Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 200 of 284
Found at i:66983646 original size:5 final size:5
Alignment explanation
Indices: 66983636--66983667 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
66983626 TATTTGTGAA
66983636 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
66983668 GAACACACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:66984145 original size:143 final size:144
Alignment explanation
Indices: 66983863--66984150 Score: 456
Period size: 143 Copynumber: 2.0 Consensus size: 144
66983853 TAATAAGGTT
*
66983863 TAAAAAACCTTATTCTAAAATAAAATAAAAGAACTGTAATTCTATATGGATTCTTCTTTTATTTT
1 TAAAAAACCTTATTCTAAAATAAAATAAAAGAACTCTAATTCTATATGGATTCTTCTTTTATTTT
* *
66983928 ATTTTAGCACTATATTTTATTTAAATAAGGAGTCGGGTCACTTAATTCTAACAATCTCCACCTTG
66 ATTTTACCACTATATTTTATTTAAATAAGAAGTCGGGTCACTTAATTCTAACAATCTCCACCTTG
66983993 ACACAAATTCTCAA
131 ACACAAATTCTCAA
* *
66984007 TAAAAAACCTTATTCTAAAATAAAATAAAAGAAGTCTAGTTCTATATGGATT-TTACTTTTATTT
1 TAAAAAACCTTATTCTAAAATAAAATAAAAGAACTCTAATTCTATATGGATTCTT-CTTTTATTT
* * *
66984071 TATTTT-CCA-TCGTATTTTATTTAAATAAGAATTTGGGTCACTTAATTCTAACAATCTCCACCT
65 TATTTTACCACT-ATATTTTATTTAAATAAGAAGTCGGGTCACTTAATTCTAACAATCTCCACCT
*
66984134 TGACACGAATTCTCAA
129 TGACACAAATTCTCAA
66984150 T
1 T
66984151 GAACAAGTTC
Statistics
Matches: 133, Mismatches: 9, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
142 1 0.01
143 68 0.51
144 64 0.48
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (144 bp):
TAAAAAACCTTATTCTAAAATAAAATAAAAGAACTCTAATTCTATATGGATTCTTCTTTTATTTT
ATTTTACCACTATATTTTATTTAAATAAGAAGTCGGGTCACTTAATTCTAACAATCTCCACCTTG
ACACAAATTCTCAA
Found at i:66987997 original size:50 final size:50
Alignment explanation
Indices: 66987922--66988047 Score: 216
Period size: 50 Copynumber: 2.5 Consensus size: 50
66987912 CCATGGCAAC
* * *
66987922 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
66987972 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
*
66988022 AAGTGATAAGTGATAGCTTCGACTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
66988048 CTGATTAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
Found at i:66988064 original size:44 final size:46
Alignment explanation
Indices: 66987922--66988064 Score: 148
Period size: 50 Copynumber: 3.0 Consensus size: 46
66987912 CCATGGCAAC
*
66987922 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCAG---CACTTACCTGATT-AGGACAAGTGA
* *
66987972 AAGTGATAAGTGATAGCTTCGGCTACACTTACCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCAG---CACTTACCTGAT-TAGGACAAGTGA
*
66988022 AAGTGATAAGTGATAGCTTC-G-AC-TACCTGATTAGTGAAAAGTG
1 AAGTGATAAGTGATAGCTTCAGCACTTACCTGATTAG-GACAAGTG
66988065 GTAGCTTCGG
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
43 2 0.02
44 15 0.17
45 2 0.02
49 1 0.01
50 66 0.77
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (46 bp):
AAGTGATAAGTGATAGCTTCAGCACTTACCTGATTAGGACAAGTGA
Found at i:66988107 original size:46 final size:46
Alignment explanation
Indices: 66988044--66988131 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
66988034 ATAGCTTCGA
* * * *
66988044 CTACCTGATTAGTGAAAAGTGGTAGCTTCGGCTACCTTATCATCAG
1 CTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCATCAG
*
66988090 CTACTTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCA
1 CTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCA
66988132 ATGAATAGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (46 bp):
CTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTAATCATCAG
Found at i:66997366 original size:94 final size:94
Alignment explanation
Indices: 66997199--66997405 Score: 248
Period size: 94 Copynumber: 2.3 Consensus size: 94
66997189 TGTTTGGATA
* * * ***
66997199 AATGAAATTTGGTTAAGTGACTTAAAATGCTAGCAATGGCTCTACTATTGACTTAGCTAGTGGTA
1 AATGAAATTTGGCTAAGTGACTTAAAAGGCTAGCAATGGCCCTACTATTGACTTAGCTAGCAATA
66997264 CCCTCGAAGGGTGTGTGTTGTTTTAACTT
66 CCCTCGAAGGGTGTGTGTTGTTTTAACTT
** *
66997293 AATGAAATTTGGCTAAGT-ACCTTTGAAGGCTAGCAATGGCCCTGCTATTGACTTAGCTAGCAAT
1 AATGAAATTTGGCTAAGTGA-CTTAAAAGGCTAGCAATGGCCCTACTATTGACTTAGCTAGCAAT
*
66997357 A-TCTGCGAAGGGTGTGTGTTG--TT---TT
65 ACCCT-CGAAGGGTGTGTGTTGTTTTAACTT
*
66997382 AATGAAATTTGGCTAAGTGCCTTA
1 AATGAAATTTGGCTAAGTGACTTA
66997406 TAGTAGTGGA
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
89 23 0.23
92 2 0.02
93 3 0.03
94 70 0.71
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (94 bp):
AATGAAATTTGGCTAAGTGACTTAAAAGGCTAGCAATGGCCCTACTATTGACTTAGCTAGCAATA
CCCTCGAAGGGTGTGTGTTGTTTTAACTT
Found at i:67005444 original size:17 final size:17
Alignment explanation
Indices: 67005418--67005457 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
67005408 GCATCGAGAT
*
67005418 TCAGAGTTAGAACACCA
1 TCAGAATTAGAACACCA
67005435 TCAGAATTAGAACACCA
1 TCAGAATTAGAACACCA
67005452 TCAGAA
1 TCAGAA
67005458 GAAGCGACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (17 bp):
TCAGAATTAGAACACCA
Found at i:67006961 original size:40 final size:39
Alignment explanation
Indices: 67006880--67006996 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 39
67006870 TTTTAGGTGA
* * * * * * **
67006880 TCAATTATTTTCTAAAAGTGAATTGTAAGGTTCATCAAT
1 TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTAT
*
67006919 TCAATCATTGTT-TAGAACTGAATTAG-AAAGGTTGATTTAT
1 TCAATCATT-TTCCAGAACTGAATT-GTAAA-GTTGATTTAT
67006959 TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTA
1 TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTA
67006997 GAGTTGTTCA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
39 32 0.49
40 33 0.51
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (39 bp):
TCAATCATTTTCCAGAACTGAATTGTAAAGTTGATTTAT
Found at i:67008563 original size:21 final size:22
Alignment explanation
Indices: 67008520--67008564 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
67008510 TTCAATTAGT
* *
67008520 AAATATATTTTTAAAAGTTATAA
1 AAATATATTATTAAAAG-AATAA
67008543 AAATATATTATTAAAA-AATAA
1 AAATATATTATTAAAAGAATAA
67008564 A
1 A
67008565 CTAAAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
23 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATATATTATTAAAAGAATAA
Found at i:67009040 original size:19 final size:20
Alignment explanation
Indices: 67008973--67009067 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 20
67008963 TTTTTATATA
67008973 ATTTT-AATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
67008992 ATTAT-AATTTTTAAAAATATAT
1 ATTTTGAATTTTT-AAAA-AT-T
*
67009014 AAACTTTTGAATTTTTATAAA-T
1 --A-TTTTGAATTTTTAAAAATT
*
67009036 ATTTTGAA-ATTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
67009055 ATTTTGAATTTTT
1 ATTTTGAATTTTT
67009068 TTTTTGTAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
18 7 0.11
19 27 0.44
20 8 0.13
21 2 0.03
22 2 0.03
24 2 0.03
25 6 0.10
26 7 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:67010376 original size:16 final size:16
Alignment explanation
Indices: 67010355--67010411 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
67010345 CGTTTGGTTC
67010355 ACTGTAATAGAATAGA
1 ACTGTAATAGAATAGA
*
67010371 ACTGTAATTGAATAGA
1 ACTGTAATAGAATAGA
** *
67010387 GTTGTAATGGAATA-A
1 ACTGTAATAGAATAGA
67010402 AGCTGTAATA
1 A-CTGTAATA
67010412 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
15 1 0.03
16 32 0.97
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.30
Consensus pattern (16 bp):
ACTGTAATAGAATAGA
Found at i:67010667 original size:58 final size:58
Alignment explanation
Indices: 67010588--67010710 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 58
67010578 TTTTAATAAG
* * *
67010588 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATCATATT-TTAACATA
1 ATTATTACTAAAAATAATTTAAT-AAAATAATAAATAATTTAATAAAATTCTTAACATA
* * *
67010646 ATTATTACTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTACTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
67010704 ATTATTA
1 ATTATTA
67010711 TATGAATTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 23 0.40
58 35 0.60
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTACTAAAAATAATTTAATAAAATAATAAATAATTTAATAAAATTCTTAACATA
Found at i:67013229 original size:25 final size:25
Alignment explanation
Indices: 67013182--67013229 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
67013172 AAAAAATTTA
* * *
67013182 AAATATTTTATTAATATATTAAAGT
1 AAATATTTTAATAATAAAGTAAAGT
*
67013207 AAATATTTTAATATTAAAGTAAA
1 AAATATTTTAATAATAAAGTAAA
67013230 TATATTTTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (25 bp):
AAATATTTTAATAATAAAGTAAAGT
Found at i:67014655 original size:21 final size:21
Alignment explanation
Indices: 67014629--67014711 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
67014619 TGATCAGTAT
*
67014629 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
67014650 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
67014671 ACGACACACGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
67014693 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
67014712 GATCAGTAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 34 0.68
22 1 0.02
23 15 0.30
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:67014695 original size:23 final size:22
Alignment explanation
Indices: 67014627--67014701 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
67014617 CCTGATCAGT
** *
67014627 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
*
67014649 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
67014669 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
67014692 ATACGACACA
1 ATACGACACA
67014702 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 1 0.02
23 10 0.22
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:67016185 original size:16 final size:17
Alignment explanation
Indices: 67016150--67016185 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
67016140 CCTAATTCTC
67016150 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
67016166 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
67016181 CCTTC
1 CCTTC
67016186 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:67030233 original size:93 final size:93
Alignment explanation
