Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 20 of 325
Found at i:6401342 original size:141 final size:143
Alignment explanation
Indices: 6401144--6401425 Score: 460
Period size: 141 Copynumber: 2.0 Consensus size: 143
6401134 GGATTGTGAC
* *
6401144 TTGTAGCTTCAATCTGTTCTACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTTC
1 TTGTAGCTTCAATCTGTTCAACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCC
*
6401209 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTCCAACTTCAGGAAGATAA
*
6401274 GATTTGCCATAAT
131 GATCTGCCATAAT
* * * * *
6401287 TTGTAGCTTCAATCTGTTCAATTGC-A-TTTAGGGAAATGAGATTCGTTATTTTCAGTCTGCTCC
1 TTGTAGCTTCAATCTGTTCAACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCC
*
6401350 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTCCAACTTCAGGAAGATAA
66 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTCCAACTTCAGGAAGATAA
6401415 GATCTGCCATA
131 GATCTGCCATA
6401426 CTAGATCTAC
Statistics
Matches: 129, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
141 106 0.82
142 1 0.01
143 22 0.17
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (143 bp):
TTGTAGCTTCAATCTGTTCAACTACAACTTCAGGGAAATGAGATTCGCTATCTTCAGTCTGCTCC
GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTCCAACTTCAGGAAGATAA
GATCTGCCATAAT
Found at i:6405753 original size:28 final size:28
Alignment explanation
Indices: 6405713--6405791 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
6405703 GCAATCAAAT
* * *
6405713 ATGGTACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
6405741 ATGGCACTTAGTGTGTGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
6405769 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
6405792 CGAATGATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:6411727 original size:44 final size:44
Alignment explanation
Indices: 6411634--6411800 Score: 120
Period size: 49 Copynumber: 3.6 Consensus size: 44
6411624 TGATAATAAT
* * *
6411634 AATACTAATAATAGTAATAATAATAGAAAATAATAATGGTAAAA
1 AATAATAATAATAGTAATAATAATAGAAAATAAAAATAGTAAAA
* *
6411678 AATAATAATAATAGTAATAATAATAGTAATAA-AAAAATAGCAATGAT
1 AATAATAATAATAGTAATAATAATAG-AA-AATAAAAATAGTAA--AA
* * * * *
6411725 AATAAATATTGATAATAAATAATAATAGTAAAATAATAATAATAATAA
1 AAT-AATAATAATAGT-AATAATAATAG-AAAATAAAAATAGTAA-AA
* *
6411773 AATGAAGAATAATAATACATTAATAATA
1 AAT-AATAATAATAGTA-A-TAATAATA
6411801 AAATAGGGAA
Statistics
Matches: 97, Mismatches: 17, Indels: 13
0.76 0.13 0.10
Matches are distributed among these distances:
44 25 0.26
45 10 0.10
46 2 0.02
47 5 0.05
48 25 0.26
49 30 0.31
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (44 bp):
AATAATAATAATAGTAATAATAATAGAAAATAAAAATAGTAAAA
Found at i:6411784 original size:35 final size:35
Alignment explanation
Indices: 6411613--6411874 Score: 114
Period size: 38 Copynumber: 7.4 Consensus size: 35
6411603 AAATGATGAT
* * * *
6411613 AATAATAATAATGATAATAAT-AATACTAATAATAGT
1 AATAATAATAATAATAA-AATGAAAAATAATAATA-A
* *
6411649 AATAATAATAGAAAATAATAATGGTAAAA-AATAATAA
1 AATAATAATA-ATAATAA-AAT-GAAAAATAATAATAA
* * **
6411686 TAATAGTAATAATAATAGTAAT-AAAAA-AAT-A-GC
1 -AATAATAATAATAATA-AAATGAAAAATAATAATAA
* * * *
6411719 AATGATAATAAATATTGATAAT-AAATAATAATAGTAA
1 AATAATAAT-AATAAT-AAAATGAAA-AATAATAATAA
* *
6411756 AATAATAATAATAATAAAATGAAGAATAATAATAC
1 AATAATAATAATAATAAAATGAAAAATAATAATAA
* ** *
6411791 ATTAATAATAA-AAT--AGGGAATAATAATAATAA
1 AATAATAATAATAATAAAATGAAAAATAATAATAA
* *
6411823 CAACAATAAT-ATAAATAATAATGTAAAAATAATAATAGT
1 -AATAATAATAAT-AATAA-AATG-AAAAATAATAATA-A
6411862 AATAATAATAATA
1 AATAATAATAATA
6411875 GTGATAATAA
Statistics
Matches: 169, Mismatches: 36, Indels: 40
0.69 0.15 0.16
Matches are distributed among these distances:
32 22 0.13
33 19 0.11
34 10 0.06
35 33 0.20
36 17 0.10
37 27 0.16
38 37 0.22
39 4 0.02
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (35 bp):
AATAATAATAATAATAAAATGAAAAATAATAATAA
Found at i:6411882 original size:38 final size:38
Alignment explanation
Indices: 6411741--6411882 Score: 88
Period size: 35 Copynumber: 3.9 Consensus size: 38
6411731 TATTGATAAT
* *
6411741 AAATAATAATAGTAAAATAATAATAATAAT-AAAATG-AA
1 AAATAATAATAGT--AATAATAATAATAGTGATAATGTAA
* * *
6411779 GAATAATAATACATTAATAATAA-AATAG-G-GAA--TAA
1 AAATAATAAT--AGTAATAATAATAATAGTGATAATGTAA
* * ** *
6411814 TAATAATAACAACAATAAT-ATAA-A-TAATAATGTAA
1 AAATAATAATAGTAATAATAATAATAGTGATAATGTAA
6411849 AAATAATAATAGTAATAATAATAATAGTGATAAT
1 AAATAATAATAGTAATAATAATAATAGTGATAAT
6411883 AAATTAATTA
Statistics
Matches: 77, Mismatches: 15, Indels: 24
0.66 0.13 0.21
Matches are distributed among these distances:
32 2 0.03
33 11 0.14
35 28 0.36
36 6 0.08
37 5 0.06
38 23 0.30
40 2 0.03
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (38 bp):
AAATAATAATAGTAATAATAATAATAGTGATAATGTAA
Found at i:6411903 original size:3 final size:3
Alignment explanation
Indices: 6411611--6411884 Score: 195
Period size: 3 Copynumber: 91.3 Consensus size: 3
6411601 AAAAATGATG
* * *
6411611 ATA ATA ATA ATA ATG ATA ATA ATA ATA CTA ATA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6411659 GAAA ATA ATA ATG GTA A-A A-A ATA ATA ATA ATA GTA ATA ATA ATA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * * *
6411703 GTA ATA A-A AAA ATA GCA ATG ATA ATAA ATA TTG ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT-A ATA ATA
* *
6411749 ATA GTA A-A ATA ATA ATA ATA ATA A-A ATGA AGA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -A-TA
** * *
6411795 ATA ATA A-A ATA GGGA ATA ATA ATA ATA ACA ACA ATA AT- ATAA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * * *
6411840 ATA AT- GTA AAA ATA ATA ATA GTA ATA ATA ATA ATA GTG ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6411885 ATTAATTAAT
Statistics
Matches: 209, Mismatches: 47, Indels: 30
0.73 0.16 0.10
Matches are distributed among these distances:
2 15 0.07
3 177 0.85
4 15 0.07
5 2 0.01
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:6419087 original size:10 final size:10
Alignment explanation
Indices: 6419072--6419099 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6419062 AATTAGAAAA
6419072 AATAATATAT
1 AATAATATAT
6419082 AATAATATAT
1 AATAATATAT
6419092 AATAATAT
1 AATAATAT
6419100 TAAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AATAATATAT
Found at i:6426709 original size:9 final size:9
Alignment explanation
Indices: 6426657--6426765 Score: 112
Period size: 9 Copynumber: 11.6 Consensus size: 9
6426647 TTTGGTTAAA
*
6426657 AATTACCTG
1 AATTACCCG
6426666 AATTACCCG
1 AATTACCCG
* *
6426675 ACTTATCCG
1 AATTACCCG
*
6426684 AATTATCCG
1 AATTACCCG
6426693 AATTACCCG
1 AATTACCCG
6426702 AATTACCCG
1 AATTACCCG
6426711 AAAATTACCCG
1 --AATTACCCG
6426722 -ATTACCCG
1 AATTACCCG
*
6426730 AAAATTACCCAAA
1 --AATTACCC--G
6426743 AATTACCCG
1 AATTACCCG
6426752 AATTACCCG
1 AATTACCCG
6426761 AATTA
1 AATTA
6426766 AATCACTACA
Statistics
Matches: 86, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
8 8 0.09
9 54 0.63
11 24 0.28
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:6426718 original size:11 final size:11
Alignment explanation
Indices: 6426693--6426762 Score: 82
Period size: 11 Copynumber: 7.0 Consensus size: 11
6426683 GAATTATCCG
6426693 AATTACCCG--
1 AATTACCCGAA
6426702 AATTACCCGAA
1 AATTACCCGAA
6426713 AATTACCCG--
1 AATTACCCGAA
6426722 -ATTACCCGAA
1 AATTACCCGAA
*
6426732 AATTACCCAAA
1 AATTACCCGAA
6426743 AATTACCCG--
1 AATTACCCGAA
6426752 AATTACCCGAA
1 AATTACCCGAA
6426763 TTAAATCACT
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
8 8 0.15
9 18 0.35
11 26 0.50
ACGTcount: A:0.41, C:0.30, G:0.09, T:0.20
Consensus pattern (11 bp):
AATTACCCGAA
Found at i:6426794 original size:17 final size:17
Alignment explanation
Indices: 6426772--6426832 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
6426762 ATTAAATCAC
6426772 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
6426789 TACATAAATCTTTGAATCAC
1 TACAT-AA--TTAAAAACAT
*
6426809 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
6426826 TACATAA
1 TACATAA
6426833 GTCTTTGAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
19 2 0.06
20 11 0.34
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:6426814 original size:20 final size:20
Alignment explanation
Indices: 6426789--6426852 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
6426779 TTAAAAACAT
6426789 TACATAAATCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
*** *
6426809 TACAT-AAT-TAAAAAT-AT
1 TACATAAATCTTTGAATCAC
*
6426826 TACATAAGTCTTTGAATCAC
1 TACATAAATCTTTGAATCAC
6426846 TACATAA
1 TACATAA
6426853 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 7 0.22
20 13 0.41
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (20 bp):
TACATAAATCTTTGAATCAC
Found at i:6426872 original size:37 final size:37
Alignment explanation
Indices: 6426766--6426878 Score: 192
Period size: 37 Copynumber: 3.1 Consensus size: 37
6426756 ACCCGAATTA
* *
6426766 AATCACTACATAATTAAAAACATTACATAAATCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
6426803 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
6426840 AATCACTACATAATTAAAAATATTACACAAGTC-TTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
6426876 AAT
1 AAT
6426879 TAAAACATAA
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 6 0.08
37 67 0.92
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:6426946 original size:24 final size:24
Alignment explanation
Indices: 6426919--6426977 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
6426909 ATTCTCCATT
*
6426919 TATATCCATTTCATCTTTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
6426943 TATATTCATTTCATCTCTCCAAAA
1 TATATCCATTTCATCTCTCCAAAA
*
6426967 TATCTCCATTT
1 TATATCCATTT
6426978 GCATTAAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (24 bp):
TATATCCATTTCATCTCTCCAAAA
Found at i:6430062 original size:16 final size:16
Alignment explanation
Indices: 6430041--6430074 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6430031 TTTTTTTTCT
*
6430041 TACATTAATTATAATA
1 TACATTAATTACAATA
6430057 TACATTAATTACAATA
1 TACATTAATTACAATA
6430073 TA
1 TA
6430075 TTCAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (16 bp):
TACATTAATTACAATA
Found at i:6430996 original size:16 final size:17
Alignment explanation
Indices: 6430975--6431015 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
6430965 GCCTAAGAGA
6430975 AAATTGGGCT-GGATTT
1 AAATTGGGCTGGGATTT
* *
6430991 AAATTGGGTTGGGTTTT
1 AAATTGGGCTGGGATTT
6431008 AAATTGGG
1 AAATTGGG
6431016 AGGGAGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.24, C:0.02, G:0.34, T:0.39
Consensus pattern (17 bp):
AAATTGGGCTGGGATTT
Found at i:6432434 original size:11 final size:11
Alignment explanation
Indices: 6432418--6432442 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6432408 AGCCAGTAGA
6432418 CATGTATTTGC
1 CATGTATTTGC
6432429 CATGTATTTGC
1 CATGTATTTGC
6432440 CAT
1 CAT
6432443 TTGCCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (11 bp):
CATGTATTTGC
Found at i:6435820 original size:31 final size:31
Alignment explanation
Indices: 6435782--6435877 Score: 192
Period size: 31 Copynumber: 3.1 Consensus size: 31
6435772 AAAAAAGGAA
6435782 TGAAAGATAAGATCAAACGAATGTGCTTCAT
