Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 193 of 222
Found at i:61691179 original size:10 final size:10
Alignment explanation
Indices: 61691164--61691210 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
61691154 GCTACTAATA
61691164 ACATTTTACC
1 ACATTTTACC
61691174 ACA-TTTACTC
1 ACATTTTAC-C
*
61691184 CCATTTTACC
1 ACATTTTACC
*
61691194 ATATTTTACC
1 ACATTTTACC
*
61691204 ATATTTT
1 ACATTTT
61691211 TAATATTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 5 0.16
10 22 0.69
11 5 0.16
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.47
Consensus pattern (10 bp):
ACATTTTACC
Found at i:61691989 original size:12 final size:12
Alignment explanation
Indices: 61691972--61692000 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
61691962 AAGCTGGAAC
61691972 AATGGAAATGGG
1 AATGGAAATGGG
61691984 AATGGAAATGGG
1 AATGGAAATGGG
61691996 AATGG
1 AATGG
61692001 GGGGATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.17
Consensus pattern (12 bp):
AATGGAAATGGG
Found at i:61696396 original size:67 final size:67
Alignment explanation
Indices: 61696288--61696421 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 67
61696278 TATATGAGAT
* * *
61696288 TGGGACATTTGATGTATTGAAAATTGAAATGAGACTCTATTAACTGTTTCGAGCTAAGTCGGATA
1 TGGGACATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAACTGTTTCGAGCTAAGTCAGATA
61696353 TA
66 TA
* * *
61696355 TGGGAGATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAATTGTTTCGGGCTAAGTCAGATA
1 TGGGACATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAACTGTTTCGAGCTAAGTCAGATA
61696420 TA
66 TA
61696422 GATGACATGC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.34
Consensus pattern (67 bp):
TGGGACATTTGATGTATTGAAAAGTGAAATGAGACCCTATTAACTGTTTCGAGCTAAGTCAGATA
TA
Found at i:61697795 original size:21 final size:22
Alignment explanation
Indices: 61697769--61697811 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
61697759 GAGTTGAATT
61697769 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
61697790 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
61697812 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:61697810 original size:20 final size:21
Alignment explanation
Indices: 61697769--61697812 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
61697759 GAGTTGAATT
*
61697769 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
61697790 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
61697810 TAA
1 TAA
61697813 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:61697965 original size:64 final size:64
Alignment explanation
Indices: 61697881--61698034 Score: 229
Period size: 64 Copynumber: 2.4 Consensus size: 64
61697871 ATATATATTT
* * *
61697881 AAAGTTCTTGAGCTGTATTTAATGTATCAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTTTTGAGCTGAATTTAATGTATCAATTTTACATACATATGTGGTTCAAATATAGGTTAC
* *
61697945 AAAGTTTTTGAGCTGAATTTAATGTATGAATTTTACATACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTTTTGAGCTGAATTTAATGTATCAATTTTACATACATATGTGGTTCAAATATAGGTTAC
*
61698009 AAA-TTCTTTAAGCTGAATTTTAATGT
1 AAAGTT-TTTGAGCTGAA-TTTAATGT
61698035 TGTAAATTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
63 2 0.02
64 72 0.88
65 8 0.10
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.42
Consensus pattern (64 bp):
AAAGTTTTTGAGCTGAATTTAATGTATCAATTTTACATACATATGTGGTTCAAATATAGGTTAC
Found at i:61698295 original size:41 final size:41
Alignment explanation
Indices: 61698177--61698283 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
61698167 ATCTGAGATT
* * *
61698177 TTCAGGCTTAATGCCTAGCAGGCTTGATGTCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
* *
61698218 TTTAGACTTTATGTCTAGCAAGCTTGATGTCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
61698259 TTCAGACTTTATGTCTAGCAGGCTT
1 TTCAGACTTTATGTCTAGCAGGCTT
61698284 TGTGCCGGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.36
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGTCGGTGAATTAC
Found at i:61700451 original size:20 final size:19
Alignment explanation
Indices: 61700396--61700443 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
61700386 ATGGCAAAGT
* *
61700396 TGAGAAATG-ATTATGAGA
1 TGAGAAATGAAATATGAAA
61700414 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
61700433 TGATGAAATGA
1 TGA-GAAATGA
61700444 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:61701012 original size:600 final size:598
Alignment explanation
Indices: 61699874--61701056 Score: 2312
Period size: 600 Copynumber: 2.0 Consensus size: 598
61699864 TTTTAATGAC
61699874 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
1 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
61699939 AACGCATGATGTGCCGATTATGAAAAAGTGATTTTTGATTTTTTTTTATGATTTATGTGACTACA
66 AACGCATGATGTGCCGATTATGAAAAAGTGATTTTTGATTTTTTTTTATGATTTATGTGACTACA
61700004 TATATGTTCGTTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAAT
131 TATATGTTCGTTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAAT
61700069 TGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCGA
196 TGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCGA
61700134 GGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCAATGAGGCACTGGATGCCAAT
261 GGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCAATGAGGCACTGGATGCCAAT
61700199 TTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTACT
326 TTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTACT
61700264 TCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCCG
391 TCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCCG
*
61700329 AGCCCGGGTTGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAAA
456 AGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAAA
61700394 GTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTGTA
521 GTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTGTA
61700459 TCTCATAGACATA
586 TCTCATAGACATA
61700472 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
1 TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
61700537 AACGCATGATGTGCCGATTATGAAAAAGTGATTTTTGATTTTTTTTTTTATGATTTATGTGACTA
66 AACGCATGATGTGCCGATTATGAAAAAGTGATTTTTGA--TTTTTTTTTATGATTTATGTGACTA
61700602 CATATATGTTCGTTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAA
129 CATATATGTTCGTTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAA
61700667 ATTGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTC
194 ATTGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTC
* *
61700732 GGGGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCGATGAGGCACTGGATGCCA
259 GAGGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCAATGAGGCACTGGATGCCA
61700797 ATTTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTA
324 ATTTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTA
*
61700862 CTTCTGATTTTTCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTC
389 CTTCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTC
61700927 CGAGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCA
454 CGAGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCA
61700992 AAGTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTG
519 AAGTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTG
61701057 AAATGAGTTC
Statistics
Matches: 579, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
598 103 0.18
600 476 0.82
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (598 bp):
TAAGTTGTATATAGAAATATAATGATAAGTCTATTAAATTCAGTCAATGTAAGTTATTGAATGTA
AACGCATGATGTGCCGATTATGAAAAAGTGATTTTTGATTTTTTTTTATGATTTATGTGACTACA
TATATGTTCGTTTTAAAATATGGAATAATTCATAAAGAGTTTATGTTAGCTTTATGATTTAAAAT
TGTTCGGATGTGTGCTTTGTTTAGTAATGCCTCGTAACTCTAATCTGACGACGGACACGGGTCGA
GGTGTTACATAGGAAGAGTTCAAGGATTTCTTCGACCTTGAGTCAATGAGGCACTGGATGCCAAT
TTGCTTCGGTTTAACCGATGAGACACTGGGTGTCAACTTATATAGCGCTGGGCGTAATTGTTACT
TCTGATTTTCCAATAAGGCATTGGGTGCTAAACTGGTTTGTTGATTGGATCCGTGTATCCGTCCG
AGCCCGGGTCGTGTTAATAGGAAAATTAAATAATGAATTTATGTGTTTGATATTGAGATGGCAAA
GTTGAGAAATGATTATGAGATGAGAAATGAAATATGAAATGATGAAATGAGATGTGAATTTTGTA
TCTCATAGACATA
Found at i:61701051 original size:20 final size:19
Alignment explanation
Indices: 61700996--61701043 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
61700986 ATGGCAAAGT
* *
61700996 TGAGAAATG-ATTATGAGA
1 TGAGAAATGAAATATGAAA
61701014 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
61701033 TGATGAAATGA
1 TGA-GAAATGA
61701044 GATGTGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 10 0.38
20 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:61707497 original size:30 final size:31
Alignment explanation
Indices: 61707456--61707518 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61707446 TGTGGGTAGT
* *
61707456 CCACGCGAGCTA-TTTTTTGGGCCGTGTGGA
1 CCACACGAGCTAGCTTTTTGGGCCGTGTGGA
61707486 CCACACGAGCTAGCTTTTTGGGCCGTGTGGA
1 CCACACGAGCTAGCTTTTTGGGCCGTGTGGA
61707517 CC
1 CC
61707519 TTTTGGGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.14, C:0.27, G:0.32, T:0.27
Consensus pattern (31 bp):
CCACACGAGCTAGCTTTTTGGGCCGTGTGGA
Found at i:61708240 original size:34 final size:34
Alignment explanation
Indices: 61708179--61708278 Score: 112
Period size: 33 Copynumber: 3.0 Consensus size: 34
61708169 TGTGTTTCCG
* *
61708179 AAAACATGACATTCTAATCTGATATATGTTTCTA
1 AAAATATGACATTCTAATCTGAAATATGTTTCTA
* * * *
61708213 AAAATATGATATTCCAATCCGAAATATG-TTCCA
1 AAAATATGACATTCTAATCTGAAATATGTTTCTA
* * *
61708246 GAAATATGACATTATGATCTGAAATATGTTTCT
1 AAAATATGACATTCTAATCTGAAATATGTTTCT
61708279 GATAATACAA
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
33 26 0.50
34 26 0.50
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (34 bp):
AAAATATGACATTCTAATCTGAAATATGTTTCTA
Found at i:61716366 original size:21 final size:21
Alignment explanation
