Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 164 of 284
Found at i:55022718 original size:21 final size:21
Alignment explanation
Indices: 55022694--55022745 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
55022684 CATAAAATTT
55022694 TAAAATTTATATTTAAAAAAA
1 TAAAATTTATATTTAAAAAAA
* * ***
55022715 TAAAAATCATATTTTTTAAAA
1 TAAAATTTATATTTAAAAAAA
55022736 T-AAATTTATA
1 TAAAATTTATA
55022746 AAAAATAAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAATTTATATTTAAAAAAA
Found at i:55022720 original size:37 final size:36
Alignment explanation
Indices: 55022674--55022754 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 36
55022664 TTCATATTTT
* *
55022674 AAATAAAAAACATAAAATTTTAAAATTTATATTTA-AAA
1 AAATAAAAATCAT-AAATTTTAAAA--TAAATTTATAAA
**
55022712 AAATAAAAATCATATTTTTTAAAATAAATTTATAAA
1 AAATAAAAATCATAAATTTTAAAATAAATTTATAAA
55022748 AAATAAA
1 AAATAAA
55022755 CTCTTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 7 0.18
36 10 0.26
37 9 0.24
38 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (36 bp):
AAATAAAAATCATAAATTTTAAAATAAATTTATAAA
Found at i:55022739 original size:29 final size:27
Alignment explanation
Indices: 55022707--55022804 Score: 70
Period size: 30 Copynumber: 3.3 Consensus size: 27
55022697 AATTTATATT
55022707 TAAAAAAATAAAAATCATATTTTTTAAAA
1 TAAAAAAATAAAAAT-A-ATTTTTTAAAA
*** * *
55022736 TAAATTTATAAAAAATAAACTCTTTAAAA
1 TAAAAAAAT-AAAAAT-AATTTTTTAAAA
*
55022765 TTAAAAAATATAAAAATTAATTTTTAAAATA
1 -TAAAAAA-ATAAAAA-TAATTTTTTAAA-A
55022796 TAAAAAAAT
1 TAAAAAAAT
55022805 TCTAAAATTC
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
29 17 0.33
30 31 0.60
31 4 0.08
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (27 bp):
TAAAAAAATAAAAATAATTTTTTAAAA
Found at i:55022780 original size:30 final size:30
Alignment explanation
Indices: 55022746--55022802 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
55022736 TAAATTTATA
55022746 AAAAATAAACTCTTTAAAAT-TAAAAAATAT
1 AAAAATAAA-TCTTTAAAATATAAAAAATAT
* *
55022776 AAAAATTAATTTTTAAAATATAAAAAA
1 AAAAATAAATCTTTAAAATATAAAAAA
55022803 ATTCTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATAAATCTTTAAAATATAAAAAATAT
Found at i:55028829 original size:136 final size:136
Alignment explanation
Indices: 55028585--55028856 Score: 535
Period size: 136 Copynumber: 2.0 Consensus size: 136
55028575 CGGACCACAT
55028585 GGATCTGCACTATGACAGCACTAAGGCTTTTCTTGGTATGAAGGATGGAAAGGAGTTAGAATGCA
1 GGATCTGCACTATGACAGCACTAAGGCTTTTCTTGGTATGAAGGATGGAAAGGAGTTAGAATGCA
55028650 AAATTTGATAATCAAATGGTTAAGATTCATAACCACTTTCTTACTTTGTAGCTTAAGCATTAGAT
66 AAATTTGATAATCAAATGGTTAAGATTCATAACCACTTTCTTACTTTGTAGCTTAAGCATTAGAT
55028715 TAACAA
131 TAACAA
55028721 GGATCTGCACTATGACAGCACTAAGGCTTTTCTTGGTATGAAGGATGGAAAGGAGTTAGAATGCA
1 GGATCTGCACTATGACAGCACTAAGGCTTTTCTTGGTATGAAGGATGGAAAGGAGTTAGAATGCA
*
55028786 AAATTTGTTAATCAAATGGTTAAGATTCATAACCACTTTCTTACTTTGTAGCTTAAGCATTAGAT
66 AAATTTGATAATCAAATGGTTAAGATTCATAACCACTTTCTTACTTTGTAGCTTAAGCATTAGAT
55028851 TAACAA
131 TAACAA
55028857 ATTTTCCATT
Statistics
Matches: 135, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (136 bp):
GGATCTGCACTATGACAGCACTAAGGCTTTTCTTGGTATGAAGGATGGAAAGGAGTTAGAATGCA
AAATTTGATAATCAAATGGTTAAGATTCATAACCACTTTCTTACTTTGTAGCTTAAGCATTAGAT
TAACAA
Found at i:55037831 original size:40 final size:40
Alignment explanation
Indices: 55037678--55037871 Score: 207
Period size: 40 Copynumber: 4.8 Consensus size: 40
55037668 TTCGAATGAT
* * * *
55037678 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
** *
55037719 ATCTAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
55037759 TTCCGGGCTAAG-CCTGAAGGCATTGGTACGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
55037798 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
55037839 A-CCGGGCTATA-TCCCGAAGGCATTTGAGCGAGT
1 ATCCGGGCTA-AGTCCCGAAGGCATTTGTGCGAGT
55037872 AGCTATATCC
Statistics
Matches: 127, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
39 33 0.26
40 66 0.52
41 27 0.21
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:55037886 original size:79 final size:79
Alignment explanation
Indices: 55037733--55037897 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
55037723 AGACTAAGAT
* *
55037733 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCTGAAGGCATTGGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAA
*
55037798 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
55037812 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATATCCCGAAGGCATTTG-AGCGAG-TAG
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTA-AGCCCGAAGGCATTGGTA-CGAGTTA-
* *
55037874 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
55037891 CCGAAGG
1 CCGAAGG
55037898 TATGTGATTC
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGTACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:55040036 original size:27 final size:27
Alignment explanation
Indices: 55039999--55040055 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
55039989 TCAATTTGAG
55039999 AAAAAAGACTAAATCGTGTAAAGTGCA
1 AAAAAAGACTAAATCGTGTAAAGTGCA
55040026 AAAAAAGACTAAATCGTGTAAAGTGCA
1 AAAAAAGACTAAATCGTGTAAAGTGCA
55040053 AAA
1 AAA
55040056 GTGCTGCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.54, C:0.11, G:0.18, T:0.18
Consensus pattern (27 bp):
AAAAAAGACTAAATCGTGTAAAGTGCA
Found at i:55051848 original size:35 final size:33
Alignment explanation
Indices: 55051802--55051867 Score: 96
Period size: 35 Copynumber: 1.9 Consensus size: 33
55051792 TACCCCACAA
*
55051802 GCAATTCAGTCAAAGACATTTCAAAACAATTCCAT
1 GCAATTCAGTCAAA-ACATTT-AAAAAAATTCCAT
*
55051837 GCAATTCAGTCAAATCATTTAAAAAAATTCC
1 GCAATTCAGTCAAAACATTTAAAAAAATTCC
55051868 CTACACTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 10 0.34
34 5 0.17
35 14 0.48
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (33 bp):
GCAATTCAGTCAAAACATTTAAAAAAATTCCAT
Found at i:55053493 original size:26 final size:27
Alignment explanation
Indices: 55053435--55053493 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
55053425 TGATTTCAAG
*
55053435 ATCACAAGGCCAAAATATCTGAAACAA
1 ATCACAAGGCAAAAATATCTGAAACAA
55053462 ATCACAAGGCAAAAATATCTGAAACAA
1 ATCACAAGGCAAAAATATCTGAAACAA
55053489 A-CACA
1 ATCACA
55053494 TATCATTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.54, C:0.22, G:0.10, T:0.14
Consensus pattern (27 bp):
ATCACAAGGCAAAAATATCTGAAACAA
Found at i:55055446 original size:20 final size:20
Alignment explanation
Indices: 55055421--55055459 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
55055411 CAAATTAATT
*
55055421 AATTAAATAACATTTTATTA
1 AATTAAATAACATTATATTA
55055441 AATTAAATAACATTATATT
1 AATTAAATAACATTATATT
55055460 TCACATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAAATAACATTATATTA
Found at i:55055507 original size:29 final size:29
Alignment explanation
Indices: 55055474--55055532 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
55055464 ATAAAACGAG
55055474 AGTTAGATCCCACACCTTAAACAGATCTA
1 AGTTAGATCCCACACCTTAAACAGATCTA
55055503 AGTTAGATCCCACACCTTAAACAGATCTA
1 AGTTAGATCCCACACCTTAAACAGATCTA
55055532 A
1 A
55055533 ACCGTACGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.27, G:0.10, T:0.24
Consensus pattern (29 bp):
AGTTAGATCCCACACCTTAAACAGATCTA
Found at i:55057004 original size:28 final size:28
Alignment explanation
Indices: 55056972--55057028 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
55056962 ATATTTTAAG
55056972 TAAGTTTCTAAAATTTGGTATGTGATTA
1 TAAGTTTCTAAAATTTGGTATGTGATTA
55057000 TAAGTTTCTAAAATTTGGTATGTGATTA
1 TAAGTTTCTAAAATTTGGTATGTGATTA
55057028 T
1 T
55057029 GGAATTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.47
Consensus pattern (28 bp):
TAAGTTTCTAAAATTTGGTATGTGATTA
Found at i:55058688 original size:25 final size:25
Alignment explanation
Indices: 55058659--55058706 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55058649 TTATAACATG
* * *
55058659 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
55058684 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
55058707 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:55058790 original size:11 final size:11
Alignment explanation
Indices: 55058754--55058809 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
55058744 CATGGTATGT
55058754 ATGATATGCAC
1 ATGATATGCAC
* *
55058765 ATGACATG--T
1 ATGATATGCAC
55058774 ATGATATGCAC
1 ATGATATGCAC
*
55058785 ATGATATG--T
1 ATGATATGCAC
55058794 ATGATATGCAC
1 ATGATATGCAC
55058805 ATGAT
1 ATGAT
55058810 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:55058809 original size:20 final size:20
Alignment explanation
Indices: 55058743--55058809 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
55058733 ATTTTGATAA
*
55058743 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
55058763 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
55058783 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
55058803 ACATGAT
1 ACATGAT
55058810 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:55058890 original size:23 final size:23
Alignment explanation
Indices: 55058860--55058932 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
55058850 AGGAAGTGCA
55058860 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
55058883 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
55058906 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
55058930 AAA
1 AAA
55058933 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:55058949 original size:25 final size:24
Alignment explanation
Indices: 55058859--55058953 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
55058849 GAGGAAGTGC
55058859 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
55058883 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55058906 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
55058930 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
55058954 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:55059182 original size:31 final size:31
Alignment explanation
Indices: 55059147--55059210 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
55059137 CGTTTACAGT
55059147 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
55059178 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
55059209 AA
1 AA
55059211 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:55074608 original size:46 final size:46
Alignment explanation
Indices: 55074500--55074666 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 46
