Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 32 of 182
Found at i:12403800 original size:17 final size:17
Alignment explanation
Indices: 12403778--12403811 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12403768 CAGTTGAAGT
*
12403778 GATTTTTTGTGTAAATG
1 GATTTTTTGGGTAAATG
12403795 GATTTTTTGGGTAAATG
1 GATTTTTTGGGTAAATG
12403812 AATAAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (17 bp):
GATTTTTTGGGTAAATG
Found at i:12413067 original size:15 final size:17
Alignment explanation
Indices: 12413047--12413083 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
12413037 AAGTCCTAAT
*
12413047 AATTAACA-AATTA-AA
1 AATTAACATAATGATAA
12413062 AATTAACATAATGATAA
1 AATTAACATAATGATAA
12413079 AATTA
1 AATTA
12413084 TACTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (17 bp):
AATTAACATAATGATAA
Found at i:12414369 original size:30 final size:30
Alignment explanation
Indices: 12414351--12414417 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
12414341 ACTTGTTTAC
*
12414351 TTAATTATTTATAGTAAAAAAATTTATTAA
1 TTAATTATGTATAGTAAAAAAATTTATTAA
*
12414381 TTAATTATGTATAAGT--TAAAATTTATTAA
1 TTAATTATGTAT-AGTAAAAAAATTTATTAA
*
12414410 AT-ATTATG
1 TTAATTATG
12414418 AAAATGTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 6 0.18
29 13 0.39
30 11 0.33
31 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (30 bp):
TTAATTATGTATAGTAAAAAAATTTATTAA
Found at i:12414426 original size:28 final size:29
Alignment explanation
Indices: 12414369--12414426 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
12414359 TTATAGTAAA
* *
12414369 AAAATTTATTAATTAATTATGTATAAGTT
1 AAAATTTATTAAATAATTATGTAAAAGTT
12414398 AAAATTTATTAAAT-ATTATG-AAAATGTT
1 AAAATTTATTAAATAATTATGTAAAA-GTT
12414426 A
1 A
12414427 GATATTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 3 0.12
28 10 0.38
29 13 0.50
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (29 bp):
AAAATTTATTAAATAATTATGTAAAAGTT
Found at i:12422708 original size:19 final size:19
Alignment explanation
Indices: 12422676--12422715 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12422666 TAATAATTAA
*
12422676 ATATTAAATATTTATTTTT
1 ATATTAAATATTTATTATT
12422695 ATATT-AATATTTTATTATT
1 ATATTAAATA-TTTATTATT
12422714 AT
1 AT
12422716 TTATTTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATTAAATATTTATTATT
Found at i:12433270 original size:47 final size:47
Alignment explanation
Indices: 12433210--12433301 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
12433200 TACAAAAATT
* *
12433210 ATTACTTTTATAAAGAAGCACTAGTTTATTTTTTATATAAAAAAACA
1 ATTACATTGATAAAGAAGCACTAGTTTATTTTTTATATAAAAAAACA
* * *
12433257 ATTACATTGATAAAGGAGCACTAGTTTTTTTTTTTTATAAAAAAA
1 ATTACATTGATAAAGAAGCACTAGTTTATTTTTTATATAAAAAAA
12433302 TAACTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (47 bp):
ATTACATTGATAAAGAAGCACTAGTTTATTTTTTATATAAAAAAACA
Found at i:12436019 original size:17 final size:17
Alignment explanation
Indices: 12435997--12436054 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
12435987 TGGCTTTATG
12435997 TAAAAATATATACAAAT
1 TAAAAATATATACAAAT
*
12436014 TAAAAATATACA-AAAT
1 TAAAAATATATACAAAT
*
12436030 T-AAAATAAATAC-AAT
1 TAAAAATATATACAAAT
12436045 CTAAAAATAT
1 -TAAAAATAT
12436055 GTATTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 11 0.32
16 6 0.18
17 17 0.50
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAATATATACAAAT
Found at i:12436024 original size:15 final size:16
Alignment explanation
Indices: 12435999--12436043 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
12435989 GCTTTATGTA
12435999 AAAATATATACAAATT
1 AAAATATATACAAATT
12436015 AAAA-ATATACAAAATT
1 AAAATATATAC-AAATT
*
12436031 AAAATAAATACAA
1 AAAATATATACAA
12436044 TCTAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATATATACAAATT
Found at i:12436095 original size:16 final size:17
Alignment explanation
Indices: 12436064--12436097 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12436054 TGTATTATAA
12436064 AAAATTATAAAAAAAAT
1 AAAATTATAAAAAAAAT
*
12436081 AAAATT-TACAAAAAAT
1 AAAATTATAAAAAAAAT
12436097 A
1 A
12436098 TAATAGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAATTATAAAAAAAAT
Found at i:12437348 original size:12 final size:12
Alignment explanation
Indices: 12437328--12437358 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12437318 TAAAATAATG
*
12437328 ATATATATATAT
1 ATATTTATATAT
12437340 ATATTTATATAT
1 ATATTTATATAT
12437352 ATATTTA
1 ATATTTA
12437359 GTGAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATATTTATATAT
Found at i:12438261 original size:22 final size:22
Alignment explanation
Indices: 12438236--12438279 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12438226 TTATAGATGA
*
12438236 TTGAAGTTATTTTTCAA-AATAT
1 TTGAA-TTAGTTTTCAATAATAT
*
12438258 TTGAATTGGTTTTCAATAATAT
1 TTGAATTAGTTTTCAATAATAT
12438280 AAATAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (22 bp):
TTGAATTAGTTTTCAATAATAT
Found at i:12443354 original size:16 final size:17
Alignment explanation
Indices: 12443324--12443359 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
12443314 CTATTAGTAA
*
12443324 TTAAAGTAAAGATAATT
1 TTAAAGTAAAAATAATT
12443341 TTAAA-TAAAAATAATT
1 TTAAAGTAAAAATAATT
12443357 TTA
1 TTA
12443360 CTAATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
TTAAAGTAAAAATAATT
Found at i:12445859 original size:20 final size:21
Alignment explanation
Indices: 12445834--12445878 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
12445824 CTCAAATTCT
* *
12445834 AAACCCTAAATACGAA-TCTC
1 AAACCCCAAACACGAAGTCTC
*
12445854 AAACCCCAAACACTAAGTCTC
1 AAACCCCAAACACGAAGTCTC
12445875 AAAC
1 AAAC
12445879 TTTAAACCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.47, C:0.33, G:0.04, T:0.16
Consensus pattern (21 bp):
AAACCCCAAACACGAAGTCTC
Found at i:12445947 original size:21 final size:22
Alignment explanation
Indices: 12445909--12445955 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
12445899 TAGGATTTAA
*
12445909 AGTTCAAGATTCAGGATT-TGG
1 AGTTCAAGATTCAAGATTATGG
12445930 AGTTCAA-AGTTCAAGATTATGG
1 AGTTCAAGA-TTCAAGATTATGG
12445952 -GTTC
1 AGTTC
12445956 GGGGTAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 1 0.04
21 19 0.83
22 3 0.13
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.34
Consensus pattern (22 bp):
AGTTCAAGATTCAAGATTATGG
Found at i:12451050 original size:19 final size:18
Alignment explanation
Indices: 12451015--12451050 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12451005 TTAAAAACAT
*
12451015 AACTAAAGACATGAAAAC
1 AACTAAAGAAATGAAAAC
12451033 AACTAAAGAAATTGAAAA
1 AACTAAAGAAA-TGAAAA
12451051 AATTTAGGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (18 bp):
AACTAAAGAAATGAAAAC
Found at i:12472839 original size:6 final size:6
Alignment explanation
Indices: 12472822--12472855 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
12472812 ATGACTCCCC
*
12472822 AGGCTG AAGCTG AGGCTG AGGCTG AGGCTG AGGC
1 AGGCTG AGGCTG AGGCTG AGGCTG AGGCTG AGGC
12472856 AGGCACCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.21, C:0.18, G:0.47, T:0.15
Consensus pattern (6 bp):
AGGCTG
Found at i:12480712 original size:6 final size:6
Alignment explanation
Indices: 12480689--12480736 Score: 71
Period size: 6 Copynumber: 8.0 Consensus size: 6
12480679 ATGCTGATCT
*
12480689 ATACTA TATACT- ATACTA ATACTA ATACTA ATACTA ATACTG ATACTA
1 ATACTA -ATACTA ATACTA ATACTA ATACTA ATACTA ATACTA ATACTA
12480737 TACAGAGAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 5 0.13
6 28 0.74
7 5 0.13
ACGTcount: A:0.46, C:0.17, G:0.02, T:0.35
Consensus pattern (6 bp):
ATACTA
Found at i:12485753 original size:19 final size:19
Alignment explanation
Indices: 12485731--12485769 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12485721 GTAAAATTTA
*
12485731 ATTT-AAATATATAAATTAT
1 ATTTCAAATAT-TAAAATAT
12485750 ATTTCAAATATTAAAATAT
1 ATTTCAAATATTAAAATAT
12485769 A
1 A
12485770 AGCAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTCAAATATTAAAATAT
Found at i:12500013 original size:31 final size:32
Alignment explanation
Indices: 12499978--12500047 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 32
12499968 ACATAAACTA
*
12499978 TGATTTAATGTGTAATTATATAAAT-AAATTT
1 TGATTTAATATGTAATTATATAAATGAAATTT
* * *
12500009 TGATTT--TATGTATTTTTATACATGAAATTT
1 TGATTTAATATGTAATTATATAAATGAAATTT
12500039 TGATTTAAT
1 TGATTTAAT
12500048 TCAATTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
29 13 0.41
30 12 0.38
31 6 0.19
32 1 0.03
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.53
Consensus pattern (32 bp):
TGATTTAATATGTAATTATATAAATGAAATTT
Found at i:12500514 original size:58 final size:58
Alignment explanation
Indices: 12500409--12500520 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
12500399 TTTAAATTAC
* * * *
12500409 TTTTGATTTACTATAATATACTATATCAATAACAATCAATCTTCTCATAAATAATACA
1 TTTTGATTTACTATAACATACTACATCAATAACAATCAATATCCTCATAAATAATACA
* *** *
12500467 TTTTGATTTGCTATAACATACTACATCAATTGTAATTAATATCCTCATAAATAA
1 TTTTGATTTACTATAACATACTACATCAATAACAATCAATATCCTCATAAATAA
12500521 AGCATGATAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 45 1.00
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.40
Consensus pattern (58 bp):
TTTTGATTTACTATAACATACTACATCAATAACAATCAATATCCTCATAAATAATACA
Found at i:12505427 original size:30 final size:29
Alignment explanation
Indices: 12505354--12505427 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
12505344 GTAAACTATC
12505354 ATTTAATATGCAATTATATATATGAACTTTG
1 ATTTAATA--CAATTATATATATGAACTTTG
** * *
12505385 ATTTTGTACAATTTTATATATGAAATTTTG
1 ATTTAATACAATTATATATATG-AACTTTG
*
12505415 ATTTAATCCAATT
1 ATTTAATACAATT
12505428 CTTGTAAATT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
29 13 0.37
30 16 0.46
31 6 0.17
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (29 bp):
ATTTAATACAATTATATATATGAACTTTG
Found at i:12507285 original size:24 final size:24
Alignment explanation
Indices: 12507232--12507290 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
12507222 AAAACAATAA
* *
12507232 AAAAGATTAAAGGAATAAAAGATTC
1 AAAA-ATTAAAGGAACAAAAGAATC
12507257 AAAAATTAAAGGAACAAAA-AATC
1 AAAAATTAAAGGAACAAAAGAATC
*
12507280 AGAAAAATAAA
1 A-AAAATTAAA
12507291 ACCTGTGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.13
24 22 0.73
25 4 0.13
ACGTcount: A:0.68, C:0.05, G:0.12, T:0.15
Consensus pattern (24 bp):
AAAAATTAAAGGAACAAAAGAATC
Found at i:12508581 original size:42 final size:43
Alignment explanation
Indices: 12508476--12508648 Score: 226
Period size: 42 Copynumber: 4.1 Consensus size: 43
12508466 TTATGAGGAG
* * *
12508476 AAACGCCGCTAAAGAACATGGTCATTAGCGACGCTTATCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
