * *
19987001 TGAGTTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
19987031 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
19987060 ATGAGCTA
1 -TGAGCTA
19987068 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
29 1 0.02
30 48 0.98
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:19987301 original size:27 final size:27
Alignment explanation
Indices: 19987236--19987303 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
19987226 CTCGTATCAG
** *
19987236 GGTAAAATGACAAAAATACCCATATAG
1 GGTAAAATGACTGAAATACCCATATAA
* * *
19987263 GGTAAAATGACTGTAATACCCCTGTAA
1 GGTAAAATGACTGAAATACCCATATAA
19987290 GGTAAAATGACTGA
1 GGTAAAATGACTGA
19987304 TTTGCTCTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACTGAAATACCCATATAA
Found at i:19987802 original size:33 final size:33
Alignment explanation
Indices: 19987697--19987807 Score: 100
Period size: 33 Copynumber: 3.3 Consensus size: 33
19987687 TGGTTACTGC
*
19987697 ACTGATTACTATTACTGAAATGGGCTAAGG-CCTA
1 ACTGA-TACTGTTACTG-AATGGGCTAAGGCCCTA
* ** * * *
19987731 GATTGCCACTGTTATTGATATGGGCTTAGGCCC-C
1 -ACTGATACTGTTACTGA-ATGGGCTAAGGCCCTA
19987765 ACTGATACTGTTACTGAATGGGCTAAGGCCCTA
1 ACTGATACTGTTACTGAATGGGCTAAGGCCCTA
*
19987798 ACTGAAACTG
1 ACTGATACTG
19987808 AAAGGGCTTA
Statistics
Matches: 59, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
32 13 0.22
33 23 0.39
34 18 0.31
35 5 0.08
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (33 bp):
ACTGATACTGTTACTGAATGGGCTAAGGCCCTA
Found at i:19991418 original size:27 final size:27
Alignment explanation
Indices: 19991381--19991479 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
19991371 CAAATTAATT
*
19991381 AAATGATTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
19991408 AAATGACTGTTTTGCCCTTATATGGTA
1 AAATGACTGTTTTGCCCTTATATGGTA
*
19991435 AAATGA-TAGTTTTGCCCTTTTGA-GGTA
1 AAATGACT-GTTTTGCCCTTAT-ATGGTA
*
19991462 AAATAACTGTTTTGCCCT
1 AAATGACTGTTTTGCCCT
19991480 ATGTGATGTA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 63 0.95
28 2 0.03
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.41
Consensus pattern (27 bp):
AAATGACTGTTTTGCCCTTATATGGTA
Found at i:19991823 original size:18 final size:18
Alignment explanation
Indices: 19991800--19991843 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19991790 ACTTGTATTC
*
19991800 TGTTACTGCACTGA-TTAT
1 TGTTACTGAACT-ATTTAT
*
19991818 TGTTACTGAACTATTTTT
1 TGTTACTGAACTATTTAT
19991836 TGTTACTG
1 TGTTACTG
19991844 TATTGGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (18 bp):
TGTTACTGAACTATTTAT
Found at i:19992878 original size:37 final size:37
Alignment explanation
Indices: 19992819--19992890 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
19992809 AGCTCAGACG
*
19992819 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
*
19992856 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGAAGTCATCGGGTCTTACCCGGA
19992891 ATATATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (37 bp):
AAATCTCCACACGAAGTCATCGGGTCTTACCCGGACA
Found at i:19993162 original size:48 final size:48
Alignment explanation
Indices: 19993039--19993220 Score: 285
Period size: 48 Copynumber: 3.8 Consensus size: 48
19993029 CATCGCCTAT
* *
19993039 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
* *
19993089 ATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCATAC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATAC
*
19993137 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
19993185 ATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATA
19993221 TGCATGTTCA
Statistics
Matches: 123, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
48 82 0.67
49 2 0.02
50 39 0.32
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
Found at i:19993225 original size:98 final size:97
Alignment explanation
Indices: 19993039--19993219 Score: 294
Period size: 98 Copynumber: 1.9 Consensus size: 97
19993029 CATCGCCTAT
*
19993039 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTGAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATTGAC
19993104 CATTCAGCTTTACCACATATGCATATCTCATAC
65 CATTCAGCTTTACCACATATGCATATCTCATAC
* *
19993137 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTC-ATACATATTTCACATT-AGC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTGA-C
*
19993200 CATTCGGCTTTACCACATAT
65 CATTCAGCTTTACCACATAT
19993220 ATGCATGTTC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
95 1 0.01
96 35 0.45
98 42 0.54
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTGACC
ATTCAGCTTTACCACATATGCATATCTCATAC
Found at i:19993269 original size:47 final size:47
Alignment explanation
Indices: 19993190--19993430 Score: 383
Period size: 47 Copynumber: 5.1 Consensus size: 47
19993180 CATACATATT
* * * *
19993190 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
19993237 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
19993284 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
19993331 TCACATTGGCCATTCGGCCTTATCACATAAATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
19993378 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
19993425 TCACAT
1 TCACAT
19993431 AAAATCCTAA
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 179 1.00
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:19993310 original size:22 final size:22
Alignment explanation
Indices: 19993283--19993358 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
19993273 GCTCACATTC
19993283 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
19993305 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
19993329 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19993352 ATCACAT
1 ATCACAT
19993359 AAATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 17 0.41
23 7 0.17
24 7 0.17
25 10 0.24
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19993431 original size:25 final size:25
Alignment explanation
Indices: 19993305--19993431 Score: 72
Period size: 25 Copynumber: 5.3 Consensus size: 25
19993295 ATTCGGCCTT
**
19993305 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
19993330 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
* **
19993352 ATCACATAAATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
19993377 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
19993399 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
19993424 ATCACATA
1 ATCACATA
19993432 AAATCCTAAA
Statistics
Matches: 70, Mismatches: 22, Indels: 20
0.62 0.20 0.18
Matches are distributed among these distances:
22 19 0.27
23 11 0.16
24 11 0.16
25 29 0.41
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:20003996 original size:93 final size:93
Alignment explanation
Indices: 20003874--20004043 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
20003864 ATAAGTGAAA
*
20003874 TCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
1 TCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
20003939 CTCGGATGCCTAGTTACATCTCTCGAAC
66 CTCGGATGCCTAGTTACATCTCTCGAAC
*
20003967 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
1 TCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
*
20004032 TTCGGATGCCTA
66 CTCGGATGCCTA
20004044 AATATCCTAG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
TCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAG
CTCGGATGCCTAGTTACATCTCTCGAAC
Found at i:20004037 original size:46 final size:46
Alignment explanation
Indices: 20003862--20004037 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
20003852 TGTAACCCGC
* *
20003862 CCATAAGTGAAATCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20003908 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
20003954 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
20004001 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20004038 TGCCTAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 69 0.62
