Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 29 of 325
Found at i:6757696 original size:4 final size:4
Alignment explanation
Indices: 6757687--6757784 Score: 54
Period size: 4 Copynumber: 22.8 Consensus size: 4
6757677 GTAAAAGAAT
* *
6757687 AATA AATA AATA AGTA AATA GATAA AATA AATA TACATA ATATTA AATA
1 AATA AATA AATA AATA AATA AAT-A AATA AATA -A-ATA A-A-TA AATA
** * * *
6757736 AATA TTTT AA-A AGTGA AATAA AGATA AATA AATA AATA AATA AGTA AAT
1 AATA AATA AATA AAT-A AAT-A A-ATA AATA AATA AATA AATA AATA AAT
6757785 TGATAAAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
3 1 0.01
4 48 0.68
5 14 0.20
6 8 0.11
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:6757852 original size:79 final size:79
Alignment explanation
Indices: 6757687--6757868 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 79
6757677 GTAAAAGAAT
* * *
6757687 AATAAATAAATAAGTAAATAGATAAAATAAATATACATAATATTAAATAAATATTTTAAAAGTGA
1 AATAAATAAATAAGTAAATAGATAAAATAAATATAAATAATATTAAATAAATAGTTTAAAAGTAA
* *
6757752 AATAAAGATAAATA
66 AAGAAAGATAAACA
* * *
6757766 AATAAATAAATAAGTAAATTGATAAAA-AAATGTAAATAATATTACATTTAAAT-GTTTAAAAGA
1 AATAAATAAATAAGTAAATAGATAAAATAAATATAAATAATATTA-A-ATAAATAGTTTAAAAG-
*
6757829 TAAAAGAATA-ATGAACA
63 TAAAAGAA-AGATAAACA
*
6757846 AA-AAATAAATAACTATAATAGAT
1 AATAAATAAATAAGTA-AATAGAT
6757869 GTAAATAATA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
78 15 0.17
79 47 0.54
80 24 0.28
81 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (79 bp):
AATAAATAAATAAGTAAATAGATAAAATAAATATAAATAATATTAAATAAATAGTTTAAAAGTAA
AAGAAAGATAAACA
Found at i:6760116 original size:3 final size:3
Alignment explanation
Indices: 6760110--6760150 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
6760100 ATATGAAAGT
6760110 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6760151 TAAAAGTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6760233 original size:18 final size:18
Alignment explanation
Indices: 6760207--6760242 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6760197 TTTAAGAAGG
*
6760207 TAAAGAAAAATAAATAAA
1 TAAAGAAAAAGAAATAAA
*
6760225 TAAATAAAAAGAAATAAA
1 TAAAGAAAAAGAAATAAA
6760243 ATGTACAATA
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:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (18 bp):
TAAAGAAAAAGAAATAAA
Found at i:6761084 original size:27 final size:28
Alignment explanation
Indices: 6761037--6761091 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
6761027 AAATCAGAGG
*
6761037 CCAAAATCTCAAAAAAAAAAAAAAAGCA
1 CCAAAATCACAAAAAAAAAAAAAAAGCA
*
6761065 CCAAAAT-ACAAAAAAAAAAAAGAAGCA
1 CCAAAATCACAAAAAAAAAAAAAAAGCA
6761092 AAGGAACCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.73, C:0.16, G:0.05, T:0.05
Consensus pattern (28 bp):
CCAAAATCACAAAAAAAAAAAAAAAGCA
Found at i:6765456 original size:2 final size:2
Alignment explanation
Indices: 6765411--6765445 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6765401 CATCCATTAA
6765411 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6765446 ATTGATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6767102 original size:15 final size:15
Alignment explanation
Indices: 6767082--6767113 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6767072 GGTTGGGATA
6767082 GTTCACACCATGGTG
1 GTTCACACCATGGTG
6767097 GTTCACACCATGGTG
1 GTTCACACCATGGTG
6767112 GT
1 GT
6767114 GCCAAGAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.25, G:0.28, T:0.28
Consensus pattern (15 bp):
GTTCACACCATGGTG
Found at i:6768726 original size:28 final size:28
Alignment explanation
Indices: 6768683--6768762 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
6768673 TTTTTAGTCT
* * * *
6768683 AACTCTTCTGGTTAAC-CCATTTTTGGCA
1 AACTCTTCTAGCTAACTCC-TTTTTAGAA
6768711 AACTCTTCTAGCTAACTCCTTTTTAGAA
1 AACTCTTCTAGCTAACTCCTTTTTAGAA
* *
6768739 AACTCATC-AGGCTAACGCCTTTTT
1 AACTCTTCTA-GCTAACTCCTTTTT
6768763 TTAGTTAGCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 41 0.93
29 2 0.05
ACGTcount: A:0.25, C:0.26, G:0.11, T:0.38
Consensus pattern (28 bp):
AACTCTTCTAGCTAACTCCTTTTTAGAA
Found at i:6768826 original size:19 final size:18
Alignment explanation
Indices: 6768786--6768828 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6768776 CTATCTGGCT
*
6768786 TCTTCTTTTTTGGCTAGC
1 TCTTCTTTTTTGGCTACC
*
6768804 -CTTCTCTTTTTGGTTACC
1 TCTTCT-TTTTTGGCTACC
6768822 TCTTCTT
1 TCTTCTT
6768829 GCTAAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.05, C:0.26, G:0.12, T:0.58
Consensus pattern (18 bp):
TCTTCTTTTTTGGCTACC
Found at i:6768909 original size:30 final size:29
Alignment explanation
Indices: 6768848--6768950 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 29
6768838 TTTTTTTTGT
6768848 TTTTTTTGCTAACTCTTCTAGCTAGTCCA
1 TTTTTTTGCTAACTCTTCTAGCTAGTCCA
*
6768877 TTTTTTT-CTAACTCTT-TCAGCTAGGTTTCA
1 TTTTTTTGCTAACTCTTCT-AGCTA-G-TCCA
* *
6768907 --TTTTTGCTAATTCATCTAGCTAG-CC-
1 TTTTTTTGCTAACTCTTCTAGCTAGTCCA
*
6768932 TCTTTTTTGTCGAACTCTT
1 T-TTTTTTG-CTAACTCTT
6768951 TTGGTTCACT
Statistics
Matches: 58, Mismatches: 7, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 26 0.45
29 26 0.45
30 4 0.07
ACGTcount: A:0.17, C:0.22, G:0.11, T:0.50
Consensus pattern (29 bp):
TTTTTTTGCTAACTCTTCTAGCTAGTCCA
Found at i:6769857 original size:2 final size:2
Alignment explanation
Indices: 6769850--6769879 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6769840 AAATTTTAAA
6769850 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6769880 GTTTAGAAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6770599 original size:17 final size:16
Alignment explanation
Indices: 6770572--6770620 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
6770562 CGCTAATTTT
6770572 TTTAAATAAAATAATTA
1 TTTAAA-AAAATAATTA
**
6770589 TTTAATAAAAATAACAA
1 TTTAA-AAAAATAATTA
6770606 TTTAAAAAAA-AATTA
1 TTTAAAAAAATAATTA
6770621 ATATTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 3 0.11
16 5 0.19
17 18 0.67
18 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TTTAAAAAAATAATTA
Found at i:6772582 original size:16 final size:16
Alignment explanation
Indices: 6772557--6772590 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
6772547 TCTATTTTTA
6772557 TTTTTATTTTA-AATT
1 TTTTTATTTTAGAATT
6772572 TTTTTATTTTTAGAATT
1 TTTTTA-TTTTAGAATT
6772589 TT
1 TT
6772591 CACAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
16 5 0.29
17 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTATTTTAGAATT
Found at i:6775539 original size:23 final size:22
Alignment explanation
Indices: 6775513--6775562 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
6775503 ACTATCAATT
*
6775513 TAAAATCTTAAAAGTAGAAAAAA
1 TAAAATCTTAAAAATA-AAAAAA
* *
6775536 TAAATTCTTAAAAATAAAAATA
1 TAAAATCTTAAAAATAAAAAAA
6775558 TAAAA
1 TAAAA
6775563 ATTAAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (22 bp):
TAAAATCTTAAAAATAAAAAAA
Found at i:6778152 original size:26 final size:26
Alignment explanation
Indices: 6778123--6778175 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
6778113 TCAAACATGC
6778123 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
6778149 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
6778175 A
1 A
6778176 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:6779694 original size:26 final size:26
Alignment explanation
Indices: 6779658--6779741 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6779648 CATGAAATTC
6779658 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6779684 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6779710 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6779736 TTATCA
1 TTATCA
6779742 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6781145 original size:3 final size:3
Alignment explanation
Indices: 6781137--6781274 Score: 115
Period size: 3 Copynumber: 46.3 Consensus size: 3
6781127 TGATAAAAGG
*
6781137 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA CCT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA
* * * * * *
6781181 ATG ATA CTA ATA ATA GTA ATA ATA AGA A-A ATTA ATA TTA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * *
6781226 ATA ATA ATGGA A-A ATA ATA ATA ACA ATG ATA AT- ATA GTA ATA ATA
1 ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6781271 ATA A
1 ATA A
6781275 AAGTGAAATT
Statistics
Matches: 108, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
2 9 0.08
3 94 0.87
4 3 0.03
5 2 0.02
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6781373 original size:22 final size:23
Alignment explanation
Indices: 6781348--6781392 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
6781338 GATAGGAAAT
*
6781348 AATAATATGGTAA-AAAAATAAC
1 AATAATATGATAATAAAAATAAC
6781370 AATAATATGATAATAAAAATAAC
1 AATAATATGATAATAAAAATAAC
6781393 GGTGGTAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (23 bp):
AATAATATGATAATAAAAATAAC
Found at i:6781695 original size:12 final size:12
