Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 253 of 295
Found at i:87209062 original size:14 final size:15
Alignment explanation
Indices: 87209025--87209063 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
87209015 ATGTTGCTAT
87209025 TTTATTATTTATCTAA
1 TTTA-TATTTATCTAA
*
87209041 TTTTTATTTATC-AA
1 TTTATATTTATCTAA
87209055 TTTATATTT
1 TTTATATTT
87209064 CTACTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 10 0.48
15 8 0.38
16 3 0.14
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTATATTTATCTAA
Found at i:87209085 original size:60 final size:59
Alignment explanation
Indices: 87208999--87209110 Score: 145
Period size: 60 Copynumber: 1.9 Consensus size: 59
87208989 TTTAATATAT
* * *
87208999 TATTGCTATTATTATTATGTTGCTATTTTATTAT-TTATCTAATTTTTATTTATCAATTTA
1 TATTGCTACTATTATTATATTGCTATTTTATTATATT-TCT-ATTTCTATTTATCAATTTA
* * *
87209059 TATTTCTACTATTATTATATTTCTATTTTTTTATATTTCTATTTCTATTTAT
1 TATTGCTACTATTATTATATTGCTATTTTATTATATTTCTATTTCTATTTAT
87209111 ATACTAATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
59 11 0.24
60 32 0.71
61 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (59 bp):
TATTGCTACTATTATTATATTGCTATTTTATTATATTTCTATTTCTATTTATCAATTTA
Found at i:87209094 original size:16 final size:16
Alignment explanation
Indices: 87209055--87209112 Score: 71
Period size: 16 Copynumber: 3.4 Consensus size: 16
87209045 TATTTATCAA
*
87209055 TTTATATTTCTACTATT
1 TTTATATTTCTA-TTTT
*
87209072 ATTATATTTCTATTTT
1 TTTATATTTCTATTTT
87209088 TTTATATTTCTATTTCT
1 TTTATATTTCTATTT-T
87209105 ATTTATAT
1 -TTTATAT
87209113 ACTAATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
16 17 0.47
17 12 0.33
18 7 0.19
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATATTTCTATTTT
Found at i:87209333 original size:36 final size:38
Alignment explanation
Indices: 87209284--87209360 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
87209274 TTTGTATTTA
* *
87209284 TTTATTCATTTTATTTTCA-TTTTTTACA-AATTTCTAT
1 TTTATTCATTTTATTTT-AGATTTTTACATAATATCTAT
*
87209321 TTTATTTA-TTTATTTTAGATTTTTACATAATATCTAT
1 TTTATTCATTTTATTTTAGATTTTTACATAATATCTAT
87209358 TTT
1 TTT
87209361 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 1 0.03
36 16 0.46
37 18 0.51
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (38 bp):
TTTATTCATTTTATTTTAGATTTTTACATAATATCTAT
Found at i:87217525 original size:19 final size:20
Alignment explanation
Indices: 87217497--87217580 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 20
87217487 AAGCTATGTG
*
87217497 TTATACGGATGAATTACT-T
1 TTATATGGATGAATTACTAT
* *
87217516 TTATATGGATGAAGTACTGT
1 TTATATGGATGAATTACTAT
* * *
87217536 TTAAATGGATGAGTTACT-G
1 TTATATGGATGAATTACTAT
* *
87217555 TTAT-TGAATGATTTACTAT
1 TTATATGGATGAATTACTAT
87217574 TTATATG
1 TTATATG
87217581 ATTGAGAGTG
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
18 11 0.21
19 23 0.44
20 18 0.35
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (20 bp):
TTATATGGATGAATTACTAT
Found at i:87217543 original size:20 final size:20
Alignment explanation
Indices: 87217503--87217556 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
87217493 TGTGTTATAC
* *
87217503 GGATGAATTACT-TTTATAT
1 GGATGAAGTACTGTTTAAAT
87217522 GGATGAAGTACTGTTTAAAT
1 GGATGAAGTACTGTTTAAAT
87217542 GGATG-AGTTACTGTT
1 GGATGAAG-TACTGTT
87217557 ATTGAATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 13 0.42
20 18 0.58
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.41
Consensus pattern (20 bp):
GGATGAAGTACTGTTTAAAT
Found at i:87220059 original size:21 final size:21
Alignment explanation
Indices: 87220034--87220089 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
87220024 AACAGGGGTC
*
87220034 ACACGCTCGTGTGGATAGGGG
1 ACACGCCCGTGTGGATAGGGG
87220055 ACACGCCCGTGTGGATAGGGG
1 ACACGCCCGTGTGGATAGGGG
87220076 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
87220090 TCACACACGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.25, G:0.41, T:0.16
Consensus pattern (21 bp):
ACACGCCCGTGTGGATAGGGG
Found at i:87231163 original size:33 final size:33
Alignment explanation
Indices: 87231116--87231219 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 33
87231106 CTAATTGCAT
* * * *
87231116 ACTGTACTGATACTGTAATGGGCTTAGGCCC-C
1 ACTGTACTGTTACTGAAATGGGCTAAGGCCCAA
* *
87231148 ACTGATACTGTTACTGAAATAGGCTCAGGCCCAA
1 ACTG-TACTGTTACTGAAATGGGCTAAGGCCCAA
* *
87231182 ACTGTTACTGTTATTGAAATGGGCTAAGGCCCTA
1 ACTG-TACTGTTACTGAAATGGGCTAAGGCCCAA
87231216 ACTG
1 ACTG
87231220 AGACTGAAAG
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
32 4 0.07
33 23 0.38
34 33 0.55
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (33 bp):
ACTGTACTGTTACTGAAATGGGCTAAGGCCCAA
Found at i:87234013 original size:35 final size:35
Alignment explanation
Indices: 87233973--87234090 Score: 110
Period size: 35 Copynumber: 3.4 Consensus size: 35
87233963 GGTTCGTTAT
*
87233973 ATCATCACATTTGGCCGAATATACAAGTTCAATAA
1 ATCATCACATATGGCCGAATATACAAGTTCAATAA
* * * * *
87234008 TTCATCAGATATGACCGAAAATACAAGTTAAATAA
1 ATCATCACATATGGCCGAATATACAAGTTCAATAA
* * * * * * *
87234043 AACATCACATGTAGCCAAATTTACAAGTTCAACAT
1 ATCATCACATATGGCCGAATATACAAGTTCAATAA
*
87234078 ATCATCAAATATG
1 ATCATCACATATG
87234091 TACATACCTA
Statistics
Matches: 61, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
35 61 1.00
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (35 bp):
ATCATCACATATGGCCGAATATACAAGTTCAATAA
Found at i:87241974 original size:42 final size:42
Alignment explanation
Indices: 87241914--87242034 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 42
87241904 TAGTGTTACT
* * * *
87241914 GAGATTATGTGTAAGACCATATCTAGGATATAGCATCGATAT
1 GAGATTACGTGTAAGACCATATCTAGGATATGGCATCAATAC
* * * *
87241956 GAGACTT-CGTGTACGACCATAACTGGGCTATTGGCATCAATAC
1 GAGA-TTACGTGTAAGACCATATCTAGGATA-TGGCATCAATAC
* *
87241999 GAGATTACATGTAAGACCATATTTAGGATATGGCAT
1 GAGATTACGTGTAAGACCATATCTAGGATATGGCAT
87242035 TGGTACGGTA
Statistics
Matches: 62, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 30 0.48
43 32 0.52
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTAGGATATGGCATCAATAC
Found at i:87245451 original size:68 final size:68
Alignment explanation
Indices: 87245379--87245526 Score: 169
Period size: 64 Copynumber: 2.2 Consensus size: 68
87245369 CATCATGTGT
* * * *
87245379 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
87245442 TGTAG
64 TGTAG
** * *
87245447 ACAAGAGAGCT--AAGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCAT
87245510 GTAG
65 GTAG
87245514 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
87245527 GAGATAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
64 24 0.36
65 3 0.04
66 6 0.09
67 23 0.34
68 11 0.16
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (68 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATG
TAG
Found at i:87245483 original size:64 final size:64
Alignment explanation
Indices: 87245403--87245587 Score: 187
Period size: 67 Copynumber: 2.9 Consensus size: 64
87245393 AGACATTATG
* * *
87245403 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAAGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAAGAGATAA
* * * * * *
87245467 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTAAGAGAT
87245532 AA
63 AA
* * * *
87245534 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCACGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
87245588 GAACTATATG
Statistics
Matches: 98, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 21 0.21
67 32 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAAGAGATAA
Found at i:87247943 original size:27 final size:26
Alignment explanation
Indices: 87247885--87247997 Score: 102
Period size: 27 Copynumber: 4.2 Consensus size: 26
87247875 AGGAAGCGTC
* *
87247885 CTGGTGGCTATGCCATAAATTATCTGA-T
1 CTGGTGGCTCTGCC--ACATTATCT-ATT
87247913 CTGGTGGCTCTGCCACATATATCTATT
1 CTGGTGGCTCTGCCACAT-TATCTATT
* *
87247940 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTAT-T
* * *
87247968 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTATT
87247994 CTGG
1 CTGG
87247998 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.12
27 36 0.49
28 29 0.39
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTATT
Found at i:87254292 original size:24 final size:24
Alignment explanation
Indices: 87254260--87254306 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
87254250 CTGTCAAGAG
*
87254260 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTAGATAAGGGAT
87254284 AGGATTTAGGAGTAGATAAGGGA
1 AGGATTTAGGAGTAGATAAGGGA
87254307 GGAAATCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
AGGATTTAGGAGTAGATAAGGGAT
Found at i:87255782 original size:27 final size:26
Alignment explanation
Indices: 87255719--87255828 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 26
87255709 AAGCGTCCTA
*
87255719 GTGGCTATGCCACAAATTATCTGTTCTG
1 GTGGCTCTGCCAC--ATTATCTGTTCTG
87255747 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
* *
87255774 ATGGTTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTGT-TCTG
* *
87255802 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
87255828 G
1 G
87255829 CAGCCATGTT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 7 0.10
27 38 0.53
28 27 0.38
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:87260825 original size:43 final size:42
Alignment explanation
Indices: 87260721--87260841 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
87260711 TAGGGTTACA
* * * *
87260721 GAGATTACGTGTAAGACCATATCTGAGATATGGCATCGATAT
1 GAGATTACGTGTAAGACCATAACTGGGATATGGCATCAATAC
* * *
87260763 GAGACTT-CGTGTAAAACCATAGCTGGGCTATTGGCATCAATAC
1 GAGA-TTACGTGTAAGACCATAACTGGGATA-TGGCATCAATAC
**
87260806 GAGATTACACGTAAGACCATAACTGGGATATGGCAT
1 GAGATTACGTGTAAGACCATAACTGGGATATGGCAT
87260842 TGGTATGGTA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATAACTGGGATATGGCATCAATAC
Found at i:87266149 original size:27 final size:27
