Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 88 of 189
Found at i:24211410 original size:3 final size:3
Alignment explanation
Indices: 24211402--24211444 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
24211392 ATATGTAGGT
* *
24211402 ATA ATA ATA TATA AT- ATA ATA ATA ATT ATA ATA ATA AAA ATA A
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24211445 CAAACAATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:24215978 original size:46 final size:44
Alignment explanation
Indices: 24215887--24215980 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 44
24215877 ATTACAACAT
24215887 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
24215931 CATTCCATTCAACC-AA-ATAATTGAATTACTGATTACAGTTTTATTC
1 CATTCCATTCAACCAAACATAA--GAA-TACT-ATTACAGTTTTATTC
24215977 CATT
1 CATT
24215981 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
42 4 0.09
43 2 0.04
44 17 0.37
45 4 0.09
46 19 0.41
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.37
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
Found at i:24215983 original size:16 final size:16
Alignment explanation
Indices: 24215962--24216013 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
24215952 TGAATTACTG
* * *
24215962 ATTACAGTTTTATTCC
1 ATTACAGCTCTATTCA
24215978 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
24215994 ATTACAACTCTATTCT
1 ATTACAGCTCTATTCA
24216010 ATTA
1 ATTA
24216014 TAGTAAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.21, G:0.04, T:0.44
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:24229341 original size:26 final size:26
Alignment explanation
Indices: 24229312--24229372 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 26
24229302 TATCCCTAGC
*
24229312 AAAATTTTGATGATTTT-ACCCTGTT
1 AAAATTTTGATGATTTTGACCCTGGT
* *
24229337 AAAAATTTGATGATTTTGGCCCTGGT
1 AAAATTTTGATGATTTTGACCCTGGT
24229363 AAAATTTTGA
1 AAAATTTTGA
24229373 GAAAATAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.52
26 15 0.48
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (26 bp):
AAAATTTTGATGATTTTGACCCTGGT
Found at i:24232591 original size:7 final size:7
Alignment explanation
Indices: 24232579--24232618 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
24232569 ATTTTTATAG
24232579 AAAAATA
1 AAAAATA
24232586 AAAAAT-
1 AAAAATA
24232592 -AAAATA
1 AAAAATA
24232598 GAAAAATA
1 -AAAAATA
24232606 AAAAATA
1 AAAAATA
24232613 AAAAAT
1 AAAAAT
24232619 TCAAACTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:24232600 original size:20 final size:20
Alignment explanation
Indices: 24232575--24232615 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
24232565 AAGTATTTTT
24232575 ATAGAAAAATAAAAAATAAA
1 ATAGAAAAATAAAAAATAAA
24232595 ATAGAAAAATAAAAAATAAA
1 ATAGAAAAATAAAAAATAAA
24232615 A
1 A
24232616 AATTCAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAGAAAAATAAAAAATAAA
Found at i:24232602 original size:13 final size:12
Alignment explanation
Indices: 24232580--24232618 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
24232570 TTTTTATAGA
24232580 AAAATAAAAAAT
1 AAAATAAAAAAT
24232592 AAAATAGAAAAAT
1 AAAATA-AAAAAT
24232605 AAAAAATAAAAAAT
1 --AAAATAAAAAAT
24232619 TCAAACTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.25
13 6 0.25
14 6 0.25
15 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:24244477 original size:108 final size:108
Alignment explanation
Indices: 24244172--24244460 Score: 471
Period size: 107 Copynumber: 2.7 Consensus size: 108
24244162 ATATTTGGCA
* * * * * *
24244172 ATTTGGTTAAACGAG-AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACGC
1 ATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCAAATGC
24244235 AAAACATTGCCTCATTGTAAAATTTTTAAAAGGATATTAAGTC
66 AAAACATTGCCTCATTGTAAAATTTTTAAAAGGATATTAAGTC
24244278 ATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAA-TTTCTAAATG
1 ATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTC-AAATG
24244342 CAAAACATTGCCTCATTGTAAAATTTTTAAAAGGATATTAAG-C
65 CAAAACATTGCCTCATTGTAAAATTTTTAAAAGGATATTAAGTC
24244385 TATTTGG-TAAACGAGAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCAAATG
1 -ATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCAAATG
24244449 CAAAACATTGCC
65 CAAAACATTGCC
24244461 CTTTTTGAAA
Statistics
Matches: 172, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
106 15 0.09
107 93 0.54
108 64 0.37
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (108 bp):
ATTTGGTTAAACGAGAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCAAATGC
AAAACATTGCCTCATTGTAAAATTTTTAAAAGGATATTAAGTC
Found at i:24244948 original size:27 final size:28
Alignment explanation
Indices: 24244917--24244971 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 28
24244907 TAAGGAAAAT
* *
24244917 ATATATAG-ATCT-AAATGTATATATAA
1 ATATATAGAATATAAAATATATATATAA
24244943 AT-TATAGAATATAAAATATATATATAA
1 ATATATAGAATATAAAATATATATATAA
24244970 AT
1 AT
24244972 GGGTACATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 5 0.20
27 15 0.60
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (28 bp):
ATATATAGAATATAAAATATATATATAA
Found at i:24246855 original size:49 final size:49
Alignment explanation
Indices: 24246793--24247177 Score: 250
Period size: 49 Copynumber: 7.7 Consensus size: 49
24246783 TACATCGCCT
* * * *
24246793 GGGAAGTAAGATTCGCCGTTATGGCCTCAATCTTTTAATTGCAATGTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCA
** * ** * * *
24246842 GGGAAGCGTGATTCGCCGATGTAGCCTCAATCTGTTCCATTGCATTGCCT
1 GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCT-TTTAATTGCAATGTCA
* * * *
24246892 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCA
* * * * *
24246941 GGGAAGTAAGATCCGCTGTTGTAGCTTCATAGCTTCAATATTTTGATTGCAATGTCA
1 GGGAAGCAAGATTCGCCGTTGTAG---C----C-TCAATCTTTTAATTGCAATGTCA
* * * * *
24246998 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATATCA
1 GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCA
* * * * * ** * * *
24247047 TGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAAAG-CC
1 GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCT-TTTAATTGCAATGTCA
** ** * * *
24247096 TCGAAATAAGATTTGCCGTTGTGGCCTCAATCTTTTGATTGCAATGTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCA
** * *
24247145 GGGAAGTGAGATTTGCCGTTGTAGCTTCAATCT
1 GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCT
24247178 GTTCCGCTGC
Statistics
Matches: 270, Mismatches: 55, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
48 9 0.03
49 169 0.63
50 45 0.17
52 1 0.00
54 1 0.00
57 45 0.17
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (49 bp):
GGGAAGCAAGATTCGCCGTTGTAGCCTCAATCTTTTAATTGCAATGTCA
Found at i:24247001 original size:57 final size:56
Alignment explanation
Indices: 24246913--24247075 Score: 232
Period size: 57 Copynumber: 3.0 Consensus size: 56
24246903 TCCGCTGTTG
24246913 TAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
1 TAGCTTCAAT-TTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
*
24246970 TAGCTTCAATATTTTGATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
1 TAGCTTCAAT-TTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
* *
24247027 -A---TC---TTTTAATTGCAATATCATGGAAGTAAGATCCGCTGTTGTAGCTTCA
1 TAGCTTCAATTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
24247076 ATCTGTTCCA
Statistics
Matches: 101, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
49 43 0.43
53 2 0.02
56 1 0.01
57 55 0.54
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (56 bp):
TAGCTTCAATTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCA
Found at i:24247079 original size:205 final size:204
Alignment explanation
Indices: 24246793--24247173 Score: 483
Period size: 205 Copynumber: 1.9 Consensus size: 204
24246783 TACATCGCCT
* * * * ** *
24246793 GGGAAGTAAGATTCGCCGTTATGGCCTCAATCTTTTAATTGCAATGTCGGGGAAGCGTGATTCGC
1 GGGAAGTAAGATCCGCCGTTATAGCCTCAATCTTTTAATTGCAATATCAGGGAAGCAAGATCCGC
* ** * * * *
24246858 CGATGTAGCCTCAATCTGTTCCATTGCATTGCCTGGGAAGTAAGATCCGCTGTTGTAGCTTCAAT
66 CGATGTAGCCTCAATCTGTTCCACTGCAAAGCCT-CGAAATAAGATCCGCCGTTGTAGCCTCAAT
*
24246923 CTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCATAGCTTCAATATTTTGAT
130 CTTTTAATTGCAATGTCAGGGAAGTAAGATCCGCCGTTGTAGCTTCATAGCTTCAATATTTTGAT
24246988 TGCAATGTCA
195 TGCAATGTCA
* * * * *
24246998 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTAATTGCAATATCATGGAAGTAAGATCCGC
1 GGGAAGTAAGATCCGCCGTTATAGCCTCAATCTTTTAATTGCAATATCAGGGAAGCAAGATCCGC
* * * ** *
24247063 TGTTGTAGCTTCAATCTGTTCCACTGCAAAGCCTCGAAATAAGATTTGCCGTTGTGGCCTCAATC
66 CGATGTAGCCTCAATCTGTTCCACTGCAAAGCCTCGAAATAAGATCCGCCGTTGTAGCCTCAATC
* * **
24247128 TTTTGATTGCAATGTCAGGGAAGTGAGATTTGCCGTTGTAGCTTCA
131 TTTTAATTGCAATGTCAGGGAAGTAAGATCCGCCGTTGTAGCTTCA
24247174 ATCTGTTCCG
Statistics
Matches: 146, Mismatches: 30, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
204 65 0.45
205 81 0.55
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (204 bp):
GGGAAGTAAGATCCGCCGTTATAGCCTCAATCTTTTAATTGCAATATCAGGGAAGCAAGATCCGC
CGATGTAGCCTCAATCTGTTCCACTGCAAAGCCTCGAAATAAGATCCGCCGTTGTAGCCTCAATC
TTTTAATTGCAATGTCAGGGAAGTAAGATCCGCCGTTGTAGCTTCATAGCTTCAATATTTTGATT
GCAATGTCA
Found at i:24247139 original size:98 final size:98
Alignment explanation
Indices: 24247015--24247238 Score: 313
Period size: 98 Copynumber: 2.3 Consensus size: 98
24247005 AAGATCCGCT
* * * *
24247015 GTTGTAGCTTCAATCTTTTAATTGCAATATCATGGAAGTAAGATCCGCTGTTGTAGCTTCAATCT
1 GTTGTGGCCTCAATCTTTTAATTGCAATATCAGGGAAGTAAGATCCGCCGTTGTAGCTTCAATCT
24247080 GTTCCACTGCAAAGCCTCGAAATAAGATTTGCC
66 GTTCCACTGCAAAGCCTCGAAATAAGATTTGCC
* * * **
24247113 GTTGTGGCCTCAATCTTTTGATTGCAATGTCAGGGAAGTGAGATTTGCCGTTGTAGCTTCAATCT
