Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1890193
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 10
Found at i:2370 original size:22 final size:22
Alignment explanation
Indices: 2345--2390 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
2335 GTGTAATGAT
*
2345 ATGATTTATTAATAATGATTTA
1 ATGATTTACTAATAATGATTTA
* *
2367 ATGATTTCCTACTAATGATTTA
1 ATGATTTACTAATAATGATTTA
2389 AT
1 AT
2391 AATAATGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (22 bp):
ATGATTTACTAATAATGATTTA
Found at i:2382 original size:14 final size:14
Alignment explanation
Indices: 2365--2497 Score: 56
Period size: 14 Copynumber: 8.9 Consensus size: 14
2355 AATAATGATT
** *
2365 TAATGATTTCCTAC
1 TAATGATTTAATAA
2379 TAATGATTTAATAA
1 TAATGATTTAATAA
*
2393 TAATGATTTAATGA
1 TAATGATTTAATAA
* *
2407 T-TTGATACTAATGATTTGA
1 TAATGAT-TTAAT-A----A
*
2426 TAATGATTTGATAA
1 TAATGATTTAATAA
*
2440 TAATGA-TTACTAA
1 TAATGATTTAATAA
2453 TAAT-ATTTGAACCTTAA
1 TAATGATTT-AA---TAA
*
2470 TGATATGATTTATTAA
1 T-A-ATGATTTAATAA
2486 TAATGATTTAAT
1 TAATGATTTAAT
2498 GATTTGATTA
Statistics
Matches: 89, Mismatches: 15, Indels: 30
0.66 0.11 0.22
Matches are distributed among these distances:
12 1 0.01
13 15 0.17
14 46 0.52
15 1 0.01
16 4 0.04
17 4 0.04
18 2 0.02
19 8 0.09
20 8 0.09
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:2386 original size:36 final size:36
Alignment explanation
Indices: 2345--2429 Score: 134
Period size: 36 Copynumber: 2.4 Consensus size: 36
2335 GTGTAATGAT
* *
2345 ATGATTTATTAATAATGATTTAATGATTTCCTACTA
1 ATGATTTAATAATAATGATTTAATGATTTCATACTA
*
2381 ATGATTTAATAATAATGATTTAATGATTTGATACTA
1 ATGATTTAATAATAATGATTTAATGATTTCATACTA
*
2417 ATGATTTGATAAT
1 ATGATTTAATAAT
2430 GATTTGATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (36 bp):
ATGATTTAATAATAATGATTTAATGATTTCATACTA
Found at i:2404 original size:22 final size:22
Alignment explanation
Indices: 2379--2726 Score: 119
Period size: 22 Copynumber: 15.1 Consensus size: 22
2369 GATTTCCTAC
2379 TAATGATTTAATAATAATGATT
1 TAATGATTTAATAATAATGATT
* *
2401 TAATGATTTGATACTAATGATTT
1 TAATGATTTAATAATAATGA-TT
*
2424 GATAATGATTTGATAATAATGATT
1 --TAATGATTTAATAATAATGATT
* ***
2448 ACTAATAATATTTGAACCTTAATGA--
1 --TAAT--GATTT-AATAATAATGATT
*
2473 T-ATGATTTATTAATAATGATT
1 TAATGATTTAATAATAATGATT
* *
2494 TAATGATTTGATTACTAATGA-T
1 TAATGATTT-AATAATAATGATT
* * *
2516 TACTAATTTTATAAATAATGATT
1 TAATGATTTAAT-AATAATGATT
* *
2539 TAA-G-TGTAATGAT-ATGATTT
1 TAATGATTTAATAATAATGA-TT
* *
2559 ACTAATATGATTTAA-AATAATAATG
1 --T-A-ATGATTTAATAATAATGATT
* *
2584 TAATGATTTAGTACTAATGATT
1 TAATGATTTAATAATAATGATT
2606 TAAT-A--TAATAATTTAATGATT
1 TAATGATTTAATAA--TAATGATT
* *
2627 TAGTACTAATGATTAAT-ATAATAATT
1 TA--A-TGAT--TTAATAATAATGATT
* *
2653 TAATGATTTGATACTAATGATTT
1 TAATGATTTAATAATAATGA-TT
* *
2676 AATAATGATTTGATAATAACT-TTT
1 --TAATGATTTAATAATAA-TGATT
2700 TAATGATGATTGAATAATAATGATT
1 TAATGAT--TT-AATAATAATGATT
2725 TA
1 TA
2727 CTAATGATTA
Statistics
Matches: 241, Mismatches: 45, Indels: 77
0.66 0.12 0.21
Matches are distributed among these distances:
19 15 0.06
20 8 0.03
21 29 0.12
22 67 0.28
23 24 0.10
24 14 0.06
25 51 0.21
26 21 0.09
27 7 0.03
28 1 0.00
29 4 0.02
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (22 bp):
TAATGATTTAATAATAATGATT
Found at i:2429 original size:25 final size:23
Alignment explanation
Indices: 2379--2447 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 23
2369 GATTTCCTAC
*
2379 TAATGATTTAATAATAATGA-TT
1 TAATGATTTGATAATAATGATTT
*
2401 TAATGATTTGATACTAATGATTT
1 TAATGATTTGATAATAATGATTT
2424 GATAATGATTTGATAATAATGATT
1 --TAATGATTTGATAATAATGATT
2448 ACTAATAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
22 18 0.44
23 2 0.05
25 21 0.51
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (23 bp):
TAATGATTTGATAATAATGATTT
Found at i:2614 original size:35 final size:35
Alignment explanation
Indices: 2552--2679 Score: 190
Period size: 34 Copynumber: 3.7 Consensus size: 35
2542 GTGTAATGAT
* * * *
2552 ATGATTTACTAAT-ATGATTTAAAATAATAATGTA
1 ATGATTTAGTACTAATGATTTAATATAATAATTTA
2586 ATGATTTAGTACTAATGATTTAATATAATAATTTA
1 ATGATTTAGTACTAATGATTTAATATAATAATTTA
2621 ATGATTTAGTACTAATGA-TTAATATAATAATTTA
1 ATGATTTAGTACTAATGATTTAATATAATAATTTA
2655 ATGATTT-GATACTAATGATTTAATA
1 ATGATTTAG-TACTAATGATTTAATA
2680 ATGATTTGAT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
33 1 0.01
34 43 0.49
35 43 0.49
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (35 bp):
ATGATTTAGTACTAATGATTTAATATAATAATTTA
Found at i:2640 original size:14 final size:13
Alignment explanation
Indices: 2579--2622 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
2569 TTTAAAATAA
*
2579 TAATGTAATGATT
1 TAATATAATGATT
*
2592 TAGTACTAATGATT
1 TAATA-TAATGATT
*
2606 TAATATAATAATT
1 TAATATAATGATT
2619 TAAT
1 TAAT
2623 GATTTAGTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (13 bp):
TAATATAATGATT
Found at i:2672 original size:14 final size:13
Alignment explanation
Indices: 2653--2690 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
2643 TATAATAATT
2653 TAATGATTTGATA
1 TAATGATTTGATA
2666 CTAATGATTT-A-A
1 -TAATGATTTGATA
2678 TAATGATTTGATA
1 TAATGATTTGATA
2691 ATAACTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.41
12 2 0.09
13 2 0.09
14 9 0.41
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATGATTTGATA
Found at i:2681 original size:25 final size:25
Alignment explanation
Indices: 2653--2735 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
2643 TATAATAATT
*
2653 TAATGATTTGATACTAATGATTTAA
1 TAATGATTTGATAATAATGATTTAA
*
2678 TAATGATTTGATAATAACT-TTTTAA
1 TAATGATTTGATAATAA-TGATTTAA
* *
2703 TGATGA-TTGAATAATAATGATTTAC
1 TAATGATTTG-ATAATAATGATTTAA
2728 TAATGATT
1 TAATGATT
2736 ACTACTAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
24 4 0.08
25 42 0.88
26 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.45
Consensus pattern (25 bp):
TAATGATTTGATAATAATGATTTAA
Found at i:2692 original size:14 final size:14
Alignment explanation
Indices: 2653--2694 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
2643 TATAATAATT
*
2653 TAATGATTTGATAC
1 TAATGATTTGATAA
2667 TAATGA-TT--TAA
1 TAATGATTTGATAA
2678 TAATGATTTGATAA
1 TAATGATTTGATAA
2692 TAA
1 TAA
2695 CTTTTTAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 2 0.08
14 12 0.50
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (14 bp):
TAATGATTTGATAA
Found at i:2805 original size:8 final size:8
Alignment explanation
Indices: 2788--2846 Score: 75
Period size: 8 Copynumber: 7.1 Consensus size: 8
2778 AAATTTATTA
2788 ATTAATTTT
1 ATTAA-TTT
*
2797 ATAAATTT
1 ATTAATTT
2805 A-TAGATTAT
1 ATTA-ATT-T
2814 ATTAATTT
1 ATTAATTT
2822 ATTAATTT
1 ATTAATTT
2830 ATTAATTT
1 ATTAATTT
2838 ATTAATTT
1 ATTAATTT
2846 A
1 A
2847 ACCAAGAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
7 1 0.02
8 33 0.73
9 9 0.20
10 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (8 bp):
ATTAATTT
Found at i:2863 original size:23 final size:22
Alignment explanation
Indices: 2832--2903 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
2822 ATTAATTTAT
*
2832 TAATTTATTAATTTAACCAAGAA
1 TAATATATTAATTTAA-CAAGAA
*
2855 TAATATATTAA-TTAAC---AT
1 TAATATATTAATTTAACAAGAA
2873 TAATATATTAATTTAAACAAGAA
1 TAATATATTAATTT-AACAAGAA
2896 TAATATAT
1 TAATATAT
2904 GAATAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 12 0.29
19 2 0.05
20 3 0.07
21 1 0.02
22 4 0.10
23 19 0.46
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (22 bp):
TAATATATTAATTTAACAAGAA
Found at i:9499 original size:21 final size:22
Alignment explanation
Indices: 9470--9528 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
9460 TGTGTCCCTT
9470 TGAATGTGCATCGATACA-CCA
1 TGAATGTGCATCGATACAGCCA
* * * *
9491 TGAAGGTGCACCGATGCATGCCT
1 TGAATGTGCATCGATACA-GCCA
9514 TGAATGTGCATCGAT
1 TGAATGTGCATCGAT
9529 GAACACTGCC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 15 0.50
23 15 0.50
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (22 bp):
TGAATGTGCATCGATACAGCCA
Found at i:9522 original size:23 final size:21
Alignment explanation
Indices: 9469--9529 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
9459 ATGTGTCCCT
*
9469 TTGAATGTGCATCGATACACC
1 TTGAATGTGCATCGATGCACC
* * *
9490 ATGAAGGTGCACCGATGCATGCC
1 TTGAATGTGCATCGATGCA--CC
9513 TTGAATGTGCATCGATG
1 TTGAATGTGCATCGATG
9530 AACACTGCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 15 0.48
23 16 0.52
