Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 251 of 433
Found at i:78297749 original size:46 final size:46
Alignment explanation
Indices: 78297682--78297854 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
78297672 AACCCGCCCC
* *
78297682 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
78297728 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCATCCA
* * *
78297776 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
78297821 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78297855 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 58 0.55
47 26 0.25
48 2 0.02
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:78297795 original size:93 final size:93
Alignment explanation
Indices: 78297687--78297857 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
78297677 GCCCCTAAGT
* *
78297687 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
78297752 CGAGTTCAGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
78297780 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
78297845 CGAGTTCGGATGC
66 CGAGTTCAGATGC
78297858 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:78298310 original size:30 final size:30
Alignment explanation
Indices: 78298276--78298335 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78298266 ATTTAATACG
78298276 AACTTTTAAAAAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
** *
78298306 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
78298336 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:78299316 original size:28 final size:28
Alignment explanation
Indices: 78299285--78299381 Score: 115
Period size: 28 Copynumber: 3.5 Consensus size: 28
78299275 TCGATATTTT
78299285 GCACACTAAGTGCCATTCTTAATATCTC
1 GCACACTAAGTGCCATTCTTAATATCTC
* * *
78299313 GCACACTAAGTGTCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTTAATATCTC
* * * *
78299341 GCACACTAAGTGTCATAT-TTGATGTCCC
1 GCACACTAAGTGCCAT-TCTTAATATCTC
78299369 GCACACTAAGTGC
1 GCACACTAAGTGC
78299382 TATACATAGC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 58 0.98
29 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTTAATATCTC
Found at i:78299432 original size:40 final size:40
Alignment explanation
Indices: 78299388--78299474 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
78299378 GTGCTATACA
* * *
78299388 TAGCCGAAGTTATCTCAAATCGTACACTAAGTGCCAAATT
1 TAGCCGAAGCTATATCAAACCGTACACTAAGTGCCAAATT
* * **
78299428 TAGCCGAAGCTATATCGAACCGTACACTGAGTGCCATGTT
1 TAGCCGAAGCTATATCAAACCGTACACTAAGTGCCAAATT
78299468 TAGCCGA
1 TAGCCGA
78299475 TATGTCATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (40 bp):
TAGCCGAAGCTATATCAAACCGTACACTAAGTGCCAAATT
Found at i:78302732 original size:50 final size:50
Alignment explanation
Indices: 78302673--78302777 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
78302663 CACAACCATC
*
78302673 AGATAGATTAAAATCATAGTGCCATAATAAGGCCGACATCTCAACCGTAT
1 AGATAGATTAAAATCATAGTGCCATAATAAGGCCAACATCTCAACCGTAT
78302723 AGATAGATTAAAATCATAGTGCCATAATAAGGCCAACATCTCAACCGTAT
1 AGATAGATTAAAATCATAGTGCCATAATAAGGCCAACATCTCAACCGTAT
78302773 AGATA
1 AGATA
78302778 TATATGTCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (50 bp):
AGATAGATTAAAATCATAGTGCCATAATAAGGCCAACATCTCAACCGTAT
Found at i:78303704 original size:20 final size:20
Alignment explanation
Indices: 78303689--78303730 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
78303679 TTACTTGCAG
78303689 ACTCATTCTCTTACTTGATC
1 ACTCATTCTCTTACTTGATC
*
78303709 ACTCATTCTCTTACCTGATC
1 ACTCATTCTCTTACTTGATC
78303729 AC
1 AC
78303731 AGTACTAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.33, G:0.05, T:0.40
Consensus pattern (20 bp):
ACTCATTCTCTTACTTGATC
Found at i:78305250 original size:24 final size:24
Alignment explanation
Indices: 78305220--78305293 Score: 139
Period size: 24 Copynumber: 3.1 Consensus size: 24
78305210 CAAAACACAT
78305220 ATACATAACATAGGCCAAATACAC
1 ATACATAACATAGGCCAAATACAC
*
78305244 ATACATAACATAGGACAAATACAC
1 ATACATAACATAGGCCAAATACAC
78305268 ATACATAACATAGGCCAAATACAC
1 ATACATAACATAGGCCAAATACAC
78305292 AT
1 AT
78305294 TTTATGCCAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.51, C:0.23, G:0.08, T:0.18
Consensus pattern (24 bp):
ATACATAACATAGGCCAAATACAC
Found at i:78306192 original size:26 final size:26
Alignment explanation
Indices: 78306163--78306247 Score: 71
Period size: 28 Copynumber: 3.1 Consensus size: 26
78306153 CTTATTGAAT
* * * *
78306163 CATTCGATATTTCTCACACTGAGTGC
1 CATTCAATATCTCGCACACTAAGTGC
78306189 CATTCTCAATATCTCGCACACTAAGTGC
1 CA-T-TCAATATCTCGCACACTAAGTGC
* * *
78306217 CATTCTCAATATTTCACACATTAAGTGC
1 CA-T-TCAATATCTCGCACACTAAGTGC
78306245 CAT
1 CAT
78306248 ATTTGATGTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.04
27 2 0.04
28 46 0.92
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (26 bp):
CATTCAATATCTCGCACACTAAGTGC
Found at i:78306209 original size:28 final size:28
Alignment explanation
Indices: 78306177--78306247 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
78306167 CGATATTTCT
* *
78306177 CACACTGAGTGCCATTCTCAATATCTCG
1 CACACTAAGTGCCATTCTCAATATCTCA
*
78306205 CACACTAAGTGCCATTCTCAATATTTCA
1 CACACTAAGTGCCATTCTCAATATCTCA
*
78306233 CACATTAAGTGCCAT
1 CACACTAAGTGCCAT
78306248 ATTTGATGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCA
Found at i:78306323 original size:40 final size:40
Alignment explanation
Indices: 78306260--78306363 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 40
78306250 TTGATGTCCT
*** * *
78306260 ACACACTAAGTGCTGTATATAGCCGAAACTAT-CTCAAATC
1 ACACACTAAGTGCCAAATTTAGCCGAAACTATAC-CAAACC
* * *
78306300 ACACACTGAGTGCCAAATTTAGCCGAAGCTATACCGAACC
1 ACACACTAAGTGCCAAATTTAGCCGAAACTATACCAAACC
* *
78306340 GCACACTAAGTGCCATATTTAGCC
1 ACACACTAAGTGCCAAATTTAGCC
78306364 TATATGTCAT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
40 51 0.98
41 1 0.02
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (40 bp):
ACACACTAAGTGCCAAATTTAGCCGAAACTATACCAAACC
Found at i:78308350 original size:59 final size:60
Alignment explanation
Indices: 78308250--78308368 Score: 168
Period size: 59 Copynumber: 2.0 Consensus size: 60
78308240 TTTATGTATT
* * * * *
78308250 AAAATATATTTGATAAATTTTGAACTTAATTAAATCATAGTTAATGTGGGACACACACTC
1 AAAATATATTTAATAAATTTTGAACTTAAATAAAACATAGTTAATGTGAGACACAAACTC
* *
78308310 AAAA-ATATTTAATAAATTTTTAACTTAAATAAAACCTAGTTAATGTGAGACACAAACTC
1 AAAATATATTTAATAAATTTTGAACTTAAATAAAACATAGTTAATGTGAGACACAAACTC
78308369 GATCCTTAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
59 48 0.92
60 4 0.08
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (60 bp):
AAAATATATTTAATAAATTTTGAACTTAAATAAAACATAGTTAATGTGAGACACAAACTC
Found at i:78312618 original size:55 final size:55
Alignment explanation
Indices: 78312541--78312666 Score: 162
Period size: 55 Copynumber: 2.3 Consensus size: 55
78312531 CAGCCCGTGT
* * * * * *
78312541 GCAACACTGACTTTAGGGCACGGCCATGACACATGCCCGTGTGGCCTACCCATGG
1 GCAATACTGACTTAAAGACACGGCCATGACACACGCCCGTGTGGCCTAACCATGG
* *
78312596 GCAATACTGACTTAAAGACACGGCTATGGCACACGCCCGTGTGGCCTAACCATGG
1 GCAATACTGACTTAAAGACACGGCCATGACACACGCCCGTGTGGCCTAACCATGG
* *
78312651 ACAATACTGATTTAAA
1 GCAATACTGACTTAAA
78312667 AGTTTAAGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 61 1.00
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (55 bp):
GCAATACTGACTTAAAGACACGGCCATGACACACGCCCGTGTGGCCTAACCATGG
Found at i:78313626 original size:47 final size:47
Alignment explanation
Indices: 78313425--78313784 Score: 258
Period size: 47 Copynumber: 7.6 Consensus size: 47
78313415 GGGTTAAGTT
* * *
78313425 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTCATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATTGAG
* * * *
78313474 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-T-TC-TCGTATGTACT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCAT-TG-A-G
* * * * *
78313523 ACTGATGCATGTCCCAGACATGTCTTACACTAGC-ATTA-CGCTT-A-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-ATTGAG
* * * *
78313567 GTCGATGCATGTCCCAAACACGTCTTACATTGGCTATCATCATTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATTGAG
* *
78313614 GCCGATGCATGTCCCAGACATGTCTTATACTGGC-ACTCATC-TCT-AC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTA-TCATCAT-TGAG
* * * *
78313660 GTCGATGCCATGTCCGAGACATGGTCTTACACTGGCTATCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATTGAG
* ** ** *
78313708 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATC-TCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATTGAG
78313754 GCCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACA
78313785 TTGGTTCTCA
Statistics
Matches: 250, Mismatches: 40, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
44 27 0.11
45 5 0.02
46 38 0.15
47 91 0.36
48 48 0.19
49 41 0.16
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCATTGAG
Found at i:78313723 original size:94 final size:92
Alignment explanation
Indices: 78313425--78313784 Score: 361
Period size: 94 Copynumber: 3.8 Consensus size: 92
78313415 GGGTTAAGTT
* *
78313425 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTCATCGAGGCCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-ATCATC-TCTA-GCCGATGCCATGTCCC
* * * *
78313490 AAACATGGTCTTACACTAGTTCTCGT-ATGT-
61 AAACATGGTCTTACACTGGCTATCATAATGTG
* * * *
78313520 ACTACTGATGCATGTCCCAGACATGTCTTACACTAGCATTA-CGCTTAGTCGATG-CATGTCCCA
1 GC--C-GATGCATGTCCCAGACATGTCTTACACTAGCATCATCTC-TAGCCGATGCCATGTCCCA
* * * *
78313583 AACA-CGTCTTACATTGGCTATCATCATTGAG
62 AACATGGTCTTACACTGGCTATCAT-AATGTG
* * * * *