1 GTTGTGGCCTCAATCTTTTAATTGCAATATCAGGGAAGTAAGATCCGCCGTTGTAGCTTCAATCT
* ** *
24247178 GTTCCGCTGCACCGCTTCGAAATAAGATTTGCC
66 GTTCCACTGCAAAGCCTCGAAATAAGATTTGCC
*
24247211 GTTGTGACCTCAATCTTTTAAATTGCAA
1 GTTGTGGCCTCAATCTTTT-AATTGCAA
24247239 ACTATGGTTA
Statistics
Matches: 110, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
98 103 0.94
99 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (98 bp):
GTTGTGGCCTCAATCTTTTAATTGCAATATCAGGGAAGTAAGATCCGCCGTTGTAGCTTCAATCT
GTTCCACTGCAAAGCCTCGAAATAAGATTTGCC
Found at i:24247206 original size:49 final size:49
Alignment explanation
Indices: 24247064--24247215 Score: 146
Period size: 49 Copynumber: 3.1 Consensus size: 49
24247054 AAGATCCGCT
* *
24247064 GTTGTAGCTTCAATCTGTTCCACTGCAAAGCCTCGAAATAAGATTTGCC
1 GTTGTAGCTTCAATCTGTTCCGCTGCAAAGCATCGAAATAAGATTTGCC
* * * * * ** * *
24247113 GTTGTGGCCTCAATCT-TT-TGATTGCAATGTCAGGGAAGTGAGATTTGCC
1 GTTGTAGCTTCAATCTGTTCCG-CTGCAAAG-CATCGAAATAAGATTTGCC
** *
24247162 GTTGTAGCTTCAATCTGTTCCGCTGCACCGCTTCGAAATAAGATTTGCC
1 GTTGTAGCTTCAATCTGTTCCGCTGCAAAGCATCGAAATAAGATTTGCC
24247211 GTTGT
1 GTTGT
24247216 GACCTCAATC
Statistics
Matches: 77, Mismatches: 22, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
48 8 0.10
49 61 0.79
50 7 0.09
51 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (49 bp):
GTTGTAGCTTCAATCTGTTCCGCTGCAAAGCATCGAAATAAGATTTGCC
Found at i:24258841 original size:25 final size:27
Alignment explanation
Indices: 24258792--24258843 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24258782 GCATGTACCC
* *
24258792 ATTTATATATATATTTTATATTCTATA
1 ATTTATATATACATTTTAGATTCTATA
24258819 ATTTATATATACA-TTTAGA-TCTATA
1 ATTTATATATACATTTTAGATTCTATA
24258844 TATATTTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 5 0.22
27 12 0.52
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (27 bp):
ATTTATATATACATTTTAGATTCTATA
Found at i:24258845 original size:27 final size:28
Alignment explanation
Indices: 24258792--24258850 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
24258782 GCATGTACCC
* * *
24258792 ATTTATATATATATTTTATATTCTATA-
1 ATTTATATATACATTTTAGATTATATAT
24258819 ATTTATATATACA-TTTAGATCTATATAT
1 ATTTATATATACATTTTAGAT-TATATAT
24258847 ATTT
1 ATTT
24258851 TCCTTACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 17 0.63
28 4 0.15
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTATATATACATTTTAGATTATATAT
Found at i:24259492 original size:108 final size:108
Alignment explanation
Indices: 24259303--24259592 Score: 485
Period size: 108 Copynumber: 2.7 Consensus size: 108
24259293 TTTCAAAAAG
24259303 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
24259368 TTTAACCAAATGGCTTAATATCATTTTAAAAATTTTACAATGA
66 TTTAACCAAATGGCTTAATATCATTTTAAAAATTTTACAATGA
* * *
24259411 GGCAATGTTTTGCATTTGAAAATTTGAGAAAACATGCTCTAAGGTGCTGGGTGTCGTTTTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
*
24259476 TTTAACCAAATGGCTTAATATCCTTTTAAAAATTTTACAATGA
66 TTTAACCAAATGGCTTAATATCATTTTAAAAATTTTACAATGA
* * * * *
24259519 GGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCG-ATTTCTCG
1 GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
24259582 TTTAACCAAAT
66 TTTAACCAAAT
24259593 TGCCAAATAT
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
106 18 0.11
107 23 0.14
108 129 0.76
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (108 bp):
GGCAATGTTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTTCTCG
TTTAACCAAATGGCTTAATATCATTTTAAAAATTTTACAATGA
Found at i:24264202 original size:11 final size:11
Alignment explanation
Indices: 24264188--24264214 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
24264178 AAAATAAAAA
24264188 TAAAAGTATTT
1 TAAAAGTATTT
24264199 TAAAAGTATTT
1 TAAAAGTATTT
24264210 TAAAA
1 TAAAA
24264215 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:24282405 original size:41 final size:40
Alignment explanation
Indices: 24282305--24282495 Score: 166
Period size: 41 Copynumber: 4.6 Consensus size: 40
24282295 TCTTTGAATG
** * * *
24282305 TAAGGGGTTGCTAAGTGCAAATTCCTCGAATCATTGATCAA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TA
* * *
24282346 AAAGGGGTTGCTATGTGCTCATTCCCCGTATCATTGATTA
1 TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * * *
24282386 TAAGGTGGTTTCTAAGTGCTGATTCCACCATATCCTTGATTG
1 TAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTA
* * *
24282428 TGAAAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTA
1 T--AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
* * *
24282470 TAAGGTGGTTGGTAACTGTTGATTCC
1 TAAGG-GGTTGCTAAGTGCTGATTCC
24282496 ACTGGGATTC
Statistics
Matches: 120, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
40 9 0.08
41 64 0.53
42 26 0.22
43 17 0.14
44 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (40 bp):
TAAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA
Found at i:24288114 original size:106 final size:107
Alignment explanation
Indices: 24287995--24288216 Score: 374
Period size: 106 Copynumber: 2.1 Consensus size: 107
24287985 TAAATTCATA
* * **
24287995 TTCTTTTGGTGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACTATGAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACCACAAATTCCA
*
24288060 AATG-TAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
66 AATGCAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
24288101 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACCACAAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACCACAAATTCCA
*
24288166 AATGCAAAAAAAAAAAATCAAAATTTAAATTTGAGAATGATT
66 AATGCAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
*
24288208 TCCTTTTGA
1 TTCTTTTGA
24288217 AAAAGAAAAT
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
106 65 0.60
107 43 0.40
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (107 bp):
TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACCACAAATTCCA
AATGCAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
Found at i:24292293 original size:41 final size:41
Alignment explanation
Indices: 24292099--24292285 Score: 295
Period size: 41 Copynumber: 4.6 Consensus size: 41
24292089 TAAGGCCCAA
* *
24292099 ACTGATTCTGTGATGGGCTAAGGCCCTATTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* *
24292140 ACTGATACTGTGATGGGTTAAGGCCCTGCTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* *
24292181 ACTGATCCTGTGATGGGCTAAAGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
*
24292222 ACTGATACTGTGATGGGCTAAGGCCCAACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
*
24292263 ACTG-TACTGAGATGGGCTAAGGC
1 ACTGATACTGTGATGGGCTAAGGC
24292286 TCAAACTGTT
Statistics
Matches: 134, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 18 0.13
41 116 0.87
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (41 bp):
ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
Found at i:24297533 original size:51 final size:51
Alignment explanation
Indices: 24297468--24297574 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
24297458 TACTTTCAAG
24297468 ATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAA
1 ATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAA
* * *
24297519 ATTTGATTTTGAAATTTCGTTATTAATTAGGTCATTTGATTACTTGGACAA
1 ATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAA
*
24297570 GTTTG
1 ATTTG
24297575 TTTCATTGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.09, G:0.15, T:0.47
Consensus pattern (51 bp):
ATTTGATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAA
Found at i:24300873 original size:40 final size:40
Alignment explanation
Indices: 24300829--24301052 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
24300819 GCTCCTCGTT
* *
24300829 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
24300869 CAAATGCCTTCGGGACTTAACCCGGAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24300908 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
24300948 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
24300987 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
24301028 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24301053 CATCATTCAA
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 70 0.43
40 79 0.48
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:24300932 original size:79 final size:79
Alignment explanation
Indices: 24300829--24301052 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 79
24300819 GCTCCTCGTT
* *
24300829 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
24300894 ATTAGTAACTCGCA
66 ATTAGTAACTCGCA
* *
24300908 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
24300971 GAATTAGTATCTCGCA
65 G-ATTAGTAACTCGCA
* * * * *
24300987 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
24301050 GGA
64 GGA
24301053 CATCATTCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 13 0.10
79 95 0.75
80 19 0.15
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTAGTAACTCGCA
Found at i:24308857 original size:39 final size:39
Alignment explanation
Indices: 24308775--24308996 Score: 238
Period size: 39 Copynumber: 5.7 Consensus size: 39
24308765 GTTCCTCGTT
* * *
24308775 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
24308815 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
24308854 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
** * *
24308894 C-AATGCCTTCGGG-CTTAGCTAGAATTAGT-ATTCTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTC-GCA
* * * *
24308931 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
24308972 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
24308997 CATCATTCAA
Statistics
Matches: 156, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
36 3 0.02
37 11 0.07
38 16 0.10
39 58 0.37
