Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 33 of 100
Found at i:9049647 original size:16 final size:16
Alignment explanation
Indices: 9049569--9049679 Score: 60
Period size: 16 Copynumber: 7.1 Consensus size: 16
9049559 TTTTTTATAT
9049569 TAATATAAT-ATTTTAA
1 TAATA-AATAATTTTAA
*
9049585 TATTAAATATTATTATTAA
1 TAATAAATA--ATT-TTAA
*
9049604 -AATAAATATTTTTTAA
1 TAATAAATA-ATTTTAA
*
9049620 T-ATTAATAATTTTAA
1 TAATAAATAATTTTAA
*
9049635 TAATAAATCA-TTT--
1 TAATAAATAATTTTAA
*
9049648 CAAT--AT-ATTTTAA
1 TAATAAATAATTTTAA
9049661 TAATAAATAATTTTTAA
1 TAATAAATAA-TTTTAA
9049678 TA
1 TA
9049680 TTTTAATAGT
Statistics
Matches: 73, Mismatches: 9, Indels: 25
0.68 0.08 0.23
Matches are distributed among these distances:
10 1 0.01
11 5 0.07
13 6 0.08
15 15 0.21
16 21 0.29
17 11 0.15
18 10 0.14
19 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATAAATAATTTTAA
Found at i:9049661 original size:26 final size:26
Alignment explanation
Indices: 9049624--9049687 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
9049614 TTTTAATATT
*
9049624 AATA-ATTTTAATAATAAATCATTTC
1 AATATATTTTAATAATAAATAATTTC
*
9049649 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
9049675 TA-ATATTTTAATA
1 AATATATTTTAATA
9049688 GTTATACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:9057886 original size:15 final size:15
Alignment explanation
Indices: 9057866--9057896 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9057856 ACAATTTCGA
9057866 AATTCAAAGGTTCAC
1 AATTCAAAGGTTCAC
*
9057881 AATTCAAAGTTTCAC
1 AATTCAAAGGTTCAC
9057896 A
1 A
9057897 CGAACTCAAA
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:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (15 bp):
AATTCAAAGGTTCAC
Found at i:9058378 original size:24 final size:25
Alignment explanation
Indices: 9058343--9058400 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
9058333 TCTCACTCCC
*
9058343 AGATTCTCATTTAAAACTT-CTT-AA
1 AGATTCTTATTTAAAA-TTCCTTAAA
9058367 AGATTCTTATTTAAAATTCCTTAAA
1 AGATTCTTATTTAAAATTCCTTAAA
*
9058392 AGCTTCTTA
1 AGATTCTTA
9058401 AAGATTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 18 0.60
25 10 0.33
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (25 bp):
AGATTCTTATTTAAAATTCCTTAAA
Found at i:9058399 original size:35 final size:34
Alignment explanation
Indices: 9058353--9058426 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 34
9058343 AGATTCTCAT
* *
9058353 TTAAAACTTCTTAAAGATTCTTATTTAAAATTCC
1 TTAAAACTTCTTAAAGATTCTCATTTAAAACTCC
*
9058387 TTAAAAGCTTCTTAAAGATTCTCATTTAAAACTCT
1 TTAAAA-CTTCTTAAAGATTCTCATTTAAAACTCC
9058422 TTAAA
1 TTAAA
9058427 GATTCTCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 6 0.17
35 30 0.83
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.42
Consensus pattern (34 bp):
TTAAAACTTCTTAAAGATTCTCATTTAAAACTCC
Found at i:9058427 original size:24 final size:23
Alignment explanation
Indices: 9058387--9058519 Score: 144
Period size: 24 Copynumber: 5.6 Consensus size: 23
9058377 TTAAAATTCC
9058387 TTAAAAGCTTCTTAAAGATTCTCAT
1 TTAAAA-CTT-TTAAAGATTCTCAT
9058412 TTAAAACTCTTTAAAGATTCTCAT
1 TTAAAACT-TTTAAAGATTCTCAT
9058436 TTAAAACTTCTTAAAGATTCTCAT
1 TTAAAACTT-TTAAAGATTCTCAT
* * * *
9058460 TTAAAAGTCCTTATAGATTCTCAC
1 TTAAAACT-TTTAAAGATTCTCAT
*
9058484 TTAAAA-TTTCTTAAGATTTCTCAT
1 TTAAAACTTT-TAAAGA-TTCTCAT
9058508 TTAAAA-TTTTAA
1 TTAAAACTTTTAA
9058520 CATTAAAAAT
Statistics
Matches: 94, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
22 1 0.01
23 8 0.09
24 78 0.83
25 7 0.07
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.43
Consensus pattern (23 bp):
TTAAAACTTTTAAAGATTCTCAT
Found at i:9058440 original size:14 final size:14
Alignment explanation
Indices: 9058398--9058464 Score: 69
Period size: 14 Copynumber: 5.4 Consensus size: 14
9058388 TAAAAGCTTC
9058398 TTAAAGATTCTCAT
1 TTAAAGATTCTCAT
9058412 TTAAA-A--CTC-T
1 TTAAAGATTCTCAT
9058422 TTAAAGATTCTCAT
1 TTAAAGATTCTCAT
*
9058436 TTAAA-ACT-TC--
1 TTAAAGATTCTCAT
9058446 TTAAAGATTCTCAT
1 TTAAAGATTCTCAT
9058460 TTAAA
1 TTAAA
9058465 AGTCCTTATA
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
10 11 0.26
11 6 0.14
12 4 0.09
13 6 0.14
14 16 0.37
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.42
Consensus pattern (14 bp):
TTAAAGATTCTCAT
Found at i:9058452 original size:48 final size:48
Alignment explanation
Indices: 9058386--9058513 Score: 186
Period size: 48 Copynumber: 2.6 Consensus size: 48
9058376 TTTAAAATTC
*
9058386 CTTAAAAGCTTCTTAAAGATTCTCATTTAAAACTCTTTAAAGATTCTCA
1 CTTAAAA-CTTCTTAAAGATTCTCATTTAAAACTCCTTAAAGATTCTCA
* * *
9058435 TTTAAAACTTCTTAAAGATTCTCATTTAAAAGTCCTTATAGATTCTCA
1 CTTAAAACTTCTTAAAGATTCTCATTTAAAACTCCTTAAAGATTCTCA
*
9058483 CTTAAAATTTCTT-AAGATTTCTCATTTAAAA
1 CTTAAAACTTCTTAAAGA-TTCTCATTTAAAA
9058514 TTTTAACATT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 4 0.06
48 62 0.86
49 6 0.08
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.41
Consensus pattern (48 bp):
CTTAAAACTTCTTAAAGATTCTCATTTAAAACTCCTTAAAGATTCTCA
Found at i:9059131 original size:79 final size:79
Alignment explanation
Indices: 9058995--9059146 Score: 234
Period size: 79 Copynumber: 1.9 Consensus size: 79
9058985 CTTTTTAGCA
* * * *
9058995 TCTCGGCACTAATAATTTTAGAACAAATTTCGTCACTTGATCCACATTATTTTCATCATTTGATC
1 TCTCAGCACTAACAATTTCAGAACAAATTTCGTCACTTGATCCACATTATTTCCATCATTTGATC
9059060 ACAACTCACAAGCT
66 ACAACTCACAAGCT
* *
9059074 TCTCAGCACTAACAATTTCAGAACAAATTTTGTCTAC-TGATCCATATTATTTCCATCATTTGAT
1 TCTCAGCACTAACAATTTCAGAACAAATTTCGTC-ACTTGATCCACATTATTTCCATCATTTGAT
9059138 CACAACTCA
65 CACAACTCA
9059147 TAGGTTATGT
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
79 64 0.97
80 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (79 bp):
TCTCAGCACTAACAATTTCAGAACAAATTTCGTCACTTGATCCACATTATTTCCATCATTTGATC
ACAACTCACAAGCT
Found at i:9059784 original size:24 final size:24
Alignment explanation
Indices: 9059757--9059803 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
9059747 TTTTTACATT
9059757 TTTTTTTATTTTTTTCATCTCTCA
1 TTTTTTTATTTTTTTCATCTCTCA
*
9059781 TTTTTTTCTTTTTTTCATCTCTC
1 TTTTTTTATTTTTTTCATCTCTC
9059804 TTCATTTTTC
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:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTTTATTTTTTTCATCTCTCA
Found at i:9059811 original size:24 final size:24
Alignment explanation
Indices: 9059760--9059811 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
9059750 TTACATTTTT
*
9059760 TTTTATTTTTTTCATCTCTCATTT
1 TTTTATTTTTTTCATCTCTCATTA
*
9059784 TTTTCTTTTTTTCATCTCTC-TTCA
1 TTTTATTTTTTTCATCTCTCATT-A
9059808 TTTT
1 TTTT
9059812 TCATTCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 2 0.08
24 23 0.92
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTATTTTTTTCATCTCTCATTA
Found at i:9062741 original size:12 final size:13
Alignment explanation
Indices: 9062711--9062758 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
9062701 CAATATTATA
* *
9062711 TTAATATAATATA
1 TTAATAAAATATC
9062724 TTAATAAAA-ATC
1 TTAATAAAATATC
9062736 TTAATAAATAATATC
1 TTAAT-AA-AATATC
9062751 TTAATAAA
1 TTAATAAA
9062759 TATTATTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 7 0.23
13 11 0.37
14 4 0.13
15 8 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTAATAAAATATC
Found at i:9062760 original size:12 final size:13
Alignment explanation
Indices: 9062711--9062761 Score: 52
Period size: 12 Copynumber: 3.9 Consensus size: 13
9062701 CAATATTATA
*
9062711 TTAATATAATATA
1 TTAATATAATATC
*
9062724 TTAATA-AAAATC
1 TTAATATAATATC
9062736 TTAATAAATAATATC
1 TTAAT--ATAATATC
9062751 TTAATA-AATAT
1 TTAATATAATAT
9062762 TATTATGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 14 0.44
13 7 0.22
14 1 0.03
15 10 0.31
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAATATAATATC
Found at i:9062843 original size:15 final size:15
Alignment explanation
Indices: 9062683--9062986 Score: 112
Period size: 15 Copynumber: 20.9 Consensus size: 15
9062673 ATGCACAATG
9062683 TTAATAAATAA-ATA
1 TTAATAAATAATATA
*
9062697 -TAA-ACAATATTATA
1 TTAATA-AATAATATA
9062711 TTAAT--ATAATATA
1 TTAATAAATAATATA
*
9062724 TTAAT-AA-AA-ATC
1 TTAATAAATAATATA
*
9062736 TTAATAAATAATATC
1 TTAATAAATAATATA
*
9062751 TTAATAAATATTATTA
1 TTAATAAATAATA-TA
*
9062767 TGAATAAAT-ATATA
1 TTAATAAATAATATA
** * *
9062781 CGAATATATTA-ATA
1 TTAATAAATAATATA
*
9062795 TTAATAAATAAAATCA
1 TTAATAAATAATAT-A
* *
9062811 -TAATATATTA-ATA
1 TTAATAAATAATATA
* *
9062824 -CAATATATCAATA-A
1 TTAATAAAT-AATATA
* *
9062838 ATAATATTATAATATA
1 TTAATA-AATAATATA
9062854 TTAATAAATAATATA
1 TTAATAAATAATATA
* *
9062869 -TAAAAAATTAT-TAA
1 TTAATAAATAATAT-A
*
9062883 TTTAATTAATAA-ATA
1 -TTAATAAATAATATA
* * *
9062898 -TCA-CAATAATACA
1 TTAATAAATAATATA
* *
9062911 TGAATAGATAAGATATTA
1 TTAATAAAT-A-ATA-TA
9062929 TTAATAAATAATATA
1 TTAATAAATAATATA
*
9062944 CT-ATCAATATAATATA
1 TTAAT-AA-ATAATATA
9062960 TTAATAAAT-A-ATA
1 TTAATAAATAATATA
*
9062973 TTAAGAAATAATAT
1 TTAATAAATAATAT
9062987 TATAGTATAT
Statistics
Matches: 220, Mismatches: 38, Indels: 63
0.69 0.12 0.20
Matches are distributed among these distances:
12 13 0.06
13 47 0.21
14 44 0.20
15 60 0.27
16 42 0.19
17 6 0.03
18 8 0.04
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (15 bp):
TTAATAAATAATATA
Found at i:9062851 original size:23 final size:22
