Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 20 of 343
Found at i:6920479 original size:44 final size:44
Alignment explanation
Indices: 6920402--6920489 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
6920392 AATCAATAGT
* * *
6920402 TAGAGGTAGATTTCATCTGCAAGACTTTGTTGTGTACCCACAAC
1 TAGAGGTAGATTCCATCTGCAAAACTTTATTGTGTACCCACAAC
* * **
6920446 TAGAGGTAGATTCCATTTGCAAAATTTTATTGTGTGTCCACAAC
1 TAGAGGTAGATTCCATCTGCAAAACTTTATTGTGTACCCACAAC
6920490 CATTGATAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (44 bp):
TAGAGGTAGATTCCATCTGCAAAACTTTATTGTGTACCCACAAC
Found at i:6934246 original size:21 final size:21
Alignment explanation
Indices: 6934198--6934246 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6934188 AAAAAAAACC
*
6934198 TTTAAAAAATAAAAAAATGTA
1 TTTAAAAAATAAAAAAATATA
*** *
6934219 CAAAAAAAATATAAAAATATA
1 TTTAAAAAATAAAAAAATATA
6934240 TTTAAAA
1 TTTAAAA
6934247 TTTTATATTG
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
TTTAAAAAATAAAAAAATATA
Found at i:6934729 original size:17 final size:17
Alignment explanation
Indices: 6934707--6934739 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6934697 AAAAATTATT
*
6934707 TAATTTTTATTAAAATA
1 TAATTTTTATGAAAATA
6934724 TAATTTTTATGAAAAT
1 TAATTTTTATGAAAAT
6934740 TGATTGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TAATTTTTATGAAAATA
Found at i:6934830 original size:18 final size:18
Alignment explanation
Indices: 6934807--6934870 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
6934797 CAAGATACAA
*
6934807 TAATTTTTATTATTTTTT
1 TAATTTTTAATATTTTTT
6934825 TAATTTTTAATATTTTTT
1 TAATTTTTAATATTTTTT
* * * *
6934843 ACAATTTCTAATAAATTTTA
1 -TAATTTTTAAT-ATTTTTT
6934863 TAATTTTT
1 TAATTTTT
6934871 GAAAGTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 17 0.46
19 15 0.41
20 5 0.14
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (18 bp):
TAATTTTTAATATTTTTT
Found at i:6934841 original size:19 final size:18
Alignment explanation
Indices: 6934806--6934870 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
6934796 CCAAGATACA
*
6934806 ATAATTTTTATTATTTTT
1 ATAATTTTTAATATTTTT
*
6934824 TTAATTTTTAATATTTTTT
1 ATAATTTTTAATA-TTTTT
* * *
6934843 ACAATTTCTAATAAATTTT
1 ATAATTTTTAAT-ATTTTT
6934862 ATAATTTTT
1 ATAATTTTT
6934871 GAAAGTTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
18 11 0.30
19 25 0.68
20 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
ATAATTTTTAATATTTTT
Found at i:6934870 original size:9 final size:9
Alignment explanation
Indices: 6934806--6934870 Score: 58
Period size: 9 Copynumber: 7.0 Consensus size: 9
6934796 CCAAGATACA
6934806 ATAATTTTT
1 ATAATTTTT
*
6934815 ATTATTTTT
1 ATAATTTTT
*
6934824 TTAATTTTT
1 ATAATTTTT
*
6934833 AATATTTTTT
1 -ATAATTTTT
* *
6934843 ACAATTTCTA
1 ATAATTT-TT
*
6934853 ATAAATTTT
1 ATAATTTTT
6934862 ATAATTTTT
1 ATAATTTTT
6934871 GAAAGTTTTT
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
9 29 0.69
10 13 0.31
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
ATAATTTTT
Found at i:6934982 original size:16 final size:17
Alignment explanation
Indices: 6934947--6934997 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
6934937 AAAAATTATA
6934947 TATATTTATAAATATTT
1 TATATTTATAAATATTT
* *
6934964 TATATTTA-CAATTTTT
1 TATATTTATAAATATTT
*
6934980 TATACTTT-TAATTATTT
1 TATA-TTTATAAATATTT
6934997 T
1 T
6934998 TTAGGTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
TATATTTATAAATATTT
Found at i:6938512 original size:28 final size:28
Alignment explanation
Indices: 6938472--6938532 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
6938462 TTAGGTGTTT
* *
6938472 ACTACAACAATTTCCCTTTTCTCTTGAA
1 ACTATAACAATTTCCCTTCTCTCTTGAA
6938500 ACTATAACAATTTCCCTTCTCTCTTGAA
1 ACTATAACAATTTCCCTTCTCTCTTGAA
6938528 ACTAT
1 ACTAT
6938533 CATACGAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.39
Consensus pattern (28 bp):
ACTATAACAATTTCCCTTCTCTCTTGAA
Found at i:6953588 original size:18 final size:18
Alignment explanation
Indices: 6953565--6953600 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6953555 TGAGAGGATT
6953565 TCCAAGTTCTTGGATATC
1 TCCAAGTTCTTGGATATC
6953583 TCCAAGTTCTTGGATATC
1 TCCAAGTTCTTGGATATC
6953601 ATCTCTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (18 bp):
TCCAAGTTCTTGGATATC
Found at i:6956712 original size:5 final size:5
Alignment explanation
Indices: 6956702--6956773 Score: 144
Period size: 5 Copynumber: 14.4 Consensus size: 5
6956692 AAGTATGTTA
6956702 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
6956752 CATAT CATAT CATAT CATAT CA
1 CATAT CATAT CATAT CATAT CA
6956774 CACACACATA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:6956943 original size:129 final size:128
Alignment explanation
Indices: 6956805--6957072 Score: 421
Period size: 129 Copynumber: 2.1 Consensus size: 128
6956795 ATAATATGAA
6956805 CATATCATACATAATAAAGTTAGTTACATATCATGCATATATATT-GAAGTCTGTAACATGCAAA
1 CATA-CATACATAATAAAGTTAGTTACATATCATGCATATATATTAG-AGTCTGTAACATGCAAA
* *
6956869 TTATGACATACATACATATATAATAACATTGACATATCATACATACATTAGATGCATATCACATA
64 TCATGACATACATACATATATAA-AACATTGACATATCATACATACATTAGACGCATATCACATA
6956934 T
128 T
* * * * *
6956935 CATACATACTTAGTAAAGTTAGTTATATATCATGCATATATATTAGAGTCTGTTACATGCATATC
1 CATACATACATAATAAAGTTAGTTACATATCATGCATATATATTAGAGTCTGTAACATGCAAATC
* *
6957000 ATGACATACATACATATATAAAATATTGACATATCTTACATACATTAGACGCATATCACATAT
66 ATGACATACATACATATATAAAACATTGACATATCATACATACATTAGACGCATATCACATAT
6957063 CATACATACA
1 CATACATACA
6957073 CATAATCAGA
Statistics
Matches: 127, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
128 48 0.38
129 74 0.58
130 5 0.04
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (128 bp):
CATACATACATAATAAAGTTAGTTACATATCATGCATATATATTAGAGTCTGTAACATGCAAATC
ATGACATACATACATATATAAAACATTGACATATCATACATACATTAGACGCATATCACATAT
Found at i:6966707 original size:42 final size:42
Alignment explanation
Indices: 6966653--6966796 Score: 164
Period size: 42 Copynumber: 3.4 Consensus size: 42
6966643 TAGATAAAAC
*
6966653 ATTTACAGATAAAACTGCTACTGGGTTGTGGATGCACAACAT
1 ATTTGCAGATAAAACTGCTACTGGGTTGTGGATGCACAACAT
* * * * * *
6966695 ATTTGTAGATAAAATTGCCACTAGGTGGTGGATTCACAACAT
1 ATTTGCAGATAAAACTGCTACTGGGTTGTGGATGCACAACAT
* * * * *
6966737 ATTTGCAAATAAAACTG-TCATTGGGTTATGGACGAACAACAT
1 ATTTGCAGATAAAACTGCT-ACTGGGTTGTGGATGCACAACAT
6966779 ATTTGCAGATAAAACTGC
1 ATTTGCAGATAAAACTGC
6966797 CACTCTTCCT
Statistics
Matches: 81, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
42 81 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (42 bp):
ATTTGCAGATAAAACTGCTACTGGGTTGTGGATGCACAACAT
Found at i:6975855 original size:3 final size:3
Alignment explanation
Indices: 6975842--6975884 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
6975832 ATTATCTTAT
* *
6975842 TTA TT- TTA TTA TTA TTA TTA TCA TT- TTA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6975885 ATTACATTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:6975861 original size:26 final size:25
Alignment explanation
Indices: 6975813--6975892 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 25
6975803 ATGCGTTTTC
**
6975813 CATTTTATTTTATT-TTAAGATTAT
1 CATTTTATTTTATTATTATTATTAT
*
6975837 CTTATTTATTTTATTATTATTATTAT
1 CAT-TTTATTTTATTATTATTATTAT
*
6975863 CATTTTATCATTATTATTATTAATTA-
1 CATTTTAT-TTTATTATTATT-ATTAT
6975889 CATT
1 CATT
6975893 AGTATTACTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
24 2 0.04
25 16 0.34
26 25 0.53
27 4 0.09
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.62
Consensus pattern (25 bp):
CATTTTATTTTATTATTATTATTAT
Found at i:6975867 original size:20 final size:20
Alignment explanation
Indices: 6975844--6975882 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
6975834 TATCTTATTT
*
6975844 ATTTTATTATTATTATTATC
1 ATTTTATCATTATTATTATC
6975864 ATTTTATCATTATTATTAT
1 ATTTTATCATTATTATTAT
6975883 TAATTACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTATCATTATTATTATC
Found at i:6975870 original size:8 final size:9
Alignment explanation
Indices: 6975847--6975893 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