78313614 GCCGATGCATGTCCCAGACATGTCTTATACTGGCACTCATCTCTACGTCGATGCCATGTCCGAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCA-TCATCTCTA-GCCGATGCCATGTCCCAAA
78313679 CATGGTCTTACACTGGCTATCATAATGTG
64 CATGGTCTTACACTGGCTATCATAATGTG
* * *
78313708 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATCTCAATGCCGATGCCATGTCCCAGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAG-CATCATCTCTA-GCCGATGCCATGTCCCAAA
78313773 CATGGTCTTACA
64 CATGGTCTTACA
78313785 TTGGTTCTCA
Statistics
Matches: 220, Mismatches: 32, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
91 44 0.20
92 18 0.08
93 18 0.08
94 86 0.39
95 22 0.10
96 13 0.06
97 15 0.07
98 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCATCTCTAGCCGATGCCATGTCCCAAACA
TGGTCTTACACTGGCTATCATAATGTG
Found at i:78313748 original size:141 final size:139
Alignment explanation
Indices: 78313425--78313784 Score: 388
Period size: 141 Copynumber: 2.6 Consensus size: 139
78313415 GGGTTAAGTT
*
78313425 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCTTCATCGAGGCCGATGCCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCC
* ** *
78313490 AAACATGGTCTTACACTAGTTCTCGTATGTACTACTGATGCATGTCCCAGACATGTCTTACACTA
64 AGACATGGTCTTACACTAGCACTCG-ATCTACTACTGATGCATGTCCCAGACATGTCTTACACTA
* **
78313555 GCATTACGCTTA
128 GCATCACAATTA
* * * * * *
78313567 GTCGATGCATGTCCCAAACACGTCTTACATTGGCTATCATCATTGAGGCCGATG-CATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCCAG
* * *
78313631 ACAT-GTCTTATACTGGCACTC-ATCT-CTACGTCGATGCCATGTCCGAGACATGGTCTTACACT
66 ACATGGTCTTACACTAGCACTCGATCTACTAC-T-GATG-CATGTCCCAGACAT-GTCTTACACT
* * *
78313693 GGCTATCATAATGTG
127 AGC-ATCACAAT-TA
** * *
78313708 GCCGATGCATGTCCCAGACATGTCTTACACTAGCCCTCATC-TCAATGCCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCCAG
78313772 ACATGGTCTTACA
66 ACATGGTCTTACA
78313785 TTGGTTCTCA
Statistics
Matches: 179, Mismatches: 31, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
135 4 0.02
136 4 0.02
137 4 0.02
138 26 0.15
139 25 0.14
140 42 0.23
141 61 0.34
142 13 0.07
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (139 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCACTCGATCTACTACTGATGCATGTCCCAGACATGTCTTACACTAGCA
TCACAATTA
Found at i:78316980 original size:40 final size:40
Alignment explanation
Indices: 78316925--78317046 Score: 208
Period size: 40 Copynumber: 3.0 Consensus size: 40
78316915 CGGATGATAA
78316925 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
78316965 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
78317005 CCGGGCTAGGACCCGGAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
78317045 CC
1 CC
78317047 AGCTAAATCC
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:78328911 original size:47 final size:48
Alignment explanation
Indices: 78328848--78328976 Score: 131
Period size: 47 Copynumber: 2.7 Consensus size: 48
78328838 ATTACGCTTA
* *
78328848 GCCGATG-CATGTCCCAGACACGTCTTACACTGGCCA-TCATCATCGAG
1 GCCGATGCCAGGTCCCAGACACGTCTTACACTGGCCACTCATC-TCGAC
** * * *
78328895 GCCGATG-TGGGTCCCAGACATGTCTTATACTGG-CACTCATCTCTAC
1 GCCGATGCCAGGTCCCAGACACGTCTTACACTGGCCACTCATCTCGAC
* *
78328941 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
1 GCCGATGCCAGGTCCCAGACA-CGTCTTACACTGGC
78328977 TATTAGGCTG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 12 0.18
47 43 0.65
48 11 0.17
ACGTcount: A:0.21, C:0.33, G:0.22, T:0.24
Consensus pattern (48 bp):
GCCGATGCCAGGTCCCAGACACGTCTTACACTGGCCACTCATCTCGAC
Found at i:78329009 original size:88 final size:88
Alignment explanation
Indices: 78328905--78329065 Score: 250
Period size: 88 Copynumber: 1.8 Consensus size: 88
78328895 GCCGATGTGG
* * * *
78328905 GTCCCAGACATGTCTTATACTGGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTCTTA
1 GTCCCAGACATGTCTTACACTAGCACTCATCTCAACGCCGATCCCATGTCCCAGACATGGTCTTA
78328970 CACTGGCTATTAGGCTGATGCAT
66 CACTGGCTATTAGGCTGATGCAT
* * *
78328993 GTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATCCCATGTCCCAGACATGGTCTTA
1 GTCCCAGACATGTCTTACACTAGCACTCATCTCAACGCCGATCCCATGTCCCAGACATGGTCTTA
*
78329058 CATTGGCT
66 CACTGGCT
78329066 CTCACTGTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 65 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (88 bp):
GTCCCAGACATGTCTTACACTAGCACTCATCTCAACGCCGATCCCATGTCCCAGACATGGTCTTA
CACTGGCTATTAGGCTGATGCAT
Found at i:78329044 original size:135 final size:136
Alignment explanation
Indices: 78328753--78329059 Score: 327
Period size: 135 Copynumber: 2.2 Consensus size: 136
78328743 TGGGTTAGGT
* * * *
78328753 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATGTACGTGCTGATGCATGTCC
1 TGCCGAT-CCATGTCCCAGACATGGTCTTACACTAGCACTCATATCTACG-GCCGATGCATGTCC
*
78328818 CAGACATGTCTTACACTAGCATTACGCTTAGCCGATGCATGTCCCAGACACGTCTTACACTGGCC
64 CAGACATGTCTTACACTAGCATTACG--T-GCCGATGCATGTCCCAGACACGTCTTACACTAGCC
*
78328883 ATCATCATCGA
126 ATCATCATCAA
* **** * * *
78328894 GGCCGATGTGGGTCCCAGACAT-GTCTTATACTGGCACTCATCTCTAC-GCCGATGCCATGTCCC
1 TGCCGATCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCTACGGCCGATG-CATGTCCC
* * * *
78328957 AGACATGGTCTTACACTGGCTATTA-G-GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCT
65 AGACAT-GTCTTACACTAGC-ATTACGTGCCGATGCATGTCCCAGACACGTCTTACACTAGCCAT
*
78329020 CGTC-TCAA
128 CATCATCAA
78329028 TGCCGATCCCATGTCCCAGACATGGTCTTACA
1 TGCCGAT-CCATGTCCCAGACATGGTCTTACA
78329060 TTGGCTCTCA
Statistics
Matches: 136, Mismatches: 25, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
134 9 0.07
135 47 0.35
136 7 0.05
137 6 0.04
138 14 0.10
139 32 0.24
140 15 0.11
141 6 0.04
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.27
Consensus pattern (136 bp):
TGCCGATCCATGTCCCAGACATGGTCTTACACTAGCACTCATATCTACGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCATTACGTGCCGATGCATGTCCCAGACACGTCTTACACTAGCCATCAT
CATCAA
Found at i:78329937 original size:40 final size:39
Alignment explanation
Indices: 78329892--78330037 Score: 96
Period size: 40 Copynumber: 3.7 Consensus size: 39
78329882 TACTAGCTCA
*
78329892 AAGCCTACGAAACTTTAAGCCCGGATAT-AGTACCAGCACT
1 AAGCCTACGAAA-TTTAA-CCCGGATATAAGTACCAGCACG
* ** *
78329932 AAGCCTGCGGGATTTAACCCGGATATACATTACCAGCACG
1 AAGCCTACGAAATTTAACCCGGATATA-AGTACCAGCACG
* ** * * * * *
78329972 AAGCCTGCGTGATTTAACTCAGAGATACATTACAAGCACG
1 AAGCCTACGAAATTTAACCCGGATATA-AGTACCAGCACG
* ** *
78330012 AAGCCTGCGGGATTTAACCCGAATAT
1 AAGCCTACGAAATTTAACCCGGATAT
78330038 TTAAAATATC
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 9 0.10
39 5 0.06
40 75 0.84
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (39 bp):
AAGCCTACGAAATTTAACCCGGATATAAGTACCAGCACG
Found at i:78339577 original size:40 final size:40
Alignment explanation
Indices: 78339501--78339578 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
78339491 ACTTAGTGCC
* *** *
78339501 ATATATAGTCGAAGCTATTCCAATTTGCACACTAAGTGTT
1 ATATATAGCCGAAGCTATTCCAAAACGCACAATAAGTGTT
* *
78339541 ATATATAGCCGAAGCTATTTCAAAACGTACAATAAGTG
1 ATATATAGCCGAAGCTATTCCAAAACGCACAATAAGTG
78339579 CCAAACATAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (40 bp):
ATATATAGCCGAAGCTATTCCAAAACGCACAATAAGTGTT
Found at i:78346495 original size:12 final size:11
Alignment explanation
Indices: 78346455--78346494 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
78346445 ACTATCCAAA
78346455 ATAACCAACAT
1 ATAACCAACAT
78346466 ATAACCATACCAT
1 ATAACCA-A-CAT
78346479 ATAAGCCAACAT
1 ATAA-CCAACAT
78346491 ATAA
1 ATAA
78346495 GGCATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 8 0.31
13 8 0.31
14 3 0.12
ACGTcount: A:0.53, C:0.25, G:0.03, T:0.20
Consensus pattern (11 bp):
ATAACCAACAT
Found at i:78347940 original size:18 final size:18
Alignment explanation
Indices: 78347917--78347952 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
78347907 ATGAAGAACC
78347917 CTAGAATGACTTATTTTT
1 CTAGAATGACTTATTTTT
78347935 CTAGAATGACTTATTTTT
1 CTAGAATGACTTATTTTT
78347953 ATTTCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
CTAGAATGACTTATTTTT
Found at i:78349693 original size:69 final size:69
Alignment explanation
Indices: 78349615--78349866 Score: 161
Period size: 69 Copynumber: 3.7 Consensus size: 69
78349605 CGAGCATTAG
** * * *
78349615 TATGACAGCTTG-GAACTTTTCTTTTTCTAACTGTGTTAGAGGCTGCTACTCTTCGGCTACAAAC
1 TATGACAGC-TGAGAACTTTTCTTTCACTAACTATGTTAGAGGCTGCGACTCTTCGCCTACAAAC
78349679 CTTGA
65 CTTGA
* ** * * * *
78349684 TATGGCAGCTGAGAGTTTTTCTTTCACTAACTATGTTGGAGGTTGCGACTCTTCGCCTACGAGCC
1 TATGACAGCTGAGAACTTTTCTTTCACTAACTATGTTAGAGGCTGCGACTCTTCGCCTACAAACC
78349749 TTAGA
66 TT-GA
* * * * * * * * * * ** *
78349754 -ATTATAGTTGAGAGCTTTGCTCTT-GCTAAGTATGTTGGAGGCTGTGACTCTTTGCCTATGAGC
1 TATGACAGCTGAGAACTTTTCT-TTCACTAACTATGTTAGAGGCTGCGACTCTTCGCCTACAAAC
78349817 CTT-A
65 CTTGA
* * * * * *
78349821 GTGTGAAAGCTGGGAACTTTGCTCTCACTAACTGTGTTAGAGGCTG
1 -TATGACAGCTGAGAACTTTTCTTTCACTAACTATGTTAGAGGCTG
78349867 GGGCTCTTTG
Statistics
Matches: 142, Mismatches: 35, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
67 1 0.01
68 3 0.02
69 134 0.94
70 4 0.03
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (69 bp):
TATGACAGCTGAGAACTTTTCTTTCACTAACTATGTTAGAGGCTGCGACTCTTCGCCTACAAACC
TTGA
Found at i:78357516 original size:41 final size:41
Alignment explanation
Indices: 78357440--78357535 Score: 131
Period size: 41 Copynumber: 2.3 Consensus size: 41
78357430 TCCTAGATAT
* *
78357440 GGTCTTACATGTTATCATATATTGATGCCACTGTCCCAGACAA
1 GGTCTTACATG--ATCATATATCGATGCCAATGTCCCAGACAA
*
78357483 GGTCTTACATGAGTCATATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACATGA-TCATATATCGATGCCAATGTCCCAGACAA
78357524 GGTCTTACATGA
1 GGTCTTACATGA