Indices: 61716342--61716390 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
61716332 CCAATCAAGT
*
61716342 TACCATTTCTGACTCACTCCA
1 TACCATTTCTGACTCAATCCA
61716363 TACCATTTCTGACTCAATCCA
1 TACCATTTCTGACTCAATCCA
61716384 TACCATT
1 TACCATT
61716391 CCATATACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.35, G:0.04, T:0.35
Consensus pattern (21 bp):
TACCATTTCTGACTCAATCCA
Found at i:61722581 original size:17 final size:18
Alignment explanation
Indices: 61722541--61722585 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
61722531 TAAAATTTTA
* *
61722541 GGCCCATATTCTCATGTG
1 GGCCCACATGCTCATGTG
61722559 GGCCCACATGCTCATGT-
1 GGCCCACATGCTCATGTG
61722576 GGCCCACATG
1 GGCCCACATG
61722586 GCCTGGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.24
Consensus pattern (18 bp):
GGCCCACATGCTCATGTG
Found at i:61724847 original size:5 final size:6
Alignment explanation
Indices: 61724824--61724881 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
61724814 AAATATTGTG
* * **
61724824 ATAATT ATAATT ATAATT -TAATTT AAAATT ATTATT -TAAAA ATAATT
1 ATAATT ATAATT ATAATT ATAA-TT ATAATT ATAATT ATAATT ATAATT
61724871 ATAATT -TAATT
1 ATAATT ATAATT
61724882 TTGAAATTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
5 10 0.24
6 29 0.71
7 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:61724913 original size:35 final size:34
Alignment explanation
Indices: 61724830--61724914 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 34
61724820 TGTGATAATT
*
61724830 ATAATTATAATTTAATTTAAAATTATTATTTAAAA
1 ATAATTATAATTTAATTTAAAATTACTA-TTAAAA
*
61724865 ATAATTATAATTTAATTTTGAAATTACTA-TAAAA
1 ATAATTATAATTTAA-TTTAAAATTACTATTAAAA
* *
61724899 ATTATTTATTATTTAA
1 A-TAATTATAATTTAA
61724915 AAAATGGGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
34 6 0.14
35 27 0.61
36 11 0.25
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (34 bp):
ATAATTATAATTTAATTTAAAATTACTATTAAAA
Found at i:61735176 original size:25 final size:27
Alignment explanation
Indices: 61735117--61735176 Score: 78
Period size: 25 Copynumber: 2.4 Consensus size: 27
61735107 CAGGTAAGGC
61735117 TCCTTCTC-T-TTCTTCCGTTCTTCAT
1 TCCTTCTCTTCTTCTTCCGTTCTTCAT
61735142 TCCTT-T-TTCTTCTTCCGTTCTTCA-
1 TCCTTCTCTTCTTCTTCCGTTCTTCAT
61735166 T-CTTCTCTTCT
1 TCCTTCTCTTCT
61735177 CAGCATATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 3 0.10
24 4 0.13
25 24 0.77
ACGTcount: A:0.03, C:0.35, G:0.03, T:0.58
Consensus pattern (27 bp):
TCCTTCTCTTCTTCTTCCGTTCTTCAT
Found at i:61738079 original size:21 final size:21
Alignment explanation
Indices: 61738055--61738107 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
61738045 CGCTGTTTCT
* * *
61738055 AATCTCACTGCTATAGTATCC
1 AATCTCACCGCTACAGTAACC
*
61738076 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
61738097 AATCTCACCGC
1 AATCTCACCGC
61738108 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.34, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:61739097 original size:18 final size:17
Alignment explanation
Indices: 61739070--61739121 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
61739060 AAAATTAAAT
61739070 AAAAATATTAAAAATTAC
1 AAAAA-ATTAAAAATTAC
* *
61739088 AAAACAATTAGAAATTTAT
1 AAAA-AATTA-AAAATTAC
61739107 AAAAAATTAAAAATT
1 AAAAAATTAAAAATT
61739122 CTAAATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.17
18 13 0.45
19 11 0.38
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAAATTAAAAATTAC
Found at i:61741207 original size:33 final size:31
Alignment explanation
Indices: 61741169--61741231 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
61741159 TAATTATTTA
*
61741169 TATTTAAGAATATAATTTGTTATTTTAATAAAT
1 TATTTAAGAATACAA-TT-TTATTTTAATAAAT
* *
61741202 TATTTAATATTACAATTTTATTTTAATAAA
1 TATTTAAGAATACAATTTTATTTTAATAAA
61741232 AAATTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 13 0.48
32 2 0.07
33 12 0.44
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (31 bp):
TATTTAAGAATACAATTTTATTTTAATAAAT
Found at i:61741250 original size:31 final size:31
Alignment explanation
Indices: 61741188--61741252 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
61741178 ATATAATTTG
** * * *
61741188 TTATTTTAATAAATTATTTAATATTACAATT
1 TTATTTTAATAAAAAATTAAAAATAACAATT
*
61741219 TTATTTTAATAAAAAATTAAAAATAATAATT
1 TTATTTTAATAAAAAATTAAAAATAACAATT
61741250 TTA
1 TTA
61741253 AATAATATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
TTATTTTAATAAAAAATTAAAAATAACAATT
Found at i:61741278 original size:12 final size:12
Alignment explanation
Indices: 61741239--61741306 Score: 61
Period size: 12 Copynumber: 5.7 Consensus size: 12
61741229 AAAAAATTAA
61741239 AAATAATAATTTT
1 AAATAAT-ATTTT
*
61741252 AAATAATATTCT
1 AAATAATATTTT
61741264 AAAT-ATATTATT
1 AAATAATATT-TT
*
61741276 AAAAAATA-TTT
1 AAATAATATTTT
*
61741287 ATATTAATATTTT
1 A-AATAATATTTT
61741300 -AATAATA
1 AAATAATA
61741307 AATATATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 14 0.31
12 18 0.40
13 13 0.29
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (12 bp):
AAATAATATTTT
Found at i:61741301 original size:24 final size:24
Alignment explanation
Indices: 61741220--61741301 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
61741210 ATTACAATTT
* **
61741220 TATTTTAATAAAAAATTAAAAATAA
1 TATTTTAA-AAAATATTCTAAATAA
*
61741245 TAATTTTAAATAATATTCTAAAT-A
1 T-ATTTTAAAAAATATTCTAAATAA
*
61741269 TATTATTAAAAAATATT-TATATTAA
1 TATT-TTAAAAAATATTCTA-AATAA
61741294 TATTTTAA
1 TATTTTAA
61741302 TAATAAATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
23 5 0.11
24 19 0.40
25 16 0.34
26 7 0.15
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (24 bp):
TATTTTAAAAAATATTCTAAATAA
Found at i:61743360 original size:22 final size:21
Alignment explanation
Indices: 61743321--61743379 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
61743311 TTACAAAACA
* *
61743321 AAAAAAATCAAAAGAAT-AGAT
1 AAAAAAAT-AAAAAAATAAAAT
61743342 GAAAAAAATAAAATAAATAAAAT
1 -AAAAAAATAAAA-AAATAAAAT
61743365 AAAAAAATAAAAAAA
1 AAAAAAATAAAAAAA
61743380 CGATTCACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 7 0.21
22 23 0.70
23 3 0.09
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAAAATAAAAAAATAAAAT
Found at i:61744510 original size:50 final size:50
Alignment explanation
Indices: 61744456--61744614 Score: 151
Period size: 50 Copynumber: 3.2 Consensus size: 50
61744446 CCACCACACC
*
61744456 ATCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTTAATTGCAAT
1 ATCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCAAT
*** * ** * *
61744506 ATCAGGGAAACCAGATCCGCCGTTGTAGCTTCAAT-CTATTCCACTGCACT
1 ATCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCT-TTTAATTGCAAT
* * * * * *
61744556 -GCTAAGGAAGTAAGATCCACCATTGTGGCTTCAATCTTTTTAATTACAAT
1 ATC-AGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCAAT
61744606 ATCAGGGAA
1 ATCAGGGAA
61744615 ACCAGATTCG
Statistics
Matches: 80, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
49 3 0.04
50 75 0.94
51 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (50 bp):
ATCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCCTTTTAATTGCAAT
Found at i:61744522 original size:100 final size:100
Alignment explanation
Indices: 61744400--61744697 Score: 330
Period size: 100 Copynumber: 3.0 Consensus size: 100
61744390 TTTTTTCAAC
* * * * * *
61744400 TACAATGTCGGGGAAACTAGATCCGCTGTCGTAGCTTTAATCTGTTCCACCACAC--CATCAGGG
1 TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCACACTGC-T-AAGG
** *
61744463 AAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTTAAT
64 AAGTAAGATCCACCATTGTGGCTTCAATCCTTTTAAT
* * * **
61744500 TGCAATATCAGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTATTCCACTGCACTGCTAAGGAA
1 TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCACACTGCTAAGGAA
*
61744565 GTAAGATCCACCATTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCACCATTGTGGCTTCAATCCTTTTAAT
* * ** ** *
61744600 TACAATATCAGGGAAACCAGATTCGCCGTCATAGCTTCAATCTGTTCTGCTGCACTGCAAAGGAA
1 TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCACACTGCTAAGGAA
* * * *
61744665 GTAAGATCCGCCGTTGTGGCTTTAATCTTTTTA
66 GTAAGATCCACCATTGTGGCTTCAATCCTTTTA
61744698 CTTTTCAACC
Statistics
Matches: 170, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
100 168 0.99
101 1 0.01
102 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (100 bp):
TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACCACACTGCTAAGGAA
GTAAGATCCACCATTGTGGCTTCAATCCTTTTAAT
Found at i:61752453 original size:20 final size:20
Alignment explanation
Indices: 61752428--61752467 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
61752418 TAAAGGTCTT
61752428 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
61752448 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
61752468 ATGGGGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:61756955 original size:22 final size:21
Alignment explanation
Indices: 61756916--61756974 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
61756906 TTACAAAACA
* *
61756916 AAAAAAATCAAAAGAAT-AGAT
1 AAAAAAAT-AAAAAAATAAAAT
61756937 GAAAAAAATAAAATAAATAAAAT
1 -AAAAAAATAAAA-AAATAAAAT
61756960 AAAAAAATAAAAAAA
1 AAAAAAATAAAAAAA
61756975 CGATTCACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 7 0.21
22 23 0.70
23 3 0.09
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (21 bp):
AAAAAAATAAAAAAATAAAAT
Found at i:61758118 original size:100 final size:100
Alignment explanation
Indices: 61757996--61758293 Score: 411
Period size: 100 Copynumber: 3.0 Consensus size: 100
61757986 TTTGTTCAAC
* * * * ** *
61757996 TACAATGTCGGGGAAACTAGATCCGCCGTCGTAGCTTTAATCTGTTCCAC--CACACCATCAGGG
1 TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGC-T-AAGG
* *
61758059 AAGTAAGATCTGCCGTTGTGGCTTCAATCCTTTTAAT