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:20006453 original size:15 final size:15
Alignment explanation
Indices: 20006424--20006473 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
20006414 CAAAGATAAC
*
20006424 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
20006438 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
20006453 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
20006468 AAGAAA
1 AAGAAA
20006474 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:20006482 original size:15 final size:15
Alignment explanation
Indices: 20006435--20006482 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
20006425 AGAAAACCGA
20006435 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
20006449 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
20006465 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
20006480 ATA
1 ATA
20006483 CGATGCTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:20009462 original size:46 final size:46
Alignment explanation
Indices: 20009395--20009570 Score: 228
Period size: 46 Copynumber: 3.8 Consensus size: 46
20009385 TGTAACCCGC
20009395 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
20009441 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * *
20009487 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
*
20009534 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
20009571 TGCCTAAATA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 74 0.68
47 35 0.32
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:20009562 original size:93 final size:93
Alignment explanation
Indices: 20009403--20009576 Score: 321
Period size: 93 Copynumber: 1.9 Consensus size: 93
20009393 GCCCATAAGT
*
20009403 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20009468 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
20009496 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20009561 CGAGTTCGGATGCCTA
66 CGAGCTCGGATGCCTA
20009577 AATATCCTAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:20013617 original size:46 final size:46
Alignment explanation
Indices: 20013567--20013692 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
20013557 TGGTCGAGCA
* * *
20013567 TCCGAACTCGTTGAGTTGAGTTCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
20013613 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
20013659 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20013693 GGGGCGGGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:20013954 original size:19 final size:20
Alignment explanation
Indices: 20013917--20013954 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20013907 ATAAGGTGGT
20013917 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
20013937 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
20013955 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:20021144 original size:46 final size:46
Alignment explanation
Indices: 20021094--20021219 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
20021084 TGGTCGAGCA
* *
20021094 TCCGAACTCGTTGAGTTGAGTTCAAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
* *
20021140 TCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
* * *
20021186 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTA
20021220 GGGCGGGTTA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
Found at i:20021480 original size:19 final size:20
Alignment explanation
Indices: 20021443--20021480 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20021433 ATAAGGTGGT
20021443 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
20021463 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
20021481 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:20028508 original size:46 final size:46
Alignment explanation
Indices: 20028458--20028628 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
20028448 TGGTTGAGCA
*
20028458 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
20028504 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-T-TGAAT-CTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AA--ATG
*
20028548 CATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
20028595 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20028629 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 9, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 1 0.01
44 3 0.03
45 26 0.25
46 58 0.55
47 3 0.03
48 1 0.01
49 6 0.06
50 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:20028622 original size:91 final size:92
Alignment explanation
Indices: 20028455--20028623 Score: 277
Period size: 91 Copynumber: 1.8 Consensus size: 92
20028445 GGATGGTTGA
* * * *
20028455 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
20028520 TGAGTCCGAGTTCTTGAATCTAACTAG
66 TGAGTCCGAGTTCTTGAATCTAACTAG
*
20028547 GCATCC-AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
20028611 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
20028624 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 65 0.92
92 6 0.08
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCTTGAATCTAACTAG
Found at i:20032496 original size:40 final size:40
Alignment explanation
Indices: 20032431--20032522 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
20032421 GACTATGTTC
* * **
20032431 GGCACTAAGTGTGCGATTTAAAATAGCTTTGGCTATAAGTA
1 GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAG-A
** *
20032472 -GCACTAAGTGTACGAATTGGAATAGCTTCAGCTATATGA
1 GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAGA
20032511 GGCACTAAGTGT
1 GGCACTAAGTGT
20032523 GCGATACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (40 bp):
GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAGA
Found at i:20038805 original size:28 final size:28
Alignment explanation
Indices: 20038741--20038887 Score: 162
Period size: 28 Copynumber: 5.4 Consensus size: 28
20038731 GTAAGTCCGC
*
20038741 CACTTAGTG-TTATATAATCAACTCGCA
1 CACTTAGTGCTTACATAATCAACTCGCA
20038768 CACTTAGTGCTTACATAATCAAACTCGCA
1 CACTTAGTGCTTACATAATC-AACTCGCA
20038797 CACTT-GTGCTTACATAATCAAACTCGCA
1 CACTTAGTGCTTACATAATC-AACTCGCA
* *
20038825 CACTT-GTGC-TATAT-ATCAACTTGCA
1 CACTTAGTGCTTACATAATCAACTCGCA
* * * *
20038850 CACTTAGTGCTATGCAT-TTAAACCCGCA
1 CACTTAGTGCT-TACATAATCAACTCGCA
20038878 CACTTAGTGC
1 CACTTAGTGC
20038888 CAATCTCATG
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
25 12 0.11
26 7 0.07
27 13 0.12
28 61 0.58
29 13 0.12
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
CACTTAGTGCTTACATAATCAACTCGCA
Found at i:20038878 original size:53 final size:56
Alignment explanation
Indices: 20038764--20038887 Score: 141
Period size: 53 Copynumber: 2.2 Consensus size: 56
20038754 ATAATCAACT
*
20038764 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTGTGCTTACAT-ATCAAACC
* * * *
20038821 CGCACACTT-GTGC-TATAT-ATC-AACTTGCACACTTAGTGCTATGCAT-TTAAACC
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTT-GTGCT-TACATATCAAACC
20038874 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20038888 CAATCTCATG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
53 26 0.44
54 12 0.20
55 8 0.14
56 4 0.07
57 9 0.15
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (56 bp):
CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTGTGCTTACATATCAAACC
Found at i:20055307 original size:79 final size:81
Alignment explanation
Indices: 20055171--20055353 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
20055161 TCGAATGATG
* *
20055171 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
20055235 GGTGCGAGTTACTA-A
66 GGTGCGAGTTACTATA
* * * **
20055250 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
20055312 TTTGTGCGAGTTACTATA
64 TTGGTGCGAGTTACTATA
* *