Alignment explanation
Indices: 9062825--9062871 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
9062815 ATATTAATAC
9062825 AATATATCAATAAATAATATTAT
1 AATATATCAATAAATAATA-TAT
*
9062848 AATATATTAATAAATAATATAT
1 AATATATCAATAAATAATATAT
9062870 AA
1 AA
9062872 AAAATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATATCAATAAATAATATAT
Found at i:9062973 original size:13 final size:13
Alignment explanation
Indices: 9062935--9063009 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 13
9062925 ATTATTAATA
* *
9062935 AATAATATACTATC
1 AATAA-ATAATATT
9062949 AATATAAT-ATATT
1 AATA-AATAATATT
9062962 AATAAATAATATT
1 AATAAATAATATT
*
9062975 AAGAAATAATATT
1 AATAAATAATATT
* *
9062988 -AT-AGT-ATATG
1 AATAAATAATATT
9062998 AATAAATAATAT
1 AATAAATAATAT
9063010 AAAGAATAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
10 4 0.08
11 4 0.08
12 6 0.12
13 28 0.57
14 6 0.12
15 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (13 bp):
AATAAATAATATT
Found at i:9062996 original size:36 final size:35
Alignment explanation
Indices: 9062790--9063009 Score: 143
Period size: 36 Copynumber: 6.2 Consensus size: 35
9062780 ACGAATATAT
* *
9062790 TAATATTAATAAATAAAATCATAATATATTAATACAA
1 TAATATTAATAAATAATATTAT-ATATATTAATA-AA
*
9062827 T-ATATCAATAAATAATATTATAATATATTAATAAA
1 TAATATTAATAAATAATATTAT-ATATATTAATAAA
* *
9062862 TAATATATAA-AAA-ATTATTA-ATTTAATTAATAAA
1 TAATAT-TAATAAATAATATTATATAT-ATTAATAAA
* * * * *
9062896 TATCACAATAATACATGAATAGATAAGATATTATTAATAAA
1 TA--ATATTAATAAAT-AAT--ATTATATA-TATTAATAAA
*
9062937 TAATA-TACT--ATCAATA-TA-ATATATTAATAAA
1 TAATATTAATAAAT-AATATTATATATATTAATAAA
* *
9062968 TAATATTAAGAAATAATATTATAGTATATGAATAAA
1 TAATATTAATAAATAATATTATA-TATATTAATAAA
9063004 TAATAT
1 TAATAT
9063010 AAAGAATAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 37
0.72 0.09 0.18
Matches are distributed among these distances:
31 15 0.10
32 5 0.03
33 8 0.05
34 16 0.11
35 13 0.09
36 62 0.42
37 3 0.02
38 5 0.03
39 2 0.01
40 3 0.02
41 13 0.09
42 1 0.01
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (35 bp):
TAATATTAATAAATAATATTATATATATTAATAAA
Found at i:9063015 original size:36 final size:35
Alignment explanation
Indices: 9062951--9063020 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
9062941 ATACTATCAA
* *
9062951 TATAATATATTAATAAATAATATTAAGAAATAATAT
1 TATAATATATGAATAAATAATATAAAG-AATAATAT
*
9062987 TATAGTATATGAATAAATAATATAAAGAATAATA
1 TATAATATATGAATAAATAATATAAAGAATAATA
9063021 AATAGTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.36
Consensus pattern (35 bp):
TATAATATATGAATAAATAATATAAAGAATAATAT
Found at i:9063068 original size:19 final size:18
Alignment explanation
Indices: 9063041--9063123 Score: 68
Period size: 19 Copynumber: 4.8 Consensus size: 18
9063031 TTTTAAGTAT
*
9063041 TTTTTATATTAATATAATA
1 TTTTAATATTAA-ATAATA
*
9063060 TTTTAATATTAAATATTA
1 TTTTAATATTAAATAATA
* *
9063078 TTATTAA-AATAAAT-ATT
1 TT-TTAATATTAAATAATA
9063095 TTTTAATATT-AAT-A-A
1 TTTTAATATTAAATAATA
*
9063110 TTTTAATAATAAAT
1 TTTTAATATTAAAT
9063124 CATTTCAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
15 9 0.17
16 11 0.21
17 5 0.09
18 13 0.25
19 15 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTAATATTAAATAATA
Found at i:9063128 original size:16 final size:16
Alignment explanation
Indices: 9063050--9063160 Score: 60
Period size: 16 Copynumber: 7.1 Consensus size: 16
9063040 TTTTTTATAT
9063050 TAATATAAT-ATTTTAA
1 TAATA-AATAATTTTAA
*
9063066 TATTAAATATTATTATTAA
1 TAATAAATA--ATT-TTAA
*
9063085 -AATAAATATTTTTTAA
1 TAATAAATA-ATTTTAA
*
9063101 T-ATTAATAATTTTAA
1 TAATAAATAATTTTAA
*
9063116 TAATAAATCA-TTT--
1 TAATAAATAATTTTAA
*
9063129 CAAT--AT-ATTTTAA
1 TAATAAATAATTTTAA
9063142 TAATAAATAATTTTTAA
1 TAATAAATAA-TTTTAA
9063159 TA
1 TA
9063161 TTTTAATAGT
Statistics
Matches: 73, Mismatches: 9, Indels: 25
0.68 0.08 0.23
Matches are distributed among these distances:
10 1 0.01
11 5 0.07
13 6 0.08
15 15 0.21
16 21 0.29
17 11 0.15
18 10 0.14
19 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATAAATAATTTTAA
Found at i:9063142 original size:26 final size:26
Alignment explanation
Indices: 9063105--9063168 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
9063095 TTTTAATATT
*
9063105 AATA-ATTTTAATAATAAATCATTTC
1 AATATATTTTAATAATAAATAATTTC
*
9063130 AATATATTTTAATAATAAATAATTTT
1 AATATATTTTAATAATAAATAATTTC
*
9063156 TA-ATATTTTAATA
1 AATATATTTTAATA
9063169 GTTATACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
AATATATTTTAATAATAAATAATTTC
Found at i:9066820 original size:25 final size:24
Alignment explanation
Indices: 9066765--9066822 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
9066755 TCACTCAAAG
*
9066765 ATTCTTCATTTTAAAACTTCTTAAAG
1 ATTCTT-A-TTTAAAACTTCTTAAAA
9066791 ATTCTTATTTAAAA-TTCTTTAAAA
1 ATTCTTATTTAAAACTTC-TTAAAA
9066815 ACTTCTTA
1 A-TTCTTA
9066823 AAGATTCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 3 0.10
24 13 0.45
25 7 0.24
26 6 0.21
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTCTTATTTAAAACTTCTTAAAA
Found at i:9066840 original size:25 final size:24
Alignment explanation
Indices: 9066812--9066936 Score: 144
Period size: 25 Copynumber: 5.2 Consensus size: 24
9066802 AAATTCTTTA
9066812 AAAACTTCTTAAAGATTCTCATTTT
1 AAAACTTCTTAAAGATTCTCA-TTT
* * *
9066837 AAAACTCCCTAAAGATTATCAATTT
1 AAAACTTCTTAAAGATTCTC-ATTT
*
9066862 AAAACTTCTTAAAGATTTTCATTT
1 AAAACTTCTTAAAGATTCTCATTT
*** * *
9066886 AAAAGGCCTTATAGATTCTCACTT
1 AAAACTTCTTAAAGATTCTCATTT
9066910 AAAACTTCTTAAA-ATTCTCATTT
1 AAAACTTCTTAAAGATTCTCATTT
9066933 AAAA
1 AAAA
9066937 TTTTTAACAT
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
23 13 0.16
24 31 0.38
25 37 0.45
26 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (24 bp):
AAAACTTCTTAAAGATTCTCATTT
Found at i:9066868 original size:50 final size:48
Alignment explanation
Indices: 9066812--9066936 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 48
9066802 AAATTCTTTA
* *
9066812 AAAACTTCTTAAAGATTCTCATTTTAAAACTCCCTAAAGATTATCAATTT
1 AAAACTTCTTAAAGATTCTCA-TTTAAAACGCCCTAAAGATTATC-ACTT
* * * * *
9066862 AAAACTTCTTAAAGATTTTCATTTAAAAGGCCTTATAGATTCTCACTT
1 AAAACTTCTTAAAGATTCTCATTTAAAACGCCCTAAAGATTATCACTT
9066910 AAAACTTCTTAAA-ATTCTCATTTAAAA
1 AAAACTTCTTAAAGATTCTCATTTAAAA
9066937 TTTTTAACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 13 0.19
48 16 0.24
49 18 0.27
50 20 0.30
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (48 bp):
AAAACTTCTTAAAGATTCTCATTTAAAACGCCCTAAAGATTATCACTT
Found at i:9068185 original size:15 final size:15
Alignment explanation
Indices: 9068162--9068196 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9068152 CTTCCTTTTC
*
9068162 TTTCTTTTTTACATT
1 TTTCATTTTTACATT
*
9068177 TTTCATTTTTTCATT
1 TTTCATTTTTACATT
9068192 TTTCA
1 TTTCA
9068197 ATCTCTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCATTTTTACATT
Found at i:9068186 original size:8 final size:8
Alignment explanation
Indices: 9068162--9068261 Score: 66
Period size: 8 Copynumber: 12.8 Consensus size: 8
9068152 CTTCCTTTTC
9068162 TTTC-TTT
1 TTTCATTT
9068169 TTTACA-TT
1 TTT-CATTT
9068177 TTTCATTT
1 TTTCATTT
9068185 TTTCA-TT
1 TTTCATTT
* *
9068192 TTTCAATC
1 TTTCATTT
*
9068200 TCTCATTTT
1 TTTCA-TTT
*
9068209 TTTCTTTT
1 TTTCATTT
9068217 TTTCATCTT
1 TTTCAT-TT
* *
9068226 CTTCAATT
1 TTTCATTT
*
9068234 TTTCATTC
1 TTTCATTT
9068242 TTT--TTT
1 TTTCATTT
*
9068248 TTTCAATT
1 TTTCATTT
9068256 TTTCAT
1 TTTCAT
9068262 CATTAATTGA
Statistics
Matches: 70, Mismatches: 15, Indels: 15
0.70 0.15 0.15
Matches are distributed among these distances:
6 5 0.07
7 12 0.17
8 43 0.61
9 10 0.14
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTCATTT
Found at i:9068240 original size:34 final size:32
Alignment explanation
Indices: 9068175--9068250 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 32
9068165 CTTTTTTACA
*
9068175 TTTTTCATTTTTTCATTTTTCAATCTCTCATT
1 TTTTTCTTTTTTTCATTTTTCAATCTCTCATT
* *
9068207 TTTTTCTTTTTTTCATCTTCTTCAATTTTTCATT
1 TTTTTCTTTTTTTCAT-TT-TTCAATCTCTCATT
*
9068241 CTTTT-TTTTT
1 TTTTTCTTTTT
9068251 CAATTTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 15 0.39
33 7 0.18
34 16 0.42
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (32 bp):
TTTTTCTTTTTTTCATTTTTCAATCTCTCATT
Found at i:9068258 original size:40 final size:39
Alignment explanation
Indices: 9068159--9068262 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 39
9068149 AGTCTTCCTT
*
9068159 TTCTTTCTTTTTT-ACATTTTTCAT-TTTTTCATTTTTCAA
1 TTCTTT-TTTTTTCA-ATTTTTCATCTTCTTCATTTTTCAA
* **
9068198 TCTCTCATTTTTTTCTTTTTTTCATCTTCTTCAATTTTTC-A
1 T-TCT-TTTTTTTTCAATTTTTCATCTTCTTC-ATTTTTCAA
9068239 TTCTTTTTTTTTCAATTTTTCATC
1 TTCTTTTTTTTTCAATTTTTCATC
9068263 ATTAATTGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
39 18 0.34
40 20 0.38
41 8 0.15
42 7 0.13
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.68
Consensus pattern (39 bp):
TTCTTTTTTTTTCAATTTTTCATCTTCTTCATTTTTCAA
Found at i:9071815 original size:47 final size:46
Alignment explanation
Indices: 9071763--9071865 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 46
9071753 TTTATTTTTT
*
9071763 ATTTTTTCA-TTTCTAAATTTT-TCACCATTTGGG-CTAATTTAGAAAA
1 ATTTTTTTATTTTCTAAATTTTCT-ACCATTTGGGTCT-ATTTAG-AAA
*
9071809 ATTTTTTTATTTTCTAAATTTTCTGCCATTTGGGTCTATTTAGAAA
