Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 71 of 345
Found at i:19423757 original size:41 final size:41
Alignment explanation
Indices: 19423700--19423781 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
19423690 AGAGGAAGAA
* *
19423700 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTACTTGACGACCGTGGATCCACCG
19423741 ATTGAGGATCGCATGGTTACTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTACTTGACGACCGTGGATCCACCG
19423782 GTGGCTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTACTTGACGACCGTGGATCCACCG
Found at i:19423975 original size:22 final size:22
Alignment explanation
Indices: 19423923--19423987 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
19423913 GCCAATTATT
* *
19423923 CTGATTATGGCTTTACGCCAAC
1 CTGATTATGGCTCTATGCCAAC
*
19423945 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTATGCCAAC
* *
19423967 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTATGCCAA
19423988 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTATGCCAAC
Found at i:19426784 original size:27 final size:27
Alignment explanation
Indices: 19426754--19426833 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
19426744 AATTTCATAT
* * *
19426754 CTGTAGGCTAGTATTATTGAAATACCC
1 CTGTAGGATAGAATTACTGAAATACCC
* * **
19426781 CTGTAGGGTAGAATTACTAAAATGGCC
1 CTGTAGGATAGAATTACTGAAATACCC
19426808 CTGTAGGATAGAATTACTGAAATACC
1 CTGTAGGATAGAATTACTGAAATACC
19426834 TTTGGTTTAC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATACCC
Found at i:19426864 original size:26 final size:27
Alignment explanation
Indices: 19426819--19426886 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 27
19426809 TGTAGGATAG
*
19426819 AATTACTGAAATACCTTTGGTTTACAA
1 AATTACTGAAATACCATTGGTTTACAA
*
19426846 AATTATTG-AATACCATTGGTTTACAA
1 AATTACTGAAATACCATTGGTTTACAA
**
19426872 AATTACCAAAATACC
1 AATTACTGAAATACC
19426887 CTCGATTAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 22 0.63
27 13 0.37
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (27 bp):
AATTACTGAAATACCATTGGTTTACAA
Found at i:19426899 original size:27 final size:26
Alignment explanation
Indices: 19426870--19427092 Score: 153
Period size: 27 Copynumber: 8.3 Consensus size: 26
19426860 ATTGGTTTAC
* *
19426870 AAAATTACCAAAATACCCTCGATTAGC
1 AAAATTACCAAAATACCC-CGATTTGT
* *
19426897 AAAGTTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* * * *
19426924 AAAAATACCTAAATACCCCTAGTTTTT
1 AAAATTACCAAAATACCCCGA-TTTGT
19426951 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCC-GATTTGT
* * * *
19426978 GAAATTACCGAAATACCTTCAATTTGT
1 AAAATTACCAAAATACC-CCGATTTGT
* * *
19427005 AAAATTACCAATATACCCCTAATTTGG
1 AAAATTACCAAAATACCCC-GATTTGT
*** *
19427032 AAAATTATTGAAATACCCTTGATTTAG-
1 AAAATTACCAAAATACCC-CGATTT-GT
**
19427059 AAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCA-AAATACCCC-GATTTGT
19427086 AAAATTA
1 AAAATTA
19427093 TAGAAATACC
Statistics
Matches: 153, Mismatches: 33, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
26 2 0.01
27 148 0.97
28 3 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCGATTTGT
Found at i:19426938 original size:54 final size:54
Alignment explanation
Indices: 19426870--19427185 Score: 203
Period size: 54 Copynumber: 5.8 Consensus size: 54
19426860 ATTGGTTTAC
* * * * *
19426870 AAAATTACCAAAATACCCTCGATTAGCAAAGTTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * *
19426924 AAAAATACCTAAATACCC-CTAGTTTTTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * * *
19426978 GAAATTACCGAAATACCTTCAATTTGTAAAATTACCAATATACCCCTAATTTGG
1 AAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGT
*** ** **
19427032 AAAATTATTGAAATACCCTTGATTTAG-AAAATTA-CAGAAATACCCCTGATTTAC
1 AAAATTACCAAAATACCCTCAATTT-GTAAAATTACCA-AAATACCCCTGATTTGT
* * * ** * *
19427086 AAAATTA-TAGAAATACCCGTGACTTT-TAAAAATTA-CAGAAATACCATTGGTTTGC
1 AAAATTACCA-AAATACCC-TCAATTTGT-AAAATTACCA-AAATACCCCTGATTTGT
** * * * * *
19427141 AAAATTACTGAAATACCCTTAGTTTGTAGATTTACCAAAACACCC
1 AAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCC
19427186 TTGTAGGGTG
Statistics
Matches: 208, Mismatches: 43, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
53 4 0.02
54 156 0.75
55 47 0.23
56 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:19427004 original size:81 final size:81
Alignment explanation
Indices: 19426919--19427075 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
19426909 ATACCCCTGG
* ** *
19426919 TTTGTAAAAATACCTAA-ATACCCCTAGTTTTTAAAATTACCAAAATACCCCTGATTT-GTGAAA
1 TTTGTAAAAATACC-AATATACCCCTAATTTGGAAAATTACCAAAATACCCCTGATTTAG-AAAA
*
19426982 TTACCGAAATACCTTCAA
64 TTACAGAAATACCTTCAA
* *** *
19427000 TTTGTAAAATTACCAATATACCCCTAATTTGGAAAATTATTGAAATACCCTTGATTTAGAAAATT
1 TTTGTAAAAATACCAATATACCCCTAATTTGGAAAATTACCAAAATACCCCTGATTTAGAAAATT
19427065 ACAGAAATACC
66 ACAGAAATACC
19427076 CCTGATTTAC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (81 bp):
TTTGTAAAAATACCAATATACCCCTAATTTGGAAAATTACCAAAATACCCCTGATTTAGAAAATT
ACAGAAATACCTTCAA
Found at i:19427126 original size:28 final size:27
Alignment explanation
Indices: 19426819--19427158 Score: 151
Period size: 27 Copynumber: 12.6 Consensus size: 27
19426809 TGTAGGATAG
* ** *
19426819 AATTACTGAAATACCTTTGGTTTACAA
1 AATTACAGAAATACCCCTGATTTACAA
** ** *
19426846 AATTATTG-AATACCATTGGTTTACAA
1 AATTACAGAAATACCCCTGATTTACAA
19426872 AATTACCA-AAATA-CCCTCGA-TTAGCAA
1 AATTA-CAGAAATACCCCT-GATTTA-CAA
* * **
19426899 AGTTACCA-AAATACCCCTGGTTTGTAA
1 AATTA-CAGAAATACCCCTGATTTACAA
* ** **
19426926 AAATACCTAAATACCCCT-AGTTTTTAA
1 AATTACAGAAATACCCCTGA-TTTACAA
***
19426953 AATTACCA-AAATACCCCTGATTTGTGA
1 AATTA-CAGAAATACCCCTGATTTACAA
* * * **
19426980 AATTACCGAAATA-CCTTCAATTTGTAA
1 AATTACAGAAATACCCCT-GATTTACAA
* * **
19427007 AATTACCA-ATATACCCCTAATTTGGAA
1 AATTA-CAGAAATACCCCTGATTTACAA
** * *
19427034 AATTATTGAAATACCCTTGATTTAGAA
1 AATTACAGAAATACCCCTGATTTACAA
19427061 AATTACAGAAATACCCCTGATTTACAA
1 AATTACAGAAATACCCCTGATTTACAA
* *
19427088 AATTATAGAAATACCCGTGACTTTTA-AA
1 AATTACAGAAATACCCCTGA--TTTACAA
** * *
19427116 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACAGAAATACCCCTGATTTACAA
*
19427143 AATTACTGAAATACCC
1 AATTACAGAAATACCC
19427159 TTAGTTTGTA
Statistics
Matches: 248, Mismatches: 47, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
26 35 0.14
27 179 0.72
28 30 0.12
29 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACAGAAATACCCCTGATTTACAA
Found at i:19427144 original size:55 final size:53
Alignment explanation
Indices: 19427017--19427158 Score: 160
Period size: 55 Copynumber: 2.6 Consensus size: 53
19427007 AATTACCAAT
* * * *
19427017 ATACCCCTAATTTGGAAAATTATTGAAATACCCTTGATTTAGAAAATTACAGAA
1 ATACCACTGATTTGCAAAATTA-TGAAATACCCGTGATTTAGAAAATTACAGAA
* *
19427071 ATACCCCTGATTTACAAAATTATAGAAATACCCGTGACTTTTA-AAAATTACAGAA
1 ATACCACTGATTTGCAAAATTAT-GAAATACCCGTGA--TTTAGAAAATTACAGAA
* *
19427126 ATACCATTGGTTTGCAAAATTACTGAAATACCC
1 ATACCACTGATTTGCAAAATTA-TGAAATACCC
19427159 TTAGTTTGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
53 1 0.01
54 31 0.41
55 39 0.51
56 5 0.07
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (53 bp):
ATACCACTGATTTGCAAAATTATGAAATACCCGTGATTTAGAAAATTACAGAA
Found at i:19427442 original size:41 final size:41
Alignment explanation
Indices: 19427393--19427517 Score: 169
Period size: 41 Copynumber: 3.0 Consensus size: 41
19427383 GGAGGAAGAA
* * * *
19427393 ATTGAGGATCACATGGGTGCTTGACAACCATGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * *
19427434 ATTGAGGATTGCATAGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
19427475 ATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
19427516 AT
1 AT
19427518 GGCTTTTAAG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:19427687 original size:22 final size:22
Alignment explanation
Indices: 19427659--19427707 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
19427649 ATAGCTTTGC
19427659 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTCTGT
* *
19427681 GCCAACCTGATTATGGCTGTGT
1 GCCAACCTGAATATGGCTCTGT
19427703 GCCAA
1 GCCAA
19427708 ACGTATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTCTGT
Found at i:19427951 original size:21 final size:22
Alignment explanation
Indices: 19427912--19427955 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
19427902 TGCTGCGATG
*
19427912 TTTATGGCTATGTGCTGTCCTA
1 TTTACGGCTATGTGCTGTCCTA
*
19427934 TTTACGGC-ATGTGTTGTCCTA
1 TTTACGGCTATGTGCTGTCCTA
19427955 T
1 T
19427956 CTATGGCGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.45
Consensus pattern (22 bp):
TTTACGGCTATGTGCTGTCCTA
Found at i:19431615 original size:15 final size:15
Alignment explanation
Indices: 19431597--19431646 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
19431587 GCATGGTAAT
*
19431597 AAAATAATGAAAAGG
1 AAAATAATGAAAAAG
*
19431612 AAAATGATGAAGAAAG
1 AAAATAATGAA-AAAG
* *
19431628 AAAAAAAAGAAAAAG
1 AAAATAATGAAAAAG
19431643 AAAA
1 AAAA
19431647 AGTTCTCATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (15 bp):
AAAATAATGAAAAAG
Found at i:19433010 original size:40 final size:40
Alignment explanation
Indices: 19432905--19433121 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
19432895 CGGATGATAA
* * *
19432905 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
19432945 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19432984 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19433024 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
19433064 CCGGGCTAAGTCCTGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
19433104 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
19433122 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 49 0.30
40 114 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19433119 original size:119 final size:119
Alignment explanation
Indices: 19432901--19433121 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 119
19432891 TATTCGGATG
* * *
19432901 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
19432966 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
* *
19433020 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCTGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
19433084 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
19433122 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 63 0.70
120 25 0.28
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:19435610 original size:26 final size:25
