Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 360 of 444
Found at i:104667949 original size:44 final size:43
Alignment explanation
Indices: 104667883--104668011 Score: 156
Period size: 44 Copynumber: 3.0 Consensus size: 43
104667873 CATAGGATTC
104667883 CGATATGTGATT-CGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
104667925 CGGTTTGTGATTTACGTGTAAGACC-CTGTCTGGAACAG-TGGCAT
1 CGATATGTGA-TTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* * *
104667969 TGATATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
104668012 TGTACGAGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
42 9 0.12
43 29 0.40
44 33 0.46
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:104681161 original size:9 final size:9
Alignment explanation
Indices: 104681147--104681171 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
104681137 ATTAGTTAAT
104681147 TAAAACATA
1 TAAAACATA
104681156 TAAAACATA
1 TAAAACATA
104681165 TAAAACA
1 TAAAACA
104681172 CCTTTTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (9 bp):
TAAAACATA
Found at i:104689425 original size:40 final size:40
Alignment explanation
Indices: 104689366--104689507 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
104689356 AAATTGAATG
* * *
104689366 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
104689406 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
104689446 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
104689486 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
104689508 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:104689508 original size:40 final size:39
Alignment explanation
Indices: 104689405--104689533 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
104689395 TGCTGGAAAT
* * *
104689405 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
104689445 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
104689485 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
104689525 TATATCCGG
1 TATATCCGG
104689534 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:104697443 original size:40 final size:40
Alignment explanation
Indices: 104697377--104697543 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
104697367 AAATTGAATG
* * *
104697377 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
104697416 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
104697456 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
104697496 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
104697536 ATATCCGG
1 ATATCCGG
104697544 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:104701586 original size:13 final size:13
Alignment explanation
Indices: 104701568--104701593 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104701558 AAGTCTAGGC
104701568 TAGATAATTAGTT
1 TAGATAATTAGTT
104701581 TAGATAATTAGTT
1 TAGATAATTAGTT
104701594 AATTAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TAGATAATTAGTT
Found at i:104705132 original size:29 final size:29
Alignment explanation
Indices: 104705098--104705158 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
104705088 GCCAAATTGA
104705098 GAATGATTTACCTCGACTATACCGTATGG
1 GAATGATTTACCTCGACTATACCGTATGG
*
104705127 GAATGATTTACCTCGACTATATCGTATGG
1 GAATGATTTACCTCGACTATACCGTATGG
104705156 GAA
1 GAA
104705159 AACATTCAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (29 bp):
GAATGATTTACCTCGACTATACCGTATGG
Found at i:104710429 original size:40 final size:40
Alignment explanation
Indices: 104710372--104710578 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
104710362 TGAATGATAC
* *
104710372 CCGGGCTAA-ACCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
104710411 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
104710451 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
104710491 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
104710531 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
104710571 CC-GGCTAA
1 CCGGGCTAA
104710579 ATTCTGAAGA
Statistics
Matches: 150, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
39 14 0.09
40 134 0.89
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:104710514 original size:80 final size:80
Alignment explanation
Indices: 104710368--104710578 Score: 329
Period size: 80 Copynumber: 2.7 Consensus size: 80
104710358 CATTTGAATG
* *
104710368 ATACCCGGGCTAA-ACCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
104710431 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
104710447 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
104710512 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
104710527 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
104710579 ATTCTGAAGA
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
79 17 0.14
80 102 0.84
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:104717205 original size:39 final size:40
Alignment explanation
Indices: 104717128--104717339 Score: 285
Period size: 39 Copynumber: 5.5 Consensus size: 40
104717118 TTGAATGATA
* *
104717128 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
104717167 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
104717206 CCGGG-TAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
104717245 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
104717284 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
104717324 CC-GGCTAA-ATCCGAAG
1 CCGGGCTAAGACCCGAAG
104717340 AAACTTGGTT
Statistics
Matches: 157, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
38 35 0.22
39 68 0.43
40 52 0.33
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:104723992 original size:40 final size:40
Alignment explanation
Indices: 104723871--104724069 Score: 244
Period size: 39 Copynumber: 5.0 Consensus size: 40
104723861 TTGAATGATA
* *
104723871 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* ** *
104723910 CCGGGCTAAGACCCGAAGGTATTT-TTTGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
104723949 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
104723989 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATA-
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
104724028 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
104724068 CC
1 CC
104724070 AGCTAAATTC
Statistics
Matches: 138, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 73 0.53
40 65 0.47
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:104724032 original size:79 final size:78
Alignment explanation
Indices: 104723868--104724069 Score: 282
Period size: 79 Copynumber: 2.6 Consensus size: 78
104723858 CATTTGAATG
* * *
104723868 ATACCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGTA
1 ATACCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGCA
**
104723931 TTTTTTGAGTTGCT
65 TTTTGCGAGTTGCT
*
104723945 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATA-CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
104724010 TTTGTGCGAGTTGCT
65 TTT-TGCGAGTTGCT
* * *
104724025 ATACCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 ATACCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCC
104724070 AGCTAAATTC
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
77 3 0.03
78 9 0.08
79 85 0.77
80 14 0.13
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (78 bp):
ATACCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCAT
TTTGCGAGTTGCT
Found at i:104729144 original size:29 final size:27
Alignment explanation
Indices: 104729087--104729150 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
104729077 ATGATGAAGT
* *
104729087 CACCAGATACAGATATTGTGGCTAGGC
1 CACCAGATACAGATATTGTGGCAAAGC
104729114 CACCAGA-ACAGATATATATGTGGCAAAGC
1 CACCAGATACAG--ATAT-TGTGGCAAAGC
104729143 CACCAGAT
1 CACCAGAT
104729151 TGCAACGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 4 0.13
27 7 0.23
28 4 0.13
29 16 0.52
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAAAGC
Found at i:104729235 original size:67 final size:68
Alignment explanation
Indices: 104729096--104729235 Score: 165
Period size: 67 Copynumber: 2.1 Consensus size: 68
104729086 TCACCAGATA
* * * * *
104729096 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATGTGGCAAAGCCACCAGATTGCAACGAGG
1 CAGATATTGTGACAAAGCCACCAGAACAGA-ATATATGTAGCAAAGCCACCAGATTACAACGAGG
104729161 CTAC
65 CTAC
* * * * *
104729165 CAGATATTGTGACAAAGTCACCAGAACAG-ATATATGTAGCGAGGCCACTAGATTACAGCGAGGC
1 CAGATATTGTGACAAAGCCACCAGAACAGAATATATGTAGCAAAGCCACCAGATTACAACGAGGC
*
104729229 TGC
66 TAC
104729232 CAGA
1 CAGA
104729236 ACGCTTCCTC
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 35 0.58
69 25 0.42
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (68 bp):
CAGATATTGTGACAAAGCCACCAGAACAGAATATATGTAGCAAAGCCACCAGATTACAACGAGGC
TAC
Found at i:104729489 original size:8 final size:8
Alignment explanation
Indices: 104729473--104729511 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
104729463 ACCAAAGTGT
*
104729473 GCCCGTTG
1 GCCCATTG
104729481 GCCCATTG
1 GCCCATTG
* *
104729489 GCCCGTTA
1 GCCCATTG
104729497 GCCCATTG
1 GCCCATTG
104729505 GCCCATT
1 GCCCATT
104729512 TTCGGTCTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.10, C:0.38, G:0.26, T:0.26
Consensus pattern (8 bp):
GCCCATTG
Found at i:104729494 original size:16 final size:16
Alignment explanation
Indices: 104729473--104729508 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
104729463 ACCAAAGTGT
*
104729473 GCCCGTTGGCCCATTG
1 GCCCGTTAGCCCATTG
104729489 GCCCGTTAGCCCATTG
1 GCCCGTTAGCCCATTG
