Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 170 of 425
Found at i:51582462 original size:23 final size:22
Alignment explanation
Indices: 51582436--51582511 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
51582426 TAGCTTATTG
*
51582436 GAGCTTACCATTTTAGCTCAATA
1 GAGCTTACC-TTTCAGCTCAATA
*
51582459 GAGCTTA-CTGTTCAGCTCGATA
1 GAGCTTACCT-TTCAGCTCAATA
* *
51582481 TAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACC-TTTCAGCTCAATA
51582504 GAGCTTAC
1 GAGCTTAC
51582512 TATTCATCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.02
22 17 0.39
23 25 0.57
24 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (22 bp):
GAGCTTACCTTTCAGCTCAATA
Found at i:51582485 original size:22 final size:21
Alignment explanation
Indices: 51582450--51582517 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
51582440 TTACCATTTT
51582450 AGCTCAATAGAGCTTACTGTTC
1 AGCTC-ATAGAGCTTACTGTTC
* *
51582472 AGCTCGATATAGCTTACCGTTTC
1 AGCTC-ATAGAGCTTACTG-TTC
*
51582495 AGCTCATTAGAGCTTACTATTC
1 AGCTCA-TAGAGCTTACTGTTC
51582517 A
1 A
51582518 TCAACTTAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 21 0.55
23 17 0.45
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (21 bp):
AGCTCATAGAGCTTACTGTTC
Found at i:51582549 original size:20 final size:20
Alignment explanation
Indices: 51582524--51582564 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
51582514 TTCATCAACT
*
51582524 TAGGAGGAGCTTACTGATCA
1 TAGGAGGAGCTTACCGATCA
*
51582544 TAGGAGGAGGTTACCGATCA
1 TAGGAGGAGCTTACCGATCA
51582564 T
1 T
51582565 GGCTCGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (20 bp):
TAGGAGGAGCTTACCGATCA
Found at i:51585648 original size:29 final size:29
Alignment explanation
Indices: 51585616--51585717 Score: 195
Period size: 29 Copynumber: 3.5 Consensus size: 29
51585606 ATAGTGAATC
*
51585616 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGTT
51585645 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGTT
51585674 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGTT
51585703 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51585718 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGTT
Found at i:51587047 original size:19 final size:18
Alignment explanation
Indices: 51587023--51587058 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51587013 CCCCCTTTTT
*
51587023 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
51587042 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
51587059 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:51589090 original size:46 final size:46
Alignment explanation
Indices: 51589040--51589165 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
51589030 TGGTCGAGCA
*
51589040 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
51589086 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
51589132 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
51589166 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:51593825 original size:46 final size:48
Alignment explanation
Indices: 51593592--51593910 Score: 177
Period size: 47 Copynumber: 6.8 Consensus size: 48
51593582 AGGGTATAAT
* ** * **
51593592 GCCGATGCCATGTCCCAGACATGGTCTTACA-TTGGAT-CATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACAT-CTTGTA
* * **
51593639 GTCGATGCCATGTCCCAGACATGGTCTTACTCT-GAC-TATCAAAATTG-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTA-C-ATCTTGTA
* * ** *
51593687 GGCTGACT-TCATGTCTTAGACATGGTCTTACACTAGCTCTCACATATCTGT-
1 -GCCGA-TGCCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-TGTA
* * *
51593738 GTCGATGTCATGTCCCAGGCATGGTCTTACACT-GAC--ACATCTTGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTTACATCTTGTA
* *
51593784 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTTCATCTT-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTTGTA
* * ** *
51593829 TGCCGATGCCATGTCCCAGACATGGTCTTACATTGGCTCT-CAT-AAGTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-TACATCTTGTA
*
51593877 GCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
51593911 ACACAAATAA
Statistics
Matches: 215, Mismatches: 33, Indels: 50
0.72 0.11 0.17
Matches are distributed among these distances:
44 11 0.05
45 29 0.13
46 38 0.18
47 51 0.24
48 17 0.08
49 31 0.14
50 33 0.15
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTACATCTTGTA
Found at i:51599044 original size:43 final size:43
Alignment explanation
Indices: 51598994--51599081 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
51598984 GATTAACGAG
51598994 ATGTGATTATGTGTAAGACCATGTCTGGGACATTAGCATCATT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTAGCATCATT
* *
51599037 ATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTCTGGGACATTAGCATCATT
51599080 AT
1 AT
51599082 TTTATTTCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGGGACATTAGCATCATT
Found at i:51599095 original size:43 final size:43
Alignment explanation
Indices: 51599005--51599144 Score: 151
Period size: 43 Copynumber: 3.3 Consensus size: 43
51598995 TGTGATTATG
* * *
51599005 TGTAAGACCATGTCTGGGACATTAGCATCATTATGTGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATT-TCA
* *
51599048 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTTTATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTTCA
* * **
51599091 TGTAAGACCATAG-CTAGG-CTATTGGCATCGATATGTGATAACA
1 TGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTTATGTGATTTCA
51599134 TGTAAGACCAT
1 TGTAAGACCAT
51599145 ATCTAGGATA
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 2 0.02
43 80 0.96
44 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATGTGATTTCA
Found at i:51603159 original size:33 final size:33
Alignment explanation
Indices: 51603117--51603185 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
51603107 TATTAATTCC
51603117 TATACATATATGCTCATACGAGCTATGAATAAG
1 TATACATATATGCTCATACGAGCTATGAATAAG
*
51603150 TATACATATATGCTCATACGAGCTGTGAATAAG
1 TATACATATATGCTCATACGAGCTATGAATAAG
51603183 TAT
1 TAT
51603186 GCTCACAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (33 bp):
TATACATATATGCTCATACGAGCTATGAATAAG
Found at i:51606226 original size:40 final size:40
Alignment explanation
Indices: 51606166--51606295 Score: 145
Period size: 40 Copynumber: 3.2 Consensus size: 40
51606156 CGGGATTCAA
* **
51606166 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAAC
* *** * *
51606206 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAAC
*
51606246 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAAC
*
51606286 CCAGATATAA
1 CCGGATATAA
51606296 TCACTAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 73 0.97
41 2 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAAC
Found at i:51606316 original size:40 final size:40
Alignment explanation
Indices: 51606169--51606327 Score: 140
Period size: 40 Copynumber: 4.0 Consensus size: 40
51606159 GATTCAACCG
* * * * *
51606169 GATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCA
* *** * * *
51606209 GATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGCCCG
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCA
* *
51606249 GATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCA
1 GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCA
* * * *
51606289 GATATAATC-ACTAGCATAAATGTCTTCGAGACTTAGCCC
1 GATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGCCC
51606328 GGGTATCATT
Statistics
Matches: 96, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 95 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (40 bp):
GATATAACAACTAGCACAAATGCCTTCGGGTCTTAGCCCA
Found at i:51608342 original size:39 final size:39
Alignment explanation
Indices: 51608299--51608434 Score: 175
Period size: 39 Copynumber: 3.5 Consensus size: 39
51608289 ACTAGCTCGA
* * * * *
51608299 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
*
51608338 AGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
51608377 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAACACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
51608416 AGCCTGCAGACCCTAAGTC
1 AGCCTGCGGACCTTAAGTC
51608435 TAGATAAACA
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 3 0.03
39 83 0.97
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:51608365 original size:78 final size:77
Alignment explanation
Indices: 51608279--51608434 Score: 172
Period size: 78 Copynumber: 2.0 Consensus size: 77
51608269 GAATTTAAAC
* * * * * *
51608279 CCGGTATAATACTAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCC
1 CCGGTATAATACCAGCAC-ATAGCCTGC-GGACCTTAAGCCCGGACATAATTCCAACACATAGCC
* *
51608342 TGCGGACCTTAAGT
64 TGCAGACCCTAAGT
* * *
51608356 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTCCAACACATAGCCT
1 CCGG-TATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAACACATAGCCT
51608421 GCAGACCCTAAGT
65 GCAGACCCTAAGT
51608434 C
1 C
51608435 TAGATAAACA
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
77 8 0.12
78 57 0.88
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (77 bp):
CCGGTATAATACCAGCACATAGCCTGCGGACCTTAAGCCCGGACATAATTCCAACACATAGCCTG
CAGACCCTAAGT
Found at i:51615714 original size:50 final size:51
Alignment explanation
Indices: 51615637--51615765 Score: 224
Period size: 50 Copynumber: 2.5 Consensus size: 51
51615627 GACCATGGCA
51615637 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
51615688 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
51615738 ACAAGTGAAAAGTGGTAGCTTCTGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
51615766 CTGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
50 50 0.68
51 24 0.32