Alignment explanation
Indices: 19435559--19435615 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 25
19435549 AATATCATAT
* *
19435559 TTAATAAT-AAAATAAACATGATAA
1 TTAAAAATAAAAATAAACATGACAA
* *
19435583 TTCAAAATAAAAATAAAATATGACAA
1 TTAAAAATAAAAAT-AAACATGACAA
19435609 TTAAAAA
1 TTAAAAA
19435616 GGATAAATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 6 0.23
25 5 0.19
26 15 0.58
ACGTcount: A:0.65, C:0.05, G:0.04, T:0.26
Consensus pattern (25 bp):
TTAAAAATAAAAATAAACATGACAA
Found at i:19436181 original size:2 final size:2
Alignment explanation
Indices: 19436091--19436173 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
19436081 AAAAAAAACA
19436091 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19436133 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
19436174 TTTCTCTCAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:19436591 original size:70 final size:70
Alignment explanation
Indices: 19436479--19436617 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 70
19436469 GTGTAAGGTT
*
19436479 TAAAACCTTATTTATTTTCTTATATTTTTCAAAATAAAAAGTAAAAAAAA-AGAACAAATTAGTT
1 TAAAACCTTATTTATTTTCTTATATTTGTCAAAATAAAAAGTAAAAAAAAGAGAACAAATTAGTT
19436543 TTTTC
66 TTTTC
* *
19436548 TAAAATCTTATTTTATTTTCTTATATTTGTCGAAATAAAAAGTAAAAAAAAGAGAACAAATTAGT
1 TAAAACCTTA-TTTATTTTCTTATATTTGTCAAAATAAAAAGTAAAAAAAAGAGAACAAATTAGT
19436613 TTTTT
65 TTTTT
19436618 TCTTAACTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
69 9 0.14
70 38 0.58
71 18 0.28
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.41
Consensus pattern (70 bp):
TAAAACCTTATTTATTTTCTTATATTTGTCAAAATAAAAAGTAAAAAAAAGAGAACAAATTAGTT
TTTTC
Found at i:19436775 original size:20 final size:20
Alignment explanation
Indices: 19436717--19436775 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
19436707 TATCATTTTT
*
19436717 TTTTGTTTTTTTTTCCTATTC
1 TTTTGTTTTTTTTT-CTCTTC
**
19436738 -TTTGCTTTTTAGTT-TCTTC
1 TTTTG-TTTTTTTTTCTCTTC
19436757 TTTTGTTTTTTTTTCTCTT
1 TTTTGTTTTTTTTTCTCTT
19436776 ATTTGAGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
19 11 0.37
20 12 0.40
21 7 0.23
ACGTcount: A:0.03, C:0.14, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTGTTTTTTTTTCTCTTC
Found at i:19438612 original size:16 final size:16
Alignment explanation
Indices: 19438591--19438624 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19438581 CCAATATCCA
* *
19438591 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
19438607 ATTATCACATTTACAC
1 ATTATCACATTTACAC
19438623 AT
1 AT
19438625 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:19440724 original size:18 final size:18
Alignment explanation
Indices: 19440672--19440737 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
19440662 ACCCAGTATC
*
19440672 ATGCGTGCCTAT-ACACTT
1 ATGCGAGCCTATGA-ACTT
* **
19440690 ATGCGAGCTTAAAAACTT
1 ATGCGAGCCTATGAACTT
*
19440708 GTGCGAGCCTATGAACTT
1 ATGCGAGCCTATGAACTT
*
19440726 ATGTGAGCCTAT
1 ATGCGAGCCTAT
19440738 TCATTTACAC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 37 0.97
19 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (18 bp):
ATGCGAGCCTATGAACTT
Found at i:19441366 original size:77 final size:77
Alignment explanation
Indices: 19441237--19441388 Score: 259
Period size: 77 Copynumber: 2.0 Consensus size: 77
19441227 TTGGCTACTT
* *
19441237 GTGAAAGGATCTCCATTACCCCGTACTTGGCTCATAAAGCCTCTATCAGACCCATAAAGTGTAGC
1 GTGAAAGGATCTCCATTACCCCGTACTTGACTCATAAAGCCTATATCAGACCCATAAAGTGTAGC
19441302 ATGAAGCTAGTA
66 ATGAAGCTAGTA
* * *
19441314 GTGAAAGGATCTCCATTACCCCGTACTTGACTCATAGAGCCTATATCGGACCCATAGAGTGTAGC
1 GTGAAAGGATCTCCATTACCCCGTACTTGACTCATAAAGCCTATATCAGACCCATAAAGTGTAGC
19441379 ATGAAGCTAG
66 ATGAAGCTAG
19441389 CACTCTCCTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 70 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (77 bp):
GTGAAAGGATCTCCATTACCCCGTACTTGACTCATAAAGCCTATATCAGACCCATAAAGTGTAGC
ATGAAGCTAGTA
Found at i:19444620 original size:3 final size:3
Alignment explanation
Indices: 19444612--19444681 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
19444602 TTGAGTTTGT
19444612 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
19444660 TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
19444682 CAAATTGCCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19449876 original size:32 final size:30
Alignment explanation
Indices: 19449831--19449889 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
19449821 TTTATTTTTA
*
19449831 ATATTAAATAATTTTATACATATTTTAATT
1 ATATTAAATAATTTTATAAATATTTTAATT
*
19449861 ATATTAATTATAATTTTTTAAATATTTTA
1 ATATTAA--ATAATTTTATAAATATTTTA
19449890 CCAGAAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 7 0.28
32 18 0.72
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
ATATTAAATAATTTTATAAATATTTTAATT
Found at i:19451443 original size:22 final size:21
Alignment explanation
Indices: 19451400--19451443 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
19451390 TCAATGGTGC
* *
19451400 TTTTTAAATTTATTTATTTAT
1 TTTTTAAATTTAATTATCTAT
*
19451421 TTTTTAAAATTTAATTGTCTAT
1 TTTTT-AAATTTAATTATCTAT
19451443 T
1 T
19451444 AAATAAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTAAATTTAATTATCTAT
Found at i:19453377 original size:2 final size:2
Alignment explanation
Indices: 19453366--19453406 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
19453356 TATTGTTATC
19453366 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19453407 GAAAAGCACG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19453627 original size:17 final size:18
Alignment explanation
Indices: 19453594--19453628 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19453584 TAGAAGTTAT
*
19453594 AATAATTACACATTTAAA
1 AATAATTACAAATTTAAA
19453612 AATAATTA-AAATTTAAA
1 AATAATTACAAATTTAAA
19453629 TTACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AATAATTACAAATTTAAA
Found at i:19458938 original size:14 final size:15
Alignment explanation
Indices: 19458919--19458958 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
19458909 TTAAGTAAAA
19458919 ATAATATAAAA-TTT
1 ATAATATAAAACTTT
19458933 ATAATATAAAACCTTT
1 ATAATATAAAA-CTTT
19458949 AT-ATATAAAA
1 ATAATATAAAA
19458959 AATGTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 11 0.46
15 8 0.33
16 5 0.21
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATATAAAACTTT
Found at i:19464311 original size:37 final size:37
Alignment explanation
Indices: 19464270--19464343 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
19464260 AAGTTCTATG
*
19464270 GATAGATCAAAAATTGGGGTCTTTATTCAAGACATAA
1 GATAGATCAAAAATTAGGGTCTTTATTCAAGACATAA
*
19464307 GATAGATCGAAAATTAGGGTCTTTATTCAAGACATAA
1 GATAGATCAAAAATTAGGGTCTTTATTCAAGACATAA
19464344 AATTTGAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.30
Consensus pattern (37 bp):
GATAGATCAAAAATTAGGGTCTTTATTCAAGACATAA
Found at i:19466704 original size:44 final size:44
Alignment explanation
Indices: 19466575--19466781 Score: 202
Period size: 44 Copynumber: 4.7 Consensus size: 44
19466565 AGCTACAAAG
* * * * *
19466575 TACAAATCTTATCTCCCTGAAGTTGCAGTAAAGTAAATCGAAGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGC
* * ** * * *
19466619 TAGCAAATATTATATCCCCAAAGTTGCAGTGGAGCATATTGGAGC
1 TA-CAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGC
* * *
19466664 TACAAATCTTATCTCCCTGAATTTACAGTGAAGCAGATTGGAGC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGC
*
19466708 TACAAAT-TCTATCTCTCTGAAGTTGCAGTGAAGCAGATTGAAGC
1 TACAAATCT-TATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGC
* * *
19466752 AACAAATCTTATAC-CTCTGAACTTGCAGTG
1 TACAAATCTTAT-CTCCCTGAAGTTGCAGTG
19466782 GGTTAGAATA
Statistics
Matches: 134, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
43 1 0.01
44 98 0.73
45 35 0.26
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (44 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGC
Found at i:19468658 original size:12 final size:12
Alignment explanation
Indices: 19468619--19468659 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
19468609 TATTTATACA
19468619 TTTTATTCATTAT
1 TTTTA-TCATTAT
*
19468632 TATTATCATTAT
1 TTTTATCATTAT
19468644 TTTTATC-TTAT
1 TTTTATCATTAT
19468655 TTTTA
1 TTTTA
19468660 CTACTTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 9 0.35
12 13 0.50
13 4 0.15
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATCATTAT
Found at i:19468765 original size:18 final size:19
Alignment explanation
Indices: 19468734--19468774 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19468724 GCATCTTTAT
*
19468734 TTTTTATTATTTTTATGTA
1 TTTTTATCATTTTTATGTA
*
19468753 TTTTTATCA-TTTTATTTA
1 TTTTTATCATTTTTATGTA
19468771 TTTT
1 TTTT
19468775 ATACCATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTATCATTTTTATGTA
Found at i:19476154 original size:16 final size:17
Alignment explanation
Indices: 19476133--19476165 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
19476123 ATACAGATAA
19476133 TTATTCTTT-GATTTTT
1 TTATTCTTTGGATTTTT
19476149 TTATTCTTTGGATTTTT
1 TTATTCTTTGGATTTTT
19476166 CTTCATCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.73
Consensus pattern (17 bp):
TTATTCTTTGGATTTTT
Found at i:19481264 original size:58 final size:58
Alignment explanation
Indices: 19481174--19481290 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
19481164 TGTTCCCCAA
19481174 AGAACAGTGTAACAAATCAGTGAAACAACAAATCCTATACCCCTGAAGTTACAGTGGG
1 AGAACAGTGTAACAAATCAGTGAAACAACAAATCCTATACCCCTGAAGTTACAGTGGG
*
19481232 AGAACAGTGTAACAGATCAGTGAAACAACAAATCCTATACCCCTGAAGTTACAGTGGG
1 AGAACAGTGTAACAAATCAGTGAAACAACAAATCCTATACCCCTGAAGTTACAGTGGG
19481290 A
1 A
19481291 TGGATTAAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.19
Consensus pattern (58 bp):
AGAACAGTGTAACAAATCAGTGAAACAACAAATCCTATACCCCTGAAGTTACAGTGGG
Found at i:19481331 original size:50 final size:50
Alignment explanation
Indices: 19481259--19481353 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
19481249 CAGTGAAACA
* * **
19481259 ACAAATCCTATACCCCTGAAGTTACAGTGGGATGGATTAAAGCCATCATG
1 ACAAATCCTATACCCCTAAAGTTACAGTGGAACAGATTAAAGCCATCATG
* *
19481309 ACAAATCTTAT-CTCCCTAAAGTTGCAGTGGAACAGATTAAAGCCA
1 ACAAATCCTATAC-CCCTAAAGTTACAGTGGAACAGATTAAAGCCA
19481354 CAAATCTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.03
50 37 0.97
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (50 bp):