40 56 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:24308956 original size:77 final size:78
Alignment explanation
Indices: 24308775--24308992 Score: 235
Period size: 79 Copynumber: 2.8 Consensus size: 78
24308765 GTTCCTCGTT
* * * * * * *
24308775 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGCCAGA
24308840 ATTAGTAACTCGCA
65 ATTAGTAACTCGCA
* *
24308854 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGG-CTTAGCTAGAA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCAGAA
*
24308918 TTAGT-ATTCTGCA
66 TTAGTAACTC-GCA
** * * * *
24308931 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCC
24308993 CGGACATCAT
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
76 6 0.05
77 41 0.35
78 28 0.24
79 42 0.36
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCAGAA
TTAGTAACTCGCA
Found at i:24315506 original size:24 final size:22
Alignment explanation
Indices: 24315456--24315499 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
24315446 TATATGTACG
24315456 AAAA-AAT-ATATAAAAAAATT
1 AAAATAATAATATAAAAAAATT
*
24315476 AAAATAATAATATATAAAAATT
1 AAAATAATAATATAAAAAAATT
24315498 AA
1 AA
24315500 TTAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 3 0.14
22 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATAATAATATAAAAAAATT
Found at i:24315513 original size:26 final size:23
Alignment explanation
Indices: 24315456--24315513 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 23
24315446 TATATGTACG
24315456 AAAAAATATATAAAAAAATTAAA
1 AAAAAATATATAAAAAAATTAAA
*
24315479 ATAATAATATATAAAAATTAATTAATA
1 A-AAAAATATATAAAAA--AATTAA-A
24315506 AAAAAATA
1 AAAAAATA
24315514 AGGAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 1 0.03
24 14 0.48
26 12 0.41
27 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAAAATATATAAAAAAATTAAA
Found at i:24317266 original size:44 final size:44
Alignment explanation
Indices: 24317218--24317664 Score: 175
Period size: 44 Copynumber: 10.2 Consensus size: 44
24317208 TGATTTGCCG
* *
24317218 TCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * * * * * ***
24317262 TCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAG-GCT-TGG
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* ** * * **
24317304 TGGCTTAAATCTGCTTCCCACTA-T-CTTAGAAAGATAAGATTTGCCG
1 T--CTTCAATCTGC-T-CCACTACTGCTTAGGGAGATAAGATCTACAA
*
24317350 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * * * * * ***
24317394 TCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG-GCTTGGTA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TACAA
* * * * * **
24317438 GCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCCG
1 TCTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACAA
*
24317482 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * * * * ***
24317526 TCTTCAA-CTTACTCCTCTGCTGCTCAGGGAGACAAG-GCT-TGG
1 TCTTCAATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
* * * * * **
24317568 TGGCTTAAATCTGCTTCTCACTA-T-CTT-GGAAAGATAATATTTGCTG
1 T--CTTCAATCTGC-TC-CACTACTGCTTAGG-GAGATAAGATCTACAA
*
24317614 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
1 TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
24317658 TCTTCAA
1 TCTTCAA
24317665 CCTACTCCGC
Statistics
Matches: 278, Mismatches: 97, Indels: 56
0.65 0.23 0.13
Matches are distributed among these distances:
42 19 0.07
43 17 0.06
44 213 0.77
45 14 0.05
46 15 0.05
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
Found at i:24317390 original size:132 final size:132
Alignment explanation
Indices: 24317179--24317701 Score: 947
Period size: 132 Copynumber: 4.0 Consensus size: 132
24317169 ATCAGCTTTT
* *
24317179 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGCCGTCTTCGATTTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
24317244 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24317309 TA
131 TA
*
24317311 AATCTGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
24317376 GGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTAGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24317441 TA
131 TA
24317443 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
24317508 GGGAGATAAGATCTACAATCTTCAACTTACTCCTCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
24317573 TA
131 TA
* * *
24317575 AATCTGCTTCTCACTATCTTGGAAAGATAATATTTGCTGTCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
*
24317640 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGAGACAAGGCTTGGTG
66 GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTG
24317702 TTTCACCGGT
Statistics
Matches: 375, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 375 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:24330034 original size:20 final size:18
Alignment explanation
Indices: 24329998--24330044 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
24329988 ACGAAAAAAT
*
24329998 ATATAAATAATAATAATA
1 ATATAAAAAATAATAATA
24330016 ATATAAAAAAT--TAATTA
1 ATATAAAAAATAATAA-TA
24330033 ATA-AAAAAATAA
1 ATATAAAAAATAA
24330045 GGAAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 10 0.40
17 5 0.20
18 10 0.40
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
ATATAAAAAATAATAATA
Found at i:24337315 original size:22 final size:22
Alignment explanation
Indices: 24337267--24337317 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24337257 AAAAATTGAA
*
24337267 TAATTTAAATAATAGTAAAAGTG
1 TAATTTAAATAATAG-AAAAGTC
*
24337290 TAATTTAACATGATAG-AAAGTC
1 TAATTTAA-ATAATAGAAAAGTC
24337312 TAATTT
1 TAATTT
24337318 TAGCTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
TAATTTAAATAATAGAAAAGTC
Found at i:24348138 original size:43 final size:43
Alignment explanation
Indices: 24348004--24348139 Score: 107
Period size: 43 Copynumber: 3.2 Consensus size: 43
24347994 TTTTGAGATG
**
24348004 TTGGCATCGAT-TTGCGATTTACATGTAAGACCATTTCTGGGACA
1 TTGGCATCGATATT-CGATTT-CATGTAAGACCACGTCTGGGACA
* * ** * * *
24348048 TCGACATCG-TATAGGAGTTCGTGTAAGACC-CTGTCAGGGACA
1 TTGGCATCGATATTCGATTTCATGTAAGACCAC-GTCTGGGACA
* * **
24348090 ATGGCATCGATATTTGATTTCATGTAAGACCACGTCTGGGATG
1 TTGGCATCGATATTCGATTTCATGTAAGACCACGTCTGGGACA
24348133 TTGGCAT
1 TTGGCAT
24348140 TGAATGAGCT
Statistics
Matches: 68, Mismatches: 20, Indels: 9
0.70 0.21 0.09
Matches are distributed among these distances:
42 24 0.35
43 35 0.51
44 9 0.13
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TTGGCATCGATATTCGATTTCATGTAAGACCACGTCTGGGACA
Found at i:24363783 original size:21 final size:22
Alignment explanation
Indices: 24363759--24363800 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24363749 GTTCTCCCCG
*
24363759 GCCACGTGCA-CCTCCGTACGT
1 GCCACGTCCACCCTCCGTACGT
*
24363780 GCCACGTCCACCCTCTGTACG
1 GCCACGTCCACCCTCCGTACG
24363801 CCGTACCTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.14, C:0.45, G:0.21, T:0.19
Consensus pattern (22 bp):
GCCACGTCCACCCTCCGTACGT
Found at i:24367165 original size:17 final size:17
Alignment explanation
Indices: 24367122--24367165 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
24367112 AATTCGTTTG
*
24367122 TTTATTTATCGTTATTTA
1 TTTATTT-TTGTTATTTA
**
24367140 TTTCCTTTTGTTATTTA
1 TTTATTTTTGTTATTTA
24367157 TTTATTTTT
1 TTTATTTTT
24367166 ATTCCTCTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (17 bp):
TTTATTTTTGTTATTTA
Found at i:24370655 original size:25 final size:25
Alignment explanation
Indices: 24370620--24370796 Score: 108
Period size: 25 Copynumber: 7.1 Consensus size: 25
24370610 TTCACTTTAC
* *
24370620 AGGCTTTCCAAATAACTCGCCACAA
1 AGGCTTCCCAAATAATTCGCCACAA
* *
24370645 AGGCTTCCCAAACAATAT-GCCACAT
1 AGGCTTCCCAAATAAT-TCGCCACAA
* * * *
24370670 AGG-TTCTTCAGATGATTCACCACAA
1 AGGCTTC-CCAAATAATTCGCCACAA
** * * * *
24370695 AGGCTTTACAGATAATTCACTAGAA
1 AGGCTTCCCAAATAATTCGCCACAA
* * *
24370720 AGGCTTCCTAAATAATACGCCACAT
1 AGGCTTCCCAAATAATTCGCCACAA
**
24370745 AGGC-TCTTTAAATAATTCGCCACAA
1 AGGCTTC-CCAAATAATTCGCCACAA
** *
24370770 AGGCTTTACAAATAACTCGCCACAA
1 AGGCTTCCCAAATAATTCGCCACAA
24370795 AG
1 AG
24370797 ATTTAGTTTG
Statistics
Matches: 115, Mismatches: 31, Indels: 12
0.73 0.20 0.08
Matches are distributed among these distances:
24 6 0.05
25 105 0.91
26 4 0.03
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.24
Consensus pattern (25 bp):
AGGCTTCCCAAATAATTCGCCACAA
Found at i:24370699 original size:75 final size:75
Alignment explanation
Indices: 24370620--24370796 Score: 228
Period size: 75 Copynumber: 2.4 Consensus size: 75
24370610 TTCACTTTAC
* * * * *
24370620 AGGCTTTCCAAATAACTCGCCACAAAGGCTTCCCAAACAATATGCCACATAGGTTCTTCAGATGA
1 AGGCTTTACAAATAACTCGCCACAAAGGCTTCCCAAACAATACGCCACATAGGCTCTTCAAATAA
24370685 TTCACCACAA
66 TTCACCACAA
* * * * * * * *
24370695 AGGCTTTACAGATAATTCACTAGAAAGGCTTCCTAAATAATACGCCACATAGGCTCTTTAAATAA
1 AGGCTTTACAAATAACTCGCCACAAAGGCTTCCCAAACAATACGCCACATAGGCTCTTCAAATAA
*
24370760 TTCGCCACAA
66 TTCACCACAA
24370770 AGGCTTTACAAATAACTCGCCACAAAG
1 AGGCTTTACAAATAACTCGCCACAAAG
24370797 ATTTAGTTTG
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
75 83 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.24
Consensus pattern (75 bp):
AGGCTTTACAAATAACTCGCCACAAAGGCTTCCCAAACAATACGCCACATAGGCTCTTCAAATAA
TTCACCACAA
Found at i:24374349 original size:27 final size:28
Alignment explanation
Indices: 24374325--24374377 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
24374315 CAAAATTTAT
*
24374325 ACTTTAATTA-TAAAATAATTAATTTGA
1 ACTTAAATTATTAAAATAATTAATTTGA
* *
24374352 ACTTAAATTATTAACATATTTAATTT
1 ACTTAAATTATTAAAATAATTAATTT
24374378 TAATTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (28 bp):
ACTTAAATTATTAAAATAATTAATTTGA
Found at i:24376378 original size:27 final size:25