* *
12508519 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTTTTGAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
* * *
12508561 AAATGCCGCTATAGATCATGGTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
* * *
12508604 AAACGCCGCTAAAG-ACATGTTCTTTAGCGACACTTTTC-CAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
12508645 AAAC
1 AAAC
12508649 ACCTTTAACA
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 7 0.06
42 56 0.50
43 50 0.44
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCTCAC
Found at i:12511763 original size:19 final size:21
Alignment explanation
Indices: 12511734--12511783 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
12511724 AAAGGGTAAT
* *
12511734 AGAACAAAGGA-AATCTGAAG
1 AGAACAAAGGAGAAACTAAAG
12511754 AGAA-AAAGGAGAAACTAAAG
1 AGAACAAAGGAGAAACTAAAG
*
12511774 AGAACCAAGG
1 AGAACAAAGG
12511784 GTTAGGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.58, C:0.10, G:0.26, T:0.06
Consensus pattern (21 bp):
AGAACAAAGGAGAAACTAAAG
Found at i:12512618 original size:41 final size:41
Alignment explanation
Indices: 12512573--12512912 Score: 431
Period size: 41 Copynumber: 8.4 Consensus size: 41
12512563 TATTATTGAG
*
12512573 CTTTAGCGGCGC-TTCTTCATAAGCGCCGCTATTGCCCTGAC
1 CTTTAGCGGCGCTTTC-CCATAAGCGCCGCTATTGCCCTGAC
* *
12512614 CTTTAGCGGCGCTTCCCCATAAGCGCCACTATTGCCCT-AC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
* * * *
12512654 CTTTTGCGGCGCTTACCCATAAGCGCCGCTATTTCTCTGAC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
*
12512695 CTTTAGCGGCGCTTTCTCATAAGCGCCGCTATTGCCCT-AC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
* *
12512735 CTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCTGAC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
* *
12512776 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGACTTGAC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
*
12512817 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCT-AC
1 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
* * ** * *
12512857 CTTTTGTGGCGCTTAT-GGAAAAGCGCCGCTATTG-CCTTAC
1 CTTTAGCGGCGCTT-TCCCATAAGCGCCGCTATTGCCCTGAC
* *
12512897 CTTTTGCGGCGTTTTC
1 CTTTAGCGGCGCTTTC
12512913 TGTCTAAACG
Statistics
Matches: 262, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
39 4 0.02
40 114 0.44
41 142 0.54
42 2 0.01
ACGTcount: A:0.15, C:0.34, G:0.21, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTGCCCTGAC
Found at i:12512928 original size:81 final size:81
Alignment explanation
Indices: 12512573--12512912 Score: 470
Period size: 81 Copynumber: 4.2 Consensus size: 81
12512563 TATTATTGAG
* * * *
12512573 CTTTAGCGGCGC-TTCTTCATAAGCGCCGCTATTGCCCTGACCTTTAGCGGCGCTTCCCCATAAG
1 CTTTTGCGGCGCTTTC-CCATAAGCGCCGCTATTTCCCTGACCTTTAGCGGCGCTTTCCCATAAG
*
12512637 CGCCACTATTGCCCTAC
65 CGCCGCTATTGCCCTAC
* * *
12512654 CTTTTGCGGCGCTTACCCATAAGCGCCGCTATTTCTCTGACCTTTAGCGGCGCTTTCTCATAAGC
1 CTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCTGACCTTTAGCGGCGCTTTCCCATAAGC
12512719 GCCGCTATTGCCCTAC
66 GCCGCTATTGCCCTAC
12512735 CTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCTGACCTTTAGCGGCGCTTTCCCATAAGC
1 CTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCTGACCTTTAGCGGCGCTTTCCCATAAGC
* *
12512800 GCCGCTATTGACTTGAC
66 GCCGCTATTGCCCT-AC
* * * ** *
12512817 CTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCT-ACCTTTTGTGGCGCTTAT-GGAAAAG
1 CTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCTGACCTTTAGCGGCGCTT-TCCCATAAG
*
12512880 CGCCGCTATTGCCTTAC
65 CGCCGCTATTGCCCTAC
*
12512897 CTTTTGCGGCGTTTTC
1 CTTTTGCGGCGCTTTC
12512913 TGTCTAAACG
Statistics
Matches: 234, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
80 16 0.07
81 176 0.75
82 42 0.18
ACGTcount: A:0.15, C:0.34, G:0.21, T:0.31
Consensus pattern (81 bp):
CTTTTGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCTGACCTTTAGCGGCGCTTTCCCATAAGC
GCCGCTATTGCCCTAC
Found at i:12512928 original size:122 final size:119
Alignment explanation
Indices: 12512563--12512912 Score: 461
Period size: 122 Copynumber: 2.9 Consensus size: 119
12512553 TATAAGTTTT
* *
12512563 TATTA-TTGAGCTTTAGCGGCGC-TTCTTCATAAGCGCCGCTATTGCCCTGACCTTTAGCGGCGC
1 TATTACTTGACCTTTAGCGGCGCTTTC-TCATAAGCGCCGCTATTGCCCT-ACCTTTTGCGGCGC
* * * *
12512626 TTCCCCATAAGCGCCACTATTGCCCTACCTTTTGCGGCGCTTACCCATAAGCGCCGC
64 TT-TCCATAAGCGCCGCTATTGCCTTACCTTTTGCGGCGCTTTCCCATAAGCGCCGC
*
12512683 TATTTCTCTGACCTTTAGCGGCGCTTTCTCATAAGCGCCGCTATTGCCCTACCTTTTGCGGCGCT
1 TATTACT-TGACCTTTAGCGGCGCTTTCTCATAAGCGCCGCTATTGCCCTACCTTTTGCGGCGCT
* * *
12512748 TTCCCATAAGCGCCGCTATTTCCCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGC
65 TT-CCATAAGCGCCGCTA-TTGCCTTACCTTTTGCGGCGCTTTCCCATAAGCGCCGC
* * *
12512805 TATTGACTTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTATTTCCCTACCTTTTGTGGCGCT
1 TATT-ACTTGACCTTTAGCGGCGCTTTCTCATAAGCGCCGCTATTGCCCTACCTTTTGCGGCGCT
** * *
12512870 TATGGAAAAGCGCCGCTATTGCCTTACCTTTTGCGGCGTTTTC
65 T-TCCATAAGCGCCGCTATTGCCTTACCTTTTGCGGCGCTTTC
12512913 TGTCTAAACG
Statistics
Matches: 202, Mismatches: 21, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
120 4 0.02
121 51 0.25
122 141 0.70
123 6 0.03
ACGTcount: A:0.15, C:0.33, G:0.21, T:0.31
Consensus pattern (119 bp):
TATTACTTGACCTTTAGCGGCGCTTTCTCATAAGCGCCGCTATTGCCCTACCTTTTGCGGCGCTT
TCCATAAGCGCCGCTATTGCCTTACCTTTTGCGGCGCTTTCCCATAAGCGCCGC
Found at i:12513281 original size:58 final size:58
Alignment explanation
Indices: 12513186--12513302 Score: 135
Period size: 58 Copynumber: 2.0 Consensus size: 58
12513176 TTTAAACTAC
* * * * ***
12513186 TTTTGATTTACTATAATATAGTATATCAATAACAATCAATCTTTTCATAAATAAAACA
1 TTTTGATTTACTATAACATACTAGATCAATAACAATCAATATCCCCATAAATAAAACA
* ***
12513244 TTTTGATTTGCTATAACATACTAGATCAATTGTAATCAATATCCCCATAAATAAAACA
1 TTTTGATTTACTATAACATACTAGATCAATAACAATCAATATCCCCATAAATAAAACA
12513302 T
1 T
12513303 GATAATTAGC
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.38
Consensus pattern (58 bp):
TTTTGATTTACTATAACATACTAGATCAATAACAATCAATATCCCCATAAATAAAACA
Found at i:12513648 original size:27 final size:25
Alignment explanation
Indices: 12513625--12513675 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
12513615 ATTTTATTAA
12513625 ATTTTAAACTAAATTATTATTTATT
1 ATTTTAAACTAAATTATTATTTATT
* *
12513650 -TTTTACAGTAAATTATTA-TTATT
1 ATTTTAAACTAAATTATTATTTATT
12513673 ATT
1 ATT
12513676 ATTATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (25 bp):
ATTTTAAACTAAATTATTATTTATT
Found at i:12513669 original size:3 final size:3
Alignment explanation
Indices: 12513661--12513686 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
12513651 TTTACAGTAA
12513661 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
12513687 ATTTAATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:12522275 original size:24 final size:24
Alignment explanation
Indices: 12522243--12522344 Score: 77
Period size: 24 Copynumber: 4.4 Consensus size: 24
12522233 GCGAATTTTA
12522243 TAAAAATATTATTTAAATAAAAAT
1 TAAAAATATTATTTAAATAAAAAT
* *
12522267 T-AAAA-A-TATTTAAATATATA-
1 TAAAAATATTATTTAAATAAAAAT
*** *** **
12522287 TACGTATATTATTTAAATTTTACC
1 TAAAAATATTATTTAAATAAAAAT
*
12522311 AAAAAATATTATTTAAATAAAAAT
1 TAAAAATATTATTTAAATAAAAAT
12522335 TAAAAATATT
1 TAAAAATATT
12522345 TAATAGTCAC
Statistics
Matches: 55, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
20 1 0.02
21 13 0.24
22 2 0.04
23 14 0.25
24 25 0.45
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (24 bp):
TAAAAATATTATTTAAATAAAAAT
Found at i:12526485 original size:22 final size:20
Alignment explanation
Indices: 12526444--12526485 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
12526434 GAAAATGATA
*
12526444 AAAAAATATTAAATTTTAAT
1 AAAAAATATTAAATTATAAT
12526464 AAAAAATATATAAATATATAAT
1 AAAAAATAT-TAAAT-TATAAT
12526486 CTTTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 5 0.26
22 5 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATATTAAATTATAAT
Found at i:12526530 original size:27 final size:27
Alignment explanation
Indices: 12526445--12526531 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
12526435 AAAATGATAA
* *
12526445 AAAAATATTAAATTTTAATAAAAAATAT
1 AAAAAT-TTAAATTTTTATAAAAATTAT
* * * *
12526473 ATAAATATATAATCTTT-TAAAAATTAG
1 AAAAATTTA-AATTTTTATAAAAATTAT
12526500 AAAAATTTAAATTTTTATAAAAATTAT
1 AAAAATTTAAATTTTTATAAAAATTAT
12526527 AAAAA
1 AAAAA
12526532 ATATTATAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
26 6 0.13
27 31 0.66
28 10 0.21
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (27 bp):
AAAAATTTAAATTTTTATAAAAATTAT
Found at i:12526757 original size:33 final size:32
Alignment explanation
Indices: 12526699--12526760 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
12526689 AATCTGTTAT
* *
12526699 TTTCTTATTATTTTCTCACTGTTTTGTTACTG
1 TTTCTTATTATTTACTCACTATTTTGTTACTG
12526731 TTTCATTATTATGTTACT-ACTATTTTGTTA
1 TTTC-TTATTAT-TTACTCACTATTTTGTTA
12526761 TTATTGTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 4 0.15
33 18 0.69
34 4 0.15
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (32 bp):
TTTCTTATTATTTACTCACTATTTTGTTACTG
Found at i:12527827 original size:33 final size:30
Alignment explanation
Indices: 12527790--12527856 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 30
12527780 AAAATATGCT
*
12527790 TAAATAA-TACTAAAATAAGTACAACTTAACAAA
1 TAAATAACT-CTAAAAT-AGTA-AAATTAA-AAA
12527823 TAAATAACTCTAAAATAGTAAAATTAAAAA
1 TAAATAACTCTAAAATAGTAAAATTAAAAA
12527853 TAAA
1 TAAA
12527857 CCCAAAATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 7 0.22
31 6 0.19
32 4 0.12
33 14 0.44
34 1 0.03
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.25
Consensus pattern (30 bp):
TAAATAACTCTAAAATAGTAAAATTAAAAA
Found at i:12532796 original size:30 final size:29
Alignment explanation
Indices: 12532750--12532807 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
12532740 TTTATTTTAT
*
12532750 TTTAAATATATTTTTATTAGGATTTAATA
1 TTTAAAGATATTTTTATTAGGATTTAATA
* *
12532779 TTTAAAGATATTATTTATTTGTATTTAAT
1 TTTAAAGATATT-TTTATTAGGATTTAAT
12532808 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (29 bp):
TTTAAAGATATTTTTATTAGGATTTAATA
Found at i:12538689 original size:16 final size:16
Alignment explanation
Indices: 12538668--12538698 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12538658 CATATTAGAG
12538668 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
12538684 CATATATATTTGAAA
1 CATATAAATTTGAAA
12538699 ATATTTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:12538806 original size:26 final size:26
Alignment explanation
Indices: 12538777--12538830 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
12538767 GTCTTCAAAA
12538777 TTATTACCCTAGAAAATTTTTAATTT
1 TTATTACCCTAGAAAATTTTTAATTT
