Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 139 of 208
Found at i:45340250 original size:13 final size:13
Alignment explanation
Indices: 45340214--45340251 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
45340204 TCCACAGTTA
45340214 ATATATCAAATAAT
1 ATATAT-AAATAAT
*
45340228 -TATCTAAATAAT
1 ATATATAAATAAT
45340240 ATATATAAATAA
1 ATATATAAATAA
45340252 ATCATTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (13 bp):
ATATATAAATAAT
Found at i:45348046 original size:19 final size:19
Alignment explanation
Indices: 45348022--45348066 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
45348012 TTATTAAAAA
*
45348022 ATAAAAAAAATATAAAATC
1 ATAAAAAAAATAAAAAATC
* * *
45348041 ATAAAAATATTAAAAAATT
1 ATAAAAAAAATAAAAAATC
45348060 ATAAAAA
1 ATAAAAA
45348067 GTTATCAAGA
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:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAAAAAAATAAAAAATC
Found at i:45349360 original size:16 final size:16
Alignment explanation
Indices: 45349324--45349354 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45349314 CAACATAATT
45349324 GTTATCGATTCAACAA
1 GTTATCGATTCAACAA
*
45349340 GTTATCTATTCAACA
1 GTTATCGATTCAACA
45349355 TTTTATATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (16 bp):
GTTATCGATTCAACAA
Found at i:45350515 original size:33 final size:33
Alignment explanation
Indices: 45350478--45350580 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 33
45350468 AAGTACAAAA
45350478 ATTAGTAATTATTACAATTAGGAAATCAAATTG
1 ATTAGTAATTATTACAATTAGGAAATCAAATTG
** * *
45350511 ATTAGTTAA-TAGTTGAGGA-TA--AAGTACAAA--A
1 ATTAG-TAATTA-TT-ACAATTAGGAAAT-CAAATTG
*
45350542 ATTAGTAATTATTACAATTAGGAGATCAAATTG
1 ATTAGTAATTATTACAATTAGGAAATCAAATTG
45350575 ATTAGT
1 ATTAGT
45350581 TAATAGTTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 20
0.64 0.11 0.25
Matches are distributed among these distances:
29 2 0.04
30 7 0.14
31 11 0.22
32 5 0.10
33 17 0.33
34 7 0.14
35 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.35
Consensus pattern (33 bp):
ATTAGTAATTATTACAATTAGGAAATCAAATTG
Found at i:45350570 original size:64 final size:64
Alignment explanation
Indices: 45350467--45350594 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
45350457 TTGTAAAAAG
45350467 AAAGTACAAAAATTAGTAATTATTACAATTAGGAAATCAAATTGATTAGTTAATAGTTGAGGAT
1 AAAGTACAAAAATTAGTAATTATTACAATTAGGAAATCAAATTGATTAGTTAATAGTTGAGGAT
*
45350531 AAAGTACAAAAATTAGTAATTATTACAATTAGGAGATCAAATTGATTAGTTAATAGTTGAGGAT
1 AAAGTACAAAAATTAGTAATTATTACAATTAGGAAATCAAATTGATTAGTTAATAGTTGAGGAT
45350595 GGACTTAAGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (64 bp):
AAAGTACAAAAATTAGTAATTATTACAATTAGGAAATCAAATTGATTAGTTAATAGTTGAGGAT
Found at i:45351696 original size:35 final size:35
Alignment explanation
Indices: 45351644--45351904 Score: 230
Period size: 35 Copynumber: 7.5 Consensus size: 35
45351634 TACTCCTTGT
*
45351644 TTGGCGTGTT-TCGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTAT-AGTTGGATTAGCTCTTATGAGCA
* * *
45351679 TTGGCGTGCTATAGTTGGATTAGCTCATATGATCA
1 TTGGCGTGTTATAGTTGGATTAGCTCTTATGAGCA
* **
45351714 TTGGCGTGTTATTGTTAAATTAGCTCTTATGAG--
1 TTGGCGTGTTATAGTTGGATTAGCTCTTATGAGCA
* * *
45351747 -TGGTGTG-TA-ACGATTGGATTAGATCTTATGAGAA
1 TTGGCGTGTTATA-G-TTGGATTAGCTCTTATGAGCA
* * *
45351781 TTGTCGTGTTACAGTTGGATTAGCTCTTATGAGTA
1 TTGGCGTGTTATAGTTGGATTAGCTCTTATGAGCA
** * *
45351816 TTGGCGTGTTACGGTTGGATTTGCTCTTATGAGTA
1 TTGGCGTGTTATAGTTGGATTAGCTCTTATGAGCA
* * * *
45351851 CTGGCGTGTT-TCAATTGGGTTAGATCTTATGAGCA
1 TTGGCGTGTTAT-AGTTGGATTAGCTCTTATGAGCA
* *
45351886 TCGGTGTGTTATAGTTGGA
1 TTGGCGTGTTATAGTTGGA
45351905 CTTACGATGT
Statistics
Matches: 181, Mismatches: 35, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
31 3 0.02
32 22 0.12
35 150 0.83
36 5 0.03
37 1 0.01
ACGTcount: A:0.20, C:0.11, G:0.29, T:0.40
Consensus pattern (35 bp):
TTGGCGTGTTATAGTTGGATTAGCTCTTATGAGCA
Found at i:45351842 original size:102 final size:102
Alignment explanation
Indices: 45351658--45351849 Score: 269
Period size: 102 Copynumber: 1.9 Consensus size: 102
45351648 CGTGTTTCGG
* * *
45351658 TTGGATTAGCTCTTATGAGCATTGGCGTGCTATAGTTGGATTAGCTCATATGATCATTGGCGTGT
1 TTGGATTAGATCTTATGAGAATTGGCGTGCTACAGTTGGATTAGCTCATATGATCATTGGCGTGT
**
45351723 TATTGTTAAATTAGCTCTTATGAGTGGTGTGTAACGA
66 TACGGTTAAATTAGCTCTTATGAGTGGTGTGTAACGA
* * *
45351760 TTGGATTAGATCTTATGAGAATTGTCGTGTTACAGTTGGATTAGCTCTTATGAGT-ATTGGCGTG
1 TTGGATTAGATCTTATGAGAATTGGCGTGCTACAGTTGGATTAGCTCATATGA-TCATTGGCGTG
** *
45351824 TTACGGTTGGATTTGCTCTTATGAGT
65 TTACGGTTAAATTAGCTCTTATGAGT
45351850 ACTGGCGTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
102 77 0.99
103 1 0.01
ACGTcount: A:0.21, C:0.11, G:0.27, T:0.41
Consensus pattern (102 bp):
TTGGATTAGATCTTATGAGAATTGGCGTGCTACAGTTGGATTAGCTCATATGATCATTGGCGTGT
TACGGTTAAATTAGCTCTTATGAGTGGTGTGTAACGA
Found at i:45359420 original size:35 final size:35
Alignment explanation
Indices: 45359364--45359619 Score: 314
Period size: 35 Copynumber: 7.3 Consensus size: 35
45359354 TACTCCCTGT
*
45359364 TTGGCGTGTTTCGGTTGGATTAACTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
** *
45359399 TTGGCGTGTTACGGTAAGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
* * * *
45359434 TTGGCGTGTTATGGTCGAATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
*
45359469 TTGGCGTGTTACGGTTGGATTAGCTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
* * **
45359504 TTGCCGTGTTACGATTGGATTAACTCTTATGAGTT
1 TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
*
45359539 TTGGCATGTTACGGTTGGATTAACTCTTATGAGCA
1 TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
* * * * * *
45359574 TTAGCGTGTTTCAGTTGGGTTAGCTCTTATAAGCA
1 TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
* *
45359609 TCGGCATGTTA
1 TTGGCGTGTTA
45359620 TAGTTGGACT
Statistics
Matches: 189, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 189 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.38
Consensus pattern (35 bp):
TTGGCGTGTTACGGTTGGATTAACTCTTATGAGCA
Found at i:45361406 original size:14 final size:14
Alignment explanation
Indices: 45361387--45361414 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45361377 TAAAGTTATA
45361387 TTTAATAATTCATT
1 TTTAATAATTCATT
45361401 TTTAATAATTCATT
1 TTTAATAATTCATT
45361415 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:45365766 original size:30 final size:30
Alignment explanation
Indices: 45365731--45365807 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
45365721 TCGTCACAAT
45365731 CCCTTTTCATAATTTGATAGCCGAAGCCAG
1 CCCTTTTCATAATTTGATAGCCGAAGCCAG
* * *
45365761 CCCTTTTCATGA-TCGATAGCCGAAGCCAT
1 CCCTTTTCATAATTTGATAGCCGAAGCCAG
*
45365790 CCCTTTTTATAATTTGAT
1 CCCTTTTCATAATTTGAT
45365808 GGTCATCACC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (30 bp):
CCCTTTTCATAATTTGATAGCCGAAGCCAG
Found at i:45365854 original size:29 final size:29
Alignment explanation
Indices: 45365669--45365861 Score: 99
Period size: 29 Copynumber: 6.5 Consensus size: 29
45365659 AGCCAAGGCT
*
45365669 ATCCCTTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAA-TTGATGGTCATCACC
** * *
45365699 AT-CCTTTTACATTGTTCGATGGTCGTCACA
1 ATCCCTTTT-CATAATT-GATGGTCATCACC
* *
45365729 ATCCCTTTTCATAATTTGATAGCCGA--AGCC
1 ATCCCTTTTCATAA-TTGATGGTC-ATCA-CC
* * * * *
45365759 AGCCCTTTTCATGATCGATAGCCGA--AGCC
1 ATCCCTTTTCATAATTGATGGTC-ATCA-CC
*
45365788 ATCCCTTTTTATAATTTGATGGTCATCACC
1 ATCCCTTTTCATAA-TTGATGGTCATCACC
** * * * *
45365818 ATTGCTTTCCATAATTGATTGTCGTCTCC
1 ATCCCTTTTCATAATTGATGGTCATCACC
45365847 ATCCCTTTTCATAAT
1 ATCCCTTTTCATAAT
45365862 CAATAGCCGA
Statistics
Matches: 126, Mismatches: 28, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
29 59 0.47
30 58 0.46
31 9 0.07
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATGGTCATCACC
Found at i:45365895 original size:28 final size:28
Alignment explanation
Indices: 45365864--45365935 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
45365854 TTCATAATCA
45365864 ATAGCCGAAGCTATCCTTTTTGTAGTCG
1 ATAGCCGAAGCTATCCTTTTTGTAGTCG
* * *
45365892 ATAGTCGAAGTTATCCTTTTTGTAGTTG
1 ATAGCCGAAGCTATCCTTTTTGTAGTCG
*
45365920 ATAGCTGAAGCTATCC
1 ATAGCCGAAGCTATCC
45365936 CATTTCACCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (28 bp):
ATAGCCGAAGCTATCCTTTTTGTAGTCG
Found at i:45368874 original size:25 final size:25
Alignment explanation
Indices: 45368846--45368903 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
45368836 CAGCTTGTAT
* *
45368846 GAGCTTACTATTATTTAGCTCAGAG
1 GAGCTTACTATTATTCAACTCAGAG
*
45368871 GAGCTTACTGTTATTCAACTCAGAG
1 GAGCTTACTATTATTCAACTCAGAG
45368896 GAGCTTAC
1 GAGCTTAC
45368904 CATTTATAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
GAGCTTACTATTATTCAACTCAGAG
Found at i:45370268 original size:10 final size:10
Alignment explanation
Indices: 45370255--45370289 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
45370245 AGCTCAAATT
45370255 AGCTCGTTTG
1 AGCTCGTTTG
45370265 AGCTCGTTTG
1 AGCTCGTTTG
45370275 AGCTCGTTTG
1 AGCTCGTTTG
45370285 AGCTC
1 AGCTC
45370290 ATTTCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.11, C:0.23, G:0.29, T:0.37
Consensus pattern (10 bp):
AGCTCGTTTG
Found at i:45370268 original size:20 final size:21
Alignment explanation
Indices: 45370245--45370290 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
45370235 AGCTCCATTC
45370245 AGCTCAAATT-AGCTCGTTTG
1 AGCTCAAATTGAGCTCGTTTG
**
45370265 AGCTC-GTTTGAGCTCGTTTG
1 AGCTCAAATTGAGCTCGTTTG
45370285 AGCTCA
1 AGCTCA
45370291 TTTCAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (21 bp):
AGCTCAAATTGAGCTCGTTTG
Found at i:45374271 original size:17 final size:16
Alignment explanation
Indices: 45374239--45374276 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
45374229 TTTAATAATG
*
45374239 TATTATTATTTTTTAT
1 TATTATCATTTTTTAT
45374255 TATTATCATTGTTTTAT
1 TATTATCATT-TTTTAT
45374272 TATTA
1 TATTA
45374277 CTATCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTATCATTTTTTAT
Found at i:45374291 original size:20 final size:20
Alignment explanation
Indices: 45374247--45374284 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45374237 TGTATTATTA
*
45374247 TTTT-TTATTATTATCATTG
1 TTTTATTATTACTATCATTG
45374266 TTTTATTATTACTATCATT
1 TTTTATTATTACTATCATT