6975837 CTTATTTATT
*
6975847 TTATTATTA
1 TTATTATCA
6975856 TTATTATCA
1 TTATTATCA
6975865 TT-TTATCA
1 TTATTATCA
*
6975873 TTATTATTA
1 TTATTATCA
6975882 TTAATTA-CA
1 TT-ATTATCA
6975891 TTA
1 TTA
6975894 GTATTACTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
8 9 0.27
9 20 0.61
10 4 0.12
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (9 bp):
TTATTATCA
Found at i:6989571 original size:24 final size:24
Alignment explanation
Indices: 6989539--6989585 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
6989529 TTTTCTCTTC
*
6989539 CTATTTCCATTTTGTTCATTATTA
1 CTATTTCCATTTTATTCATTATTA
6989563 CTATTTCCATTTTATTCATTATT
1 CTATTTCCATTTTATTCATTATT
6989586 TCTGCATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.17, G:0.02, T:0.60
Consensus pattern (24 bp):
CTATTTCCATTTTATTCATTATTA
Found at i:6990481 original size:15 final size:15
Alignment explanation
Indices: 6990461--6990494 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6990451 GGCGAGAGAG
6990461 CACTGGCGTCATCAA
1 CACTGGCGTCATCAA
*
6990476 CACTGGCGTCGTCAA
1 CACTGGCGTCATCAA
6990491 CACT
1 CACT
6990495 AACGACGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.35, G:0.21, T:0.21
Consensus pattern (15 bp):
CACTGGCGTCATCAA
Found at i:6991461 original size:9 final size:9
Alignment explanation
Indices: 6991447--6991479 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
6991437 GAAACCATGG
6991447 CTATTTGCC
1 CTATTTGCC
6991456 CTATTTGCC
1 CTATTTGCC
6991465 CTATTTGCC
1 CTATTTGCC
6991474 CTATTT
1 CTATTT
6991480 ACTCGATGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.12, C:0.30, G:0.09, T:0.48
Consensus pattern (9 bp):
CTATTTGCC
Found at i:6993736 original size:18 final size:18
Alignment explanation
Indices: 6993715--6993765 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
6993705 TAACAGCCAG
*
6993715 TTATTCAGTAACGATAAA
1 TTATTCAGTAACAATAAA
*
6993733 TTATTCAGTAATAATAAA
1 TTATTCAGTAACAATAAA
6993751 TTATTCAGTAACAAT
1 TTATTCAGTAACAAT
6993766 CTTTTACGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATAAA
Found at i:6993795 original size:18 final size:18
Alignment explanation
Indices: 6993774--6993832 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
6993764 ATCTTTTACG
*
6993774 CAGTAGCAGTCAGTTATC
1 CAGTAGCAGTCAGTTATT
*
6993792 CAGTAACAGTCAGTTATT
1 CAGTAGCAGTCAGTTATT
* *
6993810 CAATAGCAGTCAATTATT
1 CAGTAGCAGTCAGTTATT
6993828 CAGTA
1 CAGTA
6993833 CCTTTATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (18 bp):
CAGTAGCAGTCAGTTATT
Found at i:7007557 original size:44 final size:44
Alignment explanation
Indices: 7007494--7007830 Score: 336
Period size: 44 Copynumber: 7.6 Consensus size: 44
7007484 CATCGTGGCG
* * * **
7007494 AATCTTATCTCCCTGAAGTTGTAATGGAGCAAACCAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * ** *
7007538 AATCTTATCTCCCTGAAGTTGCAATGGAGTAGATCGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* ** * *
7007583 AATCTTATCTCCCTAAAGTTATAGTGGAGCAGATTAAAACCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * *
7007627 AATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * *
7007671 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CA
* *
7007716 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
* * * * * * *
7007760 AGTCTAATCTCCCTGGAGCTGTAGTGGAGTAGATTGAAA-CAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACA
*
7007804 AATCCTATAC-CCCTGAAGTTGCAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
7007831 GTTAGAATGA
Statistics
Matches: 241, Mismatches: 48, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
44 165 0.68
45 76 0.32
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACA
Found at i:7007602 original size:89 final size:88
Alignment explanation
Indices: 7007494--7007826 Score: 328
Period size: 89 Copynumber: 3.8 Consensus size: 88
7007484 CATCGTGGCG
* * ** *
7007494 AATCTTATCTCCCTGAAGTTGTAATGGAGCAAACCAAAGCTACAAATCTTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
* * *
7007559 CAATGGAGTAGATCGAAGATAGCA
66 CAATAGAGCAGATCAAAGATA-CA
* * * * *
7007583 AATCTTATCTCCCTAAAGTTATAGTGGAGCAGATTAAAACCACAAATCTTATCTCTCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
* * *
7007648 CAGTAGAGCAGATTAAAGCTACA
66 CAATAGAGCAGATCAAAGATACA
* * *
7007671 AATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTA-CAAATCTTATCTCTCTGAAGTT
* * *
7007736 GCAGTAGAGCAGATTAAAGCTACA
65 GCAATAGAGCAGATCAAAGATACA
* * ** * * * * * *
7007760 AGTCTAATCTCCCTGGAGCTGTAGTGGAGTAGATTGAAA-CAACAAATCCTATAC-CCCTGAAGT
1 AATCTTATCTCCCTAAAGTTGTAATGGAGCAGATT-AAAGCTACAAATCTTAT-CTCTCTGAAGT
7007823 TGCA
64 TGCA
7007827 GTGGGTTAGA
Statistics
Matches: 204, Mismatches: 37, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
88 58 0.28
89 144 0.71
90 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (88 bp):
AATCTTATCTCCCTAAAGTTGTAATGGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTG
CAATAGAGCAGATCAAAGATACA
Found at i:7007794 original size:133 final size:134
Alignment explanation
Indices: 7007529--7007826 Score: 377
Period size: 133 Copynumber: 2.2 Consensus size: 134
7007519 GGAGCAAACC
*
7007529 AAAGCTACAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATCGAAGATAGCAAATCTTATCTC
1 AAAGCTACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGATAGCAAATCTTATCTC
* * * * *
7007594 CCTAAAGTTATAGTGGAGCAGATTAAAACCACAAATCTTATCTCTCTAAAGTTGCAGTAGAGCAG
66 CCTAAAGTTACAGTAGAGCAGATTAAAACCACAAATCTAATCTCCCTAAAGCTGCAGTAGAGCAG
7007659 ATT-
131 ATTG
* *
7007662 AAAGCTACAAATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTC
1 AAAGCTACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGATAGCAAATCTTATCTC
* * * * * * ** * * *
7007727 TCTGAAGTTGCAGTAGAGCAGATTAAAGCTACAAGTCTAATCTCCCTGGAGCTGTAGTGGAGTAG
66 CCTAAAGTTACAGTAGAGCAGATTAAAACCACAAATCTAATCTCCCTAAAGCTGCAGTAGAGCAG
7007792 ATTG
131 ATTG
* *
7007796 AAA-CAACAAATCCTATAC-CCCTGAAGTTGCA
1 AAAGCTACAAATCTTAT-CTCCCTGAAGTTGCA
7007827 GTGGGTTAGA
Statistics
Matches: 141, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
133 137 0.97
134 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (134 bp):
AAAGCTACAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATCGAAGATAGCAAATCTTATCTC
CCTAAAGTTACAGTAGAGCAGATTAAAACCACAAATCTAATCTCCCTAAAGCTGCAGTAGAGCAG
ATTG
Found at i:7009475 original size:3 final size:3
Alignment explanation
Indices: 7009467--7009491 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7009457 TAACATTACC
7009467 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
7009492 CATCATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7009496 original size:3 final size:3
Alignment explanation
Indices: 7009490--7009542 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
7009480 TATTATTATT
7009490 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
7009538 ATC AT
1 ATC AT
7009543 TTGATCATTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:7012928 original size:32 final size:31
Alignment explanation
Indices: 7012887--7012953 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 31
7012877 ATGAAAAAGT
7012887 AGTTTCGAGATAATGATATTACGAATCTTGA
1 AGTTTCGAGATAATGATATTACGAATCTTGA
7012918 AGTTGTCGAGATAATGATATTACGAATCTTGA
1 AGTT-TCGAGATAATGATATTACGAATCTTGA
7012950 AGTT
1 AGTT
7012954 CGATTGACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 31 0.89
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (31 bp):
AGTTTCGAGATAATGATATTACGAATCTTGA
Found at i:7021845 original size:16 final size:17
Alignment explanation
Indices: 7021807--7021847 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
7021797 AATAAATAAA
*
7021807 ATAATATATAAATTTAT
1 ATAATATATAAAATTAT
7021824 -TAA-ATATTAAAATTAT
1 ATAATATA-TAAAATTAT
7021840 ATAATATA
1 ATAATATA
7021848 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 3 0.15
16 11 0.55
17 3 0.15
18 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAATATATAAAATTAT
Found at i:7024506 original size:18 final size:18
Alignment explanation
Indices: 7024485--7024534 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
7024475 TCCAATTAGA
7024485 ATTTTCTTTCCTCTCACT
1 ATTTTCTTTCCTCTCACT
**
7024503 ATTTT-TTTCC-CTCTTT