*
12538803 TTATTACCCTAGAAAATTTTTATTTT
1 TTATTACCCTAGAAAATTTTTAATTT
12538829 TT
1 TT
12538831 TTCTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.54
Consensus pattern (26 bp):
TTATTACCCTAGAAAATTTTTAATTT
Found at i:12539335 original size:27 final size:24
Alignment explanation
Indices: 12539273--12539336 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
12539263 GATTATATAA
* *
12539273 AAAATTTAATAAATAATAAATGTAT
1 AAAA-TTATTAAATAATAAATGAAT
12539298 AAAATTATTAAATAATAAAATAGAAT
1 AAAATTATTAAATAAT-AAAT-GAAT
*
12539324 AAATATTTTTAAA
1 AAA-ATTATTAAA
12539337 AATTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 11 0.33
25 8 0.24
26 6 0.18
27 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (24 bp):
AAAATTATTAAATAATAAATGAAT
Found at i:12545009 original size:176 final size:175
Alignment explanation
Indices: 12544716--12545068 Score: 652
Period size: 176 Copynumber: 2.0 Consensus size: 175
12544706 GCATAGAGAG
12544716 AGCTTATGCCAGCGCAACTATGTCTATTTTTCTTCCCTTTTTTTGGCTACCAGACTACAATTATT
1 AGCTTATGCCAGCGCAACTATGTCTATTTTTCTTCCCTTTTTTTGGCTACCAGACTACAATTATT
* *
12544781 GTAGCTTTTGACACAGTCAAAGATATGGCCCTTGATTTGTCCTAATTTTTCCTACACTAGTTTCG
66 GTAGCTTTTGACACAGTCAAAGACATGGCCCTTGAATTGTCCTAATTTTTCCTACACTAGTTTCG
*
12544846 CAGAAATGATATGGATGGCGACTTGTCTTTGGAAACTTACTTTAA
131 CAGAAATGATATGGATGCCGACTTGTCTTTGGAAACTTACTTTAA
* *
12544891 AGCTTATGCCAGGGCAACTATGTCTATTTTTCTTCCTTTTTTTTTGGCTACCAGACTACAATTAT
1 AGCTTATGCCAGCGCAACTATGTCTATTTTTCTTCC-CTTTTTTTGGCTACCAGACTACAATTAT
12544956 TGTAGCTTTTGACACAGTCAAAGACATGGCCCTTGAATTGTCCTAATTTTTCCTACACTAGTTTC
65 TGTAGCTTTTGACACAGTCAAAGACATGGCCCTTGAATTGTCCTAATTTTTCCTACACTAGTTTC
12545021 GCAGAAATGATATGGATGCCGACTTGTCTTTGGAAACTTACTTTAA
130 GCAGAAATGATATGGATGCCGACTTGTCTTTGGAAACTTACTTTAA
12545067 AG
1 AG
12545069 TCAACCCTAT
Statistics
Matches: 172, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
175 35 0.20
176 137 0.80
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (175 bp):
AGCTTATGCCAGCGCAACTATGTCTATTTTTCTTCCCTTTTTTTGGCTACCAGACTACAATTATT
GTAGCTTTTGACACAGTCAAAGACATGGCCCTTGAATTGTCCTAATTTTTCCTACACTAGTTTCG
CAGAAATGATATGGATGCCGACTTGTCTTTGGAAACTTACTTTAA
Found at i:12560210 original size:12 final size:12
Alignment explanation
Indices: 12560193--12560222 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12560183 AAATGCTTTG
*
12560193 AAAGATAATGAT
1 AAAGATAAGGAT
12560205 AAAGATAAGGAT
1 AAAGATAAGGAT
12560217 AAAGAT
1 AAAGAT
12560223 GAATATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (12 bp):
AAAGATAAGGAT
Found at i:12560803 original size:20 final size:19
Alignment explanation
Indices: 12560775--12560823 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
12560765 CCACGTCAAC
* *
12560775 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAAATA-TA
12560795 AAATTATTTTTTAAAAATATA
1 AAATTA--TTTTAAAAATATA
12560816 AAATTATT
1 AAATTATT
12560824 AAAATTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 5 0.20
21 8 0.32
22 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AAATTATTTTAAAAATATA
Found at i:12560817 original size:21 final size:22
Alignment explanation
Indices: 12560781--12560823 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
12560771 CAACAAATGA
*
12560781 TTTTAAAATTATTAAAATTATT
1 TTTTAAAAATATTAAAATTATT
12560803 TTTTAAAAATA-TAAAATTATT
1 TTTTAAAAATATTAAAATTATT
12560824 AAAATTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAAATATTAAAATTATT
Found at i:12560843 original size:28 final size:30
Alignment explanation
Indices: 12560784--12560844 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
12560774 CAAATGATTT
*
12560784 TAAAATTATTAAAATTATTTTTTAAAAATA
1 TAAAATTATTAAAATTATGTTTTAAAAATA
*
12560814 TAAAATTATTAAAA-T-TGTTTTAAAATTA
1 TAAAATTATTAAAATTATGTTTTAAAAATA
12560842 TAA
1 TAA
12560845 TCATCATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 14 0.48
29 1 0.03
30 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
TAAAATTATTAAAATTATGTTTTAAAAATA
Found at i:12561552 original size:15 final size:16
Alignment explanation
Indices: 12561532--12561570 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
12561522 TAATGATGAT
12561532 TTTAAAAA-TTTTATA
1 TTTAAAAATTTTTATA
12561547 TTTAAAAATTTTTATA
1 TTTAAAAATTTTTATA
12561563 TTTAAAAA
1 TTTAAAAA
12561571 AATTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTAAAAATTTTTATA
Found at i:12561591 original size:15 final size:16
Alignment explanation
Indices: 12561532--12561591 Score: 70
Period size: 15 Copynumber: 3.9 Consensus size: 16
12561522 TAATGATGAT
12561532 TTTAAAAATTTT-ATA
1 TTTAAAAATTTTAATA
*
12561547 TTTAAAAATTTTTATA
1 TTTAAAAATTTTAATA
**
12561563 TTTAAAAAAATTAAT-
1 TTTAAAAATTTTAATA
*
12561578 TTTAATAATTTTAA
1 TTTAAAAATTTTAA
12561592 AATCATTTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
15 23 0.61
16 15 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAAAATTTTAATA
Found at i:12561973 original size:29 final size:28
Alignment explanation
Indices: 12561911--12561967 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
12561901 TCCAAAACTA
*
12561911 TACATTAACTATGATTTAATGTGTAATTT
1 TACATGAACTATGATTT-ATGTGTAATTT
12561940 TACATGAACTATGATTT-TGTGTAATTT
1 TACATGAACTATGATTTATGTGTAATTT
12561967 T
1 T
12561968 GTACATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 11 0.41
29 16 0.59
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (28 bp):
TACATGAACTATGATTTATGTGTAATTT
Found at i:12561987 original size:29 final size:27
Alignment explanation
Indices: 12561911--12561986 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 27
12561901 TCCAAAACTA
* *
12561911 TACATTAACTATGATTTAATGTGTAATTT
1 TACATAAAATATGATTT--TGTGTAATTT
* *
12561940 TACATGAACTATGATTTTGTGTAATTTT
1 TACATAAAATATGATTTTGTGTAA-TTT
12561968 GTACATAAAATATTGATTT
1 -TACATAAAATA-TGATTT
12561987 GATACAATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 7 0.17
28 3 0.07
29 25 0.61
30 6 0.15
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (27 bp):
TACATAAAATATGATTTTGTGTAATTT
Found at i:12562201 original size:29 final size:30
Alignment explanation
Indices: 12562159--12562215 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
12562149 CTTGAATTAC
* * *
12562159 AATTAGAGTTTCATGTGTATAATTGCACCA
1 AATTAAAGTTTCATGTATACAATTGCACCA
12562189 AATTAAAG-TTCATGTATACAATTGCAC
1 AATTAAAGTTTCATGTATACAATTGCAC
12562216 AATAAATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (30 bp):
AATTAAAGTTTCATGTATACAATTGCACCA
Found at i:12567831 original size:28 final size:28
Alignment explanation
Indices: 12567782--12567838 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
12567772 CTAACTTTCT
*
12567782 ATCAAACGATTTTCTTTGTTATATTTGA
1 ATCAAACGATTTTCTTTATTATATTTGA
*
12567810 ATCAAACGATCTTT-TTTATTATCTTTGA
1 ATCAAACGAT-TTTCTTTATTATATTTGA
12567838 A
1 A
12567839 CCCTGATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (28 bp):
ATCAAACGATTTTCTTTATTATATTTGA
Found at i:12583779 original size:27 final size:28
Alignment explanation
Indices: 12583710--12583801 Score: 85
Period size: 32 Copynumber: 3.0 Consensus size: 28
12583700 TTAAATTTTT
*
12583710 TTAAAAAAAATCAAATTTAAGTACCAAA
1 TTAAAAAATATCAAATTTAAGTACCAAA
*
12583738 TTAAGAAAAAAATATCAAATTTAAGTATCAAA
1 TT----AAAAAATATCAAATTTAAGTACCAAA
* *
12583770 TTAAAAATATATATCAAATTCAAGTTCCAAA
1 TT-AAAA-A-ATATCAAATTTAAGTACCAAA
12583801 T
1 T
12583802 ATTACATTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
28 2 0.04
29 5 0.09
30 1 0.02
31 19 0.36
32 26 0.49
ACGTcount: A:0.57, C:0.10, G:0.04, T:0.29
Consensus pattern (28 bp):
TTAAAAAATATCAAATTTAAGTACCAAA
Found at i:12583787 original size:31 final size:32
Alignment explanation
Indices: 12583712--12583801 Score: 121
Period size: 31 Copynumber: 2.9 Consensus size: 32
12583702 AAATTTTTTT
12583712 AAAAAAA-ATCAAATTTAAGTACCAAATTAAG
1 AAAAAAATATCAAATTTAAGTACCAAATTAAG
*
12583743 AAAAAAATATCAAATTTAAGTATCAAATTAA-
1 AAAAAAATATCAAATTTAAGTACCAAATTAAG
* * * *
12583774 AAATATATATCAAATTCAAGTTCCAAAT
1 AAAAAAATATCAAATTTAAGTACCAAAT
12583802 ATTACATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 30 0.58
32 22 0.42
ACGTcount: A:0.58, C:0.10, G:0.04, T:0.28
Consensus pattern (32 bp):
AAAAAAATATCAAATTTAAGTACCAAATTAAG
Found at i:12595925 original size:19 final size:18
Alignment explanation
Indices: 12595882--12595925 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12595872 ATTTTTTTGG
*
12595882 AATTTTTATAAATATTTT
1 AATTTTTAAAAATATTTT
*
12595900 AAATTTTAAAAATGATTTT
1 AATTTTTAAAAAT-ATTTT
*
12595919 GATTTTT
1 AATTTTT
12595926 TTTTGTAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
AATTTTTAAAAATATTTT
Found at i:12596431 original size:11 final size:11
Alignment explanation
Indices: 12596415--12596440 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12596405 TATTTGTTAC
12596415 ATTATAAAAAT
1 ATTATAAAAAT
12596426 ATTATAAAAAT
1 ATTATAAAAAT
12596437 ATTA
1 ATTA
12596441 AACTTTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATTATAAAAAT
Found at i:12607517 original size:36 final size:36
Alignment explanation
Indices: 12607474--12607636 Score: 191
Period size: 36 Copynumber: 4.3 Consensus size: 36
12607464 ACTGCCGCCA
12607474 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
* *
12607510 CCTGCTCCACTTATTCCAAACCCCTTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
* *
12607546 CCAGCTCCTCTTATTCCAAACCCTTTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
*
12607582 CCAGCACCACCGGCTCCACTTATTCCAAACCCTTTTCAGCCTCCT
1 ------CCA---GCTCCACTTATTCCAAACCCATTTCAGCCTCCT
*
12607627 CCAGCACCAC
1 CCAGCTCCAC
12607637 CGGCTCCACT
Statistics
Matches: 111, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
36 73 0.66
39 3 0.03
42 3 0.03
45 32 0.29
ACGTcount: A:0.20, C:0.47, G:0.07, T:0.27
Consensus pattern (36 bp):
CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
Found at i:12607725 original size:45 final size:45
Alignment explanation
Indices: 12607543--12607730 Score: 277
Period size: 45 Copynumber: 4.2 Consensus size: 45
12607533 CTTTCAGCCT
* *
12607543 CCTCCAGCTCCTCTTATTCCAAACCCTTTTCAGCCTCCTCCAGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCA
* * *
12607588 CCACCGGCTCCACTTATTCCAAACCCTTTTCAGCCTCCTCCAGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCA
* * *
12607633 CCACCGGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCA
* * *
12607678 CCTCCAGCTCCATTTATTCCAAACCCCTTCCAGCCTCCTCCGGCA
1 CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCA
12607723 CCTCCAGC
1 CCTCCAGC
12607731 ACCTCCAGCA
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 133 1.00
ACGTcount: A:0.18, C:0.49, G:0.09, T:0.24
Consensus pattern (45 bp):
CCTCCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCA
Found at i:12616581 original size:22 final size:22
Alignment explanation
Indices: 12616556--12616599 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
12616546 ACAAAAGCGT
*
12616556 ACAAA-TATTTTTAAATAATAAA
1 ACAAATTATTTATAAA-AATAAA
12616578 ACAAATTATTTATAAAAATAAA
1 ACAAATTATTTATAAAAATAAA
12616600 TTTTCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (22 bp):
ACAAATTATTTATAAAAATAAA
Found at i:12627016 original size:20 final size:20
Alignment explanation
Indices: 12626993--12627030 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12626983 AATATAATTA
12626993 TATTTTATTAAATTATATAT
1 TATTTTATTAAATTATATAT
*
12627013 TATTTTATTAAGTTATAT
1 TATTTTATTAAATTATAT
12627031 TTAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (20 bp):
TATTTTATTAAATTATATAT
Found at i:12627291 original size:16 final size:16
Alignment explanation
Indices: 12627269--12627308 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
12627259 TGAATTACTG
12627269 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
* **
12627285 TTTACAGTTCTATTCC
1 ATTACAGCCCTATTCC
12627301 ATTACAGC
1 ATTACAGC
12627309 GAACCAAATG
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:12631675 original size:14 final size:15
Alignment explanation
Indices: 12631635--12631668 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12631625 CTATCGCGAA
*
12631635 TTTATTAATTTATAT
1 TTTAATAATTTATAT
12631650 TTTAATAATTTAT-T
1 TTTAATAATTTATAT
12631664 TTTAA
1 TTTAA
12631669 AAGTTTACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTAATAATTTATAT
Found at i:12635091 original size:2 final size:2
Alignment explanation
Indices: 12635086--12635113 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12635076 AAGAAGCAAA
12635086 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
12635114 GAGGAAGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:12635605 original size:20 final size:19
Alignment explanation
Indices: 12635572--12635619 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
12635562 AAATTTTTTG
* *
12635572 TAAAATTTAATTTAAATAT
1 TAAAATATATTTTAAATAT
* *
12635591 ATAAACTATATTTTAGATAT
1 -TAAAATATATTTTAAATAT
12635611 TAAAATATA
1 TAAAATATA
12635620 ATCATTACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAATATATTTTAAATAT
Found at i:12636672 original size:20 final size:19
Alignment explanation
Indices: 12636625--12636673 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
12636615 TTTCAAAATA
*
12636625 AAATATTTAA-TTTTTATT
1 AAATTTTTAAGTTTTTATT
*
12636643 -AATTTATAAGTTTTTATT
1 AAATTTTTAAGTTTTTATT
12636661 CAAATTTTTAAGT
1 -AAATTTTTAAGT
12636674 ATACTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 7 0.28
18 8 0.32
20 10 0.40
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
AAATTTTTAAGTTTTTATT
Found at i:12642519 original size:21 final size:21
Alignment explanation
Indices: 12642472--12642526 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
12642462 ATAGTGCAAG
12642472 CTTCTACCAATACAAGTGACA
1 CTTCTACCAATACAAGTGACA
** * *
12642493 GGTCTACCGATACAAGTGACT
1 CTTCTACCAATACAAGTGACA
*
12642514 CTTCTATCAATAC
1 CTTCTACCAATAC
12642527 TAAAAACTCT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (21 bp):
CTTCTACCAATACAAGTGACA
Found at i:12643263 original size:51 final size:52
Alignment explanation
Indices: 12643191--12643375 Score: 187
Period size: 52 Copynumber: 3.6 Consensus size: 52
12643181 TTCATATTAA
** * * *
12643191 ATACT-ACAATGACACAAAGTCATCGGACCT-TTACTTCGTTAAA-GAATCAT
1 ATACTCACAATGACACGTAGTCATCGGACCTCATAATTCG-TAAAGGATTCAT
*
12643241 ATACTCACAATGACACGTAGTCATCGGGCCTCATAATTCGTAAAGGATTCAT
1 ATACTCACAATGACACGTAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
** * * * * * *
12643293 ATACTCATGAGGACAAGTAATCATCAGACCTCATAATCCGTAAATGATTCAT
1 ATACTCACAATGACACGTAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
* * *
12643345 ATACTCACGATGACACGTAGTAATCGAACCT
1 ATACTCACAATGACACGTAGTCATCGGACCT
12643376 TTTCATTTAC
Statistics
Matches: 110, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
50 5 0.05
51 26 0.24
52 79 0.72
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (52 bp):
ATACTCACAATGACACGTAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
Found at i:12651177 original size:21 final size:22
Alignment explanation
Indices: 12651134--12651177 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
12651124 TTTTCCTTCA
*
12651134 TTTAAATTATATACGGTTTTTT
1 TTTAAATTATATACGGTTATTT
* *
12651156 TTTAAA-TATTTATGGTTATTT
1 TTTAAATTATATACGGTTATTT
12651177 T
1 T
12651178 GAAGCTGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTAAATTATATACGGTTATTT
Found at i:12682667 original size:24 final size:23
Alignment explanation
Indices: 12682623--12682667 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
12682613 GGTACTGTAG
*
12682623 TTCATTTCATGTTATTTTGGTAT
1 TTCATTTCATGTTATTATGGTAT
* *
12682646 TTCATATTCTTGTTCTTATGGT
1 TTCAT-TTCATGTTATTATGGT
12682668 CCATTTCAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.16, C:0.11, G:0.13, T:0.60
Consensus pattern (23 bp):
TTCATTTCATGTTATTATGGTAT
Found at i:12687691 original size:1 final size:1
Alignment explanation
Indices: 12687685--12687723 Score: 78
Period size: 1 Copynumber: 39.0 Consensus size: 1
12687675 CGATATCTCC
12687685 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
12687724 AAGGATATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:12699894 original size:12 final size:13
Alignment explanation
Indices: 12699864--12699895 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
12699854 CATTATCGAT
12699864 ATTTTTTAAAAGC
1 ATTTTTTAAAAGC
*
12699877 ATTTTTTAAAAGT
1 ATTTTTTAAAAGC
12699890 ATTTTT
1 ATTTTT
12699896 CAACCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.56
Consensus pattern (13 bp):
ATTTTTTAAAAGC
Found at i:12700340 original size:55 final size:56
Alignment explanation
Indices: 12700275--12700418 Score: 159
Period size: 55 Copynumber: 2.6 Consensus size: 56
12700265 TTAAAAGTGC
* * **
12700275 AAAATTAATTATGAAAATAGGTGTTTTTAAAAATAATTATTAAAATAGGTGCTTTT-
1 AAAA-TAATTATGAAAACAGGTGTTTTTAAAAATAAATAAGAAAATAGGTGCTTTTG
* * * * *
12700331 AAAATAATTATGAAAAGAAGTGTTATT-AAAATAAATAAGAAAATTGGTGTTTTTG
1 AAAATAATTATGAAAACAGGTGTTTTTAAAAATAAATAAGAAAATAGGTGCTTTTG
* *
12700386 AAAAAAATTATGAAAACAGGTG-ATTTAAAAATA
1 AAAATAATTATGAAAACAGGTGTTTTTAAAAATA
12700419 GTTACGGATT
Statistics
Matches: 73, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
54 24 0.33
55 45 0.62
56 4 0.05
ACGTcount: A:0.50, C:0.01, G:0.14, T:0.35
Consensus pattern (56 bp):
AAAATAATTATGAAAACAGGTGTTTTTAAAAATAAATAAGAAAATAGGTGCTTTTG
Found at i:12700346 original size:27 final size:27
Alignment explanation
Indices: 12700275--12700418 Score: 153
Period size: 27 Copynumber: 5.2 Consensus size: 27
12700265 TTAAAAGTGC
12700275 AAAATTAATTATGAAAATAGGTGTTTTT
1 AAAA-TAATTATGAAAATAGGTGTTTTT
* *
12700303 AAAAATAATTATTAAAATAGGTGCTTTT
1 -AAAATAATTATGAAAATAGGTGTTTTT
* * *
12700331 AAAATAATTATGAAAAGAAGTGTTATT
1 AAAATAATTATGAAAATAGGTGTTTTT
* * *
12700358 AAAATAAATAAGAAAATTGGTGTTTTT
1 AAAATAATTATGAAAATAGGTGTTTTT
* * * *
12700385 GAAAAAAATTATGAAAACAGGTGATTTA
1 -AAAATAATTATGAAAATAGGTGTTTTT
12700413 AAAATA
1 AAAATA
12700419 GTTACGGATT
Statistics
Matches: 93, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
27 48 0.52
28 41 0.44
29 4 0.04
ACGTcount: A:0.50, C:0.01, G:0.14, T:0.35
Consensus pattern (27 bp):
AAAATAATTATGAAAATAGGTGTTTTT
Found at i:12700451 original size:28 final size:28
Alignment explanation
Indices: 12700408--12700926 Score: 377
Period size: 28 Copynumber: 18.8 Consensus size: 28
12700398 AAAACAGGTG
* *
12700408 ATTTAAAAATAGTTACGGA-TTAGGAAA
1 ATTTTAAAATAATTACGGATTTAGGAAA
12700435 ATTTTATAAATAATTAC-G-TTGTAGGAAA
1 ATTTTA-AAATAATTACGGATT-TAGGAAA
* *
12700463 ATGTTAAAAATAAGTATC--ATTTAGG-AA
1 AT-TTTAAAATAATTA-CGGATTTAGGAAA
* *
12700490 ATTTTAAAAATAATTA-TGACTTAGGAAA
1 ATTTT-AAAATAATTACGGATTTAGGAAA
* * *
12700518 ATTATAAAAATAATTA-AGACTTAGGAAA
1 ATT-TTAAAATAATTACGGATTTAGGAAA
*
12700546 ATTTTAGAAATAATTAC-AATTTAGG-AA
1 ATTTTA-AAATAATTACGGATTTAGGAAA
* **
12700573 ATTATAAAAATAA-TAATGATTTAGGAAA
1 ATT-TTAAAATAATTACGGATTTAGGAAA
* *
12700601 ATTTTAAAATAATTA-AGACTTAGGAAA
1 ATTTTAAAATAATTACGGATTTAGGAAA
*
12700628 ATTTTAGAAATAATTAC-AATTTAGG-AA
1 ATTTTA-AAATAATTACGGATTTAGGAAA
* **
12700655 ATTTTGAAAATAATTATGGA-TTAGGATG
1 ATTTT-AAAATAATTACGGATTTAGGAAA
*
12700683 TTTTTGAAAATAATT--GTGATTTAGGAAA
1 ATTTT-AAAATAATTACG-GATTTAGGAAA
* * *
12700711 ATTTTGAAAATAATCA-TGATTTAGTAAA
1 ATTTT-AAAATAATTACGGATTTAGGAAA
** *
12700739 ACTTCAAAAATAATTACGG-GTTAGGAAA
1 A-TTTTAAAATAATTACGGATTTAGGAAA
*
12700767 A-TTTAAAATAATTA-AGATTTAGGAAA
1 ATTTTAAAATAATTACGGATTTAGGAAA
*
12700793 ATTTTACAAGTAATTAC-GATTTAGGAAA
1 ATTTTA-AAATAATTACGGATTTAGGAAA
* *
12700821 ATTTTGAAAATAATTATGGA-TTACGAAA
1 ATTTT-AAAATAATTACGGATTTAGGAAA
* *
12700849 ATTTTGAAAATAGTT-CAGATTTAGGAAA
1 ATTTT-AAAATAATTACGGATTTAGGAAA
* * *
12700877 ATTTTAAAAATAATTACAGA-TTCGGAAG
1 ATTTT-AAAATAATTACGGATTTAGGAAA
12700905 ATTTTGAAAATAATTACGGATT
1 ATTTT-AAAATAATTACGGATT
12700927 AGAAATACAC
Statistics
Matches: 401, Mismatches: 55, Indels: 70
0.76 0.10 0.13
Matches are distributed among these distances:
25 1 0.00
26 25 0.06
27 99 0.25
28 258 0.64
29 18 0.04
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (28 bp):
ATTTTAAAATAATTACGGATTTAGGAAA
Found at i:12700613 original size:165 final size:166
Alignment explanation
Indices: 12700427--12700894 Score: 554
Period size: 165 Copynumber: 2.8 Consensus size: 166
12700417 TAGTTACGGA
* * *
12700427 TTAGGAAAATTTTATAAATAATTACG-TTGTAGGAAAATGTTAAAAATAAGTATC-ATTTAGGAA
1 TTAGGAAAATTTTA-AAATAATTAAGATT-TAGGAAAATTTTAAAAATAATTA-CAATTTAGGAA
* * * *
12700490 ATTTTAAAAATAATTAT-GACTTAGGAAAATTATAAAAATAATTAAGACTTAGGAAAATTTTAGA
63 ATTTTGAAAATAATTATGGA-TTAGGAAAATTTTGAAAATAATTAAGATTTAGGAAAATTTTAGA
* * * *
12700554 AATAATTACAATTTAG-GAAA-TTATAAAAATAATAATGAT
127 AATAATTACAATTTAGTAAAACTT-CAAAAATAATAACGAG
* *
12700593 TTAGGAAAATTTTAAAATAATTAAGACTTAGGAAAATTTTAGAAATAATTACAATTTAGGAAATT
1 TTAGGAAAATTTTAAAATAATTAAGATTTAGGAAAATTTTAAAAATAATTACAATTTAGGAAATT
*** **
12700658 TTGAAAATAATTATGGATTAGGATGTTTTTGAAAATAATTGTGATTTAGGAAAATTTT-GAAAAT
66 TTGAAAATAATTATGGATTAGGAAAATTTTGAAAATAATTAAGATTTAGGAAAATTTTAG-AAAT
* ** * *
12700722 AATCATGATTTAGTAAAACTTCAAAAATAATTACGGG
130 AATTACAATTTAGTAAAACTTCAAAAATAATAACGAG
* * *
12700759 TTAGGAAAA-TTTAAAATAATTAAGATTTAGGAAAATTTTACAAGTAATTACGATTTAGGAAAAT
1 TTAGGAAAATTTTAAAATAATTAAGATTTAGGAAAATTTTAAAAATAATTACAATTTAGG-AAAT
* * * *
12700823 TTTGAAAATAATTATGGATTACGAAAATTTTGAAAATAGTTCAGATTTAGGAAAATTTTAAAAAT
65 TTTGAAAATAATTATGGATTAGGAAAATTTTGAAAATAATTAAGATTTAGGAAAATTTTAGAAAT
12700888 AATTACA
130 AATTACA
12700895 GATTCGGAAG
Statistics
