Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 165 of 320
Found at i:54439921 original size:12 final size:12
Alignment explanation
Indices: 54439904--54439932 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
54439894 TAGAGGTACT
54439904 CGTGGTAGAGGC
1 CGTGGTAGAGGC
54439916 CGTGGTAGAGGC
1 CGTGGTAGAGGC
54439928 CGTGG
1 CGTGG
54439933 AGGTGCTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.17, G:0.52, T:0.17
Consensus pattern (12 bp):
CGTGGTAGAGGC
Found at i:54443095 original size:39 final size:40
Alignment explanation
Indices: 54442891--54443113 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
54442881 TTGAATGCTG
* * * * * *
54442891 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
54442931 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
54442971 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
54443011 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
54443051 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
54443090 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54443114 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:54443133 original size:79 final size:80
Alignment explanation
Indices: 54442966--54443148 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
54442956 GTGCGAGATA
* * *
54442966 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
54443031 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
54443046 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
54443110 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
54443125 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
54443149 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:54450975 original size:39 final size:40
Alignment explanation
Indices: 54450771--54450993 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
54450761 TTGAATGCTG
* * * * * *
54450771 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATACA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
54450811 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
54450851 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
54450891 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
54450931 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
54450970 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
54450994 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:54451013 original size:79 final size:80
Alignment explanation
Indices: 54450846--54451028 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
54450836 GTGCGAGATA
* * *
54450846 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
54450911 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
54450926 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
54450990 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
54451005 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
54451029 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:54453519 original size:47 final size:48
Alignment explanation
Indices: 54453390--54453528 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
54453380 TACCATGGTT
* * * *
54453390 ATACGTGTAACGTGGTGCTCAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* * * *
54453438 ATACATGTAACATGGTGCTATGTGGATATGCCACGGTTACATATATCG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
* *
54453486 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
54453529 GTAACGTGGT
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 32 0.42
48 45 0.58
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGGTTACACATATCG
Found at i:54453543 original size:38 final size:38
Alignment explanation
Indices: 54453492--54453568 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
54453482 ATCGATTCAT
54453492 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
54453530 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
54453568 T
1 T
54453569 TAATTTGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:54468155 original size:49 final size:48
Alignment explanation
Indices: 54468069--54468277 Score: 350
Period size: 49 Copynumber: 4.4 Consensus size: 48
54468059 TATTTGAATA
* *
54468069 AATGTGAAAGTGTATA-TATATGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATTATGTGATAAGGCCGAATGGCCGATGTGATG
*
54468116 AATGTGAAAGTGTATATGTATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATAT-TATGTGATAAGGCCGAATGGCCGATGTGATG
54468165 AATGTGAAAGTGTATA-TATGTGATAAGGCCGAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATTATGTGATAAGGCCGAATGGCCGATGTGATG
*
54468212 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATAT-TATGTGATAAGGCCGAATGGCCGATGTGATG
54468261 AATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATAT
54468278 GTGATGAATG
Statistics
Matches: 153, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
47 62 0.41
49 91 0.59
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
AATGTGAAAGTGTATATTATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:54468181 original size:96 final size:96
Alignment explanation
Indices: 54468069--54468277 Score: 391
Period size: 96 Copynumber: 2.2 Consensus size: 96
54468059 TATTTGAATA
*
54468069 AATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATG
1 AATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
54468134 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
54468165 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
54468230 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCTAATGGCCGATGTGATG
54468261 AATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATAT
54468278 GTGATGAATG
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 110 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54468283 original size:23 final size:23
Alignment explanation
Indices: 54468253--54468300 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
54468243 CTAATGGCCG
54468253 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
54468276 ATGTGATGAATGTGAAAGTGTAT
1 ATGTGATGAATGTGAAAGTGTAT
54468299 AT
1 AT
54468301 ATATGTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (23 bp):
ATGTGATGAATGTGAAAGTGTAT
Found at i:54468286 original size:72 final size:72
Alignment explanation
Indices: 54468204--54468349 Score: 292
Period size: 72 Copynumber: 2.0 Consensus size: 72
54468194 CGAATGGCCG
54468204 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54468269 AGTGTAT
66 AGTGTAT
54468276 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
54468341 AGTGTAT
66 AGTGTAT
54468348 AT
1 AT
54468350 ATGTGACAGG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (72 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
AGTGTAT
Found at i:54468331 original size:49 final size:49
Alignment explanation
Indices: 54468276--54468406 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 49
54468266 GAAAGTGTAT
*
54468276 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA-TGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC-AAGTGGCCA
* *
54468325 ATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCAAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCAAGTGGCCA
* *
54468372 ACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
54468407 TCCCGAAGGG
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
46 2 0.03
47 47 0.65
48 1 0.01
49 22 0.31
ACGTcount: A:0.34, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCAAGTGGCCA
Found at i:54478089 original size:39 final size:39
Alignment explanation
Indices: 54478045--54478281 Score: 413
Period size: 39 Copynumber: 6.1 Consensus size: 39
54478035 ATGCAAGACA
54478045 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
54478084 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
54478123 CTGGAAATATATCCAGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
54478162 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
54478201 CTGGAAATGTATCCGGGCCT-AAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGG-CTAAAGTCCCGCAGGCTTCGTG
* *
54478240 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
54478279 CTG
1 CTG
54478282 ATAATACAAT
Statistics
Matches: 188, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.01
39 185 0.98
40 2 0.01
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:54495856 original size:37 final size:37
Alignment explanation
Indices: 54495814--54495894 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
54495804 ATAACCCAAA
54495814 GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
1 GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
* *
54495851 GCAATTTCATACAAATTACTTCTAGAAATCAAGTTTT
1 GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
*
54495888 GTAATTT
1 GCAATTT
54495895 ATTCAATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (37 bp):
GCAATTTCATACAAATCACTTCTAGAAATCAAGTTCT
Found at i:54505575 original size:43 final size:42
Alignment explanation
Indices: 54505500--54505581 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
54505490 AATACCAACG
** * *
54505500 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTA
1 TCCCAGACAAGGTCTTACAAGAAATCAAATATC-ATGCCACTA
54505543 TCCCAGACAAGGTCTTACAAGAAAT-AATATATCATGCCA
1 TCCCAGACAAGGTCTTACAAGAAATCAA-ATATCATGCCA
54505582 ACATCCCCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCCAGACAAGGTCTTACAAGAAATCAAATATCATGCCACTA
Found at i:54512563 original size:43 final size:42
Alignment explanation
Indices: 54512516--54512670 Score: 129
Period size: 43 Copynumber: 3.6 Consensus size: 42
54512506 TTTGATATGT
*
54512516 GATTTCGTGTAAGACCACGCCTGGGACATTGGCATCGATTTG
1 GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTG
* * *
54512558 AGATTTAAC-TGTAAGACCATGTCTAGGACATCGGCATCGTATATT-
1 -GATTT--CGTGTAAGACCACGTCTGGGACATTGGCATCG-AT-TTG
* * *
54512603 -ATTTTGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATG
1 GATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCGATTTG
* * *
54512644 TGATTACATGTAAGACCATGTCTGGGA
1 -GATTTCGTGTAAGACCACGTCTGGGA
54512671 TGTTAGCATT
Statistics
Matches: 88, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 25 0.28
43 29 0.33
44 26 0.30
45 3 0.03
46 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
GATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGATTTG
Found at i:54515606 original size:18 final size:19
Alignment explanation
Indices: 54515573--54515608 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
54515563 TTAAATTTAG
*
54515573 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
54515592 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
54515609 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:54516052 original size:68 final size:64
Alignment explanation
Indices: 54515942--54516195 Score: 217
Period size: 68 Copynumber: 3.9 Consensus size: 64
54515932 ATACAAATAG
** * * *
54515942 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTGTACAAGAGAGCTAC--GACA-
54516007 TA
63 TA
* * ** *
54516009 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAC
1 T-ATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGT-GTACAAGAGAGCTACGACAT
54516073 A
64 A
* * * * * * ** *
54516074 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTAAGT---GTACACCATGTGTACAAGAGAGCTACGACA
54516139 TA
63 TA
* *
54516141 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCT
1 TA-TGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTGTACAAGAGAGCT
54516196 GAACTATATG
Statistics
Matches: 150, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
63 20 0.13
64 25 0.17
65 2 0.01
66 23 0.15
67 29 0.19
68 50 0.33
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTAAGTGTACACCATGTGTACAAGAGAGCTACGACATA
Found at i:54517215 original size:16 final size:17
Alignment explanation
Indices: 54517194--54517225 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54517184 ACTATGGTAT
54517194 ATGAAAT-ATTGATATA
1 ATGAAATAATTGATATA
54517210 ATGAAATAATTGATAT
1 ATGAAATAATTGATAT
54517226 GTGTTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
ATGAAATAATTGATATA
Found at i:54519350 original size:97 final size:97
Alignment explanation
Indices: 54519184--54519361 Score: 320
Period size: 97 Copynumber: 1.8 Consensus size: 97
54519174 CTTATACAAC
* * *
54519184 ATCAAAGGCATAAAACATGGTATCTAATTAAAGATTATACATCCTCAATTTAGTTACAAACATAA
1 ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
*
54519249 CATTTGCATATCATCATACTTGTGTTTTTCAT
66 CATTTGCATAACATCATACTTGTGTTTTTCAT
54519281 ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
1 ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
54519346 CATTTGCATAACATCA
66 CATTTGCATAACATCA
54519362 CTCGTTTTAT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 77 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (97 bp):
ATCAAAGGCATAAAACATGGTATCCAATTAAAGATTAAACATCCTCAATTAAGTTACAAACATAA
CATTTGCATAACATCATACTTGTGTTTTTCAT
Found at i:54526991 original size:94 final size:94
Alignment explanation
Indices: 54526738--54527376 Score: 781
Period size: 94 Copynumber: 6.8 Consensus size: 94
54526728 AGATATATTA
* * * *** *
54526738 CCGATGCCATGTCACAGACATGGTCTTACACTAGCTCTCATATGCGCGTGCTGTTGCATGTCCCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-GTATG-GCTGATGCATGTCCCA
* *
54526803 AACATGTCTTACACTAGCA--CAACTCT-TAG
64 GACATGTCTTACACTAGCACTCATCTCTGT-G
* * * * *
54526832 CCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATGTCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCTGATGCATGTCCC
*
54526893 AGACATGTCTTACACTGGCACTCATCTCTGTG
63 AGACATGTCTTACACTAGCACTCATCTCTGTG
* **
54526925 CCGATGCTATGTCGTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* * *
54526990 CATGTCTTACACTGGCACTCATTTCTATG
66 CATGTCTTACACTAGCACTCATCTCTGTG
* * * *
54527019 CCGATGCTATGTCCTAAACATGGTCTTACACTGGCTATCACAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
*
54527084 CATGTCTTACACTGGCACTCATCTCTGTG
66 CATGTCTTACACTAGCACTCATCTCTGTG
* *
54527113 CCGATGCTATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* *
54527178 CATTTCTTACACTAGCACTCATCTCTATG
66 CATGTCTTACACTAGCACTCATCTCTGTG
*
54527207 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
* * * *
54527272 CATGTCTTACACTAGCCCTAATCT-AGATA
66 CATGTCTTACACTAGCACTCATCTCTG-TG
* * * * * * *
54527301 CCGATGCCATGTCCCACACATGGTCTTACATTAGCTCTCATAATATGGCCGAAGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
54527366 CATGTCTTACA
66 CATGTCTTACA
54527377 TTATCTCAAT
Statistics
Matches: 483, Mismatches: 51, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
91 32 0.07
92 16 0.03
93 25 0.05
94 390 0.81
95 19 0.04
96 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
CATGTCTTACACTAGCACTCATCTCTGTG
Found at i:54527687 original size:30 final size:30
Alignment explanation
Indices: 54527646--54527703 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
54527636 AAATTTACAT
* *
54527646 CTTTGGTAAAATGACTATTTTACCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
*
54527676 CTTTGGCAAAATGACCATTTTATCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
54527704 TGCCCGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:54532388 original size:27 final size:27
Alignment explanation
Indices: 54532358--54532535 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
54532348 ATATTGAGCC
* *
54532358 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
54532385 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
54532412 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
54532440 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
54532467 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
54532494 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
54532521 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54532536 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:54532470 original size:55 final size:54
Alignment explanation
Indices: 54532358--54532535 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
54532348 ATATTGAGCC
* * * * *
54532358 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
54532412 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
54532467 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
54532521 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54532536 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:54562137 original size:27 final size:27
Alignment explanation
Indices: 54562106--54562283 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
54562096 TAAATTGTAC
54562106 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54562133 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54562159 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54562187 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
54562215 AGCACTAAGTGTGCGATTTGA-TTTCGT
1 AGCACTAAGTGTGCGATTTGACTAT-GT
* * *
54562242 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54562269 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54562284 GACTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.02
27 101 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54562274 original size:82 final size:81
Alignment explanation
Indices: 54562103--54562283 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
54562093 GATTAAATTG
*
54562103 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
54562168 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
54562184 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTG-ATTTCG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATAT-GAT-GCAC
* **
54562247 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
54562266 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54562284 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 21 0.25
82 63 0.75
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54572906 original size:17 final size:18
Alignment explanation
Indices: 54572884--54572924 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
54572874 CATTTCTTTT
54572884 TCTTTTGAATCACTC-TC
1 TCTTTTGAATCACTCATC
**
54572901 TCTTTTTTATCACTCATC
1 TCTTTTGAATCACTCATC
54572919 T-TTTTG
1 TCTTTTG
54572925 TTTTTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.15, C:0.24, G:0.05, T:0.56
Consensus pattern (18 bp):
TCTTTTGAATCACTCATC
Found at i:54575177 original size:13 final size:13
Alignment explanation
Indices: 54575159--54575196 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
54575149 AGACCGTATG
54575159 CAATTTTTTTTTT
1 CAATTTTTTTTTT
54575172 CAATTTTTTTTTT
1 CAATTTTTTTTTT
54575185 CAATTTTTTTTT
1 CAATTTTTTTTT
54575197 GATTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (13 bp):
CAATTTTTTTTTT
Found at i:54575180 original size:11 final size:11
Alignment explanation
Indices: 54575164--54575206 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
54575154 GTATGCAATT
54575164 TTTTTTTTCAA
1 TTTTTTTTCAA
54575175 TTTTTTTTTTCAA
1 --TTTTTTTTCAA
**
54575188 TTTTTTTTTGA
1 TTTTTTTTCAA
54575199 TTTTTTTT
1 TTTTTTTT
54575207 ATTTCTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 17 0.61
13 11 0.39
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:54575188 original size:26 final size:27
Alignment explanation
Indices: 54575159--54575220 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
54575149 AGACCGTATG
54575159 CAATTTTTTTTTTCAATTTTTTT-TTT
1 CAATTTTTTTTTTCAATTTTTTTATTT
* *
54575185 CAA-TTTTTTTTTGATTTTTTTTATTT
1 CAATTTTTTTTTTCAATTTTTTTATTT
54575211 C--TTTTTTTTT
1 CAATTTTTTTTT
54575221 GAATCTACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 25 0.78
26 7 0.22
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (27 bp):
CAATTTTTTTTTTCAATTTTTTTATTT
Found at i:54575204 original size:13 final size:13
Alignment explanation
Indices: 54575162--54575220 Score: 68
Period size: 13 Copynumber: 4.6 Consensus size: 13
54575152 CCGTATGCAA
*