1 TGAAAGATAAGATCAAACGAATGTGCTTCAT
6435813 TGAAAGATAAGATCAAACGAATGTGCTTCAT
1 TGAAAGATAAGATCAAACGAATGTGCTTCAT
6435844 TGAAAGATAAGATCAAACGAATGTGCTTCAT
1 TGAAAGATAAGATCAAACGAATGTGCTTCAT
6435875 TGA
1 TGA
6435878 GTTAGCTTCT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (31 bp):
TGAAAGATAAGATCAAACGAATGTGCTTCAT
Found at i:6439938 original size:6 final size:6
Alignment explanation
Indices: 6439927--6439966 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
6439917 TTACTTAAAT
*
6439927 TTCCTA TTCCTA TTCCTA TTCCAA TTCCTA TTCCT- TTCCT
1 TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCTA TTCCT
6439967 TGCTTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCCTA
Found at i:6441802 original size:25 final size:26
Alignment explanation
Indices: 6441759--6441823 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
6441749 AAATAATAGT
6441759 AAAAATAACAAAAATAACAACAACAA
1 AAAAATAACAAAAATAACAACAACAA
* * * *
6441785 AAAAATAGCACAAA-AACACCAAGAA
1 AAAAATAACAAAAATAACAACAACAA
*
6441810 AAACAAAAACAAAA
1 AAA-AATAACAAAA
6441824 CAAATTTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
25 12 0.39
26 19 0.61
ACGTcount: A:0.75, C:0.17, G:0.03, T:0.05
Consensus pattern (26 bp):
AAAAATAACAAAAATAACAACAACAA
Found at i:6446607 original size:31 final size:30
Alignment explanation
Indices: 6446572--6446668 Score: 99
Period size: 31 Copynumber: 3.2 Consensus size: 30
6446562 GGGTTTAAAG
*
6446572 TATCAGGTACTATGTACCAATGATTATATT
1 TATCAGGTACTATGTACTAATGATTATATT
* *
6446602 ATATCAGG-ACGTACGTACTAATGACTATA-T
1 -TATCAGGTAC-TATGTACTAATGATTATATT
* * *
6446632 TATCAGGTACTTTGTACTAGTGTTTATATT
1 TATCAGGTACTATGTACTAATGATTATATT
6446662 GTATCAG
1 -TATCAG
6446669 ACATTATGTG
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 20 0.37
30 6 0.11
31 28 0.52
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (30 bp):
TATCAGGTACTATGTACTAATGATTATATT
Found at i:6446706 original size:31 final size:30
Alignment explanation
Indices: 6446627--6446707 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 30
6446617 TACTAATGAC
*
6446627 TATA-TTATCAGGTACTT-TGTACTAGTGTT
1 TATACTTATCAGGTA-TTATGTACCAGTGTT
* ** *
6446656 TATATTGTATCAGACATTATGTGCCAGTGTT
1 TATACT-TATCAGGTATTATGTACCAGTGTT
6446687 TATAGCTTATCAGGTATTATG
1 TATA-CTTATCAGGTATTATG
6446708 GACCGGCGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
29 4 0.10
30 3 0.07
31 33 0.80
32 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (30 bp):
TATACTTATCAGGTATTATGTACCAGTGTT
Found at i:6455247 original size:2 final size:2
Alignment explanation
Indices: 6455240--6455264 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6455230 TTTAATTGTT
6455240 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 T
6455265 TCAGGATCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6457857 original size:40 final size:40
Alignment explanation
Indices: 6457801--6457893 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
6457791 GGCGTTTGGA
* * *
6457801 TAAAAAACGCCCCTATAGATCGAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTC
* *
6457841 TAAAAAATGCCGCTATAGATTGAGCATTAGCGACGCTTTC
1 TAAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTC
*
6457881 TGAAAAACGCCGC
1 TAAAAAACGCCGC
6457894 AAAAAATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (40 bp):
TAAAAAACGCCGCTATAGATCGAGCATTAGCGACGCTTTC
Found at i:6458271 original size:64 final size:62
Alignment explanation
Indices: 6458196--6458362 Score: 210
Period size: 64 Copynumber: 2.6 Consensus size: 62
6458186 TAATTATCCG
* * * * *
6458196 TAAACCCTAAACCCGTAAAC-ACTCCCTTAAACCCTTAAATACAAAATCTTAAATCTTAAAACTC
1 TAAACCTTAAACCC-TAAACAAATCAC-TAAACCCTTAAATA-AAAATCCTAAATCCTAAAACTC
*
6458260 TAAACCTTAAACCCCAAACCTAAATCACTAAACCCTTAAATAAAAATCCTAAATCCTAAAACTC
1 TAAACCTTAAACCCTAAA-C-AAATCACTAAACCCTTAAATAAAAATCCTAAATCCTAAAACTC
6458324 TAAACCTTAAACCCTAAACTCAAATCACTAAACCCTTAA
1 TAAACCTTAAACCCTAAA--CAAATCACTAAACCCTTAA
6458363 GCCCTTAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
63 3 0.03
64 69 0.76
65 15 0.16
66 4 0.04
ACGTcount: A:0.46, C:0.30, G:0.01, T:0.23
Consensus pattern (62 bp):
TAAACCTTAAACCCTAAACAAATCACTAAACCCTTAAATAAAAATCCTAAATCCTAAAACTC
Found at i:6458315 original size:7 final size:7
Alignment explanation
Indices: 6458303--6458443 Score: 67
Period size: 7 Copynumber: 19.6 Consensus size: 7
6458293 CCTTAAATAA
6458303 AAATCCT
1 AAATCCT
6458310 AAATCCT
1 AAATCCT
*
6458317 AAAACTCT
1 AAATC-CT
6458325 AAA-CCTT
1 AAATCC-T
*
6458332 AAACCCT
1 AAATCCT
6458339 AAA--CT
1 AAATCCT
6458344 CAAATCACT
1 -AAATC-CT
*
6458353 AAACCCTT
1 AAATCC-T
**
6458361 AAGCCCTT
1 AAATCC-T
* *
6458369 AAATACG
1 AAATCCT
6458376 AAATCCT
1 AAATCCT
6458383 AAATCCT
1 AAATCCT
*
6458390 AAATCAT
1 AAATCCT
*
6458397 AAAACTCT
1 AAATC-CT
6458405 AAA-CCTT
1 AAATCC-T
6458412 AAA-CCAT
1 AAATCC-T
*
6458419 AAACCCT
1 AAATCCT
*
6458426 AAACCCT
1 AAATCCT
6458433 AAATCCT
1 AAATCCT
6458440 AAAT
1 AAAT
6458444 AATAAAGCAT
Statistics
Matches: 109, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
5 2 0.02
6 5 0.05
7 72 0.66
8 28 0.26
9 2 0.02
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.23
Consensus pattern (7 bp):
AAATCCT
Found at i:6458344 original size:21 final size:21
Alignment explanation
Indices: 6458254--6458442 Score: 106
Period size: 21 Copynumber: 8.8 Consensus size: 21
6458244 TTAAATCTTA
*
6458254 AAACTCTAAA-CCTTAAACCCC
1 AAACTCTAAATCC-TAAACCCT
6458275 AAAC-CTAAATCACTAAACCCTT
1 AAACTCTAAATC-CTAAACCC-T
** *
6458297 AAA-TAAAAATCCTAAATCCT
1 AAACTCTAAATCCTAAACCCT
6458317 AAAACTCTAAA-CCTTAAACCCT
1 -AAACTCTAAATCC-TAAACCCT
6458339 AAACTC-AAATCACTAAACCCTT
1 AAACTCTAAATC-CTAAACCC-T
* * * * *
6458361 AAGCCCTTAAATACGAAATCCT
1 AAACTC-TAAATCCTAAACCCT
* *
6458383 AAA-TCCTAAATCATAAAACTCT
1 AAACT-CTAAATCCT-AAACCCT
6458405 AAAC-CTTAAA-CCATAAACCCT
1 AAACTC-TAAATCC-TAAACCCT
*
6458426 AAACCCTAAATCCTAAA
1 AAACTCTAAATCCTAAA
6458443 TAATAAAGCA
Statistics
Matches: 128, Mismatches: 21, Indels: 38
0.68 0.11 0.20
Matches are distributed among these distances:
20 9 0.07
21 63 0.49
22 46 0.36
23 6 0.05
24 4 0.03
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (21 bp):
AAACTCTAAATCCTAAACCCT
Found at i:6458463 original size:14 final size:14
Alignment explanation
Indices: 6458382--6458489 Score: 56
Period size: 14 Copynumber: 7.6 Consensus size: 14
6458372 TACGAAATCC
* *
6458382 TAAATCCTAAATCA
1 TAAACCCTAAACCA
* *
6458396 TAAAACTCTAAACCT
1 T-AAACCCTAAACCA
* *
6458411 TAAACCATAAACCC
1 TAAACCCTAAACCA
6458425 TAAACCCTAAATCC-
1 TAAACCCTAAA-CCA
*** *
6458439 TAAATAATAAAGCA
1 TAAACCCTAAACCA
*
6458453 TAAACCCTAAACTA
1 TAAACCCTAAACCA
* * *
6458467 TAGACACTAAACCCT
1 TAAACCCTAAA-CCA
6458482 TAAACCCT
1 TAAACCCT
6458490 TAAATACAAA
Statistics
Matches: 67, Mismatches: 23, Indels: 7
0.69 0.24 0.07
Matches are distributed among these distances:
13 1 0.01
14 47 0.70
15 19 0.28
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:6464141 original size:7 final size:7
Alignment explanation
Indices: 6464131--6464155 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6464121 AGATAATACA
6464131 TATCAAG
1 TATCAAG
6464138 TATCAAG
1 TATCAAG
6464145 TATCAAG
1 TATCAAG
6464152 TATC
1 TATC
6464156 TAATAGGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (7 bp):
TATCAAG
Found at i:6464231 original size:9 final size:9
Alignment explanation
Indices: 6464213--6464333 Score: 102
Period size: 9 Copynumber: 13.6 Consensus size: 9
6464203 TATTTATGTA
6464213 TTATGTAAG
1 TTATGTAAG
*
6464222 TTAAGTAAG
1 TTATGTAAG
*
6464231 TTTTGTAAG
1 TTATGTAAG
6464240 TTATGTAAG
1 TTATGTAAG
* *
6464249 ATATGATATG
1 TTATG-TAAG
* * *
6464259 ATATAT-AT
1 TTATGTAAG
*
6464267 TTGTGTAAG
1 TTATGTAAG
6464276 TTATGTAAG
1 TTATGTAAG
* *
6464285 TTATAT-AT
1 TTATGTAAG
*
6464293 TTATCTAAG
1 TTATGTAAG
*
6464302 TTATCTAAG
1 TTATGTAAG
*
6464311 TTATGTAAA
1 TTATGTAAG
6464320 TTATGTAAG
1 TTATGTAAG
6464329 TTATG
1 TTATG
6464334 ATATGATATA
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
8 9 0.10
9 72 0.82
10 7 0.08
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6464310 original size:26 final size:26
Alignment explanation
Indices: 6464260--6464332 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
6464250 TATGATATGA
* *
6464260 TATATATTTGTGTAAGTTATGTAAGT
1 TATATATTTATGTAAGTTATCTAAGT
*
6464286 TATATATTTATCTAAGTTATCTAAGT
1 TATATATTTATGTAAGTTATCTAAGT
* *
6464312 TATGTAAATTATGTAAGTTAT
1 TATAT-ATTTATGTAAGTTAT
6464333 GATATGATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 27 0.68
27 13 0.32
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (26 bp):
TATATATTTATGTAAGTTATCTAAGT
Found at i:6464491 original size:19 final size:20
Alignment explanation
Indices: 6464450--6464492 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
6464440 ATTATATTGA
* * *
6464450 TAAAAAATATTTACAAGTTT
1 TAAAAAATATTTAAAAATAT
6464470 TAAAAAA-ATTTAAAAATAT
1 TAAAAAATATTTAAAAATAT
6464489 TAAA
1 TAAA
6464493 TATTAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAAAATATTTAAAAATAT
Found at i:6465061 original size:23 final size:23
Alignment explanation
Indices: 6465015--6465076 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
6465005 TTTGAAATAA
**
6465015 AAATAAATTTT-TTATTATTATC
1 AAATAAATTTTCTTAACATTATC
*
6465037 AAATGAATTTTCTTAACATTATC
1 AAATAAATTTTCTTAACATTATC
6465060 AAATAAATTTTCTTAAC
1 AAATAAATTTTCTTAAC
6465077 CAAATACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAAATTTTCTTAACATTATC
Found at i:6465745 original size:25 final size:25
Alignment explanation
Indices: 6465710--6465776 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
6465700 TGGTTGGCAG
* *
6465710 AAAGGAGATGCCGACGGAGATGTAGC
1 AAAGG-GATGCCGACGAAAATGTAGC
6465736 AAAGGGATGCCGACGAAAATGTAGC
1 AAAGGGATGCCGACGAAAATGTAGC
* *
6465761 AGAGGGTTGCCGACGA
1 AAAGGGATGCCGACGA
6465777 CGATGCCGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 32 0.86
26 5 0.14
ACGTcount: A:0.34, C:0.16, G:0.37, T:0.12
Consensus pattern (25 bp):
AAAGGGATGCCGACGAAAATGTAGC
Found at i:6469693 original size:46 final size:46
Alignment explanation
Indices: 6469626--6469800 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
6469616 TGTAACCCGC
6469626 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
*
6469672 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G--T-GTTCGCAT
* * ****
6469722 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
*
6469765 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
6469801 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 4 0.04
43 5 0.05
46 62 0.57
47 25 0.23
48 1 0.01
50 6 0.06
51 5 0.05
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:6469747 original size:93 final size:93
Alignment explanation
Indices: 6469635--6469804 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 93
6469625 CCCATAAGTG
****
6469635 AACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
6469700 GAGCTCGGATGCCTAGTTACATCTCACA
66 GAGCTCGGATGCCTAGTTACATCTCACA
*
6469728 AACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
6469793 GAGTTCGGATGC
66 GAGCTCGGATGC
6469805 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCACA
Found at i:6472554 original size:40 final size:40
Alignment explanation
Indices: 6472461--6472571 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
6472451 TAATTAGACT
* * *
6472461 TTTATTGGCGTTTTT-CAAAAGC-CCAGTTAAATCTCAATC
1 TTTAGTGGCGTTTTTACAAAAGCGCC-GCTAATTCTCAATC
* * *
6472500 TTTTGCGGCATTTTTACAAAAGCGCCGCTAATTCTCAATC
1 TTTAGTGGCGTTTTTACAAAAGCGCCGCTAATTCTCAATC
* * **
6472540 TTTAGTGGTGTTTTTAGAAAAATGCCGCTAAT
1 TTTAGTGGCGTTTTTACAAAAGCGCCGCTAAT
6472572 GCCTCTGGAG
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 11 0.19
40 44 0.77
41 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (40 bp):
TTTAGTGGCGTTTTTACAAAAGCGCCGCTAATTCTCAATC
Found at i:6472741 original size:15 final size:15
Alignment explanation
Indices: 6472715--6472756 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
6472705 AAAAATTTTA
6472715 ATTATATTAAATAATT
1 ATTAT-TTAAATAATT
*
6472731 ATTATTTAAATATTT
1 ATTATTTAAATAATT
*
6472746 AATATTTAAAT
1 ATTATTTAAAT
6472757 TTTAGGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATTTAAATAATT
Found at i:6474773 original size:53 final size:53
Alignment explanation
Indices: 6474703--6474809 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
6474693 CCTCTTAGCT
6474703 GCCCAAATGCTCTTCCAGGTAAGTGAAGGTAAAGTTCTTAACTGAGCCTCTAA
1 GCCCAAATGCTCTTCCAGGTAAGTGAAGGTAAAGTTCTTAACTGAGCCTCTAA
6474756 GCCCAAATGCTCTTCCAGGTAAGTGAAGGTAAAGTTCTTAACTGAGCCTCTAA
1 GCCCAAATGCTCTTCCAGGTAAGTGAAGGTAAAGTTCTTAACTGAGCCTCTAA
6474809 G
1 G
6474810 AAAGTCGAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (53 bp):
GCCCAAATGCTCTTCCAGGTAAGTGAAGGTAAAGTTCTTAACTGAGCCTCTAA
Found at i:6479461 original size:38 final size:36
Alignment explanation
Indices: 6479386--6479466 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 36
6479376 CCCGACCCAT
*
6479386 ACCATAAACTTAACATACTATACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTATACCATTGAACCCTAA
*
6479422 ACCATAAACTTAAAATA-TATTCTACCATTGAACCTTAA
1 ACCATAAACTTAAAATACTA---TACCATTGAACCCTAA
6479460 ACCATAA
1 ACCATAA
6479467 GCCTTAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
35 2 0.05
36 16 0.40
38 22 0.55
ACGTcount: A:0.46, C:0.25, G:0.02, T:0.27
Consensus pattern (36 bp):
ACCATAAACTTAAAATACTATACCATTGAACCCTAA
Found at i:6479616 original size:7 final size:7
Alignment explanation
Indices: 6479604--6479692 Score: 58
Period size: 7 Copynumber: 12.6 Consensus size: 7
6479594 ATATGATTTT
6479604 TTTAGGA
1 TTTAGGA
*
6479611 TTTAGGGT
1 TTTA-GGA
6479619 TTTA-GA
1 TTTAGGA
6479625 GTTTATGGA
1 -TTTA-GGA
*
6479634 -TTAGTA
1 TTTAGGA
*
6479640 TTTAGGG
1 TTTAGGA
* *
6479647 TTTATGT
1 TTTAGGA
*
6479654 TTTAGAA
1 TTTAGGA
6479661 TTTAGGA
1 TTTAGGA
6479668 TTTAGGA
1 TTTAGGA
*
6479675 TTTAATG-
1 TTT-AGGA
6479682 TTTAGGA
1 TTTAGGA
6479689 TTTA
1 TTTA
6479693 AGGGTTTAGA
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
6 5 0.08
7 47 0.76
8 8 0.13
9 2 0.03
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (7 bp):
TTTAGGA
Found at i:6479649 original size:21 final size:21
Alignment explanation
Indices: 6479619--6479676 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
6479609 GATTTAGGGT
* *
6479619 TTTAGAGTTTATGGATTAGTA
1 TTTAGGGTTTATGGATTAGAA
**
6479640 TTTAGGGTTTATGTTTTAGAA
1 TTTAGGGTTTATGGATTAGAA
*
6479661 TTTAGGATTTA-GGATT
1 TTTAGGGTTTATGGATT
6479677 TAATGTTTAG
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (21 bp):
TTTAGGGTTTATGGATTAGAA
Found at i:6479678 original size:21 final size:21
Alignment explanation
Indices: 6479604--6479702 Score: 60
Period size: 21 Copynumber: 4.6 Consensus size: 21
6479594 ATATGATTTT
**
6479604 TTTAGGATTTAGGGTTTTA-GA
1 TTTAGGATTTA-GAATTTAGGA
* *
6479625 GTTTATGGA-TTAGTATTTAGGG
1 -TTTA-GGATTTAGAATTTAGGA
* *
6479647 TTTATGTTTTAGAATTTAGGA
1 TTTAGGATTTAGAATTTAGGA
*
6479668 TTTAGGATTTA-ATGTTTAGGA
1 TTTAGGATTTAGA-ATTTAGGA
*
6479689 TTTAAGGGTTTAGA
1 TTT-AGGATTTAGA
6479703 GAAAGTTATG
Statistics
Matches: 60, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
20 2 0.03
21 39 0.65
22 15 0.25
23 4 0.07
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (21 bp):
TTTAGGATTTAGAATTTAGGA
Found at i:6480034 original size:40 final size:41
Alignment explanation
Indices: 6479989--6480155 Score: 124
Period size: 41 Copynumber: 3.9 Consensus size: 41
6479979 AACATTTTGC
6479989 GGCGTTTGGACCAAAAACGCCACTATTGATCAG-TTTTAGT
1 GGCGTTTGGACCAAAAACGCCACTATTGATCAGTTTTTAGT
* *
6480029 GGCGTTTGAACCAAAAATGCCGCTACTACTCATTCATCAGTTTTTAGT
1 GGCGTTTGGACCAAAAA---CGC--C-ACT-ATTGATCAGTTTTTAGT
* * * * * * *
6480077 GGCGTTT-TAGCTATAAATGTCGCTATTGATCAGTTTTTAGC
1 GGCGTTTGGA-CCAAAAACGCCACTATTGATCAGTTTTTAGT
* * *
6480118 GGTGTTTGTG-CCAAAAACGCTACTATTGTTCAGTTTTT
1 GGCGTTTG-GACCAAAAACGCCACTATTGATCAGTTTTT
6480156 TGCGGCATTT
Statistics
Matches: 97, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
40 16 0.16
41 42 0.43
42 2 0.02
43 4 0.04
45 2 0.02
46 3 0.03
47 9 0.09
48 19 0.20
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (41 bp):
GGCGTTTGGACCAAAAACGCCACTATTGATCAGTTTTTAGT
Found at i:6482195 original size:21 final size:22
Alignment explanation
Indices: 6482169--6482215 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
6482159 CTCTGCTCAA
*
6482169 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
6482190 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
6482212 ACTC
1 ACTC
6482216 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:6486062 original size:7 final size:7
Alignment explanation
Indices: 6486050--6486098 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
6486040 GTTGCTCATT
6486050 ACCCTAA
1 ACCCTAA
6486057 ACCCTAA
1 ACCCTAA
6486064 ACCC--A
1 ACCCTAA
*
6486069 A-CTTAA
1 ACCCTAA
*
6486075 ACCTTAA
1 ACCCTAA
6486082 ACCCTAA
1 ACCCTAA
6486089 ACCCTAA
1 ACCCTAA
6486096 ACC
1 ACC
6486099 TTTTATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 1 0.03
5 2 0.05
6 2 0.05
7 32 0.86
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:6486150 original size:23 final size:23
Alignment explanation
Indices: 6486123--6486948 Score: 541
Period size: 23 Copynumber: 36.0 Consensus size: 23
6486113 TGGTTGTTGT
6486123 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6486146 TGTTTAAATGTTGTAAATTTAAG
1 TGTTTAAATGCTGTAAATTGAAG
** * *
6486169 TGTTTAAATATTGCAATTTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
6486192 TGTTTAGTTGCTGCAAAATTG-AG
1 TGTTTAAATGCTG-TAAATTGAAG
* * *
6486215 ATGTTTTATTGCTGT-AATTGAGG
1 -TGTTTAAATGCTGTAAATTGAAG
* ** *
6486238 TGTATAAATTTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
6486260 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
*
6486284 TGTTTAAATGCTGTAAATTGAAT
1 TGTTTAAATGCTGTAAATTGAAG
* *
6486307 TGCTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6486330 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
6486353 TGTTTAGTTGCTGAAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6486375 ATGTTT-TAT-C-GCTACAATTGAGG
1 -TGTTTAAATGCTG-TA-AATTGAAG
* *
6486398 TGTATAAAT-CTTGTTAATTG-AG
1 TGTTTAAATGC-TGTAAATTGAAG
* *
6486420 ATG-TTAAAGTACAT-CAAATTGAAG
1 -TGTTTAAA-TGC-TGTAAATTGAAG
6486444 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
6486467 TG-TTAAAGTGCTGCAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
6486490 TG-TTAAAGTGCTGTAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
*
6486513 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6486536 TGCTTAAATGTTGTAAATTGAAC
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6486559 TGTTTTAAGTACTGCAAATTGAAG
1 TG-TTTAAATGCTGTAAATTGAAG
** *
6486583 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6486605 ATGTTT-TATCACTGT-AATTGAGG
1 -TGTTTAAAT-GCTGTAAATTGAAG
* * *
6486628 TGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6486650 ATG-TTAAAGTGATGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
6486674 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6486697 TG-TTAAAGTACTGCAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
* * *
6486720 TGTTTGAATGTTATAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
6486743 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6486766 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** * *
6486789 TGTTTAGTTGTTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6486811 ATGTTT-TATCGCTGT-AATTGAGG
1 -TGTTTAAAT-GCTGTAAATTGAAG
* * * *
6486834 AGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
6486856 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
* ** *
6486880 TGTTAAAAGTGCTACAAATTGGAG
1 TGTTTAAA-TGCTGTAAATTGAAG
*
6486904 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * * *
6486927 TTTTTAAGTACTGCAAATTGAA
1 TGTTTAAATGCTGTAAATTGAA
6486949 TAGTTTAGTT
Statistics
Matches: 627, Mismatches: 132, Indels: 88
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.00
21 2 0.00
22 87 0.14
23 443 0.71
24 93 0.15
25 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.39
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:6486670 original size:230 final size:229
Alignment explanation
Indices: 6486253--6486772 Score: 848
Period size: 230 Copynumber: 2.3 Consensus size: 229
6486243 AAATTTTGTT
* * *
6486253 AATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAATTGCTTAAATG
1 AATTGAAG-TGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATG
*
6486317 TTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
65 TTGTAAATTGAACTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
*
6486382 ATCGCTACAATTGAGGTGTATAAATCTTGTTAATTGAGATGTTAAAGTACATCAAATTGAAGTGT
130 ATCACTACAATTGAGGTGTATAAATCTTGTTAATTGAGATGTTAAAGTACATCAAATTGAAGTGT
*
6486447 TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
195 TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
6486482 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
*
6486547 TGTAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTT
66 TGTAAATTGAACTG-TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
** * *
6486612 ATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT-GATGCAAATTGAAGTG
130 ATCACTACAATTGAGGTGTATAAATCTTGTTAATTGAGATGTTAAAGTACAT-CAAATTGAAGTG
6486676 TTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
194 TTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
* * * *
6486712 AATTGAAGTGTTTGAA-TGTTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAA
6486773 GTACTGCAAA
Statistics
Matches: 272, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
229 74 0.27
230 194 0.71
231 4 0.01
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (229 bp):
AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
TGTAAATTGAACTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTA
TCACTACAATTGAGGTGTATAAATCTTGTTAATTGAGATGTTAAAGTACATCAAATTGAAGTGTT
TAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
Found at i:6486897 original size:24 final size:22
Alignment explanation
Indices: 6486849--6486907 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 22
6486839 AAATGTTGTT
*
6486849 AATTGAGATGTTAAAGTGCTGCA
1 AATTGAG-TGTTAAAGTGCTACA
6486872 AATTGAAGTGTTAAAAGTGCTACA
1 AATTG-AGTGTT-AAAGTGCTACA
6486896 AATTGGAGTGTT
1 AATT-GAGTGTT
6486908 TAAATGTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 9 0.28