55074490 AAGCTGGCGC
* * * * **
55074500 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGA-GGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-CAT-GCTATGGCTAATG
* *
55074548 TATGTCCCAGACATGTCTTACACTAGCTCTCGT-CTCAAT-GCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATGCT--ATGGCTAATG
* * *
55074594 CATGTCCCAGACATGTCTTACACTGGCTCTCATGCTGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGGCTAATG
55074640 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
55074667 ACACATATCA
Statistics
Matches: 100, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 69 0.69
47 4 0.04
48 25 0.25
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATGCTATGGCTAATG
Found at i:55091888 original size:46 final size:46
Alignment explanation
Indices: 55091830--55091954 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
55091820 TAGGCATCCG
*
55091830 AGCTCGTTGAGTTGAGT-TCGAGTTCACTTATGGATGCAAATGCCCA
1 AGCTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCAAACGCCCA
**
55091876 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACGCCCA
1 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCA
*
55091922 AGCTCATTGAGTTGAGTCTGAGTTCACTTATGG
1 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
55091955 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
46 73 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGCCCA
Found at i:55103246 original size:15 final size:16
Alignment explanation
Indices: 55103215--55103257 Score: 70
Period size: 15 Copynumber: 2.7 Consensus size: 16
55103205 GTCATAACCA
55103215 ATAGTTTTCACAATTCT
1 ATAG-TTTCACAATTCT
55103232 ATAGTTTCA-AATTCT
1 ATAGTTTCACAATTCT
55103247 ATAGTTTCACA
1 ATAGTTTCACA
55103258 TCTAAACAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.60
16 6 0.24
17 4 0.16
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (16 bp):
ATAGTTTCACAATTCT
Found at i:55112325 original size:32 final size:32
Alignment explanation
Indices: 55112279--55112339 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
55112269 TGTCAAATAG
* *
55112279 TTAGAGAACCAAAATTGGGGGTCTTTAAAGGT
1 TTAGAGAACAAAAATTGGGGGTCATTAAAGGT
55112311 TTAGAGAACAAAAATTGGGGGTCATTAAA
1 TTAGAGAACAAAAATTGGGGGTCATTAAA
55112340 TCACAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (32 bp):
TTAGAGAACAAAAATTGGGGGTCATTAAAGGT
Found at i:55113406 original size:46 final size:44
Alignment explanation
Indices: 55113353--55113457 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 44
55113343 CGAGAGCTAA
* *
55113353 TGTAAGACATGT-TTAGAACATTCATCGGCCT-CGAGATGTAAGCCAG
1 TGTAAGACATGTCTAAG-ACATGCATCGG-CTACGAGATGT--GCCAG
*
55113399 TGTAAGACATGTCTAAGACATGCATCGGCTACGAGATGTGTCAG
1 TGTAAGACATGTCTAAGACATGCATCGGCTACGAGATGTGCCAG
55113443 TGTAAGACCATGTCT
1 TGTAAGA-CATGTCT
55113458 GGGACATGGC
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
44 11 0.21
45 9 0.17
46 30 0.57
47 3 0.06
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TGTAAGACATGTCTAAGACATGCATCGGCTACGAGATGTGCCAG
Found at i:55122289 original size:28 final size:28
Alignment explanation
Indices: 55122253--55122307 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
55122243 CACGGGATGA
55122253 GACACGGGC-GTGTCAAGGCCGTGTGAGG
1 GACACGGGCGGTGTC-AGGCCGTGTGAGG
*
55122281 GACATGGGCGTGTGTCAGGCCGTGTGA
1 GACACGGGCG-GTGTCAGGCCGTGTGA
55122308 TAACCCCTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 8 0.33
29 11 0.46
30 5 0.21
ACGTcount: A:0.16, C:0.20, G:0.45, T:0.18
Consensus pattern (28 bp):
GACACGGGCGGTGTCAGGCCGTGTGAGG
Found at i:55128916 original size:20 final size:20
Alignment explanation
Indices: 55128888--55128925 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55128878 TATTTAGGGC
* *
55128888 AAAATTTTTCTAAGTTTTGT
1 AAAACTTTTCGAAGTTTTGT
55128908 AAAACTTTTCGAAGTTTT
1 AAAACTTTTCGAAGTTTT
55128926 CGGTTTAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.50
Consensus pattern (20 bp):
AAAACTTTTCGAAGTTTTGT
Found at i:55137031 original size:30 final size:30
Alignment explanation
Indices: 55137007--55137067 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
55136997 ATAAGCCATT
*
55137007 ATACATGTTCTTGACCAAAAATAAGAGAAA
1 ATACATGTTCTTGACCAAAAATAAGACAAA
*
55137037 ATACATGTTCTTGACCAAAAATAAGAGAAA
1 ATACATGTTCTTGACCAAAAATAAGACAAA
55137067 A
1 A
55137068 AGAAAAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (30 bp):
ATACATGTTCTTGACCAAAAATAAGACAAA
Found at i:55145042 original size:41 final size:40
Alignment explanation
Indices: 55144961--55145042 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 40
55144951 AATGGTATTT
* * *
55144961 GGCACTAAATGTGCGATTTGAATTAGCTTAGGCTACTTGA
1 GGCACTAAATGTGCGATTCGAAATAGCTTAGGCTAATTGA
* * * *
55145001 GGCACTGAGTGTGCGATATCGAAATAGCTTCGGTTAATTGA
1 GGCACTAAATGTGCGAT-TCGAAATAGCTTAGGCTAATTGA
55145042 G
1 G
55145043 ATGGCACTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 15 0.44
41 19 0.56
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (40 bp):
GGCACTAAATGTGCGATTCGAAATAGCTTAGGCTAATTGA
Found at i:55147498 original size:49 final size:49
Alignment explanation
Indices: 55147420--55147544 Score: 146
Period size: 49 Copynumber: 2.5 Consensus size: 49
55147410 GATGCTGACG
* * * *
55147420 CCATGTCCCACACATGGTCTTACACTGGCTTTTATATAGCGAG-GCTGA-TA
1 CCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGC-AGTG-TCATTA
* * *
55147470 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCATTG
1 CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTCATTA
55147519 CCATGTCCCAGACAGGTCTTACACTG
1 CCATGTCCCAGACAGGTCTTACACTG
55147545 ACACACAACA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 4 0.06
49 49 0.74
50 13 0.20
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGCAGTGTCATTA
Found at i:55147636 original size:48 final size:48
Alignment explanation
Indices: 55147580--55147686 Score: 151
Period size: 48 Copynumber: 2.2 Consensus size: 48
55147570 CCAGATAGTG
** * * *
55147580 CTTACACTAGCTTGTATATCGTGAGGCCGATGCATGTCCCAGGCATGT
1 CTTACACTAGCTTAAATATCGTGAGGCCGACGCATGCCCCAGACATGT
* *
55147628 CTTACACTAGCTTAAATATCTTGTGGCCGACGCATGCCCCAGACATGT
1 CTTACACTAGCTTAAATATCGTGAGGCCGACGCATGCCCCAGACATGT
55147676 CTTACACTAGC
1 CTTACACTAGC
55147687 ACACATATCA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
CTTACACTAGCTTAAATATCGTGAGGCCGACGCATGCCCCAGACATGT
Found at i:55153819 original size:48 final size:48
Alignment explanation
Indices: 55153703--55153823 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 48
55153693 ACAACAAGTT
* **
55153703 GACGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCC
1 GACG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCC
* * * *
55153752 GATGCATGTCCCAGGCATGTCTTACACTGGCTTAAATATCTCGAGGCC
1 GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCC
* *
55153800 GACGCATGTCCTAAACATGTCTTA
1 GACGCATGTCCCAGACATGTCTTA
55153824 TATTAGCTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
48 58 0.95
49 3 0.05
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (48 bp):
GACGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCC
Found at i:55170926 original size:40 final size:40
Alignment explanation
Indices: 55170859--55171145 Score: 295
Period size: 40 Copynumber: 7.2 Consensus size: 40
55170849 CCTTCGGAGT
* *
55170859 TTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAG-TAACTCGCACAAATGCCTTCGGGAC
55170898 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
55170938 TTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGAC
1 TTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
55170978 TTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGAC
1 TTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGAC
* *
55171018 TTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-C
1 TTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
55171057 TTAGCCCGG-AATTCGTATCTCGCACAAATGCCTTC-GGATC
1 TTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-C
* * * * * *
55171097 TTAGTCCGGATATGGTCACTTAGCACAAA-GCTTTCGGGAC
1 TTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGAC
55171137 TTAGCCCGG
1 TTAGCCCGG
55171146 ACATCATTCG
Statistics
Matches: 221, Mismatches: 17, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.15
40 171 0.77
41 14 0.06
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:55170996 original size:80 final size:80
Alignment explanation
Indices: 55170875--55171146 Score: 354
Period size: 80 Copynumber: 3.4 Consensus size: 80
55170865 GGATATAGCT
* *
55170875 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACT
55170939 TAACCCGGATTTAGTA
65 TAACCCGGATTTAGTA
* *
55170955 ACTCGCACCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT
55171020 AACCCGGATTTAGTA
66 AACCCGGATTTAGTA
* * *
55171035 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTCGTATCTCGCACAAATGCCTTC-GGATCT
1 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CT
** * * *
55171098 TAGTCCGGATATGGTC
65 TAACCCGGATTTAGTA
* * *
55171114 ACTTAGCA-CAAAGCTTTCGGGACTTAGCCCGGA
1 AC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
55171147 CATCATTCGA
Statistics
Matches: 171, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
78 3 0.02
79 57 0.33
80 109 0.64
81 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (80 bp):
ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTT
AACCCGGATTTAGTA
Found at i:55171054 original size:120 final size:119
Alignment explanation
Indices: 55170875--55171145 Score: 332
Period size: 119 Copynumber: 2.3 Consensus size: 119
55170865 GGATATAGCT
* *
55170875 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTT
* *
55170940 AACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGACTTAACCCGGATTTAGTA
65 AACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
* *
55170995 ACTCGCACCAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGGCTT
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGCTT
* * * ** * * *
55171059 AGCCCGGAATTCGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
65 AACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTA
* * *
55171114 ACTTAGCACAAA-GCTTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAACCCGG
55171146 ACATCATTCG
Statistics
Matches: 130, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
118 3 0.02
119 64 0.49
120 61 0.47
121 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (119 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTA
ACCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTA
Found at i:55196850 original size:39 final size:39
Alignment explanation
Indices: 55196796--55196874 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
55196786 TCAAGACTGA
55196796 AGATCTCCCCTCAACTTCCCTTCAGGAGTTTTGGGTTTT
1 AGATCTCCCCTCAACTTCCCTTCAGGAGTTTTGGGTTTT
55196835 AGATCTCCCCTCAACTTCCCTTCAGGAGTTTTGGGTTTT
1 AGATCTCCCCTCAACTTCCCTTCAGGAGTTTTGGGTTTT
55196874 A
1 A
55196875 TTTATGTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (39 bp):
AGATCTCCCCTCAACTTCCCTTCAGGAGTTTTGGGTTTT
Found at i:55201453 original size:20 final size:20
Alignment explanation
Indices: 55201428--55201466 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55201418 AGGGACTAAA
* *
55201428 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
55201448 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
55201467 TATAAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:55210592 original size:42 final size:42
Alignment explanation
Indices: 55210484--55210594 Score: 147
Period size: 40 Copynumber: 2.7 Consensus size: 42
55210474 GACTACAATT
* * *
55210484 CAGCTATGTATGGCACTTAGTGTGC--GATTCGAGATAGCTT
1 CAGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGCTC
* *
55210524 CGGCTATGTATGGCACTTAGTTTGCGAGATT-AAAATAGCTC
1 CAGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGCTC
55210565 CAGCTATGTAGTGGCACTTAGTGTGCGAGA
1 CAGCTATGTA-TGGCACTTAGTGTGCGAGA
55210595 ATTCGAGTAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
40 23 0.38
41 16 0.26
42 22 0.36
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
CAGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGCTC
Found at i:55237306 original size:15 final size:15
Alignment explanation
Indices: 55237279--55237322 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
55237269 TATAGTATCG
55237279 TATCTTGGGATTTCTC
1 TATCTT-GGATTTCTC
55237295 TATCTTGGATTTCTC
1 TATCTTGGATTTCTC
* *
55237310 CA-CTTGGTTTTCT
1 TATCTTGGATTTCT
55237323 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.11, C:0.20, G:0.16, T:0.52
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:55239948 original size:46 final size:46
Alignment explanation
Indices: 55239890--55240013 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
55239880 TATGTGTGCT
55239890 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATT-ATGAG-GACC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGATGAGAG-CC
* * *
55239936 AGTGTAATACATGTCTGGGACATGCATTGG--CATTGGGATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATT--GATGAGAGCC
55239982 AGTGTAAGACATGTCTGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
55240014 TCGAGATATA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
43 4 0.06
46 62 0.93
47 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGATGAGAGCC
Found at i:55247427 original size:20 final size:20
Alignment explanation
Indices: 55247402--55247445 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
55247392 CATGTAAGTG
**
55247402 TGATTTTGTCTTGTTTTTAA
1 TGATTTTGTCCCGTTTTTAA
55247422 TGA-TTTGTCCCGTTTTTAA
1 TGATTTTGTCCCGTTTTTAA
55247441 TGATT
1 TGATT
55247446 CCTACATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (20 bp):
TGATTTTGTCCCGTTTTTAA
Found at i:55247602 original size:19 final size:20
Alignment explanation
Indices: 55247577--55247625 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
55247567 GATTATGAAT
55247577 GTTTGTTAATAGCTATACAA
1 GTTTGTTAATAGCTATACAA
55247597 -TTTGTTAATAGCTATACAA
1 GTTTGTTAATAGCTATACAA
55247616 GTTTTGTTAA
1 G-TTTGTTAA
55247626 GTGATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 19 0.70
21 8 0.30
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (20 bp):
GTTTGTTAATAGCTATACAA
Found at i:55248173 original size:42 final size:42
Alignment explanation
Indices: 55248063--55248175 Score: 160
Period size: 40 Copynumber: 2.7 Consensus size: 42
55248053 TTGACAATAA
* * *
55248063 TTCGGCTATGTATGACACTTAATGTGC--GATTCAAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGC
55248103 TTCGGCTATGTATGGCACTTAGTGTGCGAGATT-AAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGC
*
55248144 TTTGGCTATGTATTGGCACTTAGTGTGCGAGA
1 TTCGGCTATGTA-TGGCACTTAGTGTGCGAGA
55248176 ATTTGAGTAT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
40 25 0.38
41 18 0.27
42 23 0.35
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (42 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGAGATTCAAAATAGC
Found at i:55251306 original size:21 final size:22
Alignment explanation
Indices: 55251265--55251315 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
55251255 GGGCTCACAC
55251265 GCCCGTGTGATCCAAGGGACAT
1 GCCCGTGTGATCCAAGGGACAT
**
55251287 GCCCGTGTGA-CCCTGGGACAT
1 GCCCGTGTGATCCAAGGGACAT
55251308 GCCCGTGT
1 GCCCGTGT
55251316 TGGAGGCCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.63
22 10 0.37
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.20
Consensus pattern (22 bp):
GCCCGTGTGATCCAAGGGACAT
Found at i:55253933 original size:19 final size:18
Alignment explanation
Indices: 55253899--55253942 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
55253889 GATTTCACTA
*
55253899 AAAAAATAATACTTAA-T
1 AAAAAATAAAACTTAATT
55253916 AAAAAATAAAACAGTTAATT
1 AAAAAATAAAAC--TTAATT
55253936 AAAAAAT
1 AAAAAAT
55253943 GCTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAAATAAAACTTAATT
Found at i:55260580 original size:46 final size:45
Alignment explanation
Indices: 55260441--55260657 Score: 197
Period size: 47 Copynumber: 4.6 Consensus size: 45
55260431 GGGTTATTGT
* *
55260441 GAGCTAGTGTAAGAAATGTCTGGGACATGCATCGACCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGA-CACGA-GATGA
* *
55260487 GAGCCAGTGTAAGACCATGTCAGGGACATGGCATCGACACTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACAC-GAGATGA
* * * *
55260535 GTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCTACGAGATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGAC-ACGAGATGA
* * * *
55260581 TAG-TCAGTTTAAGACCATGTCTGGGACATGGCATCAACATGAGAT-A
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGACACGAGATGA
*
55260627 TGAGCTAGTGTAAGACCGTGTCTGGGACATG
1 -GAGCTAGTGTAAGA-CATGTCTGGGACATG
55260658 GCATTGGCAC
Statistics
Matches: 140, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 37 0.26
47 72 0.51
48 29 0.21
49 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACACGAGATGA
Found at i:55260607 original size:94 final size:93
Alignment explanation
Indices: 55260440--55260657 Score: 269
Period size: 94 Copynumber: 2.3 Consensus size: 93
55260430 TGGGTTATTG
* *
55260440 TGAGCTAGTGTAAGAAATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCAT
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCAT
*
55260505 GTCAGGGACATGGCATCGACACTGAGATGA
66 GTCAGGGACATGGCATCAACA-TGAGAT-A
* * * * * * * *
55260535 -GTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCTACGA-GATGATAGTCAGTTTAAGACCA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATGATGAGAGCCAGTGTAAGACCA
*
55260598 TGTCTGGGACATGGCATCAACATGAGATA
65 TGTCAGGGACATGGCATCAACATGAGATA
*
55260627 TGAGCTAGTGTAAGACCGTGTCTGGGACATG
1 TGAGCTAGTGTAAGA-CATGTCTGGGACATG
55260658 GCATTGGCAC
Statistics
Matches: 104, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
92 1 0.01
93 18 0.17
94 84 0.81
95 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (93 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCAT
GTCAGGGACATGGCATCAACATGAGATA
Found at i:55263009 original size:46 final size:44
Alignment explanation
Indices: 55262905--55263012 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
55262895 TGTCTTTGAC
** * * *
55262905 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
55262949 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
55262995 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
55263013 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:55269481 original size:37 final size:37
Alignment explanation
Indices: 55269420--55269498 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
55269410 TTATTACGAA
* * * *
55269420 GTCTCACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
55269457 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
55269494 GTCTT
1 GTCTT
55269499 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:55269695 original size:47 final size:47
Alignment explanation
Indices: 55269617--55269916 Score: 528
Period size: 47 Copynumber: 6.4 Consensus size: 47
55269607 CCCTTCGGGA
* * * * * *
55269617 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55269664 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55269711 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55269758 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55269805 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55269852 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55269899 CTTATCACATATATACAC
1 CTTATCACATATATACAC
55269917 CATTTCATAT
Statistics
Matches: 243, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 243 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55274261 original size:46 final size:44
Alignment explanation
Indices: 55274157--55274264 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
55274147 TGTCTTTGAC
** * * *
55274157 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
55274201 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
55274247 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
55274265 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:55280074 original size:21 final size:21
Alignment explanation
Indices: 55280033--55280074 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
55280023 ATGTTTATGT
* *
55280033 TATAATATTAATAAAATAAAG
1 TATAATATAAATAAAAAAAAG
55280054 TATAATA-AAATAAAACAAAAG
1 TATAATATAAATAAAA-AAAAG
55280075 AAAGAAAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (21 bp):
TATAATATAAATAAAAAAAAG
Found at i:55290678 original size:94 final size:91
Alignment explanation
Indices: 55290424--55290741 Score: 279
Period size: 94 Copynumber: 3.4 Consensus size: 91
55290414 CTCAATCGAG
* * *
55290424 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATAC-ATGCTGATGCATGT-C
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATG-AT-CGA-GCTGATGCATGTCC
* *
55290487 TAGGACATGTCTTACACTAGCA-TGAAACTTA
63 CA-GACATGTCTTACACTAGCACT--CACTTA
* * * * * **
55290518 GCCGATG-CATGTCCTAGACA-CGTCTTACACTGGCTAACATCATCGAGGCTGATGCGTGTCAAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATCGA-GCTGATGCATGTCCCA