54575162 TTTTTTTTTTCAA
1 TTTTTTTTTTCAT
54575175 TTTTTTTTTTCA-
1 TTTTTTTTTTCAT
* *
54575187 ATTTTTTTTTGAT
1 TTTTTTTTTTCAT
54575200 TTTTTTTATTTC-T
1 TTTTTTT-TTTCAT
54575213 TTTTTTTT
1 TTTTTTTT
54575221 GAATCTACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 11 0.28
13 26 0.65
14 3 0.08
ACGTcount: A:0.10, C:0.05, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTCAT
Found at i:54580365 original size:26 final size:26
Alignment explanation
Indices: 54580334--54580386 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
54580324 AACATACTAG
54580334 ATTCCTTATTTATTATTTATATACTT
1 ATTCCTTATTTATTATTTATATACTT
54580360 ATTCCTTATTTATTATTTATATACTT
1 ATTCCTTATTTATTATTTATATACTT
54580386 A
1 A
54580387 CTTACTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTCCTTATTTATTATTTATATACTT
Found at i:54584427 original size:49 final size:49
Alignment explanation
Indices: 54584353--54584539 Score: 257
Period size: 49 Copynumber: 3.8 Consensus size: 49
54584343 TAGCCGAAGC
*
54584353 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
54584402 AATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACATGTGATCACAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCA-AT
* * * *
54584452 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* *
54584501 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
54584540 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 77 0.66
50 40 0.34
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:54584473 original size:99 final size:99
Alignment explanation
Indices: 54584358--54584544 Score: 329
Period size: 99 Copynumber: 1.9 Consensus size: 99
54584348 GAAGCTATCT
* *
54584358 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
54584423 TGCACTTAGTACTACACATGTGATCACATTTTCG
66 TGCACTTAGTACTACACACGTGATCACATTTTCG
* *
54584457 GGTACGCATAGTAGCCTGCACTTAGTACTACACTTGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
54584522 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
54584545 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 83 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (99 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACATTTTCG
Found at i:54587056 original size:15 final size:15
Alignment explanation
Indices: 54587036--54587064 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54587026 ATAGTAAAAC
54587036 CCAGAATAAAGAAAT
1 CCAGAATAAAGAAAT
54587051 CCAGAATAAAGAAA
1 CCAGAATAAAGAAA
54587065 CCGAAGATAC
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:0.62, C:0.14, G:0.14, T:0.10
Consensus pattern (15 bp):
CCAGAATAAAGAAAT
Found at i:54590188 original size:51 final size:49
Alignment explanation
Indices: 54590071--54590211 Score: 174
Period size: 51 Copynumber: 2.8 Consensus size: 49
54590061 GAAGCTATTT
* * * *
54590071 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCG
* * * * **
54590120 AGTACACGTAGTAGCCTGCATTTAGTACTACACACGTGATCACAGTTTTCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATAATCG
54590171 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
54590212 TCACAATAGT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 34 0.44
50 2 0.03
51 41 0.53
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATCG
Found at i:54590896 original size:30 final size:30
Alignment explanation
Indices: 54590860--54590916 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
54590850 AAAATCATAT
*
54590860 TTTTACAAATTTTCA-TTTTGACCCCAAAAC
1 TTTTACAAATTTGCACTTTTG-CCCCAAAAC
*
54590890 TTTTACATATTTGCACTTTTGCCCCAA
1 TTTTACAAATTTGCACTTTTGCCCCAA
54590917 TGTTCAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTTACAAATTTGCACTTTTGCCCCAAAAC
Found at i:54597299 original size:24 final size:24
Alignment explanation
Indices: 54597245--54597325 Score: 78
Period size: 24 Copynumber: 3.4 Consensus size: 24
54597235 GTCATGGTCG
* *
54597245 GTAAGCTCTTACTGAGCTGATAAACA
1 GTAAGCTC-TATTGAGATGA-AAACA
54597271 GTAAGCTCTATTGAGATGAAAACTA
1 GTAAGCTCTATTGAGATGAAAAC-A
* *
54597296 -TAAGCTTTATTGAGTTG--AACA
1 GTAAGCTCTATTGAGATGAAAACA
54597317 GTAAGCTCT
1 GTAAGCTCT
54597326 TTCGAGCTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 1 0.02
22 10 0.21
24 19 0.40
25 10 0.21
26 8 0.17
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.31
Consensus pattern (24 bp):
GTAAGCTCTATTGAGATGAAAACA
Found at i:54597376 original size:23 final size:22
Alignment explanation
Indices: 54597316--54597376 Score: 52
Period size: 23 Copynumber: 2.7 Consensus size: 22
54597306 TGAGTTGAAC
*
54597316 AGTAAGCTCTT-TCGAGCTAAAT
1 AGTAAGCTCTTAT-GACCTAAAT
* **
54597338 CGATAAGCTCCAATGACCTGAAAT
1 AG-TAAGCTCTTATGACCT-AAAT
54597362 AGTAAGCTCTTATGA
1 AGTAAGCTCTTATGA
54597377 GCTATTGCGA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
22 1 0.03
23 22 0.76
24 6 0.21
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (22 bp):
AGTAAGCTCTTATGACCTAAAT
Found at i:54600907 original size:39 final size:39
Alignment explanation
Indices: 54600827--54601078 Score: 389
Period size: 39 Copynumber: 6.5 Consensus size: 39
54600817 CGAGACTTTA
* * *
54600827 AGCCCGGATATAATACCAGCAC-AAAGCCTGCGGGACTTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGAC-TT
*
54600866 AGCCCGGATATAACACCGGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
54600905 AGCCCGGATATAACACCAGCACGAATGCCTTCGGAACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
54600944 AGCTCGGATATAACACCAGCACGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* *
54600983 AGCCCGGATATAACACCAGCATGAATGCCTTCAGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
54601022 AGCCCGGATATAACACCAACACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
*
54601061 AGCCTGGATATAACACCA
1 AGCCCGGATATAACACCA
54601079 TTATAAAGTC
Statistics
Matches: 197, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 185 0.94
40 12 0.06
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:54601193 original size:28 final size:28
Alignment explanation
Indices: 54601162--54601232 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
54601152 AAATATTTTT
*
54601162 CACACTAAGTGTCATTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
* *
54601190 CACATTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCG
* * *
54601218 TACACTGAGTACCAT
1 CACACTAAGTGCCAT
54601233 ATTTGATTGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCG
Found at i:54607595 original size:24 final size:24
Alignment explanation
Indices: 54607568--54607615 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
54607558 TATTGAGTCT
54607568 GTAAATCCGAAAGAAATTGTTAGA
1 GTAAATCCGAAAGAAATTGTTAGA
*
54607592 GTAAATCTGAAAGAAATTGTTAGA
1 GTAAATCCGAAAGAAATTGTTAGA
54607616 ATTATTTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (24 bp):
GTAAATCCGAAAGAAATTGTTAGA
Found at i:54615760 original size:35 final size:35
Alignment explanation
Indices: 54615710--54615802 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
54615700 ATTATTATTG
* **
54615710 ATTTTGATTCACATGTTAAGCATGCCGTTATACTA
1 ATTTTGATTCGCATGTTAAGCATGCCACTATACTA
*
54615745 ATTTTGATTCGCATGTTAAGCATGCCACTATACTG
1 ATTTTGATTCGCATGTTAAGCATGCCACTATACTA
* *
54615780 ATTTCGAATT-GCATGTAAAGCAT
1 ATTTTG-ATTCGCATGTTAAGCAT
54615803 ACCTATTGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
35 48 0.94
36 3 0.06
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (35 bp):
ATTTTGATTCGCATGTTAAGCATGCCACTATACTA
Found at i:54621182 original size:30 final size:30
Alignment explanation
Indices: 54621148--54621230 Score: 123
Period size: 30 Copynumber: 2.8 Consensus size: 30
54621138 TTTTTAACGT
*
54621148 AGAACAGCCACAAAGGCTTCCACA-TATCAA
1 AGAACAACCACAAAGGCTTCCACATTA-CAA
*
54621178 AGAACAACCACAAAGTCTTCCACATTACAA
1 AGAACAACCACAAAGGCTTCCACATTACAA
*
54621208 AGAACATCCACAAAGGCTTCCAC
1 AGAACAACCACAAAGGCTTCCAC
54621231 TTTTTAGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.43, C:0.31, G:0.11, T:0.14
Consensus pattern (30 bp):
AGAACAACCACAAAGGCTTCCACATTACAA
Found at i:54622965 original size:48 final size:48
Alignment explanation
Indices: 54622905--54623136 Score: 209
Period size: 48 Copynumber: 4.8 Consensus size: 48
54622895 AGTGGTGTTG
* * *
54622905 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGTATCGGCATTGATA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
* * * * **
54622953 TGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCA-CAACA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-CATTGACA
* * * * *
54623001 TGAGAGCCAGTGTAAGACCATGACTAGGATATGGCATCGGTATTGAGA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
* * ** * **
54623049 CGAGAGCTAGAGTAAGACCATGTCCGGGACATGGCATCGGCCTCAACA
1 TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
* *
54623097 TGTA-AGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGG
1 TG-AGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGG
54623137 TAATTCACCC
Statistics
Matches: 143, Mismatches: 37, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
47 3 0.02
48 137 0.96
49 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (48 bp):
TGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGACA
Found at i:54623005 original size:96 final size:96
Alignment explanation
Indices: 54622905--54623136 Score: 315
Period size: 96 Copynumber: 2.4 Consensus size: 96
54622895 AGTGGTGTTG
* * * * * *
54622905 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGTATCGGCATTGATATGTGTGCTAGTGTAAAA
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGAGTAAAA
*
54622970 CCATGTCTGGGACATGGCATCGGCCACAACA
66 CCATGTCCGGGACATGGCATCGGCCACAACA
* * * *
54623001 TGAGAGCCAGTGTAAGACCATGACTAGGATATGGCATCGGTATTGAGACGAGAGCTAGAGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGAGTAAAA
*
54623066 CCATGTCCGGGACATGGCATCGGCCTCAACA
66 CCATGTCCGGGACATGGCATCGGCCACAACA
*
54623097 TGTA-AGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGG
1 TG-AGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGG
54623137 TAATTCACCC
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 3 0.03
96 115 0.97
97 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGAGTAAAA
CCATGTCCGGGACATGGCATCGGCCACAACA
Found at i:54623070 original size:144 final size:143
Alignment explanation
Indices: 54622805--54623136 Score: 353
Period size: 144 Copynumber: 2.3 Consensus size: 143
54622795 GACATTTGGG
* * * * *
54622805 TGATATGTGTGCCACTGTAAGACCATGTATGGGACATGGCGTCAGCCACGATATGACAGCAGTGT
1 TGATATGTGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCCACAACATGACAGCAGTGT
* * * * * * *
54622870 AAGACCATGTTTGGAACATGGCATCAGTGGTGTTGTGAGAGCCAGTGTAAGACCATGTCTAGGAC
66 AAGACCATGCTAGGAACATGGCATCAGTAGTGTAGCGAGAGCCAGAGTAAGACCATGTCCAGGAC
*
54622935 ATGGTATCGGCAT
131 ATGGCATCGGCAT
* * * *
54622948 TGATATGTGTGCTAGTGTAAAACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTG
1 TGATATGTGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCCACAACATGACAG-CAGTG
* * * * *
54623013 TAAGACCATGACTAGG-ATATGGCATCGGTATTG-AGACGAGAGCTAGAGTAAGACCATGTCCGG
65 TAAGACCATG-CTAGGAACATGGCATCAGTAGTGTAG-CGAGAGCCAGAGTAAGACCATGTCCAG
*
54623076 GACATGGCATCGGCCT
128 GACATGGCATCGGCAT
** * ** * *
54623092 CAACATGTAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGG
1 TGATATGTGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGG
54623137 TAATTCACCC
Statistics
Matches: 154, Mismatches: 32, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
143 51 0.33
144 100 0.65
145 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (143 bp):
TGATATGTGTGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCCACAACATGACAGCAGTGT
AAGACCATGCTAGGAACATGGCATCAGTAGTGTAGCGAGAGCCAGAGTAAGACCATGTCCAGGAC
ATGGCATCGGCAT
Found at i:54625936 original size:55 final size:54
Alignment explanation
Indices: 54625841--54625990 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 54
54625831 GGTATCTTTA
* * * *
54625841 CCTTATA-AACTCACCATTGCCATGCCTTGGCATGGCCTTACATCAGATCTTTG
1 CCTTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATCAGATCCTTG
** * * * * **
54625894 CCTTATAGTAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTATAG-AACTTACCAATGCCATGCCTTGGCATGGTCTTACATCAGATCCTTG
*
54625949 CCTTGTAGAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
1 CCTTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTAC
54625991 TTGGTATCCT
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
53 7 0.09
54 29 0.38
55 41 0.53
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CCTTATAGAACTTACCAATGCCATGCCTTGGCATGGTCTTACATCAGATCCTTG
Found at i:54628445 original size:25 final size:23
Alignment explanation
Indices: 54628416--54628559 Score: 162
Period size: 24 Copynumber: 6.0 Consensus size: 23
54628406 GCTTTATCAT
* *
54628416 ATAACTGGAGGCCTAGCCTTTTTTA
1 ATAACTGG-GGCATAGCC-CTTTTA
*
54628441 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGC-ATAGCCCTTTTA
54628465 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCAT-AGCCCTTTTA
54628489 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCAT-AGCCCTTTTA
* * *
54628513 GTAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCAT-AGCCCTTTTA
*
54628537 ATAACTGAGGCATAAGCCCTTTT
1 ATAACTGGGGCAT-AGCCCTTTT
54628560 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.01
24 94 0.88
25 12 0.11
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
ATAACTGGGGCATAGCCCTTTTA
Found at i:54628560 original size:24 final size:24
Alignment explanation
Indices: 54628436--54628559 Score: 203
Period size: 24 Copynumber: 5.2 Consensus size: 24
54628426 GCCTAGCCTT
*
54628436 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
54628460 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
54628484 TTTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
54628508 TTTTAGTAACTAGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
54628532 TTTTGATAACTGAGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
54628556 TTTT
1 TTTT
54628560 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 93 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:54628634 original size:20 final size:20
Alignment explanation
Indices: 54628609--54628675 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
54628599 TTATGAATAC
54628609 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
54628629 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
54628649 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
54628669 ACCATGT
1 ATCATGT
54628676 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:54628640 original size:11 final size:11
Alignment explanation
Indices: 54628609--54628664 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
54628599 TTATGAATAC
54628609 ATCATGTGCAT
1 ATCATGTGCAT
*
54628620 ATCA--TACAT
1 ATCATGTGCAT
54628629 ATCATGTGCAT
1 ATCATGTGCAT
*
54628640 ATCA--TACAT
1 ATCATGTGCAT
*
54628649 GTCATGTGCAT
1 ATCATGTGCAT
54628660 ATCAT
1 ATCAT
54628665 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:54632905 original size:13 final size:13
Alignment explanation
Indices: 54632868--54632905 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
54632858 TTCTTGCAAT
54632868 TTAATTTAATTTA
1 TTAATTTAATTTA
*
54632881 TT-ATTATTATTTA
1 TTAATT-TAATTTA
54632894 TTAATTTAATTT
1 TTAATTTAATTT
54632906 TTTCTTTCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 3 0.14
13 15 0.71
14 3 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTAATTTAATTTA
Found at i:54636578 original size:17 final size:17
Alignment explanation
Indices: 54636556--54636644 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 17
54636546 TTTAGGATAA
54636556 ATTTTGATTGATTTATG
1 ATTTTGATTGATTTATG
54636573 ATTTTGATTGATATATATTG
1 ATTTTGATTGAT-T-TA-TG
*** *
54636593 AATTAAAATATAGGCATTTATAA
1 -ATTTTGAT-T--G-ATTTAT-G
54636616 ATTTTGATTGATTTATG
1 ATTTTGATTGATTTATG
54636633 ATTTTGATTGAT
1 ATTTTGATTGAT
54636645 ATATATTGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
17 24 0.44
18 7 0.13
19 3 0.05
20 2 0.04
21 6 0.11
22 7 0.13
23 2 0.04
24 2 0.04
25 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (17 bp):
ATTTTGATTGATTTATG
Found at i:54636623 original size:60 final size:60
Alignment explanation
Indices: 54636552--54636673 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
54636542 CATATTTAGG
54636552 ATAAATTTTGATTGATTTATGATTTTGATTGATATATATTGAATTAAAATATAGGCATTT
1 ATAAATTTTGATTGATTTATGATTTTGATTGATATATATTGAATTAAAATATAGGCATTT
54636612 ATAAATTTTGATTGATTTATGATTTTGATTGATATATATTGAATTAAAATATAGGCATTT
1 ATAAATTTTGATTGATTTATGATTTTGATTGATATATATTGAATTAAAATATAGGCATTT
54636672 AT
1 AT
54636674 GCATTGATTG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (60 bp):
ATAAATTTTGATTGATTTATGATTTTGATTGATATATATTGAATTAAAATATAGGCATTT
Found at i:54638643 original size:16 final size:16
Alignment explanation
Indices: 54638624--54638655 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
54638614 ATTAGGGTGA
54638624 AACCTAATAAGGGGAT
1 AACCTAATAAGGGGAT
54638640 AACCTAATAAGGGGAT
1 AACCTAATAAGGGGAT
54638656 CCATAGATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (16 bp):
AACCTAATAAGGGGAT
Found at i:54661058 original size:8 final size:8
Alignment explanation
Indices: 54661045--54661069 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
54661035 CTAGGGTTTT
54661045 TTTCAAGC
1 TTTCAAGC
54661053 TTTCAAGC
1 TTTCAAGC
54661061 TTTCAAGC
1 TTTCAAGC
54661069 T
1 T
54661070 CAATACTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (8 bp):
TTTCAAGC
Found at i:54675321 original size:27 final size:26
Alignment explanation
Indices: 54675277--54675328 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54675267 CTCGTTGCAA
*
54675277 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
54675304 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
54675329 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:54676816 original size:46 final size:46
Alignment explanation
Indices: 54676687--54676901 Score: 154
Period size: 46 Copynumber: 4.6 Consensus size: 46
54676677 GTACCGATGC
* * * ** * * *
54676687 CATGTCCCAGACA-AGTTTTACACTGGCTCATATCTCAAGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGCCGA-GA
* *
54676733 CATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCCGAGA
1 CATGTCCCAGACATGGTCTTACACTGGCTTA-CGTCTCG-AGCCGAGA
* *
54676780 CATGTCCCAAACAT-GTCTTACACTGGCTTACGTCTCGAGCCCG-GTG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAG-CCGAG-A
* * * * * *
54676826 CATGTCCTAGACAT-GTCTTACACTAGCTCT-TGTCTCAATGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACGTCTCGA-GCCGA-GA
54676873 CATGTCCCAGACATGGTCTTACACTGGCT
1 CATGTCCCAGACATGGTCTTACACTGGCT
54676902 CACACTCAAA
Statistics
Matches: 137, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
45 3 0.02
46 68 0.50
47 47 0.34
48 19 0.14
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGCCGAGA
Found at i:54683558 original size:15 final size:15
Alignment explanation
Indices: 54683538--54683588 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
54683528 ACCGTGTGTT
54683538 ACACACGGCCGAGAC
1 ACACACGGCCGAGAC
* *
54683553 ACACAC--CCGTGTGTC
1 ACACACGGCC--GAGAC
54683568 ACACACGGCCGAGAC
1 ACACACGGCCGAGAC
54683583 ACACAC
1 ACACAC
54683589 CTGTGTGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 2 0.07
15 24 0.86
17 2 0.07
ACGTcount: A:0.31, C:0.41, G:0.22, T:0.06
Consensus pattern (15 bp):
ACACACGGCCGAGAC
Found at i:54683563 original size:30 final size:30
Alignment explanation
Indices: 54683529--54683597 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
54683519 ATGGGGAATA
*
54683529 CCGTGTGTTACACACGGCCGAGACACACAC
1 CCGTGTGTCACACACGGCCGAGACACACAC
54683559 CCGTGTGTCACACACGGCCGAGACACACAC
1 CCGTGTGTCACACACGGCCGAGACACACAC
*
54683589 CTGTGTGTC
1 CCGTGTGTC
54683598 TACCCGTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (30 bp):
CCGTGTGTCACACACGGCCGAGACACACAC