45374285 TTATTATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.08, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATTATTACTATCATTG
Found at i:45374386 original size:20 final size:22
Alignment explanation
Indices: 45374361--45374401 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
45374351 ATATTCTTTT
*
45374361 ATTTTTAGCTA-T-TTTTTTAA
1 ATTTTTACCTACTCTTTTTTAA
45374381 ATTTTTACCTACTCTTTTTTA
1 ATTTTTACCTACTCTTTTTTA
45374402 TTATATAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.63
Consensus pattern (22 bp):
ATTTTTACCTACTCTTTTTTAA
Found at i:45379861 original size:45 final size:45
Alignment explanation
Indices: 45379768--45380386 Score: 440
Period size: 45 Copynumber: 13.8 Consensus size: 45
45379758 GGAGCAGACT
* * * * * *
45379768 GAAGATAGCAGATCTTGTCTCCCTG-AGTAGTAG-TAGAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA-AGTAGATC
* * * * *
45379812 GAAGATTGTAGATCTTGTCTTCTTGTATTGGTAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
45379857 GAAGATAGCA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-C
1 GAAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* **** * * *
45379901 TGAAGATAGCAGATCTTGTCTCCCTG-AGCAACAGTGGAGTAGGTC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
45379946 AAAGATTGTAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * *
45379991 GAAGGTAGTAGATCTTATTTTCCTGTATTGGTAGCGAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * *
45380036 AAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGAT-
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * * *
45380080 TAAAATTAGCA-AGTCTTATCTTTCTATATTGACAGTGAAGTAGA-C
1 GAAGA-TAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *** * * * *
45380125 TGAAGATAACAGATCTTGTC-TCACTG-AGCAGTAGTGGAGTAGGTC
1 -GAAGATAGCAGATCTTGTCTTC-CTGTATTGGCAGCGAAGTAGATC
* *
45380170 GAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
45380215 GAAGATAGCATG-TCTTGTCTTCCTGTATTGGTAGCGAAGTAGA-C
1 GAAGATAGCA-GATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
45380259 TGAAGATAGCAGATCTTGTCTCCCTG-A--GGAACAGTGGAGTAGGTC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGG--CAGCGAAGTAGATC
* * * * * * *
45380304 AAAGATTGTAGATCTTGTCTTCCTATATCGGCAGTGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * *
45380349 AAAGATAGCAGACCTTGTCTTCCTATACTGGCAGCGAA
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAA
45380387 CCAGATCTAA
Statistics
Matches: 450, Mismatches: 100, Indels: 49
0.75 0.17 0.08
Matches are distributed among these distances:
42 2 0.00
44 118 0.26
45 321 0.71
46 7 0.02
47 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:45380014 original size:134 final size:134
Alignment explanation
Indices: 45379763--45380060 Score: 393
Period size: 134 Copynumber: 2.2 Consensus size: 134
45379753 ACAGTGGAGC
* ** *
45379763 AGACTGAAGATAGCAGATCTTGTCTCCCTGAGTAGTAGTAGAGTAGGTCGAAGATTGTAGATCTT
1 AGACTGAAGATAGCAGATCTTGTCTCCCTGAGCAACAGTAGAGTAGGTCAAAGATTGTAGATCTT
* * * *
45379828 GTCTTCTTGTATTGGTAGCAAAGTAGATCGAAGATAGCAAGTCTTGTCTTCCTGTATTGGCAGCG
66 GTCTTCCTATATTGGCAGCAAAGTAGATCGAAGATAGCAAGTCTTATCTTCCTGTATTGGCAGCG
45379893 AAGT
131 AAGT
*
45379897 AGACTGAAGATAGCAGATCTTGTCTCCCTGAGCAACAGTGGAGTAGGTCAAAGATTGTAGATCTT
1 AGACTGAAGATAGCAGATCTTGTCTCCCTGAGCAACAGTAGAGTAGGTCAAAGATTGTAGATCTT
* * * * * *
45379962 GTCTTCCTATATTGGCAGCGAAGTAGGTCGAAGGTAG-TAGATCTTATTTTCCTGTATTGGTAGC
66 GTCTTCCTATATTGGCAGCAAAGTAGATCGAAGATAGCAAG-TCTTATCTTCCTGTATTGGCAGC
45380026 GAAGT
130 GAAGT
* * * *
45380031 GGA-TCAAAGATAGTAGATCTTGTCTTCCTG
1 AGACT-GAAGATAGCAGATCTTGTCTCCCTG
45380061 TATTGGCAGT
Statistics
Matches: 143, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
133 3 0.02
134 140 0.98
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (134 bp):
AGACTGAAGATAGCAGATCTTGTCTCCCTGAGCAACAGTAGAGTAGGTCAAAGATTGTAGATCTT
GTCTTCCTATATTGGCAGCAAAGTAGATCGAAGATAGCAAGTCTTATCTTCCTGTATTGGCAGCG
AAGT
Found at i:45380203 original size:134 final size:133
Alignment explanation
Indices: 45380034--45380386 Score: 456
Period size: 134 Copynumber: 2.6 Consensus size: 133
45380024 GCGAAGTGGA
*
45380034 TCAAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTAAAATTAGCAAGTCTTAT
1 TCAAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTAAAA-TAGCAAGTCTTAT
* * **
45380099 CTTTCTATATTGACAGTGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAGTAGTGGAG
65 CTTCCTATATTGACAGCGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAACAGTGGAG
45380164 TAGG
130 TAGG
* * * * * *
45380168 TCGAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCATGTCTTGT
1 TCAAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGAT-TAAAATAGCAAGTCTTAT
* ** * * *
45380233 CTTCCTGTATTGGTAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTCCCTGAGGAACAGTGGAG
65 CTTCCTATATTGACAGCGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAACAGTGGAG
45380298 TAGG
130 TAGG
* * * *
45380302 TCAAAGATTGTAGATCTTGTCTTCCTATATCGGCAGTGAAGTAGATTAAAGATAGC-AGACCTTG
1 TCAAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTAAA-ATAGCAAG-TCTTA
* *
45380366 TCTTCCTATACTGGCAGCGAA
64 TCTTCCTATATTGACAGCGAA
45380387 CCAGATCTAA
Statistics
Matches: 188, Mismatches: 28, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
133 3 0.02
134 182 0.97
135 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (133 bp):
TCAAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATTAAAATAGCAAGTCTTATC
TTCCTATATTGACAGCGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAACAGTGGAGT
AGG
Found at i:45380209 original size:224 final size:224
Alignment explanation
Indices: 45379813--45380284 Score: 653
Period size: 224 Copynumber: 2.1 Consensus size: 224
45379803 GAGTAGGTCG
* * * * *
45379813 AAGATTGTAGATCTTGTCTTCTTGTATTGGTAGCAAAGTAGATCGAAGATAGCAAGTCTTGTCTT
1 AAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAAATAGCAAGTCTTATCTT
* * * *
45379878 CCTGTATTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTCCCTGAGCAACAGTGGAGTAG
66 CCTATATTGACAGCGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAACAGTGGAGTAG
* * *
45379943 GTCAAAGATTGTAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGGTCGAAGGTAGTA-GATCTT
131 GTCAAAGATTGTAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCATG-TCTT
* *
45380007 ATTTTCCTGTATTGGTAGCGAAGTGGA-TCA
195 ATCTTCCTGTATTGGTAGCGAAGTAGACT-A
** *
45380037 AAGATAGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGAT-TAAAATTAGCAAGTCTTATCT
1 AAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAAA-TAGCAAGTCTTATCT
* * **
45380101 TTCTATATTGACAGTGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAGTAGTGGAGTA
65 TCCTATATTGACAGCGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAACAGTGGAGTA
* *
45380166 GGTCGAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCATGTCTT
130 GGTCAAAGATTGTAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCATGTCTT
* *
45380231 GTCTTCCTGTATTGGTAGCGAAGTAGACTG
195 ATCTTCCTGTATTGGTAGCGAAGTAGACTA
* *
45380261 AAGATAGCAGATCTTGTCTCCCTG
1 AAGATAGTAGATCTTGTCTTCCTG
45380285 AGGAACAGTG
Statistics
Matches: 218, Mismatches: 27, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
223 3 0.01
224 213 0.98
225 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (224 bp):
AAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATCGAAAATAGCAAGTCTTATCTT
CCTATATTGACAGCGAAGTAGACTGAAGATAACAGATCTTGTCTCACTGAGCAACAGTGGAGTAG
GTCAAAGATTGTAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCATGTCTTA
TCTTCCTGTATTGGTAGCGAAGTAGACTA
Found at i:45380521 original size:44 final size:44
Alignment explanation
Indices: 45380472--45380611 Score: 190
Period size: 44 Copynumber: 3.2 Consensus size: 44
45380462 GTAGTAGGGA
* * * *
45380472 AGCAGATTTAAGCCACTAGTCTTATCCCCCTAAAGTTGCAGTGG
1 AGCAGATTGAAGCTACTAGTCTTATCTCCCTGAAGTTGCAGTGG
* * * *
45380516 GGCAGATTGAAGATACAAGTCTTATCTCCCTGAAGTTGTAGTGG
1 AGCAGATTGAAGCTACTAGTCTTATCTCCCTGAAGTTGCAGTGG
* *
45380560 AGCAGATTGAAGCTACTAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTGAAGCTACTAGTCTTATCTCCCTGAAGTTGCAGTGG
45380604 AGCAGATT
1 AGCAGATT
45380612 AAAATGATGA
Statistics
Matches: 82, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 82 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (44 bp):
AGCAGATTGAAGCTACTAGTCTTATCTCCCTGAAGTTGCAGTGG
Found at i:45380917 original size:44 final size:44
Alignment explanation
Indices: 45380869--45381154 Score: 255
Period size: 44 Copynumber: 6.6 Consensus size: 44
45380859 CATCCAGTTT
* *
45380869 TATCTCCCTGAAGTTGTAGTGCAGCAGACAGAAGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* ** *
45380913 TATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AAACACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCC
* * * * * *
45380957 TATCTCTCTGAAGTTGCAGT--AG-AG-CAGATCGCATCCAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCC
*
45380998 TATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* * ** * *
45381042 TATCTCCCTGAAGTTGCAGTAGAGCGGA-TTAA-AACCACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CAA-TCC
* * * *
45381086 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAATAAGCCAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
*
45381130 TATCTCCCTGAAGTTGCAGTAGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
45381155 GGATTAAAAT
Statistics
Matches: 194, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
41 24 0.12
42 11 0.06
43 13 0.07
44 133 0.69
45 10 0.05
46 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
Found at i:45380971 original size:129 final size:129
Alignment explanation
Indices: 45380738--45381101 Score: 489
Period size: 129 Copynumber: 2.8 Consensus size: 129
45380728 CATGTCAAAC
* *** * * * * *
45380738 CTTATCTCCCTGAAGCTGTAGTGGAGCAGGTTGCAGCAA-CAAGTCTTATCTCCTTCAAGTTGCA
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCAA-TCCTATCTCCCTGAAGTTGCA
* * * *
45380802 GTAGAACGAATTAAAAACACAGATCTTGTCTCTCTTAAGTTAAAGTAGAACAGATCGCATCCAGT
65 GTAGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTAAAGTAGAACAGATCGCATCCAGT
* *
45380867 TTTATCTCCCTGAAGTTGTAGTGCAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
* ** *
45380932 TGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGT
66 TAGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTAAAGTAGAACAGATCGCATCCAGT
* *
45380996 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
* *
