Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 31 of 211
Found at i:9134778 original size:3 final size:3
Alignment explanation
Indices: 9134770--9134853 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
9134760 TTTATTTTCT
9134770 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9134818 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9134854 ACTCAACCCA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:9138244 original size:3 final size:3
Alignment explanation
Indices: 9138236--9138268 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
9138226 GGTATAATGC
*
9138236 TGT TGT TGT TGT TGT TGT TGT TGT TGT TAT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
9138269 GAGCTTCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:9138638 original size:15 final size:15
Alignment explanation
Indices: 9138618--9138657 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
9138608 ATGTCTAGAA
9138618 GATTAGATTGGATTG
1 GATTAGATTGGATTG
9138633 GATTAGATTGGATTG
1 GATTAGATTGGATTG
*
9138648 GACTAGATTG
1 GATTAGATTG
9138658 AATCGTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.28, C:0.03, G:0.33, T:0.38
Consensus pattern (15 bp):
GATTAGATTGGATTG
Found at i:9138761 original size:5 final size:5
Alignment explanation
Indices: 9138751--9138833 Score: 166
Period size: 5 Copynumber: 16.6 Consensus size: 5
9138741 CTTGGAGTGT
9138751 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
9138801 TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTA
9138834 AGCTATTTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 78 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:9140428 original size:30 final size:30
Alignment explanation
Indices: 9140394--9140456 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
9140384 ATTTATTTTA
*
9140394 TTGTTAATTTTCTTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
9140424 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
9140454 TTG
1 TTG
9140457 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:9150264 original size:20 final size:22
Alignment explanation
Indices: 9150239--9150278 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9150229 TGAAACGTTG
9150239 TAGCAT-A-TAAATTGTATATA
1 TAGCATGAGTAAATTGTATATA
*
9150259 TAGCATGAGTAAATTTTATA
1 TAGCATGAGTAAATTGTATA
9150279 AGCTAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
TAGCATGAGTAAATTGTATATA
Found at i:9153657 original size:14 final size:13
Alignment explanation
Indices: 9153623--9153662 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
9153613 ATGGATGGTT
*
9153623 TTATTTTGTTGGA
1 TTATTTTGATGGA
*
9153636 TCATTTTGATGGA
1 TTATTTTGATGGA
9153649 TGTATTTTGATGGA
1 T-TATTTTGATGGA
9153663 CGGTTTAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.20, C:0.03, G:0.25, T:0.53
Consensus pattern (13 bp):
TTATTTTGATGGA
Found at i:9153668 original size:45 final size:45
Alignment explanation
Indices: 9153612--9153708 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
9153602 GTTAACATAC
* * * *
9153612 GATGGATGGTTTTATTTTGTTGGATCATTTTGATGGATGTATTTT
1 GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGATGTATTTT
* *
9153657 GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGTTTTATTTT
1 GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGATGTATTTT
9153702 GATGGAC
1 GATGGAC
9153709 AATTTATATT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.20, C:0.05, G:0.26, T:0.49
Consensus pattern (45 bp):
GATGGACGGTTTAATTTTGTTGAATCATTCTGATGGATGTATTTT
Found at i:9160763 original size:50 final size:50
Alignment explanation
Indices: 9160648--9160890 Score: 319
Period size: 50 Copynumber: 4.8 Consensus size: 50
9160638 GATCATAACA
* ** *
9160648 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
9160699 TGCCCATGCCATGTCCCAGACATGGTCTTA-A-GAGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG-G-GACCTCTCATCTCGG
* *
9160749 TTCCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
9160799 TGCCAACGCCATATCCCAAACATGGTCTTACATGGGAGCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
9160849 TGCCAACGCCATGTCCCAGACAGGGTCTTAAATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
9160891 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 134 0.80
51 32 0.19
52 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:9161264 original size:29 final size:30
Alignment explanation
Indices: 9161226--9161285 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9161216 GCCCTCGACT
*
9161226 CTAAA-TTTTTCAAAATTACAATTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
* *
9161255 CTAAACTTTTACATAATTACATTTTTGCCC
1 CTAAACTTTTACAAAATTACAATTTTGCCC
9161285 C
1 C
9161286 AAGGCTCGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (30 bp):
CTAAACTTTTACAAAATTACAATTTTGCCC
Found at i:9162908 original size:35 final size:35
Alignment explanation
Indices: 9162862--9162957 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
9162852 ATTACCCCTA
* * *
9162862 AGGACTTGTATACCGTTTACACGATGTCACCTCGT
1 AGGACTTGTATACCATTTACACGATGTCACCCCAT
9162897 AGGACTTGTATACCATTTACAC-AGTGTCACCCCAT
1 AGGACTTGTATACCATTTACACGA-TGTCACCCCAT
*
9162932 AGGCCTATG--TACCATTTACACGATGT
1 AGGACT-TGTATACCATTTACACGATGT
9162958 TGCTTTGAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
34 16 0.30
35 36 0.67
36 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (35 bp):
AGGACTTGTATACCATTTACACGATGTCACCCCAT
Found at i:9164868 original size:26 final size:26
Alignment explanation
Indices: 9164794--9164902 Score: 110
Period size: 26 Copynumber: 4.2 Consensus size: 26
9164784 TCCAACCAAA
** *
9164794 TCAAACTCAAGGGACCTTTGACCAAC
1 TCAAACTCAAGGGACCTCGGACCCAC
***
9164820 TCAAACTCAAGGGTTATCGGACCCAC
1 TCAAACTCAAGGGACCTCGGACCCAC
* *
9164846 TCAAACTCAAAGGACCTCTGACCCATC
1 TCAAACTCAAGGGACCTCGGACCCA-C
** *
9164873 TTGAACTCAAGGGTCCTCGGACCCAC
1 TCAAACTCAAGGGACCTCGGACCCAC
9164899 TCAA
1 TCAA
9164903 TCTTGTTAGG
Statistics
Matches: 64, Mismatches: 18, Indels: 2
0.76 0.21 0.02
Matches are distributed among these distances:
26 43 0.67
27 21 0.33
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (26 bp):
TCAAACTCAAGGGACCTCGGACCCAC
Found at i:9164898 original size:53 final size:52
Alignment explanation
Indices: 9164794--9164902 Score: 146
Period size: 53 Copynumber: 2.1 Consensus size: 52
9164784 TCCAACCAAA
* * *
9164794 TCAAACTCAAGGGACCTTTGACCAACTCAAACTCAAGGGTTATCGGACCCAC
1 TCAAACTCAAAGGACCTCTGACCAACTCAAACTCAAGGGTCATCGGACCCAC
* ** *
9164846 TCAAACTCAAAGGACCTCTGACCCATCTTGAACTCAAGGGTCCTCGGACCCAC
1 TCAAACTCAAAGGACCTCTGA-CCAACTCAAACTCAAGGGTCATCGGACCCAC
9164899 TCAA
1 TCAA
9164903 TCTTGTTAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 19 0.39
53 30 0.61
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (52 bp):
TCAAACTCAAAGGACCTCTGACCAACTCAAACTCAAGGGTCATCGGACCCAC
Found at i:9167887 original size:19 final size:17
Alignment explanation
Indices: 9167846--9167879 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9167836 CGACTTGCCC
9167846 TATTAATTTTTTATATT
1 TATTAATTTTTTATATT
*
9167863 TATTAATATTTTATATT
1 TATTAATTTTTTATATT
9167880 ATTTTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTAATTTTTTATATT
Found at i:9173488 original size:30 final size:30
Alignment explanation
Indices: 9173452--9173514 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
9173442 TTTATTTTAA
9173452 TTTTCTGTTTAGTTTTAATTCGTCTATTTC
1 TTTTCTGTTTAGTTTTAATTCGTCTATTTC
9173482 TTTTCTGTTTAGTTTTAATTCGTCTATTTC
1 TTTTCTGTTTAGTTTTAATTCGTCTATTTC
9173512 TTT
1 TTT
9173515 GGTAATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.13, C:0.13, G:0.10, T:0.65
Consensus pattern (30 bp):
TTTTCTGTTTAGTTTTAATTCGTCTATTTC
Found at i:9185730 original size:20 final size:18
Alignment explanation
Indices: 9185713--9185768 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
9185703 CTTAAAAATT
9185713 ATCAAAATATTATAAAAA
1 ATCAAAATATTATAAAAA
9185731 AT-AGAAAT-TTATAAAAAAA
1 ATCA-AAATATTAT--AAAAA
*
9185750 ATCTATAATATTATAAAAA
1 ATC-AAAATATTATAAAAA
9185769 CAAAAAATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
17 5 0.16
18 6 0.19
19 12 0.39
20 3 0.10
21 5 0.16
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (18 bp):
ATCAAAATATTATAAAAA
Found at i:9185732 original size:21 final size:20
Alignment explanation