78357536 ATTCACACAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
41 31 0.63
42 7 0.14
43 11 0.22
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (41 bp):
GGTCTTACATGATCATATATCGATGCCAATGTCCCAGACAA
Found at i:78366885 original size:21 final size:21
Alignment explanation
Indices: 78366870--78366911 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
78366860 CAGTCCCATG
78366870 AATAGTGG-GTCAAGTCAATA
1 AATAGTGGAGTCAAGTCAATA
*
78366890 AATAGTGGAGTCAAATC-ATA
1 AATAGTGGAGTCAAGTCAATA
78366910 AA
1 AA
78366912 CAATGATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (21 bp):
AATAGTGGAGTCAAGTCAATA
Found at i:78371407 original size:46 final size:47
Alignment explanation
Indices: 78371319--78371493 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 47
78371309 CTCTATACGT
* *
78371319 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--AAATCTCGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-TA
*
78371365 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-TA
* * * *
78371411 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCTA
*
78371456 TGTCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT
78371494 CTTATAATGT
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
44 12 0.11
45 14 0.13
46 57 0.51
47 15 0.14
48 13 0.12
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCTA
Found at i:78380704 original size:40 final size:39
Alignment explanation
Indices: 78380539--78380722 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78380529 AAATTGAATG
* * *
78380539 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78380579 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78380619 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78380659 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78380698 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78380723 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78380747 original size:80 final size:81
Alignment explanation
Indices: 78380579--78380767 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78380569 GCTGGAAATT
* * * *
78380579 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78380644 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78380660 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78380723 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78380739 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78380768 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78388806 original size:40 final size:39
Alignment explanation
Indices: 78388641--78388824 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78388631 AAATTGAATG
* * *
78388641 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78388681 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78388721 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78388761 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78388800 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78388825 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78388849 original size:80 final size:81
Alignment explanation
Indices: 78388681--78388869 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
78388671 GCTGGAAATT
* * * *
78388681 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78388746 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78388762 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78388825 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
78388841 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
78388870 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78390313 original size:16 final size:15
Alignment explanation
Indices: 78390292--78390333 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
78390282 GAGCCTAGGG
78390292 GCAAAAGTGTAAATAT
1 GCAAAA-TGTAAATAT
78390308 GCAAAA-GTAAATAT
1 GCAAAATGTAAATAT
*
78390322 GAAAAATTGTAA
1 GCAAAA-TGTAA
78390334 TTTTTCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 13 0.57
16 10 0.43
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (15 bp):
GCAAAATGTAAATAT
Found at i:78392585 original size:93 final size:93
Alignment explanation
Indices: 78392475--78392645 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
78392465 GCCCCTAAGT
* *
78392475 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
78392540 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
78392568 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
78392633 CGAGTTCGGATGC
66 CGAGTTCGGATGC
78392646 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78392642 original size:46 final size:46
Alignment explanation
Indices: 78392470--78392642 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
78392460 AACCCGCCCC
* * * *
78392470 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
78392516 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
78392564 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
78392609 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78392643 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:78393097 original size:30 final size:30
Alignment explanation
Indices: 78393063--78393122 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
78393053 ATTTAATACG
78393063 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
78393093 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
78393123 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:78404521 original size:40 final size:39
Alignment explanation
Indices: 78404356--78404539 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
78404346 AAATTGAATG
* * *
78404356 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
78404396 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
78404436 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
78404476 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
78404515 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
78404540 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:78404522 original size:80 final size:80
Alignment explanation
Indices: 78404400--78404548 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
78404390 GAAATTATAA
* * * *
78404400 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
78404465 TGCGAGTCATTCTAT
66 TGCGAGTCATTCTAT
* * * * * * *
78404480 CCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGCATTC
78404544 GTGCG
65 GTGCG
78404549 GGTTACCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCATTCG
TGCGAGTCATTCTAT
Found at i:78404564 original size:80 final size:81
Alignment explanation
Indices: 78404396--78404567 Score: 179
Period size: 80 Copynumber: 2.1 Consensus size: 81
78404386 GCTGGAAATT
* * * *
78404396 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
78404461 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
78404477 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
78404540 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
78404556 ATAACCGGGCTA
1 ATAACCGGGCTA
78404568 TGTCCGAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.03
80 71 0.97
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:78408357 original size:37 final size:37
Alignment explanation
Indices: 78408307--78408384 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
78408297 TATAAAAGAA
78408307 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
78408344 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
78408381 GTCT
1 GTCT
78408385 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:78408547 original size:49 final size:49
Alignment explanation
Indices: 78408487--78408609 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
78408477 CATATATTTT
*
78408487 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
78408536 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
78408585 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
78408610 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:78411754 original size:40 final size:41
Alignment explanation
Indices: 78411710--78411808 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
78411700 TCGATTGTTC
* * **
78411710 TCGGGACATAGCCCGG-TTATAGTGA-TTTGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAACGCCT
78411750 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAACGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAACGCCT
*
78411791 TCGGGACTTAGCCCGGAT
1 TCGGGACATAGCCCGGAT
78411809 ACCATTCGAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.38
41 30 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAACGCCT
Found at i:78412329 original size:29 final size:29
Alignment explanation
Indices: 78412292--78412715 Score: 737
Period size: 29 Copynumber: 14.7 Consensus size: 29
78412282 TGTTGAAAAA
* *
78412292 CTCGTACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
78412321 CTCGCACACATAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
*
78412350 TTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412379 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412408 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412437 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412466 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412495 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412524 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412553 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412582 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412611 CTCGCACACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
78412640 CTCG--CACACAGTGCCTCGATTACTGAT
1 CTCGCACACACAGTGCCTCGATTACTGAT
* * *