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (21 bp):
TTGAATGTGCATCGATGCACC
Found at i:11371 original size:23 final size:22
Alignment explanation
Indices: 11345--11408 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
11335 CAACTCATAT
11345 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
11368 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
11391 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
11409 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:11545 original size:103 final size:103
Alignment explanation
Indices: 11424--11641 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
11414 TAATGTCCAT
* *
11424 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
11489 TACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
11527 AAGGACCATATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
11592 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
11630 AAGGACCACATA
1 AAGGACCACATA
11642 GACCCTCTAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:12200 original size:64 final size:67
Alignment explanation
Indices: 12090--12213 Score: 193
Period size: 64 Copynumber: 1.9 Consensus size: 67
12080 ATTTTCATCT
*
12090 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCTTATTCGATATTTG
1 TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATATTTG
12155 TA
66 TA
*
12157 TTTAATGG-GG-ATGCATCGATGCACT-C-CTTATGCATCGATGCATAAATCCTATTCGAT
1 TTTAATGGAGGTATGCATCGATGCACTACAC-CATGCATCGATGCATAAATCCTATTCGAT
12214 GTTTTCTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
63 1 0.02
64 28 0.52
65 15 0.28
66 2 0.04
67 8 0.15
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (67 bp):
TTTAATGGAGGTATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATATTTG
TA
Found at i:12235 original size:64 final size:62
Alignment explanation
Indices: 12102--12262 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 62
12092 TAATGGAGGT
* * * *
12102 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCTTATTCGATATTTGTATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATATTTCTATTTAAT-GGA
* * *
12167 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAAAT-TA
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGAT-ATTTCTATTT-AATGGA
* *
12231 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
12263 CCTTAAACAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
63 1 0.01
64 56 0.67
65 23 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATATTTCTATTTAATGGA
Found at i:18385 original size:23 final size:23
Alignment explanation
Indices: 18359--18436 Score: 102
Period size: 23 Copynumber: 3.4 Consensus size: 23
18349 CAACTCATAT
18359 AATTACACCTAAGTGCCACGTAG
1 AATTACACCTAAGTGCCACGTAG
*
18382 AATTGCACCTAAGTGCCACGTAG
1 AATTACACCTAAGTGCCACGTAG
* ** **
18405 AATTGCACCGGAGTGCTGCGTAG
1 AATTACACCTAAGTGCCACGTAG
18428 AATTACACC
1 AATTACACC
18437 GTAGTACCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
AATTACACCTAAGTGCCACGTAG
Found at i:18582 original size:103 final size:103
Alignment explanation
Indices: 18461--18678 Score: 427
Period size: 103 Copynumber: 2.1 Consensus size: 103
18451 TAATGTCCAT
18461 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
18526 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
18564 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
18629 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
18667 AAGTACCACATA
1 AAGGACCACATA
18679 GACCCTCTAC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:22202 original size:30 final size:31
Alignment explanation
Indices: 22160--22223 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
22150 CTGCATTGGC
22160 CCCCCCACTGCTGAAGAAGACGCCGAGAAAT
1 CCCCCCACTGCTGAAGAAGACGCCGAGAAAT
*
22191 CCCCCCA-TGCTGAAGAAGACGCCGAGAGAT
1 CCCCCCACTGCTGAAGAAGACGCCGAGAAAT
22221 CCC
1 CCC
22224 AACAGCAGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.30, C:0.38, G:0.23, T:0.09
Consensus pattern (31 bp):
CCCCCCACTGCTGAAGAAGACGCCGAGAAAT
Found at i:35891 original size:22 final size:22
Alignment explanation
Indices: 35863--35935 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
35853 CCTTCTTTTT
35863 TCGCCGGCAGTCACAGCCTCCA
1 TCGCCGGCAGTCACAGCCTCCA
* *
35885 TCGCCGGCATTCATAGCCTCCA
1 TCGCCGGCAGTCACAGCCTCCA
* *
35907 TCGTCGGCAGTCACAGCTTCCA
1 TCGCCGGCAGTCACAGCCTCCA
35929 TCGCCGG
1 TCGCCGG
35936 GCGCTAACAG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.16, C:0.41, G:0.23, T:0.19
Consensus pattern (22 bp):
TCGCCGGCAGTCACAGCCTCCA
Found at i:42894 original size:16 final size:17
Alignment explanation
Indices: 42866--42898 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
42856 TTGAGTGATT
42866 TTTAATGTACTTTATCA
1 TTTAATGTACTTTATCA
42883 TTTAAT-TACTTTATCA
1 TTTAATGTACTTTATCA
42899 AAAAGATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAATGTACTTTATCA
Found at i:43714 original size:237 final size:237
Alignment explanation
Indices: 43299--43772 Score: 948
Period size: 237 Copynumber: 2.0 Consensus size: 237
43289 ATACATATTT
43299 TAATAATGGTTCAGAAACGAGATATATATATAGAAATCAACAATTTATTGAACTTTAATCAAAAT
1 TAATAATGGTTCAGAAACGAGATATATATATAGAAATCAACAATTTATTGAACTTTAATCAAAAT
43364 TTATAAAAGTAACCGATCTGATCAAGAACAGATGGACAGACAGTACAAGAACAGTAAAAATCACC
66 TTATAAAAGTAACCGATCTGATCAAGAACAGATGGACAGACAGTACAAGAACAGTAAAAATCACC
43429 AATATTTTACAATGTAACTTGGTAGAATTTCAAATTTTTCTCAAAAAATAAAACCCAGAATTTTG
131 AATATTTTACAATGTAACTTGGTAGAATTTCAAATTTTTCTCAAAAAATAAAACCCAGAATTTTG
43494 CTTTTCTTAAACTTGGAAAGGCCAAGGCCAGTTCTTCAAATC
196 CTTTTCTTAAACTTGGAAAGGCCAAGGCCAGTTCTTCAAATC
43536 TAATAATGGTTCAGAAACGAGATATATATATAGAAATCAACAATTTATTGAACTTTAATCAAAAT
1 TAATAATGGTTCAGAAACGAGATATATATATAGAAATCAACAATTTATTGAACTTTAATCAAAAT
43601 TTATAAAAGTAACCGATCTGATCAAGAACAGATGGACAGACAGTACAAGAACAGTAAAAATCACC
66 TTATAAAAGTAACCGATCTGATCAAGAACAGATGGACAGACAGTACAAGAACAGTAAAAATCACC
43666 AATATTTTACAATGTAACTTGGTAGAATTTCAAATTTTTCTCAAAAAATAAAACCCAGAATTTTG
131 AATATTTTACAATGTAACTTGGTAGAATTTCAAATTTTTCTCAAAAAATAAAACCCAGAATTTTG
43731 CTTTTCTTAAACTTGGAAAGGCCAAGGCCAGTTCTTCAAATC
196 CTTTTCTTAAACTTGGAAAGGCCAAGGCCAGTTCTTCAAATC
43773 CTCATCTGCA
Statistics
Matches: 237, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 237 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (237 bp):
TAATAATGGTTCAGAAACGAGATATATATATAGAAATCAACAATTTATTGAACTTTAATCAAAAT
TTATAAAAGTAACCGATCTGATCAAGAACAGATGGACAGACAGTACAAGAACAGTAAAAATCACC
AATATTTTACAATGTAACTTGGTAGAATTTCAAATTTTTCTCAAAAAATAAAACCCAGAATTTTG
CTTTTCTTAAACTTGGAAAGGCCAAGGCCAGTTCTTCAAATC
Found at i:53684 original size:7 final size:7
Alignment explanation
Indices: 53667--53748 Score: 91
Period size: 7 Copynumber: 12.3 Consensus size: 7
53657 CCCCCACAGG
53667 TCTTC-T
1 TCTTCTT
53673 TCTTCTT
1 TCTTCTT
53680 TCTTCTT
1 TCTTCTT
*
53687 CCTTC--
1 TCTTCTT
53692 T-TTCTT
1 TCTTCTT
53698 TCTTCTT
1 TCTTCTT
*
53705 CCTTCTT
1 TCTTCTT
*
53712 TCTTCCT
1 TCTTCTT
*
53719 TCTTCAT
1 TCTTCTT
*
53726 TCTTCCT
1 TCTTCTT
53733 TCTTCTT
1 TCTTCTT
53740 TCTTCTT
1 TCTTCTT
53747 TC
1 TC
53749 CTCCTCCTCC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
4 3 0.05
6 6 0.09
7 55 0.86
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (7 bp):
TCTTCTT
Found at i:53698 original size:18 final size:18
Alignment explanation
Indices: 53667--53748 Score: 107
Period size: 18 Copynumber: 4.7 Consensus size: 18
53657 CCCCCACAGG
53667 TCTT-CTTC-TTCTTTCT
1 TCTTCCTTCTTTCTTTCT
53683 TCTTCCTTCTTTCTTTCT
1 TCTTCCTTCTTTCTTTCT
*
53701 TCTTCCTTCTTTCTTCCT
1 TCTTCCTTCTTTCTTTCT
* *
53719 TCTTCATTC-TTCCTTCT
1 TCTTCCTTCTTTCTTTCT
*
53736 TCTTTCTTCTTTC
1 TCTTCCTTCTTTC
53749 CTCCTCCTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
16 4 0.07
17 17 0.30
18 36 0.63
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (18 bp):
TCTTCCTTCTTTCTTTCT
Found at i:54820 original size:18 final size:17
Alignment explanation
Indices: 54766--54814 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
54756 TTGGACCCTT
* *
54766 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
54784 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
54802 AGTGCATTCGATG
1 AGTGCA-TCGATG
54815 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:54984 original size:65 final size:64
Alignment explanation
Indices: 54786--54995 Score: 232
Period size: 65 Copynumber: 3.2 Consensus size: 64
54776 TGCACTAAGA
* * ** *
54786 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGTTG
* *