64 AAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
61758096 TGCAATATCAGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTATTCCACTGCACTGCTAAGGAA
1 TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
* *
61758161 GTAAGATCCACCATTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
61758196 TACAATATCAGGGAAACCAGATCCGCCGTCATAGCTTCAATCTGTTCCGCTGCACTGCTAAGGAA
1 TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
61758261 GTAAGATCCGCCGTTGTGGCTTTAATCTTTTTA
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA
61758294 CTTTTCAACC
Statistics
Matches: 174, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 169 0.97
101 1 0.01
102 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
TACAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:61758233 original size:50 final size:50
Alignment explanation
Indices: 61758064--61758238 Score: 163
Period size: 50 Copynumber: 3.5 Consensus size: 50
61758054 CAGGGAAGTA
* * *
61758064 AGATCTGCCGTTGTGGCTTCAATCCTTTTAATTGCAATATCAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAACC
* ** * * * * ***
61758114 AGATCCGCCGTTGTAGCTTCAATCTATTCCACTGCACT-GCTAAGGAAGTA
1 AGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATATC-AGGGAAACC
* * * *
61758164 AGATCCACCATTGTGGCTTCAATCTTTTTAATTACAATATCAGGGAAACC
1 AGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAACC
**
61758214 AGATCCGCCGTCATAGCTTCAATCT
1 AGATCCGCCGTTGTAGCTTCAATCT
61758239 GTTCCGCTGC
Statistics
Matches: 91, Mismatches: 32, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
49 1 0.01
50 89 0.98
51 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATATCAGGGAAACC
Found at i:61765326 original size:12 final size:12
Alignment explanation
Indices: 61765311--61765336 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61765301 ATAATGTTGC
61765311 AATTAATAGATG
1 AATTAATAGATG
61765323 AATTAATAGATG
1 AATTAATAGATG
61765335 AA
1 AA
61765337 GGGTTGAAAC
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:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (12 bp):
AATTAATAGATG
Found at i:61767169 original size:12 final size:13
Alignment explanation
Indices: 61767151--61767192 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
61767141 AGGAAAGATT
61767151 TAATAATAATATA
1 TAATAATAATATA
61767164 -AATAATAACATATA
1 TAATAAT-A-ATATA
61767178 TACATAATAATATA
1 TA-ATAATAATATA
61767192 T
1 T
61767193 TAAAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.24
13 1 0.04
14 11 0.44
15 2 0.08
16 5 0.20
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATATA
Found at i:61767184 original size:16 final size:16
Alignment explanation
Indices: 61767159--61767196 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
61767149 TTTAATAATA
61767159 ATATAAATAATAACAT
1 ATATAAATAATAACAT
* *
61767175 ATATACATAATAATAT
1 ATATAAATAATAACAT
61767191 AT-TAAA
1 ATATAAA
61767197 GTTGAAGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATATAAATAATAACAT
Found at i:61767431 original size:16 final size:16
Alignment explanation
Indices: 61767386--61767432 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
61767376 TTAAAATAAT
61767386 ATTATATAATAAAATA
1 ATTATATAATAAAATA
*
61767402 ATGCATATACATAAAA-A
1 AT-TATATA-ATAAAATA
61767419 ATTATATAGATAAA
1 ATTATATA-ATAAA
61767433 TATATGAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 12 0.46
17 8 0.31
18 6 0.23
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (16 bp):
ATTATATAATAAAATA
Found at i:61767461 original size:18 final size:18
Alignment explanation
Indices: 61767440--61767474 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
61767430 AAATATATGA
61767440 ACTAAT-ATAAATAATAAC
1 ACTAATAAT-AATAATAAC
61767458 ACTAATAATAATAATAA
1 ACTAATAATAATAATAA
61767475 TAATGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (18 bp):
ACTAATAATAATAATAAC
Found at i:61768224 original size:22 final size:23
Alignment explanation
Indices: 61768182--61768226 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61768172 TATAAATCAC
61768182 CTTTCAAATTTTTGGTCTTTTTT
1 CTTTCAAATTTTTGGTCTTTTTT
* *
61768205 CTTTGAAATTTTT-GTTTTTTTT
1 CTTTCAAATTTTTGGTCTTTTTT
61768227 ATTCAATAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
CTTTCAAATTTTTGGTCTTTTTT
Found at i:61778098 original size:15 final size:15
Alignment explanation
Indices: 61778078--61778184 Score: 76
Period size: 15 Copynumber: 7.3 Consensus size: 15
61778068 AGGTTGCACA
61778078 TAGGGGTTCACACCT
1 TAGGGGTTCACACCT
* * *
61778093 TAGGGGTTTATA-CA
1 TAGGGGTTCACACCT
* *
61778107 TATGGGTTCACACTT
1 TAGGGGTTCACACCT
* *
61778122 TAGAGGTTCGCACCT
1 TAGGGGTTCACACCT
* * * *
61778137 TAGAGTTTCTCACAT
1 TAGGGGTTCACACCT
*
61778152 TA-GGGTTCGCACC-
1 TAGGGGTTCACACCT
*
61778165 TAGGGGTTCACACGT
1 TAGGGGTTCACACCT
61778180 TAGGG
1 TAGGG
61778185 TTTGCACCTG
Statistics
Matches: 68, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
13 2 0.03
14 26 0.38
15 40 0.59
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (15 bp):
TAGGGGTTCACACCT
Found at i:61778173 original size:14 final size:14
Alignment explanation
Indices: 61778154--61778225 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
61778144 TCTCACATTA
61778154 GGGTTCGCACCTAG
1 GGGTTCGCACCTAG
* *
61778168 GGGTTCACACGTTA-
1 GGGTTCGCAC-CTAG
*
61778182 GGGTTTGCACCT-G
1 GGGTTCGCACCTAG
* *
61778195 GGGTTCGTACATTA-
1 GGGTTCGCAC-CTAG
*
61778209 GGGTTCGCATCTAG
1 GGGTTCGCACCTAG
61778223 GGG
1 GGG
61778226 GTCACACCTT
Statistics
Matches: 42, Mismatches: 11, Indels: 10
0.67 0.17 0.16
Matches are distributed among these distances:
13 11 0.26
14 29 0.69
15 2 0.05
ACGTcount: A:0.15, C:0.21, G:0.36, T:0.28
Consensus pattern (14 bp):
GGGTTCGCACCTAG
Found at i:61778241 original size:28 final size:28
Alignment explanation
Indices: 61778058--61778241 Score: 138
Period size: 28 Copynumber: 6.5 Consensus size: 28
61778048 ATACAGGGGC
* *
61778058 CACACATATAAGGTT-GCACATAGGGGTT
1 CACACAT-TAGGGTTCGCACCTAGGGGTT
* *** * *
61778086 CACACCTTAGGGGTTTATACATATGGGTT
1 CACACATTA-GGGTTCGCACCTAGGGGTT
* * *
61778115 CACACTTTAGAGGTTCGCACCTTAGAGTTT
1 CACACATTAG-GGTTCGCACC-TAGGGGTT
*
61778145 CTCACATTAGGGTTCGCACCTAGGGGTT
1 CACACATTAGGGTTCGCACCTAGGGGTT
* *
61778173 CACACGTTAGGGTTTGCACCT-GGGGTT
1 CACACATTAGGGTTCGCACCTAGGGGTT
** * *
61778200 CGTACATTAGGGTTCGCATCTAGGGGGT
1 CACACATTAGGGTTCGCACCTAGGGGTT
* *
61778228 CACACCTTACGGTT
1 CACACATTAGGGTT
61778242 TACAAACTTA
Statistics
Matches: 121, Mismatches: 30, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
27 24 0.20
28 50 0.41
29 34 0.28
30 13 0.11
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (28 bp):
CACACATTAGGGTTCGCACCTAGGGGTT
Found at i:61780611 original size:19 final size:19
Alignment explanation
Indices: 61780587--61780624 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
61780577 TATTGTCTGA
61780587 GGTTCGCA-TACTGTAGGGG
1 GGTTCGCACTACT-TAGGGG
61780606 GGTTCGCACTACTTAGGGG
1 GGTTCGCACTACTTAGGGG
61780625 TCGCAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.16, C:0.18, G:0.39, T:0.26
Consensus pattern (19 bp):
GGTTCGCACTACTTAGGGG
Found at i:61783058 original size:5 final size:5
Alignment explanation
Indices: 61783048--61783076 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
61783038 TATTAAGTAT
61783048 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
61783077 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:61783769 original size:28 final size:29
Alignment explanation
Indices: 61783711--61783777 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
61783701 TAAAAAAATA
* *
61783711 ACCAAAATATTATAACTTTTTATTTTTTT
1 ACCAAAATATTATAAATTTTTATTTATTT
61783740 ACCAAAATATTATAAATTTTT-TTTATTT
1 ACCAAAATATTATAAATTTTTATTTATTT
*
61783768 ACTAAAATAT
1 ACCAAAATAT
61783778 ACAAAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
28 15 0.43
29 20 0.57
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (29 bp):
ACCAAAATATTATAAATTTTTATTTATTT
Found at i:61783923 original size:4 final size:4
Alignment explanation
Indices: 61783916--61784050 Score: 56
Period size: 4 Copynumber: 34.0 Consensus size: 4
61783906 GAAGGAGAGG
* * * *
61783916 GAAA GAAA GAAA GAAA GGAAG GAAG GAGA GCAAA GAAA G-AA -AAA GAAG
1 GAAA GAAA GAAA GAAA -GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA
*
61783964 GAAA GAAAA GGAAA G-GA GAAAA GAAA -AAA -AAA GAAA G-AA G-AA GAAGA
1 GAAA G-AAA -GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GAA-A
* *
61784011 GGAAA GGAGAG GAAA -AAA GAAA G-AA -AAA GAAG GAAA GAAA
1 -GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
61784051 AGGAAAGGAG
Statistics
Matches: 103, Mismatches: 12, Indels: 32
0.70 0.08 0.22
Matches are distributed among these distances:
3 25 0.24
4 52 0.50
5 21 0.20
6 5 0.05
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:61783962 original size:10 final size:10
Alignment explanation
Indices: 61783951--61784081 Score: 61
Period size: 10 Copynumber: 12.6 Consensus size: 10
61783941 GAGAGCAAAG
61783951 AAAGAAA-AA
1 AAAGAAAGAA
*
61783960 GAAGGAAAGAA
1 -AAAGAAAGAA
*
61783971 AAGGAAAGGAGA
1 AAAGAAA-GA-A
*
61783983 AAAGAAAAAA
1 AAAGAAAGAA
61783993 AAAGAAAGAA
1 AAAGAAAGAA
* *
61784003 GAAGAAGAGGA
1 AAAGAA-AGAA
* *
61784014 AAGGAGAGGAAA
1 AAAGA-AAG-AA
61784026 AAAGAAAGAA
1 AAAGAAAGAA
*
61784036 AAAGAAGGAA
1 AAAGAAAGAA
* *
61784046 AGA-AAAGGA
1 AAAGAAAGAA
*
61784055 AAGGAGAAGAGA
1 AAAGA-AAGA-A
61784067 AAA-AAAGAA
1 AAAGAAAGAA
*
61784076 GAAGAA
1 AAAGAA
61784082 GAAGCGGGAA
Statistics
Matches: 90, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
9 8 0.09
10 48 0.53
11 18 0.20
12 16 0.18
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:61783963 original size:27 final size:31
Alignment explanation