1 ATTTTTTTATTTTCTAAATTTTCTACCATTTGGGTCTATTTAGAAA
*
9071855 TTTTTTTTATT
1 ATTTTTTTATT
9071866 CTTTGAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
46 21 0.41
47 27 0.53
48 3 0.06
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (46 bp):
ATTTTTTTATTTTCTAAATTTTCTACCATTTGGGTCTATTTAGAAA
Found at i:9071860 original size:46 final size:47
Alignment explanation
Indices: 9071763--9071865 Score: 133
Period size: 46 Copynumber: 2.2 Consensus size: 47
9071753 TTTATTTTTT
*
9071763 ATTTTTTCA-TTTCTAAATTTTTCACCATTTGGGCTAATTTAGAAAA
1 ATTTTTTTATTTTCTAAATTTTTCACCATTTGGGCTAATTTAGAAAA
*
9071809 ATTTTTTTATTTTCTAAA-TTTTCTGCCATTTGGGTCT-ATTTAG-AAA
1 ATTTTTTTATTTTCTAAATTTTTC-ACCATTTGGG-CTAATTTAGAAAA
*
9071855 TTTTTTTTATT
1 ATTTTTTTATT
9071866 CTTTGAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
46 26 0.51
47 23 0.45
48 2 0.04
ACGTcount: A:0.25, C:0.11, G:0.09, T:0.55
Consensus pattern (47 bp):
ATTTTTTTATTTTCTAAATTTTTCACCATTTGGGCTAATTTAGAAAA
Found at i:9073511 original size:27 final size:27
Alignment explanation
Indices: 9073473--9073814 Score: 122
Period size: 28 Copynumber: 12.7 Consensus size: 27
9073463 AATTTTACTT
*
9073473 ATAAATAATATTATATTAAATATATTA
1 ATAAATAATATTATAATAAATATATTA
*
9073500 ATAAACAATATTATTTTAATATAATATATTA
1 ATAAATAATATTA---TAATA-AATATATTA
* *
9073531 ATAAA-AATCTTAATAA-ATAATATCTTA
1 ATAAATAATATT-ATAATA-AATATATTA
* *
9073558 ATAAATATTATTATAAATAAATATATACGA
1 ATAAATAATATTAT-AATAAATATAT--TA
*
9073588 ATATATTAATA-T-TAATAAATA-A--A
1 ATA-AATAATATTATAATAAATATATTA
* *
9073611 AT-TATAATA-TATTAATATAATATATCA
1 ATAAATAATATTA-TAATA-AATATATTA
9073638 ATAAATAATATTAT-AT---T-TATTA
1 ATAAATAATATTATAATAAATATATTA
9073660 ATAAATAATAATATATTAATAAATA-A-TA
1 ATAAATAAT-AT-TA-TAATAAATATATTA
*
9073688 TATAAA-AA-ATTAT--T-AATTTAATTA
1 -ATAAATAATATTATAATAAATAT-ATTA
* ** * *
9073712 ATAAATATTACAATAATATATGA-ATAA
1 ATAAATAATATTATAATAAAT-ATATTA
*
9073739 ATAAGATATTATTAATAGATAATATACTATTA
1 ATAA-ATAATATT-ATA-ATAA-ATA-TATTA
*
9073771 AT--ATAATA-TATTAATAAATAACATTA
1 ATAAATAATATTA-TAATAAAT-ATATTA
*
9073797 AGAAATAATATTATAATA
1 ATAAATAATATTATAATA
9073815 TATGAATAAA
Statistics
Matches: 239, Mismatches: 28, Indels: 95
0.66 0.08 0.26
Matches are distributed among these distances:
21 9 0.04
22 14 0.06
23 17 0.07
24 10 0.04
25 7 0.03
26 11 0.05
27 49 0.21
28 56 0.23
29 21 0.09
30 18 0.08
31 22 0.09
32 5 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (27 bp):
ATAAATAATATTATAATAAATATATTA
Found at i:9073665 original size:22 final size:19
Alignment explanation
Indices: 9073596--9073830 Score: 103
Period size: 18 Copynumber: 11.9 Consensus size: 19
9073586 GAATATATTA
9073596 ATATTAATAAATAA-A-AT
1 ATATTAATAAATAATATAT
*
9073613 -TA-TAATATATTAATATAAT
1 ATATTAATA-AATAATAT-AT
*
9073632 ATATCAATAAATAATATTAT
1 ATATTAATAAATAATA-TAT
9073652 ATTTATTAATAAATAATA-AT
1 A--TATTAATAAATAATATAT
9073672 ATATTAATAAATAATATAT
1 ATATTAATAAATAATATAT
** * *
9073691 A-AAAAATTATTAAT-T-T
1 ATATTAATAAATAATATAT
*
9073707 A-ATTAATAAATATTACAATAAT
1 ATATTAATAAATA--A-TAT-AT
* *
9073729 ATATGAATAAATAAGATAT
1 ATATTAATAAATAATATAT
*
9073748 -TATTAATAGATAATATACT
1 ATATTAATAAATAATATA-T
* *
9073767 ATTAATATAATATATTAATAAAT
1 A-T-AT-TAATA-AATAATATAT
* *
9073790 AACATTAAGAAATAATATTAT
1 -ATATTAATAAATAATA-TAT
9073811 AATATATGAATAAATAATAT
1 -ATAT-T-AATAAATAATAT
9073831 CAAGAATAAT
Statistics
Matches: 164, Mismatches: 27, Indels: 49
0.68 0.11 0.20
Matches are distributed among these distances:
15 5 0.03
16 15 0.09
17 2 0.01
18 39 0.24
19 8 0.05
20 23 0.14
21 17 0.10
22 22 0.13
23 26 0.16
24 7 0.04
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
ATATTAATAAATAATATAT
Found at i:9073717 original size:52 final size:52
Alignment explanation
Indices: 9073556--9073718 Score: 156
Period size: 53 Copynumber: 3.0 Consensus size: 52
9073546 AATAATATCT
** *
9073556 TAATAA-ATATTATTATAAATAA-ATATATACGAATATATTAATATTAATAAATAAAA
1 TAATAATATATTA--ATAAATAATATATA-AAAAAT-TATTAAT-TTAATTAAT-AAA
* *
9073612 TTATAATATATTAAT--ATAATATATCAATAAATAATATTATATTT-ATTAATAAA
1 TAATAATATATTAATAAATAATATAT-AA-AAA-ATTATTA-ATTTAATTAATAAA
9073665 TAATAATATATTAATAAATAATATATAAAAAATTATTAATTTAATTAATAAA
1 TAATAATATATTAATAAATAATATATAAAAAATTATTAATTTAATTAATAAA
9073717 TA
1 TA
9073719 TTACAATAAT
Statistics
Matches: 91, Mismatches: 7, Indels: 22
0.76 0.06 0.18
Matches are distributed among these distances:
51 4 0.04
52 17 0.19
53 24 0.26
54 12 0.13
55 20 0.22
56 8 0.09
57 6 0.07
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (52 bp):
TAATAATATATTAATAAATAATATATAAAAAATTATTAATTTAATTAATAAA
Found at i:9073728 original size:97 final size:91
Alignment explanation
Indices: 9073610--9073781 Score: 215
Period size: 97 Copynumber: 1.8 Consensus size: 91
9073600 TAATAAATAA
*
9073610 AATTATAATATATTAATATAATATATCAATAAATAATATTATATTTATTAATAAATAATAATA-T
1 AATTATAATATATTAATATAATATATCAATAAAT-A-A-GATA-TTATTAATAAATAAT-ATACT
9073674 ATTAATAAATAATATATAAAAAATTATTAATTT
61 ATTAAT--ATAATATATAAAAAATTATTAATTT
* *
9073707 AATTAATAA-ATATTACA-ATAATATATGAATAAATAAGATATTATTAATAGATAATATACTATT
1 AATT-ATAATATATTA-ATATAATATATCAATAAATAAGATATTATTAATAAATAATATACTATT
9073770 AATATAATATAT
64 AATATAATATAT
9073782 TAATAAATAA
Statistics
Matches: 69, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
91 9 0.13
92 3 0.04
93 21 0.30
94 3 0.04
95 1 0.01
96 1 0.01
97 26 0.38
98 5 0.07
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (91 bp):
AATTATAATATATTAATATAATATATCAATAAATAAGATATTATTAATAAATAATATACTATTAA
TATAATATATAAAAAATTATTAATTT
Found at i:9073796 original size:13 final size:13
Alignment explanation
Indices: 9073473--9073830 Score: 138
Period size: 13 Copynumber: 27.8 Consensus size: 13
9073463 AATTTTACTT
9073473 ATAAATAATATTA
1 ATAAATAATATTA
9073486 TATTAAAT-ATATTA
1 -A-TAAATAATATTA
*
9073500 ATAAACAATATTA
1 ATAAATAATATTA
*
9073513 TTTTAATATAATATATTA
1 --ATAA-AT-A-ATATTA
*
9073531 ATAAA-AATCTTA
1 ATAAATAATATTA
9073543 ATAAATAATATCTTA
1 ATAAATAATA--TTA
*
9073558 ATAAATATTATT-
1 ATAAATAATATTA
9073570 ATAAATAAATATATACGA
1 ATAAAT-AATAT-T---A
*
9073588 ATATATTAATATTA
1 ATA-AATAATATTA
*
9073602 ATAAATAAAATT-
1 ATAAATAATATTA
9073614 AT-AAT-ATATTA
1 ATAAATAATATTA
*
9073625 ATATAAT-ATATCA
1 ATA-AATAATATTA
9073638 ATAAATAATATTA
1 ATAAATAATATTA
* * *
9073651 TATTTATTAATAAATA
1 -A-TAAATAAT-ATTA
9073667 AT-AAT-ATATTA
1 ATAAATAATATTA
9073678 ATAAATAATA-T-
1 ATAAATAATATTA
9073689 ATAAA-AA-ATTA
1 ATAAATAATATTA
* * *
9073700 TTAATTTA-ATTA
1 ATAAATAATATTA
* *
9073712 ATAAATATTA-CA
1 ATAAATAATATTA
*
9073724 AT-AAT-ATATGA
1 ATAAATAATATTA
9073735 ATAAATAAGATATT-
1 ATAAAT-A-ATATTA
* *
9073749 ATTAAT-AGA-TA
1 ATAAATAATATTA
*
9073760 AT--ATACTATTA
1 ATAAATAATATTA
9073771 ATATAAT-ATATTA
1 ATA-AATAATATTA
*
9073784 ATAAATAACATTA
1 ATAAATAATATTA
*
9073797 AGAAATAATATT-
1 ATAAATAATATTA
*
9073809 AT-AAT-ATATGA
1 ATAAATAATATTA
9073820 ATAAATAATAT
1 ATAAATAATAT
9073831 CAAGAATAAT
Statistics
Matches: 259, Mismatches: 40, Indels: 91
0.66 0.10 0.23
Matches are distributed among these distances:
9 3 0.01
10 15 0.06
11 37 0.14
12 53 0.20
13 73 0.28
14 21 0.08
15 32 0.12
16 7 0.03
17 2 0.01
18 14 0.05
19 2 0.01
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATAAATAATATTA
Found at i:9073813 original size:36 final size:35
Alignment explanation
Indices: 9073772--9073841 Score: 104
Period size: 36 Copynumber: 2.0 Consensus size: 35
9073762 ATACTATTAA
* *
9073772 TATAATATATTAATAAATAACATTAAGAAATAATAT
1 TATAATATATGAATAAATAACATCAAG-AATAATAT
*
9073808 TATAATATATGAATAAATAATATCAAGAATAATA
1 TATAATATATGAATAAATAACATCAAGAATAATA
9073842 AATAGTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (35 bp):
TATAATATATGAATAAATAACATCAAGAATAATAT
Found at i:9073830 original size:15 final size:14
Alignment explanation
Indices: 9073473--9073829 Score: 142
Period size: 15 Copynumber: 25.2 Consensus size: 14
9073463 AATTTTACTT
9073473 ATAAATAATATTATA
1 ATAAATAATA-TATA
*
9073488 TTAAAT-ATAT-TA
1 ATAAATAATATATA
* *
9073500 ATAAACAATATTATT
1 ATAAATAATA-TATA
*
9073515 TTAATATAATATATTA
1 ATAA-ATAATATA-TA
*
9073531 ATAAA-AATCT-TA
1 ATAAATAATATATA
*
9073543 ATAAATAATATCTTA
1 ATAAATAATAT-ATA
*
9073558 ATAAATATTATTATAA
1 ATAAATAATA-TAT-A
*
9073574 ATAAAT-ATATACGA
1 ATAAATAATATA-TA
*
9073588 ATATATTAATAT-TA
1 ATA-AATAATATATA
*
9073602 ATAAATAA-A-ATT
1 ATAAATAATATATA
9073614 AT-AAT-ATAT-TA
1 ATAAATAATATATA
9073625 AT--ATAATATATCA
1 ATAAATAATATAT-A
9073638 ATAAATAATATTATA
1 ATAAATAATA-TATA
* * * *
9073653 TTTATTAATAAATA
1 ATAAATAATATATA
9073667 AT-AAT-ATAT-TA
1 ATAAATAATATATA
9073678 ATAAATAATATATA
1 ATAAATAATATATA
*
9073692 A-AAA-ATTAT-TA
1 ATAAATAATATATA
* *
9073703 ATTTAATTAATAAATA
1 A--TAAATAATATATA
*
9073719 TTACAATAATATATGA
1 ATA-AATAATATAT-A
9073735 ATAAATAAGATATTATTA
1 ATAAAT-A-ATA-TA-TA
*
9073753 ATAGATAATATACTA
1 ATAAATAATATA-TA
*
9073768 TTAATATAATATATTA
1 ATAA-ATAATATA-TA
*
9073784 ATAAATAACAT-TA
1 ATAAATAATATATA
*
9073797 AGAAATAATATTATA
1 ATAAATAATA-TATA
* *
9073812 ATATATGAATAAATA
1 ATAAAT-AATATATA
9073827 ATA
1 ATA
9073830 TCAAGAATAA
Statistics
Matches: 256, Mismatches: 46, Indels: 80
0.67 0.12 0.21
Matches are distributed among these distances:
10 3 0.01
11 18 0.07
12 28 0.11
13 34 0.13
14 30 0.12
15 80 0.31
16 50 0.20
17 4 0.02
18 8 0.03