24 22 0.69
25 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (22 bp):
AATTGAGTGTTAAAGTGCTACA
Found at i:6486900 original size:230 final size:230
Alignment explanation
Indices: 6486253--6486948 Score: 745
Period size: 230 Copynumber: 3.0 Consensus size: 230
6486243 AAATTTTGTT
** * * *
6486253 AATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAATTGCTTAAATG
1 AATTGAAG-TGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATA
* * * * * *
6486317 TTGTAAATTGAAGTG-TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTT
65 CTGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTA
* * ** * ** *
6486381 TATCGCTACAATTGAGGTGTATAAAT-CTTGTTAATTGAGATGTTAAAGT-ACATCAAATTGAAG
130 AATCACTGTAATTGAGATGTATAAATGC-TGCAAATTGAGATGTTAAAGTGATA-CAAATTGAAG
*
6486444 TGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
193 TGTTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
* **
6486482 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
1 AATTGAAGTGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATAC
* * **
6486547 TGTAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTT
66 TGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTAA
* * ** *
6486612 ATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGATGCAAATTGAAGTGT
131 ATCACTGTAATTGAGATGTATAAATGCTGCAAATTGAGATGTTAAAGTGATACAAATTGAAGTGT
6486677 TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
196 TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
* * * *
6486712 AATTGAAGTGTTTGAA-TGTTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTA
1 AATTGAAGTG-TTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATA
* ** * *
6486776 CTGCAAATTGAAGTG-TTT-AGTTGTTGGAAATTG-AGATGTTTTA-TCGCT-GTAATTGAGGA-
65 CTGCAAATTGAACTGTTTTAAG-TACTGCAAATTGAAG-TG-TTTAGTCGCTGGAAATTGA-GAT
** *
6486835 GTATAAAT-GTTGTTAATTGAGATGT-TAAAGTGCTGCAAATTGA-AGTGTTAAAAGTGCTACAA
126 GT-TAAATCACTG-TAATTGAGATGTATAAA-TGCTGCAAATTGAGA-TGTT-AAAGTGATACAA
* * * *
6486897 ATTGGAGTGTTTAAATGTTGTAAATTGAAGTTTTTAAGTACTGCA
186 ATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
6486942 AATTGAA
1 AATTGAA
6486949 TAGTTTAGTT
Statistics
Matches: 413, Mismatches: 40, Indels: 27
0.86 0.08 0.06
Matches are distributed among these distances:
228 20 0.05
229 120 0.29
230 268 0.65
231 5 0.01
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (230 bp):
AATTGAAGTGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATAC
TGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTAA
ATCACTGTAATTGAGATGTATAAATGCTGCAAATTGAGATGTTAAAGTGATACAAATTGAAGTGT
TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
Found at i:6487700 original size:42 final size:42
Alignment explanation
Indices: 6487594--6487767 Score: 213
Period size: 42 Copynumber: 4.1 Consensus size: 42
6487584 TTTAGTGGGG
* * * * *
6487594 TTTTGGGAAAAGCACCGCTAAAAGTCAGGTTTTTTAGCGGCGC
1 TTTTGGG-AAAGCACCGCTAAAGGTCATGTTCTTTAGCAGCGT
* * **
6487637 CTGTGGAGAAAGTGCCGCTAAAGGTCATGTTCTTTAGCAGCGT
1 TTTTGG-GAAAGCACCGCTAAAGGTCATGTTCTTTAGCAGCGT
* *
6487680 TTTTGGGAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGT
1 TTTTGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGCAGCGT
* *
6487722 TTTTGGGAAAGCACTGCTAAAGGCCATGTTCTTTAGCAGCGT
1 TTTTGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGCAGCGT
6487764 TTTT
1 TTTT
6487768 TCACATAAAC
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
42 76 0.67
43 36 0.32
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
TTTTGGGAAAGCACCGCTAAAGGTCATGTTCTTTAGCAGCGT
Found at i:6487760 original size:84 final size:86
Alignment explanation
Indices: 6487594--6487767 Score: 235
Period size: 84 Copynumber: 2.0 Consensus size: 86
6487584 TTTAGTGGGG
* **
6487594 TTTTGGGAAAAGCACCGCTAAAAGTCAGGTTTTTTAGCGGCGCCTGTGGAGAAAGTGCCGCTAAA
1 TTTTGGGAAAAGCACCGCTAAAAGTCAGGTTCTTTAGCGGCGCCTGTGGAGAAAGCACCGCTAAA
*
6487659 GGTCATGTTCTTTAGCAGCGT
66 GGCCATGTTCTTTAGCAGCGT
* * * ** * *
6487680 TTTTGGG-AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGG-GAAAGCACTGCTAAA
1 TTTTGGGAAAAGCACCGCTAAAAGTCAGGTTCTTTAGCGGCGCCTGTGGAGAAAGCACCGCTAAA
6487743 GGCCATGTTCTTTAGCAGCGT
66 GGCCATGTTCTTTAGCAGCGT
6487764 TTTT
1 TTTT
6487768 TCACATAAAC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
84 36 0.47
85 34 0.44
86 7 0.09
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (86 bp):
TTTTGGGAAAAGCACCGCTAAAAGTCAGGTTCTTTAGCGGCGCCTGTGGAGAAAGCACCGCTAAA
GGCCATGTTCTTTAGCAGCGT
Found at i:6488548 original size:36 final size:36
Alignment explanation
Indices: 6488501--6488574 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
6488491 CATTTTGCTC
* *
6488501 ATGTAAAGGAGCATTGACATTCGGCCTACTTGGCCT
1 ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
* * *
6488537 ATGTATAGGAGCATAGGCATTCAGCCTATTTGGCCT
1 ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
6488573 AT
1 AT
6488575 AGGATGTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (36 bp):
ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
Found at i:6498596 original size:20 final size:19
Alignment explanation
Indices: 6498573--6498619 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6498563 AAGTTAATTC
6498573 AATAATTTAAAATATAAAAT
1 AATAATTTAAAATA-AAAAT
*
6498593 AATAAATT-AAATAAAAAT
1 AATAATTTAAAATAAAAAT
6498611 -ATAATTTAA
1 AATAATTTAA
6498620 TTCAATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 6 0.25
19 5 0.21
20 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATTTAAAATAAAAAT
Found at i:6498619 original size:17 final size:19
Alignment explanation
Indices: 6498573--6498619 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
6498563 AAGTTAATTC
6498573 AATAATTTAAAATATAAAAT
1 AATAATTT-AAATATAAAAT
*
6498593 AATAAATTAAATA-AAAAT
1 AATAATTTAAATATAAAAT
6498611 -ATAATTTAA
1 AATAATTTAA
6498620 TTCAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 5 0.20
19 5 0.20
20 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATTTAAATATAAAAT
Found at i:6501217 original size:16 final size:15
Alignment explanation
Indices: 6501198--6501243 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
6501188 AAAAATATAA
6501198 AAAGAAAAGGAGAAAG
1 AAAGAAAAGGA-AAAG
6501214 AAAGAACAAGGAAAAG
1 AAAGAA-AAGGAAAAG
* *
6501230 AACGAAAAAGAAAA
1 AAAGAAAAGGAAAA
6501244 AGAAGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 7 0.26
16 15 0.56
17 5 0.19
ACGTcount: A:0.72, C:0.04, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGGAAAAG
Found at i:6510777 original size:17 final size:17
Alignment explanation
Indices: 6510725--6510777 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
6510715 TATGGAAACA
*
6510725 TAATCTTCGAAGATATG
1 TAATCTTAGAAGATATG
* *
6510742 CAATTTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
6510761 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
6510778 ATTCTGTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:6510777 original size:22 final size:21
Alignment explanation
Indices: 6510749--6510811 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
6510739 ATGCAATTTT
*
6510749 AGATATGATATGTAATCTTAG
1 AGATATGATATGTAATATTAG
*
6510770 AAGATATGATTCTGTAATATTAG
1 -AGATATGA-TATGTAATATTAG
* *
6510793 AGATTTGATTTGTAGATAT
1 AGATATGATATGTA-ATAT
6510812 CTTTTAATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.14
22 19 0.54
23 11 0.31
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (21 bp):
AGATATGATATGTAATATTAG
Found at i:6516980 original size:42 final size:42
Alignment explanation
Indices: 6516926--6517035 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
6516916 GTGTTTAGGG
* *
6516926 AAAAAATTAATTAAATTAGGGTTTAGATTAACTATTAATTTT
1 AAAAAATCAATTAAATTAAGGTTTAGATTAACTATTAATTTT
*
6516968 AAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTTT
1 AAAAAATCAATTAAATTAAGGTTTAGATTAACTATTAATTTT
6517010 AAAAAATCAATTAAATTAAGGTTTAG
1 AAAAAATCAATTAAATTAAGGTTTAG
6517036 GGTTTTTAGG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (42 bp):
AAAAAATCAATTAAATTAAGGTTTAGATTAACTATTAATTTT
Found at i:6517201 original size:126 final size:125
Alignment explanation
Indices: 6517062--6517377 Score: 447
Period size: 125 Copynumber: 2.5 Consensus size: 125
6517052 TAATTAAATT
* *
6517062 AGGATGTACTGTCAGCAAAATTTACT-AAAAAAGCTTCCACGTGGATGCTCTTTTGCTACAGTAG
1 AGGATGCACTGTCAGCAAAA-TTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAG
* * *
6517126 TATCTGAAAAAATAATTTTGAGAAAATATTTCTAAACAAATAGTGTCCAAAATGCTTCAAGC
65 TATCTG-AAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
* * * * *
6517188 AGGATGCACTGTCAGCAAAATTATTGAAAAAACCTTCCACGTGGACGCTCTTTTGTTATAATAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
* * * * * *
6517253 ATTTGAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCCAAAACGCATCAAGT
66 ATCTGAAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
6517313 AGGATGCACTGTCAGCAAAATTACTGAAAAAAG-TTCCCACGTGGACGCTCTTTTGCTACAGTAG
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTT-CCACGTGGACGCTCTTTTGCTACAGTAG
6517377 T
65 T
6517378 TCCTATTTGG
Statistics
Matches: 167, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
124 2 0.01
125 108 0.65
126 57 0.34
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (125 bp):
AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
ATCTGAAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
Found at i:6520968 original size:18 final size:18
Alignment explanation
Indices: 6520942--6520984 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6520932 GATTGGGAAA
*
6520942 AGGAAACATATAAGGGTT
1 AGGAAACATATAAGGGCT
* *
6520960 AGGATACATGTAAGGGCT
1 AGGAAACATATAAGGGCT
6520978 AGGAAAC
1 AGGAAAC
6520985 GCATTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.19
Consensus pattern (18 bp):
AGGAAACATATAAGGGCT
Found at i:6521094 original size:28 final size:29
Alignment explanation
Indices: 6521037--6521096 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
6521027 ATTGAAGTTT
* *
6521037 TGAGCTCGGTGATTGTGTGGGCATTGTTGA
1 TGAGCCCGGTGATTGTGTGGGCA-TATTGA
6521067 TGAGCCCGGTGATTGTG-GGCGC-TATTGA
1 TGAGCCCGGTGATTGTGTGG-GCATATTGA
6521095 TG
1 TG
6521097 GGCATGCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.26
29 2 0.07
30 18 0.67
ACGTcount: A:0.13, C:0.13, G:0.40, T:0.33
Consensus pattern (29 bp):
TGAGCCCGGTGATTGTGTGGGCATATTGA
Found at i:6522831 original size:11 final size:10
Alignment explanation
Indices: 6522781--6522830 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 10
6522771 TAAAGAGAGC
*
6522781 TTTGAGAAAA
1 TTTGAGAGAA
6522791 TTTGAGAGAAA
1 TTTGAGAG-AA
6522802 TTTGAGAGAA
1 TTTGAGAGAA
6522812 TTTGGAGAGAA
1 TTT-GAGAGAA
6522823 TTT-AGAGA
1 TTTGAGAGA
6522831 GGACTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 12 0.32
11 20 0.54
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:6522831 original size:22 final size:21
Alignment explanation
Indices: 6522781--6522831 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
6522771 TAAAGAGAGC
*
6522781 TTTGAGAAAATTTGAGAGAAA
1 TTTGAGAGAATTTGAGAGAAA
6522802 TTTGAGAGAATTTG-GAGAGAA
1 TTTGAGAGAATTTGAGAGA-AA
6522823 TTTAGAGAG
1 TTT-GAGAG
6522832 GACTTTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 18 0.67
