Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 142 of 144
Found at i:37685467 original size:16 final size:17
Alignment explanation
Indices: 37685446--37685479 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
37685436 TCATGATTTT
*
37685446 TTTATT-AATAATAGTA
1 TTTATTAAAAAATAGTA
37685462 TTTATTAAAAAATAGTA
1 TTTATTAAAAAATAGTA
37685479 T
1 T
37685480 AAAGATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTATTAAAAAATAGTA
Found at i:37687290 original size:17 final size:16
Alignment explanation
Indices: 37687268--37687302 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
37687258 TTCCATTCAA
37687268 TAAATATAAAATTATTT
1 TAAA-ATAAAATTATTT
37687285 T-AAATAAAATTATTT
1 TAAAATAAAATTATTT
37687300 TAA
1 TAA
37687303 TTAATGGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
15 13 0.76
16 3 0.18
17 1 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAATAAAATTATTT
Found at i:37687291 original size:15 final size:15
Alignment explanation
Indices: 37687273--37687302 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37687263 TTCAATAAAT
37687273 ATAAAATTATTTTAA
1 ATAAAATTATTTTAA
37687288 ATAAAATTATTTTAA
1 ATAAAATTATTTTAA
37687303 TTAATGGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAAAATTATTTTAA
Found at i:37688894 original size:4 final size:4
Alignment explanation
Indices: 37688885--37688909 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
37688875 GAAGGTGGGT
37688885 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
37688910 AAATAACGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:37690034 original size:16 final size:16
Alignment explanation
Indices: 37690015--37690048 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
37690005 CTTTTTGTTT
*
37690015 AAGATCAATTTTTTTA
1 AAGATCAATTTATTTA
37690031 AAGATCAATTTATTTA
1 AAGATCAATTTATTTA
37690047 AA
1 AA
37690049 ATTATGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
AAGATCAATTTATTTA
Found at i:37691439 original size:233 final size:233
Alignment explanation
Indices: 37691032--37691498 Score: 934
Period size: 233 Copynumber: 2.0 Consensus size: 233
37691022 GTTTGAAGTA
37691032 TTGGATTCTTTATTCTAATCTGAATAACAGTTGAACATGTTTTTAATCTGTTGGAGTTAGATATG
1 TTGGATTCTTTATTCTAATCTGAATAACAGTTGAACATGTTTTTAATCTGTTGGAGTTAGATATG
37691097 CTTGTTATTTCGAATTCGGATTCAAATGATTTCAAATTTGATTTTGAAAGTTATATCATGAATTC
66 CTTGTTATTTCGAATTCGGATTCAAATGATTTCAAATTTGATTTTGAAAGTTATATCATGAATTC
37691162 GAGTTATCTCAGATTACTTATTATATTTTAGTTAAAAAATTTAGGTTTATTGTTTAGAAATACTA
131 GAGTTATCTCAGATTACTTATTATATTTTAGTTAAAAAATTTAGGTTTATTGTTTAGAAATACTA
37691227 AGTTTAGACTAGTTTTAGATTCAAGTCAATTCATGTTC
196 AGTTTAGACTAGTTTTAGATTCAAGTCAATTCATGTTC
37691265 TTGGATTCTTTATTCTAATCTGAATAACAGTTGAACATGTTTTTAATCTGTTGGAGTTAGATATG
1 TTGGATTCTTTATTCTAATCTGAATAACAGTTGAACATGTTTTTAATCTGTTGGAGTTAGATATG
37691330 CTTGTTATTTCGAATTCGGATTCAAATGATTTCAAATTTGATTTTGAAAGTTATATCATGAATTC
66 CTTGTTATTTCGAATTCGGATTCAAATGATTTCAAATTTGATTTTGAAAGTTATATCATGAATTC
37691395 GAGTTATCTCAGATTACTTATTATATTTTAGTTAAAAAATTTAGGTTTATTGTTTAGAAATACTA
131 GAGTTATCTCAGATTACTTATTATATTTTAGTTAAAAAATTTAGGTTTATTGTTTAGAAATACTA
37691460 AGTTTAGACTAGTTTTAGATTCAAGTCAATTCATGTTC
196 AGTTTAGACTAGTTTTAGATTCAAGTCAATTCATGTTC
37691498 T
1 T
37691499 AGCTACGATG
Statistics
Matches: 234, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 234 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (233 bp):
TTGGATTCTTTATTCTAATCTGAATAACAGTTGAACATGTTTTTAATCTGTTGGAGTTAGATATG
CTTGTTATTTCGAATTCGGATTCAAATGATTTCAAATTTGATTTTGAAAGTTATATCATGAATTC
GAGTTATCTCAGATTACTTATTATATTTTAGTTAAAAAATTTAGGTTTATTGTTTAGAAATACTA
AGTTTAGACTAGTTTTAGATTCAAGTCAATTCATGTTC
Found at i:37706855 original size:63 final size:63
Alignment explanation
Indices: 37706756--37706953 Score: 369
Period size: 63 Copynumber: 3.1 Consensus size: 63
37706746 GGTTGTCGTT
*
37706756 GATGGAAACGATGTGATTGATAGCGTAGAATCGAAGGAAGCCATTGAAGAAACAAGCGAACCC
1 GATGGAAACGTTGTGATTGATAGCGTAGAATCGAAGGAAGCCATTGAAGAAACAAGCGAACCC
*
37706819 GATGGAAACGTTGTGATTGATAGCGTAGAATCGAAGGAAGACATTGAAGAAACAAGCGAACCC
1 GATGGAAACGTTGTGATTGATAGCGTAGAATCGAAGGAAGCCATTGAAGAAACAAGCGAACCC
*
37706882 GAGGGAAACGTTGTGATTGATAGCGTAGAATCGAAGGAAGCCATTGAAGAAACAAGCGAACCC
1 GATGGAAACGTTGTGATTGATAGCGTAGAATCGAAGGAAGCCATTGAAGAAACAAGCGAACCC
37706945 GATGGAAAC
1 GATGGAAAC
37706954 ATGGGCTCGT
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 130 1.00
ACGTcount: A:0.39, C:0.15, G:0.29, T:0.16
Consensus pattern (63 bp):
GATGGAAACGTTGTGATTGATAGCGTAGAATCGAAGGAAGCCATTGAAGAAACAAGCGAACCC
Found at i:37710922 original size:91 final size:94
Alignment explanation
Indices: 37710785--37710961 Score: 236
Period size: 92 Copynumber: 1.9 Consensus size: 94
37710775 TTGATAAATA
* * *
37710785 AAAAAAACTTTTAAGTACTTAAGTGGAAAAAGTAGTATAGTGTGAGGGCTAATTTT-GATTTAAG
1 AAAAAAAC-TTTAAGTACTTAAATGGAAAAAGTAATATAGTGTGAGGACTAATTTTGGATTTAAG
* *
37710849 TCATTTTGATATTGTGTGGCTTTTGAAAAG
65 CCATTTAGATATTGTGTGGCTTTTGAAAAG
* * *
37710879 AAAAAAA-TTTAGGTACTTAAATGG-AAAAGTAATAT-GATTTGAGGACTGATTTTGGATTTAAG
1 AAAAAAACTTTAAGTACTTAAATGGAAAAAGTAATATAG-TGTGAGGACTAATTTTGGATTTAAG
37710941 CCATTTAGATATTGTGTGGCT
65 CCATTTAGATATTGTGTGGCT
37710962 CGTATAGAAG
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
90 1 0.01
91 23 0.32
92 42 0.58
94 7 0.10
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.37
Consensus pattern (94 bp):
AAAAAAACTTTAAGTACTTAAATGGAAAAAGTAATATAGTGTGAGGACTAATTTTGGATTTAAGC
CATTTAGATATTGTGTGGCTTTTGAAAAG
Found at i:37711166 original size:31 final size:31
Alignment explanation
Indices: 37711125--37711190 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
37711115 TAAAATTTTT
*
37711125 ATTTAATTTTG-GTTAATTTCGTATTTGGATA
1 ATTTAATTTTGAGTTAATTTAG-ATTTGGATA
* * *
37711156 ATTTAGTTTTGAGTTATTTTAGATTTGGATT
1 ATTTAATTTTGAGTTAATTTAGATTTGGATA
37711187 ATTT
1 ATTT
37711191 TAAATTTAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.58
Consensus pattern (31 bp):
ATTTAATTTTGAGTTAATTTAGATTTGGATA
Found at i:37711176 original size:16 final size:16
Alignment explanation
Indices: 37711147--37711206 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
37711137 TTAATTTCGT
*
37711147 ATTTGGA-TAATTTAG
1 ATTTGGATTATTTTAG
*
37711162 -TTTTGAGTTATTTTAG
1 ATTTGGA-TTATTTTAG
*
37711178 ATTTGGATTATTTTAA
1 ATTTGGATTATTTTAG
*
37711194 ATTTAGATTATTT
1 ATTTGGATTATTT
37711207 AAATTTAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.14
16 27 0.73
17 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (16 bp):
ATTTGGATTATTTTAG
Found at i:37711209 original size:15 final size:16
Alignment explanation
Indices: 37711169--37711213 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
37711159 TAGTTTTGAG
* *
37711169 TTATTTTAGATTTGGA
1 TTATTTTAAATTTAGA
37711185 TTATTTTAAATTTAGA
1 TTATTTTAAATTTAGA
37711201 TTA-TTTAAATTTA
1 TTATTTTAAATTTA
37711214 AAGTTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TTATTTTAAATTTAGA
Found at i:37713030 original size:14 final size:14
Alignment explanation
Indices: 37713006--37713042 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
37712996 AACATTAAAA
37713006 ATTTAACATTGTTAT
1 ATTTAA-ATTGTTAT
37713021 ATTTAAATTGTTAT
1 ATTTAAATTGTTAT
37713035 ATTTAAAT
1 ATTTAAAT
37713043 ATTAAAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTTAAATTGTTAT
Found at i:37713093 original size:24 final size:24
Alignment explanation
Indices: 37713066--37713113 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
37713056 AATTTTATCA
37713066 AATAAAAATATCACATTAAAAAAT
1 AATAAAAATATCACATTAAAAAAT
* *
37713090 AATATAATTATCACATTAAAAAAT
1 AATAAAAATATCACATTAAAAAAT
37713114 TGAAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
AATAAAAATATCACATTAAAAAAT
Found at i:37713361 original size:29 final size:30
Alignment explanation
Indices: 37713332--37713421 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 30
37713322 TTGATAAATG
37713332 AATTTTAATTTGATGT-AATTATATATATGA
1 AATTTTAATTTGAT-TCAATTATATATATGA
* * * *
37713362 AATTTTGATTGTGATTCAAATGTATACATGA
1 AATTTTAATT-TGATTCAATTATATATATGA
*
37713393 AATTTTAATTTTGATTCAATCATATATAT
1 AATTTTAA-TTTGATTCAATTATATATAT
37713422 TTAAAGAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
30 10 0.21
31 36 0.75
32 2 0.04
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (30 bp):
AATTTTAATTTGATTCAATTATATATATGA
Found at i:37714238 original size:31 final size:31
Alignment explanation
Indices: 37714192--37714256 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
37714182 TAGTCCTGTA
*
37714192 TTTTTATTTGATCAA-TTTAAGTGCCTT-TATT
1 TTTTTAATTGATCAATTTTAA-T-CCTTATATT
*
37714223 TTTTTAATTGGTCAATTTTAATCCTTATATT
1 TTTTTAATTGATCAATTTTAATCCTTATATT
37714254 TTT
1 TTT
37714257 CAAGTTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 4 0.13
31 21 0.70
32 5 0.17
ACGTcount: A:0.23, C:0.09, G:0.08, T:0.60
Consensus pattern (31 bp):
TTTTTAATTGATCAATTTTAATCCTTATATT
Found at i:37716226 original size:21 final size:21
Alignment explanation
Indices: 37716202--37716243 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