104729505 GCCC
1 GCCC
104729509 ATTTTCGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.42, G:0.28, T:0.22
Consensus pattern (16 bp):
GCCCGTTAGCCCATTG
Found at i:104731886 original size:56 final size:56
Alignment explanation
Indices: 104731819--104731929 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
104731809 ATAGTTACCC
* *
104731819 TCTCCCACTTCCAAAGT-AGTACTTTCACTGGCTGCAAAAGTCCGGAAGGTAATTGG
1 TCTCCCACTTCCAAAGTGA-TACTTTCACTGCCTACAAAAGTCCGGAAGGTAATTGG
104731875 TCTCCCACTTCCAAAGTGATACTTTCACTGCCTACAAAAGTCCGGAAGGTAATTG
1 TCTCCCACTTCCAAAGTGATACTTTCACTGCCTACAAAAGTCCGGAAGGTAATTG
104731930 ATGTTCAGCT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
56 51 0.98
57 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (56 bp):
TCTCCCACTTCCAAAGTGATACTTTCACTGCCTACAAAAGTCCGGAAGGTAATTGG
Found at i:104739133 original size:51 final size:51
Alignment explanation
Indices: 104739073--104739172 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
104739063 ATTATATTGT
104739073 AAAAATAACTTAGGCATGATTTTACTTAACCAAGCAATTTACCGAGGCCGC
1 AAAAATAACTTAGGCATGATTTTACTTAACCAAGCAATTTACCGAGGCCGC
104739124 AAAAATAACTTAGGCATGATTTTACTTAACCAAGCAATTTACCGAGGCC
1 AAAAATAACTTAGGCATGATTTTACTTAACCAAGCAATTTACCGAGGCC
104739173 TATAACAGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (51 bp):
AAAAATAACTTAGGCATGATTTTACTTAACCAAGCAATTTACCGAGGCCGC
Found at i:104743045 original size:28 final size:28
Alignment explanation
Indices: 104742986--104743057 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
104742976 CCCCTTTAGG
* * * *
104742986 CCCAATCTCATTCATATGGCCCATCGGG
1 CCCAATCACATTCATATGGCCCACCAGA
* *
104743014 CCCAATCACTTTCATATGGCCCGCCAGA
1 CCCAATCACATTCATATGGCCCACCAGA
104743042 CCCAATCACATTCATA
1 CCCAATCACATTCATA
104743058 GTCATGCAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.38, G:0.12, T:0.24
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCACCAGA
Found at i:104743916 original size:20 final size:20
Alignment explanation
Indices: 104743891--104743937 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
104743881 AACTAGGAGG
104743891 GAGAAAGAAAAGAGTTTGAT
1 GAGAAAGAAAAGAGTTTGAT
104743911 GAGAAAGAAAAGAGTTTGAT
1 GAGAAAGAAAAGAGTTTGAT
104743931 GAGAAAG
1 GAGAAAG
104743938 GAAGGGAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.17
Consensus pattern (20 bp):
GAGAAAGAAAAGAGTTTGAT
Found at i:104758373 original size:16 final size:16
Alignment explanation
Indices: 104758329--104758376 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
104758319 CTCTTTCTCC
*
104758329 TAAATTTAAACTCAT-
1 TAAATTTTAACTCATA
* *
104758344 TAAGTATTTCACTCATA
1 TAAAT-TTTAACTCATA
104758361 TAAATTTTAACTCATA
1 TAAATTTTAACTCATA
104758377 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 4 0.15
16 18 0.69
17 4 0.15
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (16 bp):
TAAATTTTAACTCATA
Found at i:104770976 original size:32 final size:32
Alignment explanation
Indices: 104770903--104770977 Score: 114
Period size: 32 Copynumber: 2.3 Consensus size: 32
104770893 ATTGAATCTC
* *
104770903 CGTACATACATGTACCATATTGTACCAATTTT
1 CGTACATACCTATACCATATTGTACCAATTTT
104770935 CGTACATACCTATACCATATTGTACCAATTTT
1 CGTACATACCTATACCATATTGTACCAATTTT
* *
104770967 TGTAGATACCT
1 CGTACATACCT
104770978 GTGTCATCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (32 bp):
CGTACATACCTATACCATATTGTACCAATTTT
Found at i:104770992 original size:32 final size:32
Alignment explanation
Indices: 104770903--104770995 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 32
104770893 ATTGAATCTC
* * *
104770903 CGTACATACATGTACCATATTGTACCAATTTT
1 CGTACATACCTATACCATATCGTACCAATTTT
*
104770935 CGTACATACCTATACCATATTGTACCAATTTT
1 CGTACATACCTATACCATATCGTACCAATTTT
* * * ** *
104770967 TGTAGATACCTGTGTCATCTCGTACCAAT
1 CGTACATACCTATACCATATCGTACCAAT
104770996 CTCATACTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.37
Consensus pattern (32 bp):
CGTACATACCTATACCATATCGTACCAATTTT
Found at i:104771185 original size:28 final size:28
Alignment explanation
Indices: 104771065--104771186 Score: 122
Period size: 28 Copynumber: 4.4 Consensus size: 28
104771055 TGCCATATCC
* * *
104771065 GATACTT-GCACACTAAGTGTCGTTCTG
1 GATACTTCGCACACTAAGTGCCATCCTG
** *
104771092 GATGTTTCGCACACTAAGTGCCATCCTC
1 GATACTTCGCACACTAAGTGCCATCCTG
* * *
104771120 GTTACCTCGCACACTAAGTGCCATTCTG
1 GATACTTCGCACACTAAGTGCCATCCTG
* *
104771148 GAT-GTATCGCACACTAAGTGCCATCCTT
1 GATACT-TCGCACACTAAGTGCCATCCTG
104771176 GATACTTCGCA
1 GATACTTCGCA
104771187 TGTTAAGTGC
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
27 5 0.07
28 68 0.92
29 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (28 bp):
GATACTTCGCACACTAAGTGCCATCCTG
Found at i:104771186 original size:56 final size:56
Alignment explanation
Indices: 104771038--104771186 Score: 187
Period size: 56 Copynumber: 2.7 Consensus size: 56
104771028 TGAATATTCA
* * * *
104771038 ATGTATCGCACA-TTAGATGCCAT-ATCCGATACTT-GCACACTAAGTGTCGTTCTGG
1 ATGTATCGCACACTAAG-TGCCATCCT-CGATACTTCGCACACTAAGTGCCATTCTGG
* * *
104771093 ATGTTTCGCACACTAAGTGCCATCCTCGTTACCTCGCACACTAAGTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTGG
*
104771149 ATGTATCGCACACTAAGTGCCATCCTTGATACTTCGCA
1 ATGTATCGCACACTAAGTGCCATCCTCGATACTTCGCA
104771187 TGTTAAGTGC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
55 23 0.29
56 57 0.71
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (56 bp):
ATGTATCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTCTGG
Found at i:104777256 original size:32 final size:32
Alignment explanation
Indices: 104777186--104777260 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
104777176 GAATCTCCGT
* *
104777186 ACATACATGTACCATATTGTACCAATTTTCGT
1 ACATACCTGTACCATATTGTACCAATTTTCGA
104777218 ACATACCTGTACCATATTGTACCAATTTTCGA
1 ACATACCTGTACCATATTGTACCAATTTTCGA
*
104777250 AGATACCTGTA
1 ACATACCTGTA
104777261 TATCTCGTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (32 bp):
ACATACCTGTACCATATTGTACCAATTTTCGA
Found at i:104777274 original size:31 final size:32
Alignment explanation
Indices: 104777186--104777274 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 32
104777176 GAATCTCCGT
* * *
104777186 ACATACATGTACCATATTGTACCAATTTTCGT
1 ACATACCTGTACCATATCGTACCAATTTTCGA
*
104777218 ACATACCTGTACCATATTGTACCAATTTTCGA
1 ACATACCTGTACCATATCGTACCAATTTTCGA
* * *
104777250 AGATACCTGTA-TATCTCGTACCAAT
1 ACATACCTGTACCATATCGTACCAAT
104777275 CTCATACTCA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 11 0.22
32 40 0.78
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (32 bp):
ACATACCTGTACCATATCGTACCAATTTTCGA
Found at i:104778857 original size:39 final size:39
Alignment explanation
Indices: 104778776--104778928 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
104778766 TATGGTAACC
* *
104778776 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
104778816 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
104778855 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
104778894 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
104778929 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:104780706 original size:28 final size:28
Alignment explanation
Indices: 104780675--104780772 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
104780665 GGATGTTTCT
104780675 CACACTAAGTGCCATCCTCGTTACTTCG
1 CACACTAAGTGCCATCCTCGTTACTTCG
* *
104780703 CACACTAAGTGCCATTCTGGATGTA--TCG
1 CACACTAAGTGCCATCCTCG-T-TACTTCG
* *
104780731 CACACTAAGTGCCATCCTTGATACTTCG
1 CACACTAAGTGCCATCCTCGTTACTTCG
**
104780759 CACGTTAAGTGCCA
1 CACACTAAGTGCCA
104780773 CATATAATTA
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.03
28 54 0.92
29 1 0.02
30 2 0.03
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (28 bp):
CACACTAAGTGCCATCCTCGTTACTTCG
Found at i:104780735 original size:56 final size:56
Alignment explanation
Indices: 104780646--104780772 Score: 191
Period size: 56 Copynumber: 2.3 Consensus size: 56
104780636 GTCACACCTT
* * * *
104780646 GCACACTAAGTGTCATTCTGGATGTTTCTCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCTCGATACTTC
*
104780702 GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCTTGATACTTC
1 GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCTCGATACTTC
**
104780758 GCACGTTAAGTGCCA
1 GCACACTAAGTGCCA
104780773 CATATAATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (56 bp):
GCACACTAAGTGCCATTCTGGATGTATCGCACACTAAGTGCCATCCTCGATACTTC
Found at i:104782459 original size:28 final size:28
Alignment explanation
Indices: 104782417--104782519 Score: 145
Period size: 28 Copynumber: 3.7 Consensus size: 28
104782407 TGGCCCCTTT
*
104782417 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
104782445 -GAGCCCAATCACATTCATATGGTCCATC
1 AG-GCCCAATCACATTCATATGGCCCATC
* **
104782473 AGGCCCAATCACTTTCATATGGCCTGTC
1 AGGCCCAATCACATTCATATGGCCCATC
104782501 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
104782520 GTCATGCAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.02
28 64 0.97
29 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:104783054 original size:21 final size:21
Alignment explanation
Indices: 104783025--104783064 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
104783015 AACTATACAC
*
104783025 AAGTGACTCGAAAATCATCTT
1 AAGTCACTCGAAAATCATCTT
**
104783046 AAGTCACTCTTAAATCATC
1 AAGTCACTCGAAAATCATC
104783065 CATGAGATTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGTCACTCGAAAATCATCTT
Found at i:104786082 original size:34 final size:34