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:51615779 original size:31 final size:31
Alignment explanation
Indices: 51615741--51615858 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
51615731 ACAAATGACA
* *
51615741 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
51615772 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
51615803 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
51615834 AATGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
51615859 AAGTGACAAG
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:51616028 original size:49 final size:49
Alignment explanation
Indices: 51615880--51616147 Score: 303
Period size: 49 Copynumber: 5.7 Consensus size: 49
51615870 GATTTCCATA
* * * * * *
51615880 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTG
* * * * *
51615927 TAAGACCATATCTAGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
51615973 TAAGACCATAGCTGGGTTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
51616022 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
51616071 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T--GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
51616113 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
51616148 AGATGTGTAA
Statistics
Matches: 202, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
41 1 0.00
42 35 0.17
44 1 0.00
45 1 0.00
46 26 0.13
47 37 0.18
48 15 0.07
49 86 0.43
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
Found at i:51616114 original size:42 final size:43
Alignment explanation
Indices: 51615970--51616182 Score: 200
Period size: 49 Copynumber: 4.7 Consensus size: 43
51615960 TATGTGATTC
* *
51615970 GTGTAAGACCATAGCTGGGTTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
51616017 ACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
51616066 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
51616110 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
51616152 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
51616183 GAAAACAAAG
Statistics
Matches: 153, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
41 1 0.01
42 64 0.42
43 1 0.01
44 6 0.04
45 2 0.01
47 1 0.01
49 78 0.51
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:51618197 original size:2 final size:2
Alignment explanation
Indices: 51618185--51618234 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
51618175 ACCATCAATC
*
51618185 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51618227 AT AT AT AT
1 AT AT AT AT
51618235 CTTCTTTGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:51618505 original size:39 final size:40
Alignment explanation
Indices: 51618410--51618603 Score: 159
Period size: 39 Copynumber: 5.0 Consensus size: 40
51618400 ACTTGAAACC
** **
51618410 AATTACCAGCACA-AGCCTGCGGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGCGGGACCTTAAGTCCGGATAT
* * * * * *
51618449 AATACTAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACAT
1 AATTCCAGCAC-ATAGCCTGCGGGACCTTAAGTCCGGATAT
* * * * * *
51618488 ATTTCCAGCACGTAGCCTG-TGGACCTTGAGTCTGGTTAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGTCCGGATAT
51618527 AATTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGTCCGGATAT
* *
51618566 AATTCCAGCACATAGCCTGC-GGACCCTAAGTCTGGATA
1 AATTCCAGCACATAGCCTGCGGGACCTTAAGTCCGGATA
51618604 AACATCACTG
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
38 16 0.13
39 109 0.87
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
AATTCCAGCACATAGCCTGCGGGACCTTAAGTCCGGATAT
Found at i:51622476 original size:49 final size:49
Alignment explanation
Indices: 51622404--51622732 Score: 435
Period size: 49 Copynumber: 6.4 Consensus size: 49
51622394 TTTACCACAT
*
51622404 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
51622453 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
51622502 ATATATACCTTATCACATATATATACCTTTTCA-CATTCATCACATCGGCCATTAGGCCTTATCA
1 ATATATA---TA-CAC-T-T-T-CA-C-ATTCATCA-------CATCGGCCATTAGGCCTTATCA
51622566 C
49 C
*
51622567 ATATATATACACTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
**
51622616 ATATATATACTTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
51622665 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
51622714 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
51622733 AATTTTGATA
Statistics
Matches: 249, Mismatches: 13, Indels: 36
0.84 0.04 0.12
Matches are distributed among these distances:
49 188 0.76
52 2 0.01
53 2 0.01
54 1 0.00
55 5 0.02
56 4 0.02
57 2 0.01
58 4 0.02
59 5 0.02
60 1 0.00
61 3 0.01
62 2 0.01
65 30 0.12
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:51622514 original size:16 final size:16
Alignment explanation
Indices: 51622493--51622524 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51622483 GGCCATTAGG
51622493 CCTTATCACATATATA
1 CCTTATCACATATATA
51622509 CCTTATCACATATATA
1 CCTTATCACATATATA
51622525 TACCTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (16 bp):
CCTTATCACATATATA
Found at i:51622525 original size:18 final size:18
Alignment explanation
Indices: 51622493--51622537 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
51622483 GGCCATTAGG
51622493 CCTTATCAC--ATATATA
1 CCTTATCACATATATATA
51622509 CCTTATCACATATATATA
1 CCTTATCACATATATATA
*
51622527 CCTTTTCACAT
1 CCTTATCACAT
51622538 TCATCACATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 9 0.35
18 17 0.65
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (18 bp):
CCTTATCACATATATATA
Found at i:51622525 original size:65 final size:65
Alignment explanation
Indices: 51622444--51622573 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
51622434 GGCCATTAGG
51622444 CCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
51622509 CCTTATCACATATATATACCTTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
51622574 TACACTTTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (65 bp):
CCTTATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:51622538 original size:114 final size:114
Alignment explanation
Indices: 51622404--51622622 Score: 395
Period size: 114 Copynumber: 1.9 Consensus size: 114
51622394 TTTACCACAT
* *
51622404 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACATTTTC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
*
51622469 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATACCTTATCAC
66 ACATTCATCACATCGGCCATGAGGCCTTATCACATATATACCTTATCAC
51622518 ATATATATAC-CTTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
51622582 CACATTCATCACATCGGCCATGAGGCCTTATCACATATATA
65 CACATTCATCACATCGGCCATGAGGCCTTATCACATATATA
51622623 TACTTTTTCA
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
113 1 0.01
114 100 0.99
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (114 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTC
ACATTCATCACATCGGCCATGAGGCCTTATCACATATATACCTTATCAC
Found at i:51628036 original size:16 final size:17
Alignment explanation
Indices: 51628015--51628048 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51628005 CTTTAAGTTA
51628015 TTATTTTATA-ATTTTT
1 TTATTTTATACATTTTT
*
51628031 TTATTTTCTACATTTTT
1 TTATTTTATACATTTTT
51628048 T
1 T
51628049 ATCGTGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATTTTATACATTTTT
Found at i:51629394 original size:2 final size:2
Alignment explanation
Indices: 51629387--51629416 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51629377 GAGTCATAAT
51629387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51629417 ATGCAACAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51629922 original size:8 final size:8
Alignment explanation
Indices: 51629909--51629944 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
51629899 CATACTAATT
51629909 TTTTTAAA
1 TTTTTAAA
51629917 TTTTTAAA
1 TTTTTAAA
51629925 TATTTTATAA
1 T-TTTTA-AA
51629935 TTTTTAAA
1 TTTTTAAA
51629943 TT
1 TT
51629945 ATTCATTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 13 0.50
9 10 0.38
10 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTTAAA
Found at i:51629936 original size:18 final size:17
Alignment explanation
Indices: 51629910--51629943 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
51629900 ATACTAATTT
51629910 TTTTAAATTTTTAAATA
1 TTTTAAATTTTTAAATA
51629927 TTTTATAATTTTTAAAT
1 TTTTA-AATTTTTAAAT
51629944 TATTCATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAATTTTTAAATA
Found at i:51636826 original size:21 final size:21
Alignment explanation
Indices: 51636802--51636878 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
51636792 GTTATAATGA
51636802 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
51636823 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
* *
51636844 CCACACGGACGTGTTGCCTTT
1 CCACACGGGCGTGTTGCCCTT
51636865 CCACACGGGCGTGT
1 CCACACGGGCGTGT
51636879 GCCTTGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.12, C:0.36, G:0.29, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:51642793 original size:30 final size:30
Alignment explanation
Indices: 51642757--51642813 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
51642747 TCGAATTTCG
*
51642757 AGCCTAGGGGTAAAATGATCATTTTGCGAA
1 AGCCTAGGGGCAAAATGATCATTTTGCGAA
*
51642787 AGCCTAGGGGCAAAATGGTCATTTTGC
1 AGCCTAGGGGCAAAATGATCATTTTGC
51642814 CCAATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (30 bp):
AGCCTAGGGGCAAAATGATCATTTTGCGAA
Found at i:51646423 original size:42 final size:42
Alignment explanation
Indices: 51646376--51646493 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
51646366 TGTGATATCG
* *