20055330 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20055354 TGAATGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GGTGCGAGTTACTATA
Found at i:20055354 original size:40 final size:39
Alignment explanation
Indices: 20055172--20055355 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
20055162 CGAATGATGT
* * * *
20055172 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
20055212 CCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
20055252 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20055290 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20055331 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
20055356 AATGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 36 0.29
40 81 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20055377 original size:79 final size:79
Alignment explanation
Indices: 20055224--20055388 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
20055214 GGACTAAGAT
* **
20055224 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
20055289 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
20055303 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
20055366 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
20055382 CCGAAGG
1 CCGAAGG
20055389 TACATGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:20059497 original size:20 final size:20
Alignment explanation
Indices: 20059472--20059510 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
20059462 AATATTCAAA
20059472 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
20059492 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
20059511 ATCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:20064165 original size:48 final size:50
Alignment explanation
Indices: 20064042--20064170 Score: 165
Period size: 48 Copynumber: 2.6 Consensus size: 50
20064032 GTCTCAAGTT
* * * * *
20064042 GATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGCTTATTCGTGTC
1 GATGCCATGTCCCAGACATGGTCTTACATTGACACTCGCTTATACGTGCC
*
20064092 -AGTGCCATGTCCCAGACATGGTCTTACATTGACAC-C-TTTATACGTGCC
1 GA-TGCCATGTCCCAGACATGGTCTTACATTGACACTCGCTTATACGTGCC
*
20064140 GATGCCATGTCCTAGACATGGTCTTACATTG
1 GATGCCATGTCCCAGACATGGTCTTACATTG
20064171 GCTTACTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
48 37 0.53
49 3 0.04
50 30 0.43
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACATTGACACTCGCTTATACGTGCC
Found at i:20064999 original size:13 final size:13
Alignment explanation
Indices: 20064981--20065005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20064971 CTAAAAGTAC
20064981 AAAAATCATCAAG
1 AAAAATCATCAAG
20064994 AAAAATCATCAA
1 AAAAATCATCAA
20065006 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:20071687 original size:47 final size:47
Alignment explanation
Indices: 20071618--20071842 Score: 188
Period size: 47 Copynumber: 4.8 Consensus size: 47
20071608 GGTATAATAC
20071618 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAAGT
1 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAAGT
* * * * * * * **
20071665 CAATGCTATGTCTCAGACATGGTCTTACACTGACACCTCTGTACGTGT
1 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCT-CAAGT
* * * *
20071713 CAATGCCATGTCCTAGACATGGTCTTACACTGGCTTACT-TCACGAGGT
1 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-TGTCTC-AAGT
* * * *
20071761 CGATG-CATGTCCCGGACAT-GTCTTACACTAGCTC-TCGTCTCAATTT
1 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-GTCTCAA-GT
** * *
20071807 TGATGCCATATCCCAAACATGGTCTTACACTGGCTC
1 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTC
20071843 TCATAATGTG
Statistics
Matches: 137, Mismatches: 33, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 21 0.15
47 59 0.43
48 54 0.39
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (47 bp):
CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAAGT
Found at i:20071862 original size:94 final size:94
Alignment explanation
Indices: 20071715--20071888 Score: 217
Period size: 94 Copynumber: 1.9 Consensus size: 94
20071705 GTACGTGTCA
* * * * * *
20071715 ATGCCATGTCCTAGACATGGTCTTACACTGGCTTACTTCACGAGGTCGATGCATGTCCCGGACAT
1 ATGCCATATCCCAAACATGGTCTTACACTGGCTTACATAACGAGGTCGATGCATGTCCCAGACAT
20071780 G-TCTTACACTAGCTCTCGTCTCAATTTTG
66 GCT-TTACACTAGCTCTCGTCTCAATTTTG
* * * *
20071809 ATGCCATATCCCAAACATGGTCTTACACTGGCTCT-CATAATGTGGTTGGTGCATGTCCCAGACA
1 ATGCCATATCCCAAACATGGTCTTACACTGGCT-TACATAACGAGGTCGATGCATGTCCCAGACA
*
20071873 TGCTTTACATTAGCTC
65 TGCTTTACACTAGCTC
20071889 ACAATAACCC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
94 65 0.97
95 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (94 bp):
ATGCCATATCCCAAACATGGTCTTACACTGGCTTACATAACGAGGTCGATGCATGTCCCAGACAT
GCTTTACACTAGCTCTCGTCTCAATTTTG
Found at i:20073605 original size:25 final size:25
Alignment explanation
Indices: 20073577--20073627 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
20073567 TACTTTTAAT
*
20073577 AATCAATCAACATTCGAAATTCATC
1 AATCAATCAACATTCCAAATTCATC
20073602 AATCAATCAACATTCCAAATTCATC
1 AATCAATCAACATTCCAAATTCATC
20073627 A
1 A
20073628 TTTAACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.27
Consensus pattern (25 bp):
AATCAATCAACATTCCAAATTCATC
Found at i:20076150 original size:26 final size:26
Alignment explanation
Indices: 20076121--20076228 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
20076111 TGATACAAAT
20076121 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20076147 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20076173 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20076199 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20076225 TGAT
1 TGAT
20076229 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20082936 original size:28 final size:29
Alignment explanation
Indices: 20082904--20083018 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
20082894 TACCTGTATC
* *
20082904 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
20082932 TGGCCCCTTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
20082961 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
20082990 TGGCCCGTTAGG-CCTAGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
20083018 T
1 T
20083019 TGATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 28 0.38
29 45 0.61
30 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:20084927 original size:6 final size:6
Alignment explanation
Indices: 20084901--20084978 Score: 83
Period size: 6 Copynumber: 13.5 Consensus size: 6
20084891 AAAGTTTAAG
* * * *
20084901 AAAATA CAAATA AACAGA AAAATA AAAATA AAAACTA ATAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA-TA AAAATA AAAATA
20084950 AAAAT- AAAAT- AAAAT- AAAAT- AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
20084979 TGGACTCAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
5 20 0.32
6 37 0.60
7 5 0.08
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:20084933 original size:5 final size:5
Alignment explanation
Indices: 20084919--20084979 Score: 68
Period size: 5 Copynumber: 11.0 Consensus size: 5
20084909 AATAAACAGA
20084919 AAAAT AAAAAT AAAAACT AATAAT AAAAAT AAAAAT AAAAT AAAAT AAAAT
1 AAAAT -AAAAT -AAAA-T AA-AAT -AAAAT -AAAAT AAAAT AAAAT AAAAT
20084970 AAAAT AAAAT
1 AAAAT AAAAT
20084980 GGACTCAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
5 25 0.48
6 22 0.42
7 5 0.10
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:20084952 original size:25 final size:23
Alignment explanation
Indices: 20084901--20084978 Score: 90
Period size: 25 Copynumber: 3.4 Consensus size: 23
20084891 AAAGTTTAAG
* *
20084901 AAAATACAAATAAACAGAAAAATA
1 AAAATAAAAATAAA-ATAAAAATA
20084925 AAAATAAAAACTAATAATAAAAATA
1 AAAATAAAAA-TAA-AATAAAAATA
20084950 AAAAT-AAAATAAAAT-AAAAT-
1 AAAATAAAAATAAAATAAAAATA
20084970 AAAATAAAA
1 AAAATAAAA
20084979 TGGACTCAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.10