37716192 GTTCAATGGG
37716202 TTTAATTATTAG-TTTTTTTAT
1 TTTAATT-TTAGATTTTTTTAT
* *
37716223 TTTAGTTTTCGATTTTTTTAT
1 TTTAATTTTAGATTTTTTTAT
37716244 CGATGCATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTAATTTTAGATTTTTTTAT
Found at i:37717144 original size:22 final size:22
Alignment explanation
Indices: 37717116--37717161 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
37717106 CAAATCCCGA
37717116 CACCGACAATCCTCTCTTATGC
1 CACCGACAATCCTCTCTTATGC
37717138 CACCGACAATCCTCTCTTATGC
1 CACCGACAATCCTCTCTTATGC
37717160 CA
1 CA
37717162 GCTTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.41, G:0.09, T:0.26
Consensus pattern (22 bp):
CACCGACAATCCTCTCTTATGC
Found at i:37728420 original size:6 final size:6
Alignment explanation
Indices: 37728409--37728434 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
37728399 TCAATGGCGT
37728409 CAATGG CAATGG CAATGG CAATGG CA
1 CAATGG CAATGG CAATGG CAATGG CA
37728435 GCGGCAGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.15
Consensus pattern (6 bp):
CAATGG
Found at i:37729558 original size:23 final size:22
Alignment explanation
Indices: 37729514--37729555 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37729504 TTTATCCCAA
37729514 GTTTTAAATTATATAGTTAATT
1 GTTTTAAATTATATAGTTAATT
*
37729536 GTTTTTAATTAT-TCAGTTAA
1 GTTTTAAATTATAT-AGTTAA
37729556 ATTTCTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (22 bp):
GTTTTAAATTATATAGTTAATT
Found at i:37736308 original size:24 final size:24
Alignment explanation
Indices: 37736281--37736352 Score: 117
Period size: 24 Copynumber: 3.0 Consensus size: 24
37736271 CACTAACTCT
* *
37736281 TCCACCTGCACCTCCTCCAGCTCC
1 TCCACCTACGCCTCCTCCAGCTCC
37736305 TCCACCTACGCCTCCTCCAGCTCC
1 TCCACCTACGCCTCCTCCAGCTCC
*
37736329 TCCACCTACGCCTCCTCCTGCTCC
1 TCCACCTACGCCTCCTCCAGCTCC
37736353 ACCTCGAGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.11, C:0.58, G:0.08, T:0.22
Consensus pattern (24 bp):
TCCACCTACGCCTCCTCCAGCTCC
Found at i:37736321 original size:15 final size:15
Alignment explanation
Indices: 37736301--37736346 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
37736291 CCTCCTCCAG
37736301 CTCCTCCACCTACGC
1 CTCCTCCACCTACGC
37736316 CTCCT---CC-A-G-
1 CTCCTCCACCTACGC
37736325 CTCCTCCACCTACGC
1 CTCCTCCACCTACGC
37736340 CTCCTCC
1 CTCCTCC
37736347 TGCTCCACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
9 5 0.20
10 1 0.04
11 1 0.04
12 4 0.16
13 1 0.04
14 1 0.04
15 12 0.48
ACGTcount: A:0.11, C:0.61, G:0.07, T:0.22
Consensus pattern (15 bp):
CTCCTCCACCTACGC
Found at i:37736424 original size:6 final size:6
Alignment explanation
Indices: 37736415--37736448 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
37736405 CCACCTCCAA
*
37736415 CACCTC CACCTC CACCTC CACCTC CACCCC CACC
1 CACCTC CACCTC CACCTC CACCTC CACCTC CACC
37736449 AAAACCACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.71, G:0.00, T:0.12
Consensus pattern (6 bp):
CACCTC
Found at i:37738058 original size:24 final size:24
Alignment explanation
Indices: 37738031--37738076 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37738021 CCACCTCCTG
* * *
37738031 CTCCTATACCTCCACCAGCACCGC
1 CTCCTAAACCACCACCACCACCGC
37738055 CTCCTAAACCACCACCACCACC
1 CTCCTAAACCACCACCACCACC
37738077 AAGTCCTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.57, G:0.04, T:0.13
Consensus pattern (24 bp):
CTCCTAAACCACCACCACCACCGC
Found at i:37738145 original size:30 final size:30
Alignment explanation
Indices: 37738109--37738317 Score: 134
Period size: 30 Copynumber: 7.2 Consensus size: 30
37738099 CCTGCTCCAG
* *
37738109 CACCACCACC-AGCTCCACCTCCTA-AACCGC
1 CACCACCACCAAGC-CCTCCTCC-AGAACCAC
* *
37738139 CACCACCACCAAGCCCTCCTCCAGCACCGC
1 CACCACCACCAAGCCCTCCTCCAGAACCAC
*
37738169 CACCACCACCAAGCCCTCCTCCAGCACCAC
1 CACCACCACCAAGCCCTCCTCCAGAACCAC
* * *
37738199 CACCACCGCC-GGCTCCTCCTCC--TA--A-
1 CACCACCACCAAGC-CCTCCTCCAGAACCAC
** *
37738224 -ACCACCACCAAGCCCTCCTCCAGCTCCGC
1 CACCACCACCAAGCCCTCCTCCAGAACCAC
* * * * *
37738253 CGCCGCCGCCAAGCCCTCCTCCAGCACCCC
1 CACCACCACCAAGCCCTCCTCCAGAACCAC
* *
37738283 CACCCCCACC-GGCTCCTCCTCCTA-AACCAC
1 CACCACCACCAAGC-CCTCCTCC-AGAACCAC
37738313 CACCA
1 CACCA
37738318 AGCCCTCCTC
Statistics
Matches: 144, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
24 16 0.11
25 2 0.01
26 1 0.01
28 1 0.01
29 5 0.03
30 115 0.80
31 4 0.03
ACGTcount: A:0.22, C:0.59, G:0.10, T:0.10
Consensus pattern (30 bp):
CACCACCACCAAGCCCTCCTCCAGAACCAC
Found at i:37738166 original size:24 final size:24
Alignment explanation
Indices: 37738139--37738468 Score: 164
Period size: 24 Copynumber: 12.5 Consensus size: 24
37738129 CCTAAACCGC
37738139 CACCACCACCAAGCCCTCCTCCAGCACCG
1 CACCACCACCAAGCCCTCCT-C--CA--G
37738168 CCACCACCACCAAGCCCTCCTCCAG
1 -CACCACCACCAAGCCCTCCTCCAG
* **
37738193 CACCACCACCACCGCCGGCTCCTCCTC
1 CACCACCACCA-AGCC--CTCCTCCAG
37738220 CTAAACCACCACCAAGCCCTCCTCCAGCTCCG
1 C---ACCACCACCAAGCCCTCCTCCA-----G
* * *
37738252 CCGCCGCCGCCAAGCCCTCCTCCAG
1 -CACCACCACCAAGCCCTCCTCCAG
* *
37738277 CACCCCCACCCCCACCGGCTCCTCCTCCTA-
1 CA---CCACCACCA--AGC-CCTCCTCC-AG
*
37738307 AACCACCACCAAGCCCTCCTCCAG
1 CACCACCACCAAGCCCTCCTCCAG
* * *
37738331 CTCCACCGCCAAGCCCTCCTCCAA
1 CACCACCACCAAGCCCTCCTCCAG
*
37738355 CACCACCACC-AGCTCCACCTCCTA-
1 CACCACCACCAAGC-CCTCCTCC-AG
* * *
37738379 AACCGCCACCAAGCCCTCCTCCTG
1 CACCACCACCAAGCCCTCCTCCAG
* *
37738403 CACCCCCACC-AGCTCCACCTCCTAAACCAC
1 CACCACCACCAAG---C-CCTCCT---CCAG
37738433 CACCACCACCAAGCCCTCCTCCAG
1 CACCACCACCAAGCCCTCCTCCAG
37738457 CACCACCACCAA
1 CACCACCACCAA
37738469 AACCACCACC
Statistics
Matches: 235, Mismatches: 33, Indels: 70
0.70 0.10 0.21
Matches are distributed among these distances:
23 6 0.03
24 93 0.40
25 11 0.05
26 1 0.00
27 44 0.19
28 1 0.00
29 6 0.03
30 69 0.29
31 3 0.01
33 1 0.00
ACGTcount: A:0.22, C:0.59, G:0.09, T:0.10
Consensus pattern (24 bp):
CACCACCACCAAGCCCTCCTCCAG
Found at i:37738193 original size:72 final size:72
Alignment explanation
Indices: 37738038--37738199 Score: 211
Period size: 72 Copynumber: 2.2 Consensus size: 72
37738028 CTGCTCCTAT
* * **
37738038 ACCTCCACCAGCACCGCCTCCTAAACCACCACCACCACCAAGTCCTCCTCCAAGACCGCCACCTG
1 ACCTCCACCAGCACCACCTCCTAAACCACCACCACCACCAAGCCCTCCTCCAAGACCGCCACCAC
*
37738103 CTCCAGC
66 CACCAGC
* * *
37738110 ACCACCACCAGCTCCACCTCCTAAACCGCCACCACCACCAAGCCCTCCTCC-AGCACCGCCACCA
1 ACCTCCACCAGCACCACCTCCTAAACCACCACCACCACCAAGCCCTCCTCCAAG-ACCGCCACCA
37738174 CCACCAAGC
65 CCACC-AGC
*
37738183 -CCTCCTCCAGCACCACC
1 ACCTCCACCAGCACCACC
37738200 ACCACCGCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
71 2 0.03
72 72 0.94
73 3 0.04
ACGTcount: A:0.25, C:0.57, G:0.09, T:0.09
Consensus pattern (72 bp):
ACCTCCACCAGCACCACCTCCTAAACCACCACCACCACCAAGCCCTCCTCCAAGACCGCCACCAC
CACCAGC
Found at i:37738202 original size:84 final size:84
Alignment explanation
Indices: 37738103--37738413 Score: 286
Period size: 84 Copynumber: 3.8 Consensus size: 84
37738093 CCGCCACCTG
* **
37738103 CTCCAGCACCACCACCAGCTCCACCTCCTAAACCGCCACCACCACCAAGCCCTCCTCCAGCACCG
1 CTCCAGCACCACCACCACCTCCACCTCCTAAACCGAAACCACCACCAAGCCCTCCTCCAGCACCG
*
37738168 CCACCACCACCAAGCCCTC
66 CCACCACCGCCAAGCCCTC
* ** *** * *
37738187 CTCCAGCACCACCACCACCGCCGGCTCCTCCTCCTAAACCACCACCAAGCCCTCCTCCAGCTCCG
1 CTCCAGCACCACCACCACCTCCACCTCCTAAACCGAAACCACCACCAAGCCCTCCTCCAGCACCG
* *
37738252 CCGCCGCCGCCAAGCCCTC
66 CCACCACCGCCAAGCCCTC
* * * ** *** *
37738271 CTCCAGCACCCCCACCCCCACCGGCTCCTCCTCCTAAACCACCACCAAGCCCTCCT-C--CA--G
1 CTCCAGCACCACCACCACCTCCACCTCCTAAACCGAAACCACCACCAAGCCCTCCTCCAGCACCG
*
37738331 -CTCCACCGCCAAGCCCTC
66 CCACCACCGCCAAGCCCTC
* * * *
37738349 CTCCAACACCACCACCAGCTCCACCTCCTAAACCG------CCACCAAGCCCTCCTCCTGCACCC
1 CTCCAGCACCACCACCACCTCCACCTCCTAAACCGAAACCACCACCAAGCCCTCCTCCAGCACCG
37738408 CCACCA
66 CCACCA
37738414 GCTCCACCTC
Statistics
Matches: 188, Mismatches: 33, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
72 15 0.08
73 1 0.01
75 2 0.01
78 44 0.23
79 1 0.01
81 1 0.01
83 1 0.01
84 123 0.65
ACGTcount: A:0.22, C:0.59, G:0.09, T:0.10
Consensus pattern (84 bp):
CTCCAGCACCACCACCACCTCCACCTCCTAAACCGAAACCACCACCAAGCCCTCCTCCAGCACCG
CCACCACCGCCAAGCCCTC
Found at i:37738214 original size:27 final size:26
Alignment explanation
Indices: 37738139--37738467 Score: 78
Period size: 27 Copynumber: 12.4 Consensus size: 26
37738129 CCTAAACCGC
*
37738139 CACCACCACCA-AGCC-CTCCTCCAG
1 CACCACCACCACCGCCGCTCCTCCAG
37738163 CACCGCCACCACCACCAAGCC-CTCCTCCAG
1 CA---CCACCACCACC--GCCGCTCCTCCAG
**
37738193 CACCACCACCACCGCCGGCTCCTCCTC
1 CACCACCACCACCGCC-GCTCCTCCAG
*
37738220 CTAAACCACCACCA-AGCC-CTCCTCCAG
1 C---ACCACCACCACCGCCGCTCCTCCAG
* * * *
37738247 CTCCGCCGCCGCCGCCAAGCCCTCCTCCAG
1 CACCACCACCACCGCC--G--CTCCTCCAG
* * * **
37738277 CACCCCCACCCCCACCGGCTCCTCCTC
1 CACCACCACCACCGCC-GCTCCTCCAG
*
37738304 CTAAACCACCACCA-AGCC-CTCCTCCAG
1 C---ACCACCACCACCGCCGCTCCTCCAG
* * * *
37738331 CTCCACCGCCA-AGCC-CTCCTCCAA
1 CACCACCACCACCGCCGCTCCTCCAG
*
37738355 CACCACCACCA--GCTC-CACCTCCTA-
1 CACCACCACCACCGC-CGCTCCTCC-AG