Alignment explanation
Indices: 87266105--87266167 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
87266095 TTAGTTTACC
* * *
87266105 AAATTACTAAAATGCCCTCAAATTGTA
1 AAATTACCAAAATACCCTCAAATTATA
* *
87266132 AAATTACCAAAGTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCAAATTATA
*
87266159 GAATTACCA
1 AAATTACCA
87266168 TTTTACCCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAAATTATA
Found at i:87266174 original size:27 final size:27
Alignment explanation
Indices: 87266144--87266274 Score: 208
Period size: 27 Copynumber: 4.9 Consensus size: 27
87266134 ATTACCAAAG
* **
87266144 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACTGTTT
87266171 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
87266198 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
* *
87266225 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
*
87266252 TACCCTCGATTTATAAAATTACT
1 TACCCTCGATTTATAGAATTACT
87266275 AAAATACCAT
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:87266282 original size:27 final size:27
Alignment explanation
Indices: 87266252--87266496 Score: 178
Period size: 27 Copynumber: 9.2 Consensus size: 27
87266242 ATTACTGTTT
*
87266252 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
87266279 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
**
87266306 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * * *
87266333 TACCCTAG-TTTGTAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
87266359 TACCC-CTGGTTTGTAAAATTACC--GA
1 TACCCTC-GATTTATAAAATTACCAAAA
* ** *
87266384 TACTCTTAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
87266411 TGCCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
87266438 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTATAAAATTACCAAAA
* *
87266465 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
87266492 TACCC
1 TACCC
87266497 CTAATTTACA
Statistics
Matches: 170, Mismatches: 39, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
25 19 0.11
26 22 0.13
27 128 0.75
28 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:87266292 original size:54 final size:54
Alignment explanation
Indices: 87266178--87266336 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
87266168 TTTTACCCTC
* * **** *
87266178 GATTTATAGAATTACTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTT
1 GATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCATT
87266232 GATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCATT
1 GATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCATT
* * ***** ** *
87266286 GGTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAAAATACC
1 GATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACC
87266337 CTAGTTTGTA
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 88 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.36
Consensus pattern (54 bp):
GATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCATT
Found at i:87266299 original size:81 final size:81
Alignment explanation
Indices: 87266152--87266300 Score: 181
Period size: 81 Copynumber: 1.8 Consensus size: 81
87266142 AGTACCCTCA
* * **** * * *
87266152 ATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAGAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCATCGATTTACAAAAT
87266217 TACTGTTTTACCCTTG
66 TACTGTTTTACCCTTG
** * *
87266233 ATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCATTGGTTTACAAAAT
1 ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCATCGATTTACAAAAT
87266298 TAC
66 TAC
87266301 CAAAATACCC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 55 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (81 bp):
ATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACTAAAATACCATCGATTTACAAAAT
TACTGTTTTACCCTTG
Found at i:87266441 original size:79 final size:79
Alignment explanation
Indices: 87266265--87266499 Score: 283
Period size: 79 Copynumber: 2.9 Consensus size: 79
87266255 CCTCGATTTA
* * ** * * ***
87266265 TAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCA
1 TAAAATTACCAAAATACCACTGGTTTGTAAAATTACC-GAATACCCTCAATTTGTAAAATTACCA
*
87266330 AAATACCCTAGTTTG
65 AAATCCCCTAGTTTG
* * * * *
87266345 TAAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCG-ATACTCTTAATTTGTAAAATTACCAA
1 TAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAATACCCTCAATTTGTAAAATTACCAA
87266409 AATGCCCCTAGTTTG
66 AAT-CCCCTAGTTTG
*
87266424 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 TAAAATTACCAAAATACCACTGGTTTGTAAAATTACCG-AATACCCTCAATTTGTAAAATTACCA
87266489 AAATACCCCTA
65 AAAT-CCCCTA
87266500 ATTTACAAAG
Statistics
Matches: 132, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
78 23 0.17
79 44 0.33
80 32 0.24
81 33 0.25
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (79 bp):
TAAAATTACCAAAATACCACTGGTTTGTAAAATTACCGAATACCCTCAATTTGTAAAATTACCAA
AATCCCCTAGTTTG
Found at i:87266478 original size:54 final size:53
Alignment explanation
Indices: 87266252--87266496 Score: 228
Period size: 54 Copynumber: 4.6 Consensus size: 53
87266242 ATTACTGTTT
* * * * **
87266252 TACCCTCGATTTATAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAA
*** * *
87266306 TACCCTCGATCAATAAAATTACCAAAATACCCTAGTTTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
* * * *
87266359 TACCC-CTGGTTTGTAAAATTACC--GATACTCTTAATTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAATAC-CCTAGTTTGTAAAATTACCAAAA
* * * * *
87266411 TGCCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAA
*
87266465 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCGATTTGTAAAATTACCAAAATACCC
87266497 CTAATTTACA
Statistics
Matches: 155, Mismatches: 29, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
51 4 0.03
52 39 0.25
53 35 0.23
54 75 0.48
55 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (53 bp):
TACCCTCGATTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
Found at i:87266513 original size:27 final size:27
Alignment explanation
Indices: 87266293--87266503 Score: 198
Period size: 27 Copynumber: 7.9 Consensus size: 27
87266283 ATTGGTTTAC
* ***
87266293 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-AATTTGT
*
87266320 AAAATTACCAAAATA-CCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* * **
87266346 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* * *
87266373 AAAATTACC--GATACTCTTAATTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* *
87266398 AAAATTACCAAAATGCCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* **
87266425 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* *
87266452 GAAATTACCGAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AATTTGT
87266479 AAAATTACCAAAATACCCCTAATTT
1 AAAATTACCAAAATACCCCTAATTT
87266504 ACAAAGTTAC
Statistics
Matches: 149, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
25 20 0.13
26 18 0.12
27 107 0.72
28 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAATTTGT
Found at i:87266519 original size:54 final size:54
Alignment explanation
Indices: 87266252--87266524 Score: 149
Period size: 54 Copynumber: 5.1 Consensus size: 54
87266242 ATTACTGTTT
* * * * **
87266252 TACCCTCGATTTATAAAATTACTAAAATACCATTGGTTT-ACAAAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTGAC-AAATTA-CAGAAA
* *** * *
87266306 TACCCTCGATCAATAAAATTACCAAAATACC-CTAGTTTGTA-AAATTGCTA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTG-ACAAATTAC-AGAAA
** * *
87266359 TACCC-CTGGTTTGTAAAATTACC--GATACTC-TTAATTTGTA-AAATTACCA-AAA
1 TACCCTC-AATTTGTAAAATTACCAAAATAC-CACTAATTTG-ACAAATTA-CAGAAA
* * ** ** *
87266411 TGCCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAA
*
87266465 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTGACAAA-TTACAGAAA
87266519 TACCCT
1 TACCCT
87266525 TGACTTTCTA
Statistics
Matches: 176, Mismatches: 30, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
51 4 0.02
52 41 0.23
53 37 0.21
54 92 0.52
55 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAA
Found at i:87266574 original size:27 final size:27
Alignment explanation
Indices: 87266535--87266586 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
87266525 TGACTTTCTA
87266535 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
87266562 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
87266587 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:87266679 original size:27 final size:27
Alignment explanation
Indices: 87266649--87266726 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
87266639 AGGCAAAAAG
*
87266649 ACCGTAAAGCCCCTGTAGGGTAAATTA
1 ACCGTAAAGCCCCTGTAGGGTAAAGTA
*
87266676 ACCGTAAAGCCCCTGTAGGGTAAAGTG
1 ACCGTAAAGCCCCTGTAGGGTAAAGTA
* *
87266703 ACCGTAATA-CCCCTATATGGTAAA
1 ACCGTAA-AGCCCCTGTAGGGTAAA
87266727 ATGACGAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (27 bp):
ACCGTAAAGCCCCTGTAGGGTAAAGTA
Found at i:87266731 original size:27 final size:27
Alignment explanation
Indices: 87266643--87266731 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
87266633 CCTATTAGGC
* *
87266643 AAAAAGACCGTAAAGCCCCTGTAGGGT
1 AAAATGACCGTAAAGCCCCTATAGGGT
* * *
87266670 AAATTAACCGTAAAGCCCCTGTAGGGT
1 AAAATGACCGTAAAGCCCCTATAGGGT
* *
87266697 AAAGTGACCGTAATA-CCCCTATATGGT
1 AAAATGACCGTAA-AGCCCCTATAGGGT
87266724 AAAATGAC
1 AAAATGAC
87266732 GAATATGCCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (27 bp):
AAAATGACCGTAAAGCCCCTATAGGGT
Found at i:87267648 original size:25 final size:26
Alignment explanation
Indices: 87267534--87267646 Score: 165
Period size: 26 Copynumber: 4.4 Consensus size: 26
87267524 GAGGAAGTGC
87267534 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
87267560 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
87267586 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
87267612 AAAATGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
87267637 AAAAGGGCTT
1 AAAAGGGCTT
87267647 TGTCCCGGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
25 21 0.27
26 58 0.73