21 8 0.16
22 3 0.06
23 3 0.06
24 13 0.27
25 16 0.33
26 1 0.02
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (23 bp):
AAAATAAAAATAAAATAAAAATA
Found at i:20084979 original size:25 final size:27
Alignment explanation
Indices: 20084901--20084978 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 27
20084891 AAAGTTTAAG
*
20084901 AAAATACAAATAAACAGAAAAATAAAAAT
1 AAAATA-AAATAAA-ATAAAAATAAAAAT
20084930 AAAAACTAATAATAAAAATAAAAAT-AAAAT
1 -AAAA-TAA-AAT-AAAATAAAAATAAAAAT
20084960 AAAATAAAATAAAATAAAA
1 AAAATAAAATAAAATAAAA
20084979 TGGACTCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
26 9 0.20
27 3 0.07
28 3 0.07
29 4 0.09
30 10 0.23
31 12 0.27
32 3 0.07
ACGTcount: A:0.78, C:0.04, G:0.01, T:0.17
Consensus pattern (27 bp):
AAAATAAAATAAAATAAAAATAAAAAT
Found at i:20100260 original size:30 final size:30
Alignment explanation
Indices: 20100214--20100299 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
20100204 CATGGGCTGG
* *
20100214 CACATGGGCATGTGGCCAGCCCGTGTGGAT
1 CACACGGGCGTGTGGCCAGCCCGTGTGGAT
* *
20100244 CACAGGGGCGTGTGGCCAGCTCGTGTGGAT
1 CACACGGGCGTGTGGCCAGCCCGTGTGGAT
*
20100274 CACACGGGTGTGT-GCTCAGCCCGTGT
1 CACACGGGCGTGTGGC-CAGCCCGTGT
20100300 AGGAATGGCC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
29 2 0.04
30 47 0.96
ACGTcount: A:0.14, C:0.27, G:0.38, T:0.21
Consensus pattern (30 bp):
CACACGGGCGTGTGGCCAGCCCGTGTGGAT
Found at i:20100389 original size:21 final size:21
Alignment explanation
Indices: 20100348--20100390 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20100338 TTTTGTCTGA
* *
20100348 TTTTGTCCCGTTTTCTGCTCC
1 TTTTGTCCCCTTTGCTGCTCC
20100369 TTTTGCTCCCCTTTGCT-CTCC
1 TTTTG-TCCCCTTTGCTGCTCC
20100390 T
1 T
20100391 AAGTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.00, C:0.37, G:0.12, T:0.51
Consensus pattern (21 bp):
TTTTGTCCCCTTTGCTGCTCC
Found at i:20102124 original size:35 final size:35
Alignment explanation
Indices: 20102053--20102124 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
20102043 TTTTTTAGGG
* *
20102053 TTAGGGTTTTGCTAAAATAAGTTAGGGGTTAGGGT
1 TTAGGGTTTTGCTAAAATAAGTTAAGGGTTAAGGT
* * *
20102088 TTAGGTTTTTGTTAAAATAAGTTAAGGTTTAAGGT
1 TTAGGGTTTTGCTAAAATAAGTTAAGGGTTAAGGT
20102123 TT
1 TT
20102125 TAGTAGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCTAAAATAAGTTAAGGGTTAAGGT
Found at i:20102379 original size:126 final size:125
Alignment explanation
Indices: 20102223--20102558 Score: 437
Period size: 126 Copynumber: 2.7 Consensus size: 125
20102213 GAAAAATTAT
* * *
20102223 TCAAAAAGGTTCAAGGATGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGTT
1 TCAAAAAGCTTCAAGCAGGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGTT
* ** *
20102288 CTTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGA-TGTTTCTGAACATATAGTG
66 CTTTTTCTACAGTAGTTCCTGAAAAAATAATTTCAAGAAGACT-TTTCTGAACAAATAGTG
* * *
20102348 TCAAAAACGCTTCAAGCAGGATGCAGTGTCAGCAAAATTTCTGAAAAAAACTCCCACGTGGA--T
1 TCAAAAA-GCTTCAAGCAGGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGT
* * *
20102411 ACTGTTCATCTATAGTAGTTCCTGAAAAAATAATTTCAAGAAGACTTTTCTGAACAAATAGTG
65 TCT-TT-TTCTACAGTAGTTCCTGAAAAAATAATTTCAAGAAGACTTTTCTGAACAAATAGTG
* *
20102474 -CAAAAAAATGCTTCAAGCAGGAAGCAATGTCAGCAAAATTTTTGAAAAAAGCTCCCACGTGGAC
1 TC--AAAAA-GCTTCAAGCAGGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGAC
*
20102538 GCTCTTTTTCTACAGTAGTTC
63 GTTCTTTTTCTACAGTAGTTC
20102559 ATGCTTGGCC
Statistics
Matches: 181, Mismatches: 22, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
124 3 0.02
125 10 0.06
126 96 0.53
127 68 0.38
128 2 0.01
129 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (125 bp):
TCAAAAAGCTTCAAGCAGGATGCAATGTCAGCAAAATTTATGAAAAAAGCTCCCACGTGGACGTT
CTTTTTCTACAGTAGTTCCTGAAAAAATAATTTCAAGAAGACTTTTCTGAACAAATAGTG
Found at i:20105833 original size:21 final size:21
Alignment explanation
Indices: 20105809--20105876 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
20105799 GATTCATTCT
*
20105809 TGGTTACTTCGGCTGGGGTTG
1 TGGTTACTTCGGCAGGGGTTG
* *
20105830 TGGTTGA-TTCGACGGGGGTTG
1 TGGTT-ACTTCGGCAGGGGTTG
* * *
20105851 TGGTTGCTCCGGCAGGGATTG
1 TGGTTACTTCGGCAGGGGTTG
20105872 TGGTT
1 TGGTT
20105877 GCTCCGGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.07, C:0.13, G:0.44, T:0.35
Consensus pattern (21 bp):
TGGTTACTTCGGCAGGGGTTG
Found at i:20106153 original size:18 final size:18
Alignment explanation
Indices: 20106127--20106169 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
20106117 GACTGGGAAA
* *
20106127 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGCT
20106145 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
20106163 AGGATAC
1 AGGATAC
20106170 GCGCCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.28, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:20108192 original size:40 final size:40
Alignment explanation
Indices: 20108132--20108343 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
20108122 CATTTGAATG
** *
20108132 ATATCCGGGCTAAGTTCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
20108172 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
20108212 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
20108252 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
20108292 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
20108332 ATATCC-GGCTAA
1 ATATCCGGGCTAA
20108344 ATTCCGAAGA
Statistics
Matches: 139, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 8 0.06
40 129 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:20108272 original size:80 final size:79
Alignment explanation
Indices: 20108136--20108352 Score: 301
Period size: 80 Copynumber: 2.7 Consensus size: 79
20108126 TGAATGATAT
** *
20108136 CCGGGCTAAGTTCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCATTTG
* *
20108201 TGCGAGTTGCTATAC
65 TGCGAGTTACTAAAC
*
20108216 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
*
20108281 TGCGAGTTACTAAAT
65 TGCGAGTTACTAAAC
* * * *
20108296 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
20108353 AAACTTGGGT
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.11
80 109 0.89
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAAC
Found at i:20110023 original size:7 final size:7
Alignment explanation
Indices: 20110013--20110037 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20110003 TTATATACAT
20110013 AATACTA
1 AATACTA
20110020 AATACTA
1 AATACTA
20110027 AATACTA
1 AATACTA
20110034 AATA
1 AATA
20110038 TGAAACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:20110992 original size:25 final size:24
Alignment explanation
Indices: 20110955--20111006 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
20110945 ACTGTTATAA
*
20110955 AAAATTATAAAAT-AAAAATTAATT
1 AAAATTATAAAATGAAAAAAT-ATT
*
20110979 AAAATTATGTAAATGAAAAAATATT
1 AAAATTAT-AAAATGAAAAAATATT
20111004 AAA
1 AAA
20111007 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (24 bp):
AAAATTATAAAATGAAAAAATATT
Found at i:20114728 original size:41 final size:43
Alignment explanation
Indices: 20114629--20114775 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
20114619 ATGTGTTCTT
* *
20114629 GTGTAAGACCAC-GTCTGGGACATTGGAATCGATATGTGATTAC
1 GTGTAAGACC-CTGTCTGGGACATTCGAATCGATATGTGACTAC
* *
20114672 GTGTAAGACCATGTCTGGGACA-TCGACATCG-TATTTGACT-C
1 GTGTAAGACCCTGTCTGGGACATTCGA-ATCGATATGTGACTAC
* * * * *
20114713 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATGAGA-TAGC
1 GTGTAAGACCCTGTCTGGGACATTCGAATCGATATGTGACTA-C
*
20114756 ATGTAAGACCAC-GTCTGGGA
1 GTGTAAGACC-CTGTCTGGGA
20114776 TACTTTCATT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
41 26 0.31
42 17 0.20
43 41 0.48
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
GTGTAAGACCCTGTCTGGGACATTCGAATCGATATGTGACTAC