ACAAATCCTATACCCCTAAAGTTACAGTGGAACAGATTAAAGCCATCATG
Found at i:19481372 original size:44 final size:44
Alignment explanation
Indices: 19481309--19481743 Score: 370
Period size: 44 Copynumber: 9.7 Consensus size: 44
19481299 AGCCATCATG
* *
19481309 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTAAAGCC
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * *
19481353 ACAAATCTTATCTCCCTAAAATTGTAGTGGAGCAGACTGAAGAT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
19481397 AGCGAATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATTAAAGCT
1 A-CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * *
19481442 ATAAACCTTATCTCCCTAAAGTTGCAGTGGGGCAGGTTAAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
19481486 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * * * *
19481530 AGCAAATCTTATTTCTCTGAAGTGGTAGTGAAACAGATCAAAGTTACAAATT
1 A-CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG---C----T
* * * *
19481582 ATAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* **
19481626 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGGAGCT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * * *
19481670 GCAAATTTTATCTCTCTGAAA-TTGCAGTAGAGCAAATTGAAGCA
1 ACAAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTAAAGCT
*
19481714 ACAAATCTTATAC-CCCTGAAGTTGCAGTGG
1 ACAAATCTTAT-CTCCCTAAAGTTGCAGTGG
19481744 GTTTGAATGA
Statistics
Matches: 306, Mismatches: 73, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
43 2 0.01
44 202 0.66
45 70 0.23
51 30 0.10
52 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
Found at i:19483652 original size:12 final size:12
Alignment explanation
Indices: 19483613--19483653 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
19483603 CATTTATACA
19483613 TTTTATTCATTAT
1 TTTTA-TCATTAT
*
19483626 TATTATCATTAT
1 TTTTATCATTAT
19483638 TTTTATC-TTAT
1 TTTTATCATTAT
19483649 TTTTA
1 TTTTA
19483654 CTACTTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 9 0.35
12 13 0.50
13 4 0.15
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATCATTAT
Found at i:19483759 original size:18 final size:19
Alignment explanation
Indices: 19483728--19483768 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
19483718 GCATCTTTAT
*
19483728 TTTTTATTATTTTTATGTA
1 TTTTTATCATTTTTATGTA
*
19483747 TTTTTATCA-TTTTATTTA
1 TTTTTATCATTTTTATGTA
19483765 TTTT
1 TTTT
19483769 ATACCATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTATCATTTTTATGTA
Found at i:19485109 original size:30 final size:31
Alignment explanation
Indices: 19485069--19485136 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
19485059 TTATAATTTG
*
19485069 GTCACTAAATTATTT-AAAA-ATTTTATTTAA
1 GTCATTAAATT-TTTCAAAAGATTTTATTTAA
*
19485099 GTCATTAAATTTTTCAAAAGTTTTTATTTAA
1 GTCATTAAATTTTTCAAAAGATTTTATTTAA
*
19485130 ATCATTA
1 GTCATTA
19485137 GATTGTTAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 14 0.42
31 16 0.48
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (31 bp):
GTCATTAAATTTTTCAAAAGATTTTATTTAA
Found at i:19486221 original size:42 final size:43
Alignment explanation
Indices: 19486079--19486222 Score: 173
Period size: 43 Copynumber: 3.4 Consensus size: 43
19486069 TTTATGTGAA
* * **
19486079 AAAAACGCCGCTAAAGGTCATGACTTTTCGCGGCGCTTTCCCC
1 AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCGCTTTTACC
* *
19486122 ACAAACGCCGCTAAAGGTCATGACCTTTCGCGGCGCTTTTACC
1 AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCGCTTTTACC
* * * * * *
19486165 TAGAGCGCCACTAAAAGT-ATGACCTTTAGCGGCGCTTTTATC
1 AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCGCTTTTACC
19486207 AAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
19486223 AAATAACCTT
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 34 0.40
43 51 0.60
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTCATGACCTTTCGCGGCGCTTTTACC
Found at i:19486232 original size:42 final size:42
Alignment explanation
Indices: 19486144--19486234 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
19486134 AAAGGTCATG
* * * * ** *
19486144 ACCTTTCGCGGCGCTTTTACCTAGAGCGCCACTAAAAGTATG
1 ACCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAAAAATA
* *
19486186 ACCTTTAGCGGCGCTTTTATCAAAAACGCCGCTAAAAAAATA
1 ACCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAAAAATA
19486228 ACCTTTA
1 ACCTTTA
19486235 AAAAAATTAT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ACCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAAAAATA
Found at i:19491750 original size:19 final size:22
Alignment explanation
Indices: 19491726--19491771 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 22
19491716 TAAGATTTTT
*
19491726 TTTTTTTTTAA-A-TTTTAT-A
1 TTTTTTTTGAAGATTTTTATAA
19491745 TTTTTTTTGAAGATTTTTATAA
1 TTTTTTTTGAAGATTTTTATAA
19491767 TTTTT
1 TTTTT
19491772 AAATTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 1 0.04
21 6 0.26
22 6 0.26
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTTTTGAAGATTTTTATAA
Found at i:19492155 original size:7 final size:7
Alignment explanation
Indices: 19492143--19492187 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
19492133 TCATACACTT
*
19492143 TAAACCC
1 TAAACCA
19492150 TAAACCA
1 TAAACCA
* *
19492157 TATACCT
1 TAAACCA
19492164 TAAACCA
1 TAAACCA
19492171 TAAACCA
1 TAAACCA
*
19492178 TAAACTA
1 TAAACCA
19492185 TAA
1 TAA
19492188 TGATAATTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:19492293 original size:7 final size:7
Alignment explanation
Indices: 19492281--19492379 Score: 58
Period size: 7 Copynumber: 14.1 Consensus size: 7
19492271 ACTAATTAAT
19492281 CTAAACC
1 CTAAACC
19492288 CTAAACTC
1 CTAAAC-C
* *
19492296 TTAATCC
1 CTAAACC
19492303 CTAAACC
1 CTAAACC
19492310 CTAAACC
1 CTAAACC
* * *
19492317 ATGAATC
1 CTAAACC
*
19492324 CTAAAAC
1 CTAAACC
*
19492331 ATAAACC
1 CTAAACC
19492338 CTAAACC
1 CTAAACC
* *
19492345 ATGAACC
1 CTAAACC
19492352 ACT-AACC
1 -CTAAACC
*
19492359 CT-TACC
1 CTAAACC
*
19492365 CTTAACC
1 CTAAACC
*
19492372 CTTAACC
1 CTAAACC
19492379 C
1 C
19492380 CTAACACCTA
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
6 7 0.10
7 58 0.82
8 6 0.08
ACGTcount: A:0.39, C:0.37, G:0.02, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:19492328 original size:14 final size:14
Alignment explanation
Indices: 19492306--19492356 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
19492296 TTAATCCCTA
19492306 AACCCTAAACCATG
1 AACCCTAAACCATG
* * *
19492320 AATCCTAAAACATA
1 AACCCTAAACCATG
19492334 AACCCTAAACCATG
1 AACCCTAAACCATG
19492348 AACCACTAA
1 AACC-CTAA
19492357 CCCTTACCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 26 0.87
15 4 0.13
ACGTcount: A:0.49, C:0.31, G:0.04, T:0.16
Consensus pattern (14 bp):
AACCCTAAACCATG
Found at i:19492330 original size:22 final size:22
Alignment explanation
Indices: 19492281--19492328 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
19492271 ACTAATTAAT
*
19492281 CTAAACCCTAAACTCTTAATCC
1 CTAAACCCTAAACTCTGAATCC
19492303 CTAAACCCTAAAC-CATGAAT-C
1 CTAAACCCTAAACTC-TGAATCC
19492324 CTAAA
1 CTAAA
19492329 ACATAAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (22 bp):
CTAAACCCTAAACTCTGAATCC
Found at i:19492445 original size:15 final size:15
Alignment explanation
Indices: 19492423--19492457 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
19492413 AAACCACCAT
19492423 TAAA-CCATAATCCA
1 TAAACCCATAATCCA
19492437 TAAACCCATAATCCA
1 TAAACCCATAATCCA
19492452 TAAACC
1 TAAACC
19492458 TTAACATAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:19493044 original size:39 final size:39
Alignment explanation
Indices: 19492927--19493047 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 39
19492917 TAGCGGTGTT
** * * *
19492927 TTTTTAAAGGGCGCTGCTAATACTCGATCTTTAGCGGCGG
1 TTTTTAAAAAGCGCCGCTAATGCTCGAACTTTAGCGGC-G
* * * *
19492967 ATTTCAAAAAG-GCCGCTAAAGGT-GAACTTATAGCGGCG
1 TTTTTAAAAAGCGCCGCTAATGCTCGAACTT-TAGCGGCG
* *
19493005 TTTTTAAAAAGCGCCGCTAATGCTCGACCTTTAGTGGCG
1 TTTTTAAAAAGCGCCGCTAATGCTCGAACTTTAGCGGCG
19493044 TTTT
1 TTTT
19493048 CATTCAAACG
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
38 15 0.24
39 36 0.57
40 12 0.19
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (39 bp):
TTTTTAAAAAGCGCCGCTAATGCTCGAACTTTAGCGGCG
Found at i:19493113 original size:2 final size:2
Alignment explanation
Indices: 19493106--19493131 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19493096 TTTCTTATGC
19493106 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19493132 TCTAACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19494374 original size:21 final size:20
Alignment explanation
Indices: 19494350--19494393 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
19494340 TATATTATTT
*
19494350 ATATCATATAAAATTAAAATA
1 ATATAATATAAAATT-AAATA
* *
19494371 ATATAATATAGACTTAAATA
1 ATATAATATAAAATTAAATA
19494391 ATA
1 ATA
19494394 AATTGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
ATATAATATAAAATTAAATA
Found at i:19496904 original size:20 final size:19
Alignment explanation
Indices: 19496879--19496917 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19496869 ATTTGTTTTT
19496879 TTTTTCAAAATTTTAATTAA
1 TTTTTCAAAA-TTTAATTAA
**
19496899 TTTTTCGTAATTTAATTAA
1 TTTTTCAAAATTTAATTAA
19496918 AGTTCAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTTTCAAAATTTAATTAA
Found at i:19499424 original size:24 final size:25
Alignment explanation
Indices: 19499396--19499449 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
19499386 TAAAAAAGTT
19499396 TAGATAGA-ATACGAGTCCTAAAAA
1 TAGATAGATATACGAGTCCTAAAAA
** *
19499420 TAGATTTATATACGAGTCTTAAAAA
1 TAGATAGATATACGAGTCCTAAAAA
19499445 TAGAT
1 TAGAT
19499450 TTATGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.46, C:0.09, G:0.15, T:0.30
Consensus pattern (25 bp):
TAGATAGATATACGAGTCCTAAAAA
Found at i:19499434 original size:25 final size:25
Alignment explanation
Indices: 19499404--19499453 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
19499394 TTTAGATAGA
19499404 ATACGAGTCCTAAAAATAGATTTAT
1 ATACGAGTCCTAAAAATAGATTTAT
*
19499429 ATACGAGTCTTAAAAATAGATTTAT
1 ATACGAGTCCTAAAAATAGATTTAT
19499454 GTAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (25 bp):
ATACGAGTCCTAAAAATAGATTTAT
Found at i:19499548 original size:29 final size:29
Alignment explanation
Indices: 19499494--19499551 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
19499484 AGGCTCAGTC
*