Indices: 61783906--61783966 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
61783896 TGGGGGGGGA
*
61783906 GAAGGAGAGGGAAAGAAAGAAAGAAAGGAAG
1 GAAGGAGAGGCAAAGAAAGAAAGAAAGGAAG
*
61783937 GAAGGAGA-GCAAAGAAAGAAAAAGAAGGAA
1 GAAGGAGAGGCAAAGAAAGAAAGA-AAGGAA
61783967 AGAAAAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.61, C:0.02, G:0.38, T:0.00
Consensus pattern (31 bp):
GAAGGAGAGGCAAAGAAAGAAAGAAAGGAAG
Found at i:61783968 original size:36 final size:37
Alignment explanation
Indices: 61783921--61784079 Score: 155
Period size: 36 Copynumber: 4.2 Consensus size: 37
61783911 AGAGGGAAAG
* *
61783921 AAAGAAAGAAAG-GAAGG-AAGGAGAGCAAAGAAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGGAGAG-AAAGAAAGAA
*
61783957 AAAGAAGGAAAGAAAAGGAAAGGAGA-AAAGAAAAAA
1 AAAGAAGGAAAGAAAAGGAAAGGAGAGAAAGAAAGAA
* *
61783993 AAAGAAAGAAGAAGAAGAGGAAAGGAGAGGAAAAAAGAAAGAA
1 AAAG-AAGGA-AAGAAAAGGAAAGGAGA-G---AAAGAAAGAA
* *
61784036 AAAGAAGGAAAGAAAAGGAAAGGAGA-AGAGAAAAAA
1 AAAGAAGGAAAGAAAAGGAAAGGAGAGAAAGAAAGAA
61784072 AGAAGAAG
1 A-AAGAAG
61784080 AAGAAGCGGG
Statistics
Matches: 103, Mismatches: 10, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
36 33 0.32
37 14 0.14
38 23 0.22
41 16 0.16
42 4 0.04
43 13 0.13
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (37 bp):
AAAGAAGGAAAGAAAAGGAAAGGAGAGAAAGAAAGAA
Found at i:61783994 original size:22 final size:23
Alignment explanation
Indices: 61783947--61784010 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
61783937 GAAGGAGAGC
* *
61783947 AAAGAAAGAAAAAGAAGGAAAGAA
1 AAAGAAAGAAGAAGAA-GAAAAAA
* *
61783971 AAGGAAAGGAGAA-AAGAAAAAA
1 AAAGAAAGAAGAAGAAGAAAAAA
61783993 AAAGAAAGAAGAAGAAGA
1 AAAGAAAGAAGAAGAAGA
61784011 GGAAAGGAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 17 0.52
23 6 0.18
24 10 0.30
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAGAAGAAGAAAAAA
Found at i:61784029 original size:43 final size:42
Alignment explanation
Indices: 61783951--61784113 Score: 148
Period size: 43 Copynumber: 4.0 Consensus size: 42
61783941 GAGAGCAAAG
* * *
61783951 AAAGAAAAAGAAGGAA-AGAAAAGGAAAGGAGAAAAGAAAAAA
1 AAAGAAGAAGAA-GAAGAGGAAAGGAAAGGAAAAAAGAAAAAA
* *
61783993 AAAGAAAGAAGAAGAAGAGGAAAGGAGAGGAAAAAAGAAAGAA
1 AAAG-AAGAAGAAGAAGAGGAAAGGAAAGGAAAAAAGAAAAAA
* *
61784036 AAAGAAG--G-A-AAGA--AAAGGAAAGG--AGAAGAGAAAA
1 AAAGAAGAAGAAGAAGAGGAAAGGAAAGGAAAAAAGAAAAAA
* *
61784070 AAAGAAGAAGAAGAAGCGGGAAGG-AAGGAAAAAAAGAAAAAA
1 AAAGAAGAAGAAGAAGAGGAAAGGAAAGG-AAAAAAGAAAAAA
61784112 AA
1 AA
61784114 TATAATTTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
34 15 0.15
36 10 0.10
37 1 0.01
38 7 0.07
39 5 0.05
40 5 0.05
42 21 0.22
43 33 0.34
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (42 bp):
AAAGAAGAAGAAGAAGAGGAAAGGAAAGGAAAAAAGAAAAAA
Found at i:61784038 original size:79 final size:76
Alignment explanation
Indices: 61783926--61784113 Score: 258
Period size: 79 Copynumber: 2.5 Consensus size: 76
61783916 GAAAGAAAGA
**
61783926 AAGAA-AGG-AAGGAAGGAGAGCAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAAAGAA
1 AAGAAGAGGAAAGGAAGGA-AAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAG--AAGAA
61783989 AAAAAAAGAAAGAAG
63 AAAAAAAG-AAGAAG
*
61784004 AAGAAGAGGAAAGGAGAGG-AAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAGAA
1 AAGAAGAGGAAAGGA-AGGAAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAA
61784068 AAAAAGAAGAAG
65 AAAAAGAAGAAG
* *
61784080 AAGAAGCGGGAAGGAAGGAAAAAAAGAAA-AAAAA
1 AAGAAGAGGAAAGGAAGGAAAAAAAGAAAGAAAAA
61784114 TATAATTTTT
Statistics
Matches: 101, Mismatches: 5, Indels: 11
0.86 0.04 0.09
Matches are distributed among these distances:
75 8 0.08
76 29 0.29
77 12 0.12
78 5 0.05
79 39 0.39
80 5 0.05
81 3 0.03
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (76 bp):
AAGAAGAGGAAAGGAAGGAAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAA
AAAAGAAGAAG
Found at i:61789059 original size:42 final size:42
Alignment explanation
Indices: 61789000--61789083 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
61788990 CCACCTGCAC
61789000 AAGTGGCTTGCAGTGGGGAAATGCCCGCACACATGGATCAAA
1 AAGTGGCTTGCAGTGGGGAAATGCCCGCACACATGGATCAAA
61789042 AAGTGGCTTGCAGTGGGGAAATGCCCGCACACATGGATCAAA
1 AAGTGGCTTGCAGTGGGGAAATGCCCGCACACATGGATCAAA
61789084 CGTCCAGAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.17
Consensus pattern (42 bp):
AAGTGGCTTGCAGTGGGGAAATGCCCGCACACATGGATCAAA
Found at i:61791273 original size:52 final size:48
Alignment explanation
Indices: 61791254--61791456 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
61791244 TGACAAGTGG
* *
61791254 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
61791300 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
61791352 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
61791398 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
61791444 AAAGTGATAAGTG
1 AAAGTGATAAGTG
61791457 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:61791308 original size:98 final size:98
Alignment explanation
Indices: 61791188--61791456 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
61791178 TTTGAGTACT
*
61791188 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
61791253 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
61791286 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
61791351 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
61791384 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
61791449 GATAAGTG
65 GAAAAGTG
61791457 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:61791464 original size:37 final size:37
Alignment explanation
Indices: 61791420--61791528 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
61791410 GATAGCTTTA
61791420 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
61791457 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
61791494 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
61791529 ATCATACGTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:61793767 original size:3 final size:3
Alignment explanation
Indices: 61793759--61793787 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61793749 TCTTAATACT
61793759 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
61793788 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:61794088 original size:27 final size:27
Alignment explanation
Indices: 61794016--61794089 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
61794006 AACACGAGTA
*
61794016 GTGCCGCCAATCA-GTATGGCACCATTG
1 GTGCCGCCAATCACCT-TGGCACCATTG
** * **
61794043 GTGCCGCCAATGGCTTTGGCACTTTTG
1 GTGCCGCCAATCACCTTGGCACCATTG
61794070 GTGCCGCCAATCACCTTGGC
1 GTGCCGCCAATCACCTTGGC
61794090 CTGACCAGGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.26
Consensus pattern (27 bp):
GTGCCGCCAATCACCTTGGCACCATTG
Found at i:61794192 original size:27 final size:28
Alignment explanation
Indices: 61794162--61794226 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
61794152 TTTTTTTGGT
* *
61794162 ATATTTTGGTAAAT-AAAAAAATTTATA
1 ATATTTTAGTAAATAAAAAAAAGTTATA
61794189 ATATTTTAGTAAATAAAAAAAAGTTATA
1 ATATTTTAGTAAATAAAAAAAAGTTATA
61794217 ATATTTTAGT
1 ATATTTTAGT
61794227 TATTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (28 bp):
ATATTTTAGTAAATAAAAAAAAGTTATA
Found at i:61794533 original size:31 final size:31
Alignment explanation
Indices: 61794480--61794538 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
61794470 CCGAATATAA
*
61794480 TAAATATATATTTTTTAATTTTAAAATACAT
1 TAAAAATATATTTTTTAATTTTAAAATACAT
* *
61794511 TAAAAATATTTTTTTTATTTTTAAAATA
1 TAAAAATATATTTTTTAATTTTAAAATA
61794539 TTTTTTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (31 bp):
TAAAAATATATTTTTTAATTTTAAAATACAT
Found at i:61795192 original size:9 final size:9
Alignment explanation
Indices: 61795161--61795211 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 9
61795151 TAAAAAATCT
*
61795161 TTAAAATAA
1 TTAAAATTA
*
61795170 TTATAAAGTA
1 TTA-AAATTA
61795180 TTAAAATTA
1 TTAAAATTA
61795189 TTAAAAATATA
1 TT-AAAAT-TA
61795200 TTAAAATTA
1 TTAAAATTA
61795209 TTA
1 TTA
61795212 TTTTAGCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 15 0.42
10 17 0.47
11 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (9 bp):
TTAAAATTA
Found at i:61795272 original size:23 final size:23
Alignment explanation
Indices: 61795227--61795277 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
61795217 GCATAAATTT
*
61795227 TAATAATTTTAATATAATCTTAA
1 TAATAATTTTAACATAATCTTAA
* * *
61795250 TAATTATTTTAACATGATTTTAA
1 TAATAATTTTAACATAATCTTAA
61795273 -AATAA
1 TAATAA
61795278 AATCGGAGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATAATTTTAACATAATCTTAA
Found at i:61796099 original size:7 final size:7
Alignment explanation
Indices: 61796087--61796140 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
61796077 GGTTCAAAAC
61796087 AAAATAA
1 AAAATAA
61796094 AAAATAA
1 AAAATAA
61796101 AAAATAA
1 AAAATAA
*
61796108 AAAAAAA
1 AAAATAA
*
61796115 TTAAAATTA
1 --AAAATAA
*
61796124 AAAAT-T
1 AAAATAA
61796130 AAAATAA
1 AAAATAA
61796137 AAAA
1 AAAA
61796141 AATTAAAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 5 0.13
7 29 0.74
9 5 0.13
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (7 bp):
AAAATAA
Found at i:61796102 original size:6 final size:6
Alignment explanation
Indices: 61796087--61796139 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
61796077 GGTTCAAAAC
* * *
61796087 AAAATAA AAAATAA AAAATA AAAA-A AAATTA AAATTA AAAATT AAAATA
1 AAAAT-A AAAAT-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
61796136 AAAA
1 AAAA
61796140 AAATTAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
5 4 0.10
6 25 0.61
7 12 0.29
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:61796109 original size:13 final size:13