Alignment explanation
Indices: 104786037--104786117 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
104786027 TGTACAATCC
* *
104786037 GGGCCTAAGCCCA-TATCAGTCGCAATATCAATGT
1 GGGCCTTAGCCCATTA-CAGTAGCAATATCAATGT
* * * *
104786071 GGGCCTTAGCCCATTACAGTAGCAGTATTAGTTT
1 GGGCCTTAGCCCATTACAGTAGCAATATCAATGT
104786105 GGGCCTTAGCCCA
1 GGGCCTTAGCCCA
104786118 ATTCAATACA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 38 0.95
35 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (34 bp):
GGGCCTTAGCCCATTACAGTAGCAATATCAATGT
Found at i:104795853 original size:37 final size:37
Alignment explanation
Indices: 104795795--104795936 Score: 248
Period size: 37 Copynumber: 3.8 Consensus size: 37
104795785 GCTCAGACGA
* *
104795795 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
104795832 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
104795869 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
104795906 AATCTCCACACGTAGTCATCGGGTCTCACCC
1 AATCTCCACACGTAGTCATCGGGTCTTACCC
104795937 AGAATATATT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:104796068 original size:48 final size:48
Alignment explanation
Indices: 104795984--104796463 Score: 771
Period size: 48 Copynumber: 10.0 Consensus size: 48
104795974 TGTTACAACA
* * * *
104795984 TTCACATTAGCCATTCGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * * *
104796032 TTCGCATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
104796080 TTCACATTAGTCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
104796128 TTCACATTCGCCATTCGGCTTTACCATATATACATATCTCAGATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
104796176 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
104796224 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
104796272 TTCACATTCGCCATTCGGCTTTACCACATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
104796320 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
104796368 TTCACATTCGCCATTCGGCTTTACCATATCTACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
104796416 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
104796464 ATATTTATCT
Statistics
Matches: 398, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 398 1.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:104799336 original size:15 final size:16
Alignment explanation
Indices: 104799307--104799336 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104799297 CAAACATGCT
104799307 TTAACACATTATCAAA
1 TTAACACATTATCAAA
104799323 TTAACACA-TATCAA
1 TTAACACATTATCAA
104799337 CAAGGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:104800462 original size:25 final size:25
Alignment explanation
Indices: 104800415--104800496 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 25
104800405 GTATGCTTGT
*
104800415 ACGAGCT-ATGAATCGATATGCTCTC
1 ACGAGCTGA-GAATCGATAAGCTCTC
* *
104800440 ATGAGCTGTA-AATCGGTAAGCTCAT-
1 ACGAGCTG-AGAATCGATAAGCTC-TC
*
104800465 ACGAGTTGAGAATCGATAAGCTCTC
1 ACGAGCTGAGAATCGATAAGCTCTC
104800490 ACGAGCT
1 ACGAGCT
104800497 ACAATCGGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.04
25 41 0.91
26 1 0.02
27 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (25 bp):
ACGAGCTGAGAATCGATAAGCTCTC
Found at i:104805977 original size:41 final size:41
Alignment explanation
Indices: 104805932--104806019 Score: 131
Period size: 41 Copynumber: 2.1 Consensus size: 41
104805922 GTTAATTAAG
*
104805932 TGGAAAATGAATATATAAAATGATTATATGAATCAGTTATA
1 TGGAAAATGAATATATAAAATGATTATATAAATCAGTTATA
* **
104805973 TGGAAAATGATTATATAAAATGATTATATAAATTGGTTATA
1 TGGAAAATGAATATATAAAATGATTATATAAATCAGTTATA
*
104806014 AGGAAA
1 TGGAAA
104806020 TAGTTATATG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.49, C:0.01, G:0.16, T:0.34
Consensus pattern (41 bp):
TGGAAAATGAATATATAAAATGATTATATAAATCAGTTATA
Found at i:104805999 original size:28 final size:26
Alignment explanation
Indices: 104805935--104806013 Score: 79
Period size: 28 Copynumber: 3.0 Consensus size: 26
104805925 AATTAAGTGG
*
104805935 AAAATGAATATATAAAATGATTATAT
1 AAAATGATTATATAAAATGATTATAT
* *
104805961 -GAATCAGTTATATGGAAAATGATTATAT
1 AAAATGA-TTATAT--AAAATGATTATAT
* *
104805989 AAAATGATTATATAAATTGGTTATA
1 AAAATGATTATATAAAATGATTATA
104806014 AGGAAATAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
25 4 0.10
26 15 0.36
28 19 0.45
29 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.13, T:0.37
Consensus pattern (26 bp):
AAAATGATTATATAAAATGATTATAT
Found at i:104806013 original size:13 final size:13
Alignment explanation
Indices: 104805935--104806004 Score: 79
Period size: 13 Copynumber: 5.2 Consensus size: 13
104805925 AATTAAGTGG
*
104805935 AAAATGAATATAT
1 AAAATGATTATAT
104805948 AAAATGATTATAT
1 AAAATGATTATAT
* *
104805961 -GAATCAGTTATAT
1 AAAATGA-TTATAT
104805974 GGAAAATGATTATAT
1 --AAAATGATTATAT
104805989 AAAATGATTATAT
1 AAAATGATTATAT
104806002 AAA
1 AAA
104806005 TTGGTTATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
12 4 0.08
13 34 0.71
15 6 0.12
16 4 0.08
ACGTcount: A:0.53, C:0.01, G:0.11, T:0.34
Consensus pattern (13 bp):
AAAATGATTATAT
Found at i:104806053 original size:13 final size:13
Alignment explanation
Indices: 104805936--104806055 Score: 77
Period size: 13 Copynumber: 9.0 Consensus size: 13
104805926 ATTAAGTGGA
* *
104805936 AAATGAATATATA
1 AAATGATTATATG
104805949 AAATGATTATATG
1 AAATGATTATATG
*
104805962 -AATCAGTTATATGG
1 AAATGA-TTATAT-G
*
104805976 AAAATGATTATATA
1 -AAATGATTATATG
104805990 AAATGATTATAT-
1 AAATGATTATATG
* *
104806002 AAATTGGTTATAAGG
1 AAA-TGATTAT-ATG
104806017 AAAT-AGTTATATG
1 AAATGA-TTATATG
*
104806030 -AATTATGTATATG
1 AAATGAT-TATATG
*
104806043 AAATGTTTATATG
1 AAATGATTATATG
104806056 GATATATATG
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
12 11 0.13
13 50 0.59
14 11 0.13
15 9 0.11
16 4 0.05
ACGTcount: A:0.46, C:0.01, G:0.15, T:0.38
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:104807516 original size:27 final size:26
Alignment explanation
Indices: 104807476--104807527 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
104807466 TGTGGCGGCT
*
104807476 AAGGTAGGAAAAAGAAAAAGATAAAAA
1 AAGGAAGGAAAAAGAAAAAGA-AAAAA
*
104807503 AAGGAAGGACAAAGAAAAAGAAAAA
1 AAGGAAGGAAAAAGAAAAAGAAAAA
104807528 GAGGTACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.71, C:0.02, G:0.23, T:0.04
Consensus pattern (26 bp):
AAGGAAGGAAAAAGAAAAAGAAAAAA
Found at i:104812137 original size:1 final size:1
Alignment explanation
Indices: 104812121--104812159 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
104812111 GTGTTTCTTC
* * *
104812121 TTTTCTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
104812160 AGTTGTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:104812139 original size:22 final size:21
Alignment explanation
Indices: 104812114--104812159 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
104812104 TTTCCGGGTG
104812114 TTTCTTCTTTTCTTTTCTTTTT
1 TTTCTT-TTTTCTTTTCTTTTT
* *
104812136 TTTCTTTTTTTTTTTTTTTTT
1 TTTCTTTTTTCTTTTCTTTTT
104812157 TTT
1 TTT
104812160 AGTTGTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (21 bp):
TTTCTTTTTTCTTTTCTTTTT
Found at i:104812140 original size:9 final size:9
Alignment explanation
Indices: 104812118--104812159 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
104812108 CGGGTGTTTC
104812118 TTCTTTTCTT
1 TTCTTTT-TT
104812128 TTCTTTTTT
1 TTCTTTTTT
104812137 TTCTTTTTT
1 TTCTTTTTT
104812146 TT-TTTTTT
1 TTCTTTTTT
104812154 TT-TTTT
1 TTCTTTT
104812160 AGTTGTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 12 0.38
9 13 0.41
10 7 0.22
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (9 bp):
TTCTTTTTT
Found at i:104812140 original size:14 final size:13
Alignment explanation
Indices: 104812121--104812159 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
104812111 GTGTTTCTTC
104812121 TTTTCTTTTCTTTT
1 TTTTCTTTT-TTTT
104812135 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
104812148 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
104812160 AGTTGTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 8 0.32
13 8 0.32
14 9 0.36
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:104825782 original size:21 final size:22
Alignment explanation
Indices: 104825758--104825801 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
104825748 CACGACCTAC
104825758 CCACACAGGCGTGT-CCTATGT
1 CCACACAGGCGTGTACCTATGT
*
104825779 CCACACGGGCGTGTGACCTATGT
1 CCACACAGGCGTGT-ACCTATGT
104825802 TTAGTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
23 7 0.35
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (22 bp):
CCACACAGGCGTGTACCTATGT
Found at i:104829142 original size:30 final size:30
Alignment explanation
Indices: 104829101--104829158 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
104829091 CATAGGTTGC
*
104829101 CACATGGGCGTGTGGCT-AGCCCATGTGGCT
1 CACACGGGCGTGT-GCTCAGCCCATGTGGCT
104829131 CACACGGGCGTGTGCTCAGCCCATGTGG
1 CACACGGGCGTGTGCTCAGCCCATGTGG
104829159 AAATGGTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (30 bp):
CACACGGGCGTGTGCTCAGCCCATGTGGCT
Found at i:104831148 original size:26 final size:26
Alignment explanation
Indices: 104831112--104831164 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
104831102 CCCAAGAAAG
104831112 AATTCACCTAGAATTCATCTATCACT
1 AATTCACCTAGAATTCATCTATCACT
*
104831138 AATTCACCTAGATTTCATCTATCACT
1 AATTCACCTAGAATTCATCTATCACT
104831164 A
1 A
104831165 TCAATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.36
Consensus pattern (26 bp):