Found at i:54684366 original size:46 final size:47
Alignment explanation
Indices: 54684295--54684524 Score: 210
Period size: 46 Copynumber: 5.0 Consensus size: 47
54684285 GGTAAGGTGC
* *
54684295 CGATGCCATGTCCTAGACATGGTCTTACATTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAAGT
* * *
54684342 CGATGCCA-GTCCCAGACATCGTCTTACACTGACT-ATCATCTCGTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTC-AAGT
* * * *
54684389 CGATG-CATGTCCCAGACATGTCTTACACTGGCTTA-CGTCTCGAGG
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGT
* * *
54684434 CTGATG-CATGTCCCAGACATGTCTTGCATTAGG-TC-TCGTCTCAATGT
1 C-GATGCCATGTCCCAGACATGTCTTACACT-GGCTCATCATCTCAA-GT
*
54684481 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCA-CA-CTCAA
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAA
54684525 ATGACCCAAA
Statistics
Matches: 152, Mismatches: 19, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
45 5 0.03
46 85 0.56
47 51 0.34
48 11 0.07
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGT
Found at i:54691579 original size:23 final size:22
Alignment explanation
Indices: 54691527--54691579 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
54691517 TCCACGTCTT
*
54691527 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
54691549 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
54691572 TTTCTTTT
1 TTTCTTTT
54691580 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:54699765 original size:20 final size:21
Alignment explanation
Indices: 54699737--54699776 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
54699727 ACAGCACTTA
54699737 TTTTCTATTAA-TTTCAGAAT
1 TTTTCTATTAATTTTCAGAAT
*
54699757 TTTTTTATTAATTTTCAGAA
1 TTTTCTATTAATTTTCAGAA
54699777 CTTTACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTCTATTAATTTTCAGAAT
Found at i:54736259 original size:24 final size:24
Alignment explanation
Indices: 54736227--54736277 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
54736217 GCTGAATAAA
54736227 ATATGGAATTAAATCTTATTGAGT
1 ATATGGAATTAAATCTTATTGAGT
54736251 ATATGGAATTAAATCTTATTGAGT
1 ATATGGAATTAAATCTTATTGAGT
54736275 ATA
1 ATA
54736278 GTTTCTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (24 bp):
ATATGGAATTAAATCTTATTGAGT
Found at i:54745153 original size:15 final size:15
Alignment explanation
Indices: 54745135--54745163 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54745125 ATATTTATAA
54745135 AATTATTATTATTAT
1 AATTATTATTATTAT
54745150 AATTATTATTATTA
1 AATTATTATTATTA
54745164 GATAGAAAAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:54745758 original size:25 final size:25
Alignment explanation
Indices: 54745729--54745778 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
54745719 TGCTGCACGT
54745729 GGGGAAGGTATTTGAACTGGACCGA
1 GGGGAAGGTATTTGAACTGGACCGA
54745754 GGGGAAGGTATTTGAACTGGACCGA
1 GGGGAAGGTATTTGAACTGGACCGA
54745779 AACACCCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.40, T:0.20
Consensus pattern (25 bp):
GGGGAAGGTATTTGAACTGGACCGA
Found at i:54746958 original size:16 final size:16
Alignment explanation
Indices: 54746933--54746970 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
54746923 CTAGATCGAT
54746933 AAAAGCTGAAAAGCCA
1 AAAAGCTGAAAAGCCA
* *
54746949 AAAAGTTGAAAAGCCG
1 AAAAGCTGAAAAGCCA
54746965 AAAAGC
1 AAAAGC
54746971 AGGTATTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.55, C:0.16, G:0.21, T:0.08
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCA
Found at i:54747628 original size:20 final size:21
Alignment explanation
Indices: 54747583--54747628 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
54747573 ACTGTTCTGT
54747583 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
* *
54747603 -ACGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
54747622 TATGGGC
1 TATGGGC
54747629 AAGGCCCAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:54747721 original size:60 final size:60
Alignment explanation
Indices: 54747619--54747759 Score: 162
Period size: 60 Copynumber: 2.3 Consensus size: 60
54747609 CCAACTGTGT
* * *
54747619 TAATATGGGCAAGGCCCAATATATCTAGACTTGTAATAGGGCTACGGCCCAGATTGATAC
1 TAATATGGGCTAGGCCCAGTATATCTAGACTTGTAATAGGGCTACGGCCCAGATTAATAC
* * *
54747679 TAATATGGGCTAGGCCCAGTATACTCT-GTTAC-TGTAA-GGGGCTATGGCCCAGATTAATAT
1 TAATATGGGCTAGGCCCAGTATA-TCTAG--ACTTGTAATAGGGCTACGGCCCAGATTAATAC
*
54747739 TGATATGGGCTAAGGCCCAGT
1 TAATATGGGCT-AGGCCCAGT
54747760 TAACACTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
60 51 0.73
61 17 0.24
62 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (60 bp):
TAATATGGGCTAGGCCCAGTATATCTAGACTTGTAATAGGGCTACGGCCCAGATTAATAC
Found at i:54748874 original size:53 final size:54
Alignment explanation
Indices: 54748666--54748873 Score: 226
Period size: 55 Copynumber: 3.9 Consensus size: 54
54748656 TTGGTAAGAT
* * *
54748666 AAGGATATCATGTAAGACCATGCCAA-AGCATGGCATTAATAAGTCCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGA-CATGGCATTGATAAGTTCTATAAGGC
* * * *
54748720 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * *
54748775 AAAGG-TTCCATGTAAGACCATGCCAATG-CATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAA-GACATGGCATTGATAAGTTCTATAAGGC
* * * *
54748828 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
54748874 AAAAAGGAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
52 5 0.04
53 41 0.31
54 39 0.29
55 43 0.32
56 5 0.04
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:54749009 original size:17 final size:16
Alignment explanation
Indices: 54748976--54749009 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54748966 CTTATTTAAT
*
54748976 ATTGAGATTGTAAGTA
1 ATTGAGATTATAAGTA
54748992 ATTGAGATTATCAAGTA
1 ATTGAGATTAT-AAGTA
54749009 A
1 A
54749010 GTGATGAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATTGAGATTATAAGTA
Found at i:54755768 original size:48 final size:48
Alignment explanation
Indices: 54755703--54756017 Score: 232
Period size: 48 Copynumber: 6.6 Consensus size: 48
54755693 CAAGGTAGGG
* * * ** *
54755703 TGCCAATGTCATATCCCAGATATGGTCTTACATATGACCACATAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
*
54755751 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA-CAT-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
* * * * * *
54755797 T-CGAAT-CCGATAG-CCCAG-CTATGGTCTTACACGATG-TCTCATTATCA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACATG-GGATCACATAATGA
* *
54755844 TGCCAATGCCATGTCCCGGACATGGTCTTACATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
** * * * *
54755892 TTTCAAAGCCATATCCCAGACATCGTCTTACATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
** * * * * * * *
54755940 TGAAAAAGTCATGTCCCAAACATGGCCTTACATGCGATCACAT-GTCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
* * *
54755987 CTGCCGATGCCATATCCCAGATATGGTCTTA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTA
54756018 TACGGGAGCT
Statistics
Matches: 208, Mismatches: 47, Indels: 24
0.75 0.17 0.09
Matches are distributed among these distances:
44 3 0.01
45 27 0.13
46 6 0.03
47 7 0.03
48 162 0.78
49 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAATGA
Found at i:54766441 original size:48 final size:48
Alignment explanation
Indices: 54766370--54766728 Score: 297
Period size: 48 Copynumber: 7.6 Consensus size: 48
54766360 GGTAGGGTGT
* * * * *
54766370 CAATGCCATATCCCAGATATGGTCTTACATGGGACCACATAATGATGC
1 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
** * *
54766418 CAATGCCATGTCCTGAACATGGTCTTACATGGGATCACACATA--TTG-
1 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATA-ACGATGC
* *** * * * * *
54766464 -AA-GCTGATAG-CCCAGTTATGGTCTTACACGATG-TCTCATTATGATGC
1 CAATGC-CAT-GTCCCAAACATGGTCTTACATG-GGATCACATAACGATGC
* *
54766511 CAATG-CATGTCTCAGACATGGTCTTACATGGGATCACATAACGATGC
1 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
*
54766558 CAAAGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
1 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
* * *
54766606 TAAAGTCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
1 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
* * * **
54766654 TAAAT-TCATGTCCCAAACATGGTCTTACATGCGATCACATGTC-ATTGC
1 -CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGA-TGC
* * * *
54766702 CGATGCCATATCCCAGATATGGTCTTA
1 CAATGCCATGTCCCAAACATGGTCTTA
54766729 TACGGGAGCT
Statistics
Matches: 251, Mismatches: 45, Indels: 30
0.77 0.14 0.09
Matches are distributed among these distances:
44 3 0.01
45 22 0.09
46 6 0.02
47 38 0.15
48 178 0.71
49 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (48 bp):
CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
Found at i:54769860 original size:55 final size:56
Alignment explanation
Indices: 54769757--54769891 Score: 236
Period size: 55 Copynumber: 2.4 Consensus size: 56
54769747 TCCCAGACAA
*
54769757 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
* *
54769813 GGTCTTACTCGCACACATATAT-TGAATCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
54769868 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTCGCACACATATATCG
54769892 ATGCCATGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
55 52 0.70
56 22 0.30
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTATAAAACGT
Found at i:54770528 original size:15 final size:15
Alignment explanation
Indices: 54770505--54770535 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54770495 TCAAAAATTC
54770505 CAATACAAAACATAT
1 CAATACAAAACATAT
*
54770520 CAATCCAAAACATAT
1 CAATACAAAACATAT
54770535 C
1 C
54770536 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:54771068 original size:14 final size:15
Alignment explanation
Indices: 54771051--54771079 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
54771041 ACACAAAAAT
54771051 TTCACACAT-ATAAA
1 TTCACACATAATAAA
54771065 TTCACACATAATAAA
1 TTCACACATAATAAA