Alignment explanation
Indices: 61796094--61796140 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
61796084 AACAAAATAA
61796094 AAAATAAAAAA-T
1 AAAATAAAAAATT
61796106 -AAA-AAAAAATT
1 AAAATAAAAAATT
*
61796117 AAAATTAAAAATT
1 AAAATAAAAAATT
61796130 AAAATAAAAAA
1 AAAATAAAAAA
61796141 AATTAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 6 0.20
11 4 0.13
12 3 0.10
13 17 0.57
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAATAAAAAATT
Found at i:61796114 original size:24 final size:24
Alignment explanation
Indices: 61796082--61796139 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
61796072 GGGCAGGTTC
*
61796082 AAAACAAAATAAAAAATAAAAAAT
1 AAAAAAAAATAAAAAATAAAAAAT
* * *
61796106 AAAAAAAAATTAAAATTAAAAATT
1 AAAAAAAAATAAAAAATAAAAAAT
61796130 AAAATAAAAA
1 AAAA-AAAAA
61796140 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAAAAAATAAAAAATAAAAAAT
Found at i:61796156 original size:22 final size:23
Alignment explanation
Indices: 61796092--61796167 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 23
61796082 AAAACAAAAT
* *
61796092 AAAAAA-TAAAAAATAAAA-AAA
1 AAAAAATTAAAAATTAAAATCAA
61796113 AATTAAAATTAAAAATTAAAAT-AA
1 AA--AAAATTAAAAATTAAAATCAA
* *
61796137 AAAAAATT-AAAATCTTAAATCCA
1 AAAAAATTAAAAAT-TAAAATCAA
61796160 AAAAAATT
1 AAAAAATT
61796168 GATTTTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
21 7 0.15
22 11 0.24
23 13 0.28
24 15 0.33
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAAAATTAAAAATTAAAATCAA
Found at i:61796156 original size:28 final size:29
Alignment explanation
Indices: 61796087--61796149 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 29
61796077 GGTTCAAAAC
* *
61796087 AAAATAAAAAATAAAAAATAAAAAAAAATT
1 AAAATTAAAAAT-TAAAATAAAAAAAAATT
61796117 AAAATTAAAAATTAAAAT-AAAAAAAATT
1 AAAATTAAAAATTAAAATAAAAAAAAATT
61796145 AAAAT
1 AAAAT
61796150 CTTAAATCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 15 0.48
29 5 0.16
30 11 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (29 bp):
AAAATTAAAAATTAAAATAAAAAAAAATT
Found at i:61797136 original size:3 final size:3
Alignment explanation
Indices: 61797128--61797153 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61797118 GCAGTACATC
61797128 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
61797154 CCCAAACCAG
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:61801416 original size:23 final size:23
Alignment explanation
Indices: 61801364--61801417 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
61801354 GTAATTATAA
*
61801364 ATACATGTGTAATAAATATATGT
1 ATACATTTGTAATAAATATATGT
*
61801387 ATACATTTGTAATTAATATATGT
1 ATACATTTGTAATAAATATATGT
61801410 ATACATTT
1 ATACATTT
61801418 ATATATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (23 bp):
ATACATTTGTAATAAATATATGT
Found at i:61801428 original size:23 final size:23
Alignment explanation
Indices: 61801364--61801425 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
61801354 GTAATTATAA
* * *
61801364 ATACATGTGTAATAAATATATGT
1 ATACATTTATAATTAATATATGT
*
61801387 ATACATTTGTAATTAATATATGT
1 ATACATTTATAATTAATATATGT
61801410 ATACATTTATATATTA
1 ATACATTTATA-ATTA
61801426 TATTATTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 31 0.89
24 4 0.11
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (23 bp):
ATACATTTATAATTAATATATGT
Found at i:61801477 original size:18 final size:18
Alignment explanation
Indices: 61801444--61801482 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
61801434 TTAATTAAAC
61801444 AAAAGAAAGAAATGAAAAT
1 AAAAGAAAGAAATG-AAAT
*
61801463 AAAAGAAA-CAATGAAAT
1 AAAAGAAAGAAATGAAAT
61801480 AAA
1 AAA
61801483 GATTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 4 0.21
19 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAGAAAGAAATGAAAT
Found at i:61805727 original size:20 final size:20
Alignment explanation
Indices: 61805702--61805748 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
61805692 ACTCAGAAGG
61805702 ACTTCTATC-ATTATAAGTCC
1 ACTTCTATCGA-TATAAGTCC
*
61805722 ACTTCTGTCGATATAAGTCC
1 ACTTCTATCGATATAAGTCC
61805742 ACTTCTA
1 ACTTCTA
61805749 CCCATACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (20 bp):
ACTTCTATCGATATAAGTCC
Found at i:61813041 original size:37 final size:36
Alignment explanation
Indices: 61812986--61813140 Score: 157
Period size: 37 Copynumber: 4.2 Consensus size: 36
61812976 AGTATGCTTT
*
61812986 ATCGAGCCAAATCTTACCGTTATACTGAATAAAGCTCA
1 ATCGAG-CAAAT-TTACCGTTATACTGAATGAAGCTCA
61813024 ATCGAGCAAATTATACCGTTATACTGAATGAAGCTCA
1 ATCGAGCAAATT-TACCGTTATACTGAATGAAGCTCA
* * ** * *
61813061 ATTGAGCAAACCTTACTATTATACTGAATGATGTTCA
1 ATCGAGCAAA-TTTACCGTTATACTGAATGAAGCTCA
* * * *
61813098 ATAGAGCAAATTCTACTGTAATACTGAGTGAAGCTCA
1 ATCGAGCAAATT-TACCGTTATACTGAATGAAGCTCA
*
61813135 AACGAG
1 ATCGAG
61813141 TAGAAATCTA
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
36 2 0.02
37 89 0.91
38 7 0.07
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (36 bp):
ATCGAGCAAATTTACCGTTATACTGAATGAAGCTCA
Found at i:61821403 original size:21 final size:21
Alignment explanation
Indices: 61821353--61821412 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
61821343 TTTACATGGT
* *
61821353 CGTGCGATAGAGGCACACGCC
1 CGTGCGAAAGAGGCACACACC
* * *
61821374 CATGTGAAAGGGGCACACACC
1 CGTGCGAAAGAGGCACACACC
*
61821395 CGTGCGAAAAGACGCACA
1 CGTGCG-AAAGAGGCACA
61821413 TGCCCGTGTG
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.32, C:0.30, G:0.30, T:0.08
Consensus pattern (21 bp):
CGTGCGAAAGAGGCACACACC
Found at i:61828706 original size:3 final size:3
Alignment explanation
Indices: 61828693--61828725 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
61828683 CTTTGCTAAA
*
61828693 ATC ACC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
61828726 TACTTCTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (3 bp):
ATC
Found at i:61844330 original size:18 final size:18
Alignment explanation
Indices: 61844309--61844357 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
61844299 AAAAAATCAA
61844309 AAAAATATATAAAAATTG
1 AAAAATATATAAAAATTG
* *
61844327 -AAAATGTTATAAAAATTT
1 AAAAAT-ATATAAAAATTG
*
61844345 AAAAATATTTAAA
1 AAAAATATATAAA
61844358 TTTCAAGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.20
18 15 0.60
19 5 0.20
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAATATATAAAAATTG
Found at i:61844576 original size:18 final size:20
Alignment explanation
Indices: 61844555--61844593 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
61844545 TAAATTTTTA
61844555 TTTTTATA-ATT-TATATAT
1 TTTTTATAGATTATATATAT
*
61844573 TTTTTCTAGATTATATATAT
1 TTTTTATAGATTATATATAT
61844593 T
1 T
61844594 ATATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTATAGATTATATATAT
Found at i:61850922 original size:6 final size:6
Alignment explanation
Indices: 61850911--61850965 Score: 56
Period size: 7 Copynumber: 8.5 Consensus size: 6
61850901 TTTTCTTAAA
* *
61850911 TTTATT TTTATT TTTATTT TTTCATT TTTCATT TTTTTT TGTTTTT TTTATT
1 TTTATT TTTATT TTTA-TT TTT-ATT TTT-ATT TTTATT T-TTATT TTTATT
61850963 TTT
1 TTT
61850966 TTATATATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
6 20 0.45
7 23 0.52
8 1 0.02
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:61850931 original size:7 final size:7
Alignment explanation
Indices: 61850911--61850966 Score: 57
Period size: 6 Copynumber: 8.4 Consensus size: 7
61850901 TTTTCTTAAA
61850911 TTTA-TT
1 TTTATTT
61850917 TTTA-TT
1 TTTATTT
61850923 TTTATTT
1 TTTATTT
61850930 TTTCATTT
1 TTT-ATTT
*
61850938 TTCATTT
1 TTTATTT
61850945 TTT-TTT
1 TTTATTT
*
61850951 GTT-TTT
1 TTTATTT
61850957 TTTATTT
1 TTTATTT
61850964 TTT
1 TTT
61850967 TATATATCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
6 20 0.47
7 17 0.40
8 6 0.14
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:61859075 original size:49 final size:49
Alignment explanation
Indices: 61859017--61859195 Score: 202
Period size: 49 Copynumber: 3.7 Consensus size: 49
61859007 AAGGAAAAGG
61859017 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAGAAA
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAGAAA
* *
61859066 GACCAAGGCGAAAACCCGTAAAGAGCGCTTTGAGTCCT--AAAAA-AAA
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAGAAA
*** * * *
61859112 GACCAAATAGAAAACTCGCAAATGGCGCTTTGAGTCCTAAAAAAAGGAGA
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAA-GAAA
* * * * * *
61859162 GGCCAATGTGAAAACCCGTAAAGGGAGCCTTGAG
1 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAG
61859196 ACCAAAGGGG
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
46 34 0.32
47 5 0.05
48 5 0.05
49 36 0.34
50 27 0.25
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.13
Consensus pattern (49 bp):
GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAGAAA
Found at i:61859140 original size:46 final size:45
Alignment explanation
Indices: 61859017--61859156 Score: 163
Period size: 46 Copynumber: 3.0 Consensus size: 45
61859007 AAGGAAAAGG
* *
61859017 GACCAAGGCGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAGAAA
1 GACCAAAGAGAAAACCCGCAAA-GGCGCTTTGAGTCCT--AAAAA-AAA
* * *
61859066 GACCAAGGCGAAAACCCGTAAAGAGCGCTTTGAGTCCTAAAAAAAA
1 GACCAAAGAGAAAACCCGCAAAG-GCGCTTTGAGTCCTAAAAAAAA
* *
61859112 GACCAAATAGAAAACTCGCAAATGGCGCTTTGAGTCCTAAAAAAA
1 GACCAAAGAGAAAACCCGCAAA-GGCGCTTTGAGTCCTAAAAAAA
61859157 GGAGAGGCCA
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
46 41 0.49
47 6 0.07
48 1 0.01
49 35 0.42
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.14
Consensus pattern (45 bp):
GACCAAAGAGAAAACCCGCAAAGGCGCTTTGAGTCCTAAAAAAAA
Found at i:61860587 original size:89 final size:87
Alignment explanation
Indices: 61860416--61860618 Score: 262