45381061 TAGAGCGGATTAAAACCACA-AGTCTTATCTCCCTGAAGTTA
66 TAGAGCGGATTAAAAACACAGA-TCTTATCTCTCTGAAGTTA
45381102 CAGTGGAGCA
Statistics
Matches: 206, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
128 1 0.00
129 202 0.98
130 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (129 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAG
TAGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTAAAGTAGAACAGATCGCATCCAGT
Found at i:45381106 original size:88 final size:87
Alignment explanation
Indices: 45380913--45381201 Score: 325
Period size: 88 Copynumber: 3.3 Consensus size: 87
45380903 AAACCAATCC
* * ** * *
45380913 TATCTCCCTGAAGTTGCAGTGGAGCGGA-TTAA-AAACACAGATCTTATCTCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAAC-CA-ATCCTATCTCCCTGAAGTTGCAG
* *** *
45380976 TAGAGCAGATCGCATCC--AGTCT
64 TAGAGCGGATTAAAACCAAAGTCT
* *
45380998 TATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTA
45381063 GAGCGGATTAAAACCACAAGTCT
66 GAGCGGATTAAAACCA-AAGTCT
* * *
45381086 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAATAAGCCAATCCTATCTCCCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTA
** *
45381151 GAGCGGATTAAAATGATAGATCT
66 GAGCGGATTAAAACCAAAG-TCT
* *
45381174 TATCTCTCTGAAGTTACAGTAGAGCAGA
1 TATCTCCCTGAAGTTACAGTGGAGCAGA
45381202 TCACATCAGA
Statistics
Matches: 177, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
85 59 0.33
86 4 0.02
87 6 0.03
88 108 0.61
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTA
GAGCGGATTAAAACCAAAGTCT
Found at i:45381111 original size:129 final size:129
Alignment explanation
Indices: 45380784--45381149 Score: 493
Period size: 129 Copynumber: 2.8 Consensus size: 129
45380774 CAACAAGTCT
* * * * * * *
45380784 TATCTCCTTCAAGTTGCAGTAGAACGAATTAAAAACACAGATCTTGTCTCTCTTAAGTTAAAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTA
* * *
45380849 GAACAGATCGCATCCAGTTTTATCTCCCTGAAGTTGTAGTGCAGCAGACAGAAGAAACCAATCC
66 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACAGAAGAAACCAATCC
* *
45380913 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTA
* *
45380978 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCC
66 GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACAGAAGAAACCAATCC
* *
45381042 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACA-AGTCTTATCTCCCTGAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAACACAGA-TCTTATCTCTCTGAAGTTACAGT
* * * *
45381106 GGAGCAGA-CTGAATAAGCCAATCCTATCTCCCTGAAGTTGCAGT
65 AGAGCAGATC-GCAT---CCAGTCTTATCTCCCTGAAGTTGCAGT
45381150 AGAGCGGATT
Statistics
Matches: 210, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
128 2 0.01
129 183 0.87
132 25 0.12
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (129 bp):
TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTA
GAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACAGAAGAAACCAATCC
Found at i:45381178 original size:44 final size:43
Alignment explanation
Indices: 45380913--45381202 Score: 232
Period size: 44 Copynumber: 6.7 Consensus size: 43
45380903 AAACCAATCC
* * *
45380913 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAACACAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATT-AAAAGACAGATCT
* *** **
45380957 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATCCAG-TCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAGACAGATCT
* * * * *
45380998 TATCTCCCTGAAGTTGCAGTGGAGTAGA-CAGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTA-AA-AGA-CAGATCT
* *
45381042 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCACA-AGTCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAA-GACAGA-TCT
* * * * *
45381086 TATCTCCCTGAAGTTACAGTGGAGCAGACTGAATAAGCCA-ATCC
1 TATCTCCCTGAAGTTGCAGTAGAGCAGA-TTAA-AAGACAGATCT
* *
45381130 TATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATGATAGATCT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAA-GACAGATCT
* *
45381174 TATCTCTCTGAAGTTACAGTAGAGCAGAT
1 TATCTCCCTGAAGTTGCAGTAGAGCAGAT
45381203 CACATCAGAC
Statistics
Matches: 194, Mismatches: 41, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
41 28 0.14
42 6 0.03
43 11 0.06
44 140 0.72
45 7 0.04
46 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAAGACAGATCT
Found at i:45383189 original size:3 final size:3
Alignment explanation
Indices: 45382988--45383173 Score: 62
Period size: 3 Copynumber: 62.3 Consensus size: 3
45382978 ACTTTATTCC
* ** *
45382988 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT T-T CGT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * * *
45383035 TAA TGT TAT TAC TAT TACT T-T TTT TGT TTT TAT T-T TAC TAC CAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
45383079 TAT TAT TAC TAT TAT TAC TCT TATT TATT TATT TAC TAC TAT TAT TCGT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TA-T TAT TAT TAT TAT T-AT
* * * *
45383128 T-T AAT AAT GTAT TAT TAT T-T T-T TAT TAT TAT CAT T-G TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45383170 TAT T
1 TAT T
45383174 TCTATCATCT
Statistics
Matches: 138, Mismatches: 35, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
2 11 0.08
3 110 0.80
4 17 0.12
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:45386468 original size:50 final size:50
Alignment explanation
Indices: 45386352--45386644 Score: 460
Period size: 50 Copynumber: 5.8 Consensus size: 50
45386342 GATCATAAAA
* ** *
45386352 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTACTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* * **
45386403 TGCCCATTCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45386453 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
45386503 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
45386553 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
45386603 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
45386645 TTACCCAAAT
Statistics
Matches: 221, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
50 188 0.85
51 33 0.15
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:45388258 original size:20 final size:18
Alignment explanation
Indices: 45388233--45388271 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 18
45388223 AACAAATAAT
45388233 TAAATAAATATCAAATAAAA
1 TAAATAAATA--AAATAAAA
45388253 TAAATAAATAAAATAAAA
1 TAAATAAATAAAATAAAA
45388271 T
1 T
45388272 TAGTAACCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAATAAATAAAATAAAA
Found at i:45388263 original size:13 final size:13
Alignment explanation
Indices: 45388245--45388269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45388235 AATAAATATC
45388245 AAATAAAATAAAT
1 AAATAAAATAAAT
45388258 AAATAAAATAAA
1 AAATAAAATAAA
45388270 ATTAGTAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:45398504 original size:24 final size:24
Alignment explanation
Indices: 45398472--45398529 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
45398462 CGGATCGCCC
45398472 CCACTGTAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* * *
45398496 CCACTGTAATCTTCAAGGTTTAGT
1 CCACTGTAATCTTCAAAGTTCAAT
*
45398520 TCACTGTAAT
1 CCACTGTAAT
45398530 TTTGGGACAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:45399490 original size:6 final size:6
Alignment explanation
Indices: 45399467--45399528 Score: 58
Period size: 6 Copynumber: 10.5 Consensus size: 6
45399457 TCTCCTTTCA
* * *
45399467 TTTCTT TTT-TT CTTCTT TTTCTTT TTTCTT TATC-T TTTCTT CTTCTT
1 TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT
45399514 CTTTCTT TTT-TT TTT
1 -TTTCTT TTTCTT TTT
45399529 GAAATATTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
5 13 0.28
6 22 0.48
7 11 0.24
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:45399528 original size:24 final size:24
Alignment explanation
Indices: 45399467--45399528 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
45399457 TCTCCTTTCA
* * *
45399467 TTTCTTTTTTTCTTCTTTTTCTTT
1 TTTCTTTTTTTTTTCTTCTTCTTC
* *
45399491 TTTCTTTATCTTTTCTTCTTCTTC
1 TTTCTTTTTTTTTTCTTCTTCTTC
45399515 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
45399529 GAAATATTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTCTTTTTTTTTTCTTCTTCTTC
Found at i:45404699 original size:13 final size:13
Alignment explanation
Indices: 45404681--45404705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45404671 AACGAATATC
45404681 AAATAAAATAAAT
1 AAATAAAATAAAT
45404694 AAATAAAATAAA
1 AAATAAAATAAA
45404706 ATTAGTAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:45406944 original size:2 final size:2
Alignment explanation
Indices: 45406937--45406975 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
45406927 AACGACTTCT
45406937 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
45406976 TTCTTATGTT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:45407638 original size:22 final size:20
Alignment explanation
Indices: 45407595--45407633 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
45407585 CAATTTAAAA
45407595 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
45407615 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
45407634 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:45407758 original size:20 final size:20
Alignment explanation
Indices: 45407733--45407770 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
45407723 ATATTTTCAA
45407733 TAAATCATTTTCCAGAAAAG
1 TAAATCATTTTCCAGAAAAG
45407753 TAAATCATTTTCCAGAAA
1 TAAATCATTTTCCAGAAA
45407771 TCATTTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (20 bp):
TAAATCATTTTCCAGAAAAG
Found at i:45408813 original size:17 final size:17
Alignment explanation
Indices: 45408791--45408824 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
45408781 AACGCTTAAG
45408791 TTCAAATTCTATTCCAT
1 TTCAAATTCTATTCCAT
45408808 TTCAAATTCTATTCCAT
1 TTCAAATTCTATTCCAT
45408825 CCATTATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (17 bp):
TTCAAATTCTATTCCAT
Found at i:45410111 original size:15 final size:16
Alignment explanation
Indices: 45410091--45410120 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
45410081 GAGAGAAGAA
45410091 AAAAAGAAA-TGAAAG
1 AAAAAGAAATTGAAAG
45410106 AAAAAGAAATTGAAA
1 AAAAAGAAATTGAAA
45410121 AAGAAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (16 bp):
AAAAAGAAATTGAAAG
Found at i:45413922 original size:74 final size:74
Alignment explanation