* * * *
37738379 AACCGCCACCA-AGCC-CTCCTCCTG
1 CACCACCACCACCGCCGCTCCTCCAG
* * * * ** *
37738403 CACCCCCACCAGCTCCACCTCCTAAAC
1 CACCACCACCACCGCC-GCTCCTCCAG
37738430 CACCACCACCACCAAGCC-CTCCTCCAG
1 CACCACCACCACC--GCCGCTCCTCCAG
37738457 CACCACCACCA
1 CACCACCACCA
37738468 AAACCACCAC
Statistics
Matches: 227, Mismatches: 49, Indels: 55
0.69 0.15 0.17
Matches are distributed among these distances:
23 2 0.01
24 69 0.30
25 11 0.05
27 85 0.37
29 8 0.04
30 52 0.23
ACGTcount: A:0.22, C:0.59, G:0.09, T:0.10
Consensus pattern (26 bp):
CACCACCACCACCGCCGCTCCTCCAG
Found at i:37747647 original size:20 final size:22
Alignment explanation
Indices: 37747608--37747650 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
37747598 TATTTAAAAG
*
37747608 TAATTTTATTATTGTATTAATT
1 TAATTTTATTATTATATTAATT
37747630 TAATTTT-TTA-TATATTAATT
1 TAATTTTATTATTATATTAATT
37747650 T
1 T
37747651 TTAACAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 3 0.15
22 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TAATTTTATTATTATATTAATT
Found at i:37766329 original size:15 final size:15
Alignment explanation
Indices: 37766308--37766350 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
37766298 ATTTAAAAAT
37766308 TTCAAATTAATTTGA
1 TTCAAATTAATTTGA
*
37766323 CTT-AAATTGATTTGA
1 -TTCAAATTAATTTGA
37766338 TTCAAATTAATTT
1 TTCAAATTAATTT
37766351 TAGTCAAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 2 0.08
15 20 0.83
16 2 0.08
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (15 bp):
TTCAAATTAATTTGA
Found at i:37768510 original size:13 final size:14
Alignment explanation
Indices: 37768469--37768507 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
37768459 GCTCGACCTT
*
37768469 TAAATAATTCATTTA
1 TAAATAAAT-ATTTA
37768484 TAAATAAATATTTA
1 TAAATAAATATTTA
37768498 TAATATAAAT
1 TAA-ATAAAT
37768508 TTAATATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (14 bp):
TAAATAAATATTTA
Found at i:37792681 original size:23 final size:23
Alignment explanation
Indices: 37792647--37792690 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
37792637 AATCCCAAAT
*
37792647 AAATTAACTCAAATTATATTTTA
1 AAATTAACTCAAATTAAATTTTA
*
37792670 AAATTCAA-TCAACTTAAATTT
1 AAATT-AACTCAAATTAAATTT
37792691 AACTATCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATTAACTCAAATTAAATTTTA
Found at i:37793362 original size:6 final size:7
Alignment explanation
Indices: 37793335--37793361 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
37793325 ATCTATAAAT
37793335 GAAAAAA
1 GAAAAAA
37793342 GAAAAAA
1 GAAAAAA
37793349 GAAAAAA
1 GAAAAAA
37793356 GAAAAA
1 GAAAAA
37793362 GTACAATCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:37797316 original size:23 final size:21
Alignment explanation
Indices: 37797289--37797331 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
37797279 TTTAAATTTC
*
37797289 AATATTTACAATCCATATTAATA
1 AATATTTA-AATCAAT-TTAATA
37797312 AATATTTAAATCAATTTAAT
1 AATATTTAAATCAATTTAAT
37797332 TCAGGATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 6 0.32
23 8 0.42
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATTTAAATCAATTTAATA
Found at i:37799349 original size:18 final size:17
Alignment explanation
Indices: 37799328--37799371 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
37799318 TTCAATCCGA
37799328 ATTATTAATTTGTAATAT
1 ATTATTAATTT-TAATAT
* *
37799346 ATTAGTTTATTTTAATTT
1 ATTA-TTAATTTTAATAT
37799364 ATTATTAA
1 ATTATTAA
37799372 ATATTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 13 0.59
19 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTATTAATTTTAATAT
Found at i:37802895 original size:4 final size:4
Alignment explanation
Indices: 37802888--37802946 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
37802878 TCGTTCCTAT
* * * * * * *
37802888 CATA CATA CATA CAGA CAGA CAGA CAGA CAGA TAGA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
37802936 CATA CATA CAT
1 CATA CATA CAT
37802947 TTATTTTTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.49, C:0.24, G:0.10, T:0.17
Consensus pattern (4 bp):
CATA
Found at i:37805076 original size:21 final size:21
Alignment explanation
Indices: 37805052--37805093 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
37805042 ACAAATTATT
37805052 AAAAATA-TAAATATTTTTTAA
1 AAAAATATTAAAT-TTTTTTAA
* *
37805073 AAAATTATTTAATTTTTTTAA
1 AAAAATATTAAATTTTTTTAA
37805094 CAAAGGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAAATATTAAATTTTTTTAA
Found at i:37809912 original size:29 final size:30
Alignment explanation
Indices: 37809870--37809949 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 30
37809860 GAATTGGATC
*
37809870 AAATCAAAATTTCATGTATAAAATTACACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAG
* * *
37809900 AAATCAAAGTTCATATATATAATTGCACATG
1 AAATCAAAGTTCATGTATAAAATTACACA-G
* *
37809931 AAACCATAGTTCATGTATA
1 AAATCAAAGTTCATGTATA
37809950 GTTTTGGGAT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 20 0.49
30 5 0.12
31 16 0.39
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAG
Found at i:37814281 original size:24 final size:22
Alignment explanation
Indices: 37814253--37814305 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 22
37814243 AACTAAAAAT
37814253 TCGAAAAAAAAATTTCGAGTTAAC
1 TCGAAAAAAAAA-TTCGA-TTAAC
**
37814277 TCGAATAACTAAATTCGATTAAC
1 TCGAA-AAAAAAATTCGATTAAC
37814300 TC-AAAA
1 TCGAAAA
37814306 TTCAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.08
22 2 0.08
23 7 0.27
24 10 0.38
25 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.26
Consensus pattern (22 bp):
TCGAAAAAAAAATTCGATTAAC
Found at i:37820923 original size:18 final size:18
Alignment explanation
Indices: 37820902--37820937 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
37820892 TGTTTTTGCA
37820902 GTCTTTTGATTTT-TTTTT
1 GTCTTTT-ATTTTATTTTT
37820920 GTCTTTTATTTTATTTTT
1 GTCTTTTATTTTATTTTT
37820938 CAACGTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.78
Consensus pattern (18 bp):
GTCTTTTATTTTATTTTT
Found at i:37822150 original size:5 final size:5
Alignment explanation
Indices: 37822140--37822166 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37822130 ATTGGATCTA
37822140 CCCGG CCCGG CCCGG CCCGG CCCGG CC
1 CCCGG CCCGG CCCGG CCCGG CCCGG CC
37822167 TAGTTTTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.63, G:0.37, T:0.00
Consensus pattern (5 bp):
CCCGG
Found at i:37823950 original size:22 final size:22
Alignment explanation
Indices: 37823916--37823964 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
37823906 TGTCTTATTA
*
37823916 TTTTATTTAATTAATTTAAAGTT
1 TTTTAATTAATTAATTTAAA-TT
* *
37823939 TTTTAATT-ATTATTTTTAATT
1 TTTTAATTAATTAATTTAAATT
37823960 TTTTA
1 TTTTA
37823965 CATTGGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 7 0.30
22 9 0.39
23 7 0.30
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTAATTAATTAATTTAAATT
Found at i:37834387 original size:127 final size:128
Alignment explanation
Indices: 37833964--37834638 Score: 765
Period size: 127 Copynumber: 5.3 Consensus size: 128
37833954 TTGGTACTTG
* * * * **
37833964 AATTTGAATAATTTGAAATCAGTTGTCTTCATTGTTCTAAGTTTGGGATACATTTTTT-ATGTTG
1 AATTTGAATCATTTGAAATTAATTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTGATGTTG
* * * *
37834028 ATTTCGAATTGAATCATTTTGTAT-T-GATAATATCGAGTTTTGTCATATGAGTTTTATATTCA
66 GTTTCGAATTGAATCATTTT-TTTCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCA
* * *
37834090 AATTTGAATCATTTGAAATTAATTTTCTTCGTCATTCTAAGTTTGGAATACACTTTTTTTTATGT
1 AATTTGAATCATTTGAAATTAATTGTCTTCGTCATTCTAAGTTTGGGATACA--TTTTTTGATGT
* * * * *
37834155 TGGTTTCGAGTTGAATCA-TTTTTTCTCAATAATATTGAGTTTTGTCGTATGAGTTTGATACTCG
64 TGGTTTCGAATTGAATCATTTTTTTCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCA
* * * * **
37834219 AATTTGGATCATTTAAAATTATTTGTCTTTGTCATTCTAAGTTT-GGATTACATTTTTTGACATT
1 AATTTGAATCATTTGAAATTAATTGTCTTCGTCATTCTAAGTTTGGGA-TACATTTTTTGATGTT
** * * * **
37834283 GGTTTTAAATTGAATAATTTTTTTCTCGATAATATCGAATTTTGCCATATGAGTTTGATACTTG
65 GGTTTCGAATTGAATCATTTTTTTCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCA
* * * * * *
37834347 AATCTGAAT-ACTTGAAATTAATTGTCTTCATCGTTTTAAGTTTGGGATATATTTTTTGATGTTG
1 AATTTGAATCATTTGAAATTAATTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTGATGTTG
* * * * *
37834411 GTTTCGGATTAAATCA-TTTTTTCTCGATAATACCGAGTTTTTTCATATGAATTTGATACTCA
66 GTTTCGAATTGAATCATTTTTTTCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCA
* * * *
37834473 AATTTGAATCATTTGAAATTAATTGTTTTCGTCATTCTAAATTTGGGATGCATTTTTTTATGTTG
1 AATTTGAATCATTTGAAATTAATTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTGATGTTG
* * * * *
37834538 GTTTGGAATTGAATCATCTTCTT-TCGATAATATCGAGTTTTGTCATAAGAGTTTTATACTCA
66 GTTTCGAATTGAATCATTTTTTTCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCA
* * *
37834600 AATTTGAATAATTTGAAAATAGTTGTCTTCGT-ATTCTAA
1 AATTTGAATCATTTGAAATTAATTGTCTTCGTCATTCTAA
37834639 TTGAATCATT
Statistics
Matches: 455, Mismatches: 84, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
126 98 0.22