19499494 TAATTATTATATTATAAATAATATTATAT
1 TAATTATTATATTATAAAGAATATTATAT
19499523 TAATTA-TATATGT-TAAAGAATAATTATAT
1 TAATTATTATAT-TATAAAGAAT-ATTATAT
19499552 ATATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
TAATTATTATATTATAAAGAATATTATAT
Found at i:19499628 original size:7 final size:7
Alignment explanation
Indices: 19499616--19499642 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19499606 CTAAAATATA
19499616 ATATTTT
1 ATATTTT
19499623 ATATTTT
1 ATATTTT
19499630 ATATTTT
1 ATATTTT
19499637 ATATTT
1 ATATTT
19499643 AATACAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATATTTT
Found at i:19501580 original size:24 final size:25
Alignment explanation
Indices: 19501531--19501581 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
19501521 TATTAGATAG
19501531 AAATTCACAATATTAATTTTATAAT
1 AAATTCACAATATTAATTTTATAAT
*
19501556 AAATTTACAATAATT-A-TTTATAAT
1 AAATTCACAAT-ATTAATTTTATAAT
19501580 AA
1 AA
19501582 GTAAAATCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 10 0.42
25 11 0.46
26 3 0.12
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (25 bp):
AAATTCACAATATTAATTTTATAAT
Found at i:19501997 original size:7 final size:7
Alignment explanation
Indices: 19501966--19502007 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
19501956 ACCTGGTGGA
19501966 ATTTCTAT
1 ATTTC-AT
19501974 ATTTCA-
1 ATTTCAT
19501980 A-TTCA-
1 ATTTCAT
19501985 ATTTCAT
1 ATTTCAT
19501992 ATTTCAT
1 ATTTCAT
19501999 ATTTCAT
1 ATTTCAT
19502006 AT
1 AT
19502008 ACCATTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.16
6 5 0.16
7 17 0.53
8 5 0.16
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTTCAT
Found at i:19505028 original size:51 final size:50
Alignment explanation
Indices: 19504929--19505047 Score: 166
Period size: 51 Copynumber: 2.4 Consensus size: 50
19504919 ATATTATCAC
* * * *
19504929 TTAAATAATTTAATTTATTTAATGATAATATATTTTTTATTATTTATCTT
1 TTAATTAATTTAAATTAATTAATGATAATATATTTTTTATTATCTATCTT
* * *
19504979 TTAATTAGTTTAAATTAATTAGTGATGATATAATTTTTTATTATCTATCTT
1 TTAATTAATTTAAATTAATTAATGATAATAT-ATTTTTTATTATCTATCTT
19505030 TTAATTAATTTAAATTAA
1 TTAATTAATTTAAATTAA
19505048 CTAGAGAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 25 0.42
51 35 0.58
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (50 bp):
TTAATTAATTTAAATTAATTAATGATAATATATTTTTTATTATCTATCTT
Found at i:19508806 original size:21 final size:20
Alignment explanation
Indices: 19508780--19508832 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
19508770 GCCCGAAGGC
19508780 TAACTGAAGCTCATCA-GAGT
1 TAACTGAAGCTCAT-ATGAGT
*
19508800 TGAACTGAAACTCATATGAGT
1 T-AACTGAAGCTCATATGAGT
*
19508821 TAACAGAAGCTC
1 TAACTGAAGCTC
19508833 GTAAGAGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (20 bp):
TAACTGAAGCTCATATGAGT
Found at i:19520147 original size:39 final size:38
Alignment explanation
Indices: 19520099--19520173 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
19520089 TAATTTTTAA
* * *
19520099 AAAAATAAAAAAATTTAAAGGAATATTTCATTTTTTTGG
1 AAAAATAAAAAAATTTAAA-AAAGATTTAATTTTTTTGG
* *
19520138 AAAATTAAAAATATTTAAAAAAGATTTAATTTTTTT
1 AAAAATAAAAAAATTTAAAAAAGATTTAATTTTTTT
19520174 AACATTTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 14 0.45
39 17 0.55
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (38 bp):
AAAAATAAAAAAATTTAAAAAAGATTTAATTTTTTTGG
Found at i:19520148 original size:38 final size:38
Alignment explanation
Indices: 19520100--19520173 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
19520090 AATTTTTAAA
* * *
19520100 AAAATAAAAAA-ATTTAAAGGAATATTTCATTTTTTTGG
1 AAAATAAAAAATATTTAAA-AAAGATTTAATTTTTTTGG
*
19520138 AAAATTAAAAATATTTAAAAAAGATTTAATTTTTTT
1 AAAATAAAAAATATTTAAAAAAGATTTAATTTTTTT
19520174 AACATTTGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 24 0.77
39 7 0.23
ACGTcount: A:0.50, C:0.01, G:0.07, T:0.42
Consensus pattern (38 bp):
AAAATAAAAAATATTTAAAAAAGATTTAATTTTTTTGG
Found at i:19520217 original size:21 final size:21
Alignment explanation
Indices: 19520183--19520231 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
19520173 TAACATTTGT
* *
19520183 AAATCTATAAAATATT-ATTA
1 AAATTTATAAAATATTAAATA
19520203 AAATTTATAAAAATATTAAATA
1 AAATTTAT-AAAATATTAAATA
19520225 AAATTTA
1 AAATTTA
19520232 AATGTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 8 0.32
22 10 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATTTATAAAATATTAAATA
Found at i:19526305 original size:15 final size:15
Alignment explanation
Indices: 19526285--19526322 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
19526275 TCTGAGAAAG
*
19526285 TTTTTTTTTTAAACC
1 TTTTTTGTTTAAACC
19526300 TTTTTTGTTTAAACC
1 TTTTTTGTTTAAACC
19526315 TTTTTTGT
1 TTTTTTGT
19526323 GCAGTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTTTTGTTTAAACC
Found at i:19527001 original size:31 final size:31
Alignment explanation
Indices: 19526961--19527019 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
19526951 GTGTAATTCA
*
19526961 TATTTGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACTTAATTTTT
* * *
19526992 TATTCGAGTTGATCCGAATAACTTAATT
1 TATTCGAGTTAAACCGAAAAACTTAATT
19527020 AACTCAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.41
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTTAATTTTT
Found at i:19528147 original size:2 final size:2
Alignment explanation
Indices: 19528140--19528171 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19528130 GTTAAAAAGG
19528140 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
19528172 ATGCGGGGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:19533829 original size:2 final size:2
Alignment explanation
Indices: 19533822--19533856 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
19533812 GTCCAAGGGG
* *
19533822 GA GA GA GA GA GA GA GA GC GA GA GA GA GC GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
19533857 TGATCTGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.43, C:0.06, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:19533835 original size:10 final size:10
Alignment explanation
Indices: 19533822--19533856 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
19533812 GTCCAAGGGG
*
19533822 GAGAGAGAGA
1 GAGAGAGCGA
19533832 GAGAGAGCGA
1 GAGAGAGCGA
19533842 GAGAGAGCGA
1 GAGAGAGCGA
19533852 GAGAG
1 GAGAG
19533857 TGATCTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.43, C:0.06, G:0.51, T:0.00
Consensus pattern (10 bp):
GAGAGAGCGA
Found at i:19534754 original size:19 final size:20
Alignment explanation
Indices: 19534724--19534761 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
19534714 TTGTACCTCA
19534724 TTTTAACATATAAAAATAAT
1 TTTTAACATATAAAAATAAT
19534744 TTTTAAC-TATAAAAATAA
1 TTTTAACATATAAAAATAA
19534762 ATAAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
TTTTAACATATAAAAATAAT
Found at i:19545556 original size:46 final size:44
Alignment explanation
Indices: 19545452--19545559 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
19545442 TGTCTTTGAC
** * * *
19545452 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
19545496 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
19545542 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
19545560 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:19549023 original size:38 final size:38
Alignment explanation
Indices: 19548947--19549025 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
19548937 ATTACATCGT
* ** *
19548947 CAACAGAAGCTCATAAGAGCTGGTCCTCCCGAATACGC
1 CAACAAAAGCTCATAAGAGCTAATCCACCCGAATACGC
19548985 CAACAAAAGCTCGA-AAGAGCTAATCCACCC-AATCACGC
1 CAACAAAAGCTC-ATAAGAGCTAATCCACCCGAAT-ACGC
19549023 CAA
1 CAA
19549026 ACAGAAAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
37 3 0.09
38 31 0.89
39 1 0.03
ACGTcount: A:0.38, C:0.33, G:0.16, T:0.13
Consensus pattern (38 bp):
CAACAAAAGCTCATAAGAGCTAATCCACCCGAATACGC
Found at i:19553529 original size:13 final size:13
Alignment explanation
Indices: 19553511--19553544 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19553501 AATAAATATT
*
19553511 ATTTAATTAATTA
1 ATTTAATTAACTA
19553524 ATTTAATTAACTA
1 ATTTAATTAACTA
*
19553537 AATTAATT
1 ATTTAATT
19553545 TCTCAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTAATTAACTA
Found at i:19556525 original size:11 final size:11
Alignment explanation
Indices: 19556509--19556546 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
19556499 TTTATGAAAT
19556509 TTTAATTTTAA
1 TTTAATTTTAA
*
19556520 TTTAATTTTCA
1 TTTAATTTTAA
19556531 --TAATTTTAA
1 TTTAATTTTAA
19556540 TTTAATT
1 TTTAATT
19556547 ATACACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:19556556 original size:20 final size:20
Alignment explanation
Indices: 19556511--19556551 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19556501 TATGAAATTT
*
19556511 TAATTTTAATTTAATTTTCA
1 TAATTTTAATTTAATTTACA
19556531 TAATTTTAATTTAATTATACA
1 TAATTTTAATTTAATT-TACA
19556552 CATTTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATTTTAATTTAATTTACA
Found at i:19557929 original size:20 final size:18
Alignment explanation
Indices: 19557905--19557948 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
19557895 AAGTCATTTA
*
19557905 AAAAAACATATTCAAACATTT
1 AAAAAA-ATATT-AAA-AATT
19557926 AAAAAAATATTAAAAATT
1 AAAAAAATATTAAAAATT
19557944 AAAAA
1 AAAAA
19557949 GAAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 3 0.14
20 5 0.23
21 6 0.27
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAAATATTAAAAATT
Found at i:19567077 original size:13 final size:14
Alignment explanation
Indices: 19567053--19567084 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
19567043 AACAACACGC
19567053 AAGAAGCCAAGCAG
1 AAGAAGCCAAGCAG
19567067 AAGAA-CCAAGCAG
1 AAGAAGCCAAGCAG
19567080 AAGAA
1 AAGAA
19567085 ACAATAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.56, C:0.19, G:0.25, T:0.00
Consensus pattern (14 bp):
AAGAAGCCAAGCAG
Found at i:19568128 original size:26 final size:25
Alignment explanation
Indices: 19568098--19568189 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 25
19568088 TTAAAAATCT
*
19568098 GTTTTGTTATTATTATTTATTTTAA
1 GTTTTTTTATTATTATTTATTTTAA
19568123 GTTTTTTCT-TATATTATTTATTTTAA
1 GTTTTTT-TAT-TATTATTTATTTTAA
* *** * *
19568149 ATCACTTTATTATTATTTATGTTAT
1 GTTTTTTTATTATTATTTATTTTAA
19568174 GTTTTTTT-TGTATTAT
1 GTTTTTTTAT-TATTAT
19568190 GTGTTTAAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