Alignment explanation
Indices: 24376348--24376403 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
24376338 TGGTTTACCA
*
24376348 ATTTAGTT-CGTTTGTTTATTTATCATT
1 ATTTAGTTCCTTTTG-TTA-TT-TCATT
*
24376375 ATTTATTTCCTTTTGTTATTTCATT
1 ATTTAGTTCCTTTTGTTATTTCATT
24376400 ATTT
1 ATTT
24376404 TTATTCCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 10 0.38
28 5 0.19
ACGTcount: A:0.18, C:0.09, G:0.07, T:0.66
Consensus pattern (25 bp):
ATTTAGTTCCTTTTGTTATTTCATT
Found at i:24379870 original size:6 final size:6
Alignment explanation
Indices: 24379859--24379911 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
24379849 ATTACAAAGA
24379859 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
24379907 TATGT
1 TATGT
24379912 CAAGAAGGGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (6 bp):
TATGTG
Found at i:24380658 original size:36 final size:36
Alignment explanation
Indices: 24380618--24380688 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
24380608 TGTGGCACAG
* *
24380618 TCTTGAACATGCCCTTGAGTTTGTCTTGAAATAGTT
1 TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGTT
24380654 TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGT
1 TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGT
24380689 ATCCAACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (36 bp):
TCTTGAACATGCCATTGAGTCTGTCTTGAAATAGTT
Found at i:24381832 original size:32 final size:31
Alignment explanation
Indices: 24381787--24381882 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
24381777 CTTAGATAAT
24381787 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
24381818 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
24381850 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
24381881 TT
1 TT
24381883 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:24384254 original size:7 final size:7
Alignment explanation
Indices: 24384242--24384271 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
24384232 TATTAATTTC
24384242 TTTTCCT
1 TTTTCCT
24384249 TTTTCCT
1 TTTTCCT
24384256 TTTTCCT
1 TTTTCCT
24384263 TTTTCCT
1 TTTTCCT
24384270 TT
1 TT
24384272 ATTTTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCCT
Found at i:24384294 original size:18 final size:17
Alignment explanation
Indices: 24384242--24384294 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
24384232 TATTAATTTC
24384242 TTTTCCTTTTT-C--CT
1 TTTTCCTTTTTCCTTCT
24384256 TTTTCCTTTTTCCTT-T
1 TTTTCCTTTTTCCTTCT
24384272 ATTTTCTCTTTTTCCTTCT
1 -TTTTC-CTTTTTCCTTCT
24384291 TTTT
1 TTTT
24384295 TGTTCATTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 1 0.03
17 5 0.15
18 14 0.42
19 1 0.03
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTCCTTTTTCCTTCT
Found at i:24391806 original size:24 final size:24
Alignment explanation
Indices: 24391777--24391823 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
24391767 TAAAAGCTGT
* *
24391777 TAATACGTTGTGTATGAACCACTG
1 TAATACATTGTGGATGAACCACTG
24391801 TAATACATTGTGGATGAACCACT
1 TAATACATTGTGGATGAACCACT
24391824 AGTCGTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (24 bp):
TAATACATTGTGGATGAACCACTG
Found at i:24391877 original size:48 final size:48
Alignment explanation
Indices: 24391802--24391896 Score: 136
Period size: 48 Copynumber: 2.0 Consensus size: 48
24391792 GAACCACTGT
*
24391802 AATACATTGTGGATGAACCACTAGTCGTGCAAATAGACTGCCGACTAA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
* * * * *
24391850 AATACGTTGTGGATGAAGCATTGGTCGTGCAAATAAATTGCCGACTA
1 AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTA
24391897 CTTCCTCGGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (48 bp):
AATACATTGTGGATGAACCACTAGTCGTGCAAATAAACTGCCGACTAA
Found at i:24392026 original size:34 final size:32
Alignment explanation
Indices: 24391952--24392179 Score: 117
Period size: 34 Copynumber: 6.9 Consensus size: 32
24391942 TGTTTATAAC
*
24391952 AGATCAATACGGTAGCAA-TAGCATTCTTATA
1 AGATCAATACGGTAGCAATTAGCATGCTTATA
* *
24391983 ACGAGTCAATTCGGTAGCAATTATCATGCTTATGA
1 A-GA-TCAATACGGTAGCAATTAGCATGCTTAT-A
**
24392018 TAGATCAATACGGTAGCAA-TAAAATGCTTATAA
1 -AGATCAATACGGTAGCAATTAGCATGCTTAT-A
* * * *
24392051 CAAATCGATACAGTAGC-ATTTGTCATGCTTATA
1 -AGATCAATACGGTAGCAATTAG-CATGCTTATA
* *
24392084 GTAGATCAGTACGGT-G-AA-TAACATGCTTATA
1 --AGATCAATACGGTAGCAATTAGCATGCTTATA
* * * * * * *
24392115 ACAAGTCGATACAGTAGCATTTATCATGTTTGTAA
1 A-GA-TCAATACGGTAGCAATTAGCATGCTTAT-A
* *
24392150 TAGATCAATACGGTAGCAATAAACATGCTT
1 -AGATCAATACGGTAGCAATTAGCATGCTT
24392180 GGCATGTATT
Statistics
Matches: 145, Mismatches: 36, Indels: 29
0.69 0.17 0.14
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 18 0.12
32 5 0.03
33 43 0.30
34 70 0.48
35 5 0.03
36 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (32 bp):
AGATCAATACGGTAGCAATTAGCATGCTTATA
Found at i:24392067 original size:67 final size:66
Alignment explanation
Indices: 24391952--24392179 Score: 280
Period size: 67 Copynumber: 3.4 Consensus size: 66
24391942 TGTTTATAAC
** * * * * * *
24391952 AGATCAATACGGTAGCAATAGCATTCTTATAACGAGTCAATTCGGTAGCAATTATCATGCTTATG
1 AGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTAT-
24392017 AT
65 AT
* *
24392019 AGATCAATACGGTAGCAATAAAATGCTTATAACAAATCGATACAGTAGCATTTGTCATGCTTATA
1 AGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATA
24392084 GT
66 -T
* * * *
24392086 AGATCAGTACGGT-G-AATAACATGCTTATAACAAGTCGATACAGTAGCATTTATCATGTTTGTA
1 AGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTAT-
24392149 AT
65 AT
24392151 AGATCAATACGGTAGCAATAAACATGCTT
1 AGATCAATACGGTAGCAATAAA-ATGCTT
24392180 GGCATGTATT
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
65 56 0.41
66 4 0.03
67 72 0.52
68 6 0.04
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (66 bp):
AGATCAATACGGTAGCAATAAAATGCTTATAACAAGTCGATACAGTAGCATTTATCATGCTTATA
T
Found at i:24393689 original size:20 final size:21
Alignment explanation
Indices: 24393649--24393689 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
24393639 GTTTGGGATG
**
24393649 GTTATATTTAAAAATTTTAAA
1 GTTATATTTAAAAATCCTAAA
24393670 GTTATA-TTAAAAATCCTAAA
1 GTTATATTTAAAAATCCTAAA
24393690 AAATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (21 bp):
GTTATATTTAAAAATCCTAAA
Found at i:24395306 original size:3 final size:3
Alignment explanation
Indices: 24395300--24395324 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24395290 AGTATCCTCC
24395300 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
24395325 TATGTGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:24396783 original size:11 final size:11
Alignment explanation
Indices: 24396739--24396787 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
24396729 TATATTTATA
24396739 TAAA-AAATAT
1 TAAATAAATAT
24396749 T--ATAAATAT
1 TAAATAAATAT
*
24396758 TAAATAATGAGAT
1 TAAATAA--ATAT
24396771 TAAATAAATAT
1 TAAATAAATAT
24396782 TAAATA
1 TAAATA
24396788 TAAAATACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 1 0.03
11 13 0.41
13 10 0.31
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:24406267 original size:21 final size:23
Alignment explanation
Indices: 24406243--24406290 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
24406233 TTGAAATGAA
24406243 AAATATTAA-AT-ATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
24406264 AAATA--AATATCATTTTTAAAT
1 AAATATTAATATCATTTTTAAAT
24406285 -AATATT
1 AAATATT
24406291 GTAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 15 0.65
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
AAATATTAATATCATTTTTAAAT
Found at i:24411152 original size:12 final size:12
Alignment explanation
Indices: 24411135--24411160 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24411125 TGTTTTCCTG
24411135 AATGATTTGGTT
1 AATGATTTGGTT
24411147 AATGATTTGGTT
1 AATGATTTGGTT
24411159 AA
1 AA
24411161 CACATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (12 bp):
AATGATTTGGTT
Found at i:24413798 original size:104 final size:102
Alignment explanation
Indices: 24413608--24413803 Score: 259
Period size: 104 Copynumber: 1.9 Consensus size: 102
24413598 TGGATTGAGA
* ** * * **
24413608 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAACGTATTAAGGCACGTTT
1 TTTAAAAGGATATTTGGCTATTTAATCAAAAGAAAAATCGAAACCCAACACATTAAGGCACGTTT
* *
24413673 TCTCGAATTTTCAAACTCAAAATATTGTCTTCGAAAT
66 TCTCGAATTTTCAAACGCAAAACATTGTCTTCGAAAT
* *
24413710 TTTAAAAGGATATTTGGCTATTTAATCGAACAAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTAATC-AA-AAGAAAAATCGAAACCCAACACATTAAGGCACGT
24413775 TTTCTCGAATCTTT-AAACGCAAAACATTG
64 TTTCTCGAAT-TTTCAAACGCAAAACATTG
24413804 CCTTTATTAT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
102 24 0.30
103 2 0.03
104 51 0.64
105 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (102 bp):
TTTAAAAGGATATTTGGCTATTTAATCAAAAGAAAAATCGAAACCCAACACATTAAGGCACGTTT
TCTCGAATTTTCAAACGCAAAACATTGTCTTCGAAAT
Found at i:24416367 original size:44 final size:44
Alignment explanation
Indices: 24416302--24416465 Score: 152
Period size: 44 Copynumber: 3.7 Consensus size: 44
24416292 TCGACTTCAA
* * *
24416302 TCTGCTCCACTAG-AACCTCAGGGAGATAAGATTTGCTTCT-TCAG
1 TCTGCCCCACT-GCAACTTCAGGGAGATAAGACTTG-TTCTCTCAG
* ** * *
24416346 TTTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAG
1 TCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTTCTCTCAG
* * * *
24416390 TCTGCTCCGCTGCAACTTCAAGGAGATAAGACTTGTTTTCTCAG
1 TCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTTCTCTCAG
** * *
24416434 TCTGCTTCGCTGCAACTTCAAGGAGATAAGAC
1 TCTGCCCCACTGCAACTTCAGGGAGATAAGAC
24416466 CTAATGCAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
43 4 0.04
44 99 0.96