54850 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGGTGCATGGT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGT
54913 AT-
63 -TG
* *
54915 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGG-TT
54979 G
64 G
*
54980 GTGCATCGGTGCATCA
1 GTGCATCGATGCATCA
54996 CTCTGAAAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.41
65 63 0.51
66 1 0.01
67 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGTTG
Found at i:55278 original size:20 final size:21
Alignment explanation
Indices: 55253--55345 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
55243 TTTTCCCAAT
*
55253 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
55273 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
55294 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
55314 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
55335 TCGCAATGCGA
1 TCGCAATGCGA
55346 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:55298 original size:41 final size:41
Alignment explanation
Indices: 55253--55345 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
55243 TTTTCCCAAT
55253 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
55294 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
55335 TCGCAATGCGA
1 TCGCAATGCGA
55346 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:55358 original size:41 final size:41
Alignment explanation
Indices: 55272--55406 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
55262 GAATAAGTAA
** *
55272 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
55313 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
55354 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
55395 TTCGCAACGCGA
1 ATCGCAACGCGA
55407 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:55359 original size:20 final size:20
Alignment explanation
Indices: 55334--55427 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
55324 AATTGGGAAA
*
55334 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
55354 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
55375 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
55395 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
55415 TTCGCAACGCGAT
1 ATCGCAACGCGAT
55428 TTACATAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:55982 original size:19 final size:19
Alignment explanation
Indices: 55944--56010 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
55934 TTCGAGAATG
55944 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
55964 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* **
55983 AAAATCGCAATGCGAAACC
1 AAAATCGCAACGCGAAATA
56002 AAAATCGCA
1 AAAATCGCA
56011 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 29 0.73
20 11 0.28
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:56036 original size:20 final size:19
Alignment explanation
Indices: 56006--56152 Score: 98
Period size: 20 Copynumber: 8.1 Consensus size: 19
55996 GAAACCAAAA
* *
56006 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
56025 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
56045 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
56061 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
56078 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
56092 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
56111 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
56131 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
56151 TC
1 TC
56153 AACCAAAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 26
0.72 0.10 0.18
Matches are distributed among these distances:
14 20 0.20
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 24 0.24
20 48 0.48
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:56077 original size:33 final size:33
Alignment explanation
Indices: 56040--56127 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
56030 GTTGCGATTT
* *
56040 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
56073 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
56106 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
56128 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:58213 original size:42 final size:42
Alignment explanation
Indices: 58153--58245 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
58143 GCCCGACTCG
* * *
58153 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
58195 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* *
58237 ACTGTCATC
1 CCTATCATC
58246 GTTGAAGATA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.39, G:0.16, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:59644 original size:14 final size:14
Alignment explanation
Indices: 59625--59660 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
59615 ATTGTTTAAT
59625 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
59639 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
59653 TGATTTGT
1 TGATTTGT
59661 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:59820 original size:19 final size:19
Alignment explanation
Indices: 59758--59811 Score: 90
Period size: 20 Copynumber: 2.8 Consensus size: 19
59748 AAAAAGTACT
*
59758 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
59777 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCG-AAATGAAA
59797 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
59812 TAAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:59838 original size:19 final size:19
Alignment explanation
Indices: 59816--59966 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
59806 CGAAATTAAA
59816 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
59835 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
59850 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
59868 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
59882 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
59901 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
59916 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
59934 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
59953 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
59967 GGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:59862 original size:33 final size:32
Alignment explanation
Indices: 59820--59946 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
59810 ATTAAATTCG
59820 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
59853 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
59886 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
59919 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
59947 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:59909 original size:66 final size:66
Alignment explanation
Indices: 59813--59945 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
59803 ACGCGAAATT
*
59813 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
59878 G
66 G
*
59879 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
59944 G
66 G
59945 A
1 A
59946 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:62455 original size:24 final size:24
Alignment explanation
Indices: 62421--62474 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
62411 CTGAAACATC
* *
62421 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
62445 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
62469 ATCAAA
1 ATCAAA
62475 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:63554 original size:20 final size:20
Alignment explanation
Indices: 63529--63586 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
63519 ATTCATTTGA
63529 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
63549 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
63569 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
63587 CGCAATGCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:63629 original size:14 final size:16
Alignment explanation
Indices: 63609--63682 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
63599 TGAAAATCGC
63609 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
63624 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
63641 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
63660 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
63676 -TTGCGAT
1 ATTGCGAT
63683 AGCCATTTCG
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:63646 original size:19 final size:19
Alignment explanation
Indices: 63605--63672 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
63595 GAAATGAAAA