Matches: 256, Mismatches: 38, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
164 2 0.01
165 148 0.58
166 104 0.41
167 2 0.01
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (166 bp):
TTAGGAAAATTTTAAAATAATTAAGATTTAGGAAAATTTTAAAAATAATTACAATTTAGGAAATT
TTGAAAATAATTATGGATTAGGAAAATTTTGAAAATAATTAAGATTTAGGAAAATTTTAGAAATA
ATTACAATTTAGTAAAACTTCAAAAATAATAACGAG
Found at i:12700640 original size:110 final size:112
Alignment explanation
Indices: 12700409--12700920 Score: 494
Period size: 110 Copynumber: 4.6 Consensus size: 112
12700399 AAACAGGTGA
* * * * *
12700409 TTTAAAAATAGTTACGGA-TTAGGAAAATTTTATAAATAATTAC-GTTGTAGGAAAATGTTAAAA
1 TTTAAAAATAATTA-AGATTTAGGAAAATTTTAGAAATAATTACAATT-TAGGAAAATTTTAAAA
* * *
12700472 ATAAGTATCATTTAGG-AAATTTTAAAAATAATTATGACTTAGGAAAAT
64 ATAATTATGATTTAGGAAAATTTTGAAAATAATTATGACTTAGGAAAAT
* * *
12700520 TATAAAAATAATTAAGACTTAGGAAAATTTTAGAAATAATTACAATTTAGG-AAATTATAAAAAT
1 TTTAAAAATAATTAAGATTTAGGAAAATTTTAGAAATAATTACAATTTAGGAAAATTTTAAAAAT
* *
12700584 AATAATGATTTAGGAAAATTTT-AAAATAATTAAGACTTAGGAAAAT
66 AATTATGATTTAGGAAAATTTTGAAAATAATTATGACTTAGGAAAAT
* ** *** *
12700630 TTTAGAAATAATTACA-ATTTAGG-AAATTTT-GAAAATAATTATGGA-TTAGGATGTTTTTGAA
1 TTTAAAAATAATTA-AGATTTAGGAAAATTTTAG-AAATAATTA-CAATTTAGGAAAATTTTAAA
* * * * *
12700691 AATAATTGTGATTTAGGAAAATTTTGAAAATAATCATGATTTAGTAAAAC
63 AATAATTATGATTTAGGAAAATTTTGAAAATAATTATGACTTAGGAAAAT
* * ** * *
12700741 TTCAAAAATAATTACGGGTTAGGAAAA-TTTA-AAATAATTA-AGATTTAGGAAAATTTTACAAG
1 TTTAAAAATAATTAAGATTTAGGAAAATTTTAGAAATAATTACA-ATTTAGGAAAATTTTAAAAA
* *
12700803 TAATTACGATTTAGGAAAATTTTGAAAATAATTATGGA-TTACGAAAAT
65 TAATTATGATTTAGGAAAATTTTGAAAATAATTAT-GACTTAGGAAAAT
* * * * * * *
12700851 TTTGAAAATAGTTCAGATTTAGGAAAATTTTAAAAATAATTACAGA-TTCGGAAGATTTTGAAAA
1 TTTAAAAATAATTAAGATTTAGGAAAATTTTAGAAATAATTACA-ATTTAGGAAAATTTTAAAAA
12700915 TAATTA
65 TAATTA
12700921 CGGATTAGAA
Statistics
Matches: 326, Mismatches: 58, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
108 1 0.00
109 22 0.07
110 174 0.53
111 93 0.29
112 33 0.10
113 3 0.01
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.35
Consensus pattern (112 bp):
TTTAAAAATAATTAAGATTTAGGAAAATTTTAGAAATAATTACAATTTAGGAAAATTTTAAAAAT
AATTATGATTTAGGAAAATTTTGAAAATAATTATGACTTAGGAAAAT
Found at i:12705716 original size:2 final size:2
Alignment explanation
Indices: 12705709--12705733 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
12705699 GAGAAAGGTA
12705709 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
12705734 AGAAAAAAGA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:12709056 original size:29 final size:28
Alignment explanation
Indices: 12709024--12709116 Score: 107
Period size: 28 Copynumber: 3.2 Consensus size: 28
12709014 AAATAAGCCA
*
12709024 TTTTTAGAAATATTTAGGGGAATAAGTGT
1 TTTTTAAAAATATTTAGGGGAAT-AGTGT
* *
12709053 TTTTAAAAAATATTTAGGGTAATAG-GT
1 TTTTTAAAAATATTTAGGGGAATAGTGT
*
12709080 ATTTTTAAAAATATTTAAGGGAATAGATCGT
1 -TTTTTAAAAATATTTAGGGGAATAG-T-GT
12709111 TTTTTA
1 TTTTTA
12709117 GAGGTACGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 2 0.04
28 24 0.44
29 20 0.37
30 6 0.11
31 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTAAAAATATTTAGGGGAATAGTGT
Found at i:12709141 original size:135 final size:135
Alignment explanation
Indices: 12708993--12709239 Score: 313
Period size: 135 Copynumber: 1.8 Consensus size: 135
12708983 GGGCACGTTG
* * **
12708993 TTTTTCAAATTTTTTTTA-GAGAAATAAGCCATTTTT-AGAAA-TATTTAGGGGAATA-AGTGTT
1 TTTTTCAAATTTTTTTAAGGAG-AAT-AGCCATTTTTAAAAAAGTATTTAGGGGAATAGA-CATT
* **
12709054 TTTAAAAAATATTTAGGGTAATAGGTATTTTTAAAAATATTTAAGGGAATAGATCGTTTTTTAGA
63 TTT-AAAAATATTTAGGGGAATAAATATTTTTAAAAATATTTAAGGGAATAGATCGTTTTTTAGA
12709119 GGTACGCCA
127 GGTACGCCA
* * *
12709128 TTTTTTAATTTTTTTTAAGGAGAATAGGCATTTTTAAAAAAGTATTTAGGGGAATAGACATTTTT
1 TTTTTCAAATTTTTTTAAGGAGAATAGCCATTTTTAAAAAAGTATTTAGGGGAATAGACATTTTT
* * *
12709193 AAAATTTTTTAGGGGAATAAATGTTTTTAAAAATATTTAAGGGAATA
66 AAAAATATTTAGGGGAATAAATATTTTTAAAAATATTTAAGGGAATA
12709240 TGTATTGTTA
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
134 9 0.09
135 63 0.66
136 22 0.23
137 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.42
Consensus pattern (135 bp):
TTTTTCAAATTTTTTTAAGGAGAATAGCCATTTTTAAAAAAGTATTTAGGGGAATAGACATTTTT
AAAAATATTTAGGGGAATAAATATTTTTAAAAATATTTAAGGGAATAGATCGTTTTTTAGAGGTA
CGCCA
Found at i:12709511 original size:28 final size:28
Alignment explanation
Indices: 12709149--12709556 Score: 374
Period size: 28 Copynumber: 14.5 Consensus size: 28
12709139 TTTTTAAGGA
** *
12709149 GAATAGGCATTTTTAAAAAAGTATTTAGGG
1 GAATAGGTGTTTTT-AAAAA-TATTTACGG
*** * * *
12709179 GAATAGACATTTTTAAAATTTTTTAGGG
1 GAATAGGTGTTTTTAAAAATATTTACGG
** *
12709207 GAATAAATGTTTTTAAAAATATTTAAGG
1 GAATAGGTGTTTTTAAAAATATTTACGG
* * *
12709235 GAATATGTATTGTTAAAAAATATTTA-GAG
1 GAATAGGTGTT-TTTAAAAATATTTACG-G
*
12709264 GAATAGGCGTTTTTAAAAATATTTA-GG
1 GAATAGGTGTTTTTAAAAATATTTACGG
** * *
12709291 AGAATAGGCATTTTTAAAAATATATATGG
1 -GAATAGGTGTTTTTAAAAATATTTACGG
*
12709320 GAATATGTGTTTTTAAAAATATTTACGG
1 GAATAGGTGTTTTTAAAAATATTTACGG
12709348 GAATAGGTGTTTTT-AAAATATTTAC-G
1 GAATAGGTGTTTTTAAAAATATTTACGG
*
12709374 GAATAAGTGTTTTTAAAAATATTTACGG
1 GAATAGGTGTTTTTAAAAATATTTACGG
**
12709402 GAATAGACGTTTTTAAAAATATTTACGG
1 GAATAGGTGTTTTTAAAAATATTTACGG
* **
12709430 GAATAGGCGTTTTTAAAAATATTTACTA
1 GAATAGGTGTTTTTAAAAATATTTACGG
* ** *
12709458 AAATAGACGTTTTTAAATATATTTACGG
1 GAATAGGTGTTTTTAAAAATATTTACGG
* **
12709486 GAATAGGTGTATTTAAAAATATTTACTA
1 GAATAGGTGTTTTTAAAAATATTTACGG
* * ** * *
12709514 AAATAAGCATTTTTAAAAAACATTTACGA
1 GAATAGGTGTTTTT-AAAAATATTTACGG
12709543 GAATAGGTGTTTTT
1 GAATAGGTGTTTTT
12709557 GAATTTTTTC
Statistics
Matches: 316, Mismatches: 55, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
26 14 0.04
27 23 0.07
28 216 0.68
29 50 0.16
30 13 0.04
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (28 bp):
GAATAGGTGTTTTTAAAAATATTTACGG
Found at i:12709630 original size:28 final size:28
Alignment explanation
Indices: 12709250--12709741 Score: 347
Period size: 28 Copynumber: 17.6 Consensus size: 28
12709240 TGTATTGTTA
* *
12709250 AAAAATATTTA-GAGGAATAGGCGTTTTT
1 AAAAATATTTACGA-AAATAAGCGTTTTT
* * * *
12709278 AAAAATATTTAGGAGAATAGGCATTTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
* * ** * *
12709306 AAAAATATATATGGGAATATGTGTTTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
** * *
12709334 AAAAATATTTACGGGAATAGGTGTTTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
* *
12709362 -AAAATATTTACG-GAATAAGTGTTTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
**
12709388 AAAAATATTTACGGGAAT-AGACGTTTTT
1 AAAAATATTTACGAAAATAAG-CGTTTTT
** *
12709416 AAAAATATTTACGGGAATAGGCGTTTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
*
12709444 AAAAATATTTACTAAAAT-AGACGTTTTT
1 AAAAATATTTACGAAAATAAG-CGTTTTT
* ** * * *
12709472 AAATATATTTACGGGAATAGGTGTATTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
* *
12709500 AAAAATATTTACTAAAATAAGCATTTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
* * * *
12709528 AAAAAACATTTACGAGAATAGGTGTTTTT
1 -AAAAATATTTACGAAAATAAGCGTTTTT
* * * ***
12709557 -GAATTTTTTCACGAAAATAGATTTTTTTT
1 AAAAATATTT-ACGAAAATA-AGCGTTTTT
* * *
12709586 AAAATTAATTACAAAAATAAGCGTTTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
* * **
12709614 AAAAAAATTTATGAAAAT-AGAAATTTTT
1 AAAAATATTTACGAAAATAAG-CGTTTTT
* *
12709642 AAAAACATTTACGAAAATAAACG-TTTT
1 AAAAATATTTACGAAAATAAGCGTTTTT
* *
12709669 AAAAATATTTACGAAAATAAACGTTTTA
1 AAAAATATTTACGAAAATAAGCGTTTTT
* *
12709697 AAAAATATTTA-AAAAAT-AGATGTTTTT
1 AAAAATATTTACGAAAATAAG-CGTTTTT
12709724 AAAAATATTTACGAAAAT
1 AAAAATATTTACGAAAAT
12709742 TGTTTGACCG
Statistics
Matches: 376, Mismatches: 72, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
26 14 0.04
27 81 0.22
28 234 0.62
29 41 0.11
30 6 0.02
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (28 bp):
AAAAATATTTACGAAAATAAGCGTTTTT
Found at i:12709667 original size:56 final size:56
Alignment explanation
Indices: 12709147--12709741 Score: 443
Period size: 56 Copynumber: 10.6 Consensus size: 56
12709137 TTTTTTTAAG
** * ** * * * *
12709147 GAGAATAGGCATTTTTAAAAAAGTATTTAGGGGAATAGACATTTTTAAAATTTTTTAG
1 GAGAATAGGTGTTTTT-AAAAA-TATTTACGAAAATAGACGTTTTTAAAAATATTTAC
* ** * ** *
12709205 GGGAATAAATGTTTTTAAAAATATTTAAGGGAATATGTA--TTGTTAAAAAATATTTA-
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAATA-G-ACGTT-TTTAAAAATATTTAC
* * * * * * *
12709261 GAGGAATAGGCGTTTTTAAAAATATTTAGGAGAATAGGCATTTTTAAAAATATATAT
1 GA-GAATAGGTGTTTTTAAAAATATTTACGAAAATAGACGTTTTTAAAAATATTTAC
* * ** **
12709318 GGGAATATGTGTTTTTAAAAATATTTACGGGAATAGGTGTTTTT-AAAATATTTAC
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAATAGACGTTTTTAAAAATATTTAC
* **
12709373 G-GAATAAGTGTTTTTAAAAATATTTACGGGAATAGACGTTTTTAAAAATATTTAC
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAATAGACGTTTTTAAAAATATTTAC
* * * *
12709428 GGGAATAGGCGTTTTTAAAAATATTTACTAAAATAGACGTTTTTAAATATATTTAC
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAATAGACGTTTTTAAAAATATTTAC
* * * * *
12709484 GGGAATAGGTGTATTTAAAAATATTTACTAAAATA-AGCATTTTTAAAAAACATTTAC
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAATAGA-CGTTTTT-AAAAATATTTAC
* * * ** * *
12709541 GAGAATAGGTGTTTTT-GAATTTTTTCACGAAAATAGATTTTTTTTAAAATTAATTAC
1 GAGAATAGGTGTTTTTAAAAATATTT-ACGAAAATAGA-CGTTTTTAAAAATATTTAC
* * * * * * ** *
12709598 AAAAATAAGCGTTTTTAAAAAAATTTATGAAAATAGAAATTTTTAAAAACATTTAC
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAATAGACGTTTTTAAAAATATTTAC
* *** * *
12709654 GAAAATAAACG-TTTTAAAAATATTTACGAAAATAAACGTTTTAAAAAATATTTA-
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAATAGACGTTTTTAAAAATATTTAC
* * *
12709708 AAAAATAGATGTTTTTAAAAATATTTACGAAAAT
1 GAGAATAGGTGTTTTTAAAAATATTTACGAAAAT
12709742 TGTTTGACCG
Statistics
Matches: 443, Mismatches: 79, Indels: 33
0.80 0.14 0.06
Matches are distributed among these distances:
54 47 0.11
55 81 0.18
56 181 0.41
57 111 0.25
58 23 0.05
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (56 bp):
GAGAATAGGTGTTTTTAAAAATATTTACGAAAATAGACGTTTTTAAAAATATTTAC
Found at i:12725439 original size:16 final size:18
Alignment explanation
Indices: 12725407--12725439 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12725397 TGACTAAATT
12725407 TTTATAATAAAATAATGC
1 TTTATAATAAAATAATGC
12725425 TTTATAA-AAAA-AATG
1 TTTATAATAAAATAATG
12725440 AAAAGAAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 4 0.27
18 7 0.47
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (18 bp):
TTTATAATAAAATAATGC
Found at i:12727379 original size:22 final size:22
Alignment explanation
Indices: 12727354--12727398 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
12727344 GTATATAATC
*