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (44 bp):
TCTGCCCCACTGCAACTTCAGGGAGATAAGACTTGTTCTCTCAG
Found at i:24416858 original size:87 final size:87
Alignment explanation
Indices: 24416711--24417030 Score: 496
Period size: 87 Copynumber: 3.7 Consensus size: 87
24416701 GCTAGTGCTT
* * * *
24416711 AGGAAGACAAGATCTGCTATCTTTAATCAGCTCTACTGCAACCGATGGAGTCAAGACTTTGTTTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
* * *
24416776 CGATCTACTTCACCGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
*
24416798 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCTACTGCAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
24416863 CGATCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* *
24416885 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
*
24416950 CGGTCTGCTTCGCTGTTAACGC
66 CGATCTGCTTCGCTGTTAACGC
* ** * *
24416972 AAGAAGGTAAGATCTGTTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTT
1 AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTT
24417031 GATGTGATCT
Statistics
Matches: 218, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 218 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (87 bp):
AGGAAGACAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:24417399 original size:45 final size:44
Alignment explanation
Indices: 24417344--24417464 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 44
24417334 CCGGCTACAA
24417344 TCTGCTCCACTGCAAACTCAGAGAGATAAGA-TTCAACATCTTCAG
1 TCTGCTCCACTGCAAACTCAGAGAGATAAGACTT--ACATCTTCAG
* * * * * *
24417389 TCTGCCCCACTGC-AACTTCAGGGGGATAAGACTTGCTTCTTCGG
1 TCTGCTCCACTGCAAAC-TCAGAGAGATAAGACTTACATCTTCAG
* * *
24417433 TCCGCTCCGCTGCAACCTCAGAGAGATAAGAC
1 TCTGCTCCACTGCAAACTCAGAGAGATAAGAC
24417465 CTGATGTGAT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
44 33 0.54
45 26 0.43
46 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (44 bp):
TCTGCTCCACTGCAAACTCAGAGAGATAAGACTTACATCTTCAG
Found at i:24417408 original size:218 final size:218
Alignment explanation
Indices: 24417030--24417597 Score: 924
Period size: 218 Copynumber: 2.6 Consensus size: 218
24417020 AGGCAAGGCT
*
24417030 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAAATCTATTATTTCAATCCGCTCCACTGC
1 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
*
24417095 AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTTCACTGCAAACTCAGGGAGATAAGATTC
66 AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
* * *
24417160 ACCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCTGCTCTGC
131 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
*
24417225 T-CTAACCTCAGGGAGATAAGACC
196 TGC-AACCTCAGAGAGATAAGACC
* * * *
24417248 TGATGTGATCTACTCTACTGCAACTTCAGAGATATAAGATCTATTATTTCGATCCGCTCTACTAC
1 TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
* *
24417313 AACTTCAGGGAGATAGGATTACCGGCTACAATCTGCTCCACTGCAAACTCAGAGAGATAAGATTC
66 AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
24417378 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
131 AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
24417443 TGCAACCTCAGAGAGATAAGACC
196 TGCAACCTCAGAGAGATAAGACC
* * *
24417466 TGATGTGATCTACTTTACTGTAAAC-TCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACTG
1 TGATGTGATCTACTCTACTG-CAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTG
* * * *
24417530 CAACTTCAAGGAGATAGGATTATCGTCTACAATCTGCTCCACTGCAATCTCAGGGAAAGTAAGAT
65 CAACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGA-TAAGAT
24417595 TCA
129 TCA
24417598 TCGTTGTGAC
Statistics
Matches: 322, Mismatches: 25, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
218 309 0.96
219 13 0.04
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (218 bp):
TGATGTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTCAATCCGCTCCACTGC
AACTTCAGGGAGATAGGATTATCGGCTACAATCTGCTCCACTGCAAACTCAGGGAGATAAGATTC
AACATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTGCTTCTTCGGTCCGCTCCGC
TGCAACCTCAGAGAGATAAGACC
Found at i:24417756 original size:100 final size:101
Alignment explanation
Indices: 24417560--24417787 Score: 262
Period size: 100 Copynumber: 2.3 Consensus size: 101
24417550 TATCGTCTAC
* * * ** *
24417560 AATCTGCTCCACTGCAAT-CTCAGGGAAAGTAAGATTCATCGTTGTGACTTTAATCTTTTTAATT
1 AATCTGCTCCACTACATTGC-CAAGGAAAGTAAGATTCATCGTTACGACTTTAATCTTTTAAATT
** *
24417624 GCAATGTCAGGGAAACAAGATTCGCCGTCGTAGATTT
65 GCAAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
* * * * * *
24417661 AATCTGTTTCACTACATTGCC-AGGAAATTAAGATTCGTCGTTACGGCTTTGATCTTTTAAATTG
1 AATCTGCTCCACTACATTGCCAAGGAAAGTAAGATTCATCGTTACGACTTTAATCTTTTAAATTG
* * *
24417725 CAAAATCAGGGAAGCAAGATTCATCGTCGTAGCTTT
66 CAAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
*
24417761 AATCTGCTCCACTGCATTGCCAAGGAA
1 AATCTGCTCCACTACATTGCCAAGGAA
24417788 GGCAACTTCA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
100 83 0.80
101 20 0.19
102 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (101 bp):
AATCTGCTCCACTACATTGCCAAGGAAAGTAAGATTCATCGTTACGACTTTAATCTTTTAAATTG
CAAAATCAGGGAAACAAGATTCACCGTCGTAGATTT
Found at i:24418950 original size:6 final size:6
Alignment explanation
Indices: 24418941--24419002 Score: 63
Period size: 6 Copynumber: 9.7 Consensus size: 6
24418931 CATTTTTACT
*
24418941 TTTTCA TTTT-T TTTTCA TTTTTCA TTTTTCA TTTTCA TTTTATCA TTTTTCA
1 TTTTCA TTTTCA TTTTCA -TTTTCA -TTTTCA TTTTCA -TTT-TCA -TTTTCA
24418993 TTTTCA TTTT
1 TTTTCA TTTT
24419003 TTTGACTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
5 4 0.08
6 20 0.40
7 19 0.38
8 7 0.14
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCA
Found at i:24418950 original size:7 final size:7
Alignment explanation
Indices: 24418931--24419003 Score: 86
Period size: 7 Copynumber: 11.0 Consensus size: 7
24418921 TTAGCCTCAC
24418931 CATTTTT
1 CATTTTT
24418938 -ACTTTTT
1 CA-TTTTT
24418945 CA-TTTT
1 CATTTTT
24418951 --TTTTT
1 CATTTTT
24418956 CATTTTT
1 CATTTTT
24418963 CATTTTT
1 CATTTTT
24418970 CA-TTTT
1 CATTTTT
24418976 CATTTTAT
1 CATTTT-T
24418984 CATTTTT
1 CATTTTT
24418991 CA-TTTT
1 CATTTTT
24418997 CATTTTT
1 CATTTTT
24419004 TTGACTCAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
5 4 0.07
6 17 0.29
7 29 0.50
8 8 0.14
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:24418950 original size:14 final size:13
Alignment explanation
Indices: 24418931--24419003 Score: 80
Period size: 13 Copynumber: 5.5 Consensus size: 13
24418921 TTAGCCTCAC
24418931 CATTTTTACTTTTT
1 CATTTTT-CTTTTT
24418945 CA-TTTT-TTTTT
1 CATTTTTCTTTTT
24418956 CATTTTTCATTTTT
1 CATTTTTC-TTTTT
24418970 CA-TTTTCATTTTAT
1 CATTTTTC-TTTT-T
*
24418984 CATTTTTCATTTT
1 CATTTTTCTTTTT
24418997 CATTTTT
1 CATTTTT
24419004 TTGACTCAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
11 7 0.13
12 4 0.08
13 22 0.42
14 15 0.28
15 5 0.09
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
CATTTTTCTTTTT
Found at i:24423564 original size:108 final size:106
Alignment explanation
Indices: 24423377--24423571 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 106
24423367 TGGATTGAGA
* **
24423377 TTTAAGAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGGCTATTTGACCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
*
24423442 CCTCGAATTTCCAAACGCAAAATATTGTCTTACTTCGAAAT
66 CCTCGAATCTCCAAACGCAAAATATTGTCTTACTTCGAAAT
* *
24423483 TTTAAAAGGATATTTGGCTATTTGACCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGACCAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
*
24423548 TTTCTCGAATCTCCAAACGCAAAA
64 TTCCTCGAATCTCCAAACGCAAAA
24423572 ACATTGCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 30 0.38
108 50 0.62
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (106 bp):
TTTAAAAGGATATTTGGCTATTTGACCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
CCTCGAATCTCCAAACGCAAAATATTGTCTTACTTCGAAAT
Found at i:24425765 original size:6 final size:6
Alignment explanation
Indices: 24425756--24425799 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
24425746 CACCGATCTT
* *
24425756 CCCTTT CCCTTT CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CC
24425800 TTGACACCTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (6 bp):
CCCTTC
Found at i:24428822 original size:22 final size:25
Alignment explanation
Indices: 24428772--24428829 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 25
24428762 TTGTAATGTT
24428772 TTTATAT-TTTAATAATTGAGTATTA
1 TTTATATATTTAAT-ATTGAGTATTA
24428797 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATATATTTAATATTGAGTATTA
*
24428818 TTTATTTATTTA
1 TTTATATATTTA
24428830 TAAATAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.10
22 11 0.37
23 4 0.13
24 6 0.20
25 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTATATATTTAATATTGAGTATTA
Found at i:24429042 original size:34 final size:34
Alignment explanation
Indices: 24428984--24429049 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 34
24428974 CAAACACCAG
24428984 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTAC-GAAAAGT
24429019 AAAATATTTTCCAG-AAATCATTTTACGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACGAAAA
24429050 ACATTTTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 5 0.16
34 12 0.39
35 14 0.45
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (34 bp):
AAAATATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:24429217 original size:21 final size:20
Alignment explanation
Indices: 24429193--24429283 Score: 50
Period size: 23 Copynumber: 4.5 Consensus size: 20
24429183 TGCTTATAGC
24429193 TAATCTTAAAAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
** *
24429214 TAA--TAATTATATTA--TA
1 TAATTTAAAAAAATTATGTA
24429230 -AATCTTA-AAAAATTATGTA
