Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 112 of 202
Found at i:34494867 original size:7 final size:6
Alignment explanation
Indices: 34494856--34494938 Score: 76
Period size: 6 Copynumber: 13.7 Consensus size: 6
34494846 AAATTTTAAA
* * *** *
34494856 ATTTTT ATTTTT ATTTTT ATTTTTT ATTCTT ATCTTT CCATTT AATTTT
1 ATTTTT ATTTTT ATTTTT A-TTTTT ATTTTT ATTTTT ATTTTT ATTTTT
* * *
34494905 AATTTA ATTTTT ATTTTT ATTTTT ATTTTA ATTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTT
34494939 GTTTATGTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
6 57 0.90
7 6 0.10
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (6 bp):
ATTTTT
Found at i:34498783 original size:36 final size:36
Alignment explanation
Indices: 34498711--34498784 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
34498701 GGAGGAGTGC
* * *
34498711 ATCAGTTAGAATAGATCCGAAAGGCTGCTGACCTGA
1 ATCAGTTAGAATAGATCCAAAAGGCTGCTAAACTGA
* *
34498747 ATCAGTTAGAATAGATCCAAAATGTTGCTAAACTGA
1 ATCAGTTAGAATAGATCCAAAAGGCTGCTAAACTGA
34498783 AT
1 AT
34498785 AGAGTTTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (36 bp):
ATCAGTTAGAATAGATCCAAAAGGCTGCTAAACTGA
Found at i:34501150 original size:35 final size:36
Alignment explanation
Indices: 34501101--34501195 Score: 106
Period size: 35 Copynumber: 2.7 Consensus size: 36
34501091 ATACTCTGAT
* *
34501101 ATTTTGATTCGCATGTGAAGTATGCTATTA-ATCTG
1 ATTTTGATTCGCATGTGAAGCATGCCATTATATCTG
* *
34501136 ATTTTGACTT-GCATGTTAAGCATGCCATTATTTCTG
1 ATTTTGA-TTCGCATGTGAAGCATGCCATTATATCTG
*
34501172 ATTTTGGTTCGCATGT-ACAGCATG
1 ATTTTGATTCGCATGTGA-AGCATG
34501196 TCTACTGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 27 0.53
36 24 0.47
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (36 bp):
ATTTTGATTCGCATGTGAAGCATGCCATTATATCTG
Found at i:34501599 original size:23 final size:23
Alignment explanation
Indices: 34501573--34501632 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 23
34501563 ATATTTAGTA
34501573 TGTTTATGATTTGTTTAAA-CTAT
1 TGTTTAT-ATTTGTTTAAATCTAT
*
34501596 TGTTGT-TATGTG-TTAAATTCTAT
1 TGTT-TATATTTGTTTAAA-TCTAT
34501619 TGTTTATTATTTGT
1 TGTTTA-TATTTGT
34501633 AATCCACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
21 5 0.17
22 5 0.17
23 13 0.45
24 6 0.21
ACGTcount: A:0.22, C:0.03, G:0.15, T:0.60
Consensus pattern (23 bp):
TGTTTATATTTGTTTAAATCTAT
Found at i:34502476 original size:26 final size:26
Alignment explanation
Indices: 34502437--34502518 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 26
34502427 TCGATAGAAT
* *
34502437 TTCCTCAATAGATAGTCTTTGCGGAC
1 TTCCACAATAGATAGTCCTTGCGGAC
* *
34502463 TTTCACAATAGATAGTCCTTGTGGAC
1 TTCCACAATAGATAGTCCTTGCGGAC
* *
34502489 TTCCACAATAGATAGTCCTTTCAGAC
1 TTCCACAATAGATAGTCCTTGCGGAC
34502515 TTCC
1 TTCC
34502519 TACATATACA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (26 bp):
TTCCACAATAGATAGTCCTTGCGGAC
Found at i:34506721 original size:7 final size:7
Alignment explanation
Indices: 34506709--34506734 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34506699 ATTTAAAAAT
34506709 AATATAA
1 AATATAA
34506716 AATATAA
1 AATATAA
34506723 AATATAA
1 AATATAA
34506730 AATAT
1 AATAT
34506735 TATAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (7 bp):
AATATAA
Found at i:34507843 original size:14 final size:14
Alignment explanation
Indices: 34507807--34507845 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34507797 TCTAAAAAAT
*
34507807 AAACTATTTTCTAA
1 AAACTATTTTCCAA
*
34507821 AAATTATTTTCCAA
1 AAACTATTTTCCAA
*
34507835 AAACCATTTTC
1 AAACTATTTTC
34507846 AACATTTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (14 bp):
AAACTATTTTCCAA
Found at i:34509733 original size:6 final size:6
Alignment explanation
Indices: 34509722--34509762 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
34509712 CTTAGAATGT
*
34509722 TTTCTA TTTCTA TTTCTA TATTCTA TTTTCAA TTTCTA TTT
1 TTTCTA TTTCTA TTTCTA T-TTCTA -TTTCTA TTTCTA TTT
34509763 GTTTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.68
7 9 0.29
8 1 0.03
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCTA
Found at i:34509756 original size:20 final size:19
Alignment explanation
Indices: 34509723--34509760 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34509713 TTAGAATGTT
*
34509723 TTCTATTTCTATTTCTATA
1 TTCTATTTCAATTTCTATA
34509742 TTCTATTTTCAATTTCTAT
1 TTCTA-TTTCAATTTCTAT
34509761 TTGTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.63
Consensus pattern (19 bp):
TTCTATTTCAATTTCTATA
Found at i:34528809 original size:6 final size:6
Alignment explanation
Indices: 34528798--34528837 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
34528788 AATTTTTTTC
* *
34528798 TCAATA TCAATA TCAATA TCAATA TCAATC TCAATC TCAA
1 TCAATA TCAATA TCAATA TCAATA TCAATA TCAATA TCAA
34528838 ATTCTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.33
Consensus pattern (6 bp):
TCAATA
Found at i:34528889 original size:21 final size:20
Alignment explanation
Indices: 34528845--34528889 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34528835 CAAATTCTTT
*
34528845 TTTCTTTTTCTCACTCTCAT
1 TTTCTTTTTCTCACTCTCAA
* *
34528865 TTTCTTTTTTTCTTCTCTCAA
1 TTTCTTTTTCTC-ACTCTCAA
34528886 TTTC
1 TTTC
34528890 ATTCAAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTTTTTCTCACTCTCAA
Found at i:34529744 original size:31 final size:31
Alignment explanation
Indices: 34529698--34529781 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
34529688 TCAATCACTC
*
34529698 TTTTTTT-TTCTTTTTTTTTTCAATTTTTG-AT
1 TTTTTTTCTTC-TTTTTTTTTCAA-TTCTGAAT
*
34529729 TTTTTTTCTTCTTTTTTTTTTAATTCTGAAT
1 TTTTTTTCTTCTTTTTTTTTCAATTCTGAAT
34529760 TTTTTTTCTTCTTCTTTTTTTC
1 TTTTTTTCTTCTT-TTTTTTTC
34529782 TTCAATACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
30 4 0.09
31 33 0.70
32 10 0.21
ACGTcount: A:0.08, C:0.11, G:0.02, T:0.79
Consensus pattern (31 bp):
TTTTTTTCTTCTTTTTTTTTCAATTCTGAAT
Found at i:34529843 original size:13 final size:13
Alignment explanation
Indices: 34529825--34529870 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
34529815 GAATACAAAC
*
34529825 TTTTTTTTT-GAA
1 TTTTTTTTTAAAA
34529837 TTTTTTTTTCAAAA
1 TTTTTTTTT-AAAA
*
34529851 TTTTTTTTTCAAA
1 TTTTTTTTTAAAA
34529864 TTTTTTT
1 TTTTTTT
34529871 ATATATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 9 0.30
13 10 0.33
14 11 0.37
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTAAAA
Found at i:34529844 original size:14 final size:14
Alignment explanation
Indices: 34529835--34529870 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
34529825 TTTTTTTTTG
34529835 AATTTTTTTTTCAA
1 AATTTTTTTTTCAA
34529849 AATTTTTTTTTC-A
1 AATTTTTTTTTCAA
34529862 AATTTTTTT
1 AATTTTTTT
34529871 ATATATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (14 bp):
AATTTTTTTTTCAA
Found at i:34540063 original size:36 final size:36
Alignment explanation
Indices: 34540012--34540081 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 36
34540002 TGTACATGAT
*
34540012 GACAAACTCGAAACCTTTACCCACTT-CCCATGTGAC
1 GACAAACTCGAAACCTCTACCCA-TTGCCCATGTGAC
34540048 GACAAACTCTG-AACCTCTACCCATTGCCCATGTG
1 GACAAACTC-GAAACCTCTACCCATTGCCCATGTG
34540082 TAGTAGTGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 2 0.06
36 28 0.90
37 1 0.03
ACGTcount: A:0.29, C:0.36, G:0.13, T:0.23
Consensus pattern (36 bp):
GACAAACTCGAAACCTCTACCCATTGCCCATGTGAC
Found at i:34544172 original size:3 final size:3
Alignment explanation
Indices: 34544164--34544208 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
34544154 AGCCCATATT
*
34544164 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TAC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
34544209 ATGAATTAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:34550318 original size:15 final size:15
Alignment explanation
Indices: 34550298--34550329 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34550288 TTGATTTGTC
34550298 ACATAAATGTCACAT
1 ACATAAATGTCACAT
34550313 ACATAAATGTCACAT
1 ACATAAATGTCACAT
34550328 AC
1 AC
34550330 CATATGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.25
Consensus pattern (15 bp):
ACATAAATGTCACAT
Found at i:34551292 original size:26 final size:26
Alignment explanation
Indices: 34551263--34551482 Score: 127
Period size: 26 Copynumber: 8.5 Consensus size: 26
34551253 GTACATAGTA
*
34551263 CCTGCTAAATAATCATCGGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
**
34551289 CCTGCTAAATAATCATTGGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * * * ** *
34551315 CTTGCTAGATAAACTCTAGCTCAACG
1 CCTGCTAAATAATCACCGGCTCAAAG
** ** ** *
34551341 ATTGCTAAATAATCATTGATTCAAAT
1 CCTGCTAAATAATCACCGGCTCAAAG
* * * * *
34551367 CCTGTTAGATAAACACCGACTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAAG
* *
34551393 CATGCTAAATAATTACCGGCTCAAAG
1 CCTGCTAAATAATCACCGGCTCAAAG
* * ** * *
34551419 CCTACTAGATAGA-CACCAACTTAAGG
1 CCTGCTAAATA-ATCACCGGCTCAAAG
* *
34551445 CCTCCTAAATAATCACCGGCTCAAAA
1 CCTGCTAAATAATCACCGGCTCAAAG
*
34551471 CCTACTAAATAA
1 CCTGCTAAATAA
34551483 AGTACATCAT
Statistics
Matches: 141, Mismatches: 51, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
25 1 0.01
26 139 0.99
27 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAAG
Found at i:34551435 original size:52 final size:52
Alignment explanation
Indices: 34551372--34551483 Score: 152
Period size: 52 Copynumber: 2.2 Consensus size: 52
34551362 CAAATCCTGT
* * * *
34551372 TAGATAAACACCGACTCAAGGCATGCTAAATAATTACCGGCTCAAAGCCTAC
1 TAGATAAACACCAACTCAAGGCATCCTAAATAATCACCGGCTCAAAACCTAC
* * *
34551424 TAGATAGACACCAACTTAAGGCCTCCTAAATAATCACCGGCTCAAAACCTAC
1 TAGATAAACACCAACTCAAGGCATCCTAAATAATCACCGGCTCAAAACCTAC
*
34551476 TAAATAAA
1 TAGATAAA
34551484 GTACATCATG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (52 bp):
TAGATAAACACCAACTCAAGGCATCCTAAATAATCACCGGCTCAAAACCTAC
Found at i:34552776 original size:28 final size:29
Alignment explanation
Indices: 34552745--34552808 Score: 67
Period size: 32 Copynumber: 2.1 Consensus size: 29
34552735 TCGTAAATAT
34552745 TAAA-TAATAATATTTACGAACGTGCTCG
1 TAAATTAATAATATTTACGAACGTGCTCG
** *
34552773 TAAAATTGTGTTAATATTTACGAACTTGCTCG
1 T-AAA-T-TAATAATATTTACGAACGTGCTCG
34552805 TAAA
1 TAAA
34552809 ATTGTGGTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 3 0.10
31 3 0.10
32 22 0.76
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (29 bp):
TAAATTAATAATATTTACGAACGTGCTCG
Found at i:34552793 original size:32 final size:32
Alignment explanation
Indices: 34552752--34552814 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
34552742 TATTAAATAA
34552752 TAATATTTACGAACGTGCTCGTAAAATTGTGT
1 TAATATTTACGAACGTGCTCGTAAAATTGTGT
*
34552784 TAATATTTACGAACTTGCTCGTAAAATTGTG
1 TAATATTTACGAACGTGCTCGTAAAATTGTG
34552815 GTCCCAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