54771080 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:54772993 original size:16 final size:16
Alignment explanation
Indices: 54772964--54772997 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
54772954 AAAATTCAAT
*
54772964 TATCATATACTTATTC
1 TATCAAATACTTATTC
*
54772980 TATCAAATATTTATTC
1 TATCAAATACTTATTC
54772996 TA
1 TA
54772998 ATATATTGGA
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:0.15, G:0.00, T:0.50
Consensus pattern (16 bp):
TATCAAATACTTATTC
Found at i:54777313 original size:31 final size:31
Alignment explanation
Indices: 54777278--54777340 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
54777268 CTTTAATTAA
*
54777278 ATGTATGAA-ATTGAATCAAAATTAAAGTTTC
1 ATGTATGAATA-TAAATCAAAATTAAAGTTTC
* *
54777309 ATGTATGTATATAAATCAAAATTCAAGTTTC
1 ATGTATGAATATAAATCAAAATTAAAGTTTC
54777340 A
1 A
54777341 AGTACATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (31 bp):
ATGTATGAATATAAATCAAAATTAAAGTTTC
Found at i:54779381 original size:27 final size:27
Alignment explanation
Indices: 54779350--54779404 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
54779340 CAAGAATTGA
*
54779350 GTCAAAAAGCCAATATATGAGGAAAAG
1 GTCAAAAAGCAAATATATGAGGAAAAG
54779377 GTCAAAAAGCAAATATATGAGGAAAAG
1 GTCAAAAAGCAAATATATGAGGAAAAG
54779404 G
1 G
54779405 GAAAATTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.53, C:0.09, G:0.24, T:0.15
Consensus pattern (27 bp):
GTCAAAAAGCAAATATATGAGGAAAAG
Found at i:54779831 original size:20 final size:20
Alignment explanation
Indices: 54779786--54779833 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
54779776 GCTTGTACGG
* *
54779786 GATTGCACTTCGGTGCATTT
1 GATTGCACTTAGGTGCATCT
* *
54779806 GTTTGCACTTAGGTGCCTCT
1 GATTGCACTTAGGTGCATCT
54779826 GATTGCAC
1 GATTGCAC
54779834 ATGTTCCTCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.38
Consensus pattern (20 bp):
GATTGCACTTAGGTGCATCT
Found at i:54784094 original size:46 final size:44
Alignment explanation
Indices: 54783927--54784097 Score: 159
Period size: 47 Copynumber: 3.7 Consensus size: 44
54783917 TGTGTGAGCT
* ** *
54783927 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGGGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACGAT--GTG-C
* * *
54783973 AATGTAAGACCATGTCTGGGATATGGCATCGGCATTAAGACGA-GTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TACGACGATGTGC
54784020 TAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACGATGTG-C
54784065 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
54784098 ACCTACACCC
Statistics
Matches: 105, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
43 2 0.02
44 16 0.15
45 15 0.14
46 24 0.23
47 27 0.26
48 18 0.17
50 1 0.01
51 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGACGATGTGC
Found at i:54786249 original size:93 final size:93
Alignment explanation
Indices: 54786137--54786308 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
54786127 CGCCCATAAG
*
54786137 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
54786201 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
54786230 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54786295 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54786309 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54786303 original size:46 final size:46
Alignment explanation
Indices: 54786130--54786305 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
54786120 TGTAACCCGC
* *
54786130 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
54786176 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
54786226 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
54786269 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54786306 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54787992 original size:20 final size:21
Alignment explanation
Indices: 54787953--54787992 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
54787943 AAATTAATGG
54787953 CTACACGGGCGTGTTGCCCTT
1 CTACACGGGCGTGTTGCCCTT
*
54787974 CTACACGGGTGTG-TGCCCT
1 CTACACGGGCGTGTTGCCCT
54787993 ATTCCAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.33, G:0.30, T:0.28
Consensus pattern (21 bp):
CTACACGGGCGTGTTGCCCTT
Found at i:54789829 original size:20 final size:20
Alignment explanation
Indices: 54789806--54789852 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
54789796 GGTAAAGATA
54789806 AGCTAAAAACGTGCTCATTG
1 AGCTAAAAACGTGCTCATTG
*
54789826 AGCTGAAAACGTGCTCATTG
1 AGCTAAAAACGTGCTCATTG
54789846 AGCTAAA
1 AGCTAAA
54789853 CAAACTGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
AGCTAAAAACGTGCTCATTG
Found at i:54792817 original size:27 final size:27
Alignment explanation
Indices: 54792786--54792963 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
54792776 TAAATTGTAC
54792786 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54792813 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54792839 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54792867 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
54792895 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54792922 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54792949 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54792964 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54792900 original size:82 final size:81
Alignment explanation
Indices: 54792787--54792942 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
54792777 AAATTGTACA
*
54792787 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
54792851 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54792868 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
54792933 TGCGAGTTGA
65 TGCGAATTGA
54792943 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54792954 original size:82 final size:81
Alignment explanation
Indices: 54792783--54792963 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
54792773 GATTAAATTG
*
54792783 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
54792848 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
54792864 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
54792928 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
54792946 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54792964 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54800715 original size:27 final size:27
Alignment explanation
Indices: 54800684--54800861 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
54800674 TAAATTGTAC
54800684 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
54800711 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54800737 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
54800765 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
54800793 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
54800820 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
54800847 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54800862 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:54800798 original size:82 final size:81
Alignment explanation
Indices: 54800685--54800840 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
54800675 AAATTGTACA
*
54800685 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
54800749 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
54800766 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
54800831 TGCGAGTTGA
65 TGCGAATTGA
54800841 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:54800852 original size:82 final size:81
Alignment explanation
Indices: 54800681--54800861 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
54800671 GATTAAATTG
*
54800681 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
54800746 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
54800762 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
54800826 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
54800844 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
54800862 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:54806065 original size:20 final size:21
Alignment explanation
Indices: 54806036--54806082 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
54806026 AAGGTAAAGA
* * *
54806036 TGAGCGAAAACCGAGCT-CAT
1 TGAGCTAAAAACGAGCTGAAT
54806056 TGAGCTAAAAACGAGCTGAAT
1 TGAGCTAAAAACGAGCTGAAT
54806077 TGAGCT
1 TGAGCT
54806083 CAACAAACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
TGAGCTAAAAACGAGCTGAAT
Found at i:54807658 original size:21 final size:20
Alignment explanation
Indices: 54807626--54807668 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
54807616 TTTTCCATGA
54807626 TTAGATTCAA-TTGTTATATG
1 TTAGATTCAATTTG-TATATG
*
54807646 TTAGCATTTAATTTGTATATG
1 TTAG-ATTCAATTTGTATATG
54807667 TT
1 TT
54807669 TTTCTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 13 0.65
22 3 0.15
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (20 bp):
TTAGATTCAATTTGTATATG
Found at i:54809297 original size:3 final size:3
Alignment explanation
Indices: 54809289--54809314 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
54809279 AAACAGTAGA
54809289 GCG GCG GCG GCG GCG GCG GCG GCG GC
1 GCG GCG GCG GCG GCG GCG GCG GCG GC
54809315 ATCCCCCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.65, T:0.00
Consensus pattern (3 bp):
GCG
Found at i:54816005 original size:12 final size:13
Alignment explanation
Indices: 54815990--54816042 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 13
54815980 AATATGGGTG
54815990 ATAATAATA-ATA
1 ATAATAATACATA
54816002 ATAATAATACA-A
1 ATAATAATACATA
*
54816014 ACAATAATACAT-
1 ATAATAATACATA
*
54816026 AT-AT-ATATATA
1 ATAATAATACATA
54816037 ATAATA
1 ATAATA
54816043 GTCAGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
10 5 0.15
11 4 0.12
12 23 0.70
13 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:54816135 original size:12 final size:12