Found at i:20117652 original size:22 final size:23
Alignment explanation
Indices: 20117627--20117678 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
20117617 TTATATTAAA
20117627 TTATATTAAAAGAT-TTTAATTT
1 TTATATTAAAAGATATTTAATTT
**
20117649 TTATATTAAATTATATTTAATTT
1 TTATATTAAAAGATATTTAATTT
*
20117672 TTTTATT
1 TTATATT
20117679 TACTACCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATATTAAAAGATATTTAATTT
Found at i:20121017 original size:53 final size:54
Alignment explanation
Indices: 20120838--20121041 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 54
20120828 AGGGCTTAAT
* * * * * *
20120838 GATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCTACAAGGCAGG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAG
* * * * * * * *
20120892 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTCTATAAGGCAAG
* * *
20120947 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAG
* **
20121000 GATACCACGTAAGACCATGTTAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
20121042 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 45 0.38
54 33 0.28
55 42 0.35
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCTATAAGGCAAG
Found at i:20127562 original size:53 final size:53
Alignment explanation
Indices: 20127488--20127595 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
20127478 AAACTACTGT
* * * *
20127488 AAGGCAAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCAA
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAA
* * *
20127541 AAGGCAAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTAA
1 AAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAA
20127594 AA
1 AA
20127596 AGGAAAGGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.18
Consensus pattern (53 bp):
AAGGCAAAGATACCACGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAA
Found at i:20131174 original size:4 final size:4
Alignment explanation
Indices: 20131142--20131205 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
20131132 ACCTTGTCTA
* *
20131142 ATTT -TTT ATGT A-TT ATTT -TTT ATTTT ATTT ATTT ATTT ATTT ACTT
1 ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT
*
20131188 A-TT ATTT CTTCT ATTT AT
1 ATTT ATTT ATT-T ATTT AT
20131206 ATTTAAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
3 11 0.22
4 31 0.63
5 7 0.14
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:20131403 original size:3 final size:3
Alignment explanation
Indices: 20131391--20131445 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
20131381 GTTGTTGTTG
* *
20131391 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
20131439 TCA TTA T
1 TTA TTA T
20131446 ACTTTCATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:20132833 original size:5 final size:5
Alignment explanation
Indices: 20132825--20132849 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20132815 AAAAAATAAA
20132825 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
20132850 TAGGTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:20137115 original size:21 final size:21
Alignment explanation
Indices: 20137089--20137160 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 21
20137079 AGGAGTTTGG
20137089 AGTTGGGGAAAAAGATAGAAT
1 AGTTGGGGAAAAAGATAGAAT
* **
20137110 AGTT--GGAAGAAGAGAGGAGTTT
1 AGTTGGGGAA-AA-AGA-TAGAAT
20137132 GGAGTTGGGGAAAAAGATAGAAT
1 --AGTTGGGGAAAAAGATAGAAT
20137155 AGTTGG
1 AGTTGG
20137161 AAGAAGAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 4 0.11
20 2 0.05
21 13 0.34
22 3 0.08
23 3 0.08
24 7 0.18
25 2 0.05
26 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.39, T:0.21
Consensus pattern (21 bp):
AGTTGGGGAAAAAGATAGAAT
Found at i:20137128 original size:45 final size:45
Alignment explanation
Indices: 20137077--20137167 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
20137067 GACTTTGAAA
20137077 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
1 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
20137122 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
1 AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
20137167 A
1 A
20137168 AACAATGCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.41, C:0.00, G:0.40, T:0.20
Consensus pattern (45 bp):
AGAGGAGTTTGGAGTTGGGGAAAAAGATAGAATAGTTGGAAGAAG
Found at i:20137568 original size:21 final size:21
Alignment explanation
Indices: 20137544--20137583 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
20137534 TAGCCTAAAT
*
20137544 AAGATAGAAGAGCTGAAGAAA
1 AAGATAGAAGAGCTCAAGAAA
20137565 AAGATAGAAGAGCTCAAGA
1 AAGATAGAAGAGCTCAAGA
20137584 CCACATTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.28, T:0.10
Consensus pattern (21 bp):
AAGATAGAAGAGCTCAAGAAA
Found at i:20137984 original size:19 final size:19
Alignment explanation
Indices: 20137948--20138000 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
20137938 GCCTCTTTTT
20137948 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCA-TCAT-A
20137968 -GCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
*
20137986 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
20138001 AAAAGACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 22 0.73
20 7 0.23
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:20139086 original size:86 final size:86
Alignment explanation
Indices: 20138982--20139154 Score: 310
Period size: 86 Copynumber: 2.0 Consensus size: 86
20138972 ATATGCTTAG
* *
20138982 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACTTCTTCTGGAGAAGGAGGCAACAATGCTTTT
1 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTCTGGAGAAGGAGACAACAATGCTTTT
20139047 CATAAACACTCTAAAATCCCA
66 CATAAACACTCTAAAATCCCA
* *
20139068 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTTTGGAGAAGGAGACAACAATGTTTTT
1 AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTCTGGAGAAGGAGACAACAATGCTTTT
20139133 CATAAACACTCTAAAATCCCA
66 CATAAACACTCTAAAATCCCA
20139154 A
1 A
20139155 TTCATTAACC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 83 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (86 bp):
AGATGGAGAGAGGTGGCAACGCAAGTCCAACCACCTCTTCTGGAGAAGGAGACAACAATGCTTTT
CATAAACACTCTAAAATCCCA
Found at i:20146221 original size:44 final size:44
Alignment explanation
Indices: 20146110--20146995 Score: 361
Period size: 44 Copynumber: 19.7 Consensus size: 44
20146100 CAGTGAAATC
* * * *
20146110 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * *
20146154 AGTAAATCTTATCTCTCTGAAGTTATAGTAGAGCAAATTAAAGCT
1 A-CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * ** * * * * **
20146199 ACAAACCTTATCTCCCTCAAGTTGTACTGGAGTAGATTGCAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * ** *
20146243 ACCAGTCTCATCTCTTTAAAGTTACAGTGGAGCAAATTAAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * * *
20146287 AGCGAATCTTATTTCCCTGAAGTTACAATGGAACAGATTAAAGCTGTAAGTT
1 A-CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAA---G--A--T
* * ** * * * *
20146339 ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * *
20146383 AGCAAATCTTATCTCTCTAAAGTTGCAGTACAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * * * *
20146428 ACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
** * * * *
20146472 ACAAATCCCATCTCACTAAAGTTGCAGTAGAGCAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * * ** *
20146516 AACAAATCTAATCTCCTTGAAGTTGCAGTGGACCTGATTGAAGAT
1 -ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * * *
20146561 AGCAAATCTTATATCTCTGAAGTTGCAATAGAGCAGATTAAAGCT
1 A-CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * * * *
20146606 ACAAA-CTTTATCTCTCTGAAGTTGCAATGGAGTAAATTGAAGTT
1 ACAAATC-TTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * *
20146650 ACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * * * *
20146694 AGCGAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTT
1 A-CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAG-----A--T
* * * * * * *
20146746 ATAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* ** * *
20146790 AGCAAATCTTATATATCTAAAGTTGCAGTAGAGCAAATTAAAGTT
1 A-CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * *
20146835 ACAAATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * * * ** * * * * *
20146879 ACGATTCTCATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* * * ** *
20146923 ACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTAAAGAT
1 ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
* *
20146967 ACAAATCTCATCTCCCTAAAGTTGCAGTA
1 ACAAATCTTATCTCCCTAAAGTTACAGTA
20146996 CAGTAGATTG
Statistics
Matches: 653, Mismatches: 166, Indels: 46
0.75 0.19 0.05
Matches are distributed among these distances:
43 1 0.00
44 338 0.52
45 239 0.37
46 2 0.00
48 2 0.00
50 2 0.00
51 65 0.10
52 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTACAGTAGAGCAAATTAAAGAT
Found at i:20146298 original size:89 final size:89
Alignment explanation
Indices: 20146110--20146995 Score: 440
Period size: 89 Copynumber: 9.8 Consensus size: 89
20146100 CAGTGAAATC
* * * *
20146110 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTGAA
1 ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTCTAAA
* *
20146175 GTTATAGTAGAGCAAATTAAAGCT
66 GTTACAGTAGAGCAAATTAAAGAT
* * * * * * * *
20146199 ACAAACCTTATCTCCCTCAAGTTGTACTGGAGTAGATTGCAGATA-CCAGTCTCATCTCTTTAAA
1 ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTCTAAA
*
20146263 GTTACAGTGGAGCAAATTAAAGAT
66 GTTACAGTAGAGCAAATTAAAGAT
* * * * * * * * *
20146287 AGCGAATCTTATTTCCCTGAAGTTACAATGGAACAGATTAAAGCTGTAAGTTACAAATCTTATCT
1 A-CAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAG--AT-AG---CAAATCTCATCT
* ** * * * *
20146352 C-CTTGAAGTTGTAGTGGAGTAGATTGAAGAT
59 CTC-TAAAGTTACAGTAGAGCAAATTAAAGAT
* * ** * * * * * *
20146383 AGCAAATCTTATCTCTCTAAAGTTGCAGTACAGCAGATTAAAGCTA-CAAACCTTATCTCCCTGA
1 A-CAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTCTAA
* * * * * *
20146447 AGTTGCAGTGGAGTAGATTGAAGTT
65 AGTTACAGTAGAGCAAATTAAAGAT
** * * * * * *
20146472 ACAAATCCCATCTCACTAAAGTTGCAGTAGAGCAGATTGAAGATAACAAATCTAATCTC-CTTGA
1 ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTC-TAA
* * * ** *
20146536 AGTTGCAGTGGACCTGATTGAAGAT
65 AGTTACAGTAGAGCAAATTAAAGAT
* * * * * * * * *
20146561 AGCAAATCTTATATCTCTGAAGTTGCAATAGAGCAGATTAAAGCTA-CAAA-CTTTATCTCTCTG
1 A-CAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATC-TCATCTCTCTA
* * * * * *
20146624 AAGTTGCAATGGAGTAAATTGAAGTT
64 AAGTTACAGTAGAGCAAATTAAAGAT
* * * * * * * *
20146650 ACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTAT-TTTCCTGA
1 ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCT-CTAA
* * * *
20146714 AGTTGCAGTGGAACAGATTAAAGCTACAAGTT
65 AGTTACAGTAGAGCAAATTAAAG-----A--T
* * * * * * *
20146746 ATAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATATCTAAA
1 ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTCTAAA
* *
20146811 GTTGCAGTAGAGCAAATTAAAGTT
66 GTTACAGTAGAGCAAATTAAAGAT
* * ** * * * *
20146835 ACAAATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGATA-CGATTCTCATCTCTCTGAA
1 ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTCTAAA
** * * * * *
20146899 GTTGTAGTGGAGTAGATTGAAGTT
66 GTTACAGTAGAGCAAATTAAAGAT
* * * * * * * *
20146923 ACAAGTCTTATCTCTCTGAAGTTGTAGTGGAGCAAATTAAAGATA-CAAATCTCATCTCCCTAAA
1 ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTCTAAA
*
20146987 GTTGCAGTA
66 GTTACAGTA
20146996 CAGTAGATTG
Statistics
Matches: 641, Mismatches: 130, Indels: 53
0.78 0.16 0.06
Matches are distributed among these distances:
88 206 0.32
89 249 0.39
90 39 0.06
91 1 0.00
92 1 0.00
93 1 0.00
94 1 0.00
96 141 0.22
97 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (89 bp):
ACAAATCTTATCTCCCTAAAGTTGCACTGGAGCAGATTGAAGATAGCAAATCTCATCTCTCTAAA
GTTACAGTAGAGCAAATTAAAGAT
Found at i:20146539 original size:229 final size:229
Alignment explanation
Indices: 20146110--20146694 Score: 601
Period size: 229 Copynumber: 2.6 Consensus size: 229
20146100 CAGTGAAATC
* *
20146110 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTGAA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAA
* * * *
20146175 GTTATAGTAGAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGTACTGGAGTAGATTGCA
66 GTTACAGTACAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGCACTGGAGTAGATTGAA
* * * ** * * * * *
20146240 GATACCAGTCTCATCTCTTTAAAGTTACAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCT
131 GATACAAATCCCATCTCACTAAAGTTACAGTAGAGCAAATTAAAGATAACAAATCTAATCTCCCT
20146305 GAAGTTACAATGGAACAGATTAAAGCTGTAAGTT
196 GAAGTTACAATGGAACAGATTAAAGCTGTAAGTT
* * * *
20146339 ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCTCTAAA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAA
* * * *
20146404 GTTGCAGTACAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
66 GTTACAGTACAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGCACTGGAGTAGATTGAA
* * * * *
20146469 GTTACAAATCCCATCTCACTAAAGTTGCAGTAGAGCAGATTGAAGATAACAAATCTAATCTCCTT
131 GATACAAATCCCATCTCACTAAAGTTACAGTAGAGCAAATTAAAGATAACAAATCTAATCTCCCT
* * * * * *
20146534 GAAGTTGCAGTGGACCTGATTGAAG--AT-AG--
196 GAAGTTACAATGGAACAGATTAAAGCTGTAAGTT
* * * * * * * *
20146563 -CAAATCTTATATCTCTGAAGTTGCAATAGAGCAGATTAAAGCTA-CAAA-CTTTATCTCTCTGA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATC-TTATCTCTCTAA
* * ** * * * * * * * * *
20146625 AGTTGCAATGGAGTAAATTGAAGTTACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGA
65 AGTTACAGTACAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGCACTGGAGTAGATTGA
20146690 AGATA
130 AGATA
20146695 GCGAATCTTA
Statistics
Matches: 298, Mismatches: 57, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
221 1 0.00
222 73 0.24
223 35 0.12
226 2 0.01
227 1 0.00
229 186 0.62
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (229 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTAAA
GTTACAGTACAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGCACTGGAGTAGATTGAA
GATACAAATCCCATCTCACTAAAGTTACAGTAGAGCAAATTAAAGATAACAAATCTAATCTCCCT
GAAGTTACAATGGAACAGATTAAAGCTGTAAGTT
Found at i:20146560 original size:178 final size:177
Alignment explanation
Indices: 20146339--20147008 Score: 688
Period size: 178 Copynumber: 3.7 Consensus size: 177
20146329 GCTGTAAGTT
* * * *
20146339 ACAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTGAAGATAGCAAATCTTATCTCTCTAAA
1 ACAAATCTAATCTCCTTGAAGTTGCAGTGGACTAGATTGAAGATAGCAAATCTTATCTCTCTGAA
* * * * *
20146404 GTTGCAGTACAGCAGATTAAAGCTACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
66 GTTGCAGTAGAGCAGATTAAAGATACAAACCTTATCTCCCTAAAGTTGCAGTAGAGTAAATTGAA
* * * *
20146469 GTTACAAATCCCATCTCACTAAAGTTGCAGTAGAGCAGATTGAAGATA
131 GTTACAAATCTCATCTC-CTGAAGTTACAGTGGAGCAGATTGAAGATA
*
20146517 ACAAATCTAATCTCCTTGAAGTTGCAGTGGACCT-GATTGAAGATAGCAAATCTTATATCTCTGA
1 ACAAATCTAATCTCCTTGAAGTTGCAGTGGA-CTAGATTGAAGATAGCAAATCTTATCTCTCTGA
* * * * * * *
20146581 AGTTGCAATAGAGCAGATTAAAGCTACAAACTTTATCTCTCTGAAGTTGCAATGGAGTAAATTGA
65 AGTTGCAGTAGAGCAGATTAAAGATACAAACCTTATCTCCCTAAAGTTGCAGTAGAGTAAATTGA
20146646 AGTTACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATA
130 AGTTACAAATCTCATCT-CCTGAAGTTACAGTGGAGCAGATTGAAGATA
* * * * * * *
20146695 GCGAATCTTATTTTCC-TGAAGTTGCAGTGGAAC-AGATTAAAGCTACAAGTTATAAATCTTATC
1 ACAAATC-TAATCTCCTTGAAGTTGCAGTGG-ACTAGATTGAAG--A-TAG---CAAATCTTATC
* * * * **
20146758 TC-CTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTAGA
58 TCTC-TGAAGTTGCAGTAGAGCAGATTAAAGATA-CAAACCTTATCTCCCTAAAGTTGCAGTAGA
* * * *
20146822 GCAAATTAAAGTTACAAATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGAT-
121 GTAAATTGAAGTTACAAATCTCATCTCC-TGAAGTTACAGTGGAGCAGATTGAAGATA
* * * * * * *
20146879 ACGATTCTCATCT-CTCTGAAGTTGTAGTGGAGTAGATTGAAGTTA-CAAGTCTTATCTCTCTGA