78412667 CTCGCACACATAGTGCCTCGGTTAACGGAAT
1 CTCGCACACACAGTGCCTCGATT-ACTG-AT
*
78412698 -TTGCACACACAGTGCCTC
1 CTCGCACACACAGTGCCTC
78412716 TAATCATTCG
Statistics
Matches: 380, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
27 27 0.07
29 332 0.87
30 19 0.05
31 2 0.01
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCGATTACTGAT
Found at i:78414779 original size:37 final size:37
Alignment explanation
Indices: 78414729--78414806 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
78414719 TATAAAAGAA
78414729 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
78414766 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
78414803 GTCT
1 GTCT
78414807 CGCCCGGAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.21, C:0.32, G:0.19, T:0.28
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:78414969 original size:49 final size:49
Alignment explanation
Indices: 78414909--78415031 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
78414899 CATATATTTT
*
78414909 ACATTGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
78414958 ACATCGGCCATTAGGCCTCATCACATATACGTACACTTTCACATTCACC
1 ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
*
78415007 ACATCGGCCATTAGGCCTTATCACA
1 ACATCGGCCATTAGGCCTCATCACA
78415032 CATATATGTA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.27
Consensus pattern (49 bp):
ACATCGGCCATTAGGCCTCATCACATATACATACACTTTCACATTCACC
Found at i:78418722 original size:46 final size:46
Alignment explanation
Indices: 78418647--78418864 Score: 255
Period size: 46 Copynumber: 4.7 Consensus size: 46
78418637 TGTAACCCGC
* * * * *
78418647 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
78418693 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-A-TTCGCAT
* * *
78418743 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78418786 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
78418832 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
78418865 TGGATGCCCA
Statistics
Matches: 147, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 3 0.02
45 2 0.01
46 99 0.67
47 27 0.18
48 2 0.01
49 3 0.02
50 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:78433017 original size:13 final size:13
Alignment explanation
Indices: 78432999--78433032 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
78432989 CACATGGGCA
78432999 TGTGACTTGGCCG
1 TGTGACTTGGCCG
78433012 TGTGACTTGGCCG
1 TGTGACTTGGCCG
78433025 TGTGACTT
1 TGTGACTT
78433033 CCTTTGGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.09, C:0.21, G:0.35, T:0.35
Consensus pattern (13 bp):
TGTGACTTGGCCG
Found at i:78437666 original size:47 final size:49
Alignment explanation
Indices: 78437449--78437704 Score: 439
Period size: 49 Copynumber: 5.3 Consensus size: 49
78437439 GTATGAGGTA
78437449 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
78437498 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
78437547 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
78437596 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * *
78437643 TATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
78437690 TATAAATGTGATAAG
1 TATATATGTGATAAG
78437705 TCCCGAAGGG
Statistics
Matches: 199, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 56 0.28
48 5 0.03
49 138 0.69
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:78440290 original size:66 final size:66
Alignment explanation
Indices: 78440205--78440337 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
78440195 ACCCGGATAA
* *
78440205 TTTTCATAGCCATAACAGCCCACAATTTCCATTAAAACACACTTTTACTTCATATTTTATAACTT
1 TTTTCATAACCATAACAGCCCACAATTTCCATTAAAACACACTTTTACTACATATTTTATAACTT
78440270 T
66 T
* *
78440271 TTTTCATAACTATAACAGCCCACAGTTTCCATTAAAACACACTTTTACTACATATTTTATAACTT
1 TTTTCATAACCATAACAGCCCACAATTTCCATTAAAACACACTTTTACTACATATTTTATAACTT
78440336 T
66 T
78440337 T
1 T
78440338 ACAATTTAGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.40
Consensus pattern (66 bp):
TTTTCATAACCATAACAGCCCACAATTTCCATTAAAACACACTTTTACTACATATTTTATAACTT
T
Found at i:78456665 original size:27 final size:28
Alignment explanation
Indices: 78456631--78456699 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
78456621 TACTCGATCA
* *
78456631 CGCACACTTAGTGCCATATATTC-AGCT
1 CGCACACTTAGTGCCATATAATCAAACT
*
78456658 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCCATATAATCAAACT
78456686 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78456700 TGTACAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATAATCAAACT
Found at i:78463400 original size:40 final size:40
Alignment explanation
Indices: 78463320--78463496 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
78463310 CCGCACCAAG
* * * * *
78463320 GCCTACGGGACTTAACCCGGATATCAC-ATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
78463359 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
78463399 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
78463439 GCCTTCGGGTCTTAACCCGGATAT-ACAATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
78463478 ---TTCGGGTCTTAGCCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
78463497 TTAATTGTGC
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
36 18 0.15
39 32 0.27
40 67 0.57
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:78471322 original size:40 final size:40
Alignment explanation
Indices: 78471248--78471428 Score: 238
Period size: 40 Copynumber: 4.5 Consensus size: 40
78471238 CCTCACCAAG
* * * * *
78471248 GCCTACGGGACTTAACCCGGATATCACAATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
78471288 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
78471328 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
78471368 GCCTTCGGGTCTTAACCCGGATAT-ACAATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
78471407 GCCTTCGGGTCTTAGCCCGGAT
1 GCCTTCGGGTCTTAGCCCGGAT
78471429 TTAATTGTGC
Statistics
Matches: 121, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 31 0.26
40 90 0.74
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:78482790 original size:29 final size:29
Alignment explanation
Indices: 78482757--78482888 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
78482747 GTGACGAGAT
*
78482757 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
78482786 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
78482815 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
78482844 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
78482873 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78482889 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:78490520 original size:28 final size:29
Alignment explanation
Indices: 78490489--78490619 Score: 131
Period size: 29 Copynumber: 4.6 Consensus size: 29
78490479 GTGACGAGAT
78490489 TGGCACTAAGTGTGCGTGCTGGAAA-ATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
78490517 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ****
78490546 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * **
78490575 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ATA
78490604 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78490620 AAATCGAGTA
Statistics
Matches: 87, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 26 0.30
29 61 0.70
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:78490556 original size:29 final size:28
Alignment explanation
Indices: 78490489--78490560 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
78490479 GTGACGAGAT
*
78490489 TGGCACTAAGTGTGCGTGCTGGAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAATA
78490517 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAA-ATA
78490546 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
78490561 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 24 0.57
29 18 0.43
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TGGCACTAAGTGTGCATGCTGGAAAATA
Found at i:78494198 original size:40 final size:39
Alignment explanation
Indices: 78494153--78494282 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
78494143 CGGAATATAA
78494153 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
78494193 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
78494233 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
78494273 CCGGATATAA
1 CCGGATATAA
78494283 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78494297 original size:40 final size:40
Alignment explanation
Indices: 78494169--78494320 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
78494159 ATAACCATGT
* * *
78494169 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
78494209 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
78494249 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
78494289 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
78494321 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:78494303 original size:80 final size:80
Alignment explanation
Indices: 78494169--78494318 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
78494159 ATAACCATGT
*
78494169 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
78494233 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
78494249 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
78494312 CCCGGAT
64 CCCGGAT
78494319 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:78502211 original size:40 final size:39
Alignment explanation
Indices: 78502166--78502295 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
78502156 CGGAATATAA
78502166 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
78502206 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