22 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (21 bp):
TTTGAGAGAATTTGAGAGAAA
Found at i:6527650 original size:66 final size:66
Alignment explanation
Indices: 6527495--6527665 Score: 202
Period size: 66 Copynumber: 2.6 Consensus size: 66
6527485 AAATATTAGA
* * *
6527495 TCTTCCCAAACTCCTAAATGAGATATCATGT-ATTCTCAATCCCAAACTCTTGAACGCGAAATCG
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGTCA-TCTCAATCCCAAACTCTTGAACGAGAAATCG
6527559 AG
65 AG
* * * * *
6527561 TCTTCCCAAGCTCCTAAACGAGATATCAGGTCATCTCAATCCCAAGATTC-TGAATGAGATATCG
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGTCATCTCAATCCCAA-ACTCTTGAACGAGAAATCG
6527625 AG
65 AG
* * * *
6527627 TCTTCCCAAGCTCTTGAATGAGATAGCAAGTCTTCTCAA
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGTCATCTCAA
6527666 GTTCTTGAAC
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 86 0.96
67 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (66 bp):
TCTTCCCAAGCTCCTAAATGAGATATCAAGTCATCTCAATCCCAAACTCTTGAACGAGAAATCGA
G
Found at i:6527672 original size:30 final size:30
Alignment explanation
Indices: 6527600--6527674 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
6527590 GTCATCTCAA
* *
6527600 TCCCAAGATTC-TGAATGAGATATCGAGTCT
1 TCCCAAG-TTCTTGAATGAGATAGCAAGTCT
*
6527630 TCCCAAGCTCTTGAATGAGATAGCAAGTCT
1 TCCCAAGTTCTTGAATGAGATAGCAAGTCT
*
6527660 TCTCAAGTTCTTGAA
1 TCCCAAGTTCTTGAA
6527675 CGTCCTCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (30 bp):
TCCCAAGTTCTTGAATGAGATAGCAAGTCT
Found at i:6536112 original size:21 final size:21
Alignment explanation
Indices: 6536069--6536130 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
6536059 CACAAAAGTC
*
6536069 CTCTCATAATTCTCTTTAAATTT
1 CTCTCA-AATTCTC-TCAAATTT
6536092 -TCTCCAAATTCTCTCAAATTT
1 CTCT-CAAATTCTCTCAAATTT
*
6536113 CTCTCAAATTTTCTCAAA
1 CTCTCAAATTCTCTCAAA
6536131 GCTCTCTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
21 20 0.57
22 13 0.37
23 2 0.06
ACGTcount: A:0.29, C:0.26, G:0.00, T:0.45
Consensus pattern (21 bp):
CTCTCAAATTCTCTCAAATTT
Found at i:6536136 original size:21 final size:21
Alignment explanation
Indices: 6536092--6536151 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
6536082 CTTTAAATTT
* **
6536092 TCTC-CAAATTCTCTCAAATT
1 TCTCTCAAATTTTCTCAAAGC
6536112 TCTCTCAAATTTTCTCAAAGC
1 TCTCTCAAATTTTCTCAAAGC
** *
6536133 TCTCTTTAATTTTTTCAAA
1 TCTCTCAAATTTTCTCAAA
6536152 AAAGCTCTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTCTCAAATTTTCTCAAAGC
Found at i:6536137 original size:32 final size:33
Alignment explanation
Indices: 6536069--6536137 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 33
6536059 CACAAAAGTC
* *
6536069 CTCTCATAATTCTCTTTAAATTTTCTCCAAATT
1 CTCTCATAATTCTCTTCAAATTTTCTCCAAACT
6536102 CTCTCA-AATT-TCTCTCAAATTTTCT-CAAAGCT
1 CTCTCATAATTCTCT-TCAAATTTTCTCCAAA-CT
6536134 CTCT
1 CTCT
6536138 TTAATTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 7 0.22
32 19 0.59
33 6 0.19
ACGTcount: A:0.26, C:0.28, G:0.01, T:0.45
Consensus pattern (33 bp):
CTCTCATAATTCTCTTCAAATTTTCTCCAAACT
Found at i:6536362 original size:24 final size:23
Alignment explanation
Indices: 6536314--6536364 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
6536304 TTCAATACTA
*
6536314 TTTAATATTTTTTATTTATGCAAT
1 TTTAATAATTTTTATTTAT-CAAT
6536338 TTTAATTAATTTTTATTTTAT-AAT
1 TTTAA-TAATTTTTA-TTTATCAAT
6536362 TTT
1 TTT
6536365 TTATAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 11 0.46
25 8 0.33
26 5 0.21
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTAATAATTTTTATTTATCAAT
Found at i:6538862 original size:47 final size:46
Alignment explanation
Indices: 6538741--6538868 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
6538731 ATAATTTCAC
* * *
6538741 CCATAATGAACTTGGAACGCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCAT
* *
6538787 CCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATG-TTCGCAT
6538833 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCG
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCG
6538869 AATCTCAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 44 0.60
47 29 0.40
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:6540244 original size:29 final size:29
Alignment explanation
Indices: 6540208--6540264 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
6540198 CAAATTTACT
*
6540208 GTCGGAAGAGGAGATGCGACAGTAAATTC
1 GTCGGAAGAGGAGAGGCGACAGTAAATTC
6540237 GTCGGAAGAGGAGAGGCGACAGTAAATT
1 GTCGGAAGAGGAGAGGCGACAGTAAATT
6540265 TGTACTGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.12, G:0.37, T:0.16
Consensus pattern (29 bp):
GTCGGAAGAGGAGAGGCGACAGTAAATTC
Found at i:6542216 original size:125 final size:126
Alignment explanation
Indices: 6541780--6542222 Score: 647
Period size: 126 Copynumber: 3.5 Consensus size: 126
6541770 CCAAACATGA
* * *
6541780 ACTACTGTAG-ATAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATCC
1 ACTACTGTAGCA-AAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * *
6541844 TATTTGAAGTGTTTTGGACACTATTTGTTCAGAAACATCTTCTCGAAATTATTTTTTCAGAT
65 TATTTGAAGCGTTTTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * * * *
6541906 ACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATTTTTCTAACAGTGCACCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* *
6541971 GTTTGACGCGTTTTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
66 ATTTGAAGCGTTTTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* *
6542032 ACTACTGTAGCAAAAAAGCCTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
* * * *
6542097 ACTTGAAGCGTTTTGTACACTATTTGTTTAGAAACGTCTTCTCAAAATTA-TTTTTCAAAT
66 ATTTGAAGCGTTTTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
* * *
6542157 ACTACTATAGCAAAAGAGCGTCCACGTGAAAACTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
1 ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
6542222 A
66 A
6542223 ATTTAATTAA
Statistics
Matches: 285, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
125 70 0.25
126 214 0.75
127 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (126 bp):
ACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCT
ATTTGAAGCGTTTTGAACACTATTTGTTAAGAAACGTCTTCTCAAAATTATTTTTTCAGAT
Found at i:6542311 original size:26 final size:26
Alignment explanation
Indices: 6542282--6542335 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
6542272 AATTAATTTT
*
6542282 TTAAAATTAATA-GCTAATTTAATTAA
1 TTAAAATTAA-ACCCTAATTTAATTAA
**
6542308 TTAACCTTAAACCCTAATTTAATTAA
1 TTAAAATTAAACCCTAATTTAATTAA
6542334 TT
1 TT
6542336 TTTTCCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (26 bp):
TTAAAATTAAACCCTAATTTAATTAA
Found at i:6547857 original size:57 final size:56
Alignment explanation
Indices: 6547705--6547860 Score: 181
Period size: 57 Copynumber: 2.7 Consensus size: 56
6547695 TATATTATAA
* *
6547705 TTTTTATT-AATTCATATTTTAATAATTATTATATTAAGATTGTTATTAAATTATATATT
1 TTTTTATTAAATT-ATA-TTTAATAATAATT-TATTAAAATTG-TATTAAATTATATATT
* * * *
6547764 ATTTTATTAAATTGTATTTAATAATAATTAAGTTAAAATATG-ATTAAATTATTTATT
1 TTTTTATTAAATTATATTTAATAATAATTTA-TTAAAAT-TGTATTAAATTATATATT
6547821 TTTTTATTAAATTATATTTAATAATAATCTTATTAAAATT
1 TTTTTATTAAATTATATTTAATAATAAT-TTATTAAAATT
6547861 TAATAACAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
56 1 0.01
57 48 0.57
58 20 0.24
59 11 0.13
60 4 0.05
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (56 bp):
TTTTTATTAAATTATATTTAATAATAATTTATTAAAATTGTATTAAATTATATATT
Found at i:6558511 original size:10 final size:10
Alignment explanation
Indices: 6558480--6558519 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
6558470 TTTTCCTTTC
*
6558480 CTTTCCTTTT
1 CTTTCTTTTT
6558490 CTTTCTTCTTT
1 CTTTCTT-TTT
6558501 CTTTCTTTTT
1 CTTTCTTTTT
*
6558511 CGTTCTTTT
1 CTTTCTTTT
6558520 CTTCTTTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 17 0.63
11 10 0.37
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:6562484 original size:50 final size:50
Alignment explanation
Indices: 6562423--6562524 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
6562413 GCTTGCGTAG
* * *
6562423 TCTTCAATAAATAGTCTTAATTTGAGCTCTCAAACTTAAAATCGAGTGAT
1 TCTTCAATAAATAGTCATAACTTGAACTCTCAAACTTAAAATCGAGTGAT
* *
6562473 TCTTCAGTAAATAGTCATAACTTGAACTCTCAAACTTGAAATCGAGTGAT
1 TCTTCAATAAATAGTCATAACTTGAACTCTCAAACTTAAAATCGAGTGAT
6562523 TC
1 TC
6562525 AAAGTGCGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (50 bp):
TCTTCAATAAATAGTCATAACTTGAACTCTCAAACTTAAAATCGAGTGAT
Found at i:6566332 original size:7 final size:7
Alignment explanation
Indices: 6566322--6566367 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
6566312 ATTTCGAATG
6566322 TTTAAAT
1 TTTAAAT
6566329 TTTAAAT
1 TTTAAAT
6566336 TTTAAAT
1 TTTAAAT
6566343 TTTAAAT
1 TTTAAAT
*
6566350 TCTAAAT
1 TTTAAAT
* *
6566357 CTCAAAT
1 TTTAAAT
6566364 TTTA
1 TTTA
6566368 CACCTTAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (7 bp):
TTTAAAT
Found at i:6571408 original size:54 final size:54
Alignment explanation
Indices: 6571285--6571491 Score: 226
Period size: 56 Copynumber: 3.9 Consensus size: 54
6571275 GATCTTGAGT
** * *
6571285 TCAACTCGTCTCTCGCAATATGAATTGATTTTTG--AAA-A-AAATAAAAAGG-
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
* * * * *
6571334 TATAACTCAACTCTCACAATATGAGTTGCTTTTTGAAAAACAGAAATTAAAATGC
1 T-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
* * *
6571389 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTAAAAGGC
* *
6571445 TCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAAAACAGGAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
6571492 GGAAAGTAGA
Statistics
Matches: 130, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 27 0.21
52 3 0.02
53 1 0.01
54 48 0.37
55 1 0.01
56 49 0.38
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
Found at i:6571485 original size:110 final size:104
Alignment explanation
Indices: 6571285--6571491 Score: 254
Period size: 110 Copynumber: 1.9 Consensus size: 104
6571275 GATCTTGAGT
** *
6571285 TCAACTCGTCTCTCGCAATATGAATTGATTTTTGAAAAAAATAAAAAGGTATAACTCAACTCTCA
1 TCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAAAATAAAAAGGTACAACTCAACTCTCA
* *
6571350 CAATATGAGTTGCTTTTTGAAAAACAGAAATTAAAATGC
66 CAACATGAGTTGATTTTTGAAAAACAGAAATTAAAATGC
* *
6571389 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTGAAAGGCT-CAACTCA
1 TCAACTCACCTCTCGCAATATGAATTGA--TTTTTGAAAAAAAT-AA---AAAGG-TACAACTCA
* * *
6571453 CCTCTCGCAACATGAGTTGATTTTTGAAAAACAGGAATT
59 ACTCTCACAACATGAGTTGATTTTTGAAAAACAGAAATT
6571492 GGAAAGTAGA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
104 25 0.29
106 13 0.15
107 2 0.02
110 45 0.52
111 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (104 bp):
TCAACTCACCTCTCGCAATATGAATTGATTTTTGAAAAAAATAAAAAGGTACAACTCAACTCTCA
CAACATGAGTTGATTTTTGAAAAACAGAAATTAAAATGC
Found at i:6571619 original size:88 final size:87
Alignment explanation
Indices: 6571441--6571651 Score: 273
Period size: 88 Copynumber: 2.4 Consensus size: 87
6571431 ATAAATTGAA
* * **
6571441 AGGCTCAACTCACCTCTCGCAACATGAGTTGATTTTTGAAAAACAGGAATTGGAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACAGGAATTGGAAAACAGAAATT
* *
6571506 GAAAGTACCTCAGCGTGCCCCG
66 GAAAATACCTCAGCGTGACCCG
*