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:87267866 original size:42 final size:42
Alignment explanation
Indices: 87267801--87267892 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
87267791 TAGTCTCCCC
* * * *
87267801 AAATGGGCTTGCAAACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCAAACATCCATTGATATTACATGCGATATTG
*
87267843 AAATGGGCTTGCATACATCCATTGATATTACATGCGATATTG
1 AAATGGGCTTGCAAACATCCATTGATATTACATGCGATATTG
87267885 AAATGGGC
1 AAATGGGC
87267893 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCAAACATCCATTGATATTACATGCGATATTG
Found at i:87269783 original size:42 final size:41
Alignment explanation
Indices: 87269714--87269858 Score: 123
Period size: 42 Copynumber: 3.5 Consensus size: 41
87269704 ATGAGCTTTA
* *
87269714 GTTAA-CTCATATGAGTTTCA-ATTTAACCCTTATGGGTTTC
1 GTTAAGCTCTTATGAGCTTCAGA-TTAACCCTTATGGGTTTC
* * * * *
87269754 ATTTCAGCTCTTCTGAGCTTTAGATTAACCCTTATAGGTTTTC
1 -GTTAAGCTCTTATGAGCTTCAGATTAACCCTTAT-GGGTTTC
* * *
87269797 GTTAAGCTCTTATGAGCTTCCGTTTAACCCTTACGGGTTTCC
1 GTTAAGCTCTTATGAGCTTCAGATTAACCCTTATGGGTTT-C
* * *
87269839 GTTTAGCACTTATGTGCTTC
1 GTTAAGCTCTTATGAGCTTC
87269859 TATGCAGCCT
Statistics
Matches: 82, Mismatches: 18, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
41 8 0.10
42 67 0.82
43 7 0.09
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (41 bp):
GTTAAGCTCTTATGAGCTTCAGATTAACCCTTATGGGTTTC
Found at i:87269829 original size:21 final size:21
Alignment explanation
Indices: 87269805--87269858 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
87269795 TCGTTAAGCT
*
87269805 CTTATGAGCTTCCGTTTAACC
1 CTTATGAGCTTCCGTTTAACA
* * * *
87269826 CTTACGGGTTTCCGTTTAGCA
1 CTTATGAGCTTCCGTTTAACA
*
87269847 CTTATGTGCTTC
1 CTTATGAGCTTC
87269859 TATGCAGCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.41
Consensus pattern (21 bp):
CTTATGAGCTTCCGTTTAACA
Found at i:87276776 original size:25 final size:25
Alignment explanation
Indices: 87276742--87276791 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
87276732 TTTCTGAGCT
87276742 TCACAAATTTGCAGAAGAAATACTG
1 TCACAAATTTGCAGAAGAAATACTG
*
87276767 TCACAAATTTGCTGAAGAAATACTG
1 TCACAAATTTGCAGAAGAAATACTG
87276792 GTTTAGCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (25 bp):
TCACAAATTTGCAGAAGAAATACTG
Found at i:87280950 original size:6 final size:6
Alignment explanation
Indices: 87280932--87281025 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
87280922 AAGAAACATT
* *
87280932 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
87280981 ATCAGA ATCAGA ATCAGT ATCGGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
87281026 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.06
6 58 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:87280984 original size:31 final size:31
Alignment explanation
Indices: 87280946--87281025 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
87280936 GAACTAGAAT
* *
87280946 CAGAATCAGAATCAGAATTAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
87280977 CAGAATCAGAATCAGAATCAGTATCGGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
87281008 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
87281026 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:87281481 original size:27 final size:27
Alignment explanation
Indices: 87281444--87281587 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
87281434 ACAAAGGTAC
*
87281444 TCGGTAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
87281471 TCGGTATTTCTACTCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
87281498 TTGATAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
** *
87281525 TTAGTAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
**
87281552 TAAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
87281579 TCGGTAATT
1 TCGGTAATT
87281588 TCACAAATCA
Statistics
Matches: 101, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:87281600 original size:81 final size:81
Alignment explanation
Indices: 87281447--87281614 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
87281437 AAGGTACTCG
* * ** * * * *
87281447 GTAATTCTACCTTACAGGGGTATTTCGGTATTTCTACTCTACAAGGGTATTTTGATAATTCTACC
1 GTAATTCTACCCTACAAGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACA
*
87281512 CTACAGGGGTATTTTA
66 ATACAGGGGTATTTTA
* *
87281528 GTAATTCTACCCTACAAGGGTATTTAAGTAATTCTACCCTACAGGGGTATTTCGGTAATT-TCAC
1 GTAATTCTACCCTACAAGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTCGATAATTCT-AC
*
87281592 AA-ATCAGGGGTATTTTG
65 AATA-CAGGGGTATTTTA
87281609 GTAATT
1 GTAATT
87281615 TTACAAACCA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
80 2 0.03
81 71 0.97
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (81 bp):
GTAATTCTACCCTACAAGGGTATTTAAGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACA
ATACAGGGGTATTTTA
Found at i:87281613 original size:54 final size:55
Alignment explanation
Indices: 87281446--87281614 Score: 211
Period size: 54 Copynumber: 3.1 Consensus size: 55
87281436 AAAGGTACTC
* *
87281446 GGTAATTCTACCTTACAGGGGTATTTCGGT-ATTTCTACTCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTTCTACACTACAAGGGTATTTT
* ** * *
87281500 GATAATTCTACCCTACAGGGGTATTTTAGTAA-TTCTACCCTACAAGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTTCTACACTACAAGGGTATTTT
* * *
87281554 AGTAATTCTACCCTACAGGGGTATTTCGGTAATTTC-ACA-AATCAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTTCTACACTA-CAAGGGTATTTT
87281608 GGTAATT
1 GGTAATT
87281615 TTACAAACCA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 92 0.95
55 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (55 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTAATTTCTACACTACAAGGGTATTTT
Found at i:87281643 original size:27 final size:26
Alignment explanation
Indices: 87281572--87281697 Score: 117
Period size: 27 Copynumber: 4.7 Consensus size: 26
87281562 TACCCTACAG
* * *
87281572 GGGTATTTCGGTAATTTCACAAATCA
1 GGGTATTTTGGTAATTTTACAAACCA
87281598 GGGGTATTTTGGTAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAAACCA
** * *
87281625 GGTGTATTTTGGTAATTTTATTGATCGA
1 GG-GTATTTTGGTAATTTTA-CAAACCA
**
87281653 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACC-A
**
87281680 GGGTATTTCAGTAATTTT
1 GGGTATTTTGGTAATTTT
87281698 GTAAATTGAG
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.06
27 73 0.88
28 5 0.06
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACCA
Found at i:87281709 original size:27 final size:27
Alignment explanation
Indices: 87281650--87281711 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
87281640 TTTTATTGAT
**
87281650 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CGAGGGTATTTCAGTAATTTTGTAAAC
* *
87281677 CAAGGGTATTTCAGTAATTTTGTAAAT
1 CGAGGGTATTTCAGTAATTTTGTAAAC
*
87281704 TGAGGGTA
1 CGAGGGTA
87281712 AAATGGTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (27 bp):
CGAGGGTATTTCAGTAATTTTGTAAAC
Found at i:87281709 original size:54 final size:54
Alignment explanation
Indices: 87281569--87281711 Score: 146
Period size: 54 Copynumber: 2.6 Consensus size: 54
87281559 TTCTACCCTA
* * * *
87281569 CAGGGGTATTTCGGTAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAAC
1 CAGGTGTATTTCAGTAATTTTATAAATCGA-GGGTATTTTGGTAATTTTACAAAC
** ** **
87281623 CAGGTGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGTGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
* *
87281677 CAAGG-GTATTTCAGTAATTTTGTAAATTGAGGGTA
1 C-AGGTGTATTTCAGTAATTTTATAAATCGAGGGTA
87281712 AAATGGTAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
54 69 0.95
55 4 0.05
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (54 bp):
CAGGTGTATTTCAGTAATTTTATAAATCGAGGGTATTTTGGTAATTTTACAAAC
Found at i:87281719 original size:81 final size:81
Alignment explanation
Indices: 87281634--87281861 Score: 226
Period size: 81 Copynumber: 2.8 Consensus size: 81
87281624 AGGTGTATTT
* ** *** * *** *
87281634 TGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCA-AGGGTATTTCAGTAATTTT
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA-CAGAGGGTAAGACAGTAATTCT
* *
87281698 GTAAATTGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* *
87281715 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATAGAGGGTAAGACGGTAATTCTA
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACAGAGGGTAAGACAGTAATTCTA
87281780 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * **
87281796 TGGTAATTCTATAAATCGAGGGAAAAACGATATTTCTGTAAATCA-AGGGTAAAATGGTAATTCT
1 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAA-CAGAGGGTAAGACAGTAATTCT
87281860 AT
65 AT
87281862 CTTATAGGAG
Statistics
Matches: 123, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
80 1 0.01
81 121 0.98
82 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (81 bp):
TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAACAGAGGGTAAGACAGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:87281720 original size:27 final size:27
Alignment explanation
Indices: 87281690--87281861 Score: 227
Period size: 27 Copynumber: 6.4 Consensus size: 27
87281680 GGGTATTTCA
* * *
87281690 GTAATTTTGTAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
87281717 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
87281744 GTAATTCTGTAAATAGAGGGTAAGACG
1 GTAATTCTATAAATCGAGGGTAAAATG
87281771 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
87281798 GTAATTCTATAAATCGAGGGAAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
87281825 ATATTTCTGTAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
87281852 GTAATTCTAT
1 GTAATTCTAT
87281862 CTTATAGGAG
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:87281901 original size:27 final size:27
Alignment explanation
Indices: 87281871--87282020 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
87281861 TCTTATAGGA
87281871 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
87281898 GTATTTTAGTAATTTTGCAAA-CTGAGG
1 GTATTTCAGTAATTTTACAAATC-GAGG
* *