Indices: 9185705--9185768 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 20
9185695 TATTTAAGCT
*
9185705 TAAAAATTATCAAAATATTA
1 TAAAAAATATCAAAATATTA
*
9185725 TAAAAAATA--GAAAT-TTA
1 TAAAAAATATCAAAATATTA
* *
9185742 TAAAAAAAATCTATAATATTA
1 TAAAAAATATC-AAAATATTA
9185763 TAAAAA
1 TAAAAA
9185769 CAAAAAATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 11 0.31
18 4 0.11
20 11 0.31
21 9 0.26
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAAAATATCAAAATATTA
Found at i:9187307 original size:13 final size:13
Alignment explanation
Indices: 9187286--9187336 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
9187276 ATACTCAAAT
9187286 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
9187299 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
* *
9187312 TTTTCTACAGCAC
1 TTTTCAAAAGCAC
9187325 TTTTCAAAAGCA
1 TTTTCAAAAGCA
9187337 ATGAAGAACT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:9193632 original size:13 final size:13
Alignment explanation
Indices: 9193614--9193646 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9193604 AATGGCATAA
9193614 AAATAATATAAAC-
1 AAATAA-ATAAACG
9193627 AAATAAATAAACG
1 AAATAAATAAACG
9193640 AAATAAA
1 AAATAAA
9193647 AAAAGCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:9194103 original size:24 final size:21
Alignment explanation
Indices: 9194076--9194129 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 21
9194066 TACATATATT
9194076 TAAAAAAATTAATATGAAAAAGAA
1 TAAAAAAATTAAT-T-AAAAA-AA
9194100 TAAAAAAA-TAATTAAAAAAA
1 TAAAAAAATTAATTAAAAAAA
9194120 TAAAGAAAAT
1 TAAA-AAAAT
9194130 GAAAAAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 6 0.21
21 9 0.32
22 1 0.04
23 4 0.14
24 8 0.29
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (21 bp):
TAAAAAAATTAATTAAAAAAA
Found at i:9194894 original size:20 final size:20
Alignment explanation
Indices: 9194865--9194911 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
9194855 TTTATGTACG
9194865 AATTAAAATAAAA-AACAATA
1 AATTAAAATAAAACAA-AATA
*
9194885 AATTAGAATAAAACAAAATA
1 AATTAAAATAAAACAAAATA
9194905 AA-TAAAA
1 AATTAAAA
9194912 AAATGCGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 18 0.75
21 2 0.08
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (20 bp):
AATTAAAATAAAACAAAATA
Found at i:9195680 original size:21 final size:21
Alignment explanation
Indices: 9195654--9195705 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
9195644 CATTGGTATT
* *
9195654 TCTAATCTCATTGCTGCAGTA
1 TCTAATCTCATCGCTACAGTA
*
9195675 TCTAATCTCGTCGCTACAGTA
1 TCTAATCTCATCGCTACAGTA
*
9195696 ACTAATCTCA
1 TCTAATCTCA
9195706 CCGCCACTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (21 bp):
TCTAATCTCATCGCTACAGTA
Found at i:9201449 original size:18 final size:17
Alignment explanation
Indices: 9201416--9201454 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9201406 TTGTATAAAT
9201416 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9201434 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9201451 TGTG
1 TGTG
9201455 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9201699 original size:23 final size:23
Alignment explanation
Indices: 9201672--9201747 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
9201662 AGTGTTATTG
9201672 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9201695 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9201718 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9201741 ATCAGTG
1 ATCAGTG
9201748 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9208764 original size:18 final size:17
Alignment explanation
Indices: 9208731--9208769 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9208721 TTGTATAAAT
9208731 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9208749 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9208766 TGTG
1 TGTG
9208770 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9208887 original size:8 final size:8
Alignment explanation
Indices: 9208874--9208902 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
9208864 CACTAGAGAC
9208874 CAGTGTTA
1 CAGTGTTA
9208882 CAGTGTTA
1 CAGTGTTA
9208890 CAGTGTTA
1 CAGTGTTA
9208898 CAGTG
1 CAGTG
9208903 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:9209016 original size:23 final size:23
Alignment explanation
Indices: 9208989--9209064 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
9208979 AGTGTTATTG
9208989 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
9209012 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9209035 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9209058 ATCAGTG
1 ATCAGTG
9209065 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9210549 original size:26 final size:26
Alignment explanation
Indices: 9210518--9210575 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
9210508 ATTACTTGAG
9210518 AAGCCTTAGTGGCGAAGTTATCTGG-A
1 AAGCCTTAGTGGC-AAGTTATCTGGAA
* *
9210544 AAGCCTTTGTGGCAAGTTATTTGGAA
1 AAGCCTTAGTGGCAAGTTATCTGGAA
9210570 AAGCCT
1 AAGCCT
9210576 ATATGACGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AAGCCTTAGTGGCAAGTTATCTGGAA
Found at i:9210568 original size:25 final size:25
Alignment explanation
Indices: 9210465--9210575 Score: 93
Period size: 25 Copynumber: 4.4 Consensus size: 25
9210455 GAAAACACAA
**
9210465 TGAAAGCCTTTGTGATG-AGTTATT
1 TGAAAGCCTTTGTGGCGAAGTTATT
* * *
9210489 TGAGAAGCCTATGTGGCGTA-TTACT
1 TGA-AAGCCTTTGTGGCGAAGTTATT
*
9210514 TGAGAAGCCTTAGTGGCGAAGTTATCT
1 TGA-AAGCCTTTGTGGCGAAGTTAT-T
*
9210541 GGAAAGCCTTTGTGGC-AAGTTATT
1 TGAAAGCCTTTGTGGCGAAGTTATT
9210565 TGGAAAAGCCT
1 T-G-AAAGCCT
9210576 ATATGACGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
24 4 0.06
25 40 0.57
26 23 0.33
27 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (25 bp):
TGAAAGCCTTTGTGGCGAAGTTATT
Found at i:9223412 original size:25 final size:25
Alignment explanation
Indices: 9223381--9223454 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 25
9223371 AGCCCTCTCT
*
9223381 CGAGCCATATAACAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCATC
* * * *
9223406 TGAGCCATGTAACGGGAAGCTTATC
1 CGAGCCATATAACAGGAAGCTCATC
* **
9223431 CGGGCTGTATAACAGGAAGCTCAT
1 CGAGCCATATAACAGGAAGCTCAT
9223455 AAGAGTCATA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCATC
Found at i:9223590 original size:25 final size:25
Alignment explanation
Indices: 9223555--9223635 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 25
9223545 AAGTTCAAGC
*
9223555 GAGCCA-T-ATCTGGAAACTTCAAA
1 GAGCCATTAATCTGGAAGCTTCAAA
9223578 GAGCCATTAATCTGGAAGC-TCATAAA
1 GAGCCATTAATCTGGAAGCTTC--AAA
* * *
9223604 GAGCCTTTAATCGGGAAGCTTCGAA
1 GAGCCATTAATCTGGAAGCTTCAAA
9223629 GAGCCAT
1 GAGCCAT
9223636 ATAACGGGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
23 6 0.12
24 3 0.06
25 17 0.35
26 20 0.42
27 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (25 bp):
GAGCCATTAATCTGGAAGCTTCAAA
Found at i:9225819 original size:10 final size:10
Alignment explanation
Indices: 9225800--9225829 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9225790 AATATCTCTA
*
9225800 GAAATATTTT
1 GAAATGTTTT
9225810 GAAATGTTTT
1 GAAATGTTTT
9225820 GAAATGTTTT
1 GAAATGTTTT
9225830 CTTCAAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (10 bp):
GAAATGTTTT
Found at i:9226058 original size:61 final size:58
Alignment explanation
Indices: 9225954--9226079 Score: 162
Period size: 61 Copynumber: 2.1 Consensus size: 58
9225944 AATCATTTTA
* * * *
9225954 ATATTAAATCAATATAATACTTACCAAGATAAGTATTAGATTAAATTTAATATTAAAT
1 ATATTAAATCAATAGAATACTTACCAAGATAAATATTAAATTAAATTAAATATTAAAT
* *
9226012 ATATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAAATTAAATATTAAAT
1 ATATTAAATCAATAGAATACTTA-C--CAAGATAAATATTAAATTAAATTAAATATTAAAT
*
9226073 TTATTAA
1 ATATTAA
9226080 TAATATTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
58 20 0.34
59 1 0.02
61 37 0.64
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.40
Consensus pattern (58 bp):
ATATTAAATCAATAGAATACTTACCAAGATAAATATTAAATTAAATTAAATATTAAAT
Found at i:9231206 original size:24 final size:24
Alignment explanation
Indices: 9231178--9231224 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
9231168 TGTTCTATGG
9231178 CAAAGGATGAATTGAAGGTAAATA