6571528 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACA-TAATAAT-GAAAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTCAAAAACAGGAAT--TGGAAAACAGAA
** *
6571591 ATTGAAAATACCTTGGCGTGACCTG
63 ATTGAAAATACCTCAGCGTGACCCG
* *
6571616 AGGCTCAACTCACATCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
6571652 GAAAAAGTAG
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
87 38 0.35
88 70 0.64
89 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACAGGAATTGGAAAACAGAAATT
GAAAATACCTCAGCGTGACCCG
Found at i:6571752 original size:54 final size:54
Alignment explanation
Indices: 6571616--6571755 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
6571606 GCGTGACCTG
* *
6571616 AGGCTCAACTCACATCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAA
* * * *
6571670 AGGTTCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-TATAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAAGTAGAAATTAAA
6571724 AGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA
6571756 AATTAAAACA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 67 0.87
55 10 0.13
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAA
Found at i:6571947 original size:122 final size:125
Alignment explanation
Indices: 6571674--6571970 Score: 440
Period size: 122 Copynumber: 2.4 Consensus size: 125
6571664 ATTAAAAGGT
* * * *
6571674 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCT
* *
6571739 CTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGC
65 CTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCGTGCCCCGAGGC
* *
6571800 TCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTC
* * * *
6571865 TCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCGGCGTGCCCCGAGGC
66 TCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCGTGCCCCGAGGC
*
6571922 TCAACTCACTTCTCGCAATATGAGTTGATTTTG-AAAACAAAAATTAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAA
6571971 ATACCTCAAC
Statistics
Matches: 157, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
121 16 0.10
122 62 0.39
123 7 0.04
124 1 0.01
125 45 0.29
126 26 0.17
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (125 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTC
TCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCGTGCCCCGAGGC
Found at i:6571992 original size:71 final size:70
Alignment explanation
Indices: 6571849--6572024 Score: 212
Period size: 71 Copynumber: 2.5 Consensus size: 70
6571839 AAAAATTAAA
* * * * * **
6571849 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
6571913 CCCCG
66 CCCCG
*
6571918 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
6571983 GTCTTG
65 GCCCCG
*
6571989 AGGCTCAACTCA-TCTCTCGCAATATGTGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
6572025 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 26 0.28
70 6 0.07
71 60 0.65
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:6575986 original size:5 final size:5
Alignment explanation
Indices: 6575973--6576015 Score: 77
Period size: 5 Copynumber: 8.6 Consensus size: 5
6575963 TTTATATATA
*
6575973 ATAAC ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
6576016 CTTAATTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:6590983 original size:32 final size:33
Alignment explanation
Indices: 6590947--6591009 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
6590937 TCCTGCCCTG
*
6590947 TTCTTTAT-TTTCTTTT-TCTTTTTTTTTATTTA
1 TTCTTT-TGTTTCTTTTATCTTTTATTTTATTTA
*
6590979 TTCTTTTGTTTCTTTTATGTTTTATTTTATT
1 TTCTTTTGTTTCTTTTATCTTTTATTTTATT
6591010 ATTTATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 1 0.04
32 14 0.52
33 12 0.44
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (33 bp):
TTCTTTTGTTTCTTTTATCTTTTATTTTATTTA
Found at i:6591029 original size:8 final size:8
Alignment explanation
Indices: 6591018--6591051 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
6591008 TTATTTATAT
6591018 TATAATAA
1 TATAATAA
6591026 TATAATAA
1 TATAATAA
*
6591034 TATATTAA
1 TATAATAA
*
6591042 CATAATAA
1 TATAATAA
6591050 TA
1 TA
6591052 ATTCTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAATAA
Found at i:6594747 original size:30 final size:30
Alignment explanation
Indices: 6594711--6594768 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
6594701 ATAACAAATT
6594711 TTAATTTTAAT-CTTTAAAAATATAAAAAAA
1 TTAA-TTTAATCCTTTAAAAATATAAAAAAA
6594741 TTAATTTAATCCTTTAAAAATATAAAAA
1 TTAATTTAATCCTTTAAAAATATAAAAA
6594769 TGTAGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (30 bp):
TTAATTTAATCCTTTAAAAATATAAAAAAA
Found at i:6595510 original size:27 final size:27
Alignment explanation
Indices: 6595472--6595524 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
6595462 TAAAATAGGG
6595472 GTGGAGGGTACCCCACAGGCGGCACCA
1 GTGGAGGGTACCCCACAGGCGGCACCA
6595499 GTGGAGGGTACCCCACAGGCGGCACC
1 GTGGAGGGTACCCCACAGGCGGCACC
6595525 GATCTCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.21, C:0.34, G:0.38, T:0.08
Consensus pattern (27 bp):
GTGGAGGGTACCCCACAGGCGGCACCA
Found at i:6595559 original size:21 final size:21
Alignment explanation
Indices: 6595535--6595581 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
6595525 GATCTCTCCT
6595535 CTGCACCGACGGGACTCCGCA
1 CTGCACCGACGGGACTCCGCA
* *
6595556 CTGCCACGGACGGGACTCCTCA
1 CTG-CACCGACGGGACTCCGCA
6595578 CTGC
1 CTGC
6595582 CATTGCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.17, C:0.43, G:0.28, T:0.13
Consensus pattern (21 bp):
CTGCACCGACGGGACTCCGCA
Found at i:6595567 original size:22 final size:22
Alignment explanation
Indices: 6595542--6595583 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6595532 CCTCTGCACC
6595542 GACGGGACTCCGCACTGCCACG
1 GACGGGACTCCGCACTGCCACG
*
6595564 GACGGGACTCCTCACTGCCA
1 GACGGGACTCCGCACTGCCA
6595584 TTGCTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (22 bp):
GACGGGACTCCGCACTGCCACG
Found at i:6595675 original size:6 final size:6
Alignment explanation
Indices: 6595666--6595735 Score: 56
Period size: 6 Copynumber: 12.2 Consensus size: 6
6595656 AAGAAAGGGG
* * * *
6595666 GAAGGA GAA-GA GAAAGA GAA-GA GAA-GA GAAGAA GAAGAA GAAGAA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* * *
6595711 GAAGAA GAAGGA GGAGGA GGAGGA G
1 GAAGGA GAAGGA GAAGGA GAAGGA G
6595736 GCATTGGTGA
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
5 15 0.25
6 44 0.75
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:6595691 original size:16 final size:16
Alignment explanation
Indices: 6595670--6595720 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
6595660 AAGGGGGAAG
6595670 GAGAAGAGAA-AGAGAA
1 GAGAAGAGAAGA-AGAA
6595686 GAGAAGAGAAGAAGAA
1 GAGAAGAGAAGAAGAA
6595702 GAAGAAGAAGAAGAAGAA
1 G-AGAAG-AGAAGAAGAA
6595720 G
1 G
6595721 GAGGAGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.47
17 6 0.19
18 11 0.34
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (16 bp):
GAGAAGAGAAGAAGAA
Found at i:6595700 original size:3 final size:3
Alignment explanation
Indices: 6595682--6595720 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6595672 GAAGAGAAAG
6595682 AGA AG- AGA AG- AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
6595721 GAGGAGGAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6595764 original size:6 final size:6
Alignment explanation
Indices: 6595753--6595823 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
6595743 TGAGGGAAGA
* * * *
6595753 AAAAAG AAAAAG AAAAAG AGAAAG AAAAAG AGAAGGAG AAGAAG AAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AA-AAG AAAAAG AAAAAG
* *
6595803 AGAAAG AGAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAA
6595824 GGTAATATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
5 4 0.07
6 45 0.82
7 3 0.05
8 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6596764 original size:143 final size:141
Alignment explanation
Indices: 6596244--6597081 Score: 1065
Period size: 143 Copynumber: 5.9 Consensus size: 141
6596234 TATATTTTAA
* * *
6596244 AAAATCCGAAAAT-AAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAATAT
1 AAAATCCAAAAATAAAAATAAAAAAGGCCAAAATCAGA-GATTTTTACTAAATTAATATAAA-AA
* * *
6596308 ACTAAAATAATATATATGAACCATTATGTACTAAAAT-A-ATAAAAAAATAAAATACGAAAATAG
64 ACTAAAAT-A-ATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAA
**
6596371 TATATTTTGGAAAAT
127 TATATTTTAAAAAAT
* * * *
6596386 AAAATCCGAAAATAAAATAAAAAACAAACGGCTAAAATCAGAAATTTTTACTAAATTAATATAAA
1 AAAATCCAAAAAT-AAA-AATAAA-AAA-GGCCAAAATCAGAGATTTTTACTAAATTAATAT-AA
*
6596451 AAAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAA
61 AAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAA
*
6596515 TAATATATTTT---TAA-
124 TAATATATTTTAAAAAAT
* *
6596529 AAAATCCGAAAAT-AAAATAAAAAAAGGCCAAAATCACAGATTTTTACTAAATTAATATAAAAAA
1 AAAATCCAAAAATAAAAAT-AAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
* *
6596593 CAAAAATAATACATGGAACATTATGTACTAAAATAATATAAAAAAAATAAAATACGAAAATAATA
65 CTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAAATAAAATACGAAAATAATA
*
6596658 TATCTTAAAAAAT
129 TATTTTAAAAAAT
* * * *
6596671 AAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATTAATATAAAAAAA
1 AAAATCCAAAAATAAAAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATAT-AAAAAA
* * *
6596736 CAAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATATGAAAATAATAA
65 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATAT
6596800 ATTTTAAAAAAT
130 ATTTTAAAAAAT
** * *
6596812 AAAATCTGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCAAAAATAAAAATAAAAAAGGCCAAAATCAGAG-ATTTTTACTAAATTAATATAAAAAA
* *
6596877 CTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAATAGT
65 CTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAAT
6596942 ATATTTTAAAAAAT
128 ATATTTTAAAAAAT
* * *
6596956 AAAATCCGAAAACAAAATAAAT-AAAACGGCCAAAATCACAGATTTTTACTAAATTAATATAAAA
1 AAAATCC-AAAA-ATAA-AAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAA
*
6597020 AACTAAAATAATACATGACACATTATGTACTAAAATAATAT--AAAAATAAAAT-CTGAAAATAA
63 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATAC-GAAAATAA
6597082 AAAATAAAAA
Statistics
Matches: 622, Mismatches: 47, Indels: 55
0.86 0.06 0.08
Matches are distributed among these distances:
136 25 0.04
138 47 0.08
139 30 0.05
140 6 0.01
141 111 0.18
142 78 0.13
143 113 0.18
144 47 0.08
145 45 0.07
146 69 0.11
147 49 0.08
148 2 0.00
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (141 bp):
AAAATCCAAAAATAAAAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAC
TAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATATA
TTTTAAAAAAT
Found at i:6596793 original size:14 final size:14
Alignment explanation
Indices: 6596770--6596836 Score: 66
Period size: 13 Copynumber: 4.8 Consensus size: 14
6596760 GTACTAAAAT
6596770 AATATAAAAAATAA
1 AATATAAAAAATAA
6596784 AATATGAAAATAATAA
1 AATAT-AAAA-AATAA
* *
6596800 ATTTTAAAAAATAA
1 AATATAAAAAATAA
* *
6596814 AATCT-GAAAATAA
1 AATATAAAAAATAA
6596827 AA-ATAAAAAA
1 AATATAAAAAA
6596837 GGCCAAAATC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
12 1 0.02
13 13 0.30
14 13 0.30
15 8 0.19
16 8 0.19
ACGTcount: A:0.72, C:0.01, G:0.03, T:0.24
Consensus pattern (14 bp):
AATATAAAAAATAA