87281925 GTATTTCGGTGATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* ** * *
87281952 ATATTTGGGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
87281979 GTACTTT-GGTAATTTTACAAGTCGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
*
87282006 GTATTTTAGTAATTT
1 GTATTTCAGTAATTT
87282021 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.04
27 95 0.92
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:87288598 original size:20 final size:20
Alignment explanation
Indices: 87288569--87288622 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
87288559 TTTAGCTCTC
* *
87288569 ATGAGCTTCAGTTAACTCAT
1 ATGAGTTTCAGTTAACCCAT
* *
87288589 ATGAGTTTCATTTTAACCCTT
1 ATGAGTTTCA-GTTAACCCAT
*
87288610 CTGAGTTTCAGTT
1 ATGAGTTTCAGTT
87288623 TAGCTCTTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.43
Consensus pattern (20 bp):
ATGAGTTTCAGTTAACCCAT
Found at i:87288614 original size:21 final size:21
Alignment explanation
Indices: 87288590--87288660 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
87288580 TTAACTCATA
*
87288590 TGAGTTTCATTTTAACCCTTC
1 TGAGTTTCAATTTAACCCTTC
* * *
87288611 TGAGTTTCAGTTTAGCTCTTC
1 TGAGTTTCAATTTAACCCTTC
* * * *
87288632 TAAGCTTCAAATTAACCCTTG
1 TGAGTTTCAATTTAACCCTTC
*
87288653 TGGGTTTC
1 TGAGTTTC
87288661 CGTTCAGCTC
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.44
Consensus pattern (21 bp):
TGAGTTTCAATTTAACCCTTC
Found at i:87317960 original size:46 final size:46
Alignment explanation
Indices: 87317907--87318082 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
87317897 TATTTGGGCA
87317907 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * * *
87317953 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-GCG
* * *
87318000 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
87318046 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87318083 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 36 0.34
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:87318062 original size:93 final size:93
Alignment explanation
Indices: 87317903--87318075 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
87317893 GGGATATTTG
* * *
87317903 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
87317968 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
87317996 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
87318061 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
87318076 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:87321035 original size:15 final size:15
Alignment explanation
Indices: 87320996--87321074 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
87320986 ATATCTTGGG
*
87320996 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
87321011 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
87321026 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
87321040 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
87321055 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
87321069 TTTCTT
1 TTTCTT
87321075 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:87321059 original size:29 final size:29
Alignment explanation
Indices: 87320987--87321073 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
87320977 CATAGTATCA
* * * *
87320987 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
87321017 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
87321046 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
87321074 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:87323490 original size:45 final size:45
Alignment explanation
Indices: 87323439--87323611 Score: 201
Period size: 45 Copynumber: 3.8 Consensus size: 45
87323429 TATTTGGGCA
*
87323439 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACG
* * * *
87323484 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTAACTAG-G-CA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATG-GA-T-GCGACG
87323530 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACG
* * *
87323575 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87323612 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 2 0.02
45 64 0.60
46 35 0.33
47 2 0.02
48 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACG
Found at i:87323590 original size:91 final size:91
Alignment explanation
Indices: 87323435--87323604 Score: 297
Period size: 91 Copynumber: 1.9 Consensus size: 91
87323425 GGGATATTTG
* *
87323435 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGCCCGAACTCGTTGAGT
87323500 TGAGTCCGAGTTCGTGAATGTAACTA
66 TGAGTCCGAGTTCGTGAATGTAACTA
*
87323526 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-ACGCCCGAACTCGTTGAG
87323590 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
87323605 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
90 10 0.13
91 65 0.87
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (91 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTA
Found at i:87329589 original size:51 final size:51
Alignment explanation
Indices: 87329505--87329659 Score: 249
Period size: 51 Copynumber: 3.0 Consensus size: 51
87329495 TAGATACATG
*
87329505 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
87329556 GTGGCCTTCACATAGTACCACACTTATGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* **
87329607 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGATATTAAATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
87329658 GT
1 GT
87329660 ACCACACTTG
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 96 0.99
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:87329654 original size:37 final size:37
Alignment explanation
Indices: 87329613--87329696 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
87329603 CAAAGTGGCC
*
87329613 TTCACATAGTACCACACTTGTGTCCAAAGATATTAAA
1 TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
* *
87329650 TTCACAAAGTACCACACTTGTGTCCAAAGCTATTATA
1 TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
87329687 TTCACAAAGT
1 TTCACAAAGT
87329697 GGCCTTCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (37 bp):
TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
Found at i:87329674 original size:88 final size:88
Alignment explanation
Indices: 87329562--87329734 Score: 301
Period size: 88 Copynumber: 2.0 Consensus size: 88
87329552 CAAAGTGGCC
* *
87329562 TTCACATAGTACCACACTTATGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGTACCA
1 TTCACAAAGTACCACACTTATGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCA
87329627 CACTTGTGTCCAAAGATATTAAA
66 CACTTGTGTCCAAAGATATTAAA
* *
87329650 TTCACAAAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACTA
1 TTCACAAAGTACCACACTTATGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCA
*
87329715 CACTTGTGTCCAAAGCTATT
66 CACTTGTGTCCAAAGATATT
87329735 TTATTCCTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (88 bp):
TTCACAAAGTACCACACTTATGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCA
CACTTGTGTCCAAAGATATTAAA
Found at i:87329808 original size:28 final size:26
Alignment explanation
Indices: 87329764--87329851 Score: 108
Period size: 28 Copynumber: 3.3 Consensus size: 26
87329754 GAGAAATTTC
*
87329764 TCACTTAGCACAATGCCATGAACTTATT
1 TCACTTAG-AC-ATGCCATGGACTTATT
87329792 TCACTTAGAACATTGCCATGGACTTATT
1 TCACTTAG-ACA-TGCCATGGACTTATT
*
87329820 TCACTTAG--ATGCCATGGTCTTATT
1 TCACTTAGACATGCCATGGACTTATT
87329844 TCACTTAG
1 TCACTTAG
87329852 CAGAATGTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
24 22 0.39
25 1 0.02
27 1 0.02
28 32 0.57
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (26 bp):
TCACTTAGACATGCCATGGACTTATT
Found at i:87329841 original size:24 final size:25
Alignment explanation
Indices: 87329775--87329851 Score: 102
Period size: 24 Copynumber: 3.0 Consensus size: 25
87329765 CACTTAGCAC
*
87329775 AATGCCATGAACTTATTTCACTTAG
1 AATGCCATGGACTTATTTCACTTAG
87329800 AACATTGCCATGGACTTATTTCACTTAG
1 -A-A-TGCCATGGACTTATTTCACTTAG
*
87329828 -ATGCCATGGTCTTATTTCACTTAG
1 AATGCCATGGACTTATTTCACTTAG
87329852 CAGAATGTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 22 0.47
25 1 0.02
26 1 0.02
27 1 0.02
28 22 0.47
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (25 bp):
AATGCCATGGACTTATTTCACTTAG
Found at i:87331518 original size:26 final size:27
Alignment explanation
Indices: 87331475--87331536 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
87331465 TTAGTTTACC
* * *
87331475 AAATTACTAAAATGCCCTCAAATTGT-
1 AAATTACCAAAATACCCTCAAATTATA
* *
87331501 AAATTACCAAAGTACCCTCAATTTATA
1 AAATTACCAAAATACCCTCAAATTATA
87331528 AAATTACCA
1 AAATTACCA
87331537 TTTTACCCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAAATTATA
Found at i:87331543 original size:27 final size:27
Alignment explanation
Indices: 87331513--87331599 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
87331503 ATTACCAAAG
* * **
87331513 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACTGTTT
87331540 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
87331567 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTT
87331594 TACCCT
1 TACCCT
87331600 TGATACTGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACTGTTT
Found at i:87331641 original size:27 final size:27
Alignment explanation
Indices: 87331611--87331854 Score: 221
Period size: 27 Copynumber: 9.2 Consensus size: 27
87331601 GATACTGTTT
* *
87331611 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * **
87331638 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
***
87331665 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
87331692 TACCCTAG-TTTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
87331718 TACCCT-GGTTTGTAAAATTACC--GA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
87331742 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
87331769 TGCCCTAG-TTTGTAAAATTACCAAAAA
1 TACCCTCGATTTGTAAAATTACC-AAAA
* * *
87331796 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