TAATATTTACGAACGTGCTCGTAAAATTGTGT
Found at i:34553606 original size:66 final size:66
Alignment explanation
Indices: 34553493--34553616 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
34553483 ATTCGCTAGG
*
34553493 TCCAAACTAACGATTGCAATTAGCCAAGCCCACTGGCAACCCCAATTCGCTAGGCCTACTAGTGA
1 TCCAAACTAACGATTGCAATTAGCCAAGCCCACTGGCAACCCCAATTCGCCAGGCCTACTAGTGA
34553558 A
66 A
* * * *
34553559 TCCAAACTGACGATTGCAATTCA-CCAAGCCTACTGGCGACCCTAATTCGCCAGGCCTA
1 TCCAAACTAACGATTGCAATT-AGCCAAGCCCACTGGCAACCCCAATTCGCCAGGCCTA
34553617 TTGGTAAATC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 51 0.98
67 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (66 bp):
TCCAAACTAACGATTGCAATTAGCCAAGCCCACTGGCAACCCCAATTCGCCAGGCCTACTAGTGA
A
Found at i:34555100 original size:24 final size:25
Alignment explanation
Indices: 34555059--34555105 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
34555049 AAATTTCGGA
*
34555059 AAGAATTTCTCAGAAAC-ACTTTTG
1 AAGAATTCCTCAGAAACAACTTTTG
34555083 AAGAATTCCTTCAG-AACAACTTT
1 AAGAATTCC-TCAGAAACAACTTT
34555106 CTTCTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (25 bp):
AAGAATTCCTCAGAAACAACTTTTG
Found at i:34559204 original size:25 final size:27
Alignment explanation
Indices: 34559136--34559206 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 27
34559126 AATGCTCATA
*
34559136 CGAGCACATA-AACGGGAAGCTCTCTCT
1 CGAGC-CATATAACGGGAAGCTCTATCT
* *
34559163 CGAGCCATATAATGGGAAGCTC-ATGT
1 CGAGCCATATAACGGGAAGCTCTATCT
*
34559189 -GAGCCATGTAACGGGAAG
1 CGAGCCATATAACGGGAAG
34559207 TTGATTCAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
25 16 0.42
26 6 0.16
27 16 0.42
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (27 bp):
CGAGCCATATAACGGGAAGCTCTATCT
Found at i:34559355 original size:25 final size:25
Alignment explanation
Indices: 34559288--34559375 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 25
34559278 AGCTCCGGAT
*
34559288 AGCCATATATCAGGAAGCTCATGAAAG
1 AGCCATATATCAGGAAGCTC--CAAAG
* *
34559315 AGCC-TTTAATCGGGAAGCTCCAAAG
1 AGCCATAT-ATCAGGAAGCTCCAAAG
*
34559340 AGCCATATATCAGGAAGAT-CAAGAG
1 AGCCATATATCAGGAAGCTCCAA-AG
34559365 AGCCA-ATATCA
1 AGCCATATATCA
34559376 AGATGATCAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 9 0.17
25 24 0.46
26 4 0.08
27 15 0.29
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (25 bp):
AGCCATATATCAGGAAGCTCCAAAG
Found at i:34559383 original size:24 final size:25
Alignment explanation
Indices: 34559338--34559384 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
34559328 GAAGCTCCAA
*
34559338 AGAGCCATATATCAGGAAGATCAAG
1 AGAGCCATATATCAAGAAGATCAAG
*
34559363 AGAGCCA-ATATCAAGATGATCA
1 AGAGCCATATATCAAGAAGATCA
34559385 TGTGAGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (25 bp):
AGAGCCATATATCAAGAAGATCAAG
Found at i:34566975 original size:27 final size:27
Alignment explanation
Indices: 34566945--34566998 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
34566935 ATTCAAGAAT
34566945 GCTCACACGAGCACATA-AACGGGAAGC
1 GCTCACACGAGC-CATATAACGGGAAGC
* * *
34566972 GCTCTCTCGAGCCATATAATGGGAAGC
1 GCTCACACGAGCCATATAACGGGAAGC
34566999 ACATGTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (27 bp):
GCTCACACGAGCCATATAACGGGAAGC
Found at i:34568672 original size:24 final size:26
Alignment explanation
Indices: 34568645--34568703 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 26
34568635 AAGCTCATAT
**
34568645 GAGCCAATA-AT-AGGAAGCTCCGGA
1 GAGCCAATATATCAGGAAGCTCAAGA
34568669 GAGCC-ATATATCAGGAAGCTCAAGA
1 GAGCCAATATATCAGGAAGCTCAAGA
34568694 GAGCCAATAT
1 GAGCCAATAT
34568704 TGAGATGCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 7 0.23
25 16 0.53
26 4 0.13
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.15
Consensus pattern (26 bp):
GAGCCAATATATCAGGAAGCTCAAGA
Found at i:34572154 original size:43 final size:43
Alignment explanation
Indices: 34572093--34572338 Score: 321
Period size: 43 Copynumber: 5.7 Consensus size: 43
34572083 TATACTTTGA
* * *
34572093 TATTATCCAATGATGCACTATGTCTGCCAGTATGTCGCTTCGG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
*
34572136 TATTATCCGATGATGCACTGTGTGTGCCAGTATGTTGCTTCGG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* * * * *
34572179 TATTATCCGATGATACACTATGTGTGCTAGTATGTTTCTTTGA
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* * * *
34572222 TTTTATTCGATGATGCACTATGTGTGGCAGTATGTTGCTTCGA
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
* **
34572265 TTTTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTTAG
1 TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
** *
34572308 TATTATTTGATGATGCACTGTGTGTGCCAGT
1 TATTATCCGATGATGCACTATGTGTGCCAGT
34572339 TTAATTGCGT
Statistics
Matches: 177, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 177 1.00
ACGTcount: A:0.20, C:0.17, G:0.24, T:0.40
Consensus pattern (43 bp):
TATTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTCGG
Found at i:34572320 original size:129 final size:129
Alignment explanation
Indices: 34572087--34572334 Score: 361
Period size: 129 Copynumber: 1.9 Consensus size: 129
34572077 GCAAGTTATA
*
34572087 CTTTGATATTATCCAATGATGCACTATGTCTGCCAGTATGTCGCTTCGGTATTATCCGATGATGC
1 CTTTGATATTATCCAATGATGCACTATGTCTGCCAGTATGTCGCTTCGATATTATCCGATGATGC
* *
34572152 ACTGTGTGTGCCAGTATGTTGCTTCGGTATTATCCGATGATACACTATGTGTGCTAGTATGTTT
66 ACTATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTATGTGTGCTAGTATGTTT
* * * * * * *
34572216 CTTTGATTTTATTCGATGATGCACTATGTGTGGCAGTATGTTGCTTCGATTTTATCCGATGATGC
1 CTTTGATATTATCCAATGATGCACTATGTCTGCCAGTATGTCGCTTCGATATTATCCGATGATGC
* ** * *
34572281 ACTATGTGTGCCAGTATGTTGCTTTAGTATTATTTGATGATGCACTGTGTGTGC
66 ACTATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTATGTGTGC
34572335 CAGTTTAATT
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
129 104 1.00
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.41
Consensus pattern (129 bp):
CTTTGATATTATCCAATGATGCACTATGTCTGCCAGTATGTCGCTTCGATATTATCCGATGATGC
ACTATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTATGTGTGCTAGTATGTTT
Found at i:34572373 original size:86 final size:82
Alignment explanation
Indices: 34572093--34572375 Score: 289
Period size: 86 Copynumber: 3.3 Consensus size: 82
34572083 TATACTTTGA
* * * * *
34572093 TATTATCCAATGATGCACTATGTCTGCCAGTATGTCGCTTCGGTATTATCCGATGATGCACTGTG
1 TATTATCCAATGATACACTATGTGTGCCAGTATGTTGCTT-TGTATTATTCGATGATGCACTGTG
*
34572158 TGTGCCAGTATGTTGCTTCGG
65 TGTGCCAGTATGTTG---CGT
* * * * *
34572179 TATTATCCGATGATACACTATGTGTGCTAGTATGTTTCTTTGATTTTATTCGATGATGCACTATG
1 TATTATCCAATGATACACTATGTGTGCCAGTATGTTGCTTTG-TATTATTCGATGATGCACTGTG
*
34572244 TGTGGCAGTATGTTGC-T
65 TGTGCCAGTATGTTGCGT
* * *
34572261 TCGATTTTATCCGATGATGCACTATGTGTGCCAGTATGTTGCTTTAGTATTATTTGATGATGCAC
1 T--A--TTATCCAATGATACACTATGTGTGCCAGTATGTTGCTTT-GTATTATTCGATGATGCAC
* *
34572326 TGTGTGTGCCAGTTTAATTGCGT
61 TGTGTGTGCCAGTAT-GTTGCGT
34572349 TATTCATCCAATGATACACTTATGTGT
1 TATT-ATCCAATGATACAC-TATGTGT
34572376 TAGTATTGAT
Statistics
Matches: 164, Mismatches: 23, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
82 1 0.01
83 1 0.01
84 3 0.02
85 13 0.08
86 139 0.85
87 5 0.03
88 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (82 bp):
TATTATCCAATGATACACTATGTGTGCCAGTATGTTGCTTTGTATTATTCGATGATGCACTGTGT
GTGCCAGTATGTTGCGT
Found at i:34572373 original size:129 final size:126
Alignment explanation
Indices: 34572093--34572375 Score: 332
Period size: 129 Copynumber: 2.2 Consensus size: 126
34572083 TATACTTTGA
* * *
34572093 TATTATCCAATGATGCACTATGTCTGCCAGTATGTCGCTTCGGTATTATCCGATGATGCACTGTG
1 TATTATCCAATGATGCACTATGTGTGCCAGTATGTCGCTTCGATATTATCCGATGATGCACTATG
* * * * *
34572158 TGTGCCAGTATGTTGCTTCGGTATTATCCGATGATACACTATGTGTGCTAGTATGTTTCTT
66 TGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTATGTGTGCCAGTATATTGCGT
* * * * *
34572219 TGATTTTATTCGATGATGCACTATGTGTGGCAGTATGTTGCTTCGATTTTATCCGATGATGCACT
1 T-A--TTATCCAATGATGCACTATGTGTGCCAGTATGTCGCTTCGATATTATCCGATGATGCACT
* ** * * *
34572284 ATGTGTGCCAGTATGTTGCTTTAGTATTATTTGATGATGCACTGTGTGTGCCAGTTTAATTGCGT
63 ATGTGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTATGTGTGCCAGTAT-ATTGCGT
*
34572349 TATTCATCCAATGATACACTTATGTGT
1 TATT-ATCCAATGATGCAC-TATGTGT
34572376 TAGTATTGAT
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
126 1 0.01
127 3 0.02
128 11 0.09
129 109 0.84
130 5 0.04
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (126 bp):
TATTATCCAATGATGCACTATGTGTGCCAGTATGTCGCTTCGATATTATCCGATGATGCACTATG
TGTGCCAGTATGTTGCTTCAGTATTATCCGATGATACACTATGTGTGCCAGTATATTGCGT
Found at i:34574462 original size:20 final size:20
Alignment explanation
Indices: 34574439--34574477 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34574429 AAGTTTATGC
*
34574439 AAATATAGTGTAAAAATTGG
1 AAATATAATGTAAAAATTGG
* *
34574459 AAATTTAATGTGAAAATTG
1 AAATATAATGTAAAAATTG
34574478 AATTGTGTAA
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:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (20 bp):
AAATATAATGTAAAAATTGG
Found at i:34575219 original size:19 final size:19
Alignment explanation
Indices: 34575186--34575233 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
34575176 ATGACAAAGT
*
34575186 TGAGAAATG-AATATGAGA
1 TGAGAAATGAAATATGAAA
34575204 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
34575223 TGATGAAATGA
1 TGA-GAAATGA
34575234 GATGTGAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.33
19 11 0.41
20 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.25, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:34581265 original size:59 final size:59
Alignment explanation
Indices: 34581199--34581395 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
34581189 ATCAAAATGG
34581199 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
1 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
* * * * * *
34581258 TATTGATTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATA--
1 TATTGATTTTT---ATT--TA-AG-TA-TCGATACT-T-T-C--TCATAAAATA--TCG-ATACC
* **
34581321 TCAAAAT-GG
50 ACAAAATAAT
34581330 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
1 TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
34581389 TATTGAT
1 TATTGAT
34581396 ACCTTTGTTT
Statistics
Matches: 101, Mismatches: 18, Indels: 38
0.64 0.11 0.24
Matches are distributed among these distances:
56 3 0.03
57 2 0.02
58 6 0.06
59 27 0.27
61 1 0.01
62 4 0.04
63 1 0.01
64 7 0.07
65 3 0.03
66 3 0.03
67 7 0.07
68 1 0.01
69 4 0.04
70 1 0.01
72 20 0.20
73 6 0.06
74 2 0.02
75 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (59 bp):
TATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAAT
Found at i:34581367 original size:131 final size:131
Alignment explanation
Indices: 34581133--34581395 Score: 508
Period size: 131 Copynumber: 2.0 Consensus size: 131