*
55290581 GACATGTCTTACACTGGCACTCACCTCTA
65 GACATGTCTTACACTAGCACTCA-CT-TA
* * *
55290610 CGCCGATGCCATGTCCCAAACGTGGTCTTACACGGGCTATCATGATGCGA-CTGATGCATGTCCC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGAT-CGAGCTGATGCATGTCCC
* * *
55290674 AGACACGTCTTACACTAGCCCTCGTCTTAA
64 AGACATGTCTTACACTAGCACTC-ACTT-A
* *
55290704 TGTCGATGCCATGTCCCAGACATGGTCTTATACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
55290742 CTCACATAAC
Statistics
Matches: 180, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
90 2 0.01
91 34 0.19
92 19 0.11
93 20 0.11
94 83 0.46
95 19 0.11
96 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (91 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATGATCGAGCTGATGCATGTCCCAG
ACATGTCTTACACTAGCACTCACTTA
Found at i:55300719 original size:296 final size:296
Alignment explanation
Indices: 55300185--55300772 Score: 1079
Period size: 296 Copynumber: 2.0 Consensus size: 296
55300175 TAATAAAACC
55300185 CAATTAAAGCATTTGCATGTTATCACACATGTGTTTTTCAATTTCTCATGTTACACCAAGTTAGA
1 CAATTAAAGCATTTGCATGTTATCACACATGTGTTTTTCAATTTCTCATGTTACACCAAGTTAGA
*
55300250 CATTCCAATTCACGTTCAATAGCCTTGTCATATTGATGACCACTTTTACCAATTAACCACAACAT
66 CATTCCAATTCACGTTCAATAGCCTTGTCAAATTGATGACCACTTTTACCAATTAACCACAACAT
55300315 TTTACCCAACACTCAATCTCTACTGATTCGAAAAATGTTCATGTTCAATCATTATCAATTTATTA
131 TTTACCCAACACTCAATCTCTACTGATTCGAAAAATGTTCATGTTCAATCATTATCAATTTATTA
* *
55300380 CCATGTCACACATTTATTCCATAGCCATAACCACTTCGAATGGTCTTAAGGCATTCATTATGCAC
196 CCATGTCACACATTTATTCCATAGCCATAACCACTTCGAATGGTCCTAAGGCATTCATTATACAC
55300445 ATATG-TCATACACTTCCCATTCATAGTAATCATTAT
261 ATATGCT-ATACACTTCCCATTCATAGTAATCATTAT
*
55300481 CAATTAAAGCATTTGCATGTTATCATACATGTGTTTTTCAATTTCTCATGTTACACCAAGTTAGA
1 CAATTAAAGCATTTGCATGTTATCACACATGTGTTTTTCAATTTCTCATGTTACACCAAGTTAGA
*
55300546 CATTCCAATTCACGTTCAATAGCCTTGTTAAATTGATGACCACTTTTACCAATTAACCACAACAT
66 CATTCCAATTCACGTTCAATAGCCTTGTCAAATTGATGACCACTTTTACCAATTAACCACAACAT
* *
55300611 TTTACCTAACACTCAATCTCTACTGATTCGACAAATGTTCATGTTCAATCATTATCAATTTATTA
131 TTTACCCAACACTCAATCTCTACTGATTCGAAAAATGTTCATGTTCAATCATTATCAATTTATTA
* *
55300676 CCATGTCACGCATTTATTCCATAGCCATGACCACTTCGAATGGTCCTAAGGCATTCATTATACAC
196 CCATGTCACACATTTATTCCATAGCCATAACCACTTCGAATGGTCCTAAGGCATTCATTATACAC
55300741 ATATGCTATACACTTCCCATTCATAGTAATCA
261 ATATGCTATACACTTCCCATTCATAGTAATCA
55300773 AGCAAAATCA
Statistics
Matches: 282, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
296 281 1.00
297 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (296 bp):
CAATTAAAGCATTTGCATGTTATCACACATGTGTTTTTCAATTTCTCATGTTACACCAAGTTAGA
CATTCCAATTCACGTTCAATAGCCTTGTCAAATTGATGACCACTTTTACCAATTAACCACAACAT
TTTACCCAACACTCAATCTCTACTGATTCGAAAAATGTTCATGTTCAATCATTATCAATTTATTA
CCATGTCACACATTTATTCCATAGCCATAACCACTTCGAATGGTCCTAAGGCATTCATTATACAC
ATATGCTATACACTTCCCATTCATAGTAATCATTAT
Found at i:55311690 original size:54 final size:54
Alignment explanation
Indices: 55311608--55311716 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
55311598 GCAGTTATTA
*
55311608 CTTCGGATTTATCCGATGAGGCACTAAGTGCCAAACTTGTGTGTTGGTTGGATC
1 CTTCGGATTTATCCGATGAGGCACTAAGTGCCAAACTGGTGTGTTGGTTGGATC
55311662 CTTCGGATTTATCCGATGAGGCACTAAGTGCCAAACTGGTGTGTTGGTTGGATC
1 CTTCGGATTTATCCGATGAGGCACTAAGTGCCAAACTGGTGTGTTGGTTGGATC
55311716 C
1 C
55311717 ATGTATCCGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.32
Consensus pattern (54 bp):
CTTCGGATTTATCCGATGAGGCACTAAGTGCCAAACTGGTGTGTTGGTTGGATC
Found at i:55314586 original size:206 final size:206
Alignment explanation
Indices: 55314310--55314722 Score: 826
Period size: 206 Copynumber: 2.0 Consensus size: 206
55314300 TTGGTAATAA
55314310 AGTAAATAAAAGGGAAAAATTAAGCTAAAATTAGCTCATTTTCTTCTCCATGCTGCCGAAAGTCT
1 AGTAAATAAAAGGGAAAAATTAAGCTAAAATTAGCTCATTTTCTTCTCCATGCTGCCGAAAGTCT
55314375 AAGGGTCTCCATAGCTAGGGTTTTCCAACATTTCAAGCTTGATAGTAAGTCAATCCTAGCCCCGT
66 AAGGGTCTCCATAGCTAGGGTTTTCCAACATTTCAAGCTTGATAGTAAGTCAATCCTAGCCCCGT
55314440 TTTTAATTTTTTTCGTATTTTCGAGATCCTCGTAACATGCTCTTTCTATTTCTACCCATATCTCA
131 TTTTAATTTTTTTCGTATTTTCGAGATCCTCGTAACATGCTCTTTCTATTTCTACCCATATCTCA
55314505 TGCTAGGGTTC
196 TGCTAGGGTTC
55314516 AGTAAATAAAAGGGAAAAATTAAGCTAAAATTAGCTCATTTTCTTCTCCATGCTGCCGAAAGTCT
1 AGTAAATAAAAGGGAAAAATTAAGCTAAAATTAGCTCATTTTCTTCTCCATGCTGCCGAAAGTCT
55314581 AAGGGTCTCCATAGCTAGGGTTTTCCAACATTTCAAGCTTGATAGTAAGTCAATCCTAGCCCCGT
66 AAGGGTCTCCATAGCTAGGGTTTTCCAACATTTCAAGCTTGATAGTAAGTCAATCCTAGCCCCGT
55314646 TTTTAATTTTTTTCGTATTTTCGAGATCCTCGTAACATGCTCTTTCTATTTCTACCCATATCTCA
131 TTTTAATTTTTTTCGTATTTTCGAGATCCTCGTAACATGCTCTTTCTATTTCTACCCATATCTCA
55314711 TGCTAGGGTTC
196 TGCTAGGGTTC
55314722 A
1 A
55314723 TGTTTAGAAA
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
206 207 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (206 bp):
AGTAAATAAAAGGGAAAAATTAAGCTAAAATTAGCTCATTTTCTTCTCCATGCTGCCGAAAGTCT
AAGGGTCTCCATAGCTAGGGTTTTCCAACATTTCAAGCTTGATAGTAAGTCAATCCTAGCCCCGT
TTTTAATTTTTTTCGTATTTTCGAGATCCTCGTAACATGCTCTTTCTATTTCTACCCATATCTCA
TGCTAGGGTTC
Found at i:55320823 original size:18 final size:17
Alignment explanation
Indices: 55320800--55320833 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
55320790 AATTTAATTT
55320800 TAATTAAATTATTTAAAA
1 TAATTAAATT-TTTAAAA
55320818 TAATTAAATTTTTAAA
1 TAATTAAATTTTTAAA
55320834 TTATAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTAAATTTTTAAAA
Found at i:55321102 original size:21 final size:21
Alignment explanation
Indices: 55321065--55321104 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55321055 TTAAACCCAA
*
55321065 AGGTTTAGGGATTGGGTTTTT
1 AGGTTTAGGGATCGGGTTTTT
55321086 AGGTTTAAGGG-TCGGGTTT
1 AGGTTT-AGGGATCGGGTTT
55321105 GGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.15, C:0.03, G:0.40, T:0.42
Consensus pattern (21 bp):
AGGTTTAGGGATCGGGTTTTT
Found at i:55323078 original size:46 final size:45
Alignment explanation
Indices: 55323028--55323199 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 45
55323018 GACATCTCAT
55323028 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAT-TCTCGA
** * * * ** *
55323074 GGCCGATGCATGTCCTGGACATGTCTTATACTAGCACTCCTCTCAA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTGGC-TTATTCTCGA
* * * ** *
55323120 TGCCGATGCCATATCCTAGACATGGTCTTACACTGGCTCTCATAAT-GT
1 GGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATTCTCGA
*
55323168 GGCTGATGCATGTCCCAGACATGTCTTACACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
55323200 AGCTCACTCA
Statistics
Matches: 97, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
46 53 0.55
47 25 0.26
48 18 0.19
49 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (45 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTATTCTCGA
Found at i:55327764 original size:72 final size:72
Alignment explanation
Indices: 55327677--55327815 Score: 235
Period size: 72 Copynumber: 1.9 Consensus size: 72
55327667 GGTTAAGTAT
*
55327677 ATAGAAATATCAAATAAATTTGAGTTCACATATTTAATAATGTATGGTGTGCTTCATATTTTCAG
1 ATAGAAATATCAAATAAATTTGAGTTCACATATTTAATAATGTAGGGTGTGCTTCATATTTTCAG
55327742 TTGAAGC
66 TTGAAGC
* *
55327749 ATAGAAATA-CTAAATAAATTTGAGTTGACATATTTAATAATGTAGGGTGTGTTTCATATTTTCA
1 ATAGAAATATC-AAATAAATTTGAGTTCACATATTTAATAATGTAGGGTGTGCTTCATATTTTCA
55327813 GTT
65 GTT
55327816 AAACAGACAA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 1 0.02
72 62 0.98
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (72 bp):
ATAGAAATATCAAATAAATTTGAGTTCACATATTTAATAATGTAGGGTGTGCTTCATATTTTCAG
TTGAAGC
Found at i:55337195 original size:41 final size:41
Alignment explanation
Indices: 55337150--55337231 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
55337140 TCCATGGCCT
*
55337150 TGTACAAAAGATGAATGCATCTTTACATGCCTTCATTTGGC
1 TGTACAAAAGATGAATACATCTTTACATGCCTTCATTTGGC
55337191 TGTACAAAAGATGAATACATCTTTACATGCCTTCATTTGGC
1 TGTACAAAAGATGAATACATCTTTACATGCCTTCATTTGGC
55337232 AATTCAAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (41 bp):
TGTACAAAAGATGAATACATCTTTACATGCCTTCATTTGGC
Found at i:55339665 original size:22 final size:20
Alignment explanation
Indices: 55339624--55339673 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
55339614 CTTTATTTAT
55339624 AATAGT-AATAGAAGGATAA
1 AATAGTAAATAGAAGGATAA
*
55339643 AATAGTAAATATGCAAGGGTAA
1 AATAGTAAATA-G-AAGGATAA
*
55339665 AAGAGTAAA
1 AATAGTAAA
55339674 AATCGTAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 6 0.23
20 4 0.15
21 1 0.04
22 15 0.58
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (20 bp):
AATAGTAAATAGAAGGATAA
Found at i:55344749 original size:140 final size:137
Alignment explanation
Indices: 55344497--55345383 Score: 909
Period size: 131 Copynumber: 6.6 Consensus size: 137
55344487 CAAAAGAGTG
* * * * *
55344497 CTAAGACGACAGTTATCG-GGCAACACTTTTCTAAGTGTTGCGATAGACTGGCCAACATACGTTT
1 CTAAGACGACACTT-TTGTGGCGACACTTTCCTAAGTGTTGCGATAGA-T-G-CAAC-TACGCTT
* * * *
55344561 TCGGCAACTTTTTGTATAAGGATTGCGATATGCATGCCTAAAGCAACGCTTAAATAAGAGTTGG-
61 TCGGCAACTCTTTGTATAAGGGTTGCGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGC
*
55344625 TTTTGTCTAGTC
126 TTTTGTGTAGTC
* * *
55344637 CTAAGACGACA-TTTATGAGGCAACACTTTTCTAAGTGTTGCGATAGACTGGCCAACATACGCTT
1 CTAAGACGACACTTT-TGTGGCGACACTTTCCTAAGTGTTGCGATAGA-T-G-CAAC-TACGCTT
* * * * *
55344701 TCGGCAACTCTTTGTATAAGTGTTGAGATAAGCATGCCTAAAGCAACGCTTAAATAAGAGTTGG-
61 TCGGCAACTCTTTGTATAAGGGTTGCGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGC
*
55344765 TGTTGTGTAGTC
126 TTTTGTGTAGTC
* * * *
55344777 CTAAGACGACACTTTTGGGGCAACACTTTCCTAAGTGTTG-GA-ATAT-C--CTACGCTTTCGCC
1 CTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGCGATAGATGCAACTACGCTTTCGGC
* ** *
55344837 AACTATTTGTATAAGGGTTGCGATATGTATGCCTACGGCAACGCTTGAATAAAAGTTGGCTTTTG
66 AACTCTTTGTATAAGGGTTGCGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGCTTTTG
55344902 TGTAGTC
131 TGTAGTC
* *
55344909 ATAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTG-G---GAT-AAACTACGCTTT-GGC
1 CTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGCGATAGATGCAACTACGCTTTCGGC
* * **
55344968 AACTCTTTGTATAAGGGTTGCGATATGTATGCCT-ACGACAACGCTTGCATAAGAGTTGGAGTTT
66 AACTCTTTGTATAAGGGTTGCGATATGTATGCCTAAAG-CAACGCTTGAATAAGAGTTGGCTTTT
55345032 GTGTAGTC
130 GTGTAGTC
* ***
55345040 CTAGGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGC-AT--A-G--ACTACGCTTTCATT
1 CTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGCGATAGATGCAACTACGCTTTCGGC
* * * * * *
55345099 AACTCTTTATATAAGGGCTGGGATATGTATGCCTAACGCAATGCTTGAATAAGAGTTGGTTTTTG