51646376 TGTAAGACCATGTCTAGGACATTGGCATCGTATCTGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTACA
* * * *
51646418 TGTAAGACCCTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATCTGATTACA
* ** *
51646461 TGTAAGACCACGTCTGGGATGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
51646494 ATGCTTTCTG
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATCTGATTACA
Found at i:51646476 original size:43 final size:42
Alignment explanation
Indices: 51646376--51646479 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
51646366 TGTGATATCG
* * * *
51646376 TGTAAGACCATGTCTAGGACATTGGCATCGTATCTGATTTCA
1 TGTAAGACCACGTCTGGGACAGTGGCATCGTATCTGATTACA
* *
51646418 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATCTGATTACA
51646461 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
51646480 TGTTGGCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 26 0.49
43 26 0.49
44 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATCTGATTACA
Found at i:51651679 original size:92 final size:92
Alignment explanation
Indices: 51651536--51651821 Score: 319
Period size: 92 Copynumber: 3.1 Consensus size: 92
51651526 TTAAGGATGT
* * * *
51651536 AAAAAGTCCTCGAACTTTTTTAAAAAAAACAATTAAGCCCCTA-CTCTTTTTTTTTTGCATTCAA
1 AAAAAGGCCTCAAACTTTTTTAAAAAAAACAATTAAGCCCCTATTTC-TTTTTTTTTGCACTCAA
*
51651600 TTGGATACTTAAACTT-TCAAAATGCATC
65 TTGGGTACTTAAA-TTGTCAAAATGCATC
** *
51651628 AAAAAGGCCTCAAACTTTTTTAAAAAAAGTAACTAAGCCCCTATTTCTTTTTTTTT-CACTCAAT
1 AAAAAGGCCTCAAACTTTTTTAAAAAAAACAATTAAGCCCCTATTTCTTTTTTTTTGCACTCAAT
* * * *
51651692 TGGGTACTTGAATTGCCAGAATGCATAA
66 TGGGTACTTAAATTGTCAAAATGCAT-C
* * *
51651720 AAAAAGGTCTTCAAACTTTTTCATAAAAAACCAATTAAGCCCTTACTATTT-TTTTTTTTTGCAC
1 AAAAAGG-CCTCAAACTTTTTTA-AAAAAAACAATTAAGCCC---CTATTTCTTTTTTTTTGCAC
* *
51651784 TCAATTGGGTACTAAAATTGTCAAAATACATC
61 TCAATTGGGTACTTAAATTGTCAAAATGCATC
51651816 AAAAAG
1 AAAAAG
51651822 TTTAGAGGTG
Statistics
Matches: 162, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
90 2 0.01
91 26 0.16
92 54 0.33
93 15 0.09
94 15 0.09
96 15 0.09
97 35 0.22
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (92 bp):
AAAAAGGCCTCAAACTTTTTTAAAAAAAACAATTAAGCCCCTATTTCTTTTTTTTTGCACTCAAT
TGGGTACTTAAATTGTCAAAATGCATC
Found at i:51652325 original size:19 final size:18
Alignment explanation
Indices: 51652303--51652375 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 18
51652293 ATTTCCATAT
51652303 ATTTTATAATTTTTTACGA
1 ATTTTATAATTTTTTAC-A
***
51652322 ATTTTATAAAAAGTTTACA
1 ATTTTAT-AATTTTTTACA
51652341 ATTTT-TAATTTTTTTTACA
1 ATTTTATAA--TTTTTTACA
51652360 ATTTTTATAATTTTTT
1 A-TTTTATAATTTTTT
51652376 TCTCATTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
17 2 0.05
18 1 0.02
19 26 0.60
20 11 0.26
21 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
ATTTTATAATTTTTTACA
Found at i:51652390 original size:21 final size:21
Alignment explanation
Indices: 51652335--51652376 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
51652325 TTATAAAAAG
51652335 TTTACAA-TTTT-TAATTTTT
1 TTTACAATTTTTATAATTTTT
51652354 TTTACAATTTTTATAATTTTT
1 TTTACAATTTTTATAATTTTT
51652375 TT
1 TT
51652377 CTCATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 10 0.48
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTACAATTTTTATAATTTTT
Found at i:51652404 original size:19 final size:21
Alignment explanation
Indices: 51652380--51652434 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
51652370 TTTTTTTCTC
51652380 ATTTTTAATAAATTTTTAAT-
1 ATTTTTAATAAATTTTTAATA
* *
51652400 ATTTTTATTAAA-ATTTAATA
1 ATTTTTAATAAATTTTTAATA
51652420 ATTTTT-ATAAATTTT
1 ATTTTTAATAAATTTT
51652435 ATTTTTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 10 0.34
20 19 0.66
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAATAAATTTTTAATA
Found at i:51653583 original size:2 final size:2
Alignment explanation
Indices: 51653576--51653616 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
51653566 GTTCATCTAC
51653576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51653617 TTCCTCCTCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51654139 original size:21 final size:20
Alignment explanation
Indices: 51654101--51654142 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
51654091 TCATTAAAAA
* *
51654101 TTATAAACAAAAACTAATTT
1 TTATAAAAAAAAAATAATTT
51654121 TTATAAAAAAAAATATAATTT
1 TTATAAAAAAAAA-ATAATTT
51654142 T
1 T
51654143 AATATATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTATAAAAAAAAAATAATTT
Found at i:51654422 original size:15 final size:15
Alignment explanation
Indices: 51654385--51654414 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
51654375 ATATGTATCT
51654385 ATATTATTATTTAAG
1 ATATTATTATTTAAG
51654400 ATATTATTATTTAAG
1 ATATTATTATTTAAG
51654415 TCTCTATTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
ATATTATTATTTAAG
Found at i:51657928 original size:14 final size:14
Alignment explanation
Indices: 51657909--51657944 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
51657899 GCGTGTGTGA
51657909 CCACACGGCCCCAC
1 CCACACGGCCCCAC
51657923 CCACACGGCCCCAC
1 CCACACGGCCCCAC
*
51657937 CCAAACGG
1 CCACACGG
51657945 GCGTGTGACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.25, C:0.58, G:0.17, T:0.00
Consensus pattern (14 bp):
CCACACGGCCCCAC
Found at i:51659654 original size:37 final size:36
Alignment explanation
Indices: 51659607--51659689 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 36
51659597 TTTAATTTTG
* *
51659607 TATACATTTCA-TATGTTATTAT-TAATTAGTTTTAAGT
1 TATATATTTCATTAT-TTATTATAT-ATT-GTTTTAAAT
51659644 TATATATTTCATTATTTATTATATATTGTTTTAAAT
1 TATATATTTCATTATTTATTATATATTGTTTTAAAT
51659680 TAATATATTT
1 T-ATATATTT
51659690 ATTCTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 9 0.22
37 28 0.68
38 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.58
Consensus pattern (36 bp):
TATATATTTCATTATTTATTATATATTGTTTTAAAT
Found at i:51661703 original size:12 final size:12
Alignment explanation
Indices: 51661686--51661710 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51661676 ATAATAAAAT
51661686 ATAACAATAATA
1 ATAACAATAATA
51661698 ATAACAATAATA
1 ATAACAATAATA
51661710 A
1 A
51661711 AATCTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACAATAATA
Found at i:51661993 original size:12 final size:12
Alignment explanation
Indices: 51661978--51662004 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
51661968 TATATATATT
51661978 TAAATGAAATAC
1 TAAATGAAATAC
51661990 TAAATGAAATAC
1 TAAATGAAATAC
51662002 TAA
1 TAA
51662005 GATAAAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.26
Consensus pattern (12 bp):
TAAATGAAATAC
Found at i:51662039 original size:17 final size:18
Alignment explanation
Indices: 51662017--51662054 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
51662007 TAAAGGAGCA
51662017 AAAAATATT-AAAAAA-AT
1 AAAAAT-TTGAAAAAAGAT
51662034 AAAAATTTGAAAAAAGAT
1 AAAAATTTGAAAAAAGAT
51662052 AAA
1 AAA
51662055 TTTAATTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 12 0.63
18 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAAATTTGAAAAAAGAT
Found at i:51662761 original size:16 final size:17
Alignment explanation
Indices: 51662723--51662754 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51662713 TTTGAAATGA
51662723 AAAAAAAATAAAAAAGC
1 AAAAAAAATAAAAAAGC
51662740 AAAAAAAA-AAAAAAG
1 AAAAAAAATAAAAAAG
51662755 ATAAAAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.88, C:0.03, G:0.06, T:0.03
Consensus pattern (17 bp):
AAAAAAAATAAAAAAGC
Found at i:51668088 original size:24 final size:23
Alignment explanation
Indices: 51668051--51668105 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
51668041 AATTATTGTA
*
51668051 ATTTACACCAAAAAAAAGTAAAGT
1 ATTTACACC-AAAAAAAGCAAAGT
* *
51668075 ATTTACCCCCAAAAAAGCAAAGT
1 ATTTACACCAAAAAAAGCAAAGT
51668098 ATTTACAC
1 ATTTACAC
51668106 GAGTAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.51, C:0.20, G:0.07, T:0.22
Consensus pattern (23 bp):
ATTTACACCAAAAAAAGCAAAGT
Found at i:51668439 original size:2 final size:2
Alignment explanation
Indices: 51668434--51668458 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51668424 GTTAATTTGT
51668434 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
51668459 TGTTGAAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51678472 original size:40 final size:40
Alignment explanation
Indices: 51678417--51678626 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
51678407 AACATTGGAA
51678417 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
51678457 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
51678497 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
51678537 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
51678576 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
51678617 CTATATCCGG
1 ATATATCCGG
51678627 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:51686606 original size:40 final size:40
Alignment explanation
Indices: 51686551--51686760 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
51686541 AACATTGGAA
51686551 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
51686591 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
51686631 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
51686671 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
51686710 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
51686751 CTATATCCGG
1 ATATATCCGG
51686761 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:51688524 original size:31 final size:34
Alignment explanation