19 1 0.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
ATAAATAATATATA
Found at i:9073896 original size:15 final size:15
Alignment explanation
Indices: 9073876--9073954 Score: 52
Period size: 16 Copynumber: 4.9 Consensus size: 15
9073866 ATATTAATAT
9073876 AATATTTTAATATTAA
1 AATATTTTAATATT-A
*
9073892 ATATTATTATTAAAATATA
1 A-A-TATT-TTAATAT-TA
*
9073911 AATATTTTAAT-TTT
1 AATATTTTAATATTA
*
9073925 AATAATTTTAATAATA
1 AAT-ATTTTAATATTA
*
9073941 AATAATTTCAATAT
1 AAT-ATTTTAATAT
9073955 ATTTTAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
14 4 0.08
15 9 0.18
16 18 0.36
17 5 0.10
18 5 0.10
19 8 0.16
20 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATATTA
Found at i:9073928 original size:20 final size:21
Alignment explanation
Indices: 9073859--9073928 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
9073849 TTATTTTAAG
* *
9073859 TATTTTTATATT-AATA-TAA
1 TATTTTAATATTAAATATTAT
9073878 TATTTTAATATTAAATATTAT
1 TATTTTAATATTAAATATTAT
**
9073899 TATTAAAATA-TAAATATT-T
1 TATTTTAATATTAAATATTAT
9073918 TAATTTTAATA
1 T-ATTTTAATA
9073929 ATTTTAATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 13 0.31
20 19 0.45
21 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTTTAATATTAAATATTAT
Found at i:9073932 original size:9 final size:9
Alignment explanation
Indices: 9073918--9073965 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
9073908 ATAAATATTT
9073918 TAATTTTAA
1 TAATTTTAA
9073927 TAATTTTAA
1 TAATTTTAA
*
9073936 TAA--TAAA
1 TAATTTTAA
*
9073943 TAATTTCAA
1 TAATTTTAA
9073952 TATATTTTAA
1 TA-ATTTTAA
9073962 TAAT
1 TAAT
9073966 AAAAAGGTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 6 0.18
9 19 0.58
10 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (9 bp):
TAATTTTAA
Found at i:9073958 original size:26 final size:25
Alignment explanation
Indices: 9073918--9073968 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
9073908 ATAAATATTT
*
9073918 TAATTTTAATAATTTTAATAATAAA
1 TAATTTCAATAATTTTAATAATAAA
9073943 TAATTTCAATATATTTTAATAATAAA
1 TAATTTCAATA-ATTTTAATAATAAA
9073969 AAGGTGGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TAATTTCAATAATTTTAATAATAAA
Found at i:9076960 original size:16 final size:19
Alignment explanation
Indices: 9076939--9076987 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
9076929 TTTTATGTAT
9076939 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
9076956 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
9076974 TGTATATATTTATT
1 TGTAT-TATTTATT
9076988 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:9077043 original size:18 final size:17
Alignment explanation
Indices: 9076951--9077044 Score: 54
Period size: 16 Copynumber: 5.7 Consensus size: 17
9076941 TATTATTTAT
9076951 TATTAT-TA-TTATGTA
1 TATTATATATTTATGTA
* * *
9076966 T-TAATATATGTATATA
1 TATTATATATTTATGTA
* * *
9076982 T-TTATTTATTTATTTT
1 TATTATATATTTATGTA
* *
9076998 TGTTA-ATATTTATGTG
1 TATTATATATTTATGTA
*
9077014 TATTTTATTATTTATGTA
1 TATTATA-TATTTATGTA
9077032 TATATATATATTT
1 TAT-TATATATTT
9077045 TTTATCTTTT
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
14 3 0.05
15 3 0.05
16 28 0.48
17 4 0.07
18 17 0.29
19 3 0.05
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (17 bp):
TATTATATATTTATGTA
Found at i:9077497 original size:25 final size:26
Alignment explanation
Indices: 9077445--9077497 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
9077435 GGGAGTGAGG
* * *
9077445 AAAATTTTTTTAGAGATTTTTGGCGA
1 AAAATTTTTCTAGAAATTTCTGGCGA
*
9077471 AAAATTTTTCTGGAAATTTCTGG-GA
1 AAAATTTTTCTAGAAATTTCTGGCGA
9077496 AA
1 AA
9077498 TTTCCAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.42
Consensus pattern (26 bp):
AAAATTTTTCTAGAAATTTCTGGCGA
Found at i:9077565 original size:31 final size:31
Alignment explanation
Indices: 9077516--9077574 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
9077506 TTCCGACGAA
* * *
9077516 AATTCCGGCGAAATTTGAATTTTTCGGCAAC
1 AATTCCGACGAAATTTGAAGTTTCCGGCAAC
9077547 AATTCCGACGAACA-TTGAAGTTTCCGGC
1 AATTCCGACGAA-ATTTGAAGTTTCCGGC
9077575 GACCAGCCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 23 0.96
32 1 0.04
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (31 bp):
AATTCCGACGAAATTTGAAGTTTCCGGCAAC
Found at i:9077653 original size:19 final size:20
Alignment explanation
Indices: 9077629--9077674 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9077619 TCCGGCCAAC
9077629 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
9077648 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
9077668 ATCCGGC
1 TTCCGGC
9077675 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:9077905 original size:5 final size:5
Alignment explanation
Indices: 9077895--9077921 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
9077885 CCAGCCCCCT
9077895 CGAGC CGAGC CGAGC CGAGC CGAGC CG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CG
9077922 CTCCCTCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.41, G:0.41, T:0.00
Consensus pattern (5 bp):
CGAGC
Found at i:9078035 original size:12 final size:11
Alignment explanation
Indices: 9078013--9078059 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
9078003 TCTCTTTGAA
9078013 TTTTT-TTTAT
1 TTTTTATTTAT
*
9078023 TTCTTTGTTTAT
1 TT-TTTATTTAT
9078035 TTGTTTATTTTAT
1 TT-TTTA-TTTAT
9078048 TTTTTATTTAT
1 TTTTTATTTAT
9078059 T
1 T
9078060 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 9 0.28
12 14 0.44
13 7 0.22
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:9078206 original size:57 final size:58
Alignment explanation
Indices: 9078130--9078294 Score: 253
Period size: 57 Copynumber: 2.8 Consensus size: 58
9078120 ATTTCCAAAA
*
9078130 AAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT-AAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAATCAAATTTCC
*
9078187 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATC-AAATTTCC
* *
9078246 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCCTAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAA-TTTTCCTAGAAAA
9078295 ATCATTCTTT
Statistics
Matches: 99, Mismatches: 5, Indels: 5
0.91 0.05 0.05
Matches are distributed among these distances:
56 1 0.01
57 45 0.45
59 42 0.42
60 11 0.11
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (58 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATCAAATTTCC
Found at i:9078225 original size:27 final size:27
Alignment explanation
Indices: 9078137--9078225 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
9078127 AAAAAAAAAG
9078137 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
** * * **
9078164 ATTTTCCTCAGAAATAAATTTCCAAAAAAT--
1 ATTTT--T-AGGGA-AAAGTT-GAAAGTATCA
9078194 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
9078221 ATTTT
1 ATTTT
9078226 CCTTGAAAAT
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 13 0.30
28 1 0.02
29 1 0.02
30 8 0.19
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.36
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:9078250 original size:59 final size:57
Alignment explanation
Indices: 9078130--9078284 Score: 249
Period size: 59 Copynumber: 2.7 Consensus size: 57
9078120 ATTTCCAAAA
*
9078130 AAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCC
*
9078187 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCT-TGAAAATCGAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAAT--AAATTTCC
*
9078246 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
9078285 TCCTAAAAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
56 1 0.01
57 45 0.49
59 46 0.50
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCC
Found at i:9081738 original size:17 final size:17
Alignment explanation
Indices: 9081716--9081750 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
9081706 GTAATTTTTG
*
9081716 AAAAAAA-AAAAAGGAA
1 AAAAAAAGAAAAAAGAA
9081732 AAAAAAAGAAAAAAGAA
1 AAAAAAAGAAAAAAGAA
9081749 AA
1 AA
9081751 GACACTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAAGAA
Found at i:9081752 original size:12 final size:11
Alignment explanation
Indices: 9081718--9081752 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
9081708 AATTTTTGAA
9081718 AAAAAAAAAAG
1 AAAAAAAAAAG
*
9081729 GAAAAAAAAAG
1 AAAAAAAAAAG
9081740 AAAAAAGAAAAG
1 AAAAAA-AAAAG
9081752 A
1 A
9081753 CACTACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:9083356 original size:40 final size:40
Alignment explanation
Indices: 9083312--9083759 Score: 636
Period size: 40 Copynumber: 11.0 Consensus size: 40
9083302 GTCTAGGAGT
9083312 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
9083352 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9083393 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
9083435 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9083475 ATTTACTTTTCAAAGTTCAT-TACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
9083515 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9083556 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9083598 ATTTACTTTTCAAAGTTCAT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9083638 ATTTACTTTTCCAAGTTCGT-TGCCTCTGCTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
9083678 ATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
9083719 ATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCGT-GTGCCTCTGTTTAGAGGAGC