1 ATTTTCTTTCCTCTCACT
* *
7024519 CTTTTCTTCCCTCTCA
1 ATTTTCTTTCCTCTCA
7024535 TTTAAATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
16 8 0.32
17 9 0.36
18 8 0.32
ACGTcount: A:0.08, C:0.34, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTTCTTTCCTCTCACT
Found at i:7035973 original size:42 final size:41
Alignment explanation
Indices: 7035868--7035991 Score: 117
Period size: 42 Copynumber: 3.0 Consensus size: 41
7035858 ACAAACAGTG
* *
7035868 TGGTTCATTCATGAACCAAGTGGTAGTTCTTATCTGCAAATATG
1 TGGTTCA-TCATGAACCAAGTGGCAG-T-TTATCTGCAAATATA
* * **
7035912 TTGTACATCCA--AAATAAGTGGCAGTTTATCTGCAAATATA
1 TGGTTCAT-CATGAACCAAGTGGCAGTTTATCTGCAAATATA
* *
7035952 TGGTTCGATCATGAACCAAGTGACAGTTTATCTACAAATA
1 TGGTTC-ATCATGAACCAAGTGGCAGTTTATCTGCAAATA
7035992 ATTTTATCTA
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
40 20 0.31
41 3 0.05
42 33 0.52
43 1 0.02
44 7 0.11
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (41 bp):
TGGTTCATCATGAACCAAGTGGCAGTTTATCTGCAAATATA
Found at i:7037212 original size:15 final size:15
Alignment explanation
Indices: 7037194--7037222 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7037184 TAATTTTTAA
7037194 TTATATAATATAAAT
1 TTATATAATATAAAT
7037209 TTATATAATATAAA
1 TTATATAATATAAA
7037223 ATATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTATATAATATAAAT
Found at i:7045134 original size:2 final size:2
Alignment explanation
Indices: 7045127--7045161 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7045117 GTTGCATCTT
7045127 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7045162 TTCAATACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:7050405 original size:38 final size:39
Alignment explanation
Indices: 7050324--7050411 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 39
7050314 TTATTGATTG
* *
7050324 CATGTTCAA-CATGTCTACTATTTATTTTTGAATTGAAAA
1 CATGTT-AAGCATGTCTACTATTTACTGTTGAATTGAAAA
* *
7050363 CATGTTAAGCATGTTTACTA-TTACTGTTGAACTT-AAAT
1 CATGTTAAGCATGTCTACTATTTACTGTTGAA-TTGAAAA
7050401 CATGTTAAGCA
1 CATGTTAAGCA
7050412 AGTTCATTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 25 0.58
39 18 0.42
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (39 bp):
CATGTTAAGCATGTCTACTATTTACTGTTGAATTGAAAA
Found at i:7050675 original size:45 final size:45
Alignment explanation
Indices: 7050584--7050685 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 45
7050574 GTACGACTAG
* * * ** *
7050584 TGGTTTATCCATAACGTACTAGCAGCTTTTATCTATACTGATGGA
1 TGGTTCATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGA
*
7050629 TGGTTCATCCACAACGTATTAGCAGCTTTTATCTACACAAACGGA
1 TGGTTCATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGA
*
7050674 TGGTTCACCCAC
1 TGGTTCATCCAC
7050686 CAATATATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (45 bp):
TGGTTCATCCACAACGTACTAGCAGCTTTTATCTACACAAACGGA
Found at i:7050930 original size:8 final size:8
Alignment explanation
Indices: 7050917--7050942 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7050907 TTTAGTGTAT
7050917 TTGGTGAA
1 TTGGTGAA
7050925 TTGGTGAA
1 TTGGTGAA
7050933 TTGGTGAA
1 TTGGTGAA
7050941 TT
1 TT
7050943 AGGGACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (8 bp):
TTGGTGAA
Found at i:7051304 original size:40 final size:40
Alignment explanation
Indices: 7051248--7051354 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
7051238 TATAATGATA
* * *
7051248 TTCGACTATGATTGGCACTAAGTGTGCG-GTTTAATATAGC
1 TTCGACTATAAATGGCACTAAGTGTGCGAG-TTAACATAGC
* **
7051288 TTCGACTATAAATGGCACTAAGTGTGTGAGTTGGCATAGC
1 TTCGACTATAAATGGCACTAAGTGTGCGAGTTAACATAGC
*
7051328 TTCGGCTATAGAA-GGCACTAAGTGTGC
1 TTCGACTATA-AATGGCACTAAGTGTGC
7051355 AATACCGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
40 54 0.95
41 3 0.05
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (40 bp):
TTCGACTATAAATGGCACTAAGTGTGCGAGTTAACATAGC
Found at i:7056487 original size:16 final size:14
Alignment explanation
Indices: 7056468--7056502 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
7056458 CACAAACCTT
7056468 TTTTCCTTTTTCTTC
1 TTTTCCTTTTT-TTC
7056483 ATTTTCCTTTTTTTC
1 -TTTTCCTTTTTTTC
7056498 TTTTC
1 TTTTC
7056503 TACTCAGGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 11 0.58
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCCTTTTTTTC
Found at i:7056816 original size:16 final size:17
Alignment explanation
Indices: 7056785--7056817 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7056775 TCTTAGTCCA
*
7056785 TTTTCTCTTCTTTCTTT
1 TTTTCTCTTCTCTCTTT
7056802 TTTTCTC-TCTCTCTTT
1 TTTTCTCTTCTCTCTTT
7056818 AACTCAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCTCTTCTCTCTTT
Found at i:7057846 original size:19 final size:19
Alignment explanation
Indices: 7057817--7057853 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7057807 TTTTATTAAT
7057817 ATTTTTCTAGTAATGTTTTG
1 ATTTTTCTAGTAAT-TTTTG
7057837 ATTTTT-TAGTAATTTTT
1 ATTTTTCTAGTAATTTTT
7057854 AATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.65
Consensus pattern (19 bp):
ATTTTTCTAGTAATTTTTG
Found at i:7057926 original size:107 final size:108
Alignment explanation
Indices: 7057846--7058050 Score: 335
Period size: 107 Copynumber: 1.9 Consensus size: 108
7057836 GATTTTTTAG
*
7057846 TAATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTA-TTTTTTATTTTTAATTTCTTTCT-A
1 TAATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTATTTTTTTATTTTTAATTTCTGTCTAA
7057909 -ATTTTTTGAATTTATATTAATTTTATTTTTAATAAAATTTATAA
66 TATTTTTTGAATTTATATT-ATTTTATTTTT-ATAAAATTTATAA
7057953 TAATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTATTTTTTTTATTTTTAATTTCTGTCTA
1 TAATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTA-TTTTTTTATTTTTAATTTCTGTCTA
*
7058018 ATATTTTTTGAATTTATAATAATTTTATTTTTA
65 ATATTTTTTGAATTTAT-ATTATTTTATTTTTA
7058051 ATAATGAATT
Statistics
Matches: 91, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
107 39 0.43
109 22 0.24
110 2 0.02
111 26 0.29
112 2 0.02
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (108 bp):
TAATTTTTAATAAAAATTTTAAGTCTTCTATAAATTTTATTTTTTTATTTTTAATTTCTGTCTAA
TATTTTTTGAATTTATATTATTTTATTTTTATAAAATTTATAA
Found at i:7057948 original size:12 final size:12
Alignment explanation
Indices: 7057933--7057974 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
7057923 TATTAATTTT
7057933 ATTTTTAATAAA
1 ATTTTTAATAAA
*
7057945 ATTTATAAT--A
1 ATTTTTAATAAA
7057955 ATTTTTAATAAA
1 ATTTTTAATAAA
*
7057967 AATTTTAA
1 ATTTTTAA
7057975 GTCTTCTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 9 0.36
12 16 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTTTAATAAA
Found at i:7062250 original size:2 final size:2
Alignment explanation
Indices: 7062240--7062272 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
7062230 TAGACACACC
7062240 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7062273 CTCTAGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7064096 original size:16 final size:17
Alignment explanation
Indices: 7064077--7064110 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
7064067 GATATTCTTA
*
7064077 TTATTTTT-TAATATAT
1 TTATTTTTGAAATATAT
7064093 TTATTTTTGAAATATAT
1 TTATTTTTGAAATATAT
7064110 T
1 T
7064111 AAATTTCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATTTTTGAAATATAT
Found at i:7070917 original size:16 final size:15
Alignment explanation
Indices: 7070889--7070939 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
7070879 TTTAGCTTGC
*
7070889 TTTTTTGAGTTCAGG
1 TTTTTTCAGTTCAGG
7070904 TTTTTTCAGATTCA-G
1 TTTTTTCAG-TTCAGG
*
7070919 TTCTTTTCAGGTTCAGA
1 TT-TTTTCA-GTTCAGG
7070936 TTTT
1 TTTT
7070940 ATCGGGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 11 0.37
16 16 0.53
17 3 0.10
ACGTcount: A:0.16, C:0.12, G:0.18, T:0.55
Consensus pattern (15 bp):
TTTTTTCAGTTCAGG
Found at i:7072274 original size:3 final size:3
Alignment explanation
Indices: 7072266--7072295 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7072256 TAGTTTTTTA
7072266 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7072296 CATGTAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:7072660 original size:4 final size:4