Indices: 51688489--51688565 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 34
51688479 AATATTAAAT
51688489 TTAATTTAATATTTATCTTGATAG-T-AT-TT-TA
1 TTAATTTAATATTTATCTT-ATAGATAATATTCTA
51688520 TTAATTTAATATTTATCTTATAGATAAATATTCTA
1 TTAATTTAATATTTATCTTATAGAT-AATATTCTA
51688555 TTAATTTAATA
1 TTAATTTAATA
51688566 GATTTAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.10
31 20 0.49
33 2 0.05
34 2 0.05
35 13 0.32
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (34 bp):
TTAATTTAATATTTATCTTATAGATAATATTCTA
Found at i:51689660 original size:20 final size:20
Alignment explanation
Indices: 51689635--51689680 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
51689625 ATTGGGTCTT
51689635 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
51689655 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
51689674 GCCCATA
1 GCCCATA
51689681 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:51689689 original size:19 final size:20
Alignment explanation
Indices: 51689647--51689690 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
51689637 CCATATTAAC
** *
51689647 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
51689667 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
51689686 ACAGT
1 ACAGT
51689691 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:51690967 original size:19 final size:18
Alignment explanation
Indices: 51690943--51690995 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
51690933 GATGAGAATT
51690943 AAGAGGAGAAAGAAAAGAG
1 AAGAGG-GAAAGAAAAGAG
* *
51690962 AAGAGGGGAAGAAATGAG
1 AAGAGGGAAAGAAAAGAG
* *
51690980 -AGAAGGATAGAAAAGA
1 AAGAGGGAAAGAAAAGA
51690996 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 12 0.43
18 10 0.36
19 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.38, T:0.04
Consensus pattern (18 bp):
AAGAGGGAAAGAAAAGAG
Found at i:51691006 original size:17 final size:17
Alignment explanation
Indices: 51690986--51691034 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
51690976 TGAGAGAAGG
51690986 ATAGAAAAGAATAAAAA
1 ATAGAAAAGAATAAAAA
*
51691003 ATAGAAGAAGGAAAAAAAA
1 ATAGAA-AA-GAATAAAAA
51691022 ATA-AAAA-AATAAA
1 ATAGAAAAGAATAAA
51691035 TCCTAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 5 0.18
17 8 0.29
18 4 0.14
19 11 0.39
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (17 bp):
ATAGAAAAGAATAAAAA
Found at i:51695661 original size:16 final size:17
Alignment explanation
Indices: 51695640--51695673 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
51695630 GTAGATTGGA
*
51695640 AATTGAAAGTG-GAATG
1 AATTGAAAATGTGAATG
51695656 AATTGAAAATGTGAATG
1 AATTGAAAATGTGAATG
51695673 A
1 A
51695674 CCTATTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (17 bp):
AATTGAAAATGTGAATG
Found at i:51698436 original size:42 final size:42
Alignment explanation
Indices: 51698331--51698493 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 42
51698321 CGGAAAGCTC
* * * * * *
51698331 ATACAATGCCAACGTCCCAGATGTGGTCTTACATGTAATTAA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAA
*
51698373 ATATCGATGCCACTGTCCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATCAA
*
51698416 ATACGATGCCAATGTCCCAGACGTGGTCTTACACATAAATCATA
1 ATACGATGCCAATGTCCCAGACGTGGTCTTACAC-GAAATCA-A
* * *
51698460 AGT-CAATGCCAACT-TCCCAAACGTGTTCTTACAC
1 A-TACGATGCCAA-TGTCCCAGACGTGGTCTTACAC
51698494 AAAAACACAT
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 39 0.38
44 29 0.28
45 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAA
Found at i:51701597 original size:9 final size:9
Alignment explanation
Indices: 51701583--51701630 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
51701573 TTAAATTTTA
51701583 ATTTTATAT
1 ATTTTATAT
51701592 ATTTTATA-
1 ATTTTATAT
51701600 ATTTATATAT
1 ATTT-TATAT
*
51701610 ATTCTA-AT
1 ATTTTATAT
*
51701618 TTTTTATAT
1 ATTTTATAT
51701627 ATTT
1 ATTT
51701631 ATTCGATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 10 0.31
9 19 0.59
10 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTATAT
Found at i:51701606 original size:16 final size:16
Alignment explanation
Indices: 51701585--51701629 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
51701575 AAATTTTAAT
*
51701585 TTTATATATTTTATAA
1 TTTATATATATTATAA
*
51701601 TTTATATATATTCTAA
1 TTTATATATATTATAA
*
51701617 TTTTTTATATATT
1 -TTTATATATATT
51701630 TATTCGATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTATATATATTATAA
Found at i:51702415 original size:30 final size:27
Alignment explanation
Indices: 51702381--51702436 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
51702371 GTGACTTAAA
*
51702381 TGAAAATTTTTAATAGTTCAGTGACCAAAT
1 TGAAAATTTTT--TAGTT-AATGACCAAAT
*
51702411 TGAAACTTTTTTAGTTAATGACCAAA
1 TGAAAATTTTTTAGTTAATGACCAAA
51702437 ACCAAAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 5 0.21
30 10 0.42
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (27 bp):
TGAAAATTTTTTAGTTAATGACCAAAT
Found at i:51708702 original size:29 final size:28
Alignment explanation
Indices: 51708668--51708770 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
51708658 TACTCAATCA
*
51708668 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
51708697 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
51708726 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
51708755 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51708771 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:51712818 original size:74 final size:75
Alignment explanation
Indices: 51712666--51712825 Score: 250
Period size: 75 Copynumber: 2.1 Consensus size: 75
51712656 TTACGTAAAT
* * * * *
51712666 AATACAAAGTTTATTATTTAAATTGAAAAAAATCACTAAAATTAATAATTGAAATGGTGAAAAAG
1 AATACAAAGTTGACTATTTAAATTGAAAAAAAACACTAAAATTAATAATTAAAATGGTAAAAAAG
51712731 TCATTACATA
66 TCATTACATA
*
51712741 AATACAAAGTTGACTATTTAAATTGAAAAAAAACCCTAAAATTAATAATTAAAATGG-AAAAAAG
1 AATACAAAGTTGACTATTTAAATTGAAAAAAAACACTAAAATTAATAATTAAAATGGTAAAAAAG
51712805 TCATTACATA
66 TCATTACATA
*
51712815 AATATAAAGTT
1 AATACAAAGTT
51712826 ATTTAAATTA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
74 26 0.33
75 52 0.67
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (75 bp):
AATACAAAGTTGACTATTTAAATTGAAAAAAAACACTAAAATTAATAATTAAAATGGTAAAAAAG
TCATTACATA
Found at i:51713107 original size:33 final size:33
Alignment explanation
Indices: 51713070--51713137 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
51713060 GTACGGCGGA
* * *
51713070 GGATACGGGCTGAGAAGAGTGGAGTACTAAGGT
1 GGATACGAGCCGAGAAGACTGGAGTACTAAGGT
* *
51713103 GGATACGAGCCGAGATGACTGGAGTACTGAGGT
1 GGATACGAGCCGAGAAGACTGGAGTACTAAGGT
51713136 GG
1 GG
51713138 TAGTGGGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.12, G:0.43, T:0.18
Consensus pattern (33 bp):
GGATACGAGCCGAGAAGACTGGAGTACTAAGGT
Found at i:51715093 original size:17 final size:17
Alignment explanation
Indices: 51715071--51715106 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
51715061 AAAATCAAAT
*
51715071 AAAATTACATTATAAAA
1 AAAATTACATTAGAAAA
51715088 AAAATTACATTAGAAAA
1 AAAATTACATTAGAAAA
51715105 AA
1 AA
51715107 GCACAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAATTACATTAGAAAA
Found at i:51715225 original size:99 final size:96
Alignment explanation
Indices: 51715088--51715264 Score: 266
Period size: 99 Copynumber: 1.8 Consensus size: 96
51715078 CATTATAAAA
* *
51715088 AAAATTACATTAGAAAAAAGCACAAAACACTAAACTAAACACTAAAAATTTATATAATCTAATCC
1 AAAATTAAATTAGAAAAAAGCACAAAACACTAAACTAAACACTAAAAATTTATA-AA-CTAATCA
51715153 TAAATTACTAACAAAATTATTATAATTTTTTTT
64 TAAATTACTAACAAAATTATTATAATTTTTTTT
* * *
51715186 AAAATTAAATTACTAAAAAATCACAAAAC-CTTAAACTAAACACTAACAATTTATAAACTAATCA
1 AAAATTAAATTA-GAAAAAAGCACAAAACAC-TAAACTAAACACTAAAAATTTATAAACTAATCA
51715250 TAAATTACTAACAAA
64 TAAATTACTAACAAA
51715265 GTAACTATAA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
97 21 0.29
98 14 0.19
99 37 0.51
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (96 bp):
AAAATTAAATTAGAAAAAAGCACAAAACACTAAACTAAACACTAAAAATTTATAAACTAATCATA
AATTACTAACAAAATTATTATAATTTTTTTT
Found at i:51715344 original size:93 final size:99
Alignment explanation
Indices: 51715081--51715462 Score: 328
Period size: 101 Copynumber: 3.9 Consensus size: 99
51715071 AAAATTACAT
* * * *
51715081 TATA-AAAAAAATTACATTA-GAAAAAAGCACAAAACACTAAACTAAACACTAAAAATTTATATA
1 TATATAAAAAATTTACATTACTAAAAAATCACAAAACAC--AA--AAA-ACTAACAATTTATA-A
* * *
51715144 ATCTAATCCTAAATTACTAACAAAATTA-T-TATA-AT-T-
60 A-CTAATCATAAATTACTAACAAAATAACTATAAACATATA
* ** *
51715180 T-TTTTTAAAA-TTAAATTACTAAAAAATCACAAAAC-CTTAAACTAAACACTAACAATTTATAA
1 TATATAAAAAATTTACATTACTAAAAAATCACAAAACAC---AA--AAA-ACTAACAATTTATAA
*
51715242 ACTAATCATAAATTACTAACAAAGTAACTAT-AACAT-T-
60 ACTAATCATAAATTACTAACAAAATAACTATAAACATATA
* * * * *
51715279 TA-A-AAAAAA-TTACATTACTAATAAATTACAACACACAAAAAACTAGCAATTTAAAAACTAAT
1 TATATAAAAAATTTACATTACTAAAAAATCACAAAACACAAAAAACTAACAATTTATAAACTAAT
*
51715341 CATAAATTACTAACAAAATAACTATAAATATATA
66 CATAAATTACTAACAAAATAACTATAAACATATA
* *
51715375 TATATTTAAAAAATTTACATTACTAAAAAATCACAAAACACAAAACACTAACAATTTATAACCTA
1 TATA--TAAAAAATTTACATTACTAAAAAATCACAAAACACAAAAAACTAACAATTTATAAACTA
*
51715440 ATCATAAATTGCTAACAAAATAA
64 ATCATAAATTACTAACAAAATAA
51715463 TTTTACATTA
Statistics
Matches: 237, Mismatches: 30, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
93 43 0.18
94 7 0.03
95 1 0.00
96 4 0.02
97 24 0.10
98 38 0.16
99 48 0.20
100 6 0.03
101 66 0.28
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.28
Consensus pattern (99 bp):