12727354 ATGGAATAAAATATTTCATGTT
1 ATGGAATAAAATATATCATGTT
12727376 ATGGAATAAAATATATCATGTT
1 ATGGAATAAAATATATCATGTT
12727398 A
1 A
12727399 GTTGCGATGA
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:0.44, C:0.04, G:0.13, T:0.38
Consensus pattern (22 bp):
ATGGAATAAAATATATCATGTT
Found at i:12728181 original size:30 final size:29
Alignment explanation
Indices: 12728145--12728250 Score: 76
Period size: 30 Copynumber: 3.7 Consensus size: 29
12728135 TTTAGATCCC
12728145 TTAAAAGTTGATAAAAAAAATTTTTGACCT
1 TTAAAAGTTGAT-AAAAAAATTTTTGACCT
* * *
12728175 TTAAAAG-T--T-AAAACATTTTTGGGCCCC
1 TTAAAAGTTGATAAAAAAATTTTT--GACCT
* *
12728202 TTAAAAGTTGATAAAAATATTTGTTGGCCT
1 TTAAAAGTTGATAAAAAAATTT-TTGACCT
* * *
12728232 TAAAAAGTTAAAAAAAAAA
1 TTAAAAGTTGATAAAAAAA
12728251 ATTTATTGGA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
25 10 0.17
27 11 0.19
28 1 0.02
29 1 0.02
30 26 0.44
31 8 0.14
32 2 0.03
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (29 bp):
TTAAAAGTTGATAAAAAAATTTTTGACCT
Found at i:12728233 original size:29 final size:28
Alignment explanation
Indices: 12728143--12728236 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 28
12728133 TTTTTAGATC
* *
12728143 CCTTAAAAGTTGATAAAAAAAATTTTTGA
1 CCTTAAAAGTTGAT-AAAAATATTTTTGG
* *
12728172 CCTTTAAAAGTT-A-AAACAT-TTTTGGG
1 CC-TTAAAAGTTGATAAAAATATTTTTGG
12728198 CCCCTTAAAAGTTGATAAAAATATTTGTTGG
1 --CCTTAAAAGTTGATAAAAATATTT-TTGG
12728229 CCTTAAAA
1 CCTTAAAA
12728237 AGTTAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
26 5 0.10
27 13 0.25
28 3 0.06
29 16 0.31
30 12 0.23
31 3 0.06
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (28 bp):
CCTTAAAAGTTGATAAAAATATTTTTGG
Found at i:12729726 original size:58 final size:59
Alignment explanation
Indices: 12729663--12730144 Score: 524
Period size: 59 Copynumber: 8.2 Consensus size: 59
12729653 ACTCGGGGGC
** * *
12729663 AAAATGGTAA-TTTTGGTGAAATCAAGGTTAAAAATGGAATTTTTG-AGGCTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAG-TTCGAGGGT
* *
12729721 AAAATGGTAATTTTTGATGAAATCTGGGTT-AAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
** * *
12729779 AAAATGGTAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * * *
12729838 -AAATGATAATTTTTGATGAAATCGAGGTT-AAAATAGAATTTTGG-AAGTTCG-GGAGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGG-GT
*
12729894 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
* * * *
12729953 AAAATGGTAATTTTT-G-GAAGTTTTGGGGTTAAAAATGGAATTTT-AAAAGGTTTAGAGGGT
1 AAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTGGAAA-G-TTCGAGGGT
* * * * *
12730013 TAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAGAAGGTTTG-GGGTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGG-T
* * * *
12730072 AAAATGGTAATTTTT-G-GAAGTTTTGGGGTTAAAAATGGAATTTT-AAAAGGTTTGAGGGT
1 AAAATGGTAATTTTTGGTGAA--ATCGGGGTTAAAAATGGAATTTTGGAAA-GTTCGAGGGT
12730131 AAAATGGTAATTTT
1 AAAATGGTAATTTT
12730145 GGAAGTTTCG
Statistics
Matches: 366, Mismatches: 38, Indels: 39
0.83 0.09 0.09
Matches are distributed among these distances:
55 2 0.01
56 8 0.02
57 47 0.13
58 108 0.30
59 147 0.40
60 48 0.13
61 3 0.01
62 3 0.01
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.35
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGT
Found at i:12729973 original size:29 final size:27
Alignment explanation
Indices: 12729693--12730151 Score: 170
Period size: 29 Copynumber: 15.7 Consensus size: 27
12729683 ATCAAGGTTA
* *
12729693 AAAATGGAATTTTTGAGGCTTCGAGGGT
1 AAAATGGAATTTTGGAAG-TTCGAGGGT
* *
12729721 AAAATGGTAATTTTTGATGAA-ATCTG-GGTT
1 AAAATGG-AA-TTTTG--GAAGTTC-GAGGGT
12729751 AAAATGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGAATTTTGG-AAGTTCGAGGGT
*
12729779 AAAATGGTAATTTTTGGTGAAATT--AGGGTT
1 AAAATGG-AA-TTTT-G-GAAGTTCGAGGG-T
* *
12729809 AAAAATGGAATTTTGGAAAGTTTGGGGGT
1 -AAAATGGAATTTTGG-AAGTTCGAGGGT
* * *
12729838 -AAATGATAATTTTTGATGAA-ATCGAGGTT
1 AAAATG-GAA-TTTTG--GAAGTTCGAGGGT
*
12729867 AAAATAGAATTTTGGAAGTTCG-GGAGT
1 AAAATGGAATTTTGGAAGTTCGAGG-GT
* *
12729894 AAAATGGTAATTTTTGGTGAA-ATCGAGGTT
1 AAAATGG-AA-TTTT-G-GAAGTTCGAGGGT
12729924 AAAAATGGAATTTTGGAAAGTTCGAGGGT
1 -AAAATGGAATTTTGG-AAGTTCGAGGGT
*
12729953 AAAATGGTAATTTTTGGAAGTTTTG-GGGTT
1 AAAATGG-AA-TTTTGGAAG-TTCGAGGG-T
** *
12729983 AAAAATGGAATTTTAAAAGGTTTAGAGGGT
1 -AAAATGGAATTTTGGAA-G-TTCGAGGGT
* **
12730013 TAAATGGTAATTTTTGGTGAA-ACCG-GGGTT
1 AAAATGG-AA-TTTT-G-GAAGTTCGAGGG-T
* *
12730043 AAAAATGGAATTTTAGAAGGTTTG-GGGTT
1 -AAAATGGAATTTTGGAA-GTTCGAGGG-T
*
12730072 AAAATGGTAATTTTTGGAAGTTTTG-GGGTT
1 AAAATGG-AA-TTTTGGAAG-TTCGAGGG-T
** *
12730102 AAAAATGGAATTTTAAAAGGTTTGAGGGT
1 -AAAATGGAATTTTGGAA-GTTCGAGGGT
12730131 AAAATGGTAATTTTGGAAGTT
1 AAAATGG-AATTTTGGAAGTT
12730152 TCGGGGACCT
Statistics
Matches: 334, Mismatches: 43, Indels: 108
0.69 0.09 0.22
Matches are distributed among these distances:
26 6 0.02
27 23 0.07
28 65 0.19
29 97 0.29
30 85 0.25
31 53 0.16
32 3 0.01
33 2 0.01
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (27 bp):
AAAATGGAATTTTGGAAGTTCGAGGGT
Found at i:12731334 original size:25 final size:25
Alignment explanation
Indices: 12731301--12731356 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
12731291 TCATTATTAT
*
12731301 TTATTATTATTTATTAT-AATAATAA
1 TTATTATTA-ATATTATCAATAATAA
* *
12731326 TTATTATTAATATTTTCATTAATAA
1 TTATTATTAATATTATCAATAATAA
12731351 TTATTA
1 TTATTA
12731357 ATGCTATTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
TTATTATTAATATTATCAATAATAA
Found at i:12731336 original size:10 final size:10
Alignment explanation
Indices: 12731293--12731358 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
12731283 AAAAAAATTC
*
12731293 ATTATTATTT
1 ATTATTATTA
*
12731303 ATTATTATTT
1 ATTATTATTA
*
12731313 ATTATAATAATA
1 ATTAT--TATTA
12731325 ATTATTATTA
1 ATTATTATTA
*
12731335 ATATTTTCATTA
1 AT-TATT-ATTA
*
12731347 ATAATTATTA
1 ATTATTATTA
12731357 AT
1 AT
12731359 GCTATTCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 27 0.59
11 5 0.11
12 14 0.30
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTATTATTA
Found at i:12732074 original size:6 final size:6
Alignment explanation
Indices: 12732060--12732148 Score: 98
Period size: 6 Copynumber: 15.2 Consensus size: 6
12732050 AATGTTTAGT
* *
12732060 ATTTTA ATTTAA ATTTAA ATTTAA ATTTAA A-GTAA ATTTAA ATAATTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA
12732109 ATTTAA ATTTAA GA--TAA ATTTAA ATTTAA A--TAA ATTTAA A
1 ATTTAA ATTTAA -ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
12732149 ATCAATTTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
4 5 0.07
5 7 0.10
6 53 0.74
7 1 0.01
8 6 0.08
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:12732114 original size:37 final size:37
Alignment explanation
Indices: 12732068--12732141 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
12732058 GTATTTTAAT
12732068 TTAAATTTAAATTTAA-ATTTAAA-GTAAATTTAAATAA
1 TTAAATTTAAATTTAAGA--TAAATGTAAATTTAAATAA
*
12732105 TTAAATTTAAATTTAAGATAAATTTAAATTTAAATAA
1 TTAAATTTAAATTTAAGATAAATGTAAATTTAAATAA
12732142 ATTTAAAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
36 4 0.12
37 29 0.85
38 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (37 bp):
TTAAATTTAAATTTAAGATAAATGTAAATTTAAATAA
Found at i:12732150 original size:11 final size:11
Alignment explanation
Indices: 12732069--12732158 Score: 56
Period size: 11 Copynumber: 7.8 Consensus size: 11
12732059 TATTTTAATT
*
12732069 TAAATTTAAATT
1 TAAATTTAAA-A
*
12732081 TAAATTTAAAG
1 TAAATTTAAAA
12732092 TAAATTTAAATAA
1 TAAATTT-AA-AA
*
12732105 TTAAATTTAAAT
1 -TAAATTTAAAA
* ** *
12732117 TTAAGATAAATT
1 TAAATTTAAA-A
12732129 TAAATTT-AAA
1 TAAATTTAAAA
12732139 TAAATTTAAAA
1 TAAATTTAAAA
*
12732150 TCAATTTAA
1 TAAATTTAA
12732159 CTCCAAATTA
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
10 7 0.11
11 27 0.44
12 18 0.29
13 3 0.05
14 7 0.11
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:12732150 original size:17 final size:16
Alignment explanation
Indices: 12732060--12732148 Score: 110
Period size: 17 Copynumber: 5.4 Consensus size: 16
12732050 AATGTTTAGT
*
12732060 ATTTTAATTTAAATTTAA
1 ATTTAAATTTAAA--TAA
12732078 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAA-TAA
*
12732095 ATTTAAA--TAATTAA
1 ATTTAAATTTAAATAA
12732109 ATTTAAATTTAAGATAA
1 ATTTAAATTTAA-ATAA
12732126 ATTTAAATTTAAATAA
1 ATTTAAATTTAAATAA
12732142 ATTTAAA
1 ATTTAAA
12732149 ATCAATTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 14 0.22
17 25 0.39
18 12 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:12732166 original size:27 final size:27
Alignment explanation
Indices: 12732112--12732166 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
12732102 TAATTAAATT
* **
12732112 TAAATTTAAGATAAATTTAAATTTAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
* *
12732139 TAAATTTAAAATCAATTTAACTCCAAA
1 TAAATTTAAAATAAATTTAAATCCAAA
12732166 T
1 T
12732167 TAAAACAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAATAAATTTAAATCCAAA
Found at i:12732604 original size:38 final size:37
Alignment explanation
Indices: 12732519--12732916 Score: 210
Period size: 38 Copynumber: 10.5 Consensus size: 37
12732509 GCTTTGTCTA
* * **
12732519 GCTCTTACTTCAATTTC-AGAGATAAAGACTTGATATC
1 GCTCTTACTTCAATTTCAAGGGAT-AGGAAATGATATC
* **
12732556 -CAACTCTACTTCAATTTCAAGCGGATAGGAAATGACGTC
1 GC-TCT-TACTTCAATTTCAAG-GGATAGGAAATGATATC
* * ** *
12732595 GCTCTTACTTCAATTTC-AGAGATAAAGACTTGGTATCC
1 GCTCTTACTTCAATTTCAAGGGAT-AGGAAATGATAT-C
* * *
12732633 AGCT-TTACTTCAATTTCAAGCGGATAGAAAATGATCTT
1 -GCTCTTACTTCAATTTCAAG-GGATAGGAAATGATATC
* * **
12732671 GCTCTTACTTCAATTTC-AGAGATAAAGATTTGATATCC
1 GCTCTTACTTCAATTTCAAGGGAT-AGGAAATGATAT-C
*
12732709 AGCT-TTACTTCAATTTCAAGAGGATAGGAAATGATATT
1 -GCTCTTACTTCAATTTCAAG-GGATAGGAAATGATATC
* * *
12732747 GCTCTTACTTCAATTTC-AGAGATA-AAAACTTGTTATC
1 GCTCTTACTTCAATTTCAAGGGATAGGAAA--TGATATC
* * *
12732784 -CAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTT
1 GC-TCT-TACTTCAATTTCAAG-GGATAGGAAATGATATC
* *
12732823 GCTCTTACTTCAATTTC-AGAGG-TA-AAAACTTGTTATC
1 GCTCTTACTTCAATTTCAAG-GGATAGGAAA--TGATATC
* * * *
12732860 -CAACTCTATTTCAATTTCAAGAGGATAGGAAATGATGTT
1 GC-TCT-TACTTCAATTTCAAG-GGATAGGAAATGATATC
12732899 GCTCTTACTTCAATTTCA
1 GCTCTTACTTCAATTTCA
12732917 GAGATAAAGA
Statistics
Matches: 270, Mismatches: 58, Indels: 65
0.69 0.15 0.17
Matches are distributed among these distances:
35 6 0.02
36 15 0.06
37 45 0.17
38 124 0.46
39 56 0.21
40 18 0.07
41 6 0.02
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (37 bp):
GCTCTTACTTCAATTTCAAGGGATAGGAAATGATATC
Found at i:12732645 original size:76 final size:76
Alignment explanation
Indices: 12732519--12733031 Score: 712
Period size: 76 Copynumber: 6.9 Consensus size: 76
12732509 GCTTTGTCTA