AATTCACCTAGAATTCATCTATCACT
Found at i:104833266 original size:41 final size:40
Alignment explanation
Indices: 104833218--104833436 Score: 233
Period size: 41 Copynumber: 5.2 Consensus size: 40
104833208 TAGTGGAAAT
* * *
104833218 GCCGCTAAAAACTGAGCAATAGCGGCGTTTTTTGTTAAAAC
1 GCCGCTAAAAACAGAGCAATAGCGGCG-CTTTTGGTAAAAC
* *
104833259 GCTGCTAAAAACAGAGCATTAGTGGCGCGGCGCTTTTGGTAAAAC
1 GCCGCTAAAAACAGAGCA--A-T--AGCGGCGCTTTTGGTAAAAC
* *
104833304 GCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTCGTAAAAC
1 GCCGCT-AAAAACAGAGCAATAGCGGCGCTTTTGGTAAAAC
* *
104833345 GCCGCTAAAAAACAGAGCATTAGCAGCGCTTTTGGTAAAAC
1 GCCGCT-AAAAACAGAGCAATAGCGGCGCTTTTGGTAAAAC
* *
104833386 GCCGCTAAAAACCAGAGCATTAGTC-GCGCTTTTAGTAAAAC
1 GCCGCTAAAAA-CAGAGCAATAG-CGGCGCTTTTGGTAAAAC
*
104833427 GCCACTAAAA
1 GCCGCTAAAA
104833437 CTCATATAAC
Statistics
Matches: 157, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
40 5 0.03
41 114 0.73
42 1 0.01
43 2 0.01
44 1 0.01
45 16 0.10
46 18 0.11
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (40 bp):
GCCGCTAAAAACAGAGCAATAGCGGCGCTTTTGGTAAAAC
Found at i:104833403 original size:82 final size:82
Alignment explanation
Indices: 104833218--104833436 Score: 273
Period size: 82 Copynumber: 2.6 Consensus size: 82
104833208 TAGTGGAAAT
* * * * *
104833218 GCCGCTAAAAACTGAGCAATAGCGGCGTTTTTTGTTAAAACGCTGCT-AAAAACAGAGCATTAGT
1 GCCGCTAAAAACAGAGCATTAGCGGCGCTTTTAG-TAAAACGCCGCTAAAAAACAGAGCATTA--
*
104833282 GGCGCGGCGCTTTTGGTAAAAC
63 -G-GCAGCGCTTTTGGTAAAAC
*
104833304 GCCGCTAAAAAACAGAGCATTAGCGGCGCTTTTCGTAAAACGCCGCTAAAAAACAGAGCATTA-G
1 GCCGCT-AAAAACAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAACAGAGCATTAGG
104833368 CAGCGCTTTTGGTAAAAC
65 CAGCGCTTTTGGTAAAAC
*
104833386 GCCGCTAAAAACCAGAGCATTAGTC-GCGCTTTTAGTAAAACGCCACTAAAA
1 GCCGCTAAAAA-CAGAGCATTAG-CGGCGCTTTTAGTAAAACGCCGCTAAAA
104833437 CTCATATAAC
Statistics
Matches: 121, Mismatches: 8, Indels: 12
0.86 0.06 0.09
Matches are distributed among these distances:
81 5 0.04
82 59 0.49
83 1 0.01
86 17 0.14
87 39 0.32
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (82 bp):
GCCGCTAAAAACAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAAACAGAGCATTAGGC
AGCGCTTTTGGTAAAAC
Found at i:104834680 original size:7 final size:7
Alignment explanation
Indices: 104834668--104834725 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
104834658 ATCTTCAAAA
104834668 AAAATTT
1 AAAATTT
104834675 AAAATTT
1 AAAATTT
**
104834682 AAAAATAA
1 -AAAATTT
104834690 AAAATTT
1 AAAATTT
104834697 AAAAATTT
1 -AAAATTT
*
104834705 AATATTT
1 AAAATTT
*
104834712 AATATTT
1 AAAATTT
*
104834719 AATATTT
1 AAAATTT
104834726 TAGTCCATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
7 32 0.73
8 12 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:104834686 original size:8 final size:8
Alignment explanation
Indices: 104834667--104834706 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
104834657 AATCTTCAAA
104834667 AAAAATTT
1 AAAAATTT
104834675 -AAAATTT
1 AAAAATTT
*
104834682 AAAAA-TA
1 AAAAATTT
104834689 AAAAATTT
1 AAAAATTT
104834697 AAAAATTT
1 AAAAATTT
104834705 AA
1 AA
104834707 TATTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.46
8 15 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAAAATTT
Found at i:104834687 original size:15 final size:15
Alignment explanation
Indices: 104834667--104834713 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
104834657 AATCTTCAAA
104834667 AAAAATTTAAAATTT
1 AAAAATTTAAAATTT
**
104834682 AAAAATAAAAAATTT
1 AAAAATTTAAAATTT
*
104834697 AAAAATTTAATATTT
1 AAAAATTTAAAATTT
104834712 AA
1 AA
104834714 TATTTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATTTAAAATTT
Found at i:104837152 original size:19 final size:18
Alignment explanation
Indices: 104837127--104837174 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
104837117 AGAAATGAAA
*
104837127 AAAAAAAAAAGAGAATATG
1 AAAAAAAAAAGAGAA-AAG
*
104837146 AAGAAAAACAA-AGAAAAG
1 AA-AAAAAAAAGAGAAAAG
104837164 AAAAAAAAAAG
1 AAAAAAAAAAG
104837175 TGTTCATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.29
18 4 0.17
19 6 0.25
20 7 0.29
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAAAAAAAGAGAAAAG
Found at i:104838407 original size:30 final size:29
Alignment explanation
Indices: 104838335--104838399 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
104838325 TGACGAGATT
* *
104838335 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
104838364 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
104838394 GGCACT
1 GGCACT
104838400 GGGTGTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:104845055 original size:20 final size:20
Alignment explanation
Indices: 104845022--104845074 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
104845012 GGAAGAATAA
104845022 AGAAATGAAAAAAAA-AAAG
1 AGAAATGAAAAAAAACAAAG
*
104845041 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAAAAAAAACAAAG
104845062 A-AAA-GAAAAAAAA
1 AGAAATGAAAAAAAA
104845075 AGTGTTCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.06
Consensus pattern (20 bp):
AGAAATGAAAAAAAACAAAG
Found at i:104846307 original size:29 final size:29
Alignment explanation
Indices: 104846236--104846300 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
104846226 TGACGAGATT
* *
104846236 GGCACTAAGTGTGCATGCTGGAAATATAT
1 GGCACTAAGTGTGCATGCTGGAAAAATAC
104846265 GGCACTAAGTGTGCATGCTGGAAAAAATAC
1 GGCACTAAGTGTGCATGCTGG-AAAAATAC
104846295 GGCACT
1 GGCACT
104846301 GGTGTGCGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCATGCTGGAAAAATAC
Found at i:104850260 original size:19 final size:18
Alignment explanation
Indices: 104850234--104850272 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
104850224 TGATTCTATA
104850234 TTTATATTTAATCTAATT
1 TTTATATTTAATCTAATT
* *
104850252 TTTATTATTTATTTTAATT
1 TTTA-TATTTAATCTAATT
104850271 TT
1 TT
104850273 GATTCTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATATTTAATCTAATT
Found at i:104850283 original size:19 final size:19
Alignment explanation
Indices: 104850247--104850291 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
104850237 ATATTTAATC
* *
104850247 TAATTTTTATTATTTATTT
1 TAATTTTGATTATATATTT
*
104850266 TAATTTTGATTCTATATTT
1 TAATTTTGATTATATATTT
*
104850285 TTATTTT
1 TAATTTT
104850292 TATTTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TAATTTTGATTATATATTT
Found at i:104850297 original size:6 final size:6
Alignment explanation
Indices: 104850249--104850302 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 6
104850239 ATTTAATCTA
* * * *
104850249 ATTTTT ATTATTT ATTTTA ATTTTG ATTCTAT ATTTTT ATTTTT ATTTTA
1 ATTTTT ATT-TTT ATTTTT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
104850299 ATTT
1 ATTT
104850303 GATAATGAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 30 0.75
7 10 0.25
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:104851184 original size:28 final size:28
Alignment explanation
Indices: 104851137--104851199 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
104851127 TGAGCACACT
104851137 AATAAAAAGATAGACAAAAATCA-AATAA
1 AATAAAAAGATAGACAAAAA-CATAATAA
* *
104851165 GATAAAGAGATA-ACATAAAACATAATAA
1 AATAAAAAGATAGACA-AAAACATAATAA
104851193 AATAAAA
1 AATAAAA
104851200 CATATAAGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.70, C:0.06, G:0.08, T:0.16
Consensus pattern (28 bp):
AATAAAAAGATAGACAAAAACATAATAA
Found at i:104851197 original size:15 final size:15
Alignment explanation
Indices: 104851174--104851203 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104851164 AGATAAAGAG
*
104851174 ATAACATAAAACATA
1 ATAAAATAAAACATA
104851189 ATAAAATAAAACATA
1 ATAAAATAAAACATA
104851204 TAAGTCTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAATAAAACATA
Found at i:104851227 original size:6 final size:6
Alignment explanation
Indices: 104851212--104851288 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
104851202 TATAAGTCTG
* * * * * *
104851212 AAAATT AAAATA AAAA-A CAAATA ACAACA AAAATA CAAATA CAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
104851259 AAAAT- -AAAT- AAAATA AAACATA AAACTA AA
1 AAAATA AAAATA AAAATA AAA-ATA AAAATA AA
104851289 TGGAATCAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
4 4 0.07
5 8 0.14
6 39 0.68
7 6 0.11
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:104851261 original size:18 final size:17
Alignment explanation
Indices: 104851217--104851276 Score: 72
Period size: 18 Copynumber: 3.6 Consensus size: 17
104851207 GTCTGAAAAT
104851217 TAAAATAAAAA-ACAAA
1 TAAAATAAAAATACAAA
*
104851233 TAACAACAAAAATACAAA
1 TAA-AATAAAAATACAAA
104851251 TACAAATAAAAAT--AAA
1 TA-AAATAAAAATACAAA
104851267 TAAAATAAAA
1 TAAAATAAAA
104851277 CATAAAACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.21
16 8 0.21
17 7 0.18
18 15 0.38
19 1 0.03
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (17 bp):
TAAAATAAAAATACAAA
Found at i:104851281 original size:22 final size:22
Alignment explanation
Indices: 104851242--104851289 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
104851232 ATAACAACAA
*
104851242 AAATACAAATACAAATAAAAAT
1 AAATACAAATAAAAATAAAAAT
*
104851264 AAATA-AAATAAAACATAAAACT
1 AAATACAAATAAAA-ATAAAAAT
104851286 AAAT
1 AAAT
104851290 GGAATCAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (22 bp):
AAATACAAATAAAAATAAAAAT
Found at i:104851568 original size:96 final size:97
Alignment explanation
Indices: 104851455--104851692 Score: 306