78502246 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
78502286 CCGGATATAA
1 CCGGATATAA
78502296 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:78502310 original size:40 final size:40
Alignment explanation
Indices: 78502182--78502333 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
78502172 ATAACCATGT
* * *
78502182 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
78502222 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
78502262 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
78502302 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
78502334 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:78502316 original size:80 final size:80
Alignment explanation
Indices: 78502182--78502331 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
78502172 ATAACCATGT
*
78502182 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
78502246 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
78502262 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
78502325 CCCGGAT
64 CCCGGAT
78502332 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:78508282 original size:40 final size:40
Alignment explanation
Indices: 78508227--78508431 Score: 257
Period size: 40 Copynumber: 5.0 Consensus size: 40
78508217 TATTCGGATG
*
78508227 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
78508267 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
** * * *
78508310 ATGCCCGGGCTAAGTCCCGAAGGCATTTCTGCTAGTCACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
78508350 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
78508390 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
78508430 AT
1 AT
78508432 GTAACACCCC
Statistics
Matches: 143, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
40 107 0.75
41 1 0.01
43 35 0.24
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:78508373 original size:83 final size:80
Alignment explanation
Indices: 78508234--78508417 Score: 253
Period size: 83 Copynumber: 2.3 Consensus size: 80
78508224 ATGATATCCA
* * **
78508234 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTCTGCAAGTCACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
*
78508299 GAGTAGTTG-CTATGCCCG
66 ---TAG-TGACTATACCCG
*
78508317 GGCTAAGTCCCGAAGGCATTTCTGCTAGTCACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTCTGCAAGTCACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
*
78508382 TAGTGACTATATCCG
66 TAGTGACTATACCCG
*
78508397 GGCTAAGACCCGAAGGCATTT
1 GGCTAAGTCCCGAAGGCATTT
78508418 GTGCGAGTTG
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
79 2 0.02
80 30 0.33
83 60 0.65
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTCTGCAAGTCACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
TAGTGACTATACCCG
Found at i:78509912 original size:37 final size:36
Alignment explanation
Indices: 78509862--78509948 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
78509852 TGCGAAGTCT
78509862 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
78509898 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
78509935 TCACCCGGAACATA
1 T-ACCCGG-ACATA
78509949 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:78510078 original size:49 final size:49
Alignment explanation
Indices: 78510017--78510143 Score: 227
Period size: 49 Copynumber: 2.6 Consensus size: 49
78510007 TTTGCCACAT
* *
78510017 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
78510066 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
78510115 ACATATACACACTTTCACATTCATCACAT
1 ATATATACACACTTTCACATTCATCACAT
78510144 ATACACACTT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.31
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:78510146 original size:25 final size:25
Alignment explanation
Indices: 78510114--78510168 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
78510104 GGCCTTATCA
78510114 CACATATACACACTTTCACATTCAT
1 CACATATACACACTTTCACATTCAT
78510139 CACATATACACACTTTCACATTCAT
1 CACATATACACACTTTCACATTCAT
78510164 CACAT
1 CACAT
78510169 CGGCCATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (25 bp):
CACATATACACACTTTCACATTCAT
Found at i:78513015 original size:40 final size:41
Alignment explanation
Indices: 78512971--78513068 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
78512961 TCGATTGTCC
* * **
78512971 TCGGGACATAGCCCGG-TTATAGTGA-TTCGCACAATTGCCT
1 TCGGGACATAGCCCGGATT-TAGTAACTTAGCACAAAAGCCT
78513011 TCGGGA-ATTAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
1 TCGGGACA-TAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
*
78513052 TCGGGACTTAGCCCGGA
1 TCGGGACATAGCCCGGA
78513069 CACCATTCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 1 0.02
40 19 0.39
41 29 0.59
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
TCGGGACATAGCCCGGATTTAGTAACTTAGCACAAAAGCCT
Found at i:78513861 original size:40 final size:40
Alignment explanation
Indices: 78513812--78514043 Score: 367
Period size: 40 Copynumber: 5.8 Consensus size: 40
78513802 CCAGCGCGAT
* * *
78513812 TGCTCTTCGGGACCTAGCCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
* * *
78513852 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
78513892 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
78513932 TGCTCCTCGGAACTTA-CTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGC-CCGGATACATCACTAGCACGAA
*
78513972 TGCTCCTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
*
78514012 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCCTCGGAACTTAGCCCGGATACATCACT
78514044 CTCAATTCTC
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGAACTTAGCCCGGATACATCACTAGCACGAA
Found at i:78515968 original size:37 final size:36
Alignment explanation
Indices: 78515918--78516004 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
78515908 TGCGAAGTCT
78515918 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
78515954 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
78515991 TCACCCGGAACATA
1 T-ACCCGG-ACATA
78516005 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:78516134 original size:49 final size:49
Alignment explanation
Indices: 78516073--78516277 Score: 374
Period size: 49 Copynumber: 4.2 Consensus size: 49
78516063 TTTGCCACAT
* *
78516073 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
78516122 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
78516171 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
78516220 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
78516269 ATATATACA
1 ATATATACA
78516278 TCTCATACAT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 152 1.00
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:78525591 original size:79 final size:80
Alignment explanation
Indices: 78525450--78525632 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 80
78525440 TATTCGGATG
** *
78525450 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCC-GGCTAAGTCCCGAAGGCATTCATGC--GTAGTTGCTATACCCGGGCTAAGACCCGAAG
*
78525515 GCATTTCTACTAG-TGACT
63 GCATTTCTACGAGTTG-CT
*
78525533 ATATCCGGCTAAGTCCCGAAGGCATTCATGC-TAG-TGACTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGCTAAGTCCCGAAGGCATTCATGCGTAGTTG-CTATACCCGGGCTAAGACCCGAAGGC
* *
78525596 ATTTGTGCGAGTTGCT
65 ATTTCTACGAGTTGCT
*
78525612 ATATCCGGCTAAATCCCGAAG
1 ATATCCGGCTAAGTCCCGAAG
78525633 ATACTTGGGT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.02
79 57 0.63
80 2 0.02
82 23 0.26
83 6 0.07
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGCTAAGTCCCGAAGGCATTCATGCGTAGTTGCTATACCCGGGCTAAGACCCGAAGGCA
TTTCTACGAGTTGCT
Found at i:78525594 original size:40 final size:40
Alignment explanation
Indices: 78525450--78525632 Score: 205
Period size: 39 Copynumber: 4.5 Consensus size: 40
78525440 TATTCGGATG
*
78525450 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGC---TAGTTGCT
* *
78525493 ATACCCGGGCTAAGTCCCGAAGGCATTTC-TACTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTCGTGCTAGTTG-CT
*
78525533 ATATCC-GGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTTG-CT
* * *
78525572 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTTGCT
*
78525612 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
78525633 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
38 3 0.02
39 49 0.40
40 42 0.34
41 2 0.02
43 26 0.21
44 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTTGCT
Found at i:78535755 original size:46 final size:46
Alignment explanation
Indices: 78535688--78535862 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
78535678 TGTAACCTGC
78535688 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCTTTCACAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCTTTCACAT
* * * *
78535734 CCATAAGTGAACTCGGACTCAACTCAATGAACTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGG--G-CT--TTCACAT
* * ** * *
78535784 -C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCAT
1 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCTTTCACAT
* *
78535827 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGG
78535863 ATACCCAAAT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 57 0.55
47 25 0.24
48 3 0.03
49 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCTTTCACAT
Found at i:78544081 original size:29 final size:27
Alignment explanation
Indices: 78544049--78544151 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
78544039 TACTCAATCA
*
78544049 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
78544078 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
78544107 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
78544136 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