Found at i:6596810 original size:30 final size:29
Alignment explanation
Indices: 6596774--6596830 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
6596764 TAAAATAATA
6596774 TAAAAAATAAAATATGAAAATAATAAATTT
1 TAAAAAATAAAATATGAAAATAA-AAATTT
*
6596804 TAAAAAATAAAATCTGAAAATAAAAAT
1 TAAAAAATAAAATATGAAAATAAAAAT
6596831 AAAAAAGGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (29 bp):
TAAAAAATAAAATATGAAAATAAAAATTT
Found at i:6597045 original size:286 final size:278
Alignment explanation
Indices: 6596227--6597822 Score: 1717
Period size: 285 Copynumber: 5.6 Consensus size: 278
6596217 TAGTATATTT
* *
6596227 AAAAAAATATATTTT-AAAAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGAGGTTTTTTAC
1 AAAATAATAAATTTTAAAAAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGA-GTTTTTTAC
* * *
6596291 TAAATTAATATAAATATACTAAAATAATATATATGAACCATTATGTACTAAAATAATA-AAAAAA
65 TAAATTAATATAAA-AAACTAAAATAATACAT-TGAAACATTATGTACTAAAATAATATAAAAAA
** * *
6596355 TAAAATACGAAAATAGTATATTTTGGAAAATAAAATCCGAAAATAAAATAAAAAACAAACGGCTA
128 TAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-AAAAT-AAATA-AAACGGCCA
* *
6596420 AAATCAGAAATTTTTACTAAATTAATATAAAAAAACCAAAATAATACATTTGAAACATTATGTAC
190 AAATCAGAGATTTTTACTAAATTAATATAAAAAAACAAAAATAATACA--TGAAACATTATGTAC
*
6596485 TAAAATAATATAAAAAATAAAATACG
253 TAAAATAATATAAAAAATAAAATATG
* * * *
6596511 AAAATAATATATTTTTAAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCACAGATTTTTAC
1 AAAATAATAAATTTTAAAAAAATCCGAAAATAAAAT-AAAAAAGGCCAAAATCAGAGTTTTTTAC
* *
6596576 TAAATTAATATAAAAAACAAAAATAATACA-TGGAACATTATGTACTAAAATAATATAAAAAAAA
65 TAAATTAATATAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATAT--AAAAAA
* * * *
6596640 TAAAATACGAAAATAATATATCTTAAAAAATAAAATCC-AAAAATAA-AAATAAAAAGGGCCAAA
128 TAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAAAAATAAAT-AAAACGGCCAAA
* * *
6596703 ATCAGGGTTTTTTTCTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAA
192 ATCAGAGATTTTTACTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAA
6596768 ATAATATAAAAAATAAAATATG
257 ATAATATAAAAAATAAAATATG
*
6596790 AAAATAATAAATTTTAAAAAATAAAATCTGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTT
1 AAAATAATAAATTTT---AAA-AAAATCCGAAAAT-AAAATAAAAAAGGCCAAAATCAGAG-TTT
*
6596855 TTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
60 TTTACTAAATTAATATAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAA
6596920 AAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAAATAAAACGG
124 AA-AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-AAAATAAATAAAACGG
* * *
6596985 CCAAAATCACAGATTTTTACTAAATTAATAT-AAAAAACTAAAATAATACATGACACATTATGTA
187 CCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTA
*
6597049 CTAAAATAATAT-AAAAATAAAATCTG
252 CTAAAATAATATAAAAAATAAAATATG
* *
6597075 ------------------AAAAT-----AA-AAAATAAAAAGGGCCAAAATCAGAGTTTTTGTTC
1 AAAATAATAAATTTTAAAAAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGAGTTTTT-TAC
*
6597116 TAAATTAATAT---AAA--A-AA-AATACATTTGAAACACTATGTACTAAAATAATATAAAAAAT
65 TAAATTAATATAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATATAAAAAAT
* * *
6597174 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAATAAACAGCCAA
129 AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-AAAAT-AAATA-AAACGGCCAA
* * *
6597239 AATCAGA-ATTTTTTATTAAATTAATAT-AAAAAACTAAAATAATACATTTGGAACATTATGTAC
191 AATCAGAGA-TTTTTACTAAATTAATATAAAAAAACAAAAATAATACA--TGAAACATTATGTAC
*
6597302 TAAAATAATATAAAAAATAAAATACG
253 TAAAATAATATAAAAAATAAAATATG
* * * * *
6597328 AAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAATAAACAGCCAAAATCAGAA
1 AAAATAATAAATTTT---AAA-AAAATCCGAAAATAAAAT---AAA-AAA-GGCCAAAATCAGAG
* *
6597393 TTTTTTATTAAATTAATATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATA
57 TTTTTTACTAAATTAATATAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATA
* *
6597458 TAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAATA
121 T-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-AAAAT-AAATA-A
* * * * * *
6597523 AACAGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAAAACTAAAATAATAAAATTGGAAC
182 AACGGCCAAAATCAGAGATTTTTACTAAATTAATAT-AAAAAAACAAAAATAAT-ACA-TGAAAC
*
6597588 ATTATGTACTAAAATAATATAAAAAAATAAAATACG
244 ATTATGTACTAAAATAATAT-AAAAAATAAAATATG
* * *
6597624 AAAATAGTATATTTTCAAAAATAAAATCCAAAAATAAAATAAAAAATAAACGGCCAAAATCAGAG
1 AAAATAATAAATTTT---AAA-AAAATCCGAAAATAAAAT---AAA-AAA-GGCCAAAATCAGA-
* *
6597689 TTTTTCTGTTTTTTATTAAATTAATATAAAAAACTAAAATAATACATTTGGAACATTATGTACTA
56 -------GTTTTTTACTAAATTAATATAAAAAACTAAAATAATACA-TTGAAACATTATGTACTA
* * *
6597754 AAATAATAT-AAAAATAAAATACGAAAATAATATATTTTAAAAATTTAAAATCTGAAAATAAAAT
113 AAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAA-AAAAT
6597818 AAATA
176 AAATA
6597823 CCAAAATATA
Statistics
Matches: 1160, Mismatches: 72, Indels: 142
0.84 0.05 0.10
Matches are distributed among these distances:
248 49 0.04
249 42 0.04
250 53 0.05
251 1 0.00
252 24 0.02
253 15 0.01
255 5 0.00
256 38 0.03
258 2 0.00
263 5 0.00
275 5 0.00
279 54 0.05
280 2 0.00
281 58 0.05
282 26 0.02
283 34 0.03
284 78 0.07
285 147 0.13
286 107 0.09
287 36 0.03
288 7 0.01
290 1 0.00
291 2 0.00
292 32 0.03
293 95 0.08
295 43 0.04
296 79 0.07
302 37 0.03
303 17 0.01
304 66 0.06
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (278 bp):
AAAATAATAAATTTTAAAAAAATCCGAAAATAAAATAAAAAAGGCCAAAATCAGAGTTTTTTACT
AAATTAATATAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAATAA
AATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAAAAATAAATAAAACGGCCAAAATCA
GAGATTTTTACTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAA
TATAAAAAATAAAATATG
Found at i:6597078 original size:111 final size:107
Alignment explanation
Indices: 6596948--6597185 Score: 286
Period size: 111 Copynumber: 2.2 Consensus size: 107
6596938 TAGTATATTT
6596948 TAAAAAATAAAATCCGAAAACAAAATAAAT-AAAACGGCCAAAATCACAGATTTT-TACTAAATT
1 TAAAAAATAAAATCCGAAAA-AAAA-AAATAAAAACGGCCAAAATCACAGATTTTGTACTAAATT
* *
6597011 AATATAAAAAACTAAAATA-ATACATGACACATTATGTACTAAAATAATA
64 AATAT--AAAA--AAAATACAT--ATGAAACACTATGTACTAAAATAATA
* * * * * *
6597060 T-AAAAATAAAATCTGAAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTTGTTCTAAATTAA
1 TAAAAAATAAAATCCGAAAAAAAAAAATAAAAACGGCCAAAATCACAGATTTTGTACTAAATTAA
*
6597124 TATAAAAAAAATACATTTGAAACACTATGTACTAAAATAATA
66 TATAAAAAAAATACATATGAAACACTATGTACTAAAATAATA
*
6597166 TAAAAAATAAAATACGAAAA
1 TAAAAAATAAAATCCGAAAA
6597186 TAGTATATTT
Statistics
Matches: 111, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
106 24 0.22
107 22 0.20
108 2 0.02
109 8 0.07
110 24 0.22
111 30 0.27
112 1 0.01
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.25
Consensus pattern (107 bp):
TAAAAAATAAAATCCGAAAAAAAAAAATAAAAACGGCCAAAATCACAGATTTTGTACTAAATTAA
TATAAAAAAAATACATATGAAACACTATGTACTAAAATAATA
Found at i:6597081 original size:106 final size:104
Alignment explanation
Indices: 6596969--6597187 Score: 250
Period size: 106 Copynumber: 2.1 Consensus size: 104
6596959 ATCCGAAAAC
6596969 AAAATAAAT-AAAACGGCCAAAATCACAGATTTT-TACTAAATTAATATAAAAAACTAAAATA-A
1 AAAATAAATAAAAACGGCCAAAATCACAGATTTTGTACTAAATTAATAT--AAAA--AAAATACA
* *
6597031 TACATGACACATTATGTACTAAAATAATAT-AAAAATAAAAT-CTG
62 T--ATGAAACACTATGTACTAAAATAATATAAAAAATAAAATAC-G
* * * *
6597075 AAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTTGTTCTAAATTAATATAAAAAAAATACAT
1 AAAAT---AAATAAAAACGGCCAAAATCACAGATTTTGTACTAAATTAATATAAAAAAAATACAT
*
6597140 TTGAAACACTATGTACTAAAATAATATAAAAAATAAAATACG
63 ATGAAACACTATGTACTAAAATAATATAAAAAATAAAATACG
6597182 AAAATA
1 AAAATA
6597188 GTATATTTTA
Statistics
Matches: 98, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
104 1 0.01
106 29 0.30
107 23 0.23
108 3 0.03
109 8 0.08
110 21 0.21
111 13 0.13
ACGTcount: A:0.58, C:0.10, G:0.07, T:0.26
Consensus pattern (104 bp):
AAAATAAATAAAAACGGCCAAAATCACAGATTTTGTACTAAATTAATATAAAAAAAATACATATG
AAACACTATGTACTAAAATAATATAAAAAATAAAATACG
Found at i:6597187 original size:25 final size:25
Alignment explanation
Indices: 6597157--6597231 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 25
6597147 ACTATGTACT
6597157 AAAATAATATAAAAAATAAAATAC-G
1 AAAATAATATAAAAAATAAAAT-CTG
6597182 AAAATAGTATATTTTAAAAAATAAAATCTG
1 AAAATA--ATA---TAAAAAATAAAATCTG
*
6597212 AAAATAAAATAAAAAATAAA
1 AAAATAATATAAAAAATAAA
6597232 CAGCCAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
25 17 0.40
27 3 0.07
28 2 0.05
29 1 0.02
30 20 0.47
ACGTcount: A:0.69, C:0.03, G:0.04, T:0.24
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATCTG
Found at i:6597331 original size:25 final size:25
Alignment explanation
Indices: 6597303--6597377 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 25
6597293 ATTATGTACT
6597303 AAAATAATATAAAAAATAAAATACGA
1 AAAATAATATAAAAAATAAAATAC-A
* *
6597329 AAATAGTATATTTTAAAAAATAAAATCCA
1 AAA-A-TA-A-TATAAAAAATAAAATACA
*
6597358 AAAATAAAATAAAAAATAAA
1 AAAATAATATAAAAAATAAA
6597378 CAGCCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
25 11 0.27
26 4 0.10
27 3 0.07
28 3 0.07
29 5 0.12
30 15 0.37
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACA
Found at i:6597362 original size:13 final size:12
Alignment explanation
Indices: 6597342--6597377 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
6597332 TAGTATATTT
6597342 TAAAAAATAAAA
1 TAAAAAATAAAA
*
6597354 TCCAAAAATAAAA
1 T-AAAAAATAAAA
6597367 TAAAAAATAAA
1 TAAAAAATAAA
6597378 CAGCCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:6597430 original size:396 final size:395
Alignment explanation
Indices: 6596663--6597480 Score: 1242
Period size: 396 Copynumber: 2.1 Consensus size: 395
6596653 TAATATATCT
* *
6596663 TAAAAAATAAAATCCAAAA-ATAAAAATAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATTAAT
1 TAAAAAATAAAATCGAAAATA-AAAAATAAAAAGGGCCAAAATCAGAGTTTTTTTCTAAATTAAT
* *
6596727 ATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAA
65 ATAAAAAAACAAAAAT-AT--ATGAAACACTATGTACTAAAATAATATAAAAAATAAAATACGAA
* * *
6596792 AATAATAAATTTTAAAAAATAAAATCTGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTT
127 AATAATAAATTTTAAAAAATAAAATCTGAAAATAAAAAAAAAAAAAGCCAAAATCAGAATTTTTT
*
6596857 TTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA
192 ATCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAA
* * *
6596922 GAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAAATAAAACGGCC
257 GAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACAAAATAAAAAAAACAGCC
6596987 AAAATCACAGATTTTTACTAAATTAATATAAAAAACTAAAATAATACA-T-GACACATTATGTAC
322 AAAATCACAGATTTTTACTAAATTAATATAAAAAACTAAAATAATACATTGGA-ACATTATGTAC
6597050 TAAAATAATA
386 TAAAATAATA
6597060 T-AAAAATAAAATCTGAAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTTGTTCTAAATTAA
1 TAAAAAATAAAATC-GAAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTT-TTCTAAATTAA
* *
6597124 TATAAAAAAA-ATACAT-T-TGAAACACTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
64 TATAAAAAAACAAAAATATATGAAACACTATGTACTAAAATAATATAAAAAATAAAATACGAAAA
* *
6597186 TAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAATAAACAGCCAAAATCAGAATTTT
129 TAATAAATTTTAAAAAATAAAATCTGAAAAT-AAA-AAAAAA-AAA-AGCCAAAATCAGAATTTT
*