63605 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
63621 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
63638 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
63657 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
63673 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:65714 original size:19 final size:19
Alignment explanation
Indices: 65690--65756 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
65680 GAAACTTAAA
65690 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
65709 ATCGCAATGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
65729 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
65748 ATCGCAACG
1 ATCGCAACG
65757 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 23 0.56
20 18 0.44
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:65725 original size:20 final size:19
Alignment explanation
Indices: 65690--65745 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
65680 GAAACTTAAA
*
65690 ATCGCAACGCGAAATGACT
1 ATCGCAATGCGAAATGACT
*
65709 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGC-GAAATGACT
65729 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
65746 AAATCGCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (19 bp):
ATCGCAATGCGAAATGACT
Found at i:65764 original size:14 final size:14
Alignment explanation
Indices: 65745--65802 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
65735 ATGCGAAATG
65745 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
65759 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
65775 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
65791 AAAATCGCAACG
1 AAAATCGCAACG
65803 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:65787 original size:32 final size:33
Alignment explanation
Indices: 65729--65807 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
65719 GGAAATGGCT
*
65729 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
65762 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
65794 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
65808 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:65855 original size:14 final size:14
Alignment explanation
Indices: 65836--65893 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
65826 TTTCATTTCG
65836 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
65850 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
65866 CGCATTGCGACTTTGT
1 CG--TTGCGATTTTGT
65882 CGTTGCGATTTT
1 CGTTGCGATTTT
65894 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:65866 original size:32 final size:33
Alignment explanation
Indices: 65819--65909 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
65809 ACAAATCGCA
*
65819 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
65852 TTGCGA-TTTCATTTCGCATTGCGACTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
65884 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
65910 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:65948 original size:20 final size:20
Alignment explanation
Indices: 65894--65931 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
65884 TTGCGATTTT
*
65894 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
65913 CATTTCCGCGTTGCGATAG
1 CATTTCCGCGTTGCGATAG
65932 TCATCTTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:66447 original size:18 final size:18
Alignment explanation
Indices: 66421--66465 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
66411 GTCGATCAGA
*
66421 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
66439 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
66457 TGATGGCTC
1 TGATGGCTC
66466 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:67775 original size:20 final size:20
Alignment explanation
Indices: 67750--67787 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
67740 AATAGTTTCT
67750 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
67770 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
67788 GAGAGAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:68074 original size:22 final size:22
Alignment explanation
Indices: 68049--68092 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
68039 GATTTAGATA
68049 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
68071 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
68093 TGTGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:68305 original size:20 final size:20
Alignment explanation
Indices: 68280--68373 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
68270 GATTATGTAT
68280 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
68300 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
68320 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
68341 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
68361 TATCGCATTGCGA
1 TATCGCGTTGCGA
68374 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:68374 original size:20 final size:20
Alignment explanation
Indices: 68260--68374 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
68250 CGCTTTGAAA
*
68260 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
68281 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
68301 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
68321 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
68342 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
68362 ATCGCATTGCGAT
1 ATCGCATTGCGAT
68375 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:68392 original size:21 final size:21
Alignment explanation
Indices: 68363--68455 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
68353 ATAGTCAGTA
68363 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
68384 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
68404 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
68425 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
68445 TCGCATTGCGA
1 TCGCATTGCGA
68456 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:68393 original size:41 final size:41
Alignment explanation
Indices: 68302--68436 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
68292 AAAGTCAGTA
* * * ** *
68302 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
68342 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
68384 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
68425 TCGCGTTGCGAT
1 TCGCGTTGCGAT
68437 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:68437 original size:41 final size:41
Alignment explanation
Indices: 68363--68455 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
68353 ATAGTCAGTA
68363 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
68404 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
68445 TCGCATTGCGA
1 TCGCATTGCGA
68456 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:70796 original size:21 final size:21
Alignment explanation
Indices: 70772--70811 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
70762 TTTTCAAAGG
70772 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
70793 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
70812 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:70861 original size:19 final size:19
Alignment explanation
Indices: 70837--70875 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
70827 TCGAATGCAT
70837 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
70856 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
70875 T
1 T
70876 TATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:70908 original size:64 final size:64
Alignment explanation
Indices: 70772--70929 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 64
70762 TTTTCAAAGG
*
70772 CATGCACCGATGCA-TCAATACCATGCATCGATGCATCAATGAATAAATTGAAACATCGAATGCA
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCATC-ATGAATAAATTAAAACATCGAATGCA
70836 TTC
62 TTC
* * * * * *
70839 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TTATTTAATTAAAACATTGAATGTATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCATGAATAAATTAAAACATCGAATGCATTC
* * **
70903 GATGCATCGATGCACAATCCATGCATC
1 CATGCACCGATGCACTCTCCATGCATC
70930 AGGCTATTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
64 44 0.56
65 15 0.19
66 3 0.04
67 14 0.18
68 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCATGAATAAATTAAAACATCGAATGCATTC
Found at i:70973 original size:17 final size:19
Alignment explanation
Indices: 70945--70993 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
70935 ATTTTTCAAA