Indices: 67030122--67030292 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
67030112 GCCCATAAGT
* * *
67030122 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
67030187 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
67030215 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
*
67030280 CGAGTTCGGATGC
66 CGAGCTCGGATGC
67030293 TCGACCATCC
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:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:67030289 original size:46 final size:46
Alignment explanation
Indices: 67030114--67030289 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
67030104 CACAACCCGC
* *
67030114 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
67030160 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
67030206 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
67030253 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
67030290 TGCTCGACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:67038173 original size:17 final size:17
Alignment explanation
Indices: 67038136--67038184 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
67038126 AATAGAAGAC
**
67038136 AATAATAATAATATATT
1 AATAATAATAATATAAA
*
67038153 AATAAAAATAATATAAA
1 AATAATAATAATATAAA
*
67038170 AATAATACTAATATA
1 AATAATAATAATATA
67038185 GGGAAAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATAATAATATAAA
Found at i:67038337 original size:3 final size:3
Alignment explanation
Indices: 67038329--67038462 Score: 64
Period size: 3 Copynumber: 44.3 Consensus size: 3
67038319 TAGTGCCATT
* * * * * * *
67038329 ATA ATA ATA AAA ATA AAA ATA ATA AAA ATA ACA AT- ATG TTA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
67038376 ATA ATA ATAA ATAA ATAA ATA ATG GTA ATA A-A TATA TATA A-A ATA
1 ATA ATA AT-A AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA ATA
* *
67038421 ATA GTA ACA GA-A ATA A-A ATAA ATA A-A ATA ATA ATA ATA ATA A
1 ATA ATA ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
67038463 CACTCTCCCC
Statistics
Matches: 102, Mismatches: 19, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
2 10 0.10
3 72 0.71
4 20 0.20
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:67038858 original size:30 final size:30
Alignment explanation
Indices: 67038822--67038898 Score: 145
Period size: 30 Copynumber: 2.6 Consensus size: 30
67038812 AAGTAAGGTA
67038822 ATGGAGTTAGTGGGGTAGCTTAGTGGGGTG
1 ATGGAGTTAGTGGGGTAGCTTAGTGGGGTG
*
67038852 ATGGAGTTAGTGGGGTGGCTTAGTGGGGTG
1 ATGGAGTTAGTGGGGTAGCTTAGTGGGGTG
67038882 ATGGAGTTAGTGGGGTA
1 ATGGAGTTAGTGGGGTA
67038899 ATTTAGGAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.17, C:0.03, G:0.51, T:0.30
Consensus pattern (30 bp):
ATGGAGTTAGTGGGGTAGCTTAGTGGGGTG
Found at i:67038863 original size:17 final size:17
Alignment explanation
Indices: 67038822--67038897 Score: 78
Period size: 13 Copynumber: 4.9 Consensus size: 17
67038812 AAGTAAGGTA
67038822 ATGGAGTTAGTGGGGT-
1 ATGGAGTTAGTGGGGTG
*
67038838 A--G-CTTAGTGGGGTG
1 ATGGAGTTAGTGGGGTG
67038852 ATGGAGTTAGT-GGG-G
1 ATGGAGTTAGTGGGGTG
*
67038867 -TGG-CTTAGTGGGGTG
1 ATGGAGTTAGTGGGGTG
67038882 ATGGAGTTAGTGGGGT
1 ATGGAGTTAGTGGGGT
67038898 AATTTAGGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
13 15 0.31
14 8 0.17
15 2 0.04
16 8 0.17
17 15 0.31
ACGTcount: A:0.16, C:0.03, G:0.51, T:0.30
Consensus pattern (17 bp):
ATGGAGTTAGTGGGGTG
Found at i:67058595 original size:19 final size:19
Alignment explanation
Indices: 67058571--67058607 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
67058561 ATTTATGTTT
67058571 TAGATACAGCACCTTTTAA
1 TAGATACAGCACCTTTTAA
*
67058590 TAGATATAGCACCTTTTA
1 TAGATACAGCACCTTTTA
67058608 TATTAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (19 bp):
TAGATACAGCACCTTTTAA
Found at i:67059870 original size:13 final size:13
Alignment explanation
Indices: 67059852--67059879 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
67059842 ACACCTAAAA
67059852 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
67059865 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
67059878 TT
1 TT
67059880 TTCCACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:67064688 original size:3 final size:3
Alignment explanation
Indices: 67064680--67064705 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
67064670 GTTTATAGTG
67064680 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
67064706 TATTCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:67065017 original size:22 final size:22
Alignment explanation
Indices: 67064987--67065097 Score: 75
Period size: 23 Copynumber: 4.8 Consensus size: 22
67064977 ACATTATATG
* *
67064987 TTTTGAATTTGTTTATATGTTA
1 TTTTAAATTTGTTTATATATTA
*
67065009 TTTTAAA-TTGTTTTATAAATTA
1 TTTTAAATTTG-TTTATATATTA
67065031 TTTACTTAAATTTGCTTTATATATTA
1 -TT--TTAAATTTG-TTTATATATTA
* *
67065057 CTTTAAATTAAT-TTTATATTTTA
1 TTTTAAATT--TGTTTATATATTA
*
67065080 TTTTAGATTAT-TTTATAT
1 TTTTAAATT-TGTTTATAT
67065098 TACTTATTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
21 3 0.04
22 24 0.33
23 26 0.36
25 7 0.10
26 13 0.18
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTTAAATTTGTTTATATATTA
Found at i:67065056 original size:26 final size:24
Alignment explanation
Indices: 67064992--67065061 Score: 65
Period size: 26 Copynumber: 2.9 Consensus size: 24
67064982 ATATGTTTTG
*
67064992 AATTTGTTTATATGTTA-TT-TTA
1 AATTTGTTTATATATTATTTATTA
*
67065014 AA-TTGTTTTATAAATTATTTACTTA
1 AATTTG-TTTATATATTATTTA-TTA
67065039 AATTTGCTTTATATATTACTTTA
1 AATTTG-TTTATATATTA-TTTA
67065062 AATTAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 3 0.08
22 11 0.29
23 2 0.05
25 5 0.13
26 13 0.34
27 4 0.11
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (24 bp):
AATTTGTTTATATATTATTTATTA
Found at i:67065384 original size:28 final size:28
Alignment explanation
Indices: 67065338--67065392 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
67065328 TCATTTATTG
*
67065338 TATAATATATAACTTTTAAATATAATATAC
1 TATAATATATAACTATTAAA-A-AATATAC
67065368 TATAATATA-AA-TATTAAAAAATATA
1 TATAATATATAACTATTAAAAAATATA
67065393 TTAAGTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 6 0.25
29 2 0.08
30 9 0.38
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
TATAATATATAACTATTAAAAAATATAC
Found at i:67069992 original size:25 final size:26
Alignment explanation
Indices: 67069961--67070021 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
67069951 GGCACTAACC
*
67069961 AATGGCCCAAT-TCTAAAATGAG-CCA
1 AATGGCCCAATCT-TAAAACGAGCCCA
67069986 AATGGCCCAATCTTAAAACGAGCCCA
1 AATGGCCCAATCTTAAAACGAGCCCA
67070012 AATGGCCCAA
1 AATGGCCCAA
67070022 ATTTTGGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.16
Consensus pattern (26 bp):
AATGGCCCAATCTTAAAACGAGCCCA
Found at i:67075947 original size:39 final size:39
Alignment explanation
Indices: 67075822--67076234 Score: 328
Period size: 39 Copynumber: 10.7 Consensus size: 39
67075812 AATCTTATTT
* * *
67075822 AGTATAATCAGTGGATAAT-GCTCG-TTTGAGCAAACATTC
1 AGTATAATCAGTAGAT--TCGCTCGCTTTGAACAAGCATTC
* * * *
67075861 AATATAATCAATAGATATGGCTCG--TTGAGCAA-CATTC
1 AGTATAATCAGTAGAT-TCGCTCGCTTTGAACAAGCATTC
* * * *
67075898 AGTAAAATTAGTGGATTCGCTTGCTTTGAACAAGCATTC
1 AGTATAATCAGTAGATTCGCTCGCTTTGAACAAGCATTC
* * * * *
67075937 AGGATAATTAGTAGATTTGCTCGC-TTGAGCAAGTATTC
1 AGTATAATCAGTAGATTCGCTCGCTTTGAACAAGCATTC
* * * *
67075975 AGTAAAATCAGTAGATTTGCTCGTTTTGAACAAGCATTT
1 AGTATAATCAGTAGATTCGCTCGCTTTGAACAAGCATTC
* ** *
67076014 AATATAATCAGTAGATTCATTCGC-TTGAGCAAGCATTC
1 AGTATAATCAGTAGATTCGCTCGCTTTGAACAAGCATTC
* * *
67076052 AGTA-AAGCTAGTGGATTCGCTCGTTTTGAACAAGCATTC
1 AGTATAATC-AGTAGATTCGCTCGCTTTGAACAAGCATTC
** * * *
67076091 AGTATAATTGGTATATTCGCTCGC-TTGAGA-AATCATTT
1 AGTATAATCAGTAGATTCGCTCGCTTTGA-ACAAGCATTC
* ** *
67076129 AGTA-ACATCAGTGGATTCGCTCTTTTTAAACAAGCATTC
1 AGTATA-ATCAGTAGATTCGCTCGCTTTGAACAAGCATTC
* * * *
67076168 AGTAAAATCAGTGGATTCGCTCTCTTTGAACAAGCATTT
1 AGTATAATCAGTAGATTCGCTCGCTTTGAACAAGCATTC
67076207 AGTATAATCAGTAGATTCGCTCG-TTTGA
1 AGTATAATCAGTAGATTCGCTCGCTTTGA
67076235 GCAAACTTTC
Statistics
Matches: 298, Mismatches: 63, Indels: 27
0.77 0.16 0.07
Matches are distributed among these distances:
36 5 0.02
37 20 0.07
38 107 0.36
39 163 0.55
40 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (39 bp):
AGTATAATCAGTAGATTCGCTCGCTTTGAACAAGCATTC
Found at i:67076010 original size:77 final size:77
Alignment explanation
Indices: 67075822--67076232 Score: 418
Period size: 77 Copynumber: 5.3 Consensus size: 77
67075812 AATCTTATTT
* * * * * *
67075822 AGTATAATCAGTGGATAAT-GCTCG-TTTGAGCAAACATTCAATATAATCAATAGATATGGCTCG
1 AGTAAAATCAGTGGAT--TCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGAT-TCGCTCG
67075885 -TTGAGCAA-CATTC
63 CTTGAGCAAGCATTC
* * * * * *
67075898 AGTAAAATTAGTGGATTCGCTTGCTTTGAACAAGCATTCAGGATAATTAGTAGATTTGCTCGCTT
1 AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCTT
*
67075963 GAGCAAGTATTC
66 GAGCAAGCATTC
* * * * **
67075975 AGTAAAATCAGTAGATTTGCTCGTTTTGAACAAGCATTTAATATAATCAGTAGATTCATTCGCTT
1 AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCTT
67076040 GAGCAAGCATTC
66 GAGCAAGCATTC
* ** *
67076052 AGT-AAAGCTAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATTGGTATATTCGCTCGCT
1 AGTAAAATC-AGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCT
* * *
67076116 TGAGAAATCATTT
65 TGAGCAAGCATTC
* * * * * *
67076129 AGTAACATCAGTGGATTCGCTCTTTTTAAACAAGCATTCAGTAAAATCAGTGGATTCGCTCTCTT
1 AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGC-T
* *
67076194 TGAACAAGCATTT
65 TGAGCAAGCATTC
* *
67076207 AGTATAATCAGTAGATTCGCTCGTTT
1 AGTAAAATCAGTGGATTCGCTCGTTT
67076233 GAGCAAACTT
Statistics
Matches: 274, Mismatches: 54, Indels: 12
0.81 0.16 0.04
Matches are distributed among these distances:
74 1 0.00
75 10 0.04
76 51 0.19
77 176 0.64
78 36 0.13
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (77 bp):
AGTAAAATCAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATCAGTAGATTCGCTCGCTT
GAGCAAGCATTC
Found at i:67076113 original size:154 final size:153
Alignment explanation
Indices: 67075817--67076232 Score: 462
Period size: 154 Copynumber: 2.7 Consensus size: 153
67075807 CAGAAAATCT