Alignment explanation
Indices: 7072651--7072677 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7072641 AGTTGTTTCT
7072651 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
7072678 TTTTTGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:7074316 original size:27 final size:26
Alignment explanation
Indices: 7074271--7074339 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
7074261 TTAAAATCTA
*
7074271 AAAAAATA-AAAAT-TTTAAAAATGATT
1 AAAAAATACAAAATATATAAAAA--ATT
7074297 -AAAAATACAAAATATATAAAAAATT
1 AAAAAATACAAAATATATAAAAAATT
7074322 AGAAAAATACATAAATAT
1 A-AAAAATACA-AAATAT
7074340 TATTTTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
25 10 0.27
26 5 0.14
27 16 0.43
28 6 0.16
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (26 bp):
AAAAAATACAAAATATATAAAAAATT
Found at i:7076259 original size:30 final size:30
Alignment explanation
Indices: 7076224--7076283 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7076214 TATTTTATTA
*
7076224 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
7076254 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
7076284 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:7077173 original size:23 final size:23
Alignment explanation
Indices: 7077132--7077175 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
7077122 ATAAATTATT
7077132 TTTATTACTTTAAATATAAAATA
1 TTTATTACTTTAAATATAAAATA
*
7077155 TTTATTTC-TTAAATCATAAAA
1 TTTATTACTTTAAAT-ATAAAA
7077176 ATAGAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATTACTTTAAATATAAAATA
Found at i:7083620 original size:6 final size:6
Alignment explanation
Indices: 7083609--7083653 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
7083599 TAAAAGGAGG
7083609 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATG
1 ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATGTGT ATG
7083654 GCAAAGGAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (6 bp):
ATGTGT
Found at i:7084212 original size:21 final size:23
Alignment explanation
Indices: 7084131--7084228 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
7084121 CCAATAGGAA
* * *
7084131 AAGTGATAGTGACATTATGGTGC
1 AAGTGATAGTGGCACTACGGTGC
* *
7084154 AAGTGATAGAGGCACTACGATGC
1 AAGTGATAGTGGCACTACGGTGC
*
7084177 AAGCGATAGTGGCACTACGGTGC
1 AAGTGATAGTGGCACTACGGTGC
*
7084200 AAGTGA-A-TGGCACTTCGGTGC
1 AAGTGATAGTGGCACTACGGTGC
7084221 AAAGTGAT
1 -AAGTGAT
7084229 TTACGCATGT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
21 13 0.21
22 7 0.11
23 43 0.68
ACGTcount: A:0.31, C:0.15, G:0.32, T:0.22
Consensus pattern (23 bp):
AAGTGATAGTGGCACTACGGTGC
Found at i:7087157 original size:23 final size:23
Alignment explanation
Indices: 7087130--7087264 Score: 114
Period size: 23 Copynumber: 6.0 Consensus size: 23
7087120 CCAATAGGAA
7087130 AAGTGATAGTGGCACTACGGTGC
1 AAGTGATAGTGGCACTACGGTGC
* * * **
7087153 AAGTGACAGAGGCACCACAATGC
1 AAGTGATAGTGGCACTACGGTGC
* *
7087176 AAGTGATCA-TGGCGCTACGATGC
1 AAGTGAT-AGTGGCACTACGGTGC
* * **
7087199 AAGTGACAGAGGCACTAAAGTGC
1 AAGTGATAGTGGCACTACGGTGC
* *
7087222 AAGCGGTAGTGGCACTACGGTGC
1 AAGTGATAGTGGCACTACGGTGC
*
7087245 AAGTGA-A-TGGCACTTCGGTG
1 AAGTGATAGTGGCACTACGGTG
7087265 GAAAACTTCG
Statistics
Matches: 85, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
21 12 0.14
22 2 0.02
23 70 0.82
24 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.18
Consensus pattern (23 bp):
AAGTGATAGTGGCACTACGGTGC
Found at i:7087194 original size:46 final size:46
Alignment explanation
Indices: 7087130--7087250 Score: 165
Period size: 46 Copynumber: 2.6 Consensus size: 46
7087120 CCAATAGGAA
7087130 AAGTGATAGTGGCACTACGGTGCAAGTGACAGAGGCACCACAA-TGC
1 AAGTGATAGTGGCACTACGGTGCAAGTGACAGAGGCACCA-AAGTGC
* * *
7087176 AAGTGATCA-TGGCGCTACGATGCAAGTGACAGAGGCACTAAAGTGC
1 AAGTGAT-AGTGGCACTACGGTGCAAGTGACAGAGGCACCAAAGTGC
* *
7087222 AAGCGGTAGTGGCACTACGGTGCAAGTGA
1 AAGTGATAGTGGCACTACGGTGCAAGTGA
7087251 ATGGCACTTC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 3 0.05
46 61 0.94
47 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.32, T:0.17
Consensus pattern (46 bp):
AAGTGATAGTGGCACTACGGTGCAAGTGACAGAGGCACCAAAGTGC
Found at i:7087274 original size:13 final size:13
Alignment explanation
Indices: 7087256--7087281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7087246 AGTGAATGGC
7087256 ACTTCGGTGGAAA
1 ACTTCGGTGGAAA
7087269 ACTTCGGTGGAAA
1 ACTTCGGTGGAAA
7087282 GTGATATCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
ACTTCGGTGGAAA
Found at i:7096943 original size:56 final size:55
Alignment explanation
Indices: 7096831--7096949 Score: 159
Period size: 55 Copynumber: 2.1 Consensus size: 55
7096821 ATAGCATAAG
* * *
7096831 AAAAAAAATATTCAAATGACAAATATACCCTTTAATAGATTTTTTGTGAAAGTAT
1 AAAAAAAATACTCAAATGACAAATATACCCTTTAATAGATTTTTTGTAAAAATAT
* * *
7096886 AAAAAAAATACTCAAATGACCACTATACTCTTTAATA-ATTTTTTTTGTAAAAATAT
1 AAAAAAAATACTCAAATGACAAATATACCCTTTAATAGA--TTTTTTGTAAAAATAT
7096942 AAAAAAAA
1 AAAAAAAA
7096950 ACTAGAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 1 0.02
55 33 0.59
56 22 0.39
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (55 bp):
AAAAAAAATACTCAAATGACAAATATACCCTTTAATAGATTTTTTGTAAAAATAT
Found at i:7099871 original size:13 final size:13
Alignment explanation
Indices: 7099853--7099904 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
7099843 ACTAATTTTG
7099853 TAAATATTTTTAA
1 TAAATATTTTTAA
**
7099866 TAAATATTTACGAA
1 TAAATATTT-TTAA
7099880 TCTGAAATATTTTTAA
1 --T-AAATATTTTTAA
7099896 TAAATATTT
1 TAAATATTT
7099905 ACGAATCTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
13 17 0.55
14 3 0.10
16 3 0.10
17 8 0.26
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (13 bp):
TAAATATTTTTAA
Found at i:7099890 original size:30 final size:30
Alignment explanation
Indices: 7099854--7099913 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
7099844 CTAATTTTGT
7099854 AAATATTTTTAATAAATATTTACGAATCTG
1 AAATATTTTTAATAAATATTTACGAATCTG
7099884 AAATATTTTTAATAAATATTTACGAATCTG
1 AAATATTTTTAATAAATATTTACGAATCTG
7099914 TTTTACGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (30 bp):
AAATATTTTTAATAAATATTTACGAATCTG
Found at i:7108196 original size:16 final size:16
Alignment explanation
Indices: 7108175--7108243 Score: 66
Period size: 16 Copynumber: 4.1 Consensus size: 16
7108165 TTACAGTATC
7108175 AACATTTGCACTGTAA
1 AACATTTGCACTGTAA
* * *
7108191 AACATTTCCTTTACAGTATC
1 AACATTTGC---ACTGTA-A
*
7108211 ATCATTTGCACTGTAA
1 AACATTTGCACTGTAA
7108227 AACATTTGCACTGTAA
1 AACATTTGCACTGTAA
7108243 A
1 A
7108244 GAGAAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
16 24 0.59
17 5 0.12
19 5 0.12
20 7 0.17
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (16 bp):
AACATTTGCACTGTAA
Found at i:7108208 original size:36 final size:36
Alignment explanation
Indices: 7108161--7108233 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
7108151 ACCAAAAAGG
7108161 TCCTTTACAGTATCAACATTTGCACTGTAAAACATT
1 TCCTTTACAGTATCAACATTTGCACTGTAAAACATT
*
7108197 TCCTTTACAGTATCATCATTTGCACTGTAAAACATT
1 TCCTTTACAGTATCAACATTTGCACTGTAAAACATT
7108233 T
1 T
7108234 GCACTGTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (36 bp):
TCCTTTACAGTATCAACATTTGCACTGTAAAACATT
Found at i:7109933 original size:63 final size:63
Alignment explanation
Indices: 7109851--7109978 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
7109841 GACTAACAAT
7109851 CTCAATGATTTTTATATATTCCTCATGTTCTCTGAGATCGATGGAAATACATCAAACACTAGA
1 CTCAATGATTTTTATATATTCCTCATGTTCTCTGAGATCGATGGAAATACATCAAACACTAGA
7109914 CTCAATGATTTTTATATATTCCTCATGTTCTCTGAGATCGATGGAAATACATCAAACACTAGA
1 CTCAATGATTTTTATATATTCCTCATGTTCTCTGAGATCGATGGAAATACATCAAACACTAGA
7109977 CT
1 CT
7109979 AGTGCATATT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (63 bp):
CTCAATGATTTTTATATATTCCTCATGTTCTCTGAGATCGATGGAAATACATCAAACACTAGA
Found at i:7124582 original size:22 final size:23
Alignment explanation
Indices: 7124555--7124598 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
7124545 ATGTATTTAG
* *
7124555 TTATTATTTAAGTA-AATAATAA
1 TTATTATTAAAATATAATAATAA