Alignment explanation
Indices: 6781680--6781721 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
6781670 GAATATAATG
6781680 ATAATAATAGTA
1 ATAATAATAGTA
6781692 ATAATAATAG-A
1 ATAATAATAGTA
**
6781703 TATAGCAATAGTA
1 -ATAATAATAGTA
6781716 ATAATA
1 ATAATA
6781722 GTAATGGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:6781807 original size:27 final size:27
Alignment explanation
Indices: 6781749--6781805 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
6781739 ATAATATTAG
* ***
6781749 AAATATACAATATATAGTATTAGCGGT
1 AAATATACAATATATAATATTAGAAAT
6781776 AAATATACAATATATACATATTAGAAAT
1 AAATATACAATATATA-ATATTAGAAAT
6781804 AA
1 AA
6781806 TACTAATGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATATACAATATATAATATTAGAAAT
Found at i:6781874 original size:21 final size:20
Alignment explanation
Indices: 6781848--6781896 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6781838 TCATAAATAT
*
6781848 ATATATATTAAAGATATATAC
1 ATATATATTAAA-ACATATAC
*
6781869 ATATATAATAAAACATATAC
1 ATATATATTAAAACATATAC
6781889 -TA-ATATTA
1 ATATATATTA
6781897 GTAACAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 5 0.20
19 2 0.08
20 7 0.28
21 11 0.44
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (20 bp):
ATATATATTAAAACATATAC
Found at i:6781982 original size:22 final size:22
Alignment explanation
Indices: 6781931--6781987 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
6781921 ATAGATATAA
* * *
6781931 TAATAGGTATATAATATGGTAT
1 TAATATGTGTATAATATAGTAT
6781953 TAATATGTGTATAATATAGTATT
1 TAATATGTGTATAATATAGTA-T
6781976 TAA-ATGTGTATA
1 TAATATGTGTATA
6781988 CATAAAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 27 0.87
23 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (22 bp):
TAATATGTGTATAATATAGTAT
Found at i:6783872 original size:16 final size:16
Alignment explanation
Indices: 6783853--6783884 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6783843 AAATAGATTT
6783853 GCTTTTAAAGAAGTTA
1 GCTTTTAAAGAAGTTA
6783869 GCTTTTAAAGAAGTTA
1 GCTTTTAAAGAAGTTA
6783885 AACTCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
GCTTTTAAAGAAGTTA
Found at i:6785133 original size:17 final size:16
Alignment explanation
Indices: 6785111--6785151 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
6785101 GGTTTTAAAT
6785111 TTAAATTTTTGAAAAAC
1 TTAAATTTTTG-AAAAC
*
6785128 TTAAATAGTTTGAAAAC
1 TTAAAT-TTTTGAAAAC
6785145 TTAAATT
1 TTAAATT
6785152 GTGAAAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (16 bp):
TTAAATTTTTGAAAAC
Found at i:6788550 original size:45 final size:45
Alignment explanation
Indices: 6788488--6788615 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 45
6788478 AGTTTATCTA
* * *
6788488 CACCATTGAGTGGTTTATCCACACCATATTAGCAACTTTTTTATG
1 CACCAATGAGTGGTTTATCCACACCGTATTAGCAACTTTTATATG
* * * *
6788533 CACCAATGAGTGATTTATCCTCATCGTATTAGCAACTTTTATCTG
1 CACCAATGAGTGGTTTATCCACACCGTATTAGCAACTTTTATATG
* * * *
6788578 CACCGATGAATGGTTTATCCACACTGTACTAGCAACTT
1 CACCAATGAGTGGTTTATCCACACCGTATTAGCAACTT
6788616 GTCTGCAAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (45 bp):
CACCAATGAGTGGTTTATCCACACCGTATTAGCAACTTTTATATG
Found at i:6794994 original size:33 final size:33
Alignment explanation
Indices: 6794950--6795025 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
6794940 ACTTAGTATA
***
6794950 AATA-TTTTATTGTTACTAGCATCCTTAATTTG
1 AATATTTTTATTGTTACTAGCATAAATAATTTG
* *
6794982 AATATTTTTATTGTTATTAGTATAAATAATTTG
1 AATATTTTTATTGTTACTAGCATAAATAATTTG
6795015 AATATTGTTTA
1 AATATT-TTTA
6795026 CGATTTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 4 0.11
33 29 0.78
34 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.53
Consensus pattern (33 bp):
AATATTTTTATTGTTACTAGCATAAATAATTTG
Found at i:6795133 original size:20 final size:20
Alignment explanation
Indices: 6795108--6795146 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6795098 AATCACGATC
6795108 AATTTT-AAGTTTAAATTAAT
1 AATTTTGAA-TTTAAATTAAT
*
6795128 AATTTTGAATTTTAATTAA
1 AATTTTGAATTTAAATTAA
6795147 CTTGAGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AATTTTGAATTTAAATTAAT
Found at i:6795412 original size:15 final size:16
Alignment explanation
Indices: 6795384--6795424 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
6795374 TATTAATATA
6795384 TAATTTTT--TTATTT
1 TAATTTTTAATTATTT
6795398 T-ATTTTTAATTATTT
1 TAATTTTTAATTATTT
6795413 TAAATTTTTAAT
1 T-AATTTTTAAT
6795425 ATAACTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.26
14 1 0.04
15 7 0.30
17 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TAATTTTTAATTATTT
Found at i:6795504 original size:12 final size:12
Alignment explanation
Indices: 6795489--6795517 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6795479 GTATTATTTT
6795489 TATTTATTTTAA
1 TATTTATTTTAA
6795501 TATTTATTTTAA
1 TATTTATTTTAA
6795513 TATTT
1 TATTT
6795518 TTAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TATTTATTTTAA
Found at i:6795504 original size:21 final size:20
Alignment explanation
Indices: 6795481--6795560 Score: 56
Period size: 21 Copynumber: 3.7 Consensus size: 20
6795471 TTGTTTTAGT
6795481 ATTATTTTTATTTATTTTAA
1 ATTATTTTTATTTATTTTAA
* *
6795501 TATTTATTTTAATAT-TTTTAA
1 -A-TTATTTTTATTTATTTTAA
6795522 ATATATTTGATTTATTATATTTTTAA
1 AT-TA-TT--TTTATT-TA-TTTTAA
6795548 ATT-TTTTTATTTA
1 ATTATTTTTATTTA
6795561 ATGAAATAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 17
0.69 0.06 0.25
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 15 0.32
22 10 0.21
23 6 0.13
24 1 0.02
25 1 0.02
26 8 0.17
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (20 bp):
ATTATTTTTATTTATTTTAA
Found at i:6795527 original size:24 final size:25
Alignment explanation
Indices: 6795500--6795560 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
6795490 ATTTATTTTA
6795500 ATATTTATTT-TAATATTTTTAAAT
1 ATATTTATTTATAATATTTTTAAAT
*
6795524 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTTATAATATTTTTAAAT
* *
6795550 TTTTTTATTTA
1 ATATTTATTTA
6795561 ATGAAATAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 9 0.28
26 17 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (25 bp):
ATATTTATTTATAATATTTTTAAAT
Found at i:6799102 original size:2 final size:2
Alignment explanation
Indices: 6799095--6799126 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6799085 ACTTCAAATC
6799095 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6799127 CGTGTTTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6801239 original size:28 final size:28
Alignment explanation
Indices: 6801152--6801251 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 28
6801142 TCGATGTCTC
* * * *
6801152 GCACACTATGTACCATACTCGATACCTC
1 GCACACTAAGTGCCATACTCGATACTTT
* * * * *
6801180 GCACGCTAAGTGCTATTCTGGAT-GTTT
1 GCACACTAAGTGCCATACTCGATACTTT
*
6801207 CGCACACTAAGTGCCATCCTCGATACTTT
1 -GCACACTAAGTGCCATACTCGATACTTT
*
6801236 GCACACTAAGTTCCAT
1 GCACACTAAGTGCCAT
6801252 TTATATATAT
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
27 1 0.02
28 51 0.93
29 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCGATACTTT
Found at i:6801328 original size:40 final size:39
Alignment explanation
Indices: 6801263--6801348 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
6801253 TATATATATA
** *
6801263 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTACCA-TTT
* * *
6801303 TAGCCGAAGCTATTTCGAACCGCACACTAAGTACCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTACCATTT
6801342 TAGCCGA
1 TAGCCGA
6801349 TAAGTCATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTACCATTT
Found at i:6811015 original size:28 final size:28
Alignment explanation
Indices: 6810976--6811031 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6810966 AAGAAAACTA
6810976 AATAATGCTTTAAACTTTATGAATCCTT
1 AATAATGCTTTAAACTTTATGAATCCTT
6811004 AATAATGCTTTAAACTTTATGAATCCTT
1 AATAATGCTTTAAACTTTATGAATCCTT
6811032 GGTATTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (28 bp):
AATAATGCTTTAAACTTTATGAATCCTT
Found at i:6813197 original size:21 final size:20
Alignment explanation
Indices: 6813155--6813193 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6813145 TAGATTGAGA
6813155 TTTTTAAATAAAATATTAAT
1 TTTTTAAATAAAATATTAAT
6813175 TTTTTAATATAAAA-ATTAA
1 TTTTTAA-ATAAAATATTAA
6813194 ATTTCAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTTAAATAAAATATTAAT
Found at i:6823171 original size:24 final size:24
Alignment explanation
Indices: 6823112--6823192 Score: 92
Period size: 24 Copynumber: 3.3 Consensus size: 24
6823102 ACGGACTCAC
* *
6823112 CTCAGCTCGTATGAGCTTACCGATAT
1 CTCAGCTCGTAAGAGCTTACTG-T-T
* *
6823138 ATCAGATCGTAAGAGCTTACTGTT
1 CTCAGCTCGTAAGAGCTTACTGTT
*
6823162 CTCAGCTCGTCAGAGCTTACTGTT
1 CTCAGCTCGTAAGAGCTTACTGTT
6823186 -TCAGCTC
1 CTCAGCTC
6823193 AATAGAACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 7 0.15
24 22 0.46
25 1 0.02