Indices: 45413801--45413943 Score: 232
Period size: 74 Copynumber: 1.9 Consensus size: 74
45413791 TTGCTTGGCT
* * *
45413801 GTGTGTCACAAGTTAGTATACCCACAAGGGCATGGAAACGGGCTAGAACATGACCGTGTGTCCTT
1 GTGTGTCACAAGTCAGTATACCCACAAGGGCATGGAAACGGGCTAGAACACGACCGTGTGTCCCT
45413866 ATTTTGAAC
66 ATTTTGAAC
* * *
45413875 GTGTGTCACAAGTCAGTATACCCACACGGGTATGGACACGGGCTAGAACACGACCGTGTGTCCCT
1 GTGTGTCACAAGTCAGTATACCCACAAGGGCATGGAAACGGGCTAGAACACGACCGTGTGTCCCT
45413940 ATTT
66 ATTT
45413944 CGAATGTCCA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (74 bp):
GTGTGTCACAAGTCAGTATACCCACAAGGGCATGGAAACGGGCTAGAACACGACCGTGTGTCCCT
ATTTTGAAC
Found at i:45423244 original size:16 final size:16
Alignment explanation
Indices: 45423222--45423259 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
45423212 TTAAGTAAGC
45423222 AAGTAAGTAAACAAGA
1 AAGTAAGTAAACAAGA
* *
45423238 GAGTAAGTAAAGAAGA
1 AAGTAAGTAAACAAGA
45423254 AAGTAA
1 AAGTAA
45423260 ATATCATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.24, T:0.13
Consensus pattern (16 bp):
AAGTAAGTAAACAAGA
Found at i:45423452 original size:20 final size:20
Alignment explanation
Indices: 45423429--45423467 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45423419 AACTTATAAG
*
45423429 TTATGCATTGTGTGATATGT
1 TTATGCATTGTGTAATATGT
**
45423449 TTATGTTTTGTGTAATATG
1 TTATGCATTGTGTAATATG
45423468 CATAGGAACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.23, T:0.54
Consensus pattern (20 bp):
TTATGCATTGTGTAATATGT
Found at i:45424715 original size:47 final size:47
Alignment explanation
Indices: 45424673--45424861 Score: 195
Period size: 47 Copynumber: 4.0 Consensus size: 47
45424663 CATGGCAACA
*
45424673 TGTGATATGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCGG
1 TGTGATATGTGA-TTCCGTGTAAGACCATATCTGGGATATGGCATCGG
* * * * *
45424721 TGTGATATGTGCTACTGTGTAAGACCATATTTGGGATATGGCATCTG
1 TGTGATATGTGATTCCGTGTAAGACCATATCTGGGATATGGCATCGG
* * * *
45424768 TGTGATATGCGA-TCCGTGTAAGACCATAGCTGGGCTATGGCATCAG
1 TGTGATATGTGATTCCGTGTAAGACCATATCTGGGATATGGCATCGG
* * *
45424814 TATGTATTATGTAATTACGTGTAAGACCATAGT-T-GGACTATGGCATCG
1 TGTG-A-TATGTGATTCCGTGTAAGACCATA-TCTGGGA-TATGGCATCG
45424862 AGAAAACGAA
Statistics
Matches: 115, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
46 31 0.27
47 41 0.36
48 18 0.16
49 25 0.22
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (47 bp):
TGTGATATGTGATTCCGTGTAAGACCATATCTGGGATATGGCATCGG
Found at i:45424794 original size:93 final size:96
Alignment explanation
Indices: 45424647--45424860 Score: 242
Period size: 95 Copynumber: 2.3 Consensus size: 96
45424637 ATTGGCTGAA
* * * * * *
45424647 AAGACCATGGTTGGACCATGGCAAC-ATGTGATATGTGATTTCCGTATAAGACCATATCTGGGAT
1 AAGACCATAGTTGGACTATGGCATCTGTGTGATATGCGA-TTCCGTATAAGACCATAGCTGGGAT
* * *
45424711 ATGGCATCGGTGTG-A-TATGT-GCTACTGTGT
65 ATGGCATCAGTATGTATTATGTAACTAC-GTGT
* * *
45424741 AAGACCATATTTGGGA-TATGGCATCTGTGTGATATGCGA-TCCGTGTAAGACCATAGCTGGGCT
1 AAGACCATAGTT-GGACTATGGCATCTGTGTGATATGCGATTCCGTATAAGACCATAGCTGGGAT
*
45424804 ATGGCATCAGTATGTATTATGTAATTACGTGT
65 ATGGCATCAGTATGTATTATGTAACTACGTGT
45424836 AAGACCATAGTTGGACTATGGCATC
1 AAGACCATAGTTGGACTATGGCATC
45424861 GAGAAAACGA
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
93 33 0.33
94 21 0.21
95 43 0.43
96 3 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (96 bp):
AAGACCATAGTTGGACTATGGCATCTGTGTGATATGCGATTCCGTATAAGACCATAGCTGGGATA
TGGCATCAGTATGTATTATGTAACTACGTGT
Found at i:45433975 original size:13 final size:13
Alignment explanation
Indices: 45433957--45433981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45433947 TCAATAGTTT
45433957 AATTAATTAATTA
1 AATTAATTAATTA
45433970 AATTAATTAATT
1 AATTAATTAATT
45433982 TATCCAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:45433990 original size:17 final size:17
Alignment explanation
Indices: 45433955--45433999 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
45433945 TATCAATAGT
* *
45433955 TTAATTAATTAATTAAA
1 TTAATTAATTTATCAAA
*
45433972 TTAATTAATTTATCCAA
1 TTAATTAATTTATCAAA
*
45433989 TTAAATAATTT
1 TTAATTAATTT
45434000 TCTCTACCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATTAATTTATCAAA
Found at i:45435289 original size:24 final size:24
Alignment explanation
Indices: 45435257--45435302 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
45435247 GGCGTACGAT
45435257 TGATGGAAAATAAATATGTTAAAA
1 TGATGGAAAATAAATATGTTAAAA
45435281 TGATGGAAAATAAATATGTTAA
1 TGATGGAAAATAAATATGTTAA
45435303 GTTAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.30
Consensus pattern (24 bp):
TGATGGAAAATAAATATGTTAAAA
Found at i:45436871 original size:15 final size:16
Alignment explanation
Indices: 45436842--45436871 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45436832 CAAACATGCT
45436842 TTAACACATTATCAAA
1 TTAACACATTATCAAA
45436858 TTAACACA-TATCAA
1 TTAACACATTATCAA
45436872 TAGGGCACCA
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:45439189 original size:32 final size:31
Alignment explanation
Indices: 45439126--45439192 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
45439116 ATTTTCACCC
*
45439126 TTTATGTAAATCTATTGAAAATAAATCAAAA
1 TTTATGAAAATCTATTGAAAATAAATCAAAA
* * * *
45439157 TTTATGAAAATTTATTATAAAATTAATTAAAA
1 TTTATGAAAATCTATT-GAAAATAAATCAAAA
45439189 TTTA
1 TTTA
45439193 ATATGTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 14 0.47
32 16 0.53
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (31 bp):
TTTATGAAAATCTATTGAAAATAAATCAAAA
Found at i:45452060 original size:17 final size:15
Alignment explanation
Indices: 45452038--45452071 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
45452028 TAGAGAGGAA
45452038 TTGGTTTTATTTTAATT
1 TTGGTTTT-TTTT-ATT
45452055 TTGGTTTTTTTTATT
1 TTGGTTTTTTTTATT
45452070 TT
1 TT
45452072 AAAGTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 4 0.24
17 8 0.47
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (15 bp):
TTGGTTTTTTTTATT
Found at i:45452934 original size:21 final size:21
Alignment explanation
Indices: 45452895--45452934 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45452885 GTAACTCGGA
* * *
45452895 CACATGAGCGTGTGTCTCTAC
1 CACATGACCGTGCGCCTCTAC
45452916 CACATGACCGTGCGCCTCT
1 CACATGACCGTGCGCCTCT
45452935 TTTACACGGA
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:0.17, C:0.35, G:0.23, T:0.25
Consensus pattern (21 bp):
CACATGACCGTGCGCCTCTAC
Found at i:45453525 original size:37 final size:37
Alignment explanation
Indices: 45453468--45453562 Score: 104
Period size: 37 Copynumber: 2.5 Consensus size: 37
45453458 CTGAAACCCA
* * *
45453468 CTATGTGGTGTG-TAGAGTGGATGGGCCT-ATCATGGTC
1 CTATGTGGTGTGCAAG-GTGGATGGGCCTAAT-ATAGCC
*
45453505 CTATGTGGTGTGCAAGGTGGATGGGCGTAATATAGCC
1 CTATGTGGTGTGCAAGGTGGATGGGCCTAATATAGCC
*
45453542 CATAAGTGGTGTGCAAGGTGG
1 C-TATGTGGTGTGCAAGGTGG
45453563 TCGGAGTGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
37 28 0.56
38 22 0.44
ACGTcount: A:0.20, C:0.13, G:0.39, T:0.28
Consensus pattern (37 bp):
CTATGTGGTGTGCAAGGTGGATGGGCCTAATATAGCC
Found at i:45466640 original size:12 final size:11
Alignment explanation
Indices: 45466597--45466644 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 11
45466587 TTGCCTTTCT
45466597 TTATTTTATT-
1 TTATTTTATTA
45466607 TTA-TTTATTTA
1 TTATTTTA-TTA
*
45466618 GTATTTTATTAA
1 TTATTTTATT-A
45466630 TTATTTTATTA
1 TTATTTTATTA
45466641 TTAT
1 TTAT
45466645 GCTTCATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 4 0.12
10 5 0.16
11 9 0.28
12 14 0.44
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:45468200 original size:15 final size:14
Alignment explanation
Indices: 45468180--45468234 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
45468170 GACCATTAAG
*
45468180 TTTATTTGTTTTCTT
1 TTTATTT-TTTTATT
45468195 TTTATTTTTTTATT
1 TTTATTTTTTTATT
*
45468209 TTAAGTTTATGTTTATT
1 TTTA-TTT-T-TTTATT
45468226 TTTATTTTT
1 TTTATTTTT
45468235 AGTTGTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
14 10 0.29
15 11 0.32
16 4 0.12
17 9 0.26
ACGTcount: A:0.15, C:0.02, G:0.05, T:0.78
Consensus pattern (14 bp):
TTTATTTTTTTATT
Found at i:45468245 original size:22 final size:23
Alignment explanation
Indices: 45468201--45468256 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
45468191 TCTTTTTATT
*
45468201 TTTTTATTTTAAGTTTATGTTTA
1 TTTTTATTTTTAGTTTATGTTTA
45468224 TTTTTATTTTTAGTTGT-T-TTTA
1 TTTTTATTTTTAGTT-TATGTTTA
*
45468246 TTGTTATTTTT
1 TTTTTATTTTT
45468257 GTAGACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 14 0.47
23 15 0.50
24 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.75
Consensus pattern (23 bp):
TTTTTATTTTTAGTTTATGTTTA
Found at i:45482624 original size:2 final size:2
Alignment explanation
Indices: 45482619--45482647 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
45482609 ACTTAAAACC
45482619 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45482648 TCACTAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:45492962 original size:6 final size:6
Alignment explanation
Indices: 45492916--45492968 Score: 63
Period size: 6 Copynumber: 8.8 Consensus size: 6
45492906 AGGGATGATG
* * *
45492916 GGGA-T GGGGTT GGGGTT GGGGTT GGGATT GGGATT GGGATT GGGATT
1 GGGATT GGGATT GGGATT GGGATT GGGATT GGGATT GGGATT GGGATT
45492963 GAGGAT
1 G-GGAT
45492969 GGCAGAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 3 0.07
6 37 0.84
7 4 0.09
ACGTcount: A:0.13, C:0.00, G:0.57, T:0.30
Consensus pattern (6 bp):
GGGATT
Found at i:45496543 original size:45 final size:45
Alignment explanation
Indices: 45496474--45496563 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
45496464 AAAAATTTTC
*
45496474 AACGCATTGTGTTGTGCTTAAATCCAAAGGAAGCCTAAGTAATAA
1 AACGCATTGTGATGTGCTTAAATCCAAAGGAAGCCTAAGTAATAA
* *
45496519 AACGCATTGTGATGTGTTTGAATCCAAAGGAAGCCTAAGTAATAA
1 AACGCATTGTGATGTGCTTAAATCCAAAGGAAGCCTAAGTAATAA
45496564 CTATCTTCCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (45 bp):
AACGCATTGTGATGTGCTTAAATCCAAAGGAAGCCTAAGTAATAA
Found at i:45499655 original size:14 final size:14
Alignment explanation
Indices: 45499636--45499664 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45499626 GAATGAAAAA
45499636 ACAAATTCCATAAC
1 ACAAATTCCATAAC
45499650 ACAAATTCCATAAC
1 ACAAATTCCATAAC
45499664 A
1 A