34581123 TGTATCGATG
* *
34581133 TTTTTGGCGTTGGTATTGATACTTGTTATTATGTATAGTCTTAAAATAAATAGAATATCAAAATG
1 TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
34581198 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
66 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
34581263 A
131 A
34581264 TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
1 TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
34581329 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
66 GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
34581394 A
131 A
34581395 T
1 T
34581396 ACCTTTGTTT
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.42
Consensus pattern (131 bp):
TTTTTGGCATTGGTATTGATACTTGTTATTATGTACAGTCTTAAAATAAATAGAATATCAAAATG
GTATTGATTTTTATTTAAGTATCGATACTTTCTCATAAAATATCGATACCACAAAATAATTATTG
A
Found at i:34585028 original size:20 final size:20
Alignment explanation
Indices: 34584976--34585031 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
34584966 TACTTCAAGT
* ** *
34584976 TCATTCAGCTCAACCATAGT
1 TCATTCAGCTCATCTTTAGC
*
34584996 TCATTGAGCTCATCTTTAGC
1 TCATTCAGCTCATCTTTAGC
34585016 TCATTCAGCTCATCTT
1 TCATTCAGCTCATCTT
34585032 CGTTTTTCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.38
Consensus pattern (20 bp):
TCATTCAGCTCATCTTTAGC
Found at i:34601541 original size:18 final size:18
Alignment explanation
Indices: 34601490--34601541 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
34601480 AAGAGTGACG
*
34601490 AGAGAAAAAGAATCCGAAAA
1 AGAGAAAAAG-AT-TGAAAA
*
34601510 AGA-AACAAAAATTGAAAA
1 AGAGAA-AAAGATTGAAAA
34601528 AGAGAAAAAGATTG
1 AGAGAAAAAGATTG
34601542 GAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
18 15 0.56
19 6 0.22
20 6 0.22
ACGTcount: A:0.65, C:0.06, G:0.19, T:0.10
Consensus pattern (18 bp):
AGAGAAAAAGATTGAAAA
Found at i:34608643 original size:17 final size:16
Alignment explanation
Indices: 34608623--34608665 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
34608613 TAGTTTCCAA
34608623 AAAAAATAAAAAAATCG
1 AAAAAA-AAAAAAATCG
*
34608640 AAAAGAAAAAAAAATTG
1 AAAA-AAAAAAAAATCG
34608657 AAAAAAAAA
1 AAAAAAAAA
34608666 TATTGCATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 5 0.21
17 17 0.71
18 2 0.08
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.09
Consensus pattern (16 bp):
AAAAAAAAAAAAATCG
Found at i:34624344 original size:16 final size:17
Alignment explanation
Indices: 34624313--34624346 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
34624303 ATATTCAGTC
*
34624313 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
34624330 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
34624346 C
1 C
34624347 CCCTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:34631087 original size:36 final size:35
Alignment explanation
Indices: 34630999--34631088 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
34630989 TGTATGTATT
* *
34630999 TGTCAGTTTATCCAACTAGCACTGGGCGCAACTCA
1 TGTCGGTTTATCCGACTAGCACTGGGCGCAACTCA
** *
34631034 TGTCGGTTTATTTGACTAGCGCTGGGCGCAACTCAA
1 TGTCGGTTTATCCGACTAGCACTGGGCGCAACTC-A
*
34631070 TGTTGGTTTATCCGACTAG
1 TGTCGGTTTATCCGACTAG
34631089 TGGTGGCAAC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
35 29 0.63
36 17 0.37
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.31
Consensus pattern (35 bp):
TGTCGGTTTATCCGACTAGCACTGGGCGCAACTCA
Found at i:34631126 original size:76 final size:75
Alignment explanation
Indices: 34631035--34631204 Score: 189
Period size: 76 Copynumber: 2.2 Consensus size: 75
34631025 CGCAACTCAT
* ** * *
34631035 GTCGGTTTATTTGACTAGCGCTGGGCGCAACTCAATGTTGGTTTATCCGACTAGTGGT-GGCAAC
1 GTCGGTTTA-TTGACTAGCACTGGGCGCAAAACAATATCGGTTTATCCGACTAGTGGTGGGC-AC
34631099 ACATTTGATATC
64 ACATTTGATATC
* * * *
34631111 GTCGGTTTATCTGACTAGCACTGGGTGCAAAACATTATCGGTTTATTCGACTAGTGGTGGGCGCA
1 GTCGGTTTAT-TGACTAGCACTGGGCGCAAAACAATATCGGTTTATCCGACTAGTGGTGGGCACA
*
34631176 CATTTGGTATC
65 CATTTGATATC
* *
34631187 ATCAGTTTATTCGACTAG
1 GTCGGTTTATT-GACTAG
34631205 TGAAGAGCAC
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
75 2 0.03
76 74 0.94
77 3 0.04
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (75 bp):
GTCGGTTTATTGACTAGCACTGGGCGCAAAACAATATCGGTTTATCCGACTAGTGGTGGGCACAC
ATTTGATATC
Found at i:34634085 original size:18 final size:18
Alignment explanation
Indices: 34634059--34634094 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34634049 TTAGCTACTT
34634059 GGGAAAGGGAGAACGTGA
1 GGGAAAGGGAGAACGTGA
*
34634077 GGGATAGGGAGAACGTGA
1 GGGAAAGGGAGAACGTGA
34634095 AACAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.50, T:0.08
Consensus pattern (18 bp):
GGGAAAGGGAGAACGTGA
Found at i:34637181 original size:23 final size:23
Alignment explanation
Indices: 34637155--34637276 Score: 199
Period size: 23 Copynumber: 5.3 Consensus size: 23
34637145 AGTGTTATTC
34637155 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
34637178 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
34637201 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
34637224 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
34637247 TTCAATGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
34637270 ATCAGTG
1 ATCAGTG
34637277 TGGCACTTAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 91 1.00
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:34637448 original size:38 final size:38
Alignment explanation
Indices: 34637406--34637487 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
34637396 ATGTGTGGAA
* *
34637406 TTGAAATGAATATTGACTTGAAAA-TGGAAAAGTG-AATT
1 TTGAAATGAATAGTGA-TT-AAAAGTGAAAAAGTGAAATT
*
34637444 TTGAATTGAATAGTGATTAAAAGTGAAAAAGTGAAATT
1 TTGAAATGAATAGTGATTAAAAGTGAAAAAGTGAAATT
34637482 TTGAAA
1 TTGAAA
34637488 AAGTAGAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 4 0.11
37 11 0.29
38 23 0.61
ACGTcount: A:0.46, C:0.01, G:0.21, T:0.32
Consensus pattern (38 bp):
TTGAAATGAATAGTGATTAAAAGTGAAAAAGTGAAATT
Found at i:34637724 original size:29 final size:29
Alignment explanation
Indices: 34637682--34637741 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
34637672 AAAATTTTAT
*
34637682 GGTAAGAAGACATGTGAGTATAGTTTGAA
1 GGTAAGAAGACATGTGAGTATAGTTTCAA
34637711 GGTAAGAAGACATGTGAGTATAGTTTCAA
1 GGTAAGAAGACATGTGAGTATAGTTTCAA
34637740 GG
1 GG
34637742 GAAATTAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.27
Consensus pattern (29 bp):
GGTAAGAAGACATGTGAGTATAGTTTCAA
Found at i:34638765 original size:161 final size:162
Alignment explanation
Indices: 34638462--34638784 Score: 596
Period size: 161 Copynumber: 2.0 Consensus size: 162
34638452 TCGGTTTAAT
*
34638462 ACATTTACATGTGTAAGTGTTCTAGTAATGCCTCATACCCTATTTCGGAGTTGAATACGGGTAAG
1 ACATTTACATGTGTAAGTGTTCTAGTAATGCCTCATACCCTATTTCGGAGTTGAATACGAGTAAG
*
34638527 GGGTGTTACATTTAGTGGTATCAGAGCTACGGTTTAGTCGGTTCCCGGACTGAACGTAGCATATG
66 GGGTGTTACATTTAGTGGTATCAAAGCTACGGTTTAGTCGGTTCCCGGACTGAACGTAGCATATG
34638592 TGAGTCTAGCTATACATGCCATGTTATTACTC
131 TGAGTCTAGCTATACATGCCATGTTATTACTC
*
34638624 ACATTTACATGTGTAAGTGTTCTAGTAATGCCTCATACCCTATTTTGGAGTTGAATACGAGTAAG
1 ACATTTACATGTGTAAGTGTTCTAGTAATGCCTCATACCCTATTTCGGAGTTGAATACGAGTAAG
34638689 GGGTG-TACATTTAGTGGTATCAAAGCTACGGTTTAGTCGGTTCCCGGA-TCGAACGTAGCATAT
66 GGGTGTTACATTTAGTGGTATCAAAGCTACGGTTTAGTCGGTTCCCGGACT-GAACGTAGCATAT
34638752 GTGAGTCTAGCTATACATGCCATGTTATTACTC
130 GTGAGTCTAGCTATACATGCCATGTTATTACTC
34638785 GTGATGGTGT
Statistics
Matches: 157, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
160 1 0.01
161 88 0.56
162 68 0.43
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (162 bp):
ACATTTACATGTGTAAGTGTTCTAGTAATGCCTCATACCCTATTTCGGAGTTGAATACGAGTAAG
GGGTGTTACATTTAGTGGTATCAAAGCTACGGTTTAGTCGGTTCCCGGACTGAACGTAGCATATG
TGAGTCTAGCTATACATGCCATGTTATTACTC
Found at i:34639422 original size:47 final size:49
Alignment explanation
Indices: 34639364--34639476 Score: 140
Period size: 47 Copynumber: 2.3 Consensus size: 49
34639354 TTATGAAATC
*
34639364 TCCGTGTAAGACCATATCTAGAATATGGCATC-AT-TGTGATATGTGAT
1 TCCGTGTAAGACCATAGCTAGAATATGGCATCGATATGTGATATGTGAT
* * ** *
34639411 TCCGTGAAAGACCATAGCTGGGCTATGGCATCGGTATGTGATATGTGAT
1 TCCGTGTAAGACCATAGCTAGAATATGGCATCGATATGTGATATGTGAT
* *
34639460 TACATGTAAGACCATAG
1 TCCGTGTAAGACCATAG
34639477 TTGGACTATG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 27 0.49
48 1 0.02
49 27 0.49
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (49 bp):
TCCGTGTAAGACCATAGCTAGAATATGGCATCGATATGTGATATGTGAT
Found at i:34639471 original size:49 final size:47
Alignment explanation
Indices: 34639368--34639489 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 47
34639358 GAAATCTCCG
* * * * *
34639368 TGTAAGACCATATCTAGAATATGGCATCATTGTGATATGTGATTCCG
1 TGTAAGACCATAGCTGGACTATGGCATCATTGTGATATGTGATTACA
* * *
34639415 TGAAAGACCATAGCTGGGCTATGGCATCGGTATGTGATATGTGATTACA
1 TGTAAGACCATAGCTGGACTATGGCATC-AT-TGTGATATGTGATTACA
*
34639464 TGTAAGACCATAGTTGGACTATGGCA
1 TGTAAGACCATAGCTGGACTATGGCA
34639490 ATGTGAAAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
47 23 0.37
48 1 0.02
49 38 0.61
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (47 bp):
TGTAAGACCATAGCTGGACTATGGCATCATTGTGATATGTGATTACA
Found at i:34642119 original size:23 final size:23
Alignment explanation
Indices: 34642100--34642198 Score: 126
Period size: 23 Copynumber: 4.3 Consensus size: 23
34642090 AGTGTTATTG
34642100 ATCAGTGGTAGCTTCGGTTACAT
1 ATCAGTGGTAGCTTCGGTTACAT
*
34642123 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGTTACAT
* * *
34642146 TTCATTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGTTACAT
* * * *
34642169 TTCAGTGGTAACTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGTTACAT
34642192 ATCAGTG
1 ATCAGTG
34642199 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.35
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGTTACAT
Found at i:34643993 original size:99 final size:100
Alignment explanation
Indices: 34643825--34644047 Score: 281
Period size: 99 Copynumber: 2.2 Consensus size: 100
34643815 CATATCCTAG
* ** * *
34643825 ACATGGTCTTACACGGGATGTTCTCATATCGGTGCCCATGCCATGTCCCAGACATAGTCTTACGA
1 ACATGGTCTTACATGGGA-CCTCTCATATCGGTGCCAACGCCATGTCCCAGACATAGTCTTACGA
* *
34643890 GGGACCTCTCATCTCAG-TACCAACGCCATTTCTCAA
65 GGGACCTCTCATCT-AGATACCAACGCCATGTCCCAA
* *
34643926 ACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATG-CCCAGACATGGTCTTAC-AT
1 ACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATAGTCTTACGA-
* * *
34643989 GGGACCTCTCATCTTGATGCCAACGCCATGTCCCAG
65 GGGACCTCTCATCTAGATACCAACGCCATGTCCCAA
*
34644025 ACATGGCCTTACATGGGACCTCT
1 ACATGGTCTTACATGGGACCTCT
34644048 TTGCCCAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
98 2 0.02
99 67 0.63
100 21 0.20
101 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (100 bp):
ACATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGACATAGTCTTACGAG
GGACCTCTCATCTAGATACCAACGCCATGTCCCAA
Found at i:34643998 original size:49 final size:50
Alignment explanation
Indices: 34643813--34644047 Score: 285
Period size: 50 Copynumber: 4.7 Consensus size: 50
34643803 ACATGCGAAA
* * * ** * * *
34643813 GCCATATCCTAGACATGGTCTTACACGGGATGTTCTCATATCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAC
* * *
34643864 GCCATGTCCCAGACATAGTCTTACGA-GGGACCTCTCATCTCAGTACCAAC
1 GCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTGCCAAC
* * *
34643914 GCCATTTCTCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
* *
34643964 GCCATG-CCCAGACATGGTCTTACATGGGACCTCTCATCTTGATGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
*
34644013 GCCATGTCCCAGACATGGCCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34644048 TTGCCCAAAT
Statistics
Matches: 159, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
49 46 0.29
50 87 0.55
51 25 0.16
52 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
Found at i:34644164 original size:13 final size:13
Alignment explanation
Indices: 34644146--34644172 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34644136 AGTCAACATT
34644146 AAATAAATTCATA
1 AAATAAATTCATA
34644159 AAATAAATTCATA
1 AAATAAATTCATA
34644172 A
1 A
34644173 TTTCTGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAAATTCATA
Found at i:34649490 original size:27 final size:27
Alignment explanation
Indices: 34649460--34649806 Score: 423
Period size: 27 Copynumber: 12.9 Consensus size: 27
34649450 TCAGGTGTGT
*
34649460 AATACCCTCGAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACTGA
*
34649487 AATACCCTTGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
**
34649514 AATACCCTCGAAGGGTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACTGA
34649541 AATACCCTCGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
*
34649568 AATACCCAT-GAAGGATAAAATGACTGA
1 AATACCC-TCGAAGGGTAAAATGACTGA
* **
34649595 AATACCCTCAAAGGGTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACTGA
*
34649622 AATACCCCCGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
* * * *
34649649 AATACCCCCAAAGGTTAAAATGACTAA
1 AATACCCTCGAAGGGTAAAATGACTGA
* * * *
34649676 AATACCCCCAAAGGCTAAAATGATTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
* *
34649703 AATACCC-CTGAAGGGTAAAACGACCGA
1 AATACCCTC-GAAGGGTAAAATGACTGA
* *
34649730 AATACCCCCAAAGGGTAAAATGA-TCGA
1 AATACCCTCGAAGGGTAAAATGACT-GA
*
34649757 AATACCCCCGAAGGGTAAAATGACTGA
1 AATACCCTCGAAGGGTAAAATGACTGA
*
34649784 AATA-CCTCCATAGGGTAAAATGA
1 AATACCCTCGA-AGGGTAAAATGA
34649807 TTTTTATACC
Statistics
Matches: 280, Mismatches: 33, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
26 6 0.02
27 271 0.97
28 3 0.01
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.17
Consensus pattern (27 bp):
AATACCCTCGAAGGGTAAAATGACTGA
Found at i:34650148 original size:28 final size:28
Alignment explanation
Indices: 34650108--34650181 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
34650098 GTAATGTTAT
34650108 TGTATTGGGCTAAGGCCCACACTGATAC
1 TGTATTGGGCTAAGGCCCACACTGATAC
*
34650136 TGTATTGGGCTAAGGCCCACACTGCTAC
1 TGTATTGGGCTAAGGCCCACACTGATAC
*
34650164 TGAATTGGGCTAAGGCCC
1 TGTATTGGGCTAAGGCCC
34650182 TCATTATACT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (28 bp):
TGTATTGGGCTAAGGCCCACACTGATAC
Found at i:34654738 original size:17 final size:17
Alignment explanation
Indices: 34654718--34654758 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
34654708 ACGAAATTTT
34654718 AAAAAAAA-GTGAATTGA
1 AAAAAAAACGTGAATT-A
34654735 AAAAAAAATCGTGAATTA
1 AAAAAAAA-CGTGAATTA
34654753 AAAAAA
1 AAAAAA
34654759 TGGTGTTGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.17
Consensus pattern (17 bp):
AAAAAAAACGTGAATTA
Found at i:34654742 original size:19 final size:18
Alignment explanation
Indices: 34654718--34654758 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
34654708 ACGAAATTTT
34654718 AAAAAAAAGTGAATTGAAA
1 AAAAAAAAGTGAATT-AAA
**
34654737 AAAAAATCGTGAATTAAA
1 AAAAAAAAGTGAATTAAA
34654755 AAAA
1 AAAA
34654759 TGGTGTTGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.17
Consensus pattern (18 bp):
AAAAAAAAGTGAATTAAA
Found at i:34656870 original size:21 final size:19
Alignment explanation
Indices: 34656844--34656900 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
34656834 ACAAACGAGA
34656844 GAAAAACAAAAGAGTGAAAAT
1 GAAAAA-AAAAGAG-GAAAAT
34656865 GAAAAATAAAAGA--AAAAT
1 GAAAAA-AAAAGAGGAAAAT
*
34656883 GAGAAAAAAAGAGGAAAA
1 GAAAAAAAAAGAGGAAAA
34656901 ACTATACAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 6 0.19
18 10 0.31
19 4 0.12
21 12 0.38
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (19 bp):
GAAAAAAAAAGAGGAAAAT
Found at i:34656883 original size:18 final size:17
Alignment explanation
Indices: 34656860--34656894 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34656850 CAAAAGAGTG
34656860 AAAATGAAAAATAAAAGA
1 AAAATGAAAAA-AAAAGA
*
34656878 AAAATGAGAAAAAAAGA
1 AAAATGAAAAAAAAAGA
34656895 GGAAAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (17 bp):
AAAATGAAAAAAAAAGA
Found at i:34665963 original size:15 final size:15
Alignment explanation
Indices: 34665943--34665973 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34665933 AAAGCATGAT
*
34665943 GGAGTCTTTGCATAA
1 GGAGTCTGTGCATAA
34665958 GGAGTCTGTGCATAA
1 GGAGTCTGTGCATAA
34665973 G
1 G
34665974 TTGCATGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (15 bp):
GGAGTCTGTGCATAA
Found at i:34666131 original size:54 final size:54
Alignment explanation
Indices: 34666073--34666176 Score: 181
Period size: 54 Copynumber: 1.9 Consensus size: 54
34666063 ATGGGCATGG
**
34666073 CAAGAAGACCATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGGGGA
1 CAAGAAGACCATATAGTGTAAGACCTAGTCTGCAACTATGGCATCATATGGGGA
*
34666127 CAAGAAGACCATATAGTGTAAGACCTAGTTTGCAACTATGGCATCATATG
1 CAAGAAGACCATATAGTGTAAGACCTAGTCTGCAACTATGGCATCATATG
34666177 TGTGAACATG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
CAAGAAGACCATATAGTGTAAGACCTAGTCTGCAACTATGGCATCATATGGGGA
Found at i:34668569 original size:25 final size:25
Alignment explanation
Indices: 34668504--34668570 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
34668494 CTGTGAATTG
* * * *
34668504 GTATGCTCGCTCGAGCTGTAGATCA
1 GTATGCTCTCACGAGCTATAAATCA
*
34668529 GTATGCTCTCATGAGCTATAAATCA
1 GTATGCTCTCACGAGCTATAAATCA
*
34668554 GTATGCTTTCACGAGCT
1 GTATGCTCTCACGAGCT
34668571 GTGGAGTATC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATCA
Found at i:34668750 original size:23 final size:23
Alignment explanation
Indices: 34668706--34668751 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
34668696 CACTCAGTAA
*
34668706 TTATATATTAAAAATAATAACAT
1 TTATATATTAAAAATAAAAACAT
** *
34668729 TTATATATTTCAATTAAAAACAT
1 TTATATATTAAAAATAAAAACAT
34668752 ATAAACAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (23 bp):
TTATATATTAAAAATAAAAACAT
Found at i:34670546 original size:61 final size:61
Alignment explanation
Indices: 34670430--34670571 Score: 167
Period size: 61 Copynumber: 2.3 Consensus size: 61
34670420 TTGTTCTTTA
* ** * *
34670430 TTATATGTGAGCCTTAATGGTGGAATCTATTATATGTGGAAGCCTTTACGACTATTTTCTG
1 TTATATGTGAGCCTTAGTGGCAGAACCTATTATATGTGGAAGCCTTTACGACTATTCTCTG
* ** *
34670491 TTATATGTGAGCCTTAGTGGCAGAACCTGTTATATGTGGAAGCCTTTGTGGCTATTCTCTG
1 TTATATGTGAGCCTTAGTGGCAGAACCTATTATATGTGGAAGCCTTTACGACTATTCTCTG
* * * *
34670552 ATACATGCGAGCCTTCGTGG
1 TTATATGTGAGCCTTAGTGG
34670572 TGAAGTCTAT
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (61 bp):
TTATATGTGAGCCTTAGTGGCAGAACCTATTATATGTGGAAGCCTTTACGACTATTCTCTG
Found at i:34670638 original size:30 final size:30
Alignment explanation
Indices: 34670594--34670666 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
34670584 TATGAATCTA
* *
34670594 GATGCTTTTGTGGCTACCTAATAATGTGTG
1 GATGCCTTTATGGCTACCTAATAATGTGTG
**
34670624 GATGCCTTTATGGCTATTTAATAATGTGTG
1 GATGCCTTTATGGCTACCTAATAATGTGTG
34670654 GATGCCTTTATGG
1 GATGCCTTTATGG
34670667 ATAGATGCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (30 bp):
GATGCCTTTATGGCTACCTAATAATGTGTG
Found at i:34670718 original size:76 final size:76
Alignment explanation
Indices: 34670592--34670740 Score: 271
Period size: 76 Copynumber: 2.0 Consensus size: 76
34670582 TGTATGAATC
* *
34670592 TAGATGCTTTTGTGGCTACCTAATAATGTGTGGATGCCTTTATGGCTATTTAATAATGTGTGGAT
1 TAGATGCTATTGTGGCTACCTAATAATGTGTGGACGCCTTTATGGCTATTTAATAATGTGTGGAT
34670657 GCCTTTATGGA
66 GCCTTTATGGA
*
34670668 TAGATGCTATTGTGGCTACCTAATGATGTGTGGACGCCTTTATGGCTATTTAATAATGTGTGGAT
1 TAGATGCTATTGTGGCTACCTAATAATGTGTGGACGCCTTTATGGCTATTTAATAATGTGTGGAT
34670733 GCCTTTAT
66 GCCTTTAT
34670741 TGCTATCTAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (76 bp):
TAGATGCTATTGTGGCTACCTAATAATGTGTGGACGCCTTTATGGCTATTTAATAATGTGTGGAT
GCCTTTATGGA
Found at i:34670727 original size:30 final size:30
Alignment explanation
Indices: 34670680--34670813 Score: 146
Period size: 30 Copynumber: 4.5 Consensus size: 30
34670670 GATGCTATTG
* *
34670680 TGGCTACCTAATGATGTGTGGACGCCTTTA
1 TGGCTATCTAATGATGTGTGGATGCCTTTA
* *
34670710 TGGCTATTTAATAATGTGTGGATGCCTTTA
1 TGGCTATCTAATGATGTGTGGATGCCTTTA
* * *
34670740 TTGCTATCTAATGATGTATGGATGCCTTTG
1 TGGCTATCTAATGATGTGTGGATGCCTTTA
** *
34670770 TGGCTATCTAA-G-TCAAGTGGATGCCTTTG
1 TGGCTATCTAATGAT-GTGTGGATGCCTTTA
*
34670799 TGGCTATCTATTGAT
1 TGGCTATCTAATGAT
34670814 CAAGCAAGTG
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.01
29 23 0.26
30 62 0.71
31 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.40
Consensus pattern (30 bp):
TGGCTATCTAATGATGTGTGGATGCCTTTA
Found at i:34670798 original size:29 final size:28
Alignment explanation
Indices: 34670727--34670808 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 28
34670717 TTAATAATGT
* * * *
34670727 GTGGATGCCTTTATTGCTATCTAATGAT
1 GTGGATGCCTTTGTGGCTATCTAATCAA
34670755 GTATGGATGCCTTTGTGGCTATCTAAGTCAA
1 G--TGGATGCCTTTGTGGCTATCTAA-TCAA
34670786 GTGGATGCCTTTGTGGCTATCTA
1 GTGGATGCCTTTGTGGCTATCTA
34670809 TTGATCAAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 1 0.02
29 22 0.47
30 21 0.45
31 3 0.06
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.39
Consensus pattern (28 bp):
GTGGATGCCTTTGTGGCTATCTAATCAA
Found at i:34672042 original size:20 final size:22
Alignment explanation
Indices: 34672017--34672057 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
34672007 TATGCATGGA
34672017 TGTAAC-TCCTTTT-TCAAATT
1 TGTAACATCCTTTTCTCAAATT
*
34672037 TGTAACATCTTTTTCTCAAAT
1 TGTAACATCCTTTTCTCAAAT
34672058 CTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.49
Consensus pattern (22 bp):
TGTAACATCCTTTTCTCAAATT
Found at i:34673106 original size:6 final size:6
Alignment explanation