66 AACTCTTTGTATAAGGGTTGCGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGCTTTTG
55345164 TGTAGTC
131 TGTAGTC
*
55345171 CTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGCGAT--A---AACTGCGCTTTCGGC
1 CTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGCGATAGATGCAACTACGCTTTCGGC
* **
55345231 AACTCTTTGT-TAAGGGTTGCGATATGTATGCCTAAGGCAACGCTTGAGCAAGAGTTGGCTTTTG
66 AACTCTTTGTATAAGGGTTGCGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGCTTTTG
*
55345295 TCTAGTC
131 TGTAGTC
* * * * * * *
55345302 CTTAGACTACAGTTTTGGGGGGCCACTTTCCTAAGT-TT-CAGATAGACTTGTCAACATATGCTT
1 CTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGC-GATAGA--TG-CAAC-TACGCTT
55345365 T-GGCCAACTCTTTGTATAA
61 TCGG-CAACTCTTTGTATAA
55345384 AGGTGTAACA
Statistics
Matches: 650, Mismatches: 70, Indels: 54
0.84 0.09 0.07
Matches are distributed among these distances:
129 1 0.00
130 18 0.03
131 348 0.54
132 86 0.13
134 1 0.00
137 1 0.00
138 8 0.01
139 22 0.03
140 162 0.25
141 3 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (137 bp):
CTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGCGATAGATGCAACTACGCTTTCGGC
AACTCTTTGTATAAGGGTTGCGATATGTATGCCTAAAGCAACGCTTGAATAAGAGTTGGCTTTTG
TGTAGTC
Found at i:55345331 original size:393 final size:398
Alignment explanation
Indices: 55344554--55345337 Score: 1003
Period size: 393 Copynumber: 2.0 Consensus size: 398
55344544 CTGGCCAACA
* *
55344554 TACGTTTTCGGCAACTTTTTGTATAAGGATTGCGATATGCATGCCTAAAGCAACGCTTAAATAAG
1 TACGCTTTCGGCAACTCTTTGTATAAGGATTGCGATATGCATGCCTAAAGCAACGCTTAAATAAG
* *
55344619 AGTTGGTTTTGTCTAGTCCTAAGACGACATTTATGAGGCAACACTTTTCTAAGTGTTGCGATAGA
66 AGTTGGGTTTGTCTAGTCCTAAGACGACATTTATGAGGCAACACTTTCCTAAGTGTTGCGATA-A
* * * *
55344684 CTGGCCAACATACGCTTTCGGCAACTCTTTGTATAAGTGTTGAGATAAGCATGCCTAAAGCAACG
130 C--G-C-ACATACGCTTTCAGCAACTCTTTATATAAGGGCTGAGATAAGCATGCCTAAAGCAACG
55344749 CTTAAATAAGAGTTGGTGTTGTGTAGTCCTAAGACGACACTTTTGGGGCAACACTTTCCTAAGTG
191 CTTAAATAAGAGTTGGTGTTGTGTAGTCCTAAGACGACACTTTTGGGGCAACACTTTCCTAAGTG
** *
55344814 TTGGAATATCCTACGCTTTCGCCAACTATTTGTATAAGGGTTGCGATATGTATGCCTACGGCAAC
256 TTGGAATAAACTACGCTTTCGCCAACTATTTGTATAAGGGTTGCGATATGTATGCCTAAGGCAAC
* * *
55344879 GCTTGAATAAAAGTTGGCTTTTGTGTAGTCATAAGACGACACTTTTGTGGCGACACTTTCCTAAG
321 GCTTGAACAAAAGTTGGCTTTTGTCTAGTCATAAGACGACACTTTTGGGGCGACACTTTCCTAAG
55344944 TGTTGGGATAAAC
386 TGTTGGGATAAAC
* * * **
55344957 TACGCTTT-GGCAACTCTTTGTATAAGGGTTGCGATATGTATGCCT-ACGACAACGCTTGCATAA
1 TACGCTTTCGGCAACTCTTTGTATAAGGATTGCGATATGCATGCCTAAAG-CAACGCTTAAATAA
* * * *
55345020 GAGTTGGAGTTTGTGTAGTCCTAGGACGACACTTT-TGTGGCGACACTTTCCTAAGTGTTGC-AT
65 GAGTTGG-GTTTGTCTAGTCCTAAGACGACA-TTTATGAGGCAACACTTTCCTAAGTGTTGCGAT
** * * * * *
55345083 -A-G-AC-TACGCTTTCATTAACTCTTTATATAAGGGCTGGGATATGTATGCCTAACGCAATGCT
128 AACGCACATACGCTTTCAGCAACTCTTTATATAAGGGCTGAGATAAGCATGCCTAAAGCAACGCT
* * * *
55345144 TGAATAAGAGTTGGTTTTTGTGTAGTCCTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGT
193 TAAATAAGAGTTGG-TGTTGTGTAGTCCTAAGACGACACTTTTGGGGCAACACTTTCCTAAGTGT
* * *
55345209 TGCG-ATAAACTGCGCTTTCGGCAACTCTTTGT-TAAGGGTTGCGATATGTATGCCTAAGGCAAC
257 TG-GAATAAACTACGCTTTCGCCAACTATTTGTATAAGGGTTGCGATATGTATGCCTAAGGCAAC
* * * * * * * *
55345272 GCTTGAGCAAGAGTTGGCTTTTGTCTAGTCCTTAGACTACAGTTTTGGGGGGCCACTTTCCTAAG
321 GCTTGAACAAAAGTTGGCTTTTGTCTAGTCATAAGACGACACTTTTGGGGCGACACTTTCCTAAG
55345337 T
386 T
55345338 TTCAGATAGA
Statistics
Matches: 331, Mismatches: 45, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
393 144 0.44
394 74 0.22
395 1 0.00
397 1 0.00
400 1 0.00
401 2 0.01
402 55 0.17
403 50 0.15
404 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (398 bp):
TACGCTTTCGGCAACTCTTTGTATAAGGATTGCGATATGCATGCCTAAAGCAACGCTTAAATAAG
AGTTGGGTTTGTCTAGTCCTAAGACGACATTTATGAGGCAACACTTTCCTAAGTGTTGCGATAAC
GCACATACGCTTTCAGCAACTCTTTATATAAGGGCTGAGATAAGCATGCCTAAAGCAACGCTTAA
ATAAGAGTTGGTGTTGTGTAGTCCTAAGACGACACTTTTGGGGCAACACTTTCCTAAGTGTTGGA
ATAAACTACGCTTTCGCCAACTATTTGTATAAGGGTTGCGATATGTATGCCTAAGGCAACGCTTG
AACAAAAGTTGGCTTTTGTCTAGTCATAAGACGACACTTTTGGGGCGACACTTTCCTAAGTGTTG
GGATAAAC
Found at i:55346346 original size:8 final size:8
Alignment explanation
Indices: 55346296--55346346 Score: 50
Period size: 9 Copynumber: 5.9 Consensus size: 8
55346286 TTTATATGTT
55346296 AATTTAAA
1 AATTTAAA
55346304 AATTATAAA
1 AATT-TAAA
55346313 AATCTTCAAAA
1 AAT-TT--AAA
55346324 ATATTTAAA
1 A-ATTTAAA
55346333 AA-TTAAA
1 AATTTAAA
55346340 AATTTAA
1 AATTTAA
55346347 TATTTTAGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
7 7 0.19
8 9 0.24
9 12 0.32
10 1 0.03
11 6 0.16
12 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTTAAA
Found at i:55346417 original size:22 final size:21
Alignment explanation
Indices: 55346392--55346448 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
55346382 TCAAAAAATT
55346392 TATAAAATAAAAATAGAAAAAA
1 TATAAAATAAAAAT-GAAAAAA
***
55346414 TATATGTTAAAAATGAAAAAA
1 TATAAAATAAAAATGAAAAAA
* *
55346435 AATTAAAACAAAAA
1 TA-TAAAATAAAAA
55346449 CTTTTCAGTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (21 bp):
TATAAAATAAAAATGAAAAAA
Found at i:55347121 original size:35 final size:35
Alignment explanation
Indices: 55347029--55347114 Score: 136
Period size: 35 Copynumber: 2.5 Consensus size: 35
55347019 GCAAACCTAA
*
55347029 TGCATCTGCCGTCCACTGCCTGCCCCAGCCACGGG
1 TGCATCTGCCGTCCACTGCCTGCCCCAGCCACCGG
* **
55347064 TGCATCTGTCGTCCACTGCCTGCCTTAGCCACCGG
1 TGCATCTGCCGTCCACTGCCTGCCCCAGCCACCGG
55347099 TGCATCTGCCGTCCAC
1 TGCATCTGCCGTCCAC
55347115 CACCTGCTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.12, C:0.43, G:0.23, T:0.22
Consensus pattern (35 bp):
TGCATCTGCCGTCCACTGCCTGCCCCAGCCACCGG
Found at i:55357610 original size:41 final size:41
Alignment explanation
Indices: 55357575--55357657 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
55357565 GTTATTTTTC
*
55357575 TATTATTTTACTACAATTTTTAGAAAATTATGTTATCCATA
1 TATTATTTTAATACAATTTTTAGAAAATTATGTTATCCATA
55357616 TATTATTTTAATACAATTTTTAGAAAATTATGTTATCCATA
1 TATTATTTTAATACAATTTTTAGAAAATTATGTTATCCATA
55357657 T
1 T
55357658 GCAGTCCTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.49
Consensus pattern (41 bp):
TATTATTTTAATACAATTTTTAGAAAATTATGTTATCCATA
Found at i:55358259 original size:19 final size:18
Alignment explanation
Indices: 55358230--55358287 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
55358220 GTTATTATTT
55358230 TAAAAATTTAATAGAATA
1 TAAAAATTTAATAGAATA
* * *
55358248 TAAAATATTTAA-ATATTT
1 TAAAA-ATTTAATAGAATA
*
55358266 TAAAAATTGAATAGAATA
1 TAAAAATTTAATAGAATA
55358284 TAAA
1 TAAA
55358288 TTTGATGTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 5 0.16
18 20 0.65
19 6 0.19
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
TAAAAATTTAATAGAATA
Found at i:55362286 original size:2 final size:2
Alignment explanation
Indices: 55362279--55362312 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
55362269 CGAATTCATT
55362279 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
55362313 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:55362567 original size:39 final size:39
Alignment explanation
Indices: 55362524--55362733 Score: 321
Period size: 39 Copynumber: 5.4 Consensus size: 39
55362514 GGTCTTTAAC
* * * *
55362524 CCGGATATTTTTCCAGCATGTAGCCTACGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
55362563 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
55362602 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
55362641 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
55362680 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
55362719 CCGGATATATTTCCA
1 CCGGATATATTTCCA
55362734 ATCTCATATA
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 153 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:55362635 original size:78 final size:78
Alignment explanation
Indices: 55362524--55362731 Score: 389
Period size: 78 Copynumber: 2.7 Consensus size: 78
55362514 GGTCTTTAAC
* *
55362524 CCGGATATTTTTCCAGCATGTAGCCTACGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
55362589 GCGGATCTCATGT
66 GCGGATCTCATGT
55362602 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
55362667 GCGGATCTCATGT
66 GCGGATCTCATGT
*
55362680 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTC
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTC
55362732 CAATCTCATA
Statistics
Matches: 127, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 127 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (78 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCT
GCGGATCTCATGT
Found at i:55369088 original size:2 final size:2
Alignment explanation
Indices: 55369081--55369110 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
55369071 CGAATTCATT
*
55369081 CA CA CA CA CA CA CA GA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
55369111 TATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (2 bp):
CA
Found at i:55369372 original size:39 final size:39
Alignment explanation
Indices: 55369328--55369533 Score: 297
Period size: 39 Copynumber: 5.3 Consensus size: 39
55369318 TCTTTAACCT
* ** *
55369328 GGATATTTTTCTAGCACGTAGCCTGCGGACCTCAAGTCC
1 GGATATATTTCTAGCATATAGCCTGCGGACCTCATGTCC
* *
55369367 AGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCC
1 GGATATATTTCTAGCATATAGCCTGCGGACCTCATGTCC
* *
55369406 GGATAT-TTTCCCAGCATATAGCCTGCGGACCTCAAGTCC
1 GGATATATTT-CTAGCATATAGCCTGCGGACCTCATGTCC
*
55369445 GGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCC
1 GGATATATTTCTAGCATATAGCCTGCGGACCTCATGTCC
* *
55369484 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATATTTCTAGCATATAGCCTGCGGACCTCATGTCC
55369523 GGATATATTTC
1 GGATATATTTC
55369534 CAATCTCATA
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 3 0.02
39 142 0.96
40 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (39 bp):
GGATATATTTCTAGCATATAGCCTGCGGACCTCATGTCC
Found at i:55369437 original size:78 final size:78
Alignment explanation
Indices: 55369328--55369533 Score: 358
Period size: 78 Copynumber: 2.6 Consensus size: 78
55369318 TCTTTAACCT
* ** *
55369328 GGATATTTTTCTAGCACGTAGCCTGCGGACCTCAAGTCCAGATATATTTCTAGCATATAGCCTGC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCTGC
55369393 GGATCTCATGTCC
66 GGATCTCATGTCC
*
55369406 GGATATTTTCCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCTGC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCTGC
55369471 GGATCTCATGTCC
66 GGATCTCATGTCC
*