1 ACAAATCTAATCTCCT-TGAAGTTGCAGTGGACTAGATTGAAGATAGCAAATCTTATCTCTCTGA
* * * * * * *
20146942 AGTTGTAGTGGAGCAAATTAAAGATACAAATCTCATCTCCCTAAAGTTGCAGTACAGTAGATTGA
65 AGTTGCAGTAGAGCAGATTAAAGATACAAACCTTATCTCCCTAAAGTTGCAGTAGAGTAAATTGA
20147007 AG
130 AG
20147009 CGATACTTTG
Statistics
Matches: 413, Mismatches: 61, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
176 33 0.08
177 37 0.09
178 187 0.45
179 9 0.02
180 1 0.00
181 3 0.01
182 1 0.00
183 5 0.01
184 64 0.15
185 73 0.18
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (177 bp):
ACAAATCTAATCTCCTTGAAGTTGCAGTGGACTAGATTGAAGATAGCAAATCTTATCTCTCTGAA
GTTGCAGTAGAGCAGATTAAAGATACAAACCTTATCTCCCTAAAGTTGCAGTAGAGTAAATTGAA
GTTACAAATCTCATCTCCTGAAGTTACAGTGGAGCAGATTGAAGATA
Found at i:20146778 original size:96 final size:94
Alignment explanation
Indices: 20146645--20146928 Score: 314
Period size: 96 Copynumber: 3.0 Consensus size: 94
20146635 GAGTAAATTG
* * *
20146645 AAGTTACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTC
1 AAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTATC
*
20146710 CTGAAGTTGCAGTGGAACAGATTAAAGCTAC
66 CTGAAGTTGCAGTGG-A-AGATTAAAGTTAC
* * *
20146741 AAGTTATAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATATAT
1 AAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTAT-TAT
* **
20146806 -CTAAAGTTGCAGT---AGAGCAAA-TTA-
65 CCTGAAGTTGCAGTGGAAGATTAAAGTTAC
* * * *
20146830 AAGTTACAAATCTTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGATA-CGATTCTCA-TCTC
1 AAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTATC
* *
20146893 TCTGAAGTTGTAGTGGAGTAGATTGAAGTTAC
66 -CTGAAGTTGCAGTGGA--AGATTAAAGTTAC
20146925 AAGT
1 AAGT
20146929 CTTATCTCTC
Statistics
Matches: 156, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
86 2 0.01
88 17 0.11
89 47 0.30
90 2 0.01
91 6 0.04
93 5 0.03
94 3 0.02
95 4 0.03
96 68 0.44
97 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (94 bp):
AAGTTACAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTATC
CTGAAGTTGCAGTGGAAGATTAAAGTTAC
Found at i:20146815 original size:229 final size:228
Alignment explanation
Indices: 20146427--20146970 Score: 604
Period size: 229 Copynumber: 2.4 Consensus size: 228
20146417 AGATTAAAGC
* * * * * * ** * *
20146427 TACAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCCCATCTCACTAAA
1 TACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTCTTATCTCTCTGAA
* * * * * *
20146492 GTTGCAGTAGAGCAGATTGAAGAT---A---ACAAATCTAATCTCCTTGAAGTTGCAGTGGACCT
66 GTTGCAGTGGAACAAATTAAAGATACAAGTTATAAATCTAATCTCCTTGAAGTTGCAGTGGACCA
* * *
20146551 GATTGAAGATAGCAAATCTTATATCTCTGAAGTTGCAATAGAGCAGATTAAAGCTACAAA-CTTT
131 GATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAATAGAGCAAATTAAAGCTACAAATC-TT
* * *
20146615 ATCT-CTCTGAAGTTGCAATGGAGTAAATTGAAGT
195 ATCTCCT-TGAAGTTACAATGGAGCAAATTGAAGA
*
20146649 TACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAA-TCTTAT-TTTCCT
1 TACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATA-C-AAGTCTTATCTCT-CT
* * *
20146712 GAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCTTGAAGTTGCAGTGGA
63 GAAGTTGCAGTGGAACAAATTAAAGATACAAGTTATAAATCTAATCTCCTTGAAGTTGCAGTGGA
* * *
20146777 GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTAGAGCAAATTAAAGTTACAAATC
128 CCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAATAGAGCAAATTAAAGCTACAAATC
* * *
20146842 TTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGA
193 TTATCTCCTTGAAGTTACAATGGAGCAAATTGAAGA
* * * ** * *
20146878 TACGATTCTCATCTCTCTGAAGTTGTAGTGGAGTAGATTGAAGTTACAAGTCTTATCTCTCTGAA
1 TACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTCTTATCTCTCTGAA
* *
20146943 GTTGTAGTGGAGCAAATTAAAGATACAA
66 GTTGCAGTGGAACAAATTAAAGATACAA
20146971 ATCTCATCTC
Statistics
Matches: 268, Mismatches: 41, Indels: 20
0.81 0.12 0.06
Matches are distributed among these distances:
222 42 0.16
223 29 0.11
224 2 0.01
226 1 0.00
227 2 0.01
228 36 0.13
229 153 0.57
230 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (228 bp):
TACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAGTCTTATCTCTCTGAA
GTTGCAGTGGAACAAATTAAAGATACAAGTTATAAATCTAATCTCCTTGAAGTTGCAGTGGACCA
GATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAATAGAGCAAATTAAAGCTACAAATCTTA
TCTCCTTGAAGTTACAATGGAGCAAATTGAAGA
Found at i:20146866 original size:407 final size:406
Alignment explanation
Indices: 20146110--20146974 Score: 1167
Period size: 407 Copynumber: 2.1 Consensus size: 406
20146100 CAGTGAAATC
* * * * *
20146110 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTGAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGACCAGATTGAAGATAGCAAATCTTATATCTCTGAA
* * * * * *
20146175 GTTATAGTAGAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGTACTGGAGTAGATTGCA
66 GTTACAATAGAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGCAATGGAGTAAATTGAA
* * **
20146240 GATACCAGTCTCATCTCTTTAAAGTTACAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCT
131 GATACAAATCTCATCTCCCTAAAGTTACAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCT
** *
20146305 GAAGTTACAATGGAACAGATTAAAGCTGTAAGTTACAAATCTTATCTCCTTGAAGTTGTAGTGGA
196 GAAGTTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
* * * *
20146370 GTAGATTGAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTACAGCAGATTAAAGCTACAAACC
261 GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTACAGCAAATTAAAGCTACAAACC
* * *
20146435 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCCCATCTCACTAAAGTTGCAGT
326 TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAATCCCATCTCACTAAAGTTGCAGT
20146500 AGAGCAGATTGAAGATA
391 AGAGCAGATTGAAG-TA
* *
20146517 ACAAATCTAATCTCCTTGAAGTTGCAGTGGACCTGATTGAAGATAGCAAATCTTATATCTCTGAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGACCAGATTGAAGATAGCAAATCTTATATCTCTGAA
* * * * *
20146582 GTTGCAATAGAGCAGATTAAAGCTACAAACTTTATCTCTCTGAAGTTGCAATGGAGTAAATTGAA
66 GTTACAATAGAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGCAATGGAGTAAATTGAA
* * * * *
20146647 GTTACAAATCTCATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATAGCGAATCTTATTTTCCT
131 GATACAAATCTCATCTCCCTAAAGTTACAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCT
* * *
20146712 GAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCTCCTTGAAGTTGCAGTGGA
196 GAAGTTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
* * *
20146777 GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTAGAGCAAATTAAAGTTACAAATC
261 GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTACAGCAAATTAAAGCTACAAACC
* * * * * * * *
20146842 TTATCTCCTTGAAGTTATAGTGGAGCAGATTGAAGATACGATTCTCATCTCTCTGAAGTTGTAGT
326 TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAATCCCATCTCACTAAAGTTGCAGT
* * *
20146907 GGAGTAGATTGAAGTT
391 AGAGCAGATTGAAGTA
* * * * *
20146923 ACAAGTCTTATCT-CTCTGAAGTTGTAGTGGAGCAAATTAAAGATA-CAAATCT
1 ACAAATCTTATCTCCT-TGAAGTTGCAGTGGACCAGATTGAAGATAGCAAATCT
20146975 CATCTCCCTA
Statistics
Matches: 396, Mismatches: 61, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
405 9 0.02
406 36 0.09
407 351 0.89
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (406 bp):
ACAAATCTTATCTCCTTGAAGTTGCAGTGGACCAGATTGAAGATAGCAAATCTTATATCTCTGAA
GTTACAATAGAGCAAATTAAAGCTACAAACCTTATCTCCCTCAAGTTGCAATGGAGTAAATTGAA
GATACAAATCTCATCTCCCTAAAGTTACAGTGGAGCAAATTAAAGATAGCGAATCTTATTTCCCT
GAAGTTACAATGGAACAGATTAAAGCTACAAGTTACAAATCTTATCTCCTTGAAGTTGCAGTGGA
GCAGATTGAAGATAGCAAATCTTATATATCTAAAGTTGCAGTACAGCAAATTAAAGCTACAAACC
TTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATACAAATCCCATCTCACTAAAGTTGCAGT
AGAGCAGATTGAAGTA
Found at i:20148724 original size:3 final size:3
Alignment explanation
Indices: 20148710--20148752 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
20148700 ATTGTTCATG
* * *
20148710 TTA TTG TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