24 1 0.02
25 31 0.60
26 20 0.38
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (25 bp):
GTTTTTTTATTATTATTTATTTTAA
Found at i:19568247 original size:26 final size:26
Alignment explanation
Indices: 19568218--19568349 Score: 88
Period size: 29 Copynumber: 4.7 Consensus size: 26
19568208 ATTTTAAAAT
19568218 TTTTAAACT-TTTATATATATTATTTA
1 TTTTAAACTCTTT-TATATATTATTTA
* *
19568244 TTTTGAATTA-TCTTTATATAGATATATTGTT
1 TTTT-AA--ACTCTTT-TATATAT-TATT-TA
* * *
19568275 TATTTAAACTGTTTTTGTACATTATTTA
1 T-TTTAAACT-CTTTTATATATTATTTA
*
19568303 TTTTAAATTTCTCTTTTACATATTATTTA
1 TTTTAAA---CTCTTTTATATATTATTTA
19568332 TTTTAAACTCTTTTATAT
1 TTTTAAACTCTTTTATAT
19568350 GTCATTTTAA
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
26 14 0.17
27 8 0.10
28 3 0.04
29 36 0.43
30 12 0.14
31 7 0.08
32 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.60
Consensus pattern (26 bp):
TTTTAAACTCTTTTATATATTATTTA
Found at i:19568356 original size:26 final size:27
Alignment explanation
Indices: 19568298--19568356 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
19568288 TTTGTACATT
*
19568298 ATTTATTTTAAATTTCTCTTTTACATATT
1 ATTTATTTTAAA--TCTCTTTTACATATC
* *
19568327 ATTTATTTTAAA-CTCTTTTATATGTC
1 ATTTATTTTAAATCTCTTTTACATATC
19568353 ATTT
1 ATTT
19568357 TAAAGTGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.56
29 12 0.44
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTTATTTTAAATCTCTTTTACATATC
Found at i:19570442 original size:53 final size:53
Alignment explanation
Indices: 19570361--19570511 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
19570351 CTTACACGGT
* *
19570361 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
19570416 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
19570469 TCACATTGCACCGATGCCACAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
19570512 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:19579049 original size:46 final size:45
Alignment explanation
Indices: 19578952--19579073 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 45
19578942 AATGAAGATG
* *
19578952 ATACAAATCCTATACCTTTGAGTTGCAGTGGGATGGATATAAAAT
1 ATACAAATCCTATACCCTTGAGTTGCAGTGGGATGGATAAAAAAT
19578997 GATACAAATCCTATACCCTTGAGTTGCAGTGGGATGGATGAAAGAAAT
1 -ATACAAATCCTATACCCTTGAGTTGCAGTGGGATGGAT-AAA-AAAT
**
19579045 -TACAAATTTTAT-CTCCTTGAAGTTGCAGT
1 ATACAAATCCTATAC-CCTTG-AGTTGCAGT
19579074 AGACCATATC
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
45 1 0.01
46 52 0.76
47 11 0.16
48 4 0.06
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (45 bp):
ATACAAATCCTATACCCTTGAGTTGCAGTGGGATGGATAAAAAAT
Found at i:19579226 original size:44 final size:44
Alignment explanation
Indices: 19579102--19579807 Score: 364
Period size: 44 Copynumber: 15.6 Consensus size: 44
19579092 CATGGCGAAT
* * * *
19579102 CTTATCTCCCTGAAGTTGCAATGGAGC-AGATTAAAGCCACAAGC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAG-TTGAAGTCACAAGC
*
19579146 CTTATCTCCCTGAGGTTA-AGTGGAGCAAGTTGAAGTCACAAGC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
*
19579189 TTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
*
19579233 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTTACAAGC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
* * * * *
19579277 CTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
* * * *
19579321 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTTAGAA-T-AGCGAA-T
1 CTTATCTCCCTGAAGTTACAGTGGAGCA-AGTT-GAAGTCA-C-AAGC
* * * * * *
19579366 CTTAT-TCATCTGAAGTTGCAGTGG-G-ATGGATTAAAATCATTAAAGC
1 CTTATCTC-CCTGAAGTTACAGTGGAGCA-AG-TTGAAGTCA--CAAGC
* * *
19579412 AAATATTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAAG-CACAAGC
1 ----CTTATCTCCCTGAAGTTACAGTGGAGCAAG-TT-GAAGTCACAAGC
* * * * * * *
19579460 CTTATCTTCCTGAAGTTGCAGTAGATCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
* * * * *
19579504 CTTATCTCTCTGAAGTTGCAGTGGAGC-AGACTGAAGGTAACGAA-T
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAG-TTGAA-GTCAC-AAGC
* * * * *
19579549 CTTATTTCCTTGAAGTTGCAGTGGAAC-AGATTGAAGCTACAAATTACAAAC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAG-TTGAAG-T-C-----ACAAGC
* * **
19579600 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAACCATGACAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGT---C---ACAAGC
** ** * * * *
19579650 CTTATCTCCCTGAAGTTGTAGTAAAG-TAGATTAAAG-CTATAAAC
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAG-TTGAAGTC-ACAAGC
* * * *
19579694 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
* * * * * **
19579738 CTTATCTCACTGAAGTTGCAGTGGGGCAGGCTGAAGAT-AGCAAAT
1 CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAG-TCA-CAAGC
* *
19579783 CTTATTTCCCTGAAGTGACAGTGGA
1 CTTATCTCCCTGAAGTTACAGTGGA
19579808 ACAAATTAAA
Statistics
Matches: 533, Mismatches: 88, Indels: 81
0.76 0.13 0.12
Matches are distributed among these distances:
43 42 0.08
44 285 0.53
45 90 0.17
46 8 0.02
48 4 0.01
49 1 0.00
50 63 0.12
51 38 0.07
52 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTCACAAGC
Found at i:19579460 original size:183 final size:182
Alignment explanation
Indices: 19579234--19579762 Score: 507
Period size: 183 Copynumber: 2.9 Consensus size: 182
19579224 GTCACAAGCC
* *
19579234 TTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGTTACAAGCCTTATCTTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGCAAGTTAAAGTCACAAGCCTTATCTTCCTGAAGTTGCAGT
* * *
19579299 GGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTTAGAA-TAGCG
66 AGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-CT-GAAGTAACG
19579363 AATCTTA-TTCATCTGAAGTTGCAGTGGGATGGATTAAAATCATTAAAGCAAATA
129 AATCTTATTTCAT-TGAAGTTGCAGTGGGATGGATTAAAATCATTAAAGCAAATA
*
19579417 TTATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAAG-CACAAGCCTTATCTTCCTGAAGTTGCA
1 TTATCTCCCTGAAGTTACAGTGGAGCAAG-TT-AAAGTCACAAGCCTTATCTTCCTGAAGTTGCA
* * *
19579480 GTAGATCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGGTAAC
64 GTAGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAA-GTAAC
* * ** ** **
19579545 GAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACA--AATTA-CAAACC
128 GAATCTTATTTCATTGAAGTTGCAGTGGGATGGATT-AAAAT-CATTAA--AGCAAATA
* * * ** *
19579601 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTAACCATGACAAATCTTATCTCCCTGAAGT
1 TTATCTCCCTGAAGTTACAGTGGAGCAAGTTAAAGT---C---ACAAGCCTTATCTTCCTGAAGT
* * * * * * * ** * **
19579666 TGTAGTAAAGTAGATTAAAGCTATAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGT
60 TGCAGTAGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGT
* * *
19579731 TAC-AAGTCTTATCTCACTGAAGTTGCAGTGGG
125 AACGAA-TCTTATTTCATTGAAGTTGCAGTGGG
19579763 GCAGGCTGAA
Statistics
Matches: 288, Mismatches: 40, Indels: 30
0.80 0.11 0.08
Matches are distributed among these distances:
181 3 0.01
182 3 0.01
183 138 0.48
184 42 0.15
185 4 0.01
187 1 0.00
188 2 0.01
189 26 0.09
190 69 0.24
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (182 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAAGTTAAAGTCACAAGCCTTATCTTCCTGAAGTTGCAGT
AGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAAGTAACGAA
TCTTATTTCATTGAAGTTGCAGTGGGATGGATTAAAATCATTAAAGCAAATA
Found at i:19579708 original size:234 final size:231
Alignment explanation
Indices: 19579190--19579821 Score: 661
Period size: 234 Copynumber: 2.7 Consensus size: 231
19579180 GTCACAAGCT
* ** * * *
19579190 TTATCTCCCTGAAGTTACAGTGGAGCA-AGTT-GAAGTCACAAGCCTTATCTCCCTGAAGTTACA
1 TTATCTCCCTGAAGTTGCAGTAAAGCAGA-TTAAAAG-CACAAACCTTATCTCCCTGAAGTTGCA
* * * *
19579253 GTGGAGCAAGTTGAAGTTACAAGCCTTATCT-TCCTGAAGTTGCAGTGGAGCAGGTTGAA-GTTA
64 GTGGAGCAGGTTGAAGTTACAAGTCTTATCTCT-CTGAAGTTGCAGTGGAGCAGGCTGAAGGTAA
* * * * *
19579316 CAAGTCTTATCTCCCTGAAGTTGCAGT-GAAGCAGATT----TAGAATAGCGAATCTTATTCATC
128 CAA-TCTTATTTCCCTGAAGTTGCAGTGGAA-CAGATTAAGCTAAAATAGCAAACCTTATTCACC
*
19579376 TGAAGTTGCAGTGGGATGGATTAAAATCATTAAAGCAAATA
191 TGAAGTTGCAGTGGGATGGATTAAAACCATTAAAGCAAATA
** * *
19579417 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCACAAGCCTTATCTTCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAAGCACAAACCTTATCTCCCTGAAGTTGCAGT
* * *
19579482 AGATCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGGTAACGA
66 GGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGGTAAC-A
*
19579547 ATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATTA-CAAACCTTATCTC-CC
130 ATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-AAGCTA-AAA-TAGCAAACCTTAT-TCACC
* *
19579610 TGAAGTTGCAGTGGAGCA-GG-TTGAAGTAACCA-T-GA-CAAATC
191 TGAAGTTGCAGTGG-G-ATGGATT-AA--AACCATTAAAGCAAATA
* * *
19579651 TTATCTCCCTGAAGTTGTAGTAAAGTAGATT-AAAGCTATAAACCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAAGC-ACAAACCTTATCTCCCTGAAGTTGCAG
* * * *
19579715 TGGAGCAGGTTGAAGTTACAAGTCTTATCTCACTGAAGTTGCAGTGGGGCAGGCTGAAGATAGCA
65 TGGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGGTAAC-
*
19579780 AATCTTATTTCCCTGAAG-TGACAGTGGAACAAATTAAAGCTA
129 AATCTTATTTCCCTGAAGTTG-CAGTGGAACAGATT-AAGCTA
19579822 TGAGTTACAA
Statistics
Matches: 346, Mismatches: 38, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
227 104 0.30
228 36 0.10
229 5 0.01
233 9 0.03
234 176 0.51
235 10 0.03
236 2 0.01
237 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (231 bp):
TTATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAAGCACAAACCTTATCTCCCTGAAGTTGCAGT
GGAGCAGGTTGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGGCTGAAGGTAACAA
TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAGCTAAAATAGCAAACCTTATTCACCTGAAG
TTGCAGTGGGATGGATTAAAACCATTAAAGCAAATA
Found at i:19580230 original size:18 final size:17
Alignment explanation
Indices: 19580189--19580231 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
19580179 TTACAAGCCC
*
19580189 AAACCCTAAACCTAAAT
1 AAACCCTAAACCCAAAT
* *
19580206 TAACCCTAAGCCCAAACT
1 AAACCCTAAACCCAAA-T
19580224 AAACCCTA
1 AAACCCTA
19580232 GCCAACAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.16
Consensus pattern (17 bp):
AAACCCTAAACCCAAAT
Found at i:19580373 original size:13 final size:14
Alignment explanation
Indices: 19580349--19580380 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
19580339 AACAACATAC
19580349 AAGAAGCCAAGCAG
1 AAGAAGCCAAGCAG
19580363 AAGAA-CCAAGCAG
1 AAGAAGCCAAGCAG
19580376 AAGAA
1 AAGAA
19580381 ACAATAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.56, C:0.19, G:0.25, T:0.00
Consensus pattern (14 bp):