9083760 TTTGGTAAAA
Statistics
Matches: 378, Mismatches: 19, Indels: 20
0.91 0.05 0.05
Matches are distributed among these distances:
39 11 0.03
40 155 0.41
41 97 0.26
42 115 0.30
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:9083582 original size:163 final size:163
Alignment explanation
Indices: 9083312--9083759 Score: 808
Period size: 163 Copynumber: 2.7 Consensus size: 163
9083302 GTCTAGGAGT
*
9083312 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
9083377 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACT
66 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACT
*
9083442 TTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
131 TTTCAAAGTTCATTGCCTCTGTTTAGAGGAGCA
* *
9083475 ATTTACTTTTCAAAGTTCATTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
9083540 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACT
66 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACT
9083605 TTTCAAAGTTCATTGCCTCTGTTTAGAGGAGCA
131 TTTCAAAGTTCATTGCCTCTGTTTAGAGGAGCA
* * *
9083638 ATTTACTTTTCCAAGTTCGTTGCCTCTGCTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACC
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
*
9083703 TCTGTTTAGAGGAGCAATTTAC-TTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
66 TCTGTTTAGAGGAGCAATTTACTTTTCC-AAAGTCGTGGTACCTCTGTTTAGAGGAGC
9083760 TTTGGTAAAA
Statistics
Matches: 274, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
162 5 0.02
163 269 0.98
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (163 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCC
TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACT
TTTCAAAGTTCATTGCCTCTGTTTAGAGGAGCA
Found at i:9083584 original size:123 final size:122
Alignment explanation
Indices: 9083312--9083759 Score: 660
Period size: 123 Copynumber: 3.6 Consensus size: 122
9083302 GTCTAGGAGT
* *
9083312 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAAGTTCGTTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCAT-GTGCC
*
9083377 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
65 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
* *
9083435 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCAT-TACC
1 ATTTACTTTTCAAAGTTCGTTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCATGTGCC
9083499 TCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
65 TCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
9083556 ATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCAT-T
1 ATTTACTTTT-CAAAGTTCGT--TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCATGT
*
9083619 GCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAGTTCGT--TGCCTCTGCTTAGAGGAGCA
62 GCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
* * *
9083678 ATTTACTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGTCGTGGT
1 ATTTACTTTTCAAAGTTCGT--TACCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCAT-GT
9083742 GCCTCTGTTTAGAGGAGC
62 GCCTCTGTTTAGAGGAGC
9083760 TTTGGTAAAA
Statistics
Matches: 307, Mismatches: 9, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
121 92 0.30
122 62 0.20
123 141 0.46
124 12 0.04
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (122 bp):
ATTTACTTTTCAAAGTTCGTTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCATGTGCCT
CTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
Found at i:9083779 original size:8 final size:8
Alignment explanation
Indices: 9083766--9083831 Score: 86
Period size: 7 Copynumber: 8.6 Consensus size: 8
9083756 GAGCTTTGGT
9083766 AAAAAACA
1 AAAAAACA
9083774 AAAAAACA
1 AAAAAACA
9083782 AAAAAAC-
1 AAAAAACA
9083789 AAAAAAC-
1 AAAAAACA
9083796 AAAAAA-A
1 AAAAAACA
*
9083803 AAACAA-A
1 AAAAAACA
9083810 AAAAAACA
1 AAAAAACA
9083818 AAAAAACCA
1 AAAAAA-CA
9083827 AAAAA
1 AAAAA
9083832 TGTTGAGTTG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
7 24 0.45
8 22 0.42
9 7 0.13
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAACA
Found at i:9083794 original size:18 final size:18
Alignment explanation
Indices: 9083773--9083831 Score: 93
Period size: 18 Copynumber: 3.3 Consensus size: 18
9083763 GGTAAAAAAC
9083773 AAAAAAACAAAAAAACAA
1 AAAAAAACAAAAAAACAA
9083791 AAAACAAA-AAAAAAACAA
1 AAAA-AAACAAAAAAACAA
*
9083809 AAAAAAACAAAAAAACCA
1 AAAAAAACAAAAAAACAA
9083827 AAAAA
1 AAAAA
9083832 TGTTGAGTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
17 3 0.08
18 32 0.84
19 3 0.08
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAAAAACAA
Found at i:9083831 original size:1 final size:1
Alignment explanation
Indices: 9083766--9083823 Score: 62
Period size: 1 Copynumber: 58.0 Consensus size: 1
9083756 GAGCTTTGGT
* * * * * *
9083766 AAAAAACAAAAAAACAAAAAAACAAAAAACAAAAAAAAAACAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9083824 CCAAAAAATG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9083831 original size:10 final size:10
Alignment explanation
Indices: 9083766--9083823 Score: 71
Period size: 10 Copynumber: 5.4 Consensus size: 10
9083756 GAGCTTTGGT
9083766 AAAAAACAAAA
1 AAAAAAC-AAA
*
9083777 AAACAAAAAAA
1 AAA-AAACAAA
9083788 CAAAAAACAAAA
1 -AAAAAAC-AAA
9083800 AAAAAACAAA
1 AAAAAACAAA
9083810 AAAAAACAAA
1 AAAAAACAAA
9083820 AAAA
1 AAAA
9083824 CCAAAAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
10 17 0.40
11 16 0.38
12 9 0.21
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:9084049 original size:16 final size:19
Alignment explanation
Indices: 9084028--9084076 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
9084018 TTTTATGTAT
9084028 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
9084045 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
9084063 TGTATATATTTATT
1 TGTAT-TATTTATT
9084077 TATTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:9084589 original size:25 final size:26
Alignment explanation
Indices: 9084537--9084589 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
9084527 GGGAGTGAGG
* * *
9084537 AAAATTTTTTTAGAGATTTTTGGCGA
1 AAAATTTTTCTAGAAATTTCTGGCGA
*
9084563 AAAATTTTTCTGGAAATTTCTGG-GA
1 AAAATTTTTCTAGAAATTTCTGGCGA
9084588 AA
1 AA
9084590 TTTCTAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.42
Consensus pattern (26 bp):
AAAATTTTTCTAGAAATTTCTGGCGA
Found at i:9084614 original size:12 final size:12
Alignment explanation
Indices: 9084597--9084623 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9084587 AAATTTCTAG
9084597 ATTCCGGCGAAA
1 ATTCCGGCGAAA
9084609 ATTCCGGCGAAA
1 ATTCCGGCGAAA
9084621 ATT
1 ATT
9084624 GAATTTTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (12 bp):
ATTCCGGCGAAA
Found at i:9084633 original size:31 final size:32
Alignment explanation
Indices: 9084598--9084668 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 32
9084588 AATTTCTAGA
*
9084598 TTCCGGCGAA-AATTCCGGCGAAAATTGAATT
1 TTCCGGCGAACAATTCCGGCGAAAATTGAAGT
*
9084629 TTCCGGC-AACAATTCCGGCGAACATTGAAGT
1 TTCCGGCGAACAATTCCGGCGAAAATTGAAGT
9084660 TTCCGGCGA
1 TTCCGGCGA
9084669 CCAGCCCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.06
31 33 0.92
32 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (32 bp):
TTCCGGCGAACAATTCCGGCGAAAATTGAAGT
Found at i:9084745 original size:19 final size:20
Alignment explanation
Indices: 9084721--9084766 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9084711 TCCGGCCAAC
9084721 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
9084740 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
9084760 ATCCGGC
1 TTCCGGC
9084767 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:9085111 original size:12 final size:11
Alignment explanation
Indices: 9085089--9085135 Score: 51
Period size: 12 Copynumber: 4.1 Consensus size: 11
9085079 TCTCTTTGAA
9085089 TTTTT-TTTAT
1 TTTTTATTTAT
*
9085099 TTCTTTGTTTAT
1 TT-TTTATTTAT
9085111 TTGTTTATTTTAT
1 TT-TTTA-TTTAT
9085124 TTTTTATTTAT
1 TTTTTATTTAT
9085135 T
1 T
9085136 AGATTAGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 2 0.06
11 9 0.28
12 14 0.44
13 7 0.22
ACGTcount: A:0.13, C:0.02, G:0.04, T:0.81
Consensus pattern (11 bp):
TTTTTATTTAT
Found at i:9085282 original size:57 final size:57
Alignment explanation
Indices: 9085206--9085421 Score: 319
Period size: 59 Copynumber: 3.7 Consensus size: 57
9085196 ATTTCCAAAA
* *
9085206 AAAAAAGATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
9085263 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
9085320 AAAAAA-AGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCC
1 AAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
9085381 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9085422 CTAAAAAAAT
Statistics
Matches: 144, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
56 1 0.01
57 60 0.42
58 1 0.01
59 68 0.47
61 13 0.09
62 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:9085323 original size:118 final size:117
Alignment explanation
Indices: 9085190--9085421 Score: 362
Period size: 118 Copynumber: 2.0 Consensus size: 117
9085180 CTTAAAAGAA
*
9085190 AAATAAATTTCCAAAAAAAAAAGATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAA
1 AAATAAATTTCC--AAAAAAAAGATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTGA-AA
9085253 AT-AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
62 ATAAAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