127 197 0.43
128 66 0.15
129 94 0.21
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (128 bp):
AATTTGAATCATTTGAAATTAATTGTCTTCGTCATTCTAAGTTTGGGATACATTTTTTGATGTTG
GTTTCGAATTGAATCATTTTTTTCTCGATAATATCGAGTTTTGTCATATGAGTTTGATACTCA
Found at i:37834669 original size:92 final size:93
Alignment explanation
Indices: 37834544--37834721 Score: 261
Period size: 92 Copynumber: 1.9 Consensus size: 93
37834534 GTTGGTTTGG
*
37834544 AATTGAATCATCTTCTTTCGATAATATCGAGTTTTGTCATAAGAGTTTTATACTCAAATTTGAAT
1 AATTGAATCATCTTCTTTCGATAATATCGAGTTTTGTCATAAGAGTTTAATACTCAAATTTGAAT
*
37834609 AATTTGAAAATAGTTGTCTTCGTATTCT
66 AATTTGAAAATAATTGTCTTCGTATTCT
** * *
37834637 AATTGAATCAT-TT-TTCTCGATAATATTTAGTTTTGTCATATGAGTTTAATACTCGAATTTGAA
1 AATTGAATCATCTTCTT-TCGATAATATCGAGTTTTGTCATAAGAGTTTAATACTCAAATTTGAA
* *
37834700 TCATTTGAAATTAATTGTCTTC
65 TAATTTGAAAATAATTGTCTTC
37834722 CTCAATTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
91 2 0.03
92 63 0.83
93 11 0.14
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (93 bp):
AATTGAATCATCTTCTTTCGATAATATCGAGTTTTGTCATAAGAGTTTAATACTCAAATTTGAAT
AATTTGAAAATAATTGTCTTCGTATTCT
Found at i:37834832 original size:16 final size:16
Alignment explanation
Indices: 37834807--37834853 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
37834797 TTTAATACTC
37834807 AAATTTGAATTATTTA
1 AAATTTGAATTATTTA
* *
37834823 AAATTCGAATAATTTA
1 AAATTTGAATTATTTA
* *
37834839 ACATTTAAATTATTT
1 AAATTTGAATTATTT
37834854 TCGCGTTTGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AAATTTGAATTATTTA
Found at i:37835596 original size:32 final size:31
Alignment explanation
Indices: 37835552--37835613 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
37835542 GACAATAATA
37835552 AAGGGATCAAGTGAGAATTTC-ACTATAGTAC
1 AAGGGATCAAGTGAGAATTTCGA-TATAGTAC
*
37835583 AAGGGGTCAAAGTGAGAATTTCGATATAGTA
1 AAGGGATC-AAGTGAGAATTTCGATATAGTA
37835614 GAGGGGCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 7 0.25
32 20 0.71
33 1 0.04
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.26
Consensus pattern (31 bp):
AAGGGATCAAGTGAGAATTTCGATATAGTAC
Found at i:37836209 original size:2 final size:2
Alignment explanation
Indices: 37836202--37836240 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
37836192 TTTTCTTTTC
37836202 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
37836241 AAAGCTCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37836593 original size:199 final size:198
Alignment explanation
Indices: 37836240--37837078 Score: 863
Period size: 199 Copynumber: 4.2 Consensus size: 198
37836230 ATATATATAT
* * * * ***
37836240 AAAAGCTCCTTTTAGTGGTTAAGCTAGACAAGGCTTCGATTGCGGGACAAGCAAATGCTTGTACC
1 AAAAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCAGGATTCGCAAATGCTTGT--C
** * * ** * * * * * *
37836305 TCACATATATTTGTATCTGACATTTATGCTTGAGTCCGAGTAATATAAGCTAAAGTCAAGCATTA
64 GGATACATATTCATATCTGACACTCATGTTTGAGTCCGAGTAACATAAGCTAAA-TCGAGCTTTA
* * **
37836370 GCCATTGGCTAATGGTAGCCCCAGAATCTTATCCAGGTGGTTTAAGGTGTGAAGAGGCTCCAAAA
128 GCCATTGCCTAATGGTAACCCCAGAATCTTATCCAGGTGGTTTAAGGTGTGAAGAGGCTCCAATT
37836435 GCCTTA
193 GCCTTA
* ** * *
37836441 AAAAGCAT-CTTTTAGTAGTTAAGCCAGACAAGGCTTGGATTGTTGGATTCGCGAATGCTTGTCC
1 AAAAGC-TCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCAGGATTCGCAAATGCTTGTCG
*
37836505 GATACATATTCATATCTGATACTCATGTTTGAGTCCGAGTAACATAAGCTAAAGTCGAGCTTTAG
65 GATACATATTCATATCTGACACTCATGTTTGAGTCCGAGTAACATAAGCTAAA-TCGAGCTTTAG
* * *
37836570 CCATTGCCTAATGGTAACCCCAGAATATTATCTATGTGGTTTAAGGTGTGAAGAGGCTCCAATTG
129 CCATTGCCTAATGGTAACCCCAGAATCTTATCCAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTG
37836635 CCTTA
194 CCTTA
** * * * * * *
37836640 AAAAATTCCTTTTAGTAGTTAAGCTAGGCCAGGCTTTGATTCCAGGATTTGCAAATGTTTGTCTG
1 AAAAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCAGGATTCGCAAATGCTTGTC-G
* * * * * * * *
37836705 GA-GCATATCCGTATCTGACACTCATGCTTGAGTTCAAATAGCATAAGCTCAAATCGAGCTTTAG
65 GATACATATTCATATCTGACACTCATGTTTGAGTCCGAGTAACATAAGCT-AAATCGAGCTTTAG
* * *
37836769 CCATTGCCTAATGGTAATCCCAGAATCTTATTCA--AGG--T-A--T-T-AAGAGGCTCCAATTG
129 CCATTGCCTAATGGTAACCCCAGAATCTTATCCAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTG
*
37836825 CCTTT
194 CCTTA
* * * ** *
37836830 AAAAGCTCCTCTTAGTAGTTAAGCCAAACAAGGCTTCGATTGGGGGATTCGTAAATGCTTGTCGG
1 AAAAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCAGGATTCGCAAATGCTTGTCGG
* * *
37836895 ATAGGACCAATACATATCCATGTCTGACACTCGTGTTTGAGTCCGAGTAACATAAGCTTAAATTG
66 AT---A-C-AT--AT-T-CATATCTGACACTCATGTTTGAGTCCGAGTAACATAAGC-TAAATCG
* **
37836960 AGCTTTAGCCATTACCTAATGGTAACCCCAGAATCTTATCTGGGTGGTTTAAGGTGTGAAGAGGC
121 AGCTTTAGCCATTGCCTAATGGTAACCCCAGAATCTTATCCAGGTGGTTTAAGGTGTGAAGAGGC
37837025 TCCAATTGCCTTA
186 TCCAATTGCCTTA
*
37837038 AAAAGCTCCTTTTAGTAGTTAAGCTAGACAAGGCTTTGATT
1 AAAAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATT
37837079 CCGTATTTGA
Statistics
Matches: 521, Mismatches: 93, Indels: 41
0.80 0.14 0.06
Matches are distributed among these distances:
189 3 0.01
190 68 0.13
191 1 0.00
192 1 0.00
194 2 0.00
195 3 0.01
197 4 0.01
198 1 0.00
199 318 0.61
200 6 0.01
201 53 0.10
202 1 0.00
203 1 0.00
204 1 0.00
206 1 0.00
207 1 0.00
208 56 0.11
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (198 bp):
AAAAGCTCCTTTTAGTAGTTAAGCCAGACAAGGCTTTGATTGCAGGATTCGCAAATGCTTGTCGG
ATACATATTCATATCTGACACTCATGTTTGAGTCCGAGTAACATAAGCTAAATCGAGCTTTAGCC
ATTGCCTAATGGTAACCCCAGAATCTTATCCAGGTGGTTTAAGGTGTGAAGAGGCTCCAATTGCC
TTA
Found at i:37837217 original size:168 final size:167
Alignment explanation
Indices: 37836939--37837246 Score: 463
Period size: 168 Copynumber: 1.8 Consensus size: 167
37836929 GTTTGAGTCC
** * * * * *
37836939 GAGTAACATAAGCTTAAATTGAGCTTTAGCCATTACCTAATGGTAACCCCAGAATCTTATCTGGG
1 GAGTAACATAAGCCGAAATCGAGCTTTAGCCATTACCTAACGGTAACCCCAAAATCTTATATAGG
* * *
37837004 TGGTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAAGCTCCTTTTAGTAGTTAAGCTAGACAA
66 TGGTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAACCTCCTTTTAGTAGTTAAGCGAAACAA
*
37837069 GGCTTTGATTCCGTATTTGACACTCATGCCTGACTCT
131 GGCTTCGATTCCGTATTTGACACTCATGCCTGACTCT
* * ** *
37837106 GAGTAACATAAGCCGAAATCGAGCTTTAGCCATTGCTTGCCGGTAGCCCCAAAATCTTATTATAG
1 GAGTAACATAAGCCGAAATCGAGCTTTAGCCATTACCTAACGGTAACCCCAAAATCTTA-TATAG
37837171 GTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAACCTCCTTTTAGTAGTTAAGCGAAACA
65 GTGGTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAACCTCCTTTTAGTAGTTAAGCGAAACA
37837236 AGGCTTCGATT
130 AGGCTTCGATT
37837247 GTGAGATTCA
Statistics
Matches: 124, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
167 49 0.40
168 75 0.60
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (167 bp):
GAGTAACATAAGCCGAAATCGAGCTTTAGCCATTACCTAACGGTAACCCCAAAATCTTATATAGG
TGGTTTAAGGTGTGAAGAGGCTCCAATTGCCTTAAAAACCTCCTTTTAGTAGTTAAGCGAAACAA
GGCTTCGATTCCGTATTTGACACTCATGCCTGACTCT
Found at i:37843317 original size:15 final size:16
Alignment explanation
Indices: 37843299--37843328 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37843289 AAAAATAATG
37843299 TAAAAGAT-TTTTTTA
1 TAAAAGATATTTTTTA
37843314 TAAAAGATATTTTTT
1 TAAAAGATATTTTTT
37843329 TGCCGATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TAAAAGATATTTTTTA
Found at i:37844776 original size:31 final size:32
Alignment explanation
Indices: 37844739--37844798 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
37844729 ATGGCCTCAA
*
37844739 AACTATTTGAAAG-TTATCATTTAAGTCACTG
1 AACTATTTAAAAGTTTATCATTTAAGTCACTG
* *
37844770 AACTATTTAAAAGTTTTTTATTTAAGTCA
1 AACTATTTAAAAGTTTATCATTTAAGTCA
37844799 TTGAGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 12 0.48
32 13 0.52
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (32 bp):
AACTATTTAAAAGTTTATCATTTAAGTCACTG
Found at i:37845823 original size:2 final size:2
Alignment explanation
Indices: 37845816--37845857 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
37845806 GTTATTAAAT
37845816 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37845858 AAATGGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37846366 original size:13 final size:13
Alignment explanation
Indices: 37846348--37846374 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37846338 CGAGTCTCAT
37846348 TTAATTCAAATAA
1 TTAATTCAAATAA
37846361 TTAATTCAAATAA
1 TTAATTCAAATAA
37846374 T
1 T
37846375 AATAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAATTCAAATAA
Found at i:37847246 original size:31 final size:31
Alignment explanation
Indices: 37847177--37847236 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
37847167 AAATATCATC
* **
37847177 GAATTGTTCAAAATTTTTTATTTAAGTCAAT
1 GAATTATTCAAAATTTTTTATTTAAACCAAT
37847208 GAATTATTCAAAATTTTTTATTTAAACCA
1 GAATTATTCAAAATTTTTTATTTAAACCA
37847237 TTAGATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (31 bp):
GAATTATTCAAAATTTTTTATTTAAACCAAT
Found at i:37852899 original size:28 final size:31
Alignment explanation
Indices: 37852868--37852931 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 31
37852858 ATTTGGAGGC