Indices: 34673098--34673129 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
34673088 CACCGATTTT
*
34673098 CCCTTT CCCTTC CCCTTC CCCTTC CCCTTC CC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CC
34673130 TTATGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (6 bp):
CCCTTC
Found at i:34673116 original size:11 final size:11
Alignment explanation
Indices: 34673096--34673131 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
34673086 GACACCGATT
*
34673096 TTCCCTTTCCC
1 TTCCCCTTCCC
34673107 TTCCCCTTCCCC
1 TTCCCCTT-CCC
34673119 TTCCCCTTCCC
1 TTCCCCTTCCC
34673130 TT
1 TT
34673132 ATGCTTGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (11 bp):
TTCCCCTTCCC
Found at i:34675829 original size:22 final size:24
Alignment explanation
Indices: 34675779--34675829 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
34675769 TTGCAATGCT
34675779 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
34675804 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
34675825 TTTAT
1 TTTAT
34675830 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 4 0.17
24 6 0.25
25 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:34676566 original size:20 final size:20
Alignment explanation
Indices: 34676543--34676605 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
34676533 GTGTGACAAT
34676543 TATTGTTATGATTTGATAAA
1 TATTGTTATGATTTGATAAA
* * * * * *
34676563 TATTTTTCTAATAT-ACAAT
1 TATTGTTATGATTTGATAAA
34676582 TATTGTTATGATTTGATAAA
1 TATTGTTATGATTTGATAAA
34676602 TATT
1 TATT
34676606 TTTCTAATAT
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (20 bp):
TATTGTTATGATTTGATAAA
Found at i:34676592 original size:39 final size:39
Alignment explanation
Indices: 34676538--34676615 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
34676528 GTATGGTGTG
34676538 ACAATTATTGTTATGATTTGATAAATATTTTTCTAATAT
1 ACAATTATTGTTATGATTTGATAAATATTTTTCTAATAT
34676577 ACAATTATTGTTATGATTTGATAAATATTTTTCTAATAT
1 ACAATTATTGTTATGATTTGATAAATATTTTTCTAATAT
34676616 CATGTTGTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (39 bp):
ACAATTATTGTTATGATTTGATAAATATTTTTCTAATAT
Found at i:34676814 original size:23 final size:23
Alignment explanation
Indices: 34676788--34676832 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
34676778 CTACAAATTT
34676788 GGTGGTTTAGCCACAACCTACAA
1 GGTGGTTTAGCCACAACCTACAA
*
34676811 GGTGGTTTATCCACAACCTACA
1 GGTGGTTTAGCCACAACCTACA
34676833 TGTTTTAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (23 bp):
GGTGGTTTAGCCACAACCTACAA
Found at i:34680911 original size:54 final size:54
Alignment explanation
Indices: 34680852--34681063 Score: 227
Period size: 54 Copynumber: 4.0 Consensus size: 54
34680842 GCAAGAATAT
34680852 CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATGGGGATAAGAAGAC
1 CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATGGGGATAAGAAGAC
* * * *
34680906 CATATAGTGTAAGACCTAGTTTGGTACTATGGCATC--A-GGGGACAATAAGAC
1 CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATGGGGATAAGAAGAC
* *** * * *
34680957 CATATAGTGTATGACCTAATTTGGGACTATGGCATCATATACAGATACGAAAAT
1 CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATGGGGATAAGAAGAC
* * * * * *
34681011 CACATAGTGCAAG-TCTTAGTTGGGAACTATGGCATCATGTGGGGA-AAGAAGAC
1 CATATAGTGTAAGACCTAATTTGGG-ACTATGGCATCATATGGGGATAAGAAGAC
34681064 AAAGGATGAT
Statistics
Matches: 126, Mismatches: 28, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
51 45 0.36
52 1 0.01
53 14 0.11
54 66 0.52
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (54 bp):
CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATGGGGATAAGAAGAC
Found at i:34680973 original size:51 final size:52
Alignment explanation
Indices: 34680843--34680994 Score: 216
Period size: 51 Copynumber: 2.9 Consensus size: 52
34680833 ATGGCCATGG
* *
34680843 CAAGAATATCATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATGGGGA
1 CAAGAAGACCATATAGTGTAAGACCTAATTTGGGACTATGGCATC--ATGGGGA
* * *
34680897 TAAGAAGACCATATAGTGTAAGACCTAGTTTGGTACTATGGCATCA-GGGGA
1 CAAGAAGACCATATAGTGTAAGACCTAATTTGGGACTATGGCATCATGGGGA
* *
34680948 CAATAAGACCATATAGTGTATGACCTAATTTGGGACTATGGCATCAT
1 CAAGAAGACCATATAGTGTAAGACCTAATTTGGGACTATGGCATCAT
34680995 ATACAGATAC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 46 0.53
52 1 0.01
54 40 0.46
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (52 bp):
CAAGAAGACCATATAGTGTAAGACCTAATTTGGGACTATGGCATCATGGGGA
Found at i:34681040 original size:105 final size:105
Alignment explanation
Indices: 34680852--34681047 Score: 275
Period size: 105 Copynumber: 1.9 Consensus size: 105
34680842 GCAAGAATAT
*** * * *
34680852 CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATGGGGATAAGAAGACCATATAGTGTA
1 CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATACAGATAAGAAAACCACATAGTGCA
* *
34680917 AGACCTAGTTTGGTACTATGGCATCAGGGGACAATAAGAC
66 AGACCTAGTTGGGAACTATGGCATCAGGGGACAATAAGAC
* * *
34680957 CATATAGTGTATGACCTAATTTGGGACTATGGCATCATATACAGATACGAAAATCACATAGTGCA
1 CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATACAGATAAGAAAACCACATAGTGCA
* *
34681022 AGTCTTAGTTGGGAACTATGGCATCA
66 AGACCTAGTTGGGAACTATGGCATCA
34681048 TGTGGGGAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
105 78 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (105 bp):
CATATAGTGTAAGACCTAATTTGGGACTATGGCATCATATACAGATAAGAAAACCACATAGTGCA
AGACCTAGTTGGGAACTATGGCATCAGGGGACAATAAGAC
Found at i:34681354 original size:24 final size:25
Alignment explanation
Indices: 34681312--34681363 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
34681302 TAGCAGGCCT
34681312 AAACCCAAACAGCCCAAAACTAAAC
1 AAACCCAAACAGCCCAAAACTAAAC
*
34681337 AAACCC-AACAGCCTAAAACTAAAC
1 AAACCCAAACAGCCCAAAACTAAAC
34681361 AAA
1 AAA
34681364 AACCCTAGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.58, C:0.33, G:0.04, T:0.06
Consensus pattern (25 bp):
AAACCCAAACAGCCCAAAACTAAAC
Found at i:34682365 original size:11 final size:12
Alignment explanation
Indices: 34682351--34682380 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
34682341 TTAATTAATA
34682351 ATATTATTATT-
1 ATATTATTATTG
34682362 ATATTATTATTG
1 ATATTATTATTG
34682374 ATATTAT
1 ATATTAT
34682381 AATCAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (12 bp):
ATATTATTATTG
Found at i:34682370 original size:23 final size:23
Alignment explanation
Indices: 34682331--34682380 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
34682321 GCTTGCTATT
*
34682331 TTATTTTTAATTAATTAATAATA
1 TTATTATTAATTAATTAATAATA
* *
34682354 TTATTATTATATT-ATTATTGATA
1 TTATTATTA-ATTAATTAATAATA
34682377 TTAT
1 TTAT
34682381 AATCAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTATTAATTAATTAATAATA
Found at i:34682559 original size:28 final size:26
Alignment explanation
Indices: 34682483--34682561 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 26
34682473 CATATACATA
34682483 TATATATACATATCTATATTTTATAATC
1 TATATATACATA-C-ATATTTTATAATC
* * * *
34682511 TATGTATATATGCATGCATTTTATTATC
1 TATATATACATACAT--ATTTTATAATC
34682539 TTAATATATACATACATATTTTA
1 -T-ATATATACATACATATTTTA
34682562 GGATATATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 25 0.62
29 1 0.03
30 11 0.28
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (26 bp):
TATATATACATACATATTTTATAATC
Found at i:34686609 original size:22 final size:21
Alignment explanation
Indices: 34686578--34686624 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
34686568 AGTCAAAATG
* *
34686578 AAAATGAAAATGAAAAAAATCA
1 AAAATCAAAAT-AAAAAAAACA
34686600 AAAATCAAAATAAAAAAAACA
1 AAAATCAAAATAAAAAAAACA
34686621 AAAA
1 AAAA
34686625 GAAGAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (21 bp):
AAAATCAAAATAAAAAAAACA
Found at i:34686674 original size:50 final size:52
Alignment explanation
Indices: 34686593--34686692 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 52
34686583 GAAAATGAAA
34686593 AAAATCAAAAATCAAAATAAAAAAAACAAAAAG-AAGAAAGAA-GAAAAAATC
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAG-AAGAATGAAAAAATC
* * ** *
34686644 AAAATC-AAGATCAAAATGAAAATGAGAAAAAGAAAGAAGAATGAAAAAA
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAAA
34686693 GAGAAATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 26 0.62
51 16 0.38
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.09
Consensus pattern (52 bp):
AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAAATC
Found at i:34687606 original size:7 final size:7
Alignment explanation
Indices: 34687594--34687632 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
34687584 CAAAAAAAAT
34687594 AAATGAA
1 AAATGAA
34687601 AAATGAA
1 AAATGAA
34687608 AAATG-A
1 AAATGAA
34687614 AAATGAA
1 AAATGAA
34687621 AAATGAA
1 AAATGAA
34687628 AAATG
1 AAATG
34687633 GAGAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 25 0.81
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AAATGAA
Found at i:34687616 original size:13 final size:13
Alignment explanation
Indices: 34687594--34687629 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
34687584 CAAAAAAAAT
34687594 AAATGAAAAATGAA
1 AAATG-AAAATGAA
34687608 AAATGAAAATGAA
1 AAATGAAAATGAA
34687621 AAATGAAAA
1 AAATGAAAA
34687630 ATGGAGAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:34687617 original size:20 final size:20
Alignment explanation
Indices: 34687594--34687632 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34687584 CAAAAAAAAT
34687594 AAATGAAAAATGAAAAATGA
1 AAATGAAAAATGAAAAATGA
34687614 AAATGAAAAATGAAAAATG
1 AAATGAAAAATGAAAAATG
34687633 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAATGAAAAATGAAAAATGA
Found at i:34689107 original size:129 final size:129
Alignment explanation
Indices: 34688877--34691125 Score: 3047
Period size: 129 Copynumber: 16.9 Consensus size: 129
34688867 AATTTCAGAC
*
34688877 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAGTCCTATCTCCCTGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
34688942 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* *
34689006 CTTATCTCCCTGAGATTGCAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCCGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
* * *
34689071 TGGAGCGGATTAAAATAAAGGATCTTTTCTCTCTGAAGTTACAGTAGAGTAGATCGTCTTAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
*
34689135 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCCGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
* *
34689200 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTCTTAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
*
34689264 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCCGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
*
34689329 TGGAGCGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* * *
34689393 CTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCCGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