87331823 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
87331850 TACCC
1 TACCC
87331855 CTAATTTACA
Statistics
Matches: 174, Mismatches: 35, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
24 6 0.03
25 15 0.09
26 47 0.27
27 91 0.52
28 15 0.09
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:87331871 original size:27 final size:28
Alignment explanation
Indices: 87331811--87331881 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 28
87331801 CTGGTTTGTG
* **
87331811 AAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCTCAATTTACA
87331838 AAATTACCAAAATACCCCT-AATTTACA
1 AAATTACCAAAATACCCCTCAATTTACA
*
87331865 AAGTTA-CAGAAATACCC
1 AAATTACCA-AAATACCC
87331882 TTGACTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.05
27 32 0.84
28 4 0.11
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (28 bp):
AAATTACCAAAATACCCCTCAATTTACA
Found at i:87331880 original size:54 final size:55
Alignment explanation
Indices: 87331611--87331882 Score: 137
Period size: 54 Copynumber: 5.1 Consensus size: 55
87331601 GATACTGTTT
* * * * **
87331611 TACCCTCGATTTATAAAATTA-CTAAAATACCATTGGTTT-ACAAAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAAATACCACTAATTTGAC-AAATTA-CAGAAA
* *** * *
87331665 TACCCTCGATCAATAAAATTACC-AAAATACC-CTAGTTTGTA-AAATTGCTA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAAATACCACTAATTTG-ACAAATTAC-AGAAA
** * *
87331718 TACCCT-GGTTTGTAAAATTACC---GATA-CTCTCAATTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAAATACCACT-AATTTG-ACAAATTA-CAGAAA
* * ** ** *
87331769 TGCCCT-AGTTTGTAAAATTACCAAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTCAATTTGTAAAATTACCAAAAATACCACTAATTTGACAAATTACAGAAA
*
87331823 TACCCTCAATTTGTAAAATTACC-AAAATACCCCTAATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAAATACCACTAATTTGACAAA-TTACAGAAA
87331877 TACCCT
1 TACCCT
87331883 TGACTTTCTA
Statistics
Matches: 175, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
49 1 0.01
50 5 0.03
51 36 0.21
52 14 0.08
53 24 0.14
54 75 0.43
55 20 0.11
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (55 bp):
TACCCTCAATTTGTAAAATTACCAAAAATACCACTAATTTGACAAATTACAGAAA
Found at i:87331932 original size:27 final size:27
Alignment explanation
Indices: 87331893--87331944 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
87331883 TGACTTTCTA
87331893 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
87331920 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
87331945 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:87332037 original size:27 final size:27
Alignment explanation
Indices: 87332007--87332084 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
87331997 AGGCAAAAAG
*
87332007 ACCGTAAAGCCCCTGTAGGGTAAATTA
1 ACCGTAAAGCCCCTGTAGGGTAAAGTA
*
87332034 ACCGTAAAGCCCCTGTAGGGTAAAGTG
1 ACCGTAAAGCCCCTGTAGGGTAAAGTA
* *
87332061 ACCGTAATA-CCCCTATATGGTAAA
1 ACCGTAA-AGCCCCTGTAGGGTAAA
87332085 ATGACGAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (27 bp):
ACCGTAAAGCCCCTGTAGGGTAAAGTA
Found at i:87332089 original size:27 final size:27
Alignment explanation
Indices: 87332001--87332089 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
87331991 CCTATTAGGC
* *
87332001 AAAAAGACCGTAAAGCCCCTGTAGGGT
1 AAAATGACCGTAAAGCCCCTATAGGGT
* * *
87332028 AAATTAACCGTAAAGCCCCTGTAGGGT
1 AAAATGACCGTAAAGCCCCTATAGGGT
* *
87332055 AAAGTGACCGTAATA-CCCCTATATGGT
1 AAAATGACCGTAA-AGCCCCTATAGGGT
87332082 AAAATGAC
1 AAAATGAC
87332090 GAATATGCCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.20
Consensus pattern (27 bp):
AAAATGACCGTAAAGCCCCTATAGGGT
Found at i:87332921 original size:24 final size:26
Alignment explanation
Indices: 87332887--87332996 Score: 138
Period size: 25 Copynumber: 4.4 Consensus size: 26
87332877 GAGGAAGTGC
87332887 AAAAGGGCTTATG-CCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
87332912 AAAA-GGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
87332937 AAAAGGGCTTATG-CCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
87332962 AAAATGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
87332987 AAAAGGGCTT
1 AAAAGGGCTT
87332997 TGTCCCGTTA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.16
25 52 0.70
26 10 0.14
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:87332965 original size:50 final size:50
Alignment explanation
Indices: 87332887--87332996 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 50
87332877 GAGGAAGTGC
**
87332887 AAAAGGGCTTATGCCCAGTTTACCGAAAA-GGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCAGTTTACCGAAAATGG-TTATGCCCCAGTTTACCG
** *
87332937 AAAAGGGCTTATGCCCAGTTTATTGAAAATGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCAGTTTACCGAAAATGGTTATGCCCCAGTTTACCG
87332987 AAAAGGGCTT
1 AAAAGGGCTT
87332997 TGTCCCGTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 52 0.96
51 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (50 bp):
AAAAGGGCTTATGCCCAGTTTACCGAAAATGGTTATGCCCCAGTTTACCG
Found at i:87333213 original size:42 final size:42
Alignment explanation
Indices: 87333148--87333239 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
87333138 TAGTCTCCCC
* * * *
87333148 AAATGGGCTTGCAAACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCAAACATCCATTGATATTACATGCGATATTG
*
87333190 AAATGGGCTTGCATACATCCATTGATATTACATGCGATATTG
1 AAATGGGCTTGCAAACATCCATTGATATTACATGCGATATTG
87333232 AAATGGGC
1 AAATGGGC
87333240 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCAAACATCCATTGATATTACATGCGATATTG
Found at i:87334468 original size:45 final size:45
Alignment explanation
Indices: 87334417--87334586 Score: 166
Period size: 45 Copynumber: 3.8 Consensus size: 45
87334407 ATTTGGGCAT
87334417 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
***** * * * *
87334462 CCGAACTCGTTGAGTTGAGTCCGAGTTGTGAAATGTA-ACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-GC-G
* * *
87334508 CCGAACTTGTTGAGTTGAGT-CGAGTTCACCTATGGATGCGAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * *
87334552 CCGAGCTCG-TGAGTTGAGTTCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87334587 GCGGGTTACA
Statistics
Matches: 97, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
43 10 0.10
44 22 0.23
45 44 0.45
46 21 0.22
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:87340552 original size:51 final size:49
Alignment explanation
Indices: 87340430--87340583 Score: 202
Period size: 51 Copynumber: 3.0 Consensus size: 49
87340420 TAGATACATG
*
87340430 GTGGCCTTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT--CCAAAGCTATTTTATTCACAAA
*
87340481 GT-GCCTTCAAATAGTACCACACTTAGTCCAAAGCTATTTTATTCAACAAA
1 GTGGCCTTCACATAGTACCACACTT-GTCCAAAGCTATTTTATTC-ACAAA
* **
87340531 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGATATTAAATTCACAAA
1 GTGGCCTTCACATAGTACCACAC-T-TGTCCAAAGCTATTTTATTCACAAA
87340582 GT
1 GT
87340584 ACCACACTTG
Statistics
Matches: 92, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
49 17 0.18
50 27 0.29
51 30 0.33
52 17 0.18
53 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (49 bp):
GTGGCCTTCACATAGTACCACACTTGTCCAAAGCTATTTTATTCACAAA
Found at i:87340613 original size:36 final size:37
Alignment explanation
Indices: 87340537--87340619 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
87340527 CAAAGTGGCC
*
87340537 TTCACATAGTACCACACTTGTGTCCAAAGATATTAAA
1 TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
* *
87340574 TTCACAAAGTACCACACTTGTGT-CAAAGCTATTATA
1 TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
87340610 TTCACAAAGT
1 TTCACAAAGT
87340620 GGCCTTCACA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
36 21 0.49
37 22 0.51
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (37 bp):
TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
Found at i:87340641 original size:87 final size:88
Alignment explanation
Indices: 87340493--87340657 Score: 255
Period size: 87 Copynumber: 1.9 Consensus size: 88
87340483 GCCTTCAAAT
*
87340493 AGTACCACACTTAGTCCAAAGCTATTTTATTCAACAAAGTGGCCTTCACATAGTACCACACT-TG
1 AGTACCACACTTAGTCCAAAGCTATTATATTCAACAAAGTGGCCTTCACATAGTACCACACTGTG
87340557 TGTCCAAAGATATTAAATTCACAA
66 -GTCCAAAGATATTAAATTCACAA
* *
87340581 AGTACCACACTT-GTGTCAAAGCTATTATATTC-ACAAAGTGGCCTTCACATAGTACTACACTGT
1 AGTACCACACTTAGT-CCAAAGCTATTATATTCAACAAAGTGGCCTTCACATAGTACCACACTGT
*
87340644 GGTCCAAAGCTATT
65 GGTCCAAAGATATT
87340658 TTATTCCTAA
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
87 42 0.59
88 29 0.41
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (88 bp):
AGTACCACACTTAGTCCAAAGCTATTATATTCAACAAAGTGGCCTTCACATAGTACCACACTGTG
GTCCAAAGATATTAAATTCACAA
Found at i:87340761 original size:24 final size:25
Alignment explanation
Indices: 87340698--87340773 Score: 118
Period size: 24 Copynumber: 3.0 Consensus size: 25
87340688 ACTTAGCACA
*
87340698 ATGCCATGAACTTATTTCACTTAGC
1 ATGCCATGGACTTATTTCACTTAGC
87340723 ATTGCCATGGACTTATTTCACTTAG-
1 A-TGCCATGGACTTATTTCACTTAGC
*
87340748 ATGCCATGGTCTTATTTCACTTAGC
1 ATGCCATGGACTTATTTCACTTAGC
87340773 A
1 A
87340774 GAATGTCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
24 22 0.47
25 3 0.06
26 22 0.47
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (25 bp):
ATGCCATGGACTTATTTCACTTAGC
Found at i:87342474 original size:26 final size:29
Alignment explanation
Indices: 87342421--87342480 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 29
87342411 AATAAAATTC
87342421 TTTTACACCTAGATTTATAGAATTACT-G
1 TTTTACACCTAGATTTATAGAATTACTGG
*
87342449 TTTTA-ACCTCGATTTA-AGAATTACTGG
1 TTTTACACCTAGATTTATAGAATTACTGG
87342476 TTTTA
1 TTTTA
87342481 TCCTTGTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 9 0.30
27 16 0.53
28 5 0.17
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (29 bp):
TTTTACACCTAGATTTATAGAATTACTGG
Found at i:87342594 original size:27 final size:26
Alignment explanation
Indices: 87342511--87342741 Score: 105
Period size: 27 Copynumber: 8.5 Consensus size: 26
87342501 TCAGATTTAA