* *
37852868 GAATTTAT-AATTTTTTAAA-GTGAAAAT-T
1 GAATTTATAAACTTTTTAAATGTCAAAATAT
37852896 GAA-TTATAAACTTTTTAAATGTCAAAATAT
1 GAATTTATAAACTTTTTAAATGTCAAAATAT
37852926 -AATTTA
1 GAATTTA
37852932 CGCCTGGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 4 0.13
28 13 0.43
29 9 0.30
30 4 0.13
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (31 bp):
GAATTTATAAACTTTTTAAATGTCAAAATAT
Found at i:37853966 original size:3 final size:3
Alignment explanation
Indices: 37853958--37854000 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
37853948 CTCTTGTCCA
37853958 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
37854001 CCTCTGTATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:37854334 original size:151 final size:148
Alignment explanation
Indices: 37854150--37854501 Score: 376
Period size: 151 Copynumber: 2.3 Consensus size: 148
37854140 TTCATTCATA
* ***
37854150 TAATTAAACCCATGCAAGTGCAATACGTTAATCCTTTATTCTTATATATATACATATGCGTTTGA
1 TAATT-AACTCATGCAAGTGCAA-ACGTTAATCCTTTATTCTTATATATATACA-ATGCAACT-A
* * *
37854215 TGTATCCATAT-ATACAAACATGAAAGTCATGAGCATATA-TAT-AT-ATATAT-ATAAACCATA
62 ---ATCCAT-TGATACAAACATGAAAGTCATAAGCATATACTATAATAACATATAAAAAACCATA
* *
37854275 ATTAACACATAAACATTGATTAACGG
123 ATTAACACACAAACATTGATTAACGC
* * *
37854301 TAATTAACTCATGCAAGTGCAACATGTTAAATCCTTTATTCTTATATACACACAATGCAACTAAT
1 TAATTAACTCATGCAAGTGCAA-ACGTT-AATCCTTTATTCTTATATATATACAATGCAACTAAT
* * *
37854366 GCATTGATACAAACGTGAAAGTCATAAGCATATATCTATAATAACATATAAAAAACCCTAATTAA
64 CCATTGATACAAACATGAAAGTCATAAGCATATA-CTATAATAACATATAAAAAACCATAATTAA
37854431 CACACAAACATTGATTAACGC
128 CACACAAACATTGATTAACGC
* * *
37854452 TAACT-A-TGCATGCAAGAGCAAAGCGTTAATCCTTTATTCTCATATATATA
1 TAATTAACT-CATGCAAGTGCAAA-CGTTAATCCTTTATTCTTATATATATA
37854502 TATAAACACA
Statistics
Matches: 170, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
145 1 0.01
146 31 0.18
148 3 0.02
149 25 0.15
150 46 0.27
151 64 0.38
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (148 bp):
TAATTAACTCATGCAAGTGCAAACGTTAATCCTTTATTCTTATATATATACAATGCAACTAATCC
ATTGATACAAACATGAAAGTCATAAGCATATACTATAATAACATATAAAAAACCATAATTAACAC
ACAAACATTGATTAACGC
Found at i:37856695 original size:22 final size:22
Alignment explanation
Indices: 37856670--37856727 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
37856660 GATGTATGAT
*
37856670 TTATAAATTTTTAAATTATTAA
1 TTATAAAATTTTAAATTATTAA
37856692 TTATAAAATTTTAAATTATTAA
1 TTATAAAATTTTAAATTATTAA
*
37856714 TGATAAAATTTTAA
1 TTATAAAATTTTAA
37856728 TTTAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TTATAAAATTTTAAATTATTAA
Found at i:37857665 original size:58 final size:58
Alignment explanation
Indices: 37857593--37857712 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 58
37857583 ATCCATCAAC
*
37857593 AAACTAAACCCAAATATTTTTAAACTC-AAATATAATTTTA-TTCTTAAAAAACCCTCAT
1 AAACTAAACCCAAATATTTTTAAAC-CAAAATATAATTTTATTTC-TAAAAAACACTCAT
* *
37857651 AAACTAAACTCAAATATTTTTAAACCAAAATATAATTTTATTTCTAAATAACACTCAT
1 AAACTAAACCCAAATATTTTTAAACCAAAATATAATTTTATTTCTAAAAAACACTCAT
37857709 AAAC
1 AAAC
37857713 AACTCCTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
57 1 0.02
58 53 0.93
59 3 0.05
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (58 bp):
AAACTAAACCCAAATATTTTTAAACCAAAATATAATTTTATTTCTAAAAAACACTCAT
Found at i:37858049 original size:27 final size:27
Alignment explanation
Indices: 37858011--37858086 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 27
37858001 TTTACTTATG
37858011 TTTTTTT-T-ATAATCTTGTTGTGTTA
1 TTTTTTTATCATAATCTTGTTGTGTTA
* *
37858036 TTTTTGTTA-CATAAACTT-TTG-CTTA
1 TTTTT-TTATCATAATCTTGTTGTGTTA
* *
37858061 TTTTTTTATTATAATCTTGTTATGTT
1 TTTTTTTATCATAATCTTGTTGTGTT
37858087 GTCATTGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
24 3 0.08
25 20 0.51
26 7 0.18
27 9 0.23
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (27 bp):
TTTTTTTATCATAATCTTGTTGTGTTA
Found at i:37858074 original size:25 final size:25
Alignment explanation
Indices: 37858000--37858074 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 25
37857990 TATTTTGAAT
* *
37858000 TTTTACTTATGTTTTTT-TTATAATC
1 TTTTGCTTAT-TTTTTTATTATAAAC
* *
37858025 TTGTTGTGTTATTTTTGTTA-CATAAAC
1 TT-TTG-CTTATTTTT-TTATTATAAAC
37858052 TTTTGCTTATTTTTTTATTATAA
1 TTTTGCTTATTTTTTTATTATAA
37858075 TCTTGTTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
24 3 0.08
25 14 0.36
26 9 0.23
27 13 0.33
ACGTcount: A:0.21, C:0.07, G:0.08, T:0.64
Consensus pattern (25 bp):
TTTTGCTTATTTTTTTATTATAAAC
Found at i:37860731 original size:18 final size:17
Alignment explanation
Indices: 37860700--37860733 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
37860690 AAATAATAGA
*
37860700 TAAAAAATTCAGAAAAT
1 TAAAAAAATCAGAAAAT
37860717 TAAAAAAATCTAGAAAA
1 TAAAAAAATC-AGAAAA
37860734 AAATTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAAAAATCAGAAAAT
Found at i:37864127 original size:24 final size:23
Alignment explanation
Indices: 37864100--37864196 Score: 72
Period size: 23 Copynumber: 4.2 Consensus size: 23
37864090 ATAACATCCA
*
37864100 AGCAACCAAAATAACAACCAAAAC
1 AGCAACCAAAATAACAA-AAAAAC
* * * *
37864124 AGCAGCAAAAATAATAGAAAAAAT
1 AGCAACCAAAATAACA-AAAAAAC
37864148 AGCAA-CAAAATAACAATAAAAAC
1 AGCAACCAAAATAACAA-AAAAAC
* ** *
37864171 AAC-ACCAAAATAGTAAAAAAAT
1 AGCAACCAAAATAACAAAAAAAC
37864193 AGCA
1 AGCA
37864197 CCAGAACAGC
Statistics
Matches: 55, Mismatches: 14, Indels: 9
0.71 0.18 0.12
Matches are distributed among these distances:
22 9 0.16
23 24 0.44
24 21 0.38
25 1 0.02
ACGTcount: A:0.66, C:0.18, G:0.07, T:0.09
Consensus pattern (23 bp):
AGCAACCAAAATAACAAAAAAAC
Found at i:37864215 original size:45 final size:47
Alignment explanation
Indices: 37864100--37864217 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 47
37864090 ATAACATCCA
* *
37864100 AGCAACCAAAATAACAACCAAAACAGCAGCAAAAATAATAGAAAAAAT
1 AGCAA-CAAAACAACAACCAAAACAACAGCAAAAATAATAGAAAAAAT
* ** * *
37864148 AGCAACAAAATAACAATAAAAACAACA-CCAAAATAGTA-AAAAAAT
1 AGCAACAAAACAACAACCAAAACAACAGCAAAAATAATAGAAAAAAT
* * *
37864193 AGCACCAGAACAGCAACCAAAACAA
1 AGCAACAAAACAACAACCAAAACAA
37864218 TAAAAAAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
45 26 0.44
46 9 0.15
47 19 0.32
48 5 0.08
ACGTcount: A:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (47 bp):
AGCAACAAAACAACAACCAAAACAACAGCAAAAATAATAGAAAAAAT
Found at i:37864223 original size:54 final size:54
Alignment explanation
Indices: 37864159--37864262 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
37864149 GCAACAAAAT
* * * *
37864159 AACAATAAAAACAACACCAAAATAGTAAAAAAATAGCACCAGAACAGCAACCAA
1 AACAATAAAAAAAACACCAAAATAATAAAAAAATAACACCAAAACAGCAACCAA
* *
37864213 AACAATAAAAAAAATACCAAAATAATAAAAACATAACACCAAAACAGCAA
1 AACAATAAAAAAAACACCAAAATAATAAAAAAATAACACCAAAACAGCAA
37864263 AAAATAGCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.66, C:0.20, G:0.05, T:0.09
Consensus pattern (54 bp):
AACAATAAAAAAAACACCAAAATAATAAAAAAATAACACCAAAACAGCAACCAA
Found at i:37864233 original size:20 final size:22
Alignment explanation
Indices: 37864208--37864258 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
37864198 CAGAACAGCA
*
37864208 ACCAAAACAATAAAAA-A-AAT
1 ACCAAAACAATAAAAACATAAC
*
37864228 ACCAAAATAATAAAAACATAAC
1 ACCAAAACAATAAAAACATAAC
37864250 ACCAAAACA
1 ACCAAAACA
37864259 GCAAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.58
21 1 0.04
22 10 0.38
ACGTcount: A:0.71, C:0.20, G:0.00, T:0.10
Consensus pattern (22 bp):
ACCAAAACAATAAAAACATAAC
Found at i:37864264 original size:22 final size:22
Alignment explanation
Indices: 37864239--37864292 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
37864229 CCAAAATAAT
37864239 AAAAACATAAC-ACCAAAACAGC
1 AAAAA-ATAACAACCAAAACAGC
* *
37864261 AAAAAATAGCAATCAAAACAGC
1 AAAAAATAACAACCAAAACAGC
37864283 AAAAAA-AACA
1 AAAAAATAACA
37864293 GCACTAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.69, C:0.20, G:0.06, T:0.06
Consensus pattern (22 bp):
AAAAAATAACAACCAAAACAGC
Found at i:37864283 original size:12 final size:11
Alignment explanation
Indices: 37864253--37864309 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
37864243 ACATAACACC
37864253 AAAACAGCAA-
1 AAAACAGCAAT
*
37864263 AAAATAGCAAT
1 AAAACAGCAAT
*
37864274 CAAAACAGCAAAA
1 -AAAACAGC-AAT
*
37864287 AAAACAGCACT
1 AAAACAGCAAT
*
37864298 AAAACAACAAT
1 AAAACAGCAAT
37864309 A
1 A
37864310 TAAATTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
10 9 0.24
11 11 0.30
12 15 0.41
13 2 0.05
ACGTcount: A:0.67, C:0.19, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAACAGCAAT
Found at i:37867110 original size:17 final size:17
Alignment explanation
Indices: 37867069--37867113 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
37867059 CTGCCTCAAT
37867069 AAAAATTT-TAAAATTC
1 AAAAATTTATAAAATTC
37867085 AAAATATTTATAAAATTTC
1 AAAA-ATTTATAAAA-TTC
37867104 -AAAATTTATA
1 AAAAATTTATA
37867114 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 4 0.15
17 11 0.42
18 8 0.31
19 3 0.12