AAGAAGCCAAGCAG
Found at i:19581467 original size:28 final size:29
Alignment explanation
Indices: 19581400--19581467 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
19581390 AAAAAACTGT
* ***
19581400 TTTGTTATTATTATTTATTTTAAGTTTTT
1 TTTGTTATTATTATTTATTTTAAGATCAC
*
19581429 TTTCTTA-TATTATTTATTTTAA-ATCAC
1 TTTGTTATTATTATTTATTTTAAGATCAC
19581456 TTTGTTATTATT
1 TTTGTTATTATT
19581468 TATGTTATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 7 0.22
28 19 0.59
29 6 0.19
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (29 bp):
TTTGTTATTATTATTTATTTTAAGATCAC
Found at i:19581563 original size:29 final size:28
Alignment explanation
Indices: 19581530--19581636 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 28
19581520 TTTTTAAACT
19581530 TTTATATATATTATTTATTTTGAATTATC
1 TTTATATATATTATTTATTTTGAATT-TC
* *
19581559 TTTATATATATATATTT-TATTTAAACTGT-
1 TTTATATATAT-TATTTAT-TTTGAA-TTTC
* *
19581588 TTT-TGTACATTATTTATTTTGAATTTC
1 TTTATATATATTATTTATTTTGAATTTC
* *
19581615 TCTTTTACATATTATTTATTTT
1 T-TTATATATATTATTTATTTT
19581637 AAACTCTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
26 2 0.03
27 11 0.18
28 8 0.13
29 29 0.47
30 11 0.18
31 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (28 bp):
TTTATATATATTATTTATTTTGAATTTC
Found at i:19581603 original size:57 final size:55
Alignment explanation
Indices: 19581521--19581649 Score: 154
Period size: 57 Copynumber: 2.3 Consensus size: 55
19581511 ATTTTAAATT
* * *
19581521 TTTTAAACTTTTATATATATTATTTATTTTGAATTATCT-TTATATATATATATTT-
1 TTTTAAACTTTTTTATACATTATTTATTTTGAATT-TCTCTTATACATAT-TATTTA
* *
19581576 TATTTAAACTGTTTTTGTACATTATTTATTTTGAATTTCTCTTTTACATATTATTTA
1 T-TTTAAACT-TTTTTATACATTATTTATTTTGAATTTCTCTTATACATATTATTTA
*
19581633 TTTTAAACTCTTTTATA
1 TTTTAAACTTTTTTATA
19581650 TGTCATTTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
55 7 0.11
56 24 0.38
57 32 0.51
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (55 bp):
TTTTAAACTTTTTTATACATTATTTATTTTGAATTTCTCTTATACATATTATTTA
Found at i:19581657 original size:22 final size:22
Alignment explanation
Indices: 19581632--19581679 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
19581622 CATATTATTT
* *
19581632 ATTTTAAACTCTTTTATATGTC
1 ATTTTAAACTCTCTTATATATC
* *
19581654 ATTTTAAAGTGTCTTATATATC
1 ATTTTAAACTCTCTTATATATC
19581676 ATTT
1 ATTT
19581680 ATTTTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (22 bp):
ATTTTAAACTCTCTTATATATC
Found at i:19581685 original size:27 final size:27
Alignment explanation
Indices: 19581655--19581711 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
19581645 TTATATGTCA
19581655 TTTTAAAGTG-TCTTATATATCATTTAT
1 TTTTAAAGTGCT-TTATATATCATTTAT
* * *
19581682 TTTTAAATTGCTTTGTATATTATTTAT
1 TTTTAAAGTGCTTTATATATCATTTAT
19581709 TTT
1 TTT
19581712 AATATTGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.61
Consensus pattern (27 bp):
TTTTAAAGTGCTTTATATATCATTTAT
Found at i:19585425 original size:30 final size:30
Alignment explanation
Indices: 19585391--19585450 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
19585381 TTCCCAAGGC
19585391 TAGGGGCAAAA-GTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTTTGCAAAAGTT
*
19585421 TAGGGGCAAAATGGTAATTTTTCAAAAGTT
1 TAGGGGCAAAATGGTAATTTTGCAAAAGTT
19585451 CGTATTAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTTTGCAAAAGTT
Found at i:19585966 original size:82 final size:82
Alignment explanation
Indices: 19585870--19586029 Score: 248
Period size: 82 Copynumber: 2.0 Consensus size: 82
19585860 AGGATATTTG
* * * *
19585870 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCATTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
19585935 TTGAGTCCGAGTTACTA
66 TTGAGTCCGAGTTACTA
* * *
19585952 GGCATCCAAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGATCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
19586017 TTGAGTTCGAGTT
66 TTGAGTCCGAGTT
19586030 CGTTTATGGG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (82 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTACTA
Found at i:19587928 original size:17 final size:17
Alignment explanation
Indices: 19587908--19587942 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
19587898 AACCTAACCC
*
19587908 AAAAAAAA-ACAAAGAA
1 AAAAAAAAGAAAAAGAA
19587924 AAAAAAAAGAAAAAGAA
1 AAAAAAAAGAAAAAGAA
19587941 AA
1 AA
19587943 CTTACCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAA
Found at i:19595937 original size:71 final size:69
Alignment explanation
Indices: 19595743--19596006 Score: 323
Period size: 71 Copynumber: 3.7 Consensus size: 69
19595733 GAGTTAAGCC
* *
19595743 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
19595808 GAGGTAT
63 GAGGTAT
* * ** * *
19595815 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
19595879 AGGTAT
64 AGGTAT
*
19595885 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
19595950 AGGTAT
64 AGGTAT
* * ** * *
19595956 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
19596007 TTTAATTTTT
Statistics
Matches: 166, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
69 35 0.21
70 56 0.34
71 59 0.36
72 16 0.10
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:19596051 original size:122 final size:124
Alignment explanation
Indices: 19595885--19596131 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 124
19595875 GTTGAGGTAT
19595885 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
* *
19595950 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* * *
19596006 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACT
* * * *
19596071 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
19596131 T
1 T
19596132 CAGGTCACGC
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
121 12 0.11
122 59 0.52
123 1 0.01
124 13 0.12
125 28 0.25
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:19596092 original size:263 final size:257
Alignment explanation
Indices: 19595576--19596168 Score: 1033
Period size: 263 Copynumber: 2.3 Consensus size: 257
19595566 TTTCAAGGAA
*
19595576 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
19595641 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTAGT
19595706 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
19595771 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
19595833 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
19595898 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACACTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTA---TT--T
19595963 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
126 TTA-GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
19596028 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
19596093 TTT
255 TTT
* * * * * *
19596096 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
19596161 GTTTTCAA
64 GTTTTCAA
19596169 TTTACGTTGT
Statistics
Matches: 319, Mismatches: 9, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
257 119 0.37
260 2 0.01
262 4 0.01
263 131 0.41
265 63 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.37
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACACTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:19596127 original size:72 final size:71
Alignment explanation
Indices: 19596006--19596446 Score: 297
Period size: 72 Copynumber: 6.1 Consensus size: 71
19595996 GAGTTAAGCC
*
19596006 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
19596070 TGAGGTA
65 TGAGGTA
** * *
19596077 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
19596142 TGAGGTA
65 TGAGGTA
* * ** * * * * ** * *** *
19596149 TTTTCAATTTCTG-TTTT-CAATTTACGT--TGTT-CAAGA-ATCAACTCATATTGCGAGAGGTA
1 TTTTCAATTTTTGTTTTTAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT-CG-G-GGCA
* * ***
19596208 GGTTGA-ACC
62 CGCTGAGGTA
** * * *
19596217 TTTT-AATTTCTACTTTTTCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTTTCAATTT-TTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACG
19596281 CTGAGGTA
64 CTGAGGTA
* * ** * *
19596289 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTTTGTT-T--TTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
19596354 GCTGAGGTA
63 GCTGAGGTA
* ** * * **
19596363 TTTTCAATTTTTATGTTTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACAC
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GG-GGCAC
*
19596428 GCCGAGGTA
63 GCTGAGGTA
19596437 TTTTCAATTT
1 TTTTCAATTT
19596447 CCGTTTTTCA
Statistics
Matches: 269, Mismatches: 79, Indels: 41
0.69 0.20 0.11
Matches are distributed among these distances:
66 5 0.02
67 10 0.04
68 8 0.03
69 13 0.05
70 6 0.02
71 15 0.06
72 109 0.41
73 16 0.06
74 86 0.32
75 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:19596429 original size:74 final size:74
Alignment explanation
Indices: 19596236--19596447 Score: 250
Period size: 74 Copynumber: 2.9 Consensus size: 74
19596226 CTACTTTTTC
* *
19596236 AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
19596301 GTTGTCAAA
66 GTTGTCAAA
* * * *
19596310 AAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
***
19596374 -TATGT-TTT
66 GT-TGTCAAA
** * * *
19596382 AATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATTT
19596447 C
64 C
19596448 CGTTTTTCAA
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
72 34 0.29
73 4 0.03
74 78 0.67
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCT
GTTGTCAAA
Found at i:19596578 original size:74 final size:75
Alignment explanation
Indices: 19596472--19597144 Score: 260
Period size: 77 Copynumber: 8.5 Consensus size: 75
19596462 TGTCTTTCAA
* *
19596472 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTAATTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
19596536 TTCTGTTGTC
66 TTCTGTTGTC
* * *
19596546 AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACACGCCGAGGTAATTTCAA
* *
19596611 TTTCCGTTTTTC
65 TTTCTG-TTGTC
*** * *
19596623 AATTTTTGCCTTTCAAAAA--AA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 AA------------AAAAATCAACTC-A-T-ATTGCGAGAG--GCGAGTTGAGCCTCAGGCACAC
*
19596684 GCTGAGGTAATTTCAATTTCTGTTGTC
49 GCCGAGGTAATTTCAATTTCTGTTGTC
* * * * * *
19596711 AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCACACGCCGAGGTAATTTCAA
*
19596776 TTTCCAT-TTTTC
65 TTT-C-TGTTGTC
** * * * * *
19596788 AATTTCTGCTTTCAAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTC-GGGAC
1 AA-----------AAAAATCAACTCATATTGCGAGA--G-G-C----GAGTTGAGCCTCAGGCAC
* *