26 18 0.38
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (24 bp):
CTCAGCTCGTAAGAGCTTACTGTT
Found at i:6823203 original size:23 final size:24
Alignment explanation
Indices: 6823153--6823205 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
6823143 ATCGTAAGAG
* *
6823153 CTTACTGTTCTCAGCTCGTCAGAG
1 CTTACTGTTCTCAGCTCATCAGAA
6823177 CTTACTGTT-TCAGCTCAAT-AGAA
1 CTTACTGTTCTCAGCTC-ATCAGAA
6823200 CTTACT
1 CTTACT
6823206 ATCCATCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (24 bp):
CTTACTGTTCTCAGCTCATCAGAA
Found at i:6823394 original size:20 final size:19
Alignment explanation
Indices: 6823371--6823428 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
6823361 TGTGAAAAAT
6823371 TTATGTGTTATATGGATGAA
1 TTAT-TGTTATATGGATGAA
* *
6823391 TTATTATTATATTGATGAA
1 TTATTGTTATATGGATGAA
* *
6823410 GTATTGTTTAAATGGATGA
1 TTATTG-TTATATGGATGA
6823429 TTACATATAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.47
Consensus pattern (19 bp):
TTATTGTTATATGGATGAA
Found at i:6828181 original size:33 final size:34
Alignment explanation
Indices: 6828141--6828213 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
6828131 TTAGTATAAA
* * *
6828141 TTTTTATTGTTATTAATATTCTTAATTTGAA-AT
1 TTTTTATTGTTACTAATATACATAATTTGAATAT
* * *
6828174 TTTTTATTTTTACTAGTATACATGATTTGAATAT
1 TTTTTATTGTTACTAATATACATAATTTGAATAT
6828208 TTTTTA
1 TTTTTA
6828214 CTATTTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 25 0.76
34 8 0.24
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (34 bp):
TTTTTATTGTTACTAATATACATAATTTGAATAT
Found at i:6830923 original size:2 final size:2
Alignment explanation
Indices: 6830916--6830944 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6830906 AGTAGTGAAC
6830916 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6830945 AAGCATATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6831018 original size:18 final size:17
Alignment explanation
Indices: 6830975--6831022 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
6830965 AAAAATATAT
6830975 ATAC-AATATATATTAAAA
1 ATACTAATA-ATA-TAAAA
*
6830993 ATAGTAATAATATAAAA
1 ATACTAATAATATAAAA
6831010 ATAACTAATAATA
1 AT-ACTAATAATA
6831023 ACGATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
ATACTAATAATATAAAA
Found at i:6831094 original size:21 final size:20
Alignment explanation
Indices: 6831070--6831113 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6831060 ATGCGTAATA
6831070 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
6831091 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
6831111 ATA
1 ATA
6831114 ATATATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:6831293 original size:21 final size:23
Alignment explanation
Indices: 6831168--6831316 Score: 106
Period size: 25 Copynumber: 6.1 Consensus size: 23
6831158 AATACTACAT
*
6831168 AAATATACACATATATATATATTA
1 AAATATATACATA-ATATATATTA
* *
6831192 ATAATAGATACGTAATAATGATATTA
1 A-AATATATACATAAT-AT-ATATTA
* ** *
6831218 AAAGTATGTATGTAATATAGTGTTAA
1 AAA-TATATACATAATATA-TATT-A
*
6831244 AAATACATACATAATATAGTTATTA
1 AAATATATACATAATATA--TATTA
6831269 AAATATATACATAATATA-A-TA
1 AAATATATACATAATATATATTA
6831290 AAATATATGA-ATAATATGATATTA
1 AAATATAT-ACATAATAT-ATATTA
6831314 AAA
1 AAA
6831317 AAATATATAT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
21 17 0.17
22 3 0.03
23 1 0.01
24 9 0.09
25 47 0.47
26 23 0.23
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (23 bp):
AAATATATACATAATATATATTA
Found at i:6831332 original size:13 final size:12
Alignment explanation
Indices: 6831282--6831348 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 12
6831272 TATATACATA
*
6831282 ATATAATAAAAT
1 ATATAAAAAAAT
* *
6831294 ATATGAATAATAT
1 ATAT-AAAAAAAT
6831307 GATATTAAAAAAAT
1 -ATA-TAAAAAAAT
*
6831321 ATATATACAAAAT
1 ATATA-AAAAAAT
6831334 ATATAAAAAAAT
1 ATATAAAAAAAT
6831346 ATA
1 ATA
6831349 ATATTTTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
12 15 0.33
13 21 0.46
14 9 0.20
15 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (12 bp):
ATATAAAAAAAT
Found at i:6831347 original size:41 final size:40
Alignment explanation
Indices: 6831279--6831377 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 40
6831269 AAATATATAC
* * * *
6831279 ATAATATAATAAAATATATGAATAATATGATA-TTAAAAAA
1 ATAATAT-ACAAAATATATAAAAAATATAATATTTAAAAAA
*
6831319 ATATATATACAAAATATATAAAAAAATATAATATTTTAAAAA
1 ATA-ATATACAAAATATAT-AAAAAATATAATATTTAAAAAA
*
6831361 ATAATATACATAATATA
1 ATAATATACAAAATATA
6831378 AGAGTATTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 13 0.26
41 27 0.54
42 10 0.20
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (40 bp):
ATAATATACAAAATATATAAAAAATATAATATTTAAAAAA
Found at i:6831352 original size:15 final size:14
Alignment explanation
Indices: 6831302--6831368 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 14
6831292 ATATATGAAT
6831302 AATATGATATTAAAAA
1 AATAT-ATA-TAAAAA
*
6831318 AATATATAT-ACAA
1 AATATATATAAAAA
6831331 AATATATA-AAAAA
1 AATATATATAAAAA
* *
6831344 ATATAATATTTTAAAA
1 A-AT-ATATATAAAAA
6831360 AATA-ATATA
1 AATATATATA
6831369 CATAATATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
13 18 0.44
14 4 0.10
15 9 0.22
16 10 0.24
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (14 bp):
AATATATATAAAAA
Found at i:6831440 original size:12 final size:11
Alignment explanation
Indices: 6831423--6831759 Score: 57
Period size: 12 Copynumber: 30.2 Consensus size: 11
6831413 GATGAGTAAA
6831423 AATAATATACAT
1 AATAATATA-AT
6831435 AATAATATAAT
1 AATAATATAAT
* *
6831446 AAGAAAATAAT
1 AATAATATAAT
*
6831457 -ATATTTATAAT
1 AATA-ATATAAT
*
6831468 AAGTACT-TAA-
1 AA-TAATATAAT
* *
6831478 AATATTTATATGT
1 AATA-ATATA-AT
*
6831491 ATATATGTATAAT
1 A-ATA-ATATAAT
* *
6831504 AATGATA-AAA
1 AATAATATAAT
6831514 AATAATAATAAT
1 AATAAT-ATAAT
* *
6831526 AGTGAAAATAAT
1 AAT-AATATAAT
6831538 AAATATGATATAAT
1 -AATA--ATATAAT
* *
6831552 AATAGAAAAAAT
1 AATA-ATATAAT
*
6831564 AATACTAT-AT
1 AATAATATAAT
*
6831574 AAAAAGTAT-AT
1 AATAA-TATAAT
6831585 ATATACATAT-AT
1 A-ATA-ATATAAT
6831597 AATAA-ATATAT
1 AATAATATA-AT
*
6831608 ACTAATATTAAT
1 AATAATA-TAAT
6831620 AATAAT-T-AT
1 AATAATATAAT
*
6831629 AATAGA-AGTAAA
1 AATA-ATA-TAAT
6831641 AATAGATATAAT
1 AATA-ATATAAT
6831653 AAT-ATA-AAT
1 AATAATATAAT
* *
6831662 AATACGTA-CAT
1 AATA-ATATAAT
6831673 GAA-AA-ATAAT
1 -AATAATATAAT
*
6831683 AATAA-AAAAT
1 AATAATATAAT
*
6831693 AATAATATAAA
1 AATAATATAAT
* *
6831704 AAGAAAAT-AT
1 AATAATATAAT
* *
6831714 GATAAAATAAT
1 AATAATATAAT
* *
6831725 AGT-GTATAA-
1 AATAATATAAT
6831734 AATAATAGTAAT
1 AATAATA-TAAT
*
6831746 AATATTTATAAT
1 AATA-ATATAAT
6831758 AA
1 AA
6831760 AAGAAAATAA
Statistics
Matches: 238, Mismatches: 50, Indels: 74
0.66 0.14 0.20
Matches are distributed among these distances:
9 21 0.09
10 49 0.21
11 61 0.26
12 74 0.31
13 19 0.08
14 14 0.06
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (11 bp):
AATAATATAAT
Found at i:6831520 original size:3 final size:3
Alignment explanation
Indices: 6831499--6831759 Score: 59
Period size: 3 Copynumber: 86.3 Consensus size: 3
6831489 GTATATATGT
* *
6831499 ATA ATA ATG ATA A-A A-A ATA ATA ATA ATA GTGA A-A ATA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
* * * *
6831541 TATG AT- ATA ATA ATA GA-A AAA ATA ATA CTA TATA AAA AGTA TATA
1 -ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA A-TA -ATA
* * *
6831586 TATA CATA TATA ATAA ATA TATA CTA ATA TTA ATA ATA ATT ATA ATA
1 -ATA -ATA -ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6831633 GA-A GTA AAA ATA GAT- ATA ATA AT- ATAA ATA ATA CGTA CATGA AAA
1 -ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA -ATA -AT-A ATA
* * *
6831678 ATA ATA ATA A-A A-A ATA ATA AT- ATA AAA AGA A-A AT- ATG ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
6831720 ATA ATA GTGT ATA A-A ATA ATA GTA ATA ATA TTT ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6831760 AAGAAAATAA
Statistics
Matches: 191, Mismatches: 39, Indels: 56
0.67 0.14 0.20
Matches are distributed among these distances:
2 28 0.15
3 127 0.66
4 34 0.18
5 2 0.01
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6831542 original size:22 final size:22
Alignment explanation
Indices: 6831499--6831539 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6831489 GTATATATGT
6831499 ATAATAATGATAAAAAATAATA
1 ATAATAATGATAAAAAATAATA
* *
6831521 ATAATAGTGA-AAATAATAA
1 ATAATAATGATAAAAAATAA
6831540 ATATGATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
ATAATAATGATAAAAAATAATA
Found at i:6831597 original size:23 final size:22
Alignment explanation
Indices: 6831565--6831608 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
6831555 AGAAAAAATA
6831565 ATACTATATAA-AAAGTATATAT
1 ATACTATATAATAAA-TATATAT
6831587 ATACATATATAATAAATATATA
1 ATAC-TATATAATAAATATATA
6831609 CTAATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
ATACTATATAATAAATATATAT