78544152 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:78546131 original size:93 final size:93
Alignment explanation
Indices: 78546014--78546185 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
78546004 GCCCATAAGC
* * * * *
78546014 GAACTCGGACTCAACTCAAAGAGCTC-AGGCGTTCGCTTCCATAAGTGAACTCGGAGTCAACTCA
1 GAACTCGGACTCAACTCAAAGAGCTCGA-ACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
78546078 ACGAGCTCGGATGCCTAGTTACATCTCAT
65 ACGAGCTCGGATGCCTAGTTACATCTCAT
* *
78546107 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTTAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
78546172 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
78546186 CAAATATCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
93 69 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCGAACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAT
Found at i:78548094 original size:2 final size:2
Alignment explanation
Indices: 78548087--78548117 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
78548077 AATTAGCCTA
78548087 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78548118 GTGTTAATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78548366 original size:14 final size:14
Alignment explanation
Indices: 78548343--78548375 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
78548333 CTATGTGTTC
78548343 TATTTATTTTTAAT
1 TATTTATTTTTAAT
*
78548357 TATTTGTTTTTAAT
1 TATTTATTTTTAAT
78548371 T-TTTA
1 TATTTA
78548376 AATATGCAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 3 0.18
14 14 0.82
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
TATTTATTTTTAAT
Found at i:78553874 original size:41 final size:40
Alignment explanation
Indices: 78553813--78553898 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
78553803 TATAATCACT
*
78553813 TTTTATTATATTTTTAATTTGTGTATTATTTTAAGAATTG
1 TTTTAGTATATTTTTAATTTGTGTATTATTTTAAGAATTG
* * * * * *
78553853 TTTTAGTATCATTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAGTAT-ATTTTTAATTTGTGTATTATTTTAAGAATTG
78553894 TTTTA
1 TTTTA
78553899 AATGTATTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.66
Consensus pattern (40 bp):
TTTTAGTATATTTTTAATTTGTGTATTATTTTAAGAATTG
Found at i:78557464 original size:43 final size:43
Alignment explanation
Indices: 78557403--78557868 Score: 718
Period size: 43 Copynumber: 10.8 Consensus size: 43
78557393 GTTAAATCCC
* * * *
78557403 GCAGGCTTCATGCCGGTGATATATATTCGGGCCTTTGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
78557446 GCAGGATTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
78557489 GCAGGCTTCGTGCCGAG-GATGTGTATTCGGGCCTTTGTGCCTA
1 GCAGGCTTCGTGCCG-GTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
78557532 GCAGGCTTCGTGCCAGTGATGTCTATTCGGACCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
78557575 GCAGGTTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * *
78557618 GCAGGCTTCGTGCCGATGATGTCTATTTGGACCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
78557661 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
78557704 GAAGGCTTCGTGCCGGTGATGTATATTCGGGCCTGCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
*
78557747 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * * *
78557790 GCAGGCTTCATGCCAGTGATGTATATTCGGGCCTACGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
78557833 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
1 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTC
78557869 ATTGTAACGC
Statistics
Matches: 385, Mismatches: 36, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
42 1 0.00
43 383 0.99
44 1 0.00
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:78565942 original size:93 final size:93
Alignment explanation
Indices: 78565830--78566001 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
78565820 CGCCCATAAG
*
78565830 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
78565894 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
78565923 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78565988 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
78566002 TCAACCATCC
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:78565996 original size:46 final size:46
Alignment explanation
Indices: 78565823--78565998 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
78565813 TGTAACCCGC
* *
78565823 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
78565869 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
78565919 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
78565962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
78565999 TGCTCAACCA
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:78575525 original size:21 final size:20
Alignment explanation
Indices: 78575476--78575547 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 20
78575466 GCTGCCATCG
78575476 CTGCTGCCTTTGCCTCCCTC
1 CTGCTGCCTTTGCCTCCCTC
* *
78575496 GTTCGTGCCTTTGCCTCCCTC
1 CTGC-TGCCTTTGCCTCCCTC
**
78575517 ACTGCTGCCGCTGCCTCCCTC
1 -CTGCTGCCTTTGCCTCCCTC
78575538 TCTGCTGCCT
1 -CTGCTGCCT
78575548 CCGCTCTAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 2 0.05
21 38 0.90
22 2 0.05
ACGTcount: A:0.01, C:0.47, G:0.18, T:0.33
Consensus pattern (20 bp):
CTGCTGCCTTTGCCTCCCTC
Found at i:78575988 original size:13 final size:14
Alignment explanation
Indices: 78575963--78575991 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78575953 TGATGAATTG
78575963 AATTAAACAATTAT
1 AATTAAACAATTAT
78575977 AATTAAAC-ATTAT
1 AATTAAACAATTAT
78575990 AA
1 AA
78575992 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:78576180 original size:17 final size:16
Alignment explanation
Indices: 78576158--78576196 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
78576148 AAAATATTAT
78576158 TTAATAGTAGAAAGTAA
1 TTAATAGTAGAAAG-AA
* *
78576175 TTAATATTTGAAAGAA
1 TTAATAGTAGAAAGAA
78576191 TTAATA
1 TTAATA
78576197 AATTCATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (16 bp):
TTAATAGTAGAAAGAA
Found at i:78579294 original size:12 final size:12
Alignment explanation
Indices: 78579279--78579304 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
78579269 ATCATCCTCT
78579279 TCATCAGATTCA
1 TCATCAGATTCA
78579291 TCATCAGATTCA
1 TCATCAGATTCA
78579303 TC
1 TC
78579305 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:78581111 original size:9 final size:9
Alignment explanation
Indices: 78581090--78581255 Score: 80
Period size: 9 Copynumber: 19.0 Consensus size: 9
78581080 TATGTATTAC
*
78581090 GTAAGTTAA
1 GTAAGTTAT
78581099 GTAAGCTT-T
1 GTAAG-TTAT
78581108 GTAAGTTAT
1 GTAAGTTAT
78581117 GTAAGTTAT
1 GTAAGTTAT
* *
78581126 GTTA-TGAT
1 GTAAGTTAT
* *
78581134 ATACATTTAT
1 GTA-AGTTAT
*
78581144 GTAAGGTAT
1 GTAAGTTAT
78581153 GTAAGTTAT
1 GTAAGTTAT
* *
78581162 GATATGATAT
1 G-TAAGTTAT
* *
78581172 AT-ATTTAT
1 GTAAGTTAT
78581180 GT-A-TTAT
1 GTAAGTTAT
*
78581187 GTAAGTTGT
1 GTAAGTTAT
78581196 GTAAGTTAT
1 GTAAGTTAT
* *
78581205 GATATGATAT
1 G-TAAGTTAT
*
78581215 -T-ATTTAT
1 GTAAGTTAT
*
78581222 GT-A-TTTT
1 GTAAGTTAT
*
78581229 GTAAGGTAT
1 GTAAGTTAT
*
78581238 ATAAGTTAT
1 GTAAGTTAT
78581247 GTAAGTTAT
1 GTAAGTTAT
78581256 TATATGATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
7 14 0.12
8 16 0.14
9 67 0.58
10 19 0.16
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:78581154 original size:36 final size:36
Alignment explanation
Indices: 78581107--78581182 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
78581097 AAGTAAGCTT
* *
78581107 TGTAAGTTATGTAAGTTATGTTATGATATACATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
*
78581143 TGTAAGGTATGTAAGTTATGATATGATATATATTTA
1 TGTAAGGTATGTAAGTTATGATATGATATACATTTA
78581179 TGTA
1 TGTA
78581183 TTATGTAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (36 bp):
TGTAAGGTATGTAAGTTATGATATGATATACATTTA
Found at i:78581199 original size:43 final size:42
Alignment explanation
Indices: 78581140--78581247 Score: 171
Period size: 43 Copynumber: 2.5 Consensus size: 42
78581130 TGATATACAT
78581140 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATAT-TATTTATGTA
* *
78581183 TTATGTAAGTTGTGTAAGTTATGATATGATATTATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATTATTTATGTA
* *
78581225 TTTTGTAAGGTATATAAGTTATG
1 TTATGTAAGGTATGTAAGTTATG
78581248 TAAGTTATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 29 0.49
43 30 0.51
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (42 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATTATTTATGTA
Found at i:78581232 original size:42 final size:43
Alignment explanation
Indices: 78581138--78581247 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 43
78581128 TATGATATAC
78581138 ATTTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGT
1 ATTT-TGTAAGGTATGTAAGTTATGATATGATATATATTTATGT
* * *
78581182 ATTATGTAAGTTGTGTAAGTTATGATATGATAT-TATTTATGT
1 ATTTTGTAAGGTATGTAAGTTATGATATGATATATATTTATGT
*
78581224 ATTTTGTAAGGTATATAAGTTATG
1 ATTTTGTAAGGTATGTAAGTTATG
78581248 TAAGTTATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 29 0.49
43 27 0.46
44 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (43 bp):
ATTTTGTAAGGTATGTAAGTTATGATATGATATATATTTATGT
Found at i:78581276 original size:13 final size:13
Alignment explanation
Indices: 78581253--78581287 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
78581243 TTATGTAAGT
*
78581253 TATTATATGATATA
1 TATT-TATGATACA
78581267 TATTTATGATACA
1 TATTTATGATACA
78581280 TATTTATG
1 TATTTATG
78581288 TATTATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (13 bp):
TATTTATGATACA