* * * * * *
67075817 TATTTAGTATAATCAGTGGATAATGCTCG-TTTGAGCAAACATTCAATATAATCAATAGATATGG
1 TATTTAGTAAAATCAGTGGAT-TTGCTCGTTTTGAACAAGCATTCAATATAATCAGTAGAT-TCG
* * *
67075881 CTCG-TTGAGCAA-CATTCAGTAAAATTAGTGGATTCGCTTGCTTTGAACAAGCATTCAGGATAA
64 CTCGCTTGAGCAAGCATTCAGTAAAACTAGTGGATTCGCTCGTTTTGAACAAGCATTCAGGATAA
* *
67075944 TTAGTAGATTTGCTCGCTTGAGCAAG
129 TTAGTAGATTCGCTCGCTTGAG-AAA
* * * **
67075970 TATTCAGTAAAATCAGTAGATTTGCTCGTTTTGAACAAGCATTTAATATAATCAGTAGATTCATT
1 TATTTAGTAAAATCAGTGGATTTGCTCGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGCT
* *
67076035 CGCTTGAGCAAGCATTCAGTAAAGCTAGTGGATTCGCTCGTTTTGAACAAGCATTCAGTATAATT
66 CGCTTGAGCAAGCATTCAGTAAAACTAGTGGATTCGCTCGTTTTGAACAAGCATTCAGGATAATT
* *
67076100 GGTATATTCGCTCGCTTGAGAAA
131 AGTAGATTCGCTCGCTTGAGAAA
* * * * * * *
67076123 TCATTTAGTAACATCAGTGGATTCGCTCTTTTTAAACAAGCATTCAGTAAAATCAGTGGATTCGC
1 T-ATTTAGTAAAATCAGTGGATTTGCTCGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGC
* * * * *
67076188 TCTCTTTGAACAAGCATTTAGTATAA-TCAGTAGATTCGCTCGTTT
65 TCGC-TTGAGCAAGCATTCAGTAAAACT-AGTGGATTCGCTCGTTT
67076233 GAGCAAACTT
Statistics
Matches: 219, Mismatches: 38, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
152 10 0.05
153 56 0.26
154 120 0.55
155 33 0.15
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (153 bp):
TATTTAGTAAAATCAGTGGATTTGCTCGTTTTGAACAAGCATTCAATATAATCAGTAGATTCGCT
CGCTTGAGCAAGCATTCAGTAAAACTAGTGGATTCGCTCGTTTTGAACAAGCATTCAGGATAATT
AGTAGATTCGCTCGCTTGAGAAA
Found at i:67080544 original size:286 final size:286
Alignment explanation
Indices: 67080026--67080605 Score: 1115
Period size: 286 Copynumber: 2.0 Consensus size: 286
67080016 GTATTTATAA
*
67080026 AGATATGATATAGCTTTAAATATGAATGCTTGATGATTAAGCTGAAAATATTTGGTAAGATGGTA
1 AGATACGATATAGCTTTAAATATGAATGCTTGATGATTAAGCTGAAAATATTTGGTAAGATGGTA
67080091 ATCATGGTATAAAAGTATAAGTGGTACCATAAAAGACAAGGTAAAATGAGTATGAGAGACACATG
66 ATCATGGTATAAAAGTATAAGTGGTACCATAAAAGACAAGGTAAAATGAGTATGAGAGACACATG
*
67080156 TATAATGACATACAAATGCTATGTTTGCAATTTAATTGAGAATGTTTAATCATTAAATGAATACT
131 TATAATGACATACAAATGCTATGTTTGCAATGTAATTGAGAATGTTTAATCATTAAATGAATACT
67080221 ATGTTATGTGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAGGCTTGGAAAAT
196 ATGTTATGTGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAGGCTTGGAAAAT
67080286 AGCTTAGATATTGACCACACAGGCAG
261 AGCTTAGATATTGACCACACAGGCAG
67080312 AGATACGATATAGCTTTAAATATGAATGCTTGATGATTAAGCTGAAAATATTTGGTAAGATGGTA
1 AGATACGATATAGCTTTAAATATGAATGCTTGATGATTAAGCTGAAAATATTTGGTAAGATGGTA
67080377 ATCATGGTATAAAAGTATAAGTGGTACCATAAAAGACAAGGTAAAATGAGTATGAGAGACACATG
66 ATCATGGTATAAAAGTATAAGTGGTACCATAAAAGACAAGGTAAAATGAGTATGAGAGACACATG
* *
67080442 TATAATGACATACAAATGCTATGTTTGCAATGTAATTGGGAATGTTTGATCATTAAATGAATACT
131 TATAATGACATACAAATGCTATGTTTGCAATGTAATTGAGAATGTTTAATCATTAAATGAATACT
*
67080507 ATGTTATGTGGTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAGGCTTGGAAAAT
196 ATGTTATGTGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAGGCTTGGAAAAT
67080572 AGCTTAGATATTGACCACACAGGCAG
261 AGCTTAGATATTGACCACACAGGCAG
67080598 AGATACGA
1 AGATACGA
67080606 CCGTGTGTCT
Statistics
Matches: 289, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
286 289 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (286 bp):
AGATACGATATAGCTTTAAATATGAATGCTTGATGATTAAGCTGAAAATATTTGGTAAGATGGTA
ATCATGGTATAAAAGTATAAGTGGTACCATAAAAGACAAGGTAAAATGAGTATGAGAGACACATG
TATAATGACATACAAATGCTATGTTTGCAATGTAATTGAGAATGTTTAATCATTAAATGAATACT
ATGTTATGTGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAGGCTTGGAAAAT
AGCTTAGATATTGACCACACAGGCAG
Found at i:67081721 original size:27 final size:27
Alignment explanation
Indices: 67081666--67081722 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
67081656 TGTAGGACTC
** **
67081666 ACCAGTCGCGCCTGTCAGATAGGCACA
1 ACCAGTCGCGCCTACCAGATAAACACA
*
67081693 ACCAGTCGCGCCTACCAGATAAACGCA
1 ACCAGTCGCGCCTACCAGATAAACACA
67081720 ACC
1 ACC
67081723 CAAACCTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.37, G:0.21, T:0.12
Consensus pattern (27 bp):
ACCAGTCGCGCCTACCAGATAAACACA
Found at i:67090833 original size:18 final size:17
Alignment explanation
Indices: 67090810--67090845 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
67090800 CATATGGCCT
67090810 GCCCGTATGGGCCTACAC
1 GCCCGTAT-GGCCTACAC
*
67090828 GCCCGTGTGGCCTACAC
1 GCCCGTATGGCCTACAC
67090845 G
1 G
67090846 GCCCAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (17 bp):
GCCCGTATGGCCTACAC
Found at i:67094742 original size:46 final size:46
Alignment explanation
Indices: 67094624--67095030 Score: 516
Period size: 46 Copynumber: 8.8 Consensus size: 46
67094614 ACAATACAAT
* * * *
67094624 AACTCAGTATGGTTTTCTTCATTTAAATACCATACCTAC-ATTCTAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTC-AC
* * * *
67094670 ATCTC-GATATGCTTTTTCTTTATTGAAATACCATACCTATGTTTCAC
1 AACTCAG-TATG-GTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* *
67094717 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* *
67094763 ATCTC-GATATAGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
1 AACTCAG-TATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* * *
67094809 GAA-TCAGTATAGTTTTCTTTACTGAAATACCATACCTACATTCCAC
1 -AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* ** * * *
67094855 ATCTTGGTATAGTTTTCTTTATTGTAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
*
67094901 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAT
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
* *
67094947 AACTCAGTATGGATTTCTTTACTGAAATACCATACCTACGTTCCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
*
67094993 ATCTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
67095031 TTACTGAAAT
Statistics
Matches: 317, Mismatches: 36, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
45 3 0.01
46 274 0.86
47 36 0.11
48 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCAC
Found at i:67094826 original size:92 final size:92
Alignment explanation
Indices: 67094624--67095030 Score: 568
Period size: 92 Copynumber: 4.4 Consensus size: 92
67094614 ACAATACAAT
* * * *
67094624 AACTCAGTATGGTTTTCTTCATTTAAATACCATACCTACATTCTACATCTCGATAT-GCTTTTTC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACATCTCGATATAG--TTTTC
* *
67094688 TTTATTGAAATACCATACCTATGTTTCAC
64 TTTACTGAAATACCATACCTACGTTTCAC
* *
67094717 AACTCAGTATGGTTTTCTTTATTGAAATACCATACCTACGTTCCACATCTCGATATAGTTTTCTT
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACATCTCGATATAGTTTTCTT
67094782 TACTGAAATACCATACCTACGTTTCAC
66 TACTGAAATACCATACCTACGTTTCAC
* * *
67094809 GAA-TCAGTATAGTTTTCTTTACTGAAATACCATACCTACATTCCACATCTTGGTATAGTTTTCT
1 -AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACATCTCGATATAGTTTTCT
* *
67094873 TTATTGTAATACCATACCTACGTTTCAC
65 TTACTGAAATACCATACCTACGTTTCAC
* * * * * *
67094901 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCATAACTC-AGTATGGATTTCT
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACATCTCGA-TATAGTTTTCT
*
67094965 TTACTGAAATACCATACCTACGTTCCAC
65 TTACTGAAATACCATACCTACGTTTCAC
*
67094993 ATCTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
67095031 TTACTGAAAT
Statistics
Matches: 284, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
91 2 0.01
92 227 0.80
93 54 0.19
94 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (92 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACATCTCGATATAGTTTTCTT
TACTGAAATACCATACCTACGTTTCAC
Found at i:67095036 original size:20 final size:20
Alignment explanation
Indices: 67095011--67095051 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
67095001 ATGGTTTTCT
67095011 TTACTGAAATACCATACCTA
1 TTACTGAAATACCATACCTA
67095031 TTACTGAAATACCATACCTA
1 TTACTGAAATACCATACCTA
67095051 T
1 T
67095052 GTTCCACATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (20 bp):
TTACTGAAATACCATACCTA
Found at i:67095071 original size:66 final size:66
Alignment explanation
Indices: 67094965--67095096 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
67094955 ATGGATTTCT
*
67094965 TTACTGAAATACCATACCTACGTTCCACATCTCAGTATGGTTTTCTTTACTGAAATACCATACCT
1 TTACTGAAATACCATACCTACGTTCCACATCTCAGTATGGTTTTCTTTACTCAAATACCATACCT
67095030 A
66 A
* *
67095031 TTACTGAAATACCATACCTATGTTCCACATCTCGGTATGGTTTTCTTTACTCAAATACCATACCT
1 TTACTGAAATACCATACCTACGTTCCACATCTCAGTATGGTTTTCTTTACTCAAATACCATACCT
67095096 A
66 A
67095097 CGTTTCACAA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (66 bp):
TTACTGAAATACCATACCTACGTTCCACATCTCAGTATGGTTTTCTTTACTCAAATACCATACCT
A
Found at i:67095115 original size:46 final size:46
Alignment explanation
Indices: 67095031--67095149 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
67095021 ACCATACCTA
* * * *
67095031 TTACTGAAATACCATACCTATGTTCCACATCTCGGTATGGTTTTCT
1 TTACTGAAATACCATACCTACGTTTCACAACTCAGTATGGTTTTCT
*
67095077 TTACTCAAATACCATACCTACGTTTCACAACTCAGTATGGTTTTCT
1 TTACTGAAATACCATACCTACGTTTCACAACTCAGTATGGTTTTCT
67095123 TTACTGAAATACCATACCTACGTTTCA
1 TTACTGAAATACCATACCTACGTTTCA
67095150 GACTTTGCCA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (46 bp):
TTACTGAAATACCATACCTACGTTTCACAACTCAGTATGGTTTTCT
Found at i:67095116 original size:112 final size:112
Alignment explanation
Indices: 67094919--67095142 Score: 367
Period size: 112 Copynumber: 2.0 Consensus size: 112
67094909 ATGGTTTTCT
* * *
67094919 TTACTGAAATACCATACCTACGTTTCATAACTCAGTATGGATTTCTTTACTGAAATACCATACCT
1 TTACTGAAATACCATACCTACGTTCCACAACTCAGTATGGATTTCTTTACTCAAATACCATACCT
*
67094984 ACGTTCCACATCTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
66 ACGTTCCACAACTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
* * * *
67095031 TTACTGAAATACCATACCTATGTTCCACATCTCGGTATGGTTTTCTTTACTCAAATACCATACCT
1 TTACTGAAATACCATACCTACGTTCCACAACTCAGTATGGATTTCTTTACTCAAATACCATACCT
*
67095096 ACGTTTCACAACTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
66 ACGTTCCACAACTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
67095143 CGTTTCAGAC
Statistics
Matches: 103, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 103 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (112 bp):
TTACTGAAATACCATACCTACGTTCCACAACTCAGTATGGATTTCTTTACTCAAATACCATACCT
ACGTTCCACAACTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
Found at i:67096369 original size:20 final size:20
Alignment explanation
Indices: 67096344--67096383 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
67096334 CCTTATATAA
*
67096344 GAAAACTTTACTATAACATC
1 GAAAACTCTACTATAACATC
67096364 GAAAACTCTACTATAACATC
1 GAAAACTCTACTATAACATC
67096384 ATTTCCATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (20 bp):
GAAAACTCTACTATAACATC
Found at i:67096741 original size:11 final size:11
Alignment explanation
Indices: 67096725--67096752 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
67096715 TATATTAAAC
67096725 AAAATAATAAT
1 AAAATAATAAT
67096736 AAAATAATAAT
1 AAAATAATAAT
67096747 AAAATA
1 AAAATA
67096753 TCTCATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:67099076 original size:15 final size:15
Alignment explanation
Indices: 67099030--67099076 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
67099020 TCTTCATAAA
*
67099030 CATATATCATTCATTT
1 CATATACCA-TCATTT
67099046 CATTATACCAAT-ATTT
1 CA-TATACC-ATCATTT
67099062 CATATACCATCATTT
1 CATATACCATCATTT
67099077 TTGTGAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 8 0.30
17 6 0.22
18 1 0.04
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (15 bp):
CATATACCATCATTT
Found at i:67100029 original size:46 final size:46
Alignment explanation
Indices: 67099435--67100026 Score: 752
Period size: 46 Copynumber: 12.9 Consensus size: 46
67099425 AATACTATAA
* * * * * *
67099435 CTCAATATAGTTTTCTTCATTGAAATACCATAGCTACATTCCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * *
67099481 CTCAGAATGGTTTTCTTCATTGAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * * * *
67099527 CTCGGTATGGTTTTCTTTACCGAAATACCATATCTGCATTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* *
67099573 CTCAGTATGGTTTTATTTACTAAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * * * *
67099619 CTCAGTATGGTTGTCTTTAGTGAAATAACATACCTACGTTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * *
67099665 CTCAGTCTGGTTTTATTTATTGAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * *
67099711 CTCGGTATGATTTTCTTTACTGAAATACCATACCTACGTTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * * * *
67099757 CTCGGTATGGTTTTCTTTTCTGAAATATCATACCTACGTTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* *
67099803 CTCTGTATGGTTTTCTTTACTGAAATACCATACCTACGTTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* *
67099849 CTCGGTATGGTTTCCTTTACTGAAATACCATACCTACATTCCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * *
67099895 CTCAGTATGGTTTTCTTTACGGAAATACCATAACTACGTTTCACAT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
* * * *
67099941 CTCGGTATGGTTTTCTTTACTGAAATACCATACCTACGTTTCACAA
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
*
67099987 CTCAGTATAGTTTTCTTTACTGAAATACCATACCTACATT
1 CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATT
67100027 TCATACTTTG
Statistics
Matches: 476, Mismatches: 70, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 476 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (46 bp):
CTCAGTATGGTTTTCTTTACTGAAATACCATACCTACATTCCACAT
Found at i:67101148 original size:46 final size:46
Alignment explanation
Indices: 67100774--67101148 Score: 534
Period size: 46 Copynumber: 8.2 Consensus size: 46
67100764 ACCCTATACC
* * * * *
67100774 CGTTTCACAACTCAGTCTGGTTTTATTTATTGAAATACCATACCTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
* * *
67100820 CATTCCACATCTCGGTATGATTTTCTTTACTGAAATACCATACCTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
* * *
67100866 CGTTCCACATCTCGGTATGGTTTTCTTTTCTGAAATATCATACCTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
* *
67100912 CGTTTCACAACTCTGTATGGTTTTCTTTACTGAAATACCATACCTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
* *
67100958 CGTTCCACATCTCGGTATGGTTTCCTTTACTGAAATACCATACCTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
* * * * *
67101004 CATTCCACATCTCAGTATGGTTTTCTTTACGGAAATACCATAACTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
67101050 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
* * *
67101096 CGTTTCACAACTCAGTATAGTTTTCTTTACTGAAATACCATACCTA
1 CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
*
67101142 CATTTCA
1 CGTTTCA
67101149 TACTTTGCCA
Statistics
Matches: 294, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 294 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (46 bp):
CGTTTCACATCTCGGTATGGTTTTCTTTACTGAAATACCATACCTA
Found at i:67108983 original size:42 final size:42
Alignment explanation
Indices: 67108922--67109001 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
67108912 GTCACACGTC
* *
67108922 CGTGTGAACAGGCCGTGTGCCTCACACGGTATTAGACACGCT
1 CGTGTGAACAGGCCATGTGCCTCAAACGGTATTAGACACGCT
* *
67108964 CGTGTGAATAGGCTATGTGCCTCAAACGGTATTAGACA
1 CGTGTGAACAGGCCATGTGCCTCAAACGGTATTAGACA
67109002 AACCCGTGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (42 bp):
CGTGTGAACAGGCCATGTGCCTCAAACGGTATTAGACACGCT
Found at i:67109010 original size:42 final size:42
Alignment explanation
Indices: 67108921--67109011 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
67108911 GGTCACACGT
* * **
67108921 CCGTGTGAACAGGCCGTGTGCCTCACACGGTATTAGACACGC
1 CCGTGTGAACAGGCCATGTGCCTCAAACGGTATTAGACAAAC
* * *
67108963 TCGTGTGAATAGGCTATGTGCCTCAAACGGTATTAGACAAAC
1 CCGTGTGAACAGGCCATGTGCCTCAAACGGTATTAGACAAAC
67109005 CCGTGTG
1 CCGTGTG
67109012 TCTAAGCCGT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.23
Consensus pattern (42 bp):
CCGTGTGAACAGGCCATGTGCCTCAAACGGTATTAGACAAAC
Found at i:67130593 original size:23 final size:23
Alignment explanation
Indices: 67130545--67130595 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
67130535 TATCATTTAT
*
67130545 GCTCTTTCGAGCCATGATCGGTAA
1 GCTCTTTCGAGCCA-GAACGGTAA
67130569 GCTCTTTCGAGCC-GAAACGGTAA
1 GCTCTTTCGAGCCAG-AACGGTAA
67130592 GCTC
1 GCTC
67130596 CGTAGAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 11 0.44
24 13 0.52
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
GCTCTTTCGAGCCAGAACGGTAA
Found at i:67130612 original size:23 final size:23
Alignment explanation
Indices: 67130586--67130662 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
67130576 CGAGCCGAAA
67130586 CGGTAAGCTCCGTAGAACTAAAT
1 CGGTAAGCTCCGTAGAACTAAAT
* *
67130609 CGGTAAGCTCTGTAGAGCTAAAT
1 CGGTAAGCTCCGTAGAACTAAAT
* * * *
67130632 CTGTAAGC-CCGAAGGACTGAA-
1 CGGTAAGCTCCGTAGAACTAAAT
67130653 CGGTAAGCTC
1 CGGTAAGCTC
67130663 ATAAGAGATG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 7 0.16
22 9 0.20
23 28 0.64
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCCGTAGAACTAAAT
Found at i:67130638 original size:46 final size:45
Alignment explanation
Indices: 67130561--67130662 Score: 109
Period size: 46 Copynumber: 2.3 Consensus size: 45
67130551 TCGAGCCATG
* * *
67130561 ATCGGTAAGCTCTTTCGAGCCGAAACGGTAAGCTCCGTAGAACTAA
1 ATCGGTAAGCTCTGTAGAGCCGAAACGGTAAGC-CCGAAGAACTAA
* * * *
67130607 ATCGGTAAGCTCTGTAGAG-CTAAATCTGTAAGCCCGAAGGACTGA
1 ATCGGTAAGCTCTGTAGAGCCGAAA-CGGTAAGCCCGAAGAACTAA
67130652 A-CGGTAAGCTC
1 ATCGGTAAGCTC
67130663 ATAAGAGATG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
44 10 0.21
45 14 0.29
46 24 0.50
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (45 bp):
ATCGGTAAGCTCTGTAGAGCCGAAACGGTAAGCCCGAAGAACTAA
Found at i:67130682 original size:44 final size:46
Alignment explanation
Indices: 67130582--67130685 Score: 108
Period size: 44 Copynumber: 2.3 Consensus size: 46
67130572 CTTTCGAGCC
* * *
67130582 GAAACGGTAAGCTCCGTAGAACTAAATCGGTAAGCTCTGTAGAGCT
1 GAAACGGTAAGCTCCGAAGAACTAAATCGGTAAGCTCTGAAGAGAT
* * *
67130628 -AAATCTGTAAGC-CCGAAGGACTGAA-CGGTAAGCTCAT-AAGAGAT
1 GAAA-CGGTAAGCTCCGAAGAACTAAATCGGTAAGCTC-TGAAGAGAT
67130672 GAAACGGTAAGCTC
1 GAAACGGTAAGCTC
67130686 AAATGAGCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
44 22 0.47
45 18 0.38
46 7 0.15
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (46 bp):
GAAACGGTAAGCTCCGAAGAACTAAATCGGTAAGCTCTGAAGAGAT
Found at i:67132852 original size:19 final size:18
Alignment explanation
Indices: 67132807--67132842 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67132797 ATGTGGCCTA
67132807 CCCGTGTGGGCCCACACG
1 CCCGTGTGGGCCCACACG
67132825 CCCGTGTGGGCCCACACG
1 CCCGTGTGGGCCCACACG
67132843 GGCTGTGTGG
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:0.11, C:0.44, G:0.33, T:0.11
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACG
Found at i:67138693 original size:39 final size:38
Alignment explanation
Indices: 67138632--67138974 Score: 137
Period size: 37 Copynumber: 9.1 Consensus size: 38
67138622 CTCATTTCGC
* * *
67138632 ATAATCAATGGATAAT-ATTCGTTTAAGCATGCATTCCA-T
1 ATAATCAGTGGAT-ATCACTCGTTTAAGCA-CCATT-CAGT
67138671 ATAATCAGTGGATATCACTCGTTTGAA-C-CCATTCAGT
1 ATAATCAGTGGATATCACTCGTTT-AAGCACCATTCAGT
* * * * *
67138708 ATAATCAGTGGATATCGCTCGTTTGAGCAACTTTTAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* * * ** * * *
67138746 ATAATTAGTAGACATTTCTCTTTTGAGCA-CGTTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* * * ** *
67138783 ATATTTAGTAGATATTGCTCGTTTGAGC-CCATTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* ** * * * *
67138820 ATAATCAATGGATATTGCTCGTTTGAGGAACTTTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
** * ** * *
67138858 ATAATCAGTAAACATTGCTCTTTTGAGCA-CATTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* * ** * *
67138895 A-AATTTAGTAGATATTGCTCGTTTGAGCA-CATTCATT
1 ATAA-TCAGTGGATATCACTCGTTTAAGCACCATTCAGT
* * ** * * *
67138932 ATAATTAGTAGATATTGCTCGTTTGAGCAACTTTCAGT
1 ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
67138970 ATAAT
1 ATAAT
67138975 TAGTAGACAT
Statistics
Matches: 252, Mismatches: 42, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
36 5 0.02
37 151 0.60
38 74 0.29
39 20 0.08
40 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (38 bp):
ATAATCAGTGGATATCACTCGTTTAAGCACCATTCAGT
Found at i:67138784 original size:75 final size:74
Alignment explanation
Indices: 67138688--67139071 Score: 419
Period size: 75 Copynumber: 5.1 Consensus size: 74
67138678 GTGGATATCA
* * * * * * *
67138688 CTCGTTTGAACCCATTCAGTATAATCAGTGGATATCGCTCGTTTGAGCAACTTTTAGTATAATTA