Found at i:6831615 original size:19 final size:20
Alignment explanation
Indices: 6831583--6831621 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
6831573 TAAAAAGTAT
6831583 ATATATACATATA-TAATAA
1 ATATATACATATATTAATAA
6831602 ATATATAC-TAATATTAATAA
1 ATATATACAT-ATATTAATAA
6831622 TAATTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.06
19 11 0.61
20 6 0.33
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATATACATATATTAATAA
Found at i:6831621 original size:23 final size:21
Alignment explanation
Indices: 6831532--6831629 Score: 71
Period size: 20 Copynumber: 4.6 Consensus size: 21
6831522 TAATAGTGAA
6831532 AATAATAAATATGATA-TA-AT
1 AATAATAAATAT-ATACTATAT
*
6831552 AATAGA-AAAAATAATACTATAT
1 AATA-ATAAATAT-ATACTATAT
* *
6831574 AAAAAGTATATATATAC-ATAT
1 AATAA-TAAATATATACTATAT
6831595 -ATAATAAATATATACTAATATT
1 AATAATAAATATATACT-ATA-T
*
6831617 AATAATAATTATA
1 AATAATAAATATA
6831630 ATAGAAGTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
19 10 0.16
20 15 0.25
21 11 0.18
22 10 0.16
23 15 0.25
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AATAATAAATATATACTATAT
Found at i:6831665 original size:21 final size:20
Alignment explanation
Indices: 6831423--6831665 Score: 73
Period size: 21 Copynumber: 11.8 Consensus size: 20
6831413 GATGAGTAAA
*
6831423 AATAATATACATAATAATAT
1 AATAATATAAATAATAATAT
*
6831443 AATAAGA-AAATAATATATTTAT
1 AATAATATAAATAATA-A--TAT
* *
6831465 AATAAGTACTTAA-AATATTTAT
1 AATAA-TA-TAAATAATA-ATAT
* **
6831487 ATGTATATATGTATAATAATGAT
1 A-ATA-ATATAAATAATAAT-AT
*
6831510 AA-AAAAT-AATAATAATAGT
1 AATAATATAAATAATAATA-T
*
6831529 GAA-AATAATAAAT-ATGATAT
1 -AATAAT-ATAAATAATAATAT
* *
6831549 AATAATAGAAAAAATAATACT
1 AATAATATAAATAATAATA-T
*
6831570 -AT-ATA-AAA-AGT-ATAT
1 AATAATATAAATAATAATAT
6831585 ATATACATATATAATAA-ATATAT
1 A-ATA-ATATA-AATAATA-ATAT
* *
6831608 ACTAATATTAATAATAATTAT
1 AATAATATAAATAATAA-TAT
6831629 AATAGA-AGTAAA-AATAGATAT
1 AATA-ATA-TAAATAATA-ATAT
6831650 AATAATATAAATAATA
1 AATAATATAAATAATA
6831666 CGTACATGAA
Statistics
Matches: 167, Mismatches: 23, Indels: 65
0.65 0.09 0.25
Matches are distributed among these distances:
15 1 0.01
16 3 0.02
17 4 0.02
18 4 0.02
19 28 0.17
20 37 0.22
21 39 0.23
22 26 0.16
23 17 0.10
24 6 0.04
25 2 0.01
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
AATAATATAAATAATAATAT
Found at i:6831692 original size:13 final size:14
Alignment explanation
Indices: 6831674--6831740 Score: 66
Period size: 13 Copynumber: 4.7 Consensus size: 14
6831664 TACGTACATG
6831674 AAAAATAATAATA-
1 AAAAATAATAATAT
6831687 AAAAATAATAATAT
1 AAAAATAATAATAT
*
6831701 AAAAAGAA-AATAT
1 AAAAATAATAATAT
* *
6831714 GATAAAATAATAGTGT
1 -A-AAAATAATAATAT
6831730 ATAAAATAATA
1 A-AAAATAATA
6831741 GTAATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
13 18 0.39
14 8 0.17
15 17 0.37
16 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (14 bp):
AAAAATAATAATAT
Found at i:6831695 original size:10 final size:11
Alignment explanation
Indices: 6831675--6831725 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
6831665 ACGTACATGA
6831675 AAAATAATAAT
1 AAAATAATAAT
6831686 AAAA-AATAAT
1 AAAATAATAAT
* * *
6831696 AATATAAAAAG
1 AAAATAATAAT
*
6831707 AAAAT-ATGAT
1 AAAATAATAAT
6831717 AAAATAATA
1 AAAATAATA
6831726 GTGTATAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:6831712 original size:16 final size:16
Alignment explanation
Indices: 6831674--6831712 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6831664 TACGTACATG
6831674 AAAAATAATAATAAAA
1 AAAAATAATAATAAAA
*
6831690 AATAATAAT-ATAAAA
1 AAAAATAATAATAAAA
6831705 AGAAAATA
1 A-AAAATA
6831713 TGATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAAATAATAATAAAA
Found at i:6831925 original size:40 final size:40
Alignment explanation
Indices: 6831881--6831957 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
6831871 TAAAAAAATT
*
6831881 GAGCAATAGCGGCG-TTTTAGCAAAAACGCCGCTAAAAACA
1 GAGCAATAGCGACGCTTTT-GCAAAAACGCCGCTAAAAACA
* **
6831921 GAGCATTAGCGACGCTTTTGGTAAAACGCCGCTAAAA
1 GAGCAATAGCGACGCTTTTGCAAAAACGCCGCTAAAA
6831958 GTCATATAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.18
Consensus pattern (40 bp):
GAGCAATAGCGACGCTTTTGCAAAAACGCCGCTAAAAACA
Found at i:6832183 original size:14 final size:14
Alignment explanation
Indices: 6832161--6832199 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
6832151 TAGGATTTAT
* *
6832161 GATTTAGGGTTTTG
1 GATTTAGGGGTTGG
6832175 GATTTAGGGGTTGG
1 GATTTAGGGGTTGG
*
6832189 GGTTTAGGGGT
1 GATTTAGGGGT
6832200 AAATACAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (14 bp):
GATTTAGGGGTTGG
Found at i:6833390 original size:22 final size:22
Alignment explanation
Indices: 6833362--6833404 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
6833352 ACATTCCTGC
6833362 GAATCCTGCTGTTAACGTTAAG
1 GAATCCTGCTGTTAACGTTAAG
6833384 GAATCCTGCTGTTAACGTTAA
1 GAATCCTGCTGTTAACGTTAA
6833405 AGATGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (22 bp):
GAATCCTGCTGTTAACGTTAAG
Found at i:6837693 original size:43 final size:43
Alignment explanation
Indices: 6837638--6837787 Score: 239
Period size: 43 Copynumber: 3.5 Consensus size: 43
6837628 TTTTTGAATT
* *
6837638 TCATGA-CTTTTAGCGGCGTTTGTGGGAAGAGCGTCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
6837681 TCATGATCTTTAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* *
6837724 TCATGATCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAATGG
1 TCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
6837767 TCATGATCTTTAGCGGCGTTT
1 TCATGATCTTTAGCGGCGTTT
6837788 TTTTAAATAT
Statistics
Matches: 100, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
43 99 0.99
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:6839785 original size:75 final size:74
Alignment explanation
Indices: 6839628--6839824 Score: 256
Period size: 75 Copynumber: 2.7 Consensus size: 74
6839618 GTAAGCCAAT
** * *
6839628 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGATTTTGAAATACCTCGGCAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATACCTC-GAAC
6839691 GTGACCTGAG
65 GTGACCTGAG
* *
6839701 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTC-AA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTG-AAATACCTCGAA
* *
6839765 CGTGTCTTGAG
64 CGTGACCTGAG
* *
6839776 GCTCAACTCACCTATCGTAATATGAGTTGATTTTTTTGAAAACAGAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAAT
6839825 AAAAACATCA
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
73 29 0.27
74 7 0.06
75 56 0.52
76 7 0.06
77 9 0.08
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATACCTCGAACG
TGACCTGAG
Found at i:6840677 original size:44 final size:43
Alignment explanation
Indices: 6840607--6840717 Score: 150
Period size: 44 Copynumber: 2.5 Consensus size: 43
6840597 TCATTAGAAT
* * * * *
6840607 GCCCTTTCGGGTTTTCATCCTAATCTTTTGTGTTAATCAAGAG
1 GCCCTTTCGGGTTTTCATCTTGATCTTCTATGTTAATCAAGAC
6840650 GCCTCTTTCGGGTTTTCATCTTGATCTTCTATGTTAATCAAGAC
1 GCC-CTTTCGGGTTTTCATCTTGATCTTCTATGTTAATCAAGAC
*
6840694 GCCCTTTTCGGGTTTTCATTTTGA
1 GCCC-TTTCGGGTTTTCATCTTGA
6840718 CCCTTTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
43 4 0.07
44 56 0.93
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (43 bp):
GCCCTTTCGGGTTTTCATCTTGATCTTCTATGTTAATCAAGAC
Found at i:6848159 original size:4 final size:4
Alignment explanation
Indices: 6848150--6848210 Score: 65
Period size: 4 Copynumber: 16.0 Consensus size: 4
6848140 ATGTACATGC
** * *
6848150 AATG AATG AATG AATG AATG AATG AAT- AACA AATG AATG -TTG AATA
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
6848196 AATG -ATG AATG AATG
1 AATG AATG AATG AATG
6848211 TTAGTCATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
3 7 0.15
4 40 0.85
ACGTcount: A:0.51, C:0.02, G:0.21, T:0.26
Consensus pattern (4 bp):
AATG
Found at i:6848208 original size:15 final size:16
Alignment explanation
Indices: 6848150--6848209 Score: 72
Period size: 15 Copynumber: 3.9 Consensus size: 16
6848140 ATGTACATGC
*
6848150 AATGAATGAATGAATG
1 AATGAATGAATGAATA
*
6848166 AATGAATGAAT-AACA
1 AATGAATGAATGAATA
*
6848181 AATGAATG-TTGAATA
1 AATGAATGAATGAATA
6848196 AATG-ATGAATGAAT
1 AATGAATGAATGAAT
6848210 GTTAGTCATG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
14 4 0.11
15 22 0.59
16 11 0.30
ACGTcount: A:0.52, C:0.02, G:0.20, T:0.27
Consensus pattern (16 bp):
AATGAATGAATGAATA
Found at i:6852107 original size:21 final size:20
Alignment explanation
Indices: 6852083--6852126 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6852073 ATACGTAATA
6852083 ATAGGAATAAAAAGTATATAC
1 ATAGGAATAAAAA-TATATAC
* * *
6852104 ATAGTATTAAAAATATGTAC
1 ATAGGAATAAAAATATATAC
6852124 ATA
1 ATA
6852127 ATATTTACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.11, T:0.30
Consensus pattern (20 bp):
ATAGGAATAAAAATATATAC
Found at i:6852124 original size:20 final size:21
Alignment explanation