1 CAAAGGATGAATTGAAGGTAAATA
*
9231202 CAAAGGATGAATTGACGGTAAAT
1 CAAAGGATGAATTGAAGGTAAAT
9231225 TTCCCAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.06, G:0.26, T:0.21
Consensus pattern (24 bp):
CAAAGGATGAATTGAAGGTAAATA
Found at i:9233435 original size:17 final size:17
Alignment explanation
Indices: 9233413--9233447 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9233403 TTCTTATATG
9233413 AATTCAGGTACTAGCTT
1 AATTCAGGTACTAGCTT
*
9233430 AATTCATGTACTAGCTT
1 AATTCAGGTACTAGCTT
9233447 A
1 A
9233448 TTGAAGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (17 bp):
AATTCAGGTACTAGCTT
Found at i:9236133 original size:18 final size:17
Alignment explanation
Indices: 9236110--9236162 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
9236100 GTACAATTCA
9236110 AATAATTTATTTTAATTT
1 AATAATTTA-TTTAATTT
* *
9236128 AATAATATATTTCATTT
1 AATAATTTATTTAATTT
* *
9236145 AATTATTTTACTTAATTT
1 AA-TAATTTATTTAATTT
9236163 TTTATTTCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 9 0.32
18 19 0.68
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
AATAATTTATTTAATTT
Found at i:9240724 original size:87 final size:88
Alignment explanation
Indices: 9240589--9240792 Score: 279
Period size: 87 Copynumber: 2.3 Consensus size: 88
9240579 TTTTTATAAA
* * *
9240589 AAAAAAAGCAATTAAGCCCCTACTTTTTTCACACTCAATTGAGTACTTGAACTTTCAAAATGCAT
1 AAAAAAAGCAATTAAGCCCCTATTTTTTTAAAACTCAATTGAGTACTTGAACTTTCAAAATGCAT
* *
9240654 -AAAAAGGCCCTCGAACTTTTTC
66 CAAAAAGGCCCTCAAACTTTTCC
* *
9240676 AAATAAAAGCAACTAAGCCCCT-TTTTTTTAAAACTCAATTGGGTACTTGAACTTTCAAAATGCA
1 AAA-AAAAGCAATTAAGCCCCTATTTTTTTAAAACTCAATTGAGTACTTGAACTTTCAAAATGCA
*
9240740 TCAAAAAGGCTCTCAAACTTTTCC
65 TCAAAAAGGCCCTCAAACTTTTCC
* *
9240764 AAAAAAA-AAATTAAGCCCCTGCTTTTTTT
1 AAAAAAAGCAATTAAGCCCCT-ATTTTTTT
9240793 TTACATCCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
86 11 0.11
87 46 0.45
88 46 0.45
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (88 bp):
AAAAAAAGCAATTAAGCCCCTATTTTTTTAAAACTCAATTGAGTACTTGAACTTTCAAAATGCAT
CAAAAAGGCCCTCAAACTTTTCC
Found at i:9240759 original size:88 final size:87
Alignment explanation
Indices: 9240589--9240837 Score: 281
Period size: 88 Copynumber: 2.8 Consensus size: 87
9240579 TTTTTATAAA
* * *
9240589 AAAAAAAGCAATTAAGCCCCTACTTTTTTCACACTCAATTGAGTACTTGAACTTTCAAAATGCAT
1 AAAAAAAGCAATTAAGCCCCTA-TTTTTTTAAACTCAATTGGGTACTTGAACTTTCAAAATGCAT
* *
9240654 -AAAAAGGCCCTCGAACTTTTTC
65 CAAAAAGGCCCTCAAACTTTTCC
*
9240676 AAATAAAAGCAACTAAGCCCCT-TTTTTTTAAAACTCAATTGGGTACTTGAACTTTCAAAATGCA
1 AAA-AAAAGCAATTAAGCCCCTATTTTTTT-AAACTCAATTGGGTACTTGAACTTTCAAAATGCA
*
9240740 TCAAAAAGGCTCTCAAACTTTTCC
64 TCAAAAAGGCCCTCAAACTTTTCC
* * ** * *
9240764 AAAAAAA-AAATTAAGCCCCTGCTTTTTTTTTACATCCAATTAGGTACTTGAAC-TGCTAAAATG
1 AAAAAAAGCAATTAAGCCCCT-ATTTTTTTAAAC-T-CAATTGGGTACTTGAACTTTC-AAAATG
*
9240827 TATCAAAAAGG
62 CATCAAAAAGG
9240838 TCCTTTGACC
Statistics
Matches: 140, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
86 17 0.12
87 42 0.30
88 49 0.35
89 32 0.23
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (87 bp):
AAAAAAAGCAATTAAGCCCCTATTTTTTTAAACTCAATTGGGTACTTGAACTTTCAAAATGCATC
AAAAAGGCCCTCAAACTTTTCC
Found at i:9240832 original size:89 final size:86
Alignment explanation
Indices: 9240588--9240837 Score: 267
Period size: 89 Copynumber: 2.8 Consensus size: 86
9240578 CTTTTTATAA
*
9240588 AAAAAAAAGCAATTAAGCCCCTAC-TTTTTTCACACTCAATTGAGTACTTGAACTTTCAAAATGC
1 AAAAAAAA--AATTAAGCCCCT-CTTTTTTTTACACTCAATTG-GTACTTGAACTTTCAAAATGC
* *
9240652 AT-AAAAAGGCCCTCGAACTTTTTC
62 ATCAAAAAGGCCCTCAAACTTTTCC
* * * *
9240676 AAATAAAAGCAACTAAGCCCCT-TTTTTTTAAAACTCAATTGGGTACTTGAACTTTCAAAATGCA
1 AAA-AAAA-AAATTAAGCCCCTCTTTTTTTTACACTCAATT-GGTACTTGAACTTTCAAAATGCA
*
9240740 TCAAAAAGGCTCTCAAACTTTTCC
63 TCAAAAAGGCCCTCAAACTTTTCC
*
9240764 AAAAAAAAAATTAAGCCCCTGCTTTTTTTTTACA-TCCAATTAGGTACTTGAAC-TGCTAAAATG
1 AAAAAAAAAATTAAGCCCCT-C-TTTTTTTTACACT-CAATT-GGTACTTGAACTTTC-AAAATG
*
9240827 TATCAAAAAGG
61 CATCAAAAAGG
9240838 TCCTTTGACC
Statistics
Matches: 138, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
86 11 0.08
87 42 0.30
88 40 0.29
89 45 0.33
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.30
Consensus pattern (86 bp):
AAAAAAAAAATTAAGCCCCTCTTTTTTTTACACTCAATTGGTACTTGAACTTTCAAAATGCATCA
AAAAGGCCCTCAAACTTTTCC
Found at i:9241002 original size:22 final size:23
Alignment explanation
Indices: 9240971--9241018 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9240961 TAAAAGTTAT
* *
9240971 AAAAATTA-TTAATTTTTAATAA
1 AAAAAATATTTAAATTTTAATAA
*
9240993 AAAAAATATTTAAATTTTATTAA
1 AAAAAATATTTAAATTTTAATAA
9241016 AAA
1 AAA
9241019 TTAGAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAAATATTTAAATTTTAATAA
Found at i:9241047 original size:19 final size:19
Alignment explanation
Indices: 9241025--9241076 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
9241015 AAAATTAGAA
*
9241025 AAAAAATTTAAAAAATTGT
1 AAAAAATTTAAAAAATCGT
* *
9241044 -AAAATTTTATAAATATCGT
1 AAAAAATTTA-AAAAATCGT
9241063 AAAAAATTATAAAA
1 AAAAAATT-TAAAA
9241077 TGCATAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 8 0.31
19 7 0.27
20 9 0.35
21 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
AAAAAATTTAAAAAATCGT
Found at i:9241272 original size:9 final size:9
Alignment explanation
Indices: 9241258--9241510 Score: 57
Period size: 9 Copynumber: 26.0 Consensus size: 9
9241248 TTTTGATACG
9241258 ATAATTTTT
1 ATAATTTTT
9241267 ATAATTTTTT
1 ATAA-TTTTT
* *
9241277 TTACGAATTTT
1 ATA--ATTTTT
*
9241288 ATATTTCTTT
1 ATAATT-TTT
* *
9241298 ACATTTTTT
1 ATAATTTTT
9241307 ATAATTTTCT
1 ATAATTTT-T
*
9241317 -TACGACTTTAT
1 ATA--A-TTTTT
*
9241328 AAAAT-TTT
1 ATAATTTTT
9241336 ATAATTTTT
1 ATAATTTTT
*
9241345 TTCAATATTTCT
1 AT-AAT-TTT-T
9241357 AT-ATATTTT
1 ATAAT-TTTT
9241366 ATAATTTTTTT
1 ATAA--TTTTT
*
9241377 ATGATTTTT
1 ATAATTTTT
9241386 ATAAATTTTTT
1 AT-AA-TTTTT
*
9241397 TTCAATTTTTTT
1 AT-AA--TTTTT
*
9241409 ATAATTTGT
1 ATAATTTTT
9241418 ATAATTTTT
1 ATAATTTTT
*
9241427 CT-ATTTTT
1 ATAATTTTT
*
9241435 AATATTTTTT
1 -ATAATTTTT
* *
9241445 TTCTATTTTT
1 AT-AATTTTT
* *
9241455 ATTAAAATTTA
1 A-T-AATTTTT
9241466 ATAATTTTT
1 ATAATTTTT
* *
9241475 ATAACTTCT
1 ATAATTTTT
*
9241484 ATTGATTTTT
1 A-TAATTTTT
*
9241494 AT-TTTTTT
1 ATAATTTTT
*
9241502 ATCATTTTT
1 ATAATTTTT
9241511 CCCACATGTT
Statistics
Matches: 178, Mismatches: 41, Indels: 50
0.66 0.15 0.19
Matches are distributed among these distances:
8 19 0.11
9 65 0.37
10 45 0.25
11 34 0.19
12 15 0.08
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (9 bp):
ATAATTTTT
Found at i:9241317 original size:21 final size:21
Alignment explanation
Indices: 9241261--9241335 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
9241251 TGATACGATA
*
9241261 ATTTTTATAATTTTTTTTACG
1 ATTTTTATAATTTTCTTTACG
*
9241282 AATTTTAT-A-TTTCTTTAC-
1 ATTTTTATAATTTTCTTTACG
9241300 ATTTTTTATAATTTTC-TTACG
1 A-TTTTTATAATTTTCTTTACG
* *
9241321 ACTTTATAAAATTTT
1 A-TTTTTATAATTTT
9241336 ATAATTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.02
19 14 0.32
20 6 0.14
21 23 0.52
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (21 bp):
ATTTTTATAATTTTCTTTACG
Found at i:9241343 original size:39 final size:39
Alignment explanation
Indices: 9241258--9241345 Score: 92
Period size: 39 Copynumber: 2.3 Consensus size: 39
9241248 TTTTGATACG
* *
9241258 ATAA-TTTTTATAATTTTTTTTACGAATTTTATATTTCT
1 ATAATTTTTTATAATTTTTCTTACGAATTTTAAATTTCT
* *
9241296 TTACATTTTTTATAA-TTTTCTTACGACTTTATAAAATTT-T
1 ATA-ATTTTTTATAATTTTTCTTACGAATTT-T-AAATTTCT
9241336 ATAATTTTTT
1 ATAATTTTTT
9241346 TCAATATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
38 2 0.05
39 21 0.51
40 13 0.32
41 5 0.12
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (39 bp):
ATAATTTTTTATAATTTTTCTTACGAATTTTAAATTTCT
Found at i:9241378 original size:11 final size:11
Alignment explanation
Indices: 9241332--9241415 Score: 70
Period size: 11 Copynumber: 8.0 Consensus size: 11
9241322 CTTTATAAAA
9241332 TTTTATAATTT
1 TTTTATAATTT
* *
9241343 TTTT-CAATAT
1 TTTTATAATTT
* *
9241353 TTCTAT-A-TA
1 TTTTATAATTT
9241362 TTTTATAATTT
1 TTTTATAATTT
*
9241373 TTTTATGATTT
1 TTTTATAATTT
*
9241384 TTATA-AATTT
1 TTTTATAATTT
9241394 TTTT-TCAATTT
1 TTTTAT-AATTT
9241405 TTTTATAATTT