* * *
9085308 AAATAAATTTTCAAAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCA
1 AAATAAATTTCCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-A
9085373 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
65 AAATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
9085422 CTAAAAAAAT
Statistics
Matches: 106, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
116 44 0.42
117 2 0.02
118 60 0.57
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (117 bp):
AAATAAATTTCCAAAAAAAAGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA
AATTTCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG
Found at i:9102052 original size:20 final size:22
Alignment explanation
Indices: 9102024--9102064 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
9102014 TTATTTTTTC
*
9102024 ATTTTAAAAT-TTTT-AGAAAA
1 ATTTAAAAATATTTTCAGAAAA
9102044 ATTTAAAAATATTTTCAGAAA
1 ATTTAAAAATATTTTCAGAAA
9102065 GAATAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.41
Consensus pattern (22 bp):
ATTTAAAAATATTTTCAGAAAA
Found at i:9102771 original size:12 final size:12
Alignment explanation
Indices: 9102751--9102780 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9102741 TATAAAGTAA
*
9102751 TTAAGTAAAAAT
1 TTAAATAAAAAT
9102763 TTAAATAAAAAT
1 TTAAATAAAAAT
9102775 TTAAAT
1 TTAAAT
9102781 CTATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (12 bp):
TTAAATAAAAAT
Found at i:9105603 original size:35 final size:36
Alignment explanation
Indices: 9105537--9105604 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
9105527 AAATTAATAT
* * *
9105537 TATCATAATTAATATCAATTATATGTTTTTATTACA
1 TATCATAATGAATATCAATAATATGTCTTTATTACA
9105573 TATCATAATGAA-ATCAATAAT-TGCTCTTTATT
1 TATCATAATGAATATCAATAATATG-TCTTTATT
9105605 TAAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 2 0.07
35 15 0.54
36 11 0.39
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.47
Consensus pattern (36 bp):
TATCATAATGAATATCAATAATATGTCTTTATTACA
Found at i:9106045 original size:30 final size:30
Alignment explanation
Indices: 9106011--9106073 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
9106001 AAACAAAGTT
*
9106011 ACAAACATCATAAAACATGTCCAAAGCCAA
1 ACAAACATCATAAAACATGTACAAAGCCAA
*
9106041 ACAAACATCATAAAACCTGTACAAAGCCAA
1 ACAAACATCATAAAACATGTACAAAGCCAA
9106071 ACA
1 ACA
9106074 GATCAGGCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.27, G:0.06, T:0.13
Consensus pattern (30 bp):
ACAAACATCATAAAACATGTACAAAGCCAA
Found at i:9107173 original size:198 final size:198
Alignment explanation
Indices: 9106827--9107194 Score: 477
Period size: 198 Copynumber: 1.9 Consensus size: 198
9106817 AACATCATTG
* *
9106827 TGGGGAACTTGATCAGCAAGAAACCTACAATCCAAACACGGTGCATACCATGATCAGTACCAGCT
1 TGGGGAACTTGATCAGCAAGAAACCTACAATCCAAACACGGTGCAGACCATGATCAGTACCAGCC
* * ** * * * *
9106892 CTCCTGATTTTACTAATGCTTATGTTTGTGTTGGTCCTGAGGAAGAGATGTCGCTTACAAATATG
66 CTCCTGATTTCAATAATGCTTATGTTTACGTTGATCCTAAAGAAGAGATATCGCTTACAAATATG
* * *
9106957 AAGACATTTGGGGCTGATCAAAGTAGTATAAACCAAAGCATTGCTCAAACGATTTGTAAGCAGAA
131 AAGAAATTTGGAGCTGATCAAAGTACTATAAACCAAAGCATTGCTCAAACGATTTGTAAGCAGAA
9107022 GTC
196 GTC
* ** * **
9107025 TGGGGAACTTGATCATCAAGAAA-CTCACGGTCCAAGCACGGTGCAGACCATGATCAGTAGTAGC
1 TGGGGAACTTGATCAGCAAGAAACCT-ACAATCCAAACACGGTGCAGACCATGATCAGTACCAGC
* * * * * *
9107089 CCTCCTGGTTTCAATAATGCTTCTGTTTACGTTGATCCTAAAGAAGAGATATGGTTTCCAACTAT
65 CCTCCTGATTTCAATAATGCTTATGTTTACGTTGATCCTAAAGAAGAGATATCGCTTACAAATAT
* *
9107154 GAAGAAATTTGGAGCTGATCAAAGTACTCTAAACGAAAGCA
130 GAAGAAATTTGGAGCTGATCAAAGTACTATAAACCAAAGCA
9107195 ATGGTCATGA
Statistics
Matches: 142, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
197 2 0.01
198 140 0.99
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (198 bp):
TGGGGAACTTGATCAGCAAGAAACCTACAATCCAAACACGGTGCAGACCATGATCAGTACCAGCC
CTCCTGATTTCAATAATGCTTATGTTTACGTTGATCCTAAAGAAGAGATATCGCTTACAAATATG
AAGAAATTTGGAGCTGATCAAAGTACTATAAACCAAAGCATTGCTCAAACGATTTGTAAGCAGAA
GTC
Found at i:9107447 original size:225 final size:225
Alignment explanation
Indices: 9107153--9107582 Score: 619
Period size: 225 Copynumber: 1.9 Consensus size: 225
9107143 TTTCCAACTA
* * *
9107153 TGAAGAAATTTGGAGCTGATCAAAGTACTCTAAACGAAAGCAATGGTCATGAATGGAATGAAAGC
1 TGAAGAAATTTGGAGCTGATCAAAGCACTCTAAACGAAAGCAATGCTCACGAATGGAATGAAAGC
* *
9107218 AGTGCTCAAACAATTTGTCAGCAGAATTTTAGGGAACTTGATCACCAAGAAACTCACAATCCAAA
66 AGTGCTCAAACAATTTGTCAGCAGAATTCTAGGGAACTTGATCACCAAGAAACTCACAACCCAAA
* * * *
9107283 AACAGTGCTAGCCATGATCAACACCAGCTGCTCTCCTGATTTTACTAATGATTCTGTTTACAATG
131 AACAGTGCAAACCATGATCAACACCAGCTGCTCTCCTGATTTTACTAATGATTCTGTTAAAAATG
*
9107348 GTCCTGAAGAAGTCGTGTCGTTTCTAACCG
196 GCCCTGAAGAAGTCGTGTCGTTTCTAACCG
* * * * *
9107378 TGAAGAAATTTGGGGCTGATCAAAGCAGTCTAACCG-AAGACAATGCTGACGAATGGAATGAAGG
1 TGAAGAAATTTGGAGCTGATCAAAGCACTCTAAACGAAAG-CAATGCTCACGAATGGAATGAAAG
*
9107442 CAGTGCTCAAACAATTTGTCAGCAGAATTCTAGGGAACTTGATCATCAAGAAACTCACAACCCAA
65 CAGTGCTCAAACAATTTGTCAGCAGAATTCTAGGGAACTTGATCACCAAGAAACTCACAACCCAA
* * * * * ** * *
9107507 AGACGGTTCAAACCATGATTAATACCAGCTTTTCTCCTGGTTTTACTAATGCTTCTGTTAAAAAT
130 AAACAGTGCAAACCATGATCAACACCAGCTGCTCTCCTGATTTTACTAATGATTCTGTTAAAAAT
9107572 GGCCCTGAAGA
195 GGCCCTGAAGA
9107583 GCTTAGGCAA
Statistics
Matches: 179, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
224 3 0.02
225 176 0.98
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (225 bp):
TGAAGAAATTTGGAGCTGATCAAAGCACTCTAAACGAAAGCAATGCTCACGAATGGAATGAAAGC
AGTGCTCAAACAATTTGTCAGCAGAATTCTAGGGAACTTGATCACCAAGAAACTCACAACCCAAA
AACAGTGCAAACCATGATCAACACCAGCTGCTCTCCTGATTTTACTAATGATTCTGTTAAAAATG
GCCCTGAAGAAGTCGTGTCGTTTCTAACCG
Found at i:9111394 original size:12 final size:12
Alignment explanation
Indices: 9111338--9111393 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
9111328 GTCATATAAA
9111338 AATTATTTTAAAT
1 AATTATTTT-AAT
* * *
9111351 ATTTAATTAAAT
1 AATTATTTTAAT
*
9111363 ACTTA-TTTAAT
1 AATTATTTTAAT
9111374 AATTATTTTAA-
1 AATTATTTTAAT
9111385 AATTATTTT
1 AATTATTTT
9111394 TTTATATTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 18 0.50
12 12 0.33
13 6 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (12 bp):
AATTATTTTAAT
Found at i:9112446 original size:10 final size:10
Alignment explanation
Indices: 9112433--9112462 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9112423 ATCAAATTTT
9112433 TATATTTTAA
1 TATATTTTAA
9112443 TATATTTTAA
1 TATATTTTAA
9112453 T-TATTTTAA
1 TATATTTTAA
9112462 T
1 T
9112463 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:9114164 original size:34 final size:34
Alignment explanation
Indices: 9114103--9114173 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
9114093 TCTTAAAAGG
9114103 TTTTAAATTTGCATTTCCAGTAGC-TTTTAAAAA
1 TTTTAAATTTGCATTTCCAGTAGCTTTTTAAAAA
* *
9114136 TTTTCAAATTTGCATTTTCAGATA-CTTTTTACAAA
1 TTTT-AAATTTGCATTTCCAG-TAGCTTTTTAAAAA
9114171 TTT
1 TTT
9114174 CCGAAAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 4 0.12
34 16 0.48
35 13 0.39
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (34 bp):
TTTTAAATTTGCATTTCCAGTAGCTTTTTAAAAA
Found at i:9122602 original size:26 final size:25
Alignment explanation
Indices: 9122573--9122635 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
9122563 AATCTATATA
* *
9122573 TAAAATA-AATCTAATTAATATTGATT
1 TAAAATATAATC-AATAAAAATT-ATT
*
9122599 TAAATTATAATCAATAAAAATTATT
1 TAAAATATAATCAATAAAAATTATT
9122624 TAAAATGATAAT
1 TAAAAT-ATAAT
9122636 TTAAAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 8 0.26
26 19 0.61
27 4 0.13
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (25 bp):
TAAAATATAATCAATAAAAATTATT
Found at i:9123931 original size:18 final size:20
Alignment explanation
Indices: 9123908--9123949 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
9123898 TTTAATAATC
9123908 ATATGAATAATTT-TT-TAA
1 ATATGAATAATTTATTATAA
*
9123926 ATATGAATATTTTATTATAA
1 ATATGAATAATTTATTATAA
9123946 ATAT
1 ATAT
9123950 TTTTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 12 0.57
19 2 0.10
20 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATATGAATAATTTATTATAA
Found at i:9124983 original size:15 final size:15
Alignment explanation
Indices: 9124952--9124989 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
9124942 TAAATTTAAA
9124952 TTATATT-TATATTT
1 TTATATTATATATTT
*
9124966 TTATATTATATTTTT
1 TTATATTATATATTT
9124981 TTATATTAT
1 TTATATTAT
9124990 CCCGTCACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATATTATATATTT
Found at i:9125838 original size:16 final size:17
Alignment explanation
Indices: 9125807--9125839 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9125797 TGTTTTTTCC
9125807 TTTTTCTCTTTGTATTT
1 TTTTTCTCTTTGTATTT
*
9125824 TTTTTTTCTTT-TATTT
1 TTTTTCTCTTTGTATTT
9125840 AAGCTTGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.09, G:0.03, T:0.82
Consensus pattern (17 bp):
TTTTTCTCTTTGTATTT
Found at i:9128722 original size:18 final size:19
Alignment explanation
Indices: 9128696--9128736 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
9128686 TAAGAAATAC
9128696 AATAAAAAAA-TTTCTATT
1 AATAAAAAAATTTTCTATT
*
9128714 AATACAAAAATTTTCTATT
1 AATAAAAAAATTTTCTATT
9128733 AATA
1 AATA
9128737 TATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAAAAAAATTTTCTATT
Found at i:9129271 original size:13 final size:13
Alignment explanation
Indices: 9129255--9129291 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9129245 TGATTAAATA
9129255 AAAATTAAAATCG
1 AAAATTAAAATCG
*
9129268 AAAATTAAAATTG
1 AAAATTAAAATCG
9129281 ATAAATTAAAA
1 A-AAATTAAAA
9129292 AATCTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (13 bp):
AAAATTAAAATCG
Found at i:9132397 original size:17 final size:17
Alignment explanation
Indices: 9132353--9132401 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
9132343 TTTTCTAGTT
9132353 TTCTTTTAAAGCTTTCTTG
1 TTCTTTTAAA--TTTCTTG
*
9132372 TTC-TTTAAATTTTTTG
1 TTCTTTTAAATTTCTTG
9132388 TTCTTTTAAATTTC
1 TTCTTTTAAATTTC
9132402 AGTTTTTTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 9 0.33
17 9 0.33
18 6 0.22
19 3 0.11
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.63
Consensus pattern (17 bp):
TTCTTTTAAATTTCTTG
Found at i:9135115 original size:14 final size:15
Alignment explanation
Indices: 9135082--9135128 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
9135072 CATGAACAAT
*
9135082 AAATAAACTATAACC
1 AAATAAACTATAAAC
*
9135097 AAATAAA-TTTAAAC
1 AAATAAACTATAAAC
**
9135111 AAATAAACCCTAAAC
1 AAATAAACTATAAAC
9135126 AAA
1 AAA
9135129 CATAAATGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATAAACTATAAAC
Found at i:9135166 original size:97 final size:97
Alignment explanation
Indices: 9135060--9135251 Score: 348
Period size: 97 Copynumber: 2.0 Consensus size: 97
9135050 TTAAATGAAC
*
9135060 AATGAACACATTCATGAACAATAAATAAACTATAACCAAATAAATTTAAACAAATAAACCCTAAA
1 AATGAACACATTCATGAACAATAAACAAACTATAACCAAATAAATTTAAACAAATAAACCCTAAA
* *
9135125 CAAACATAAATGAACCTAAACAAACATAAATA
66 CAAACATAAACGAACCCAAACAAACATAAATA
9135157 AATGAACACATTCATGAACAATAAACAAACTATAACCAAATAAATTTAAACAAATAAACCCTAAA
1 AATGAACACATTCATGAACAATAAACAAACTATAACCAAATAAATTTAAACAAATAAACCCTAAA
*
9135222 CAAACATAAACGAACCCAAACGAACATAAA
66 CAAACATAAACGAACCCAAACAAACATAAA
9135252 CAAACCTTAA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.59, C:0.19, G:0.04, T:0.18
Consensus pattern (97 bp):
AATGAACACATTCATGAACAATAAACAAACTATAACCAAATAAATTTAAACAAATAAACCCTAAA
CAAACATAAACGAACCCAAACAAACATAAATA
Found at i:9135247 original size:20 final size:21
Alignment explanation
Indices: 9135212--9135262 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
9135202 TTAAACAAAT
9135212 AAACCCTAAACAAACATAAAC
1 AAACCCTAAACAAACATAAAC
* *
9135233 GAACCC-AAACGAACATAAAC
1 AAACCCTAAACAAACATAAAC
*
9135253 AAACCTTAAA
1 AAACCCTAAA
9135263 ATAAGATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.59, C:0.27, G:0.04, T:0.10
Consensus pattern (21 bp):
AAACCCTAAACAAACATAAAC
Found at i:9135334 original size:22 final size:22
Alignment explanation
Indices: 9135309--9135351 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9135299 TAGTATTATT
*
9135309 ATAAACGAACAATAAATGAATA
1 ATAAACGAACAATAAACGAATA
* *
9135331 ATAAACTAACAGTAAACGAAT
1 ATAAACGAACAATAAACGAAT
9135352 GAGTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (22 bp):
ATAAACGAACAATAAACGAATA
Found at i:9136939 original size:14 final size:15
Alignment explanation
Indices: 9136922--9136952 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9136912 AAAAACCTTC
9136922 TTTTTCTTTT-TTTT
1 TTTTTCTTTTCTTTT
9136936 TTTTTCTTTTCTTTT
1 TTTTTCTTTTCTTTT
9136951 TT
1 TT
9136953 CTAAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTTCTTTT
Found at i:9140544 original size:13 final size:12
Alignment explanation
Indices: 9140526--9140568 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 12
9140516 TTTTAGCTTT
9140526 ATTTAAAAATTAC
1 ATTTAAAAATT-C
9140539 ATTTAAAAGATTC
1 ATTTAAAA-ATTC
*
9140552 ATTTAAATAATTT
1 ATTTAAA-AATTC
9140565 ATTT
1 ATTT
9140569 TTATTTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 23 0.85
14 4 0.15
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (12 bp):
ATTTAAAAATTC
Found at i:9140785 original size:3 final size:3
Alignment explanation
Indices: 9140775--9140818 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
9140765 AATTATTACT
*
9140775 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9140819 TCATGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:9141570 original size:25 final size:25
Alignment explanation
Indices: 9141536--9141584 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
9141526 TTGTTTTAAA
*
9141536 TATTAATAATAATAATAAACAAAAC
1 TATTAATAATAATAATAAAAAAAAC
9141561 TATTAATAATAATAATAAAAAAAA
1 TATTAATAATAATAATAAAAAAAA
9141585 AACAAAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
TATTAATAATAATAATAAAAAAAAC
Found at i:9142048 original size:11 final size:11
Alignment explanation
Indices: 9142032--9142071 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
9142022 CATTTAGTGG
9142032 AGAAAAGAACA
1 AGAAAAGAACA
*
9142043 AGAAAAGAAAA
1 AGAAAAGAACA
9142054 AGAAAAG-ACA
1 AGAAAAGAACA
9142064 AGAAAAGA
1 AGAAAAGA
9142072 GGCATACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAGAACA
Found at i:9142050 original size:5 final size:5
Alignment explanation
Indices: 9142032--9142071 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
9142022 CATTTAGTGG
*
9142032 AGAAA AGAACA AGAAA AGAAAA AGAAA AGACA AGAAA AGA
1 AGAAA AGAA-A AGAAA AG-AAA AGAAA AGAAA AGAAA AGA
9142072 GGCATACTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:9142053 original size:16 final size:15
Alignment explanation
Indices: 9142032--9142071 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
9142022 CATTTAGTGG
9142032 AGAAAAGAACAAGAAA
1 AGAAAAGAA-AAGAAA
*
9142048 AGAAAAAGAAAAGACA
1 AG-AAAAGAAAAGAAA
9142064 AGAAAAGA
1 AGAAAAGA
9142072 GGCATACTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 9 0.41
17 7 0.32
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (15 bp):
AGAAAAGAAAAGAAA
Found at i:9146361 original size:117 final size:117
Alignment explanation
Indices: 9146155--9146388 Score: 389
Period size: 117 Copynumber: 2.0 Consensus size: 117
9146145 TATGCCATGG
* * *
9146155 TTAATAATTTACATTTTATTGATGGGAAATGGCATTGCATACTGCCAAACTTCATCAGTTTCACA
1 TTAATAATTTACATTTTATTGATGGGAAATGGCATTGCATACTACCAAACATCATCAATTTCACA
9146220 GGGAAAGGAATAATAGTCCTCAAATTATTATTTATAGTCAAATCATGAATCT
66 GGGAAAGGAATAATAGTCCTCAAATTATTATTTATAGTCAAATCATGAATCT
*
9146272 TTAATAATTTACATTTTATTGATGGGAAATGGCATTTCATA-TCACCAAACATCATCAATTTCAC
1 TTAATAATTTACATTTTATTGATGGGAAATGGCATTGCATACT-ACCAAACATCATCAATTTCAC
* * *
9146336 AGGGAAAGGAATAATAGTCCTCAAATTATTATTTGTAGTCCAATTATGAATCT
65 AGGGAAAGGAATAATAGTCCTCAAATTATTATTTATAGTCAAATCATGAATCT
9146389 AACTTAAGAA
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 1 0.01
117 108 0.99
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (117 bp):
TTAATAATTTACATTTTATTGATGGGAAATGGCATTGCATACTACCAAACATCATCAATTTCACA
GGGAAAGGAATAATAGTCCTCAAATTATTATTTATAGTCAAATCATGAATCT
Found at i:9152085 original size:34 final size:34
Alignment explanation
Indices: 9152036--9152104 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 34
9152026 AAAATCATAA
9152036 TTTTCATTTTATTAATTTAGGAT-TTATTATATTT
1 TTTTCATTTTATTAATTTAGG-TCTTATTATATTT
9152070 TTTTCACTTTT-TTAATTTAGGTCTTATTATATTT
1 TTTTCA-TTTTATTAATTTAGGTCTTATTATATTT
9152104 T
1 T
9152105 CTATTTGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 1 0.03
34 28 0.85
35 4 0.12
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (34 bp):
TTTTCATTTTATTAATTTAGGTCTTATTATATTT
Found at i:9152167 original size:53 final size:55
Alignment explanation
Indices: 9152058--9152170 Score: 153
Period size: 53 Copynumber: 2.1 Consensus size: 55
9152048 TAATTTAGGA
*
9152058 TTTATTATATTTTTTTCACTTTTTTAATTTAGGTCTTATTATATTTTCTATTTGGC
1 TTTATTATATTTTTTTCAC-TTTTTAATTTAGCTCTTATTATATTTTCTATTTGGC
*
9152114 TTTATTATA-TTTTTTCAC-TTTTAAGTTTATGCT-TTATTAT-TTTTTTATTTGGC
1 TTTATTATATTTTTTTCACTTTTTAA-TTTA-GCTCTTATTATATTTTCTATTTGGC
9152167 TTTA
1 TTTA
9152171 AGGTTGAAAG
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
53 22 0.42
54 11 0.21
55 11 0.21
56 9 0.17
ACGTcount: A:0.19, C:0.08, G:0.07, T:0.65
Consensus pattern (55 bp):
TTTATTATATTTTTTTCACTTTTTAATTTAGCTCTTATTATATTTTCTATTTGGC
Found at i:9159425 original size:6 final size:6
Alignment explanation
Indices: 9159410--9159446 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
9159400 CATGCTCAAG
9159410 AAAAGCA AAAAGA AAAA-A AAAAGA AAAAG- AAAAGA AA
1 AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
9159447 GCTCCGCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.36
6 13 0.46
7 5 0.18
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:9159432 original size:11 final size:11
Alignment explanation
Indices: 9159416--9159446 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9159406 CAAGAAAAGC
9159416 AAAAAGAAAAA
1 AAAAAGAAAAA
9159427 AAAAAGAAAAA
1 AAAAAGAAAAA
*
9159438 GAAAAGAAA
1 AAAAAGAAA
9159447 GCTCCGCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:9172165 original size:15 final size:15
Alignment explanation
Indices: 9172142--9172172 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9172132 ATATGGTGTC
*
9172142 ATTTTACTTAATTGG
1 ATTTCACTTAATTGG
9172157 ATTTCACTTAATTGG
1 ATTTCACTTAATTGG
9172172 A
1 A
9172173 AACAATATAC
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:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (15 bp):