Indices: 6852090--6852131 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6852080 ATAATAGGAA
*
6852090 TAAAAAGTATATACATAGTAT
1 TAAAAAGTATATACATAATAT
*
6852111 TAAAAA-TATGTACATAATAT
1 TAAAAAGTATATACATAATAT
6852131 T
1 T
6852132 TACATATTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (21 bp):
TAAAAAGTATATACATAATAT
Found at i:6852231 original size:26 final size:25
Alignment explanation
Indices: 6852189--6852329 Score: 111
Period size: 26 Copynumber: 5.8 Consensus size: 25
6852179 ATAAATATAC
6852189 ACAT-ATAT-ATATTAAAAATAGAT
1 ACATAATATGATATTAAAAATAGAT
*
6852212 ACATAATAATGATATTAAAAGTATG-T
1 ACATAAT-ATGATATTAAAAATA-GAT
* * *
6852238 ACGTAATAT-AGTGTTAAAAATACAT
1 ACATAATATGA-TATTAAAAATAGAT
* *
6852263 ACATAATATAGTTATTAAAAATATAT
1 ACATAATAT-GATATTAAAAATAGAT
*
6852289 ACATAATAT-A-A-T-AAAATATAT
1 ACATAATATGATATTAAAAATAGAT
6852310 GA-ATAATATGATATTAAAAA
1 -ACATAATATGATATTAAAAA
6852330 AATATATACA
Statistics
Matches: 95, Mismatches: 10, Indels: 24
0.74 0.08 0.19
Matches are distributed among these distances:
21 16 0.17
22 3 0.03
23 6 0.06
24 4 0.04
25 26 0.27
26 39 0.41
27 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (25 bp):
ACATAATATGATATTAAAAATAGAT
Found at i:6852265 original size:51 final size:51
Alignment explanation
Indices: 6852181--6852346 Score: 143
Period size: 51 Copynumber: 3.4 Consensus size: 51
6852171 AATACTACAT
* * *
6852181 AAATATACACAT-ATATA-TATTAAAAATAGATACATAATA-ATGATATTAA
1 AAATATATACATAATATAGTGTTAAAAATACATACATAATATA-GATATTAA
* * * *
6852230 AAGTATGTACGTAATATAGTGTTAAAAATACATACATAATATAGTTATTAA
1 AAATATATACATAATATAGTGTTAAAAATACATACATAATATAGATATTAA
* *
6852281 AAATATATACATAATATA---AT-AAAATATATGA-ATAATAT-GATATTAAAA
1 AAATATATACATAATATAGTGTTAAAAATACAT-ACATAATATAGATATT--AA
*
6852329 AAATATATACAAAATATA
1 AAATATATACATAATATA
6852347 TAAAAAATAT
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
46 5 0.05
47 15 0.15
48 21 0.22
49 8 0.08
50 5 0.05
51 42 0.43
52 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (51 bp):
AAATATATACATAATATAGTGTTAAAAATACATACATAATATAGATATTAA
Found at i:6852344 original size:38 final size:38
Alignment explanation
Indices: 6852293--6852373 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
6852283 ATATATACAT
* * * *
6852293 AATATAATAAAATATATGAATAATATGATA-TTAAAAA
1 AATATAACAAAATATATAAAAAATATAATATTTAAAAA
6852330 AATATATACAAAATATATAAAAAATATAATATTTTAAAAA
1 AATATA-ACAAAATATATAAAAAATATAATA-TTTAAAAA
6852370 AATA
1 AATA
6852374 ATAATATACA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 6 0.16
38 20 0.54
40 11 0.30
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (38 bp):
AATATAACAAAATATATAAAAAATATAATATTTAAAAA
Found at i:6852354 original size:11 final size:11
Alignment explanation
Indices: 6852279--6852357 Score: 61
Period size: 11 Copynumber: 6.8 Consensus size: 11
6852269 TATAGTTATT
6852279 AAAAATATATA
1 AAAAATATATA
* *
6852290 CATAATATA-A
1 AAAAATATATA
*
6852300 TAAAATATATGA
1 AAAAATATAT-A
*
6852312 ATAATATGATATTAA
1 A-AAAAT-ATA-T-A
6852327 AAAAATATATA
1 AAAAATATATA
*
6852338 CAAAATATATA
1 AAAAATATATA
6852349 AAAAATATA
1 AAAAATATA
6852358 ATATTTTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
10 8 0.15
11 26 0.49
12 2 0.04
13 7 0.13
14 7 0.13
15 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (11 bp):
AAAAATATATA
Found at i:6852454 original size:12 final size:11
Alignment explanation
Indices: 6852437--6852722 Score: 59
Period size: 11 Copynumber: 26.9 Consensus size: 11
6852427 GATGAGTAAA
6852437 AATAATATACAT
1 AATAATATA-AT
6852449 AATAATATAAT
1 AATAATATAAT
* *
6852460 AAGAAAATAAT
1 AATAATATAAT
*
6852471 -ATATTTATAAT
1 AATA-ATATAAT
* *
6852482 AAGTACT-TAAA
1 AA-TAATATAAT
*
6852493 AAT-ATTTATAT
1 AATAATATA-AT
* *
6852504 GTATATATGTA-T
1 -AATA-ATATAAT
*
6852516 AATAATGATAAA
1 AATAAT-ATAAT
6852528 AAT-A-ATAAT
1 AATAATATAAT
* *
6852537 AATAGTGAAAAT
1 AATAAT-ATAAT
6852549 AATAA-AT-AT
1 AATAATATAAT
6852558 AATAA-AT-AT
1 AATAATATAAT
*
6852567 AATAATAGAA-
1 AATAATATAAT
6852577 AA-AA-ATAAT
1 AATAATATAAT
* *
6852586 ACT-ATATAAA
1 AATAATATAAT
6852596 AAGT-ATATATAT
1 AA-TAATATA-AT
6852608 ACAT-ATATAAT
1 A-ATAATATAAT
6852619 AA-AATAT-AT
1 AATAATATAAT
*
6852628 ACTAATATTAAT
1 AATAATA-TAAT
6852640 AATAAT-T-AT
1 AATAATATAAT
**
6852649 AATACAGGTAA-
1 AATA-ATATAAT
6852660 AAGTAGATATAAT
1 AA-TA-ATATAAT
6852673 AAT-ATA-AAT
1 AATAATATAAT
* *
6852682 AATACGTA-CAT
1 AATA-ATATAAT
6852693 GAA-AA-ATAAT
1 -AATAATATAAT
6852703 AATAA-ATAAT
1 AATAATATAAT
6852713 AATAATATAA
1 AATAATATAA
6852723 AAAGAAAATA
Statistics
Matches: 203, Mismatches: 35, Indels: 73
0.65 0.11 0.23
Matches are distributed among these distances:
8 3 0.01
9 46 0.23
10 44 0.22
11 51 0.25
12 50 0.25
13 5 0.02
14 4 0.02
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (11 bp):
AATAATATAAT
Found at i:6852534 original size:3 final size:3
Alignment explanation
Indices: 6852514--6852719 Score: 66
Period size: 3 Copynumber: 64.0 Consensus size: 3
6852504 GTATATATGT
* * *
6852514 ATA ATA ATG ATA AAA ATA ATA ATA ATA GTGA A-A ATA ATA A-A TATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -ATA
* * * *
6852559 ATA A-A TATA ATA ATA GAAA AAA ATA ATA CTA TATA AAA AGTA TATA
1 ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA A-TA -ATA
* * *
6852605 TATA CATA TATA ATA A-A ATA TATA CTA ATA TTA ATA ATA ATT ATA ATA
1 -ATA -ATA -ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
6852653 CAGGTA A-A AGTA GAT- ATA ATA AT- ATAA ATA ATA CGTA CATGA AAA
1 -A--TA ATA A-TA -ATA ATA ATA ATA AT-A ATA ATA -ATA -AT-A ATA
6852698 ATA ATA ATAA ATA ATA ATA ATA
1 ATA ATA AT-A ATA ATA ATA ATA
6852720 TAAAAAGAAA
Statistics
Matches: 155, Mismatches: 24, Indels: 48
0.68 0.11 0.21
Matches are distributed among these distances:
2 12 0.08
3 101 0.65
4 36 0.23
5 4 0.03
6 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6852537 original size:18 final size:17
Alignment explanation
Indices: 6852514--6852650 Score: 79
Period size: 18 Copynumber: 7.7 Consensus size: 17
6852504 GTATATATGT
6852514 ATAATAATGATAAAAATA
1 ATAATAAT-ATAAAAATA
*
6852532 ATAATAATAGTGAAAATA
1 ATAATAATA-TAAAAATA
6852550 AT-A-AATATAATAAAT-
1 ATAATAATATAA-AAATA
*
6852565 ATAATAATAGAAAAA-A
1 ATAATAATATAAAAATA
6852581 ATAATACTATATAAAAAGTA
1 ATAATA--ATATAAAAA-TA
*
6852601 TATATATACATAT-ATAATA
1 -ATA-ATA-ATATAAAAATA
* *
6852620 A-AATATATACTAATATTA
1 ATAATA-ATA-TAAAAATA
6852638 ATAATAATTATAA
1 ATAATAA-TATAA
6852651 TACAGGTAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 30
0.72 0.06 0.22
Matches are distributed among these distances:
15 4 0.04
16 24 0.25
17 10 0.10
18 36 0.38
19 8 0.08
20 4 0.04
21 7 0.07
22 3 0.03
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (17 bp):
ATAATAATATAAAAATA
Found at i:6852570 original size:21 final size:21
Alignment explanation
Indices: 6852546--6852745 Score: 67
Period size: 21 Copynumber: 9.2 Consensus size: 21
6852536 TAATAGTGAA
6852546 AATAATAAATATAATAAATAT
1 AATAATAAATATAATAAATAT
* *
6852567 AATAATAGAAAAAAAT-AATACT
1 AATAATA-AATATAATAAATA-T
6852589 ATATAA-AAAGTATATATATACATAT
1 A-ATAATAAA-TATA-ATA-A-ATAT
6852614 -ATAATAAA-ATATATACTAATATT
1 AATAATAAATATA-ATA--AATA-T
* * **
6852637 AATAATAATTATAATACAGGT
1 AATAATAAATATAATAAATAT
*
6852658 AA-AAGTAGATATAAT-AATAT
1 AATAA-TAAATATAATAAATAT
** * *
6852678 AAATAATACGTA-CATGAAAAAT
1 -AATAATAAATATAAT-AAATAT
6852700 AATAATAAATAATAAT-AATAT
1 AATAATAAAT-ATAATAAATAT
* * *
6852721 AAAAAGAAAATATGATAAA-AT
1 AATAA-TAAATATAATAAATAT
6852742 AATA
1 AATA
6852746 GTGTATAAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 44
0.66 0.12 0.22
Matches are distributed among these distances:
20 6 0.05
21 55 0.42
22 35 0.27
23 15 0.11
24 13 0.10
25 5 0.04
26 3 0.02
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (21 bp):
AATAATAAATATAATAAATAT
Found at i:6852851 original size:3 final size:3
Alignment explanation
Indices: 6852843--6852959 Score: 93
Period size: 3 Copynumber: 40.7 Consensus size: 3
6852833 TATTAAAAAT
*
6852843 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA T-A TAA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
6852889 TAG TAA CT-A TAG TAA TAA T-A TAT TGA TAA -AA TAA -AA AAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
6852931 TAG TGA TAA TAA GAA TAT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6852960 GTCATAAGGA
Statistics
Matches: 88, Mismatches: 19, Indels: 14
0.73 0.16 0.12
Matches are distributed among these distances:
2 11 0.12
3 76 0.86
4 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6852974 original size:27 final size:27
Alignment explanation
Indices: 6852918--6852983 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
6852908 ATATTGATAA
* * *
6852918 AATA-AAAAAATAATAGTGATAATAAG
1 AATATAAATAATAATAGTCATAAGAAG
* * *
6852944 AATATTAATAATAATAGTCATAAGGAT
1 AATATAAATAATAATAGTCATAAGAAG
6852971 AATATAAATAATA
1 AATATAAATAATA
6852984 TTTAAAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 4 0.12