Period size: 97 Copynumber: 2.5 Consensus size: 97
104851445 TTTTTAAATT
* * * *
104851455 TAATTATTTAATCTTATTTTCCTA-TACAAGAAAATCTTAATTATTTTTATTATCATTAACATTA
1 TAATTATTTAATCTTATTTTCCTACTAAAAGAAAATATTAATTACTTTCATTATCATTAACA-TA
*
104851519 AAATTA-TTTATTAATTATTTAA-TTTTTGAACAA
65 AAA-AACTTTATTAATTATTTAACTTTTT-AACAA
*
104851552 TAATTATTT-ATCTTATTTGT-CTACTAAAATAAAATATTAATTACTTTCATTATCATTAACATA
1 TAATTATTTAATCTTATTT-TCCTACTAAAAGAAAATATTAATTACTTTCATTATCATTAACATA
**
104851615 AAAAACTTTATTAATTATTTAACTTTTTAATGA
65 AAAAACTTTATTAATTATTTAACTTTTTAACAA
* * *
104851648 TAATTATTTAATATTATTTTCTTATTAAAAGAAAATATTAATTAC
1 TAATTATTTAATCTTATTTTCCTACTAAAAGAAAATATTAATTAC
104851693 ATTAACATTA
Statistics
Matches: 123, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
95 1 0.01
96 46 0.37
97 76 0.62
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (97 bp):
TAATTATTTAATCTTATTTTCCTACTAAAAGAAAATATTAATTACTTTCATTATCATTAACATAA
AAAACTTTATTAATTATTTAACTTTTTAACAA
Found at i:104852613 original size:14 final size:13
Alignment explanation
Indices: 104852589--104852637 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
104852579 TCTTGAGCAA
*
104852589 TTTAATTCTTTTC
1 TTTATTTCTTTTC
104852602 TTTATGTTCTTTTAAC
1 TTTAT-TTCTTTT--C
*
104852618 TTTATTTTTTTTC
1 TTTATTTCTTTTC
104852631 TTTATTT
1 TTTATTT
104852638 TCCATTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 12 0.39
14 7 0.23
15 6 0.19
16 6 0.19
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTATTTCTTTTC
Found at i:104853392 original size:15 final size:16
Alignment explanation
Indices: 104853372--104853404 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
104853362 GGAGGGAAAT
*
104853372 AGAGAAT-GAAACAAA
1 AGAGAATGGAAAAAAA
104853387 AGAGAATGGAAAAAAA
1 AGAGAATGGAAAAAAA
104853403 AG
1 AG
104853405 TTAAAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.67, C:0.03, G:0.24, T:0.06
Consensus pattern (16 bp):
AGAGAATGGAAAAAAA
Found at i:104858420 original size:22 final size:22
Alignment explanation
Indices: 104858373--104858425 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
104858363 ATTTTATTCT
*
104858373 TTTC-CTTTTTCTTTCCTTCCC
1 TTTCTCTTTTTCATTCCTTCCC
104858394 TTTCTCTTTTTCCATTCCTTCCC
1 TTTCTCTTTTT-CATTCCTTCCC
104858417 -TTCTCTTTT
1 TTTCTCTTTT
104858426 CCTTTTCTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 4 0.14
22 15 0.52
23 10 0.34
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCTCTTTTTCATTCCTTCCC
Found at i:104858653 original size:85 final size:83
Alignment explanation
Indices: 104858525--104858691 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 83
104858515 AATTAAGCCC
*
104858525 TCCTTTTTTTCTACACTCAATTGAGCACTTAAACTTTCAAAATGCATTAAAAAAGACCCTCAAAT
1 TCCTTTTTTTCTACACTCAATTGAGCACTTAAACTTTCAAAATGCA-T-AAAAA-ACACTCAAAT
104858590 TTCTTCAAAAAAAGCAATTAAA
63 TTCTTC-AAAAAAGCAATTAAA
* * * * * *
104858612 TCCTTTTTTT-TA-ACTCAATTGGGTACTTAAATTTTTAAAATGCATAAAAAACACTCAATTTTT
1 TCCTTTTTTTCTACACTCAATTGAGCACTTAAACTTTCAAAATGCATAAAAAACACTCAAATTTC
*
104858675 TTCAAAAATGCAATTAA
66 TTCAAAAAAGCAATTAA
104858692 GCCCCTACTC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
81 13 0.18
82 13 0.18
83 5 0.07
84 1 0.01
85 28 0.39
86 2 0.03
87 10 0.14
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (83 bp):
TCCTTTTTTTCTACACTCAATTGAGCACTTAAACTTTCAAAATGCATAAAAAACACTCAAATTTC
TTCAAAAAAGCAATTAAA
Found at i:104858784 original size:19 final size:18
Alignment explanation
Indices: 104858732--104858787 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
104858722 ATTATAAAAA
*
104858732 ATAAAAATAATAAATTTT
1 ATAAAAATTATAAATTTT
*
104858750 AGAAAAATTATTAAATTTT
1 ATAAAAATTA-TAAATTTT
*
104858769 ATTAAAAATTAGAAATTTT
1 A-TAAAAATTATAAATTTT
104858788 TTTATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.25
19 16 0.50
20 8 0.25
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
ATAAAAATTATAAATTTT
Found at i:104858788 original size:20 final size:21
Alignment explanation
Indices: 104858732--104858799 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 21
104858722 ATTATAAAAA
*
104858732 ATAAAAATAAT-AAA-TTT-T
1 ATAAAAATTATGAAATTTTAT
* *
104858750 AGAAAAATTATTAAATTTTAT
1 ATAAAAATTATGAAATTTTAT
*
104858771 -TAAAAATTA-GAAATTTTTTT
1 ATAAAAATTATGAAA-TTTTAT
104858791 ATAAAAATT
1 ATAAAAATT
104858800 GTAAAAAGTA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.22
19 6 0.15
20 16 0.40
21 9 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (21 bp):
ATAAAAATTATGAAATTTTAT
Found at i:104858986 original size:10 final size:10
Alignment explanation
Indices: 104858967--104859020 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
104858957 GACATGTGAC
*
104858967 AAAAAATAAT
1 AAAAATTAAT
104858977 AAAAATTAAT
1 AAAAATTAAT
*
104858987 AAAAATCAAT
1 AAAAATTAAT
* *
104858997 AAAAGTTAAAG
1 AAAAATT-AAT
104859008 AAAAATT-AT
1 AAAAATTAAT
104859017 AAAA
1 AAAA
104859021 TATTTCTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
9 5 0.14
10 23 0.64
11 8 0.22
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (10 bp):
AAAAATTAAT
Found at i:104859617 original size:18 final size:18
Alignment explanation
Indices: 104859571--104859617 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
104859561 TTATTTATTT
* *
104859571 ATTTAATATCAAAAATTA
1 ATTTAATTTAAAAAATTA
104859589 A-TT-ATTATAAAAAATTA
1 ATTTAATT-TAAAAAATTA
104859606 ATTTAATTTAAA
1 ATTTAATTTAAA
104859618 TTTTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 2 0.08
17 12 0.50
18 7 0.29
19 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTAATTTAAAAAATTA
Found at i:104865807 original size:13 final size:13
Alignment explanation
Indices: 104865789--104865822 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
104865779 TAAATAATAA
104865789 TAAAATATCTTAT
1 TAAAATATCTTAT
104865802 TAAAATATCTTAT
1 TAAAATATCTTAT
104865815 TAAAATAT
1 TAAAATAT
104865823 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:104877987 original size:210 final size:209
Alignment explanation
Indices: 104877578--104878201 Score: 962
Period size: 210 Copynumber: 3.0 Consensus size: 209
104877568 AGATCATGTT
* *
104877578 ATTTGTATCCCTTTTCACATAATTTTATCATGTTTAATAGTAAAATTTAGTCAATTCAGTAATAA
1 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
* *
104877643 TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGGTTTTTAGTAGTTTTGTGGTATTTGATATCT
66 TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGATTTTTAGTAGTTTTATGGTATTTGATATCT
* * * * *
104877708 AAATAAGGTTATCTGGTTAGGTAGGATAGATCAAGAGCCAAAAATGCAACTTTAGGCTGAAATTT
131 AAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTTGGGCTGAAATTT
**
104877773 TTGCCAATGTTGCA
196 TTGCCAATGTCACA
*
104877787 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTTAGTAATAA
1 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
* * *
104877852 TTTATGTTTTTTATAGTTTAAGTAGTCAACTTATGATTTTTAATAGTTTTATGGCATTTGATATC
66 TTTATG-TTTTTATAGTTTAAGTAGTCAATTTATGATTTTTAGTAGTTTTATGGTATTTGATATC
* * * *
104877917 TAAATAAGGTTATGTGGTTACGTAGGACATATCGAGAGCCAAAGATGCAACTTTGGGCTCAAAAT
130 TAAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTTGGGCTGAAATT
*
104877982 TTTGCCAATGTCACG
195 TTTGCCAATGTCACA
*
104877997 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAT
1 ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
*
104878062 TTTATGTTTTTATAGTTTAAGTAGTTAATTTATGATTTTTTTAGTAGTTTTATGGTATTTGATAT
66 TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGA--TTTTTAGTAGTTTTATGGTATTTGATAT
* ** * *
104878127 CTAAATAAGGTTATGTGATTATATAGGATAGATCGGGAGCCAAAGATGCAA-TTTCGAGCTGAAA
129 CTAAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTT-GGGCTGAAA
104878191 TTTTTGCCAAT
193 TTTTTGCCAAT
104878202 ATTACGACCA
Statistics
Matches: 376, Mismatches: 35, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
209 95 0.25
210 193 0.51
211 88 0.23
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (209 bp):
ATTTGTATCCCTTTTCACATAATTTTAGCATGTTTAATAGTAAAATTAAGTCAATTCAGTAATAA
TTTATGTTTTTATAGTTTAAGTAGTCAATTTATGATTTTTAGTAGTTTTATGGTATTTGATATCT
AAATAAGGTTATGTGGTTACGTAGGATAGATCGAGAGCCAAAGATGCAACTTTGGGCTGAAATTT
TTGCCAATGTCACA
Found at i:104882719 original size:2 final size:2
Alignment explanation
Indices: 104882712--104882788 Score: 154
Period size: 2 Copynumber: 38.5 Consensus size: 2
104882702 ATATGCTATC
104882712 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
104882754 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
104882789 CTACAACCAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:104885017 original size:36 final size:36
Alignment explanation
Indices: 104884970--104885041 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
104884960 TCTCGTAATA
104884970 CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
1 CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
*
104885006 CTAGGCTAAGATGTTGTTTTACAGTGATTTTAACTT
1 CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
104885042 ATTTTGATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (36 bp):
CTAGGCTAAGATGTTGTTTTACAATGATTTTAACTT
Found at i:104886265 original size:6 final size:6
Alignment explanation
Indices: 104886254--104886284 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
104886244 GCAAGTTTCC
*
104886254 ATTTTT ATTTTT ATTTTT ATTTTC ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
104886285 GAAACCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:104888740 original size:11 final size:11
Alignment explanation
Indices: 104888722--104888755 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