*
34689458 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATTAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* * *
34689522 CTTATCTCCCAGAGATTACAGCGGAGCGGATTGAAGATAGTAATCCTATCTCCCTGAGATTACTG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
* * * *
34689587 TGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAATATAGTTGATCGTATCAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* ** *
34689651 CTTATCTCCCTGAGAATACAGTAGAGCAGATTGAAGATAGTAATCCTATCTCCCCGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
*
34689716 TGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* *
34689780 CTTATCTCTCTGAGATTAGAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
34689845 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* *
34689909 CTTATCTCCCTGATATTACAGCGGAGCAGATTGAAGATAGTAATCCCATCTCCCTGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
* * * * *
34689974 TGGAGAGGATTAAAATACAA-GATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGTCTCCGGT
66 TGGAGCGGATTAAAATA-AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* * *
34690038 CTTTTCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTTAGATTACGG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
*
34690103 TGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
* * *
34690167 CTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTACTAATCCTATCTCCCTGAGATTACAG
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
* *
34690232 TGGAGCGGATTAATATAATGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
66 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
*
34690296 CTTATCTCCCTGATATTACAGCGGAGCAGA-TGTAAGATAGTAATCCTATCTCCCTGA-AGTTAC
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTG-AAGATAGTAATCCTATCTCCCTGAGA-TTAC
* * *
34690359 AATGGAGTGGTTTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGA
64 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG-----ATC-G-
* *
34690424 TTGAAGCCAAAGAT
122 -T--A-TC--AGGT
* * * *
34690438 CTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGA-AGTTACA
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTACA
* *
34690502 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAAT
65 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT--CGT---A-
34690567 TGAAGCTAAAGGT
124 T----C---AGGT
** * *
34690580 CTTATCTCCCTGAGATTACAGCGGATTAGATTGAAGCTAGTAATCCTATCTCTCTGA-AGTTACA
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTACA
* * *
34690644 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCATATCAAAT
65 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC--GT---A-
34690709 TGAAGCCAAAGGT
124 T-----C--AGGT
** * *
34690722 CTTATCTCCCTGAGATTACAGCGGATTAGATTGAAGCTAGTAATCCTATCTCTCTGA-AGTTACA
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTACA
*
34690786 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACGTCAGAT
65 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT--CGT---A-
34690851 TGAAGCCAGAGAT
124 T-----CAG-G-T
* * * *
34690864 CTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGA-AGTTACA
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTACA
* *
34690928 GTGGAGTGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
65 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG-----ATC-G--
*
34690993 TGAAGCCAGAGAT
122 T--A-TCAG-G-T
* * * * * *
34691006 CTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCTATCTCTCTGA-AGTTACA
1 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA-TTACA
34691070 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
65 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC
34691126 ACATCAGATT
Statistics
Matches: 1961, Mismatches: 118, Indels: 74
0.91 0.05 0.03
Matches are distributed among these distances:
128 5 0.00
129 1314 0.67
130 2 0.00
134 3 0.00
135 1 0.00
136 1 0.00
137 8 0.00
139 2 0.00
140 4 0.00
141 2 0.00
142 608 0.31
143 4 0.00
144 1 0.00
145 1 0.00
146 1 0.00
147 3 0.00
148 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (129 bp):
CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTACAG
TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGT
Found at i:34689790 original size:41 final size:41
Alignment explanation
Indices: 34689738--34689939 Score: 115
Period size: 41 Copynumber: 4.8 Consensus size: 41
34689728 AAATAAAGGA
*
34689738 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
1 TCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGTATCAGG
* ** * * *
34689779 TCTTATCTCTCTG-AGATTAGAGCGGAGCAGATTGAAGAT-AGTAA
1 TCTTATCTCTCTGAAG-TTACAGTAGAGCAGATCG--TATCAG--G
* * * * *** *
34689823 TCCTATCTCCCTG-AGATTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCTCTGAAG-TTACAGTAGAGCAGA-TCGTAT-CAGG
*
34689866 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
1 -TCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGTATCAGG
* **
34689908 TCTTATCTCCCTGATA-TTACAGCGGAGCAGAT
1 TCTTATCTCTCTGA-AGTTACAGTAGAGCAGAT
34689940 TGAAGATAGT
Statistics
Matches: 121, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.02
41 52 0.43
42 6 0.05
43 7 0.06
44 49 0.40
45 5 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGTATCAGG
Found at i:34690508 original size:44 final size:44
Alignment explanation
Indices: 34690436--34691124 Score: 242
Period size: 44 Copynumber: 14.8 Consensus size: 44
34690426 GAAGCCAAAG
* ** *
34690436 ATCTTATCTCCCTG-AGATTACAACGGAGTAGATTGAAGCT-AGTA
1 ATCTTATCTCTCTGAAG-TTACAGTGGAGTAGATTGAAACTAAG-A
* * * *
34690480 ATCCTATCTCTCTGAAGTTACAGTGGAGTGGATT-AAAATAAAGG
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAACT-AAGA
* * *
34690524 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAATTGAAGCTAA
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAGAT----TGAAACT-AAG---A
* * * *
34690576 AGGTCTTATCTCCCTG-AGATTACAGCGGATTAGATTGAAGCT-AGTA
1 A--TCTTATCTCTCTGAAG-TTACAGTGGAGTAGATTGAAACTAAG-A
* * * *
34690622 ATCCTATCTCTCTGAAGTTACAGTGGAGTGGATT-AAAATAAAGG
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAACT-AAGA
* * * *
34690666 ATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCATATCAAATTGAAGCCAA
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAG---AT-TGAAACT-AAG---A
* * * *
34690718 AGGTCTTATCTCCCTG-AGATTACAGCGGATTAGATTGAAGCT-AGTA
1 A--TCTTATCTCTCTGAAG-TTACAGTGGAGTAGATTGAAACTAAG-A
* * * *
34690764 ATCCTATCTCTCTGAAGTTACAGTGGAGTGGATT-AAAATAAAGG
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAACT-AAGA
* *
34690808 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACGTCAGATTGAAGC-CAGA
1 ATCTTATCTCTCTGAAGTTACAGT---G--G---A-GT-AGATTGAAACTAAGA
* ** *
34690861 GATCTTATCTCCCTG-AGATTACAACGGAGTAGATTGAAGCT-AGTA
1 -ATCTTATCTCTCTGAAG-TTACAGTGGAGTAGATTGAAACTAAG-A
* * * *
34690906 ATCCTATCTCTCTGAAGTTACAGTGGAGTGGATT-AAAATAAAGG
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAACT-AAGA
* * *
34690950 ATATTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGC-CAGA
1 ATCTTATCTCTCTGAAGTTACAGT-G-G-AG------T-AGATTGAAACTAAGA
* * * * * *
34691003 GATCTTATCTCCCTG-AGATTGCAGCGGAGTAGATTTAAGCT-GGTA
1 -ATCTTATCTCTCTGAAG-TTACAGTGGAGTAGATTGAAACTAAG-A
* ** * *
34691048 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAAAGG
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAACT-AAGA
*
34691092 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 ATCTTATCTCTCTGAAGTTACAGTGGAGTAGAT
34691125 CACATCAGAT
Statistics
Matches: 480, Mismatches: 98, Indels: 134
0.67 0.14 0.19
Matches are distributed among these distances:
43 15 0.03
44 280 0.58
45 25 0.05
46 6 0.01
47 5 0.01
48 6 0.01
49 16 0.03
50 8 0.02
51 5 0.01
52 4 0.01
53 16 0.03
54 90 0.19
55 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
ATCTTATCTCTCTGAAGTTACAGTGGAGTAGATTGAAACTAAGA
Found at i:34690551 original size:142 final size:142
Alignment explanation
Indices: 34690295--34691140 Score: 1451
Period size: 142 Copynumber: 6.0 Consensus size: 142
34690285 TCGTATCAGG
* * * *
34690295 TCTTATCTCCCTGATATTACAGCGGAGCAGA-TGTAAGATAGTAATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTG-AAGCTAGTAATCCTATCTCTCTGAAGTTAC
* *
34690359 AATGGAGTGGTTTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGA
65 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGA
34690424 TTGAAGCCAAAGA
130 TTGAAGCCAAAGA
*
34690437 TCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
*
34690502 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
* *
34690567 TGAAGCTAAAGG
131 TGAAGCCAAAGA
*
34690579 TCTTATCTCCCTGAGATTACAGCGGATTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
* * *
34690644 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCATATCAAAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
*
34690709 TGAAGCCAAAGG
131 TGAAGCCAAAGA
*
34690721 TCTTATCTCCCTGAGATTACAGCGGATTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
*
34690786 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACGTCAGAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
*
34690851 TGAAGCCAGAGA
131 TGAAGCCAAAGA
*
34690863 TCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
*
34690928 GTGGAGTGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
*
34690993 TGAAGCCAGAGA
131 TGAAGCCAAAGA
* * *
34691005 TCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
*
34691070 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
34691135 TGAAGC
131 TGAAGC
34691141 TGATAATCCT
Statistics
Matches: 672, Mismatches: 31, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
142 670 1.00
143 2 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (142 bp):
TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
TGAAGCCAAAGA
Found at i:34690572 original size:98 final size:96
Alignment explanation
Indices: 34690467--34691227 Score: 313
Period size: 98 Copynumber: 8.0 Consensus size: 96
34690457 AACGGAGTAG
*
34690467 ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATC
1 ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCTTATC
34690532 TCTCTGAAGTTACAGTAGAGTAGATCACATCAA
66 TCTCTGAAGTTACAGTAGAGTAGAT-ACAT-AA
* * * * ** *
34690565 ATTGAAGCTA--AAGGTCTTATCTCCCTG-AGATTACAGCGGATTAGATTGAAGCT--AGTAATC
1 ATTGAAGCTAGTAA--TCCTATCTCTCTGAAG-TTACAGTGGAGTAGATT-AAAATAAAG-GATC
* * *
34690625 CTATCTCTCTGAAGTTACAGTGGAGTGGAT---TAA
61 TTATCTCTCTGAAGTTACAGTAGAGTAGATACATAA
* * * * *
34690658 AAT-AA---AG-GATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCATATCAAATTGAAGCCAA
1 ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTAGAT--TA--AAA-T------AA
* * *
34690718 AGG-TCTTATCTCCCTG-AGATTAC---AGCG--GAT---TAG
55 AGGATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATACATAA
*
34690751 ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATC
1 ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCTTATC
* *
34690816 TCTCTGAAGTTACAGTAGAGTAGATCACGTCAG
66 TCTCTGAAGTTACAGTAGAGTAGAT-ACAT-AA