27 28 0.88
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.29
Consensus pattern (27 bp):
AATATAAATAATAATAGTCATAAGAAG
Found at i:6854075 original size:27 final size:26
Alignment explanation
Indices: 6854045--6854138 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
6854035 GGCCTGTAAC
6854045 AAATTTAAAATAAATAATGTAAAAAAG
1 AAATTTAAAATAAATAATGT-AAAAAG
* * *
6854072 AAATTTAATATCAACAATGTACAAAA-
1 AAATTTAAAATAAATAATGTA-AAAAG
* *
6854098 CAATTTAGAAATAGATTATATGT-AAAAG
1 AAATTTA-AAATA-AATA-ATGTAAAAAG
6854126 AAATTTTAAAATA
1 AAA-TTTAAAATA
6854139 GGCAATATAC
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
26 7 0.13
27 28 0.54
28 9 0.17
29 8 0.15
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (26 bp):
AAATTTAAAATAAATAATGTAAAAAG
Found at i:6854814 original size:14 final size:14
Alignment explanation
Indices: 6854791--6854836 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
6854781 GCAAACAACC
6854791 AATAAAATATTTAA
1 AATAAAATATTTAA
*
6854805 AATAACATA-TT--
1 AATAAAATATTTAA
6854816 AATAAAATATTTAA
1 AATAAAATATTTAA
6854830 AATAAAA
1 AATAAAA
6854837 AGAATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.30
12 2 0.07
13 2 0.07
14 15 0.56
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AATAAAATATTTAA
Found at i:6863808 original size:46 final size:45
Alignment explanation
Indices: 6863756--6863931 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
6863746 TGGTTGAGCA
6863756 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
6863802 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
6863849 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
6863895 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
6863932 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:6863912 original size:93 final size:93
Alignment explanation
Indices: 6863753--6863923 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
6863743 GGATGGTTGA
* **
6863753 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6863818 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
6863846 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6863911 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
6863924 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:6869169 original size:5 final size:5
Alignment explanation
Indices: 6869159--6869186 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6869149 AAAATTTTAA
6869159 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
6869187 CTAAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Found at i:6870264 original size:2 final size:2
Alignment explanation
Indices: 6870257--6870286 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6870247 GCACAGTCAA
6870257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6870287 TTATTATGGT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6874038 original size:17 final size:17
Alignment explanation
Indices: 6874016--6874065 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
6874006 CGTTCAATAA
6874016 AATTAAATAAATTAATT
1 AATTAAATAAATTAATT
*
6874033 AATTAATTAAATTAA-T
1 AATTAAATAAATTAATT
* *
6874049 AATGAAATTAA-TAATT
1 AATTAAATAAATTAATT
6874065 A
1 A
6874066 TCAAAAACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AATTAAATAAATTAATT
Found at i:6874048 original size:9 final size:9
Alignment explanation
Indices: 6874015--6874048 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
6874005 ACGTTCAATA
*
6874015 AAATTAAAT
1 AAATTAATT
6874024 AAATTAATT
1 AAATTAATT
6874033 -AATTAATT
1 AAATTAATT
6874041 AAATTAAT
1 AAATTAAT
6874049 AATGAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAATTAATT
Found at i:6876163 original size:17 final size:16
Alignment explanation
Indices: 6876114--6876164 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
6876104 TTCAACAAAC
6876114 TAACTTCTTTAACAG-
1 TAACTTCTTTAACAGT
6876129 ---CTT-TTTAACAGT
1 TAACTTCTTTAACAGT
6876141 TAACTTCTTTAACAGT
1 TAACTTCTTTAACAGT
6876157 CTAACTTC
1 -TAACTTC
6876165 ACAATTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
11 8 0.27
12 3 0.10
15 3 0.10
16 9 0.30
17 7 0.23
ACGTcount: A:0.29, C:0.22, G:0.06, T:0.43
Consensus pattern (16 bp):
TAACTTCTTTAACAGT
Found at i:6877449 original size:12 final size:12
Alignment explanation
Indices: 6877433--6877467 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6877423 TATGGAGGAT
6877433 ATAGAGGTGGAA
1 ATAGAGGTGGAA
* *
6877445 CTAGAGATGGAA
1 ATAGAGGTGGAA
6877457 ATAGAGGTGGA
1 ATAGAGGTGGA
6877468 TGAGGAACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.40, T:0.17
Consensus pattern (12 bp):
ATAGAGGTGGAA
Found at i:6886332 original size:22 final size:22
Alignment explanation
Indices: 6886304--6886355 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
6886294 AGCACCACAT
* *
6886304 GCCCGTGTGGCTTATGTGACAC
1 GCCCGTGTGGCTGATATGACAC
*
6886326 GCCCGTGTGTCTGATATGACAC
1 GCCCGTGTGGCTGATATGACAC
6886348 GCCCGTGT
1 GCCCGTGT
6886356 CATCAACCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.13, C:0.29, G:0.31, T:0.27
Consensus pattern (22 bp):
GCCCGTGTGGCTGATATGACAC
Found at i:6888287 original size:15 final size:15
Alignment explanation
Indices: 6888253--6888294 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
6888243 CTTTATTTTC
*
6888253 TCTTATT-TATTTTA
1 TCTTATTATATTATA
6888267 -CTTATTATATTATA
1 TCTTATTATATTATA
6888281 TCTTATTATATTAT
1 TCTTATTATATTAT
6888295 TAAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 6 0.24
14 6 0.24
15 13 0.52
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (15 bp):
TCTTATTATATTATA
Found at i:6893832 original size:14 final size:15
Alignment explanation
Indices: 6893796--6893832 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
6893786 TTTCTTTTAT
*
6893796 TTATTATAACTATTA
1 TTATTATATCTATTA
6893811 -TATTATATC-ATTA
1 TTATTATATCTATTA
6893824 TTATTATAT
1 TTATTATAT
6893833 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:6893865 original size:24 final size:26
Alignment explanation
Indices: 6893810--6893865 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
6893800 TATAACTATT
*
6893810 ATATTATATCATTATTATTATATTTTA
1 ATATTATA-CATTATTATTATATTTAA
*
6893837 A-ATTATA-ATTATTATT-TCTTTAA
1 ATATTATACATTATTATTATATTTAA
6893860 ATATTA
1 ATATTA
6893866 AGTAAATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 6 0.23
24 13 0.50
26 6 0.23
27 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
ATATTATACATTATTATTATATTTAA
Found at i:6904180 original size:24 final size:25
Alignment explanation
Indices: 6904151--6904205 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
6904141 AAAGTATTTT
6904151 AAGAAAATGAT-AAATAAAGACAAA
1 AAGAAAATGATAAAATAAAGACAAA
* *
6904175 AAG-AAATGCTAAAATAAAGATAAA
1 AAGAAAATGATAAAATAAAGACAAA
*
6904199 ATGAAAA
1 AAGAAAA
6904206 GAAAAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 6 0.23
24 17 0.65
25 3 0.12
ACGTcount: A:0.69, C:0.04, G:0.13, T:0.15
Consensus pattern (25 bp):
AAGAAAATGATAAAATAAAGACAAA
Found at i:6905874 original size:20 final size:20
Alignment explanation
Indices: 6905849--6905902 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
6905839 TGGTGGTCGG
6905849 AGAGAGAGAGGGGAAAACGA
1 AGAGAGAGAGGGGAAAACGA
* **
6905869 AGAGAGAAAGGAGGAAAGGGA
1 AGAGAGAGAGG-GGAAAACGA
6905890 AG-GAGAG-GGGGAA
1 AGAGAGAGAGGGGAA
6905903 GAAAGAATAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 4 0.14
19 2 0.07
20 14 0.48
21 9 0.31
ACGTcount: A:0.48, C:0.02, G:0.50, T:0.00
Consensus pattern (20 bp):
AGAGAGAGAGGGGAAAACGA
Found at i:6905926 original size:40 final size:40
Alignment explanation
Indices: 6905852--6905927 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
6905842 TGGTCGGAGA
* *
6905852 GAGAGAGGGGAAAACGAAGAGAGAAAGGAGGAAAGGGAAG
1 GAGAGAGGGGAAAAAGAAGAGAGAAAGGAAGAAAGGGAAG
*
6905892 GAGAG-GGGGAAGAAAGAATAGA-AAAGGAAAGAAAGG
1 GAGAGAGGGGAA-AAAGAAGAGAGAAAGG-AAGAAAGG
6905928 AGAAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
39 11 0.35
40 20 0.65
ACGTcount: A:0.53, C:0.01, G:0.45, T:0.01
Consensus pattern (40 bp):
GAGAGAGGGGAAAAAGAAGAGAGAAAGGAAGAAAGGGAAG
Found at i:6908341 original size:13 final size:13
Alignment explanation
Indices: 6908323--6908350 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6908313 TTACCAAAGG
6908323 GACACGGCTGTGT
1 GACACGGCTGTGT
6908336 GACACGGCTGTGT
1 GACACGGCTGTGT
6908349 GA
1 GA
6908351 GGAAGTCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (13 bp):
GACACGGCTGTGT
Found at i:6910109 original size:25 final size:25
Alignment explanation
Indices: 6910081--6910130 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6910071 CCCATGGTGA
6910081 GGGCACCATCTTAATAAGTCATTGT
1 GGGCACCATCTTAATAAGTCATTGT
6910106 GGGCACCATCTTAATAAGTCATTGT
1 GGGCACCATCTTAATAAGTCATTGT
6910131 ATCTATCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (25 bp):
GGGCACCATCTTAATAAGTCATTGT