* * * *
87342511 TAAAATTACTAAAATACCATTGTTTAA
1 TAAAATTACCAAAATACCCTAGTTT-G
* * ***
87342538 CAAAATTACC-AAATACCCTCGATCAA
1 TAAAATTACCAAAATACCCTAG-TTTG
87342564 TAAAATTTACCAAAATACCCTAGTTTG
1 TAAAA-TTACCAAAATACCCTAGTTTG
* * * *
87342591 TAAAATTGCTACAATACCCCTGGTTTG
1 TAAAATTACCAAAATA-CCCTAGTTTG
* * *
87342618 TAAAATTACC--GATACTCTCAATTTGG
1 TAAAATTACCAAAATACCCT-AGTTT-G
*
87342644 TAAAATTATCC-AAA-GCGCCTAGTTTG
1 TAAAATTA-CCAAAATAC-CCTAGTTTG
*
87342670 TGAAAATTACCAAAAATAGCCACTGGTTTG
1 T-AAAATTACC-AAAATA-CC-CTAGTTTG
* *
87342700 TGAAAATTACCGAAATACCCTCAAATTTG
1 T-AAAATTACCAAAATACCCT--AGTTTG
87342729 TAAAATT-CCAAAA
1 TAAAATTACCAAAA
87342742 AGGATATTGA
Statistics
Matches: 156, Mismatches: 31, Indels: 34
0.71 0.14 0.15
Matches are distributed among these distances:
24 3 0.02
25 6 0.04
26 35 0.22
27 58 0.37
28 24 0.15
29 11 0.07
30 19 0.12
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAAATACCCTAGTTTG
Found at i:87342925 original size:15 final size:15
Alignment explanation
Indices: 87342886--87342965 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
87342876 ATATCTTGGG
*
87342886 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
87342901 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
87342916 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
87342931 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
87342946 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
87342960 TTTCTT
1 TTTCTT
87342966 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:87342955 original size:30 final size:30
Alignment explanation
Indices: 87342877--87342964 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
87342867 CACAGTATCA
* * *
87342877 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
87342907 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
87342937 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
87342965 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:87351365 original size:20 final size:20
Alignment explanation
Indices: 87351342--87351383 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
87351332 ATTCGTCTAC
87351342 ACTTAGTCATTTCCCGTTGA
1 ACTTAGTCATTTCCCGTTGA
87351362 ACTTAGTCATTTCCCGTTGA
1 ACTTAGTCATTTCCCGTTGA
87351382 AC
1 AC
87351384 ACATCGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (20 bp):
ACTTAGTCATTTCCCGTTGA
Found at i:87351493 original size:51 final size:51
Alignment explanation
Indices: 87351409--87351563 Score: 249
Period size: 51 Copynumber: 3.0 Consensus size: 51
87351399 TAGATACATG
*
87351409 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
*
87351460 GTGGCCTTCACATAGTACCACACTTATGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* **
87351511 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGATATTAAATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
87351562 GT
1 GT
87351564 ACCACACTTG
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 96 0.99
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:87351558 original size:37 final size:37
Alignment explanation
Indices: 87351517--87351600 Score: 141
Period size: 37 Copynumber: 2.3 Consensus size: 37
87351507 CAAAGTGGCC
*
87351517 TTCACATAGTACCACACTTGTGTCCAAAGATATTAAA
1 TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
* *
87351554 TTCACAAAGTACCACACTTGTGTCCAAAGCTATTATA
1 TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
87351591 TTCACAAAGT
1 TTCACAAAGT
87351601 GGCCTTCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.30
Consensus pattern (37 bp):
TTCACAAAGTACCACACTTGTGTCCAAAGATATTAAA
Found at i:87351578 original size:88 final size:88
Alignment explanation
Indices: 87351466--87351638 Score: 301
Period size: 88 Copynumber: 2.0 Consensus size: 88
87351456 CAAAGTGGCC
* *
87351466 TTCACATAGTACCACACTTATGTCCAAAGCTATTTTATTCACAAAGTGGCCTTCACATAGTACCA
1 TTCACAAAGTACCACACTTATGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCA
87351531 CACTTGTGTCCAAAGATATTAAA
66 CACTTGTGTCCAAAGATATTAAA
* *
87351554 TTCACAAAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACTA
1 TTCACAAAGTACCACACTTATGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCA
*
87351619 CACTTGTGTCCAAAGCTATT
66 CACTTGTGTCCAAAGATATT
87351639 TTATTCCTAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 80 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (88 bp):
TTCACAAAGTACCACACTTATGTCCAAAGCTATTATATTCACAAAGTGGCCTTCACATAGTACCA
CACTTGTGTCCAAAGATATTAAA
Found at i:87351705 original size:28 final size:28
Alignment explanation
Indices: 87351668--87351762 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
87351658 GAGAAATTTC
*
87351668 TCACTTAGCACAATGCCATGAACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
87351696 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
87351724 TCACTTAG----ATGCCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
87351748 TCACTTAGCAGAATG
1 TCACTTAGCACAATG
87351763 TCATATCCTA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
24 22 0.37
28 37 0.63
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:87351745 original size:24 final size:25
Alignment explanation
Indices: 87351680--87351757 Score: 104
Period size: 24 Copynumber: 3.0 Consensus size: 25
87351670 ACTTAGCACA
*
87351680 ATGCCATGAACTTATTTCACTTAGCAC
1 ATGCCATGGACTTATTTCACTTAG--C
87351707 ATTGCCATGGACTTATTTCACTTAG-
1 A-TGCCATGGACTTATTTCACTTAGC
*
87351732 ATGCCATGGTCTTATTTCACTTAGC
1 ATGCCATGGACTTATTTCACTTAGC
87351757 A
1 A
87351758 GAATGTCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
24 22 0.47
25 2 0.04
27 1 0.02
28 22 0.47
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (25 bp):
ATGCCATGGACTTATTTCACTTAGC
Found at i:87357993 original size:22 final size:22
Alignment explanation
Indices: 87357963--87358009 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
87357953 ACTAGTCGCT
*
87357963 ATGTTGCAACACAAGAAGTTCA
1 ATGTCGCAACACAAGAAGTTCA
* * *
87357985 ATGTCGCAACATAATAAGTTGA
1 ATGTCGCAACACAAGAAGTTCA
87358007 ATG
1 ATG
87358010 CAAGAATCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (22 bp):
ATGTCGCAACACAAGAAGTTCA
Found at i:87361897 original size:27 final size:27
Alignment explanation
Indices: 87361859--87361998 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
87361849 GGGATGAAAT
*
87361859 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
*
87361886 AATGATCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
* *
87361913 AATGATCGAAATACCCCCATAGGGT-A
1 AATGACCGAAATACCCCTATAGGGTAA
* * *
87361939 AATGACCAAAATACCTCTATGGGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
* * * *
87361966 AATGACTGTAATACCCCTGTAAGGTAA
1 AATGACCGAAATACCCCTATAGGGTAA
87361993 AATGAC
1 AATGAC
87361999 TGTTTTGCCC
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 21 0.22
27 76 0.78
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (27 bp):
AATGACCGAAATACCCCTATAGGGTAA
Found at i:87361965 original size:53 final size:54
Alignment explanation
Indices: 87361859--87361998 Score: 183
Period size: 53 Copynumber: 2.6 Consensus size: 54
87361849 GGGATGAAAT
* *
87361859 AATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTATAGGGTAA
* * *
87361913 AATGATCGAAATACCCCCATAGGGT-AAATGACCAAAATACCTCTATGGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTATAGGGTAA
* * ** *
87361966 AATGACTGTAATACCCCTGTAAGGTAAAATGAC
1 AATGACCGAAATACCCCCATAGGGTAAAATGAC
87361999 TGTTTTGCCC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 43 0.58
54 31 0.42
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.21
Consensus pattern (54 bp):
AATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTATAGGGTAA
Found at i:87362020 original size:27 final size:27
Alignment explanation
Indices: 87361988--87362201 Score: 211
Period size: 27 Copynumber: 8.0 Consensus size: 27
87361978 ACCCCTGTAA
*
87361988 GGTAAAATGACTGTTTTGCCCTTATGA
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
87362015 GTTAAAATGAC-GATTTTTCTCTTATGT
1 GGTAAAATGACTG-TTTTGCCCTTATGT
* * *
87362042 GATAAAATAACAGTTTTGCCCTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* * *
87362069 GGAAAAATAACTAATTTT-CCCTTATGT
1 GGTAAAATGACT-GTTTTGCCCTTATGT
* * *
87362096 GTTAAAATGACGGTTTTGCCTTTATGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
*
87362123 GGTAAAA-GA-TGGTTTTGCCCTTATGA
1 GGTAAAATGACT-GTTTTGCCCTTATGT
* *
87362149 GGTAAAATGACTATTTTGCCCTTTTGT
1 GGTAAAATGACTGTTTTGCCCTTATGT
* *
87362176 GGTAAGATGACTGTTTTGCCCCTATG
1 GGTAAAATGACTGTTTTGCCCTTATG
87362202 GGATGTATGT
Statistics
Matches: 151, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
26 27 0.18
27 118 0.78
28 6 0.04
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTAAAATGACTGTTTTGCCCTTATGT
Found at i:87362186 original size:80 final size:82
Alignment explanation
Indices: 87361987--87362195 Score: 246
Period size: 80 Copynumber: 2.6 Consensus size: 82
87361977 TACCCCTGTA
* * * *
87361987 AGGTAAAATGACTGTTTTGCCCTTATGAGTTAAAATGACGATTTT-TCTCTTATGTGATAAAATA
1 AGGTAAAATGACTATTTTGCCCTTATGTGTTAAAATGACGGTTTTGCCTCTTATGTGATAAAATA
87362051 ACAGTTTTGCCCTTATG
66 ACAGTTTTGCCCTTATG
* * * *
87362068 TGGAAAAATAACTAATTTT-CCCTTATGTGTTAAAATGACGGTTTTGCCT-TTATGTGGTAAAA-
1 AGGTAAAATGACT-ATTTTGCCCTTATGTGTTAAAATGACGGTTTTGCCTCTTATGTGATAAAAT
* **
87362130 GATGGTTTTGCCCTTATG
65 AACAGTTTTGCCCTTATG
* * * *
87362148 AGGTAAAATGACTATTTTGCCCTTTTGTGGTAAGATGACTGTTTTGCC
1 AGGTAAAATGACTATTTTGCCCTTATGTGTTAAAATGACGGTTTTGCC
87362196 CCTATGGGAT
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 5 0.05
80 50 0.47
81 46 0.43
82 6 0.06
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (82 bp):
AGGTAAAATGACTATTTTGCCCTTATGTGTTAAAATGACGGTTTTGCCTCTTATGTGATAAAATA
ACAGTTTTGCCCTTATG
Found at i:87362555 original size:18 final size:18
Alignment explanation
Indices: 87362532--87362584 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
87362522 TGCATACTGC
87362532 TTACTGTTACTGCAATGA
1 TTACTGTTACTGCAATGA
** * *
87362550 TTACTGTTACTATACTGT