104888712 TTTGGACTTC
104888722 TTTA-AAAAAT
1 TTTACAAAAAT
104888732 TTTACAAAAAT
1 TTTACAAAAAT
*
104888743 TTTACAAACAT
1 TTTACAAAAAT
104888754 TT
1 TT
104888756 GGTTCACTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (11 bp):
TTTACAAAAAT
Found at i:104889008 original size:14 final size:14
Alignment explanation
Indices: 104888972--104889012 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
104888962 GTTATTAAAT
*
104888972 TTTAAT-AAAATTA
1 TTTAATAAAAATAA
*
104888985 -TTATTAAAAATAA
1 TTTAATAAAAATAA
104888998 TTTAATAAAAATAA
1 TTTAATAAAAATAA
104889012 T
1 T
104889013 AAATAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:104889061 original size:58 final size:58
Alignment explanation
Indices: 104888971--104889112 Score: 171
Period size: 58 Copynumber: 2.4 Consensus size: 58
104888961 TGTTATTAAA
* ** *
104888971 TTTTAATAAAATTATTATTAAA-AATAATTTAATAAAAATAATAAATAATTTAA-CCATT
1 TTTTAATAAAATTATTATTAAATAA-AACTTAAT-AAAATAATAAATAATTTAATAAAAT
* * *
104889029 TTTTAACATAATTATTATTAAATAAAACTTAATAAAATAATATATAATTTAATAAAAT
1 TTTTAATAAAATTATTATTAAATAAAACTTAATAAAATAATAAATAATTTAATAAAAT
* *
104889087 TTTTAATACAATTATTATTATATAAA
1 TTTTAATAAAATTATTATTAAATAAA
104889113 TTAAAAAATC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
57 18 0.25
58 52 0.72
59 2 0.03
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (58 bp):
TTTTAATAAAATTATTATTAAATAAAACTTAATAAAATAATAAATAATTTAATAAAAT
Found at i:104906147 original size:7 final size:7
Alignment explanation
Indices: 104906135--104906160 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
104906125 CAATTCTCTA
104906135 ACCAAGT
1 ACCAAGT
104906142 ACCAAGT
1 ACCAAGT
104906149 ACCAAGT
1 ACCAAGT
104906156 ACCAA
1 ACCAA
104906161 CCATGAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.31, G:0.12, T:0.12
Consensus pattern (7 bp):
ACCAAGT
Found at i:104907441 original size:294 final size:293
Alignment explanation
Indices: 104907065--104907655 Score: 1173
Period size: 294 Copynumber: 2.0 Consensus size: 293
104907055 ACATCTCATT
104907065 AAGATATATTTAAGATATTAATAAGATCATCTATCAAAAAATCCAACAACCTGTAAATTTTAGCA
1 AAGATATATTTAAGATATTAATAAGATCATCTATCAAAAAATCCAACAACCTGTAAATTTTAGCA
104907130 AACCACGCTAAGACCTATAGAGATAAAATCCAAGCACACAAGACATTATCCAAAATATTACGCAA
66 AACCACGCTAAGACCTATAGAGATAAAATCCAAGCACACAAGACATTATCCAAAATATTACGCAA
104907195 AACAAACAACCAAGGCAGATAAACTCAAGTTTATACGTGATTGAGTAGGTTACATTATCGTTTCT
131 AACAAACAACCAAGGCAGATAAACTCAAGTTTATACGTGATTGAGTAGGTTACATTATCGTTTCT
104907260 TTTTTTAGTTTTTTTTTCCCTTTTTTTTTCTGGCAAATCACAGGTATTATTATTATTTTAATAAT
196 TTTTTTAGTTTTTTTTTCCCTTTTTTTTTCTGGCAAATCACAGGTATTATTATTATTTTAATAAT
104907325 TTTCTCTTACGATAAAACAGAACCAAATTATAG
261 TTTCTCTTACGATAAAACAGAACCAAATTATAG
104907358 AAGATATATTTAAGATATTAATAAGATCATCTATCAAAAAAATCCAACAACCTGTAAATTTTAGC
1 AAGATATATTTAAGATATTAATAAGATCATCTATC-AAAAAATCCAACAACCTGTAAATTTTAGC
104907423 AAACCACGCTAAGACCTATAGAGATAAAATCCAAGCACACAAGACATTATCCAAAATATTACGCA
65 AAACCACGCTAAGACCTATAGAGATAAAATCCAAGCACACAAGACATTATCCAAAATATTACGCA
104907488 AAACAAACAACCAAGGCAGATAAACTCAAGTTTATACGTGATTGAGTAGGTTACATTATCGTTTC
130 AAACAAACAACCAAGGCAGATAAACTCAAGTTTATACGTGATTGAGTAGGTTACATTATCGTTTC
104907553 TTTTTTTAGTTTTTTTTTCCCTTTTTTTTTCTGGCAAATCACAGGTATTATTATTATTTTAATAA
195 TTTTTTTAGTTTTTTTTTCCCTTTTTTTTTCTGGCAAATCACAGGTATTATTATTATTTTAATAA
104907618 TTTTCTCTTACGATAAAACAGAACCAAATTATAG
260 TTTTCTCTTACGATAAAACAGAACCAAATTATAG
104907652 AAGA
1 AAGA
104907656 AATGCAATAA
Statistics
Matches: 297, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
293 35 0.12
294 262 0.88
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.34
Consensus pattern (293 bp):
AAGATATATTTAAGATATTAATAAGATCATCTATCAAAAAATCCAACAACCTGTAAATTTTAGCA
AACCACGCTAAGACCTATAGAGATAAAATCCAAGCACACAAGACATTATCCAAAATATTACGCAA
AACAAACAACCAAGGCAGATAAACTCAAGTTTATACGTGATTGAGTAGGTTACATTATCGTTTCT
TTTTTTAGTTTTTTTTTCCCTTTTTTTTTCTGGCAAATCACAGGTATTATTATTATTTTAATAAT
TTTCTCTTACGATAAAACAGAACCAAATTATAG
Found at i:104909387 original size:36 final size:36
Alignment explanation
Indices: 104909346--104909418 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
104909336 TTTATGTGTT
*
104909346 TAATTTTTAATTCGTTTAATAATATATTTTTATTCC
1 TAATTTTTAATTCGTTTAATAATATATATTTATTCC
*
104909382 TAATTTTTAATTTGTTTAATAATATATATTTATTCC
1 TAATTTTTAATTCGTTTAATAATATATATTTATTCC
104909418 T
1 T
104909419 TATAAAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.59
Consensus pattern (36 bp):
TAATTTTTAATTCGTTTAATAATATATATTTATTCC
Found at i:104911492 original size:18 final size:18
Alignment explanation
Indices: 104911452--104911493 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
104911442 ACACCCTGCT
**
104911452 TATATATACATGTATTGA
1 TATATATACATGTATACA
*
104911470 AATATATACATGTATACA
1 TATATATACATGTATACA
104911488 TATATA
1 TATATA
104911494 AGCAGGGGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (18 bp):
TATATATACATGTATACA
Found at i:104917726 original size:40 final size:40
Alignment explanation
Indices: 104917681--104917905 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
104917671 CTTGCACAAG
* * *
104917681 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
104917721 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
104917761 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
104917801 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
104917841 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGTACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
104917882 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
104917906 CATTCGAATA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 28 0.18
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:104917794 original size:80 final size:80
Alignment explanation
Indices: 104917654--104917905 Score: 285
Period size: 80 Copynumber: 3.2 Consensus size: 80
104917644 TCTTTGAGAT
* * * * * * *
104917654 TTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCAT
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC
104917717 AAATGCCTTCGGGAC
66 AAATGCCTTCGGGAC
* * * *
104917732 TTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCA
1 TTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
*
104917796 CAAATGCCTTCGGGTC
65 CAAATGCCTTCGGGAC
* * * * * * *
104917812 TTAGCCCAGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGTA
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCA
*
104917877 CAAAAGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
104917893 TTAGCCCGGATAT
1 TTAGCCCGGATAT
104917906 CATTCGAATA
Statistics
Matches: 144, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 4 0.03
79 16 0.11
80 93 0.65
81 31 0.22
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC
AAATGCCTTCGGGAC
Found at i:104924274 original size:48 final size:48
Alignment explanation
Indices: 104924203--104924331 Score: 129
Period size: 48 Copynumber: 2.7 Consensus size: 48
104924193 GTGTGCACTC
* * * **
104924203 GTGTAAGACCATATCTGGGACATGGCATCGGCATTCAGAC-GAGAGTTA
1 GTGTAAGACTATGTCTGGGACATGGCATCGGCACTC-GACAGAGAGCCA
* * *
104924251 GTGTAAGACTATGTCTGGGACATGGTATAGGC-CTCGACATGTGAGCCA
1 GTGTAAGACTATGTCTGGGACATGGCATCGGCACTCGACA-GAGAGCCA
*
104924299 GTGTAAGA-TCATGTTTGGGACATGGCATCGGCA
1 GTGTAAGACT-ATGTCTGGGACATGGCATCGGCA
104924332 ATTTGCCCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
46 3 0.05
47 3 0.05
48 60 0.91
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
GTGTAAGACTATGTCTGGGACATGGCATCGGCACTCGACAGAGAGCCA
Found at i:104930259 original size:47 final size:47
Alignment explanation
Indices: 104930206--104930714 Score: 768
Period size: 47 Copynumber: 10.7 Consensus size: 47
104930196 GATTTTATGC
*
104930206 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
104930253 GATGAATGTGAAAGTATCTATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA-ATGT
*
104930300 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAAGGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
104930347 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATAT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGT
*
104930396 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGT
*
104930445 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGT
* *
104930494 GATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
104930541 GATGAATGTGAAAGTGTATATATATGTGATACGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGT
*
104930590 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* * *
104930637 GATGAATGTGAAAGTGTATATATGTGATAGGGCCTAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGT
* *
104930684 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
104930715 TCCCGAAGGG
Statistics
Matches: 429, Mismatches: 27, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
46 2 0.00
47 241 0.56
48 2 0.00
49 184 0.43
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGT
Found at i:104930403 original size:96 final size:96
Alignment explanation
Indices: 104930206--104930714 Score: 810
Period size: 96 Copynumber: 5.3 Consensus size: 96
104930196 GATTTTATGC
*
104930206 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
104930269 TCTATATGTGATAAGGCCTAATGGCAGATGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
*
104930300 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAAGGTGATGAATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
104930365 TATATATGTGATAAGGCCTAATGGCCGATAT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
*
104930396 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