Found at i:6913424 original size:2 final size:2
Alignment explanation
Indices: 6913417--6913449 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6913407 AGTAAATTGG
6913417 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6913450 CTTTAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6923692 original size:6 final size:6
Alignment explanation
Indices: 6923643--6923689 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
6923633 TGAAATTGTT
* * *
6923643 ATCTGA ATCTGA ATCTGA ATCTGA ATCTAA AACTGA ATCTGT ATCTG
1 ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA ATCTGA ATCTG
6923690 TATTTGATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (6 bp):
ATCTGA
Found at i:6926460 original size:14 final size:15
Alignment explanation
Indices: 6926443--6926475 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
6926433 TGATAATATA
6926443 TAAAATA-TAAATTT
1 TAAAATAGTAAATTT
6926457 TAAAATATGTAAATTT
1 TAAAATA-GTAAATTT
6926473 TAA
1 TAA
6926476 TTTAAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
16 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TAAAATAGTAAATTT
Found at i:6929152 original size:12 final size:14
Alignment explanation
Indices: 6929131--6929205 Score: 70
Period size: 13 Copynumber: 5.7 Consensus size: 14
6929121 TTTGGCAATA
6929131 CTTTTGAAAAA-TG
1 CTTTTGAAAAAGTG
6929144 CTTTT-AAAAAGTG
1 CTTTTGAAAAAGTG
* * *
6929157 C-TGTGAAAAAATA
1 CTTTTGAAAAAGTG
* *
6929170 CTTTTG-AGAAGTA
1 CTTTTGAAAAAGTG
6929183 CTTTTG-AAAAGTG
1 CTTTTGAAAAAGTG
6929196 CTTTTGAAAA
1 CTTTTGAAAA
6929206 TTTCAATGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
12 7 0.14
13 37 0.74
14 6 0.12
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (14 bp):
CTTTTGAAAAAGTG
Found at i:6929192 original size:26 final size:26
Alignment explanation
Indices: 6929129--6929205 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
6929119 TGTTTGGCAA
*
6929129 TACTTTTGAAAAATGCTTTTAAAAAG
1 TACTTTTGAAAAATGCTTTTGAAAAG
* * * *
6929155 TGC-TGTGAAAAAATACTTTTGAGAAG
1 TACTTTTG-AAAAATGCTTTTGAAAAG
*
6929181 TACTTTTGAAAAGTGCTTTTGAAAA
1 TACTTTTGAAAAATGCTTTTGAAAA
6929206 TTTCAATGTT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
25 3 0.08
26 33 0.85
27 3 0.08
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (26 bp):
TACTTTTGAAAAATGCTTTTGAAAAG
Found at i:6929639 original size:20 final size:20
Alignment explanation
Indices: 6929614--6929666 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
6929604 AACTCATATT
6929614 AAATATTAACATAATATAA-A
1 AAATATTAACATAATA-AATA
* *
6929634 AAATATAAACTTAATAAATTA
1 AAATATTAACATAATAAA-TA
6929655 AAATATT-ACATA
1 AAATATTAACATA
6929667 TATTTGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 18 0.67
21 7 0.26
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATATTAACATAATAAATA
Found at i:6932044 original size:39 final size:39
Alignment explanation
Indices: 6931970--6932044 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 39
6931960 GCTATTGCAT
* ** *
6931970 ACTATATCTGAGATAGGCCAAGGCCTTAATTAATCTGAG
1 ACTATATCCGAGATAGGCCAAGGCCCAAATAAATCTGAG
*
6932009 ACTATATCCGA-ATGGGCCAAGGCCCAAACTAAATCT
1 ACTATATCCGAGATAGGCCAAGGCCCAAA-TAAATCT
6932045 ATAATGGGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 14 0.47
39 16 0.53
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (39 bp):
ACTATATCCGAGATAGGCCAAGGCCCAAATAAATCTGAG
Found at i:6937520 original size:7 final size:7
Alignment explanation
Indices: 6937510--6937546 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
6937500 GCATGAAACA
6937510 TGATATT
1 TGATATT
6937517 TGATATT
1 TGATATT
6937524 TGATATT
1 TGATATT
6937531 TGATATT
1 TGATATT
6937538 TGATATT
1 TGATATT
6937545 TG
1 TG
6937547 GTAAGCCCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.16, T:0.57
Consensus pattern (7 bp):
TGATATT
Found at i:6937754 original size:21 final size:20
Alignment explanation
Indices: 6937730--6937773 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
6937720 AATTTAGTCA
*
6937730 TTTTTATTTTTATTTTAATAT
1 TTTTTATTTTTAATTTAAT-T
6937751 TTTTTATTTTTAATTTAATT
1 TTTTTATTTTTAATTTAATT
6937771 TTT
1 TTT
6937774 ACATTCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTTAATTTAATT
Found at i:6940351 original size:18 final size:17
Alignment explanation
Indices: 6940318--6940359 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
6940308 TATTTTGGCA
*
6940318 TATTATTGTGTGTATTG
1 TATTGTTGTGTGTATTG
*
6940335 TTTTGTTGTGTTGTATTG
1 TATTGTTGTG-TGTATTG
6940353 TATTGTT
1 TATTGTT
6940360 ATATTATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.64
Consensus pattern (17 bp):
TATTGTTGTGTGTATTG
Found at i:6940867 original size:131 final size:129
Alignment explanation
Indices: 6940622--6940877 Score: 386
Period size: 131 Copynumber: 2.0 Consensus size: 129
6940612 TATTCATTTG
* * * * *
6940622 AAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGGCAATTCGACAATCGTGCCCTATCGTGTT
1 AAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGAAATTCGACAATCGTACCCTATCATGCT
*
6940687 GGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCATTTGGAATTTCACTCATGTCTTT
66 GGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCATTTAGAATTTCACTCATGTCTTT
* *
6940751 AAAATCTCTTCAAAACGAAGGTAATACTCGATGTTTGGAAATTCGAGGAATCGTACCCTATCATG
1 AAAAT-TCTTCAAAACGAAGGCAATACTCGATGTTTGGAAATTCGA-CAATCGTACCCTATCATG
* * * *
6940816 CTGGGTTGCGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
64 CTGGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCATTTAGAATTTCACTCATGT
6940878 TCTCTAAATT
Statistics
Matches: 113, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 5 0.04
130 37 0.33
131 71 0.63
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (129 bp):
AAAATTCTTCAAAACGAAGGCAATACTCGATGTTTGGAAATTCGACAATCGTACCCTATCATGCT
GGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCATTTAGAATTTCACTCATGTCTTT
Found at i:6952021 original size:133 final size:133
Alignment explanation
Indices: 6951779--6952516 Score: 1059
Period size: 133 Copynumber: 5.6 Consensus size: 133
6951769 GAATTCACAA
*
6951779 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGAC-GAGAATCTTGTCTTCCTAAAGTTG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGAGAATCTTGTCTTCCTAAAGTTG
* *
6951843 CAGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAATG
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
6951908 CAG
131 CAG
** * * *
6951911 ATCTTGTCTCGTTGAAGTTGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCTGAAGTTG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGAGAATCTTGTCTTCCTAAAGTTG
* *
6951976 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGCAGTAGGCTGAAGATTA
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
6952041 CAG
131 CAG
* * * * * *
6952044 ATCTCGTCTCCCTGAAGTTACAGTGGAACAGATCGAAGACGGTGAATCTTGTCTTCCTGAAGTTA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGAGAATCTTGTCTTCCTAAAGTTG
* *
6952109 CAATAAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
6952174 CAG
131 CAG
* * * * * *
6952177 ATCTTG-CTGCCTGAAGTTGTAGTGGAGCAGATCGAAGACGAAGAATCTTGCCTTCTTAAAGTTA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGAGAATCTTGTCTTCCTAAAGTTG
6952241 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
*
6952306 TAG
131 CAG
* * *
6952309 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCGAATCTTGTCTTCTTAAAGTTG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGAGAATCTTGTCTTCCTAAAGTTG
* * * * * * * *
6952374 TAATGAAGTAGATTTAAGCTACCACCCTATCTCCCTAAAGTTGTAGTGGATTAGGCCGAACATTG
66 CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
6952439 CAG
131 CAG
* * ** * * *
6952442 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTCACA-AATCTTATCTCCCTGAAGTTG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGAGAATCTTGTCTTCCTAAAGTTG
*
6952506 CAGTGGAGCAG
66 CAGTGAAGCAG
6952517 TTGCGGCAGA
Statistics
Matches: 542, Mismatches: 62, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
132 180 0.33
133 362 0.67
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (133 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGAGAATCTTGTCTTCCTAAAGTTG
CAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
CAG
Found at i:6952252 original size:265 final size:264
Alignment explanation
Indices: 6951779--6952479 Score: 1080
Period size: 265 Copynumber: 2.6 Consensus size: 264
6951769 GAATTCACAA
6951779 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGAGAATCTTGTCTTCCTAAAGTTGC
1 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGAGAATCTTGTCTTCCTAAAGTTGC
* *
6951844 AGTGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGAATGC
66 AATGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGC
* ** * *
6951909 AGATCTTGTCTCGTTGAAGTTGTAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCTGAAGT
131 AGATCTTGTCTC-CTGAAGTTGTAGTGGAGCAGATCGAAGACGAAGAATCTTGCCTTCCTAAAGT
*
6951974 TGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGCAGTAGGCTGAAGAT
195 TACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGCAGTAGGCTGAAGAT
6952039 TACAG
260 TACAG
* * * * *
6952044 ATCTCGTCTCCCTGAAGTTACAGTGGAACAGATCGAAGACGGTGAATCTTGTCTTCCTGAAGTTA
1 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGAC-GAGAATCTTGTCTTCCTAAAGTTG
* *
6952109 CAATAAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
65 CAATGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
*
6952174 CAGATCTTG-CTGCCTGAAGTTGTAGTGGAGCAGATCGAAGACGAAGAATCTTGCCTTCTTAAAG
130 CAGATCTTGTCT-CCTGAAGTTGTAGTGGAGCAGATCGAAGACGAAGAATCTTGCCTTCCTAAAG
*
6952238 TTACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGA
194 TTACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGCAGTAGGCTGAAGA
**
6952303 TTGTAG
259 TTACAG
* * *
6952309 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGCGAATCTTGTCTTCTTAAAGTTG
1 ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGAC-GAGAATCTTGTCTTCCTAAAGTTG
* * * * * *
6952374 TAATGAAGTAGATTTAAGCTACCACCCTATCTCCCTAAAGTTGTAGTGGATTAGGCCGAACATTG
65 CAATGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTG
* *
6952439 CAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCATATCGAAG
130 CAGATCTTGTCT-CCTGAAGTTGTAGTGGAGCAGATCGAAG
6952480 TCACAAATCT
Statistics
Matches: 395, Mismatches: 38, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
265 275 0.70
266 120 0.30
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (264 bp):
ATCTCGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGAGAATCTTGTCTTCCTAAAGTTGC
AATGAAGTAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAGATTGC
AGATCTTGTCTCCTGAAGTTGTAGTGGAGCAGATCGAAGACGAAGAATCTTGCCTTCCTAAAGTT
ACAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAAGTTGTAGTGCAGTAGGCTGAAGATT
ACAG
Found at i:6952347 original size:45 final size:45
Alignment explanation
Indices: 6952270--6952516 Score: 135
Period size: 45 Copynumber: 5.6 Consensus size: 45
6952260 CACCATCCTA
* * * *
6952270 TCTCCCTAAAGTTGTAGTGGAGTAG-GCTGAAGATTGTAGATCTTG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATC-GAAGATTGCAGATCTTG
* **
6952315 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACAGC-GAATCTTG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGATTGCAG-ATCTTG
* * * * * * ** * * * * * *
6952360 TCTTCTTAAAGTTGTAATGAAGTAGATTTAAG-CTAC-CACCCTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGATTGCAGATCTTG
* ** ** *
6952403 TCTCCCTAAAGTTGTAGTGGATTAGGCCGAACATTGCAGATCTTG
1 TCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGATTGCAGATCTTG
* * ** * *
6952448 TCTCCCTGAAGTTGCAGTGGAGCATATCGAAG-TCACAAATCTTA
1 TCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGATTGCAGATCTTG
*
6952492 TCTCCCTGAAGTTGCAGTGGAGCAG
1 TCTCCCTAAAGTTGCAGTGGAGCAG
6952517 TTGCGGCAGA
Statistics
Matches: 147, Mismatches: 51, Indels: 9
0.71 0.25 0.04
Matches are distributed among these distances:
43 25 0.17
44 37 0.25
45 84 0.57
46 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (45 bp):
TCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGATTGCAGATCTTG
Found at i:6953669 original size:31 final size:32
Alignment explanation
Indices: 6953631--6953692 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
6953621 GCTAGAGGAT
6953631 TTACTTA-GATGTATTCTTGCTGCTATGGGGG
1 TTACTTAGGATGTATTCTTGCTGCTATGGGGG
* * * *
6953662 TTACTTAGGGTTTGTTTTTGCTGCTATGGGG
1 TTACTTAGGATGTATTCTTGCTGCTATGGGG
6953693 AATATTAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.13, C:0.11, G:0.31, T:0.45
Consensus pattern (32 bp):
TTACTTAGGATGTATTCTTGCTGCTATGGGGG
Found at i:6955312 original size:131 final size:130
Alignment explanation
Indices: 6955067--6955322 Score: 377
Period size: 131 Copynumber: 2.0 Consensus size: 130
6955057 TATTCATTTG
* * * * *
6955067 AAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGGCAATTTGAGAATCGTGCCCTATCGTGCT
1 AAAACTCTTCAAAACGAAGGCAATACTCGATATTTGGAAATTCGAGAATCGTGCCCTATCGTGCT
* *
6955132 GGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCCTTTGGAATTTCACTCATGTCTTTA
66 AGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTA
* *
6955197 AAAACTCTTCAAAACGAAGGTAATACTTGATATTTGGAAATTCGAGGAATCGTGCCCTATCGTGC
1 AAAACTCTTCAAAACGAAGGCAATACTCGATATTTGGAAATTCGA-GAATCGTGCCCTATCGTGC
* * * * *
6955262 TAGGTTGCGTTTTCCTGTTTGTTCAAAATAATCGAATGTTCCTTTAGAATTTCACTCATGT
65 TAGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGT
6955323 TCTCTAAATT
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 38 0.34
131 73 0.66
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (130 bp):
AAAACTCTTCAAAACGAAGGCAATACTCGATATTTGGAAATTCGAGAATCGTGCCCTATCGTGCT
AGGTTGCGATTTCCCGCTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGTCTTTA
Found at i:6959075 original size:14 final size:13
Alignment explanation
Indices: 6959056--6959144 Score: 54
Period size: 14 Copynumber: 6.5 Consensus size: 13
6959046 CTCTTTTGTG
6959056 TTTATTTATTTTAT
1 TTTATTT-TTTTAT
6959070 TTTATTTTTTTAT
1 TTTATTTTTTTAT
*
6959083 ATTAGTTGTTTTTAT
1 TTTA-TT-TTTTTAT
** * *
6959098 TAGAATTGTTT-T
1 TTTATTTTTTTAT
* *
6959110 CTTATTTTTATTCT
1 TTTATTTTT-TTAT
6959124 TGTTATTTTTTTAAT
1 T-TTATTTTTTT-AT
6959139 TTTATT
1 TTTATT
6959145 ATTAGTTATC
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
12 5 0.09
13 15 0.27
14 18 0.32
15 18 0.32
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (13 bp):
TTTATTTTTTTAT
Found at i:6959132 original size:23 final size:24
Alignment explanation
Indices: 6959106--6959153 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
6959096 ATTAGAATTG
* *
6959106 TTTTCTTATTTTTATTCTT-GTTA
1 TTTTCTTAATTTTATTATTAGTTA
*
6959129 TTTTTTTAATTTTATTATTAGTTA
1 TTTTCTTAATTTTATTATTAGTTA
6959153 T
1 T
6959154 CTTCATTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTCTTAATTTTATTATTAGTTA
Found at i:6966335 original size:13 final size:13
Alignment explanation
Indices: 6966317--6966343 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6966307 CTCTCACAAC
6966317 AAAAATTACAATA
1 AAAAATTACAATA
6966330 AAAAATTACAATA
1 AAAAATTACAATA
6966343 A
1 A
6966344 TTTTAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAAATTACAATA
Found at i:6966951 original size:3 final size:3
Alignment explanation
Indices: 6966943--6967034 Score: 70
Period size: 3 Copynumber: 32.0 Consensus size: 3
6966933 CCTGGGTAAT
* *
6966943 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A CAG- AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
* * *
6966985 AGA AGA AGA AGA AGA ATA AGA A-A AGGA A-A AGG AGG AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AGA AGA AGA AGA
*
6967029 ATA AGA
1 AGA AGA
6967035 GAAAATAGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
2 11 0.15
3 58 0.82
4 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.30, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:6966983 original size:28 final size:28
Alignment explanation
Indices: 6966943--6967054 Score: 83
Period size: 28 Copynumber: 4.1 Consensus size: 28
6966933 CCTGGGTAAT
*
6966943 AGAAGAAGAAGAGAAAAAGAAGAATAAG
1 AGAAGAAGAAGAGAAAAAGAAGAAGAAG
*
6966971 AGAAGAA-ACAGAGAAGAAGAAGAAGAAG
1 AGAAGAAGA-AGAGAAAAAGAAGAAGAAG
* * *
6966999 AATAAGAA-AAG-G-AAAAGGAGGAG-A-
1 -AGAAGAAGAAGAGAAAAAGAAGAAGAAG
* * *
6967023 AGAAGAATAAGAGAAAATAGAAGGAGATG
1 AGAAGAAGAAGAGAAAA-AGAAGAAGAAG
6967052 AGA
1 AGA
6967055 CTAGTTGGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
23 6 0.09
24 3 0.04
25 2 0.03
26 11 0.16
27 9 0.13
28 26 0.39
29 10 0.15
ACGTcount: A:0.63, C:0.01, G:0.31, T:0.04
Consensus pattern (28 bp):
AGAAGAAGAAGAGAAAAAGAAGAAGAAG
Found at i:6968447 original size:30 final size:31
Alignment explanation
Indices: 6968382--6968450 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
6968372 ACTGTTAATC
* ** *
6968382 AGTGACTATTTTGTCGCTTTTTCATAACGTT
1 AGTGACTGTTTTGTAACTTTTTCATAAAGTT
6968413 AGTGACTGTTTTGTAAC-TTTTCA-AAAGTT
1 AGTGACTGTTTTGTAACTTTTTCATAAAGTT
6968442 GAGTGACTG
1 -AGTGACTG
6968451 AAATGAAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.42
31 14 0.42
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (31 bp):
AGTGACTGTTTTGTAACTTTTTCATAAAGTT
Found at i:6970568 original size:21 final size:21
Alignment explanation
Indices: 6970539--6970579 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6970529 GGATAGGTAA
* *
6970539 CATGGCCAGTTAATTAGCTGT
1 CATGACCAGTTAACTAGCTGT
6970560 CATGACCAGTTAACTAGCTG
1 CATGACCAGTTAACTAGCTG
6970580 CGTTAGACGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (21 bp):
CATGACCAGTTAACTAGCTGT
Found at i:6980151 original size:17 final size:18
Alignment explanation
Indices: 6980112--6980158 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
6980102 ATTAGTTTTG
*
6980112 TTTTCATTTTTTTATTCTA
1 TTTTTATTTTTTTA-TCTA
*
6980131 TTTTTATTTTTTTA-CTC
1 TTTTTATTTTTTTATCTA
6980148 TTTTTACTTTT
1 TTTTTA-TTTT
6980159 AATTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 13 0.52
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTATTTTTTTATCTA
Done.