Period size: 89 Copynumber: 2.3 Consensus size: 87
61860406 TTTATGGCGG
* *
61860416 ATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTAATCTTACCCCCTGAAGTTGCA
1 ATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACTAATCCTACCCCCTGAAGTTGCA
*
61860481 GTGGGGTAGATTAAAGTTACAA
66 GTGGAGTAGATTAAAGTTACAA
* * * * * * ** *
61860503 ATTTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAGGATAACTAATCCTATCTTCCTGAGGTTG
1 ATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAACTAATCCTA-CCCCCTGAAGTTG
*
61860568 CAGTGGAGTAGATTGAAGTTACAA
64 CAGTGGAGTAGATTAAAGTTACAA
*
61860592 GTCTTATCCCCCTGAAGTTGCAGTGGA
1 ATCTTATCCCCCTGAAGTTGCAGTGGA
61860619 TTAGACTGAA
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
87 33 0.34
88 9 0.09
89 55 0.57
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (87 bp):
ATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAACTAATCCTACCCCCTGAAGTTGCA
GTGGAGTAGATTAAAGTTACAA
Found at i:61860629 original size:44 final size:44
Alignment explanation
Indices: 61860416--61860629 Score: 225
Period size: 44 Copynumber: 4.9 Consensus size: 44
61860406 TTTATGGCGG
* * **
61860416 ATCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCACTA
1 ATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTA
* * *
61860460 ATCTTA-CCCCCTGAAGTTGCAGTGGGGTAGATTAAAGTTACAA
1 ATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTA
* * * * * *
61860503 ATTTTGTCTCCCTGAAGTTGCAGTGGAGCAGATTGAGGATAACTA
1 ATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAG-TTACTA
* ** *
61860548 ATCCTATCTTCCTGAGGTTGCAGTGGAGTAGATTGAAGTTAC-A
1 ATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTA
* *
61860591 AGTCTTATCCCCCTGAAGTTGCAGTGGATTAGACTGAAG
1 A-TCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAG
61860630 ATAGCATATC
Statistics
Matches: 139, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
43 38 0.27
44 66 0.47
45 35 0.25
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
ATCTTATCCCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTA
Found at i:61868593 original size:8 final size:8
Alignment explanation
Indices: 61868580--61868624 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
61868570 CTTTGCCTAC
*
61868580 TTATTTTT
1 TTATTTTA
*
61868588 TTA-TTTG
1 TTATTTTA
*
61868595 TTATTTTG
1 TTATTTTA
61868603 TTATTTTA
1 TTATTTTA
61868611 TTATTTTA
1 TTATTTTA
61868619 TTATTT
1 TTATTT
61868625 CTGGCATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (8 bp):
TTATTTTA
Found at i:61871086 original size:30 final size:30
Alignment explanation
Indices: 61871052--61871113 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
61871042 TTAACTTTTT
61871052 TTAATGTTTGAATCTCAGAGAA-TCTGATTC
1 TTAATGTTTGAATCTCAGAGAATTC-GATTC
61871082 TTAATGTTTGAATCTCAGAGAATTCGATTC
1 TTAATGTTTGAATCTCAGAGAATTCGATTC
61871112 TT
1 TT
61871114 GGAGAATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (30 bp):
TTAATGTTTGAATCTCAGAGAATTCGATTC
Found at i:61874334 original size:72 final size:72
Alignment explanation
Indices: 61874217--61874472 Score: 503
Period size: 72 Copynumber: 3.6 Consensus size: 72
61874207 ACAACTTGAC
*
61874217 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61874282 ACTAACA
66 ACTAACA
61874289 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61874354 ACTAACA
66 ACTAACA
61874361 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61874426 ACTAACA
66 ACTAACA
61874433 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
61874473 AATAATAATA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 183 1.00
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:61874481 original size:3 final size:3
Alignment explanation
Indices: 61874473--61874504 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61874463 ATTACATCCA
61874473 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61874505 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61878800 original size:34 final size:34
Alignment explanation
Indices: 61878762--61878872 Score: 82
Period size: 34 Copynumber: 3.1 Consensus size: 34
61878752 CATTACATCC
61878762 ACTTAAAATAAATCACCACCTACTACACTAACAA
1 ACTTAAAATAAATCACCACCTACTACACTAACAA
** * * * * * *
61878796 ACTT-AGTTGGAAT-ACAACCAAGTTACATCATTACATCC
1 ACTTAAAAT-AAATCACCACCTA-CTACA-C-TAACA--A
61878834 ACTTAAAATAAATCACCACCTACTACACTAACAA
1 ACTTAAAATAAATCACCACCTACTACACTAACAA
61878868 ACTTA
1 ACTTA
61878873 GTTGGAATAC
Statistics
Matches: 53, Mismatches: 16, Indels: 16
0.62 0.19 0.19
Matches are distributed among these distances:
33 8 0.15
34 16 0.30
35 1 0.02
36 8 0.15
37 1 0.02
38 11 0.21
39 8 0.15
ACGTcount: A:0.45, C:0.27, G:0.04, T:0.24
Consensus pattern (34 bp):
ACTTAAAATAAATCACCACCTACTACACTAACAA
Found at i:61878840 original size:72 final size:72
Alignment explanation
Indices: 61878723--61878978 Score: 485
Period size: 72 Copynumber: 3.6 Consensus size: 72
61878713 ACAACTTGAC
* *
61878723 AACTTAGTTGGAATACAACTAAATTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61878788 ACTAACA
66 ACTAACA
*
61878795 AACTTAGTTGGAATACAACCAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61878860 ACTAACA
66 ACTAACA
61878867 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
61878932 ACTAACA
66 ACTAACA
61878939 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
61878979 AATAATAATA
Statistics
Matches: 180, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 180 1.00
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:61878987 original size:3 final size:3
Alignment explanation
Indices: 61878979--61879013 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61878969 ATTACATCCA
61878979 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61879014 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61882121 original size:3 final size:3
Alignment explanation
Indices: 61882113--61882165 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
61882103 AAATTGAATG
61882113 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61882161 TAA TA
1 TAA TA
61882166 GTATGTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:61886924 original size:16 final size:16
Alignment explanation
Indices: 61886903--61886956 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
61886893 ACAATAGTAG
61886903 TAATTACACTTTCATT
1 TAATTACACTTTCATT
*
61886919 TAATTACTACTTT-A-G
1 TAATTAC-ACTTTCATT
* *
61886934 TAGTTACATTTTCATT
1 TAATTACACTTTCATT
61886950 TAATTAC
1 TAATTAC
61886957 TCTATGTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 4 0.13
15 7 0.23
16 14 0.47
17 5 0.17
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (16 bp):
TAATTACACTTTCATT
Found at i:61891731 original size:18 final size:17
Alignment explanation
Indices: 61891704--61891739 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
61891694 ATAAAATACT
*
61891704 ATTAAGATTAAGTATTAA
1 ATTAAAATTAA-TATTAA
61891722 ATTAAAATTAATATTAA
1 ATTAAAATTAATATTAA
61891739 A
1 A
61891740 CTATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
ATTAAAATTAATATTAA
Found at i:61891755 original size:24 final size:23
Alignment explanation
Indices: 61891697--61891755 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
61891687 TAAATTAATA
* *
61891697 AAATACTATTAAGATTAAGTATT
1 AAATAATATTAAGATTAACTATT
* *
61891720 AAATTAAAATTAATATTAAACTATT
1 AAA-TAATATTAAGATT-AACTATT
61891745 AAATAATATTA
1 AAATAATATTA
61891756 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 3 0.10
24 17 0.59
25 9 0.31
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.39
Consensus pattern (23 bp):
AAATAATATTAAGATTAACTATT
Found at i:61896143 original size:44 final size:44
Alignment explanation
Indices: 61896086--61897015 Score: 688
Period size: 44 Copynumber: 20.5 Consensus size: 44
61896076 GAAATGTAAT
* * * *
61896086 TTCAACCTACTCCACTGCAACTTTAGGGACATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* *
61896130 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * ** * * *
61896174 TTCAATCAGGTTTACTGCAGCTTCAGAGAGATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * *
61896219 TTCAATTTGCTCCACTGTAACTTCAGGGAAATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * *
61896263 TTCAATCTGCTCCACTACAACTTTAGGAAGATGAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * *
61896307 TTCAATCTGCTCCACGGCAACTTCAGGGAGATGAGATTCGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
** * *
61896352 TTCAATCTATTCCACCGCAACTTCAGGAAGATAAGATTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* *
61896396 -TCTAACCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAACTTGTAGC
1 TTC-AATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTAGC
* * * ** * * * *
61896447 TTTAATCTGTTCCACTACAACTTTGGGGAAATAATATTTTCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTAGC
* * * * **
61896492 TTCAATCTGCTCCACTGCAAATTCAGGGAAATAAGATTCGCATA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * *
61896536 TTCAATCTGCTCCATTGTAACTTCAGAGAGATAAGGTTTGTAACTTGTAGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-----G--ATTTGTAGC
* ** * * * *
61896587 TTTAATCTATTCCGCTGC-ACTTCAAGGAAATAAGACTCATTACGATAGA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T--TT--G-TAGC
* * * *
61896636 TTTAATCTGAC-CCACTGCAACTTCAGAGG-TATATGATTTGTCGC
1 TTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGATTTGTAGC
* * * * *
61896680 TTCAATCTACTCTACTGTAACTTTAGGGAGATAAGATTTGCTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* *
61896725 TTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * * *
61896769 TTCAATTTGCTCCACTACAACTTCAGGAAGATAAGATTTGTGGC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
*
61896813 TTTAATCTGCTCCACTGCAACTTCAGGTG-GATAAGATTCACTACAGT-GAC
1 TTCAATCTGCTCCACTGCAACTTCAGG-GAGATAAGATT---T---GTAG-C
* * * *