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATTTATAAAATTC
Found at i:37875051 original size:22 final size:23
Alignment explanation
Indices: 37874997--37875053 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 23
37874987 TTTAACGTTT
37874997 AAATTATAATTTATACTTCATATA
1 AAATTATAATTTATACTT-ATATA
*
37875021 AAATT-TAATTTA-ACTT-TGTA
1 AAATTATAATTTATACTTATATA
37875041 AATATTATAATTT
1 AA-ATTATAATTT
37875054 TAATTCTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.17
21 3 0.10
22 10 0.33
23 7 0.23
24 5 0.17
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATTATAATTTATACTTATATA
Found at i:37875846 original size:12 final size:12
Alignment explanation
Indices: 37875831--37875860 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
37875821 TCGGTGTTCT
37875831 TGGTGGCAGCTG
1 TGGTGGCAGCTG
37875843 TGGTGGCAGCTG
1 TGGTGGCAGCTG
37875855 TGGTGG
1 TGGTGG
37875861 GTGTTACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.13, G:0.53, T:0.27
Consensus pattern (12 bp):
TGGTGGCAGCTG
Found at i:37877858 original size:17 final size:17
Alignment explanation
Indices: 37877810--37877860 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
37877800 TTTTGCTATG
*
37877810 TATTTCATTAATTAAAA
1 TATTTCATTAATTAATA
* *
37877827 TATTACA-T-CTTAATA
1 TATTTCATTAATTAATA
37877842 TATTTCATTAATTAATA
1 TATTTCATTAATTAATA
37877859 TA
1 TA
37877861 ACACATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.41
16 2 0.07
17 14 0.52
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTTCATTAATTAATA
Found at i:37879350 original size:41 final size:38
Alignment explanation
Indices: 37879257--37879353 Score: 97
Period size: 41 Copynumber: 2.5 Consensus size: 38
37879247 CAATAAAGTA
* *
37879257 ACACCCAGTGTCTCATCG-GTCTAGCCGAAGTAAAGTG
1 ACACCCAGTGTCTCATCGAATCTAGCCGAAGTAAAATG
** ** *
37879294 GTACCCAGTACCTCATCGAATCTATCCGAAGTAAAATAATG
1 ACACCCAGTGTCTCATCGAATCTAGCCGAAGT--AA-AATG
37879335 ACACCCAGTGTCTCATCGA
1 ACACCCAGTGTCTCATCGA
37879354 CTCAAGGTCG
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
37 14 0.31
38 11 0.24
40 2 0.04
41 18 0.40
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (38 bp):
ACACCCAGTGTCTCATCGAATCTAGCCGAAGTAAAATG
Found at i:37879481 original size:6 final size:6
Alignment explanation
Indices: 37879456--37879494 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
37879446 GCAATTCATA
* * *
37879456 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
37879495 TTTTTGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:37885034 original size:12 final size:12
Alignment explanation
Indices: 37885019--37885048 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
37885009 TCGGTGTTCT
37885019 TGGTGGCAGCTG
1 TGGTGGCAGCTG
37885031 TGGTGGCAGCTG
1 TGGTGGCAGCTG
37885043 TGGTGG
1 TGGTGG
37885049 GTGTTACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.13, G:0.53, T:0.27
Consensus pattern (12 bp):
TGGTGGCAGCTG
Found at i:37892150 original size:15 final size:12
Alignment explanation
Indices: 37892121--37892150 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
37892111 TCAGTGTTCT
37892121 TGGTGGCAGCTG
1 TGGTGGCAGCTG
*
37892133 TGGTGGCAGCAG
1 TGGTGGCAGCTG
37892145 TGGTGG
1 TGGTGG
37892151 GTGTTACGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.13, G:0.53, T:0.23
Consensus pattern (12 bp):
TGGTGGCAGCTG
Found at i:37894313 original size:12 final size:12
Alignment explanation
Indices: 37894270--37894316 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
37894260 TTAATTTATA
37894270 AATATAAT-TTAT
1 AATATAATATT-T
*
37894282 AATATACTATTT
1 AATATAATATTT
**
37894294 AACGTAATATTT
1 AATATAATATTT
37894306 AATATAATATT
1 AATATAATATT
37894317 ATATTTCAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 26 0.93
13 2 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (12 bp):
AATATAATATTT
Found at i:37895435 original size:2 final size:2
Alignment explanation
Indices: 37895428--37895481 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
37895418 ATAATTACAA
37895428 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
37895470 AG AG AG AG AG AG
1 AG AG AG AG AG AG
37895482 TAGGGGCGAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37896760 original size:16 final size:16
Alignment explanation
Indices: 37896739--37896771 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37896729 TCTGCCAACT
37896739 CGTTTTCCATGCCCAC
1 CGTTTTCCATGCCCAC
37896755 CGTTTTCCATGCCCAC
1 CGTTTTCCATGCCCAC
37896771 C
1 C
37896772 CTCCAAAACG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.45, G:0.12, T:0.30
Consensus pattern (16 bp):
CGTTTTCCATGCCCAC
Found at i:37900799 original size:8 final size:8
Alignment explanation
Indices: 37900786--37900811 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
37900776 AGGCTAACTA
37900786 GTATATAT
1 GTATATAT
37900794 GTATATAT
1 GTATATAT
37900802 GTATATAT
1 GTATATAT
37900810 GT
1 GT
37900812 TTGTGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (8 bp):
GTATATAT
Found at i:37907664 original size:591 final size:573
Alignment explanation
Indices: 37906650--37907722 Score: 1460
Period size: 591 Copynumber: 1.8 Consensus size: 573
37906640 GATTATAATC
*
37906650 ATTATTATTATAATTGCTACTCAAGCACAGGTTTGCTTTCACTATAAAAAAAAATGCGTAATAAT
1 ATTATGATTATAATTGCTACTCAAGCACAGGTTTGCTTTCACTAT--AAAAAAATGCGTAATAAT
* * *
37906715 AGTCAAATTTTAAACATTTTAGATAAAAATAAATAATTTATTATAATGAATTTTATAATATTATT
64 AGTCAAATTTTAAACATATTAGATAAAAATAAATAAATAATTATAATGAATTTTATAATATTATT
* * *
37906780 TTTATATCATTTTAAATAATAATATTTTAATTAAAAAACAAATTTGAAAAAAAAAGAATGTCATA
129 TTTATATCATTTAAAATAATAATATTTTAATTAAAAAACAAATTTGAAAAAAAAAGAACGTCACA
**
37906845 AAGAATGAATATATACCTTATTATATCATATTATTCATGATATGATATGATTTCTTACAAATGTT
194 AAGAATGAATATATAAATTATTATATCATATTATTCATGATATGATATGATTTCTTACAAATGTT
* * * *
37906910 TCCAACAACATTATTTACCATTTGATCCATAAAGCTTTAATTTATAAGTGTAAAAGGAAAAATCT
259 TCCAACAAAATTAGTTACCATTTAATCCACAAAGCTTTAATTTATAAGTGTAAAAGGAAAAATCT
* *
37906975 TAAAATACGAAAGCTAATTTTTTGTGGAATGTGAAAAGTTTAAAAAAACTAATATTTAATTTACA
324 TAAAATACGAAAACTAATTTTTTGTGGAATGTGAAAAGATTAAAAAAACTAATATTTAATTTACA
* * * *
37907040 ATTTAGCATTTAAATTACATTTATACATTAATTATTTCCATACTTAAAATATCAGTTTGA-CTAA
389 ATTTAACAATTAAATTACATCTATAAATTAATTATTTCCATACTTAAAATATCAGTTT-ATCTAA
*
37907104 AAAATATTTTACTTAACCATATATATAAGCATATAAATTACATCTTAGCTTTAGCCTTTTTTCTT
453 AAAATATTTTACTCAACCATATATATAAGCATATAAATTACATCTTAGCTTTAGCCTTTTTTCTT
37907169 TTCTGAACAACTAAATATATGTAATATTATTGTACAGCATAATTTTACATGACAAT
518 TTCTGAACAACTAAATATATGTAATATTATTGTACAGCATAATTTTACATGACAAT
**
37907225 ATTATGATTATAATTGCTACTCATTCACAGGTTTGCTTTCACTAT-AAAAAATGC-TAGATAATA
1 ATTATGATTATAATTGCTACTCAAGCACAGGTTTGCTTTCACTATAAAAAAATGCGTA-ATAATA
* * * *
37907288 TTCAAATTTTAAACCTATTAGATAAAAATAAATAAATAATTATGATGCATTTTATAATATTATTT
65 GTCAAATTTTAAACATATTAGATAAAAATAAATAAATAATTATAATGAATTTTATAATATTA---
* * *
37907353 TTAAAAAATTATTGATAAATCATTTAAAATAATAATATTTTAATTAAAATATATATTTGAAAAAG
127 -T------TT-TT-AT--ATCATTTAAAATAATAATATTTTAATTAAAAAACAAATTTG-AAAA-
* * *
37907418 AAAAAGAACG-CGACATAGAATGAATATATAAATTATTATAAT-ATATTATATTGTTTATTATAT
179 AAAAAGAACGTC-ACAAAGAATGAATATATAAATTATTAT-ATCATA-T-TA---TTCATGATAT
* *
37907481 GATATGATTTCTTACAAATGTTTCGAACAAAATTAGTTACCATTTAATCTACAAAGCTTTAATTT
237 GATATGATTTCTTACAAATGTTTCCAACAAAATTAGTTACCATTTAATCCACAAAGCTTTAATTT
* ** * *
37907546 ATAAGTGTTAAA-TTAAAATCTTAATATAC-AATAATTAA-TTTTTGTGGAATGTGAAAAGATTA
302 ATAAGTGTAAAAGGAAAAATCTTAAAATACGAA-AACTAATTTTTTGTGGAATGTGAAAAGATTA
* *
37907608 AAAAAACTAATATTTAATTTACAATTTAACAATTAATTTACATCTATAAATTAATTATTTCGATA
366 AAAAAACTAATATTTAATTTACAATTTAACAATTAAATTACATCTATAAATTAATTATTTCCATA
*
37907673 CTTAAAATATCAGTTTATCTAAAAAATATTTTACTCAACCATGTATATAA
431 CTTAAAATATCAGTTTATCTAAAAAATATTTTACTCAACCATATATATAA
37907723 AAAGGTATAT
Statistics
Matches: 430, Mismatches: 42, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
571 2 0.00
572 70 0.16
575 42 0.10
576 1 0.00
582 2 0.00
583 2 0.00
584 2 0.00
586 37 0.09
587 5 0.01
588 35 0.08
589 3 0.01
590 3 0.01
591 130 0.30
592 18 0.04
593 78 0.18
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (573 bp):
ATTATGATTATAATTGCTACTCAAGCACAGGTTTGCTTTCACTATAAAAAAATGCGTAATAATAG
TCAAATTTTAAACATATTAGATAAAAATAAATAAATAATTATAATGAATTTTATAATATTATTTT
TATATCATTTAAAATAATAATATTTTAATTAAAAAACAAATTTGAAAAAAAAAGAACGTCACAAA
GAATGAATATATAAATTATTATATCATATTATTCATGATATGATATGATTTCTTACAAATGTTTC
CAACAAAATTAGTTACCATTTAATCCACAAAGCTTTAATTTATAAGTGTAAAAGGAAAAATCTTA
AAATACGAAAACTAATTTTTTGTGGAATGTGAAAAGATTAAAAAAACTAATATTTAATTTACAAT
TTAACAATTAAATTACATCTATAAATTAATTATTTCCATACTTAAAATATCAGTTTATCTAAAAA
ATATTTTACTCAACCATATATATAAGCATATAAATTACATCTTAGCTTTAGCCTTTTTTCTTTTC
TGAACAACTAAATATATGTAATATTATTGTACAGCATAATTTTACATGACAAT
Found at i:37911107 original size:27 final size:25
Alignment explanation
Indices: 37911072--37911130 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
37911062 AGATAAAAAT
37911072 AAATAATTTATTATAATGCATTTTAAA
1 AAATAATTTATTAT-AT-CATTTTAAA
* *
37911099 AAATTATTTTTTATATCATTTTAAA
1 AAATAATTTATTATATCATTTTAAA
*
37911124 TAATAAT