TATATAAAAAATTTACATTACTAAAAAATCACAAAACACAAAAAACTAACAATTTATAAACTAAT
CATAAATTACTAACAAAATAACTATAAACATATA
Found at i:51715531 original size:75 final size:76
Alignment explanation
Indices: 51715388--51715539 Score: 243
Period size: 76 Copynumber: 2.0 Consensus size: 76
51715378 ATTTAAAAAA
* *
51715388 TTTACATTACTAAAAAATCACAAAACACAAAACACTAACAATTTATAACCTAATCATAAATTGCT
1 TTTACATTAATAAAAAATCACAAAACACAAAACACTAACAATTTATAACCTAATCATAAATTACT
51715453 AACAAAATAAT
66 AACAAAATAAT
* ** *
51715464 TTTACATTAATAAAAAATCACAAAACACAAAGCTTTAACAATTTATAA-CTTATCATAAATTACT
1 TTTACATTAATAAAAAATCACAAAACACAAAACACTAACAATTTATAACCTAATCATAAATTACT
51715528 AACAAAATAAT
66 AACAAAATAAT
51715539 T
1 T
51715540 AAAAAAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 26 0.37
76 44 0.63
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.29
Consensus pattern (76 bp):
TTTACATTAATAAAAAATCACAAAACACAAAACACTAACAATTTATAACCTAATCATAAATTACT
AACAAAATAAT
Found at i:51715974 original size:17 final size:17
Alignment explanation
Indices: 51715949--51715993 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
51715939 TTTATATAAA
*
51715949 TTTTA-AAAAAATATTT
1 TTTTATAAAAAATATAT
*
51715965 TTTTATAAAAAATGTAT
1 TTTTATAAAAAATATAT
*
51715982 TATTATAAAAAA
1 TTTTATAAAAAA
51715994 AAAAGGTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTTATAAAAAATATAT
Found at i:51717397 original size:27 final size:27
Alignment explanation
Indices: 51717367--51717419 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
51717357 TTGCCAATAT
*
51717367 CAGTATATATGGCAAAGCTACCAGTAA
1 CAGTATATATGGCAAAGCCACCAGTAA
* *
51717394 CAGTATATGTGGCGAAGCCACCAGTA
1 CAGTATATATGGCAAAGCCACCAGTA
51717420 CAATACACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGTATATATGGCAAAGCCACCAGTAA
Found at i:51724402 original size:47 final size:44
Alignment explanation
Indices: 51724293--51724402 Score: 123
Period size: 44 Copynumber: 2.4 Consensus size: 44
51724283 CGTGCTGATG
*
51724293 CATGTCCCAGACATGTCTTACACTAGGATAACTCTTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGGATAACTCTTGGCCGATA
* * * *
51724337 CGTGTCCCAGACACGTCTTACACT-GGCTATCTCTGTCAAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGGATAACTCT-T---GGCCGATA
*
51724384 CATGTCCCAAACATGTCTT
1 CATGTCCCAGACATGTCTT
51724403 CTCTGGCACT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 8 0.15
44 23 0.43
47 23 0.43
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGGATAACTCTTGGCCGATA
Found at i:51726573 original size:80 final size:80
Alignment explanation
Indices: 51726436--51726677 Score: 242
Period size: 80 Copynumber: 3.0 Consensus size: 80
51726426 AACCCAAGTA
* * * * *
51726436 TCTTTGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATAT
1 TCTTTGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-T
*
51726497 GGTCACTAGCACAAATG
64 AGTCACTAGCACAAATG
*
51726514 TCTTTGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 TCTTTGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
* * *
51726579 TAACTCGCACCAATG
66 TCACTAGCACAAATG
* * * * * * * **
51726594 CCTTCGGGACTTGGCCCGGA-ATTAGTATCTCGCACAATTAACTTCGGGACTTAGCCCGGAATTA
1 TCTTTGGGTCTTAGCCCGGATA-TAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTA
*
51726658 ATCACTAGCACAAATG
65 GTCACTAGCACAAATG
51726674 TCTT
1 TCTT
51726678 CAGGACTTGA
Statistics
Matches: 134, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.01
78 12 0.09
79 18 0.13
80 101 0.75
81 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
TCTTTGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
TCACTAGCACAAATG
Found at i:51726611 original size:40 final size:40
Alignment explanation
Indices: 51726462--51726685 Score: 211
Period size: 40 Copynumber: 5.6 Consensus size: 40
51726452 GGATATAACC
* * * * *
51726462 ACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * * * *
51726501 ACTAGCACAAATGTCTTTGGGTCTTAGCCCAG-ATATAGCA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
51726541 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
51726581 ACTCGCACCAATGCCTTCGGGACTTGGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * ** * *
51726621 TCTCGCACAATTAACTTCGGGACTTAGCCCGGAATTAATC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
51726661 ACTAGCACAAATGTCTTCAGGACTT
1 ACTCGCACAAATGCCTTCGGGACTT
51726686 GACCCCGTTA
Statistics
Matches: 152, Mismatches: 31, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
39 7 0.05
40 143 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:51730165 original size:27 final size:28
Alignment explanation
Indices: 51730108--51730177 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
51730098 AAATTTGTAC
**
51730108 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
51730136 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
51730163 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
51730178 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:51730186 original size:27 final size:27
Alignment explanation
Indices: 51730108--51730189 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
51730098 AAATTTGTAC
* *
51730108 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
51730136 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
51730163 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
51730190 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:51738091 original size:27 final size:28
Alignment explanation
Indices: 51738034--51738103 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
51738024 AAATTTGTAC
**
51738034 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
51738062 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
51738089 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
51738104 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:51738112 original size:27 final size:27
Alignment explanation
Indices: 51738034--51738115 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
51738024 AAATTTGTAC
* *
51738034 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
51738062 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
51738089 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
51738116 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:51739669 original size:12 final size:12
Alignment explanation
Indices: 51739652--51739677 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51739642 CTAAAAATGT
51739652 GAAAATCATCAA
1 GAAAATCATCAA
51739664 GAAAATCATCAA
1 GAAAATCATCAA
51739676 GA
1 GA
51739678 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:51753334 original size:71 final size:71
Alignment explanation
Indices: 51753248--51753411 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51753238 CGATTTGTCT
51753248 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51753313 CTTTCA
66 CTTTCA
51753319 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51753384 CTTTCA
66 CTTTCA
51753390 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51753412 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:51753449 original size:71 final size:70
Alignment explanation
Indices: 51753248--51753445 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
51753238 CGATTTGTCT
* * * *
51753248 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
51753313 CTTTCA
65 CTTTCA
* * * *
51753319 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
51753384 CTTTCA
65 CTTTCA
* *
51753390 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
51753446 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:51760907 original size:71 final size:71
Alignment explanation
Indices: 51760823--51760986 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
51760813 CGATTTGTCT
51760823 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51760888 CTTTCA
66 CTTTCA
51760894 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
51760959 CTTTCA
66 CTTTCA
51760965 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
51760987 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:51761024 original size:71 final size:70
Alignment explanation
Indices: 51760823--51761020 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
51760813 CGATTTGTCT
* * * *
51760823 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
51760888 CTTTCA
65 CTTTCA
* * * *
51760894 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
51760959 CTTTCA
65 CTTTCA
* *
51760965 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
51761021 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:51765310 original size:21 final size:22
Alignment explanation
Indices: 51765270--51765316 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
51765260 ATAATGCAAC
51765270 CCATCCCAGTCCAGCCAACACA
1 CCATCCCAGTCCAGCCAACACA
51765292 CCATCCC-GTACCA-CCAACACA
1 CCATCCCAGT-CCAGCCAACACA
51765313 CCAT
1 CCAT
51765317 ATGAGGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.32, C:0.51, G:0.06, T:0.11
Consensus pattern (22 bp):
CCATCCCAGTCCAGCCAACACA
Found at i:51767530 original size:80 final size:76
Alignment explanation
Indices: 51767437--51767686 Score: 241
Period size: 88 Copynumber: 3.1 Consensus size: 76
51767427 ATAACTGTTT
* * * *
51767437 TAAAATTATTTTGTTAGTCATTTAGGATTATGTTATAAATT-TTTGTGTTTAGTTTAGTATTTTG
1 TAAAATTAGTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTG--T--TTT-GTATTTTG
51767501 TGATTTTTTATTAATG
61 TGATTTTTTATTAATG
* *
51767517 TAAAATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATT
1 TAAAATTAGTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTTTGTATTTTGTGATT
51767582 TTTTATTAATG
66 TTTTATTAATG
* * *
51767593 TAAAATTGTTTTGTTAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTA
1 T-AAA----------A-TTAGTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTTTG
* *
51767658 TGTTTTGTGATTTTTTAGTAATG
54 TATTTTGTGATTTTTTATTAATG
51767681 TAAAAT
1 TAAAAT
51767687 ATTTTTAAAA
Statistics
Matches: 148, Mismatches: 9, Indels: 30
0.79 0.05 0.16
Matches are distributed among these distances:
76 25 0.17
77 7 0.05
79 1 0.01
80 37 0.25
81 5 0.03
87 4 0.03
88 69 0.47
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.56
Consensus pattern (76 bp):
TAAAATTAGTTTGTTAGTAATTTAGGATTAGGTTATAAATTGTTAGTGTTTTGTATTTTGTGATT
TTTTATTAATG
Found at i:51767606 original size:76 final size:78
Alignment explanation
Indices: 51767437--51767608 Score: 226
Period size: 76 Copynumber: 2.2 Consensus size: 78
51767427 ATAACTGTTT
* * * *
51767437 TAAAATTATTTTGTTAGTCATTTAGGATTATGTTATAAATTTTTGTGTTTAGTTTAGTATTTTGT
1 TAAAATTGTTTTGTTAGTAATTTAGGATTAGGTTATAAATTTTAGTG-TTA-TTTAGTATTTTGT
51767502 GATTTTTTATTAATG
64 GATTTTTTATTAATG
* *
51767517 TAAAATTAG-TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTG-T-TTT-GTGTTTTGT
1 TAAAATT-GTTTTGTTAGTAATTTAGGATTAGGTTATAAATT-TTAGTGTTATTTAGTATTTTGT
51767578 GATTTTTTATTAATG
64 GATTTTTTATTAATG
51767593 TAAAATTGTTTTGTTA
1 TAAAATTGTTTTGTTA
51767609 ATTATTTTGT
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
75 1 0.01
76 37 0.45
77 3 0.04
79 1 0.01
80 36 0.43
81 5 0.06
ACGTcount: A:0.27, C:0.01, G:0.16, T:0.56
Consensus pattern (78 bp):
TAAAATTGTTTTGTTAGTAATTTAGGATTAGGTTATAAATTTTAGTGTTATTTAGTATTTTGTGA
TTTTTTATTAATG
Found at i:51767626 original size:88 final size:88
Alignment explanation
Indices: 51767520--51767686 Score: 307
Period size: 88 Copynumber: 1.9 Consensus size: 88
51767510 ATTAATGTAA
*
51767520 AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTT
1 AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTT
*
51767585 TATTAATGTAAAATTGTTTTGTT
66 TAGTAATGTAAAATTGTTTTGTT
*
51767608 AATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTT
1 AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTT
51767673 TAGTAATGTAAAAT
66 TAGTAATGTAAAAT
51767687 ATTTTTAAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (88 bp):
AATTAGTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTT
TAGTAATGTAAAATTGTTTTGTT
Found at i:51767700 original size:13 final size:13
Alignment explanation
Indices: 51767682--51767706 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51767672 TTAGTAATGT
51767682 AAAATATTTTTAA
1 AAAATATTTTTAA
51767695 AAAATATTTTTA
1 AAAATATTTTTA
51767707 TAGTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATATTTTTAA
Found at i:51767703 original size:88 final size:88
Alignment explanation
Indices: 51767526--51767704 Score: 288
Period size: 88 Copynumber: 2.0 Consensus size: 88
51767516 GTAAAATTAG
* *
51767526 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTGTGTTTTGTGATTTTTTATTAA
1 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTTTAGTAA
*** *
51767591 TGTAAAATTGTTTTGTTAATTAT
66 TGTAAAATTGTTTTAAAAAATAT
51767614 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTTTAGTAA
1 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTTTAGTAA
51767679 TGTAAAATAT-TTTTAAAAAATAT
66 TGTAAAAT-TGTTTTAAAAAATAT
51767702 TTT
1 TTT
51767705 TATAGTTATT
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
88 83 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (88 bp):
TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTTATGTTTTGTGATTTTTTAGTAA
TGTAAAATTGTTTTAAAAAATAT
Found at i:51767728 original size:188 final size:201
Alignment explanation
Indices: 51767526--51767900 Score: 485
Period size: 188 Copynumber: 1.9 Consensus size: 201
51767516 GTAAAATTAG
*
51767526 TTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTT-TGT-G-TTTTGTGA-TTTTT-T
1 TTTGTTAGTAATTTATGATTAGGTTATAAATTATTAGTGTTTATGTAGATTTTGTGATTTTTTAT
*
51767586 -AT-TAA-TGT-AAAAT-TGTTTTGT-TAATTATTTTGTTAGTAATTTATGATTAGG-T-TATAA
66 AATGTAATTGTAAAAATATATTTT-TATAATTATTTTGTTAGTAATTTATGATTAGGTTATATAA
51767643 ATTGTTAGTG-T-TTTA-TGTTTTGTGATTTTTTAGTAATGTAAAATATTTTTAAAAAATATTTT
130 ATTGTTAGTGTTATTTAGTGTTTTGTGATTTTTTAGTAATGT-AAAT-TTTTTAAAAAATATTTT
51767705 TATAGTTAT
193 TATAGTTAT
* * *
51767714 TTTGTTAGTAATTTATGATTAGTTTATAAATTATTTGTGTTTAGTTTAGGATTTTGTGATTTTTT
1 TTTGTTAGTAATTTATGATTAGGTTATAAATTATTAGTGTTTA-TGTA-GATTTTGTGATTTTTT
* *
51767779 AGTAATGTAATTTTTAAAAATATATTTTTATATTTATTTTGTTAGTAATTTATGATTAGGTTATA
64 A-TAATGTAA-TTGTAAAAATATATTTTTATAATTATTTTGTTAGTAATTTATGATTAGGTTATA
*
51767844 TAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTTTTTATTAATGTAAATTTTTTA
127 TAAATTGTTAGTG-TTA-TTTAGTGTTTTGTGATTTTTTAGTAATGTAAATTTTTTA
51767901 TAATGTAATT
Statistics
Matches: 157, Mismatches: 8, Indels: 25
0.83 0.04 0.13
Matches are distributed among these distances:
188 39 0.25
190 2 0.01
192 1 0.01
193 8 0.05
194 5 0.03
196 1 0.01
197 2 0.01
198 3 0.02
200 2 0.01
201 6 0.04
202 34 0.22
203 1 0.01
204 15 0.10
206 1 0.01
207 6 0.04
208 8 0.05
209 23 0.15
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (201 bp):
TTTGTTAGTAATTTATGATTAGGTTATAAATTATTAGTGTTTATGTAGATTTTGTGATTTTTTAT
AATGTAATTGTAAAAATATATTTTTATAATTATTTTGTTAGTAATTTATGATTAGGTTATATAAA
TTGTTAGTGTTATTTAGTGTTTTGTGATTTTTTAGTAATGTAAATTTTTTAAAAAATATTTTTAT
AGTTAT
Found at i:51767890 original size:104 final size:103
Alignment explanation
Indices: 51767610--51767898 Score: 425
Period size: 104 Copynumber: 2.8 Consensus size: 103
51767600 GTTTTGTTAA
51767610 TTATTTTGTTAGTAATTTATGATTAGG-TTATAAATTGTTAGTG--T--TTTA-TGTTTTGTGAT
1 TTATTTTGTTAGTAATTTATGATTAGGTTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
51767669 TTTTTAGTAATGTAAAATATTTTTAAAAAATATTTTTATAG
66 TTTTTAGTAATGT--AA-ATTTTTAAAAAATATTTTTATAG
* *
51767710 TTATTTTGTTAGTAATTTATGATTA-GTTTATAAATTATTTGTGTTTAGTTTAG-GATTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTTATAAATTGTTAGTGTTTAGTTTAGTG-TTTTGTGA
*
51767773 TTTTTTAGTAATGT-AATTTTTAAAAATATATTTTTATAT
65 TTTTTTAGTAATGTAAATTTTTAAAAA-ATATTTTTATAG
51767812 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTT-TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
*
51767877 TTTTTTATTAATGTAAATTTTT
65 TTTTTTAGTAATGTAAATTTTT
51767899 TATAATGTAA
Statistics
Matches: 171, Mismatches: 6, Indels: 19
0.87 0.03 0.10
Matches are distributed among these distances:
99 1 0.01
100 39 0.23
101 11 0.06
102 38 0.22
103 3 0.02
104 49 0.29
105 30 0.18
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (103 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
TTTTTAGTAATGTAAATTTTTAAAAAATATTTTTATAG
Found at i:51767904 original size:16 final size:16
Alignment explanation
Indices: 51767876--51767912 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
51767866 GTGTTTTGTG
51767876 ATTTTTTATTAATGTAA
1 ATTTTTTATTAATGT-A
51767893 ATTTTTTA-TAATGTA
1 ATTTTTTATTAATGTA
51767908 ATTTT
1 ATTTT
51767913 ATTTGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
17 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (16 bp):
ATTTTTTATTAATGTA
Found at i:51775560 original size:40 final size:40
Alignment explanation
Indices: 51775516--51775596 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
51775506 GAATCTAATT
51775516 ATACATGTTCTTATGTATTTAGCCGGATAGATGGTTATTG
1 ATACATGTTCTTATGTATTTAGCCGGATAGATGGTTATTG
51775556 ATACATGTTCTTATGTATTTAGCCGGATAGATGGTTATTG
1 ATACATGTTCTTATGTATTTAGCCGGATAGATGGTTATTG
51775596 A
1 A
51775597 ATAGGTTTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (40 bp):
ATACATGTTCTTATGTATTTAGCCGGATAGATGGTTATTG
Found at i:51775741 original size:2 final size:2
Alignment explanation
Indices: 51775734--51775761 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51775724 TGATACTTTG
51775734 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51775762 GAAACGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51776621 original size:5 final size:5
Alignment explanation
Indices: 51776613--51776637 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
51776603 ATGCAATCAT
51776613 AAACA AAACA AAACA AAACA AAACA
1 AAACA AAACA AAACA AAACA AAACA
51776638 CGTCAGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:51777743 original size:131 final size:129
Alignment explanation
Indices: 51777606--51777849 Score: 330
Period size: 131 Copynumber: 1.9 Consensus size: 129
51777596 AATAAGCTTG
* *
51777606 CCTTTATTTTTTATTTGAAATCTTATGCATTTT-AATTTAAAAGGATATTCGATTATTTAGATCC
1 CCTTTATTTTTTATTT-AAAACTTAAGCATTTTAAATTTAAAAGGATATTCGATTATTTAGATCC
* *
51777670 AACGAGAAAAAATTGAAACC-CGTAAGTTAGGGTACGACTTTCTCGAGTTTCTAAACATAGAATA
65 AACGAG--AAAATCGAAACCTCGTAAGTTAGGGTACGAC-TTCTCGAATTTCTAAACATAGAATA
51777734 TTA
127 TTA
* * * * * **
51777737 CCTTTATTTTTTATTTAAAACTTAAGTATTTTAAATTTAGAAGGATGTTCGGTTGTTTAGATTTA
1 CCTTTATTTTTTATTTAAAACTTAAGCATTTTAAATTTAAAAGGATATTCGATTATTTAGATCCA
*
51777802 ACGAGAAAATCGAAACCTCGTAAGTTAGGGTATGACTTCTCGAATTTC
66 ACGAGAAAATCGAAACCTCGTAAGTTAGGGTACGACTTCTCGAATTTC
51777850 CAAAAACGAA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
129 22 0.22
130 30 0.30
131 47 0.47
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (129 bp):
CCTTTATTTTTTATTTAAAACTTAAGCATTTTAAATTTAAAAGGATATTCGATTATTTAGATCCA
ACGAGAAAATCGAAACCTCGTAAGTTAGGGTACGACTTCTCGAATTTCTAAACATAGAATATTA
Found at i:51780001 original size:40 final size:40
Alignment explanation
Indices: 51779942--51780119 Score: 241
Period size: 40 Copynumber: 4.5 Consensus size: 40
51779932 CGGATGATAA
*
51779942 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
51779982 CCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