1 TTTTATAATTT
9241416 GTATAATTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
9 5 0.09
10 16 0.29
11 33 0.60
12 1 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:9241383 original size:29 final size:29
Alignment explanation
Indices: 9241303--9241434 Score: 101
Period size: 30 Copynumber: 4.4 Consensus size: 29
9241293 TCTTTACATT
* * * *
9241303 TTTTATAATTTTCTTACGACTTTATAAAA
1 TTTTATAATTTTTTTATGATTTTATAATA
9241332 TTTTATAATTTTTTTCAAT-ATTTCTAT-ATA
1 TTTTATAATTTTTTT--ATGATTT-TATAATA
*
9241362 TTTTATAATTTTTTTATGATTTTTATAAATT
1 TTTTATAATTTTTTTATGA-TTTTAT-AATA
* *
9241393 TTTTTTCAATTTTTTTATAATTTGTATAAT-
1 TTTTAT-AATTTTTTTATGATTT-TATAATA
*
9241423 TTTTCT-ATTTTT
1 TTTTATAATTTTT
9241435 AATATTTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 19
0.76 0.07 0.17
Matches are distributed among these distances:
28 8 0.09
29 18 0.21
30 28 0.33
31 17 0.20
32 15 0.17
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTTATAATTTTTTTATGATTTTATAATA
Found at i:9241404 original size:21 final size:21
Alignment explanation
Indices: 9241258--9241415 Score: 66
Period size: 21 Copynumber: 7.8 Consensus size: 21
9241248 TTTTGATACG
*
9241258 ATAATTTTTATAATTTTTTTT
1 ATAATTTTTATAAATTTTTTT
* *
9241279 ACGAA-TTTTAT--ATTTCTTT
1 A-TAATTTTTATAAATTTTTTT
* * *
9241298 ACATTTTTTAT-AATTTTCTT
1 ATAATTTTTATAAATTTTTTT
** * *
9241318 ACGA-CTTTATAAA--ATTTT
1 ATAATTTTTATAAATTTTTTT
* * * *
9241336 ATAATTTTTTTCAATATTTCT
1 ATAATTTTTATAAATTTTTTT
9241357 AT-ATATTTTAT-AATTTTTTT
1 ATAAT-TTTTATAAATTTTTTT
*
9241377 ATGATTTTTATAAATTTTTTT
1 ATAATTTTTATAAATTTTTTT
*
9241398 -TCAATTTTTTTATAATTT
1 AT-AATTTTTATA-AATTT
9241416 GTATAATTTT
Statistics
Matches: 101, Mismatches: 24, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
18 6 0.06
19 24 0.24
20 28 0.28
21 36 0.36
22 7 0.07
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (21 bp):
ATAATTTTTATAAATTTTTTT
Found at i:9241770 original size:89 final size:86
Alignment explanation
Indices: 9241607--9241873 Score: 347
Period size: 89 Copynumber: 3.0 Consensus size: 86
9241597 TAACGGTAAA
** * * * *
9241607 AGGGCCTTTTTGATGCATTTTGGCAGTTCAAGTACCCAATTGGGCGCAAAAAAAAAGTGCTTAAT
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGGGGCTTAAT
*
9241672 TGCTTTTTTTTTTGAAAAATTTTG
66 TG---TTTTTTTTGAAAAAATTTG
* *
9241696 AGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTACCTAATTGAGTGCAAAAAAAGCAGGGGGCTT
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAA--A-GGGGCTT
* * *
9241761 AGTTGTTTTTCTTGAAAAAGTTTG
63 AATTGTTTTTTTTGAAAAAATTTG
*
9241785 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC-AAAAAAAGGGGCCTAAT
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGGGGCTTAAT
*
9241849 TGTATTTTTTGAAAAAATTTG
66 TGTTTTTTTTGAAAAAATTTG
9241870 AGGG
1 AGGG
9241874 TTTTTTACAC
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
85 30 0.19
86 1 0.01
88 6 0.04
89 110 0.70
91 1 0.01
92 9 0.06
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.36
Consensus pattern (86 bp):
AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAGGGGCTTAAT
TGTTTTTTTTGAAAAAATTTG
Found at i:9253764 original size:29 final size:30
Alignment explanation
Indices: 9253705--9253762 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9253695 TCCGAGCCTT
*
9253705 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
9253735 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
9253763 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:9253992 original size:13 final size:13
Alignment explanation
Indices: 9253974--9254005 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9253964 TTTCCAGCAA
9253974 TTATGAATTTATT
1 TTATGAATTTATT
9253987 TTATGAATTTATT
1 TTATGAATTTATT
*
9254000 TGATGA
1 TTATGA
9254006 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:9254213 original size:50 final size:50
Alignment explanation
Indices: 9254100--9254341 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
9254090 ATTTGGGTAA
* * *
9254100 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
9254156 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
9254206 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
9254256 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
9254306 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
9254342 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:9254289 original size:100 final size:103
Alignment explanation
Indices: 9254100--9254349 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
9254090 ATTTGGGTAA
9254100 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
9254165 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
9254206 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
9254268 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
9254306 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
9254350 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:9261353 original size:29 final size:30
Alignment explanation
Indices: 9261294--9261351 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9261284 TCCGAGCCTT
*
9261294 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
9261324 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
9261352 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:9261581 original size:13 final size:13
Alignment explanation
Indices: 9261563--9261594 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
9261553 TTTCCAGCAA
9261563 TTATGAATTTATT
1 TTATGAATTTATT
9261576 TTATGAATTTATT
1 TTATGAATTTATT
*
9261589 TGATGA
1 TTATGA
9261595 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:9261802 original size:50 final size:50
Alignment explanation
Indices: 9261689--9261930 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
9261679 ATTTGGGTAA
* * *
9261689 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
9261745 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
9261795 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
9261845 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
9261895 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
9261931 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:9261878 original size:100 final size:103
Alignment explanation
Indices: 9261689--9261938 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
9261679 ATTTGGGTAA
9261689 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
9261754 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
9261795 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
9261857 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
9261895 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
9261939 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:9267379 original size:52 final size:52
Alignment explanation
Indices: 9267301--9267405 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
9267291 GTTCACAAGA
* *
9267301 TCAATTGGCAGATGTGATAACTAAAGCTCTCAAGTTGGATCAGTTCTTGAAG
1 TCAATTGGCAGATGTGATAACTAAAGCTCTCAAGTTGGATCAATTCTTAAAG
*
9267353 TCAATTGGCAGTTGTGATAACTAAAGCTCTCAAGTTGGATCAATTCTTAAAG
1 TCAATTGGCAGATGTGATAACTAAAGCTCTCAAGTTGGATCAATTCTTAAAG
9267405 T
1 T
9267406 TACGATAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (52 bp):
TCAATTGGCAGATGTGATAACTAAAGCTCTCAAGTTGGATCAATTCTTAAAG
Found at i:9276859 original size:38 final size:39
Alignment explanation
Indices: 9276817--9276897 Score: 98
Period size: 37 Copynumber: 2.1 Consensus size: 39
9276807 TTTTTATATT
*
9276817 ATTATATATTATG-ATTTTAGTAAATTCATA-TAATAATA
1 ATTATATATTAAGAATTTTAGTAAATT-ATATTAATAATA
*
9276855 A-T-TATATTAAGAATTTTATTAAATTATATTTAATAATA
1 ATTATATATTAAGAATTTTAGTAAATTATA-TTAATAATA
9276893 ATTAT
1 ATTAT
9276898 GTTAAAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
36 11 0.31
37 13 0.36
38 10 0.28
39 1 0.03
40 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (39 bp):
ATTATATATTAAGAATTTTAGTAAATTATATTAATAATA
Found at i:9277143 original size:45 final size:44
Alignment explanation
Indices: 9277057--9277143 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
9277047 TTACAACATC
9277057 ATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTTT
1 ATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTTT
*
9277101 ATTCCATTCAACCAAACA-ATTGAATTACTATTACAGTTCTATT