* * * ** ** * *
34690849 ATTGAAGCCAG-AGATCTTATCTCCCTG-AGATTACAACGGAGTAGATTGAAGCT--AGTAATCC
1 ATTGAAGCTAGTA-ATCCTATCTCTCTGAAG-TTACAGTGGAGTAGATT-AAAATAAAG-GATCT
* *
34690910 TATCTCTCTGAAGTTACAGTGGAGTGGAT---TAA
62 TATCTCTCTGAAGTTACAGTAGAGTAGATACATAA
* * * * *
34690942 AATAAAG-GA-T-AT--TATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTAGATTA-A--A-A-T-AA---AG
* * * *
34691002 AGATCTTATCTCCCTG-AGATTGCAG-CG-G-AG-TAGAT--
57 -GATCTTATCTCTCTGAAG-TTACAGTAGAGTAGATACATAA
* **
34691037 -TT-AAGCTGGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATC
1 ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCTTATC
*
34691100 TCTCTGAAGTTACAGTAGAGTAGATCACATCAG
66 TCTCTGAAGTTACAGTAGAGTAGAT-ACAT-AA
** * * * *
34691133 ATTGAAGCT-GATAATCCTATCTC-CTTGAAGTTGTAGTGGAG-CGAATTAAAGTAATA-TACCT
1 ATTGAAGCTAG-TAATCCTATCTCTC-TGAAGTTACAGTGGAGTAG-ATTAAAATAA-AGGATCT
* *
34691194 TATCTCTCTGAAGTTACTGTAGAGCAGATCACAT
62 TATCTCTCTGAAGTTACAGTAGAGTAGAT-ACAT
34691228 CCAGTCTTAT
Statistics
Matches: 501, Mismatches: 83, Indels: 158
0.68 0.11 0.21
Matches are distributed among these distances:
87 6 0.01
88 82 0.16
89 13 0.03
90 5 0.01
91 6 0.01
92 8 0.02
93 28 0.06
94 10 0.02
95 5 0.01
96 7 0.01
97 24 0.05
98 298 0.59
99 7 0.01
100 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (96 bp):
ATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGTAGATTAAAATAAAGGATCTTATC
TCTCTGAAGTTACAGTAGAGTAGATACATAA
Found at i:34691210 original size:284 final size:283
Alignment explanation
Indices: 34690166--34691156 Score: 1517
Period size: 284 Copynumber: 3.5 Consensus size: 283
34690156 TCGTATCAGG
* * * *
34690166 TCTTATCTCCCTGAGATTACAACGGAGCAGATTGAAGCTACTAATCCTATCTCCCTG-AGATTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAG-TTAC
* * * *
34690230 AGTGGAGCGGATTAATATAATGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT--CGT---A
65 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGA
* * * *
34690290 -T-CAG--G---TCTTATCTCCCTGATATTACAGCGGAGCAGA-TGTAAGATAGTAATCCTATCT
130 TTGAAGCTGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTG-AAGCTAGTAATCCTATCT
* * *
34690347 CCCTGAAGTTACAATGGAGTGGTTTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
194 CTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
34690412 GATCACATCAGATTGAAGCCAAAGA
259 GATCACATCAGATTGAAGCCAAAGA
*
34690437 TCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
*
34690502 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAAAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
*
34690567 TGAAGCT-AAAGGTCTTATCTCCCTGAGATTACAGCGGATTAGATTGAAGCTAGTAATCCTATCT
131 TGAAGCTGAAA--TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCT
*
34690631 CTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTA
194 CTCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTA
* * *
34690696 GATCATATCAAATTGAAGCCAAAGG
259 GATCACATCAGATTGAAGCCAAAGA
*
34690721 TCTTATCTCCCTGAGATTACAGCGGATTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
*
34690786 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACGTCAGAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
* * *
34690851 TGAAGCCAGAGATCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTC
131 TGAAG-CTGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTC
*
34690916 TCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATATTATCTCTCTGAAGTTACAGTAGAGTAG
195 TCTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAG
*
34690981 ATCACATCAGATTGAAGCCAGAGA
260 ATCACATCAGATTGAAGCCAAAGA
* * *
34691005 TCTTATCTCCCTGAGATTGCAGCGGAGTAGATTTAAGCTGGTAATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
*
34691070 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
66 GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
*
34691135 TGAAGCTGATAATCCTATCTCC
131 TGAAGCTGA-AATCTTATCTCC
34691157 TTGAAGTTGT
Statistics
Matches: 659, Mismatches: 42, Indels: 25
0.91 0.06 0.03
Matches are distributed among these distances:
271 111 0.17
272 2 0.00
273 2 0.00
276 1 0.00
277 1 0.00
278 2 0.00
283 3 0.00
284 532 0.81
285 3 0.00
286 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (283 bp):
TCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACA
GTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGAT
TGAAGCTGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCT
CTGAAGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA
TCACATCAGATTGAAGCCAAAGA
Found at i:34691304 original size:85 final size:88
Alignment explanation
Indices: 34691150--34691350 Score: 202
Period size: 85 Copynumber: 2.3 Consensus size: 88
34691140 CTGATAATCC
** * *
34691150 TATCTCCTTGAAGTTGTAGTGGAGC-GAATTAAAGTAATATACCTTATCTCTCTGAAGTTACTGT
1 TATCTCCTTGAAGTTGTAGTGGAGCAG-ACGAAAGAAATATACCTTATCTCCCTGAAGTTACTGT
* * *
34691214 AGAGCAGA-TCACATC-CAG-TCT
65 AGAGCAGATTAAAACCACAGATCT
* *
34691235 TATCTCCTTGAAGTTGTAGTGGAGCAGACGAAAGAAATCA-ATCC-TATCTCCCTGCAGTT-GTA
1 TATCTCCTTGAAGTTGTAGTGGAGCAGACGAAAGAAAT-ATA-CCTTATCTCCCTGAAGTTACT-
*
34691297 GTGGAGCAGATTAAAACCACAGATCT
63 GTAGAGCAGATTAAAACCACAGATCT
*
34691323 TATCT-CTCTGAAGTTGTAGTAGAGCAGA
1 TATCTCCT-TGAAGTTGTAGTGGAGCAGA
34691351 TCGCATCAAG
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
84 1 0.01
85 56 0.58
86 8 0.08
87 5 0.05
88 27 0.28
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (88 bp):
TATCTCCTTGAAGTTGTAGTGGAGCAGACGAAAGAAATATACCTTATCTCCCTGAAGTTACTGTA
GAGCAGATTAAAACCACAGATCT
Found at i:34691327 original size:44 final size:44
Alignment explanation
Indices: 34691232--34691351 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 44
34691222 TCACATCCAG
* *
34691232 TCTTATCTCCTTGAAGTTGTAGTGGAGCAGACGAAAGAAATCAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATGAAAGAAATCAA
* * * *
34691276 TCCTATCTCCCTGCAGTTGTAGTGGAGCAGATTAAA-ACCA-CAGA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATGAAAGA-AATCA-A
* *
34691320 TCTTATCTCTCTGAAGTTGTAGTAGAGCAGAT
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
34691352 CGCATCAAGT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 3 0.05
44 61 0.95
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATGAAAGAAATCAA
Found at i:34691470 original size:128 final size:128
Alignment explanation
Indices: 34691194--34691469 Score: 294
Period size: 128 Copynumber: 2.2 Consensus size: 128
34691184 TAATATACCT
* * * * ***
34691194 TATCTCTCTGAAGTTACT-GTAGAGCAGATCACATCCAGTCTTATCTCCTTGAAGTTGTAGTGGA
1 TATCTCTCTGAAGTT-GTAGTAGAGCAGATCACATCAAGTCTCATCTCCCTGAAACAGTAGTGGA
* * *** * * *
34691258 GCAGACGAAAGAAATCAATCCTATCTCCCTGCAGTTGTAGTGGAGCAGATTAAAACCACAGATCT
65 GCAGACGAAAGAAATAAACCCTATCTCCCCAAAATTGCAGTGGAGCAGATTAAAA-CACAGATCC
*
34691323 TATCTCTCTGAAGTTGTAGTAGAGCAGATCGCATCAAGTCTCATCTCCCT-AAACAGTAGTGGAG
1 TATCTCTCTGAAGTTGTAGTAGAGCAGATCACATCAAGTCTCATCTCCCTGAAACAGTAGTGGAG
* **
34691387 TAGACGAAAGAAATAAACCCTATCTCCCCAAAATTGCAGTGGAGTGGA-TAAAA-ATCA-ATCC
66 CAGACGAAAGAAATAAACCCTATCTCCCCAAAATTGCAGTGGAGCAGATTAAAACA-CAGATCC
*
34691448 TATAC-CTCTGAAGTTGCAGTAG
1 TAT-CTCTCTGAAGTTGTAGTAG
34691470 TTTATATTAA
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
125 23 0.19
126 3 0.02
127 5 0.04
128 50 0.40
129 43 0.35
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (128 bp):
TATCTCTCTGAAGTTGTAGTAGAGCAGATCACATCAAGTCTCATCTCCCTGAAACAGTAGTGGAG
CAGACGAAAGAAATAAACCCTATCTCCCCAAAATTGCAGTGGAGCAGATTAAAACACAGATCC
Found at i:34691866 original size:24 final size:25
Alignment explanation
Indices: 34691823--34691873 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
34691813 ATAGCAGGCC
34691823 CAAACCCAAACAGCCCAAAACTAAA
1 CAAACCCAAACAGCCCAAAACTAAA
*
34691848 CAAACCC-AACAGCCTAAAACTAAA
1 CAAACCCAAACAGCCCAAAACTAAA
34691872 CA
1 CA
34691874 CAAACCCTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.55, C:0.35, G:0.04, T:0.06
Consensus pattern (25 bp):
CAAACCCAAACAGCCCAAAACTAAA
Found at i:34693031 original size:16 final size:16
Alignment explanation
Indices: 34693012--34693043 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34693002 ATTTTAAAAC
34693012 ATATACATATATATAT
1 ATATACATATATATAT
*
34693028 ATATACATATCTATAT
1 ATATACATATATATAT
34693044 TTTATAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
ATATACATATATATAT
Found at i:34693101 original size:28 final size:26
Alignment explanation
Indices: 34693025--34693103 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 26
34693015 TACATATATA
34693025 TATATATACATATCTATATTTTATAATC
1 TATATATACATA-C-ATATTTTATAATC
* * * *
34693053 TATGTATATATGCATGCATTTTATTATC
1 TATATATACATACAT--ATTTTATAATC
34693081 TTAATATATACATACATATTTTA
1 -T-ATATATACATACATATTTTA
34693104 AGATATATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 25 0.62
29 1 0.03
30 11 0.28
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (26 bp):
TATATATACATACATATTTTATAATC
Found at i:34705316 original size:31 final size:30
Alignment explanation
Indices: 34705264--34705342 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
34705254 TATATATAAG
* *
34705264 TATGTATATGTATAT-GAATTATAAAAAAA
1 TATGTATGTGTATATATAATTATAAAAAAA
* **
34705293 TATGTATGTGTATATATATATTATGAAAATG
1 TATGTATGTGTATATATA-ATTATAAAAAAA
* *
34705324 TATGAATGTATATATATAA
1 TATGTATGTGTATATATAA
34705343 CAAAATTTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 14 0.34
30 2 0.05
31 25 0.61
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.42
Consensus pattern (30 bp):
TATGTATGTGTATATATAATTATAAAAAAA
Found at i:34710526 original size:50 final size:50
Alignment explanation
Indices: 34710451--34710573 Score: 201
Period size: 50 Copynumber: 2.5 Consensus size: 50
34710441 TTCTTCCATC
34710451 GAGTTTAAGATAAAGCATGGAGTATCCGAGTGATATACATAGGAACTTTA
1 GAGTTTAAGATAAAGCATGGAGTATCCGAGTGATATACATAGGAACTTTA
* * *
34710501 GAGTTTAAGATAAAGCATGGAGTATCCGAGTGATATCCATATGAACTTTG
1 GAGTTTAAGATAAAGCATGGAGTATCCGAGTGATATACATAGGAACTTTA
* *
34710551 GAGCTTAAGATAAAGCATAGAGT
1 GAGTTTAAGATAAAGCATGGAGT
34710574 GGCCGATGGC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (50 bp):
GAGTTTAAGATAAAGCATGGAGTATCCGAGTGATATACATAGGAACTTTA
Found at i:34710531 original size:27 final size:27
Alignment explanation
Indices: 34710450--34710531 Score: 68
Period size: 27 Copynumber: 3.2 Consensus size: 27
34710440 ATTCTTCCAT
34710450 CGAGTTTAAGATAAAGCATGGAGTATC
1 CGAGTTTAAGATAAAGCATGGAGTATC
* * *
34710477 CGAG--T--GATATA-CATAGGAACT-TT
1 CGAGTTTAAGATAAAGCAT-GG-AGTATC
*
34710500 AGAGTTTAAGATAAAGCATGGAGTATC
1 CGAGTTTAAGATAAAGCATGGAGTATC
34710527 CGAGT
1 CGAGT
34710532 GATATCCATA
Statistics
Matches: 39, Mismatches: 8, Indels: 16
0.62 0.13 0.25
Matches are distributed among these distances:
22 3 0.08
23 11 0.28
24 2 0.05
25 2 0.05
26 2 0.05
27 16 0.41
28 3 0.08
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.27
Consensus pattern (27 bp):
CGAGTTTAAGATAAAGCATGGAGTATC