55369484 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTC
55369534 CAATCTCATA
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 121 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (78 bp):
GGATATTTTTCCAGCATATAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCTGC
GGATCTCATGTCC
Found at i:55374796 original size:15 final size:15
Alignment explanation
Indices: 55374776--55374804 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
55374766 ATCTGGTTGC
55374776 AGCATCTCTAGACCT
1 AGCATCTCTAGACCT
55374791 AGCATCTCTAGACC
1 AGCATCTCTAGACC
55374805 CTCTCTGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (15 bp):
AGCATCTCTAGACCT
Found at i:55376868 original size:39 final size:39
Alignment explanation
Indices: 55376825--55377110 Score: 437
Period size: 39 Copynumber: 7.3 Consensus size: 39
55376815 TCTTTAACCT
* ** *
55376825 GGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
* *
55376864 GGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
55376903 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
* *
55376942 GGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
*
55376981 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
* *
55377020 GGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
* * *
55377059 AGATATTTTTCCAGCATATAGCCTGGGGACCTCATGTCC
1 GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
55377098 GGATATATTTCCA
1 GGATATATTTCCA
55377111 ATCTCATATA
Statistics
Matches: 222, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 222 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (39 bp):
GGATATATTTCCAGCATATAGCCTGCGGACCTCATGTCC
Found at i:55376934 original size:78 final size:78
Alignment explanation
Indices: 55376825--55377108 Score: 523
Period size: 78 Copynumber: 3.6 Consensus size: 78
55376815 TCTTTAACCT
** *
55376825 GGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGGATATATTTCTAGCATATAGCCTGC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCTGC
55376890 GGATCTCATGTCC
66 GGATCTCATGTCC
55376903 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCTGC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCTGC
55376968 GGATCTCATGTCC
66 GGATCTCATGTCC
55376981 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCTGC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCTGC
55377046 GGATCTCATGTCC
66 GGATCTCATGTCC
* *
55377059 AGATATTTTTCCAGCATATAGCCTGGGGACCTCATGTCCGGATATATTTC
1 GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTC
55377109 CAATCTCATA
Statistics
Matches: 201, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 201 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.32
Consensus pattern (78 bp):
GGATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTTCTAGCATATAGCCTGC
GGATCTCATGTCC
Found at i:55379502 original size:74 final size:75
Alignment explanation
Indices: 55379419--55379567 Score: 189
Period size: 75 Copynumber: 2.0 Consensus size: 75
55379409 CAGTTGTTTC
* * * *
55379419 ATAATTTTTTTG-TGTCATG-GGAATCAAGTTGACAACATGTT-GCAA-TGTGTTGATTGCTTTT
1 ATAA-TTTTTTGATGTCATGTGAAAT-AAGTTGACAACATGTTCGCAACT-TGTTGACTACTTCT
55379480 ATTAGGATTTTGT
63 ATTAGGATTTTGT
* *
55379493 ATAATTTTTTGATGTCATGTGAAATAGGTTTACAACATGTTCGCAACTTGTTGACTACTTCTATT
1 ATAATTTTTTGATGTCATGTGAAATAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTATT
55379558 AGGATTTTGT
66 AGGATTTTGT
55379568 TTATAAATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
73 7 0.11
74 25 0.38
75 32 0.49
76 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (75 bp):
ATAATTTTTTGATGTCATGTGAAATAAGTTGACAACATGTTCGCAACTTGTTGACTACTTCTATT
AGGATTTTGT
Found at i:55379856 original size:35 final size:34
Alignment explanation
Indices: 55379764--55379859 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 34
55379754 GACAAAGATC
*
55379764 TATCCCAACCTTTTTAAGTTTACCTTAGACGGGTT
1 TATCCCAACCTTTTTAAG-TTGCCTTAGACGGGTT
* *
55379799 TA-CCCTAACCATTTTAAGGTTGCTTTAGACGGGTT
1 TATCCC-AACCTTTTTAA-GTTGCCTTAGACGGGTT
*
55379834 TATCCCAACTTTTTTTAAGTTGCCTT
1 TATCCCAAC-CTTTTTAAGTTGCCTT
55379860 GGAAAAGGTC
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
34 3 0.06
35 38 0.75
36 10 0.20
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.42
Consensus pattern (34 bp):
TATCCCAACCTTTTTAAGTTGCCTTAGACGGGTT
Found at i:55379892 original size:36 final size:35
Alignment explanation
Indices: 55379845--55380037 Score: 117
Period size: 35 Copynumber: 5.4 Consensus size: 35
55379835 ATCCCAACTT
*
55379845 TTTTTAA-GTTGCCTTGGAAAAGGTCTATCGCAACC
1 TTTTTAAGGTTGCCTT-GAAAAGATCTATCGCAACC
* * **
55379880 TTTTTAGGGTTG-C-TGTAAACGAATCTATCGCAAAA
1 TTTTTAAGGTTGCCTTG-AAAAG-ATCTATCGCAACC
* * * * *
55379915 TTTTTAACGTTGTCTT-AGACAGGTCAATCGCAACC
1 TTTTTAAGGTTGCCTTGA-AAAGATCTATCGCAACC
* * *
55379950 TTTTCTAAAAGTTTCCTTAAACAAGATCTATCGCAACC
1 TTTT-T-AAGGTTGCCTTGAA-AAGATCTATCGCAACC
* * * *
55379988 TTTTTAGGGTTACCTT-AAACGAATCTATCACCAACC
1 TTTTTAAGGTTGCCTTGAAAAG-ATCTATC-GCAACC
55380024 TTTTTAAGGTTGCC
1 TTTTTAAGGTTGCC
55380038 ATAGACAAGG
Statistics
Matches: 120, Mismatches: 26, Indels: 23
0.71 0.15 0.14
Matches are distributed among these distances:
33 1 0.01
34 7 0.06
35 50 0.42
36 33 0.28
37 11 0.09
38 18 0.15
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.35
Consensus pattern (35 bp):
TTTTTAAGGTTGCCTTGAAAAGATCTATCGCAACC
Found at i:55380312 original size:37 final size:34
Alignment explanation
Indices: 55380245--55380357 Score: 129
Period size: 35 Copynumber: 3.2 Consensus size: 34
55380235 CTATACCAAT
55380245 CTTTTTAACGTTG-CTCTAAACGAGTCTATCGCAAC
1 CTTTTTAACGTTGTCT-TAAACG-GTCTATCGCAAC
55380280 CATTTTTAACAGTTGTCTTAAATCGGTCTATCGCAAC
1 C-TTTTTAAC-GTTGTCTTAAA-CGGTCTATCGCAAC
** * *
55380317 CTTTTTATGGTTGTATTAAACGGGTGTATCGCAAC
1 CTTTTTAACGTTGTCTTAAAC-GGTCTATCGCAAC
55380352 CTTTTT
1 CTTTTT
55380358 CAAAGGTTGC
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
34 1 0.01
35 29 0.42
36 14 0.20
37 21 0.30
38 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (34 bp):
CTTTTTAACGTTGTCTTAAACGGTCTATCGCAAC
Found at i:55380848 original size:17 final size:17
Alignment explanation
Indices: 55380822--55380864 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
55380812 ATTTCAGTAT
* * *
55380822 ATATTTAAAATAGAAGG
1 ATATTAAAAATACAAAG
55380839 ATATTAAAAATACAAAG
1 ATATTAAAAATACAAAG
55380856 ATATTAAAA
1 ATATTAAAA
55380865 TCATTTCATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (17 bp):
ATATTAAAAATACAAAG
Found at i:55385595 original size:85 final size:85
Alignment explanation
Indices: 55385452--55385613 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 85
55385442 GTGAACTGTC
* * * * *
55385452 AAAAGAAAACCAAGAATTTTAAAGACAAAAAAAATGTCTTATTCTCCATTGGTTCTTATCTCAAA
1 AAAAGAAAACCAAGAATTTTAAAG--AAAAAAAATCTATTATTCTCAATTGATTCTTATATCAAA
55385517 AACCATGATTTTTGATAACTAA
64 AACCATGATTTTTGATAACTAA
55385539 AAAAGGAAAACCCAA-AATTTTAAAG-AAAAAAATCTATTATTCTCAATTGATTCTTATATCAAA
1 AAAA-GAAAA-CCAAGAATTTTAAAGAAAAAAAATCTATTATTCTCAATTGATTCTTATATCAAA
55385602 AACCATGATTTT
64 AACCATGATTTT
55385614 CCCAAACCAA
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
85 45 0.66
87 4 0.06
88 15 0.22
89 4 0.06
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.31
Consensus pattern (85 bp):
AAAAGAAAACCAAGAATTTTAAAGAAAAAAAATCTATTATTCTCAATTGATTCTTATATCAAAAA
CCATGATTTTTGATAACTAA
Found at i:55388144 original size:20 final size:20
Alignment explanation
Indices: 55388115--55388159 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
55388105 AGAACATGTA
* *
55388115 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
55388135 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
55388155 TTCAT
1 TTCAT
55388160 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:55389902 original size:19 final size:17
Alignment explanation
Indices: 55389870--55389904 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
55389860 GGTCCAAAAT
55389870 CTTTTATTTTTTTAATC
1 CTTTTATTTTTTTAATC
55389887 CTTTTACTTCTTTTTAAT
1 CTTTTA-TT-TTTTTAAT
55389905 TTTTAACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (17 bp):
CTTTTATTTTTTTAATC
Found at i:55397136 original size:29 final size:29
Alignment explanation
Indices: 55397094--55397150 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
55397084 AGTGATGACC
*
55397094 TTGTTTTGATAGGTGTCGAACAAACCATA
1 TTGTTTTGATAGGTGTCAAACAAACCATA
* *
55397123 TTGTTTTGGTAGGTGTCAAACAAGCCAT
1 TTGTTTTGATAGGTGTCAAACAAACCAT
55397151 CGGATAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (29 bp):
TTGTTTTGATAGGTGTCAAACAAACCATA
Found at i:55397936 original size:20 final size:20
Alignment explanation
Indices: 55397893--55397939 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
55397883 TAAAAAGACA
*
55397893 TAATATTATAAATATTCATC
1 TAATATTATAAATATTCAAC
*
55397913 TAATATTATAAATATTCAAG
1 TAATATTATAAATATTCAAC
55397933 TAATATT
1 TAATATT
55397940 GTTTGAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (20 bp):
TAATATTATAAATATTCAAC
Found at i:55403619 original size:47 final size:47
Alignment explanation
Indices: 55403529--55403644 Score: 139
Period size: 47 Copynumber: 2.5 Consensus size: 47
55403519 TGGGTAAGGT
* * *
55403529 GCCGATGCCATGTCCTAGACACGGTCTTACACTGGCTCACATCT-TAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCT-A
*
55403576 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCA-CATCTC-TA
*
55403624 GCCGATG-CATGTCCCAAACAT
1 GCCGATGCCATGTCCCAGACAT
55403645 ATCTTACTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
46 1 0.02
47 51 0.85
48 7 0.12
49 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCTA
Found at i:55411038 original size:31 final size:31
Alignment explanation
Indices: 55411000--55411061 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
55410990 CTTAGGAACA
*
55411000 TAACTTTCACCATTGAACCATTCGAAATACT
1 TAACTTTCACCATTCAACCATTCGAAATACT
* *
55411031 TAACTTTCACTATTCAACCATTCGGAATACT
1 TAACTTTCACCATTCAACCATTCGAAATACT
55411062 ACTGGATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (31 bp):
TAACTTTCACCATTCAACCATTCGAAATACT
Found at i:55411188 original size:47 final size:46
Alignment explanation
Indices: 55411098--55411219 Score: 122
Period size: 47 Copynumber: 2.6 Consensus size: 46
55411088 TGGGTAAGGT
* * *
55411098 GCCGATGTCATGTCCTAAACACGGTCTTACACTGGCTCACATC-TCAA
1 GCCGATG-CATGTCCTAGACA-TGTCTTACACTGACTCACATCTTCAA
* **
55411145 GTCGATGCCATGTCCTAGACATGATCTTACACTGACT-ATCATCTTGTA
1 GCCGATG-CATGTCCTAGACATG-TCTTACACTGACTCA-CATCTTCAA