51780022 CCGGGCTAAGTCCCGAAGGCATTTGGGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
51780062 CCGGGCTAAGACCCGAAGGCATTTATGTGAGTTGCTTTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51780102 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51780120 TACTTGGGTT
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 14 0.11
40 108 0.89
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51781639 original size:26 final size:26
Alignment explanation
Indices: 51781610--51781809 Score: 121
Period size: 26 Copynumber: 7.9 Consensus size: 26
51781600 AAGCGAAACA
*
51781610 AAATAATATATAAAAAAATTTGAAG-T
1 AAATAATATATAAAACAATTT-AAGAT
*
51781636 AAAT-A-GTATAAAACAATTTAAGAT
1 AAATAATATATAAAACAATTTAAGAT
* *
51781660 AAATAATATGTAAAACAA-TTAA-AA
1 AAATAATATATAAAACAATTTAAGAT
* * * * * *
51781684 AAACAATAAACAAAGCAATTTAAAAC
1 AAATAATATATAAAACAATTTAAGAT
* * * *
51781710 AAATAATACATAAGACAACTTAAAAT
1 AAATAATATATAAAACAATTTAAGAT
* *
51781736 -AAT-ATATGA-AAAAC-GTTTAAAAT
1 AAATAATAT-ATAAAACAATTTAAGAT
* * *
51781759 AAATAATATGTAAAAAGAAATTTAAAAT
1 AAATAATATAT-AAAA-CAATTTAAGAT
*
51781787 AAATAATATACAAAACAATTTAA
1 AAATAATATATAAAACAATTTAA
51781810 AAAAGAATAA
Statistics
Matches: 134, Mismatches: 28, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
23 10 0.07
24 41 0.31
25 18 0.13
26 44 0.33
27 4 0.03
28 17 0.13
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAGAT
Found at i:51781653 original size:24 final size:23
Alignment explanation
Indices: 51781614--51781679 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 23
51781604 GAAACAAAAT
*
51781614 AATATATAAAAAAATTTGAAG-TA
1 AATATATAAAACAATTT-AAGATA
51781637 AATAGTATAAAACAATTTAAGATA
1 AATA-TATAAAACAATTTAAGATA
51781661 AATAATATGTAAAACAATT
1 AAT-ATA--TAAAACAATT
51781680 AAAAAAACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
23 7 0.19
24 19 0.51
25 1 0.03
26 10 0.27
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (23 bp):
AATATATAAAACAATTTAAGATA
Found at i:51781703 original size:50 final size:50
Alignment explanation
Indices: 51781646--51781811 Score: 149
Period size: 50 Copynumber: 3.3 Consensus size: 50
51781636 AAATAGTATA
* *
51781646 AAACAATTTAAGATAAATAATATGTAAAACAA-TTAAAAAAACAATAAAC
1 AAACAATTTAAAATAAATAATATGTAAAACAACTTAAAAAAATAATAAAC
* ** * * *
51781695 AAAGCAATTTAAAACAAATAATACATAAGACAACTTAAAATAATATATGAA-
1 AAA-CAATTTAAAATAAATAATATGTAAAACAACTTAAAAAAATA-ATAAAC
* * * *
51781746 AAAC-GTTTAAAATAAATAATATGTAAAAAGAAATTTAAAATAAATAATATAC
1 AAACAATTTAAAATAAATAATATGT-AAAA-CAACTTAAAA-AAATAATAAAC
51781798 AAAACAATTTAAAA
1 -AAACAATTTAAAA
51781812 AAGAATAAAT
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
49 19 0.21
50 28 0.31
51 23 0.26
52 8 0.09
53 4 0.04
54 7 0.08
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (50 bp):
AAACAATTTAAAATAAATAATATGTAAAACAACTTAAAAAAATAATAAAC
Found at i:51781762 original size:27 final size:28
Alignment explanation
Indices: 51781732--51781801 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
51781722 AGACAACTTA
* **
51781732 AAATAATATATGAAAA-ACGTTTAAAAT
1 AAATAATATATAAAAAGAAATTTAAAAT
*
51781759 AAATAATATGTAAAAAGAAATTTAAAAT
1 AAATAATATATAAAAAGAAATTTAAAAT
*
51781787 AAATAATATACAAAA
1 AAATAATATATAAAA
51781802 CAATTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (28 bp):
AAATAATATATAAAAAGAAATTTAAAAT
Found at i:51781863 original size:36 final size:36
Alignment explanation
Indices: 51781783--51781865 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
51781773 AAGAAATTTA
* *
51781783 AAATAAATA-ATATACAAAACAATTTAAAAAAGAAT
1 AAATATATATATATACAAAACAATTCAAAAAAGAAT
*
51781818 AAATGATATATATATA-AAAACAATTCAAAATA-AAT
1 AAAT-ATATATATATACAAAACAATTCAAAAAAGAAT
51781853 AACA-ATATATATA
1 AA-ATATATATATA
51781866 ACAGTTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
34 9 0.21
35 9 0.21
36 19 0.45
37 5 0.12
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (36 bp):
AAATATATATATATACAAAACAATTCAAAAAAGAAT
Found at i:51781962 original size:25 final size:26
Alignment explanation
Indices: 51781922--51781998 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 26
51781912 TTTAAATTAG
* *
51781922 TTTAAAATACATAATATGTGAAAAAA
1 TTTAAAATAAATAATATATGAAAAAA
*
51781948 -TTAAAATAAACAATA-AT-AAAACAA
1 TTTAAAATAAATAATATATGAAAA-AA
51781972 TTTAAAATAAATAATATATGAGAAAAA
1 TTTAAAATAAATAATATATGA-AAAAA
51781999 AGGTTGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
23 4 0.10
24 3 0.07
25 27 0.64
26 2 0.05
27 3 0.07
28 3 0.07
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (26 bp):
TTTAAAATAAATAATATATGAAAAAA
Found at i:51782852 original size:40 final size:40
Alignment explanation
Indices: 51782794--51782873 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
51782784 CGACGGAGAG
*
51782794 GAAGGTCAATCAATAGGTAAGATTTCTAATATTTATTCAT
1 GAAGGTCAATCAACAGGTAAGATTTCTAATATTTATTCAT
*
51782834 GAAGGTCAATCGACAGGTAAGATTTCTAATATTTATTCAT
1 GAAGGTCAATCAACAGGTAAGATTTCTAATATTTATTCAT
51782874 TTATTTCGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (40 bp):
GAAGGTCAATCAACAGGTAAGATTTCTAATATTTATTCAT
Found at i:51783953 original size:85 final size:79
Alignment explanation
Indices: 51783702--51784079 Score: 428
Period size: 77 Copynumber: 4.8 Consensus size: 79
51783692 GTTTTTAAAT
* * * * * * * * *
51783702 AACTTTATATTTGTATAATGACTTTTTTGCCATTTTAGTTATTAA-TTTA--ATGTGTTTTTTTG
1 AACTTTGTATTTATGTAATGACTTTTTCGCCATTTAAGTTATTAATTTTAGGTTTTTTTTTTTTA
*
51783764 CTATTTAAATAGTC
66 CAATTTAAATAGTC
* * *
51783778 AACTTTGTATTTATGTAATTACTTTTTCACCATTTCAGTTATTAA-TTTATGGTTTTTTTTTTTT
1 AACTTTGTATTTATGTAATGACTTTTTCGCCATTTAAGTTATTAATTTTA-GGTTTTTTTTTTTT
*
51783842 GCAATTTAAATAGTC
65 ACAATTTAAATAGTC
* * *
51783857 AACTTTGTATTTATGAAATGACTTTTTTGCCATTTAATTTATTAATTTTAGGGTTTTTTTTTGTT
1 AACTTTGTATTTATGTAATGACTTTTTCGCCATTTAAGTTATTAATTTTA-GG----TTTTT-TT
*
51783922 TTTTTACAATTTACATAGTC
60 TTTTTACAATTTAAATAGTC
* *
51783942 AACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAGTTATTAATTTTAGG--TTTTTTTTTTA
1 AACTTTGTATTTATGTAATGACTTTTTCGCCATTTAAGTTATTAATTTTAGGTTTTTTTTTTTTA
51784005 CAATTTAAATAGTC
66 CAATTTAAATAGTC
* *
51784019 AACTTTGTATTTATGTAATGACTTTTTTGCTATTTCAA-TTATTAATTTTAAGGTTTTTTTT
1 AACTTTGTATTTATGTAATGACTTTTTCGCCATTT-AAGTTATTAATTTT-AGGTTTTTTTT
51784080 CAATTTAAAT
Statistics
Matches: 261, Mismatches: 28, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
76 42 0.16
77 66 0.25
78 7 0.03
79 62 0.24
80 12 0.05
84 7 0.03
85 65 0.25
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (79 bp):
AACTTTGTATTTATGTAATGACTTTTTCGCCATTTAAGTTATTAATTTTAGGTTTTTTTTTTTTA
CAATTTAAATAGTC
Found at i:51783979 original size:164 final size:162
Alignment explanation
Indices: 51783754--51784079 Score: 512
Period size: 162 Copynumber: 2.0 Consensus size: 162
51783744 TAATTTAATG
* * *
51783754 TGTTTTTTTGCTATTTAAATAGTCAACTTTGTATTTATGTAATTACTTTTTCACCATTTCAGTTA
1 TGTTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCACCATTTCAGTTA
*
51783819 TTAA-TTTATGGTTTTTTTTTTTTGCAATTTAAATAGTCAACTTTGTATTTATGAAATGACTTTT
66 TTAATTTTA-GG--TTTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGAAATGACTTTT
*
51783883 TTGCCATTT-AATTTATTAATTTTAGGGTTTTTTTT
128 TTGCCATTTCAA-TTATTAATTTTAAGGTTTTTTTT
* * *
51783918 TGTTTTTTTACAATTTACATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAGTTA
1 TGTTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCACCATTTCAGTTA
*
51783983 TTAATTTTAGGTTTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTTG
66 TTAATTTTAGGTTTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGAAATGACTTTTTTG
*
51784048 CTATTTCAATTATTAATTTTAAGGTTTTTTTT
131 CCATTTCAATTATTAATTTTAAGGTTTTTTTT
51784080 CAATTTAAAT
Statistics
Matches: 150, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
162 79 0.53
163 2 0.01
164 65 0.43
165 4 0.03
ACGTcount: A:0.25, C:0.09, G:0.10, T:0.56
Consensus pattern (162 bp):
TGTTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCACCATTTCAGTTA
TTAATTTTAGGTTTTTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGAAATGACTTTTTTG
CCATTTCAATTATTAATTTTAAGGTTTTTTTT
Found at i:51784051 original size:77 final size:76
Alignment explanation
Indices: 51783920--51784104 Score: 293
Period size: 77 Copynumber: 2.4 Consensus size: 76
51783910 TTTTTTTTTG
* *
51783920 TTTTTTTACAATTTACATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAGTTATT
1 TTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAATTATT
51783985 AATTTT-AGGTTT
66 AATTTTAAGG--T
*
51783997 TTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTTGCTATTTCAATTATT
1 TTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAATTATT
51784062 AATTTTAAGGT
66 AATTTTAAGGT
* *
51784073 TTTTTTT-CAATTTAAATAATAAACTTTGTATT
1 TTTTTTTACAATTTAAATAGTCAACTTTGTATT
51784105 ATTTACGTAA
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
75 23 0.23
76 8 0.08
77 68 0.67
78 3 0.03
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (76 bp):
TTTTTTTACAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTCGCTATTTCAATTATT
AATTTTAAGGT
Found at i:51787425 original size:18 final size:20
Alignment explanation
Indices: 51787394--51787433 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
51787384 AAGCACCACT
51787394 AATAAAATAATATT-TAAAA
1 AATAAAATAATATTATAAAA
51787413 AATAAAA-AATATTATAAAA
1 AATAAAATAATATTATAAAA
51787432 AA
1 AA
51787434 AGGTGAAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAAATAATATTATAAAA
Found at i:51789540 original size:21 final size:22
Alignment explanation
Indices: 51789514--51789558 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
51789504 GCAAAAAAAA
*