70945 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
70963 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
70982 CACCGATGCACT
1 CATCGATGCACT
70994 AGGAGTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:72521 original size:18 final size:18
Alignment explanation
Indices: 72498--72561 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 18
72488 GTTCTTAAGG
72498 AGTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
*
72516 AGTGGTCTTTCGGGACAAA
1 AGTGGTCCTTCGGGAC-AA
*
72535 TCAGTGGTCCTTCGGGACAT
1 --AGTGGTCCTTCGGGACAA
72555 AGTGGTC
1 AGTGGTC
72562 AATTGGGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
18 22 0.55
19 2 0.05
20 1 0.03
21 15 0.38
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.27
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAA
Found at i:72542 original size:21 final size:19
Alignment explanation
Indices: 72498--72553 Score: 78
Period size: 21 Copynumber: 2.9 Consensus size: 19
72488 GTTCTTAAGG
72498 AGTGGTCCTTCGGGAC-AA
1 AGTGGTCCTTCGGGACAAA
*
72516 AGTGGTCTTTCGGGACAAA
1 AGTGGTCCTTCGGGACAAA
72535 TCAGTGGTCCTTCGGGACA
1 --AGTGGTCCTTCGGGACA
72554 TAGTGGTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 15 0.45
19 2 0.06
21 16 0.48
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.25
Consensus pattern (19 bp):
AGTGGTCCTTCGGGACAAA
Found at i:72552 original size:39 final size:39
Alignment explanation
Indices: 72498--72574 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
72488 GTTCTTAAGG
*
72498 AGTGGTCCTTCGGGACAAAGTGGTC-TTTCGGGACAAATC
1 AGTGGTCCTTCGGGACAAAGTGGTCAATT-GGGACAAATC
*
72537 AGTGGTCCTTCGGGACATAGTGGTCAATTGGGACAAAT
1 AGTGGTCCTTCGGGACAAAGTGGTCAATTGGGACAAAT
72575 ATACAGTGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 33 0.94
40 2 0.06
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (39 bp):
AGTGGTCCTTCGGGACAAAGTGGTCAATTGGGACAAATC
Found at i:74273 original size:24 final size:24
Alignment explanation
Indices: 74241--74290 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
74231 TACGGTGCAT
*
74241 TTCTACGTGACACTTCCGTGCAAA
1 TTCTACGTGACACTTCCGTACAAA
* *
74265 TTCTACGTGGCACTTCGGTACAAA
1 TTCTACGTGACACTTCCGTACAAA
74289 TT
1 TT
74291 TATACGAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (24 bp):
TTCTACGTGACACTTCCGTACAAA
Found at i:76279 original size:29 final size:29
Alignment explanation
Indices: 76233--76289 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
76223 TACATTCCAA
** *
76233 TAATCTTTTATTCTTTTAACCAAACACAG
1 TAATCTTACATTCCTTTAACCAAACACAG
76262 TAATCTTACATTCCTTTAACCAAACACA
1 TAATCTTACATTCCTTTAACCAAACACA
76290 AAATACAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (29 bp):
TAATCTTACATTCCTTTAACCAAACACAG
Found at i:76319 original size:15 final size:16
Alignment explanation
Indices: 76299--76329 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
76289 AAAATACAAC
76299 ATTCTC-AGTAATCTT
1 ATTCTCTAGTAATCTT
76314 ATTCTCTAGTAATCTT
1 ATTCTCTAGTAATCTT
76330 TTATTCCTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.48
Consensus pattern (16 bp):
ATTCTCTAGTAATCTT
Found at i:85073 original size:37 final size:37
Alignment explanation
Indices: 85023--85112 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 37
85013 GTCCTATTAA
* *
85023 GATTCAAATTCCTAAAAATATGATAGAA-TTTTACTAG
1 GATTCAAACTCCTAAAAATAGGATA-AAGTTTTACTAG
*
85060 GATTCAAACTCCTAAAAATAGGATAAAGTTTTACTAT
1 GATTCAAACTCCTAAAAATAGGATAAAGTTTTACTAG
* *
85097 TATTTAAACTCCTAAA
1 GATTCAAACTCCTAAA
85113 GATAAGATCC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.04
37 45 0.96
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (37 bp):
GATTCAAACTCCTAAAAATAGGATAAAGTTTTACTAG
Found at i:85605 original size:37 final size:36
Alignment explanation
Indices: 85513--85606 Score: 88
Period size: 35 Copynumber: 2.6 Consensus size: 36
85503 TTAACCCTTA
*
85513 TTATTTATATGTA-TATATATATATATTTTTATTATATT
1 TTATTTAT-T-TATTATAT-TATAAATTTTTATTATATT
85551 TTATTTATTTATT-TATTATAAATTTTT-TTAT-TT
1 TTATTTATTTATTATATTATAAATTTTTATTATATT
*
85584 TTCTTTACGTTATATTATATTAT
1 TTATTTA--TT-TATTATATTAT
85607 TTTCTTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
33 8 0.16
34 4 0.08
35 12 0.24
36 9 0.18
37 8 0.16
38 8 0.16
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (36 bp):
TTATTTATTTATTATATTATAAATTTTTATTATATT
Found at i:85640 original size:26 final size:26
Alignment explanation
Indices: 85594--85643 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
85584 TTCTTTACGT
* *
85594 TATATTATATTATTTTCTTATTATAA
1 TATATTATATTATATTATTATTATAA
85620 TATA-TATATATATATTATTATTAT
1 TATATTATAT-TATATTATTATTAT
85644 TTTTTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TATATTATATTATATTATTATTATAA
Found at i:85682 original size:13 final size:13
Alignment explanation
Indices: 85664--85689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85654 TGTTTACTTA
85664 TTTACTATATTTT
1 TTTACTATATTTT
85677 TTTACTATATTTT
1 TTTACTATATTTT
85690 CCTAACGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:85714 original size:102 final size:96
Alignment explanation
Indices: 85524--85715 Score: 226
Period size: 96 Copynumber: 1.9 Consensus size: 96
85514 TATTTATATG
* * *
85524 TATATATATATATATTTTTATTATATTTTATTTATTTATTTATTATAAATTTTTTTATTTTTCTT
1 TATATATATATATATTATTATTATATTTTATTTATTTACTTATTATAAATTTTTTTATTTTTCCT
* *
85589 TACGTTATATTATATTATTTTCTTATTATAA
66 AACGTTATATTATATTATATTCTTATTATAA
* * *
85620 TATATATATATATATTATTATTATTTTTTATCTATGTTTACTTATTTACTATATTTTTTTACTAT
1 TATATATATATATATTATTATTATATTTTAT-T-TATTTACTTA-TTA-TA-AATTTTTT--TAT
85685 ATTTTCCTAACGTTATA-TATA-TATATTCTTA
59 -TTTTCCTAACGTTATATTATATTATATTCTTA
85716 CTTCATTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
96 29 0.36
97 1 0.01
98 8 0.10
99 3 0.04
100 2 0.03
101 7 0.09
102 9 0.11
103 7 0.09
104 14 0.17
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (96 bp):
TATATATATATATATTATTATTATATTTTATTTATTTACTTATTATAAATTTTTTTATTTTTCCT
AACGTTATATTATATTATATTCTTATTATAA
Found at i:85858 original size:27 final size:27
Alignment explanation
Indices: 85721--85860 Score: 66
Period size: 27 Copynumber: 5.4 Consensus size: 27
85711 TCTTACTTCA
*
85721 TTTTATTTTATATTTCTATGAT-TATAT
1 TTTTATTTTATATTTTTAT-ATATATAT
* * *
85748 TTTT-TAGTTA-A-TATTATATGTATAT
1 TTTTAT-TTTATATTTTTATATATATAT
* *
85773 TTTTA-TTTAT-TTATTAT-TAT-TGT
1 TTTTATTTTATATTTTTATATATATAT
** * *
85796 TACTATTTAATA-TTTTATTATATTACAT
1 TTTTATTTTATATTTTTA-TATA-TATAT
**
85824 ACTT-TTTTATATTTTTATATATATAT
1 TTTTATTTTATATTTTTATATATATAT
85850 TTTTATTTTAT
1 TTTTATTTTAT
85861 TTATATTTCT
Statistics
Matches: 81, Mismatches: 19, Indels: 26
0.64 0.15 0.21
Matches are distributed among these distances:
23 5 0.06
24 15 0.19
25 20 0.25
26 10 0.12
27 24 0.30
28 7 0.09
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (27 bp):
TTTTATTTTATATTTTTATATATATAT
Found at i:85950 original size:24 final size:23
Alignment explanation
Indices: 85913--85975 Score: 56
Period size: 24 Copynumber: 2.7 Consensus size: 23
85903 CTTTTTATTC
* * *
85913 TTTTTGTATATATTTTTCTTCATT
1 TTTTTATATTTATTTAT-TTCATT
*
85937 TATTTTAT-TTTATTCAATTTCATT
1 T-TTTTATATTTATT-TATTTCATT
85961 TTTTTATATTTATTT
1 TTTTTATATTTATTT
85976 CATCCAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
23 6 0.19
24 19 0.61
25 6 0.19
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTATATTTATTTATTTCATT
Found at i:90557 original size:15 final size:15
Alignment explanation
Indices: 90506--90558 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
90496 ATTCAATCAG
**
90506 AACAAAAAAGGCAAA
1 AACAAAAAAGAAAAA
*
90521 AATAAAAAAGAAAATA
1 AACAAAAAAGAAAA-A
*
90537 AGCAAAAAAGAAAAA
1 AACAAAAAAGAAAAA
90552 AACAAAA
1 AACAAAA
90559 GAACAAAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 18 0.58
16 13 0.42
ACGTcount: A:0.79, C:0.08, G:0.09, T:0.04
Consensus pattern (15 bp):
AACAAAAAAGAAAAA
Found at i:90575 original size:13 final size:14
Alignment explanation
Indices: 90542--90580 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
90532 AAATAAGCAA
90542 AAAAGAA-AAAAAC
1 AAAAGAACAAAAAC
90555 AAAAGAACAAAAA-
1 AAAAGAACAAAAAC
*
90568 GAAAGAACAAAAA
1 AAAAGAACAAAAA
90581 TCGAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.82, C:0.08, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAACAAAAAC
Found at i:90593 original size:21 final size:20
Alignment explanation
Indices: 90543--90593 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