*
55411193 GCCGATGCATGTCCCAGACATGTCTTA
1 GCCGATGCATGTCCTAGACATGTCTTA
55411220 TAGTAGCACT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
46 7 0.11
47 48 0.76
48 8 0.13
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCTAGACATGTCTTACACTGACTCACATCTTCAA
Found at i:55412598 original size:16 final size:16
Alignment explanation
Indices: 55412577--55412617 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
55412567 TCTTTCATAA
55412577 AAACCTAAGGGGAATG
1 AAACCTAAGGGGAATG
55412593 AAACCTAAGGGGAATG
1 AAACCTAAGGGGAATG
55412609 AAACCTAAG
1 AAACCTAAG
55412618 ACAGATCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.46, C:0.15, G:0.27, T:0.12
Consensus pattern (16 bp):
AAACCTAAGGGGAATG
Found at i:55415014 original size:24 final size:25
Alignment explanation
Indices: 55414985--55415035 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
55414975 GATGTTCAAG
55414985 AGAGCC-ATATCAAGAAGCTCACAA
1 AGAGCCTATATCAAGAAGCTCACAA
* * *
55415009 AGAGCCTATATCAGGACGCTCATAA
1 AGAGCCTATATCAAGAAGCTCACAA
55415034 AG
1 AG
55415036 GGCTACATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.16
Consensus pattern (25 bp):
AGAGCCTATATCAAGAAGCTCACAA
Found at i:55415393 original size:20 final size:20
Alignment explanation
Indices: 55415344--55415393 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
55415334 ACATGGAAAT
55415344 CATACATTTCAAAATCATAA
1 CATACATTTCAAAATCATAA
*
55415364 CATTCAATTT-AAACAT-ATAAA
1 CATAC-ATTTCAAA-ATCAT-AA
55415385 CATACATTT
1 CATACATTT
55415394 TAGTTACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (20 bp):
CATACATTTCAAAATCATAA
Found at i:55415395 original size:21 final size:20
Alignment explanation
Indices: 55415344--55415395 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
55415334 ACATGGAAAT
*
55415344 CATACATTTCAAAATCATAA
1 CATACATTTTAAAATCATAA
* *
55415364 CATTCAATTTAAACAT-ATAAA
1 CATACATTTTAAA-ATCAT-AA
55415385 CATACATTTTA
1 CATACATTTTA
55415396 GTTACACGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (20 bp):
CATACATTTTAAAATCATAA
Found at i:55417370 original size:35 final size:35
Alignment explanation
Indices: 55417324--55417391 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
55417314 AACTAAAAAA
55417324 GCCATAAGTTTAGTGTAAGCCTATACAACATCAGT
1 GCCATAAGTTTAGTGTAAGCCTATACAACATCAGT
55417359 GCCATAAGTTTAGTGTAAGCCTATACAACATCA
1 GCCATAAGTTTAGTGTAAGCCTATACAACATCA
55417392 CCAACTCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (35 bp):
GCCATAAGTTTAGTGTAAGCCTATACAACATCAGT
Found at i:55421120 original size:20 final size:20
Alignment explanation
Indices: 55421095--55421136 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
55421085 CATTAAAGAT
55421095 TCTAAACATATAAATTATAA
1 TCTAAACATATAAATTATAA
55421115 TCTAAACATATAAATTATAA
1 TCTAAACATATAAATTATAA
55421135 TC
1 TC
55421137 CATAACTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (20 bp):
TCTAAACATATAAATTATAA
Found at i:55422008 original size:44 final size:44
Alignment explanation
Indices: 55421941--55422057 Score: 189
Period size: 44 Copynumber: 2.7 Consensus size: 44
55421931 TATCGGTGTC
* * *
55421941 GATGCCAAGTCCTAGACATGTCTTACACTGACACATGTCAAGCA
1 GATGCCATGTCCCAGACAAGTCTTACACTGACACATGTCAAGCA
55421985 GATGCCATGTCCCAGACAAGTCTTACACTGACACATGTCAAGCA
1 GATGCCATGTCCCAGACAAGTCTTACACTGACACATGTCAAGCA
* *
55422029 GATGCCTTGTCCCAGACAGGTCTTACACT
1 GATGCCATGTCCCAGACAAGTCTTACACT
55422058 AGCTTGCATA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (44 bp):
GATGCCATGTCCCAGACAAGTCTTACACTGACACATGTCAAGCA
Found at i:55422105 original size:49 final size:47
Alignment explanation
Indices: 55422036--55422155 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
55422026 GCAGATGCCT
* *
55422036 TGTCCCAGACA-GGTCTTACACTAGCT-TGCATATCTCGAGGTCGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCTCT-CATA-AT-GAGGCCGATGCA
* * *
55422084 TGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCTCTCATAATGAGGCCGATGCA
55422131 TGTCCCAGACAT-GTCTTACACTAGC
1 TGTCCCAGACATGGTCTTACACTAGC
55422156 ATACATCCAT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 11 0.17
47 22 0.35
48 12 0.19
49 17 0.27
50 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTAGCTCTCATAATGAGGCCGATGCA
Found at i:55424061 original size:20 final size:20
Alignment explanation
Indices: 55424024--55424061 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
55424014 ATAGTGAGAA
* *
55424024 TTTATTTTCTAAGTATAAAT
1 TTTATTTTCCAAGAATAAAT
55424044 TTTATTTTCCAAGAATAA
1 TTTATTTTCCAAGAATAA
55424062 TAATCCTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTATTTTCCAAGAATAAAT
Found at i:55424089 original size:2 final size:2
Alignment explanation
Indices: 55424082--55424124 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
55424072 AGTTTCTCTA
55424082 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
55424124 A
1 A
55424125 TTTACTTTCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:55431018 original size:20 final size:20
Alignment explanation
Indices: 55430993--55431137 Score: 107
Period size: 20 Copynumber: 7.3 Consensus size: 20
55430983 TAAATGCGTT
55430993 CAGGGGTACCGAAGTGCAAA
1 CAGGGGTACCGAAGTGCAAA
* *
55431013 CAGGGGCACAC-ATGTGCAAA
1 CAGGGGTAC-CGAAGTGCAAA
* * *
55431033 CACGAGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTGCAAA
* ** *
55431053 CAGCGG-ACTTATGTGCAAA
1 CAGGGGTACCGAAGTGCAAA
*
55431072 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTGCAAA
* * **
55431092 CAGGGGCA-CGTATGTGCATT
1 CAGGGGTACCG-AAGTGCAAA
* *
55431112 CAGGGGTACCGAAGTACAAT
1 CAGGGGTACCGAAGTGCAAA
55431132 CAGGGG
1 CAGGGG
55431138 CACATATGTG
Statistics
Matches: 92, Mismatches: 28, Indels: 10
0.71 0.22 0.08
Matches are distributed among these distances:
19 17 0.18
20 72 0.78
21 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.31, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCGAAGTGCAAA
Found at i:55431045 original size:40 final size:40
Alignment explanation
Indices: 55430993--55431153 Score: 225
Period size: 40 Copynumber: 4.0 Consensus size: 40
55430983 TAAATGCGTT
* *
55430993 CAGGGGTACCGAAGTGCAAACAGGGGCACACATGTGCAAA
1 CAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAAA
* * * *
55431033 CACGAGTACCGAAGTACAAACAGCGG-ACTTATGTGCAAA
1 CAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAAA
* **
55431072 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATT
1 CAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAAA
*
55431112 CAGGGGTACCGAAGTACAATCAGGGGCACATATGTGCAAA
1 CAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAAA
55431152 CA
1 CA
55431154 TTCAATAATT
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 34 0.33
40 70 0.67
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.14
Consensus pattern (40 bp):
CAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAAA
Found at i:55431107 original size:79 final size:80
Alignment explanation
Indices: 55430993--55431153 Score: 225
Period size: 79 Copynumber: 2.0 Consensus size: 80
55430983 TAAATGCGTT
*
55430993 CAGGGGTACCGAAGTGCAAACAGGGGCACACATGTGCAAACACGAGTACCGAAGTACAAACAGCG
1 CAGGGGTACCGAAGTACAAACAGGGGCACACATGTGCAAACACGAGTACCGAAGTACAAACAGCG
*
55431058 G-ACTTATGTGCAAA
66 GCACATATGTGCAAA
** ** * * * *
55431072 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAATCAGGG
1 CAGGGGTACCGAAGTACAAACAGGGGCACACATGTGCAAACACGAGTACCGAAGTACAAACAGCG
55431137 GCACATATGTGCAAA
66 GCACATATGTGCAAA
55431152 CA
1 CA
55431154 TTCAATAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 57 0.80
80 14 0.20
ACGTcount: A:0.35, C:0.22, G:0.29, T:0.14
Consensus pattern (80 bp):
CAGGGGTACCGAAGTACAAACAGGGGCACACATGTGCAAACACGAGTACCGAAGTACAAACAGCG
GCACATATGTGCAAA
Found at i:55436321 original size:24 final size:25
Alignment explanation
Indices: 55436294--55436345 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
55436284 GCCTAGCCTC
*
55436294 TTTTAAT-AATTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**
55436318 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
55436343 TTT
1 TTT
55436346 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:55436420 original size:21 final size:21
Alignment explanation
Indices: 55436393--55436453 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
55436383 TATAATGAGT
55436393 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* * *
55436414 ATCTCATAACATATCATGTTC
1 ATATCATAGCATATCATGTGC
55436435 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
55436454 ATAACAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:55436453 original size:10 final size:10
Alignment explanation
Indices: 55436393--55436453 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
55436383 TATAATGAGT
55436393 ATATCATAG-C
1 ATATCAT-GTC
55436403 ATATCATGTGC
1 ATATCATGT-C
* **
55436414 ATCTCATAAC
1 ATATCATGTC
55436424 ATATCATGTTC
1 ATATCATG-TC
55436435 ATATCATGTC
1 ATATCATGTC
55436445 ATATCATGT
1 ATATCATGT
55436454 ATAACAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 25 0.60
11 16 0.38
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.38
Consensus pattern (10 bp):
ATATCATGTC
Found at i:55444413 original size:83 final size:83
Alignment explanation
Indices: 55444316--55444471 Score: 294
Period size: 83 Copynumber: 1.9 Consensus size: 83
55444306 CCACTGGCAT
55444316 CATAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGAGGCAAAGCCCTTTTT
1 CATAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGAGGCAAAGCCCTTTTT
55444381 GATAAACTAGCGCCAAGG
66 GATAAACTAGCGCCAAGG
*
55444399 CATAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGAGGCAAAGCCTTTTTT
1 CATAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGAGGCAAAGCCCTTTTT
*
55444464 GGTAAACT
66 GATAAACT
55444472 GGTTCAAAGC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 71 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (83 bp):
CATAGCTGCTTTATCATATAACTGGAGGCCTAGCCTCTTTTAATAACTGAGGCAAAGCCCTTTTT
GATAAACTAGCGCCAAGG
Found at i:55444457 original size:24 final size:25
Alignment explanation
Indices: 55444333--55444463 Score: 72
Period size: 24 Copynumber: 5.0 Consensus size: 25
55444323 GCTTTATCAT
**
55444333 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCAAAGCCTCTTTTA
*
55444358 ATAACT-GAGGCAAAGCC-CTTTTTG
1 ATAACTGGAGGCAAAGCCTC-TTTTA
*
55444382 ATAAACTAGCGCCAAGGCATAG-CTGCTTTATCA
1 AT-AACT-G-G---AGGCAAAGCCT-CTTT-T-A
**
55444415 TATAACTGGAGGCCTAGCCTCTTTTA
1 -ATAACTGGAGGCAAAGCCTCTTTTA
*
55444441 ATAACT-GAGGCAAAGCCTTTTTT