* *
12732519 GCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
*
12732584 GAAATGACGTC
66 GAAATGACGTT
* * * *
12732595 GCTCTTACTTCAATTTCAGAGATAAAGACTTGGTATCCAGCTTTACTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
*
12732660 AAAATGATC-TT
66 GAAATGA-CGTT
* * * *
12732671 GCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
**
12732736 GAAATGATATT
66 GAAATGACGTT
*
12732747 GCTCTTACTTCAATTTCAGAGATAAAAACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
12732812 GAAATGATC-TT
66 GAAATGA-CGTT
* * *
12732823 GCTCTTACTTCAATTTCAGAGGTAAAAACTTGTTATCCAACTCTATTTCAATTTCAAGAGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
*
12732888 GAAATGATGTT
66 GAAATGACGTT
*
12732899 GCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTC-A-A-G--AG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
12732958 G--ATGACGTT
66 GAAATGACGTT
* *
12732967 G--C-T-CTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAG
1 GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
12733028 GAAA
66 GAAA
12733032 AGATCTGGCT
Statistics
Matches: 400, Mismatches: 25, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
64 31 0.08
65 17 0.04
66 2 0.00
68 9 0.02
70 6 0.01
72 2 0.00
73 1 0.00
74 1 0.00
75 15 0.04
76 315 0.79
77 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (76 bp):
GCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAG
GAAATGACGTT
Found at i:12744772 original size:29 final size:28
Alignment explanation
Indices: 12744714--12744943 Score: 182
Period size: 30 Copynumber: 7.9 Consensus size: 28
12744704 TTATACGAAT
* *
12744714 AAATGGAATTTTAGAAGGTTCGGGGTTT
1 AAATGGAATTTTAGAAGTTTCGGGGTTA
* *
12744742 AAATGGTAATTTTTGGAAGTTTTGGGGTTA
1 AAATGG-AA-TTTTAGAAGTTTCGGGGTTA
* * *
12744772 AAATAGAATTTTAAAAGGTTTAGGGG-TA
1 AAATGGAATTTTAGAA-GTTTCGGGGTTA
* *
12744800 AAATGGTAATTTTTTGTGAA-ATT-GGGGTTAA
1 AAATGG-AA--TTTT-AGAAGTTTCGGGGTT-A
*
12744831 AAATGGAATTTTAGAAGGTTCGGGGTTA
1 AAATGGAATTTTAGAAGTTTCGGGGTTA
*
12744859 AAATGGTAATTTTTGGAAGTTTCGGGGTTAA
1 AAATGG-AA-TTTTAGAAGTTTCGGGGTT-A
*
12744890 AAATGGAATTTTAAAAGGTTT-GGAGG-TA
1 AAATGGAATTTTAGAA-GTTTCGG-GGTTA
*
12744918 AAATGGTAATTTTGGAAGTTTCGGGG
1 AAATGG-AATTTTAGAAGTTTCGGGG
12744944 ACTTATAAAT
Statistics
Matches: 164, Mismatches: 20, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
27 3 0.02
28 45 0.27
29 45 0.27
30 51 0.31
31 18 0.11
32 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.37
Consensus pattern (28 bp):
AAATGGAATTTTAGAAGTTTCGGGGTTA
Found at i:12744809 original size:58 final size:59
Alignment explanation
Indices: 12744714--12744943 Score: 310
Period size: 59 Copynumber: 3.9 Consensus size: 59
12744704 TTATACGAAT
* * *
12744714 AAATGGAATTTTAGAAGGTTCGGGGTTTAAATGGTAATTTTTGGAAGTTTTGGGGTT-A
1 AAATGGAATTTTAAAAGGTTCGGGGTTAAAATGGTAATTTTTGGAAGTTTCGGGGTTAA
* * *
12744772 AAATAGAATTTTAAAAGGTTTAGGGG-TAAAATGGTAATTTTTTGTGAA-ATT-GGGGTTAA
1 AAATGGAATTTTAAAAGG-TTCGGGGTTAAAATGGTAA-TTTTTG-GAAGTTTCGGGGTTAA
*
12744831 AAATGGAATTTTAGAAGGTTCGGGGTTAAAATGGTAATTTTTGGAAGTTTCGGGGTTAA
1 AAATGGAATTTTAAAAGGTTCGGGGTTAAAATGGTAATTTTTGGAAGTTTCGGGGTTAA
*
12744890 AAATGGAATTTTAAAAGGTTTGGAGG-TAAAATGGTAA-TTTTGGAAGTTTCGGGG
1 AAATGGAATTTTAAAAGGTTCGG-GGTTAAAATGGTAATTTTTGGAAGTTTCGGGG
12744944 ACTTATAAAT
Statistics
Matches: 153, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
57 3 0.02
58 63 0.41
59 82 0.54
60 5 0.03
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.37
Consensus pattern (59 bp):
AAATGGAATTTTAAAAGGTTCGGGGTTAAAATGGTAATTTTTGGAAGTTTCGGGGTTAA
Found at i:12744841 original size:30 final size:31
Alignment explanation
Indices: 12744714--12744943 Score: 136
Period size: 29 Copynumber: 7.9 Consensus size: 31
12744704 TTATACGAAT
* * *
12744714 AAATGG-AA-TTTTAGAAGGTTCGGGGTT-T
1 AAATGGTAATTTTTGGAAGATTCGGGGTTAA
* *
12744742 AAATGGTAATTTTTGGAAGTTTTGGGGTT-A
1 AAATGGTAATTTTTGGAAGATTCGGGGTTAA
* ** * *
12744772 AAATAG-AA-TTTTAAAAGGTTTAGGGG-T-A
1 AAATGGTAATTTTTGGAA-GATTCGGGGTTAA
12744800 AAATGGTAATTTTTTGTGAA-ATT-GGGGTTAA
1 AAATGGTAA-TTTTTG-GAAGATTCGGGGTTAA
* *
12744831 AAATGG-AA-TTTTAGAAGGTTCGGGGTT-A
1 AAATGGTAATTTTTGGAAGATTCGGGGTTAA
*
12744859 AAATGGTAATTTTTGGAAGTTTCGGGGTTAA
1 AAATGGTAATTTTTGGAAGATTCGGGGTTAA
** * *
12744890 AAATGG-AA-TTTTAAAAGGTTTGGAGG-T-A
1 AAATGGTAATTTTTGGAAGATTCGG-GGTTAA
*
12744918 AAATGGTAA-TTTTGGAAGTTTCGGGG
1 AAATGGTAATTTTTGGAAGATTCGGGG
12744944 ACTTATAAAT
Statistics
Matches: 162, Mismatches: 24, Indels: 32
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.02
28 41 0.25
29 51 0.31
30 47 0.29
31 18 0.11
32 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.37
Consensus pattern (31 bp):
AAATGGTAATTTTTGGAAGATTCGGGGTTAA
Found at i:12746103 original size:16 final size:16
Alignment explanation
Indices: 12746079--12746132 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
12746069 AAAAAAATTC
12746079 ATTATTATTTATT-ATA
1 ATTATTA-TTATTAATA
* *
12746095 ATAATTATTATTATTA
1 ATTATTATTATTAATA
12746111 A-TATT-TTCATTAATA
1 ATTATTATT-ATTAATA
12746126 ATTATTA
1 ATTATTA
12746133 ATGCTATTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 2 0.07
15 15 0.50
16 13 0.43
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTATTATTAATA
Found at i:12746850 original size:6 final size:6
Alignment explanation
Indices: 12746836--12746924 Score: 89
Period size: 6 Copynumber: 15.2 Consensus size: 6
12746826 AATGTTTAGT
* *
12746836 ATTTTA ATTTAA ATTTAA ATTTAA ATTTAA A-GTAA ATTTAA ATAATTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA AT--TTAA
*
12746885 ATTTAA ATTTGAG A--TAA ATTTAA ATTTAA A--TAA ATTTAA A
1 ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
12746925 ATCAATTTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
4 6 0.09
5 5 0.07
6 51 0.73
7 2 0.03
8 6 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:12746871 original size:11 final size:12
Alignment explanation
Indices: 12746845--12746892 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 12
12746835 TATTTTAATT
*
12746845 TAAATTTAAATT
1 TAAATTTAAATG
12746857 TAAATTTAAA-G
1 TAAATTTAAATG
*
12746868 TAAATTTAAATAAT
1 TAAATTTAAAT--G
12746882 TAAATTTAAAT
1 TAAATTTAAAT
12746893 TTGAGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 10 0.32
12 10 0.32
14 11 0.35
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TAAATTTAAATG
Found at i:12746893 original size:11 final size:11
Alignment explanation
Indices: 12746838--12746934 Score: 70
Period size: 11 Copynumber: 8.5 Consensus size: 11
12746828 TGTTTAGTAT
*
12746838 TTTAATTTAAA
1 TTTAAATTAAA
12746849 TTTAAATTTAAA
1 TTTAAA-TTAAA
*
12746861 TTTAAAGTAAA
1 TTTAAATTAAA
12746872 TTTAAATAATTAAA
1 TTT--A-AATTAAA
**
12746886 TTTAAATTTGA
1 TTTAAATTAAA
**
12746897 GATAAATTTAAA
1 TTTAAA-TTAAA
12746909 TTTAAA-TAAA
1 TTTAAATTAAA
* *
12746919 TTTAAAATCAA
1 TTTAAATTAAA
12746930 TTTAA
1 TTTAA
12746935 CTCCAAATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
10 10 0.15
11 29 0.43
12 19 0.28
13 1 0.01
14 9 0.13
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:12746926 original size:17 final size:16
Alignment explanation
Indices: 12746836--12746924 Score: 101
Period size: 17 Copynumber: 5.4 Consensus size: 16
12746826 AATGTTTAGT
*
12746836 ATTTTAATTTAAATTTAA
1 ATTTAAATTTAAA--TAA
12746854 ATTTAAATTTAAAGTAA
1 ATTTAAATTTAAA-TAA
*
12746871 ATTTAAA--TAATTAA
1 ATTTAAATTTAAATAA
*
12746885 ATTTAAATTTGAGATAA
1 ATTTAAATTT-AAATAA
12746902 ATTTAAATTTAAATAA
1 ATTTAAATTTAAATAA
12746918 ATTTAAA
1 ATTTAAA
12746925 ATCAATTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
14 10 0.16
15 3 0.05
16 13 0.21
17 24 0.39
18 12 0.19
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATTTAAATTTAAATAA
Found at i:12749967 original size:40 final size:40
Alignment explanation
Indices: 12749923--12750002 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
12749913 GCTGGAGGCC
*
12749923 AATATGTCATGAAAATGATTGAGTTATTTGCGTAAGTGTT
1 AATATGTCATGAAAATGATTGAGTTATTTGCATAAGTGTT
12749963 AATATGTCATGAAAATGATTGAGTTATTTGCATAAGTGTT
1 AATATGTCATGAAAATGATTGAGTTATTTGCATAAGTGTT
12750003 GCTATTAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (40 bp):
AATATGTCATGAAAATGATTGAGTTATTTGCATAAGTGTT
Found at i:12753042 original size:21 final size:21
Alignment explanation
Indices: 12752963--12753043 Score: 135
Period size: 21 Copynumber: 3.8 Consensus size: 21
12752953 ATTTGCACTC
*
12752963 ATTCAAAATGAATTTGAACTAA
1 ATTC-AAATGAATTTGGACTAA
*
12752985 ATTCAAATGAATTTAGACTAA
1 ATTCAAATGAATTTGGACTAA
12753006 ATTCAAATGAATTTGGACTAA
1 ATTCAAATGAATTTGGACTAA
12753027 ATTCAAATGAATTTGGA
1 ATTCAAATGAATTTGGA
12753044 TTACCATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
21 52 0.93
22 4 0.07
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (21 bp):
ATTCAAATGAATTTGGACTAA
Found at i:12758203 original size:22 final size:22
Alignment explanation
Indices: 12758178--12758219 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
12758168 AAGTGTTCAG
**
12758178 TTATATCTCTTAATTATTAAAA
1 TTATATCAATTAATTATTAAAA
12758200 TTATATCAATTAATTATTAA
1 TTATATCAATTAATTATTAA
12758220 GCAAGAGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (22 bp):
TTATATCAATTAATTATTAAAA
Found at i:12758545 original size:28 final size:28
Alignment explanation
Indices: 12758505--12758570 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
12758495 ACCTGAACTT
* * *
12758505 GTTTATTTCTCCCAGATTGGTACTTAAA
1 GTTTTTTTCTCCCAGATTAGTACTCAAA
*
12758533 GTTTTTTTGTCCCAGATTAGTACTCAAA
1 GTTTTTTTCTCCCAGATTAGTACTCAAA
12758561 --TTTTTTCTCC
1 GTTTTTTTCTCC
12758571 GTCAACTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 9 0.27
28 24 0.73
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (28 bp):
GTTTTTTTCTCCCAGATTAGTACTCAAA
Found at i:12758693 original size:21 final size:21
Alignment explanation
Indices: 12758669--12758720 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
12758659 TATAATTTAA
12758669 TTTTCTATTTCACTT-TTTCTT
1 TTTTCTATTTCA-TTCTTTCTT
*
12758690 TTTTCTTTTTCATTCTTTCTT
1 TTTTCTATTTCATTCTTTCTT
12758711 TCTTT-TATTT
1 T-TTTCTATTT
12758721 TTTACTATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTCTATTTCATTCTTTCTT
Found at i:12780406 original size:18 final size:18
Alignment explanation
Indices: 12780385--12780426 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
12780375 GGAAGAAGAC
* *
12780385 GAAGAATCTGAAGGCGAA
1 GAAGAATCCGAAGGAGAA
*
12780403 GAAGCATCCGAAGGAGAA
1 GAAGAATCCGAAGGAGAA
12780421 GAAGAA
1 GAAGAA
12780427 GCTTCTGAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.33, T:0.07
Consensus pattern (18 bp):
GAAGAATCCGAAGGAGAA
Found at i:12785952 original size:88 final size:88
Alignment explanation
Indices: 12785828--12786154 Score: 368
Period size: 88 Copynumber: 3.7 Consensus size: 88