45499665 GTTATGCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (14 bp):
ACAAATTCCATAAC
Found at i:45503501 original size:13 final size:13
Alignment explanation
Indices: 45503485--45503549 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
45503475 ATTTGATTTG
45503485 ATTTAATGATAAT
1 ATTTAATGATAAT
*
45503498 ATTT-A-GA-ATT
1 ATTTAATGATAAT
*
45503508 ATTTAGTGATAAT
1 ATTTAATGATAAT
45503521 ATTTAA-GAT--T
1 ATTTAATGATAAT
45503531 ATTTAATGATAAT
1 ATTTAATGATAAT
45503544 ATTTAA
1 ATTTAA
45503550 GAAAAATCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 6 0.14
13 18 0.43
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (13 bp):
ATTTAATGATAAT
Found at i:45503511 original size:23 final size:23
Alignment explanation
Indices: 45503485--45503551 Score: 109
Period size: 23 Copynumber: 2.9 Consensus size: 23
45503475 ATTTGATTTG
45503485 ATTTAATGATAATATTT-AGAATT
1 ATTTAATGATAATATTTAAG-ATT
*
45503508 ATTTAGTGATAATATTTAAGATT
1 ATTTAATGATAATATTTAAGATT
45503531 ATTTAATGATAATATTTAAGA
1 ATTTAATGATAATATTTAAGA
45503552 AAAATCTAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 39 0.95
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.46
Consensus pattern (23 bp):
ATTTAATGATAATATTTAAGATT
Found at i:45503688 original size:13 final size:13
Alignment explanation
Indices: 45503672--45503736 Score: 70
Period size: 13 Copynumber: 5.5 Consensus size: 13
45503662 ATTTGATTTG
45503672 ATTTAATGATAAT
1 ATTTAATGATAAT
*
45503685 ATTT-A-GA-ATT
1 ATTTAATGATAAT
*
45503695 ATTTAGTGATAAT
1 ATTTAATGATAAT
45503708 ATTTAA-GAT--T
1 ATTTAATGATAAT
45503718 ATTTAATGATAAT
1 ATTTAATGATAAT
45503731 ATTTAA
1 ATTTAA
45503737 GAAAAATCTA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
10 13 0.31
11 5 0.12
12 6 0.14
13 18 0.43
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (13 bp):
ATTTAATGATAAT
Found at i:45503698 original size:23 final size:23
Alignment explanation
Indices: 45503672--45503738 Score: 109
Period size: 23 Copynumber: 2.9 Consensus size: 23
45503662 ATTTGATTTG
45503672 ATTTAATGATAATATTT-AGAATT
1 ATTTAATGATAATATTTAAG-ATT
*
45503695 ATTTAGTGATAATATTTAAGATT
1 ATTTAATGATAATATTTAAGATT
45503718 ATTTAATGATAATATTTAAGA
1 ATTTAATGATAATATTTAAGA
45503739 AAAATCTAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 39 0.95
24 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.46
Consensus pattern (23 bp):
ATTTAATGATAATATTTAAGATT
Found at i:45503720 original size:187 final size:187
Alignment explanation
Indices: 45503405--45503779 Score: 750
Period size: 187 Copynumber: 2.0 Consensus size: 187
45503395 TTAAATATAA
45503405 AATATTTTTATATCATAAAAACTAAAAACTAATTATATATTAAATAAAAAATGAAATTTGATTCA
1 AATATTTTTATATCATAAAAACTAAAAACTAATTATATATTAAATAAAAAATGAAATTTGATTCA
45503470 GTTTGATTTGATTTGATTTAATGATAATATTTAGAATTATTTAGTGATAATATTTAAGATTATTT
66 GTTTGATTTGATTTGATTTAATGATAATATTTAGAATTATTTAGTGATAATATTTAAGATTATTT
45503535 AATGATAATATTTAAGAAAAATCTAGCTAAATTTTAACACTAAAAATGTATATAAAT
131 AATGATAATATTTAAGAAAAATCTAGCTAAATTTTAACACTAAAAATGTATATAAAT
45503592 AATATTTTTATATCATAAAAACTAAAAACTAATTATATATTAAATAAAAAATGAAATTTGATTCA
1 AATATTTTTATATCATAAAAACTAAAAACTAATTATATATTAAATAAAAAATGAAATTTGATTCA
45503657 GTTTGATTTGATTTGATTTAATGATAATATTTAGAATTATTTAGTGATAATATTTAAGATTATTT
66 GTTTGATTTGATTTGATTTAATGATAATATTTAGAATTATTTAGTGATAATATTTAAGATTATTT
45503722 AATGATAATATTTAAGAAAAATCTAGCTAAATTTTAACACTAAAAATGTATATAAAT
131 AATGATAATATTTAAGAAAAATCTAGCTAAATTTTAACACTAAAAATGTATATAAAT
45503779 A
1 A
45503780 GCTAATGGCT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
187 188 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (187 bp):
AATATTTTTATATCATAAAAACTAAAAACTAATTATATATTAAATAAAAAATGAAATTTGATTCA
GTTTGATTTGATTTGATTTAATGATAATATTTAGAATTATTTAGTGATAATATTTAAGATTATTT
AATGATAATATTTAAGAAAAATCTAGCTAAATTTTAACACTAAAAATGTATATAAAT
Found at i:45507456 original size:18 final size:20
Alignment explanation
Indices: 45507421--45507457 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
45507411 GGATGCATAG
45507421 GAGTAAGGTTGCAACTTAGT
1 GAGTAAGGTTGCAACTTAGT
45507441 GAGT-AGGTTG-AACTTAG
1 GAGTAAGGTTGCAACTTAG
45507458 ATTACAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (20 bp):
GAGTAAGGTTGCAACTTAGT
Found at i:45507686 original size:31 final size:31
Alignment explanation
Indices: 45507624--45507687 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
45507614 GACATGTCAG
* **
45507624 TTGTAATATTTGTAAGTGTACAATGGGACAC
1 TTGTAATATTTGTAAATGTACAATGAAACAC
*
45507655 TTGTAATATTTGTAAATGTACAGTGAAACAC
1 TTGTAATATTTGTAAATGTACAATGAAACAC
45507686 TT
1 TT
45507688 AGAGCAGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (31 bp):
TTGTAATATTTGTAAATGTACAATGAAACAC
Found at i:45512912 original size:90 final size:92
Alignment explanation
Indices: 45512732--45512946 Score: 292
Period size: 90 Copynumber: 2.4 Consensus size: 92
45512722 TAATGTGGAG
* * * *
45512732 CATGCACCCGATTGTGCATGAAT-TTCGGGAGCTATTTTTCAGTTGGACATTCATGTATCTTTCA
1 CATGCACCCAATTGTGCATGAATGTT-GGGAGCTATTTTTCAGCTGGACATACATGTATCTTCCA
* *
45512796 GATTCAATGAAGCTACTTTAATGAAGAA
65 GATTCAACGAAGCTACTTTAAAGAAGAA
* * *
45512824 CATGCATCTAATTGTGCATGAATGTTGGGAGCTGTTTTT-AGCTGGACATAC-TGTATCTTCCAG
1 CATGCACCCAATTGTGCATGAATGTTGGGAGCTATTTTTCAGCTGGACATACATGTATCTTCCAG
45512887 ATTCAACGAAGCTACTTTAAAGAAGAA
66 ATTCAACGAAGCTACTTTAAAGAAGAA
* * *
45512914 CATGCACCCGATTGTGCATGTATGTTGAGAGCT
1 CATGCACCCAATTGTGCATGAATGTTGGGAGCT
45512947 TGTTGGTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
90 64 0.59
91 10 0.09
92 32 0.30
93 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (92 bp):
CATGCACCCAATTGTGCATGAATGTTGGGAGCTATTTTTCAGCTGGACATACATGTATCTTCCAG
ATTCAACGAAGCTACTTTAAAGAAGAA
Found at i:45517846 original size:19 final size:20
Alignment explanation
Indices: 45517812--45517856 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
45517802 TGAAAGATTG
* **
45517812 AATATCTAAGAATAAAGGAA
1 AATATTTAAGAATAAAACAA
45517832 AATATTTAA-AATAAAACAA
1 AATATTTAAGAATAAAACAA
45517851 AATATT
1 AATATT
45517857 ACAACAGGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (20 bp):
AATATTTAAGAATAAAACAA
Found at i:45521303 original size:20 final size:19
Alignment explanation
Indices: 45521278--45521333 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 19
45521268 CGTCCTTGGT
45521278 TCAGCTCACTTGAGCTCAAG
1 TCAGCTCA-TTGAGCTCAAG
*
45521298 TCAGCTCATTCGAGCTCAAT
1 TCAGCTCATT-GAGCTCAAG
45521318 TCAGCTCATTGAGCTC
1 TCAGCTCATTGAGCTC
45521334 GTTATTAGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 8 0.24
20 26 0.76
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (19 bp):
TCAGCTCATTGAGCTCAAG
Found at i:45528814 original size:40 final size:40
Alignment explanation
Indices: 45528582--45528807 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
45528572 TTGAATGATG
* * * *
45528582 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45528622 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45528662 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45528702 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45528742 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
45528783 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45528808 AACGAGTAGC
Statistics
Matches: 170, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45541116 original size:79 final size:80
Alignment explanation
Indices: 45540940--45541171 Score: 276
Period size: 79 Copynumber: 2.9 Consensus size: 80
45540930 TTGAATGATG
* * * *
45540940 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGACTAAG-TCCCGAAGGCAT
45541003 TTGTACGAGTTACTAAA
64 TTGTACGAGTTACTAAA
* * **
45541020 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCAGTTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATT
*
45541084 T-TGCGAGTTACTAAA
65 TGTACGAGTTACTAAA
* * *
45541099 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGTCCCGAAGGCATT
*
45541163 TGAACGAGT
65 TGTACGAGT
45541172 AGCTATATCC
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 68 0.53
80 51 0.40
81 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGTCCCGAAGGCATTT
GTACGAGTTACTAAA
Found at i:45541144 original size:40 final size:40
Alignment explanation
Indices: 45540940--45541164 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
45540930 TTGAATGATG
* * * *
45540940 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
45540980 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45541020 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* **
45541060 TCCAGTTTAAGTCCCGAAGGCATTT-TGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45541099 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45541140 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45541165 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 38 0.23
40 118 0.71
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45541186 original size:79 final size:78
Alignment explanation
Indices: 45540947--45541197 Score: 253
Period size: 79 Copynumber: 3.2 Consensus size: 78
45540937 ATGTCCGGGC
* * * *
45540947 TAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTACG
1 TAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGACTAAG-TCCCGAAGGCATTTG-ACG
*
45541010 AGTTACTAAATCCGGAC
63 AGTTACTAAATCCGG-T
* **
45541027 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCCAGTTTAAGTCCCGAAGGCATTTTG-CG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGACTAAGTCCCGAAGGCA-TTTGACG
45541089 AGTTACTAAATCCGGGT
63 AGTTACTAAATCC-GGT
* *
45541106 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGTCCCGAAGGCATTTG-ACGAG
*
45541171 -TAGCTATATCCGGT
65 TTA-CTAAATCCGGT
* *
45541185 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
45541198 TATGTGATTT
Statistics
Matches: 145, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
78 5 0.03
79 79 0.54
80 48 0.33
81 13 0.09
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGACTAAGTCCCGAAGGCATTTGACGAGT
TACTAAATCCGGT
Found at i:45549156 original size:120 final size:120
Alignment explanation
Indices: 45548924--45549182 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 120
45548914 TTGAATGATG
* *
45548924 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
45548989 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * **
45549044 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
45549107 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
45549164 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
45549183 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
119 18 0.15
120 92 0.77
121 9 0.08
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:45549163 original size:40 final size:40
Alignment explanation
Indices: 45548924--45549149 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
45548914 TTGAATGATG
* * * *
45548924 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
45548964 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45549004 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45549044 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
45549084 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
45549125 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45549150 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 161 0.94
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:45560332 original size:50 final size:50
Alignment explanation
Indices: 45560210--45560389 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 50
45560200 GATAATAACA
* * * *
45560210 TGCCAAGGCCATGTCCCAAACATGATCTTACATGGGATGTT-TCCTATAC--
1 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGA-GTTCTCATAT-CGG
*
45560259 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGAGTTCTCATATCGG
* * * * * ** ** *
45560309 TGCCCATGCCATGTCCCAGATATGGTCCTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAAACATGGTCTTACATGGGAGTTCTCATATCGG
* *
45560359 TGCCAACGCCATATCCCAGACATGGTCTTAC
1 TGCCAATGCCATATCCCAAACATGGTCTTAC
45560390 GTGAGACCTC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 4 0.04
49 38 0.35
50 67 0.61
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAAACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:45560398 original size:50 final size:50
Alignment explanation
Indices: 45560259--45560404 Score: 184
Period size: 50 Copynumber: 2.9 Consensus size: 50
45560249 TTTCCTATAC
* * **
45560259 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGACCTCTCATATCGG
* * * * *
45560309 TGCCCATGCCATGTCCCAGATATGGTCCTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGACCTCTCATATCGG
* * *
45560359 TGCCAACGCCATATCCCAGACATGGTCTTACGTGAGACCTCTCATA
1 TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGACCTCTCATA
45560405 ACCTTAATAA
Statistics
Matches: 79, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGATATGGTCTTACGTGGGACCTCTCATATCGG
Found at i:45562578 original size:33 final size:33
Alignment explanation
Indices: 45562536--45562658 Score: 124
Period size: 33 Copynumber: 3.7 Consensus size: 33
45562526 ACGTTCATAG
*
45562536 TGCCGTAGCCCAGCTATGGTCTTATCATTAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATTAGAA
*
45562569 TGCCATAGCCCAGCTATGGTCTTAT-A-TAAACA
1 TGCCATAGCCCAGCTATGGTCTTATCATTAGA-A
* * * * *
45562601 CTGCCATGGTCCAACCATGGTCTTATCATCAGAA
1 -TGCCATAGCCCAGCTATGGTCTTATCATTAGAA
** *
45562635 TGATATAGCCCAGCTATGGCCTTA
1 TGCCATAGCCCAGCTATGGTCTTA
45562659 CATATATACG
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
31 3 0.04
32 2 0.03
33 62 0.87
34 2 0.03
35 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTATCATTAGAA
Found at i:45562625 original size:66 final size:67
Alignment explanation
Indices: 45562551--45562693 Score: 207
Period size: 66 Copynumber: 2.1 Consensus size: 67
45562541 TAGCCCAGCT
* * * *
45562551 ATGGTCTTATCATTAGAATGCCATAGCCCAGCTATGGTCTT-ATATAAACACTGCCATGGTCCAA
1 ATGGTCTTATCATCAGAATGACATAGCCCAGCTATGGCCTTAATATAAACACTACCATGGTCCAA
45562615 CC
66 CC
* * *
45562617 ATGGTCTTATCATCAGAATGATATAGCCCAGCTATGGCCTTACATATATACGCTACCATGGTCCA
1 ATGGTCTTATCATCAGAATGACATAGCCCAGCTATGGCCTTA-ATATAAACACTACCATGGTCCA
45562682 ACC
65 ACC
45562685 ATGGTCTTA
1 ATGGTCTTA
45562694 CGTTTGAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 37 0.54
68 31 0.46
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (67 bp):
ATGGTCTTATCATCAGAATGACATAGCCCAGCTATGGCCTTAATATAAACACTACCATGGTCCAA
CC
Found at i:45566056 original size:76 final size:76
Alignment explanation
Indices: 45565925--45566154 Score: 246
Period size: 76 Copynumber: 3.0 Consensus size: 76
45565915 TAAAAAAGTT
* * * *
45565925 TTACCCCTAGTGCTAGTCGGATAAACCAACGATATCAAATGTGTGCTCAGCACTAGTCT-AATAA
1 TTACGCCTAGCGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGT-TGAATAA
***
45565989 ATTGACAATGAG
65 ACCAACAATGAG
** * * * * **
45566001 TTGTGCCTAGCGTTAGTCGAATAAACTGACGATATCAAATGTGTGCCCAGCACTAGTTGGATGTA
1 TTACGCCTAGCGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGTTGAATAAA
45566066 CCAACAATGAG
66 CCAACAATGAG
* * * * * **
45566077 TTACGCCTAGCGCTATTCGGGTAAACCGACGATATCAAATGTGTGCCTAGCGCTAGTTGGATGTA
1 TTACGCCTAGCGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGTTGAATAAA
45566142 CCAACAATGAG
66 CCAACAATGAG
45566153 TT
1 TT
45566155 GCACCCAACG
Statistics
Matches: 129, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
75 1 0.01
76 128 0.99
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (76 bp):
TTACGCCTAGCGCTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAGCACTAGTTGAATAAA
CCAACAATGAG
Found at i:45571871 original size:39 final size:39
Alignment explanation
Indices: 45571812--45571907 Score: 129
Period size: 39 Copynumber: 2.5 Consensus size: 39
45571802 GAAGTAATGT
*
45571812 GTACTCAAGTGAATTATTACACAAGTAAAACTTTAAATA
1 GTACTCAAATGAATTATTACACAAGTAAAACTTTAAATA
* * *
45571851 GTACTTAAATGAATTTTTACACAAGTAAAAGTTTAAATA
1 GTACTCAAATGAATTATTACACAAGTAAAACTTTAAATA
* * *
45571890 ATGCTGAAATGAATTATT
1 GTACTCAAATGAATTATT
45571908 CTACTATTGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (39 bp):
GTACTCAAATGAATTATTACACAAGTAAAACTTTAAATA
Found at i:45577259 original size:4 final size:4
Alignment explanation
Indices: 45577250--45577276 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
45577240 TGCAAAAATT
45577250 AAAC AAAC AAAC AAAC AAAC AAAC AAA
1 AAAC AAAC AAAC AAAC AAAC AAAC AAA
45577277 TAACAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:45584132 original size:51 final size:50
Alignment explanation
Indices: 45584026--45584172 Score: 215
Period size: 51 Copynumber: 2.9 Consensus size: 50
45584016 CTACATCTTT
* * * *
45584026 TAAATTATGACATGCATTATGTGACTCTCATGTTAGTTAAGTATGCATCA
1 TAAATAATGACATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCATCA
*
45584076 TAAATAATGACATGCATTATGTAACTCTTATGATTAGTTAAGTTTTCATCA
1 TAAATAATGACATGCATTATGTAACTCTTATG-TTAGTTAAGTTTGCATCA
45584127 TAAATAATGACATGCATTATGTAACTC-TACTGTTAGTTAAAGTTTG
1 TAAATAATGACATGCATTATGTAACTCTTA-TGTTAGTT-AAGTTTG
45584173 TATCTTTAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
50 37 0.42
51 51 0.58
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.39
Consensus pattern (50 bp):
TAAATAATGACATGCATTATGTAACTCTTATGTTAGTTAAGTTTGCATCA
Found at i:45585797 original size:28 final size:28
Alignment explanation
Indices: 45585751--45585839 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 28
45585741 CTATTCAGTA
* *
45585751 ACAGT-ACAGTGTAGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
45585778 ACAGTAACAATGTGGGCCTTAGCCTAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
45585806 ACAGTAACAATGCGAGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
45585834 GCAGTA
1 ACAGTA
45585840 TCAGTATAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 5 0.09
28 49 0.91
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:45585976 original size:26 final size:26
Alignment explanation
Indices: 45585947--45586053 Score: 160
Period size: 26 Copynumber: 4.1 Consensus size: 26
45585937 AACACACCAA
*
45585947 TATCGCAGCAAAGCTGCCAGTAAAAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
45585973 TATCACAGCGAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
45585999 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
45586025 TATCGCAACAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
45586051 TAT
1 TAT
45586054 ACTTCCTCCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:45586248 original size:27 final size:27
Alignment explanation
Indices: 45586217--45586518 Score: 314
Period size: 27 Copynumber: 11.3 Consensus size: 27
45586207 GGGTATAATA
**
45586217 GTCATTTTACCCTGTGAGGGTATTTCG
1 GTCATTTTACCCTACGAGGGTATTTCG
*
45586244 ATCA-TTTACCCTACG-GGGATATTTCG
1 GTCATTTTACCCTACGAGGG-TATTTCG
45586270 GTCATTTTA-CCTACGAGGGTATTTCG
1 GTCATTTTACCCTACGAGGGTATTTCG
* * * *
45586296 ATCATTTTATCCTA-TAGGGGTATCTCG
1 GTCATTTTACCCTACGA-GGGTATTTCG
*
45586323 GTCATTTTACCCTA-TAGGGGTATCTT-G
1 GTCATTTTACCCTACGA-GGGTAT-TTCG
* * *
45586350 GTTATTTTATCCTA-TAGGGGTATTTCG
1 GTCATTTTACCCTACGA-GGGTATTTCG
45586377 GTCATTTTACCCTAC-AGGGGTATTTCG
1 GTCATTTTACCCTACGA-GGGTATTTCG
* * * * *
45586404 ATCATTTTACCTTACGGGGGTGTTTCA
1 GTCATTTTACCCTACGAGGGTATTTCG
*
45586431 ATCATTTTACCCTACGAGGGTATTTCG
1 GTCATTTTACCCTACGAGGGTATTTCG
*
45586458 GTCATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTACGAGGGTATTTCG
* *
45586485 ATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTACGAGGGTATTTCG
45586512 GTCATTT
1 GTCATTT
45586519 ATCGACCTCA
Statistics
Matches: 237, Mismatches: 29, Indels: 18
0.83 0.10 0.06
Matches are distributed among these distances:
25 3 0.01
26 43 0.18
27 190 0.80
28 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTACGAGGGTATTTCG
Found at i:45586517 original size:81 final size:80
Alignment explanation
Indices: 45586217--45586518 Score: 346
Period size: 81 Copynumber: 3.8 Consensus size: 80
45586207 GGGTATAATA
**
45586217 GTCATTTTACCCT-GTGAGGGTATTTCGATCA-TTTACCCTACG-GGGATATTTCGGTCATTTTA
1 GTCATTTTACCCTACAG-GGGTATTTCGATCATTTTACCCTACGAGGG-TATTTCGGTCATTTTA
45586279 CCTACGAGGGTATTTCG
64 CCTACGAGGGTATTTCG
* * * * * * *
45586296 ATCATTTTATCCTATAGGGGTATCTCGGTCATTTTACCCTA-TAGGGGTATCTT-GGTTATTTTA
1 GTCATTTTACCCTACAGGGGTATTTCGATCATTTTACCCTACGA-GGGTAT-TTCGGTCATTTTA
*
45586359 TCCTA-TAGGGGTATTTCG
64 -CCTACGA-GGGTATTTCG
* * * **
45586377 GTCATTTTACCCTACAGGGGTATTTCGATCATTTTACCTTACGGGGGTGTTTCAATCATTTTACC
1 GTCATTTTACCCTACAGGGGTATTTCGATCATTTTACCCTACGAGGGTATTTCGGTCATTTTA-C
45586442 CTACGAGGGTATTTCG
65 CTACGAGGGTATTTCG
* *
45586458 GTCATTTTACCCTACGGGGGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTCATTT
1 GTCATTTTACCCTACAGGGGTATTTCGATCATTTTACCCTACGAGGGTATTTCGGTCATTT