1 ATTCCATTCAACCAAACACA-AGAA-TACTATTACAGTTCTATT
9277144 CCATTACAGC
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 1 0.03
44 21 0.52
45 18 0.45
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.36
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTTT
Found at i:9277151 original size:16 final size:16
Alignment explanation
Indices: 9277130--9277185 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
9277120 TTGAATTACT
* *
9277130 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCA
9277146 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
9277162 ATTATAGCTCTATTCG
1 ATTACAGCTCTATTCA
9277178 ATTACAGC
1 ATTACAGC
9277186 GAACTAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:9288112 original size:49 final size:49
Alignment explanation
Indices: 9288017--9288113 Score: 113
Period size: 49 Copynumber: 2.0 Consensus size: 49
9288007 CAATGCGGAC
* ** * * * *
9288017 AAATATTGAAAGTTATCATTGCTAGGCAACCCGGGATGATAGAATAAAT
1 AAATATTAAAAGACATCATTGCTAGGCAACCCAGAATGACAAAATAAAT
* *
9288066 AAATATTAAAAGACATCGTTGCTAGGCAACCTAGAATGACAAAATAAA
1 AAATATTAAAAGACATCATTGCTAGGCAACCCAGAATGACAAAATAAA
9288114 GTATTCCTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (49 bp):
AAATATTAAAAGACATCATTGCTAGGCAACCCAGAATGACAAAATAAAT
Found at i:9291554 original size:73 final size:73
Alignment explanation
Indices: 9291402--9291569 Score: 194
Period size: 73 Copynumber: 2.3 Consensus size: 73
9291392 TGGTTCTTAC
* * * * *
9291402 GAGCTTCCCAATTATTGGCTCTCTTGAGCTTCCTATTTATGACTCTTATGAGCTTCCTATTATAC
1 GAGCTTCCCGA-TATTGGCTCACTTGAACTTCCTAATTACGACTCTTATGAGCTTCCTATTATAC
**
9291467 AGCTCGGAT
65 AGCTCACAT
* * *
9291476 TAGCTTCCCGATATTGGCTCACTTGAACTTCCTAATTACGACTCTTATGAGCTT-CTCGTTATAT
1 GAGCTTCCCGATATTGGCTCACTTGAACTTCCTAATTACGACTCTTATGAGCTTCCT-ATTATAC
*
9291540 GGCTCACAT
65 AGCTCACAT
*
9291549 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGATAT-TGGCTC
9291570 GAAAGAGCTT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
72 2 0.03
73 62 0.78
74 15 0.19
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.38
Consensus pattern (73 bp):
GAGCTTCCCGATATTGGCTCACTTGAACTTCCTAATTACGACTCTTATGAGCTTCCTATTATACA
GCTCACAT
Found at i:9291602 original size:25 final size:25
Alignment explanation
Indices: 9291521--9291602 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
9291511 TTACGACTCT
* *
9291521 TATGAGCTTCTCGTTATATGGCTCA
1 TATGAGCTTCCCGTTATATGGCTCG
*
9291546 CATGAGCTTCCCGTTATATGGCTCG
1 TATGAGCTTCCCGTTATATGGCTCG
* * *
9291571 AAAGAGCTTCCCATT-TATGTGCTCG
1 TATGAGCTTCCCGTTATATG-GCTCG
9291596 TATGAGC
1 TATGAGC
9291603 ATTTCCAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 4 0.08
25 44 0.92
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (25 bp):
TATGAGCTTCCCGTTATATGGCTCG
Found at i:9293550 original size:26 final size:26
Alignment explanation
Indices: 9293521--9293578 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
9293511 CCCGTTATGT
9293521 GGCTCTTCATGAGCTT-CTCAATTAAA
1 GGCTCTTCATGAGCTTCCT-AATTAAA
** *
9293547 GGCTCTTTGTGAGCTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCTAATTAAA
9293573 GGCTCT
1 GGCTCT
9293579 CTAGAGCTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTAATTAAA
Found at i:9298046 original size:25 final size:25
Alignment explanation
Indices: 9298013--9298180 Score: 100
Period size: 25 Copynumber: 6.8 Consensus size: 25
9298003 CAGATCTTAC
*
9298013 GAGCGTCCCGATATTTGGCTCTCTT
1 GAGCTTCCCGATATTTGGCTCTCTT
9298038 GAGCTTCCCG-T-TTATGGCTCT-TAT
1 GAGCTTCCCGATATT-TGGCTCTCT-T
* **
9298062 GAACTTCCCGAT-TTATGGCTCTCCG
1 GAGCTTCCCGATATT-TGGCTCTCTT
*
9298087 GAGCTTCCCGATA-TTGGCTCACTT
1 GAGCTTCCCGATATTTGGCTCTCTT
* * *
9298111 GAACTT-CCTA-ATTACGGCTCT-TAT
1 GAGCTTCCCGATATT-TGGCTCTCT-T
* * * * *
9298135 GAGCTTCTCGTTATATGGCTCACAT
1 GAGCTTCCCGATATTTGGCTCTCTT
* *
9298160 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGATATTTGGCTC
9298181 GAAAGAGCTT
Statistics
Matches: 111, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
22 1 0.01
23 8 0.07
24 41 0.37
25 59 0.53
26 2 0.02
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTCCCGATATTTGGCTCTCTT
Found at i:9298081 original size:49 final size:49
Alignment explanation
Indices: 9298018--9298180 Score: 140
Period size: 49 Copynumber: 3.3 Consensus size: 49
9298008 CTTACGAGCG
*
9298018 TCCCGATATT-TGGCTCTCTTGAGCTTCCCGTTTATGGCTCTTATGAACT
1 TCCCGAT-TTATGGCTCTCTTGAGCTTCCCGTTTATGGCTCATATGAACT
** *
9298067 TCCCGATTTATGGCTCTCCGGAGCTTCCCG-ATATTGGCTCACT-TGAACT
1 TCCCGATTTATGGCTCTCTTGAGCTTCCCGTTTA-TGGCTCA-TATGAACT
* * * * * *
9298116 T-CCTAATTACGGCTCT-TATGAGCTTCTCGTTATATGGCTCACATGAGCT
1 TCCCGATTTATGGCTCTCT-TGAGCTTCCCGTT-TATGGCTCATATGAACT
9298165 TCCCG-TTATATGGCTC
1 TCCCGATT-TATGGCTC
9298181 GAAAGAGCTT
Statistics
Matches: 89, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
48 25 0.28
49 52 0.58
50 12 0.13
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.37
Consensus pattern (49 bp):
TCCCGATTTATGGCTCTCTTGAGCTTCCCGTTTATGGCTCATATGAACT
Found at i:9298152 original size:73 final size:73
Alignment explanation
Indices: 9298013--9298180 Score: 185
Period size: 73 Copynumber: 2.3 Consensus size: 73
9298003 CAGATCTTAC
* * * ** *
9298013 GAGCGTCCCGATATTTGGCTCTCTTGAGCTTCCCGTTTATGGCTCTTATGAACTTCCCGATTTAT
1 GAGCTTCCCGATA-TTGGCTCACTTGAACTTCCCAATTACGGCTCTTATGAACTTCCCGATTTAT
* *
9298078 GGCTCTCCG
65 GGCTCACAG
* * *
9298087 GAGCTTCCCGATATTGGCTCACTTGAACTTCCTAATTACGGCTCTTATGAGCTTCTCG-TTATAT
1 GAGCTTCCCGATATTGGCTCACTTGAACTTCCCAATTACGGCTCTTATGAACTTCCCGATT-TAT
*
9298151 GGCTCACAT
65 GGCTCACAG
*
9298160 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGATAT-TGGCTC
9298181 GAAAGAGCTT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
72 2 0.03
73 59 0.75
74 18 0.23
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (73 bp):
GAGCTTCCCGATATTGGCTCACTTGAACTTCCCAATTACGGCTCTTATGAACTTCCCGATTTATG
GCTCACAG
Found at i:9298188 original size:25 final size:25
Alignment explanation
Indices: 9298135--9298193 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
9298125 CGGCTCTTAT
* *
9298135 GAGCTTCTCGTTATATGGCTCACAT
1 GAGCTTCCCGTTATATGGCTCACAA
9298160 GAGCTTCCCGTTATATGGCTCGA-AA
1 GAGCTTCCCGTTATATGGCTC-ACAA
9298185 GAGCTTCCC
1 GAGCTTCCC
9298194 ATTTATGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 30 0.97
26 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCACAA
Found at i:9298213 original size:25 final size:25
Alignment explanation
Indices: 9298133--9298213 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
9298123 TACGGCTCTT
* * *
9298133 ATGAGCTTCTCGTTATATGGCTC-A
1 ATGAGCTTCCCATTATATGACTCGA
* *
9298157 CATGAGCTTCCCGTTATATGGCTCGA
1 -ATGAGCTTCCCATTATATGACTCGA
* *
9298183 AAGAGCTTCCCATT-TATGTACTCGT
1 ATGAGCTTCCCATTATATG-ACTCGA
9298208 ATGAGC
1 ATGAGC
9298214 ATTTCCAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.08
25 43 0.90
26 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATGACTCGA
Found at i:9300530 original size:28 final size:28
Alignment explanation
Indices: 9300484--9300540 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
9300474 CCAACCTATC
* *
9300484 TAAAACAAGTCTATTTATAATAAGAAAA
1 TAAAACAAGTCCATCTATAATAAGAAAA
9300512 TAAAACAAGTCCATCTATAATAAGAAAA
1 TAAAACAAGTCCATCTATAATAAGAAAA
9300540 T
1 T
9300541 GGAGGAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (28 bp):
TAAAACAAGTCCATCTATAATAAGAAAA
Found at i:9302253 original size:20 final size:22
Alignment explanation
Indices: 9302219--9302259 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
9302209 ATCCCTAAAA
*
9302219 TTTTTAAAATTTTAAT-TTAAC
1 TTTTTAAAATCTTAATGTTAAC
9302240 TTTTTAAAA-CTTAATGTTAA
1 TTTTTAAAATCTTAATGTTAA
9302260 AATTGATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTTTAAAATCTTAATGTTAAC
Found at i:9304759 original size:23 final size:22
Alignment explanation
Indices: 9304720--9304765 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
9304710 AGTAATTATA
9304720 AAATAATTAGCTAAATAAACAAT
1 AAATAATTAGCTAAATAAA-AAT
*
9304743 AAATAATTA-CATCAATAAAAAT
1 AAATAATTAGC-TAAATAAAAAT
9304765 A
1 A
9304766 TTTAAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (22 bp):
AAATAATTAGCTAAATAAAAAT
Found at i:9309218 original size:38 final size:38
Alignment explanation