7124577 TTATTATTAAAATATAATAATA
1 TTATTATTAAAATATAATAATA
7124599 TAATAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TTATTATTAAAATATAATAATAA
Found at i:7126829 original size:14 final size:15
Alignment explanation
Indices: 7126801--7126829 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7126791 TAAATTATTG
7126801 AATTTTATAATGATT
1 AATTTTATAATGATT
7126816 AATTTTAT-ATGATT
1 AATTTTATAATGATT
7126830 CGTGATGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
AATTTTATAATGATT
Found at i:7134396 original size:14 final size:15
Alignment explanation
Indices: 7134368--7134396 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7134358 TAAATTACTG
7134368 AATTTTATAATGATT
1 AATTTTATAATGATT
7134383 AATTTTAT-ATGATT
1 AATTTTATAATGATT
7134397 CGTGATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
AATTTTATAATGATT
Found at i:7138066 original size:21 final size:21
Alignment explanation
Indices: 7138040--7138080 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7138030 TGGGTGGATT
7138040 AGCTCTTACGAGCTTCTGTTA
1 AGCTCTTACGAGCTTCTGTTA
7138061 AGCTCTTACGAGCTTCTGTT
1 AGCTCTTACGAGCTTCTGTT
7138081 CAACTTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCTGTTA
Found at i:7138593 original size:24 final size:24
Alignment explanation
Indices: 7138566--7138617 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7138556 TTAGTAAGTC
*
7138566 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7138590 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7138614 AAAT
1 AAAT
7138618 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7140563 original size:24 final size:24
Alignment explanation
Indices: 7140536--7140587 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7140526 TTAGTAAGTC
*
7140536 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7140560 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7140584 AAAT
1 AAAT
7140588 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7143724 original size:48 final size:47
Alignment explanation
Indices: 7143655--7143763 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 47
7143645 GATAATTTTA
*
7143655 AATTTTCAATATTATTCGATATTATT-TTAATTTATGCAAATT-TAATT
1 AATTTTCAATACTATTCGATATT-TTATTAATTTATGC-AATTATAATT
* *
7143702 AATTTTGCAATACTATTTGATATTTTATTCATTTATGCAATTATAATT
1 AATTTT-CAATACTATTCGATATTTTATTAATTTATGCAATTATAATT
*
7143750 ACAATTTCAATACT
1 A-ATTTTCAATACT
7143764 GCTTTTTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
47 12 0.22
48 38 0.70
49 4 0.07
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (47 bp):
AATTTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAATT
Found at i:7145413 original size:18 final size:18
Alignment explanation
Indices: 7145390--7145432 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
7145380 TGCCAGGTGC
*
7145390 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
7145408 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
7145426 GTTTCCT
1 GTATCCT
7145433 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:7149149 original size:126 final size:126
Alignment explanation
Indices: 7148922--7149303 Score: 613
Period size: 126 Copynumber: 3.0 Consensus size: 126
7148912 TTATAGCCTC
* *
7148922 ATTTTTGTACGAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
7148987 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
7149048 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * *
7149113 ACAGTGCATCCTGCTTGAAGTGTTTTCGGCATTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
* * * * *
7149174 ATTTTTCTATGAACTACTGTAGCAAAAGAGCATCCACGTGGGAGTTTTTTTCAGAAATTTTGTTG
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
* * * *
7149239 ACAGTGCATCCTGCTTGAAGCATTTTCCGACACTATTT-TTCCAAAAACATCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTT-CGGCACTATTTGTT-CAAAAACGTCTACTCAGAATT
7149301 ATT
1 ATT
7149304 CTTGCAGAAA
Statistics
Matches: 237, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
126 207 0.87
127 30 0.13
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAAAAACGTCTACTCAGAATT
Found at i:7149637 original size:20 final size:19
Alignment explanation
Indices: 7149612--7149680 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
7149602 TCTTGTATGT
7149612 ATCAATTAACCTTAAATTTA
1 ATCAATTAACC-TAAATTTA
*
7149632 ATCAATTAACCCTAAACCTTAA
1 ATCAATTAA-CCTAAA--TTTA
*
7149654 ATCAATTTA--T-AATTTA
1 ATCAATTAACCTAAATTTA
7149670 ATCAATTAACC
1 ATCAATTAACC
7149681 CTAATACCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
16 11 0.28
18 2 0.05
19 1 0.03
20 13 0.32
21 2 0.05
22 11 0.28
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (19 bp):
ATCAATTAACCTAAATTTA
Found at i:7149870 original size:30 final size:29
Alignment explanation
Indices: 7149806--7149880 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 29
7149796 AAACCTTTAC
*
7149806 AAAACCCTAACCCT-AACCTTAAACTATA
1 AAAACCCTAACCCTAAACATTAAACTATA
7149834 AAAACCCTAACCCTAAATCAATTAAA-TA-A
1 AAAACCCTAACCCTAAA-C-ATTAAACTATA
7149863 TAAAACCCTAACCCTAAA
1 -AAAACCCTAACCCTAAA
7149881 AAAAGGGACA
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
28 14 0.33
29 3 0.07
30 20 0.48
31 5 0.12
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (29 bp):
AAAACCCTAACCCTAAACATTAAACTATA
Found at i:7150553 original size:30 final size:30
Alignment explanation
Indices: 7150513--7150569 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
7150503 TTTTATAAAT
7150513 AATTAATATTT-AT-TGATTAAAAATATTTAA
1 AATTAATATTTCATAT-ATT-AAAATATTTAA
*
7150543 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
7150570 AACAAGTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 5 0.21
32 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:7151129 original size:11 final size:10
Alignment explanation
Indices: 7151103--7151181 Score: 50
Period size: 9 Copynumber: 8.5 Consensus size: 10
7151093 AAATTTTATG
7151103 TTTTA-AATT
1 TTTTATAATT
7151112 TTTTATAATT
1 TTTTATAATT
*
7151122 TATTTAT-ATG
1 T-TTTATAATT
7151132 TTTTAT--TT
1 TTTTATAATT
7151140 TTTT-TGAA--
1 TTTTAT-AATT
7151148 TTTT-TAATT
1 TTTTATAATT
7151157 TTTATATAATT
1 TTT-TATAATT
*
7151168 TTTTA-ATTT
1 TTTTATAATT
7151177 TTTTA
1 TTTTA
7151182 AAAATTAATT
Statistics
Matches: 58, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
7 3 0.05
8 10 0.17
9 21 0.36
10 11 0.19
11 13 0.22
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TTTTATAATT
Found at i:7151159 original size:18 final size:18
Alignment explanation
Indices: 7151103--7151180 Score: 61
Period size: 19 Copynumber: 4.2 Consensus size: 18
7151093 AAATTTTATG
* *
7151103 TTTTAAATTTTTTATAATT
1 TTTTTAATTTTTTA-ATTT
* *
7151122 TATTTATATGTTTT-ATTT
1 TTTTTA-ATTTTTTAATTT
7151140 TTTTTGAA-TTTTTAATTT
1 TTTTT-AATTTTTTAATTT
*
7151158 TTATATAATTTTTTAATTT
1 TT-TTTAATTTTTTAATTT
7151177 TTTT
1 TTTT
7151181 AAAAATTAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
17 4 0.09
18 17 0.37
19 19 0.41
20 6 0.13
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTAATTTTTTAATTT
Found at i:7156186 original size:13 final size:14
Alignment explanation
Indices: 7156168--7156197 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
7156158 GTTTGACAAG
7156168 TTTCCTAAAAA-TA
1 TTTCCTAAAAATTA
7156181 TTTCCTAAAAATTA
1 TTTCCTAAAAATTA
7156195 TTT
1 TTT
7156198 TCAATTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTCCTAAAAATTA
Found at i:7157066 original size:14 final size:14
Alignment explanation
Indices: 7157041--7157081 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
7157031 ATATGAAGAA
7157041 TATTACTTAAAATTAT
1 TATTA-TTAAAATT-T
7157057 TATT-TTAAAATTT
1 TATTATTAAAATTT
7157070 TATTATTAAAAT
1 TATTATTAAAAT
7157082 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 15 0.62
16 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTATTAAAATTT
Found at i:7161851 original size:25 final size:26
Alignment explanation
Indices: 7161823--7161873 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7161813 CTTATTTCAT
*
7161823 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
7161848 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