1 TTACTGTTACTGCAATGA
*
87362568 TTATTGTTACTGCAATG
1 TTACTGTTACTGCAATG
87362585 GGCCAAGGCC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (18 bp):
TTACTGTTACTGCAATGA
Found at i:87364545 original size:30 final size:30
Alignment explanation
Indices: 87364511--87364572 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
87364501 ATGTAAATAA
87364511 AACTTTGGTCAAGCTATTTAATCTATCTAT
1 AACTTTGGTCAAGCTATTTAATCTATCTAT
87364541 AACTTTGGTCAAGCTATTTAATCTATCTAT
1 AACTTTGGTCAAGCTATTTAATCTATCTAT
87364571 AA
1 AA
87364573 AAGGTTTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (30 bp):
AACTTTGGTCAAGCTATTTAATCTATCTAT
Found at i:87366760 original size:43 final size:43
Alignment explanation
Indices: 87366622--87366786 Score: 158
Period size: 43 Copynumber: 3.8 Consensus size: 43
87366612 CATAGGATTT
* * *
87366622 TCGATATGTGATTTCGTGTCAA-ACCACGTCTGGGACATTAGCA
1 TCGATATTTGATTTCGTGT-AAGACCATGTCTGGGACAATAGCA
* * *
87366665 TCGAT-TTGAGATTTACGTGTAAGACCATGACTGGGAC-ATCAGTA
1 TCGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACAAT-AGCA
* * *
87366709 TCG-TATTTGATTTTGTGTAAGACCCTGTCTGGGACAATGGCA
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAATAGCA
* * *
87366751 TCGATATTTGATTACATGTAAGACCATGTTTGGGAC
1 TCGATATTTGATTTCGTGTAAGACCATGTCTGGGAC
87366787 GTTGGCATTG
Statistics
Matches: 98, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
42 25 0.26
43 48 0.49
44 25 0.26
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCATGTCTGGGACAATAGCA
Found at i:87380073 original size:6 final size:6
Alignment explanation
Indices: 87380049--87380090 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
87380039 TTTTCAAATG
87380049 ATTTT- ATTTCTC TATTTTC ATTTTC ATTTTC ATTTTC ATTTT
1 ATTTTC ATTT-TC -ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
87380091 GGAGAAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.12
6 24 0.71
7 2 0.06
8 4 0.12
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
ATTTTC
Found at i:87380090 original size:69 final size:70
Alignment explanation
Indices: 87380003--87380138 Score: 204
Period size: 69 Copynumber: 2.0 Consensus size: 70
87379993 CATTTCCAAG
* * *
87380003 TCATTTTCATTTTCATTTTGGAGAAAATCACATTCATTTTCAAATGATTT-T-ATTTCTCTATTT
1 TCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATG-TTTCTCATTTCTCTATTT
87380066 TCATTT
65 TCATTT
* *
87380072 TCATTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTTTATTTT
1 TCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCTCATTTCTCTATTTT
87380137 CA
66 CA
87380139 CCATTTCTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
68 3 0.05
69 43 0.72
70 14 0.23
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.51
Consensus pattern (70 bp):
TCATTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGTTTCTCATTTCTCTATTTT
CATTT
Found at i:87380155 original size:10 final size:10
Alignment explanation
Indices: 87380140--87380164 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
87380130 TTATTTTCAC
87380140 CATTTCTATT
1 CATTTCTATT
87380150 CATTTCTATT
1 CATTTCTATT
87380160 CATTT
1 CATTT
87380165 GATTCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (10 bp):
CATTTCTATT
Found at i:87383675 original size:29 final size:29
Alignment explanation
Indices: 87383630--87383710 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
87383620 ATGGGATCAA
*
87383630 ATCAAAATTTAATATATAAAATTGCACAAC
1 ATCAAAGTTT-ATATATAAAATTGCACAAC
87383660 ATCAAAGTTTATATATAAAATTGCACAAC
1 ATCAAAGTTTATATATAAAATTGCACAAC
87383689 ATCAAAGTTTATATATAAAATT
1 ATCAAAGTTTATATATAAAATT
87383711 ATACATTAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 41 0.82
30 9 0.18
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.33
Consensus pattern (29 bp):
ATCAAAGTTTATATATAAAATTGCACAAC
Found at i:87384383 original size:21 final size:21
Alignment explanation
Indices: 87384359--87384399 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
87384349 CTATTTTATT
* *
87384359 CTAATTATGATTCGTTATATA
1 CTAATTATGATACATTATATA
*
87384380 CTAATTGTGATACATTATAT
1 CTAATTATGATACATTATAT
87384400 GAATTTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (21 bp):
CTAATTATGATACATTATATA
Found at i:87384411 original size:14 final size:14
Alignment explanation
Indices: 87384392--87384434 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
87384382 AATTGTGATA
87384392 CATTATATGAATTT
1 CATTATATGAATTT
*
87384406 CATTATAATAAATTT
1 CATTAT-ATGAATTT
* *
87384421 CATCATATGTATTT
1 CATTATATGAATTT
87384435 TATATTAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.37, C:0.09, G:0.05, T:0.49
Consensus pattern (14 bp):
CATTATATGAATTT
Found at i:87386417 original size:47 final size:45
Alignment explanation
Indices: 87386344--87386559 Score: 165
Period size: 46 Copynumber: 4.6 Consensus size: 45
87386334 ATTCGTGTGT
* *
87386344 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACATGA-GAC
87386390 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACATTGAGAC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACA-TGAGAC
* * * * * *
87386436 GAAGGCTAGTGTAAAACATGTTTAGGACATGCAACGGC-CCTGAGAC
1 G-A-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATGAGAC
* *
87386482 GTAAGCCAGTGCAAGACATGTCTGGGACATGCATCAGGTACGA-GATGA-
1 G--AGCCAGTGTAAGACATGTCTGGGACATGCATC-GGCAC-ATGA-GAC
* *
87386530 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
87386560 GCATTAACTT
Statistics
Matches: 137, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
45 5 0.04
46 63 0.46
47 49 0.36
48 18 0.13
49 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.21
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACATGAGAC
Found at i:87386574 original size:47 final size:48
Alignment explanation
Indices: 87386483--87386611 Score: 140
Period size: 47 Copynumber: 2.8 Consensus size: 48
87386473 CCCTGAGACG
* * **
87386483 TAAGCCAGTGCAAGA-CATGTCTGGGACAT-GCATCAGGTACGAGATGA
1 TAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAACTACGAGAT-A
* *
87386530 T-AGTCAGTGTAAGACCATGTCTGGGACATGGCATTAACT-TGAGATA
1 TAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAACTACGAGATA
* * *
87386576 TAAGCCAGTATAAGACCATGTCTAGGATATGGCATT
1 TAAGCCAGTGTAAGACCATGTCTGGGACATGGCATT
87386612 GGCACCTTAC
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 13 0.19
47 50 0.72
48 6 0.09
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (48 bp):
TAAGCCAGTGTAAGACCATGTCTGGGACATGGCATTAACTACGAGATA
Found at i:87408616 original size:28 final size:28
Alignment explanation
Indices: 87408576--87408654 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
87408566 GCAATCAAAT
* * *
87408576 ATGGTACTCAGTGTACAAAATATTGAGA
1 ATGGCACTTAGTGTGCAAAATATTGAGA
* *
87408604 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCAAAATATTGAGA
*
87408632 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCAAAATAT
87408655 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCAAAATATTGAGA
Found at i:87411782 original size:75 final size:75
Alignment explanation
Indices: 87411548--87411789 Score: 177
Period size: 75 Copynumber: 3.2 Consensus size: 75
87411538 CGGTTGTTTA
* * *
87411548 AAAAAGCCGCAAAAGTTTTGAGCAAAACGACGACGTCTGTTGGTGAGCTATAGAGGCATTAGCGG
1 AAAACGCCGCAAAAGTATTGAGCAAAACGACGACGTCTATTGGTGAGCTATAGAGGCATTAGCGG
* *
87411613 CTTTTTCTGC
66 CATTTTCTTC
* * * ** * *** * *
87411623 AAAACGCCGCAATA-TATTGAG-AATTAGCGGC-ATTTTTTTATAAATGCAGCAATAGGTGAAGC
1 AAAACGCCGCAAAAGTATTGAGCAA--AACGACGA--CGTCTATTGGTG-AGCTATA---GAGGC
* * *
87411685 ATTAGCGGCGGTTGT-TTA
58 ATTAGCGGC-ATTTTCTTC
* *
87411703 AAAACGCCTCAAAAGTGTTGAGCAAAACGACGACGTCTATTGGTGAGCTATAGAGGCATTAGCGG
1 AAAACGCCGCAAAAGTATTGAGCAAAACGACGACGTCTATTGGTGAGCTATAGAGGCATTAGCGG
87411768 CATTTTCTTC
66 CATTTTCTTC
*
87411778 AAAACGCTGCAA
1 AAAACGCCGCAA
87411790 TATATCGAGA
Statistics
Matches: 118, Mismatches: 36, Indels: 26
0.66 0.20 0.14
Matches are distributed among these distances:
73 2 0.02
74 10 0.08
75 41 0.35
76 5 0.04
77 6 0.05
78 6 0.05
79 6 0.05
80 30 0.25
81 10 0.08
82 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (75 bp):
AAAACGCCGCAAAAGTATTGAGCAAAACGACGACGTCTATTGGTGAGCTATAGAGGCATTAGCGG
CATTTTCTTC
Found at i:87411844 original size:155 final size:153
Alignment explanation
Indices: 87411372--87411823 Score: 697
Period size: 155 Copynumber: 2.9 Consensus size: 153
87411362 GCAAATAATC
** * * *
87411372 AAGCATTAGCGGCGGTTGTCCAAAAACGCCGCAAAAGTGTTGAGCAATACGACGCCGTCCATTGG
1 AAGCATTAGCGGCGGTTGTTTAAAAACGCCGCAAAAGTGTTGAGCAAAACGACGACGTCTATTGG
*
87411437 TGAGCTATAGTGGCATTAGCGGCATTTTCTACAAAACGCTGCAATATATCGAGAATTAGCGGCTT
66 TGAGCTATAGAGGCATTAGCGGCATTTTCTACAAAACGCTGCAATATATCGAGAATTAGCGGCTT
* *
87411502 TTTTCTAAAACACCGCAATAGGTG
131 TTTT-TAAAACGCAGCAATAGGTG
* * *
87411526 AAGCATTAGCGGCGGTTGTTTAAAAAAGCCGCAAAAGTTTTGAGCAAAACGACGACGTCTGTTGG
1 AAGCATTAGCGGCGGTTGTTTAAAAACGCCGCAAAAGTGTTGAGCAAAACGACGACGTCTATTGG
* * * *
87411591 TGAGCTATAGAGGCATTAGCGGCTTTTTCTGCAAAACGCCGCAATATATTGAGAATTAGCGGCAT
66 TGAGCTATAGAGGCATTAGCGGCATTTTCTACAAAACGCTGCAATATATCGAGAATTAGCGGC-T
*
87411656 TTTTTTATAAATGCAGCAATAGGTG
130 TTTTTTA-AAACGCAGCAATAGGTG
*
87411681 AAGCATTAGCGGCGGTTGTTTAAAAACGCCTCAAAAGTGTTGAGCAAAACGACGACGTCTATTGG
1 AAGCATTAGCGGCGGTTGTTTAAAAACGCCGCAAAAGTGTTGAGCAAAACGACGACGTCTATTGG
*
87411746 TGAGCTATAGAGGCATTAGCGGCATTTTCTTCAAAACGCTGCAATATATCGAGAATTAGCGGCGT
66 TGAGCTATAGAGGCATTAGCGGCATTTTCTACAAAACGCTGCAATATATCGAGAATTAGCGGC-T
87411811 TTTTATTAAAACG
130 TTTT-TTAAAACG
87411824 TTGCAAAATG
Statistics
Matches: 269, Mismatches: 26, Indels: 5
0.90 0.09 0.02
Matches are distributed among these distances:
154 117 0.43
155 149 0.55
156 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (153 bp):
AAGCATTAGCGGCGGTTGTTTAAAAACGCCGCAAAAGTGTTGAGCAAAACGACGACGTCTATTGG
TGAGCTATAGAGGCATTAGCGGCATTTTCTACAAAACGCTGCAATATATCGAGAATTAGCGGCTT
TTTTTAAAACGCAGCAATAGGTG
Found at i:87411905 original size:21 final size:23
Alignment explanation