104930461 TATATATATGTGATAAGGCCGAATGGCCAATGT
64 TATATATATGTGATAAGGCCTAATGGCCGATGT
* *
104930494 GATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
*
104930559 TATATATGTGATACGGCCTAATGGCCGATGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
*
104930590 GATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * *
104930653 TATATATGTGATAGGGCCTAGTGGCCAACGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
* *
104930684 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
104930715 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 23, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
94 114 0.29
96 183 0.47
98 91 0.23
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
TATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:104937216 original size:48 final size:48
Alignment explanation
Indices: 104937160--104937476 Score: 291
Period size: 48 Copynumber: 6.6 Consensus size: 48
104937150 TGCGCTAGTA
* *
104937160 TAAGACCATGTCTAGGACATGGCGTCAGCCACAATATGAGAGCCAGTG
1 TAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTG
* * * * * *
104937208 TAAGACCATGTTTAGAACATAGCATCAGCAATGTTATGAGAGCCAGTG
1 TAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTG
*** * * *
104937256 TAAGACCATGTCT-GGAACATGGCATCAGTGTCGATTTGTGTA-CTAGTG
1 TAAGACCATGTCTAGG-ACATGGCATCAGCCACGATATGAG-AGCCAGTG
* * * *
104937304 TAAGACCATGTCTGGGACACGGCGTTAGCCAC-ATTATGAGAGCCAGTG
1 TAAGACCATGTCTAGGACATGGCATCAGCCACGA-TATGAGAGCCAGTG
* * * * *
104937352 TAAGACCATATCTAGGACATGGCATCAG-CATTGAGACGAGAGCTAGTG
1 TAAGACCATGTCTAGGACATGGCATCAGCCA-CGATATGAGAGCCAGTG
* * ** * * *
104937400 TAAGACCATGTCTGGGACATGGTATTGGCCTCGACATGTGAGCCAGTG
1 TAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTG
*
104937448 TAAGACCATGTCTGGGACATGGCATCAGC
1 TAAGACCATGTCTAGGACATGGCATCAGC
104937477 AATTTGCCCT
Statistics
Matches: 210, Mismatches: 51, Indels: 16
0.76 0.18 0.06
Matches are distributed among these distances:
47 5 0.02
48 200 0.95
49 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATCAGCCACGATATGAGAGCCAGTG
Found at i:104937414 original size:144 final size:144
Alignment explanation
Indices: 104937148--104937476 Score: 408
Period size: 144 Copynumber: 2.3 Consensus size: 144
104937138 TTGGGTGATG
* * * *
104937148 TGTGCGCTAGTATAAGACCATGTCTAGGACATGGCGTCAGCCACAATATGAGAGCCAGTGTAAGA
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAGA
* * ** *
104937213 CCATGTTTAGAACATAGCATCAGCAATGTTATGAGAGCCAGTGTAAGACCATGTCTGGAACATGG
66 CCATATCTAGAACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCATGTCTGGAACATGG
** **
104937278 CATCAGTGTCGATT
131 CATCAGCCTCGACA
* *
104937292 TGTGTA-CTAGTGTAAGACCATGTCTGGGACACGGCGTTAGCCACATTATGAGAGCCAGTGTAAG
1 TGTG-AGCTAGTGTAAGACCATGTCTGGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAG
* * * * *
104937356 ACCATATCTAGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGACATG
65 ACCATATCTAGAACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCATGTCTGGAACATG
* **
104937421 GTATTGGCCTCGACA
130 GCATCAGCCTCGACA
* * *
104937436 TGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 TGTGAGCTAGTGTAAGACCATGTCTGGGACACGGCGTCAGC
104937477 AATTTGCCCT
Statistics
Matches: 156, Mismatches: 27, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
143 1 0.01
144 155 0.99
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (144 bp):
TGTGAGCTAGTGTAAGACCATGTCTGGGACACGGCGTCAGCCACAATATGAGAGCCAGTGTAAGA
CCATATCTAGAACATAGCATCAGCAATGAGACGAGAGCCAGTGTAAGACCATGTCTGGAACATGG
CATCAGCCTCGACA
Found at i:104937950 original size:59 final size:59
Alignment explanation
Indices: 104937858--104938033 Score: 293
Period size: 59 Copynumber: 3.0 Consensus size: 59
104937848 CTTTTTCATT
* *
104937858 TTCTTATAGTGCCGCCAAGTCAGTACCGAGGATCAAGGGACTTCGGAGACATCGATCAC
1 TTCTTATAGTGCCGCCAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
*
104937917 TTCTTATAGTGCTAG-CAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
1 TTCTTATAGTGC-CGCCAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
104937976 TTCTTATAGTGCCGCCAAGTTAGTACCGGGGATCAAGGGA-TGTCGGAGACATCGATCA
1 TTCTTATAGTGCCGCCAAGTTAGTACCGGGGATCAAGGGACT-TCGGAGACATCGATCA
104938034 AACTATCACC
Statistics
Matches: 110, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
58 2 0.02
59 107 0.97
60 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (59 bp):
TTCTTATAGTGCCGCCAAGTTAGTACCGGGGATCAAGGGACTTCGGAGACATCGATCAC
Found at i:104943645 original size:55 final size:55
Alignment explanation
Indices: 104943526--104943666 Score: 151
Period size: 55 Copynumber: 2.6 Consensus size: 55
104943516 GACATGGCCG
* * * * * *
104943526 TGGTCGAACCCGCTAAAATAACACGAGCGTGCGACACGCCTGTGTGGAAGAACCG
1 TGGTCGAACCTGTTAAAATAACACGGGCGTGCGACACGCCCGTGTGCAAGAACCA
* * *
104943581 TGGGT-GAACCTGTTAAAATAGCACGGGCGTGCGACACGCCCGTGT-CTAGTACCCA
1 T-GGTCGAACCTGTTAAAATAACACGGGCGTGCGACACGCCCGTGTGCAAG-AACCA
**
104943636 TGGTCGAACCTGTTAACTTAACACGGGCGTG
1 TGGTCGAACCTGTTAAAATAACACGGGCGTG
104943667 GACCTTGCAT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 5 0.07
55 63 0.89
56 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (55 bp):
TGGTCGAACCTGTTAAAATAACACGGGCGTGCGACACGCCCGTGTGCAAGAACCA
Found at i:104950869 original size:17 final size:18
Alignment explanation
Indices: 104950827--104950875 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
104950817 AGTTGAAAAG
104950827 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
104950846 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
104950863 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
104950876 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:104951764 original size:40 final size:40
Alignment explanation
Indices: 104951698--104951864 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
104951688 AAATTGAATG
* * *
104951698 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
104951737 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
104951777 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
104951817 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
104951857 ATATCCGG
1 ATATCCGG
104951865 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:104955830 original size:14 final size:13
Alignment explanation
Indices: 104955807--104955838 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
104955797 AGGATATCAA
104955807 AACAATAATTAAG
1 AACAATAATTAAG
104955820 AACACATAATTAAG
1 AACA-ATAATTAAG
104955834 AACAA
1 AACAA
104955839 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:104958406 original size:2 final size:2
Alignment explanation
Indices: 104958399--104958436 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
104958389 GTTTATGTGA
104958399 AT 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
104958437 GTTGAATGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104959537 original size:43 final size:43
Alignment explanation
Indices: 104959471--104959634 Score: 206
Period size: 43 Copynumber: 3.9 Consensus size: 43
104959461 TGACATTCGA
* *
104959471 GCTTTGAGCCTAGCAGGCTATAATGCCAGTAAGATGATATCGG
1 GCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATGATATCGG
* * **
104959514 GCTTCGAGCCTAGCAAGCTATAATGCTAGTGAGATGATATCTA
1 GCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATGATATCGG
* * * *
104959557 GCTTTGGGCCTAGTAGGCTATAATGCCGGTGAGATGATATCGG
1 GCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATGATATCGG
* *
104959600 GCTTCGAGCCTAGCAGGC-AAAATGCCGGTGA-ATGA
1 GCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATGA
104959635 GTTCAGACTT
Statistics
Matches: 103, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
41 4 0.04
42 12 0.12
43 87 0.84
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
GCTTCGAGCCTAGCAGGCTATAATGCCAGTGAGATGATATCGG
Found at i:104960223 original size:16 final size:18
Alignment explanation
Indices: 104960191--104960224 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
104960181 GAACTCGTCA
104960191 TACTATCTATCGTTTTGG
1 TACTATCTATCGTTTTGG
104960209 TACTAT-TAT-GTTTTGG
1 TACTATCTATCGTTTTGG
104960225 AATTCGTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (18 bp):
TACTATCTATCGTTTTGG
Found at i:104964908 original size:27 final size:27
Alignment explanation
Indices: 104964874--104965046 Score: 202
Period size: 27 Copynumber: 6.4 Consensus size: 27
104964864 TGGATAAGTT
** *
104964874 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
104964901 GTAGAATTACCAAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
104964928 GTAGAATTATCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
104964955 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
104964982 GTAAAAATACCGAAATAACCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
104965009 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
104965036 GTAAAATTACC
1 GTAGAATTACC
104965047 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:104968393 original size:80 final size:80
Alignment explanation
Indices: 104968309--104968457 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 80
104968299 TATGGTAACC
* * * *
104968309 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
104968373 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * *
104968389 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
104968454 CCGG
66 CCGG
104968458 TATAATTTCC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:104968399 original size:40 final size:39
Alignment explanation
Indices: 104968350--104968457 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