61896863 TTCAATTTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTTATC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * * * *
61896908 TTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
* * ** **
61896952 TTCAATTTGTTGTACTGCAACTTCA--GAGATAAGATTTGTTATT
1 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGC
61896995 TTCAATCTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAAC
61897016 CTAAAGGAGA
Statistics
Matches: 696, Mismatches: 147, Indels: 87
0.75 0.16 0.09
Matches are distributed among these distances:
42 13 0.02
43 25 0.04
44 334 0.48
45 184 0.26
46 3 0.00
47 4 0.01
48 1 0.00
49 23 0.03
50 59 0.08
51 49 0.07
52 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGC
Found at i:61896246 original size:89 final size:88
Alignment explanation
Indices: 61896086--61897015 Score: 674
Period size: 89 Copynumber: 10.2 Consensus size: 88
61896076 GAAATGTAAT
* * * * * * *
61896086 TTCAACCTACTCCACTGCAACTTTAGGGACATAAGATTTGTAGCTTTAATCTGCTCCACTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
61896151 TTCAGGGAGATAAGATTTGTAGC
66 TTCAGGGAGATAAGATTTGTAGC
* * ** * * * *
61896174 TTCAATCAGGTTTACTGCAGCTTCAGAGAGATAAGATTTGCTATCTTCAATTTGCTCCACTGTAA
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAA
*
61896239 CTTCAGGGAAATAAGATTTGTAGC
65 CTTCAGGGAGATAAGATTTGTAGC
* * * *
61896263 TTCAATCTGCTCCACTACAACTTTAG-GAAGATGAGATTTGTAGCTTCAATCTGCTCCACGGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
* * *
61896327 CTTCAGGGAGATGAGATTCGCTATC
65 CTTCAGGGAGATAAGATTTG-TAGC
** * *
61896352 TTCAATCTATTCCACCGCAACTTCAG-GAAGATAAGATTTGTAGC-TCTAACCTGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAGATTTGTAGCTTC-AATCTGCTCCACTGCA
*
61896415 ACTTCAGGGAGATGAGATTTGTAACTTGTAGC
64 ACTTCAGGGAGAT-A-A---G--ATTTGTAGC
* * * ** * * * * *
61896447 TTTAATCTGTTCCACTACAACTTTGGGGAAATAATATTTTCTATCTTCAATCTGCTCCACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGA-TTTGTAGCTTCAATCTGCTCCACTGCAA
* * * * **
61896512 ATTCAGGGAAATAAGATTCGCATA
65 CTTCAGGGAGATAAGATTTGTAGC
* * * * ** *
61896536 TTCAATCTGCTCCATTGTAACTTCAGAGAGATAAGGTTTGTAACTTGTAGCTTTAATCTATTCCG
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAA-----G--ATTTGTAGCTTCAATCTGCTCCA
* * *
61896601 CTGC-ACTTCAAGGAAATAAGACTCATTACGATAGA
59 CTGCAACTTCAGGGAGATAAGA-T--TT--G-TAGC
* * * * * *
61896636 TTTAATCTGAC-CCACTGCAACTTCAGAG-GTATATGATTTGTCGCTTCAATCTACTCTACTGTA
1 TTCAATCTG-CTCCACTGCAACTTCAGAGAG-ATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
* *
61896699 ACTTTAGGGAGATAAGATTTGCTATC
64 ACTTCAGGGAGATAAGATTTG-TAGC
* * * * *
61896725 TTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATTTGCTCCACTACAAC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* *
61896790 TTCAGGAAGATAAGATTTGTGGC
66 TTCAGGGAGATAAGATTTGTAGC
* * * *
61896813 TTTAATCTGCTCCACTGCAACTTCAG-GTGGATAAGATTCACTACAGT-GACTTCAATTTGCTCT
1 TTCAATCTGCTCCACTGCAACTTCAGAG-AGATAAGATT---T---GTAG-CTTCAATCTGCTCC
* *
61896876 ACTGCAACTTCAGAGAGATAAGATTTGTTATC
58 ACTGCAACTTCAGGGAGATAAGATTTG-TAGC
* * * * * * **
61896908 TTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATTTGTTGTACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
**
61896973 TTCA--GAGATAAGATTTGTTATT
66 TTCAGGGAGATAAGATTTG-TAGC
61896995 TTCAATCTGCTCCACTGCAAC
1 TTCAATCTGCTCCACTGCAAC
61897016 CTAAAGGAGA
Statistics
Matches: 663, Mismatches: 136, Indels: 87
0.75 0.15 0.10
Matches are distributed among these distances:
87 36 0.05
88 105 0.16
89 268 0.40
90 1 0.00
91 5 0.01
92 1 0.00
93 21 0.03
94 70 0.11
95 84 0.13
96 38 0.06
97 3 0.00
99 2 0.00
100 28 0.04
101 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTTGTAGC
Found at i:61896331 original size:133 final size:133
Alignment explanation
Indices: 61896086--61897015 Score: 714
Period size: 133 Copynumber: 6.8 Consensus size: 133
61896076 GAAATGTAAT
* * * * * *
61896086 TTCAACCTACTCCACTGCAACTTTAGGGACATAAGATTTGTAGCTTTAATCTGCTCCACTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * ** *
61896151 TTCAGGGAGATAAGATTTGTAGCTTCAATCAGGTTTACTGCAGCTTCAGAGAGATAAGATTTGCT
66 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT
61896216 ATC
131 ATC
* * *
61896219 TTCAATTTGCTCCACTGTAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTACAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * * * * *
61896284 TTTAGGAAGATGAGATTTGTAGCTTCAATCTGCTCCACGGCAACTTCAGGGAGATGAGATTCGCT
66 TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT
61896349 ATC
131 ATC
** * *
61896352 TTCAATCTATTCCACCGCAACTTCA-GGAAGATAAGATTTGTAGC-TCTAACCTGCTCCACTGCA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTTGTAGCTTC-AATCTGCTCCACTGCA
* * * * ** * *
61896415 ACTTCAGGGAGATGAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTACAACTTTGGGGAAATA
64 ACTTCAGGGAGAT-A-A---G--ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATA
* *
61896480 ATATTTTCTATC
122 AGATTTGCTATC
* * * ** * *
61896492 TTCAATCTGCTCCACTGCAAATTCAGGGAAATAAGATTCGCATATTCAATCTGCTCCATTGTAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
* * * ** * *
61896557 TTCAGAGAGATAAGGTTTGTAACTTGTAGCTTTAATCTATTCCGCTGC-ACTTCA-AGGAAATAA
66 TTCAGGGAGATAA-----G--ATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGA-GAGATAA
* **
61896620 GACTCATTACGATAGA
123 GA-T--TT--GCTATC
* * * * * * *
61896636 TTTAATCTGAC-CCACTGCAACTTCAGAGG-TATATGATTTGTCGCTTCAATCTACTCTACTGTA
1 TTCAATCTG-CTCCACTGCAACTTCAG-GGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCA
* * * *
61896699 ACTTTAGGGAGATAAGATTTGCTATCTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTT
64 ACTTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTT
*
61896764 G-TAAC
128 GCTATC
* * * *
61896769 TTCAATTTGCTCCACTACAACTTCA-GGAAGATAAGATTTGTGGCTTTAATCTGCTCCACTGCAA
1 TTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATTTGTAGCTTCAATCTGCTCCACTGCAA
* *
61896833 CTTCAGGTG-GATAAGATTCACTACAGT-GACTTCAATTTGCTCTACTGCAACTTCAGAGAGATA
65 CTTCAGG-GAGATAAGATT---T---GTAG-CTTCAATCTGCTCCACTGCAACTTCAGAGAGATA
*
61896896 AGATTTGTTATC
122 AGATTTGCTATC
* * * * * * * * **
61896908 TTCAATCTACTCTACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATTTGTTGTACTGCAAC
1 TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
**
61896973 TTCA--GAGATAAGATTTGTTATTTTCAATCTGCTCCACTGCAAC
66 TTCAGGGAGATAAGATTTG-TAGCTTCAATCTGCTCCACTGCAAC
61897016 CTAAAGGAGA
Statistics
Matches: 635, Mismatches: 122, Indels: 81
0.76 0.15 0.10
Matches are distributed among these distances:
131 3 0.00
132 27 0.04
133 236 0.37
134 3 0.00
135 1 0.00
136 4 0.01
137 13 0.02
138 59 0.09
139 86 0.14
140 131 0.21
141 6 0.01
142 2 0.00
144 61 0.10
145 3 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (133 bp):
TTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCT
ATC
Found at i:61905881 original size:17 final size:17
Alignment explanation
Indices: 61905859--61905891 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61905849 ATGAAGAAAT
*
61905859 ATTATAATAATAACATA
1 ATTATAACAATAACATA
61905876 ATTATAACAATAACAT
1 ATTATAACAATAACAT
61905892 TGACATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTATAACAATAACATA
Found at i:61906323 original size:14 final size:15
Alignment explanation
Indices: 61906304--61906332 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61906294 AAAACAATTT
61906304 AATAAA-GATTAAAA
1 AATAAATGATTAAAA
61906318 AATAAATGATTAAAA
1 AATAAATGATTAAAA
61906333 TGAAATGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAATGATTAAAA
Found at i:61916133 original size:14 final size:12
Alignment explanation
Indices: 61916104--61916134 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
61916094 TCGTATTAGG
61916104 TTTTTTATATTA
1 TTTTTTATATTA
*
61916116 TTTTTTATATAA
1 TTTTTTATATTA
61916128 TTTTTTA
1 TTTTTTA
61916135 AAAAAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTTATATTA
Found at i:61916459 original size:27 final size:28
Alignment explanation
Indices: 61916404--61916468 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 28
61916394 ATAAAAAATA
*
61916404 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
61916432 ACCAAAATATTATAA-ATTTTTTTATTT
1 ACCAAAATATTATAACATTTTTTTATTT
61916459 ACCAAAATAT
1 ACCAAAATAT
61916469 ACCCAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.48
Consensus pattern (28 bp):
ACCAAAATATTATAACATTTTTTTATTT
Found at i:61916903 original size:19 final size:19
Alignment explanation
Indices: 61916879--61916944 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
61916869 ATTAAAATAG
61916879 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
61916898 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
61916916 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
61916935 TTTAATTTAA
1 TTTAATTTAA
61916945 AAAAATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:61917110 original size:82 final size:82
Alignment explanation
Indices: 61917024--61917188 Score: 303
Period size: 82 Copynumber: 2.0 Consensus size: 82
61917014 CAAAAGGAAA
*
61917024 AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCTTAATAGACTTATAA
1 AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCGTAATAGACTTATAA
*
61917089 CATAAGCATGTTAGACT
66 CATAAACATGTTAGACT
*
61917106 AAATAATGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCGTAATAGACTTATAA
1 AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCGTAATAGACTTATAA
61917171 CATAAACATGTTAGACT
66 CATAAACATGTTAGACT
61917188 A
1 A
61917189 TTTTAATTAA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (82 bp):
AAATAACGGAAACATAAACTATTTTATCTATTTATAAATTTAATATATTCGTAATAGACTTATAA
CATAAACATGTTAGACT
Found at i:61917708 original size:27 final size:28
Alignment explanation
Indices: 61917678--61917742 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
61917668 TTTTTTTGGT
*
61917678 ATATTTTGGTAAAT-AAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