90533 AATAAGCAAA
90543 AAAGAAAAA-AACAAAAGAAC
1 AAAGAAAAAGAACAAAA-AAC
*
90563 AAA-AAGAAAGAACAAAAATC
1 AAAGAA-AAAGAACAAAAAAC
90583 GAAAGAAAAAG
1 -AAAGAAAAAG
90594 GGACAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 8 0.31
21 14 0.54
22 2 0.08
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAGAACAAAAAAC
Found at i:91228 original size:22 final size:22
Alignment explanation
Indices: 91197--91251 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
91187 GCTACCCCAT
91197 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
*
91219 CAAACTTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
91241 CAAACCTTTGA
1 CAAACCTTTGA
91252 CCAAACACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:93489 original size:106 final size:106
Alignment explanation
Indices: 92214--93488 Score: 2043
Period size: 106 Copynumber: 12.0 Consensus size: 106
92204 ATATCGTGCC
* * * *
92214 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTATCAACAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
92278 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
92320 ACTCCAGACAA-GACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCT
1 ACTCCAGACAACG-CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCC
92384 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
92426 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
92491 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
92532 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGG-CCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
92596 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
92637 ACTCCAGACAATGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
92702 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
92743 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
92808 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
92849 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
92914 AATTTCGGAGCCAATTTCAACTCCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
92955 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
93020 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
93061 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
93126 AATTTCAGAGCCAATTTCAAGTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
93167 ACTCCAGACAACGCAAGTTCAACTTCATGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
93232 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
93273 ACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** *
93338 AATTTTGGAGCCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
93379 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * * * *
93444 GATTCCATAGCCAATTTTAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
93485 ACTC
1 ACTC
93489 GGAACAATAC
Statistics
Matches: 1095, Mismatches: 70, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
105 98 0.09
106 994 0.91
107 3 0.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:94880 original size:97 final size:96
Alignment explanation
Indices: 94697--94881 Score: 205
Period size: 97 Copynumber: 1.9 Consensus size: 96
94687 ATTTAACCCT
* * * *
94697 TATTATATATATATATATATATATATTTTTATATTTTATTTATTTATTTATTATAATTTTTTTTA
1 TATTATATATATATATATATATATATTATTATATTTTATCTATTTACTTATTATAATGTTTTTTA
* * * * * *
94762 TTTTTCTTTGCGTTATATTATATTATTTTTC
66 TCTATATTTGCCTAACATTATATTATTTTTC
*
94793 TATTATTATATATATATATATATATATTATTATTTTTTATCTATGTTACTTATT-TACTATGTTT
1 TATTA-TATATATATATATATATATATTATTATATTTTATCTAT-TTACTTATTATA--ATGTTT
*
94857 TTTA-CTATATTT-CCTAACGTTATAT
62 TTTATCTATATTTGCCTAACATTATAT
94882 ATATATATTC
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
96 5 0.07
97 46 0.63
98 13 0.18
99 9 0.12
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (96 bp):
TATTATATATATATATATATATATATTATTATATTTTATCTATTTACTTATTATAATGTTTTTTA
TCTATATTTGCCTAACATTATATTATTTTTC
Found at i:95028 original size:22 final size:20
Alignment explanation
Indices: 94993--95048 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
94983 TTATTTAGTA
*
94993 TTTTATTATATTATACATACAT
1 TTTTATT-TTTTATACATA-AT
* *
95015 TTTTATATTTTTATATATATT
1 TTTTAT-TTTTTATACATAAT
95036 TTTTATTTTTTAT
1 TTTTATTTTTTAT
95049 TTTATTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 7 0.23
21 7 0.23
22 15 0.50
23 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTTTTATACATAAT
Found at i:95058 original size:25 final size:27
Alignment explanation
Indices: 95013--95068 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
95003 TTATACATAC
* *
95013 ATTTTTATATTTTTATATATATTTTTT
1 ATTTTTATATTTTTATATATACTATTT
*
95040 ATTTTT-TA-TTTTATTTATACTATTT
1 ATTTTTATATTTTTATATATACTATTT
95065 ATTT
1 ATTT
95069 ATTTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 18 0.69
26 2 0.08
27 6 0.23
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
ATTTTTATATTTTTATATATACTATTT
Found at i:95063 original size:28 final size:28
Alignment explanation
Indices: 95013--95076 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
95003 TTATACATAC
95013 ATTTTTATATTTTTATATATATTT-TTT
1 ATTTTTATATTTTTATATATATTTATTT
*
95040 ATTTTT-TATTTTATTTATACTATTTATTT
1 ATTTTTATATTTT-TATATA-TATTTATTT
95069 ATTTTTAT
1 ATTTTTAT
95077 TATGTTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 6 0.19
27 11 0.34
28 5 0.16
29 9 0.28
30 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (28 bp):
ATTTTTATATTTTTATATATATTTATTT
Found at i:95079 original size:9 final size:9
Alignment explanation
Indices: 95013--95113 Score: 50
Period size: 9 Copynumber: 10.8 Consensus size: 9
95003 TTATACATAC
95013 ATTTTTA-T
1 ATTTTTATT
95021 ATTTTTATAT
1 ATTTTTAT-T
95031 ATATTTT-TT
1 AT-TTTTATT
95040 ATTTTTTATT
1 A-TTTTTATT
95050 -TTATTTA-T
1 ATT-TTTATT
*
95058 ACTATTTATTT
1 A-TTTTTA-TT
95069 ATTTTTATT
1 ATTTTTATT
95078 ATGTTTTTAGTT
1 A--TTTTTA-TT
* *
95090 -TCTTTACT
1 ATTTTTATT
*
95098 ATTATTATT
1 ATTTTTATT
95107 ATTTTTA
1 ATTTTTA
95114 ATTTTCTTTA
Statistics
Matches: 71, Mismatches: 8, Indels: 27
0.67 0.08 0.25
Matches are distributed among these distances:
8 11 0.15
9 33 0.46
10 13 0.18
11 12 0.17
12 2 0.03
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.71
Consensus pattern (9 bp):
ATTTTTATT
Found at i:95085 original size:67 final size:65
Alignment explanation
Indices: 95014--95189 Score: 153
Period size: 67 Copynumber: 2.6 Consensus size: 65
95004 TATACATACA
* *
95014 TTTTTATATTTTTATATATATTTTTTATTTTTTATTTTATTTATACTA-TTTATTTATTTTTATT
1 TTTTTATATTTTTATATATATTTTTTATTTTTTATTTTATTTAAAC-ACTTTA-CT-TTTTTATT
95078 ATG
63 ATG
* * *
95081 TTTTTAGT-TTCTTTACTAT-TA-TTATTATTTTTAATTTTCTTTAAACACTTTACTTTTTTATT
1 TTTTTA-TATT-TTTA-TATATATTTTTTATTTTTTATTTTATTTAAACACTTTACTTTTTTATT
* *
95143 CTT
63 ATG
* * * *
95146 TTTTGTATATATATATATATATTTTTTCTTCATTTATTTTATTT
1 TTTT-TATATTTTTATATATATTTTTTATT-TTTTATTTTATTT
95190 TATTCAATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
64 3 0.03
65 19 0.22
66 11 0.13
67 43 0.50
68 7 0.08
69 3 0.03
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (65 bp):
TTTTTATATTTTTATATATATTTTTTATTTTTTATTTTATTTAAACACTTTACTTTTTTATTATG
Found at i:95100 original size:29 final size:28
Alignment explanation
Indices: 95068--95123 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
95058 ACTATTTATT
* *
95068 TATTTTTATTATGTTTTTAGTTTCTTTAC
1 TATTATTATTAT-TTTTAAGTTTCTTTAC
*
95097 TATTATTATTATTTTTAATTTTCTTTA
1 TATTATTATTATTTTTAAGTTTCTTTA
95124 AACACTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.70
Consensus pattern (28 bp):
TATTATTATTATTTTTAAGTTTCTTTAC
Found at i:95910 original size:14 final size:14
Alignment explanation
Indices: 95891--95923 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
95881 CTTTTGTTGC
*
95891 ATTTAAAGGTAAAT
1 ATTTAAAGATAAAT
95905 ATTTAAAGATAAAT
1 ATTTAAAGATAAAT
95919 -TTTAA
1 ATTTAA
95924 TCTTTTGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (14 bp):
ATTTAAAGATAAAT
Found at i:96364 original size:20 final size:21
Alignment explanation
Indices: 96339--96390 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
96329 TTTTCCCAAT
*
96339 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
96359 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
96380 TCGCAATGCGA
1 TCGCAATGCGA
96391 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:96404 original size:20 final size:20
Alignment explanation
Indices: 96379--96492 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
96369 AATTGGGAAA
*