1 AAATAAT
37911131 ATTTTAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.50
26 2 0.07
27 12 0.43
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (25 bp):
AAATAATTTATTATATCATTTTAAA
Found at i:37911135 original size:25 final size:24
Alignment explanation
Indices: 37911068--37911140 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 24
37911058 TTTTAGATAA
37911068 AAATAAATAATTTATTATAATGCATTTT
1 AAAT-AATAATTT-TTAT-AT-CATTTT
* *
37911096 AAAAAATTATTTTTTATATCATTTT
1 AAATAA-TAATTTTTATATCATTTT
37911121 AAATAATAATATTTTA-ATCA
1 AAATAATAAT-TTTTATATCA
37911141 AAAACATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 7 0.18
25 16 0.41
26 2 0.05
27 6 0.15
28 8 0.21
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (24 bp):
AAATAATAATTTTTATATCATTTT
Found at i:37911200 original size:17 final size:17
Alignment explanation
Indices: 37911180--37911215 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
37911170 AATATATAAA
*
37911180 TTATTATATTATATGAT
1 TTATTATATGATATGAT
37911197 TTATTATATGATATGAT
1 TTATTATATGATATGAT
37911214 TT
1 TT
37911216 CTTACAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (17 bp):
TTATTATATGATATGAT
Found at i:37911452 original size:2 final size:2
Alignment explanation
Indices: 37911418--37911442 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
37911408 TTTCTCAACC
37911418 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
37911443 ATGGTATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37920525 original size:17 final size:17
Alignment explanation
Indices: 37920502--37920555 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
37920492 TAACAGTTGA
*
37920502 ATTAATTTATATATTTT
1 ATTAATTTATATAATTT
* *
37920519 TTTAATTTTTATAATTT
1 ATTAATTTATATAATTT
* *
37920536 ATAAATTTATTTAA-TT
1 ATTAATTTATATAATTT
37920552 ATTA
1 ATTA
37920556 GATCATCTAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 5 0.17
17 24 0.83
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTAATTTATATAATTT
Found at i:37921776 original size:20 final size:20
Alignment explanation
Indices: 37921751--37921795 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
37921741 ACATATTTTA
37921751 ATTTTAAAATTATCAAATAT
1 ATTTTAAAATTATCAAATAT
*
37921771 ATTTT--AATTATCAAGTAT
1 ATTTTAAAATTATCAAATAT
37921789 ATTTTAA
1 ATTTTAA
37921796 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 17 0.77
20 5 0.23
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTTTAAAATTATCAAATAT
Found at i:37921781 original size:18 final size:18
Alignment explanation
Indices: 37921758--37921797 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
37921748 TTAATTTTAA
37921758 AATTATCAAATATATTTT
1 AATTATCAAATATATTTT
*
37921776 AATTATCAAGTATATTTT
1 AATTATCAAATATATTTT
37921794 AATT
1 AATT
37921798 TTTTTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTATCAAATATATTTT
Found at i:37921873 original size:23 final size:24
Alignment explanation
Indices: 37921824--37921887 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
37921814 TACAGAAAAA
* * *
37921824 AAAATTTAAATAAAAATAAGTTTT
1 AAAAGTTAAATAAAAATAAGATAT
37921848 AAAA-TTAAATAAAAAT-AGAATAT
1 AAAAGTTAAATAAAAATAAG-ATAT
37921871 AAAAGTTAAAATAAAAA
1 AAAAGTT-AAATAAAAA
37921888 ATATACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 2 0.06
23 18 0.51
24 6 0.17
25 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (24 bp):
AAAAGTTAAATAAAAATAAGATAT
Found at i:37922293 original size:27 final size:27
Alignment explanation
Indices: 37922263--37922324 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
37922253 ACTTTTACAG
* *
37922263 TAAATTTTAAATTATTTACGTATTTAA
1 TAAATTTTAAATTATTTACATAATTAA
***
37922290 TAAAAAATAAATTATTTACATAATTAA
1 TAAATTTTAAATTATTTACATAATTAA
*
37922317 TTAATTTT
1 TAAATTTT
37922325 TTTGAGTTAA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
TAAATTTTAAATTATTTACATAATTAA
Found at i:37925736 original size:5 final size:5
Alignment explanation
Indices: 37925726--37925756 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
37925716 ATTCTGTGTA
37925726 GCCAT GCCAT GCCAT GCCAT GCCAT GCCAT G
1 GCCAT GCCAT GCCAT GCCAT GCCAT GCCAT G
37925757 GAAGGGTTAG
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:0.19, C:0.39, G:0.23, T:0.19
Consensus pattern (5 bp):
GCCAT
Found at i:37938674 original size:16 final size:16
Alignment explanation
Indices: 37938653--37938695 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
37938643 ACGTATCATT
37938653 AATTTATATTTGAATC
1 AATTTATATTTGAATC
37938669 AATTTATATTTGAATC
1 AATTTATATTTGAATC
*
37938685 AATTTAAATTT
1 AATTTATATTT
37938696 AGATTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (16 bp):
AATTTATATTTGAATC
Found at i:37939715 original size:29 final size:29
Alignment explanation
Indices: 37939682--37939744 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
37939672 ATTTTCAAAA
37939682 CAAAAATTAG-GAGGTCTAACTAAAATTTT
1 CAAAAATTAGTGA-GTCTAACTAAAATTTT
* * * *
37939711 GAAAATTTAGTGAGTTTAAGTAAAATTTT
1 CAAAAATTAGTGAGTCTAACTAAAATTTT
37939740 CAAAA
1 CAAAA
37939745 TTTTATAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 26 0.93
30 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.33
Consensus pattern (29 bp):
CAAAAATTAGTGAGTCTAACTAAAATTTT
Found at i:37947359 original size:12 final size:12
Alignment explanation
Indices: 37947333--37947371 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37947323 ATGATCATGA
*
37947333 CATCATCATCAT
1 CATCATCATCTT
* *
37947345 CATCTTCTTCTT
1 CATCATCATCTT
37947357 CATCATCATCTT
1 CATCATCATCTT
37947369 CAT
1 CAT
37947372 ACTGGGTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (12 bp):
CATCATCATCTT
Found at i:37947361 original size:15 final size:15
Alignment explanation
Indices: 37947338--37947371 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37947328 CATGACATCA
37947338 TCATCATCATCTTCT
1 TCATCATCATCTTCT
* *
37947353 TCTTCATCATCATCT
1 TCATCATCATCTTCT
37947368 TCAT
1 TCAT
37947372 ACTGGGTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (15 bp):
TCATCATCATCTTCT
Found at i:37950031 original size:16 final size:17
Alignment explanation
Indices: 37949994--37950034 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
37949984 ACTTAAATCG
*
37949994 GAAATTATTTGAACTTT
1 GAAATGATTTGAACTTT
*
37950011 G-AATGATTTGTA-TTT
1 GAAATGATTTGAACTTT
37950026 GAAATGATT
1 GAAATGATT
37950035 CTAAATAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 16 0.76
17 1 0.05
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (17 bp):
GAAATGATTTGAACTTT
Found at i:37965119 original size:21 final size:19
Alignment explanation
Indices: 37965095--37965133 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
37965085 GCTTTGCTTA
37965095 ATTACTCTTTTGAAAATTTTG
1 ATTACTCTTTT--AAATTTTG
*
37965116 ATTATTCTTTTAAATTTT
1 ATTACTCTTTTAAATTTT
37965134 ATATTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (19 bp):
ATTACTCTTTTAAATTTTG
Found at i:37967532 original size:16 final size:16
Alignment explanation
Indices: 37967507--37967539 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
37967497 TTTTTTTTAA
37967507 ATTTAATTTATTATTT
1 ATTTAATTTATTATTT
*
37967523 ATTTATTTTATTATTT
1 ATTTAATTTATTATTT
37967539 A
1 A
37967540 CACATGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTAATTTATTATTT
Found at i:37973508 original size:9 final size:9
Alignment explanation
Indices: 37973494--37973518 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37973484 TAATTAAATT
37973494 AAAATAATC
1 AAAATAATC
37973503 AAAATAATC
1 AAAATAATC
37973512 AAAATAA
1 AAAATAA
37973519 GAATAATAGA
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:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAATAATC
Found at i:37978522 original size:33 final size:33
Alignment explanation
Indices: 37978480--37978545 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
37978470 CTTTTACGTG
37978480 AAGATTAAAGTGGTAGTTTTTGAATCATTATAA
1 AAGATTAAAGTGGTAGTTTTTGAATCATTATAA
37978513 AAGATTAAAGTGGTAGTTTTTGAATCATTATAA
1 AAGATTAAAGTGGTAGTTTTTGAATCATTATAA
37978546 GTCCTCAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (33 bp):
AAGATTAAAGTGGTAGTTTTTGAATCATTATAA
Found at i:37982197 original size:34 final size:34
Alignment explanation
Indices: 37982158--37982228 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
37982148 AACCTTCAAA
37982158 TTTAAATTAAGCACTAAAAACATTAATATATAAT
1 TTTAAATTAAGCACTAAAAACATTAATATATAAT
37982192 TTTAAATTAAGCACTAAAAACATTAATATATAAT
1 TTTAAATTAAGCACTAAAAACATTAATATATAAT
37982226 TTT
1 TTT
37982229 TATCAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (34 bp):
TTTAAATTAAGCACTAAAAACATTAATATATAAT
Found at i:37998087 original size:19 final size:19
Alignment explanation
Indices: 37998050--37998088 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
37998040 TCATTTCCAC
*
37998050 ATTAGAAACACAACCACAA
1 ATTAGAAACACAACAACAA
37998069 ATTAGAAACACGAA-AACAA
1 ATTAGAAACAC-AACAACAA
37998088 A
1 A
37998089 CTCAAAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.62, C:0.21, G:0.08, T:0.10