Indices: 9309172--9309252 Score: 155
Period size: 38 Copynumber: 2.2 Consensus size: 38
9309162 AGAGAAAAAG
9309172 AATG-ATTGATTTTGATTCTACAAATAGACATTCTAAC
1 AATGAATTGATTTTGATTCTACAAATAGACATTCTAAC
9309209 AATGAATTGATTTTGATTCTACAAATAGACATTCTAAC
1 AATGAATTGATTTTGATTCTACAAATAGACATTCTAAC
9309247 AATGAA
1 AATGAA
9309253 GCAAAGGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.09
38 39 0.91
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (38 bp):
AATGAATTGATTTTGATTCTACAAATAGACATTCTAAC
Found at i:9309292 original size:18 final size:18
Alignment explanation
Indices: 9309266--9309301 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9309256 AAGGAAATAC
*
9309266 AAATGAAAAAAGAGAAAT
1 AAATAAAAAAAGAGAAAT
*
9309284 AAATAAAAAGAGAGAAAT
1 AAATAAAAAAAGAGAAAT
9309302 TATCATTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (18 bp):
AAATAAAAAAAGAGAAAT
Found at i:9323415 original size:25 final size:25
Alignment explanation
Indices: 9323387--9323436 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
9323377 TAAGAAGAAG
9323387 TTATTATTGGAGAAGAGAATTCTTC
1 TTATTATTGGAGAAGAGAATTCTTC
*
9323412 TTATTCTTGGAGAAGAGAATTCTTC
1 TTATTATTGGAGAAGAGAATTCTTC
9323437 ATTTGTGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (25 bp):
TTATTATTGGAGAAGAGAATTCTTC
Found at i:9324054 original size:89 final size:89
Alignment explanation
Indices: 9323893--9324159 Score: 338
Period size: 89 Copynumber: 3.0 Consensus size: 89
9323883 AACAGATTAG
* *
9323893 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACATCAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTTCCT
9323958 CCCTGGGTTTACAGCGGAGTAGGC
66 CCCTGGGTTTACAGCGGAGTAGGC
* * * * * * *
9323982 TGAAAATAGCAGATCTTGCCTTCTTGTACTAACAGCGAAGCATATTGAATACACCAGCCTTTCCT
1 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTTCCT
* * * *
9324047 CCTTGGGTTTTCAGCGGAGCAGAC
66 CCCTGGGTTTACAGCGGAGTAGGC
* * * * *
9324071 TGAAGATAGCAAATCTTACTTTCCTATACTGACAGCGAAGGAGATCGAAGGCACCAGCCTTGT-C
1 TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTT-TCC
* *
9324135 TCCCTGGGTTTGCAGTGGAGTAGGC
65 TCCCTGGGTTTACAGCGGAGTAGGC
9324160 AGATCTTTCC
Statistics
Matches: 147, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
89 146 0.99
90 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (89 bp):
TGAAGATAGCAGATCTTGCCTTCCTATACTGACAGCGAAGCAGATCGAAGACACCAGCCTTTCCT
CCCTGGGTTTACAGCGGAGTAGGC
Found at i:9326013 original size:21 final size:21
Alignment explanation
Indices: 9325987--9326027 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
9325977 GAACTTTTTT
9325987 TATTATCATTGTAATTATTAA
1 TATTATCATTGTAATTATTAA
*
9326008 TATTATTATTGTAATTATTA
1 TATTATCATTGTAATTATTA
9326028 CTTATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TATTATCATTGTAATTATTAA
Found at i:9336382 original size:21 final size:22
Alignment explanation
Indices: 9336356--9336402 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9336346 CTCTGCTCAA
*
9336356 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
9336377 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
9336399 ACTC
1 ACTC
9336403 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:9345290 original size:17 final size:18
Alignment explanation
Indices: 9345253--9345298 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
9345243 TCAACTTTAA
*
9345253 CCTTTAACCTTTCATCTT
1 CCTTAAACCTTTCATCTT
9345271 CCTTAAACCTTTCATC-T
1 CCTTAAACCTTTCATCTT
9345288 CCTTATAACCT
1 CCTTA-AACCT
9345299 CTTTTTCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (18 bp):
CCTTAAACCTTTCATCTT
Found at i:9349506 original size:32 final size:32
Alignment explanation
Indices: 9349470--9349581 Score: 147
Period size: 32 Copynumber: 3.5 Consensus size: 32
9349460 CGCATGGTTC
*
9349470 TGTGAAATGATAACAAATATCAGCTTTCATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
9349502 TGTGAAATGGTAACAAAT-TACAAC-TTCAATTT
1 TGTGAAATGATAACAAATAT-CAACTTTC-ATTT
* *
9349534 TGTGAAATAATAACAAATATCAACTTTAATTT
1 TGTGAAATGATAACAAATATCAACTTTCATTT
*
9349566 TGTTAAATGATAACAA
1 TGTGAAATGATAACAA
9349582 TATTCCTCTA
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
31 4 0.06
32 62 0.90
33 3 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (32 bp):
TGTGAAATGATAACAAATATCAACTTTCATTT
Found at i:9351716 original size:23 final size:23
Alignment explanation
Indices: 9351690--9351811 Score: 183
Period size: 23 Copynumber: 5.3 Consensus size: 23
9351680 ATAAGTGCCA
9351690 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
9351713 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* **
9351736 CACTGAAATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
9351759 CACTGATATGTTGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
9351782 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
9351805 CACTGAT
1 CACTGAT
9351812 CAATAACACT
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
22 1 0.01
23 85 0.98
24 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:9352061 original size:18 final size:17
Alignment explanation
Indices: 9352036--9352073 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
9352026 TTTTCCTTTG
9352036 ACATTC-AATATTAATTC
1 ACATTCAAATA-TAATTC
9352053 ACATATCAAATATAATTC
1 ACAT-TCAAATATAATTC
9352071 ACA
1 ACA
9352074 ATTTATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (17 bp):
ACATTCAAATATAATTC
Found at i:9353079 original size:9 final size:10
Alignment explanation
Indices: 9353045--9353076 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
9353035 ATCAATCAGT
9353045 AATTAATAAAA
1 AATT-ATAAAA
9353056 AATTATAAAA
1 AATTATAAAA
9353066 AATTATAAAA
1 AATTATAAAA
9353076 A
1 A
9353077 TTAAACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
AATTATAAAA
Found at i:9354570 original size:13 final size:13
Alignment explanation
Indices: 9354526--9354573 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
9354516 GAATTAATTT
*
9354526 TAAAAAATATT-T
1 TAAAAAATATTAA
9354538 TCAAAAAATATTAA
1 T-AAAAAATATTAA
9354552 TAAAAAAT-TTAA
1 TAAAAAATATTAA
*
9354564 TAGAAAATAT
1 TAAAAAATAT
9354574 AATTTAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 12 0.39
13 18 0.58
14 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
TAAAAAATATTAA
Found at i:9354893 original size:29 final size:29
Alignment explanation
Indices: 9354861--9354916 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
9354851 TAAATATTTC
*
9354861 AAAAATC-GCCTTATTCTAGTAATTTAAA
1 AAAAATCAGCATTATTCTAGTAATTTAAA
* *
9354889 AAAAATCAGCATTTTTTTAGTAATTTAA
1 AAAAATCAGCATTATTCTAGTAATTTAA
9354917 TCAGAAGTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (29 bp):
AAAAATCAGCATTATTCTAGTAATTTAAA
Found at i:9361341 original size:20 final size:20
Alignment explanation
Indices: 9361316--9361355 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9361306 GATCCTCTTC
9361316 ATCCCCCCTAACTTTCCTCT
1 ATCCCCCCTAACTTTCCTCT
9361336 ATCCCCCCTAACTTTCCTCT
1 ATCCCCCCTAACTTTCCTCT
9361356 TAGTGACACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.50, G:0.00, T:0.35
Consensus pattern (20 bp):
ATCCCCCCTAACTTTCCTCT
Found at i:9367693 original size:37 final size:37
Alignment explanation
Indices: 9367631--9367720 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
9367621 AACTATAAAG
9367631 GCCGAATGC--ACATAT-T-CACTTATACCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
9367664 GCCGAATGCATACATATATACACTTATACCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
*
9367701 GCCGAATGCATACAAATATA
1 GCCGAATGCATACATATATA
9367721 TATCTACCTA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
33 9 0.17
35 6 0.12
36 1 0.02
37 36 0.69
ACGTcount: A:0.36, C:0.29, G:0.10, T:0.26
Consensus pattern (37 bp):
GCCGAATGCATACATATATACACTTATACCCACCTAT
Found at i:9368120 original size:41 final size:41
Alignment explanation
Indices: 9367945--9368113 Score: 284
Period size: 41 Copynumber: 4.1 Consensus size: 41
9367935 AATTCATCAT
* *
9367945 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
9367986 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
9368027 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
9368068 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCAG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
9368109 ATTCA
1 ATTCA