104968340 ATCACGATTT
** *
104968350 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
104968390 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
*
104968430 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
104968458 TATAATTTCC
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.03
40 58 0.97
ACGTcount: A:0.22, C:0.30, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:104976515 original size:80 final size:80
Alignment explanation
Indices: 104976431--104976579 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
104976421 TATGGTAACC
* * * *
104976431 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
104976495 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
104976511 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
104976576 CCGG
66 CCGG
104976580 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:104976521 original size:40 final size:38
Alignment explanation
Indices: 104976472--104976579 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
104976462 ATCACGATTT
*
104976472 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
104976512 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
104976552 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
104976580 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:104983089 original size:21 final size:21
Alignment explanation
Indices: 104983034--104983134 Score: 107
Period size: 21 Copynumber: 4.9 Consensus size: 21
104983024 ATGCCAACAA
*
104983034 AAGCTCG-AA-AGCTGAACAG
1 AAGCTCGTAAGAGCTGAATAG
**
104983053 AAGCTTATAGAGAGCTGAATAG
1 AAGCTCGTA-AGAGCTGAATAG
* * *
104983075 AAACTCGTAAGAGCTAAACAG
1 AAGCTCGTAAGAGCTGAATAG
*
104983096 AAGCTCATAAGAGCTGAATAG
1 AAGCTCGTAAGAGCTGAATAG
*
104983117 AAGCTTGTAAGAGCTGAA
1 AAGCTCGTAAGAGCTGAA
104983135 CAAAAAGTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
19 5 0.08
20 1 0.02
21 44 0.68
22 15 0.23
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.18
Consensus pattern (21 bp):
AAGCTCGTAAGAGCTGAATAG
Found at i:104983114 original size:42 final size:43
Alignment explanation
Indices: 104983043--104983136 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 43
104983033 AAAGCTCGAA
*
104983043 AGCTGAACAGAAGCTTATAGAGAGCTGAATAGAAACTCGTAAG
1 AGCTGAACAGAAGCTCATAGAGAGCTGAATAGAAACTCGTAAG
* * *
104983086 AGCTAAACAGAAGCTCATA-AGAGCTGAATAGAAGCTTGTAAG
1 AGCTGAACAGAAGCTCATAGAGAGCTGAATAGAAACTCGTAAG
104983128 AGCTGAACA
1 AGCTGAACA
104983137 AAAAGTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.63
43 17 0.37
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (43 bp):
AGCTGAACAGAAGCTCATAGAGAGCTGAATAGAAACTCGTAAG
Found at i:104984720 original size:13 final size:13
Alignment explanation
Indices: 104984702--104984727 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104984692 TGATTATTTT
104984702 TTTCGCAAAATTG
1 TTTCGCAAAATTG
104984715 TTTCGCAAAATTG
1 TTTCGCAAAATTG
104984728 ATTAGATTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTTCGCAAAATTG
Found at i:104986505 original size:17 final size:18
Alignment explanation
Indices: 104986475--104986508 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
104986465 TATGACAATG
*
104986475 CTTCAACGATCTTCCAAC
1 CTTCAACGAGCTTCCAAC
104986493 CTTC-ACGAGCTTCCAA
1 CTTCAACGAGCTTCCAA
104986509 GCACTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.26, C:0.38, G:0.09, T:0.26
Consensus pattern (18 bp):
CTTCAACGAGCTTCCAAC
Found at i:104989857 original size:19 final size:19
Alignment explanation
Indices: 104989835--104989873 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
104989825 CATTCACTAC
104989835 TCCAATCATATTGATTTCA
1 TCCAATCATATTGATTTCA
104989854 TCCAATCATATTGATTTCA
1 TCCAATCATATTGATTTCA
104989873 T
1 T
104989874 ACGCTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
TCCAATCATATTGATTTCA
Found at i:104990688 original size:47 final size:47
Alignment explanation
Indices: 104990629--104990760 Score: 151
Period size: 47 Copynumber: 2.8 Consensus size: 47
104990619 TCTAAATTGA
* * *
104990629 TAAGTACATATACCATGACCCGTAGCCAAATCAAGGTAACTTATCTC
1 TAAGTACCTATACCATGACTCGTAGCCAAATCAAGGTAACTCATCTC
* *
104990676 -AGAGTACCTATACCAT-AGCTCGTAGCCAAATTAAGGTAACTCCTCTC
1 TA-AGTACCTATACCATGA-CTCGTAGCCAAATCAAGGTAACTCATCTC
* * **
104990723 TAAATACCTATACCATGTCTTATAGCCAAATCAAGGTA
1 TAAGTACCTATACCATGACTCGTAGCCAAATCAAGGTA
104990761 TTATTCGTAC
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
46 2 0.03
47 68 0.96
48 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.27
Consensus pattern (47 bp):
TAAGTACCTATACCATGACTCGTAGCCAAATCAAGGTAACTCATCTC
Found at i:104995403 original size:120 final size:121
Alignment explanation
Indices: 104995241--104995462 Score: 313
Period size: 122 Copynumber: 1.8 Consensus size: 121
104995231 CACAATAACA
* **
104995241 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTTTTCCTAAT-CTCAATTTAACACGGAATG
1 ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATACTCAATTTAACACAAAATG
*
104995305 TATGATAACTAACTTAAGAATGCAAATTAAATGATATACATTGGTATGGTAATAGC
66 TATGATAACTAACCTAAGAATGCAAATTAAATGATATACATTGGTATGGTAATAGC
* * * ** **
104995361 ATGAGAATAA-ACATAGTAATGTCATGGGTTTGAGGTGTTCCTAATAACTTGATTTATTACAAAA
1 ATGAGAATAAGA-ATAGAAATGTAATGGGTATGAGGTGTTCCTAAT-ACTCAATTTAACACAAAA
104995425 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATA
64 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATA
104995463 GAAAATGAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 1 0.01
120 39 0.44
122 48 0.55
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (121 bp):
ATGAGAATAAGAATAGAAATGTAATGGGTATGAGGTGTTCCTAATACTCAATTTAACACAAAATG
TATGATAACTAACCTAAGAATGCAAATTAAATGATATACATTGGTATGGTAATAGC
Found at i:104998947 original size:3 final size:3
Alignment explanation
Indices: 104998934--104998977 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
104998924 AAGATTAGGT
104998934 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
104998978 TAAATTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:105007735 original size:28 final size:28
Alignment explanation
Indices: 105007703--105007780 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 28
105007693 AATCATTCAG
* *
105007703 TATTTCGCTCATTAAGTGCCATTCTCAA
1 TATTTCGCACACTAAGTGCCATTCTCAA
* *
105007731 TATTTTGCACACTAAGTGTCATTCTCAA
1 TATTTCGCACACTAAGTGCCATTCTCAA
* *
105007759 TATTTCCCACACTAAGTTCCAT
1 TATTTCGCACACTAAGTGCCAT
105007781 ATTTGATGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.09, T:0.38
Consensus pattern (28 bp):
TATTTCGCACACTAAGTGCCATTCTCAA
Found at i:105007856 original size:40 final size:40
Alignment explanation
Indices: 105007812--105007895 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
105007802 GTGCTGTACA
* *
105007812 TAGCTGAAGCTATCTCAAATCGCACACTAAGTGCCAAATT
1 TAGCTGAAGCTATATCAAACCGCACACTAAGTGCCAAATT
* *
105007852 TAGCTGAAGCTATATCGAACCGCACACTAAGTGCCATATT
1 TAGCTGAAGCTATATCAAACCGCACACTAAGTGCCAAATT
105007892 TAGC
1 TAGC
105007896 CGATATGTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
TAGCTGAAGCTATATCAAACCGCACACTAAGTGCCAAATT
Found at i:105011480 original size:79 final size:79
Alignment explanation
Indices: 105011336--105011553 Score: 221
Period size: 79 Copynumber: 2.7 Consensus size: 79
105011326 AAATCACGTA
* * *
105011336 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
*
105011401 AACTCGCATAAATG
66 AACTCGCACAAATG
* * * *
105011415 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACAAATGCCTTTGGG-CTTAGCCCGGGAT-T
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGTACAAATGCCTTCGGGACATAGCCC-GGATAT
105011477 AGTAACTCGCACAAATG
63 AGTAACTCGCACAAATG
* * * * * *
105011494 CCTTCGGATCTTAGTCCGGATATAG-TCACTTAGCACAAA-GCCTTCGAGACTTAGCCCGGA
1 CCTTCGGAACTTA-ACCGGATATAGCT-AC-TCGTACAAATGCCTTCGGGACATAGCCCGGA
105011554 CATCATTCGA
Statistics
Matches: 116, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
79 70 0.60
80 46 0.40
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGCACAAATG
Found at i:105011553 original size:40 final size:39
Alignment explanation
Indices: 105011350--105011553 Score: 207
Period size: 40 Copynumber: 5.1 Consensus size: 39
105011340 CGGAATTTAA
** *
105011350 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTC-GGACTTAGC
* * *
105011390 CCGGTTATAGTAACTCGCATAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGC
* * * *
105011430 CCGGATTTAGTAACTCGTACAAATGCCTTTGGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
*
105011469 CCGGGAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGT
1 CC-GGATATAGTAACTCGCACAAATGCCTTCGGA-CTTAGC
* *
105011509 CCGGATATAGTCACTTAGCACAAA-GCCTTCGAGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCG-GACTTAGC
105011549 CCGGA
1 CCGGA
105011554 CATCATTCGA
Statistics
Matches: 138, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
39 37 0.27
40 91 0.66
41 10 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
Found at i:105020691 original size:18 final size:16
Alignment explanation
Indices: 105020641--105020694 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
105020631 TCTTTTCTTT
*
105020641 TCTTTCTTTTTCCTTC
1 TCTTTCGTTTTCCTTC
* *
105020657 TTTTTCGTTTTTCTTC
1 TCTTTCGTTTTCCTTC
105020673 TCTTTCGATTTTCCGTTC
1 TCTTTCG-TTTTCC-TTC
105020691 TCTT
1 TCTT
105020695 CCATTTAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 19 0.61
17 5 0.16
18 7 0.23
ACGTcount: A:0.02, C:0.26, G:0.06, T:0.67
Consensus pattern (16 bp):
TCTTTCGTTTTCCTTC
Done.