1 CTCGTTTGAGCACGTTCAGTATAATCAGTAGATATTGCTCGTTTGAGC-ACATTCAGTATAATTA
*
67138753 GTAGACATTT
65 GTAGACATTG
* * * * * *
67138763 CTCTTTTGAGCACGTTCAGTATATTTAGTAGATATTGCTCGTTTGAGCCCATTCAGTATAATCAA
1 CTCGTTTGAGCACGTTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAATTAG
* *
67138828 TGGATATTG
66 TAGACATTG
* * * * *
67138837 CTCGTTTGAGGAACTTTCAGTATAATCAGTAAACATTGCTCTTTTGAGCACATTCAGTA-AATTT
1 CTCGTTTGA-GCACGTTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAA-TT
*
67138901 AGTAGATATTG
64 AGTAGACATTG
* * * *
67138912 CTCGTTTGAGCACATTCATTATAATTAGTAGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
1 CTCGTTTGAGCACGTTCAGTATAATCAGTAGATATTGCTCGTTTGAGC-ACATTCAGTATAATTA
*
67138977 GTAGACATTT
65 GTAGACATTG
* * * * * *
67138987 CTCTTTTGAGTACGTTCAGTAGATTCAGTAGATATTGCTCGTTTGAACACATTCAGTATAATGAG
1 CTCGTTTGAGCACGTTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAATTAG
67139052 TAGACATTG
66 TAGACATTG
*
67139061 CTTGTTTGAGC
1 CTCGTTTGAGC
67139072 CTATTCAATA
Statistics
Matches: 253, Mismatches: 52, Indels: 9
0.81 0.17 0.03
Matches are distributed among these distances:
74 91 0.36
75 160 0.63
76 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (74 bp):
CTCGTTTGAGCACGTTCAGTATAATCAGTAGATATTGCTCGTTTGAGCACATTCAGTATAATTAG
TAGACATTG
Found at i:67138879 original size:112 final size:112
Alignment explanation
Indices: 67138688--67139071 Score: 561
Period size: 112 Copynumber: 3.4 Consensus size: 112
67138678 GTGGATATCA
* * *
67138688 CTCGTTTGAACCCATTCAGTATAATCAGTGGATATCGCTCGTTTGAGCAACTTTTAGTATAATTA
1 CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
*
67138753 GTAGACATTTCTCTTTTGAGCACGTTCAGTATATTTAGTAGATATTG
66 GTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
* * * * *
67138800 CTCGTTTGAGCCCATTCAGTATAATCAATGGATATTGCTCGTTTGAGGAACTTTCAGTATAATCA
1 CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
* * *
67138865 GTAAACATTGCTCTTTTGAGCACATTCAGTAAATTTAGTAGATATTG
66 GTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
* * * *
67138912 CTCGTTTGAGCACATTCATTATAATTAGTAGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
1 CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
* * *
67138977 GTAGACATTTCTCTTTTGAGTACGTTCAGTAGATTCAGTAGATATTG
66 GTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
* * * *
67139024 CTCGTTTGAACACATTCAGTATAATGAGTAGACATTGCTTGTTTGAGC
1 CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGC
67139072 CTATTCAATA
Statistics
Matches: 244, Mismatches: 28, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
112 244 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (112 bp):
CTCGTTTGAACACATTCAGTATAATCAGTGGATATTGCTCGTTTGAGCAACTTTCAGTATAATTA
GTAGACATTTCTCTTTTGAGCACGTTCAGTAAATTTAGTAGATATTG
Found at i:67139078 original size:37 final size:38
Alignment explanation
Indices: 67138670--67139078 Score: 367
Period size: 37 Copynumber: 11.0 Consensus size: 38
67138660 ATGCATTCCA
* * ** * *
67138670 TATAATCAGTGGATATCACTCGTTTGAAC-CCATTCAG
1 TATAATTAGTAGATATTGCTCGTTTGAGCACTATTCAG
* * * *
67138707 TATAATCAGTGGATATCGCTCGTTTGAGCAACT-TTTAG
1 TATAATTAGTAGATATTGCTCGTTTGAGC-ACTATTCAG
* * * *
67138745 TATAATTAGTAGACATTTCTCTTTTGAGCAC-GTTCAG
1 TATAATTAGTAGATATTGCTCGTTTGAGCACTATTCAG
* *
67138782 TATATTTAGTAGATATTGCTCGTTTGAGC-CCATTCAG
1 TATAATTAGTAGATATTGCTCGTTTGAGCACTATTCAG
* * * *
67138819 TATAATCAATGGATATTGCTCGTTTGAGGAACT-TTCAG
1 TATAATTAGTAGATATTGCTCGTTTGA-GCACTATTCAG
* * * *
67138857 TATAATCAGTAAACATTGCTCTTTTGAGCAC-ATTCAG
1 TATAATTAGTAGATATTGCTCGTTTGAGCACTATTCAG
*
67138894 TA-AATTTAGTAGATATTGCTCGTTTGAGCAC-ATTCAT
1 TATAA-TTAGTAGATATTGCTCGTTTGAGCACTATTCAG
67138931 TATAATTAGTAGATATTGCTCGTTTGAGCAACT-TTCAG
1 TATAATTAGTAGATATTGCTCGTTTGAGC-ACTATTCAG
* * * * *
67138969 TATAATTAGTAGACATTTCTCTTTTGAGTAC-GTTCAG
1 TATAATTAGTAGATATTGCTCGTTTGAGCACTATTCAG
* *
67139006 TA-GATTCAGTAGATATTGCTCGTTTGAACAC-ATTCAG
1 TATAATT-AGTAGATATTGCTCGTTTGAGCACTATTCAG
* * *
67139043 TATAATGAGTAGACATTGCTTGTTTGAGC-CTATTCA
1 TATAATTAGTAGATATTGCTCGTTTGAGCACTATTCA
67139079 ATATTCCATT
Statistics
Matches: 307, Mismatches: 50, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
36 7 0.02
37 208 0.68
38 90 0.29
39 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (38 bp):
TATAATTAGTAGATATTGCTCGTTTGAGCACTATTCAG
Found at i:67141150 original size:46 final size:45
Alignment explanation
Indices: 67141007--67141137 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 45
67140997 TACATCCATA
* *
67141007 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-C
* * * * * *
67141055 A-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCATACATCC
67141100 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA
67141138 AATATCCCAG
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
44 5 0.07
45 2 0.03
46 26 0.38
47 29 0.43
48 2 0.03
49 4 0.06
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCC
Found at i:67143565 original size:15 final size:15
Alignment explanation
Indices: 67143530--67143594 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
67143520 CAAAGATAAC
*
67143530 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
67143544 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
67143559 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
67143574 AATAAATCCAGAATA
1 AAGAAATCCAGAATA
67143589 AAGAAA
1 AAGAAA
67143595 CCCAAGATAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
14 9 0.21
15 33 0.77
16 1 0.02
ACGTcount: A:0.62, C:0.12, G:0.14, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:67146638 original size:93 final size:93
Alignment explanation
Indices: 67146526--67146696 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
67146516 GCCCATAAGT
* *
67146526 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
67146591 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
67146619 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
67146684 CGAGTTCGGATGC
66 CGAGCTCGGATGC
67146697 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:67146693 original size:46 final size:46
Alignment explanation
Indices: 67146518--67146693 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
67146508 TGTAACCCGC
* *
67146518 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
67146564 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* * *
67146614 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
67146657 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
67146694 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 65 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:67147692 original size:9 final size:9
Alignment explanation
Indices: 67147678--67147714 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
67147668 ACTAAACTTT
67147678 CCAAAATGA
1 CCAAAATGA
67147687 CCAAAATGA
1 CCAAAATGA
67147696 CCAAAATGA
1 CCAAAATGA
67147705 CCAAAATGA
1 CCAAAATGA
67147714 C
1 C
67147715 TTATAAATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.54, C:0.24, G:0.11, T:0.11
Consensus pattern (9 bp):
CCAAAATGA
Found at i:67154301 original size:21 final size:21
Alignment explanation
Indices: 67154277--67154316 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
67154267 CTGCAATATC
67154277 TATTTGACTGTCTAATTGAAT
1 TATTTGACTGTCTAATTGAAT
*
67154298 TATTTGACTGTCTGATTGA
1 TATTTGACTGTCTAATTGA
67154317 CTGAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.47
Consensus pattern (21 bp):
TATTTGACTGTCTAATTGAAT
Found at i:67163383 original size:23 final size:22
Alignment explanation
Indices: 67163357--67163410 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
67163347 GAAATTAAAT
67163357 TATAATTTTTATAATAATAAAAA
1 TATAATTTTTA-AATAATAAAAA
* *
67163380 TATAATTTTTAAATAATTAAAT
1 TATAATTTTTAAATAATAAAAA
*
67163402 TAAAATTTT
1 TATAATTTT
67163411 ATCAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATAATTTTTAAATAATAAAAA
Found at i:67164571 original size:9 final size:9
Alignment explanation
Indices: 67164547--67164601 Score: 60
Period size: 8 Copynumber: 6.0 Consensus size: 9
67164537 CATTTTAAAT
67164547 TTATAAAAA
1 TTATAAAAA
*
67164556 -TAAAAAAA
1 TTATAAAAA
67164564 TTATAAAAA
1 TTATAAAAA
67164573 TTATTAAAAA
1 TTA-TAAAAA
67164583 TTATGTAAAAA
1 TTA--TAAAAA
67164594 -TATAAAAA
1 TTATAAAAA
67164602 ATTCATTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
8 13 0.32
9 10 0.25
10 11 0.28
11 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:67164571 original size:11 final size:10
Alignment explanation
Indices: 67164547--67164636 Score: 55
Period size: 9 Copynumber: 9.0 Consensus size: 10
67164537 CATTTTAAAT
67164547 TTAT-AAAAA
1 TTATAAAAAA
67164556 -TA-AAAAAA
1 TTATAAAAAA
67164564 TTAT-AAAAA
1 TTATAAAAAA
*
67164573 TTATTAAAAA
1 TTATAAAAAA
*
67164583 TTATGTAAAAA
1 TTAT-AAAAAA
67164594 -TATAAAAAA
1 TTATAAAAAA
**
67164603 TTCATTGAAAA
1 TT-ATAAAAAA
*
67164614 TTTTAAAATAA
1 TTATAAAA-AA
67164625 TTTATATAAAAA
1 -TTATA-AAAAA
67164637 ATCATTATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.11
9 16 0.25
10 16 0.25
11 16 0.25
12 6 0.09
13 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:67164592 original size:20 final size:19
Alignment explanation
Indices: 67164559--67164621 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
67164549 ATAAAAATAA
*
67164559 AAAAATTATAAAAATTATT
1 AAAAATTATTAAAATTATT
* *
67164578 AAAAATTATGTAAAAATATA
1 AAAAATTAT-TAAAATTATT
67164598 AAAAATTCATTGAAAATT-TT
1 AAAAATT-ATT-AAAATTATT
67164618 AAAA
1 AAAA
67164622 TAATTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.25
20 20 0.56
21 7 0.19
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATTATTAAAATTATT
Found at i:67166224 original size:21 final size:21
Alignment explanation
Indices: 67166175--67166233 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
67166165 AATATGCTAG
* *
67166175 AGATATTTTGATATTTT-ATA
1 AGATATATTAATATTTTAATA
*
67166195 A-TTATTATTAATATTTTAATA
1 AGATA-TATTAATATTTTAATA
*
67166216 AGATATATTATTATTTTA
1 AGATATATTAATATTTTA
67166234 TTAGTATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 11 0.35
21 16 0.52
22 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
AGATATATTAATATTTTAATA