51789514 TTATTGTTTT-TCACTATTTTG
1 TTATTGTTTTCCCACTATTTTG
51789535 TTATTGTTTTCCCACTATTTTG
1 TTATTGTTTTCCCACTATTTTG
51789557 TT
1 TT
51789559 GTCATTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.13, C:0.13, G:0.09, T:0.64
Consensus pattern (22 bp):
TTATTGTTTTCCCACTATTTTG
Found at i:51791088 original size:3 final size:3
Alignment explanation
Indices: 51791080--51791105 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51791070 CTTTAGCAAA
51791080 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
51791106 ACATTAAATG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51793601 original size:13 final size:14
Alignment explanation
Indices: 51793583--51793653 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 14
51793573 AAACGTACAT
51793583 AAAAATATATATA-
1 AAAAATATATATAC
51793596 AAAAATATATATTTAC
1 AAAAATATATA--TAC
*
51793612 AACAATA-ATATA-
1 AAAAATATATATAC
*
51793624 AAATAATGATATGTAC
1 AAA-AAT-ATATATAC
51793640 ATAAAATATATATA
1 A-AAAATATATATA
51793654 TGTATATATC
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
12 2 0.04
13 16 0.35
14 1 0.02
15 15 0.33
16 10 0.22
17 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAAATATATATAC
Found at i:51793635 original size:28 final size:29
Alignment explanation
Indices: 51793586--51793653 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
51793576 CGTACATAAA
* *
51793586 AATATATATAAAAAATATATATTTACAAC
1 AATATATATAAAAAATAGATATGTACAAC
*
51793615 AATA-ATATAAAATAAT-GATATGTACATAA
1 AATATATATAAAA-AATAGATATGTACA-AC
51793644 AATATATATA
1 AATATATATA
51793654 TGTATATATC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 16 0.48
29 12 0.36
30 5 0.15
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (29 bp):
AATATATATAAAAAATAGATATGTACAAC
Found at i:51793645 original size:19 final size:19
Alignment explanation
Indices: 51793621--51793657 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
51793611 CAACAATAAT
51793621 ATAAAATA-ATGATATGTAC
1 ATAAAATATAT-ATATGTAC
51793640 ATAAAATATATATATGTA
1 ATAAAATATATATATGTA
51793658 TATATCTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (19 bp):
ATAAAATATATATATGTAC
Found at i:51793851 original size:3 final size:3
Alignment explanation
Indices: 51793837--51793966 Score: 63
Period size: 3 Copynumber: 43.3 Consensus size: 3
51793827 GAAAACACAC
* * * * *
51793837 AAT AAT ACT AAT AAT GAT AAT GAT AGT AAT AAT AAT ACT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * ** * * *
51793884 AA- ATGT AAT AGT GGT AAA AAT AAT -AT AAT AAT GAT AGT -AT GAAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
*
51793928 AAAT ATAT AAA AAT AA- AAT AAT AAAT AAT AAT AAT AAT A
1 -AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A
51793967 GCAAAATTAA
Statistics
Matches: 93, Mismatches: 25, Indels: 18
0.68 0.18 0.13
Matches are distributed among these distances:
2 8 0.09
3 73 0.78
4 12 0.13
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:51793930 original size:29 final size:29
Alignment explanation
Indices: 51793853--51793930 Score: 72
Period size: 29 Copynumber: 2.7 Consensus size: 29
51793843 ACTAATAATG
* *
51793853 ATAATGATAGTAAT-AATAATACTAATATA
1 ATAATGATAGT-ATGAATAAAAATAATATA
* *
51793882 ATAAATG-TAATAGTG-GTAAAAATAATATA
1 AT-AATGATAGTA-TGAATAAAAATAATATA
51793911 ATAATGATAGTATGAATAAA
1 ATAATGATAGTATGAATAAA
51793931 TATATAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
28 7 0.18
29 27 0.71
30 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.12, T:0.32
Consensus pattern (29 bp):
ATAATGATAGTATGAATAAAAATAATATA
Found at i:51793962 original size:13 final size:13
Alignment explanation
Indices: 51793925--51793964 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
51793915 TGATAGTATG
51793925 AATAAAT-AT-AT
1 AATAAATAATAAT
51793936 AA-AAATAA-AAT
1 AATAAATAATAAT
51793947 AATAAATAATAAT
1 AATAAATAATAAT
51793960 AATAA
1 AATAA
51793965 TAGCAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 4 0.16
11 7 0.28
12 6 0.24
13 8 0.32
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAATAAT
Found at i:51794609 original size:25 final size:26
Alignment explanation
Indices: 51794551--51794609 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
51794541 AAAAAAGGGT
* * *
51794551 AATTTTTTTTCCTTTTTTCTTTTAAA
1 AATTTATTTCCCTTTTTTCATTTAAA
*
51794577 AATATATTTCCCTTTTTT-ATTTAAA
1 AATTTATTTCCCTTTTTTCATTTAAA
*
51794602 TATTTATT
1 AATTTATT
51794610 ATGAAAATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 12 0.44
26 15 0.56
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.64
Consensus pattern (26 bp):
AATTTATTTCCCTTTTTTCATTTAAA
Found at i:51795926 original size:87 final size:87
Alignment explanation
Indices: 51795733--51796021 Score: 467
Period size: 87 Copynumber: 3.3 Consensus size: 87
51795723 CATGTGACTC
*
51795733 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAA
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTG--AAACATAAATTG-AAAAACAGAAA
*
51795798 TT--GAAAATACCTCAGCGTGTCCT
63 TTAAAAAAATACCTCAGCGTGTCCT
* * *
51795821 GAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTTGAAACATAAATTGAAAAACGGAAATTA
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTA
51795886 AAAAAATACCTCAGCGTGTCCT
66 AAAAAATACCTCAGCGTGTCCT
51795908 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAA-TA
1 GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTA
*
51795972 AAAAAATACCTCAGCCTGTCCT
66 AAAAAATACCTCAGCGTGTCCT
*
51795994 GAGGCTCAACTCACCTCTCGCAATATGA
1 GAGGCTCAACTCACCTCTCACAATATGA
51796022 ATTTTTTTGA
Statistics
Matches: 189, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
85 12 0.06
86 61 0.32
87 79 0.42
88 37 0.20
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (87 bp):
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTA
AAAAAATACCTCAGCGTGTCCT
Found at i:51796018 original size:86 final size:86
Alignment explanation
Indices: 51795645--51796021 Score: 463
Period size: 87 Copynumber: 4.3 Consensus size: 86
51795635 TCGGGAGCCA
* * * * ** * *
51795645 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGGAACTTAATTTGAAAAGTAG-ATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAACATAAATTGAAAAACAGAAATA
*** * *
51795709 TGCAAATACCTC-GACATGTGACTCG
64 AAAAAATACCTCAG-CGTGT-CCT-G
* *
51795734 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACATAAATTG-AAAAACAGAAAT
**
51795799 -TGAAAATACCTCAGCGTGTCCTG
63 AAAAAAATACCTCAGCGTGTCCTG
* *
51795822 AGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTTGAAACATAAATTGAAAAACGGAAATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAA-TAA
51795887 AAAAATACCTCAGCGTGTCCTG
65 AAAAATACCTCAGCGTGTCCTG
*
51795909 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATAAA
*
51795974 AAAATACCTCAGCCTGTCCTG
66 AAAATACCTCAGCGTGTCCTG
51795995 AGGCTCAACTCACCTCTCGCAATATGA
1 AGGCTCAACTCACCTCTCGCAATATGA
51796022 ATTTTTTTGA
Statistics
Matches: 258, Mismatches: 23, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
85 10 0.04
86 62 0.24
87 85 0.33
88 38 0.15
89 39 0.15
90 21 0.08
91 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATAAA
AAAATACCTCAGCGTGTCCTG
Found at i:51800380 original size:40 final size:40
Alignment explanation
Indices: 51800335--51800465 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
51800325 CGGAATATAA
51800335 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
51800375 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
51800415 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
51800455 CCGGATATAAT
1 CCGGATATAAT
51800466 TTCCAGCATG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51809168 original size:80 final size:80
Alignment explanation
Indices: 51809056--51809274 Score: 262
Period size: 80 Copynumber: 2.7 Consensus size: 80
51809046 GCTCGATTGT
* * * * * * *
51809056 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGATTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
51809121 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* * * *
51809136 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGCCTTC-GGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGATTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
51809200 AACTCGCACAAATGC
66 AACTCGCACAAATGC
* * * * *
51809215 CTTCGGGAATTGACCCGGA-TTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCC-GATTTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
51809275 CATCATTCGA
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 52 0.44
80 53 0.45
81 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAACCCGATTTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
AACTCGCACAAATGC
Found at i:51809184 original size:39 final size:40
Alignment explanation
Indices: 51809056--51809272 Score: 224
Period size: 40 Copynumber: 5.4 Consensus size: 40
51809046 GCTCGATTGT
* * * * * * *
51809056 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
* * *
51809096 CTTCGGGAATTAGCCCGGA-TTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCC-GATTTTGGTAACTCGCACAAATGC
51809136 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
*
51809176 CTTC-GGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
* * * * * *
51809215 CTTCGGGAATTGACCCGGA-TTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACTTAACCC-GATTTTGGTAAC-TCGCACAAATGC
*
51809256 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAACCCG
51809273 GACATCATTC
Statistics
Matches: 152, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 40 0.26
40 87 0.57
41 25 0.16
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAACCCGATTTTGGTAACTCGCACAAATGC
Done.