1 ATAACTGGAGGCAAAGCCTCTTTT
55444464 GGTAAACTGG
Statistics
Matches: 83, Mismatches: 9, Indels: 29
0.69 0.07 0.24
Matches are distributed among these distances:
23 1 0.01
24 29 0.35
25 16 0.19
26 1 0.01
27 1 0.01
28 12 0.14
29 2 0.02
30 1 0.01
31 11 0.13
32 3 0.04
33 4 0.05
34 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (25 bp):
ATAACTGGAGGCAAAGCCTCTTTTA
Found at i:55444590 original size:10 final size:11
Alignment explanation
Indices: 55444521--55444595 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 11
55444511 ACCCAACCCA
*
55444521 TGCATATAATG
1 TGCATATCATG
* *
55444532 AGTATATCAT-
1 TGCATATCATG
*
55444542 AGCATATCATG
1 TGCATATCATG
*
55444553 TGCATCTCAT-
1 TGCATATCATG
**
55444563 AACATATCATG
1 TGCATATCATG
55444574 TGCATATCATG
1 TGCATATCATG
*
55444585 T-TATATCATG
1 TGCATATCATG
55444595 T
1 T
55444596 ATAACAATAT
Statistics
Matches: 50, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
10 25 0.50
11 25 0.50
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.37
Consensus pattern (11 bp):
TGCATATCATG
Found at i:55444595 original size:21 final size:21
Alignment explanation
Indices: 55444535--55444583 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
55444525 TATAATGAGT
*
55444535 ATATCATAGCATATCATGTGC
1 ATATCATAACATATCATGTGC
*
55444556 ATCTCATAACATATCATGTGC
1 ATATCATAACATATCATGTGC
55444577 ATATCAT
1 ATATCAT
55444584 GTTATATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (21 bp):
ATATCATAACATATCATGTGC
Found at i:55444676 original size:25 final size:26
Alignment explanation
Indices: 55444632--55444681 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
55444622 ATAATTAAAC
* *
55444632 CCTAGGGGGTATAATGGTCATTTTTA
1 CCTAGGGGGTAAAATAGTCATTTTTA
55444658 CCTA-GGGGTAAAATAGTCATTTTT
1 CCTAGGGGGTAAAATAGTCATTTTT
55444682 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (26 bp):
CCTAGGGGGTAAAATAGTCATTTTTA
Found at i:55452325 original size:48 final size:48
Alignment explanation
Indices: 55452270--55452448 Score: 219
Period size: 48 Copynumber: 3.9 Consensus size: 48
55452260 GGTCTACATA
* *
55452270 CCGATGCCATATCCCAGATATGGTCTTATACGAAGTCTCATGTCGGTG
1 CCGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATGTCGGTG
* *
55452318 CCGATGCCATGTCCCAGAGATGGTCTTATACAAAGTCTCATGTCGGTG
1 CCGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATGTCGGTG
** * * *
55452366 AAGATGCCATGTCCCAGACATGGTCTTATACG-AGAC-C---TC-ATA
1 CCGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATGTCGGTG
55452408 CCGATGCCATGTCCCAGACATGGTCTTATACGGAA-TCTCAT
1 CCGATGCCATGTCCCAGACATGGTCTTATAC-GAAGTCTCAT
55452449 ATCAACGCTA
Statistics
Matches: 113, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
42 30 0.27
43 4 0.04
44 2 0.02
46 1 0.01
47 3 0.03
48 73 0.65
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTATACGAAGTCTCATGTCGGTG
Found at i:55452465 original size:42 final size:42
Alignment explanation
Indices: 55452371--55452477 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
55452361 CGGTGAAGAT
* * *
55452371 GCCATGTCCCAGACATGGTCTTATACGAGACCTCATACCGAT
1 GCCATATCCCAGACATGGTCTTATACGAGACCTCATACCAAC
* * *
55452413 GCCATGTCCCAGACATGGTCTTATACG-GAATCTCATATCAAC
1 GCCATATCCCAGACATGGTCTTATACGAG-ACCTCATACCAAC
* *
55452455 GCTATATCCCAGATATGGTCTTA
1 GCCATATCCCAGACATGGTCTTA
55452478 CATGAAATCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 56 0.98
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTATACGAGACCTCATACCAAC
Found at i:55455091 original size:48 final size:48
Alignment explanation
Indices: 55455033--55455136 Score: 163
Period size: 48 Copynumber: 2.2 Consensus size: 48
55455023 TCAGATATGA
*
55455033 TCTTATACGAAGTCTCATGTCAGTGCCGATGCCATGTCCCAGACATAG
1 TCTTATACGAAGTCTCATATCAGTGCCGATGCCATGTCCCAGACATAG
* * * *
55455081 TTTTATACGAAGTCTCTTATCGGTGCCGATGCCATGTCCCAGACATGG
1 TCTTATACGAAGTCTCATATCAGTGCCGATGCCATGTCCCAGACATAG
55455129 TCTTATAC
1 TCTTATAC
55455137 AGGACCTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (48 bp):
TCTTATACGAAGTCTCATATCAGTGCCGATGCCATGTCCCAGACATAG
Found at i:55455188 original size:42 final size:39
Alignment explanation
Indices: 55455109--55455218 Score: 114
Period size: 42 Copynumber: 2.7 Consensus size: 39
55455099 ATCGGTGCCG
* *
55455109 ATGCCATGTCCCAGACATGGTCTTATACAGGACCTCATATCA
1 ATGCCATGACCCAGACATGGTC-T-TACAGAACCTCATA-CA
*
55455151 ATGCCATGACCCAGACATGGTCTTACATGAAATCTCATACA
1 ATGCCATGACCCAGACATGGTCTTACA-G-AACCTCATACA
* *
55455192 ACGCCAT-ATCCCAGATATGGTCTTACA
1 ATGCCATGA-CCCAGACATGGTCTTACA
55455219 CTGGCGCACA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
40 5 0.08
41 27 0.45
42 28 0.47
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (39 bp):
ATGCCATGACCCAGACATGGTCTTACAGAACCTCATACA
Found at i:55455279 original size:48 final size:48
Alignment explanation
Indices: 55455194--55455315 Score: 136
Period size: 48 Copynumber: 2.5 Consensus size: 48
55455184 CTCATACAAC
* * * * *
55455194 GCCATATCCCAGATATGGTCTTACACTGGCGCACATATCAATGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGCCGAT
* * * *
55455242 GGCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAACGCTGAT
1 GCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGCCGAT
* * *
55455290 GCCATGTCCCAGACTTGGTTTTACAC
1 GCCATGTCCCAAACATGGTCTTACAC
55455316 AGGATCTCAT
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAAACATGGTCTTACACTAGCGCACATATCAACGCCGAT
Found at i:55463050 original size:51 final size:48
Alignment explanation
Indices: 55462983--55463128 Score: 170
Period size: 46 Copynumber: 3.0 Consensus size: 48
55462973 CCCATATTAT
*
55462983 ATATATATGGCATTGGAGACAGGAGTAATTCATGTAAGTCCATGTCGA
1 ATATATATGGCATTGGAGACAGGAATAATTCATGTAAGTCCATGTCGA
* * * ** * * *
55463031 ATCAGTTATATGGCTTTGGAGACATGAATGAGCCATGTAAGCCCATAT--T
1 AT-A--TATATGGCATTGGAGACAGGAATAATTCATGTAAGTCCATGTCGA
55463080 ATATATATGGCATTGGAGACAGGAATAATTCATGTAAGTCCATGTCGA
1 ATATATATGGCATTGGAGACAGGAATAATTCATGTAAGTCCATGTCGA
55463128 A
1 A
55463129 GACATGGCAT
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
46 35 0.46
48 4 0.05
49 3 0.04
51 34 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (48 bp):
ATATATATGGCATTGGAGACAGGAATAATTCATGTAAGTCCATGTCGA
Found at i:55463114 original size:46 final size:47
Alignment explanation
Indices: 55462965--55463122 Score: 167
Period size: 46 Copynumber: 3.3 Consensus size: 47
55462955 AGAAATGAGC
*
55462965 CATGTAAGCCCATATTATATATATATGGCATTGGAGACAGGAGTAATT
1 CATGTAAGCCCATA-TATATATATATGGCATTGGAGACAGGAATAATT
* * * * * **
55463013 CATGTAAGTCCATGTCGA-ATCAGTTATATGGCTTTGGAGACATGAATGAGC
1 CATGTAAGCCCATAT--ATAT-A--TATATGGCATTGGAGACAGGAATAATT
55463064 CATGTAAGCCCATAT-TATATATATGGCATTGGAGACAGGAATAATT
1 CATGTAAGCCCATATATATATATATGGCATTGGAGACAGGAATAATT
*
55463110 CATGTAAGTCCAT
1 CATGTAAGCCCAT
55463123 GTCGAAGACA
Statistics
Matches: 88, Mismatches: 16, Indels: 14
0.75 0.14 0.12
Matches are distributed among these distances:
46 34 0.39
47 1 0.01
48 15 0.17
49 4 0.05
51 34 0.39
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (47 bp):
CATGTAAGCCCATATATATATATATGGCATTGGAGACAGGAATAATT
Found at i:55464475 original size:317 final size:317
Alignment explanation
Indices: 55463900--55464532 Score: 1187
Period size: 317 Copynumber: 2.0 Consensus size: 317
55463890 GAAATAGGGC
*
55463900 CAGAGCGACTTCTGGATCCCCTATTCCAAATTTATAAATTCACCATAAATTTTTAAAAAAATAAT
1 CAGAGCGACTTCTGGATCCCCTATTCCAAATTTAGAAATTCACCATAAATTTTTAAAAAAATAAT
*
55463965 TAGGTGGTGTACTTTATATGGTTAGAATCTTTATTGAATCTAGTTTTAATAGAAACAAACGGTAT
66 TAGGTGGTATACTTTATATGGTTAGAATCTTTATTGAATCTAGTTTTAATAGAAACAAACGGTAT
55464030 AGTCATATGATTTTTATACAGAGAGAAAGTGGTTCGTAGTAAGTAGAGGCCAGTGTAGTCGAATT
131 AGTCATATGATTTTTATACAGAGAGAAAGTGGTTCGTAGTAAGTAGAGGCCAGTGTAGTCGAATT
55464095 CTGAAATAGGGGTAACTTTAACTAATAAACTATACTAATTGGCTGAGTTAAAAATTCTAGAAAAA
196 CTGAAATAGGGGTAACTTTAACTAATAAACTATACTAATTGGCTGAGTTAAAAATTCTAGAAAAA
55464160 AATTAGTAGATATATATGAGTCTTGTTTCAGGAAAAATTTACGGATCTTAATTTAGT
261 AATTAGTAGATATATATGAGTCTTGTTTCAGGAAAAATTTACGGATCTTAATTTAGT
* * * *
55464217 CAGAGCGATTTCTGGATCCCCTGTTCCAAATTTAGAAATTCACCATAAA-TTTTAAAATAGTAAT
1 CAGAGCGACTTCTGGATCCCCTATTCCAAATTTAGAAATTCACCATAAATTTTTAAAAAAATAAT
*
55464281 TAGGTGGTTATAGTTTATATGGTTAGAATCTTTATTGAATCTAGTTTTAATAGAAACAAACGGTA
66 TAGGTGG-TATACTTTATATGGTTAGAATCTTTATTGAATCTAGTTTTAATAGAAACAAACGGTA
55464346 TAGTCATATGATTTTTATACAGAGAGAAAGTGGTTCGTAGTAAGTAGAGGCCAGTGTAGTCGAAT
130 TAGTCATATGATTTTTATACAGAGAGAAAGTGGTTCGTAGTAAGTAGAGGCCAGTGTAGTCGAAT
55464411 TCTGAAATAGGGGTAACTTTAACTAATAAACTATACTAATTGGCTGAGTTAAAAATTCTAGAAAA
195 TCTGAAATAGGGGTAACTTTAACTAATAAACTATACTAATTGGCTGAGTTAAAAATTCTAGAAAA
55464476 AAATTAGTAGATATATATGAGTCTTGTTTCAGGAAAAATTTACGGATCTTAATTTAG
260 AAATTAGTAGATATATATGAGTCTTGTTTCAGGAAAAATTTACGGATCTTAATTTAG
55464533 AGTTTTGGAA
Statistics
Matches: 308, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
316 20 0.06
317 288 0.94
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (317 bp):
CAGAGCGACTTCTGGATCCCCTATTCCAAATTTAGAAATTCACCATAAATTTTTAAAAAAATAAT
TAGGTGGTATACTTTATATGGTTAGAATCTTTATTGAATCTAGTTTTAATAGAAACAAACGGTAT
AGTCATATGATTTTTATACAGAGAGAAAGTGGTTCGTAGTAAGTAGAGGCCAGTGTAGTCGAATT
CTGAAATAGGGGTAACTTTAACTAATAAACTATACTAATTGGCTGAGTTAAAAATTCTAGAAAAA
AATTAGTAGATATATATGAGTCTTGTTTCAGGAAAAATTTACGGATCTTAATTTAGT
Found at i:55467074 original size:41 final size:41
Alignment explanation
Indices: 55467055--55467356 Score: 453
Period size: 41 Copynumber: 7.4 Consensus size: 41
55467045 ATTTTACCAA
55467055 AAAACGCCGCTAAAAAT-AGAGCAATAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
*
55467095 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
* *
55467136 AAAACGCCGCTAAAAATAAGAGCATTAGCGACGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
* ** *
55467177 AAAATGCCGCTAAAAATCGGAGCAATAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
* *
55467218 AAAACGCCGCTAAAAATAAGAGCATTAGTGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
* ** * * *
55467259 AAAGCGCCGCTAAAAATCGGAGCATTAGCGGTGCTTTTTGT
1 AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
*
55467300 AAAACGCCGCTAAAAATAAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
55467341 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
55467357 GTTTAGGGTT
Statistics
Matches: 236, Mismatches: 25, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
40 17 0.07
41 219 0.93
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (41 bp):
AAAACGCCGCTAAAAATAAGAGCAATAGCGGCGCTTTTGGT
Done.