Found at i:67166242 original size:21 final size:21
Alignment explanation
Indices: 67166185--67166243 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
67166175 AGATATTTTG
*
67166185 ATATTTTATAATTAT-TATTA
1 ATATTTTATAAGTATATATTA
67166205 ATATTTTAATAAG-ATATATTA
1 ATATTTT-ATAAGTATATATTA
* *
67166226 TTATTTTATTAGTATATA
1 ATATTTTATAAGTATATA
67166244 AAGAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
20 13 0.39
21 20 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
ATATTTTATAAGTATATATTA
Found at i:67168107 original size:24 final size:23
Alignment explanation
Indices: 67167979--67168107 Score: 75
Period size: 23 Copynumber: 5.5 Consensus size: 23
67167969 CCGAAATATA
*
67167979 GCTCTTCGTGAGCTTC-CTGATAG
1 GCTCTTTGTGAGCTTCAC-GATAG
* *
67168002 GATCTTTGTGAGCTTCCCGATAG
1 GCTCTTTGTGAGCTTCACGATAG
** * *
67168025 TGCTCGCT-TGAACTTCCCGACATATG
1 -GCTCTTTGTGAGCTTCACG--ATA-G
* ** *
67168051 GCTATCCG-GAGCTTCCCGATAG
1 GCTCTTTGTGAGCTTCACGATAG
67168073 GCTCTTTGTGAGCTTCACGATATG
1 GCTCTTTGTGAGCTTCACGATA-G
*
67168097 GTTCTTTGTGA
1 GCTCTTTGTGA
67168108 ACTACCTGAT
Statistics
Matches: 83, Mismatches: 15, Indels: 15
0.73 0.13 0.13
Matches are distributed among these distances:
22 6 0.07
23 44 0.53
24 16 0.19
25 16 0.19
26 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (23 bp):
GCTCTTTGTGAGCTTCACGATAG
Found at i:67168476 original size:46 final size:46
Alignment explanation
Indices: 67168426--67168607 Score: 233
Period size: 46 Copynumber: 4.0 Consensus size: 46
67168416 GCTCTCTGAT
* * *
67168426 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTAAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
67168472 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
67168518 ATGAAATGAATAAGACCATGGTTGAAAGATACTATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
67168564 A-GAAAAT-TAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGT-GTAAGACCATGGTTGAAAGATACCATGGCAACATG
67168608 TCAAAGATAA
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:67169785 original size:8 final size:8
Alignment explanation
Indices: 67169774--67169803 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
67169764 CTTTATATAC
67169774 TAATAAAA
1 TAATAAAA
67169782 TAATAAAA
1 TAATAAAA
67169790 TAATAATAA
1 TAATAA-AA
67169799 TAATA
1 TAATA
67169804 TATCTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TAATAAAA
Found at i:67169823 original size:21 final size:20
Alignment explanation
Indices: 67169789--67169849 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
67169779 AAATAATAAA
*
67169789 ATAATAATAATAATATATCTT
1 ATAA-AATATTAATATATCTT
*
67169810 ATTAAAATATTAATA-ATAATT
1 A-TAAAATATTAATATAT-CTT
* *
67169831 ATAAAATATCAAAATATCT
1 ATAAAATATTAATATATCT
67169850 CTAGCATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 14 0.44
21 15 0.47
22 3 0.09
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (20 bp):
ATAAAATATTAATATATCTT
Found at i:67172356 original size:25 final size:22
Alignment explanation
Indices: 67172318--67172372 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
67172308 TCCTTATATA
*
67172318 TATTTTTATAATAT-T-TTTAAT
1 TATTTTTATAATATATATTT-TT
*
67172339 GATTTTTATAATATATATTTTT
1 TATTTTTATAATATATATTTTT
67172361 TATTTTTATAAT
1 TATTTTTATAAT
67172373 TTTGGAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 13 0.45
23 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATTTTTATAATATATATTTTT
Found at i:67177049 original size:16 final size:16
Alignment explanation
Indices: 67177012--67177054 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
67177002 TTAAAACCTT
*
67177012 TAATGATAATAATATA
1 TAATGATAAAAATATA
67177028 T-A-GATAAAAATATA
1 TAATGATAAAAATATA
67177042 TAATGATATAAAA
1 TAATGATA-AAAA
67177055 AATGAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 5 0.22
17 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (16 bp):
TAATGATAAAAATATA
Found at i:67177126 original size:7 final size:7
Alignment explanation
Indices: 67177071--67177216 Score: 58
Period size: 7 Copynumber: 21.0 Consensus size: 7
67177061 ATAATGTAAA
67177071 ATAAT-T
1 ATAATAT
*
67177077 ATAATTT
1 ATAATAT
67177084 ATAATAT
1 ATAATAT
*
67177091 GA-AAGTGT
1 -ATAA-TAT
67177099 AT-ATAT
1 ATAATAT
* *
67177105 GTAAAAT
1 ATAATAT
67177112 AT-ATAT
1 ATAATAT
67177118 ATAATAT
1 ATAATAT
67177125 ATAA-AT
1 ATAATAT
*
67177131 A-ATTA-
1 ATAATAT
67177136 ATAAATAT
1 AT-AATAT
*
67177144 ATAATACA
1 ATAATA-T
*
67177152 AGTAAAAAT
1 A-T-AATAT
67177161 ATAATA-
1 ATAATAT
*
67177167 ATAATAA
1 ATAATAT
67177174 ATAATAAT
1 ATAAT-AT
* *
67177182 GTAAAAT
1 ATAATAT
67177189 AATAATAT
1 -ATAATAT
*
67177197 ATAATAA
1 ATAATAT
67177204 ATAATA-
1 ATAATAT
67177210 ATAATAT
1 ATAATAT
67177217 GAAATAATAT
Statistics
Matches: 104, Mismatches: 19, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
5 2 0.02
6 29 0.28
7 52 0.50
8 16 0.15
9 2 0.02
10 3 0.03
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (7 bp):
ATAATAT
Found at i:67177129 original size:20 final size:20
Alignment explanation
Indices: 67177101--67177228 Score: 54
Period size: 23 Copynumber: 6.3 Consensus size: 20
67177091 GAAAGTGTAT
*
67177101 ATATGTAAAATATATATATA
1 ATATATAAAATATATATATA
67177121 ATATAT-AAATA-AT-TAATA
1 ATATATAAAATATATAT-ATA
* *
67177139 A-ATATATAATACA-AGTA-A
1 ATATATAAAATATATA-TATA
* *
67177157 AAATATAATAATA-ATAAATA
1 ATATATAA-AATATATATATA
*
67177177 ATAATGTAAAATAATAATATATA
1 AT-ATATAAAAT-AT-ATATATA
* *
67177200 ATAAATAATAATAATATGAAATA
1 ATATATAA-AAT-ATAT-ATATA
67177223 ATATAT
1 ATATAT
67177229 TGTTAAAATG
Statistics
Matches: 82, Mismatches: 11, Indels: 27
0.68 0.09 0.22
Matches are distributed among these distances:
17 5 0.06
18 12 0.15
19 14 0.17
20 16 0.20
21 6 0.07
22 6 0.07
23 23 0.28
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (20 bp):
ATATATAAAATATATATATA
Found at i:67177222 original size:13 final size:12
Alignment explanation
Indices: 67177112--67177225 Score: 84
Period size: 11 Copynumber: 10.0 Consensus size: 12
67177102 TATGTAAAAT
*
67177112 ATATATATAAT-
1 ATATAAATAATA
*
67177123 ATATAAATAATT
1 ATATAAATAATA
67177135 A-ATAAATATATA
1 ATATAAATA-ATA
* * *
67177147 ATACAAGTAAAA
1 ATATAAATAATA
67177159 ATAT-AATAAT-
1 ATATAAATAATA
67177169 A-ATAAATAATA
1 ATATAAATAATA
*
67177180 ATGTAAAATAATA
1 ATAT-AAATAATA
67177193 ATAT--ATAATA
1 ATATAAATAATA
67177203 A-AT-AATAATA
1 ATATAAATAATA
67177213 ATATGAAATAATA
1 ATAT-AAATAATA
67177226 TATTGTTAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
9 4 0.05
10 21 0.26
11 24 0.29
12 10 0.12
13 23 0.28
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:67177225 original size:3 final size:3
Alignment explanation
Indices: 67177161--67177215 Score: 60
Period size: 3 Copynumber: 18.0 Consensus size: 3
67177151 AAGTAAAAAT
*
67177161 ATA ATA ATA ATAA ATA ATA AT- GTA A-A ATA ATA ATA TATA ATAA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA AT-A ATA
67177207 ATA ATA ATA
1 ATA ATA ATA
67177216 TGAAATAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
2 3 0.07
3 33 0.73
4 9 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:67178288 original size:22 final size:26
Alignment explanation
Indices: 67178243--67178289 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
67178233 TGTCTGTGTC
67178243 TATGTATGTTTCTGTTTCTCTCTGTG
1 TATGTATGTTTCTGTTTCTCTCTGTG
67178269 TATGTAT-TTT-T-TTTCT-TCTGT
1 TATGTATGTTTCTGTTTCTCTCTGT
67178290 CCTTTTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
23 5 0.24
24 1 0.05
25 3 0.14
26 7 0.33
ACGTcount: A:0.09, C:0.13, G:0.15, T:0.64
Consensus pattern (26 bp):
TATGTATGTTTCTGTTTCTCTCTGTG
Found at i:67184931 original size:18 final size:18
Alignment explanation
Indices: 67184894--67184946 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
67184884 TATAAATTCA
*
67184894 AAATATATATTAAAAATTAT
1 AAATA-ATATT-ATAATTAT
67184914 AAATAATATTATAATTAT
1 AAATAATATTATAATTAT
** *
67184932 TTATACTATTATAAT
1 AAATAATATTATAAT
67184947 AGTTTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 19 0.66
19 5 0.17
20 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAATATTATAATTAT
Found at i:67186694 original size:26 final size:27
Alignment explanation
Indices: 67186642--67186694 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
67186632 AATTAAGTAT
*
67186642 TTAATAATTTTATATATTTTTTATTTA
1 TTAATAATTTTATATATATTTTATTTA
67186669 TTAA-AATTTTATATATAATTTT-TTTA
1 TTAATAATTTTATATAT-ATTTTATTTA
67186695 AAAGAATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TTAATAATTTTATATATATTTTATTTA
Found at i:67191718 original size:48 final size:48
Alignment explanation
Indices: 67191644--67191839 Score: 338
Period size: 48 Copynumber: 4.1 Consensus size: 48
67191634 ACTCAAAAGT
* * * *
67191644 CTCGCACCCTAGGTGCCAATATCATGGCCCGAAGCCAAATTAATGAAG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
*
67191692 CTTGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
67191740 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
*
67191788 CTCGCACCCGAAGTGCTAATATCATGGCCCGACGCCAAATCAATGAAG
1 CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
67191836 CTCG
1 CTCG
67191840 TAATGACATG
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 141 1.00
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.18
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
Found at i:67194259 original size:19 final size:19
Alignment explanation
Indices: 67194235--67194272 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
67194225 ATTTTAAATA
* *
67194235 TTTTATATATATTGTTTAT
1 TTTTATAAATATTATTTAT
67194254 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
67194273 ACATGTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:67194366 original size:12 final size:13
Alignment explanation
Indices: 67194335--67194369 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
67194325 TTATTTGTAT
67194335 TTTATATATTTTA
1 TTTATATATTTTA
*
67194348 TTTATATCTTTTA
1 TTTATATATTTTA
67194361 -TTATATATT
1 TTTATATATT
67194370 ATATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:67194371 original size:7 final size:7
Alignment explanation