45586519 ATCGACCTCA
Statistics
Matches: 183, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
79 23 0.13
80 25 0.14
81 134 0.73
82 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (80 bp):
GTCATTTTACCCTACAGGGGTATTTCGATCATTTTACCCTACGAGGGTATTTCGGTCATTTTACC
TACGAGGGTATTTCG
Found at i:45594198 original size:23 final size:23
Alignment explanation
Indices: 45594163--45594208 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45594153 TATTCATTAG
* *
45594163 AAATAATATACAAATCAATAAAA
1 AAATAATACACAAATCAACAAAA
*
45594186 AAATTATACACAAATCAACAAAA
1 AAATAATACACAAATCAACAAAA
45594209 TAAGAACAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATAATACACAAATCAACAAAA
Found at i:45594455 original size:19 final size:19
Alignment explanation
Indices: 45594431--45594503 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
45594421 AATCATATCT
45594431 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
45594450 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
45594469 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
45594488 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
45594504 CTTGAATATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:45594480 original size:38 final size:39
Alignment explanation
Indices: 45594408--45594503 Score: 140
Period size: 38 Copynumber: 2.4 Consensus size: 39
45594398 AAATTAAATC
*
45594408 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA--TTCTAAGATTGCATATCATA
45594450 TCTAAGATTACATATCATA-TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
*
45594488 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
45594504 CTTGAATATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
38 34 0.65
41 7 0.13
42 11 0.21
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (39 bp):
TCTAAGATTACATATCATATTCTAAGATTGCATATCATA
Found at i:45595271 original size:44 final size:44
Alignment explanation
Indices: 45595223--45595521 Score: 172
Period size: 44 Copynumber: 6.9 Consensus size: 44
45595213 GATCTGTGAT
* *
45595223 TTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* * * * *
45595267 TTTAATCTACTCCACTGTAACTTTAGGGAGATACGA-T-TCGCC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
* * * * *
45595309 ATCTTCAATCTGC-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTT-AC
1 -T-TT-AATCTACTC-CACTGCAACTTCAGGGA-GATAA-GATT-ATTGGC
* * * *
45595357 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGAT-GC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTA-TTGGC
* * * * * **
45595400 ---GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCT-GTGAT
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TATTGGC
* * * * *
45595440 TTTCATCCACTCCACTACGACTTCAGGGAGATAGGATTATTGGC
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
*
45595484 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
45595522 CGCCATCTTC
Statistics
Matches: 190, Mismatches: 46, Indels: 38
0.69 0.17 0.14
Matches are distributed among these distances:
39 1 0.01
40 22 0.12
41 7 0.04
42 3 0.02
43 12 0.06
44 115 0.61
45 26 0.14
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
TTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTATTGGC
Found at i:45595414 original size:217 final size:218
Alignment explanation
Indices: 45595106--45595532 Score: 669
Period size: 217 Copynumber: 2.0 Consensus size: 218
45595096 GAGTCGGCTC
* * *
45595106 CACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTAGGTCTGTTCCACTGCAACTTCAGGGAGAT
1 CACTACAACTTCAGGGAGATAAGACTCGCTTACTTAGGTCTGCTCCACTGCAACTTCAGGGAGAT
* * * * *
45595171 AAGACCCGATGTGATTTGCTCTCTGCAACTTTAGATAGATAAGATCTGTGATTTTAATCCACTCC
66 AAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
* * * *
45595236 ACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGTAACTTTAGGGAGATAC
131 ACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
45595301 GATTCGCCATCTTCAATCTGCCT
196 GATTCGCCATCTTCAATCTGCCT
* *
45595324 CACTACAACTTCA-GGAGGATAAGGCTTGCTTACTTA-GTCTGCTCCACTGCAACTTCAGGGAGA
1 CACTACAACTTCAGGGA-GATAAGACTCGCTTACTTAGGTCTGCTCCACTGCAACTTCAGGGAGA
* *
45595387 TAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTCATCCACTC
65 TAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTC
* *
45595452 CACTACGACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
130 CACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATA
45595517 AGATTCGCCATCTTCA
195 AGATTCGCCATCTTCA
45595533 GTCTTTTAAA
Statistics
Matches: 190, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
217 162 0.85
218 28 0.15
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
CACTACAACTTCAGGGAGATAAGACTCGCTTACTTAGGTCTGCTCCACTGCAACTTCAGGGAGAT
AAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCC
ACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAA
GATTCGCCATCTTCAATCTGCCT
Found at i:45595935 original size:44 final size:43
Alignment explanation
Indices: 45595885--45596048 Score: 186
Period size: 44 Copynumber: 3.7 Consensus size: 43
45595875 ATCTGCTATT
* *
45595885 TTCAACCTACTCCACTGTTTCTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTAC-CAGGGAGATAGGACTT-ACAATC
* *
45595929 TTCAACCTATTCCACTGCTGACCAGGGAAATAGGACTTACAATC
1 TTCAACCTATTCCACTG-TTACCAGGGAGATAGGACTTACAATC
** *
45595973 TTCAACCTATTCCACTGCTGCCCAGGGAGATAGGACTTACAATT
1 TTCAACCTATTCCACTG-TTACCAGGGAGATAGGACTTACAATC
* * *
45596017 TTCAACATATTCCACTACTGACCAGGGAGATA
1 TTCAACCTATTCCACT-GTTACCAGGGAGATA
45596049 AAGCTTTGTG
Statistics
Matches: 107, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
44 103 0.96
45 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
TTCAACCTATTCCACTGTTACCAGGGAGATAGGACTTACAATC
Found at i:45597313 original size:7 final size:6
Alignment explanation
Indices: 45597301--45597352 Score: 61
Period size: 6 Copynumber: 8.3 Consensus size: 6
45597291 CCTTTTCCTC
*
45597301 TTCTTCT TTCTTCT TTCTTT TTCTTT TT-TCTT TTCTTT TTCTTT TCCTTT
1 TTCTT-T TTCTT-T TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTCTTT
45597351 TT
1 TT
45597353 TCCATCATCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
5 1 0.02
6 27 0.66
7 13 0.32
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:45597324 original size:17 final size:18
Alignment explanation
Indices: 45597299--45597344 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
45597289 CTCCTTTTCC
*
45597299 TCTTCTTCTTTCTTC-TT
1 TCTTTTTCTTTCTTCTTT
*
45597316 TCTTTTTCTTTTTTCTTT
1 TCTTTTTCTTTCTTCTTT
45597334 TCTTTTTCTTT
1 TCTTTTTCTTT
45597345 TCCTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTTTTCTTTCTTCTTT
Found at i:45597332 original size:24 final size:24
Alignment explanation
Indices: 45597292--45597354 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
45597282 TTGGCCTCTC
*
45597292 CTTTTCCTCTTCTTC-TTTCTTCTTT
1 CTTTTCCT-TTTTTCTTTTCTT-TTT
*
45597317 CTTTTTCTTTTTTCTTTTCTTTTT
1 CTTTTCCTTTTTTCTTTTCTTTTT
45597341 CTTTTCCTTTTTTC
1 CTTTTCCTTTTTTC
45597355 CATCATCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.62
25 13 0.38
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (24 bp):
CTTTTCCTTTTTTCTTTTCTTTTT
Found at i:45597345 original size:17 final size:17
Alignment explanation
Indices: 45597299--45597351 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
45597289 CTCCTTTTCC
*
45597299 TCTTCTTCTTTCTTC-TT
1 TCTTTTTCTTT-TTCTTT
45597316 TCTTTTTCTTTTTTCTTT
1 TCTTTTTC-TTTTTCTTT
*
45597334 TCTTTTTCTTTTCCTTT
1 TCTTTTTCTTTTTCTTT
45597351 T
1 T
45597352 TTCCATCATC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTTTCTTTTTCTTT
Found at i:45597352 original size:13 final size:12
Alignment explanation
Indices: 45597307--45597354 Score: 62
Period size: 13 Copynumber: 3.9 Consensus size: 12
45597297 CCTCTTCTTC
*
45597307 TTTCTTCTTTCTT
1 TTTCTTTTTTC-T
45597320 TTTCTTTTTTCT
1 TTTCTTTTTTCT
45597332 TTTC-TTTTTCT
1 TTTCTTTTTTCT
45597343 TTTCCTTTTTTC
1 TTT-CTTTTTTC
45597355 CATCATCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 10 0.31
12 6 0.19
13 16 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTTCT
Found at i:45597373 original size:11 final size:11
Alignment explanation
Indices: 45597357--45597390 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
45597347 CTTTTTTCCA
45597357 TCATCATTTTT
1 TCATCATTTTT
45597368 TCATCATTTTT
1 TCATCATTTTT
45597379 TCATCATTTTT
1 TCATCATTTTT
45597390 T
1 T
45597391 TTGAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (11 bp):
TCATCATTTTT
Found at i:45599529 original size:21 final size:21
Alignment explanation
Indices: 45599503--45599542 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
45599493 ATCGCCTTAA
45599503 ACTTTTCTTCGAGCCATTTAT
1 ACTTTTCTTCGAGCCATTTAT
45599524 ACTTTTCTTCGAGCCATTT
1 ACTTTTCTTCGAGCCATTT
45599543 TGGCAATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.10, T:0.47
Consensus pattern (21 bp):
ACTTTTCTTCGAGCCATTTAT
Found at i:45602624 original size:19 final size:19
Alignment explanation
Indices: 45602600--45602691 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
45602590 AATCATATCT
45602600 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
45602619 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
45602638 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
45602657 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
45602676 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
45602692 CTTGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:45602649 original size:38 final size:38
Alignment explanation
Indices: 45602577--45602691 Score: 185
Period size: 38 Copynumber: 2.9 Consensus size: 38
45602567 AAATTAAATC
*
45602577 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
45602619 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
45602657 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
45602692 CTTGAAGATT
Statistics
Matches: 72, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
38 54 0.75
41 7 0.10
42 11 0.15
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:45603504 original size:17 final size:18
Alignment explanation
Indices: 45603466--45603505 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45603456 AATTAATTGA
* *
45603466 TAAATTTATTTATTTAAT
1 TAAATTTATTGATTTAAC
45603484 TAAATTTATTGA-TTAAC
1 TAAATTTATTGATTTAAC
45603501 TAAAT
1 TAAAT