ATTTCACTTAATTGG
Found at i:9173267 original size:28 final size:28
Alignment explanation
Indices: 9173218--9173273 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9173208 TAGAGTTCAC
* *
9173218 ATTTATAGATGAAGAATCCTTATTTATA
1 ATTTATAAATGAAGAATCCTTATATATA
*
9173246 ATTTATAAATGATGAA-CTCTTATATATA
1 ATTTATAAATGAAGAATC-CTTATATATA
9173274 TATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (28 bp):
ATTTATAAATGAAGAATCCTTATATATA
Found at i:9173273 original size:2 final size:2
Alignment explanation
Indices: 9173266--9173300 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9173256 GATGAACTCT
*
9173266 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9173301 TTATGATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:9179171 original size:34 final size:30
Alignment explanation
Indices: 9179115--9179180 Score: 80
Period size: 34 Copynumber: 2.1 Consensus size: 30
9179105 TTGTAACAAG
9179115 TTTTAAAATATTTTATATAATTTT-TTAATT
1 TTTTAAAATATTTTATATAATTTTGTT-ATT
9179145 TTTTAAAATTGATTTATAATATAATTTTGTTATT
1 TTTTAAAA-T-ATTT-T-ATATAATTTTGTTATT
9179179 TT
1 TT
9179181 AATATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
30 8 0.26
31 1 0.03
32 4 0.13
33 1 0.03
34 15 0.48
35 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAAAATATTTTATATAATTTTGTTATT
Found at i:9179428 original size:23 final size:24
Alignment explanation
Indices: 9179412--9179477 Score: 91
Period size: 23 Copynumber: 2.8 Consensus size: 24
9179402 AATAATATTT
9179412 TTTTTAATT-TTAAAATAAAATGA
1 TTTTTAATTATTAAAATAAAATGA
*
9179435 TTTTTAATTATTAAAATTAAA-GA
1 TTTTTAATTATTAAAATAAAATGA
*
9179458 TTTTTAATTAAATAAAATAA
1 TTTTTAATT-ATTAAAATAA
9179478 TTTTAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
TTTTTAATTATTAAAATAAAATGA
Found at i:9183550 original size:2 final size:2
Alignment explanation
Indices: 9183543--9183577 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9183533 TTGCATAATT
*
9183543 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9183578 TTATTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9184123 original size:27 final size:27
Alignment explanation
Indices: 9184093--9184148 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
9184083 GAAAGAAAGC
9184093 ATATAATGCCTTAACAACAAACACAGA
1 ATATAATGCCTTAACAACAAACACAGA
9184120 ATATAATGCCTTAACAACAAACACAGA
1 ATATAATGCCTTAACAACAAACACAGA
9184147 AT
1 AT
9184149 TAAAGTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.20
Consensus pattern (27 bp):
ATATAATGCCTTAACAACAAACACAGA
Found at i:9187301 original size:21 final size:22
Alignment explanation
Indices: 9187277--9187340 Score: 60
Period size: 24 Copynumber: 2.9 Consensus size: 22
9187267 TTTTAGATAT
*
9187277 ATAAAAATA-TATTTTATATTA
1 ATAAAAATATTATTTAATATTA
*
9187298 ATAAAATTATTATTTAATATTTTA
1 ATAAAAATATTATTTAATA--TTA
*
9187322 ATTAAAAAT-TAATTTAATA
1 A-TAAAAATATTATTTAATA
9187341 AAATATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.23
22 8 0.23
24 13 0.37
25 6 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAAATATTATTTAATATTA
Found at i:9187336 original size:24 final size:28
Alignment explanation
Indices: 9187285--9187340 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 28
9187275 ATATAAAAAT
9187285 ATATTTTATATTAATAAAATTATTATTTA
1 ATATTTTATATTAATAAAATTA-TATTTA
9187314 ATATTTTA-ATT-A-AAAATTA-ATTTA
1 ATATTTTATATTAATAAAATTATATTTA
9187338 ATA
1 ATA
9187341 AAATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.30
26 7 0.26
27 1 0.04
28 3 0.11
29 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
ATATTTTATATTAATAAAATTATATTTA
Found at i:9187337 original size:16 final size:17
Alignment explanation
Indices: 9187318--9187359 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
9187308 TATTTAATAT
9187318 TTTAATTAAAA-ATTA-A
1 TTTAA-TAAAATATTATA
9187334 TTTAATAAAATATTATA
1 TTTAATAAAATATTATA
9187351 TTTATATAA
1 TTTA-ATAA
9187360 TTAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 5 0.22
18 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAATAAAATATTATA
Found at i:9191260 original size:17 final size:17
Alignment explanation
Indices: 9191238--9191271 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9191228 TCCAATGACA
9191238 GTCACATCCAGTGAGAT
1 GTCACATCCAGTGAGAT
9191255 GTCACATCCAGTGAGAT
1 GTCACATCCAGTGAGAT
9191272 ACCTTTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (17 bp):
GTCACATCCAGTGAGAT
Found at i:9197653 original size:10 final size:10
Alignment explanation
Indices: 9197640--9197681 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
9197630 TAAAATCAAA
9197640 TTATATATTT
1 TTATATATTT
*
9197650 TTAT-TAATT
1 TTATATATTT
9197659 TTATATATTT
1 TTATATATTT
9197669 TTA-A-ATTT
1 TTATATATTT
9197677 TTATA
1 TTATA
9197682 AAATAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 7 0.25
9 10 0.36
10 11 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATATATTT
Found at i:9197807 original size:21 final size:22
Alignment explanation
Indices: 9197782--9197831 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9197772 AAATTAATAA
9197782 ATAT-AAAATTCAATTCAAATT
1 ATATAAAAATTCAATTCAAATT
**
9197803 ATATAAAAATTTGATTCAAATT
1 ATATAAAAATTCAATTCAAATT
9197825 -T-TAAAAA
1 ATATAAAAA
9197832 CCATAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 5 0.19
22 15 0.58
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATAAAAATTCAATTCAAATT
Found at i:9207690 original size:15 final size:16
Alignment explanation
Indices: 9207650--9207687 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
9207640 AATATAATTC
*
9207650 AATTAATTCAATTTTA
1 AATTAATTCAATTTGA
9207666 AA-TAATTCAATTTGA
1 AATTAATTCAATTTGA
9207681 AATTAAT
1 AATTAAT
9207688 CAAATCGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (16 bp):
AATTAATTCAATTTGA
Found at i:9208839 original size:47 final size:49
Alignment explanation
Indices: 9208753--9208847 Score: 140
Period size: 47 Copynumber: 2.0 Consensus size: 49
9208743 TTACAGTTTT
9208753 TATTGTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAACA
1 TATTGTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAACA
* * * *
9208802 TATTTTATATTGAC-TTTT-TTTTTAGCTTTGTTTTTATTATATTAAC
1 TATTGTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAAC
9208848 TTTTTTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 25 0.60
48 4 0.10
49 13 0.31
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.60
Consensus pattern (49 bp):
TATTGTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAACA
Found at i:9208857 original size:49 final size:51
Alignment explanation
Indices: 9208749--9208857 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 51
9208739 TTCCTTACAG
*
9208749 TTTTTATTGTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAAC
1 TTTTT-TTTTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAAC
* * * * *
9208801 --ATATTTTATATTGAC-TTTT-TTTTTAGCTTTGTTTTTATTATATTAAC
1 TTTTTTTTTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAAC
9208848 TTTTTTTTTA
1 TTTTTTTTTA
9208858 GTTTTATAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
47 25 0.53
48 4 0.09
49 17 0.36
50 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.06, T:0.64
Consensus pattern (51 bp):
TTTTTTTTTATATTGACATTTTCTTTTCAGCTTTATTATTATTATATTAAC
Found at i:9210432 original size:23 final size:24
Alignment explanation
Indices: 9210399--9210445 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
9210389 ATCGAACTAT
9210399 TTTTTAGTATATGAATCAAGCTTA
1 TTTTTAGTATATGAATCAAGCTTA
*
9210423 TTTTTA-TATATTAATCAAGCTTA
1 TTTTTAGTATATGAATCAAGCTTA
9210446 ATCGAGCGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (24 bp):
TTTTTAGTATATGAATCAAGCTTA
Found at i:9213125 original size:17 final size:17
Alignment explanation
Indices: 9213089--9213168 Score: 83
Period size: 17 Copynumber: 4.7 Consensus size: 17
9213079 AAACCCCTCC
*
9213089 CATGGTTTGC-A-AGCA
1 CATGGTTTGCAACAGAA
9213104 CATGGTTTGCAACAGAA
1 CATGGTTTGCAACAGAA
* *
9213121 CATGGTTTCGAAAACAGCA
1 CATGGTTT-G-CAACAGAA
* *
9213140 CATGGTTTGTAACAAAA
1 CATGGTTTGCAACAGAA
9213157 CATGGTTTGCAA
1 CATGGTTTGCAA
9213169 GTTGCAACAG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
15 10 0.19
16 1 0.02
17 27 0.50
18 2 0.04
19 14 0.26
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (17 bp):
CATGGTTTGCAACAGAA
Found at i:9214297 original size:25 final size:24
Alignment explanation
Indices: 9214269--9214337 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 24
9214259 CAACGAGTAA
*
9214269 AATAATAATTAAAGATGAAAATAAT
1 AATAATAAATAAA-ATGAAAATAAT
*
9214294 AATAATAAGTAAAAAT-AAAA-AAT
1 AATAATAAAT-AAAATGAAAATAAT
*
9214317 -CTAA-AAATAAAATGAAAATAA
1 AATAATAAATAAAATGAAAATAA
9214338 GATAGAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.13
21 7 0.18
22 5 0.13
23 3 0.08
24 4 0.11
25 11 0.29
26 3 0.08
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (24 bp):
AATAATAAATAAAATGAAAATAAT
Found at i:9214308 original size:19 final size:19
Alignment explanation
Indices: 9214267--9214311 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9214257 AGCAACGAGT
* *
9214267 AAAATAATAATTAAAGATG
1 AAAATAATAATAAAAGATA
9214286 AAAATAATAATAATAAG-TA
1 AAAATAATAATAA-AAGATA
9214305 AAAATAA
1 AAAATAA
9214312 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAATAATAATAAAAGATA
Done.