Indices: 67194336--67194390 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
67194326 TATTTGTATT
67194336 TTATATA
1 TTATATA
*
67194343 TTTTAT-
1 TTATATA
*
67194349 TTATATC
1 TTATATA
67194356 TT-T-TA
1 TTATATA
67194361 TTATATA
1 TTATATA
67194368 TTATATA
1 TTATATA
67194375 TT-T-TA
1 TTATATA
67194380 TTATATA
1 TTATATA
67194387 TTAT
1 TTAT
67194391 TCCCTATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
5 7 0.17
6 9 0.22
7 24 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (7 bp):
TTATATA
Found at i:67194373 original size:19 final size:19
Alignment explanation
Indices: 67194349--67194390 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
67194339 TATATTTTAT
*
67194349 TTATATCTTTTATTATATA
1 TTATATATTTTATTATATA
67194368 TTATATATTTTATTATATA
1 TTATATATTTTATTATATA
67194387 TTAT
1 TTAT
67194391 TCCCTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATA
Found at i:67194381 original size:12 final size:12
Alignment explanation
Indices: 67194336--67194388 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
67194326 TATTTGTATT
67194336 TTATATATTTTA
1 TTATATATTTTA
*
67194348 TT-TATATCTT-
1 TTATATATTTTA
*
67194358 TTAT-TA-TATA
1 TTATATATTTTA
67194368 TTATATATTTTA
1 TTATATATTTTA
67194380 TTATATATT
1 TTATATATT
67194389 ATTCCCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 1 0.03
10 8 0.24
11 10 0.30
12 14 0.42
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:67194399 original size:33 final size:34
Alignment explanation
Indices: 67194332--67194424 Score: 81
Period size: 33 Copynumber: 2.9 Consensus size: 34
67194322 ATGTTATTTG
* *
67194332 TATT-TTATATATTTTATT-TATATCT-TTTATTA
1 TATTATTATATATTTTATTATATAT-TATTCACTA
*
67194364 TA-TATTATATATTTTATTATATATTATTCCCTA
1 TATTATTATATATTTTATTATATATTATTCACTA
* *
67194397 TATTATCT-T-CATTTTATTATATACTATT
1 TATTAT-TATATATTTTATTATATATTATT
67194425 TTATCATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
31 1 0.02
32 17 0.33
33 28 0.55
34 4 0.08
35 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (34 bp):
TATTATTATATATTTTATTATATATTATTCACTA
Found at i:67194605 original size:20 final size:18
Alignment explanation
Indices: 67194574--67194628 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
67194564 ATATTATTAT
*
67194574 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
67194592 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
67194612 TTTTATATATATATTAA
1 TTTTATATATATATTAA
67194629 TCGTTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:67194634 original size:20 final size:19
Alignment explanation
Indices: 67194574--67194636 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
67194564 ATATTATTAT
*
67194574 TTTTATAAATATATTAA-G
1 TTTTATATATATATTAATG
*
67194592 TTATTATATCATATAGT-ATG
1 TT-TTATAT-ATATATTAATG
67194612 TTTTATATATATATTAATCG
1 TTTTATATATATATTAAT-G
67194632 TTTTA
1 TTTTA
67194637 AAAAATTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.22
19 14 0.38
20 15 0.41
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTTATATATATATTAATG
Found at i:67194798 original size:20 final size:20
Alignment explanation
Indices: 67194756--67194805 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
67194746 ATAATTTGTT
* *
67194756 TATTTGTTTATTTATTTTTG
1 TATTTTTTTATTTATTTTAG
67194776 TATTTTTTTATCTTA-TTTAG
1 TATTTTTTTAT-TTATTTTAG
*
67194796 TATTGTTTTA
1 TATTTTTTTA
67194806 GTAGGTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTTTTTATTTATTTTAG
Found at i:67194851 original size:18 final size:18
Alignment explanation
Indices: 67194830--67194864 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67194820 ATCTCATAAA
*
67194830 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
67194848 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
67194865 ATATTCGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:67194893 original size:45 final size:43
Alignment explanation
Indices: 67194837--67194954 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
67194827 AAATTATTTG
*
67194837 TTATT-TTTATGTTATTTATTGTTTTTATATATTCGCATGAAA-A
1 TTATTATTTATGTTATTTATTGTTGTTATAT-TT-GCATGAAATA
67194880 TTGATTATTTATGTTA-TTATT-TTAAGTTATATTTGCATGAAATA
1 TT-ATTATTTATGTTATTTATTGTT--GTTATATTTGCATGAAATA
* *
67194924 TTATTATATATGTAATTTA-TGTTGTTATATT
1 TTATTATTTATGTTATTTATTGTTGTTATATT
67194955 CATCATTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
42 8 0.12
43 24 0.37
44 18 0.28
45 15 0.23
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.58
Consensus pattern (43 bp):
TTATTATTTATGTTATTTATTGTTGTTATATTTGCATGAAATA
Found at i:67201345 original size:18 final size:16
Alignment explanation
Indices: 67201314--67201352 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
67201304 GATTACAGGC
67201314 AGAGAAGGAAGGAAAT
1 AGAGAAGGAAGGAAAT
67201330 AGAGAAGCGTAAGGAAAT
1 AGAGAAG-G-AAGGAAAT
67201348 A-AGAA
1 AGAGAA
67201353 TGGCGCGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.33
17 5 0.24
18 9 0.43
ACGTcount: A:0.56, C:0.03, G:0.33, T:0.08
Consensus pattern (16 bp):
AGAGAAGGAAGGAAAT
Found at i:67206966 original size:90 final size:90
Alignment explanation
Indices: 67206238--67206928 Score: 1123
Period size: 90 Copynumber: 7.7 Consensus size: 90
67206228 CAGGGAACAA
* * * *
67206238 ATCGAAGATGACAGATTTGACGTCTTTGTATTAGACGGAGAGTAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
* * *
67206303 TATCCGTATGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
*
67206328 ATTGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
67206393 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
*
67206418 ATCGAAGAT-AGCAGATTTAGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTG
1 ATCGAAGATGA-CAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTG
67206482 ACATTCGTGTGTTTACATCGAAGCAG
65 ACATTCGTGTGTTTACATCGAAGCAG
* ** *
67206508 ATCAAAGATGACAGATTTGGTATCTCTGTATTAGATGGGGAGCAGATCGAAGATAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
67206573 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* *
67206598 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAATATAGCAGAACTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
67206663 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* *
67206688 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACAGGGAGCAGATCGAAGGTAGCAGATCTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
67206753 CATTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* *
67206778 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGTAGATTTGA
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
*
67206843 CCTTCGTGTGTTTACATCGAAGCAG
66 CATTCGTGTGTTTACATCGAAGCAG
* * * * * * *
67206868 ATCAAAGATGACAGATTTGACGTGTCTGTATTAGACAGAGAGCAGATCAAAAATAGCAGAT
1 ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGAT
67206929 TTGGTGTCTC
Statistics
Matches: 561, Mismatches: 38, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
89 1 0.00
90 559 1.00
91 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.26
Consensus pattern (90 bp):
ATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGA
CATTCGTGTGTTTACATCGAAGCAG
Found at i:67208471 original size:19 final size:19
Alignment explanation
Indices: 67208447--67208484 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
67208437 ATTTTAACTA
*
67208447 TTTTATATATATTATTTAT
1 TTTTATAAATATTATTTAT
67208466 TTTTATAAATATTATTTAT
1 TTTTATAAATATTATTTAT
67208485 ACATGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATAAATATTATTTAT
Found at i:67208562 original size:32 final size:32
Alignment explanation
Indices: 67208525--67208599 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
67208515 TATTTATGTA
* * *
67208525 TTATTTATCATGTTCT-TTGTATTTTATATATT
1 TTATTTAT-ATCTTCTATTATATATTATATATT
*
67208557 TTATTTATATCTTTTATTATATATTATATATT
1 TTATTTATATCTTCTATTATATATTATATATT
67208589 TTATTATATAT
1 TTATT-TATAT
67208600 TATTCCCTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 5 0.14
32 27 0.73
33 5 0.14
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (32 bp):
TTATTTATATCTTCTATTATATATTATATATT
Found at i:67208578 original size:12 final size:13
Alignment explanation
Indices: 67208547--67208581 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
67208537 TTCTTTGTAT
67208547 TTTATATATTTTA
1 TTTATATATTTTA
*
67208560 TTTATATCTTTTA
1 TTTATATATTTTA
67208573 -TTATATATT
1 TTTATATATT
67208582 ATATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:67208583 original size:7 final size:7
Alignment explanation
Indices: 67208548--67208602 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
67208538 TCTTTGTATT
67208548 TTATATA
1 TTATATA
*
67208555 TTTTAT-
1 TTATATA
*
67208561 TTATATC
1 TTATATA
67208568 TT-T-TA
1 TTATATA
67208573 TTATATA
1 TTATATA
67208580 TTATATA
1 TTATATA
67208587 TT-T-TA
1 TTATATA
67208592 TTATATA
1 TTATATA
67208599 TTAT
1 TTAT
67208603 TCCCTATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
5 7 0.17
6 9 0.22
7 24 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (7 bp):
TTATATA
Found at i:67208585 original size:19 final size:19
Alignment explanation
Indices: 67208561--67208602 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
67208551 TATATTTTAT
*
67208561 TTATATCTTTTATTATATA
1 TTATATATTTTATTATATA
67208580 TTATATATTTTATTATATA
1 TTATATATTTTATTATATA
67208599 TTAT
1 TTAT
67208603 TCCCTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATATATTTTATTATATA
Found at i:67208593 original size:12 final size:12
Alignment explanation
Indices: 67208548--67208600 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
67208538 TCTTTGTATT
67208548 TTATATATTTTA
1 TTATATATTTTA
*
67208560 TT-TATATCTT-
1 TTATATATTTTA
*
67208570 TTAT-TA-TATA
1 TTATATATTTTA
67208580 TTATATATTTTA
1 TTATATATTTTA
67208592 TTATATATT
1 TTATATATT
67208601 ATTCCCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
9 1 0.03
10 8 0.24
11 10 0.30
12 14 0.42
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATATATTTTA
Found at i:67208611 original size:33 final size:34
Alignment explanation
Indices: 67208544--67208636 Score: 81
Period size: 33 Copynumber: 2.9 Consensus size: 34
67208534 ATGTTCTTTG
* *
67208544 TATT-TTATATATTTTATT-TATATCT-TTTATTA