45603506 AATTTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TAAATTTATTGATTTAAC
Found at i:45605700 original size:57 final size:57
Alignment explanation
Indices: 45605638--45605751 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
45605628 AAACACCAGA
*
45605638 AAAAAGACAACCTTTGTAGCAAAACTCTAGAAAGGCAAGCCTTTGTGGCCAACCTGT
1 AAAAAGACAACCTTTGTAGCAAAAATCTAGAAAGGCAAGCCTTTGTGGCCAACCTGT
* * * *
45605695 AAAAAGACAGCCTTTGTGGCAAAAATTTAGAAAGGCAAGCCTTTGTGGCGAACCTGT
1 AAAAAGACAACCTTTGTAGCAAAAATCTAGAAAGGCAAGCCTTTGTGGCCAACCTGT
45605752 GGCAAAACTC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (57 bp):
AAAAAGACAACCTTTGTAGCAAAAATCTAGAAAGGCAAGCCTTTGTGGCCAACCTGT
Found at i:45605712 original size:28 final size:29
Alignment explanation
Indices: 45605638--45605743 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
45605628 AAACACCAGA
* *
45605638 AAAAAGACAA-CCTTTGTAGCAAAACTCT
1 AAAAAGACAAGCCTTTGTGGCAAAACTGT
* * * *
45605666 AGAAAGGCAAGCCTTTGTGGCCAACCTGT
1 AAAAAGACAAGCCTTTGTGGCAAAACTGT
* *
45605695 AAAAAGAC-AGCCTTTGTGGCAAAAATTT
1 AAAAAGACAAGCCTTTGTGGCAAAACTGT
* *
45605723 AGAAAGGCAAGCCTTTGTGGC
1 AAAAAGACAAGCCTTTGTGGC
45605744 GAACCTGTGG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
28 30 0.48
29 32 0.52
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (29 bp):
AAAAAGACAAGCCTTTGTGGCAAAACTGT
Found at i:45605753 original size:40 final size:40
Alignment explanation
Indices: 45605709--45605791 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
45605699 AGACAGCCTT
* *
45605709 TGTGGCAAAAATTTAGAAAGGCAAGCCTTTGTGGCGAACC
1 TGTGGCAAAAATCTAGAAAGGCAAGCCTTTGTAGCGAACC
* *
45605749 TGTGGCAAAACTCTGGAAAGGCAAGCCTTTGTAGCGAACC
1 TGTGGCAAAAATCTAGAAAGGCAAGCCTTTGTAGCGAACC
45605789 TGT
1 TGT
45605792 TAAAGGACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTGGCAAAAATCTAGAAAGGCAAGCCTTTGTAGCGAACC
Found at i:45605805 original size:28 final size:28
Alignment explanation
Indices: 45605765--45605865 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 28
45605755 AAAACTCTGG
45605765 AAAGG-CAAGCCTTTGTAGCGAACCTGTT
1 AAAGGACAA-CCTTTGTAGCGAACCTGTT
* *
45605793 AAAGGACAACCTTTGTAGCAAAACT-TT
1 AAAGGACAACCTTTGTAGCGAACCTGTT
* *
45605820 GGAAAGGAAAACCTTTGTGGCGAACAC-GTT
1 --AAAGGACAACCTTTGTAGCGAAC-CTGTT
* *
45605850 AAAGGGCAACGTTTGT
1 AAAGGACAACCTTTGT
45605866 GGTAAAACTC
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
27 2 0.03
28 32 0.54
29 22 0.37
30 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (28 bp):
AAAGGACAACCTTTGTAGCGAACCTGTT
Found at i:45605817 original size:57 final size:57
Alignment explanation
Indices: 45605749--45606055 Score: 298
Period size: 57 Copynumber: 5.4 Consensus size: 57
45605739 GTGGCGAACC
* * *
45605749 TGTGGCAAAACTCTGGAAAGGCAAGCCTTTGTAGCGAACCTGTTAAAGGACAACCTT
1 TGTGGCAAAACTCTGGAAAGGAAAACCTTTGTGGCGAACCTGTTAAAGGACAACCTT
* * * *
45605806 TGTAGCAAAACTTTGGAAAGGAAAACCTTTGTGGCGAACAC-GTTAAAGGGCAACGTT
1 TGTGGCAAAACTCTGGAAAGGAAAACCTTTGTGGCGAAC-CTGTTAAAGGACAACCTT
* * * * * *
45605863 TGTGGTAAAACTCTGAAAAGGAAAACCTTTGTGGCGAACCTATAAAAGGATAGCCTT
1 TGTGGCAAAACTCTGGAAAGGAAAACCTTTGTGGCGAACCTGTTAAAGGACAACCTT
* * * * * *
45605920 TGTGGCAAAATTCTGGAAAGGCAAACCTTTGTGGTGAACCTGTTTAAGGACGACGTT
1 TGTGGCAAAACTCTGGAAAGGAAAACCTTTGTGGCGAACCTGTTAAAGGACAACCTT
* * * * ** * *
45605977 TGTGGCAGAACTC-CGAAAGTGTAAGCCTTCATGGAGAACCTTTTAAAGGAC-ACCTT
1 TGTGGCAAAACTCTGGAAAG-GAAAACCTTTGTGGCGAACCTGTTAAAGGACAACCTT
* *
45606033 TGTGGCTATA-TCTGGATAAGGAA
1 TGTGGCAAAACTCTGGA-AAGGAA
45606056 GCTTATGTGG
Statistics
Matches: 200, Mismatches: 45, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
55 2 0.01
56 21 0.10
57 176 0.88
58 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (57 bp):
TGTGGCAAAACTCTGGAAAGGAAAACCTTTGTGGCGAACCTGTTAAAGGACAACCTT
Found at i:45605825 original size:97 final size:97
Alignment explanation
Indices: 45605656--45605844 Score: 279
Period size: 97 Copynumber: 1.9 Consensus size: 97
45605646 AACCTTTGTA
* * *
45605656 GCAAAACTCTAGAAAGGCAAGCCTTTGTGGCCAACCTGTAAAAAGACAGCCTTTGTGGCAAAAAT
1 GCAAAACTCTAGAAAGGCAAGCCTTTGTAGCCAACCTGTAAAAAGACAACCTTTGTAGCAAAAAT
* *
45605721 TTAGAAAGGCAAGCCTTTGTGGCGAACCTGTG
66 TTAGAAAGGAAAACCTTTGTGGCGAACCTGTG
* * * * *
45605753 GCAAAACTCTGGAAAGGCAAGCCTTTGTAGCGAACCTGTTAAAGGACAACCTTTGTAGCAAAACT
1 GCAAAACTCTAGAAAGGCAAGCCTTTGTAGCCAACCTGTAAAAAGACAACCTTTGTAGCAAAAAT
*
45605818 TTGGAAAGGAAAACCTTTGTGGCGAAC
66 TTAGAAAGGAAAACCTTTGTGGCGAAC
45605845 ACGTTAAAGG
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 81 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (97 bp):
GCAAAACTCTAGAAAGGCAAGCCTTTGTAGCCAACCTGTAAAAAGACAACCTTTGTAGCAAAAAT
TTAGAAAGGAAAACCTTTGTGGCGAACCTGTG
Found at i:45605912 original size:28 final size:27
Alignment explanation
Indices: 45605765--45605925 Score: 90
Period size: 28 Copynumber: 5.7 Consensus size: 27
45605755 AAAACTCTGG
* * * *
45605765 AAAGGCAAGCCTTTGTAGCGAACCTGTT
1 AAAGGAAAACCTTTGTGGCGAACCT-TA
* * * * *
45605793 AAAGGACAACCTTTGTAGCAAAACTTTGG
1 AAAGGAAAACCTTTGTGGC-GAACCTT-A
45605822 AAAGGAAAACCTTTGTGGCGAACACGTT-
1 AAAGGAAAACCTTTGTGGCGAAC-C-TTA
** * ** *
45605850 AAAGGGCAACGTTTGTGGTAAAACTCTGA
1 AAAGGAAAACCTTTGTGG-CGAAC-CTTA
45605879 AAAGGAAAACCTTTGTGGCGAACCTATA
1 AAAGGAAAACCTTTGTGGCGAACCT-TA
* *
45605907 AAAGGATAGCCTTTGTGGC
1 AAAGGAAAACCTTTGTGGC
45605926 AAAATTCTGG
Statistics
Matches: 101, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
27 2 0.02
28 57 0.56
29 40 0.40
30 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (27 bp):
AAAGGAAAACCTTTGTGGCGAACCTTA
Found at i:45605952 original size:29 final size:29
Alignment explanation
Indices: 45605749--45605953 Score: 131
Period size: 29 Copynumber: 7.2 Consensus size: 29
45605739 GTGGCGAACC
*
45605749 TGTGGCAAAACTCTGGAAAGGCAAGCCTT
1 TGTGGCAAAACTCTGGAAAGGCAAACCTT
* * *
45605778 TGTAGC-GAAC-CTGTTAAAGG-ACAACCTT
1 TGTGGCAAAACTCTG-GAAAGGCA-AACCTT
* * *
45605806 TGTAGCAAAACTTTGGAAAGGAAAACCTT
1 TGTGGCAAAACTCTGGAAAGGCAAACCTT
* *
45605835 TGTGGCGAACACGT-T--AAAGGGC-AACGTT
1 TGTGGC-AAAAC-TCTGGAAA-GGCAAACCTT
* * *
45605863 TGTGGTAAAACTCTGAAAAGGAAAACCTT
1 TGTGGCAAAACTCTGGAAAGGCAAACCTT
* * * * *
45605892 TGTGGCGAACCTAT-AAAAGG-ATAGCCTT
1 TGTGGCAAAACTCTGGAAAGGCA-AACCTT
*
45605920 TGTGGCAAAATTCTGGAAAGGCAAACCTT
1 TGTGGCAAAACTCTGGAAAGGCAAACCTT
45605949 TGTGG
1 TGTGG
45605954 TGAACCTGTT
Statistics
Matches: 135, Mismatches: 26, Indels: 30
0.71 0.14 0.16
Matches are distributed among these distances:
26 1 0.01
27 10 0.07
28 55 0.41
29 59 0.44
30 9 0.07
31 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (29 bp):
TGTGGCAAAACTCTGGAAAGGCAAACCTT
Found at i:45609140 original size:23 final size:23
Alignment explanation
Indices: 45609113--45609234 Score: 183
Period size: 23 Copynumber: 5.3 Consensus size: 23
45609103 AGTGTTATTG
45609113 ATCAGTGGTAGCTTCGGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
45609135 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
*
45609159 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * *
45609182 TTCAGTGGTAGCTGCGGTTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
45609205 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
45609228 ATCAGTG
1 ATCAGTG
45609235 TGGCACTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.98
24 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:45609484 original size:23 final size:25
Alignment explanation
Indices: 45609438--45609485 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
45609428 GAAATTGCTA
* *
45609438 AGAAATGTTTGATTAGTTATATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
45609463 AGAAATG-TTAATT-GTTAAATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
45609486 TATTTATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (25 bp):
AGAAATGTTTAATTAGTTAAATGAG
Found at i:45622319 original size:30 final size:30
Alignment explanation
Indices: 45622283--45622343 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
45622273 AGTTAACTCG
45622283 TACAGGGATGATGGATCTAGAAGAAGGAAT
1 TACAGGGATGATGGATCTAGAAGAAGGAAT
45622313 TACAGGGATGATGGATCTAGAAGAAGGAAT
1 TACAGGGATGATGGATCTAGAAGAAGGAAT
45622343 T
1 T
45622344 CACGAAGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.21
Consensus pattern (30 bp):
TACAGGGATGATGGATCTAGAAGAAGGAAT
Found at i:45627126 original size:31 final size:29
Alignment explanation
Indices: 45627088--45627182 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 29
45627078 AATGGCTCAA
*
45627088 TGACTAAAATGTTACAACATG-ATAACGTAAG
1 TGACTAAAATGTT--AACATGTA-AACATAAG
*
45627119 TGACTAAAACG-TAACATGTCAAACATAAG
1 TGACTAAAATGTTAACATGT-AAACATAAG
*
45627148 TGACTAAAATG-TAACCTGATGTAAACAAAAG
1 TGACTAAAATGTTAA-C--ATGTAAACATAAG
45627179 TGAC
1 TGAC
45627183 CATGGGTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
28 6 0.11
29 20 0.36
30 3 0.05
31 22 0.40
32 4 0.07
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (29 bp):
TGACTAAAATGTTAACATGTAAACATAAG
Found at i:45627758 original size:18 final size:18
Alignment explanation
Indices: 45627737--45627772 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
45627727 ATGGTATAAC
45627737 ATAATTATAAT-AATAAAA
1 ATAATTA-AATAAATAAAA
45627755 ATAATTAAATAAATAAAA
1 ATAATTAAATAAATAAAA
45627773 TAGCTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATTAAATAAATAAAA
Found at i:45627773 original size:17 final size:17
Alignment explanation
Indices: 45627732--45627774 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
45627722 AAATAATGGT
*
45627732 ATAACATAATTATAATA
1 ATAAAATAATTATAATA
45627749 ATAAAAATAATTA-AATAA
1 AT-AAAATAATTATAAT-A
45627767 ATAAAATA
1 ATAAAATA
45627775 GCTGAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAATAATTATAATA
Found at i:45629415 original size:44 final size:44
Alignment explanation
Indices: 45629352--45629437 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
45629342 CTAAGATCTG
* *
45629352 TGGATTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATTAT
1 TGGATTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAT
**
45629396 TGGATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TGGATTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATT
45629438 CGCCACCTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (44 bp):
TGGATTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAT
Done.