Found at i:78581306 original size:56 final size:55
Alignment explanation
Indices: 78581164--78581328 Score: 189
Period size: 56 Copynumber: 3.0 Consensus size: 55
78581154 TAAGTTATGA
* *
78581164 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATAT-TATT
1 TATGATA-ATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATATATATT
* *
78581219 TATG----TATTT-TGTAAGGTATATAAGTTATGTAAGTTATTATATGATATATATT
1 TATGATAATATTTATGT-A-TTATGTAAGTTATGTAAGTTATTATATGATATATATT
* * *
78581271 TATGATACATATTTATGTATTATGTAAGTTTTGTAAGTTTTTATACGATATATATT
1 TATGATA-ATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATATATATT
78581327 TA
1 TA
78581329 ATATTAAGAT
Statistics
Matches: 92, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
49 3 0.03
50 6 0.07
51 28 0.30
52 8 0.09
55 4 0.04
56 34 0.37
57 6 0.07
58 3 0.03
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (55 bp):
TATGATAATATTTATGTATTATGTAAGTTATGTAAGTTATTATATGATATATATT
Found at i:78581389 original size:11 final size:11
Alignment explanation
Indices: 78581373--78581404 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
78581363 AATATTTTAA
78581373 TTAAATAAATT
1 TTAAATAAATT
78581384 TTAAATAAATT
1 TTAAATAAATT
*
78581395 TTAAAAAAAT
1 TTAAATAAAT
78581405 CACATGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TTAAATAAATT
Found at i:78582427 original size:19 final size:19
Alignment explanation
Indices: 78582403--78582442 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
78582393 TACAAAGCTC
*
78582403 GTTGGTATATTAAATTATA
1 GTTGGTATATCAAATTATA
78582422 GTTGGTATATCAAATTATA
1 GTTGGTATATCAAATTATA
78582441 GT
1 GT
78582443 CAAATCCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (19 bp):
GTTGGTATATCAAATTATA
Found at i:78585454 original size:14 final size:14
Alignment explanation
Indices: 78585419--78585455 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
78585409 TATTATCTCT
78585419 TAAATAATTTAATC
1 TAAATAATTTAATC
78585433 TAAA-AATTTAATC
1 TAAATAATTTAATC
78585446 TAAATAATTT
1 TAAATAATTT
78585456 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:78585649 original size:27 final size:28
Alignment explanation
Indices: 78585594--78585649 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
78585584 CTCTAATCCC
* * *
78585594 TAAACCCTAAAATCCTAAACCCTTCACA
1 TAAACCCTAAAACCCTAAACCCGTAACA
*
78585622 TAAACCCT-AAACCCTAGACCCGTAACA
1 TAAACCCTAAAACCCTAAACCCGTAACA
78585649 T
1 T
78585650 GTAACCATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.41, C:0.36, G:0.04, T:0.20
Consensus pattern (28 bp):
TAAACCCTAAAACCCTAAACCCGTAACA
Found at i:78585719 original size:14 final size:14
Alignment explanation
Indices: 78585571--78585770 Score: 77
Period size: 15 Copynumber: 14.0 Consensus size: 14
78585561 ACTAATTTAT
* *
78585571 CTAAACCTTAATCC
1 CTAAACCATAAACC
* *
78585585 TCTAATCCCTAAACC
1 -CTAAACCATAAACC
78585600 CTAAAATCC-TAAACC
1 CT-AAA-CCATAAACC
**
78585615 CTTCA-CATAAACC
1 CTAAACCATAAACC
* *
78585628 CTAAACCCTAGACC
1 CTAAACCATAAACC
*
78585642 CGT-AA-CATGTAACC
1 C-TAAACCAT-AAACC
* * *
78585656 ATTAACCATATAAAC
1 CTAAACCATA-AACC
78585671 CTAAACCATAAACC
1 CTAAACCATAAACC
* *** * *
78585685 ATAATTTATTAACA
1 CTAAACCATAAACC
*
78585699 GTAAACCATAAACC
1 CTAAACCATAAACC
*
78585713 CTAAACCCT-AACC
1 CTAAACCATAAACC
* *
78585726 TCTAAACCCTAAACT
1 -CTAAACCATAAACC
*
78585741 CTAAAACCCTAAACC
1 CT-AAACCATAAACC
78585756 CTAAAACCATAAACC
1 CT-AAACCATAAACC
78585771 TCACACATAA
Statistics
Matches: 137, Mismatches: 36, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
12 1 0.01
13 16 0.12
14 54 0.39
15 64 0.47
16 2 0.01
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.21
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:78585747 original size:8 final size:8
Alignment explanation
Indices: 78585708--78585768 Score: 53
Period size: 7 Copynumber: 8.2 Consensus size: 8
78585698 AGTAAACCAT
78585708 AAACCCT-
1 AAACCCTA
78585715 AAACCCT-
1 AAACCCTA
78585722 -AACCTCT-
1 AAACC-CTA
78585729 AAACCCT-
1 AAACCCTA
*
78585736 AAACTCTA
1 AAACCCTA
78585744 AAACCCT-
1 AAACCCTA
78585751 AAACCCTA
1 AAACCCTA
*
78585759 AAACCATA
1 AAACCCTA
78585767 AA
1 AA
78585769 CCTCACACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
6 4 0.09
7 24 0.51
8 19 0.40
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (8 bp):
AAACCCTA
Found at i:78585749 original size:15 final size:14
Alignment explanation
Indices: 78585700--78585770 Score: 81
Period size: 15 Copynumber: 4.9 Consensus size: 14
78585690 TTATTAACAG
*
78585700 TAAACCATAAACCC
1 TAAACCCTAAACCC
78585714 TAAACCCT-AACCTC
1 TAAACCCTAAACC-C
*
78585728 TAAACCCTAAACTC
1 TAAACCCTAAACCC
78585742 TAAAACCCTAAACCC
1 T-AAACCCTAAACCC
*
78585757 TAAAACCATAAACC
1 T-AAACCCTAAACC
78585771 TCACACATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
13 4 0.08
14 18 0.36
15 28 0.56
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCCTAAACCC
Found at i:78585782 original size:43 final size:42
Alignment explanation
Indices: 78585701--78585796 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
78585691 TATTAACAGT
* * *
78585701 AAACCATAAACCCTAAACCCTAACCTCTAAACCCTAAACTCTA
1 AAACCCTAAACCCTAAACCATAACCTCTAAACCATAAACT-TA
* *
78585744 AAACCCTAAACCCTAAAACCATAAACCTC-ACA-CATAAACTTT
1 AAACCCTAAACCCT-AAACCAT-AACCTCTAAACCATAAACTTA
78585786 AAACCCTAAAC
1 AAACCCTAAAC
78585797 TGGCCCCTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 12 0.26
43 20 0.43
44 8 0.17
45 6 0.13
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (42 bp):
AAACCCTAAACCCTAAACCATAACCTCTAAACCATAAACTTA
Found at i:78585797 original size:14 final size:14
Alignment explanation
Indices: 78585700--78585797 Score: 54
Period size: 14 Copynumber: 6.9 Consensus size: 14
78585690 TTATTAACAG
* **
78585700 TAAACCATAAACCC
1 TAAACCCTAAACTT
* *
78585714 TAAACCCTAACCTC
1 TAAACCCTAAACTT
78585728 TAAACCCTAAACTCT
1 TAAACCCTAAACT-T
* *
78585743 AAAACCCTAAACCCT
1 TAAACCCTAAA-CTT
* * *
78585758 AAAACCATAAACCT
1 TAAACCCTAAACTT
* * *
78585772 CACA-CATAAACTT
1 TAAACCCTAAACTT
78585785 TAAACCCTAAACT
1 TAAACCCTAAACT
78585798 GGCCCCTAAC
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
13 10 0.15
14 35 0.52
15 21 0.31
16 1 0.01
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACTT
Found at i:78586148 original size:16 final size:16
Alignment explanation
Indices: 78586127--78586158 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
78586117 GACACTTAAA
78586127 CCATAACCCTTAAACC
1 CCATAACCCTTAAACC
*
78586143 CCATAATCCTTAAACC
1 CCATAACCCTTAAACC
78586159 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (16 bp):
CCATAACCCTTAAACC
Found at i:78586206 original size:21 final size:22
Alignment explanation
Indices: 78586168--78586208 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
78586158 CTTAAAATAA
*
78586168 TAACTCATAAACCTTAAACCCT
1 TAACTCATAAACCCTAAACCCT
*
78586190 TAAC-CATATACCCTAAACC
1 TAACTCATAAACCCTAAACC
78586209 GTAAAGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (22 bp):
TAACTCATAAACCCTAAACCCT
Found at i:78586840 original size:39 final size:39
Alignment explanation
Indices: 78586742--78586850 Score: 95
Period size: 39 Copynumber: 2.8 Consensus size: 39
78586732 AAAAAAATTT
* *
78586742 GCGGCGTTTTT-TAACAAACGCCGCTATATGCATACCTTTA
1 GCGGCGTTTTTGT-ACAAACGCCACTATATGCATA-CTATA
78586782 GCGGCGCTTCTTTG-A-AAACGCCACTAGTATTG-AT-CTATA
1 GCGGCG-TT-TTTGTACAAACGCCACTA-TA-TGCATACTATA
*
78586821 GCGGCGTTTTTGTACAAACGCCGCTA-ATGC
1 GCGGCGTTTTTGTACAAACGCCACTATATGC
78586851 CATTGAAGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 19
0.73 0.04 0.24
Matches are distributed among these distances:
36 2 0.03
37 5 0.09
38 3 0.05
39 20 0.34
40 16 0.28
41 7 0.12
42 5 0.09
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (39 bp):
GCGGCGTTTTTGTACAAACGCCACTATATGCATACTATA
Found at i:78593721 original size:30 final size:30
Alignment explanation
Indices: 78593685--78593744 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
78593675 CCATCATCGA
78593685 AAGGTGTAGTTAATGTGCATGTTTAAGTCT
1 AAGGTGTAGTTAATGTGCATGTTTAAGTCT
*
78593715 AAGGTGTGGTTAATGTGCATGTTTAAGTCT
1 AAGGTGTAGTTAATGTGCATGTTTAAGTCT
78593745 TAGATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (30 bp):
AAGGTGTAGTTAATGTGCATGTTTAAGTCT
Found at i:78600145 original size:40 final size:40
Alignment explanation
Indices: 78600100--78600267 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
78600090 CGGAATATAA
*
78600100 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAAC
* * * *
78600140 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** *
78600180 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
** * * * * * *
78600220 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
78600260 CCGGATAT
1 CCGGATAT
78600268 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:78604804 original size:43 final size:43
Alignment explanation
Indices: 78604722--78604822 Score: 100
Period size: 43 Copynumber: 2.3 Consensus size: 43
78604712 ATTGATTACA
* *
78604722 TGTAAGACCATGTCTGGGAAGTTGGCATTGTATTGTGATTAT-G
1 TGTAAGACCATGTCTGGGAAGTTGGCATCGTATTATGATT-TCG
**
78604765 TGTAAGATGATGTCTGGGACA-TTGGCATCGT-TATATGATTTCG
1 TGTAAGACCATGTCTGGGA-AGTTGGCATCGTAT-TATGATTTCG
* *
78604808 TGTAAGTCCCTGTCT
1 TGTAAGACCATGTCT
78604823 AGGACAATGA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
42 2 0.04
43 44 0.94
44 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.38
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGAAGTTGGCATCGTATTATGATTTCG
Found at i:78617392 original size:48 final size:48
Alignment explanation