Found at i:34711017 original size:69 final size:69
Alignment explanation
Indices: 34710901--34711039 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
34710891 TCATTGCTCG
34710901 TCCCAAGCAATGCACAAATTGCAAAAGAAATTTAAGAAAGTCGCCTTTGAAAATTTTCTTCAAAA
1 TCCCAAGCAATGCACAAATTGCAAAAGAAATTTAAGAAAGTCGCCTTTGAAAATTTTCTTCAAAA
34710966 ATCA
66 ATCA
*
34710970 TCCCGAGCAATGCACAAATTGCAAAAGAAATTTAAGAAAGTCGCCTTTGAAAATTTTCTTCAAAA
1 TCCCAAGCAATGCACAAATTGCAAAAGAAATTTAAGAAAGTCGCCTTTGAAAATTTTCTTCAAAA
34711035 ATCA
66 ATCA
34711039 T
1 T
34711040 TTCCCACAAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (69 bp):
TCCCAAGCAATGCACAAATTGCAAAAGAAATTTAAGAAAGTCGCCTTTGAAAATTTTCTTCAAAA
ATCA
Found at i:34713196 original size:17 final size:18
Alignment explanation
Indices: 34713166--34713199 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34713156 GATCTCTAAG
*
34713166 CCTAAAAACTTAAAATAT
1 CCTAAAAACATAAAATAT
34713184 CCTAAAAA-ATAAAATA
1 CCTAAAAACATAAAATA
34713200 AAGTAAAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.24
Consensus pattern (18 bp):
CCTAAAAACATAAAATAT
Found at i:34717082 original size:19 final size:19
Alignment explanation
Indices: 34717058--34717115 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
34717048 CCTTTGTTTC
34717058 TTTATTTTACTTTAACATA
1 TTTATTTTACTTTAACATA
*
34717077 TTTATTTT-GTTT--C---
1 TTTATTTTACTTTAACATA
34717090 TTTATTTTACTTTAACATA
1 TTTATTTTACTTTAACATA
34717109 TTTATTT
1 TTTATTT
34717116 ACTAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
13 8 0.26
14 3 0.10
16 2 0.06
18 3 0.10
19 15 0.48
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATTTTACTTTAACATA
Found at i:34717091 original size:32 final size:32
Alignment explanation
Indices: 34717050--34717115 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
34717040 GATGATATCC
34717050 TTTGTTTCTTTATTTTACTTTAACATATTTAT
1 TTTGTTTCTTTATTTTACTTTAACATATTTAT
34717082 TTTGTTTCTTTATTTTACTTTAACATATTTAT
1 TTTGTTTCTTTATTTTACTTTAACATATTTAT
34717114 TT
1 TT
34717116 ACTAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.09, G:0.03, T:0.67
Consensus pattern (32 bp):
TTTGTTTCTTTATTTTACTTTAACATATTTAT
Found at i:34718526 original size:22 final size:22
Alignment explanation
Indices: 34718495--34718572 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
34718485 ACCATCTCTT
* * *
34718495 TAACGAACTAAACCCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
34718517 TAACGTACTAAGCTCTCATGGC
1 TAACGTACTAAGCTCTCATGGC
**
34718539 TAACGTACTAAGCTCTCATGTT
1 TAACGTACTAAGCTCTCATGGC
*
34718561 TCACGTACTAAG
1 TAACGTACTAAG
34718573 ATGACAGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (22 bp):
TAACGTACTAAGCTCTCATGGC
Found at i:34725832 original size:42 final size:42
Alignment explanation
Indices: 34725773--34725863 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
34725763 TTACATCATG
34725773 GCTCACACGAGCTGTGGCTCAGAATGTAAGCTACACGATACT
1 GCTCACACGAGCTGTGGCTCAGAATGTAAGCTACACGATACT
*
34725815 GCTCACACGAGCTGTGGCTCAGAATGTAAGCTACACGATGCT
1 GCTCACACGAGCTGTGGCTCAGAATGTAAGCTACACGATACT
34725857 GCTCACA
1 GCTCACA
34725864 TGAGTTATGG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (42 bp):
GCTCACACGAGCTGTGGCTCAGAATGTAAGCTACACGATACT
Found at i:34738111 original size:26 final size:27
Alignment explanation
Indices: 34738082--34738132 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
34738072 GATCGTAATG
34738082 CCCTTAGAAGGTAAATGACT-ATTTTA
1 CCCTTAGAAGGTAAATGACTGATTTTA
*
34738108 CCCTTCGAAGGTAAATGACTGATTT
1 CCCTTAGAAGGTAAATGACTGATTT
34738133 GTGCTATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (27 bp):
CCCTTAGAAGGTAAATGACTGATTTTA
Found at i:34738881 original size:17 final size:17
Alignment explanation
Indices: 34738859--34738891 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
34738849 TTCAAGAAGG
34738859 GTTTTTAATGAAAACAT
1 GTTTTTAATGAAAACAT
34738876 GTTTTTAATGAAAACA
1 GTTTTTAATGAAAACA
34738892 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (17 bp):
GTTTTTAATGAAAACAT
Found at i:34739118 original size:44 final size:43
Alignment explanation
Indices: 34738972--34739144 Score: 162
Period size: 43 Copynumber: 4.0 Consensus size: 43
34738962 AAAGCTCGTA
* *
34738972 CGATGCCAACGTCCCAGATC-TGGTCTTACA-TGTAATC-AACTAT
1 CGATGCCAACGTCCCAGA-CATGGTCTTACACT-AAATCTCA-TAT
*
34739015 CGATGCC-ACTGTCCCAGACA-GTGTCTTACACGAAA--TCATAT
1 CGATGCCAAC-GTCCCAGACATG-GTCTTACACTAAATCTCATAT
* *
34739056 ACGATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAGAT
1 -CGATGCCAACGTCCCAGACATGGTCTTACAC-TAAATCTCATAT
* * *
34739101 CGATGCCAACGTCCCAGACGTGGTCTTACACCAAATCACATAT
1 CGATGCCAACGTCCCAGACATGGTCTTACACTAAATCTCATAT
34739144 C
1 C
34739145 AGAGTCCTAT
Statistics
Matches: 108, Mismatches: 11, Indels: 22
0.77 0.08 0.16
Matches are distributed among these distances:
41 3 0.03
42 31 0.29
43 40 0.37
44 29 0.27
45 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACATGGTCTTACACTAAATCTCATAT
Found at i:34739127 original size:86 final size:85
Alignment explanation
Indices: 34738970--34739138 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 85
34738960 GAAAAGCTCG
** *
34738970 TACGATGCCAACGTCCCAGATCTGGTCTTACATGTAATCAACTATCGATGCCACTGTCCCAGACA
1 TACGATGCCAACGTCCCAGATCTGGTCTTACACATAATCAACGATCGATGCCACTGTCCCAGACA
*
34739035 GTGTCTTACACGAAATCATA
66 GTGTCTTACACCAAATCATA
* *
34739055 TACGATGCCAATGTCCCAGA-CATGGTCTTACACATAAATC-TCAGATCGATGCCAAC-GTCCCA
1 TACGATGCCAACGTCCCAGATC-TGGTCTTACACAT-AATCAAC-GATCGATGCC-ACTGTCCCA
34739117 GAC-GTGGTCTTACACCAAATCA
62 GACAGT-GTCTTACACCAAATCA
34739139 CATATCAGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
84 1 0.01
85 33 0.45
86 37 0.51
87 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (85 bp):
TACGATGCCAACGTCCCAGATCTGGTCTTACACATAATCAACGATCGATGCCACTGTCCCAGACA
GTGTCTTACACCAAATCATA
Found at i:34742152 original size:50 final size:50
Alignment explanation
Indices: 34742073--34742309 Score: 232
Period size: 50 Copynumber: 4.8 Consensus size: 50
34742063 TTTGGGTAAG
* * * * * *
34742073 GAGGTCCCATGTAAGACTATGTTTAGGACATGGCGTTGGCATTGAGATAA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATAA
* *
34742123 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTAAGATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATAA
** * * * * *
34742173 GAGGTCCCCCGTAAGACCATGTCTGAGACATGGCATGGGCACCAATATGA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATAA
** * * *
34742223 GAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAA-A-AA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATAA
* *
34742271 -A-ATCCCATGTAAGACCATGTCTGGAACATGG-ATTTGGCA
1 GAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
34742310 TGTTATTATC
Statistics
Matches: 158, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
45 1 0.01
46 32 0.20
47 1 0.01
48 1 0.01
49 1 0.01
50 122 0.77
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (50 bp):
GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTAAGATAA
Found at i:34742865 original size:16 final size:16
Alignment explanation
Indices: 34742844--34742876 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34742834 TAAATATGTG
34742844 ATAATTTTTAGCTACT
1 ATAATTTTTAGCTACT
34742860 ATAATTTTTAGCTACT
1 ATAATTTTTAGCTACT
34742876 A
1 A
34742877 AAATGGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.06, T:0.48
Consensus pattern (16 bp):
ATAATTTTTAGCTACT
Found at i:34755295 original size:42 final size:43
Alignment explanation
Indices: 34755191--34755356 Score: 153
Period size: 43 Copynumber: 3.9 Consensus size: 43
34755181 AAAGCACGTA
* * *
34755191 CGATGCCAACGTCTCAGACGTGGTCTTACATGTAATCA-ACTAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCATA-TAT
* *
34755234 CGATGCC-ACTGTACTAGACAG-GGTCTTACACGAAATCATATA-
1 CGATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAATCATATAT
* * * *
34755276 CGATGCCAATGTCCCAGACATGGTCTTACACATAAATC-TCAAAT
1 CGATGCCAACGTCCCAGACGTGGTCTTACAC-GAAATCAT-ATAT
* *
34755320 CAATGCCAACGTCCCAGACGTGGTCTTACATGAAATC
1 CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATC
34755357 GCATATCAGA
Statistics
Matches: 99, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
42 27 0.27
43 43 0.43
44 29 0.29
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
CGATGCCAACGTCCCAGACGTGGTCTTACACGAAATCATATAT
Found at i:34757416 original size:20 final size:20
Alignment explanation
Indices: 34757401--34757443 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
34757391 TTTACTCTTT
34757401 TATGAGTCATTTTACTAATC
1 TATGAGTCATTTTACTAATC
34757421 TATGAGTCATTTTACTAACTC
1 TATGAGTCATTTTACTAA-TC
34757442 TA
1 TA
34757444 AACATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (20 bp):
TATGAGTCATTTTACTAATC
Found at i:34757545 original size:27 final size:27
Alignment explanation
Indices: 34757511--34757575 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
34757501 TAAGCTTAAC
* **
34757511 AAACACATTTGCGAACCTAGTTCGTCA
1 AAACACATTTGCGAACATAGTTCACCA
* * *
34757538 AAATACATCTGTGAACATAGTTCACCA
1 AAACACATTTGCGAACATAGTTCACCA
34757565 AAACACATTTG
1 AAACACATTTG
34757576 ATCTGTCGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.26
Consensus pattern (27 bp):
AAACACATTTGCGAACATAGTTCACCA
Found at i:34761456 original size:10 final size:10
Alignment explanation
Indices: 34761433--34761497 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
34761423 AGTTTTTCCC
*
34761433 AGCTCGATTT
1 AGCTCAATTT
* *
34761443 AGCTCACTTG
1 AGCTCAATTT
*
34761453 AGCTTAATTT
1 AGCTCAATTT
*
34761463 AGCTC-GTTT
1 AGCTCAATTT
34761472 GAGCTCAATTT
1 -AGCTCAATTT
* *
34761483 AGCTTACTTT
1 AGCTCAATTT
34761493 AGCTC
1 AGCTC
34761498 GTTTGAGCTT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
9 3 0.07
10 35 0.85
11 3 0.07
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (10 bp):
AGCTCAATTT
Found at i:34761456 original size:20 final size:20
Alignment explanation
Indices: 34761433--34761497 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
34761423 AGTTTTTCCC
*
34761433 AGCTCGATTTAGCTCACTTG
1 AGCTCAATTTAGCTCACTTG
* **
34761453 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACTTG
* *
34761473 AGCTCAATTTAGCTTACTTT
1 AGCTCAATTTAGCTCACTTG
34761493 AGCTC
1 AGCTC
34761498 GTTTGAGCTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACTTG
Found at i:34761468 original size:30 final size:30
Alignment explanation
Indices: 34761433--34761506 Score: 105
Period size: 30 Copynumber: 2.5 Consensus size: 30
34761423 AGTTTTTCCC
*
34761433 AGCTCGATTT-AGCTCACTTGAGCTTAATTT
1 AGCTCG-TTTGAGCTCAATTGAGCTTAATTT
* *
34761463 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
34761493 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
34761507 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 3 0.08
30 37 0.93
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Done.