1 TATTATTATATATTTTATTATATAT-TATTCACTA
*
67208576 TA-TATTATATATTTTATTATATATTATTCCCTA
1 TATTATTATATATTTTATTATATATTATTCACTA
* *
67208609 TATTATCT-T-CATTTTATTATATACTATT
1 TATTAT-TATATATTTTATTATATATTATT
67208637 TTATCATTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
31 1 0.02
32 17 0.33
33 28 0.55
34 4 0.08
35 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (34 bp):
TATTATTATATATTTTATTATATATTATTCACTA
Found at i:67208818 original size:20 final size:18
Alignment explanation
Indices: 67208787--67208841 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
67208777 ATATTATTAT
*
67208787 TTTTATAAATATATTAAG
1 TTTTATATATATATTAAG
* *
67208805 TTATTATATCATATAGTATG
1 TT-TTATAT-ATATATTAAG
67208825 TTTTATATATATATTAA
1 TTTTATATATATATTAA
67208842 TCGTTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 9 0.30
19 11 0.37
20 10 0.33
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTATATATATATTAAG
Found at i:67208847 original size:20 final size:19
Alignment explanation
Indices: 67208787--67208849 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
67208777 ATATTATTAT
*
67208787 TTTTATAAATATATTAA-G
1 TTTTATATATATATTAATG
*
67208805 TTATTATATCATATAGT-ATG
1 TT-TTATAT-ATATATTAATG
67208825 TTTTATATATATATTAATCG
1 TTTTATATATATATTAAT-G
67208845 TTTTA
1 TTTTA
67208850 AAAAATTCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 8 0.22
19 14 0.38
20 15 0.41
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTTATATATATATTAATG
Found at i:67209010 original size:19 final size:19
Alignment explanation
Indices: 67208969--67209017 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
67208959 ATAATTTGTT
*
67208969 TATTTGTTTATTTATTTTTG
1 TATTT-TTTATTTATTTTAG
67208989 TATTTTTTATCTTA-TTTAG
1 TATTTTTTAT-TTATTTTAG
67209008 TATTGTTTTA
1 TATT-TTTTA
67209018 GTAGGTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (19 bp):
TATTTTTTATTTATTTTAG
Found at i:67209063 original size:18 final size:18
Alignment explanation
Indices: 67209042--67209076 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
67209032 ATCTCATAAA
*
67209042 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
67209060 TTATTTATTATTTTTAT
1 TTATTTATTATTTTTAT
67209077 ATATTCGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:67209142 original size:43 final size:41
Alignment explanation
Indices: 67209050--67209153 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 41
67209040 AATTATTTGT
* *
67209050 TATTTTTATGTTAT-TTATTATTTTTATATATTCGCATGAAA
1 TATTATTAT-TTATGTTATTATTTTAATATATTCGCATGAAA
*
67209091 -ATTGATTATTTATGTTATTATTTTAAGTTATATTTGCATGAAA
1 TATT-ATTATTTATGTTATTATTTTAA--TATATTCGCATGAAA
*
67209134 TATTATTATATATG-TATTAT
1 TATTATTATTTATGTTATTAT
67209154 GTAATTTATA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
40 7 0.13
41 15 0.28
42 6 0.11
43 23 0.43
44 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.57
Consensus pattern (41 bp):
TATTATTATTTATGTTATTATTTTAATATATTCGCATGAAA
Found at i:67211527 original size:132 final size:134
Alignment explanation
Indices: 67211142--67211660 Score: 457
Period size: 132 Copynumber: 3.9 Consensus size: 134
67211132 TAGAAAATAC
* * * * * * * *
67211142 GAGTGAAATC-CCAAAGAGATATTCGGTTGTTTTGAACAAACGAGAGATTGCAACCCAGCGCGAT
1 GAGTGAAATCTCGAAGGA-ATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGAT
* * **
67211206 AGGGCACGATT-CTCAAATTGCCAAACATCGAAC-ATAGCCTTTGTTTTAAAGGGTTTTCTTAAA
65 AGGGCACGATTCCGCAAATTGCCAAACATCGAACTATAGCCTTCGTTTTAAAGAATTTT-TTAAA
67211269 AGACAT
129 AGACAT
* * ** * ** *
67211275 GAGTGAAAAC-CTAAAGGAATATTCGATCGTTTTGAACAAACGAGAAATCACAACCCAGCACGAT
1 GAGTGAAATCTC-GAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGAT
* * * * * * * *
67211339 AGGGCATGATTCC-CAAATTGTCAAACATCG-AGTATTGCCTTAGTTTTAGAGGATTTTTTAGAA
65 AGGGCACGATTCCGCAAATTGCCAAACATCGAACTATAGCCTTCGTTTTAAAGAATTTTTTAAAA
*
67211402 GACCT
130 GACAT
* * * * * *
67211407 GAATGGAATCTCGAAGGGATATTTGATTATCTTGAGC-AACGAGAAATTGCAACCCAACACGTTA
1 GAGTGAAATCTCGAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATA
* * * *
67211471 GGGCACGATTCCGCGAATTGCCAAATATCAAACT-TTGCCTTCGTTTTAAAGAA-TTTTTAAAAG
66 GGGCACGATTCCGCAAATTGCCAAACATCGAACTATAGCCTTCGTTTTAAAGAATTTTTTAAAAG
*
67211534 GCAT
131 ACAT
* * * * *
67211538 GAGTGAAAGT-TTGAAGGAATATTCGATTATTTTGAGCAAACGCGAATTTGCAACCCAACATGTT
1 GAGTGAAA-TCTCGAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGAT
* ** * * * *
67211602 AGGGCACTATTCCGTGAGTTGCCAAATATCGAA-TCTAGTCTTCGTTTTAAAGAATTTTT
65 AGGGCACGATTCCGCAAATTGCCAAACATCGAACTATAGCCTTCGTTTTAAAGAATTTTT
67211661 AAATGAATGA
Statistics
Matches: 317, Mismatches: 59, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
131 75 0.24
132 134 0.42
133 103 0.32
134 5 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (134 bp):
GAGTGAAATCTCGAAGGAATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGATA
GGGCACGATTCCGCAAATTGCCAAACATCGAACTATAGCCTTCGTTTTAAAGAATTTTTTAAAAG
ACAT
Found at i:67213755 original size:2 final size:2
Alignment explanation
Indices: 67213750--67213774 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
67213740 TCTGTATATA
67213750 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
67213775 ATTATACTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:67214930 original size:20 final size:19
Alignment explanation
Indices: 67214861--67214951 Score: 67
Period size: 20 Copynumber: 4.6 Consensus size: 19
67214851 CATAACAAGA
* **
67214861 GCACCAAAGTGCTGACAGG
1 GCACCGAAGTGCAAACAGG
*
67214880 GCA-CAAATGTGCAAACAGGG
1 GCACCGAA-GTGCAAACA-GG
* * **
67214900 GCATCGTAGTGTGAACAGG
1 GCACCGAAGTGCAAACAGG
67214919 GACACCGAAGTGCAAACAGAG
1 G-CACCGAAGTGCAAACAG-G
67214940 GCACCGAAGTGC
1 GCACCGAAGTGC
67214952 GAATCCCATA
Statistics
Matches: 57, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.07
19 13 0.23
20 36 0.63
21 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.32, T:0.11
Consensus pattern (19 bp):
GCACCGAAGTGCAAACAGG
Found at i:67216660 original size:23 final size:23
Alignment explanation
Indices: 67216613--67216660 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
67216603 TAATTATTCG
*
67216613 ATCAAAATAACATTAATTACCAT
1 ATCAAAATAACATTAATTACAAT
67216636 ATCAAAATCAA-ATATAA-TACAAT
1 ATCAAAAT-AACAT-TAATTACAAT
67216659 AT
1 AT
67216661 TTGAATCGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (23 bp):
ATCAAAATAACATTAATTACAAT
Found at i:67217094 original size:13 final size:13
Alignment explanation
Indices: 67217055--67217105 Score: 68
Period size: 13 Copynumber: 3.9 Consensus size: 13
67217045 AGTTTGGCAA
67217055 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
67217068 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
67217081 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
67217094 TGCTTTTGAAAA
1 TGCTTTTGAAAA
67217106 TTTTGGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 2 0.06
13 28 0.88
14 2 0.06
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:67221537 original size:45 final size:45
Alignment explanation
Indices: 67221487--67221576 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
67221477 AAAAGATCTA
*
67221487 AGTTCCACGAGCCATCCTCAGTAGCCATCTTGTGCAGAAGGCAAT
1 AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
67221532 AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
1 AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
67221577 CACGGTTTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTTCCACGAGCCATCCTCAGTAACCATCTTGTGCAGAAGGCAAT
Found at i:67230535 original size:22 final size:22
Alignment explanation
Indices: 67230510--67230552 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
67230500 TATTTAAACA
67230510 ATAACAACAAAAT-ATTAGCAAT
1 ATAACAACAAAATGA-TAGCAAT
* *
67230532 ATAATAATAAAATGATAGCAA
1 ATAACAACAAAATGATAGCAA
67230553 AATAGCAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.23
Consensus pattern (22 bp):
ATAACAACAAAATGATAGCAAT
Found at i:67231282 original size:11 final size:10
Alignment explanation
Indices: 67231239--67231278 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
67231229 ATTACTTAAT
67231239 TATTATTTTA
1 TATTATTTTA
67231249 T-TTATTTTA
1 TATTATTTTA
67231258 TA-T-TTTTA
1 TATTATTTTA
67231266 TCATTATTTTA
1 T-ATTATTTTA
67231277 TA
1 TA
67231279 ATTAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 6 0.23
9 11 0.42
10 3 0.12
11 6 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTATTTTA
Found at i:67238194 original size:18 final size:18
Alignment explanation
Indices: 67238171--67238214 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
67238161 TAATTTGATA
67238171 TGGATTCTGTTGTACCAT
1 TGGATTCTGTTGTACCAT
* **
67238189 TGGATTCTGTTTTTTCAT
1 TGGATTCTGTTGTACCAT
67238207 TGGATTCT
1 TGGATTCT
67238215 AAATTTCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (18 bp):
TGGATTCTGTTGTACCAT
Found at i:67244434 original size:13 final size:13
Alignment explanation
Indices: 67244416--67244443 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
67244406 GCAGTGTAAG
67244416 GTTCTAGAAATGA
1 GTTCTAGAAATGA
67244429 GTTCTAGAAATGA
1 GTTCTAGAAATGA
67244442 GT
1 GT
67244444 GGGCCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (13 bp):
GTTCTAGAAATGA
Found at i:67245878 original size:20 final size:20
Alignment explanation
Indices: 67245836--67245889 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
67245826 AAATCATTGT
* *
67245836 AAAATTAATTGAACTAATAA
1 AAAAATAATTGAATTAATAA
* *
67245856 AAAAATAATTGAATTGATTA
1 AAAAATAATTGAATTAATAA
* *
67245876 AAAACTATTTGAAT
1 AAAAATAATTGAAT
67245890 AGGATTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAAATAATTGAATTAATAA
Found at i:67246788 original size:22 final size:25
Alignment explanation
Indices: 67246763--67246813 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 25
67246753 CAACATTATC
67246763 ATAAAAATTATT-A-AAAA-TATAA
1 ATAAAAATTATTAATAAAATTATAA
**
67246785 ATAATCATTATTAATAAAATTATAA
1 ATAAAAATTATTAATAAAATTATAA
67246810 ATAA
1 ATAA
67246814 CCTTTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 1 0.04
24 4 0.17
25 9 0.38
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATAAAAATTATTAATAAAATTATAA
Done.