6597251 TTAT-TAAATTAATATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAA
190 TTATCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
*
6597315 AA-AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAATAAAC
255 AAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACAAAAT-AAAAA-AAAC
* *
6597379 AGCCAAAATCAGA-ATTTTTTATTAAATTAATATAAAAAACTAAAATAATACATTTGGAACATTA
318 AGCCAAAATCACAGA-TTTTTACTAAATTAATATAAAAAACTAAAATAATACA-TTGGAACATTA
6597443 TGTACTAAAATAATA
381 TGTACTAAAATAATA
6597458 TAAAAAAATAAAATACGAAAATA
1 T-AAAAAATAAAAT-CGAAAATA
6597481 GTATATTTTA
Statistics
Matches: 386, Mismatches: 19, Indels: 29
0.89 0.04 0.07
Matches are distributed among these distances:
392 72 0.19
393 3 0.01
394 54 0.14
395 70 0.18
396 82 0.21
397 39 0.10
398 45 0.12
399 2 0.01
400 18 0.05
401 1 0.00
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (395 bp):
TAAAAAATAAAATCGAAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTTTTCTAAATTAATA
TAAAAAAACAAAAATATATGAAACACTATGTACTAAAATAATATAAAAAATAAAATACGAAAATA
ATAAATTTTAAAAAATAAAATCTGAAAATAAAAAAAAAAAAAGCCAAAATCAGAATTTTTTATCT
AAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAAT
AAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAACAAAATAAAAAAAACAGCCAAAA
TCACAGATTTTTACTAAATTAATATAAAAAACTAAAATAATACATTGGAACATTATGTACTAAAA
TAATA
Found at i:6597507 original size:147 final size:146
Alignment explanation
Indices: 6597075--6597820 Score: 1141
Period size: 146 Copynumber: 5.1 Consensus size: 146
6597065 ATAAAATCTG
*
6597075 AAAATAAAAAATAAAAAGGGCCAAAATCAGAGTTTTTGT-TCTAAATTAATAT----AA--AAAA
1 AAAATAAAAAATAAACA--GCCAAAATCAGAGTTTTT-TAT-TAAATTAATATAAAAAACTAAAA
* *
6597133 -AATACATTTGAAACACTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT
62 TAATACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT
**
6597197 AAAAAATAAAATCTGAAAAT
127 AAAAAATAAAATCCAAAAAT
*
6597217 AAAATAAAAAATAAACAGCCAAAATCAGAATTTTTTATTAAATTAATATAAAAAACTAAAATAAT
1 AAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAACTAAAATAAT
6597282 ACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAA
66 ACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAA
6597347 AATAAAATCCAAAAAT
131 AATAAAATCCAAAAAT
*
6597363 AAAATAAAAAATAAACAGCCAAAATCAGAATTTTTTATTAAATTAATATAAAAAACTAAAATAAT
1 AAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAACTAAAATAAT
6597428 ACATTTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAA
66 ACATTTGGAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAA
6597493 AAATAAAATCCAAAAAT
130 AAATAAAATCCAAAAAT
6597510 AAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAAAACTAAAATA
1 AAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAATAT--AAAAAACTAAAATA
* * *
6597575 ATAAAATTGGAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTC
64 ATACATTTGGAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTA
6597640 AAAAATAAAATCCAAAAAT
128 AAAAATAAAATCCAAAAAT
*
6597659 AAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTCTGTTTTTTATTAAATTAATATAAAAAACT
1 AAAATAAAAAATAAACAGCCAAAATCAGA--------GTTTTTTATTAAATTAATATAAAAAACT
*
6597724 AAAATAATACATTTGGAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAATATA
58 AAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
* **
6597788 TTTTAAAAATTTAAAATCTGAAAAT
123 TTTTAAAAA-ATAAAATCCAAAAAT
6597813 AAAATAAA
1 AAAATAAA
6597821 TACCAAAATA
Statistics
Matches: 566, Mismatches: 18, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
139 12 0.02
140 18 0.03
142 16 0.03
143 2 0.00
145 4 0.01
146 176 0.31
147 98 0.17
149 123 0.22
153 32 0.06
154 20 0.04
155 45 0.08
157 20 0.04
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (146 bp):
AAAATAAAAAATAAACAGCCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAACTAAAATAAT
ACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAA
AATAAAATCCAAAAAT
Found at i:6597509 original size:13 final size:12
Alignment explanation
Indices: 6597489--6597524 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
6597479 TAGTATATTT
6597489 TAAAAAATAAAA
1 TAAAAAATAAAA
*
6597501 TCCAAAAATAAAA
1 T-AAAAAATAAAA
6597514 TAAAAAATAAA
1 TAAAAAATAAA
6597525 CAGCCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:6597657 original size:13 final size:12
Alignment explanation
Indices: 6597638--6597673 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
6597628 TAGTATATTT
6597638 TCAAAAATAAAA
1 TCAAAAATAAAA
6597650 TCCAAAAATAAAA
1 T-CAAAAATAAAA
*
6597663 TAAAAAATAAA
1 TCAAAAATAAA
6597674 CGGCCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (12 bp):
TCAAAAATAAAA
Found at i:6604047 original size:25 final size:22
Alignment explanation
Indices: 6604003--6604044 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6603993 TAAATTACAT
6604003 TTTCTTTTTTTTCTTCTTCTCC
1 TTTCTTTTTTTTCTTCTTCTCC
6604025 TTTC-TTTTTTTCTATCTTCT
1 TTTCTTTTTTTTCT-TCTTCT
6604045 TCTGTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTCTTTTTTTTCTTCTTCTCC
Found at i:6604161 original size:27 final size:27
Alignment explanation
Indices: 6604131--6604189 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
6604121 GAGAAAGGCA
6604131 CCACCGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
6604158 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACCGGTGCCGCCTGTGGGGTACCCT
*
6604185 TCACC
1 CCACC
6604190 CCTATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.08, C:0.41, G:0.31, T:0.20
Consensus pattern (27 bp):
CCACCGGTGCCGCCTGTGGGGTACCCT
Found at i:6610514 original size:16 final size:17
Alignment explanation
Indices: 6610495--6610553 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 17
6610485 ATATTATTAT
6610495 TATTATTA-GTAGTATA
1 TATTATTAGGTAGTATA
*
6610511 TATTTTATTATGTATGTATA
1 TA--TTATTAGGTA-GTATA
6610531 TA-T-TTAGGTAGTAT-
1 TATTATTAGGTAGTATA
6610545 TATTATTAG
1 TATTATTAG
6610554 TTGTTTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
14 2 0.06
15 5 0.14
16 12 0.33
17 1 0.03
18 6 0.17
19 3 0.08
20 7 0.19
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (17 bp):
TATTATTAGGTAGTATA
Found at i:6610520 original size:18 final size:20
Alignment explanation
Indices: 6610492--6610535 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
6610482 AAAATATTAT
6610492 TATTATTATTA-GTA-GTATA
1 TATT-TTATTATGTATGTATA
6610511 TATTTTATTATGTATGTATA
1 TATTTTATTATGTATGTATA
6610531 TATTT
1 TATTT
6610536 AGGTAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 6 0.26
19 7 0.30
20 10 0.43
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (20 bp):
TATTTTATTATGTATGTATA
Found at i:6610655 original size:15 final size:18
Alignment explanation
Indices: 6610637--6610674 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
6610627 GTTATGTGTA
6610637 TATGTTTTT-TA-A-TAT
1 TATGTTTTTATATACTAT
6610652 TATGTTTTTATATACTAT
1 TATGTTTTTATATACTAT
6610670 TATGT
1 TATGT
6610675 ATATATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 2 0.10
17 1 0.05
18 8 0.40
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (18 bp):
TATGTTTTTATATACTAT
Found at i:6610693 original size:40 final size:40
Alignment explanation
Indices: 6610617--6610693 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
6610607 TATATATTGC
* * **
6610617 TTTTATATATGTTATGTGTATATGTTTTTTAATATTATGT
1 TTTTATATATATTATGTATATATGTTTAATAATATTATGT
*
6610657 TTTTATATACTATTATGTATATAT-TTTAATATTATTA
1 TTTTATATA-TATTATGTATATATGTTTAATAATATTA
6610694 GTTATATAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 19 0.61
41 12 0.39
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.61
Consensus pattern (40 bp):
TTTTATATATATTATGTATATATGTTTAATAATATTATGT
Found at i:6610699 original size:22 final size:23
Alignment explanation
Indices: 6610657--6610732 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 23
6610647 AATATTATGT
6610657 TTTTATATACTATTATGTATATA
1 TTTTATATACTATTATGTATATA
*
6610680 TTTTA-ATATTATTA-GTTATATA
1 TTTTATATACTATTATG-TATATA
**
6610702 ACTT-TATACTATTGTATGTATAT-
1 TTTTATATACTA-T-TATGTATATA
*
6610725 TTCTATAT
1 TTTTATAT
6610733 TGTATATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
21 1 0.03
22 21 0.52
23 7 0.17
24 10 0.25
25 1 0.03
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTTATATACTATTATGTATATA
Found at i:6611026 original size:15 final size:15
Alignment explanation
Indices: 6610979--6611039 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
6610969 TCTTGAATAC
6610979 TATGTCATATATATA-
1 TATGT-ATATATATAT
* *
6610994 TATTTA-ATACTGTAT
1 TATGTATATA-TATAT
6611009 TATGTATATATATAT
1 TATGTATATATATAT
6611024 TAT-TATTATATATAT
1 TATGTA-TATATATAT
6611039 T
1 T
6611040 TTATCCTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 3 0.08
14 6 0.16
15 26 0.68
16 3 0.08
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (15 bp):
TATGTATATATATAT
Found at i:6611131 original size:21 final size:24
Alignment explanation
Indices: 6611107--6611157 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 24
6611097 ATTTTTAACA
*
6611107 TTATTATATTT-A-CTATTA-TAT
1 TTATTATATTTAATATATTATTAT
*
6611128 TTATTATTTTTAATATATTATTAT
1 TTATTATATTTAATATATTATTAT
6611152 TTATTA
1 TTATTA
6611158 CTTTATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.40
22 1 0.04
23 5 0.20
24 9 0.36
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATTATATTTAATATATTATTAT
Found at i:6611243 original size:17 final size:18
Alignment explanation
Indices: 6611223--6611265 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6611213 ATTGTTATTA
6611223 TTATTATATTTTTT-TAT
1 TTATTATATTTTTTGTAT
*
6611240 TTATCATTATTTTTTGTAT
1 TTATTA-TATTTTTTGTAT
*
6611259 ATATTAT
1 TTATTAT
6611266 TCATACTATC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.24
18 9 0.43
19 7 0.33
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATTATATTTTTTGTAT
Found at i:6611269 original size:23 final size:22
Alignment explanation
Indices: 6611218--6611269 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
6611208 CTATTATTGT
6611218 TATTATT-ATTATATTTTTTTA
1 TATTATTCATTATATTTTTTTA
6611239 T-TTA-TCATTAT-TTTTTGTATA
1 TATTATTCATTATATTTTT-T-TA
6611260 TATTATTCAT
1 TATTATTCAT
6611270 ACTATCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 4 0.15
22 3 0.12
23 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTATTCATTATATTTTTTTA
Found at i:6612900 original size:14 final size:15
Alignment explanation
Indices: 6612881--6612921 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
6612871 GTTCTTTATT
6612881 TTATTTTTATTTT-A
1 TTATTTTTATTTTCA
6612895 TTATTTTTATTTTCA
1 TTATTTTTATTTTCA
**
6612910 CAATTTTTATTT
1 TTATTTTTATTT
6612922 AAAATTCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTTTATTTTCA
Found at i:6613308 original size:31 final size:31
Alignment explanation
Indices: 6613253--6613312 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
6613243 AAGTTTAAAT
* *
6613253 AATAAGATAAGAGAAAAGTTTAAAAATAAACA
1 AATAAGATAAGAGAAAAATAT-AAAATAAACA
6613285 AATAA-ATAAGAGAAAAATATAAAATAAA
1 AATAAGATAAGAGAAAAATATAAAATAAA
6613313 ATAAAAGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 8 0.31
31 13 0.50
32 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.10, T:0.18
Consensus pattern (31 bp):
AATAAGATAAGAGAAAAATATAAAATAAACA
Done.