96379 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
96399 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
96419 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
96440 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
96460 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
96480 TTCGCAACGCGAT
1 ATCGCAACGCGAT
96493 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:96423 original size:61 final size:61
Alignment explanation
Indices: 96376--96492 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
96366 GCGAATTGGG
* * * * *
96376 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
96437 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
96493 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:97070 original size:19 final size:19
Alignment explanation
Indices: 97046--97089 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
97036 ACAACGAGAG
*
97046 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
97065 AATCGC-ACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
97083 AATCGCA
1 AATCGCA
97090 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.48, C:0.27, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:97107 original size:19 final size:19
Alignment explanation
Indices: 97085--97230 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
97075 GAAACCAAAA
*
97085 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
97104 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
97123 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
97137 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
97156 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
97170 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
97189 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
97209 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
97229 TC
1 TC
97231 AACCAAAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 19 0.19
16 4 0.04
17 5 0.05
19 41 0.41
20 31 0.31
21 1 0.01
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:97155 original size:33 final size:33
Alignment explanation
Indices: 97118--97205 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
97108 GTTGCGATTT
97118 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
97151 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
97184 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
97206 ATTATCTCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.72
34 15 0.28
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:97348 original size:25 final size:24
Alignment explanation
Indices: 97294--97348 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
97284 TTATGTTTAT
* *
97294 TGTTTTTGGTATATCTTGACGGTG
1 TGTTTTTGGTATATCTTAACGGTA
97318 TAGTTTTTGGTATATC-TAACTTGGTA
1 T-GTTTTTGGTATATCTTAAC--GGTA
97344 TGTTT
1 TGTTT
97349 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.16, C:0.07, G:0.24, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACGGTA
Found at i:99399 original size:21 final size:21
Alignment explanation
Indices: 99375--99483 Score: 53
Period size: 21 Copynumber: 5.2 Consensus size: 21
99365 TCATTCCTCG
99375 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** *
99396 AGAGGCCACTGTCATCC-CTCA
1 AGAGTCCCCTCCCA-CCGTTCA
* * * *
99417 AGAGTCCACTCCTATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
* ** *
99438 AGAGGCCCCTATCATTCC--TCG
1 AGAGTCCCCTCCCA--CCGTTCA
99459 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
99480 AGAG
1 AGAG
99484 GCCACTGTCA
Statistics
Matches: 58, Mismatches: 24, Indels: 12
0.62 0.26 0.13
Matches are distributed among these distances:
19 2 0.03
20 1 0.02
21 52 0.90
22 2 0.03
23 1 0.02
ACGTcount: A:0.22, C:0.39, G:0.18, T:0.21
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:99399 original size:42 final size:41
Alignment explanation
Indices: 99348--99486 Score: 179
Period size: 42 Copynumber: 3.3 Consensus size: 41
99338 CCACTCCTCT
*
99348 CGTTGAAGAGGTCCCTATCATTCCTCGAGAGTCCCCTCCCAC
1 CGTTCAAGAGG-CCCTATCATTCCTCGAGAGTCCCCTCCCAC
* * * * * *
99390 CGTTCAAGAGGCCACTGTCATCCCTCAAGAGTCCACTCCTAT
1 CGTTCAAGAGGCC-CTATCATTCCTCGAGAGTCCCCTCCCAC
*
99432 CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
1 CGTTCAAGAGG-CCCTATCATTCCTCGAGAGTCCCCTCCCAC
99474 CGTTCAAGAGGCC
1 CGTTCAAGAGGCC
99487 ACTGTCATCG
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 4 0.05
42 74 0.93
43 2 0.03
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.22
Consensus pattern (41 bp):
CGTTCAAGAGGCCCTATCATTCCTCGAGAGTCCCCTCCCAC
Found at i:99498 original size:21 final size:21
Alignment explanation
Indices: 99390--99505 Score: 65
Period size: 21 Copynumber: 5.5 Consensus size: 21
99380 CCCCTCCCAC
99390 CGTTCAAGAGGCCACTGTCAT
1 CGTTCAAGAGGCCACTGTCAT
** * *
99411 CCCTCAAGAGTCCACT-CCTAT
1 CGTTCAAGAGGCCACTGTC-AT
* * *
99432 CGTTGAAGAGGCCCCTATCATT
1 CGTTCAAGAGGCCACTGTCA-T
* * * * ** *
99454 C-CTCGAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCACTGTCAT
99474 CGTTCAAGAGGCCACTGTCAT
1 CGTTCAAGAGGCCACTGTCAT
*
99495 CGTTGAAGAGG
1 CGTTCAAGAGG
99506 TACCTCCCAC
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
20 2 0.03
21 61 0.92
22 3 0.05
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGCCACTGTCAT
Found at i:99504 original size:84 final size:84
Alignment explanation
Indices: 99321--99495 Score: 332
Period size: 84 Copynumber: 2.1 Consensus size: 84
99311 CCGACTCGCT
* *
99321 TGTCATCCCTCAAGAGTCCACTCCTCTCGTTGAAGAGGTCCCTATCATTCCTCGAGAGTCCCCTC
1 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
99386 CCACCGTTCAAGAGGCCAC
66 CCACCGTTCAAGAGGCCAC
99405 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
1 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
99470 CCACCGTTCAAGAGGCCAC
66 CCACCGTTCAAGAGGCCAC
99489 TGTCATC
1 TGTCATC
99496 GTTGAAGAGG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.24
Consensus pattern (84 bp):
TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
CCACCGTTCAAGAGGCCAC
Found at i:99512 original size:42 final size:41
Alignment explanation
Indices: 99375--99525 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 41
99365 TCATTCCTCG
* *
99375 AGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCCCTCA
1 AGAGT-CCCTCCCACCGTTCAAGAGGCCACTGTCATCCTTGA
* * * * * *
99417 AGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCG-
1 AGAGTCC-CTCCCACCGTTCAAGAGGCCACTGTCA-TCCTTGA
*
99459 AGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCGTTGA
1 AGAGT-CCCTCCCACCGTTCAAGAGGCCACTGTCATCCTTGA
* *
99501 AGAGGTACCTCCCACCATTCAAGAG
1 AGA-GTCCCTCCCACCGTTCAAGAG
99526 CCTGATTCAC
Statistics
Matches: 87, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
41 6 0.07
42 74 0.85
43 7 0.08
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.21
Consensus pattern (41 bp):
AGAGTCCCTCCCACCGTTCAAGAGGCCACTGTCATCCTTGA
Found at i:99525 original size:84 final size:84
Alignment explanation
Indices: 99321--99525 Score: 261
Period size: 84 Copynumber: 2.4 Consensus size: 84
99311 CCGACTCGCT
* * * * *
99321 TGTCATCCCTCAAGAGTCCACTCCTC-TCGTTGAAGAGGTCCCTATCATTCCTCGAGAGTCCCCT
1 TGTCATCCCTCAAGAGTACACTCC-CACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
99385 CCCACCGTTCAAGAGGCCAC
65 CCCACCGTTCAAGAGGCCAC
* * * * *
99405 TGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
1 TGTCATCCCTCAAGAGTACACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
99470 CCACCGTTCAAGAGGCCAC
66 CCACCGTTCAAGAGGCCAC
** *
99489 TGTCATCGTTGAAGAGGTAC-CTCCCACCATTCAAGAG
1 TGTCATCCCTCAAGA-GTACACTCCCACCATTCAAGAG
99526 CCTGATTCAC
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
84 106 0.97
85 3 0.03
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (84 bp):
TGTCATCCCTCAAGAGTACACTCCCACCATTCAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTC
CCACCGTTCAAGAGGCCAC
Found at i:100903 original size:14 final size:14
Alignment explanation
Indices: 100884--100919 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
100874 ATTGTTTAAT
100884 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
100898 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
100912 TGATTTGT
1 TGATTTGT
100920 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:101050 original size:19 final size:19
Alignment explanation
Indices: 101026--101086 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
101016 AAAAAGTACT
101026 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