19596849 ACGCTGAGGTAATTTCAATTTCTGTTTTC
47 ACGCCGAGGTAATTTCAATTTCTGTTGTC
* *** * * ** *
19596878 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAG-ACACGTTGAGGTATTTTCAAT
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
*
19596940 TTCTGTTTTC
66 TTCTGTTGTC
* * * * * * * *
19596950 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA--CGCCGAGGTAATTTCA
* *
19597013 ATTTCTATCTTTC
64 ATTTCTGT-TGTC
* * * * * *
19597026 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG-GCACACGCCGAGGTA--ATTTC
* * *
19597091 AATTTATATTTTTC
63 AATTTCT-GTTGTC
* * *
19597105 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTC
1 AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTC
19597145 GGGTTACATG
Statistics
Matches: 458, Mismatches: 79, Indels: 119
0.70 0.12 0.18
Matches are distributed among these distances:
72 41 0.09
73 35 0.08
74 56 0.12
75 21 0.05
76 57 0.12
77 66 0.14
78 6 0.01
79 58 0.13
80 3 0.01
85 2 0.00
86 3 0.01
87 5 0.01
88 16 0.03
89 34 0.07
90 6 0.01
91 36 0.08
92 1 0.00
93 12 0.03
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (75 bp):
AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACACGCCGAGGTAATTTCAAT
TTCTGTTGTC
Found at i:19596611 original size:167 final size:166
Alignment explanation
Indices: 19596307--19596948 Score: 933
Period size: 165 Copynumber: 3.9 Consensus size: 166
19596297 TTCTGTTGTC
* * * * *
19596307 AAAAAAATCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*** *
19596372 T-T-TATGT-TTTAATTTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAG
66 TCTGT-TGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAG
19596434 GTATTTTCAATTTCCGTTTTTCAATTTTTGTCTTTCAA
130 GTATTTTCAATTTCCGTTTTTCAATTTTTG-CTTTCAA
19596472 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *
19596537 TCTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
66 TCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
19596602 TATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTC--
131 TATTTTCAATTTCCGTTTTTCAATTTTTG-CTTTCAA
19596637 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * * *
19596702 TCTGTTGTCAAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGG
66 TCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
* *
19596767 TATTTTCAATTTCCATTTTTCAATTTCTGCTTTCAAA
131 TATTTTCAATTTCCGTTTTTCAATTTTTGCTTTC-AA
*
19596804 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * *** * * **
19596869 TCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAG--ACACGTTGAGG
66 TCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
*
19596930 TATTTTCAATTTCTGTTTT
131 TATTTTCAATTTCCGTTTT
19596949 CAAAAAATCA
Statistics
Matches: 440, Mismatches: 31, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
163 27 0.06
164 5 0.01
165 247 0.56
166 4 0.01
167 157 0.36
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (166 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TCTGTTGTCAAAAAATTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGG
TATTTTCAATTTCCGTTTTTCAATTTTTGCTTTCAA
Found at i:19596724 original size:239 final size:225
Alignment explanation
Indices: 19596473--19597144 Score: 567
Period size: 239 Copynumber: 2.8 Consensus size: 225
19596463 GTCTTTCAAA
19596473 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
* * * *
19596538 CTGTTGTCAAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
66 CTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGT
* **
19596603 ATTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
130 ATTTT-AA--------TTTCAATTTCTG-CTTTC--AAAAATCAACTCATATTGCGAGAAATGAG
* *
19596668 TTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTC
183 TTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC
* *
19596711 AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCA-GATCACACGTCGAGGTATTTTCA
1 AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA-CACGC-T-GAGG-----T--
19596775 ATTTCCATTTTTCAATTTCTGCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
55 A-----A--TTTCAATTTCTG-TTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
19596840 CCTC-GG-GACACGCTGAGG-----TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCG
109 CCTCAGGTCACACGCTGAGGTATTTTAATTTCAATTTCTGCTTTCAAAAATCAACTCATATTGCG
* * *
19596898 AGAAATGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC
174 AGAAATGAGTTGAACCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTGTC
* * * * * *
19596950 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCTCATGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACA--CGCTGAGGTAATTTCAA
* * * *
19597014 TTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTG
63 TTTC--TGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTG
* ** * ** *
19597079 AGGTA-TTT--TTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAG
126 AGGTATTTTAATTTCAATTTCT-GCTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAA
19597141 CCTC
188 CCTC
19597145 GGGTTACATG
Statistics
Matches: 360, Mismatches: 37, Indels: 83
0.75 0.08 0.17
Matches are distributed among these distances:
222 39 0.11
223 1 0.00
224 20 0.06
225 4 0.01
226 11 0.03
227 5 0.01
228 1 0.00
229 33 0.09
231 1 0.00
233 1 0.00
238 43 0.12
239 108 0.30
240 3 0.01
241 8 0.02
242 11 0.03
246 1 0.00
248 1 0.00
250 2 0.01
251 1 0.00
253 1 0.00
255 14 0.04
256 12 0.03
257 2 0.01
258 37 0.10
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (225 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA
TTTTAATTTCAATTTCTGCTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGA
CACGCTGAGGTAATTTCAATTTCTGTTGTC
Found at i:19596907 original size:72 final size:73
Alignment explanation
Indices: 19596805--19597310 Score: 404
Period size: 79 Copynumber: 6.5 Consensus size: 73
19596795 GCTTTCAAAA
*
19596805 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
19596870 CTGTTTTC
66 CTGTTTTC
* ** * ** *
19596878 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
19596942 CTGTTTTC
66 CTGTTTTC
* * * ** *
19596950 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
19597015 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
19597026 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
19597091 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
19597105 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTC-
* *
19597169 AAATCTATTTTTCAAATTCTGTTTT
61 --A---A--TTTC----TGT-TTTC
* * * ** *
19597194 CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC--GCTGAGGTATTTTCAAT
19597259 TTCTGTTTTTTTTC
64 TTCTG----TTTTC
19597273 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
19597311 TTTTTAATTT
Statistics
Matches: 345, Mismatches: 53, Indels: 62
0.75 0.12 0.13
Matches are distributed among these distances:
72 64 0.19
73 34 0.10
75 21 0.06
76 5 0.01
77 48 0.14
78 3 0.01
79 67 0.19
80 12 0.03
81 29 0.08
82 1 0.00
83 1 0.00
85 4 0.01
86 2 0.01
88 49 0.14
89 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:19597109 original size:79 final size:76
Alignment explanation
Indices: 19596783--19597520 Score: 431
Period size: 88 Copynumber: 9.2 Consensus size: 76
19596773 CAATTTCCAT
* *
19596783 TTTTCAATTTCTGCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-G
1 TTTTCAATTTCTGTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
*
19596846 GACACGCTGAGGTA
63 CACACGCTGAGGTA
* * ** * *
19596860 ATTTCAATTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAACCTCA-A-GAC
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
*
19596921 ACGTTGAGGTA
66 ACGCTGAGGTA
* * ** * *
19596932 TTTTCAATTTCTGTTTTC-AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCAT
1 TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
* *
19596996 GCGCTGAGCTA
66 ACGCTGAGGTA
* *
19597007 TTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
1 TTTTCAATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
*
19597072 CACACTGAGGTA
65 CACGCTGAGGTA
* * * * * *
19597084 TTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 --TTTTCAATTTCT-GTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAT
* *
19597149 TACATG-TCGAGGTA
63 CACACGCT-GAGGTA
** * *
19597163 TTTTCAAAATCTATTTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCT-GTTTTC-AA----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * ** *
19597228 GCCTTGGCTCACGTGCTGAGCTA
54 GCCTCAGATCACACGCTGAGGTA
* *
19597251 TTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTT
1 TTTTCAATTTCTG----TTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTC
* * * *
19597316 A-ATTTCTGCGAGAGTTGAGTTGA
59 AGA--TC-AC-A-CGCTGAGGT-A
* *
19597339 GTCTTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-
1 -T-TTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGA
**
19597401 TCACA-TATCGAGGTA
62 TCACACGCT-GAGGTA
**
19597416 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTG-TTTTC------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * * *
19597481 GCCTTGGCTCACGCGCTGAGCTA
54 GCCTCAGATCACACGCTGAGGTA
19597504 TTTTCAATTTCTGTTTT
1 TTTTCAATTTCTGTTTT
19597521 TAATGTCTGT
Statistics
Matches: 520, Mismatches: 85, Indels: 102
0.74 0.12 0.14
Matches are distributed among these distances:
72 64 0.12
73 32 0.06
75 36 0.07
76 5 0.01
77 81 0.16
78 7 0.01
79 64 0.12
80 7 0.01
81 31 0.06
82 1 0.00
83 3 0.01
84 31 0.06
85 6 0.01
87 17 0.03
88 114 0.22
89 3 0.01
90 13 0.03
91 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
TTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
ACGCTGAGGTA
Found at i:19597328 original size:30 final size:30
Alignment explanation
Indices: 19597292--19597353 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
19597282 CAACTCATAT
19597292 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
19597322 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
19597352 TG
1 TG
19597354 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:19597454 original size:253 final size:247
Alignment explanation
Indices: 19596944--19597521 Score: 758
Period size: 253 Copynumber: 2.3 Consensus size: 247
19596934 TTCAATTTCT
* * *
19596944 GTTTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* *
19597009 TTCAATTTC---TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
66 TTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
* *
19597071 ACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAG
131 ACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAG
* ** * * * **
19597136 TTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTATTTTTCAAATTCT
195 TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
* *
19597189 GTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
*
19597253 TTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-
66 TTCAATTTCTGTTTTTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAG
* * * * * * *
19597317 ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCG
128 A--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCG
* *
19597380 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAA
186 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
19597442 G-TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
19597506 TTCAATTTCTGTTTTT
66 TTCAATTTCTGTTTTT
19597522 AATGTCTGTT
Statistics
Matches: 290, Mismatches: 29, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
244 62 0.21
245 6 0.02
247 13 0.04
248 30 0.10
249 1 0.00
250 3 0.01
251 2 0.01
252 5 0.02
253 145 0.50
254 5 0.02
255 13 0.04
256 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (247 bp):
GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
TTCAATTTCTGTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
ACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGT
TGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTACTTTTCAAATTAA
Found at i:19598185 original size:17 final size:17
Alignment explanation
Indices: 19598165--19598201 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19598155 AACCTAACCC
*
19598165 AAAAAAAAA-ACAAAGA
1 AAAAAAAAAGAAAAAGA
19598181 AAAAAAAAAGAAAAAGA
1 AAAAAAAAAGAAAAAGA
19598198 AAAA
1 AAAA
19598202 CTTACCCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAGAAAAAGA
Found at i:19598200 original size:11 final size:11
Alignment explanation
Indices: 19598168--19598201 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
19598158 CTAACCCAAA
19598168 AAAAAAACAAAG
1 AAAAAAA-AAAG
19598180 AAAAAAAAAAG
1 AAAAAAAAAAG
19598191 AAAAAGAAAAA
1 AAAAA-AAAAA
19598202 CTTACCCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:19598216 original size:16 final size:16
Alignment explanation
Indices: 19598197--19598233 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19598187 AAAGAAAAAG
*
19598197 AAAAACTTACCCCAAA
1 AAAAACTAACCCCAAA
*
19598213 AAAACCTAACCCCAAA
1 AAAAACTAACCCCAAA
19598229 AAAAA
1 AAAAA
19598234 AAAGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.62, C:0.30, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAACTAACCCCAAA
Found at i:19598947 original size:27 final size:27
Alignment explanation
Indices: 19598917--19598997 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
19598907 AACTATTATT
19598917 ATATTAGTGTATATTTTATGTACATAC
1 ATATTAGTGTATATTTTATGTACATAC
* ** * *
19598944 ATA-TA---TATATTATAACTA-TTATT
1 ATATTAGTGTATATTTTATGTACATA-C
19598967 ATATTAGTGTATATTTTATGTACATAC
1 ATATTAGTGTATATTTTATGTACATAC
19598994 ATAT
1 ATAT
19598998 ATATATATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
22 2 0.05
23 13 0.34
24 2 0.05
26 2 0.05
27 17 0.45
28 2 0.05
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.49
Consensus pattern (27 bp):
ATATTAGTGTATATTTTATGTACATAC
Found at i:19598961 original size:50 final size:50
Alignment explanation
Indices: 19598901--19599008 Score: 207
Period size: 50 Copynumber: 2.1 Consensus size: 50
19598891 TTGCTAGTAT
19598901 TATTATAACTATTATTATATTAGTGTATATTTTATGTACATACATATATA
1 TATTATAACTATTATTATATTAGTGTATATTTTATGTACATACATATATA
19598951 TATTATAACTATTATTATATTAGTGTATATTTTATGTACATACATATATA
1 TATTATAACTATTATTATATTAGTGTATATTTTATGTACATACATATATA
19599001 TATATATA
1 TAT-TATA
19599009 TATTTGTACA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 53 0.93
51 4 0.07
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (50 bp):
TATTATAACTATTATTATATTAGTGTATATTTTATGTACATACATATATA
Found at i:19603255 original size:11 final size:11
Alignment explanation
Indices: 19603238--19603288 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
19603228 TCAAAAATAG
19603238 ATAAAAATCAAA
1 ATAAAAAT-AAA
* *
19603250 ATAAAATTTAA
1 ATAAAAATAAA
19603261 ATAAAAATAAAA
1 ATAAAAAT-AAA
19603273 ATAATAAAT-AA
1 ATAA-AAATAAA
19603284 ATAAA
1 ATAAA
19603289 GGGACTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 1 0.03
11 15 0.45
12 13 0.39
13 4 0.12
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:19603268 original size:6 final size:6
Alignment explanation
Indices: 19603238--19603284 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
19603228 TCAAAAATAG
* **
19603238 ATAAAA ATCAAA AT-AAA ATTTAA ATAAAA ATAAAA ATAATAA ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA-AA ATAAA
19603285 TAAAGGGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 5 0.14
6 24 0.69
7 6 0.17
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:19603284 original size:23 final size:22
Alignment explanation
Indices: 19603230--19603288 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
19603220 ATAAGTCTTC
* *
19603230 AAAAATAGATAAAAATCAAAAT
1 AAAAATAAATAAAAATAAAAAT
*
19603252 AAAATTTAAATAAAAATAAAAAT
1 AAAA-ATAAATAAAAATAAAAAT
19603275 AATAAATAAATAAA
1 AA-AAATAAATAAA
19603289 GGGACTCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 4 0.13
23 25 0.81
24 2 0.06
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAAATAAATAAAAATAAAAAT
Found at i:19603941 original size:33 final size:33
Alignment explanation
Indices: 19603899--19603972 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
19603889 TATACCACAC
*
19603899 GCCCGTGTGTCTGAACACACGGCCGTGTGCCTT
1 GCCCGTGTGTCTGAACACACGGCCGTGGGCCTT
19603932 GCCCGTGTGTCTGAACACACGGCCGTGGGCCTT
1 GCCCGTGTGTCTGAACACACGGCCGTGGGCCTT
19603965 GCCCGTGT
1 GCCCGTGT
19603973 AACTCTCTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.11, C:0.34, G:0.32, T:0.23
Consensus pattern (33 bp):
GCCCGTGTGTCTGAACACACGGCCGTGGGCCTT
Found at i:19604367 original size:29 final size:30
Alignment explanation
Indices: 19604320--19604387 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
19604310 TGGCCCAAGA
* *
19604320 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
19604350 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
19604380 GCAAATAT
1 GTAAATAT
19604388 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:19606547 original size:46 final size:46
Alignment explanation
Indices: 19606496--19606773 Score: 369
Period size: 46 Copynumber: 6.0 Consensus size: 46
19606486 GTGTGCTCTC
** *
19606496 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
19606542 TGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
19606588 TGATATGAAATGAATAAGACCATAGTTGAAAGTTACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** *
19606634 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
19606680 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
19606726 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
19606772 TG
1 TG
19606774 TCAAAGATAA
Statistics
Matches: 207, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 206 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:19606653 original size:92 final size:92
Alignment explanation
Indices: 19606496--19606768 Score: 420
Period size: 92 Copynumber: 3.0 Consensus size: 92
19606486 GTGTGCTCTC
** * * * *
19606496 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
19606561 CCATGGTTGAAAGACACCATGGCAACG
66 CCATGGTTGAAAGACACCATGGCAACG
* * * *
19606588 TGATATGAAATGAATAAGACCATAGTTGAAAGTTACCATGGCAACATGACGGGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
*
19606653 CCATGGTTGAAAGATACCATGGCAACG
66 CCATGGTTGAAAGACACCATGGCAACG
*
19606680 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
* *
19606745 CCATAGTTGAAAGACACTATGGCA
66 CCATGGTTGAAAGACACCATGGCA
19606769 TCATGTCAAA
Statistics
Matches: 162, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
92 162 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGA
CCATGGTTGAAAGACACCATGGCAACG
Found at i:19606767 original size:138 final size:138
Alignment explanation
Indices: 19606510--19606773 Score: 413
Period size: 138 Copynumber: 1.9 Consensus size: 138
19606500 ATGAAATGTG
**
19606510 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
* * **
19606575 CACCATGGCAACGTGATATGAAATGAATAAGACCATAGTTGAAAGTTACCATGGCAACATGACGG
66 CACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
19606640 GAAATGAA
131 GAAATGAA
*
19606648 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
* * * *
19606713 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 CACCATGGCAACATGACATG-AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
19606774 TCAAAGATAA
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 113 0.99
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
CACCATGGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATGAA
Found at i:19616029 original size:129 final size:128
Alignment explanation
Indices: 19615845--19616165 Score: 409
Period size: 129 Copynumber: 2.5 Consensus size: 128
19615835 ATTAATTTTT
* *
19615845 TTTTAAAACGAAGGCAACGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTT
1 TTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTT
* * *
19615910 GCAA-TTTCTTGTTTATTCAAAATAATCGAATAAT-CTTTTGGAATTTCACTCATGTCTTTAAAA
66 GCAATTTTC-CGTTTATTCAAAATAATCGAAT-ATCCCTTTAGAATTTCACTCATGT-TTTAAAA
19615973 A
128 A
19615974 TTTTAAAACGAAGGTAATGTTCGATGTTTGGCAACTT-GGGGAATCGTGCCCTATCGTGCTGGGT
1 TTTTAAAACGAAGGTAATGTTCGATGTTTGGCAA-TTCGGGGAATCGTGCCCTATCGTGCTGGGT
* * ***
19616038 TGCAATTTTCCGTTTGTTCAAAATGATCGAATATCCCTTTAGAATTTCACTCATGTTTTCTGAA
65 TGCAATTTTCCGTTTATTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTTTAAAAA
* * * * * * *
19616102 TTCTAAAA-TAAGGTAATGTTCGATATCTAGAAATTCGAGGAATCGTGCCCTA-CTGTGCTGGGT
1 TTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC-GTGCTGGGT
19616165 T
65 T
19616166 TCGGTTTTCT
Statistics
Matches: 170, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
126 3 0.02
127 45 0.26
128 14 0.08
129 102 0.60
130 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (128 bp):
TTTTAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTT
GCAATTTTCCGTTTATTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGTTTTAAAAA
Found at i:19620090 original size:2 final size:2
Alignment explanation
Indices: 19620083--19620113 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19620073 GTAATTTTAA
19620083 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19620114 AGTTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.