Consensus pattern (19 bp):
ATTAGAAACACAACAACAA
Found at i:38001968 original size:22 final size:22
Alignment explanation
Indices: 38001943--38001986 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
38001933 AATTATTAGA
38001943 TTAATCTAA-ATCTTAAAATATT
1 TTAAT-TAAGATCTTAAAATATT
* *
38001965 TTAATTAAGCTTTTAAAATATT
1 TTAATTAAGATCTTAAAATATT
38001987 AGTTTCACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (22 bp):
TTAATTAAGATCTTAAAATATT
Found at i:38012158 original size:23 final size:24
Alignment explanation
Indices: 38012117--38012163 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
38012107 CACTAAAGTG
* **
38012117 ATTAAATTTTAAATTTAAA-TATA
1 ATTAAAATTTAAAAATAAAGTATA
38012140 ATTAAAATTTAAAAATAAAGTATA
1 ATTAAAATTTAAAAATAAAGTATA
38012164 TATATATACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
ATTAAAATTTAAAAATAAAGTATA
Found at i:38013079 original size:16 final size:16
Alignment explanation
Indices: 38013058--38013090 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
38013048 GATTATGTTC
38013058 GATAGAACCGATTTCG
1 GATAGAACCGATTTCG
38013074 GATAGAACCGATTTCG
1 GATAGAACCGATTTCG
38013090 G
1 G
38013091 GCAGTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (16 bp):
GATAGAACCGATTTCG
Found at i:38036596 original size:2 final size:2
Alignment explanation
Indices: 38036589--38036614 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38036579 TTATTTGTAA
38036589 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
38036615 CTCAATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38042824 original size:19 final size:18
Alignment explanation
Indices: 38042795--38042846 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
38042785 TCTTCTTAAC
38042795 AAAATAGAAAATAT-ATCAA
1 AAAATA-AAAATATAAT-AA
38042814 AAAACTAAAAAGTATAATAA
1 AAAA-TAAAAA-TATAATAA
38042834 AAAATAATAAATA
1 AAAATAA-AAATA
38042847 AAAATTGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (18 bp):
AAAATAAAAATATAATAA
Found at i:38043891 original size:15 final size:15
Alignment explanation
Indices: 38043871--38043904 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
38043861 AGTTATGTCT
*
38043871 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
38043886 ATGTATGGAATTAGA
1 ATGTATGGAATTAGA
38043901 ATGT
1 ATGT
38043905 CAAAAAGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:38044805 original size:20 final size:19
Alignment explanation
Indices: 38044748--38044808 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
38044738 TCAAATACAC
*
38044748 TTAAAAACATTAAAACAAACA
1 TTAAAAACATTAAAA-AAA-T
*
38044769 TTAAAAA-A-TAAATAAAT
1 TTAAAAACATTAAAAAAAT
38044786 TTAAAATACATTAAAAAAAT
1 TTAAAA-ACATTAAAAAAAT
38044806 TTA
1 TTA
38044809 TAATAAGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
17 6 0.18
18 4 0.12
19 5 0.15
20 12 0.35
21 7 0.21
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (19 bp):
TTAAAAACATTAAAAAAAT
Found at i:38044948 original size:12 final size:12
Alignment explanation
Indices: 38044933--38045057 Score: 55
Period size: 12 Copynumber: 10.8 Consensus size: 12
38044923 ATAACATAAA
38044933 AACAACAAAAAT
1 AACAACAAAAAT
* *
38044945 AACAACCAAAAC
1 AACAACAAAAAT
* **
38044957 AGCAGTAAAAAT
1 AACAACAAAAAT
* *
38044969 AACAGC--AAAC
1 AACAACAAAAAT
** *
38044979 AACATTAAAAAC
1 AACAACAAAAAT
38044991 AAC-A-A-AAAT
1 AACAACAAAAAT
*
38045000 AACAATAAAAAT
1 AACAACAAAAAT
**
38045012 AGTAACAAAAAT
1 AACAACAAAAAT
* *
38045024 AACAGCAAAAAC
1 AACAACAAAAAT
*
38045036 AAC-ACGAAAAT
1 AACAACAAAAAT
38045047 AACAACCAAAA
1 AACAA-CAAAA
38045058 CAGTAAAAAA
Statistics
Matches: 81, Mismatches: 25, Indels: 13
0.68 0.21 0.11
Matches are distributed among these distances:
9 6 0.07
10 9 0.11
11 9 0.11
12 53 0.65
13 4 0.05
ACGTcount: A:0.68, C:0.18, G:0.05, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:38044987 original size:22 final size:21
Alignment explanation
Indices: 38044919--38045012 Score: 73
Period size: 22 Copynumber: 4.3 Consensus size: 21
38044909 AAACCCATAA
* *
38044919 AAAAATAACATAAA-AACAAC
1 AAAAATAACACAAACAACAAT
* *
38044939 AAAAATAACAACCAAAACAGCAGT
1 AAAAATAAC-A-C-AAACAACAAT
*
38044963 AAAAATAACAGCAAACAACATT
1 AAAAATAACA-CAAACAACAAT
* * *
38044985 AAAAACAACAAAAATAACAAT
1 AAAAATAACACAAACAACAAT
38045006 AAAAATA
1 AAAAATA
38045013 GTAACAAAAA
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 9 0.16
21 15 0.26
22 17 0.29
23 5 0.09
24 12 0.21
ACGTcount: A:0.70, C:0.16, G:0.03, T:0.11
Consensus pattern (21 bp):
AAAAATAACACAAACAACAAT
Found at i:38044996 original size:55 final size:53
Alignment explanation
Indices: 38044925--38045036 Score: 152
Period size: 55 Copynumber: 2.1 Consensus size: 53
38044915 ATAAAAAAAT
* **
38044925 AACATAAAAACAACAAAAATAACAACCAAAACAGCAGTAAAAATAACAGCAAA
1 AACATAAAAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAGCAAA
* * *
38044978 CAACATTAAAAACAACAAAAATAACAATAAAAATAGTAACAAAAATAACAGCAAA
1 -AACA-TAAAAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAGCAAA
38045033 AACA
1 AACA
38045037 ACACGAAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 8 0.16
55 43 0.84
ACGTcount: A:0.69, C:0.17, G:0.04, T:0.10
Consensus pattern (53 bp):
AACATAAAAACAACAAAAATAACAACAAAAACAGCAACAAAAATAACAGCAAA
Found at i:38045068 original size:23 final size:23
Alignment explanation
Indices: 38044994--38045068 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
38044984 TAAAAACAAC
* *
38044994 AAAAATAACAATAAAAATAGTAA
1 AAAAATAACAACAAAAACAGTAA
* ** *
38045017 CAAAAATAACAGCAAAAACAACAC
1 -AAAAATAACAACAAAAACAGTAA
* *
38045041 GAAAATAACAACCAAAACAGTAA
1 AAAAATAACAACAAAAACAGTAA
38045064 AAAAA
1 AAAAA
38045069 GCACCAAAAC
Statistics
Matches: 38, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
23 21 0.55
24 17 0.45
ACGTcount: A:0.71, C:0.15, G:0.05, T:0.09
Consensus pattern (23 bp):
AAAAATAACAACAAAAACAGTAA
Found at i:38045729 original size:19 final size:19
Alignment explanation
Indices: 38045698--38045741 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
38045688 TTATTTTTAC
*
38045698 TTTT-ATTATACTTTTAT-A
1 TTTTAATTAAACTTTT-TGA
38045716 TTTTAATTAAACTTTTTGA
1 TTTTAATTAAACTTTTTGA
38045735 TTTTAAT
1 TTTTAAT
38045742 AAAAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTAATTAAACTTTTTGA
Found at i:38054753 original size:30 final size:30
Alignment explanation
Indices: 38054717--38054781 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
38054707 CAACTTAACA
* *
38054717 AACAAATGCCTCTAAAATAGTAACAAAATT
1 AACAAATGACTCTAAAATAATAACAAAATT
38054747 AACAAATGACTCTAAAATAATAACAAAATT
1 AACAAATGACTCTAAAATAATAACAAAATT
38054777 AACAA
1 AACAA
38054782 TAAAATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.15, G:0.05, T:0.22
Consensus pattern (30 bp):
AACAAATGACTCTAAAATAATAACAAAATT
Found at i:38079421 original size:30 final size:30
Alignment explanation
Indices: 38079387--38079446 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
38079377 ATTATAGTTA
38079387 TTTTCAGTTGGGCCATTTGACTAATGGGTT
1 TTTTCAGTTGGGCCATTTGACTAATGGGTT
* *
38079417 TTTTCATTTGGGCCATTTGATTAATGGGTT
1 TTTTCAGTTGGGCCATTTGACTAATGGGTT
38079447 AAGCCCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.47
Consensus pattern (30 bp):
TTTTCAGTTGGGCCATTTGACTAATGGGTT
Found at i:38085917 original size:29 final size:30
Alignment explanation
Indices: 38085871--38085934 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
38085861 ATTAAACTGG
38085871 TTTATAAATTTTTAAATT-TGTTA-TTAATT
1 TTTATAAATTTTTAAATTAT-TTATTTAATT
38085900 TTTATAAACTTTTT-AATTATTTATTTAATT
1 TTTATAAA-TTTTTAAATTATTTATTTAATT
*
38085930 ATTAT
1 TTTAT
38085935 TAGATTAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTATAAATTTTTAAATTATTTATTTAATT
Found at i:38093541 original size:15 final size:16
Alignment explanation
Indices: 38093520--38093558 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
38093510 TGGCTTCCTC
*
38093520 AAATTTATTT-TTTTT
1 AAATTTATTTCTTTAT
*
38093535 CAATTTATTTCTTTAT
1 AAATTTATTTCTTTAT
38093551 AAATTTAT
1 AAATTTAT
38093559 ACTATTGTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (16 bp):
AAATTTATTTCTTTAT
Found at i:38102478 original size:14 final size:14
Alignment explanation
Indices: 38102459--38102485 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
38102449 CAATTCTTGA
38102459 AAAGATTTATTTTC
1 AAAGATTTATTTTC
38102473 AAAGATTTATTTT
1 AAAGATTTATTTT
38102486 TAATTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (14 bp):
AAAGATTTATTTTC
Found at i:38103240 original size:31 final size:31
Alignment explanation
Indices: 38103182--38103252 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
38103172 TTTCCTATTG
* *
38103182 AGTTAAATTTAACCATTAATCTCTTAAAAAA
1 AGTTAAATTTAACCATCAACCTCTTAAAAAA
* * * *
38103213 AGTTATATTTAACTATCAACCTTTTAAAAAG
1 AGTTAAATTTAACCATCAACCTCTTAAAAAA
*
38103244 AGTCAAATT
1 AGTTAAATT
38103253 AATGGTTTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.37
Consensus pattern (31 bp):
AGTTAAATTTAACCATCAACCTCTTAAAAAA
Done.