20148753 ACTTTTATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:20153075 original size:38 final size:38
Alignment explanation
Indices: 20153015--20153089 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
20153005 TTGTTTTTAA
* *
20153015 TCAATTTTTCTAAGGCTTGATTTGTTTCTCAATTTTTTT
1 TCAATTTTTATAAGGCTTGATTTGTTTCAC-ATTTTTTT
20153054 TCAA-TTTTATAAGGCTTGATTTGTTTCACATTTTTT
1 TCAATTTTTATAAGGCTTGATTTGTTTCACATTTTTT
20153090 GGATTCTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 7 0.21
38 23 0.68
39 4 0.12
ACGTcount: A:0.20, C:0.12, G:0.11, T:0.57
Consensus pattern (38 bp):
TCAATTTTTATAAGGCTTGATTTGTTTCACATTTTTTT
Found at i:20153751 original size:22 final size:21
Alignment explanation
Indices: 20153726--20153777 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
20153716 ATAAAATCCC
20153726 TAAAATTTTTTAAAAAAAATCA
1 TAAAATTTTTT-AAAAAAATCA
* *
20153748 TAAAATTGTTTAAAAATATCA
1 TAAAATTTTTTAAAAAAATCA
20153769 TAAAATTTT
1 TAAAATTTT
20153778 AAGATTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
TAAAATTTTTTAAAAAAATCA
Found at i:20158639 original size:27 final size:27
Alignment explanation
Indices: 20158587--20158641 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
20158577 TAAATTGTAC
* *
20158587 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
20158614 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
20158641 A
1 A
20158642 CTTTTGAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:20166896 original size:28 final size:28
Alignment explanation
Indices: 20166831--20166981 Score: 205
Period size: 28 Copynumber: 5.4 Consensus size: 28
20166821 GAGATTGGCG
* * * *
20166831 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
20166860 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
20166888 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
20166916 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20166944 CTAAGCGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
20166971 CTGAGTGTGCG
1 CTAAGTGTGCG
20166982 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 23 0.21
28 73 0.66
29 15 0.14
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:20169836 original size:21 final size:21
Alignment explanation
Indices: 20169810--20169878 Score: 93
Period size: 21 Copynumber: 3.1 Consensus size: 21
20169800 AAAGTTCACA
*
20169810 AAGAACCTTATCGGGAAGTTC
1 AAGAACCATATCGGGAAGTTC
*
20169831 AAGAACCGTATCGGGAAGTTCAC
1 AAGAACCATATCGGGAAGTT--C
20169854 AAAGAACCATATCGGGAAGTTC
1 -AAGAACCATATCGGGAAGTTC
20169876 AAG
1 AAG
20169879 CGAGCACTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 22 0.51
22 1 0.02
23 1 0.02
24 19 0.44
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.19
Consensus pattern (21 bp):
AAGAACCATATCGGGAAGTTC
Found at i:20169866 original size:24 final size:24
Alignment explanation
Indices: 20169801--20169876 Score: 113
Period size: 24 Copynumber: 3.3 Consensus size: 24
20169791 CATAATGGGA
*
20169801 AAGTTCACAAAGAACCTTATCGGG
1 AAGTTCACAAAGAACCATATCGGG
*
20169825 AAGTT--C-AAGAACCGTATCGGG
1 AAGTTCACAAAGAACCATATCGGG
20169846 AAGTTCACAAAGAACCATATCGGG
1 AAGTTCACAAAGAACCATATCGGG
20169870 AAGTTCA
1 AAGTTCA
20169877 AGCGAGCACT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
21 19 0.40
22 1 0.02
23 1 0.02
24 26 0.55
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (24 bp):
AAGTTCACAAAGAACCATATCGGG
Found at i:20187121 original size:24 final size:24
Alignment explanation
Indices: 20187054--20187121 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
20187044 GGAAGCTCAT
*
20187054 AAGAGCCATAATTGGAAAGTTCACA
1 AAGAACCAT-ATTGGAAAGTTCACA
* * *
20187079 AATAACCTTATCAGG-AAGTTCACA
1 AAGAACCATAT-TGGAAAGTTCACA
20187103 AAGAACCATATTGGAAAGT
1 AAGAACCATATTGGAAAGT
20187122 GAAGAACCAT
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 24 0.71
25 8 0.24
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (24 bp):
AAGAACCATATTGGAAAGTTCACA
Found at i:20196513 original size:30 final size:31
Alignment explanation
Indices: 20196462--20196520 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
20196452 TGGCCTGGGA
* *
20196462 CATGGCTGTGTGGCAAGCCCGTG-GGAATCC
1 CATGGCCGTGTGCCAAGCCCGTGTGGAATCC
20196492 CATGGCCGTGTAGCCAA-CCCGTGTGGAAT
1 CATGGCCGTGT-GCCAAGCCCGTGTGGAAT
20196521 TCTGGCTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.19, C:0.27, G:0.34, T:0.20
Consensus pattern (31 bp):
CATGGCCGTGTGCCAAGCCCGTGTGGAATCC
Found at i:20197597 original size:52 final size:52
Alignment explanation
Indices: 20197496--20197631 Score: 175
Period size: 52 Copynumber: 2.6 Consensus size: 52
20197486 ATATCCCAGA
* * * *
20197496 TATGATCTTATAC-GAAATCACATTATCACATCACACCGACGCCATAGCCCAGC
1 TATGGTCTTATACGGGAA-CACA-TATCACATCACACCAACGCCATAGCCCAAC
* * * *
20197549 TTTGGTCTTATACGGGAACACATATCACATTATACCAATGCCATAGCCCAAC
1 TATGGTCTTATACGGGAACACATATCACATCACACCAACGCCATAGCCCAAC
20197601 TATGGTCTTATACGGGAACACATATCACATC
1 TATGGTCTTATACGGGAACACATATCACATC
20197632 TTTTCCGTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
52 54 0.75
53 15 0.21
54 3 0.04
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (52 bp):
TATGGTCTTATACGGGAACACATATCACATCACACCAACGCCATAGCCCAAC
Found at i:20204080 original size:30 final size:31
Alignment explanation
Indices: 20204044--20204102 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
20204034 TGGCCTGGGA
*
20204044 CATGGCCGTGTGGCCAGCCCGTG-GGAATCC
1 CATGGCCGTGTGACCAGCCCGTGTGGAATCC
20204074 CATGGCCGTGTGACCAGCCCGTGTGGAAT
1 CATGGCCGTGTGACCAGCCCGTGTGGAAT
20204103 TCTGACTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.15, C:0.31, G:0.36, T:0.19
Consensus pattern (31 bp):
CATGGCCGTGTGACCAGCCCGTGTGGAATCC
Found at i:20204935 original size:41 final size:41
Alignment explanation
Indices: 20204890--20204970 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
20204880 TCCATGTTGC
20204890 TATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCAT
1 TATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCAT
20204931 TATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCA
1 TATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCA
20204971 CTTCCATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.41
Consensus pattern (41 bp):
TATTCACAAATTTAACTCATTTGGGCCCATTTCTCATTCAT
Found at i:20205194 original size:53 final size:52
Alignment explanation
Indices: 20205114--20205216 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 52
20205104 TCATATATAA
* *
20205114 TACCAATGCCATATCCCAGATATGGTCTTATACG-GAATCACATTATCACATTG
1 TACCAATGCCACAGCCCAGATATGGTCTTATACGAGAA-CACA-TATCACATTG
*
20205167 TACCAATGCCACAGCCCAGCTATGGTCTTATACGAGAACACATATCACAT
1 TACCAATGCCACAGCCCAGATATGGTCTTATACGAGAACACATATCACAT
20205217 ATTTTCCGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
52 8 0.17
53 35 0.76
54 3 0.07
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (52 bp):
TACCAATGCCACAGCCCAGATATGGTCTTATACGAGAACACATATCACATTG
Found at i:20209551 original size:18 final size:20
Alignment explanation
Indices: 20209512--20209551 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
20209502 TAAAGAGGAA
20209512 TTGAAGTGGATAGAGCAAAAT
1 TTGAAGTGGATAGA-CAAAAT
20209533 TTGAAGT-GATAGA-AAAAT
1 TTGAAGTGGATAGACAAAAT
20209551 T
1 T
20209552 ACCACCTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.28
Consensus pattern (20 bp):
TTGAAGTGGATAGACAAAAT
Found at i:20213217 original size:24 final size:24
Alignment explanation
Indices: 20213190--20213253 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
20213180 TGCCAAGGAT
*
20213190 CCCACTCAAGTTGCTGCTAAAGCA
1 CCCACTCAAATTGCTGCTAAAGCA
** **
20213214 CCCACTCAACCTGCTGCTAGGGCA
1 CCCACTCAAATTGCTGCTAAAGCA
*
20213238 CCTACTCAAATTGCTG
1 CCCACTCAAATTGCTG
20213254 GGGAAGAGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (24 bp):
CCCACTCAAATTGCTGCTAAAGCA
Done.