Indices: 78617326--78617716 Score: 692
Period size: 48 Copynumber: 8.1 Consensus size: 48
78617316 GCGGAAATTG
*
78617326 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78617374 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78617422 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78617470 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78617518 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
78617566 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* *
78617616 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
78617664 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAC
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78617712 ATGTA
1 ATGTA
78617717 GGCGATGTGT
Statistics
Matches: 330, Mismatches: 11, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 282 0.85
49 4 0.01
50 44 0.13
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:78617971 original size:37 final size:37
Alignment explanation
Indices: 78617863--78617971 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
78617853 GGAAATATAT
*
78617863 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
78617900 TCCGGGTAAGACCCGAGGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
78617937 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
78617972 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:78622961 original size:40 final size:40
Alignment explanation
Indices: 78622901--78623072 Score: 195
Period size: 40 Copynumber: 4.3 Consensus size: 40
78622891 CATTTGAATG
* * *
78622901 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
78622941 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * **
78622981 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * *
78623021 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
78623061 ATATCC-GGCTAA
1 ATATCCGGGCTAA
78623073 ATTCCGAAGA
Statistics
Matches: 109, Mismatches: 21, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
39 6 0.06
40 101 0.93
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:78628870 original size:17 final size:16
Alignment explanation
Indices: 78628845--78628878 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
78628835 CCGTGTGCTA
*
78628845 GGTCGTATGTCTCACAG
1 GGTCATATGTCTC-CAG
78628862 GGTCATATGTCTCCAG
1 GGTCATATGTCTCCAG
78628878 G
1 G
78628879 TCGTGATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (16 bp):
GGTCATATGTCTCCAG
Found at i:78629122 original size:5 final size:5
Alignment explanation
Indices: 78629100--78629141 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
78629090 GTTTTTTTTG
*
78629100 AAATA ACATA AAAGTA AAAT- AAAT- AAATA AAATA AAATA AAA
1 AAATA AAATA AAA-TA AAATA AAATA AAATA AAATA AAATA AAA
78629142 ACACTCGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 8 0.24
5 20 0.61
6 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:78629741 original size:61 final size:61
Alignment explanation
Indices: 78629644--78629768 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
78629634 TTCCTGCAAA
*
78629644 GAATGTCTAGTTGCATGATTACTAACATTAATAGAATAACGAATATCATCTCGCTCACTAG
1 GAATGTCTAGTTGCATGATTACTAACATTAACAGAATAACGAATATCATCTCGCTCACTAG
78629705 GAATGTCTAGTTGCATGATTACTAACATTAACAGAATAACGAATATCATCTCGCTCACTAG
1 GAATGTCTAGTTGCATGATTACTAACATTAACAGAATAACGAATATCATCTCGCTCACTAG
78629766 GAA
1 GAA
78629769 CTCTAACAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (61 bp):
GAATGTCTAGTTGCATGATTACTAACATTAACAGAATAACGAATATCATCTCGCTCACTAG
Found at i:78630808 original size:32 final size:29
Alignment explanation
Indices: 78630751--78630809 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 29
78630741 GTTGGGCCAA
*
78630751 ATGTATAAATTTATAAATAAGAAAATTAT
1 ATGTATAAATTAATAAATAAGAAAATTAT
*
78630780 ATGTATTAAATTGAATAGAATATGAAAATT
1 ATGTA-TAAATT-AATA-AATAAGAAAATT
78630810 GAGGCGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 6 0.24
31 3 0.12
32 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (29 bp):
ATGTATAAATTAATAAATAAGAAAATTAT
Found at i:78636404 original size:136 final size:136
Alignment explanation
Indices: 78636160--78636430 Score: 515
Period size: 136 Copynumber: 2.0 Consensus size: 136
78636150 AAAAATCATC
*
78636160 AAAAACAGCGCAAAATACATACCCGAATTAAGCTTCCCAAAGTTTCGAATGTTTAAAGCTTTCAA
1 AAAAACAGAGCAAAATACATACCCGAATTAAGCTTCCCAAAGTTTCGAATGTTTAAAGCTTTCAA
*
78636225 AAGCTTTATTTTCTTCTTAGGTTCGGCCAAGAAAGATGAACACTTGCATGGCCATTTGTTTTTGT
66 AAGCTTTATTTTCTTCTTAGGTTCAGCCAAGAAAGATGAACACTTGCATGGCCATTTGTTTTTGT
78636290 TTAATA
131 TTAATA
*
78636296 AAAAACAGAGCAAAATACATACCCGAATTAAGCTTCCCAAAGTTTTGAATGTTTAAAGCTTTCAA
1 AAAAACAGAGCAAAATACATACCCGAATTAAGCTTCCCAAAGTTTCGAATGTTTAAAGCTTTCAA
78636361 AAGCTTTATTTTCTTCTTAGGTTCAGCCAAGAAAGATGAACACTTGCATGGCCATTTGTTTTTGT
66 AAGCTTTATTTTCTTCTTAGGTTCAGCCAAGAAAGATGAACACTTGCATGGCCATTTGTTTTTGT
78636426 TTAAT
131 TTAAT
78636431 TTAATACATA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 132 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (136 bp):
AAAAACAGAGCAAAATACATACCCGAATTAAGCTTCCCAAAGTTTCGAATGTTTAAAGCTTTCAA
AAGCTTTATTTTCTTCTTAGGTTCAGCCAAGAAAGATGAACACTTGCATGGCCATTTGTTTTTGT
TTAATA
Found at i:78636673 original size:13 final size:13
Alignment explanation
Indices: 78636655--78636679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78636645 ACAAACGATA
78636655 AAATTTTCACACG
1 AAATTTTCACACG
78636668 AAATTTTCACAC
1 AAATTTTCACAC
78636680 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:78639776 original size:47 final size:47
Alignment explanation
Indices: 78639709--78640029 Score: 202
Period size: 47 Copynumber: 6.8 Consensus size: 47
78639699 GGTATAATGT
* *
78639709 TGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATCCATCAAGT
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGC
* * *
78639756 TGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCGAAATTGAGGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATC--CA-TCAAGC
* * * * * *
78639805 CGACGCCATGTCCCAGACATGGTCCTACACAAGCTC-TAACATGTCCATGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT-CCA--T-CAAGC
* * * *
78639855 TGATGCCATGTTCCAGACATGGTTTTACACT-GACACAT-C-TCGTAGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCCATC-AAGC
* * * *
78639901 CGATG-CATGTCACAGACAT-GTCTTACACTAGCAC-TCGTC-TCAATAC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC--CATCAA-GC
* *
78639947 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTC--CCATAATATGGC
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCA-A--GC
*
78639995 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA
78640030 CACAAGTGAC
Statistics
Matches: 213, Mismatches: 38, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 12 0.06
45 16 0.08
46 35 0.16
47 61 0.29
48 20 0.09
49 36 0.17
50 31 0.15
51 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGC
Found at i:78655938 original size:13 final size:13
Alignment explanation
Indices: 78655920--78655944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78655910 GGTTTGTTTA
78655920 TTAAACTAATTAT
1 TTAAACTAATTAT
78655933 TTAAACTAATTA
1 TTAAACTAATTA
78655945 ACTGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:78659217 original size:46 final size:45
Alignment explanation
Indices: 78659124--78659332 Score: 201
Period size: 46 Copynumber: 4.5 Consensus size: 45
78659114 AGGTTGACAC
* * *
78659124 CATGTCCCAGACATGGTCTTACACTGAC--ATATCTCATAGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTC-GAGCCAATG
78659169 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGA-GCCAATG
* * * *
78659215 CATGTCCCAGACATGTCTTACACTAGCACT-CATCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTACATCTCGA-GCCAATG
** * *
78659261 CCATGTCCCAGACATGGTCTTACACTGGCTCCCATAAT-GTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTTACAT-CTCG-AGCCAATG
*
78659309 CATGTCCCAGACATGTCTTGCACT
1 CATGTCCCAGACATGTCTTACACT
78659333 AGCTCACACA
Statistics
Matches: 141, Mismatches: 14, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 61 0.43
47 29 0.21
48 22 0.16
49 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGCCAATG
Found at i:78659310 original size:94 final size:92
Alignment explanation
Indices: 78659124--78659335 Score: 265
Period size: 94 Copynumber: 2.3 Consensus size: 92
78659114 AGGTTGACAC
78659124 CATGTCCCAGACATGGTCTTACACT-G-ACATATCTCATAGCCAATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACAT-GTCTTACACTAGCACATATCTCATAGCCAATGCATGTCCCAGACATGTCT
* *
78659187 TACACTGGCTTACATCTCGAGGCCAATG
65 TACACTGGCTCACATATCGAGGCCAATG
*
78659215 CATGTCCCAGACATGTCTTACACTAGCAC-TCATCTCA-ATGCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGTCTTACACTAGCACAT-ATCTCATA-GCCAATG-CATGTCCCAGACAT-G
* *
78659278 TCTTACACTGGCTCCCATAAT-GTA-GCCGATG
62 TCTTACACTGGCTCACAT-ATCG-AGGCCAATG
*
78659309 CATGTCCCAGACATGTCTTGCACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
78659336 TCACACAAGT
Statistics
Matches: 107, Mismatches: 6, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
90 10 0.09
91 17 0.16
92 14 0.13
93 14 0.13
94 50 0.47
95 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACATATCTCATAGCCAATGCATGTCCCAGACATGTCTT
ACACTGGCTCACATATCGAGGCCAATG
Found at i:78665872 original size:23 final size:23
Alignment explanation
Indices: 78665837--78665884 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
78665827 TGCGACACAC
* *
78665837 GGCCGTGTGACGGGTGAGTGTGT
1 GGCCGTATAACGGGTGAGTGTGT
78665860 GGCCGTATAACGGGTGAGTGTGT
1 GGCCGTATAACGGGTGAGTGTGT
78665883 GG
1 GG
78665885 TCGTGTGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.50, T:0.25
Consensus pattern (23 bp):
GGCCGTATAACGGGTGAGTGTGT
Done.