1 TAAT-TTAAAAAAATTATGTA
24429249 TATATTATAAAAAAATTTATGTA
1 TA-ATT-TAAAAAAA-TTATGTA
24429272 TATATTATAAAA
1 TA-ATT-TAAAA
24429284 TGATAAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 18
0.69 0.08 0.23
Matches are distributed among these distances:
15 2 0.04
16 2 0.04
17 5 0.09
18 10 0.19
19 2 0.04
20 2 0.04
21 7 0.13
22 5 0.09
23 19 0.35
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (20 bp):
TAATTTAAAAAAATTATGTA
Found at i:24429262 original size:23 final size:23
Alignment explanation
Indices: 24429236--24429283 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
24429226 TATAAATCTT
24429236 AAAAAATTATGTATATATTATAA
1 AAAAAATTATGTATATATTATAA
*
24429259 AAAAATTTATGTATATATTATAA
1 AAAAAATTATGTATATATTATAA
24429282 AA
1 AA
24429284 TGATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
AAAAAATTATGTATATATTATAA
Found at i:24432758 original size:66 final size:66
Alignment explanation
Indices: 24432678--24432810 Score: 212
Period size: 66 Copynumber: 2.0 Consensus size: 66
24432668 ATTAAAGATA
24432678 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
24432743 T
66 T
* * * * **
24432744 TCCTATGAGGGTAATGTTGGGAAACGTGTTCATATTGTAGTAAACATGTAATTATTTTCTATGTA
1 TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
24432809 T
66 T
24432810 T
1 T
24432811 TGAATGATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (66 bp):
TCCTATGAGGGTAATATTGAGAAACATGTCCATATTGTAGTAAACATAAAATTATTTTCTATGTA
T
Found at i:24437654 original size:19 final size:19
Alignment explanation
Indices: 24437634--24437719 Score: 118
Period size: 19 Copynumber: 4.5 Consensus size: 19
24437624 ATCTTTTAAT
* *
24437634 ATTGCATATTATATCTAAT
1 ATTGCATATCATATCTAAG
* *
24437653 ATTACATATCATATCCAAG
1 ATTGCATATCATATCTAAG
*
24437672 ATTGCATATTATATCTAAG
1 ATTGCATATCATATCTAAG
*
24437691 ATTACATATCATATCTAAG
1 ATTGCATATCATATCTAAG
24437710 ATTGCATATC
1 ATTGCATATC
24437720 CTTGAAGATT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 57 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (19 bp):
ATTGCATATCATATCTAAG
Found at i:24437683 original size:38 final size:38
Alignment explanation
Indices: 24437634--24437718 Score: 152
Period size: 38 Copynumber: 2.2 Consensus size: 38
24437624 ATCTTTTAAT
*
24437634 ATTGCATATTATATCTAATATTACATATCATATCCAAG
1 ATTGCATATTATATCTAAGATTACATATCATATCCAAG
*
24437672 ATTGCATATTATATCTAAGATTACATATCATATCTAAG
1 ATTGCATATTATATCTAAGATTACATATCATATCCAAG
24437710 ATTGCATAT
1 ATTGCATAT
24437719 CCTTGAAGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (38 bp):
ATTGCATATTATATCTAAGATTACATATCATATCCAAG
Found at i:24445325 original size:16 final size:16
Alignment explanation
Indices: 24445293--24445342 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
24445283 AATGTTAAAT
*
24445293 AATATTCTAATATTTTA
1 AATATTTTAA-ATTTTA
* *
24445310 AATTTTTTAGATTTTA
1 AATATTTTAAATTTTA
*
24445326 TATATTTTAAATTTTA
1 AATATTTTAAATTTTA
24445342 A
1 A
24445343 GACAATAATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 19 0.73
17 7 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
AATATTTTAAATTTTA
Found at i:24445510 original size:6 final size:6
Alignment explanation
Indices: 24445499--24445526 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
24445489 ATTTTAAATA
24445499 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
24445527 TACCATCTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:24449881 original size:28 final size:28
Alignment explanation
Indices: 24449841--24449900 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
24449831 GCAGATTCAT
* *
24449841 ACTTGTAAGACAGTCTTGACGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
*
24449869 ACTTATAAGACAGTCCTGATGGACTCTC
1 ACTTATAAGACAGTCCTGACGGACTCTC
24449897 ACTT
1 ACTT
24449901 GAAAGATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
ACTTATAAGACAGTCCTGACGGACTCTC
Found at i:24459214 original size:15 final size:15
Alignment explanation
Indices: 24459194--24459222 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24459184 CCTGAGCCAC
24459194 TGCTGTTGTTGTTGA
1 TGCTGTTGTTGTTGA
24459209 TGCTGTTGTTGTTG
1 TGCTGTTGTTGTTG
24459223 TTGAAAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.07, G:0.34, T:0.55
Consensus pattern (15 bp):
TGCTGTTGTTGTTGA
Found at i:24459232 original size:21 final size:21
Alignment explanation
Indices: 24459193--24459261 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 21
24459183 GCCTGAGCCA
24459193 CTGCTGTTGTTGTTG---ATG
1 CTGCTGTTGTTGTTGAAAATG
*
24459211 CTGTTGTTGTTGTTGAAAATG
1 CTGCTGTTGTTGTTGAAAATG
*
24459232 CTGCTGATTGTGTTGTTGAAACTG
1 CTGCTG--T-TGTTGTTGAAAATG
24459256 CTGCTG
1 CTGCTG
24459262 ATTATGAACC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 14 0.33
21 8 0.19
23 1 0.02
24 19 0.45
ACGTcount: A:0.13, C:0.12, G:0.30, T:0.45
Consensus pattern (21 bp):
CTGCTGTTGTTGTTGAAAATG
Found at i:24459236 original size:24 final size:24
Alignment explanation
Indices: 24459209--24459264 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
24459199 TTGTTGTTGA
24459209 TGCTG-TTGTTGTTGTTGAAAATGC
1 TGCTGATTG-TGTTGTTGAAAATGC
*
24459233 TGCTGATTGTGTTGTTGAAACTGC
1 TGCTGATTGTGTTGTTGAAAATGC
24459257 TGCTGATT
1 TGCTGATT
24459265 ATGAACCAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.16, C:0.11, G:0.29, T:0.45
Consensus pattern (24 bp):
TGCTGATTGTGTTGTTGAAAATGC
Found at i:24460530 original size:12 final size:12
Alignment explanation
Indices: 24460513--24460545 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
24460503 ACTTAATCTT
24460513 TTTAATATTAAA
1 TTTAATATTAAA
24460525 TTTAATATT-AA
1 TTTAATATTAAA
*
24460536 TCTAATATTA
1 TTTAATATTA
24460546 GATTATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:24462483 original size:20 final size:23
Alignment explanation
Indices: 24462448--24462492 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
24462438 GAACAAATTG
24462448 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
24462470 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
24462491 TT
1 TT
24462493 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:24462548 original size:21 final size:23
Alignment explanation
Indices: 24462524--24462566 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
24462514 TTAATTTTTT
*
24462524 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
24462545 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
24462567 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Found at i:24466826 original size:13 final size:13
Alignment explanation
Indices: 24466793--24466830 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
24466783 GATATATTTG
*
24466793 TAATTTGAAAACT
1 TAATTTGAAAAAT
24466806 TAAATTTGAAAAAT
1 T-AATTTGAAAAAT
24466820 TAATTTGAAAA
1 TAATTTGAAAA
24466831 TTTGTAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAAAT
Found at i:24467118 original size:35 final size:35
Alignment explanation
Indices: 24467067--24467173 Score: 144
Period size: 35 Copynumber: 3.1 Consensus size: 35
24467057 TTCACTTGTC
* *
24467067 TTTTCTTGCAGGGAATCTTTCCTGTTCATGCATTA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* *
24467102 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* * *
24467137 -TTTCTTACAGGGAATCTCTCCTATTCATACATCA
1 TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
24467171 TTT
1 TTT
24467174 CTGGTATTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 29 0.47
35 33 0.53
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (35 bp):
TTTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
Found at i:24467153 original size:34 final size:34
Alignment explanation
Indices: 24467068--24467175 Score: 144
Period size: 34 Copynumber: 3.1 Consensus size: 34
24467058 TCACTTGTCT
* *
24467068 TTTCTTGCAGGGAATCTTTCCTGTTCATGCATTA
1 TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* *
24467102 TTTTGTTGCAGGGAATCTTTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
* * *
24467137 TTTCTTACAGGGAATCTCTCCTATTCATACATCA
1 TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
24467171 TTTCT
1 TTTCT
24467176 GGTATTATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
34 34 0.53
35 30 0.47
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTTTCCTGTTCATACATCA
Found at i:24468281 original size:37 final size:37
Alignment explanation
Indices: 24468184--24468294 Score: 108
Period size: 37 Copynumber: 3.0 Consensus size: 37
24468174 CTTGTAGATA
*
24468184 AATATTAAATTTAAT-TT-AA-TATTAAGATAAACACTTT
1 AATATTAAATTTAATATTAAACTATTAAGAT-AATA--TT
*
24468221 AATATTAAA-TTAATA-AAATACTATTAAGATAAGTATT
1 AATATTAAATTTAATATTAA-ACTATTAAGATAA-TATT
*
24468258 AA-ATTAAATTTAATATTAAACTATTAAAATAATATT
1 AATATTAAATTTAATATTAAACTATTAAGATAATATT
24468294 A
1 A
24468295 TTTTTTGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
36 16 0.25
37 32 0.51
38 5 0.08
39 10 0.16
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (37 bp):
AATATTAAATTTAATATTAAACTATTAAGATAATATT
Found at i:24474951 original size:18 final size:18
Alignment explanation
Indices: 24474924--24474968 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
24474914 CTCTACTATT
*
24474924 TCAAGGTTAGTGATCGTC
1 TCAAGTTTAGTGATCGTC
24474942 TCAAGTTTAGTGATCGTC
1 TCAAGTTTAGTGATCGTC
24474960 TCAAGTTTA
1 TCAAGTTTA
24474969 ATAGTTGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (18 bp):
TCAAGTTTAGTGATCGTC
Found at i:24475648 original size:10 final size:10
Alignment explanation
Indices: 24475633--24475714 Score: 55
Period size: 10 Copynumber: 8.2 Consensus size: 10
24475623 CTAAAGTTAA
24475633 AATATATTAT
1 AATATATTAT
24475643 AATATA--AT
1 AATATATTAT
*
24475651 AATATTACTTAA