7161874 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:7161866 original size:26 final size:24
Alignment explanation
Indices: 7161835--7161883 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
7161825 AATAAAAAAT
*
7161835 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
7161861 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
7161884 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:7181314 original size:22 final size:22
Alignment explanation
Indices: 7181289--7181333 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7181279 TAATTGAAAT
*
7181289 AATCTTCAATACTAGGCAACAA
1 AATCTTCAATACGAGGCAACAA
7181311 AATCTTCAATACGAGGCAACAA
1 AATCTTCAATACGAGGCAACAA
7181333 A
1 A
7181334 TATTTACTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.22, G:0.11, T:0.20
Consensus pattern (22 bp):
AATCTTCAATACGAGGCAACAA
Found at i:7184761 original size:46 final size:44
Alignment explanation
Indices: 7184703--7184875 Score: 147
Period size: 46 Copynumber: 3.8 Consensus size: 44
7184693 GGGCTATTGT
*
7184703 GAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTA-GA
*
7184749 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--CATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT-AGA
* * *
7184794 CGAGTGCTAGTGTAAGACATGTCTAGGACATGCATCGG-CC-TCGAGA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCAT-TAGA
* *
7184840 CGTAAGTCAGTGTAAGACATATCTGGGACATGCATC
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATC
7184876 AGTTACGAGA
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
45 6 0.06
46 55 0.51
47 28 0.26
48 18 0.17
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (44 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGA
Found at i:7184885 original size:46 final size:46
Alignment explanation
Indices: 7184753--7184915 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 46
7184743 TTATGAGAGC
7184753 CAGTGTAAGACCATGTCTGGGACATGGCATCAGCATT-GAGACG-AGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCAGC-TTCGAGACGTAGT
* * *
7184799 GCTAGTGTAAGA-CATGTCTAGGACATGCATCGGCCTCGAGACGTAAGT
1 -C-AGTGTAAGACCATGTCTGGGACATGCATCAGCTTCGAGACGT-AGT
* *
7184847 CAGTGTAAGA-CATATCTGGGACATGCATCAG-TTACGAGATGT-GT
1 CAGTGTAAGACCATGTCTGGGACATGCATCAGCTT-CGAGACGTAGT
7184891 CAGTGTAAGACCATGTCT-GGACATG
1 CAGTGTAAGACCATGTCTGGGACATG
7184916 GCATTAGCAC
Statistics
Matches: 101, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
44 19 0.19
45 8 0.08
46 47 0.47
47 15 0.15
48 12 0.12
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCAGCTTCGAGACGTAGT
Found at i:7185987 original size:28 final size:28
Alignment explanation
Indices: 7185942--7186006 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
7185932 CACGGGCTAA
* * * *
7185942 GACACGGGCGTGTTATGGCCTTGTGAAG
1 GACACGGGCATGTCATGGCCGTGTGAAC
7185970 GACACGGGCATGTCATGGCCGTGTGAAC
1 GACACGGGCATGTCATGGCCGTGTGAAC
7185998 GACACGGGC
1 GACACGGGC
7186007 CAGGTACACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.20, C:0.23, G:0.38, T:0.18
Consensus pattern (28 bp):
GACACGGGCATGTCATGGCCGTGTGAAC
Found at i:7190049 original size:27 final size:27
Alignment explanation
Indices: 7190019--7190081 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
7190009 CTATAATTGA
*
7190019 TTCATATAACCATTTCATATATCTATT
1 TTCATATAACCATTTCATATATCTACT
* *
7190046 TTCATATATCGATTTCATATATCTACT
1 TTCATATAACCATTTCATATATCTACT
7190073 TTCATATAA
1 TTCATATAA
7190082 TTGATTCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (27 bp):
TTCATATAACCATTTCATATATCTACT
Found at i:7190050 original size:14 final size:13
Alignment explanation
Indices: 7189987--7190080 Score: 93
Period size: 13 Copynumber: 7.0 Consensus size: 13
7189977 TATCCAATGT
7189987 TCTATTTCATATA
1 TCTATTTCATATA
*
7190000 TCTATTTCCCTATAA
1 TCTATTT-CATAT-A
7190015 T-TGA-TTCATATA
1 TCT-ATTTCATATA
* *
7190027 ACCATTTCATATA
1 TCTATTTCATATA
7190040 TCTATTTTCATATA
1 TCTA-TTTCATATA
*
7190054 TCGATTTCATATA
1 TCTATTTCATATA
7190067 TCTACTTTCATATA
1 TCTA-TTTCATATA
7190081 ATTGATTCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
12 2 0.03
13 33 0.50
14 28 0.42
15 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (13 bp):
TCTATTTCATATA
Found at i:7190063 original size:40 final size:40
Alignment explanation
Indices: 7189990--7190080 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
7189980 CCAATGTTCT
* *
7189990 ATTTCATATATCTATTTCCCTATAATTGATTCATATAACC
1 ATTTCATATATCTATTTCCATATAATCGATTCATATAACC
* * *
7190030 ATTTCATATATCTATTTTCATAT-ATCGATTTCATATATCT
1 ATTTCATATATCTATTTCCATATAATCGA-TTCATATAACC
7190070 ACTTTCATATA
1 A-TTTCATATA
7190081 ATTGATTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
39 4 0.09
40 31 0.70
41 9 0.20
ACGTcount: A:0.32, C:0.18, G:0.02, T:0.48
Consensus pattern (40 bp):
ATTTCATATATCTATTTCCATATAATCGATTCATATAACC
Found at i:7193245 original size:17 final size:17
Alignment explanation
Indices: 7193186--7193245 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
7193176 TAATAAATTT
*
7193186 AAAATATAATATATAATAA
1 AAAATATAAT-T-TTATAA
7193205 AAAATAT-A-TTTAT-A
1 AAAATATAATTTTATAA
*
7193219 AGAATAATAATTTTATAA
1 AAAAT-ATAATTTTATAA
7193237 AAAATATAA
1 AAAATATAA
7193246 AATGTATTGG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 2 0.06
17 9 0.26
18 6 0.18
19 7 0.21
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATATAATTTTATAA
Found at i:7193783 original size:17 final size:17
Alignment explanation
Indices: 7193730--7193871 Score: 131
Period size: 17 Copynumber: 8.5 Consensus size: 17
7193720 AATCATATCT
7193730 TCTAAGATTGTATATCATA
1 TCTAAGATTG--TATCATA
*
7193749 TCTAAGATTGCAATCATA
1 TCTAAGATTG-TATCATA
7193767 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
7193784 TCTAAGATTG-------
1 TCTAAGATTGTATCATA
7193794 --TAAGATTGTATCATA
1 TCTAAGATTGTATCATA
**
7193809 TCTAAGATTACAATCATA
1 TCTAAGATT-GTATCATA
7193827 TCTAAGATTGTATCATA
1 TCTAAGATTGTATCATA
*
7193844 TCTAAGATTGCATATCACA
1 TCTAAGATTG--TATCATA
7193863 TCTAAGATT
1 TCTAAGATT
7193872 ACATATCATT
Statistics
Matches: 103, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
8 8 0.08
17 39 0.38
18 31 0.30
19 25 0.24
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (17 bp):
TCTAAGATTGTATCATA
Found at i:7193788 original size:35 final size:35
Alignment explanation
Indices: 7193730--7193871 Score: 169
Period size: 35 Copynumber: 4.3 Consensus size: 35
7193720 AATCATATCT
7193730 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
7193767 TCTAAGATTGTATCATATCTAAGATTG--------
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
7193794 --TAAGATTGTATCATATCTAAGATTACAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
7193827 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
7193863 TCTAAGATT
1 TCTAAGATT
7193872 ACATATCATT
Statistics
Matches: 91, Mismatches: 3, Indels: 23
0.78 0.03 0.20
Matches are distributed among these distances:
25 24 0.26
35 43 0.47
36 14 0.15
37 10 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:7193803 original size:25 final size:25
Alignment explanation
Indices: 7193769--7193817 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
7193759 CAATCATATC
7193769 TAAGATTGTATCATATCTAAGATTG
1 TAAGATTGTATCATATCTAAGATTG
7193794 TAAGATTGTATCATATCTAAGATT
1 TAAGATTGTATCATATCTAAGATT
7193818 ACAATCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (25 bp):
TAAGATTGTATCATATCTAAGATTG
Found at i:7193809 original size:60 final size:61
Alignment explanation
Indices: 7193732--7193853 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 61
7193722 TCATATCTTC
*
7193732 TAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 TAAGATTG-ATATCATATCTAAGATTACAATCATATCTAAGATTGTATCATATCTAAGATTG
7193794 TAAGATTG-TATCATATCTAAGATTACAATCATATCTAAGATTGTATCATATCTAAGATTG
1 TAAGATTGATATCATATCTAAGATTACAATCATATCTAAGATTGTATCATATCTAAGATTG
7193854 CATATCACAT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 51 0.86
62 8 0.14
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (61 bp):
TAAGATTGATATCATATCTAAGATTACAATCATATCTAAGATTGTATCATATCTAAGATTG
Found at i:7193825 original size:43 final size:43
Alignment explanation