61917705 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
61917733 ATATTTTGGT
1 ATATTTTGGT
61917743 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.42
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:61922078 original size:27 final size:28
Alignment explanation
Indices: 61922002--61922082 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
61921992 GGAATTTAGT
* *
61922002 TGAATCAAGTATAACACACATAAAGTAC
1 TGAATCAAATATAACACACATAAAGCAC
*
61922030 TGAATCAAATATAACACACATAAAGCAT
1 TGAATCAAATATAACACACATAAAGCAC
* * *
61922058 TGGATC-CATATAACACGCATAAAGC
1 TGAATCAAATATAACACACATAAAGC
61922083 GTTAGATCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 17 0.36
28 30 0.64
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (28 bp):
TGAATCAAATATAACACACATAAAGCAC
Found at i:61922090 original size:27 final size:27
Alignment explanation
Indices: 61922011--61922090 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
61922001 TTGAATCAAG
* * *
61922011 TATAACACACATAAAGTACT-GAATCAAA
1 TATAACACACATAAAGCATTAG-ATC-CA
*
61922039 TATAACACACATAAAGCATTGGATCCA
1 TATAACACACATAAAGCATTAGATCCA
* *
61922066 TATAACACGCATAAAGCGTTAGATC
1 TATAACACACATAAAGCATTAGATC
61922091 TCCCGCCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 23 0.51
28 21 0.47
29 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (27 bp):
TATAACACACATAAAGCATTAGATCCA
Found at i:61923671 original size:21 final size:22
Alignment explanation
Indices: 61923645--61923690 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
61923635 AATCTATATA
61923645 TATACATGT-ATATTTATTTTT
1 TATACATGTAATATTTATTTTT
61923666 TATACATGTACATATTTATTTTT
1 TATACATGTA-ATATTTATTTTT
61923689 TA
1 TA
61923691 ACTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
23 14 0.61
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (22 bp):
TATACATGTAATATTTATTTTT
Found at i:61924051 original size:24 final size:23
Alignment explanation
Indices: 61924015--61924073 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
61924005 ACGCGCTCTC
**
61924015 TTTTTTTATTTAT-TTTTTTTAT
1 TTTTTTTATTTATGTTTTCATAT
61924037 TTTTTGTTGATTTATGTTTTCATAT
1 TTTTT-TT-ATTTATGTTTTCATAT
61924062 TTTTATTTATTT
1 TTTT-TTTATTT
61924074 GATACTTTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 5 0.16
23 2 0.06
24 10 0.32
25 13 0.42
26 1 0.03
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (23 bp):
TTTTTTTATTTATGTTTTCATAT
Found at i:61924170 original size:19 final size:20
Alignment explanation
Indices: 61924129--61924170 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
61924119 ATTTCTATGC
* *
61924129 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
61924149 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
61924168 CAT
1 CAT
61924171 CCCATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:61927290 original size:19 final size:17
Alignment explanation
Indices: 61927266--61927309 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
61927256 CAATGCATCT
*
61927266 AATAATTATACAGATTACC
1 AATAATAATACA-ATT-CC
*
61927285 AATAATAATTCAATTCC
1 AATAATAATACAATTCC
61927302 AATAATAA
1 AATAATAA
61927310 AACACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 10 0.43
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (17 bp):
AATAATAATACAATTCC
Found at i:61934343 original size:5 final size:5
Alignment explanation
Indices: 61934333--61934363 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
61934323 AAACACATTT
61934333 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG G
1 GTTGG GTTGG GTTGG GTTGG GTTGG GTTGG G
61934364 GTATAGTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.61, T:0.39
Consensus pattern (5 bp):
GTTGG
Found at i:61943391 original size:30 final size:30
Alignment explanation
Indices: 61943355--61943430 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
61943345 GGTGAATTAA
*
61943355 GTTGCTCACACAAGCTAACATTATATCAGG
1 GTTGCTCACACAAGCTAACATTATATCAAG
* *
61943385 GTTGCTCAAACAAACTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
* *
61943415 GTTGTTCACATAAGCT
1 GTTGCTCACACAAGCT
61943431 GAAATTTCTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:61944005 original size:21 final size:19
Alignment explanation
Indices: 61943968--61944009 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
61943958 TTTTCACCTC
*
61943968 AATATTAAATCATGCAATT
1 AATATTAAATCAGGCAATT
61943987 AATATATAAATGCAGGCAATT
1 AATAT-TAAAT-CAGGCAATT
61944008 AA
1 AA
61944010 ATCTATCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (19 bp):
AATATTAAATCAGGCAATT
Found at i:61945605 original size:32 final size:31
Alignment explanation
Indices: 61945560--61945655 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
61945550 CTTAGATAAT
61945560 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
61945591 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
61945623 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
61945654 TT
1 TT
61945656 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:61946975 original size:82 final size:81
Alignment explanation
Indices: 61946746--61946964 Score: 278
Period size: 82 Copynumber: 2.7 Consensus size: 81
61946736 GGAGAAGTAG
** * * * * *
61946746 GTTCAAATATTGAGGACTACATTGTTGGGAGGGGCAGCCATAATTCCTAAACATAGATCGTAAAA
1 GTTCAAACCTTGAGGACGATATTGTTGGAAGGAGCAGCCATAAATCC-AAACATAGATCGTAAAA
* *
61946811 TGGACACAGAGACGTAA
65 TAGACACAAAGACGTAA
* * *
61946828 GTTCAAACCTTGAGGATGATATTGTTGGAA-GAGGCAACCATGAATCCCAAACATAGATCGTAAA
1 GTTCAAACCTTGAGGACGATATTGTTGGAAGGA-GCAGCCATAAAT-CCAAACATAGATCGTAAA
61946892 ATAGACACAAAGACGTAA
64 ATAGACACAAAGACGTAA
*
61946910 GTTCAAACCTTGAGGACGATATTGTTGGAAGGAGCAGCCATAAATCTCGAACATA
1 GTTCAAACCTTGAGGACGATATTGTTGGAAGGAGCAGCCATAAATC-CAAACATA
61946965 AAGCATAAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
81 2 0.02
82 111 0.95
83 4 0.03
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (81 bp):
GTTCAAACCTTGAGGACGATATTGTTGGAAGGAGCAGCCATAAATCCAAACATAGATCGTAAAAT
AGACACAAAGACGTAA
Found at i:61957631 original size:5 final size:5
Alignment explanation
Indices: 61957621--61957699 Score: 69
Period size: 5 Copynumber: 16.0 Consensus size: 5
61957611 TTGGAAAGCT
*
61957621 TTTAA TTTAA TTTAA TTTAA TTTAA TTT-G TTT-- TTTATA TTTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA-A -TTTAA TTTAA
*
61957670 TTATAA --TAT TTTAA TTTAA TTATAA TTTAA
1 TT-TAA TTTAA TTTAA TTTAA TT-TAA TTTAA
61957700 AAATGTCACA
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
3 5 0.08
4 3 0.05
5 42 0.67
6 9 0.14
7 4 0.06
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:61957665 original size:19 final size:19
Alignment explanation
Indices: 61957620--61957695 Score: 82
Period size: 19 Copynumber: 3.9 Consensus size: 19
61957610 TTTGGAAAGC
61957620 TTTTAATTTAATT-TAATTTA
1 TTTTAATTTAATTATAA--TA
* ** * *
61957640 ATTTAATTTGTTTTTTATA
1 TTTTAATTTAATTATAATA
61957659 TTTTAATTTAATTATAATA
1 TTTTAATTTAATTATAATA
61957678 TTTTAATTTAATTATAAT
1 TTTTAATTTAATTATAAT
61957696 TTAAAAATGT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 34 0.74
20 10 0.22
21 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTTAATTTAATTATAATA
Found at i:61965621 original size:31 final size:31
Alignment explanation
Indices: 61965561--61965621 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
61965551 ATTATGCACG
*
61965561 TAAAACTTTAATTGTGATTCAAACCTATACT
1 TAAAACTTTAATTGTGATTCAAACATATACT
* * * *
61965592 TAAAATTTTAATTTTGATTTAATCATATAC
1 TAAAACTTTAATTGTGATTCAAACATATAC
61965622 ATTTAAAGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (31 bp):
TAAAACTTTAATTGTGATTCAAACATATACT
Found at i:61965797 original size:29 final size:30
Alignment explanation
Indices: 61965744--61965823 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
61965734 GAATTTGATC
* *
61965744 AAATCAAAATTTATTGTATAGAATTACACA-
1 AAATCAAAATTTA-TATATACAATTACACAT
61965774 AAATCAAAATTTATATATACAATTACACATT
1 AAATCAAAATTTATATATACAATTACACA-T
* *
61965805 AAATCATAATTGATATATA
1 AAATCAAAATTTATATATA
61965824 ATTTTGATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 14 0.32
30 13 0.30
31 17 0.39
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTTATATATACAATTACACAT
Found at i:61975615 original size:25 final size:25
Alignment explanation
Indices: 61975587--61975641 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
61975577 TGTAAACGAG
* *
61975587 AAGCTCTTTCGAGCCATATAACAGA
1 AAGCTCTTGCGAGCCAAATAACAGA
* *
61975612 AAGCTCTTGCGAGCCAAATATCAGG
1 AAGCTCTTGCGAGCCAAATAACAGA
61975637 AAGCT
1 AAGCT
61975642 TAAGAGAGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (25 bp):
AAGCTCTTGCGAGCCAAATAACAGA
Found at i:61975690 original size:25 final size:25
Alignment explanation
Indices: 61975608--61975713 Score: 72
Period size: 25 Copynumber: 4.2 Consensus size: 25
61975598 AGCCATATAA
* * *
61975608 CAGAAAGCTCTTGCGAGCCAAATAT
1 CAGAAAGCTCATGAGAGCCAATTAT
* * * *
61975633 CAGGAAGCTTAAGAGAGCC-ATTAAC
1 CAGAAAGCTCATGAGAGCCAATT-AT
*
61975658 CA-AGAAGCTCATGGGAGCCAATTAT
1 CAGA-AAGCTCATGAGAGCCAATTAT
** *
61975683 CAGAAAGCTTGTGAGAGCCAAGTAT
1 CAGAAAGCTCATGAGAGCCAATTAT
61975708 CGAGAA
1 C-AGAA
61975714 GATCATAAGA
Statistics
Matches: 60, Mismatches: 16, Indels: 9
0.71 0.19 0.11
Matches are distributed among these distances:
24 2 0.03
25 50 0.83
26 8 0.13
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
CAGAAAGCTCATGAGAGCCAATTAT
Found at i:61983412 original size:2 final size:2
Alignment explanation
Indices: 61983405--61983436 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61983395 TGCATACGGA
61983405 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
61983437 TGATGTTCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.