Alignment explanation
Indices: 54816111--54816181 Score: 65
Period size: 12 Copynumber: 5.8 Consensus size: 12
54816101 GAGAGGGTAT
54816111 ATATAATATAATA
1 ATATAA-ATAATA
54816124 ATATAAATAATA
1 ATATAAATAATA
* *
54816136 ATATATACATGAGA
1 ATATA-A-ATAATA
54816150 A-AT-AATAATA
1 ATATAAATAATA
54816160 ATATAAATAATA
1 ATATAAATAATA
* *
54816172 GTAAAAATAA
1 ATATAAATAA
54816182 AAAAATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
10 5 0.10
11 3 0.06
12 26 0.54
13 9 0.19
14 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:54816180 original size:24 final size:24
Alignment explanation
Indices: 54816111--54816190 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
54816101 GAGAGGGTAT
* *
54816111 ATATAATATAATAATATAAATAATA
1 ATATAA-ATAATAGTAAAAATAATA
54816136 ATAT--ATACATGAG-AAATAATAATA
1 ATATAAATA-AT-AGTAAA-AATAATA
*
54816160 ATATAAATAATAGTAAAAATAAAA
1 ATATAAATAATAGTAAAAATAATA
*
54816184 AAATAAA
1 ATATAAA
54816191 AAAAATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
22 3 0.07
23 4 0.09
24 26 0.58
25 9 0.20
26 3 0.07
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (24 bp):
ATATAAATAATAGTAAAAATAATA
Found at i:54816726 original size:30 final size:30
Alignment explanation
Indices: 54816688--54816773 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
54816678 ATTTAATGGT
*
54816688 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
54816718 GTATGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
54816748 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
54816774 CTAGGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.51, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:54816771 original size:18 final size:18
Alignment explanation
Indices: 54816722--54816772 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
54816712 GGTGGAGTAT
54816722 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
54816740 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
54816752 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
54816770 GTG
1 GTG
54816773 GCTAGGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 3 0.12
15 4 0.16
16 3 0.12
17 1 0.04
18 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.53, T:0.16
Consensus pattern (18 bp):
GTGCAAGTGGGAGGCAAG
Found at i:54817406 original size:87 final size:86
Alignment explanation
Indices: 54817301--54818009 Score: 730
Period size: 86 Copynumber: 8.3 Consensus size: 86
54817291 TTCAGCTTGG
* * * * *
54817301 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGTTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
54817366 AAGATTTGTAAATTTAGCCTGT
66 AAGATCTG-AAATTTAGCCTGT
* * * * **
54817388 TACCCCACTGTTTAGGGG-TTAAG-GCTTGTCACCTTCGATCTGTTTCCCTACTG-TTCA---GG
1 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGCTT-AGGGGG
*
54817447 ----G-TCTGTAAATTTAACCTGT
64 TTAAGATCTG-AAATTTAGCCTGT
* * * * * *
54817466 TACCCTACTACTTAGAGGTTTAAG-GCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
54817530 TAAGATCTGTAAATTTAGCCTGT
65 TAAGATCTG-AAATTTAGCCTGT
* * * * * *
54817553 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* * *
54817617 TAAGATCTGCAATTTGGTCTGT
65 TAAGATCTGAAATTTAGCCTGT
54817639 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT-TAGGGGGT
* * *
54817703 TAAGATCTGGAATTTGGTCTGT
65 TAAGATCTGAAATTTAGCCTGT
* * * * *
54817725 TACCTTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGTGA
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* ** *
54817789 TAAGATCTGCAATTCGGTCTGT
65 TAAGATCTGAAATTTAGCCTGT
* * * *
54817811 TACCCTACTACTTATGGGGTTTAAGACCCTTCGTTTTCGATCTG-CTCCACTACTGCTTAGGGAG
1 TACCCTACTGCTTA-GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGG
* * ** *
54817875 ATAAGATCTGCAATTCGGTCTGT
64 TTAAGATCTGAAATTTAGCCTGT
* *
54817898 TACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTTGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
54817963 AAGATCTGGAAATTCAGCCTGT
66 AAGATCT-GAAATTTAGCCTGT
54817985 TACCCTACTGCTTAGGGGTTTAAGA
1 TACCCTACTGCTTAGGGGTTTAAGA
54818010 TCTGTAAATT
Statistics
Matches: 540, Mismatches: 61, Indels: 42
0.84 0.09 0.07
Matches are distributed among these distances:
78 30 0.06
79 32 0.06
80 2 0.00
82 2 0.00
83 1 0.00
85 7 0.01
86 250 0.46
87 215 0.40
88 1 0.00
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGAAATTTAGCCTGT
Found at i:54817467 original size:78 final size:79
Alignment explanation
Indices: 54817372--54817519 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 79
54817362 TGTTAAGATT
* ** *
54817372 TGTAAATTTAGCCTGTTACCCCACTGTTTAG-GGGTTAAGGCTTGTCACCTTCGATCTGTTTCCC
1 TGTAAATTTAACCTGTTACCCCACTACTTAGAGGGTTAAGGCTTATCACCTTCGATCTGTTTCCC
*
54817436 TACTGTTCAGGGTC
66 CACTGTTCAGGGTC
* * ** *
54817450 TGTAAATTTAACCTGTTACCCTACTACTTAGAGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCC
1 TGTAAATTTAACCTGTTACCCCACTACTTAGAGGGTTAAGGCTTATCACCTTCGATCTGTTTCCC
54817515 CACTG
66 CACTG
54817520 CTTAGGGGGT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
78 27 0.46
79 32 0.54
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (79 bp):
TGTAAATTTAACCTGTTACCCCACTACTTAGAGGGTTAAGGCTTATCACCTTCGATCTGTTTCCC
CACTGTTCAGGGTC
Found at i:54817513 original size:79 final size:81
Alignment explanation
Indices: 54817301--54817662 Score: 259
Period size: 87 Copynumber: 4.3 Consensus size: 81
54817291 TTCAGCTTGG
** ** * * *
54817301 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTATTTCCCTACTGTTTAGGGTGTT
1 TACCCTACTGCTTA-GGGTTTAAGGCTTATCACCTTCGATCTGTTTCCCCACTGCTTA-GG-G--
*
54817366 AAGATTTGTAAATTTAGCCTGT
61 -AGATCTGTAAATTTAGCCTGT
* * * * *
54817388 TACCCCACTGTTTAGGGGTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTG-TTCA-GG-G-T
1 TACCCTACTGCTTAGGGTTTAAGGCTTATCACCTTCGATCTGTTTCCCCACTGCTT-AGGGAGAT
*
54817449 CTGTAAATTTAACCTGT
65 CTGTAAATTTAGCCTGT
* ** *
54817466 TACCCTACTACTTAGAGGTTTAAGGCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAGGGGGTT
1 TACCCTACTGCTTAG-GGTTTAAGGCTTATCACCTTCGATCTGTTTCCCCACTGCTTA--GGG--
54817531 AAGATCTGTAAATTTAGCCTGT
61 -AGATCTGTAAATTTAGCCTGT
** * * *
54817553 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTA-GGGTTTAAGGCTTATCACCTTCGATCTGTTTCC-CCACTGCTTA-GG-G-
* * *
54817617 TAAGATCTG-CAATTTGGTCTGT
61 --AGATCTGTAAATTTAGCCTGT
54817639 TACCCTACTGCTTAGGGGTTTAAG
1 TACCCTACTGCTTA-GGGTTTAAG
54817663 ACCCTTCGTC
Statistics
Matches: 229, Mismatches: 32, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
78 28 0.12
79 34 0.15
80 2 0.01
82 2 0.01
83 1 0.00
84 1 0.00
85 2 0.01
86 74 0.32
87 84 0.37
88 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (81 bp):
TACCCTACTGCTTAGGGTTTAAGGCTTATCACCTTCGATCTGTTTCCCCACTGCTTAGGGAGATC
TGTAAATTTAGCCTGT
Found at i:54817613 original size:44 final size:43
Alignment explanation
Indices: 54817549--54818009 Score: 270
Period size: 44 Copynumber: 10.7 Consensus size: 43
54817539 TAAATTTAGC
* *
54817549 CTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * * * *
54817593 CTGCTCCACTACTGCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGT
1 CTGTTCC-CTACTGCTTAGGG-GTTTAAGACCCTTC-ATCTTCGAT
*
54817635 CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * ** *
54817679 CTGTTTCCCTACTG-TATAGGGGGTTAAGA-TCTGGAAT-TT-GGT
1 CTG-TTCCCTACTGCT-TAGGGGTTTAAGACCCT-TCATCTTCGAT
* * *
54817721 CTGTTACCTTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * * * * *
54817765 CTGCTCCACTACTGCTTA-GGGTGATAAGA-TCTGCA-ATTCGGT
1 CTGTTCC-CTACTGCTTAGGGGT-TTAAGACCCTTCATCTTCGAT
* * *
54817807 CTGTTACCCTACTACTTATGGGGTTTAAGACCCTTCGTTTTCGAT
1 CTGTT-CCCTACTGCTTA-GGGGTTTAAGACCCTTCATCTTCGAT
* * * * * *
54817852 CTGCTCCACTACTGCTTAGGGAG-ATAAGA-TCTGCA-ATTCGGT
1 CTGTTCC-CTACTGCTTAGGG-GTTTAAGACCCTTCATCTTCGAT
* *
54817894 CTGTTACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
* * * ** ** *
54817938 CTGTTTCCCTACTGCTTTGGGGGTTAAGA-TCTGGAAATTC-AGC
1 CTG-TTCCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGA-T
54817981 CTGTTACCCTACTGCTTAGGGGTTTAAGA
1 CTGTT-CCCTACTGCTTAGGGGTTTAAGA
54818010 TCTGTAAATT
Statistics
Matches: 313, Mismatches: 72, Indels: 65
0.70 0.16 0.14
Matches are distributed among these distances:
41 4 0.01
42 96 0.31
43 76 0.24
44 113 0.36
45 24 0.08
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
CTGTTCCCTACTGCTTAGGGGTTTAAGACCCTTCATCTTCGAT
Found at i:54817835 original size:259 final size:261
Alignment explanation
Indices: 54817461--54818009 Score: 804
Period size: 259 Copynumber: 2.1 Consensus size: 261
54817451 GTAAATTTAA
* * * * *
54817461 CCTGTTACCCTACTACTTAGAGGTTTAAG-GCTTATCGTCTTTGATCTGTTTCCCCACTGCTTAG
1 CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCCCCACTGCTTAG
* * * *
54817525 GGGGTTAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTC
66 GGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCATCATCTTC
* *
54817590 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGG
131 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTAGG
*
54817655 GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGGGGTTAAGATCTGG-AATTT
196 GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT-TAGGGGGTTAAGATCTGGAAATTC
*
54817718 GG
260 AG
* * *
54817720 TCTGTTACCTTACTACTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTG-CTCCACTACTGCTTA
1 CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCC-CCACTGCTTA
* * * * * * *
54817783 GGGTGATAAGATCTG-CAATTCGGTCTGTTACCCTACTACTTATGGGGTTTAAGACCCTTCGTTT
65 GGGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTA-GGGGTTTAAGACCCATCATCT
54817847 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTA
129 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTA
*
54817912 GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTTGGGGGTTAAGATCTGGAAATT
194 GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATT
54817977 CAG
259 CAG
*
54817980 CCTGTTACCCTACTGCTTAGGGGTTTAAGA
1 CCTGTTACCCTACTACTTAGGGGTTTAAGA