1 AATA-TA-TTAT
*
24475663 AAGT-TAAGTAT
1 AA-TAT-ATTAT
24475674 A-TATATTAT
1 AATATATTAT
*
24475683 ATTATATTAT
1 AATATATTAT
*
24475693 ATTATATTAT
1 AATATATTAT
*
24475703 ATTATATTAT
1 AATATATTAT
24475713 AA
1 AA
24475715 AAACAAACAA
Statistics
Matches: 59, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
8 6 0.10
9 8 0.14
10 36 0.61
11 4 0.07
12 4 0.07
13 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (10 bp):
AATATATTAT
Found at i:24475683 original size:5 final size:5
Alignment explanation
Indices: 24475671--24475713 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
24475661 AAAAGTTAAG
24475671 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
24475714 AAAACAAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.11
5 34 0.89
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:24476717 original size:22 final size:22
Alignment explanation
Indices: 24476682--24476738 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
24476672 CTAGCACGAC
* * *
24476682 AGTGTTCTCCGTTTAGTACATTT
1 AGTGCTCTCTGTTTAGCAC-TTT
24476705 -GTGCTCTCTGTTTAGCACTTT
1 AGTGCTCTCTGTTTAGCACTTT
24476726 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
24476739 CATTAGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.47
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTTT
Found at i:24479020 original size:43 final size:43
Alignment explanation
Indices: 24478851--24479021 Score: 140
Period size: 43 Copynumber: 4.0 Consensus size: 43
24478841 ACATAGGATT
* *
24478851 TCGATATGT-ATTTTCGTGTAAGAACACGTCTGGGACGTTGGCA
1 TCGATATGTGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCA
* * * * *
24478894 TCGA-ATTGTG-TATACGTGTAAGGCTATGGCTGGGACATTGGCA
1 TCGATA-TGTGAT-TACGTGTAAGACCACGTCTGGGACGTTGGCA
* * *
24478937 TCG-TATTTGATT-TGTGTAAGACC-CTGTCTAGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCA
* *
24478978 TCGATATGTGATTACCTGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
24479021 T
1 T
24479022 TGTACGAGCC
Statistics
Matches: 97, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
41 23 0.24
42 15 0.15
43 58 0.60
44 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCA
Found at i:24485333 original size:51 final size:51
Alignment explanation
Indices: 24485256--24485367 Score: 215
Period size: 51 Copynumber: 2.2 Consensus size: 51
24485246 CCCCTTTTAG
24485256 CAGATCAGGAAATAAAAAATAAAAATTTATCTGATGAAGAAAAAACTTCAA
1 CAGATCAGGAAATAAAAAATAAAAATTTATCTGATGAAGAAAAAACTTCAA
*
24485307 CAGATCAGGAAATAAAAAATAGAAATTTATCTGATGAAGAAAAAACTTCAA
1 CAGATCAGGAAATAAAAAATAAAAATTTATCTGATGAAGAAAAAACTTCAA
24485358 CAGATCAGGA
1 CAGATCAGGA
24485368 TGAAGACGTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (51 bp):
CAGATCAGGAAATAAAAAATAAAAATTTATCTGATGAAGAAAAAACTTCAA
Found at i:24485369 original size:27 final size:27
Alignment explanation
Indices: 24485288--24485373 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
24485278 AAATTTATCT
24485288 GATGAAGAAAAAACTTCAACAGATCAG
1 GATGAAGAAAAAACTTCAACAGATCAG
* ** * *
24485315 GA--AATAAAAAA-TAGAA-ATTTATC-T
1 GATGAAGAAAAAACTTCAACA--GATCAG
24485339 GATGAAGAAAAAACTTCAACAGATCAG
1 GATGAAGAAAAAACTTCAACAGATCAG
24485366 GATGAAGA
1 GATGAAGA
24485374 CGTAAAAGTC
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
23 1 0.02
24 5 0.12
25 11 0.26
26 11 0.26
27 13 0.31
28 1 0.02
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.19
Consensus pattern (27 bp):
GATGAAGAAAAAACTTCAACAGATCAG
Found at i:24489061 original size:21 final size:22
Alignment explanation
Indices: 24489035--24489081 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
24489025 CTCTGCTCAA
*
24489035 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
24489056 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
24489078 ACTC
1 ACTC
24489082 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:24492409 original size:18 final size:17
Alignment explanation
Indices: 24492386--24492419 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24492376 TTTTAATTAA
*
24492386 ATAAATTATTAAATATTT
1 ATAAATT-TAAAATATTT
24492404 ATAAATTTAAAATATT
1 ATAAATTTAAAATATT
24492420 AAAAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAAATTTAAAATATTT
Found at i:24493226 original size:15 final size:17
Alignment explanation
Indices: 24493196--24493262 Score: 82
Period size: 17 Copynumber: 4.0 Consensus size: 17
24493186 AGATTATTAT
24493196 TATAAATATATATAAAA
1 TATAAATATATATAAAA
*
24493213 TATAAATTTATA-AAAA
1 TATAAATATATATAAAA
* * *
24493229 TAGAAAAATATATACAA
1 TATAAATATATATAAAA
*
24493246 TAAAAATATATATAAAA
1 TATAAATATATATAAAA
24493263 AGCGTATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 13 0.32
17 28 0.68
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (17 bp):
TATAAATATATATAAAA
Found at i:24493493 original size:23 final size:23
Alignment explanation
Indices: 24493436--24493493 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
24493426 TTGATGTAAT
**
24493436 TTTTTTATATTTTTATTAATTTAA
1 TTTTTTA-ATTTTTATTAAAATAA
24493460 TTATTTT-ATTTTT-TTAAAATATA
1 TT-TTTTAATTTTTATTAAAATA-A
24493483 TTTTTTAATTT
1 TTTTTTAATTT
24493494 CAAAATCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 10 0.34
23 13 0.45
24 2 0.07
25 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTTAATTTTTATTAAAATAA
Found at i:24499324 original size:21 final size:21
Alignment explanation
Indices: 24499299--24499360 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
24499289 CCCATCTCAA
24499299 TGTTGACTCTCCTACTCACGT
1 TGTTGACTCTCCTACTCACGT
* * * *
24499320 TGTTGACCCTCATCCT-A--A
1 TGTTGACTCTCCTACTCACGT
*
24499338 TGTTGACTCTCCTGCTCACGT
1 TGTTGACTCTCCTACTCACGT
24499359 TG
1 TG
24499361 GGTCTAATAG
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 1 0.03
21 15 0.50
ACGTcount: A:0.15, C:0.32, G:0.16, T:0.37
Consensus pattern (21 bp):
TGTTGACTCTCCTACTCACGT
Found at i:24501942 original size:17 final size:17
Alignment explanation
Indices: 24501909--24501942 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24501899 TTGTTTATTG
* *
24501909 TTTTGTTTTTTTTATTT
1 TTTTGTTTATTTAATTT
24501926 TTTTGTTTATTTAATTT
1 TTTTGTTTATTTAATTT
24501943 GCATGGGCCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (17 bp):
TTTTGTTTATTTAATTT
Found at i:24502032 original size:17 final size:17
Alignment explanation
Indices: 24501989--24502036 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
24501979 TTTTAAAAAA
* *
24501989 CTCAAGAATGTTTTTAT
1 CTCAAAAATATTTTTAT
*
24502006 CTTAAGAAAATATTTTTAT
1 C-TCA-AAAATATTTTTAT
24502025 CTCAAAAATATT
1 CTCAAAAATATT
24502037 AAAGTAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 9 0.36
18 4 0.16
19 12 0.48
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (17 bp):
CTCAAAAATATTTTTAT
Found at i:24502592 original size:8 final size:8
Alignment explanation
Indices: 24502579--24502619 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
24502569 TTTTATGATA
24502579 ATAATTTT
1 ATAATTTT
24502587 ATAATTTT
1 ATAATTTT
24502595 AATAA-TTT
1 -ATAATTTT
*
24502603 ATAAATTT
1 ATAATTTT
24502611 ATAATTTT
1 ATAATTTT
24502619 A
1 A
24502620 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 4 0.13
8 22 0.73
9 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
ATAATTTT
Found at i:24502611 original size:24 final size:24
Alignment explanation
Indices: 24502558--24502641 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
24502548 AGGATGAAAT
* *
24502558 TAAA-TTATAATTTTTATGA-TAA
1 TAAATTTATAATTTTAATAATTAA
* *
24502580 TAATTTTATAATTTTAATAATTTA
1 TAAATTTATAATTTTAATAATTAA
*
24502604 TAAATTTATAATTTTAAAAATTAAA
1 TAAATTTATAATTTTAATAATT-AA
*
24502629 TTAAATTTTTAAT
1 -TAAATTTATAAT
24502642 ATTTTTAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
22 3 0.06
23 13 0.26
24 22 0.44
25 1 0.02
26 11 0.22
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (24 bp):
TAAATTTATAATTTTAATAATTAA
Found at i:24502619 original size:16 final size:17
Alignment explanation
Indices: 24502577--24502625 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
24502567 ATTTTTATGA
*
24502577 TAATAATTTTATAATTT
1 TAATAATTTTATAAATT
24502594 TAATAA-TTTATAAATT
1 TAATAATTTTATAAATT
*
24502610 T-ATAATTTTAAAAATT
1 TAATAATTTTATAAATT
24502626 AAATTAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 4 0.14
16 19 0.66
17 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAATAATTTTATAAATT
Found at i:24515255 original size:18 final size:19
Alignment explanation
Indices: 24515223--24515265 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
24515213 CATATTTATA
*
24515223 TTTTTATTTCAAGCT-TTG
1 TTTTTATTTCAAGCTACTG
**
24515241 TTTTTATTTTTAGCTACTG
1 TTTTTATTTCAAGCTACTG
24515260 TTTTTA
1 TTTTTA
24515266 ACACATTAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.65
Consensus pattern (19 bp):
TTTTTATTTCAAGCTACTG
Found at i:24519625 original size:21 final size:21
Alignment explanation
Indices: 24519599--24519639 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
24519589 AGACGAGCAA
* *
24519599 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
24519620 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
24519640 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:24538330 original size:8 final size:8
Alignment explanation
Indices: 24538308--24538340 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
24538298 GAGTAAAATC
24538308 ATGTA-AT
1 ATGTATAT
*
24538315 ATGCATAT
1 ATGTATAT
24538323 ATGTATAT
1 ATGTATAT
24538331 ATGTATAT
1 ATGTATAT
24538339 AT
1 AT
24538341 TTCGGAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 4 0.17
8 19 0.83
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (8 bp):