12785818 TTTAAATGCT
* * *
12785828 CGAGGGTAAAATGGTAATTTTTAGAAGTTC-GAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGG
1 CGAGGGTAAAATGGTGATTTTTGGAAGTTCAG-GGGTAAAAATGTAATTTTTGAGAAGTTTGAGG
* *
12785892 GTAAATTGGATATTGTTGGAAGTA
65 GTAAAATGGATATTTTTGGAAGTA
* *
12785916 CGAGGGTAAAAAT-GTGATTTATGGAAGTTCAGGGGTAAAAATGTAATTTTTTGAGAAGTTTGGG
1 CGAGGGT-AAAATGGTGATTTTTGGAAGTTCAGGGGTAAAAATGTAA-TTTTTGAGAAGTTTGAG
12785980 GGTAAAATGG-TGATTTTTGGAAGTA
64 GGTAAAATGGAT-ATTTTTGGAAGTA
* * *
12786005 TGA-GGTAAAAAT-GTGATTTTTGGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTTGAGG
1 CGAGGGT-AAAATGGTGATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTGAGG
* * *
12786068 GCAAAAATGTA-ATTTTTGAGAAGTT
65 G-TAAAATGGATATTTTTG-GAAGTA
* * *
12786093 TGAGGGTAAAATGGTGATTTTTGGAAG-T-ATGAGGTAAAAATGTGATTTTTG-GAAGTTT-AGG
1 CGAGGGTAAAATGGTGATTTTTGGAAGTTCA-GGGGTAAAAATGTAATTTTTGAGAAGTTTGAGG
12786154 G
65 G
12786155 GCAAAAATGT
Statistics
Matches: 211, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
86 4 0.02
87 33 0.16
88 113 0.54
89 61 0.29
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.34
Consensus pattern (88 bp):
CGAGGGTAAAATGGTGATTTTTGGAAGTTCAGGGGTAAAAATGTAATTTTTGAGAAGTTTGAGGG
TAAAATGGATATTTTTGGAAGTA
Found at i:12785955 original size:117 final size:114
Alignment explanation
Indices: 12785831--12786201 Score: 439
Period size: 117 Copynumber: 3.2 Consensus size: 114
12785821 AAATGCTCGA
* *
12785831 GGGTAAAATGGTAATTTTT-AGAAGTTCGAGGGTAAAAAT-GTAATTTTTGAGAAGT-TCGAGGG
1 GGGTAAAAT-GTAATTTTTGAGAAGTTTGAGGGT-AAAATGGTGATTTTTG-GAAGTAT-GA-GG
* * * *
12785893 T-AAATTG-GATATTGTTGGAAG-TACGAGGGTAAAAATGTGATTTATGGAAGTTCAG
61 TAAAAATGTGAT-TT-TTGGAAGTTA-G-GGGCAAAAATGTAATTTTTGGAAGTTCAG
*
12785948 GGGTAAAAATGTAATTTTTTGAGAAGTTTGGGGGTAAAATGGTGATTTTTGGAAGTATGAGGTAA
1 GGGT-AAAATGTAA-TTTTTGAGAAGTTTGAGGGTAAAATGGTGATTTTTGGAAGTATGAGGTAA
*
12786013 AAATGTGATTTTTGGAAGTTTAGGGGCAAAAATGTAATTTTTGAGAAGTTTGAG
64 AAATGTGATTTTTGGAAG-TTAGGGGCAAAAATGTAATTTTTG-GAAG-TTCAG
**
12786067 GGCAAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAATGGTGATTTTTGGAAGTATGAGGTAAAA
1 GGGTAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAATGGTGATTTTTGGAAGTATGAGGTAAAA
* *
12786132 ATGTGATTTTTGGAAGTTTAGGGGCAAAAATGTAATTTTTAAGAAGTTTAG
66 ATGTGATTTTTGGAAG-TTAGGGGCAAAAATGTAATTTTT-GGAAGTTCAG
12786183 GGGTTAAAATGTAATTTTT
1 GGG-TAAAATGTAATTTTT
12786202 AAATAGTTAG
Statistics
Matches: 226, Mismatches: 15, Indels: 26
0.85 0.06 0.10
Matches are distributed among these distances:
116 6 0.03
117 144 0.64
118 43 0.19
119 33 0.15
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.35
Consensus pattern (114 bp):
GGGTAAAATGTAATTTTTGAGAAGTTTGAGGGTAAAATGGTGATTTTTGGAAGTATGAGGTAAAA
ATGTGATTTTTGGAAGTTAGGGGCAAAAATGTAATTTTTGGAAGTTCAG
Found at i:12786202 original size:30 final size:28
Alignment explanation
Indices: 12785801--12786229 Score: 287
Period size: 29 Copynumber: 14.7 Consensus size: 28
12785791 TTGGAAATTG
* *
12785801 GGGGT-AAAATGGTAATTTTTA-AATGCTC
1 GGGGTAAAAAT-GTAATTTTTAGAA-GTTT
*
12785829 GAGGGT-AAAATGGTAATTTTTAGAAGTTC
1 G-GGGTAAAAAT-GTAATTTTTAGAAGTTT
*
12785858 GAGGGTAAAAATGTAATTTTTGAGAAGTTC
1 G-GGGTAAAAATGTAATTTTT-AGAAGTTT
* * * * **
12785888 GAGGGT-AAATTGGATATTGTTGGAAGTAC
1 G-GGGTAAAAATGTA-ATTTTTAGAAGTTT
* * * *
12785917 GAGGGTAAAAATGTGATTTATGGAAGTTCA
1 G-GGGTAAAAATGTAATTTTTAGAAGTT-T
12785947 GGGGTAAAAATGTAATTTTTTGAGAAGTTT
1 GGGGTAAAAATGTAA-TTTTT-AGAAGTTT
* * *
12785977 GGGGGT-AAAATGGTGATTTTTGGAAGTAT
1 -GGGGTAAAAAT-GTAATTTTTAGAAGTTT
* * *
12786006 GAGGTAAAAATGTGATTTTTGGAAGTTT
1 GGGGTAAAAATGTAATTTTTAGAAGTTT
*
12786034 AGGGGCAAAAATGTAATTTTTGAGAAGTTT
1 -GGGGTAAAAATGTAATTTTT-AGAAGTTT
*
12786064 GAGGGCAAAAATGTAATTTTTGAGAAGTTT
1 G-GGGTAAAAATGTAATTTTT-AGAAGTTT
* * *
12786094 GAGGGT-AAAATGGTGATTTTTGGAAGTAT
1 G-GGGTAAAAAT-GTAATTTTTAGAAGTTT
* * *
12786123 GAGGTAAAAATGTGATTTTTGGAAGTTT
1 GGGGTAAAAATGTAATTTTTAGAAGTTT
*
12786151 AGGGGCAAAAATGTAATTTTTAAGAAGTTT
1 -GGGGTAAAAATGTAATTTTT-AGAAGTTT
* * *
12786181 AGGGGTTAAAATGTAATTTTTAAATAGTTAG
1 -GGGGTAAAAATGTAATTTTTAGA-AGTT-T
*
12786212 GGGGTTAAAATGT-ATTTT
1 GGGGTAAAAATGTAATTTT
12786230 AGGAAAATTT
Statistics
Matches: 340, Mismatches: 40, Indels: 41
0.81 0.10 0.10
Matches are distributed among these distances:
28 40 0.12
29 149 0.44
30 137 0.40
31 14 0.04
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.35
Consensus pattern (28 bp):
GGGGTAAAAATGTAATTTTTAGAAGTTT
Found at i:12786212 original size:29 final size:30
Alignment explanation
Indices: 12785939--12786229 Score: 194
Period size: 30 Copynumber: 9.9 Consensus size: 30
12785929 GTGATTTATG
* * *
12785939 GAAGTTCAGGGGTAAAAATGTAATTTTTTGA
1 GAAGTTTAGGGGTTAAAATGTAA-TTTTTAA
* * *
12785970 GAAGTTT-GGGGGTAAAATGGTGATTTTT-G
1 GAAGTTTAGGGGTTAAAAT-GTAATTTTTAA
* * * * *
12785999 GAAGTAT-GAGGTAAAAATGTGATTTTT-G
1 GAAGTTTAGGGGTTAAAATGTAATTTTTAA
** *
12786027 GAAGTTTAGGGGCAAAAATGTAATTTTTGA
1 GAAGTTTAGGGGTTAAAATGTAATTTTTAA
** *
12786057 GAAGTTT-GAGGGCAAAAATGTAATTTTTGA
1 GAAGTTTAG-GGGTTAAAATGTAATTTTTAA
* *
12786087 GAAGTTT-GAGGG-TAAAATGGTGATTTTT-G
1 GAAGTTTAG-GGGTTAAAAT-GTAATTTTTAA
* * * * *
12786116 GAAGTAT-GAGGTAAAAATGTGATTTTT-G
1 GAAGTTTAGGGGTTAAAATGTAATTTTTAA
**
12786144 GAAGTTTAGGGGCAAAAATGTAATTTTTAA
1 GAAGTTTAGGGGTTAAAATGTAATTTTTAA
12786174 GAAGTTTAGGGGTTAAAATGTAATTTTTAA
1 GAAGTTTAGGGGTTAAAATGTAATTTTTAA
12786204 -ATAG-TTAGGGGGTTAAAATGT-ATTTT
1 GA-AGTTTA-GGGGTTAAAATGTAATTTT
12786230 AGGAAAATTT
Statistics
Matches: 223, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
28 34 0.15
29 75 0.34
30 105 0.47
31 9 0.04
ACGTcount: A:0.34, C:0.01, G:0.28, T:0.36
Consensus pattern (30 bp):
GAAGTTTAGGGGTTAAAATGTAATTTTTAA
Found at i:12786242 original size:30 final size:30
Alignment explanation
Indices: 12786158--12786243 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
12786148 TTTAGGGGCA
*
12786158 AAAATGTAATTTTTAAGAAGTTTA-GGGGTT
1 AAAATGTAATTTTTAA-AAATTTAGGGGGTT
* *
12786188 AAAATGTAATTTTTAAATAGTTAGGGGGTT
1 AAAATGTAATTTTTAAAAATTTAGGGGGTT
12786218 AAAATGT-A-TTTTAGGAAAATTTAGGG
1 AAAATGTAATTTTTA--AAAATTTAGGG
12786244 ACCTTTTAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 5 0.10
29 5 0.10
30 38 0.79
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTTAAAAATTTAGGGGGTT
Found at i:12787845 original size:6 final size:6
Alignment explanation
Indices: 12787821--12787894 Score: 59
Period size: 6 Copynumber: 12.8 Consensus size: 6
12787811 GGACTTTTAA
* *
12787821 TTAAAT TTAGAA- ATAAAT TTAAAT TTAGAA- -TGAAT TTAAAT TTAAA-
1 TTAAAT TTA-AAT TTAAAT TTAAAT TTA-AAT TTAAAT TTAAAT TTAAAT
* *
12787867 ATAAAT TTAAAT TTAAA- CTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
12787895 AATTTAAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
4 2 0.04
5 11 0.21
6 36 0.68
7 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (6 bp):
TTAAAT
Found at i:12787856 original size:17 final size:17
Alignment explanation
Indices: 12787821--12787894 Score: 105
Period size: 17 Copynumber: 4.3 Consensus size: 17
12787811 GGACTTTTAA
12787821 TTAAATTTAGAAATAAAT
1 TTAAATTTAG-AATAAAT
*
12787839 TTAAATTTAGAATGAAT
1 TTAAATTTAGAATAAAT
*
12787856 TTAAATTTAAAATAAAT
1 TTAAATTTAGAATAAAT
12787873 TTAAATTTA-AACTAAAT
1 TTAAATTTAGAA-TAAAT
12787890 TTAAA
1 TTAAA
12787895 AATTTAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
16 2 0.04
17 40 0.77
18 10 0.19
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (17 bp):
TTAAATTTAGAATAAAT
Found at i:12787873 original size:34 final size:34
Alignment explanation
Indices: 12787821--12787907 Score: 115
Period size: 34 Copynumber: 2.5 Consensus size: 34
12787811 GGACTTTTAA
*
12787821 TTAAATTTAGAAATAAATTTAAATTTAGAA-TGAAT
1 TTAAATTTA-AAATAAATTTAAATTTA-AACTAAAT
12787856 TTAAATTTAAAATAAATTTAAATTTAAACTAAAT
1 TTAAATTTAAAATAAATTTAAATTTAAACTAAAT
12787890 TTAAAAATTTAAAA-AAAT
1 TT--AAATTTAAAATAAAT
12787908 GGGTCCAATT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
33 2 0.04
34 23 0.48
35 13 0.27
36 10 0.21
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (34 bp):
TTAAATTTAAAATAAATTTAAATTTAAACTAAAT
Found at i:12790278 original size:76 final size:76
Alignment explanation
Indices: 12790147--12790301 Score: 301
Period size: 76 Copynumber: 2.0 Consensus size: 76
12790137 AAACTCTTGA
12790147 TTTAATTGGCTCGAATTCGGAGTTTAAGAATCCGATTTGAGATTTTTCAAACAATAATAATAATA
1 TTTAATTGGCTCGAATTCGGAGTTTAAGAATCCGATTTGAGATTTTTCAAACAATAATAATAATA
12790212 AAGAGATTTAT
66 AAGAGATTTAT
*
12790223 TTTAATTGGCTCGAATTCGGAGTTTAAGAATCCGATTTGAGATTTTTCAAGCAATAATAATAATA
1 TTTAATTGGCTCGAATTCGGAGTTTAAGAATCCGATTTGAGATTTTTCAAACAATAATAATAATA
12790288 AAGAGATTTAT
66 AAGAGATTTAT
12790299 TTT
1 TTT
12790302 TACCTGTCAC
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (76 bp):
TTTAATTGGCTCGAATTCGGAGTTTAAGAATCCGATTTGAGATTTTTCAAACAATAATAATAATA
AAGAGATTTAT
Found at i:12791438 original size:50 final size:50
Alignment explanation
Indices: 12791321--12791441 Score: 154
Period size: 50 Copynumber: 2.4 Consensus size: 50
12791311 ATGGCGATAG
* * * *
12791321 AACGACAAATCTTTTACTCCTAAAGCTGTAGAGGTGTAGATTGAAACTGC
1 AACGACAAATCTTATACACCTAAAGCTGTAGAGGTGCAGATTGAAACCGC
* * *
12791371 AATGGCAAAT-TTCATACACCTAAAGCTGTGGAGGTGCAGATTGAAACCGC
1 AACGACAAATCTT-ATACACCTAAAGCTGTAGAGGTGCAGATTGAAACCGC
*
12791421 AACGATAAATCTTATACACCT
1 AACGACAAATCTTATACACCT
12791442 TGTTGAAGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 55 0.93
51 2 0.03
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (50 bp):
AACGACAAATCTTATACACCTAAAGCTGTAGAGGTGCAGATTGAAACCGC
Found at i:12793454 original size:59 final size:59
Alignment explanation
Indices: 12793388--12793688 Score: 410
Period size: 59 Copynumber: 5.2 Consensus size: 59
12793378 GAAATTATAT
* * *
12793388 TTTTACCCCCGAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCG
1 TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* * * *
12793447 TTTTACCCCAAAACTTTCCAAGATCCCATTTTTAACCCTGATTTCACCAAAAATTACCG
1 TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* *
12793506 TTTTACCCTCAAACTTTCCAAAATCCCA-TTTTAACCTCGATTTCACCAAAAATTACCA
1 TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* * * * *
12793564 -TTTACCCCTAAACTTTCTAAAATCTCATTTTTAACCCCAATTTCACCAAAAGTTACCA
1 TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
* * * * *
12793622 TTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTCCA-CAAAAATTGCCA
1 TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
12793680 TTTTACCCC
1 TTTTACCCC
12793689 TAAAAGTCAA
Statistics
Matches: 214, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
57 23 0.11
58 73 0.34
59 118 0.55
ACGTcount: A:0.32, C:0.32, G:0.03, T:0.33
Consensus pattern (59 bp):
TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
Done.