Indices: 87411873--87411916 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
87411863 AAATTATGTT
87411873 ATTTTAAGGTTTAAGGT-TATGG
1 ATTTTAAGGTTTAAGGTCTATGG
*
87411895 ATTTT-AGGTTTAATGTCTATGG
1 ATTTTAAGGTTTAAGGTCTATGG
87411917 TTAATTTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (23 bp):
ATTTTAAGGTTTAAGGTCTATGG
Found at i:87412206 original size:19 final size:20
Alignment explanation
Indices: 87412162--87412206 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
87412152 TCCCTTGTAA
*
87412162 TATATATATATTAGAACTTG
1 TATATATATATTAGAACTTC
87412182 TA-ATATATATTA-AGA-TTC
1 TATATATATATTAGA-ACTTC
87412200 TATATAT
1 TATATAT
87412207 TTAGGGTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 5 0.23
19 15 0.68
20 2 0.09
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (20 bp):
TATATATATATTAGAACTTC
Found at i:87412620 original size:15 final size:15
Alignment explanation
Indices: 87412600--87412631 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
87412590 TTTAATTTAG
87412600 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
87412615 AAGATAAATATATAT
1 AAGATAAATATAAAT
87412630 AA
1 AA
87412632 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:87416712 original size:9 final size:9
Alignment explanation
Indices: 87416664--87416863 Score: 86
Period size: 9 Copynumber: 23.1 Consensus size: 9
87416654 TATATCATAT
87416664 CATAACTTA
1 CATAACTTA
*
87416673 CAAAACTTA
1 CATAACTTA
87416682 CATAA--TA
1 CATAACTTA
*
87416689 CATAA-ATA
1 CATAACTTA
*
87416697 TATAACTTA
1 CATAACTTA
87416706 CATAACTTA
1 CATAACTTA
* *
87416715 CAAAATTTA
1 CATAACTTA
*
87416724 AATAA--TA
1 CATAACTTA
* *
87416731 AATAA-ATA
1 CATAACTTA
*
87416739 TATAACTTA
1 CATAACTTA
87416748 CATAACTTA
1 CATAACTTA
*
87416757 CGTAATACGTTA
1 CAT-A-AC-TTA
*
87416769 -ATATA-TTT
1 CATA-ACTTA
87416777 CAT-A--T-
1 CATAACTTA
*
87416782 CATAATTTA
1 CATAACTTA
87416791 CATAACTTA
1 CATAACTTA
*
87416800 CATACCTTA
1 CATAACTTA
*
87416809 CATAAATT-
1 CATAACTTA
* * *
87416817 TATATCATA
1 CATAACTTA
87416826 TCATAACTTA
1 -CATAACTTA
87416836 CATAACTTA
1 CATAACTTA
87416845 CA-AACCTTA
1 CATAA-CTTA
*
87416854 CTTAACTTA
1 CATAACTTA
87416863 C
1 C
87416864 GTAATACATA
Statistics
Matches: 148, Mismatches: 27, Indels: 32
0.71 0.13 0.15
Matches are distributed among these distances:
5 3 0.02
6 2 0.01
7 15 0.10
8 21 0.14
9 89 0.60
10 12 0.08
11 3 0.02
12 3 0.02
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:87416715 original size:42 final size:41
Alignment explanation
Indices: 87416648--87416854 Score: 175
Period size: 42 Copynumber: 4.8 Consensus size: 41
87416638 ATCTTAATGT
* *
87416648 TAAATATATATCATATCATAACTTACAAAACTTACATAATACA
1 TAAATATATAACTTA-CATAACTTACAAAACTTACATAATA-A
* *
87416691 TAAATATATAACTTACATAACTTACAAAATTTAAATAATAAA
1 TAAATATATAACTTACATAACTTACAAAACTTACATAAT-AA
* *
87416733 TAAATATATAACTTACATAACTTACGTAATACGTTA-AT-ATAT
1 TAAATATATAACTTACATAACTTAC--AAAAC-TTACATAATAA
** * * * *
87416775 TTCATATCATAATTTACATAACTTACATACCTTACATAAATTTA
1 TAAATAT-ATAACTTACATAACTTACAAAACTTACAT-AA-TAA
* *
87416819 TATCATATCATAACTTACATAACTTACAAACCTTAC
1 TA-AATAT-ATAACTTACATAACTTACAAAACTTAC
87416855 TTAACTTACG
Statistics
Matches: 136, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
40 3 0.02
41 4 0.03
42 54 0.40
43 34 0.25
44 7 0.05
45 34 0.25
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (41 bp):
TAAATATATAACTTACATAACTTACAAAACTTACATAATAA
Found at i:87422008 original size:13 final size:14
Alignment explanation
Indices: 87421992--87422020 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87421982 TTATAAATAT
87421992 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
87422005 TTATAATGGTTTAA
1 TTATAATGGTTTAA
87422019 TT
1 TT
87422021 CTTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:87422782 original size:33 final size:33
Alignment explanation
Indices: 87422739--87422819 Score: 103
Period size: 31 Copynumber: 2.5 Consensus size: 33
87422729 TTAGATTTAA
* *
87422739 TGTTTTTGGTTGTATTTTTTATACTACATTTGC
1 TGTTTTTGGTTGGATTTTTCATACTACATTTGC
* * *
87422772 TGTTTATGGTTGGA--TTTCATGCTATATTTGC
1 TGTTTTTGGTTGGATTTTTCATACTACATTTGC
87422803 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGGATTT
87422820 AATGCAAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 27 0.68
33 13 0.32
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.58
Consensus pattern (33 bp):
TGTTTTTGGTTGGATTTTTCATACTACATTTGC
Found at i:87429542 original size:25 final size:25
Alignment explanation
Indices: 87429493--87429543 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
87429483 CCCTTATAAT
* * *
87429493 GTGAAAATGACCATTTTGCCTCTAG
1 GTGAAAATGACCATTATACCCCTAG
87429518 GTGAAAATGACCATTATACCCCTAG
1 GTGAAAATGACCATTATACCCCTAG
87429543 G
1 G
87429544 GATATGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
GTGAAAATGACCATTATACCCCTAG
Found at i:87429596 original size:10 final size:10
Alignment explanation
Indices: 87429583--87429621 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
87429573 CTGTTTTATA
87429583 CATGATATGC
1 CATGATATGC
87429593 CATGATATGC
1 CATGATATGC
87429603 ACATGATATGC
1 -CATGATATGC
87429614 CATGATAT
1 CATGATAT
87429622 ATTCATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:87429608 original size:21 final size:21
Alignment explanation
Indices: 87429582--87429621 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
87429572 ACTGTTTTAT
87429582 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
87429603 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
87429622 ATTCATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:87429701 original size:25 final size:24
Alignment explanation
Indices: 87429666--87429735 Score: 104
Period size: 25 Copynumber: 2.9 Consensus size: 24
87429656 GGAGGAAGTG
*
87429666 CAAAAGGGCTTTGCCTCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAC
*
87429690 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAC
*
87429715 CAAAAGGGCTTTGCCGCAGTT
1 CAAAAGGGCTTTGCCCCAGTT
87429736 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
24 20 0.48
25 22 0.52
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAC
Found at i:87429724 original size:24 final size:24
Alignment explanation
Indices: 87429666--87429748 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 24
87429656 GGAGGAAGTG
* *
87429666 CAAAAGGGCTTTGCCTCAGTTTAC
1 CAAAAGGGCTTTGCCCCAGTTTAT
87429690 CGAAAAGGGCTTTGCCCCAGTTTAT
1 C-AAAAGGGCTTTGCCCCAGTTTAT
*
87429715 CAAAAGGGCTTTGCCGCAG-TTAT
1 CAAAAGGGCTTTGCCCCAGTTTAT
*
87429738 TAAAAGAGGCT
1 CAAAAG-GGCT
87429749 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.17
24 22 0.42
25 22 0.42
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
CAAAAGGGCTTTGCCCCAGTTTAT
Found at i:87429759 original size:49 final size:49
Alignment explanation
Indices: 87429666--87429760 Score: 113
Period size: 49 Copynumber: 1.9 Consensus size: 49
87429656 GGAGGAAGTG
* **
87429666 CAAAAGGGCTTTGCCTCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTTGCCGCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
**
87429715 CAAAAGGGCTTTGCCGCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGGGCTTTGCCGCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
87429761 ATATGATAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
47 5 0.13
48 10 0.26
49 24 0.62
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (49 bp):
CAAAAGGGCTTTGCCGCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:87433533 original size:34 final size:34
Alignment explanation
Indices: 87433489--87433558 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
87433479 CTTATGAAAA
* * *
87433489 TGGTAGCGAGTGATGATGGACTTCGTTAGTGGGT
1 TGGTAACGAGTGACGATGGACTTCATTAGTGGGT
87433523 TGGTAACGAGTGACGATGGACTTCATTAGTGGGT
1 TGGTAACGAGTGACGATGGACTTCATTAGTGGGT
87433557 TG
1 TG
87433559 CCCTTGACAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.20, C:0.10, G:0.39, T:0.31
Consensus pattern (34 bp):
TGGTAACGAGTGACGATGGACTTCATTAGTGGGT
Found at i:87436913 original size:46 final size:45
Alignment explanation
Indices: 87436846--87436974 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 45
87436836 TGTAACCCAC
* * *
87436846 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCG-ACTCAACTCAACGAGTTCGGACATTCGCAT
87436892 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGACATTCGCAT
87436938 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGA
87436975 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
46 77 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:87446692 original size:17 final size:18
Alignment explanation
Indices: 87446670--87446715 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
87446660 ACTTGTTATA
*
87446670 GCCCGATAAATGAA-AGT
1 GCCCGATAAATGAATAAT
*
87446687 GCCCGATTAAT-AATAAT
1 GCCCGATAAATGAATAAT
87446704 GCCCGATAAATG
1 GCCCGATAAATG
87446716 GTAAATGATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.22
Consensus pattern (18 bp):
GCCCGATAAATGAATAAT
Found at i:87448904 original size:13 final size:13
Alignment explanation
Indices: 87448886--87448912 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87448876 TTCTCTTGAT
87448886 AAGGTTTCCTAAA
1 AAGGTTTCCTAAA
87448899 AAGGTTTCCTAAA
1 AAGGTTTCCTAAA
87448912 A
1 A
87448913 GTACTCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AAGGTTTCCTAAA
Found at i:87454379 original size:41 final size:41
Alignment explanation
Indices: 87454318--87454418 Score: 148
Period size: 41 Copynumber: 2.5 Consensus size: 41
87454308 ATTAATGGGC
* *
87454318 CTGCTTACACAAGATATCAGTCAAGACGTACCTACTCGGTG
1 CTGCTCACACAAGATGTCAGTCAAGACGTACCTACTCGGTG
* *
87454359 CTGCTCACACAAGCTGTCAGTCAAGATGTACCTACTCGGTG
1 CTGCTCACACAAGATGTCAGTCAAGACGTACCTACTCGGTG
* *
87454400 CTACTCACACAAGTTGTCA
1 CTGCTCACACAAGATGTCA
87454419 AGTAACCGCA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (41 bp):
CTGCTCACACAAGATGTCAGTCAAGACGTACCTACTCGGTG
Done.