54818010 TCTGTAAATT
Statistics
Matches: 258, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
258 25 0.10
259 198 0.77
260 35 0.14
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (261 bp):
CCTGTTACCCTACTACTTAGGGGTTTAAGACCCTATCGTCTTCGATCTGTCTCCCCACTGCTTAG
GGGGATAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGGGTTTAAGACCCATCATCTTC
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTACTTAGG
GGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTCA
G
Found at i:54818208 original size:64 final size:64
Alignment explanation
Indices: 54818128--54818251 Score: 185
Period size: 64 Copynumber: 1.9 Consensus size: 64
54818118 GTATCTATGC
** * *
54818128 TTATGCCAAATAATTAGGACGTTATGATTGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
1 TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
* * *
54818192 TTATGTCAAATAATTAGGATACTATCATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTG
54818252 TTATTATATG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (64 bp):
TTATGCCAAATAATTAGGACACTATCATCGAAATGAATCAAATGCTCCTAACTAAATGTGATGT
Found at i:54819024 original size:52 final size:53
Alignment explanation
Indices: 54818916--54819029 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 53
54818906 GCATAGCTCG
* * *
54818916 AAATGAATAAATTAATCAAAGATTGCAAATGCCATAAGAAATAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
* * *
54818969 AAATGAATAAGTTAATCAAAGATAGC-GATGCAATAAGAAGGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
54819021 AAATGAATA
1 AAATGAATA
54819030 TAGCAAATTC
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
52 31 0.56
53 24 0.44
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
Found at i:54819486 original size:197 final size:197
Alignment explanation
Indices: 54819151--54819535 Score: 689
Period size: 197 Copynumber: 2.0 Consensus size: 197
54819141 GATCCGAAGC
54819151 ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
1 ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
*
54819216 GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCCTTTCCGGGTTTTCAACTCAAATCCCCTTTGG
66 GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
* *
54819281 TCTCAAAGCGTCCTTTACGGGTTTTCGCTTTGGCCTCTCCTTTTTCTTCTCTTTCTTTTTTTTTT
131 TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTTTTTTTT
54819346 TT
196 TT
* * *
54819348 ACTTTGTTGATGCCCCAAGACGTAGCATATTTCTTCATTGTTAATTTAGGTATAGCAAGACTGTT
1 ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
* *
54819413 GTATGCCCTACTTGGATCCAAATTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
66 GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
*
54819478 TCTCAAAGCGCCCTTTGCGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTT
131 TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTT
54819536 CTTTCTTTCT
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
197 179 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (197 bp):
ACTTTGTTGATGCCCCAAGACATAGCATACTTCTTCATTGTTAATTCAGGTATAGCAAGACTGTT
GTATGCCCCACTTGGATCCAAAGTTGAGCCGCCATTTCCGGGTTTTCAACTCAAATCCCCTTTGG
TCTCAAAGCGCCCTTTACGGGTTTTCGCTCTGGCCTCTCCTTTTTCTTCTCTTTCTTTTTTTTTT
TT
Found at i:54822718 original size:9 final size:10
Alignment explanation
Indices: 54822705--54822750 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
54822695 GGGAAAGTCT
54822705 AATGCAAAT-
1 AATGCAAATG
54822714 AATGC-AATG
1 AATGCAAATG
54822723 CAATGCAAATG
1 -AATGCAAATG
*
54822734 TATG-AAATG
1 AATGCAAATG
54822743 AATGCAAA
1 AATGCAAA
54822751 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (10 bp):
AATGCAAATG
Found at i:54822729 original size:19 final size:19
Alignment explanation
Indices: 54822705--54822750 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
54822695 GGGAAAGTCT
*
54822705 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
54822723 CAATGCAAATGTATGAAATG
1 -AATGCAAATGAATGAAATG
54822743 AATGCAAA
1 AATGCAAA
54822751 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.11, G:0.17, T:0.22
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:54824864 original size:18 final size:19
Alignment explanation
Indices: 54824843--54824883 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
54824833 TAATAGCAAA
54824843 AATAATAA-AA-ATATGAG
1 AATAATAATAATATATGAG
*
54824860 TAATATTAATAATATATGAG
1 -AATAATAATAATATATGAG
54824880 AATA
1 AATA
54824884 CAAAAGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (19 bp):
AATAATAATAATATATGAG
Found at i:54824920 original size:3 final size:3
Alignment explanation
Indices: 54824912--54824975 Score: 78
Period size: 3 Copynumber: 21.0 Consensus size: 3
54824902 AATAGGGGTG
*
54824912 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
54824957 ATA CAT- ATA TATA ATA ATA
1 ATA -ATA ATA -ATA ATA ATA
54824976 GTAGTCAGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
2 3 0.05
3 46 0.84
4 6 0.11
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:54825074 original size:12 final size:12
Alignment explanation
Indices: 54825050--54825093 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
54825040 GAGGATATAT
54825050 ATAATAT-AATA
1 ATAATATAAATA
54825061 ATAATATAAATA
1 ATAATATAAATA
* *
54825073 ATAGTAAAAATA
1 ATAATATAAATA
*
54825085 ATAAAATAA
1 ATAATATAA
54825094 TAAAATGTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:54825504 original size:30 final size:30
Alignment explanation
Indices: 54825465--54825550 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
54825455 ATTTGATGGT
* *
54825465 GTAGATGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
54825495 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
54825525 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
54825551 CTAGGATTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:54825518 original size:18 final size:18
Alignment explanation
Indices: 54825497--54825549 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
54825487 GTGGTGGAGT
54825497 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
54825515 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
54825527 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
54825545 AGGTG
1 AGGTG
54825550 GCTAGGATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:54826538 original size:15 final size:16
Alignment explanation
Indices: 54826518--54826556 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
54826508 TCAAACACGT
54826518 ATGTATGTAAAA-ATA
1 ATGTATGTAAAATATA
*
54826533 ATGTATTTAAAATATA
1 ATGTATGTAAAATATA
54826549 ATGT-TGTA
1 ATGTATGTA
54826557 TCCTAGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (16 bp):
ATGTATGTAAAATATA
Found at i:54832986 original size:44 final size:43
Alignment explanation
Indices: 54832915--54833073 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
54832905 TATGTGTTTT
* * * *
54832915 CGTGTAAGACCACGTCTAGGACGTTGGCATCAACTTATAATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAACTT-TGATTTA
*
54832959 CGTGTAAGACCATGTCTGGGACATTGGCATC-GCATTTGATTT-
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAAC-TTTGATTTA
* * * *
54833001 CGTGTAAGACCCTGTCTGGGATAGTGGCATCAATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCAA-CTTTGATTTA
* * * *
54833044 CATGCAAGACTATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
54833074 TGTACAAGCT
Statistics
Matches: 94, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.32
43 34 0.36
44 30 0.32
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCAACTTTGATTTA
Found at i:54833032 original size:86 final size:85
Alignment explanation
Indices: 54832912--54833073 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 85
54832902 CAATATGTGT
* * *
54832912 TTTCGTGTAAGACCACGTCTAGGACGTTGGCATCAACT-TATAATTTACGTGTAAGACCATGTCT
1 TTTCGTGTAAGACCACGTCTAGGAAGTTGGCATCAA-TATATAA-TTACATGCAAGACCATGTCT
54832976 GGGACATTGGCATCGCATTTGA
64 GGGACATTGGCATCGCATTTGA
* * * *
54832998 TTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCATCAATATTTGATTACATGCAAGACTATGTCT
1 TTTCGTGTAAGACCAC-GTCTAGGA-AGTTGGCATCAATATATAATTACATGCAAGACCATGTCT
*
54833061 GGGACGTTGGCAT
64 GGGACATTGGCAT
54833074 TGTACAAGCT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 31 0.48
86 33 0.51
87 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (85 bp):
TTTCGTGTAAGACCACGTCTAGGAAGTTGGCATCAATATATAATTACATGCAAGACCATGTCTGG
GACATTGGCATCGCATTTGA
Found at i:54840620 original size:42 final size:43
Alignment explanation
Indices: 54840518--54840676 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 43
54840508 TATGTGTTTT
* * * *
54840518 CGTGTAAGACAACGTCTAGGACGTTGGCATC-A-ACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATA-TT-TGA-TTA
*
54840562 CGTGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTT
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
* * * *
54840604 TGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
* * *
54840647 CATGTAAGACTATGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
54840677 TGTACAAGCT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 30 0.32
43 35 0.37
44 29 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATTA
Found at i:54841758 original size:65 final size:67
Alignment explanation
Indices: 54841688--54841813 Score: 168
Period size: 67 Copynumber: 1.9 Consensus size: 67
54841678 TGTGCTAGGC
* * * *
54841688 CGTGTGGCCAAGTCAGTA-GCCT-CCCTAATTTTCACACGGCCT-GGCACACTGGTGTGTCTTGT
1 CGTGTGGACAAGTCAGTATGCATGCCCT-ATTTTCACACGGCCTAGACACACGGGTGTGTCTTGT
54841750 GGT
65 GGT
* *
54841753 CGTGTGGACAAGTCAGTATGTATGCCCTATTTTGACACGGCCTAGACACACGGGTGTGTCT
1 CGTGTGGACAAGTCAGTATGCATGCCCTATTTTCACACGGCCTAGACACACGGGTGTGTCT
54841814 AAAGCCGTGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 17 0.33
66 16 0.31
67 19 0.37
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.29
Consensus pattern (67 bp):
CGTGTGGACAAGTCAGTATGCATGCCCTATTTTCACACGGCCTAGACACACGGGTGTGTCTTGTG
GT
Done.