101045 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
101059 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
101078 ATCACAATG
1 ATCGCAATG
101087 AGAGAATCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:101071 original size:33 final size:33
Alignment explanation
Indices: 101026--101115 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
101016 AAAAAGTACT
*
101026 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
101059 ATCGCAACGCGAAATGAAAATCACAATGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* *
101092 ATCGCAACGCGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
101116 GTTGCGATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:101194 original size:66 final size:66
Alignment explanation
Indices: 101109--101238 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
101099 CGCGAAATTA
* * * * *
101109 AATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGTGATTTTCATTTCGCATTGCG
1 AATTAGCGTTGCGATTTTCATTTCGCATTACAATTCCCTAGTTGCGATTTTCATTTCGCATTGCG
101174 C
66 C
*
101175 AATTAGCGTTGCGATTTTCATTTCGCATTACAATTCTCTAGTTGCGATTTTCATTTCGCATTGC
1 AATTAGCGTTGCGATTTTCATTTCGCATTACAATTCCCTAGTTGCGATTTTCATTTCGCATTGC
101239 AATTTTCAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (66 bp):
AATTAGCGTTGCGATTTTCATTTCGCATTACAATTCCCTAGTTGCGATTTTCATTTCGCATTGCG
C
Found at i:101242 original size:33 final size:32
Alignment explanation
Indices: 101116--101242 Score: 157
Period size: 33 Copynumber: 3.9 Consensus size: 32
101106 TTAAATTCGC
*
101116 GTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 GTTGCGATTTTCATTTCGCATTGCAATTCCCT
* **
101148 CGTTGTGATTTTCATTTCGCATTGCGCAATTAGC-
1 -GTTGCGATTTTCATTTCGCATT--GCAATTCCCT
* *
101182 GTTGCGATTTTCATTTCGCATTACAATTCTCT
1 GTTGCGATTTTCATTTCGCATTGCAATTCCCT
101214 AGTTGCGATTTTCATTTCGCATTGCAATT
1 -GTTGCGATTTTCATTTCGCATTGCAATT
101243 TTCAAACTCA
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
31 6 0.07
33 69 0.85
35 6 0.07
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (32 bp):
GTTGCGATTTTCATTTCGCATTGCAATTCCCT
Found at i:103407 original size:3 final size:3
Alignment explanation
Indices: 103399--103443 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
103389 CGGGGACTTT
* * *
103399 TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
103444 AGGATTATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:103412 original size:12 final size:12
Alignment explanation
Indices: 103395--103443 Score: 98
Period size: 12 Copynumber: 4.1 Consensus size: 12
103385 TCTTCGGGGA
103395 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103407 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103419 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103431 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103443 C
1 C
103444 AGGATTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:103652 original size:24 final size:24
Alignment explanation
Indices: 103618--103671 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
103608 CTGAAACATC
*
103618 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
*
103642 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
103666 ATCAAA
1 ATCAAA
103672 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.20, G:0.15, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:104561 original size:20 final size:20
Alignment explanation
Indices: 104472--104563 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 20
104462 TGCGAATTTG
* *
104472 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
104492 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* * *
104512 ACAAAATCGTAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
104533 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
104553 GAAAATCGCAA
1 GAAAATCGCAA
104564 TCATCTTCAA
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
20 38 0.73
21 14 0.27
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:104852 original size:20 final size:20
Alignment explanation
Indices: 104777--104844 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
104767 CAACGGGGAA
104777 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
104797 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
104817 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
104837 ATCGCAAC
1 ATCGCAAC
104845 TAGAAAATTG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:104916 original size:19 final size:19
Alignment explanation
Indices: 104893--104938 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
104883 TTTCTCGTTA
104893 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
*
104912 TGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
104931 CGATTTTC
1 CGATTTTC
104939 TCGTTGCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.50
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:105094 original size:14 final size:14
Alignment explanation
Indices: 105075--105111 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
105065 CATCAATTAA
105075 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
105089 ACAAATCATCTTTT
1 ACAAATCAACATTT
105103 ACAAATCAA
1 ACAAATCAA
105112 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:107002 original size:20 final size:20
Alignment explanation
Indices: 106979--107066 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
106969 GAAACTTAAA
*
106979 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGGAAATGACT
*
106999 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
*
107019 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGGAAATGACT
* **
107039 ATCGCAATGC-GAAATGAAA
1 ATCGCAACGCGGAAATGACT
107058 ATCGCAACG
1 ATCGCAACG
107067 ACAAAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
19 14 0.23
20 47 0.77
ACGTcount: A:0.36, C:0.24, G:0.25, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:107004 original size:40 final size:39
Alignment explanation
Indices: 106960--107066 Score: 124
Period size: 40 Copynumber: 2.7 Consensus size: 39
106950 TAGTTTACTT
* *
106960 TCGCAACACGAAACTTAAAATCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAA-TGAAAATCGCAACGCGAAAATGACTA
*** * *
107000 TCGCAACGCGGAAATGGCTATCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAATCGCAACGCGAAAATGACTA
*
107040 TCGCAATGCGAAATGAAAATCGCAACG
1 TCGCAACGCGAAATGAAAATCGCAACG
107067 ACAAAATCGC
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 15 0.27
40 36 0.65
41 4 0.07
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.15
Consensus pattern (39 bp):
TCGCAACGCGAAATGAAAATCGCAACGCGAAAATGACTA
Found at i:107074 original size:14 final size:14
Alignment explanation
Indices: 107055--107145 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
107045 ATGCGAAATG
107055 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
107069 AAAATCGCAATACGAAATG
1 AAAATCGC-A-ACG--A-C
*
107088 AAAATCGCAATGAC
1 AAAATCGCAACGAC
*
107102 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
107118 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
107134 AAAATCGCAACG
1 AAAATCGCAACG
107146 CGAAACACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 29 0.47
15 2 0.03
16 10 0.16
17 2 0.03
18 11 0.18
19 8 0.13
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:107085 original size:33 final size:33
Alignment explanation
Indices: 107039--107150 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
107029 GGAAATGGCT
107039 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
107072 ATCGCAATACGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
107105 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
107137 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
107151 CACAAATCGC
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 28 0.38
33 46 0.62
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:107158 original size:65 final size:66
Alignment explanation
Indices: 107039--107161 Score: 196
Period size: 65 Copynumber: 1.9 Consensus size: 66
107029 GGAAATGGCT
* *
107039 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATACGAAATGAAAATCGCAATGACAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACACGAAATCAAAATCGCAATGACAA
107104 A
66 A
*
107105 ATCGCAATGCGAAATG-AAATCGCAACGACAAAATCGCAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACACGAAATCA-AAATCGCA
107162 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.68
66 16 0.30
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAACACGAAATCAAAATCGCAATGACAA
A
Done.