ATGTATAT
Found at i:24541107 original size:29 final size:29
Alignment explanation
Indices: 24541066--24541196 Score: 87
Period size: 30 Copynumber: 4.6 Consensus size: 29
24541056 ACTATTTTTG
* *
24541066 AAAGGATGTCTTTGTGGCTATCTCAGTTA
1 AAAGGAAGCCTTTGTGGCTATCTCAGTTA
* *
24541095 AAAGTG-AGCCTTTGTGG-TAGTTTCCG-T-
1 AAAG-GAAGCCTTTGTGGCTA-TCTCAGTTA
*
24541122 -AAGGAAGCCTTTGTGGCTATCTCTGTTAA
1 AAAGGAAGCCTTTGTGGCTATCTCAGTT-A
* *
24541151 AAAGGAAGTCC-TTGTGGCAATCTCTA-ATA
1 AAAGGAAG-CCTTTGTGGCTATCTC-AGTTA
*
24541180 AAAAGAATGCCTTTGTG
1 AAAGGAA-GCCTTTGTG
24541197 ACTTTTTCTG
Statistics
Matches: 80, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
25 1 0.01
26 18 0.22
27 3 0.04
28 3 0.04
29 26 0.32
30 27 0.34
31 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (29 bp):
AAAGGAAGCCTTTGTGGCTATCTCAGTTA
Found at i:24541158 original size:30 final size:29
Alignment explanation
Indices: 24541038--24541257 Score: 113
Period size: 26 Copynumber: 7.8 Consensus size: 29
24541028 TTATTTTTCG
* *
24541038 TAAAAGGATGCCTTTGTGACTAT-T-T-T
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* * * *
24541064 TGAAAGGATGTCTTTGTGGCTATCTCAGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* *
24541093 TAAAAGTG-AGCCTTTGTGG-TAGTTTCCG-
1 TAAAAG-GAAGCCTTTGTGGCTA-TCTCTGT
24541121 T--AAGGAAGCCTTTGTGGCTATCTCTGT
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
* **
24541148 TAAAAAGGAAGTCC-TTGTGGCAATCTCTAA
1 T-AAAAGGAAG-CCTTTGTGGCTATCTCTGT
* * * *
24541178 TAAAAAGAATGCCTTTGTGACTTTTTCTGT
1 TAAAAGGAA-GCCTTTGTGGCTATCTCTGT
* * *** *
24541208 TAGAAGGATGCC-TTGTGG-TAAGACT-C
1 TAAAAGGAAGCCTTTGTGGCTATCTCTGT
24541234 TAAAAGGAAAGCCTTTGTGGCTAT
1 TAAAAGG-AAGCCTTTGTGGCTAT
24541258 TTTTGGAAGG
Statistics
Matches: 144, Mismatches: 33, Indels: 31
0.69 0.16 0.15
Matches are distributed among these distances:
25 1 0.01
26 44 0.31
27 11 0.08
28 14 0.10
29 33 0.23
30 39 0.27
31 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (29 bp):
TAAAAGGAAGCCTTTGTGGCTATCTCTGT
Found at i:24548731 original size:45 final size:45
Alignment explanation
Indices: 24548667--24548760 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
24548657 ATTAGTAATA
* * *
24548667 TAAAACTTAATATTATCTTGCTTTTATTATTAAACATACGAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTAGTAAACATACCAAAAT
* *
24548712 TAAAACTTAATATTATCTTGCATTTATTAGTAGATATACCAAAAT
1 TAAAACTTAATATTATCTTGCATTTATTAGTAAACATACCAAAAT
24548757 TAAA
1 TAAA
24548761 GTACCTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (45 bp):
TAAAACTTAATATTATCTTGCATTTATTAGTAAACATACCAAAAT
Found at i:24550131 original size:13 final size:13
Alignment explanation
Indices: 24550113--24550143 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24550103 ATTTTAAAAA
*
24550113 ATAAATATTAATT
1 ATAAATATTAAAT
24550126 ATAAATATTAAAT
1 ATAAATATTAAAT
24550139 ATAAA
1 ATAAA
24550144 AACATCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAAATATTAAAT
Found at i:24551408 original size:31 final size:31
Alignment explanation
Indices: 24551372--24551435 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
24551362 TCCATCAAAG
*
24551372 TTTTACCACTCTCATATGTACGAAGACGGGT
1 TTTTACCACTCTCATATGCACGAAGACGGGT
24551403 TTTTACCACTCTCATATGCACGAAGACGGGT
1 TTTTACCACTCTCATATGCACGAAGACGGGT
24551434 TT
1 TT
24551436 GATTCCACTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (31 bp):
TTTTACCACTCTCATATGCACGAAGACGGGT
Found at i:24555241 original size:18 final size:19
Alignment explanation
Indices: 24555214--24555251 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
24555204 AAGCAAATAA
*
24555214 ATTATTAAAA-ATAAAAAT
1 ATTATAAAAATATAAAAAT
24555232 ATTATAAAAATTATAAAAAT
1 ATTATAAAAA-TATAAAAAT
24555252 CGGTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTATAAAAATATAAAAAT
Found at i:24558145 original size:23 final size:23
Alignment explanation
Indices: 24558119--24558172 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
24558109 AAATTCAAAT
*
24558119 TTCGAGTTAA-TCGAATCAACTTA
1 TTCGAGTTAACTCGAAT-AACTGA
*
24558142 TTCGAGTAAACTCGAATAACTGA
1 TTCGAGTTAACTCGAATAACTGA
*
24558165 TTCAAGTT
1 TTCGAGTT
24558173 TCGAGTTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (23 bp):
TTCGAGTTAACTCGAATAACTGA
Found at i:24558322 original size:19 final size:19
Alignment explanation
Indices: 24558294--24558338 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
24558284 CTCTCAACAA
*
24558294 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
24558313 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
24558332 AAAAATT
1 AAAAATT
24558339 TTAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:24558347 original size:18 final size:18
Alignment explanation
Indices: 24558307--24558350 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24558297 AAATCAAAAT
24558307 AATTT-TAAAAATTCAAA
1 AATTTATAAAAATTCAAA
**
24558324 ATATTTATAAAAATTTTAA
1 A-ATTTATAAAAATTCAAA
24558343 AATTTATA
1 AATTTATA
24558351 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 11 0.48
19 11 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTATAAAAATTCAAA
Found at i:24559143 original size:32 final size:33
Alignment explanation
Indices: 24559078--24559144 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
24559068 AAAAATAAAA
* *
24559078 AAAATATGAAAAAATAAAAACTCTTTAAAATTC
1 AAAATATGAAAAAATAAAAAATCTCTAAAATTC
*
24559111 AAAATAT-AAAAAATATAAAAAT-TCTAACATTC
1 AAAATATGAAAAAATA-AAAAATCTCTAAAATTC
24559143 AA
1 AA
24559145 TATTATCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.63, C:0.09, G:0.01, T:0.27
Consensus pattern (33 bp):
AAAATATGAAAAAATAAAAAATCTCTAAAATTC
Found at i:24559544 original size:24 final size:25
Alignment explanation
Indices: 24559516--24559562 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24559506 GATAACATTG
24559516 AATTTTTATATATTTA-AAAAAGAT
1 AATTTTTATATATTTATAAAAAGAT
* *
24559540 AATTTTTATTTTTTTATAAAAAG
1 AATTTTTATATATTTATAAAAAG
24559563 TTCTTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
AATTTTTATATATTTATAAAAAGAT
Found at i:24559815 original size:14 final size:15
Alignment explanation
Indices: 24559788--24559819 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24559778 TTTTTAGAAT
24559788 TTTTTAATATTTTTA
1 TTTTTAATATTTTTA
24559803 TTTTTAATA-TTTTA
1 TTTTTAATATTTTTA
24559817 TTT
1 TTT
24559820 GCTTTGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTAATATTTTTA
Found at i:24560180 original size:241 final size:241
Alignment explanation
Indices: 24559757--24560246 Score: 946
Period size: 241 Copynumber: 2.0 Consensus size: 241
24559747 TGAAACCAAG
24559757 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAATATTTTTATTTTTAATATTTTATTTGC
1 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAATATTTTTATTTTTAATATTTTATTTGC
24559822 TTTGAACTTGTTGGACTAGTTACTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
66 TTTGAACTTGTTGGACTAGTTACTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
24559887 TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
131 TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
24559952 GTTTTATTATTTCTATTTCTTGAAGATTTACCACCATAAATTTAAA
196 GTTTTATTATTTCTATTTCTTGAAGATTTACCACCATAAATTTAAA
24559998 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAGA-ATTTTTATTTTTAATATTTTATTTG
1 TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTA-ATATTTTTATTTTTAATATTTTATTTG
*
24560062 CTTTGAACTTGTTGGACTAGTTGCTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAA
65 CTTTGAACTTGTTGGACTAGTTACTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAA
24560127 TTGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAA
130 TTGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAA
*
24560192 AGTTTTATTATTTCTATTTCTTGAAGATTTACCACTATAAATTTAAA
195 AGTTTTATTATTTCTATTTCTTGAAGATTTACCACCATAAATTTAAA
24560239 TTAAAAAA
1 TTAAAAAA
24560247 ACTAAAACTA
Statistics
Matches: 246, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
241 245 1.00
242 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (241 bp):
TTAAAAAACCAGTTGAACCAATTTTTAGAATTTTTTAATATTTTTATTTTTAATATTTTATTTGC
TTTGAACTTGTTGGACTAGTTACTTTGGAAACCAATTCGTCAAGCCAATTCGAAATCGGTTCAAT
TGCTAATTCAATCGATTTTAGCTCGGTTCAACCAATTTGTACCGGTTCGCTTATTTACTTTCAAA
GTTTTATTATTTCTATTTCTTGAAGATTTACCACCATAAATTTAAA
Found at i:24567726 original size:21 final size:21
Alignment explanation
Indices: 24567668--24567754 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 21
24567658 CCTGATCAGT
24567668 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
24567688 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
24567709 ATACGACACGTAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
* *
24567732 ATACGACACATAAAATTCCTG
1 ATACGACACATAAAGTGCCTG
24567753 AT
1 AT
24567755 CGGCAAAGCC
Statistics
Matches: 53, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
20 9 0.17
21 26 0.49
23 18 0.34
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:24568081 original size:16 final size:17
Alignment explanation
Indices: 24568060--24568091 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24568050 TAATAATAAT
24568060 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
24568076 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
24568092 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:24568786 original size:14 final size:14
Alignment explanation
Indices: 24568744--24568778 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
24568734 TCCTCTGTTC
24568744 TTTCTTTCTTTT-T
1 TTTCTTTCTTTTGT
24568757 GTTTCTTTCTTTTGT
1 -TTTCTTTCTTTTGT
24568772 TTTCTTT
1 TTTCTTT
24568779 TATTTGTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTGT
Done.