Indices: 7193751--7193838 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 43
7193741 ATATCATATC
**
7193751 TAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 TAAGATTGCAATCATATCTAAGATTCAATCATATCTAAGATTG
*
7193794 TAAGATTG-TATCATATCTAAGATTACAATCATATCTAAGATTG
1 TAAGATTGCAATCATATCTAAGATT-CAATCATATCTAAGATTG
7193837 TA
1 TA
7193839 TCATATCTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 15 0.37
43 26 0.63
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (43 bp):
TAAGATTGCAATCATATCTAAGATTCAATCATATCTAAGATTG
Found at i:7193876 original size:19 final size:19
Alignment explanation
Indices: 7193730--7193880 Score: 134
Period size: 19 Copynumber: 7.9 Consensus size: 19
7193720 AATCATATCT
**
7193730 TCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATA
*
7193749 TCTAAGATTGCA-ATCATA
1 TCTAAGATTACATATCATA
*
7193767 TCTAAGATT--GTATCATA
1 TCTAAGATTACATATCATA
*
7193784 TCTAAGATTGTAAGATTGTATCATA
1 TCTAAGA-T-T-ACA---TATCATA
7193809 TCTAAGATTACA-ATCATA
1 TCTAAGATTACATATCATA
*
7193827 TCTAAGATT--GTATCATA
1 TCTAAGATTACATATCATA
* *
7193844 TCTAAGATTGCATATCACA
1 TCTAAGATTACATATCATA
7193863 TCTAAGATTACATATCAT
1 TCTAAGATTACATATCAT
7193881 TGAAAATTAT
Statistics
Matches: 111, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
17 28 0.25
18 31 0.28
19 34 0.31
22 2 0.02
23 1 0.01
24 1 0.01
25 14 0.13
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:7201214 original size:57 final size:57
Alignment explanation
Indices: 7201114--7201230 Score: 162
Period size: 57 Copynumber: 2.1 Consensus size: 57
7201104 GTCATTATTC
* * * **
7201114 ACATTTTGACAACATAAATATGCGCATTAAGAGATATTATGACAGTAGCTGTAAATT
1 ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
* * *
7201171 ACATTTGGACAGCATAAATATGCACATTAAGATACATTTTGACAACAGCTGTAAATT
1 ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
7201228 ACA
1 ACA
7201231 AGTGCAAATT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (57 bp):
ACATTTGGACAACATAAATATGCACATTAAGAGACATTATGACAACAGCTGTAAATT
Found at i:7203212 original size:36 final size:36
Alignment explanation
Indices: 7203165--7203242 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
7203155 TGAAAAAGAA
*
7203165 AACTAAAAAAAATAGAGGAGATAGAACATTTTTTTC
1 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
7203201 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
1 AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
7203237 AACTAA
1 AACTAA
7203243 GATTTAGGGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.27
Consensus pattern (36 bp):
AACTAAAAAAAATAGAAGAGATAGAACATTTTTTTC
Found at i:7203560 original size:27 final size:27
Alignment explanation
Indices: 7203505--7203561 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
7203495 TAGTTTAGCC
****
7203505 AATAAATAAATACAAATAGAACTTCAA
1 AATAAATAAATACAAATAGAAAAGAAA
*
7203532 AATAAATAAATACAAATATAAAAGAAA
1 AATAAATAAATACAAATAGAAAAGAAA
7203559 AAT
1 AAT
7203562 CGAATCGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.68, C:0.07, G:0.04, T:0.21
Consensus pattern (27 bp):
AATAAATAAATACAAATAGAAAAGAAA
Found at i:7209640 original size:18 final size:18
Alignment explanation
Indices: 7209617--7209654 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
7209607 AATATATATT
*
7209617 AACCCAAGTATCCAACCC
1 AACCCAAGTACCCAACCC
*
7209635 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
7209653 AA
1 AA
7209655 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.45, G:0.03, T:0.11
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:7209647 original size:13 final size:13
Alignment explanation
Indices: 7209631--7209655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7209621 CAAGTATCCA
7209631 ACCCAACCCAATT
1 ACCCAACCCAATT
7209644 ACCCAACCCAAT
1 ACCCAACCCAAT
7209656 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:7209713 original size:5 final size:6
Alignment explanation
Indices: 7209680--7209720 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
7209670 ATAATTTAAT
*
7209680 AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAA
7209721 CATATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:7211472 original size:30 final size:31
Alignment explanation
Indices: 7211414--7211472 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
7211404 ATTTCTCGAA
*
7211414 ATAAATATTATTTATTAAATTAATTAATTAG
1 ATAAATATTATTTATTAAATTAACTAATTAG
*
7211445 ATAAATTATT-TTT-TTCAATTAACTAATT
1 ATAAA-TATTATTTATTAAATTAACTAATT
7211473 TTCTCAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.52
31 8 0.32
32 4 0.16
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (31 bp):
ATAAATATTATTTATTAAATTAACTAATTAG
Found at i:7211875 original size:16 final size:16
Alignment explanation
Indices: 7211854--7211886 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7211844 TCGATTATTA
*
7211854 ATTATAAATTCATTTC
1 ATTATAAAGTCATTTC
7211870 ATTATAAAGTCATTTC
1 ATTATAAAGTCATTTC
7211886 A
1 A
7211887 CAATAGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTATAAAGTCATTTC
Found at i:7212450 original size:40 final size:39
Alignment explanation
Indices: 7212365--7212457 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 39
7212355 GCGTTTGCCA
*
7212365 AAAAACGCCGCAAAATATCAATATTAGCGGCGCTTATAT
1 AAAAACGCCGCAAAAAATCAATATTAGCGGCGCTTATAT
* * * *
7212404 AGAAAACGCCGCAAAAAAGTGAGA-ATTAGCGGCGTTTTTTT
1 A-AAAACGCCGCAAAAAA-TCA-ATATTAGCGGCGCTTATAT
*
7212445 AAAAACACCGCAA
1 AAAAACGCCGCAA
7212458 TAGGTGACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.02
40 26 0.58
41 17 0.38
42 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (39 bp):
AAAAACGCCGCAAAAAATCAATATTAGCGGCGCTTATAT
Found at i:7213365 original size:14 final size:14
Alignment explanation
Indices: 7213339--7213401 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
7213329 AATGGTTTTT
*
7213339 GGGTTTAAAGTTTA
1 GGGTTTAAGGTTTA
*
7213353 GGG-TTATAGGTTTT
1 GGGTTTA-AGGTTTA
** **
7213367 GTATTTGTGGTTTA
1 GGGTTTAAGGTTTA
7213381 GGGTTTAAGGTTTA
1 GGGTTTAAGGTTTA
7213395 GGGTTTA
1 GGGTTTA
7213402 GGGTCTCAGG
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
13 3 0.08
14 31 0.86
15 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (14 bp):
GGGTTTAAGGTTTA
Found at i:7213387 original size:7 final size:7
Alignment explanation
Indices: 7213375--7213430 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
7213365 TTGTATTTGT
7213375 GGTTTAG
1 GGTTTAG
*
7213382 GGTTTAA
1 GGTTTAG
7213389 GGTTTAG
1 GGTTTAG
7213396 GGTTTAG
1 GGTTTAG
*
7213403 GGTCTCA-
1 GGT-TTAG
7213410 GGTTTAG
1 GGTTTAG
7213417 GGTTTCA-
1 GGTTT-AG
7213424 GGTTTAG
1 GGTTTAG
7213431 AGTATAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 3 0.07
7 35 0.85
8 3 0.07
ACGTcount: A:0.16, C:0.05, G:0.38, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Found at i:7213399 original size:21 final size:21
Alignment explanation
Indices: 7213375--7213429 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
7213365 TTGTATTTGT
7213375 GGTTTAGGGTTTAAGGTTTAG
1 GGTTTAGGGTTTAAGGTTTAG
* *
7213396 GGTTTAGGGTCTCAGGTTTAG
1 GGTTTAGGGTTTAAGGTTTAG
7213417 GGTTTCA-GGTTTA
1 GGTTT-AGGGTTTA
7213430 GAGTATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.16, C:0.05, G:0.36, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGGTTTAG
Found at i:7213475 original size:15 final size:15
Alignment explanation
Indices: 7213455--7213486 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7213445 TTTAATTTAA
7213455 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
7213470 AAGATAAATATATAT
1 AAGATAAATATAAAT
7213485 AA
1 AA
7213487 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:7213511 original size:37 final size:37
Alignment explanation
Indices: 7213461--7213541 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
7213451 TTAAAAGATA
7213461 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
7213498 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
*
7213535 AAAATAA
1 AATATAA
7213542 TATATATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (37 bp):
AATATAAATAAGATAAATATATATAAATTATTATTTT
Found at i:7215527 original size:39 final size:39
Alignment explanation