9368114 ATTCACCAAT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 120 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:9368120 original size:82 final size:82
Alignment explanation
Indices: 9367945--9368113 Score: 320
Period size: 82 Copynumber: 2.1 Consensus size: 82
9367935 AATTCATCAT
*
9367945 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
*
9368010 GCTAGGTTTATAACCTG
66 GCTAGGTTTATAACCAG
9368027 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
9368092 GCTAGGTTTATAACCAG
66 GCTAGGTTTATAACCAG
9368109 ATTCA
1 ATTCA
9368114 ATTCACCAAT
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (82 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCT
GCTAGGTTTATAACCAG
Found at i:9368269 original size:17 final size:18
Alignment explanation
Indices: 9368233--9368271 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9368223 GCATGAGTTT
* *
9368233 ATATTTGTATACTCATAC
1 ATATTTGAATACTAATAC
9368251 ATATTTGAAT-CTAATAC
1 ATATTTGAATACTAATAC
9368268 ATAT
1 ATAT
9368272 ACATCCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (18 bp):
ATATTTGAATACTAATAC
Found at i:9368379 original size:15 final size:17
Alignment explanation
Indices: 9368338--9368381 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
9368328 TTGTTCGATC
9368338 CACATATATATATTACA
1 CACATATATATATTACA
*
9368355 CACATATATATATT-CG
1 CACATATATATATTACA
9368371 CACAT-TATATA
1 CACATATATATA
9368382 AACATAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:9372088 original size:36 final size:37
Alignment explanation
Indices: 9371984--9372111 Score: 134
Period size: 37 Copynumber: 3.5 Consensus size: 37
9371974 CTTGGAAGAC
* * * *
9371984 AAAAGATAGAGATAAATAGAAGTAATTCCCTACAAAG
1 AAAAGATAGAGATGAACAGAAGTGATTCTCTACAAAG
** * * * *
9372021 AAAAGACGGAGATGAATAGTAA-AGATCCTCTACGAAG
1 AAAAGATAGAGATGAACAG-AAGTGATTCTCTACAAAG
9372058 AAAA-ATAGAGATGAACAGAAGTGATTCTCTACAAAG
1 AAAAGATAGAGATGAACAGAAGTGATTCTCTACAAAG
*
9372094 AAAAGAAAGAGATGAACA
1 AAAAGATAGAGATGAACA
9372112 AGAACAATTC
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
35 2 0.03
36 27 0.37
37 42 0.58
38 2 0.03
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.16
Consensus pattern (37 bp):
AAAAGATAGAGATGAACAGAAGTGATTCTCTACAAAG
Found at i:9372122 original size:37 final size:35
Alignment explanation
Indices: 9371984--9372126 Score: 108
Period size: 37 Copynumber: 3.9 Consensus size: 35
9371974 CTTGGAAGAC
* * * *
9371984 AAAAGATAGAGATAAATAGAAGTAATTCCCTACAAAG
1 AAAAGAAAGAGATGAACAGAA--AATTCTCTACAAAG
** * * *
9372021 AAAAGACGGAGATGAATAGTAAAGATCCTCTACGAAG
1 AAAAGAAAGAGATGAACAG-AAA-ATTCTCTACAAAG
* *
9372058 AAAA-ATAGAGATGAACAGAAGTGATTCTCTACAAAG
1 AAAAGAAAGAGATGAACAGAA--AATTCTCTACAAAG
9372094 AAAAGAAAGAGATGAACAAGAACAATTCTCTAC
1 AAAAGAAAGAGATGAAC-AGAA-AATTCTCTAC
9372127 CCAAAAAAAA
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
35 2 0.02
36 27 0.32
37 50 0.59
38 6 0.07
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (35 bp):
AAAAGAAAGAGATGAACAGAAAATTCTCTACAAAG
Found at i:9372135 original size:73 final size:72
Alignment explanation
Indices: 9371984--9372135 Score: 164
Period size: 73 Copynumber: 2.1 Consensus size: 72
9371974 CTTGGAAGAC
* * ** *
9371984 AAAAGATAGAGATAAATAGAAGTAATTCCCTACAAAGAAAAGACGGAGATGAATAGTAAAGATCC
1 AAAAAATAGAGATAAACAGAAGTAATTCCCTACAAAGAAAAGAAAGAGATGAAAAGTAAAGATCC
*
9372049 TCTACGA
66 TCTACCA
* * *
9372056 AGAAAAATAGAGATGAACAGAAGTGATTCTCTACAAAGAAAAGAAAGAGATGAACAAG-AACA-A
1 A-AAAAATAGAGATAAACAGAAGTAATTCCCTACAAAGAAAAGAAAGAGATGAA-AAGTAA-AGA
*
9372119 TTCTCTACCCA
63 TCCTCTA-CCA
9372130 AAAAAA
1 AAAAAA
9372136 AAAAAGAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
72 1 0.02
73 59 0.89
74 6 0.09
ACGTcount: A:0.53, C:0.13, G:0.18, T:0.16
Consensus pattern (72 bp):
AAAAAATAGAGATAAACAGAAGTAATTCCCTACAAAGAAAAGAAAGAGATGAAAAGTAAAGATCC
TCTACCA
Found at i:9377896 original size:37 final size:37
Alignment explanation
Indices: 9377855--9377989 Score: 96
Period size: 37 Copynumber: 3.7 Consensus size: 37
9377845 AGAAATAGAT
**
9377855 ATGAACAAGGGTGATTCTCTACAAAGAAAAGACAAAG
1 ATGAACAAGAATGATTCTCTACAAAGAAAAGACAAAG
* * * * *
9377892 ATGAACATGAATTATTCTTTGCAAAGAAAATACAAAG
1 ATGAACAAGAATGATTCTCTACAAAGAAAAGACAAAG
* * * * * *
9377929 ATGAA-TAGTAAAGATCCTCTGCATAGAAAA-AAAAAG
1 ATGAACAAG-AATGATTCTCTACAAAGAAAAGACAAAG
* *
9377965 ATGAAC-AGTAACGATTCTCTTCAAA
1 ATGAACAAG-AATGATTCTCTACAAA
9377990 AATTCTCTCA
Statistics
Matches: 77, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
36 26 0.34
37 51 0.66
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.22
Consensus pattern (37 bp):
ATGAACAAGAATGATTCTCTACAAAGAAAAGACAAAG
Found at i:9377975 original size:36 final size:37
Alignment explanation
Indices: 9377871--9377989 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 37
9377861 AAGGGTGATT
* * * ** *
9377871 CTCTACAAAGAAAAGACAAAGATGAACA-TGAATTATT
1 CTCTGCAAAGAAAATAAAAAGATGAACAGT-AAAGATC
* * *
9377908 CTTTGCAAAGAAAATACAAAGATGAATAGTAAAGATC
1 CTCTGCAAAGAAAATAAAAAGATGAACAGTAAAGATC
* * *
9377945 CTCTGCATAGAAAA-AAAAAGATGAACAGTAACGATT
1 CTCTGCAAAGAAAATAAAAAGATGAACAGTAAAGATC
*
9377981 CTCTTCAAA
1 CTCTGCAAA
9377990 AATTCTCTCA
Statistics
Matches: 66, Mismatches: 15, Indels: 3
0.79 0.18 0.04
Matches are distributed among these distances:
36 25 0.38
37 40 0.61
38 1 0.02
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (37 bp):
CTCTGCAAAGAAAATAAAAAGATGAACAGTAAAGATC
Found at i:9380697 original size:2 final size:2
Alignment explanation
Indices: 9380690--9380719 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9380680 GAATTATTTA
9380690 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9380720 ATGGTCGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9380964 original size:43 final size:44
Alignment explanation
Indices: 9380845--9380973 Score: 151
Period size: 43 Copynumber: 3.0 Consensus size: 44
9380835 ATAGGATTCC
* *
9380845 ATTATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATTATGTGATTA-CATGTAAGACCACGTCTGGGATGTTGGCATCG
* *
9380889 ACT-TGTGACTTACATGTAAGACC-CTGTTTGGGATAG-TGGCATCG
1 ATTATGTGA-TTACATGTAAGACCAC-GTCTGGGAT-GTTGGCATCG
9380933 -TTATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 ATTATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
9380974 TGTACGAAAT
Statistics
Matches: 72, Mismatches: 6, Indels: 15
0.77 0.06 0.16
Matches are distributed among these distances:
42 1 0.01
43 34 0.47
44 33 0.46
45 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (44 bp):
ATTATGTGATTACATGTAAGACCACGTCTGGGATGTTGGCATCG
Found at i:9381108 original size:23 final size:23
Alignment explanation
Indices: 9381078--9381123 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9381068 AATGCTCAGG
*
9381078 TATGTACTTATACTAAGTTATGA
1 TATGTACTCATACTAAGTTATGA
9381101 TATGTACTCATACTAAGTTATGA
1 TATGTACTCATACTAAGTTATGA
9381124 AATTAAGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (23 bp):
TATGTACTCATACTAAGTTATGA
Found at i:9383706 original size:37 final size:37
Alignment explanation
Indices: 9383658--9383744 Score: 124
Period size: 37 Copynumber: 2.4 Consensus size: 37
9383648 TTGAAAGACT
*
9383658 AAAGACCGAGATGAACA-AAAGTGATTCTCTGA-AAAGA
1 AAAGACAGAGATGAACATAAA-TGATTCTCT-ATAAAGA
*
9383695 AAAGACAGAGATGAACATGAATGATTCTCTATAAAGA
1 AAAGACAGAGATGAACATAAATGATTCTCTATAAAGA
9383732 AAAGACAGAGATG
1 AAAGACAGAGATG
9383745 GATAGTAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
36 1 0.02
37 43 0.93
38 2 0.04
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.17
Consensus pattern (37 bp):
AAAGACAGAGATGAACATAAATGATTCTCTATAAAGA
Found at i:9383768 original size:37 final size:37
Alignment explanation
Indices: 9383658--9383771 Score: 110
Period size: 37 Copynumber: 3.1 Consensus size: 37
9383648 TTGAAAGACT
*
9383658 AAAGACCGAGATGAACA--AAAGTGATTCTCTGAAAAGA
1 AAAGACAGAGATGAACATGAAA--GATTCTCTGAAAAGA
*
9383695 AAAGACAGAGATGAACATGAATGATTCTCT-ATAAAGA
1 AAAGACAGAGATGAACATGAAAGATTCTCTGA-AAAGA
* * * *
9383732 AAAGACAGAGATGGATA-GTAAAGATTATCTGCAAAGA
1 AAAGACAGAGATGAACATG-AAAGATTCTCTGAAAAGA
9383769 AAA
1 AAA
9383772 AACAAAGGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
36 2 0.03
37 61 0.94
39 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (37 bp):
AAAGACAGAGATGAACATGAAAGATTCTCTGAAAAGA