Indices: 7215473--7215551 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
7215463 AATATGACTG
* *
7215473 TCTTAAATTTGTTATTTTGCTTGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
7215512 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
1 TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
7215551 T
1 T
7215552 TCTGTCAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (39 bp):
TCTTAAATTTGTTATTCTGCATGATTATTTGAGATCTGC
Found at i:7217030 original size:10 final size:10
Alignment explanation
Indices: 7217015--7217043 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
7217005 GTGAGAGTGG
7217015 AGTATGAATA
1 AGTATGAATA
7217025 AGTATGAATA
1 AGTATGAATA
7217035 AGTATGAAT
1 AGTATGAAT
7217044 TAATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (10 bp):
AGTATGAATA
Found at i:7217755 original size:9 final size:9
Alignment explanation
Indices: 7217732--7217832 Score: 85
Period size: 9 Copynumber: 10.6 Consensus size: 9
7217722 ATTGATCATT
*
7217732 ACTTAAATA
1 ACTTACATA
*
7217741 AATTACATA
1 ACTTACATA
7217750 ACTTACATA
1 ACTTACATA
* *
7217759 ACTCATATA
1 ACTTACATA
7217768 ACTTACATA
1 ACTTACATA
*
7217777 ATTTACATAACA
1 ACTTACAT---A
7217789 ACTTACATA
1 ACTTACATA
*
7217798 ACTCACATA
1 ACTTACATA
*
7217807 ACGTACATAACA
1 ACTTACAT---A
7217819 ACTTACATA
1 ACTTACATA
7217828 ACTTA
1 ACTTA
7217833 ACTAATACAT
Statistics
Matches: 73, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
9 57 0.78
12 16 0.22
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:7217793 original size:21 final size:21
Alignment explanation
Indices: 7217749--7217808 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
7217739 TAAATTACAT
*
7217749 AACTTACATAACT--CAT-AT
1 AACTTACATAACTCACATAAC
* *
7217767 AACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAAC
7217788 AACTTACATAACTCACATAAC
1 AACTTACATAACTCACATAAC
7217809 GTACATAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
20 3 0.09
21 20 0.57
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (21 bp):
AACTTACATAACTCACATAAC
Found at i:7217806 original size:30 final size:30
Alignment explanation
Indices: 7217765--7217830 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
7217755 CATAACTCAT
* **
7217765 ATAACTTACATAATTTACATAACAACTTAC
1 ATAACTCACATAACGTACATAACAACTTAC
7217795 ATAACTCACATAACGTACATAACAACTTAC
1 ATAACTCACATAACGTACATAACAACTTAC
7217825 ATAACT
1 ATAACT
7217831 TAACTAATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.23, G:0.02, T:0.29
Consensus pattern (30 bp):
ATAACTCACATAACGTACATAACAACTTAC
Found at i:7217831 original size:39 final size:40
Alignment explanation
Indices: 7217743--7217832 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 40
7217733 CTTAAATAAA
* * **
7217743 TTACATAACTTACATAACTCATATAACTTACATAATTTAC
1 TTACATAACTTACATAACTCACATAACGTACATAATCAAC
* *
7217783 ATA-ACAACTTACATAACTCACATAACGTACATAA-CAAC
1 TTACATAACTTACATAACTCACATAACGTACATAATCAAC
7217821 TTACATAACTTA
1 TTACATAACTTA
7217833 ACTAATACAT
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 4 0.10
39 35 0.85
40 2 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (40 bp):
TTACATAACTTACATAACTCACATAACGTACATAATCAAC
Found at i:7223404 original size:21 final size:21
Alignment explanation
Indices: 7223380--7223425 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7223370 AACTTAGAGA
*
7223380 GGAGGCAGCAGCGC-GGGAGGC
1 GGAGGCAGCAGC-CAAGGAGGC
*
7223401 GGAGGCAGTAGCCAAGGAGGC
1 GGAGGCAGCAGCCAAGGAGGC
7223422 GGAG
1 GGAG
7223426 CAGAACAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.24, C:0.20, G:0.54, T:0.02
Consensus pattern (21 bp):
GGAGGCAGCAGCCAAGGAGGC
Found at i:7223767 original size:43 final size:43
Alignment explanation
Indices: 7223720--7223815 Score: 142
Period size: 43 Copynumber: 2.2 Consensus size: 43
7223710 CTGGGCAAAT
7223720 TAGCGGCGTTTTTTAAAAAAGCGTC-G-TGAAAAGTCCCGGTCTC
1 TAGCGGCGTTTTTTAAAAAAGCG-CAGCT-AAAAGTCCCGGTCTC
* *
7223763 TAGCGGCGTTTTTTAAAAAAGCGCAGCTAAAAGTCTCGGTCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCAGCTAAAAGTCCCGGTCTC
7223806 TAGCGGCGTT
1 TAGCGGCGTT
7223816 ACATATAGCG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
42 1 0.02
43 47 0.96
44 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTTTTAAAAAAGCGCAGCTAAAAGTCCCGGTCTC
Found at i:7225297 original size:29 final size:29
Alignment explanation
Indices: 7225265--7225353 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
7225255 AAAACTTATC
7225265 AAACTATAAAAATATTAAAAAATATATAA
1 AAACTATAAAAATATTAAAAAATATATAA
* *
7225294 AAACTGATATAAA-ATT-ATAAATATTATAA
1 AAACT-ATAAAAATATTAAAAAATA-TATAA
* *
7225323 AAATCTA-ATAAATTATAAAAAAATTATATAA
1 AAA-CTATA-AAAATATTAAAAAA-TATATAA
7225354 CATATTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
28 7 0.15
29 19 0.40
30 10 0.21
31 9 0.19
32 2 0.04
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (29 bp):
AAACTATAAAAATATTAAAAAATATATAA
Found at i:7225312 original size:20 final size:19
Alignment explanation
Indices: 7225246--7225314 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
7225236 TTTTCACTTA
*
7225246 AAAATTAGAAAAACT-TAT
1 AAAATTATAAAAACTATAT
* * *
7225264 CAAACTATAAAAA-TATTAA
1 AAAATTATAAAAACTA-TAT
7225283 AAAATATATAAAAACTGATAT
1 AAAAT-TATAAAAACT-ATAT
7225304 AAAATTATAAA
1 AAAATTATAAA
7225315 TATTATAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 1 0.03
18 10 0.26
19 5 0.13
20 14 0.36
21 8 0.21
22 1 0.03
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATTATAAAAACTATAT
Found at i:7225333 original size:28 final size:27
Alignment explanation
Indices: 7225284--7225341 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
7225274 AAATATTAAA
7225284 AAATATATAAAAACTGATATAAAATTAT
1 AAATATATAAAAACTGATAT-AAATTAT
7225312 AAATATTATAAAAATCT-A-ATAAATTAT
1 AAATA-TATAAAAA-CTGATATAAATTAT
7225339 AAA
1 AAA
7225342 AAAATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 10 0.36
28 7 0.25
29 9 0.32
30 2 0.07
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (27 bp):
AAATATATAAAAACTGATATAAATTAT
Found at i:7225353 original size:20 final size:19
Alignment explanation
Indices: 7225304--7225353 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
7225294 AAACTGATAT
7225304 AAAATTATA-AATATTATA
1 AAAATTATATAATATTATA
7225322 AAAATCTA-ATAA-ATTATAAA
1 AAAAT-TATATAATATTAT--A
7225342 AAAATTATATAA
1 AAAATTATATAA
7225354 CATATTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 11 0.41
19 6 0.22
20 10 0.37
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATTATATAATATTATA
Found at i:7225415 original size:29 final size:31
Alignment explanation
Indices: 7225360--7225423 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 31
7225350 ATAACATATT
* *
7225360 TAAAATTTTATAAAAACGTATGAAAATTCTA
1 TAAAATTTTATAAAAACGCATGAAAATTATA
*
7225391 TAAAA-TTTATAAAAA-GCATTAAAATTATA
1 TAAAATTTTATAAAAACGCATGAAAATTATA
7225420 TAAA
1 TAAA
7225424 CCTATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 15 0.50
30 10 0.33
31 5 0.17
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (31 bp):
TAAAATTTTATAAAAACGCATGAAAATTATA
Found at i:7225423 original size:10 final size:10
Alignment explanation
Indices: 7225269--7225436 Score: 66
Period size: 10 Copynumber: 17.0 Consensus size: 10
7225259 CTTATCAAAC
*
7225269 TATAAAAATA
1 TATAAAATTA
*
7225279 T-TAAAAAATA
1 TAT-AAAATTA
*
7225289 TATAAAAACTGA
1 TAT-AAAA-TTA
7225301 TATAAAATTA
1 TATAAAATTA
*
7225311 TA-AATATTA
1 TATAAAATTA
7225320 TA-AAAATCTA
1 TATAAAAT-TA
7225330 -AT-AAATTA
1 TATAAAATTA
*
7225338 TAAAAAAATTA
1 T-ATAAAATTA
*
7225349 TATAACA-TA
1 TATAAAATTA
* *
7225358 TTTAAAATTT
1 TATAAAATTA
***
7225368 TATAAAAACG
1 TATAAAATTA
*
7225378 TATGAAAATTC
1 TAT-AAAATTA
7225389 TATAAAATT-
1 TATAAAATTA
**
7225398 TATAAAAAGCA
1 TAT-AAAATTA
7225409 T-TAAAATTA
1 TATAAAATTA
**
7225418 TATAAACCTA
1 TATAAAATTA
7225428 TA-AAAATTA
1 TATAAAATTA
7225437 AAAAAATCAT
Statistics
Matches: 119, Mismatches: 26, Indels: 27
0.69 0.15 0.16
Matches are distributed among these distances:
8 2 0.02
9 39 0.33
10 49 0.41
11 25 0.21
12 4 0.03
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (10 bp):
TATAAAATTA
Done.