Found at i:9387460 original size:14 final size:14
Alignment explanation
Indices: 9387441--9387479 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
9387431 TTGTATATCG
9387441 TATTTGTATATATA
1 TATTTGTATATATA
* *
9387455 TATTTGTAAATATT
1 TATTTGTATATATA
*
9387469 TATTCGTATAT
1 TATTTGTATAT
9387480 GCTATAAATT
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:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (14 bp):
TATTTGTATATATA
Found at i:9389044 original size:15 final size:15
Alignment explanation
Indices: 9389024--9389054 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9389014 AAAACAACAT
9389024 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9389039 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
9389054 A
1 A
9389055 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:9393377 original size:15 final size:15
Alignment explanation
Indices: 9393357--9393387 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9393347 AAAACAACAT
9393357 AACTCTTAACCTTTC
1 AACTCTTAACCTTTC
*
9393372 AACTCTTGACCTTTC
1 AACTCTTAACCTTTC
9393387 A
1 A
9393388 CTTACACAAC
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:0.32, G:0.03, T:0.39
Consensus pattern (15 bp):
AACTCTTAACCTTTC
Found at i:9401062 original size:28 final size:29
Alignment explanation
Indices: 9401022--9401076 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
9401012 AAATATAAAC
9401022 TATATTTTTTA-TTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
9401050 TATATTTTTTATTTTTAAAATACACTA
1 TATATTTTTTATTTTTAAAATACACTA
9401077 TATTTAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:9402671 original size:27 final size:27
Alignment explanation
Indices: 9402641--9402695 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
9402631 CTTCCATTTC
9402641 TGTTGTCCTTTCCAATTTAGTTATTAT
1 TGTTGTCCTTTCCAATTTAGTTATTAT
* *
9402668 TGTTGTTCTTTTCAATTTAGTTATTAT
1 TGTTGTCCTTTCCAATTTAGTTATTAT
9402695 T
1 T
9402696 TTATATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.60
Consensus pattern (27 bp):
TGTTGTCCTTTCCAATTTAGTTATTAT
Found at i:9409875 original size:21 final size:21
Alignment explanation
Indices: 9409851--9409901 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
9409841 AACCGATATA
* *
9409851 AAAATTATCAAAAAATAAATT
1 AAAATTATCAAAAAAGAAAGT
* * *
9409872 AAAATCATAAAAAAAGAGAGT
1 AAAATTATCAAAAAAGAAAGT
9409893 AAAATTATC
1 AAAATTATC
9409902 GCAAATCTCA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (21 bp):
AAAATTATCAAAAAAGAAAGT
Found at i:9410674 original size:19 final size:17
Alignment explanation
Indices: 9410652--9410694 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
9410642 AAATTATAAA
*
9410652 ATAAATTATAGTAGTATCC
1 ATAAATTATA-AAGTAT-C
9410671 ATAAATTTATAAAGTATC
1 ATAAA-TTATAAAGTATC
9410689 ATAAAT
1 ATAAAT
9410695 CAAAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 6 0.27
19 10 0.45
20 5 0.23
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (17 bp):
ATAAATTATAAAGTATC
Found at i:9412772 original size:10 final size:10
Alignment explanation
Indices: 9412739--9412784 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
9412729 ATGAAATCCT
*
9412739 AAAATTTTACA
1 AAAATTATA-A
*
9412750 AAAA-TATTA
1 AAAATTATAA
9412759 AAAATTATAA
1 AAAATTATAA
9412769 AAAATTA-AA
1 AAAATTATAA
9412778 AAAATTA
1 AAAATTA
9412785 ATGTGACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 14 0.45
10 13 0.42
11 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:9416882 original size:15 final size:15
Alignment explanation
Indices: 9416864--9416898 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
9416854 TACAAATGCT
9416864 ACAATAATAAATACA
1 ACAATAATAAATACA
9416879 ACAATAATAAATACA
1 ACAATAATAAATACA
*
9416894 TCAAT
1 ACAAT
9416899 GGCATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (15 bp):
ACAATAATAAATACA
Found at i:9425572 original size:24 final size:22
Alignment explanation
Indices: 9425503--9425583 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 22
9425493 TTTAACTAAT
**
9425503 TTTTTAAATTATAAAAAAT-TA
1 TTTTTAAAAAATAAAAAATATA
*
9425524 TTTTTAAAAATTAAAAACATCATA
1 TTTTTAAAAAATAAAAA-AT-ATA
9425548 TTATTTAAAAAATATAAAAATATA
1 TT-TTTAAAAAATA-AAAAATATA
*
9425572 TTTTTTAAAAAT
1 TTTTTAAAAAAT
9425584 TTAAATTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
21 14 0.28
22 2 0.04
23 9 0.18
24 9 0.18
25 12 0.24
26 4 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTTAAAAAATAAAAAATATA
Found at i:9432250 original size:19 final size:19
Alignment explanation
Indices: 9432226--9432264 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9432216 GGGTGAGAAG
*
9432226 TAAAAA-TTTTAGGGGAAAA
1 TAAAAAGTTTT-GAGGAAAA
9432245 TAAAAAGTTTTGAGGAAAA
1 TAAAAAGTTTTGAGGAAAA
9432264 T
1 T
9432265 TCTGTTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (19 bp):
TAAAAAGTTTTGAGGAAAA
Found at i:9435478 original size:3 final size:3
Alignment explanation
Indices: 9435470--9435495 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9435460 AAATTTTTTG
9435470 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
9435496 ATACAAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:9437590 original size:29 final size:29
Alignment explanation
Indices: 9437535--9437605 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
9437525 CTGTTCTCTG
* * *
9437535 TTATATGTAAGCCCTAGTTGCGAAATCAA
1 TTATATGTGAGCCCTAATGGCGAAATCAA
* **
9437564 TTATATGTGAGCCCTAATGGCGGAATCCG
1 TTATATGTGAGCCCTAATGGCGAAATCAA
*
9437593 TTACATGTGAGCC
1 TTATATGTGAGCC
9437606 TTTATGGCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (29 bp):
TTATATGTGAGCCCTAATGGCGAAATCAA
Found at i:9437624 original size:29 final size:29
Alignment explanation
Indices: 9437568--9437624 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
9437558 AATCAATTAT
*
9437568 ATGTGAGCCCTAATGGCGGAATCCGTTAC
1 ATGTGAGCCCTAATGGCGGAATACGTTAC
* * * *
9437597 ATGTGAGCCTTTATGGCTGAATATGTTA
1 ATGTGAGCCCTAATGGCGGAATACGTTA
9437625 TATGCGGAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (29 bp):
ATGTGAGCCCTAATGGCGGAATACGTTAC
Found at i:9437933 original size:29 final size:30
Alignment explanation
Indices: 9437900--9437966 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
9437890 GCCCTCGCAA
*
9437900 CTATCTAATG-TGAGTAGG-TGCCTTTATGG
1 CTATCTAAAGTTGAGT-GGATGCCTTTATGG
* *
9437929 CTATCGAAAGTTGTGTGGATGCCTTTATGG
1 CTATCTAAAGTTGAGTGGATGCCTTTATGG
*
9437959 ATATCTAA
1 CTATCTAA
9437967 GTCAAGTGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.37
Consensus pattern (30 bp):
CTATCTAAAGTTGAGTGGATGCCTTTATGG
Found at i:9441094 original size:14 final size:15
Alignment explanation
Indices: 9441075--9441103 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
9441065 TCATCACCAC
9441075 ATATCATAC-CAAAT
1 ATATCATACTCAAAT
9441089 ATATCATACTCAAAT
1 ATATCATACTCAAAT
9441104 GGTACTGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATCATACTCAAAT
Found at i:9442019 original size:16 final size:16
Alignment explanation
Indices: 9441998--9442028 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9441988 CGTCGATACA
9441998 TAGAGTTCGCCAGATT
1 TAGAGTTCGCCAGATT
9442014 TAGAGTTCGCCAGAT
1 TAGAGTTCGCCAGAT
9442029 GACTAATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (16 bp):
TAGAGTTCGCCAGATT
Found at i:9445330 original size:18 final size:18
Alignment explanation
Indices: 9445295--9445332 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
9445285 TAAATGATGA
9445295 ATTTTAAGTATTAGTTGTT
1 ATTTTAAGTATTA-TTGTT
9445314 ATTTATAAGTATT-TTGTT
1 ATTT-TAAGTATTATTGTT
9445332 A
1 A
9445333 AGTCATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (18 bp):
ATTTTAAGTATTATTGTT
Found at i:9445926 original size:46 final size:46
Alignment explanation
Indices: 9445803--9445916 Score: 201
Period size: 46 Copynumber: 2.5 Consensus size: 46
9445793 AATGATTAAA
*
9445803 ACCATAGTTGAATGACACTATGGCACTATACCGGAGAATAAATAAG
1 ACCATAGTTGAAAGACACTATGGCACTATACCGGAGAATAAATAAG
* *
9445849 TCCATAGTTGAAAGACACAATGGCACTATACCGGAGAATAAATAAG
1 ACCATAGTTGAAAGACACTATGGCACTATACCGGAGAATAAATAAG
9445895 ACCATAGTTGAAAGACACTATG
1 ACCATAGTTGAAAGACACTATG
9445917 ACAACATACC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (46 bp):
ACCATAGTTGAAAGACACTATGGCACTATACCGGAGAATAAATAAG
Done.